From affe00f6fbd7b0705be1fecbf70ce6bf302cf6c2 Mon Sep 17 00:00:00 2001 From: Harrison Deng Date: Tue, 16 Nov 2021 00:31:48 -0500 Subject: [PATCH] Line termination change and old code. --- .Rprofile | 258 +- .gitignore | 88 +- .tmp.R | 76 +- .utilities.R | 1308 +- 2021-10-12_In-Class_exploration.R | 514 +- ABC-Install_all_packages.R | 322 +- ABC-addSACCE_APSESproteins.R | 200 +- ABC-units.R | 138 +- ABC-units.Rproj | 32 +- BIN-ALI-BLAST.R | 222 +- BIN-ALI-Dotplot.R | 390 +- BIN-ALI-MSA.R | 1256 +- BIN-ALI-Optimal_sequence_alignment.R | 730 +- BIN-ALI-Similarity.R | 626 +- BIN-Data_integration.R | 432 +- BIN-FUNC-Domain_annotation.R | 870 +- BIN-FUNC-Semantic_similarity.R | 338 +- BIN-MYSPE.R | 702 +- BIN-PHYLO-Data_preparation.R | 468 +- BIN-PHYLO-Tree_analysis.R | 812 +- BIN-PHYLO-Tree_building.R | 336 +- BIN-PPI-Analysis.R | 646 +- BIN-SEQA-Composition.R | 504 +- BIN-Sequence.R | 788 +- BIN-Storing_data.R | 1368 +- FND-Genetic_code.R | 698 +- FND-MAT-Graphs_and_networks.R | 1382 +- FND-STA-Information_theory.R | 448 +- FND-STA-Probability_distribution.R | 2646 +- FND-STA-Significance.R | 702 +- README.md | 4 +- RPR-Biostrings.R | 490 +- RPR-ChimeraX_remote.R | 330 +- RPR-FASTA.R | 644 +- RPR-GEO2R.R | 1348 +- RPR-Genetic_code_optimality.R | 770 +- RPR-Introduction.R | 100 +- RPR-PROSITE_POST.R | 336 +- RPR-Pipe.R | 270 +- RPR-RegEx.R | 360 +- RPR-SX-PDB.R | 1658 +- RPR-UniProt_GET.R | 270 +- RPR-Unit_testing.R | 468 +- RPR-eUtils_XML.R | 332 +- data/0TST.pdb | 20 +- data/1BM8.pdb | 3104 +- data/2F1C.fa | 8 +- data/3FG7.fa | 12 +- data/MBP1_SACCE.json | 40 +- data/PTPN5_HSa_coding.fa | 60 +- data/RAB39B_HSa_coding.fa | 24 +- data/RandomPhobiaPage.txt | 262 +- data/S288C_YDL056W_MBP1_coding.fsa | 84 +- data/SGD_features.README.txt | 94 +- data/SGD_features.tab | 32908 ++++++++++---------- data/Species.csv | 2030 +- data/intogen-KRAS-distribution-data.tsv | 358 +- data/intogen-OR1A1-distribution-data.tsv | 98 +- data/intogen-PTPN11-distribution-data.tsv | 226 +- data/refAPSES.mfa | 78 +- data/refAPSES_PSI-BLAST.json | 980 +- data/refAnnotations.json | 232 +- data/refFeatures.json | 94 +- data/refMBP1Proteins.json | 310 +- data/refTaxonomy.json | 44 +- data/referenceDomainAnnotations.txt | 230 +- functionTemplate.R | 74 +- myScripts/.myProfile.R | 42 +- myScripts/ABC-INT-Mutation_impact-code.R | 105 +- myScripts/BIN-Storing_data.R | 80 +- myScripts/CUTOLTaxonomy.json | 8 +- myScripts/MBP1_CUTOL.json | 38 +- myScripts/README-myScripts.txt | 16 +- myScripts/makeProteinDB.R | 8 +- myScripts/myScript.R | 76 +- plottingReference.R | 2868 +- scriptTemplate.R | 150 +- scripts/ABC-createRefDB.R | 60 +- scripts/ABC-dbUtilities.R | 1348 +- scripts/ABC-makeMYSPElist.R | 886 +- scripts/ABC-makeSTRINGedges.R | 336 +- scripts/ABC-makeScCCnet.R | 334 +- scripts/ABC-writeALN.R | 270 +- scripts/ABC-writeMFA.R | 242 +- scripts/BLAST.R | 768 +- tests/test_biCode.R | 64 +- 86 files changed, 37873 insertions(+), 37876 deletions(-) diff --git a/.Rprofile b/.Rprofile index e958186..0d2dd54 100644 --- a/.Rprofile +++ b/.Rprofile @@ -1,129 +1,129 @@ -# .Rprofile -# -# This script is automatically executed on startup -# ============================================================================== - -init <- function() { - - # Create a local copy of myScript.R if not done yet. - if (! file.exists("myScript.R") && file.exists(".tmp.R")) { - file.copy(".tmp.R", "myScript.R") - cat("A new file \"myScript.R\" was created. You can use it for\n") - cat("notes and code experiments.\n\n") - } - - cat("\n\n") - cat("Please open the file \".myProfile.R\" (click on the file-name in the\n") - cat("\"files\" pane), edit it and save it.\n") - cat("Then click the checkbox, and use the More -> Move... dialogue\n") - cat("to move it into the \"myScripts\" folder.\n\n") - - file.edit("ABC-units.R") - return(invisible(NULL)) -} - -if (! file.exists("./myScripts/.myProfile.R")) { - cat("\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n") - cat(" =================") - cat("\n\n") - cat(" WELCOME !\n") - cat("\n") - cat(" Type 'init()' to begin\n\n") - cat("\n") - cat(" =================") - cat("\n\n") - -} else { # local profile exists ... validate state: - cat("\n\nLoading local functions ...") - - source(".utilities.R") # local profile appears sane, source utilities - source("./myScripts/.myProfile.R") - - if (! exists("myEMail")) { # ... has eMail been defined? - cat("ERROR !\n") - cat("=======\n") - cat("The file \"./myScripts/.myProfile.R\" exists, but\n") - cat("the variable \"myEMail\" was not loaded.\n") - cat("Please contact your instructor to continue.\n\n") - } - if (! exists("myStudentNumber")) { # ... has the Student Number been defined? - cat("ERROR !\n") - cat("=======\n") - cat("The file \"./myScripts/.myProfile.R\" exists, but\n") - cat("the variable \"myStudentNumber\" was not loaded.\n") - cat("Please contact your instructor to continue.\n\n") - } - if (! grepl("^(100.{7})|(99.{7})$", as.character(myStudentNumber))) { - cat("ERROR !\n") # is the Student Number valid? - cat("=======\n") - cat("The file \"./myScripts/.myProfile.R\" exists, but\n") - cat("your Student Number could not be validated.\n") - cat("Please examine the file \"./myScripts/.myProfile.R\"\n") - cat(" and fix the problem or contact your instructor to continue.\n\n") - } - - - if (! exists("MYSPE")) { # if MYSPE has not yet been defined, define it now - # ... and write it into the profile. - prf <- readLines("./myScripts/.myProfile.R") - iEmail <- grep("^\\s*myStudentNumber\\s*<-", prf) - out <- prf[1:iEmail] - out <- c(out, sprintf("MYSPE <- \"%s\" ", - getMYSPE(myStudentNumber))) - out <- c(out, prf[(iEmail+1):length(prf)]) - writeLines(out, "./myScripts/.myProfile.R") - - cat("\n") - cat(sprintf("MYSPE (%s) was added to \"./myScripts/.myProfile.R\"\n\n", - getMYSPE(myStudentNumber))) - MYSPE <- getMYSPE(myStudentNumber) # ... define it for immediate use - rm(prf, iEmail, out) # cleanup - } - cat("... done.\n\n") -} - -if (default.stringsAsFactors()) { - cat("WARNING.\n") - cat("========\n") - cat("Your default \"stringsAsFactors\" parameter is set to \"TRUE\".\n") - cat("This will break some of the code.\n") - cat("Please contact your instructor to troubleshoot and fix this issue.\n") - cat("\n") -} - -errText <- list() -errText[["noProfileFile"]] <- ' -Your PROFILE FILE does not exist. This problem must be fixed to continue. - - The code expects the file "./myScripts/.myProfile.R" to exist and to - contain your correct eMail address and student number. Detailed - instructions were given when you first ran the init() command. - - Try running init() again and follow the instructions. Reload youR RStudio - session and start over with this file. - - If this does not fix the problem, ask for help. -' - -errText[["noStudentNumber"]] <- ' -Your STUDENT NUMBER has not been defined. This problem must be fixed to continue. - - The code expects the file "./myScripts/.myProfile.R" to exist and to - contain your correct eMail address and student number. This file gets - sourced when you start a new R-session, but since you see this error - message there was a problem. - - Perhaps you need to restart your R-session. Try closing the RStudio - project and reopening it from the File > Recent Projects menu. - - Perhaps there was a syntax error in your file. Then not all the - instructions in the file are executed. Check the file: is your - email perhpas not defined? Or did you type it without qwuoataion - marks? - - Try fixing problems, and then restart R as described above. - - If none of this fixes the problem, ask for help. -' - -# [END] +# .Rprofile +# +# This script is automatically executed on startup +# ============================================================================== + +init <- function() { + + # Create a local copy of myScript.R if not done yet. + if (! file.exists("myScript.R") && file.exists(".tmp.R")) { + file.copy(".tmp.R", "myScript.R") + cat("A new file \"myScript.R\" was created. You can use it for\n") + cat("notes and code experiments.\n\n") + } + + cat("\n\n") + cat("Please open the file \".myProfile.R\" (click on the file-name in the\n") + cat("\"files\" pane), edit it and save it.\n") + cat("Then click the checkbox, and use the More -> Move... dialogue\n") + cat("to move it into the \"myScripts\" folder.\n\n") + + file.edit("ABC-units.R") + return(invisible(NULL)) +} + +if (! file.exists("./myScripts/.myProfile.R")) { + cat("\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n") + cat(" =================") + cat("\n\n") + cat(" WELCOME !\n") + cat("\n") + cat(" Type 'init()' to begin\n\n") + cat("\n") + cat(" =================") + cat("\n\n") + +} else { # local profile exists ... validate state: + cat("\n\nLoading local functions ...") + + source(".utilities.R") # local profile appears sane, source utilities + source("./myScripts/.myProfile.R") + + if (! exists("myEMail")) { # ... has eMail been defined? + cat("ERROR !\n") + cat("=======\n") + cat("The file \"./myScripts/.myProfile.R\" exists, but\n") + cat("the variable \"myEMail\" was not loaded.\n") + cat("Please contact your instructor to continue.\n\n") + } + if (! exists("myStudentNumber")) { # ... has the Student Number been defined? + cat("ERROR !\n") + cat("=======\n") + cat("The file \"./myScripts/.myProfile.R\" exists, but\n") + cat("the variable \"myStudentNumber\" was not loaded.\n") + cat("Please contact your instructor to continue.\n\n") + } + if (! grepl("^(100.{7})|(99.{7})$", as.character(myStudentNumber))) { + cat("ERROR !\n") # is the Student Number valid? + cat("=======\n") + cat("The file \"./myScripts/.myProfile.R\" exists, but\n") + cat("your Student Number could not be validated.\n") + cat("Please examine the file \"./myScripts/.myProfile.R\"\n") + cat(" and fix the problem or contact your instructor to continue.\n\n") + } + + + if (! exists("MYSPE")) { # if MYSPE has not yet been defined, define it now + # ... and write it into the profile. + prf <- readLines("./myScripts/.myProfile.R") + iEmail <- grep("^\\s*myStudentNumber\\s*<-", prf) + out <- prf[1:iEmail] + out <- c(out, sprintf("MYSPE <- \"%s\" ", + getMYSPE(myStudentNumber))) + out <- c(out, prf[(iEmail+1):length(prf)]) + writeLines(out, "./myScripts/.myProfile.R") + + cat("\n") + cat(sprintf("MYSPE (%s) was added to \"./myScripts/.myProfile.R\"\n\n", + getMYSPE(myStudentNumber))) + MYSPE <- getMYSPE(myStudentNumber) # ... define it for immediate use + rm(prf, iEmail, out) # cleanup + } + cat("... done.\n\n") +} + +if (default.stringsAsFactors()) { + cat("WARNING.\n") + cat("========\n") + cat("Your default \"stringsAsFactors\" parameter is set to \"TRUE\".\n") + cat("This will break some of the code.\n") + cat("Please contact your instructor to troubleshoot and fix this issue.\n") + cat("\n") +} + +errText <- list() +errText[["noProfileFile"]] <- ' +Your PROFILE FILE does not exist. This problem must be fixed to continue. + + The code expects the file "./myScripts/.myProfile.R" to exist and to + contain your correct eMail address and student number. Detailed + instructions were given when you first ran the init() command. + + Try running init() again and follow the instructions. Reload youR RStudio + session and start over with this file. + + If this does not fix the problem, ask for help. +' + +errText[["noStudentNumber"]] <- ' +Your STUDENT NUMBER has not been defined. This problem must be fixed to continue. + + The code expects the file "./myScripts/.myProfile.R" to exist and to + contain your correct eMail address and student number. This file gets + sourced when you start a new R-session, but since you see this error + message there was a problem. + + Perhaps you need to restart your R-session. Try closing the RStudio + project and reopening it from the File > Recent Projects menu. + + Perhaps there was a syntax error in your file. Then not all the + instructions in the file are executed. Check the file: is your + email perhpas not defined? Or did you type it without qwuoataion + marks? + + Try fixing problems, and then restart R as described above. + + If none of this fixes the problem, ask for help. +' + +# [END] diff --git a/.gitignore b/.gitignore index 272f5f0..843ac93 100644 --- a/.gitignore +++ b/.gitignore @@ -1,44 +1,44 @@ -# Miscellaneous -.Ds_store -instructor/ -dev/ -# myScripts/ # We don't want to ignore this so we can save our work to our own fork. - -# History files -.Rhistory -.Rapp.history - -# Session Data files -# .RData - -# Files produced in assingments -data/APSESphyloSet.mfa -data/APSEStreeRproml.rds - -# Example code in package build process -*-Ex.R - -# Output files from R CMD build -/*.tar.gz - -# Output files from R CMD check -/*.Rcheck/ - -# RStudio files -.Rproj.user/ - -# produced vignettes -vignettes/*.html -vignettes/*.pdf - -# OAuth2 token, see https://github.com/hadley/httr/releases/tag/v0.3 -.httr-oauth - -# knitr and R markdown default cache directories -/*_cache/ -/cache/ - -# Temporary files created by R markdown -*.utf8.md -*.knit.md -.Rproj.user +# Miscellaneous +.Ds_store +instructor/ +dev/ +# myScripts/ # We don't want to ignore this so we can save our work to our own fork. + +# History files +.Rhistory +.Rapp.history + +# Session Data files +# .RData + +# Files produced in assingments +data/APSESphyloSet.mfa +data/APSEStreeRproml.rds + +# Example code in package build process +*-Ex.R + +# Output files from R CMD build +/*.tar.gz + +# Output files from R CMD check +/*.Rcheck/ + +# RStudio files +.Rproj.user/ + +# produced vignettes +vignettes/*.html +vignettes/*.pdf + +# OAuth2 token, see https://github.com/hadley/httr/releases/tag/v0.3 +.httr-oauth + +# knitr and R markdown default cache directories +/*_cache/ +/cache/ + +# Temporary files created by R markdown +*.utf8.md +*.knit.md +.Rproj.user diff --git a/.tmp.R b/.tmp.R index f42a47e..178b255 100644 --- a/.tmp.R +++ b/.tmp.R @@ -1,38 +1,38 @@ -# myScript.R -# -# --- As you work with this file, you can delete the instructions below -------- -# Write your notes and code experiments into this document. Save it -# from time to time - however I recommend that you do not _commit_ -# your saved version. -# -# As long as you do not _commit_ this script to version control, -# you can _pull_ updated versions of the entire project from GitHub -# by using the RStudio version control interface. However, once -# you _commit_ any file in your local version, RStudio will require -# you to resolve conflicts before you can _pull_ updates. -# --- As you work with this file, you can delete the instructions above -------- -# -## Purpose: <...> -# -# Version: <...> -# -# Date: <...> -# Author: () -# -# Versions: -# -# -# -# TODO: -# <...> -# -# ==================================================================== - - - - - - - -# [END] - +# myScript.R +# +# --- As you work with this file, you can delete the instructions below -------- +# Write your notes and code experiments into this document. Save it +# from time to time - however I recommend that you do not _commit_ +# your saved version. +# +# As long as you do not _commit_ this script to version control, +# you can _pull_ updated versions of the entire project from GitHub +# by using the RStudio version control interface. However, once +# you _commit_ any file in your local version, RStudio will require +# you to resolve conflicts before you can _pull_ updates. +# --- As you work with this file, you can delete the instructions above -------- +# +## Purpose: <...> +# +# Version: <...> +# +# Date: <...> +# Author: () +# +# Versions: +# +# +# +# TODO: +# <...> +# +# ==================================================================== + + + + + + + +# [END] + diff --git a/.utilities.R b/.utilities.R index c7d4fc3..24a4804 100644 --- a/.utilities.R +++ b/.utilities.R @@ -1,654 +1,654 @@ -# tocID <- "./.utilities.R" -# -# Miscellaneous R code to support the project -# -# Version: 1.5 -# Date: 2017-09 - 2021-09 -# Author: Boris Steipe -# -# V 1.5 rewrite getMYSPE() -# V 1.4 Maintenance, and new validation utilities -# V 1.3.1 prefix Biostrings:: to subseq() -# V 1.3 load msa support functions -# V 1.2 update database utilities to support 2017 version of JSON sources -# V 1.1 2017 updates for ABC-units -# V 1.0 First code -# -# ToDo: -# Notes: -# -# ============================================================================== - - -#TOC> ========================================================================== -#TOC> -#TOC> Section Title Line -#TOC> ----------------------------------------------------------- -#TOC> 1 SCRIPTS TO SOURCE 53 -#TOC> 2 PACKAGES 59 -#TOC> 3 DATA & CONSTANTS 70 -#TOC> 4 SUPPORT FUNCTIONS 117 -#TOC> 4.01 objectInfo() 120 -#TOC> 4.02 biCode() 148 -#TOC> 4.03 sameSpecies() 182 -#TOC> 4.04 validateFA() 202 -#TOC> 4.05 readFASTA() 310 -#TOC> 4.06 writeFASTA() 345 -#TOC> 4.07 pBar() 378 -#TOC> 4.08 waitTimer() 400 -#TOC> 4.09 fetchMSAmotif() 428 -#TOC> 4.10 H() (Shannon entropy) 472 -#TOC> 4.11 CX() (ChimeraX remote command) 485 -#TOC> 5 FUNCTIONS TO CUSTOMIZE ASSIGNMENTS 542 -#TOC> 5.01 seal() 544 -#TOC> 5.02 getMYSPE() 548 -#TOC> 5.03 selectPDBrep() 564 -#TOC> 5.04 sealKey() 599 -#TOC> 5.05 selectChi2() 629 -#TOC> 5.06 selectENSP() 642 -#TOC> -#TOC> ========================================================================== - - -# = 1 SCRIPTS TO SOURCE =================================================== - -source("./scripts/ABC-dbUtilities.R") -source("./scripts/ABC-writeALN.R") -source("./scripts/ABC-writeMFA.R") - -# = 2 PACKAGES ============================================================ - -if (! requireNamespace("digest", quietly = TRUE)) { - install.packages("digest") -} - -if (! requireNamespace("jsonlite", quietly = TRUE)) { - install.packages("jsonlite") -} - - -# = 3 DATA & CONSTANTS ==================================================== - -# cf. https://www.bioinformatics.org/sms/iupac.html -AAVALID <- "acdefghiklmnpqrstvwyACDEFGHIKLMNPQRSTVWY*-" -NUCVALID <- "acgtuACGTU-" -NUCAMBIG <- "acgtACGTryswkmbdhvnRYSWKMBDHVN-" - -# A colour palette for amino acid properties -AACOLS <- character() -AACOLS["R"] <- "#5770ff" # Positive -AACOLS["K"] <- "#4785EE" # -AACOLS["H"] <- "#37a1de" # -AACOLS["E"] <- "#ff6f59" # Negative -AACOLS["D"] <- "#ff7391" # -AACOLS["N"] <- "#C9D4FF" # Hydrophilic -AACOLS["Q"] <- "#CADFFC" # -AACOLS["S"] <- "#CBEAF9" # -AACOLS["T"] <- "#CDF5F7" # -AACOLS["Y"] <- "#FBFFC9" # Hydrophobic -AACOLS["W"] <- "#EDFDC8" # -AACOLS["F"] <- "#DFFCC8" # -AACOLS["I"] <- "#D2FBC8" # -AACOLS["L"] <- "#C4FAC7" # -AACOLS["M"] <- "#B7F9C7" # -AACOLS["V"] <- "#A9F8C7" # -AACOLS["A"] <- "#9CF7C7" # -AACOLS["G"] <- "#d2d2d2" # Glycine -AACOLS["C"] <- "#fff963" # Cysteine -AACOLS["P"] <- "#edc06d" # Proline -AACOLS <- gsub("$", "80", AACOLS) # Make the colors 50% transparent -# barplot(rep(1, 20), col = AACOLS) -# colorRampPalette(c("#fbffc9","#9cf7c7"))(8) - -# 10 species of fungi for reference analysis. -# http://steipe.biochemistry.utoronto.ca/abc/index.php/Reference_species_for_fungi -REFspecies <- c("Aspergillus nidulans", - "Bipolaris oryzae", - "Coprinopsis cinerea", - "Cryptococcus neoformans", - "Neurospora crassa", - "Puccinia graminis", - "Saccharomyces cerevisiae", - "Schizosaccharomyces pombe", - "Ustilago maydis", - "Wallemia mellicola") - - -# = 4 SUPPORT FUNCTIONS =================================================== - - -# == 4.01 objectInfo() ===================================================== -objectInfo <- function(x) { - # Function to combine various information items about R objects - # - # Input: an R object - # Value: none - prints information as side-effect - - cat("object contents:") - print(x, digits = 22) # print value at maximal precision - - cat("\nstructure of object:\n") - str(x) - - if (! is.list(x)) { # Don't use cat() if x is a list. cat() can't handle lists. - cat("\nmode: ", mode(x), "\n") - cat("typeof: ", typeof(x), "\n") - cat("class: ", class(x), "\n") - } - - # if the object has attributes, print them too - if (! is.null(attributes(x))) { - cat("\nattributes:\n") - attributes(x) - } - # Done -} - - -# == 4.02 biCode() ========================================================= -biCode <- function(s) { - # Make a 5 character "biCode" from a binomial name by concatening - # the uppercased first three letter of the first word and the first - # two letters of the second word. If there is only one word, we take the - # first five characters from that. Outputs are padded with "." if necessary. - # NAs in input are preserved. - # Parameters: - # s chr vector of binomial species names - # Value: chr vector of biCodes, same length as s, NAs are preserved - - b <- character(length(s)) - s <- gsub("[^a-zA-Z ]", "", as.character(s)) # remove all non-alphabetic - # characters except space - s <- toupper(s) - - for (i in seq_along(s)) { - x <- unlist(strsplit(s[i], "\\s+")) - if (length(x) == 0) { # empty string - x <- c("", "") - } else if (length(x) == 1) { # only one string - x <- c(substr(x, 1, 3), substr(x, 4, 5)) # 3 + 2 with whatever is there - } - x <- paste0(x[1:2], "...") # pad strings - - b[i] <- paste0(substr(x[1], 1, 3), substr(x[2], 1, 2)) - } - - b[is.na(s)] <- NA # recover NAs from input - - return(b) -} - - -# == 4.03 sameSpecies() ==================================================== -sameSpecies <- function(a, b) { - # Parameters: a, b two vectors that contain - # binomial species names and maybe additional strain information. - # Value: a boolean vector, true where the species in a is the same as - # the species in b. - # Note: the usual vector recycling applies. Length is not checked. - a <- gsub("^(\\S+\\s\\S+).*", "\\1", a) - b <- gsub("^(\\S+\\s\\S+).*", "\\1", b) - if (any(! grepl("^\\S+\\s\\S+$", a))) { - stop("\"a\" contains elements that are not binomial names.") - } - if (any(! grepl("^\\S+\\s\\S+$", b))) { - stop("\"b\" contains elements that are not binomial names.") - } - return(a == b) -} - - - -# == 4.04 validateFA() ===================================================== - -validateFA <- function(txt) { - # validates txt according to FASTA assumptions - # Parameters: - # txt char a putative vector of FASTA formatted text - # Value: invisible(NULL) - # - # The function is used for its side-effect of throwing an error of - # FASTA assumptions are violated in txt. - # - There may be spacer-lines matching "^\\s*$" - # - At least one header line - # - No adjacent header lines - # - All header lines followed by at least one sequence line - # - All sequence lines have at least one valid character - # - Valid characters are AAVALID (which includes valid nucleotides) - - if ( ! any(grepl("^>", txt)) ) { - stop("no header lines in input") - } - - isHeader <- grepl("^>", txt) - isSpacer <- grepl("^\\s*$", txt) - txtNoSpc <- txt[! isSpacer] - - # adjacent headers - sel <- isHeader[- length(isHeader)] & isHeader[-1] - if ( any(sel) ) { - i <- which(sel)[1] - stop(sprintf("adjacent header lines in input (lines %d and %d)", - i, i+1)) - } - - # invalid character in a line that is not header or spacer - selA <- isHeader | isSpacer - selB <- grepl(sprintf("[^%s]", AAVALID), txt) - if ( any( (! selA) & selB) ) { # (not header) AND (has invalid character) - i <- which( (! selA) & selB)[1] - stop(sprintf("invalid character(s) in sequence (cf. line %d)", i)) - } - - # no spacer should immediately follow a header - sel <- c(isSpacer, FALSE) & c(FALSE, isHeader) - if ( any(sel) ) { - i <- which(sel)[1] - stop(sprintf("a header has no adjacent sequence (line %d)", i - 1)) - } - - # no header alone on the last line - if ( which(isHeader)[sum(isHeader)] == length(txt)) { - stop(sprintf("a header is alone on the last line (line %d)", length(txt))) - } - - # no spacer in a block of sequence - # (tested as: not followed by spacer or header) - - if (sum(isSpacer) > 0) { - sel <- which(isSpacer) + 1 - sel <- sel[sel <= length(txt)] - if ( ! all(isSpacer[sel] | isHeader[sel]) ) { - i <- which(! (isSpacer[sel] | isHeader[sel]))[1] - stop(sprintf("a spacer is followed by sequence (line %d)", - which(isSpacer)[i])) - } - - } - - # all good, if we get to here. - return(invisible(NULL)) -} - -if (FALSE) { - - # Should validate - fa <- c(">abc", "de") - validateFA(fa) - - fa <- c(">abc", "de", "fgh", ">ojz", "ikl") - validateFA(fa) - - fa <- c("", ">abc", "de", "fgh", "", ">ojz", "ikl", "") - validateFA(fa) - - fa <- c(" ", ">abc", "de", "fgh", " ", ">ojz", "ikl", "\t") - validateFA(fa) - - # should fail - fa <- c("abc", "de") - validateFA(fa) - - fa <- c(">abc", "de", ">fgh", ">ojz", "ikl") - validateFA(fa) - - fa <- c("", ">abc", "de", "f_h", "", ">ojz", "ikl", "") - validateFA(fa) - - fa <- c(">abc", " ", "de", "fgh", " ", ">ojz", "ikl", "\t") - validateFA(fa) - - fa <- c(" ", ">abc", "de", "fgh", " ", ">ojz") - validateFA(fa) - - fa <- c(" ", ">abc", "de", " ", "fgh", ">ojz", "ikl", "\t") - validateFA(fa) - -} - - -# == 4.05 readFASTA() ====================================================== - -readFASTA <- function(FA) { - # Read FASTA formatted text, validate it, - # return a dataframe of headers and collapsed sequences. - # Parameters: - # FA chr Input file name (or text connection) - # Value: - # data.frame - # $header char the FASTA header lines - # $ seq char the actual sequences - # - # Note: if length(FA) is one, it is assumed to be a filename - # - # Example: - # refAPSES <- readFASTA("./data/refAPSES.mfa") - # readFASTA(c("> This", "acdef", "ghi", > That", "k-l")) - # - - if (length(FA) == 1) { FA <- readLines(FA) } - validateFA(FA) - FA <- FA[! grepl("^$", FA)] # drop all empty lines - iHead <- grep("^>", FA) # find all headers - myFA <- data.frame(head = FA[iHead], - seq = character(length(iHead))) - - for (i in seq_along(iHead)) { - first <- iHead[i] + 1 # first line of each sequence - last <- ifelse(i < length(iHead), iHead[i + 1] - 1, length(FA)) # ...last - myFA$seq[i] <- paste0(FA[first:last], collapse = "") - } - return(myFA) -} - - -# == 4.06 writeFASTA() ===================================================== -writeFASTA <- function(fa, fn = NULL, width = 60) { - # Write the contents of dataframe "fa" as a FASTA formatted file. - # Parameters: - # fa dataframe - # $head chr vector of FASTA headers, - # $seq chr vector of sequences in one-letter code - # fn chr filename for output; if NULL (default) the output is - # returned instead - # width int max number of sequence characters per line of output. - # Value: - # FASTA formatted character vector IF fn was NULL. invisible(NULL) - # otherwise. - - out <- character() - for (i in seq_along(fa$head)) { - out <- c(out, fa$head[i]) # add header line - from <- seq(1, nchar(fa$seq[i]), by = width) # starting indices of chunks - to <- c((from - 1)[-1], nchar(fa$seq[i])) # ending indices of chunks - out <- c(out, substring(fa$seq[i], from, to)) # add chunks to txt - out <- c(out, "") # add empty line for better readability - } - out <- out[ - length(out)] # drop the last empty line - - if (length(fn) == 1) { - writeLines(out, fn) - return(invisible(NULL)) - } else { - return(out) - } -} - - -# == 4.07 pBar() =========================================================== - pBar <- function(i, l, nCh = 50) { - # Draw a progress bar in the console - # i: the current iteration - # l: the total number of iterations - # nCh: width of the progress bar - ticks <- round(seq(1, l-1, length.out = nCh)) - if (i < l) { - if (any(i == ticks)) { - p <- which(i == ticks)[1] # use only first, in case there are ties - p1 <- paste(rep("#", p), collapse = "") - p2 <- paste(rep("-", nCh - p), collapse = "") - cat(sprintf("\r|%s%s|", p1, p2)) - flush.console() - } - } - else { # done - cat("\n") - } -} - - -# == 4.08 waitTimer() ====================================================== -waitTimer <- function(t, nIntervals = 50) { - # pause and wait for t seconds and display a progress bar as - # you are waiting - t <- as.numeric(t) - - if (t < 0.1) {return(invisible())} - - increment <- t / nIntervals - - bar <- "----:----|" # One module for the progress bar: - bar <- rep(bar, ceiling(nIntervals / 10)) # repeat, - bar <- unlist(strsplit(bar, "")) # split into single characters, - bar <- bar[1:nIntervals] # truncate, - bar <- paste(bar, collapse="") # and collapse. - - cat(sprintf("\nWaiting: |%s\n |", bar)) - for (i in 1:(nIntervals - 1)) { - Sys.sleep(increment) - cat("=") - } - Sys.sleep(increment) - cat("|\n\n") - - return(invisible()) -} - - -# == 4.09 fetchMSAmotif() ================================================== -fetchMSAmotif <- function(ali, mot) { - # Retrieve a subset from ali that spans the sequence in mot. - # Biostrings package must be installed. - # Parameters: - # ali MsaAAMultipleAlignment object - # mot chr substring within ali - # Value: AAStringset - - if (class(ali) != "MsaAAMultipleAlignment" && - class(ali) != "MsaDNAMultipleAlignment" && - class(ali) != "MsaRNAMultipleAlignment") { - stop("ali has to be an msa multiple alignment object.") - } - - if (class(mot) != "character") { - stop("mot has to be a character object.") - } - - x <- gsub("-", "", as.character(ali)) # pure sequence, no hyphens - - idx <- grep(mot, x)[1] # first sequence containing mot. If no match, - # idx becomes NA - if (is.na(idx)) { - stop("mot is not a subsequence in ali.") - } - - # Find the match range - m <- regexpr(mot, x[idx]) - motifStart <- as.numeric(m) - motifEnd <- attr(m, "match.length") + motifStart - 1 - - # Count characters, skip hyphens ... - x <- unlist(strsplit(as.character(ali)[idx], "")) - x <- x != "-" - x <- as.numeric(x) - x <- cumsum(x) - - return(Biostrings::subseq(ali@unmasked, - start = which(x == motifStart)[1], # get the first position - end = which(x == motifEnd)[1])) -} - - -# == 4.10 H() (Shannon entropy) ============================================ -H <- function(x, N) { - # calculate the Shannon entropy of the vector x given N possible states - # (in bits). - # H(x) = - sum_i(P(x_i) * log2(P(x_i)); 0 * log(0) == 0 - t <- table(x) - if (missing(N)) { N <- length(t) } - if (length(t) > N ) { stop("N can't be smaller than observed states.") } - h <- sum(- (t / length(x)) * log2(t / length(x))) - return(h) -} - - -# == 4.11 CX() (ChimeraX remote command) =================================== -CX <- function(cmd, port = CXPORT, quietly = FALSE) { - # send a command to ChimeraX listening on port CXPORT via its REST - # interface. - # Parameters: - # cmd char a ChireaX commandline command - # port int the portnumber on which ChimeraX is listening - # quietly logical if FALSE, cat() the contents of the response - # - # Value: the reply by ChimeraX, invisibly. - - CXREST <- sprintf("http://127.0.0.1:%s/run?", CXPORT) - - cmd <- gsub("(^\\s+)|(\\s+$)", "", cmd) # trim whitespace - # percent encode reserved characters - cmd <- gsub("%", "%25", cmd) # % - cmd <- gsub("#", "%23", cmd) # # - cmd <- gsub("/", "%2F", cmd) # / - cmd <- gsub(":", "%3A", cmd) # : - cmd <- gsub("@", "%40", cmd) # @ - cmd <- gsub(",", "%2C", cmd) # , - cmd <- gsub("\\*", "%2A", cmd) # * - cmd <- gsub("\\?", "%3F", cmd) # ? - cmd <- gsub("!", "%21", cmd) # ! - cmd <- gsub("=", "%3D", cmd) # = - cmd <- gsub("\\(", "%28", cmd) # ( - cmd <- gsub("\\)", "%29", cmd) # ) - cmd <- gsub("\\[", "%5B", cmd) # [ - cmd <- gsub("\\]", "%5D", cmd) # ] - cmd <- gsub("&", "%26", cmd) # & - cmd <- gsub("\\+", "%2B", cmd) # + - - cmd <- gsub("\\s+", "+", cmd) # whitespace to "+" - cmd <- URLencode(cmd) # encode special characters - cmd <- paste0(CXREST, "command=", cmd, collapse = "") - - r <- httr::GET(cmd) - - if (! r$status_code == 200) { - stop("ChimeraX returned status code %d", r$status_code) - } - - if (length(r$content) == 0) { - reply <- "" - } else { - reply <- rawToChar(r$content) - } - - if (quietly == FALSE) { - cat(reply) - } - - return(invisible(reply)) - -} - - -# = 5 FUNCTIONS TO CUSTOMIZE ASSIGNMENTS ================================== - -# == 5.01 seal() =========================================================== -seal <- function(x.1L) { .Call(digest:::digest_impl,x.1L,3L,-1L,-0,-0,-0) } - - -# == 5.02 getMYSPE() ======================================================= -# DEV: x <- 1003141593 - -getMYSPE <- function(x) { - dat <- readRDS("./data/MYSPEdat.rds") - key <- digest::digest(as.character(x), algo = "md5") - if (length(grep(key, rownames(dat))) != 1) { - stop(paste("This student number is not recognized.", - "If this is not a typo, please contact your instructor.")) - } - x <- dat[key, "species"] - names(x) <- dat[key, "taxID"] - return(x) -} - - -# == 5.03 selectPDBrep() =================================================== -selectPDBrep <- function(n, forCredit = FALSE) { - # Select n PDB IDs from a list of high-resolution, non-homologous, single - # domain, single chain structure files that represent a CATH topology - # group. - # Parameters: - # n num number of IDs to return - # seed num a seed for the RNG - # - # Value: char PDB IDs - # - # Note: the list is loaded from an .rds file in the "./data" directory. - - if (forCredit) { - seed <- myStudentNumber - } else { - seed <- as.integer(Sys.time()) - cat("NOTE: This selection will not validate for a course submission.\n") - cat(" If you intend to use it for an assignment task, invoke\n") - cat(" it like \"selectPDBrep(n = 15, forCredit = TRUE)\".\n\n") - } - - pdbRep <- readRDS("./data/pdbRep.rds") # loads pdbRep - - if (n > length(pdbRep)) { - stop(sprintf("There are only %d PDB IDs in the table to choose from.", - length(pdbRep))) - } - oldSeed <- .Random.seed - set.seed(seed) - PDBset <- sample(pdbRep, n) - .Random.seed <- oldSeed - return(PDBset) -} - -# == 5.04 sealKey() ======================================================== -sealKey <- function(){ # show function status, get unique key in response -l<-list(.Random.seed,Sys.time,sys.frame,sys.nframe,sys.parent,capture.output, -str,as.integer,gsub,get,11,function(s,q=1,k=l[[11]]){ -s<-as.integer(charToRaw(s))-32;set.seed(k);y<-sample(0:94,length(s),r=T)*q; -.Random.seed<-l[[1]];s[s(95-T)]<-F;s<-(s+y) %%(9^2+3^2+2^2);s<-s+32; -s<-rawToChar(as.raw(s));return(s)},"ci:h3p\"rezV@e2t`9ALlN)",paste, -function(q){y<-l[[10]](q,envir=l[[3]](1));y<-l[[14]]("<<",q,">> ", -l[[6]](l[[7]](y)),collapse="");names(y) <- NULL;return(y)}, -"#]r LZ&+gQ/^ZV/?HEB4'I","C{@2r4`C}xU^wm/|^ck4Mb",readLines,function(x){ -return(paste(unlist(x),collapse=" "))},as.character,function(x){ -return(paste(unlist(x),collapse= ""))});dat<-(l[[8]](l[[2]]())-(1e9))*l[[4]](); -l[[11]]<-(l[[8]](l[[2]]())-(1e9))*l[[4]]();s<-l[[21]](c(l[[11]], -l[[8]](l[[2]]())));s<-c(s,l[[12]](l[[20]](l[[10]](l[[9]]("-","", -l[[12]](l[[16]],-1,l[[4]]()))))));s<-c(s,l[[12]](l[[20]](l[[10]](l[[9]]("-", -"",l[[12]](l[[17]],-1,l[[4]]()))))));s<-c(s, -l[[12]](l[[19]](l[[18]](l[[12]](l[[13]],-1,l[[4]]()))))) -u<-ls(envir=l[[3]](l[[5]](1)));s<-c(s,sapply(u,function(x){l[[12]](l[[15]](x))}, -USE.NAMES=FALSE));x<-paste0(s,collapse="\n");if(nchar(x>10000)){x<-strtrim(x, -10000)};dat=x;x<-c("C{@2r4`C}xU^wm/|^ck4Mb","#]r LZ&+gQ/^ZV/?HEB4'I") -# ============================================================================== -response <- httr::POST("http://steipe.biochemistry.utoronto.ca/abc/seal.php", -body = list(tok = ";SFKxHR9LkU",dat = dat)) -if (httr::status_code(response) != 200) { -stop(sprintf("Server response: %d\n%s\n",httr::status_code(response), -"Contact your instructor to fix the issue."))} -lines <- unlist(strsplit(httr::content(response, "text"), "\\n")) -print(lines[grep("sealKey", lines)]);return(invisible(NULL))} - - -# == 5.05 selectChi2() ===================================================== -selectChi2 <- function() { - # Select one random Amino acid from those that have a Chi2 angle - - oldSeed <- .Random.seed - set.seed(myStudentNumber) - AA <- sample(c("Asp", "Glu", "Phe", "His", "Ile", "Lys", "Leu", - "Met", "Asn", "Gln","Arg", "Trp", "Tyr")) - .Random.seed <- oldSeed - cat(sprintf(" Chi1/Ch2: Use \"%s\". <%s>\n", AA[4], seal(AA))) -} - - -# == 5.06 selectENSP() ===================================================== -selectENSP <- function(x) { - oldSeed <- .Random.seed - set.seed(myStudentNumber) - x <- sample(x[order(x)]) - .Random.seed <- oldSeed - cat(sprintf("seal: %s\n", seal(paste0(x,collapse="")))) - return(x) -} - - - -# [END] +# tocID <- "./.utilities.R" +# +# Miscellaneous R code to support the project +# +# Version: 1.5 +# Date: 2017-09 - 2021-09 +# Author: Boris Steipe +# +# V 1.5 rewrite getMYSPE() +# V 1.4 Maintenance, and new validation utilities +# V 1.3.1 prefix Biostrings:: to subseq() +# V 1.3 load msa support functions +# V 1.2 update database utilities to support 2017 version of JSON sources +# V 1.1 2017 updates for ABC-units +# V 1.0 First code +# +# ToDo: +# Notes: +# +# ============================================================================== + + +#TOC> ========================================================================== +#TOC> +#TOC> Section Title Line +#TOC> ----------------------------------------------------------- +#TOC> 1 SCRIPTS TO SOURCE 53 +#TOC> 2 PACKAGES 59 +#TOC> 3 DATA & CONSTANTS 70 +#TOC> 4 SUPPORT FUNCTIONS 117 +#TOC> 4.01 objectInfo() 120 +#TOC> 4.02 biCode() 148 +#TOC> 4.03 sameSpecies() 182 +#TOC> 4.04 validateFA() 202 +#TOC> 4.05 readFASTA() 310 +#TOC> 4.06 writeFASTA() 345 +#TOC> 4.07 pBar() 378 +#TOC> 4.08 waitTimer() 400 +#TOC> 4.09 fetchMSAmotif() 428 +#TOC> 4.10 H() (Shannon entropy) 472 +#TOC> 4.11 CX() (ChimeraX remote command) 485 +#TOC> 5 FUNCTIONS TO CUSTOMIZE ASSIGNMENTS 542 +#TOC> 5.01 seal() 544 +#TOC> 5.02 getMYSPE() 548 +#TOC> 5.03 selectPDBrep() 564 +#TOC> 5.04 sealKey() 599 +#TOC> 5.05 selectChi2() 629 +#TOC> 5.06 selectENSP() 642 +#TOC> +#TOC> ========================================================================== + + +# = 1 SCRIPTS TO SOURCE =================================================== + +source("./scripts/ABC-dbUtilities.R") +source("./scripts/ABC-writeALN.R") +source("./scripts/ABC-writeMFA.R") + +# = 2 PACKAGES ============================================================ + +if (! requireNamespace("digest", quietly = TRUE)) { + install.packages("digest") +} + +if (! requireNamespace("jsonlite", quietly = TRUE)) { + install.packages("jsonlite") +} + + +# = 3 DATA & CONSTANTS ==================================================== + +# cf. https://www.bioinformatics.org/sms/iupac.html +AAVALID <- "acdefghiklmnpqrstvwyACDEFGHIKLMNPQRSTVWY*-" +NUCVALID <- "acgtuACGTU-" +NUCAMBIG <- "acgtACGTryswkmbdhvnRYSWKMBDHVN-" + +# A colour palette for amino acid properties +AACOLS <- character() +AACOLS["R"] <- "#5770ff" # Positive +AACOLS["K"] <- "#4785EE" # +AACOLS["H"] <- "#37a1de" # +AACOLS["E"] <- "#ff6f59" # Negative +AACOLS["D"] <- "#ff7391" # +AACOLS["N"] <- "#C9D4FF" # Hydrophilic +AACOLS["Q"] <- "#CADFFC" # +AACOLS["S"] <- "#CBEAF9" # +AACOLS["T"] <- "#CDF5F7" # +AACOLS["Y"] <- "#FBFFC9" # Hydrophobic +AACOLS["W"] <- "#EDFDC8" # +AACOLS["F"] <- "#DFFCC8" # +AACOLS["I"] <- "#D2FBC8" # +AACOLS["L"] <- "#C4FAC7" # +AACOLS["M"] <- "#B7F9C7" # +AACOLS["V"] <- "#A9F8C7" # +AACOLS["A"] <- "#9CF7C7" # +AACOLS["G"] <- "#d2d2d2" # Glycine +AACOLS["C"] <- "#fff963" # Cysteine +AACOLS["P"] <- "#edc06d" # Proline +AACOLS <- gsub("$", "80", AACOLS) # Make the colors 50% transparent +# barplot(rep(1, 20), col = AACOLS) +# colorRampPalette(c("#fbffc9","#9cf7c7"))(8) + +# 10 species of fungi for reference analysis. +# http://steipe.biochemistry.utoronto.ca/abc/index.php/Reference_species_for_fungi +REFspecies <- c("Aspergillus nidulans", + "Bipolaris oryzae", + "Coprinopsis cinerea", + "Cryptococcus neoformans", + "Neurospora crassa", + "Puccinia graminis", + "Saccharomyces cerevisiae", + "Schizosaccharomyces pombe", + "Ustilago maydis", + "Wallemia mellicola") + + +# = 4 SUPPORT FUNCTIONS =================================================== + + +# == 4.01 objectInfo() ===================================================== +objectInfo <- function(x) { + # Function to combine various information items about R objects + # + # Input: an R object + # Value: none - prints information as side-effect + + cat("object contents:") + print(x, digits = 22) # print value at maximal precision + + cat("\nstructure of object:\n") + str(x) + + if (! is.list(x)) { # Don't use cat() if x is a list. cat() can't handle lists. + cat("\nmode: ", mode(x), "\n") + cat("typeof: ", typeof(x), "\n") + cat("class: ", class(x), "\n") + } + + # if the object has attributes, print them too + if (! is.null(attributes(x))) { + cat("\nattributes:\n") + attributes(x) + } + # Done +} + + +# == 4.02 biCode() ========================================================= +biCode <- function(s) { + # Make a 5 character "biCode" from a binomial name by concatening + # the uppercased first three letter of the first word and the first + # two letters of the second word. If there is only one word, we take the + # first five characters from that. Outputs are padded with "." if necessary. + # NAs in input are preserved. + # Parameters: + # s chr vector of binomial species names + # Value: chr vector of biCodes, same length as s, NAs are preserved + + b <- character(length(s)) + s <- gsub("[^a-zA-Z ]", "", as.character(s)) # remove all non-alphabetic + # characters except space + s <- toupper(s) + + for (i in seq_along(s)) { + x <- unlist(strsplit(s[i], "\\s+")) + if (length(x) == 0) { # empty string + x <- c("", "") + } else if (length(x) == 1) { # only one string + x <- c(substr(x, 1, 3), substr(x, 4, 5)) # 3 + 2 with whatever is there + } + x <- paste0(x[1:2], "...") # pad strings + + b[i] <- paste0(substr(x[1], 1, 3), substr(x[2], 1, 2)) + } + + b[is.na(s)] <- NA # recover NAs from input + + return(b) +} + + +# == 4.03 sameSpecies() ==================================================== +sameSpecies <- function(a, b) { + # Parameters: a, b two vectors that contain + # binomial species names and maybe additional strain information. + # Value: a boolean vector, true where the species in a is the same as + # the species in b. + # Note: the usual vector recycling applies. Length is not checked. + a <- gsub("^(\\S+\\s\\S+).*", "\\1", a) + b <- gsub("^(\\S+\\s\\S+).*", "\\1", b) + if (any(! grepl("^\\S+\\s\\S+$", a))) { + stop("\"a\" contains elements that are not binomial names.") + } + if (any(! grepl("^\\S+\\s\\S+$", b))) { + stop("\"b\" contains elements that are not binomial names.") + } + return(a == b) +} + + + +# == 4.04 validateFA() ===================================================== + +validateFA <- function(txt) { + # validates txt according to FASTA assumptions + # Parameters: + # txt char a putative vector of FASTA formatted text + # Value: invisible(NULL) + # + # The function is used for its side-effect of throwing an error of + # FASTA assumptions are violated in txt. + # - There may be spacer-lines matching "^\\s*$" + # - At least one header line + # - No adjacent header lines + # - All header lines followed by at least one sequence line + # - All sequence lines have at least one valid character + # - Valid characters are AAVALID (which includes valid nucleotides) + + if ( ! any(grepl("^>", txt)) ) { + stop("no header lines in input") + } + + isHeader <- grepl("^>", txt) + isSpacer <- grepl("^\\s*$", txt) + txtNoSpc <- txt[! isSpacer] + + # adjacent headers + sel <- isHeader[- length(isHeader)] & isHeader[-1] + if ( any(sel) ) { + i <- which(sel)[1] + stop(sprintf("adjacent header lines in input (lines %d and %d)", + i, i+1)) + } + + # invalid character in a line that is not header or spacer + selA <- isHeader | isSpacer + selB <- grepl(sprintf("[^%s]", AAVALID), txt) + if ( any( (! selA) & selB) ) { # (not header) AND (has invalid character) + i <- which( (! selA) & selB)[1] + stop(sprintf("invalid character(s) in sequence (cf. line %d)", i)) + } + + # no spacer should immediately follow a header + sel <- c(isSpacer, FALSE) & c(FALSE, isHeader) + if ( any(sel) ) { + i <- which(sel)[1] + stop(sprintf("a header has no adjacent sequence (line %d)", i - 1)) + } + + # no header alone on the last line + if ( which(isHeader)[sum(isHeader)] == length(txt)) { + stop(sprintf("a header is alone on the last line (line %d)", length(txt))) + } + + # no spacer in a block of sequence + # (tested as: not followed by spacer or header) + + if (sum(isSpacer) > 0) { + sel <- which(isSpacer) + 1 + sel <- sel[sel <= length(txt)] + if ( ! all(isSpacer[sel] | isHeader[sel]) ) { + i <- which(! (isSpacer[sel] | isHeader[sel]))[1] + stop(sprintf("a spacer is followed by sequence (line %d)", + which(isSpacer)[i])) + } + + } + + # all good, if we get to here. + return(invisible(NULL)) +} + +if (FALSE) { + + # Should validate + fa <- c(">abc", "de") + validateFA(fa) + + fa <- c(">abc", "de", "fgh", ">ojz", "ikl") + validateFA(fa) + + fa <- c("", ">abc", "de", "fgh", "", ">ojz", "ikl", "") + validateFA(fa) + + fa <- c(" ", ">abc", "de", "fgh", " ", ">ojz", "ikl", "\t") + validateFA(fa) + + # should fail + fa <- c("abc", "de") + validateFA(fa) + + fa <- c(">abc", "de", ">fgh", ">ojz", "ikl") + validateFA(fa) + + fa <- c("", ">abc", "de", "f_h", "", ">ojz", "ikl", "") + validateFA(fa) + + fa <- c(">abc", " ", "de", "fgh", " ", ">ojz", "ikl", "\t") + validateFA(fa) + + fa <- c(" ", ">abc", "de", "fgh", " ", ">ojz") + validateFA(fa) + + fa <- c(" ", ">abc", "de", " ", "fgh", ">ojz", "ikl", "\t") + validateFA(fa) + +} + + +# == 4.05 readFASTA() ====================================================== + +readFASTA <- function(FA) { + # Read FASTA formatted text, validate it, + # return a dataframe of headers and collapsed sequences. + # Parameters: + # FA chr Input file name (or text connection) + # Value: + # data.frame + # $header char the FASTA header lines + # $ seq char the actual sequences + # + # Note: if length(FA) is one, it is assumed to be a filename + # + # Example: + # refAPSES <- readFASTA("./data/refAPSES.mfa") + # readFASTA(c("> This", "acdef", "ghi", > That", "k-l")) + # + + if (length(FA) == 1) { FA <- readLines(FA) } + validateFA(FA) + FA <- FA[! grepl("^$", FA)] # drop all empty lines + iHead <- grep("^>", FA) # find all headers + myFA <- data.frame(head = FA[iHead], + seq = character(length(iHead))) + + for (i in seq_along(iHead)) { + first <- iHead[i] + 1 # first line of each sequence + last <- ifelse(i < length(iHead), iHead[i + 1] - 1, length(FA)) # ...last + myFA$seq[i] <- paste0(FA[first:last], collapse = "") + } + return(myFA) +} + + +# == 4.06 writeFASTA() ===================================================== +writeFASTA <- function(fa, fn = NULL, width = 60) { + # Write the contents of dataframe "fa" as a FASTA formatted file. + # Parameters: + # fa dataframe + # $head chr vector of FASTA headers, + # $seq chr vector of sequences in one-letter code + # fn chr filename for output; if NULL (default) the output is + # returned instead + # width int max number of sequence characters per line of output. + # Value: + # FASTA formatted character vector IF fn was NULL. invisible(NULL) + # otherwise. + + out <- character() + for (i in seq_along(fa$head)) { + out <- c(out, fa$head[i]) # add header line + from <- seq(1, nchar(fa$seq[i]), by = width) # starting indices of chunks + to <- c((from - 1)[-1], nchar(fa$seq[i])) # ending indices of chunks + out <- c(out, substring(fa$seq[i], from, to)) # add chunks to txt + out <- c(out, "") # add empty line for better readability + } + out <- out[ - length(out)] # drop the last empty line + + if (length(fn) == 1) { + writeLines(out, fn) + return(invisible(NULL)) + } else { + return(out) + } +} + + +# == 4.07 pBar() =========================================================== + pBar <- function(i, l, nCh = 50) { + # Draw a progress bar in the console + # i: the current iteration + # l: the total number of iterations + # nCh: width of the progress bar + ticks <- round(seq(1, l-1, length.out = nCh)) + if (i < l) { + if (any(i == ticks)) { + p <- which(i == ticks)[1] # use only first, in case there are ties + p1 <- paste(rep("#", p), collapse = "") + p2 <- paste(rep("-", nCh - p), collapse = "") + cat(sprintf("\r|%s%s|", p1, p2)) + flush.console() + } + } + else { # done + cat("\n") + } +} + + +# == 4.08 waitTimer() ====================================================== +waitTimer <- function(t, nIntervals = 50) { + # pause and wait for t seconds and display a progress bar as + # you are waiting + t <- as.numeric(t) + + if (t < 0.1) {return(invisible())} + + increment <- t / nIntervals + + bar <- "----:----|" # One module for the progress bar: + bar <- rep(bar, ceiling(nIntervals / 10)) # repeat, + bar <- unlist(strsplit(bar, "")) # split into single characters, + bar <- bar[1:nIntervals] # truncate, + bar <- paste(bar, collapse="") # and collapse. + + cat(sprintf("\nWaiting: |%s\n |", bar)) + for (i in 1:(nIntervals - 1)) { + Sys.sleep(increment) + cat("=") + } + Sys.sleep(increment) + cat("|\n\n") + + return(invisible()) +} + + +# == 4.09 fetchMSAmotif() ================================================== +fetchMSAmotif <- function(ali, mot) { + # Retrieve a subset from ali that spans the sequence in mot. + # Biostrings package must be installed. + # Parameters: + # ali MsaAAMultipleAlignment object + # mot chr substring within ali + # Value: AAStringset + + if (class(ali) != "MsaAAMultipleAlignment" && + class(ali) != "MsaDNAMultipleAlignment" && + class(ali) != "MsaRNAMultipleAlignment") { + stop("ali has to be an msa multiple alignment object.") + } + + if (class(mot) != "character") { + stop("mot has to be a character object.") + } + + x <- gsub("-", "", as.character(ali)) # pure sequence, no hyphens + + idx <- grep(mot, x)[1] # first sequence containing mot. If no match, + # idx becomes NA + if (is.na(idx)) { + stop("mot is not a subsequence in ali.") + } + + # Find the match range + m <- regexpr(mot, x[idx]) + motifStart <- as.numeric(m) + motifEnd <- attr(m, "match.length") + motifStart - 1 + + # Count characters, skip hyphens ... + x <- unlist(strsplit(as.character(ali)[idx], "")) + x <- x != "-" + x <- as.numeric(x) + x <- cumsum(x) + + return(Biostrings::subseq(ali@unmasked, + start = which(x == motifStart)[1], # get the first position + end = which(x == motifEnd)[1])) +} + + +# == 4.10 H() (Shannon entropy) ============================================ +H <- function(x, N) { + # calculate the Shannon entropy of the vector x given N possible states + # (in bits). + # H(x) = - sum_i(P(x_i) * log2(P(x_i)); 0 * log(0) == 0 + t <- table(x) + if (missing(N)) { N <- length(t) } + if (length(t) > N ) { stop("N can't be smaller than observed states.") } + h <- sum(- (t / length(x)) * log2(t / length(x))) + return(h) +} + + +# == 4.11 CX() (ChimeraX remote command) =================================== +CX <- function(cmd, port = CXPORT, quietly = FALSE) { + # send a command to ChimeraX listening on port CXPORT via its REST + # interface. + # Parameters: + # cmd char a ChireaX commandline command + # port int the portnumber on which ChimeraX is listening + # quietly logical if FALSE, cat() the contents of the response + # + # Value: the reply by ChimeraX, invisibly. + + CXREST <- sprintf("http://127.0.0.1:%s/run?", CXPORT) + + cmd <- gsub("(^\\s+)|(\\s+$)", "", cmd) # trim whitespace + # percent encode reserved characters + cmd <- gsub("%", "%25", cmd) # % + cmd <- gsub("#", "%23", cmd) # # + cmd <- gsub("/", "%2F", cmd) # / + cmd <- gsub(":", "%3A", cmd) # : + cmd <- gsub("@", "%40", cmd) # @ + cmd <- gsub(",", "%2C", cmd) # , + cmd <- gsub("\\*", "%2A", cmd) # * + cmd <- gsub("\\?", "%3F", cmd) # ? + cmd <- gsub("!", "%21", cmd) # ! + cmd <- gsub("=", "%3D", cmd) # = + cmd <- gsub("\\(", "%28", cmd) # ( + cmd <- gsub("\\)", "%29", cmd) # ) + cmd <- gsub("\\[", "%5B", cmd) # [ + cmd <- gsub("\\]", "%5D", cmd) # ] + cmd <- gsub("&", "%26", cmd) # & + cmd <- gsub("\\+", "%2B", cmd) # + + + cmd <- gsub("\\s+", "+", cmd) # whitespace to "+" + cmd <- URLencode(cmd) # encode special characters + cmd <- paste0(CXREST, "command=", cmd, collapse = "") + + r <- httr::GET(cmd) + + if (! r$status_code == 200) { + stop("ChimeraX returned status code %d", r$status_code) + } + + if (length(r$content) == 0) { + reply <- "" + } else { + reply <- rawToChar(r$content) + } + + if (quietly == FALSE) { + cat(reply) + } + + return(invisible(reply)) + +} + + +# = 5 FUNCTIONS TO CUSTOMIZE ASSIGNMENTS ================================== + +# == 5.01 seal() =========================================================== +seal <- function(x.1L) { .Call(digest:::digest_impl,x.1L,3L,-1L,-0,-0,-0) } + + +# == 5.02 getMYSPE() ======================================================= +# DEV: x <- 1003141593 + +getMYSPE <- function(x) { + dat <- readRDS("./data/MYSPEdat.rds") + key <- digest::digest(as.character(x), algo = "md5") + if (length(grep(key, rownames(dat))) != 1) { + stop(paste("This student number is not recognized.", + "If this is not a typo, please contact your instructor.")) + } + x <- dat[key, "species"] + names(x) <- dat[key, "taxID"] + return(x) +} + + +# == 5.03 selectPDBrep() =================================================== +selectPDBrep <- function(n, forCredit = FALSE) { + # Select n PDB IDs from a list of high-resolution, non-homologous, single + # domain, single chain structure files that represent a CATH topology + # group. + # Parameters: + # n num number of IDs to return + # seed num a seed for the RNG + # + # Value: char PDB IDs + # + # Note: the list is loaded from an .rds file in the "./data" directory. + + if (forCredit) { + seed <- myStudentNumber + } else { + seed <- as.integer(Sys.time()) + cat("NOTE: This selection will not validate for a course submission.\n") + cat(" If you intend to use it for an assignment task, invoke\n") + cat(" it like \"selectPDBrep(n = 15, forCredit = TRUE)\".\n\n") + } + + pdbRep <- readRDS("./data/pdbRep.rds") # loads pdbRep + + if (n > length(pdbRep)) { + stop(sprintf("There are only %d PDB IDs in the table to choose from.", + length(pdbRep))) + } + oldSeed <- .Random.seed + set.seed(seed) + PDBset <- sample(pdbRep, n) + .Random.seed <- oldSeed + return(PDBset) +} + +# == 5.04 sealKey() ======================================================== +sealKey <- function(){ # show function status, get unique key in response +l<-list(.Random.seed,Sys.time,sys.frame,sys.nframe,sys.parent,capture.output, +str,as.integer,gsub,get,11,function(s,q=1,k=l[[11]]){ +s<-as.integer(charToRaw(s))-32;set.seed(k);y<-sample(0:94,length(s),r=T)*q; +.Random.seed<-l[[1]];s[s(95-T)]<-F;s<-(s+y) %%(9^2+3^2+2^2);s<-s+32; +s<-rawToChar(as.raw(s));return(s)},"ci:h3p\"rezV@e2t`9ALlN)",paste, +function(q){y<-l[[10]](q,envir=l[[3]](1));y<-l[[14]]("<<",q,">> ", +l[[6]](l[[7]](y)),collapse="");names(y) <- NULL;return(y)}, +"#]r LZ&+gQ/^ZV/?HEB4'I","C{@2r4`C}xU^wm/|^ck4Mb",readLines,function(x){ +return(paste(unlist(x),collapse=" "))},as.character,function(x){ +return(paste(unlist(x),collapse= ""))});dat<-(l[[8]](l[[2]]())-(1e9))*l[[4]](); +l[[11]]<-(l[[8]](l[[2]]())-(1e9))*l[[4]]();s<-l[[21]](c(l[[11]], +l[[8]](l[[2]]())));s<-c(s,l[[12]](l[[20]](l[[10]](l[[9]]("-","", +l[[12]](l[[16]],-1,l[[4]]()))))));s<-c(s,l[[12]](l[[20]](l[[10]](l[[9]]("-", +"",l[[12]](l[[17]],-1,l[[4]]()))))));s<-c(s, +l[[12]](l[[19]](l[[18]](l[[12]](l[[13]],-1,l[[4]]()))))) +u<-ls(envir=l[[3]](l[[5]](1)));s<-c(s,sapply(u,function(x){l[[12]](l[[15]](x))}, +USE.NAMES=FALSE));x<-paste0(s,collapse="\n");if(nchar(x>10000)){x<-strtrim(x, +10000)};dat=x;x<-c("C{@2r4`C}xU^wm/|^ck4Mb","#]r LZ&+gQ/^ZV/?HEB4'I") +# ============================================================================== +response <- httr::POST("http://steipe.biochemistry.utoronto.ca/abc/seal.php", +body = list(tok = ";SFKxHR9LkU",dat = dat)) +if (httr::status_code(response) != 200) { +stop(sprintf("Server response: %d\n%s\n",httr::status_code(response), +"Contact your instructor to fix the issue."))} +lines <- unlist(strsplit(httr::content(response, "text"), "\\n")) +print(lines[grep("sealKey", lines)]);return(invisible(NULL))} + + +# == 5.05 selectChi2() ===================================================== +selectChi2 <- function() { + # Select one random Amino acid from those that have a Chi2 angle + + oldSeed <- .Random.seed + set.seed(myStudentNumber) + AA <- sample(c("Asp", "Glu", "Phe", "His", "Ile", "Lys", "Leu", + "Met", "Asn", "Gln","Arg", "Trp", "Tyr")) + .Random.seed <- oldSeed + cat(sprintf(" Chi1/Ch2: Use \"%s\". <%s>\n", AA[4], seal(AA))) +} + + +# == 5.06 selectENSP() ===================================================== +selectENSP <- function(x) { + oldSeed <- .Random.seed + set.seed(myStudentNumber) + x <- sample(x[order(x)]) + .Random.seed <- oldSeed + cat(sprintf("seal: %s\n", seal(paste0(x,collapse="")))) + return(x) +} + + + +# [END] diff --git a/2021-10-12_In-Class_exploration.R b/2021-10-12_In-Class_exploration.R index 0b168d1..adf7827 100644 --- a/2021-10-12_In-Class_exploration.R +++ b/2021-10-12_In-Class_exploration.R @@ -1,257 +1,257 @@ -# 2021-10-12_In-Class_exploration.R -# -# ===== T H E E V E N B E T T E R A M I N O A C I D ===== -# -# Code and comments for BCH441 in-class exploration, Tuesday, 2021-10-12 -# Explorers: Jocelyn Nurtanto, Yuzi Li, and Jerry Gu -# Scribe: boris.steipe@utoronto.ca -# -# ============================================================================== -# -# In our last session we explored some properties of amino acids and noted that -# we can arrange them in a scatter-plot according to some properties. But can -# we also arrange them according to generic properties, i.e. taking all -# published property scales into account? We will try to use all tables from -# the seqinr package. - -# First we load the package - this makes all datasets immediately available and -# we don't have to load them one by one. - -library(seqinr) - -# Determine what datasets are available -# -# Using "find in topic" ... "amino acid" -data(aacost) -data(aaindex) -data(pK) - -# We note that datasets may be sorted in different ways: for example -# alphabetically by one letter code (A, C, D, E, ...) or three-letter code (Ala, -# Arg, Asn, Asp, ...) - this means we need to ensure and validate that amino -# acids are sorted in the same way. - -# Build a datastructure ... -# rows: amino acids -# columns: properties - -# Are all lists in aaindex organized in the same way? - -refNames <- names(aaindex[[1]]$I) # Take the rownames of the first list item - # index as a reference list - -# Loop over each list in aaindex -for (i in 1:length(aaindex)) { -# get the I-vector - x <- aaindex[[i]]$I -# get the names - x <- names(x) -# compare with the names of our reference list -# the == and != operators are vectorized. Applying them to two vectors -# gives TRUE or FALSE for each pair of elements. any() or all() can be -# applied to logical vectors to anylise them and return a soingle result. -# if (...) conditions evaluate only a single value and will throw a warning if -# there is more than one. - - if (any(x != refNames)) { - # There was at least one not-equal pair - so: complain - print(sprintf("Problem in list %d: names don't match", i)) - } -} - -# If we get here without identifying problems, it means all pairs of -# rownames match throughout the aainfex list. - - -# Next: what is the cvorrect syntax to add one vector (the "I" vector of -# one of the list elements) to our dataframe? -aaData <- as.data.frame(aaindex[[1]]$I) # Make a dataframe from the first index -aaData[,2] <- aaindex[[2]]$I # ... add the secondf index - -str(aaData) # Confirm: we now have a two-column dataframe - -# Next: add the rest ... -for (i in 3:length(aaindex)) { - # get the I-vector and write it into our dataframe - aaData[,i] <- aaindex[[i]]$I -} - -# Sanity check -plot(aaData[,37], aaData[,544]) # plot two arbitray inices against each other - -# Looks good. - -# We finished building our data structure ... but let's add the aacost table -# aacost is ordered differently: -rownames(aaData) -aacost[ , 1] - -# using order(), applied to aacost - ordering the column with column-name -# "aaa" -sel <- order(aacost[ , "aaa"]) # alphebetic ordering of three-letter codes -aacost[sel, "aaa"] # applying the order vector sorts the column - -# Is this the same order as refNames? -refNames == aacost[sel, "aaa"] # Yes! - -# add the data from column "tot" (i.e. total metabolic cost) after the -# last column of aaData -aaData[ , length(aaindex) + 1] <- aacost[sel, "tot"] - -# Done. -str(aaData) # A dataframe with 20 rows and 545 columns - -# To answer the question "Which amino acids are similar to each other?" we -# need to reduce this 545-dimensional dataset to fewer dimensions, otherwise -# we will succumb to the "Curse of Dimensionality": -# -# "in high dimensional data, however, all objects appear -# to be sparse and dissimilar in many ways..." -# https://en.wikipedia.org/wiki/Curse_of_dimensionality -# -# A classic way to do this is Principal Component Analysis (PCA) ... -# (Principal components analysis) -# -# PCA expects objects in columns, properties in rows. Therefore we need to -# transpose our dataset: - -aaPCA <- prcomp(t(aaData)) - -# This creates an error, because some of our indicews contain NA values! -# Which indices are this? - -# We create a vector "sel" for which we check whether any element in each -# column is NA, and write FALSE if we encounter an NA, TRUE otherwise. We can -# then use this vector to subset ourt dataframe. - -sel <- logical() - -for (i in 1:ncol(aaData)) { # for each index - if (any(is.na(aaData[,i]))) { # if there is any NA value ... - sel <- c(sel, FALSE) # add a FALSE element to the vector - } else { # else - sel <- c(sel, TRUE) # add a TRUE element - } -} - -# Done. sel now subsets only the NA-free columns -545 - sum(sel) # 13 columns excluded - -# Do the PCA ... use the prcomp() function -aaPCA <- prcomp(t(aaData[ ,sel])) # PCA of the transposed, selected data set - -str(aaPCA) # structure of the result - -plot(aaPCA) # plot the contributions of the - # components to the variance - -plot(aaPCA$rotation[ , 1], # plot the first PC against the second PC - aaPCA$rotation[ , 2], # in a scatterplot, in an empty frame - type ="n") # just to set up the coordinate system - -text(aaPCA$rotation[ , 1], # plot the names of the amino acids into - aaPCA$rotation[ , 2], # their respective (PC1, PC2) positions - labels = rownames(aaPCA$rotation)) - -# PCA results are sensitive to the absolute numeric value of the features that -# we are comparing. The prcomp() function has an option scale. = TRUE that -# scales each row of features so that the variance of the value is 1.0 This -# ensures that each feature is given approximately equal weight - -aaPCA <- prcomp(t(aaData[ ,sel]), scale. = TRUE) - -plot(aaPCA) - -plot(aaPCA$rotation[ , 1], - aaPCA$rotation[ , 2], - type ="n") -text(aaPCA$rotation[ , 1], - aaPCA$rotation[ , 2], - labels = rownames(aaPCA$rotation)) - - -# Next we try to identify what the PCs correspond to. We see whether there are -# specific features that are highly correlated with the PCs - -# ==== Rotation 1 =================== -# - -(PC1 <- aaPCA$rotation[ , 1]) # Assign PC1 - -# The function cor() calculates Pearson coefficients of correlation -cor(PC1, aaData[ , 37]) # e.g. correlate PC1 against index 37 - - -# Iterate over all columns and calculate correlations -cors <- numeric() - -for (i in 1:ncol(aaData)) { - cors[i] <- cor(PC1, aaData[ , i]) -} - -summary(cors) -# Min. 1st Qu. Median Mean 3rd Qu. Max. NA's -# -0.54072 -0.13703 0.05654 0.03729 0.21349 0.59589 13 -# -# The max correlation is ~0.6. That is not very high. Which ijndex is it? - -which(cors == max(cors, na.rm = TRUE)) - -aaindex[[504]] # Linker propensity ??? - -cor(PC1, aaindex[[504]]$I) # Did we get the right index? - -# Plot this ... -plot(aaPCA$rotation[ , 1], - aaindex[[504]]$I, - type ="n") -text(aaPCA$rotation[ , 1], - aaindex[[504]]$I, - labels = rownames(aaPCA$rotation)) - -# This is essentially a random correlation but for Cysteine ... - - -# ==== Rotation 2 =================== -# -# same process -PC2 <- aaPCA$rotation[ , 2] - -cors2 <- numeric() - -for (i in 1:ncol(aaData)) { - cors2[i] <- cor(PC2, aaData[ , i]) -} - -summary(cors2) -# Min. 1st Qu. Median Mean 3rd Qu. Max. NA's -# -0.95214 -0.56067 -0.12817 -0.05787 0.43046 0.94346 13 - -# Here we have quite strong correlations - -which(cors2 == max(cors2, na.rm = TRUE)) - -aaindex[[148]] - -# this index itself is correlated with many other indices - -cor(PC2, aaindex[[148]]$I) # confirmn that we have the right index - -# Plot this too... -plot(aaPCA$rotation[ , 2], - aaindex[[148]]$I, - type ="n") -text(aaPCA$rotation[ , 2], - aaindex[[148]]$I, - labels = rownames(aaPCA$rotation)) - -# This correlates well with hydrophobicity measures. In this case the -# PC is to a certain degree interpretable - but this is not always the case -# with PCA (see the example of the first PC). - - - - - - -# [END] +# 2021-10-12_In-Class_exploration.R +# +# ===== T H E E V E N B E T T E R A M I N O A C I D ===== +# +# Code and comments for BCH441 in-class exploration, Tuesday, 2021-10-12 +# Explorers: Jocelyn Nurtanto, Yuzi Li, and Jerry Gu +# Scribe: boris.steipe@utoronto.ca +# +# ============================================================================== +# +# In our last session we explored some properties of amino acids and noted that +# we can arrange them in a scatter-plot according to some properties. But can +# we also arrange them according to generic properties, i.e. taking all +# published property scales into account? We will try to use all tables from +# the seqinr package. + +# First we load the package - this makes all datasets immediately available and +# we don't have to load them one by one. + +library(seqinr) + +# Determine what datasets are available +# +# Using "find in topic" ... "amino acid" +data(aacost) +data(aaindex) +data(pK) + +# We note that datasets may be sorted in different ways: for example +# alphabetically by one letter code (A, C, D, E, ...) or three-letter code (Ala, +# Arg, Asn, Asp, ...) - this means we need to ensure and validate that amino +# acids are sorted in the same way. + +# Build a datastructure ... +# rows: amino acids +# columns: properties + +# Are all lists in aaindex organized in the same way? + +refNames <- names(aaindex[[1]]$I) # Take the rownames of the first list item + # index as a reference list + +# Loop over each list in aaindex +for (i in 1:length(aaindex)) { +# get the I-vector + x <- aaindex[[i]]$I +# get the names + x <- names(x) +# compare with the names of our reference list +# the == and != operators are vectorized. Applying them to two vectors +# gives TRUE or FALSE for each pair of elements. any() or all() can be +# applied to logical vectors to anylise them and return a soingle result. +# if (...) conditions evaluate only a single value and will throw a warning if +# there is more than one. + + if (any(x != refNames)) { + # There was at least one not-equal pair - so: complain + print(sprintf("Problem in list %d: names don't match", i)) + } +} + +# If we get here without identifying problems, it means all pairs of +# rownames match throughout the aainfex list. + + +# Next: what is the cvorrect syntax to add one vector (the "I" vector of +# one of the list elements) to our dataframe? +aaData <- as.data.frame(aaindex[[1]]$I) # Make a dataframe from the first index +aaData[,2] <- aaindex[[2]]$I # ... add the secondf index + +str(aaData) # Confirm: we now have a two-column dataframe + +# Next: add the rest ... +for (i in 3:length(aaindex)) { + # get the I-vector and write it into our dataframe + aaData[,i] <- aaindex[[i]]$I +} + +# Sanity check +plot(aaData[,37], aaData[,544]) # plot two arbitray inices against each other + +# Looks good. + +# We finished building our data structure ... but let's add the aacost table +# aacost is ordered differently: +rownames(aaData) +aacost[ , 1] + +# using order(), applied to aacost - ordering the column with column-name +# "aaa" +sel <- order(aacost[ , "aaa"]) # alphebetic ordering of three-letter codes +aacost[sel, "aaa"] # applying the order vector sorts the column + +# Is this the same order as refNames? +refNames == aacost[sel, "aaa"] # Yes! + +# add the data from column "tot" (i.e. total metabolic cost) after the +# last column of aaData +aaData[ , length(aaindex) + 1] <- aacost[sel, "tot"] + +# Done. +str(aaData) # A dataframe with 20 rows and 545 columns + +# To answer the question "Which amino acids are similar to each other?" we +# need to reduce this 545-dimensional dataset to fewer dimensions, otherwise +# we will succumb to the "Curse of Dimensionality": +# +# "in high dimensional data, however, all objects appear +# to be sparse and dissimilar in many ways..." +# https://en.wikipedia.org/wiki/Curse_of_dimensionality +# +# A classic way to do this is Principal Component Analysis (PCA) ... +# (Principal components analysis) +# +# PCA expects objects in columns, properties in rows. Therefore we need to +# transpose our dataset: + +aaPCA <- prcomp(t(aaData)) + +# This creates an error, because some of our indicews contain NA values! +# Which indices are this? + +# We create a vector "sel" for which we check whether any element in each +# column is NA, and write FALSE if we encounter an NA, TRUE otherwise. We can +# then use this vector to subset ourt dataframe. + +sel <- logical() + +for (i in 1:ncol(aaData)) { # for each index + if (any(is.na(aaData[,i]))) { # if there is any NA value ... + sel <- c(sel, FALSE) # add a FALSE element to the vector + } else { # else + sel <- c(sel, TRUE) # add a TRUE element + } +} + +# Done. sel now subsets only the NA-free columns +545 - sum(sel) # 13 columns excluded + +# Do the PCA ... use the prcomp() function +aaPCA <- prcomp(t(aaData[ ,sel])) # PCA of the transposed, selected data set + +str(aaPCA) # structure of the result + +plot(aaPCA) # plot the contributions of the + # components to the variance + +plot(aaPCA$rotation[ , 1], # plot the first PC against the second PC + aaPCA$rotation[ , 2], # in a scatterplot, in an empty frame + type ="n") # just to set up the coordinate system + +text(aaPCA$rotation[ , 1], # plot the names of the amino acids into + aaPCA$rotation[ , 2], # their respective (PC1, PC2) positions + labels = rownames(aaPCA$rotation)) + +# PCA results are sensitive to the absolute numeric value of the features that +# we are comparing. The prcomp() function has an option scale. = TRUE that +# scales each row of features so that the variance of the value is 1.0 This +# ensures that each feature is given approximately equal weight + +aaPCA <- prcomp(t(aaData[ ,sel]), scale. = TRUE) + +plot(aaPCA) + +plot(aaPCA$rotation[ , 1], + aaPCA$rotation[ , 2], + type ="n") +text(aaPCA$rotation[ , 1], + aaPCA$rotation[ , 2], + labels = rownames(aaPCA$rotation)) + + +# Next we try to identify what the PCs correspond to. We see whether there are +# specific features that are highly correlated with the PCs + +# ==== Rotation 1 =================== +# + +(PC1 <- aaPCA$rotation[ , 1]) # Assign PC1 + +# The function cor() calculates Pearson coefficients of correlation +cor(PC1, aaData[ , 37]) # e.g. correlate PC1 against index 37 + + +# Iterate over all columns and calculate correlations +cors <- numeric() + +for (i in 1:ncol(aaData)) { + cors[i] <- cor(PC1, aaData[ , i]) +} + +summary(cors) +# Min. 1st Qu. Median Mean 3rd Qu. Max. NA's +# -0.54072 -0.13703 0.05654 0.03729 0.21349 0.59589 13 +# +# The max correlation is ~0.6. That is not very high. Which ijndex is it? + +which(cors == max(cors, na.rm = TRUE)) + +aaindex[[504]] # Linker propensity ??? + +cor(PC1, aaindex[[504]]$I) # Did we get the right index? + +# Plot this ... +plot(aaPCA$rotation[ , 1], + aaindex[[504]]$I, + type ="n") +text(aaPCA$rotation[ , 1], + aaindex[[504]]$I, + labels = rownames(aaPCA$rotation)) + +# This is essentially a random correlation but for Cysteine ... + + +# ==== Rotation 2 =================== +# +# same process +PC2 <- aaPCA$rotation[ , 2] + +cors2 <- numeric() + +for (i in 1:ncol(aaData)) { + cors2[i] <- cor(PC2, aaData[ , i]) +} + +summary(cors2) +# Min. 1st Qu. Median Mean 3rd Qu. Max. NA's +# -0.95214 -0.56067 -0.12817 -0.05787 0.43046 0.94346 13 + +# Here we have quite strong correlations + +which(cors2 == max(cors2, na.rm = TRUE)) + +aaindex[[148]] + +# this index itself is correlated with many other indices + +cor(PC2, aaindex[[148]]$I) # confirmn that we have the right index + +# Plot this too... +plot(aaPCA$rotation[ , 2], + aaindex[[148]]$I, + type ="n") +text(aaPCA$rotation[ , 2], + aaindex[[148]]$I, + labels = rownames(aaPCA$rotation)) + +# This correlates well with hydrophobicity measures. In this case the +# PC is to a certain degree interpretable - but this is not always the case +# with PCA (see the example of the first PC). + + + + + + +# [END] diff --git a/ABC-Install_all_packages.R b/ABC-Install_all_packages.R index 091ff13..5230dbc 100644 --- a/ABC-Install_all_packages.R +++ b/ABC-Install_all_packages.R @@ -1,161 +1,161 @@ -# tocID <- "ABC-Install_all_packages.R" -# -# Purpose: A Bioinformatics Course: -# Installing all packages in this course -# -# Version: 1.0 -# -# Date: 2021 10 -# Author: Boris Steipe (boris.steipe@utoronto.ca) -# -# Versions: -# 1.0 New code -# -# -# TODO: -# -# ============================================================================== - - -#TOC> ========================================================================== -#TOC> -#TOC> Section Title Line -#TOC> ---------------------------------------------- -#TOC> 1 Packages 33 -#TOC> 2 CRAN packages 98 -#TOC> 3 Bioconductor packages 127 -#TOC> 4 Other package sources 142 -#TOC> 5 Updating packages 148 -#TOC> -#TOC> ========================================================================== - - -# = 1 Packages ============================================================ - -# Much of R's functionality is contributed in packages: bundles of R scripts -# or code in other languages, pre-configured objects, and datasets. Making this -# functionality available is often done by issuing a library() -# command, however this is not the preferred way, since it may override other -# R functions and it makes it harder to understand where the source code of -# a particular function is located. In this course we call the function name -# prefixed with the package name and two colons: -# ::() -# This is the preferred way, since it is explicit. -# -# Regardless of which idiom one uses to call the actual function, the package -# needs to be "installed" first, i.e. the code must have been downloaded -# from CRAN, or using the BiocManager::install() function. -# -# This script contains download commands for all packages that are used in the -# course. You can execute the script line by line (or even source the entire -# script) to make sure all packages can be installed on your computer. Just -# one reminder: if you are ever asked to install from source, the correct -# answer is usually "no" - except if you really know what you are doing and why. -# -# Once packages are installed you can get additional information about -# the contents of a package with the commands: -# library(help=) # basic information -# browseVignettes("") # available vignettes -# data(package = "") # available datasets -# -# ... and you can load data sets with: -# data(, package = "") -# -# All packages here are installed only when they have not been installed -# before, using the following idiom: -# -# if (! requireNamespace("", quietly=TRUE)) { -# install.packages("") -# } -# -# ... or its BiocManager::install() equivalent: -# -# if (! requireNamespace("", quietly=TRUE)) { -# BiocManager::install("") -# } -# -# If you want to _force_ a re-installation of the package, simply issue -# the install.packages("") command on its own. For compactness -# we wrap the idiom into a function, which can also switch between CRAN -# and BIOconductor sources: - -installIfNeeded <- function(package, s = "CRAN") { - # s: "CRAN" or "BIO" - if (s == "CRAN") { - if (! requireNamespace(package, quietly=TRUE)) { - install.packages(package) - } - } else if (s == "BIO") { - if (! requireNamespace("BiocManager", quietly=TRUE)) { - install.packages("BiocManager") - } - if (! requireNamespace(package, quietly=TRUE)) { - BiocManager::install(package) - } - } else { - stop(sprintf("Unknown source \"%s\".", s)) - } -} - - -# = 2 CRAN packages ======================================================= - -installIfNeeded("ape") -installIfNeeded("BiocManager") -installIfNeeded("bio3d") -installIfNeeded("evd") -installIfNeeded("ggseqlogo") -installIfNeeded("ggtern") -installIfNeeded("hexbin") -installIfNeeded("httr") -installIfNeeded("igraph") -installIfNeeded("jsonlite") -installIfNeeded("magrittr") -installIfNeeded("MASS") -installIfNeeded("microbenchmark") -installIfNeeded("phangorn") -installIfNeeded("plotly") -installIfNeeded("plotrix") -installIfNeeded("profvis") -installIfNeeded("robustbase") -installIfNeeded("RColorBrewer") -installIfNeeded("Rphylip") -installIfNeeded("rvest") -installIfNeeded("seqinr") -installIfNeeded("stringi") -installIfNeeded("taxize") -installIfNeeded("testthat") -installIfNeeded("xml2") - -# = 3 Bioconductor packages =============================================== - -installIfNeeded("Biobase", s = "BIO") -installIfNeeded("biomaRt", s = "BIO") -installIfNeeded("Biostrings", s = "BIO") -installIfNeeded("DECIPHER", s = "BIO") -installIfNeeded("GEOquery", s = "BIO") -installIfNeeded("GOSim", s = "BIO") -installIfNeeded("limma", s = "BIO") -installIfNeeded("msa", s = "BIO") -installIfNeeded("org.Sc.sgd.db", s = "BIO") -installIfNeeded("prada", s = "BIO") -installIfNeeded("topGO", s = "BIO") - - -# = 4 Other package sources =============================================== - -# Using sources other than CRAN or Bioconductor to download general-purpose -# programs that run on your computer is not generally recommended. - - -# = 5 Updating packages =================================================== - -# From time to time, update CRAN packages with the following command ... - -update.packages() - -# ... and also update Bioconductor packages as follows: - -BiocManager::install() - -# [END] +# tocID <- "ABC-Install_all_packages.R" +# +# Purpose: A Bioinformatics Course: +# Installing all packages in this course +# +# Version: 1.0 +# +# Date: 2021 10 +# Author: Boris Steipe (boris.steipe@utoronto.ca) +# +# Versions: +# 1.0 New code +# +# +# TODO: +# +# ============================================================================== + + +#TOC> ========================================================================== +#TOC> +#TOC> Section Title Line +#TOC> ---------------------------------------------- +#TOC> 1 Packages 33 +#TOC> 2 CRAN packages 98 +#TOC> 3 Bioconductor packages 127 +#TOC> 4 Other package sources 142 +#TOC> 5 Updating packages 148 +#TOC> +#TOC> ========================================================================== + + +# = 1 Packages ============================================================ + +# Much of R's functionality is contributed in packages: bundles of R scripts +# or code in other languages, pre-configured objects, and datasets. Making this +# functionality available is often done by issuing a library() +# command, however this is not the preferred way, since it may override other +# R functions and it makes it harder to understand where the source code of +# a particular function is located. In this course we call the function name +# prefixed with the package name and two colons: +# ::() +# This is the preferred way, since it is explicit. +# +# Regardless of which idiom one uses to call the actual function, the package +# needs to be "installed" first, i.e. the code must have been downloaded +# from CRAN, or using the BiocManager::install() function. +# +# This script contains download commands for all packages that are used in the +# course. You can execute the script line by line (or even source the entire +# script) to make sure all packages can be installed on your computer. Just +# one reminder: if you are ever asked to install from source, the correct +# answer is usually "no" - except if you really know what you are doing and why. +# +# Once packages are installed you can get additional information about +# the contents of a package with the commands: +# library(help=) # basic information +# browseVignettes("") # available vignettes +# data(package = "") # available datasets +# +# ... and you can load data sets with: +# data(, package = "") +# +# All packages here are installed only when they have not been installed +# before, using the following idiom: +# +# if (! requireNamespace("", quietly=TRUE)) { +# install.packages("") +# } +# +# ... or its BiocManager::install() equivalent: +# +# if (! requireNamespace("", quietly=TRUE)) { +# BiocManager::install("") +# } +# +# If you want to _force_ a re-installation of the package, simply issue +# the install.packages("") command on its own. For compactness +# we wrap the idiom into a function, which can also switch between CRAN +# and BIOconductor sources: + +installIfNeeded <- function(package, s = "CRAN") { + # s: "CRAN" or "BIO" + if (s == "CRAN") { + if (! requireNamespace(package, quietly=TRUE)) { + install.packages(package) + } + } else if (s == "BIO") { + if (! requireNamespace("BiocManager", quietly=TRUE)) { + install.packages("BiocManager") + } + if (! requireNamespace(package, quietly=TRUE)) { + BiocManager::install(package) + } + } else { + stop(sprintf("Unknown source \"%s\".", s)) + } +} + + +# = 2 CRAN packages ======================================================= + +installIfNeeded("ape") +installIfNeeded("BiocManager") +installIfNeeded("bio3d") +installIfNeeded("evd") +installIfNeeded("ggseqlogo") +installIfNeeded("ggtern") +installIfNeeded("hexbin") +installIfNeeded("httr") +installIfNeeded("igraph") +installIfNeeded("jsonlite") +installIfNeeded("magrittr") +installIfNeeded("MASS") +installIfNeeded("microbenchmark") +installIfNeeded("phangorn") +installIfNeeded("plotly") +installIfNeeded("plotrix") +installIfNeeded("profvis") +installIfNeeded("robustbase") +installIfNeeded("RColorBrewer") +installIfNeeded("Rphylip") +installIfNeeded("rvest") +installIfNeeded("seqinr") +installIfNeeded("stringi") +installIfNeeded("taxize") +installIfNeeded("testthat") +installIfNeeded("xml2") + +# = 3 Bioconductor packages =============================================== + +installIfNeeded("Biobase", s = "BIO") +installIfNeeded("biomaRt", s = "BIO") +installIfNeeded("Biostrings", s = "BIO") +installIfNeeded("DECIPHER", s = "BIO") +installIfNeeded("GEOquery", s = "BIO") +installIfNeeded("GOSim", s = "BIO") +installIfNeeded("limma", s = "BIO") +installIfNeeded("msa", s = "BIO") +installIfNeeded("org.Sc.sgd.db", s = "BIO") +installIfNeeded("prada", s = "BIO") +installIfNeeded("topGO", s = "BIO") + + +# = 4 Other package sources =============================================== + +# Using sources other than CRAN or Bioconductor to download general-purpose +# programs that run on your computer is not generally recommended. + + +# = 5 Updating packages =================================================== + +# From time to time, update CRAN packages with the following command ... + +update.packages() + +# ... and also update Bioconductor packages as follows: + +BiocManager::install() + +# [END] diff --git a/ABC-addSACCE_APSESproteins.R b/ABC-addSACCE_APSESproteins.R index d9675ba..f9dcf1f 100644 --- a/ABC-addSACCE_APSESproteins.R +++ b/ABC-addSACCE_APSESproteins.R @@ -1,100 +1,100 @@ -# addSACCE_APSESproteins.R -# Adds the Saccharomyces cerevisiae APSES proteins to myDB -# - -myDB$protein <- - rbind(myDB$protein, - data.frame( - ID = dbAutoincrement(myDB$protein$ID, ns = "ref"), - name = "SWI4_SACCE", - RefSeqID = "NP_011036", - UniProtID = "P25302", - taxonomy.ID = as.integer(4932), - sequence = dbSanitizeSequence(" - 1 mpfdvlisnq kdntnhqnit pisksvllap hsnhpvieia tysetdvyec yirgfetkiv - 61 mrrtkddwin itqvfkiaqf sktkrtkile kesndmqhek vqggygrfqg twipldsakf - 121 lvnkyeiidp vvnsiltfqf dpnnpppkrs knsilrktsp gtkitspssy nktprkknss - 181 sstsatttaa nkkgkknasi nqpnpsplqn lvfqtpqqfq vnssmnimnn ndnhttmnfn - 241 ndtrhnlinn isnnsnqsti iqqqksihen sfnnnysatq kplqffpipt nlqnknvaln - 301 npnnndsnsy shnidnvins snnnnngnnn nliivpdgpm qsqqqqqhhh eyltnnfnhs - 361 mmdsitngns kkrrkklnqs neqqfynqqe kiqrhfklmk qpllwqsfqn pndhhneycd - 421 sngsnnnnnt vasngssiev fssnendnsm nmssrsmtpf sagntssqnk lenkmtdqey - 481 kqtiltilss erssdvdqal latlypapkn fninfeiddq ghtplhwata maniplikml - 541 itlnanalqc nklgfncitk sifynncyke nafdeiisil kiclitpdvn grlpfhylie - 601 lsvnksknpm iiksymdsii lslgqqdynl lkiclnyqdn igntplhlsa lnlnfevynr - 661 lvylgastdi lnldnespas imnkfntpag gsnsrnnntk adrklarnlp qknyyqqqqq - 721 qqqpqnnvki pkiiktqhpd kedstadvni aktdsevnes qylhsnqpns tnmntimedl - 781 sninsfvtss vikdikstps kilenspily rrrsqsisde kekakdnenq vekkkdplns - 841 vktampsles pssllpiqms plgkyskpls qqinklntkv sslqrimgee iknldnevve - 901 tessisnnkk rlitiahqie dafdsvsnkt pinsisdlqs riketsskln sekqnfiqsl - 961 eksqalklat ivqdeeskvd mntnssshpe kqedeepipk stsetsspkn tkadakfsnt - 1021 vqesydvnet lrlateltil qfkrrmttlk iseakskins svkldkyrnl igitienids - 1081 klddiekdlr ana"), - stringsAsFactors = FALSE)) - -myDB$protein <- - rbind(myDB$protein, - data.frame( - ID = dbAutoincrement(myDB$protein$ID, ns = "ref"), - name = "PHD1_SACCE", - RefSeqID = "NP_012881", - UniProtID = "P36093", - taxonomy.ID = as.integer(4932), - sequence = dbSanitizeSequence(" - 1 myhvpemrlh yplvntqsna aitptrsydn tlpsfnelsh qstinlpfvq retpnayanv - 61 aqlatsptqa ksgyycryya vpfptypqqp qspyqqavlp yatipnsnfq pssfpvmavm - 121 ppevqfdgsf lntlhphtel ppiiqntndt svarpnnlks iaaasptvta ttrtpgvsst - 181 svlkprvitt mwedenticy qveangisvv rradnnming tkllnvtkmt rgrrdgilrs - 241 ekvrevvkig smhlkgvwip ferayilaqr eqildhlypl fvkdiesivd arkpsnkasl - 301 tpksspapik qepsdnkhei ateikpksid alsngastqg agelphlkin hidteaqtsr - 361 aknels"), - stringsAsFactors = FALSE)) - -myDB$protein <- - rbind(myDB$protein, - data.frame( - ID = dbAutoincrement(myDB$protein$ID, ns = "ref"), - name = "SOK2_SACCE", - RefSeqID = "NP_013729", - UniProtID = "P53438", - taxonomy.ID = as.integer(4932), - sequence = dbSanitizeSequence(" - 1 mpignpintn diksnrmrqe snmsavsnse stigqstqqq qqqqqylgqs vqplmpvsyq - 61 yvvpeqwpyp qyyqqpqsqs qqqlqsqpqm yqvqesfqss gsdsnasnpp stsvgvpsna - 121 tatalpngsa ittkksnnst nisnnvpyyy yfpqmqaqqs maysypqayy yypangdgtt - 181 ngatpsvtsn qvqnpnlekt ystfeqqqqh qqqqqlqaqt ypaqppkign afskfsksgp - 241 psdsssgsms pnsnrtsrns nsisslaqqp pmsnypqpst yqypgfhkts sipnshspip - 301 prslttptqg ptsqngplsy nlpqvgllpp qqqqqvsply dgnsitppvk pstdqetylt - 361 anrhgvsdqq ydsmaktmns fqtttirhpm pliattnatg sntsgtsasi irprvtttmw - 421 edektlcyqv eangisvvrr adndmvngtk llnvtkmtrg rrdgilkaek irhvvkigsm - 481 hlkgvwipfe ralaiaqrek iadylyplfi rdiqsvlkqn npsndsssss sstgiksisp - 541 rtyyqpinny qnpngpsnis aaqltyssmn lnnkiipnns ipavstiaag ekplkkctmp - 601 nsnqleghti tnlqtlsatm pmkqqlmgni asplsyprna tmnsastlgi tpadskpltp - 661 sptttntnqs sesnvgsiht gitlprvese sashskwske adsgntvpdn qtlkeprssq - 721 lpisaltstd tdkiktstsd eatqpnepse aepvkesess ksqvdgagdv sneeiaaddt - 781 kkqek"), - stringsAsFactors = FALSE)) - -myDB$protein <- - rbind(myDB$protein, - data.frame( - ID = dbAutoincrement(myDB$protein$ID, ns = "ref"), - name = "XBP1_SACCE", - RefSeqID = "NP_012165", - UniProtID = "P40489", - taxonomy.ID = as.integer(4932), - sequence = dbSanitizeSequence(" - 1 mkypafsins dtvhltdnpl ddyqrlylvs vldrdsppas fsaglnirkv nykssiaaqf - 61 thpnfiisar dagngeeaaa qnvlncfeyq fpnlqtiqsl vheqtllsql assatphsal - 121 hlhdknilmg kiilpsrsnk tpvsasptkq ekkalstasr enatssltkn qqfkltkmdh - 181 nlindklinp nncviwshds gyvfmtgiwr lyqdvmkgli nlprgdsvst sqqqffckae - 241 fekilsfcfy nhssftsees ssvllsssts sppkrrtstg stfldanass sstsstqann - 301 yidfhwnnik pelrdlicqs ykdflinelg pdqidlpnln panftkrirg gyikiqgtwl - 361 pmeisrllcl rfcfpiryfl vpifgpdfpk dceswylahq nvtfassttg agaataataa - 421 antstnftst avarprqkpr prprqrstsm shskaqklvi edalpsfdsf venlglssnd - 481 knfikknskr qksstytsqt sspigprdpt vqilsnlasf ynthghrysy pgniyipqqr - 541 yslpppnqls spqrqlnyty dhihpvpsqy qsprhynvps spiapapptf pqpygddhyh - 601 flkyasevyk qqnqrpahnt ntnmdtsfsp rannslnnfk fktnskq"), - stringsAsFactors = FALSE)) - -# [END] +# addSACCE_APSESproteins.R +# Adds the Saccharomyces cerevisiae APSES proteins to myDB +# + +myDB$protein <- + rbind(myDB$protein, + data.frame( + ID = dbAutoincrement(myDB$protein$ID, ns = "ref"), + name = "SWI4_SACCE", + RefSeqID = "NP_011036", + UniProtID = "P25302", + taxonomy.ID = as.integer(4932), + sequence = dbSanitizeSequence(" + 1 mpfdvlisnq kdntnhqnit pisksvllap hsnhpvieia tysetdvyec yirgfetkiv + 61 mrrtkddwin itqvfkiaqf sktkrtkile kesndmqhek vqggygrfqg twipldsakf + 121 lvnkyeiidp vvnsiltfqf dpnnpppkrs knsilrktsp gtkitspssy nktprkknss + 181 sstsatttaa nkkgkknasi nqpnpsplqn lvfqtpqqfq vnssmnimnn ndnhttmnfn + 241 ndtrhnlinn isnnsnqsti iqqqksihen sfnnnysatq kplqffpipt nlqnknvaln + 301 npnnndsnsy shnidnvins snnnnngnnn nliivpdgpm qsqqqqqhhh eyltnnfnhs + 361 mmdsitngns kkrrkklnqs neqqfynqqe kiqrhfklmk qpllwqsfqn pndhhneycd + 421 sngsnnnnnt vasngssiev fssnendnsm nmssrsmtpf sagntssqnk lenkmtdqey + 481 kqtiltilss erssdvdqal latlypapkn fninfeiddq ghtplhwata maniplikml + 541 itlnanalqc nklgfncitk sifynncyke nafdeiisil kiclitpdvn grlpfhylie + 601 lsvnksknpm iiksymdsii lslgqqdynl lkiclnyqdn igntplhlsa lnlnfevynr + 661 lvylgastdi lnldnespas imnkfntpag gsnsrnnntk adrklarnlp qknyyqqqqq + 721 qqqpqnnvki pkiiktqhpd kedstadvni aktdsevnes qylhsnqpns tnmntimedl + 781 sninsfvtss vikdikstps kilenspily rrrsqsisde kekakdnenq vekkkdplns + 841 vktampsles pssllpiqms plgkyskpls qqinklntkv sslqrimgee iknldnevve + 901 tessisnnkk rlitiahqie dafdsvsnkt pinsisdlqs riketsskln sekqnfiqsl + 961 eksqalklat ivqdeeskvd mntnssshpe kqedeepipk stsetsspkn tkadakfsnt + 1021 vqesydvnet lrlateltil qfkrrmttlk iseakskins svkldkyrnl igitienids + 1081 klddiekdlr ana"), + stringsAsFactors = FALSE)) + +myDB$protein <- + rbind(myDB$protein, + data.frame( + ID = dbAutoincrement(myDB$protein$ID, ns = "ref"), + name = "PHD1_SACCE", + RefSeqID = "NP_012881", + UniProtID = "P36093", + taxonomy.ID = as.integer(4932), + sequence = dbSanitizeSequence(" + 1 myhvpemrlh yplvntqsna aitptrsydn tlpsfnelsh qstinlpfvq retpnayanv + 61 aqlatsptqa ksgyycryya vpfptypqqp qspyqqavlp yatipnsnfq pssfpvmavm + 121 ppevqfdgsf lntlhphtel ppiiqntndt svarpnnlks iaaasptvta ttrtpgvsst + 181 svlkprvitt mwedenticy qveangisvv rradnnming tkllnvtkmt rgrrdgilrs + 241 ekvrevvkig smhlkgvwip ferayilaqr eqildhlypl fvkdiesivd arkpsnkasl + 301 tpksspapik qepsdnkhei ateikpksid alsngastqg agelphlkin hidteaqtsr + 361 aknels"), + stringsAsFactors = FALSE)) + +myDB$protein <- + rbind(myDB$protein, + data.frame( + ID = dbAutoincrement(myDB$protein$ID, ns = "ref"), + name = "SOK2_SACCE", + RefSeqID = "NP_013729", + UniProtID = "P53438", + taxonomy.ID = as.integer(4932), + sequence = dbSanitizeSequence(" + 1 mpignpintn diksnrmrqe snmsavsnse stigqstqqq qqqqqylgqs vqplmpvsyq + 61 yvvpeqwpyp qyyqqpqsqs qqqlqsqpqm yqvqesfqss gsdsnasnpp stsvgvpsna + 121 tatalpngsa ittkksnnst nisnnvpyyy yfpqmqaqqs maysypqayy yypangdgtt + 181 ngatpsvtsn qvqnpnlekt ystfeqqqqh qqqqqlqaqt ypaqppkign afskfsksgp + 241 psdsssgsms pnsnrtsrns nsisslaqqp pmsnypqpst yqypgfhkts sipnshspip + 301 prslttptqg ptsqngplsy nlpqvgllpp qqqqqvsply dgnsitppvk pstdqetylt + 361 anrhgvsdqq ydsmaktmns fqtttirhpm pliattnatg sntsgtsasi irprvtttmw + 421 edektlcyqv eangisvvrr adndmvngtk llnvtkmtrg rrdgilkaek irhvvkigsm + 481 hlkgvwipfe ralaiaqrek iadylyplfi rdiqsvlkqn npsndsssss sstgiksisp + 541 rtyyqpinny qnpngpsnis aaqltyssmn lnnkiipnns ipavstiaag ekplkkctmp + 601 nsnqleghti tnlqtlsatm pmkqqlmgni asplsyprna tmnsastlgi tpadskpltp + 661 sptttntnqs sesnvgsiht gitlprvese sashskwske adsgntvpdn qtlkeprssq + 721 lpisaltstd tdkiktstsd eatqpnepse aepvkesess ksqvdgagdv sneeiaaddt + 781 kkqek"), + stringsAsFactors = FALSE)) + +myDB$protein <- + rbind(myDB$protein, + data.frame( + ID = dbAutoincrement(myDB$protein$ID, ns = "ref"), + name = "XBP1_SACCE", + RefSeqID = "NP_012165", + UniProtID = "P40489", + taxonomy.ID = as.integer(4932), + sequence = dbSanitizeSequence(" + 1 mkypafsins dtvhltdnpl ddyqrlylvs vldrdsppas fsaglnirkv nykssiaaqf + 61 thpnfiisar dagngeeaaa qnvlncfeyq fpnlqtiqsl vheqtllsql assatphsal + 121 hlhdknilmg kiilpsrsnk tpvsasptkq ekkalstasr enatssltkn qqfkltkmdh + 181 nlindklinp nncviwshds gyvfmtgiwr lyqdvmkgli nlprgdsvst sqqqffckae + 241 fekilsfcfy nhssftsees ssvllsssts sppkrrtstg stfldanass sstsstqann + 301 yidfhwnnik pelrdlicqs ykdflinelg pdqidlpnln panftkrirg gyikiqgtwl + 361 pmeisrllcl rfcfpiryfl vpifgpdfpk dceswylahq nvtfassttg agaataataa + 421 antstnftst avarprqkpr prprqrstsm shskaqklvi edalpsfdsf venlglssnd + 481 knfikknskr qksstytsqt sspigprdpt vqilsnlasf ynthghrysy pgniyipqqr + 541 yslpppnqls spqrqlnyty dhihpvpsqy qsprhynvps spiapapptf pqpygddhyh + 601 flkyasevyk qqnqrpahnt ntnmdtsfsp rannslnnfk fktnskq"), + stringsAsFactors = FALSE)) + +# [END] diff --git a/ABC-units.R b/ABC-units.R index e5af3ad..9b186f6 100644 --- a/ABC-units.R +++ b/ABC-units.R @@ -1,69 +1,69 @@ -# ABC-units.R -# -# Purpose: A Bioinformatics Course: R code for learning units -# -# Version: 4.0 -# -# Date: 2020 09 16 -# Author: Boris Steipe (boris.steipe@utoronto.ca) -# -# Versions: -# V 4.0 2020 version -# V 3.0 2019 version -# V 2.0 2018 version -# V 1.0 2017 version -# V 0.1 First code -# -# TODO: -# -# -# == HOW TO WORK WITH LEARNING UNIT FILES ====================================== -# -# The R-scripts and datasets in this project will be continuously updated, -# and updates will be posted on GitHub. To bring your version into the latest -# state use the Git-pane (top left) and "pull" (blue downward arrow) from the -# repository. However, this will overwrite locally edited version of files. - -# To edit code and experiment with it, for example to add your own comments and -# examples, save your edited version into the "myScripts" folder. Otherwise you -# may have problems with git when you update the project to a new version. It's -# good practice to change the filename, for example by prepending your initials. -# This helps distinguish the files you are working with e.g. in a list of -# recent files. For example if your name is Honjo Tasuku, your edited -# BIN-Sequence.R might be named HT-BIN-Sequence.R - -# If you pull from github and get the following type of error ... -# --------------- -# error: Your local changes to the following files would be -# overwritten by merge -# ... -# Please commit your changes or stash them before you can merge. -# --------------- -# ... then, you need to bring the offending file into its original state. -# Open the Commit window, select the file, and click on the Revert button. -# -# When working with these script DO NOT SIMPLY source() THESE FILES! - -# If there are portions you don't understand, use R's help system, Google for an -# answer, or ask your instructor. Don't continue if you don't understand what's -# going on. That's not how it works ... -# -# -# ============================================================================== - -# Once you have typed and executed the function init(), you will find a file -# called myScript.R in the project directory. -# -# Open it, you can place all of your code-experiments and notes into that -# file. This will complement your "Course Journal". If you keep all contents in -# this one file, you can find everything by using the -F find function. To -# cross-reference code in your journal, create section headings. -# -# ============================================================================== - -# The individual learning units' files can be opened by simply clicking on them -# in the File pane. - - - -# [END] +# ABC-units.R +# +# Purpose: A Bioinformatics Course: R code for learning units +# +# Version: 4.0 +# +# Date: 2020 09 16 +# Author: Boris Steipe (boris.steipe@utoronto.ca) +# +# Versions: +# V 4.0 2020 version +# V 3.0 2019 version +# V 2.0 2018 version +# V 1.0 2017 version +# V 0.1 First code +# +# TODO: +# +# +# == HOW TO WORK WITH LEARNING UNIT FILES ====================================== +# +# The R-scripts and datasets in this project will be continuously updated, +# and updates will be posted on GitHub. To bring your version into the latest +# state use the Git-pane (top left) and "pull" (blue downward arrow) from the +# repository. However, this will overwrite locally edited version of files. + +# To edit code and experiment with it, for example to add your own comments and +# examples, save your edited version into the "myScripts" folder. Otherwise you +# may have problems with git when you update the project to a new version. It's +# good practice to change the filename, for example by prepending your initials. +# This helps distinguish the files you are working with e.g. in a list of +# recent files. For example if your name is Honjo Tasuku, your edited +# BIN-Sequence.R might be named HT-BIN-Sequence.R + +# If you pull from github and get the following type of error ... +# --------------- +# error: Your local changes to the following files would be +# overwritten by merge +# ... +# Please commit your changes or stash them before you can merge. +# --------------- +# ... then, you need to bring the offending file into its original state. +# Open the Commit window, select the file, and click on the Revert button. +# +# When working with these script DO NOT SIMPLY source() THESE FILES! + +# If there are portions you don't understand, use R's help system, Google for an +# answer, or ask your instructor. Don't continue if you don't understand what's +# going on. That's not how it works ... +# +# +# ============================================================================== + +# Once you have typed and executed the function init(), you will find a file +# called myScript.R in the project directory. +# +# Open it, you can place all of your code-experiments and notes into that +# file. This will complement your "Course Journal". If you keep all contents in +# this one file, you can find everything by using the -F find function. To +# cross-reference code in your journal, create section headings. +# +# ============================================================================== + +# The individual learning units' files can be opened by simply clicking on them +# in the File pane. + + + +# [END] diff --git a/ABC-units.Rproj b/ABC-units.Rproj index 0fbb9ec..9f01719 100644 --- a/ABC-units.Rproj +++ b/ABC-units.Rproj @@ -1,16 +1,16 @@ -Version: 1.0 - -RestoreWorkspace: No -SaveWorkspace: No -AlwaysSaveHistory: No - -EnableCodeIndexing: Yes -UseSpacesForTab: Yes -NumSpacesForTab: 2 -Encoding: UTF-8 - -RnwWeave: knitr -LaTeX: XeLaTeX - -AutoAppendNewline: Yes -StripTrailingWhitespace: Yes +Version: 1.0 + +RestoreWorkspace: No +SaveWorkspace: No +AlwaysSaveHistory: No + +EnableCodeIndexing: Yes +UseSpacesForTab: Yes +NumSpacesForTab: 2 +Encoding: UTF-8 + +RnwWeave: knitr +LaTeX: XeLaTeX + +AutoAppendNewline: Yes +StripTrailingWhitespace: Yes diff --git a/BIN-ALI-BLAST.R b/BIN-ALI-BLAST.R index d7014ac..451f511 100644 --- a/BIN-ALI-BLAST.R +++ b/BIN-ALI-BLAST.R @@ -1,111 +1,111 @@ -# tocID <- "BIN-ALI-BLAST.R" -# -# Purpose: A Bioinformatics Course: -# R code accompanying the BIN-ALI-BLAST unit. -# -# ============================================================================== -# -# Version: 1.3 -# -# Date: 2017-10 - 2020-09 -# Author: Boris Steipe (boris.steipe@utoronto.ca) -# -# Versions: -# 1.3 2020 Maintenance -# 1.2 Change from require() to requireNamespace(), -# use ::() idiom throughout -# 1.1 Fixed parsing logic. -# 1.0 First live version 2017. -# 0.1 First code copied from 2016 material. -# -# -# TODO: -# -# -# == DO NOT SIMPLY source() THIS FILE! ======================================= -# -# If there are portions you don't understand, use R's help system, Google for an -# answer, or ask your instructor. Don't continue if you don't understand what's -# going on. That's not how it works ... -# -# ============================================================================== - - -#TOC> ========================================================================== -#TOC> -#TOC> Section Title Line -#TOC> --------------------------------------------------- -#TOC> 1 Defining the APSES domain 45 -#TOC> 2 Executing the BLAST search 75 -#TOC> 3 Analysing results 97 -#TOC> -#TOC> ========================================================================== - - -# = 1 Defining the APSES domain =========================================== - -# Load your protein database -source("makeProteinDB.R") - -# Get the APSES domain sequence via your MBP1_MYSPE feature annotation. (You -# have entered this data into your database in the -# BIN-ALI-Optimal_sequence_alignment unit.) - -( myOrth <- sprintf("MBP1_%s", biCode(MYSPE)) ) # If this is not the correct - # name of the Mbp1 orthologue - # of Mbp1 in your protein - # database, DON'T continue. We - # need to fix this problem. - # Get in touch. - -(proID <- myDB$protein$ID[myDB$protein$name == myOrth]) -(ftrID <- myDB$feature$ID[myDB$feature$name == "APSES fold"]) -(fanID <- myDB$annotation$ID[myDB$annotation$proteinID == proID & - myDB$annotation$featureID == ftrID]) -(start <- myDB$annotation$start[myDB$annotation$ID == fanID]) -(end <- myDB$annotation$end[myDB$annotation$ID == fanID]) -(apses <- substr(myDB$protein$sequence[myDB$protein$ID == proID], - start, - end)) - -# The MYSPE "apses" sequence is the sequence that we will use for our reverse -# BLAST search. - - -# = 2 Executing the BLAST search ========================================== - -# The ./scripts/BLAST.R code defines two functions to access the BLAST interface -# through its Web API, and to parse results. Have a look at the script, then -# source it: - -source("./scripts/BLAST.R") - -# Use BLAST() to find the best match to the MYSPE APSES domain in Saccharomyces -# cerevisiae: - -BLASTresults <- BLAST(apses, # MYSPE APSES domain sequence - db = "refseq_protein", # database to search in - nHits = 10, # - E = 0.01, # - limits = "txid559292[ORGN]") # S. cerevisiae S288c - - -length(BLASTresults$hits) # There should be at least one hit there. Ask for - # advice in case this step fails. - - -# = 3 Analysing results =================================================== - -(topHit <- BLASTresults$hits[[1]]) # Get the top hit - -# What is the refseq ID of the top hit -topHit$accession - -# If this is "NP_010227.1" you have confirmed the RBM of the MYSPE apses -# domain. If it is not, ask me for advice. - - - - - -# [END] +# tocID <- "BIN-ALI-BLAST.R" +# +# Purpose: A Bioinformatics Course: +# R code accompanying the BIN-ALI-BLAST unit. +# +# ============================================================================== +# +# Version: 1.3 +# +# Date: 2017-10 - 2020-09 +# Author: Boris Steipe (boris.steipe@utoronto.ca) +# +# Versions: +# 1.3 2020 Maintenance +# 1.2 Change from require() to requireNamespace(), +# use ::() idiom throughout +# 1.1 Fixed parsing logic. +# 1.0 First live version 2017. +# 0.1 First code copied from 2016 material. +# +# +# TODO: +# +# +# == DO NOT SIMPLY source() THIS FILE! ======================================= +# +# If there are portions you don't understand, use R's help system, Google for an +# answer, or ask your instructor. Don't continue if you don't understand what's +# going on. That's not how it works ... +# +# ============================================================================== + + +#TOC> ========================================================================== +#TOC> +#TOC> Section Title Line +#TOC> --------------------------------------------------- +#TOC> 1 Defining the APSES domain 45 +#TOC> 2 Executing the BLAST search 75 +#TOC> 3 Analysing results 97 +#TOC> +#TOC> ========================================================================== + + +# = 1 Defining the APSES domain =========================================== + +# Load your protein database +source("makeProteinDB.R") + +# Get the APSES domain sequence via your MBP1_MYSPE feature annotation. (You +# have entered this data into your database in the +# BIN-ALI-Optimal_sequence_alignment unit.) + +( myOrth <- sprintf("MBP1_%s", biCode(MYSPE)) ) # If this is not the correct + # name of the Mbp1 orthologue + # of Mbp1 in your protein + # database, DON'T continue. We + # need to fix this problem. + # Get in touch. + +(proID <- myDB$protein$ID[myDB$protein$name == myOrth]) +(ftrID <- myDB$feature$ID[myDB$feature$name == "APSES fold"]) +(fanID <- myDB$annotation$ID[myDB$annotation$proteinID == proID & + myDB$annotation$featureID == ftrID]) +(start <- myDB$annotation$start[myDB$annotation$ID == fanID]) +(end <- myDB$annotation$end[myDB$annotation$ID == fanID]) +(apses <- substr(myDB$protein$sequence[myDB$protein$ID == proID], + start, + end)) + +# The MYSPE "apses" sequence is the sequence that we will use for our reverse +# BLAST search. + + +# = 2 Executing the BLAST search ========================================== + +# The ./scripts/BLAST.R code defines two functions to access the BLAST interface +# through its Web API, and to parse results. Have a look at the script, then +# source it: + +source("./scripts/BLAST.R") + +# Use BLAST() to find the best match to the MYSPE APSES domain in Saccharomyces +# cerevisiae: + +BLASTresults <- BLAST(apses, # MYSPE APSES domain sequence + db = "refseq_protein", # database to search in + nHits = 10, # + E = 0.01, # + limits = "txid559292[ORGN]") # S. cerevisiae S288c + + +length(BLASTresults$hits) # There should be at least one hit there. Ask for + # advice in case this step fails. + + +# = 3 Analysing results =================================================== + +(topHit <- BLASTresults$hits[[1]]) # Get the top hit + +# What is the refseq ID of the top hit +topHit$accession + +# If this is "NP_010227.1" you have confirmed the RBM of the MYSPE apses +# domain. If it is not, ask me for advice. + + + + + +# [END] diff --git a/BIN-ALI-Dotplot.R b/BIN-ALI-Dotplot.R index e7834ac..e57aac6 100644 --- a/BIN-ALI-Dotplot.R +++ b/BIN-ALI-Dotplot.R @@ -1,195 +1,195 @@ -# tocID <- "BIN-ALI-Dotplot.R" -# -# -# ============================================================================== -# -# Purpose: A Bioinformatics Course: -# R code accompanying the BIN-ALI-Dotplot unit. -# -# Version: 0.2 -# -# Date: 2019 01 07 -# Author: Boris Steipe (boris.steipe@utoronto.ca) -# -# Versions: -# 0.2 Change from require() to requireNamespace(), -# use ::() idiom throughout -# 0.1 First code copied from 2016 material. -# -# -# TODO: -# -# -# == DO NOT SIMPLY source() THIS FILE! ======================================= -# -# If there are portions you don't understand, use R's help system, Google for an -# answer, or ask your instructor. Don't continue if you don't understand what's -# going on. That's not how it works ... -# -# ============================================================================== - - -#TOC> ========================================================================== -#TOC> -#TOC> Section Title Line -#TOC> -------------------------------------- -#TOC> 1 ___Section___ 42 -#TOC> 2 Tasks 190 -#TOC> -#TOC> ========================================================================== - - -# = 1 ___Section___ ======================================================= - -if (!requireNamespace("BiocManager", quietly=TRUE)) { - install.packages("BiocManager") -} -if (!requireNamespace("Biostrings", quietly=TRUE)) { - BiocManager::install("Biostrings") -} -# Package information: -# library(help = Biostrings) # basic information -# browseVignettes("Biostrings") # available vignettes -# data(package = "Biostrings") # available datasets - -if (!requireNamespace("seqinr", quietly=TRUE)) { - install.packages("seqinr") -} - - -# Let's load BLOSUM62 -data(BLOSUM62, package = "Biostrings") - -# Now let's craft code for a dotplot. That's surprisingly simple. We build a -# matrix that has as many rows as one sequence, as many columns as another. Then -# we go through every cell of the matrix and enter the pairscore we encounter -# for the amino acid pair whose position corresponds to the row and column -# index. Finally we visualize the matrix in a plot. -# - -# First we fetch our sequences and split them into single characters. -sel <- myDB$protein$name == "MBP1_SACCE" -MBP1_SACCE <- seqinr::s2c(myDB$protein$sequence[sel]) - -sel <- myDB$protein$name == paste("MBP1_", biCode(MYSPE), sep = "") -MBP1_MYSPE <- seqinr::s2c(myDB$protein$sequence[sel]) - -# Check that we have two character vectors of the expected length. -str(MBP1_SACCE) -str(MBP1_MYSPE) - -# How do we get the pairscore values? Consider: a single pair of amino acids can -# be obtained from sequence SACCE and MYSPE eg. from position 13 and 21 ... -MBP1_SACCE[13] -MBP1_MYSPE[21] - -# ... using these as subsetting expressions, we can pull the pairscore -# from the MDM -BLOSUM62[MBP1_SACCE[13], MBP1_MYSPE[21]] - -# First we build an empty matrix that will hold all pairscores ... -dotMat <- matrix(numeric(length(MBP1_SACCE) * length(MBP1_MYSPE)), - nrow = length(MBP1_SACCE), ncol = length(MBP1_MYSPE)) - -# ... then we loop over the sequences and store the scores in the matrix. -# -for (i in 1:length(MBP1_SACCE)) { - for (j in 1:length(MBP1_MYSPE)) { - dotMat[i, j] <- BLOSUM62[MBP1_SACCE[i], MBP1_MYSPE[j]] - } -} - -# Even though this is a large matrix, this does not take much time ... -# Let's have a look at a small block of the values: - -dotMat[1:10, 1:10] - -# Rows in this matrix correspond to an amino acid from MBP1_SACCE, columns in -# the matrix correspond to an amino acid from MBP1_MYSPE. - -# To plot this, we use the image() function. Here, with default parameters. - -image(dotMat) - -# Be patient, this takes a few moments to render: more than 500,000 values. -# Nice. -# What do you expect? -# What would similar sequences look like? -# What do you see? - -#You migh notice a thin line of yellow along the diagonal, moving approximately -# from bottom left to top right, fading in and out of existence. This is the -# signature of extended sequence similarity. - -# Let's magnify this a bit by looking at only the first 200 amino acids ... -image(dotMat[1:200, 1:200]) - -# ... and, according to our normal writing convention, we would like the -# diagonal to run from top-left to bottom-right since we write from left to -# right and from top to bottom... -image(dotMat[1:200, 1:200], ylim = 1.0:0.0) - -# ... and we would like the range of the x- and y- axis to correspond to the -# sequence position ... -image(x = 1:200, y = 1:200, dotMat[1:200, 1:200], ylim=c(200,1)) - -# ... and labels! Axis labels would be nice ... -image(x = 1:200, y = 1:200, dotMat[1:200, 1:200], ylim=c(200,1), - xlab = "MBP1_MYSPE", ylab = "MBP1_SACCE" ) - -# ... and why don't we have axis-numbers on all four sides? Go, make that right -# too ... -len <- 200 -image(x = 1:len, y = 1:len, dotMat[1:len, 1:len], ylim=c(len,1), - xlab = "MBP1_MYSPE", ylab = "MBP1_SACCE", axes = FALSE) -box() -axis(1, at = c(1, seq(10, len, by=10))) -axis(2, at = c(1, seq(10, len, by=10))) -axis(3, at = c(1, seq(10, len, by=10))) -axis(4, at = c(1, seq(10, len, by=10))) - -# ... you get the idea, we can infinitely customize our plot. However a good way -# to do this is to develop a particular view for, say, a report or publication -# in a script and then put it into a function. I have put a function into the -# utilities file and called it dotPlot2(). Why not dotPlot() ... that's because -# there already is a dotplot function in the seqinr package: - -seqinr::dotPlot(MBP1_SACCE, MBP1_MYSPE) # seqinr -dotPlot2(MBP1_SACCE, MBP1_MYSPE, xlab = "SACCE", ylab = "MYSPE") # Our's - -# Which one do you prefer? You can probably see the block patterns that arise -# from segments of repetitive, low complexity sequence. But you probably have to -# look very closely to discern the faint diagonals that correspond to similar -# sequence. - - -# Let's see if we can enhance the contrast between distributed noise and the -# actual alignment of conserved residues. We can filter the dot matrix with a -# pattern that enhances diagonally repeated values. Every value in the matrix -# will be replaced by a weighted average of its neighborhood. Here is a -# diagonal-filter: - -myFilter <- matrix(numeric(25), nrow = 5) -myFilter[1, ] <- c( 1, 0, 0, 0, 0) -myFilter[2, ] <- c( 0, 1, 0, 0, 0) -myFilter[3, ] <- c( 0, 0, 1, 0, 0) -myFilter[4, ] <- c( 0, 0, 0, 1, 0) -myFilter[5, ] <- c( 0, 0, 0, 0, 1) - -# I have added the option to read such filters (or others that you could define on your own) as a parameter of the function. - -dotPlot2(MBP1_SACCE, MBP1_MYSPE, xlab = "SACCE", ylab = "MYSPE", f = myFilter) - -# I think the result shows quite nicely how the two sequences are globally -# related and where the regions of sequence similarity are. Play with this a bit -# ... Can you come up with a better filter? If so, eMail us. - - - - -# = 2 Tasks =============================================================== - - - - -# [END] +# tocID <- "BIN-ALI-Dotplot.R" +# +# +# ============================================================================== +# +# Purpose: A Bioinformatics Course: +# R code accompanying the BIN-ALI-Dotplot unit. +# +# Version: 0.2 +# +# Date: 2019 01 07 +# Author: Boris Steipe (boris.steipe@utoronto.ca) +# +# Versions: +# 0.2 Change from require() to requireNamespace(), +# use ::() idiom throughout +# 0.1 First code copied from 2016 material. +# +# +# TODO: +# +# +# == DO NOT SIMPLY source() THIS FILE! ======================================= +# +# If there are portions you don't understand, use R's help system, Google for an +# answer, or ask your instructor. Don't continue if you don't understand what's +# going on. That's not how it works ... +# +# ============================================================================== + + +#TOC> ========================================================================== +#TOC> +#TOC> Section Title Line +#TOC> -------------------------------------- +#TOC> 1 ___Section___ 42 +#TOC> 2 Tasks 190 +#TOC> +#TOC> ========================================================================== + + +# = 1 ___Section___ ======================================================= + +if (!requireNamespace("BiocManager", quietly=TRUE)) { + install.packages("BiocManager") +} +if (!requireNamespace("Biostrings", quietly=TRUE)) { + BiocManager::install("Biostrings") +} +# Package information: +# library(help = Biostrings) # basic information +# browseVignettes("Biostrings") # available vignettes +# data(package = "Biostrings") # available datasets + +if (!requireNamespace("seqinr", quietly=TRUE)) { + install.packages("seqinr") +} + + +# Let's load BLOSUM62 +data(BLOSUM62, package = "Biostrings") + +# Now let's craft code for a dotplot. That's surprisingly simple. We build a +# matrix that has as many rows as one sequence, as many columns as another. Then +# we go through every cell of the matrix and enter the pairscore we encounter +# for the amino acid pair whose position corresponds to the row and column +# index. Finally we visualize the matrix in a plot. +# + +# First we fetch our sequences and split them into single characters. +sel <- myDB$protein$name == "MBP1_SACCE" +MBP1_SACCE <- seqinr::s2c(myDB$protein$sequence[sel]) + +sel <- myDB$protein$name == paste("MBP1_", biCode(MYSPE), sep = "") +MBP1_MYSPE <- seqinr::s2c(myDB$protein$sequence[sel]) + +# Check that we have two character vectors of the expected length. +str(MBP1_SACCE) +str(MBP1_MYSPE) + +# How do we get the pairscore values? Consider: a single pair of amino acids can +# be obtained from sequence SACCE and MYSPE eg. from position 13 and 21 ... +MBP1_SACCE[13] +MBP1_MYSPE[21] + +# ... using these as subsetting expressions, we can pull the pairscore +# from the MDM +BLOSUM62[MBP1_SACCE[13], MBP1_MYSPE[21]] + +# First we build an empty matrix that will hold all pairscores ... +dotMat <- matrix(numeric(length(MBP1_SACCE) * length(MBP1_MYSPE)), + nrow = length(MBP1_SACCE), ncol = length(MBP1_MYSPE)) + +# ... then we loop over the sequences and store the scores in the matrix. +# +for (i in 1:length(MBP1_SACCE)) { + for (j in 1:length(MBP1_MYSPE)) { + dotMat[i, j] <- BLOSUM62[MBP1_SACCE[i], MBP1_MYSPE[j]] + } +} + +# Even though this is a large matrix, this does not take much time ... +# Let's have a look at a small block of the values: + +dotMat[1:10, 1:10] + +# Rows in this matrix correspond to an amino acid from MBP1_SACCE, columns in +# the matrix correspond to an amino acid from MBP1_MYSPE. + +# To plot this, we use the image() function. Here, with default parameters. + +image(dotMat) + +# Be patient, this takes a few moments to render: more than 500,000 values. +# Nice. +# What do you expect? +# What would similar sequences look like? +# What do you see? + +#You migh notice a thin line of yellow along the diagonal, moving approximately +# from bottom left to top right, fading in and out of existence. This is the +# signature of extended sequence similarity. + +# Let's magnify this a bit by looking at only the first 200 amino acids ... +image(dotMat[1:200, 1:200]) + +# ... and, according to our normal writing convention, we would like the +# diagonal to run from top-left to bottom-right since we write from left to +# right and from top to bottom... +image(dotMat[1:200, 1:200], ylim = 1.0:0.0) + +# ... and we would like the range of the x- and y- axis to correspond to the +# sequence position ... +image(x = 1:200, y = 1:200, dotMat[1:200, 1:200], ylim=c(200,1)) + +# ... and labels! Axis labels would be nice ... +image(x = 1:200, y = 1:200, dotMat[1:200, 1:200], ylim=c(200,1), + xlab = "MBP1_MYSPE", ylab = "MBP1_SACCE" ) + +# ... and why don't we have axis-numbers on all four sides? Go, make that right +# too ... +len <- 200 +image(x = 1:len, y = 1:len, dotMat[1:len, 1:len], ylim=c(len,1), + xlab = "MBP1_MYSPE", ylab = "MBP1_SACCE", axes = FALSE) +box() +axis(1, at = c(1, seq(10, len, by=10))) +axis(2, at = c(1, seq(10, len, by=10))) +axis(3, at = c(1, seq(10, len, by=10))) +axis(4, at = c(1, seq(10, len, by=10))) + +# ... you get the idea, we can infinitely customize our plot. However a good way +# to do this is to develop a particular view for, say, a report or publication +# in a script and then put it into a function. I have put a function into the +# utilities file and called it dotPlot2(). Why not dotPlot() ... that's because +# there already is a dotplot function in the seqinr package: + +seqinr::dotPlot(MBP1_SACCE, MBP1_MYSPE) # seqinr +dotPlot2(MBP1_SACCE, MBP1_MYSPE, xlab = "SACCE", ylab = "MYSPE") # Our's + +# Which one do you prefer? You can probably see the block patterns that arise +# from segments of repetitive, low complexity sequence. But you probably have to +# look very closely to discern the faint diagonals that correspond to similar +# sequence. + + +# Let's see if we can enhance the contrast between distributed noise and the +# actual alignment of conserved residues. We can filter the dot matrix with a +# pattern that enhances diagonally repeated values. Every value in the matrix +# will be replaced by a weighted average of its neighborhood. Here is a +# diagonal-filter: + +myFilter <- matrix(numeric(25), nrow = 5) +myFilter[1, ] <- c( 1, 0, 0, 0, 0) +myFilter[2, ] <- c( 0, 1, 0, 0, 0) +myFilter[3, ] <- c( 0, 0, 1, 0, 0) +myFilter[4, ] <- c( 0, 0, 0, 1, 0) +myFilter[5, ] <- c( 0, 0, 0, 0, 1) + +# I have added the option to read such filters (or others that you could define on your own) as a parameter of the function. + +dotPlot2(MBP1_SACCE, MBP1_MYSPE, xlab = "SACCE", ylab = "MYSPE", f = myFilter) + +# I think the result shows quite nicely how the two sequences are globally +# related and where the regions of sequence similarity are. Play with this a bit +# ... Can you come up with a better filter? If so, eMail us. + + + + +# = 2 Tasks =============================================================== + + + + +# [END] diff --git a/BIN-ALI-MSA.R b/BIN-ALI-MSA.R index 0265d21..d293682 100644 --- a/BIN-ALI-MSA.R +++ b/BIN-ALI-MSA.R @@ -1,628 +1,628 @@ -# tocID <- "BIN-ALI-MSA.R" -# -# Purpose: A Bioinformatics Course: -# R code accompanying the BIN-ALI-MSA unit. -# -# Version: 1.3 -# -# Date: 2017-10 - 2020-09 -# Author: Boris Steipe (boris.steipe@utoronto.ca) -# -# Versions: -# 1.3 2020 updates -# 1.2 Change from require() to requireNamespace(), -# use ::() idiom throughout -# 1.1 Added fetchMSAmotif() -# 1.0 Fully refactored and rewritten for 2017 -# 0.1 First code copied from 2016 material. -# -# -# TODO: -# -# -# == DO NOT SIMPLY source() THIS FILE! ======================================= -# -# If there are portions you don't understand, use R's help system, Google for an -# answer, or ask your instructor. Don't continue if you don't understand what's -# going on. That's not how it works ... -# -# ============================================================================== - - -#TOC> ========================================================================== -#TOC> -#TOC> Section Title Line -#TOC> ------------------------------------------------------------------ -#TOC> 1 Preparations 55 -#TOC> 2 Aligning full length MBP1 proteins 97 -#TOC> 2.1 Preparing Sequences 108 -#TOC> 2.2 Compute the MSA 133 -#TOC> 3 Analyzing an MSA 154 -#TOC> 4 Comparing MSAs 226 -#TOC> 4.1 Importing an alignment to msa 235 -#TOC> 4.1.1 importing an .aln file 244 -#TOC> 4.1.2 Creating an MsaAAMultipleAlignment object 275 -#TOC> 4.2 More alignments 326 -#TOC> 4.3 Computing comparison metrics 338 -#TOC> 5 Profile-Profile alignments 476 -#TOC> 6 Sequence Logos 549 -#TOC> 6.1 Subsetting an alignment by motif 558 -#TOC> 6.2 Plot a Sequence Logo 607 -#TOC> -#TOC> ========================================================================== - - -# = 1 Preparations ======================================================== - -# You need to reload you protein database, including changes that might -# have been made to the reference files. If you have worked with the -# prerequisite units, you should have a script named "./myScripts/makeProteinDB.R" -# that will create the myDB object with a protein and feature database. -# Ask for advice if not. -source("./myScripts/makeProteinDB.R") - - -if (! requireNamespace("BiocManager", quietly=TRUE)) { - install.packages("BiocManager") -} -if (! requireNamespace("Biostrings", quietly=TRUE)) { - BiocManager::install("Biostrings") -} -# Package information: -# library(help = Biostrings) # basic information -# browseVignettes("Biostrings") # available vignettes -# data(package = "Biostrings") # available datasets - -# Multiple sequence alignment algorithms are provided in -# the Bioconductor msa package. - -if (! requireNamespace("msa", quietly=TRUE)) { - BiocManager::install("msa") -} -# Package information: -# library(help=msa) # basic information -# browseVignettes("msa") # available vignettes -# data(package = "msa") # available datasets - - -# If an installation asks you if you want to update older packages, I recommend -# to always answer "a" for "all" unless you have an important reason not to. But -# if the installer asks you whether you want to compile from source, answer "n" -# for "no" unless you need new functionality in a particular bleeding-edge -# version of a package. - -help(package = "msa") - - -# = 2 Aligning full length MBP1 proteins ================================== - -# In the Wiki part of this unit you have -# - aligned full length MBP1 protein sequences at the EBI using T-Coffee -# - saved the resulting alignment in CLUSTAL format -# to the file "MBP1orthologuesTC.aln" - -# In this section we will calculate an MSA of the same sequences using -# algorithms in the msa packages, and we will compare the two alignments. - - -# == 2.1 Preparing Sequences =============================================== - -# We have used the biostrings' AAString() function before; for multiple -# alignments we need an AAStringSet(). AAStringSets are produced from vectors -# of sequence. - -sel <- grep("MBP1", myDB$protein$name) -MBP1set <- Biostrings::AAStringSet(myDB$protein$sequence[sel]) - -# To help us make sense of the alignment we need to add the names for -# the sequences. Names for a seqSet object are held in the ranges slot... - -MBP1set@ranges@NAMES <- myDB$protein$name[sel] - -MBP1set - -# You should have eleven sequences in this set, ask for advice if you don't. - -# The little step of adding names is actually really very important. That's -# because the aligned sequences are meaningless strings of characters unless we -# can easily identify their biological relationships. Creating MSAs that are -# only identified by e.g. their RefSeq ids is a type of cargo-cult -# bioinformatics that we encounter a lot. The point of the alignment is not to -# create it, but to interpret it! - -# == 2.2 Compute the MSA =================================================== - -# The alignment itself is very simple. msa has msaMuscle() and msaClustalOmega() -# to produce alignments. (It also has msaClustalW() which is kind of -# embarrassing since that hasn't been the algorithm of first choice for -# decades. Don't use that one for real work.) - - -# Let's run an alignment with "Muscle" -(msaM <- msa::msaMuscle( MBP1set, order = "aligned")) - -# ... or to see the whole thing (cf. ?MsaAAMultipleAlignment ... print method): -msa::print(msaM, show=c("alignment", "complete"), showConsensus=FALSE) - - -# You see that the alignment object has sequence strings with hyphens as -# indel-characters. The names are printed to the console. And you also see that -# the order has not been preserved, but the most similar sequences are now -# adjacent to each other. - - -# = 3 Analyzing an MSA ==================================================== - -# You probabaly realize that computing an MSA is not that hard. It's not -# entirely trivial to collect meaningful sequences via e.g. PSI-BLAST ... but -# then computing the alignment gives you a result quickly. But what does it -# mean? What information does the MSA contain? - -# Let's have a first look at conserved vs. diverged regions of the MSA. msa -# provides the function msaConservationScore() which outputs a vector of scores. -# The scores are the sum of pairscores for the column: for example a perfectly -# conserved column of histidines would have the following score in our MSA -# of eleven sequences: -# - one (H, H) pair score is 8 in BLOSUM62; -# - there are (n^2 - n) / 2 pairs that can be formed between amino acids -# in a column from n sequences; -# - therefore the column score is 8 * (11^2 - 11) / 2 == 440 - -# attach the BLOSUM62 package from the Biostrings package -data(BLOSUM62, package = "Biostrings") - -msaMScores <- msa::msaConservationScore(msaM, substitutionMatrix = BLOSUM62) -plot(msaMScores, type = "l", col = "#205C5E", xlab = "Alignment Position") - -# That plot shows the well-aligned regions (domains ?) of the sequence, but it -# could use some smoothing. Options for smoothing such plots include calculating -# averages in sliding windows ("moving average"), and lowess() smoothing. Here -# is a quick demo of a moving average smoothing, to illustrate the principle. - -wRadius <- 15 # we take the mean of all values around a point +- wRadius -len <- length(msaMScores) -v <- msaMScores -for (i in (1 + wRadius):(len - wRadius)) { - v[i] <- mean(msaMScores[(i - wRadius):(i + wRadius)]) # mean of values in - # window around i -} -points(v, col = "#FFFFFF", type = "l", lwd = 4.5) -points(v, col = "#3DAEB2", type = "l", lwd = 3) - - -# You can set a threshold and use rle() to define ranges of values that fall -# above and below the threshold, and thus approximate domain boundaries: -thrsh <- 30 -(highScoringRanges <- rle(v > thrsh)) -(idx <- c(1, cumsum(highScoringRanges$lengths))) -for (i in seq_along(highScoringRanges$lengths)) { - if (highScoringRanges$values[i] == TRUE) { # If this range is above threshold, - rect(idx[i], thrsh, idx[i+1], max(v), # ... draw a rectangle - col = "#205C5E33") # ... with a transparent color. - cat(sprintf("Possible domain from %d to %d\n", idx[i], idx[i+1])) - } -} - -# Getting this right requires a bit of fiddling with the window radius and -# threshold (experiment with that a bit), but once we are satisfied, we can use -# the boundaries to print the MSA alignments separately for domains. -# Unfortunately the msa package provides no native way to extract blocks of the -# alignment for further processing, but your .utilities.R script contains a -# function to write alignment objects and sequence sets to .aln formatted -# output. Have a look: - -writeALN - -# Print out the aligned blocks -for (i in seq_along(highScoringRanges$lengths)) { - if (highScoringRanges$values[i] == TRUE) { # If this range is above threshold, - cat(sprintf("\n\nPossible domain from %d to %d\n", idx[i], idx[i+1])) - writeALN(msaM, range = c(idx[i], idx[i+1])) - } -} - - - -# = 4 Comparing MSAs ====================================================== - -# Let's compare the results of different alignment algorithms. We computed a -# vector of scores above, and we can compare that for different alignment -# algorithms. This is not trivial, so we'll need to look at that data in -# different ways and explore it. But first, let's get more alignments to compare -# with. - - -# == 4.1 Importing an alignment to msa ===================================== - -# We computed a T-Coffee alignment at the EBI. msa has no native import function -# so we need to improvise, and it's a bit of a pain to do - but a good -# illustration of strategies to convert data into any kind of object: -# - read an .aln file -# - adjust the sequence names -# - convert to msaAAMultipleAlignment object - -# === 4.1.1 importing an .aln file - -# The seqinr package has a function to read CLUSTAL W formatted .aln files ... -if (! requireNamespace("seqinr", quietly=TRUE)) { - install.packages("seqinr") -} -# Package information: -# library(help=seqinr) # basic information -# browseVignettes("seqinr") # available vignettes -# data(package = "seqinr") # available datasets - -# read the T-coffee aligned file that you donwloaded from the EBI MSA tools -# (cf. http://steipe.biochemistry.utoronto.ca/abc/index.php/BIN-ALI-MSA) -tmp <- seqinr::read.alignment("msaT.aln", format = "clustal") - -# read.alignment() returns a list. $seq is a list of strings, one for each -# complete alignment. However, they are converted to lower case. -x <- toupper(unlist(tmp$seq)) # get the sequences, uppercase - -# $nam contains the names. -(names(x) <- tmp$nam) - -# Note that the names in the file are refseq IDs, we need to replace the -# RefSeqIDs with the database names: -for (i in seq_along(x)) { - # find the index of the RefSeqID - id <- gsub("\\..*$", "", names(x)[i]) # fetch the name, drop the version - sel <- which(myDB$protein$RefSeqID == id) # get the index - names(x)[i] <- myDB$protein$name[sel] # get the name -} - -# === 4.1.2 Creating an MsaAAMultipleAlignment object - -# MsaAAMultipleAlignment objects are S4 objects that contain AAStringSet objects -# in their @unmasked slot, and a few additional items. Rather then build the -# object from scratch, we copy an existing object, and overwrite the data in its -# slots with what we need. Our goal is pragmatic, we want an object that msa's -# functions will accept as input. - -# First: convert our named char vector into an AAstringSet -x <- Biostrings::AAStringSet(x) - -# Then: create a new MsaAAMultipleAlignment S4 object. The msa package has -# defined what such an object should look like, with the SetClass() function. To -# create a new object, simply use the new() function, define the class that the -# object would have, and fill the slots with something that has the right type. -# How do we know the right type and the slot names? Easy! We just use -# str() to get the information. - -str(msaM) - -# There is a catch however in the way R makes such operations specific to -# the packages they need them: the function that creates the class is -# defined as a "generic", and when it is called, R looks in the package -# namespace for a more specific function with precise instructions what -# to do. However, we have not loaded the package namespace - we access all -# of the functions directly with the msa:: prefix. This method breaks down -# when generic functions are involved. I.e. - we could make it work, but -# the amount of code we need then is unreasonable. The straightforward -# way is to load the package. We can still use the prefix notation for -# its functions, just to emphasize where the function comes from. But since -# the namespace then exists, we ensure that generics are properly dispatched. - -library(msa) # load the msa package namespace - -msaT <- new("MsaAAMultipleAlignment", # create new MsaAAMultipleAlignment object - unmasked = x, # "unmasked" slot takes an AAStringSet - version = "T-Coffee", # "version" slot takes a string - params = list(), # "params" takes a list(), we leave the - # list empty, but we could add the - # alignment parameters that we used at - # the EBI here. - call = "imported from T-coffee alignment") # also a string - -str(msaT) - - -msaT # Now we have fabricated an msaAAMultipleAlignment object, and we can - # use the msa package functions on it - -msaTScores <- msa::msaConservationScore(msaT, substitutionMatrix = BLOSUM62) - -# == 4.2 More alignments =================================================== - -# Next, we calculate alignments with msa's two other alignment options: -# CLUSTAL Omega -(msaO <- msa::msaClustalOmega( MBP1set, order = "aligned")) -msaOScores <- msa::msaConservationScore(msaO, substitutionMatrix = BLOSUM62) - -# CLUSTAL W -(msaW <- msa::msaClustalW( MBP1set, order = "aligned")) -msaWScores <- msa::msaConservationScore(msaW, substitutionMatrix = BLOSUM62) - - -# == 4.3 Computing comparison metrics ====================================== - -# Ready to compare. - -# ... sum of alignment scores of alignment divided by sum of alignment scores -# of reference alignment (arbitrarily using CLUSTAL W as reference) - -sRef <- sum(msaWScores) -sum(msaWScores) / sRef # CLUSTAl W -sum(msaOScores) / sRef # CLUSTAL O -sum(msaTScores) / sRef # T-COFFEE -sum(msaMScores) / sRef # MUSCLE - -# ... mean alignment scores (higher is better) - -mean(msaWScores) # CLUSTAl W -mean(msaOScores) # CLUSTAL O -mean(msaTScores) # T-COFFEE -mean(msaMScores) # MUSCLE - -# total number of gaps (lower is better) -countGaps <- function(ali) { - x <- paste0(as.character(ali), collapse = "") - aa <- nchar(gsub("-", "", x)) - return(nchar(x) - aa) -} - -countGaps(msaW) # CLUSTAl W -countGaps(msaO) # CLUSTAL O -countGaps(msaT) # T-COFFEE -countGaps(msaM) # MUSCLE - -# number of indels in alignment (lower is less fragmented) -countIndels <- function(ali) { - x <- paste0(as.character(ali), collapse = "") # collapse into single string - x <- unlist(strsplit(x, "")) # split into characters - x <- x == "-" # convert into boolean - x <- rle(x) # calculate rle - # every run of TRUE is one indel event - return(sum(x$values)) -} - -countIndels(msaW) # CLUSTAl W -countIndels(msaO) # CLUSTAL O -countIndels(msaT) # T-COFFEE -countIndels(msaM) # MUSCLE - -# Let's look at the distribution of alignment scores: -boxplot(list(CLUSTAL.W = msaWScores, - CLUSTAL.O = msaOScores, - T.COFFEE = msaTScores, - MUSCLE = msaMScores), - cex.axis = 0.8, - col = c("#7D556488", "#74628F88", "#5E78A188", "#3DAEB288")) - -# CLUSTAL W and CLUSTAL O don't look all that different. T-Coffee tends to have -# a tighter distribution with less negative scores. Muscle has a slightly higher -# mean and generally higher scores. - -# Boxplots are convenient, but don't give us much detail about the shape of the -# distribution. For that, we need histograms, or density plots. - -plot(density(msaWScores), - type = "l", - col = "#7D5564", - lwd = 1.5, - ylim = c(0, (max(density(msaWScores)$y) * 1.3)), - main = "Comparing MSA algorithms", - xlab = "Alignment Score", - ylab = "Density") -points(density(msaOScores), - type = "l", - lwd = 1.5, - col = "#74628F") -points(density(msaTScores), - type = "l", - lwd = 1.5, - col = "#5E78A1") -points(density(msaMScores), - type = "l", - lwd = 1.5, - col = "#3DAEB2") -legend("topright", - legend = c("MUSCLE", "T-COFFEE", "CLUSTAL O", "CLUSTAL W"), - col = c("#3DAEB2", "#5E78A1", "#74628F", "#7D5564"), - lwd = 2, - cex = 0.7, - bty = "n") - -# The density plots confirm in more detail that CLUSTAL W misses some of the -# higher-scoring possibilities, that wherever CLUSTAL O is bad, it is quite bad, -# that T-COFFEE has fewer poorly scoring columns but misses some of the better -# scoring possibilities, and that MUSCLE appears to do best overall. - -# Can we attribute these differences to sections of the alignment in which the -# algorithms did better or worse? Let's plot the scores cumulatively. The -# alignments have different lengths, so we plot the scores on the respective -# fraction of the alignement length. - -plot(seq(0, 1, length.out = length(msaWScores)), # x- axis: fraction of length - cumsum(msaWScores), - type = "l", - col = "#7D5564", - lwd = 1.5, - ylim = c(0, max(cumsum(msaMScores))), - main = "Comparing MSA algorithms", - xlab = "Alignment Position", - ylab = "Cumulative Alignment Score") -points(seq(0, 1, length.out = length(msaOScores)), # x- axis: fraction of length - cumsum(msaOScores), - type = "l", - lwd = 1.5, - col = "#74628F") -points(seq(0, 1, length.out = length(msaTScores)), # x- axis: fraction of length - cumsum(msaTScores), - type = "l", - lwd = 1.5, - col = "#5E78A1") -points(seq(0, 1, length.out = length(msaMScores)), # x- axis: fraction of length - cumsum(msaMScores), - type = "l", - lwd = 1.5, - col = "#3DAEB2") -legend("bottomright", - legend = c("MUSCLE", "T-COFFEE", "CLUSTAL O", "CLUSTAL W"), - col = c("#3DAEB2", "#5E78A1", "#74628F", "#7D5564"), - lwd = 2, - cex = 0.7, - bty = "n") - -# Your alignment is going to be different from mine, due to the inclusion of -# MYSPE - but what I see is that MUSCLE gives the highest score overall, and -# achieves this with fewer indels than most, and the lowest number of gaps of -# all algorithms. - -# To actually compare regions of alignments, we need to align alignments. - - -# = 5 Profile-Profile alignments ========================================== - - -# Profile-profile alignments are the most powerful way to pick up distant -# relationships between sequence families. The can be used, for example to build -# a profile from structural superpositions of crystal structures, and then map a -# MSA alignment onto those features. Here we will use profile-profile comparison -# to compare two MSAs with each other, by aligning them. The algorithm is -# provided by the DECIPHER package. - -if (! requireNamespace("DECIPHER", quietly=TRUE)) { - BiocManager::install("DECIPHER") -} -# Package information: -# library(help = DECIPHER) # basic information -# browseVignettes("DECIPHER") # available vignettes -# data(package = "DECIPHER") # available datasets - -# AlignProfiles() takes two AAStringSets as input. Let's compare the MUSCLE and -# CLUSTAL W alignments: we could do this directly ... -DECIPHER::AlignProfiles(msaW@unmasked, msaM@unmasked) - -# But for ease of comparison, we'll reorder the sequences of the CLUSTAL W -# alignment into the same order as the MUSCLE alignment: -m <- as.character(msaM) -w <- as.character(msaW)[names(m)] - -(ppa <- DECIPHER::AlignProfiles(AAStringSet(w), AAStringSet(m))) - -# Conveniently, AlignProfiles() returns an AAStringSet, so we can use our -# writeALN function to show it. Here is an arbitrary block, from somewhere in -# the middle of the alignment: - -writeALN(ppa, range = c(751, 810)) - -# If you look at this for a while, you can begin to figue out where the -# algorithms made different decisions about where to insert gaps, and how to -# move segments of sequence around. But matters become more clear if we -# post-process this profile-profile alignment. Let's replace all hyphens that -# the pp-alignment has inserted with blanks, and let's add a separator line down -# the middle between the two alignments. - -x <- unlist(strsplit(as.character(ppa), "")) # unlist all -dim(x) <- c(width(ppa)[1], length(ppa)) # form into matrix by columns -x <- t(x) # transpose the matrix -(a1 <- 1:(nrow(x)/2)) # rows of alignment 1 -(a2 <- ((nrow(x)/2) + 1):nrow(x)) # rows of alignment 2 -for (i in 1:ncol(x)) { - if (all(x[a1, i] == "-")) { x[a1, i] <- " " } # blank hyphens that shift - if (all(x[a2, i] == "-")) { x[a2, i] <- " " } # original alignment blocks -} - -# collapse the matrix into strings -ppa2 <- character() -for (i in 1:nrow(x)) { - ppa2[i] <- paste0(x[i, ], collapse = "") - names(ppa2)[i] <- names(ppa)[i] -} - -# add a separator line -x <- paste0(rep("-", width(ppa)[1]), collapse = "") -ppa2 <- c(ppa2[a1], x, ppa2[a2]) - -# inspect -writeALN(ppa2, range = c(800, 960)) - -# Again, go explore, and get a sense of what's going on. You may find that -# CLUSTAL W has a tendency to insert short gaps all over the alignment, whereas -# MUSCLE keeps indels in blocks. CLUSTAL's behaviour is exactly what I would -# expect from an algorithm that builds alignments incrementally from pairwise -# local alignments, without global refinement. - - -# = 6 Sequence Logos ====================================================== - -# To visualize the information that we can get about structure and function with -# an MSA, we'll calculate a sequence logo of the Mbp1 recognition helix - the -# part of the structure that inserts into the major groove of the DNA and -# provides sequence specificity to the DNA binding of this transcription factor. -# Helix-B in Mbp1 with four residues upstream and downstream spans the sequence -# 43-ANFAKAKRTRILEKEVLKE-61 - -# == 6.1 Subsetting an alignment by motif ================================== - -# Finding the location of such an substring in an alignment is not entirely -# trivial, because the alignment might have produced indels in that sequence. -# Our strategy can be: -# - fetch the sequence from the alignment -# - remove all hyphens -# - find the range where the target sequence matches -# - count how many characters in all there are in the aligned sequence, up -# to the start and end of the match -# - these numbers define the range of the match in the alignment. - -x <- as.character(msaM)["MBP1_SACCE"] -xAA <- gsub("-", "", x) - -motif <- "ANFAKAKRTRILEKEVLKE" -(m <- regexpr(motif, xAA)) # matched in position 43, with a length of 19 -(motifStart <- as.numeric(m)) -(motifEnd <- attr(m, "match.length") + motifStart - 1) - -# To count characters, we split the string into single characters ... -x <- unlist(strsplit(x, "")) - -# ... convert this into a boolean, which is true if the character is not -# a hyphen ... -x <- x != "-" - -# ... cast this into a numeric, which turns TRUE into 1 and FALSE into 0 ... -x <- as.numeric(x) - -# ... and sum up the cumulative sum. -x <- cumsum(x) - -# Now we can find where the 43'd and 61'st characters are located in the -# alignment string ... -(aliStart <- which(x == motifStart)[1]) # get the first hit if there are more -(aliEnd <- which(x == motifEnd)[1]) - -# ... and subset the alignment - -(motifAli <- subseq(msaM@unmasked, start = aliStart, end = aliEnd)) - -# Packaging this into a function is convenient to have, therefore I have added -# such a function to the .utilities.R script: fetchMSAmotif(). Try it: - -wing <- "HEKVQGGFGKYQGTWV" # the MBP1_SACCE APSES "wing" sequence -writeALN(fetchMSAmotif(msaM, wing)) - - -# == 6.2 Plot a Sequence Logo ============================================== - -# The Bioconductor seqLogo:: packager handles only DNA sequences, but there are -# now several good options to plot sequence logos in R, these include dagLogo, -# DiffLogo, Logolas, and motifStack. For our example we will use ggseqlogo -# written by by Omar Waghi, a former UofT BCB student who is now at the EBI. - -if (! requireNamespace("ggseqlogo", quietly=TRUE)) { - install.packages(("ggseqlogo")) -} -# Package information: -# library(help=ggseqlogo) # basic information -# browseVignettes("ggseqlogo") # available vignettes -# data(package = "ggseqlogo") # available datasets - -ggseqlogo::ggseqlogo(as.character(motifAli)) - - - - - -# [END] +# tocID <- "BIN-ALI-MSA.R" +# +# Purpose: A Bioinformatics Course: +# R code accompanying the BIN-ALI-MSA unit. +# +# Version: 1.3 +# +# Date: 2017-10 - 2020-09 +# Author: Boris Steipe (boris.steipe@utoronto.ca) +# +# Versions: +# 1.3 2020 updates +# 1.2 Change from require() to requireNamespace(), +# use ::() idiom throughout +# 1.1 Added fetchMSAmotif() +# 1.0 Fully refactored and rewritten for 2017 +# 0.1 First code copied from 2016 material. +# +# +# TODO: +# +# +# == DO NOT SIMPLY source() THIS FILE! ======================================= +# +# If there are portions you don't understand, use R's help system, Google for an +# answer, or ask your instructor. Don't continue if you don't understand what's +# going on. That's not how it works ... +# +# ============================================================================== + + +#TOC> ========================================================================== +#TOC> +#TOC> Section Title Line +#TOC> ------------------------------------------------------------------ +#TOC> 1 Preparations 55 +#TOC> 2 Aligning full length MBP1 proteins 97 +#TOC> 2.1 Preparing Sequences 108 +#TOC> 2.2 Compute the MSA 133 +#TOC> 3 Analyzing an MSA 154 +#TOC> 4 Comparing MSAs 226 +#TOC> 4.1 Importing an alignment to msa 235 +#TOC> 4.1.1 importing an .aln file 244 +#TOC> 4.1.2 Creating an MsaAAMultipleAlignment object 275 +#TOC> 4.2 More alignments 326 +#TOC> 4.3 Computing comparison metrics 338 +#TOC> 5 Profile-Profile alignments 476 +#TOC> 6 Sequence Logos 549 +#TOC> 6.1 Subsetting an alignment by motif 558 +#TOC> 6.2 Plot a Sequence Logo 607 +#TOC> +#TOC> ========================================================================== + + +# = 1 Preparations ======================================================== + +# You need to reload you protein database, including changes that might +# have been made to the reference files. If you have worked with the +# prerequisite units, you should have a script named "./myScripts/makeProteinDB.R" +# that will create the myDB object with a protein and feature database. +# Ask for advice if not. +source("./myScripts/makeProteinDB.R") + + +if (! requireNamespace("BiocManager", quietly=TRUE)) { + install.packages("BiocManager") +} +if (! requireNamespace("Biostrings", quietly=TRUE)) { + BiocManager::install("Biostrings") +} +# Package information: +# library(help = Biostrings) # basic information +# browseVignettes("Biostrings") # available vignettes +# data(package = "Biostrings") # available datasets + +# Multiple sequence alignment algorithms are provided in +# the Bioconductor msa package. + +if (! requireNamespace("msa", quietly=TRUE)) { + BiocManager::install("msa") +} +# Package information: +# library(help=msa) # basic information +# browseVignettes("msa") # available vignettes +# data(package = "msa") # available datasets + + +# If an installation asks you if you want to update older packages, I recommend +# to always answer "a" for "all" unless you have an important reason not to. But +# if the installer asks you whether you want to compile from source, answer "n" +# for "no" unless you need new functionality in a particular bleeding-edge +# version of a package. + +help(package = "msa") + + +# = 2 Aligning full length MBP1 proteins ================================== + +# In the Wiki part of this unit you have +# - aligned full length MBP1 protein sequences at the EBI using T-Coffee +# - saved the resulting alignment in CLUSTAL format +# to the file "MBP1orthologuesTC.aln" + +# In this section we will calculate an MSA of the same sequences using +# algorithms in the msa packages, and we will compare the two alignments. + + +# == 2.1 Preparing Sequences =============================================== + +# We have used the biostrings' AAString() function before; for multiple +# alignments we need an AAStringSet(). AAStringSets are produced from vectors +# of sequence. + +sel <- grep("MBP1", myDB$protein$name) +MBP1set <- Biostrings::AAStringSet(myDB$protein$sequence[sel]) + +# To help us make sense of the alignment we need to add the names for +# the sequences. Names for a seqSet object are held in the ranges slot... + +MBP1set@ranges@NAMES <- myDB$protein$name[sel] + +MBP1set + +# You should have eleven sequences in this set, ask for advice if you don't. + +# The little step of adding names is actually really very important. That's +# because the aligned sequences are meaningless strings of characters unless we +# can easily identify their biological relationships. Creating MSAs that are +# only identified by e.g. their RefSeq ids is a type of cargo-cult +# bioinformatics that we encounter a lot. The point of the alignment is not to +# create it, but to interpret it! + +# == 2.2 Compute the MSA =================================================== + +# The alignment itself is very simple. msa has msaMuscle() and msaClustalOmega() +# to produce alignments. (It also has msaClustalW() which is kind of +# embarrassing since that hasn't been the algorithm of first choice for +# decades. Don't use that one for real work.) + + +# Let's run an alignment with "Muscle" +(msaM <- msa::msaMuscle( MBP1set, order = "aligned")) + +# ... or to see the whole thing (cf. ?MsaAAMultipleAlignment ... print method): +msa::print(msaM, show=c("alignment", "complete"), showConsensus=FALSE) + + +# You see that the alignment object has sequence strings with hyphens as +# indel-characters. The names are printed to the console. And you also see that +# the order has not been preserved, but the most similar sequences are now +# adjacent to each other. + + +# = 3 Analyzing an MSA ==================================================== + +# You probabaly realize that computing an MSA is not that hard. It's not +# entirely trivial to collect meaningful sequences via e.g. PSI-BLAST ... but +# then computing the alignment gives you a result quickly. But what does it +# mean? What information does the MSA contain? + +# Let's have a first look at conserved vs. diverged regions of the MSA. msa +# provides the function msaConservationScore() which outputs a vector of scores. +# The scores are the sum of pairscores for the column: for example a perfectly +# conserved column of histidines would have the following score in our MSA +# of eleven sequences: +# - one (H, H) pair score is 8 in BLOSUM62; +# - there are (n^2 - n) / 2 pairs that can be formed between amino acids +# in a column from n sequences; +# - therefore the column score is 8 * (11^2 - 11) / 2 == 440 + +# attach the BLOSUM62 package from the Biostrings package +data(BLOSUM62, package = "Biostrings") + +msaMScores <- msa::msaConservationScore(msaM, substitutionMatrix = BLOSUM62) +plot(msaMScores, type = "l", col = "#205C5E", xlab = "Alignment Position") + +# That plot shows the well-aligned regions (domains ?) of the sequence, but it +# could use some smoothing. Options for smoothing such plots include calculating +# averages in sliding windows ("moving average"), and lowess() smoothing. Here +# is a quick demo of a moving average smoothing, to illustrate the principle. + +wRadius <- 15 # we take the mean of all values around a point +- wRadius +len <- length(msaMScores) +v <- msaMScores +for (i in (1 + wRadius):(len - wRadius)) { + v[i] <- mean(msaMScores[(i - wRadius):(i + wRadius)]) # mean of values in + # window around i +} +points(v, col = "#FFFFFF", type = "l", lwd = 4.5) +points(v, col = "#3DAEB2", type = "l", lwd = 3) + + +# You can set a threshold and use rle() to define ranges of values that fall +# above and below the threshold, and thus approximate domain boundaries: +thrsh <- 30 +(highScoringRanges <- rle(v > thrsh)) +(idx <- c(1, cumsum(highScoringRanges$lengths))) +for (i in seq_along(highScoringRanges$lengths)) { + if (highScoringRanges$values[i] == TRUE) { # If this range is above threshold, + rect(idx[i], thrsh, idx[i+1], max(v), # ... draw a rectangle + col = "#205C5E33") # ... with a transparent color. + cat(sprintf("Possible domain from %d to %d\n", idx[i], idx[i+1])) + } +} + +# Getting this right requires a bit of fiddling with the window radius and +# threshold (experiment with that a bit), but once we are satisfied, we can use +# the boundaries to print the MSA alignments separately for domains. +# Unfortunately the msa package provides no native way to extract blocks of the +# alignment for further processing, but your .utilities.R script contains a +# function to write alignment objects and sequence sets to .aln formatted +# output. Have a look: + +writeALN + +# Print out the aligned blocks +for (i in seq_along(highScoringRanges$lengths)) { + if (highScoringRanges$values[i] == TRUE) { # If this range is above threshold, + cat(sprintf("\n\nPossible domain from %d to %d\n", idx[i], idx[i+1])) + writeALN(msaM, range = c(idx[i], idx[i+1])) + } +} + + + +# = 4 Comparing MSAs ====================================================== + +# Let's compare the results of different alignment algorithms. We computed a +# vector of scores above, and we can compare that for different alignment +# algorithms. This is not trivial, so we'll need to look at that data in +# different ways and explore it. But first, let's get more alignments to compare +# with. + + +# == 4.1 Importing an alignment to msa ===================================== + +# We computed a T-Coffee alignment at the EBI. msa has no native import function +# so we need to improvise, and it's a bit of a pain to do - but a good +# illustration of strategies to convert data into any kind of object: +# - read an .aln file +# - adjust the sequence names +# - convert to msaAAMultipleAlignment object + +# === 4.1.1 importing an .aln file + +# The seqinr package has a function to read CLUSTAL W formatted .aln files ... +if (! requireNamespace("seqinr", quietly=TRUE)) { + install.packages("seqinr") +} +# Package information: +# library(help=seqinr) # basic information +# browseVignettes("seqinr") # available vignettes +# data(package = "seqinr") # available datasets + +# read the T-coffee aligned file that you donwloaded from the EBI MSA tools +# (cf. http://steipe.biochemistry.utoronto.ca/abc/index.php/BIN-ALI-MSA) +tmp <- seqinr::read.alignment("msaT.aln", format = "clustal") + +# read.alignment() returns a list. $seq is a list of strings, one for each +# complete alignment. However, they are converted to lower case. +x <- toupper(unlist(tmp$seq)) # get the sequences, uppercase + +# $nam contains the names. +(names(x) <- tmp$nam) + +# Note that the names in the file are refseq IDs, we need to replace the +# RefSeqIDs with the database names: +for (i in seq_along(x)) { + # find the index of the RefSeqID + id <- gsub("\\..*$", "", names(x)[i]) # fetch the name, drop the version + sel <- which(myDB$protein$RefSeqID == id) # get the index + names(x)[i] <- myDB$protein$name[sel] # get the name +} + +# === 4.1.2 Creating an MsaAAMultipleAlignment object + +# MsaAAMultipleAlignment objects are S4 objects that contain AAStringSet objects +# in their @unmasked slot, and a few additional items. Rather then build the +# object from scratch, we copy an existing object, and overwrite the data in its +# slots with what we need. Our goal is pragmatic, we want an object that msa's +# functions will accept as input. + +# First: convert our named char vector into an AAstringSet +x <- Biostrings::AAStringSet(x) + +# Then: create a new MsaAAMultipleAlignment S4 object. The msa package has +# defined what such an object should look like, with the SetClass() function. To +# create a new object, simply use the new() function, define the class that the +# object would have, and fill the slots with something that has the right type. +# How do we know the right type and the slot names? Easy! We just use +# str() to get the information. + +str(msaM) + +# There is a catch however in the way R makes such operations specific to +# the packages they need them: the function that creates the class is +# defined as a "generic", and when it is called, R looks in the package +# namespace for a more specific function with precise instructions what +# to do. However, we have not loaded the package namespace - we access all +# of the functions directly with the msa:: prefix. This method breaks down +# when generic functions are involved. I.e. - we could make it work, but +# the amount of code we need then is unreasonable. The straightforward +# way is to load the package. We can still use the prefix notation for +# its functions, just to emphasize where the function comes from. But since +# the namespace then exists, we ensure that generics are properly dispatched. + +library(msa) # load the msa package namespace + +msaT <- new("MsaAAMultipleAlignment", # create new MsaAAMultipleAlignment object + unmasked = x, # "unmasked" slot takes an AAStringSet + version = "T-Coffee", # "version" slot takes a string + params = list(), # "params" takes a list(), we leave the + # list empty, but we could add the + # alignment parameters that we used at + # the EBI here. + call = "imported from T-coffee alignment") # also a string + +str(msaT) + + +msaT # Now we have fabricated an msaAAMultipleAlignment object, and we can + # use the msa package functions on it + +msaTScores <- msa::msaConservationScore(msaT, substitutionMatrix = BLOSUM62) + +# == 4.2 More alignments =================================================== + +# Next, we calculate alignments with msa's two other alignment options: +# CLUSTAL Omega +(msaO <- msa::msaClustalOmega( MBP1set, order = "aligned")) +msaOScores <- msa::msaConservationScore(msaO, substitutionMatrix = BLOSUM62) + +# CLUSTAL W +(msaW <- msa::msaClustalW( MBP1set, order = "aligned")) +msaWScores <- msa::msaConservationScore(msaW, substitutionMatrix = BLOSUM62) + + +# == 4.3 Computing comparison metrics ====================================== + +# Ready to compare. + +# ... sum of alignment scores of alignment divided by sum of alignment scores +# of reference alignment (arbitrarily using CLUSTAL W as reference) + +sRef <- sum(msaWScores) +sum(msaWScores) / sRef # CLUSTAl W +sum(msaOScores) / sRef # CLUSTAL O +sum(msaTScores) / sRef # T-COFFEE +sum(msaMScores) / sRef # MUSCLE + +# ... mean alignment scores (higher is better) + +mean(msaWScores) # CLUSTAl W +mean(msaOScores) # CLUSTAL O +mean(msaTScores) # T-COFFEE +mean(msaMScores) # MUSCLE + +# total number of gaps (lower is better) +countGaps <- function(ali) { + x <- paste0(as.character(ali), collapse = "") + aa <- nchar(gsub("-", "", x)) + return(nchar(x) - aa) +} + +countGaps(msaW) # CLUSTAl W +countGaps(msaO) # CLUSTAL O +countGaps(msaT) # T-COFFEE +countGaps(msaM) # MUSCLE + +# number of indels in alignment (lower is less fragmented) +countIndels <- function(ali) { + x <- paste0(as.character(ali), collapse = "") # collapse into single string + x <- unlist(strsplit(x, "")) # split into characters + x <- x == "-" # convert into boolean + x <- rle(x) # calculate rle + # every run of TRUE is one indel event + return(sum(x$values)) +} + +countIndels(msaW) # CLUSTAl W +countIndels(msaO) # CLUSTAL O +countIndels(msaT) # T-COFFEE +countIndels(msaM) # MUSCLE + +# Let's look at the distribution of alignment scores: +boxplot(list(CLUSTAL.W = msaWScores, + CLUSTAL.O = msaOScores, + T.COFFEE = msaTScores, + MUSCLE = msaMScores), + cex.axis = 0.8, + col = c("#7D556488", "#74628F88", "#5E78A188", "#3DAEB288")) + +# CLUSTAL W and CLUSTAL O don't look all that different. T-Coffee tends to have +# a tighter distribution with less negative scores. Muscle has a slightly higher +# mean and generally higher scores. + +# Boxplots are convenient, but don't give us much detail about the shape of the +# distribution. For that, we need histograms, or density plots. + +plot(density(msaWScores), + type = "l", + col = "#7D5564", + lwd = 1.5, + ylim = c(0, (max(density(msaWScores)$y) * 1.3)), + main = "Comparing MSA algorithms", + xlab = "Alignment Score", + ylab = "Density") +points(density(msaOScores), + type = "l", + lwd = 1.5, + col = "#74628F") +points(density(msaTScores), + type = "l", + lwd = 1.5, + col = "#5E78A1") +points(density(msaMScores), + type = "l", + lwd = 1.5, + col = "#3DAEB2") +legend("topright", + legend = c("MUSCLE", "T-COFFEE", "CLUSTAL O", "CLUSTAL W"), + col = c("#3DAEB2", "#5E78A1", "#74628F", "#7D5564"), + lwd = 2, + cex = 0.7, + bty = "n") + +# The density plots confirm in more detail that CLUSTAL W misses some of the +# higher-scoring possibilities, that wherever CLUSTAL O is bad, it is quite bad, +# that T-COFFEE has fewer poorly scoring columns but misses some of the better +# scoring possibilities, and that MUSCLE appears to do best overall. + +# Can we attribute these differences to sections of the alignment in which the +# algorithms did better or worse? Let's plot the scores cumulatively. The +# alignments have different lengths, so we plot the scores on the respective +# fraction of the alignement length. + +plot(seq(0, 1, length.out = length(msaWScores)), # x- axis: fraction of length + cumsum(msaWScores), + type = "l", + col = "#7D5564", + lwd = 1.5, + ylim = c(0, max(cumsum(msaMScores))), + main = "Comparing MSA algorithms", + xlab = "Alignment Position", + ylab = "Cumulative Alignment Score") +points(seq(0, 1, length.out = length(msaOScores)), # x- axis: fraction of length + cumsum(msaOScores), + type = "l", + lwd = 1.5, + col = "#74628F") +points(seq(0, 1, length.out = length(msaTScores)), # x- axis: fraction of length + cumsum(msaTScores), + type = "l", + lwd = 1.5, + col = "#5E78A1") +points(seq(0, 1, length.out = length(msaMScores)), # x- axis: fraction of length + cumsum(msaMScores), + type = "l", + lwd = 1.5, + col = "#3DAEB2") +legend("bottomright", + legend = c("MUSCLE", "T-COFFEE", "CLUSTAL O", "CLUSTAL W"), + col = c("#3DAEB2", "#5E78A1", "#74628F", "#7D5564"), + lwd = 2, + cex = 0.7, + bty = "n") + +# Your alignment is going to be different from mine, due to the inclusion of +# MYSPE - but what I see is that MUSCLE gives the highest score overall, and +# achieves this with fewer indels than most, and the lowest number of gaps of +# all algorithms. + +# To actually compare regions of alignments, we need to align alignments. + + +# = 5 Profile-Profile alignments ========================================== + + +# Profile-profile alignments are the most powerful way to pick up distant +# relationships between sequence families. The can be used, for example to build +# a profile from structural superpositions of crystal structures, and then map a +# MSA alignment onto those features. Here we will use profile-profile comparison +# to compare two MSAs with each other, by aligning them. The algorithm is +# provided by the DECIPHER package. + +if (! requireNamespace("DECIPHER", quietly=TRUE)) { + BiocManager::install("DECIPHER") +} +# Package information: +# library(help = DECIPHER) # basic information +# browseVignettes("DECIPHER") # available vignettes +# data(package = "DECIPHER") # available datasets + +# AlignProfiles() takes two AAStringSets as input. Let's compare the MUSCLE and +# CLUSTAL W alignments: we could do this directly ... +DECIPHER::AlignProfiles(msaW@unmasked, msaM@unmasked) + +# But for ease of comparison, we'll reorder the sequences of the CLUSTAL W +# alignment into the same order as the MUSCLE alignment: +m <- as.character(msaM) +w <- as.character(msaW)[names(m)] + +(ppa <- DECIPHER::AlignProfiles(AAStringSet(w), AAStringSet(m))) + +# Conveniently, AlignProfiles() returns an AAStringSet, so we can use our +# writeALN function to show it. Here is an arbitrary block, from somewhere in +# the middle of the alignment: + +writeALN(ppa, range = c(751, 810)) + +# If you look at this for a while, you can begin to figue out where the +# algorithms made different decisions about where to insert gaps, and how to +# move segments of sequence around. But matters become more clear if we +# post-process this profile-profile alignment. Let's replace all hyphens that +# the pp-alignment has inserted with blanks, and let's add a separator line down +# the middle between the two alignments. + +x <- unlist(strsplit(as.character(ppa), "")) # unlist all +dim(x) <- c(width(ppa)[1], length(ppa)) # form into matrix by columns +x <- t(x) # transpose the matrix +(a1 <- 1:(nrow(x)/2)) # rows of alignment 1 +(a2 <- ((nrow(x)/2) + 1):nrow(x)) # rows of alignment 2 +for (i in 1:ncol(x)) { + if (all(x[a1, i] == "-")) { x[a1, i] <- " " } # blank hyphens that shift + if (all(x[a2, i] == "-")) { x[a2, i] <- " " } # original alignment blocks +} + +# collapse the matrix into strings +ppa2 <- character() +for (i in 1:nrow(x)) { + ppa2[i] <- paste0(x[i, ], collapse = "") + names(ppa2)[i] <- names(ppa)[i] +} + +# add a separator line +x <- paste0(rep("-", width(ppa)[1]), collapse = "") +ppa2 <- c(ppa2[a1], x, ppa2[a2]) + +# inspect +writeALN(ppa2, range = c(800, 960)) + +# Again, go explore, and get a sense of what's going on. You may find that +# CLUSTAL W has a tendency to insert short gaps all over the alignment, whereas +# MUSCLE keeps indels in blocks. CLUSTAL's behaviour is exactly what I would +# expect from an algorithm that builds alignments incrementally from pairwise +# local alignments, without global refinement. + + +# = 6 Sequence Logos ====================================================== + +# To visualize the information that we can get about structure and function with +# an MSA, we'll calculate a sequence logo of the Mbp1 recognition helix - the +# part of the structure that inserts into the major groove of the DNA and +# provides sequence specificity to the DNA binding of this transcription factor. +# Helix-B in Mbp1 with four residues upstream and downstream spans the sequence +# 43-ANFAKAKRTRILEKEVLKE-61 + +# == 6.1 Subsetting an alignment by motif ================================== + +# Finding the location of such an substring in an alignment is not entirely +# trivial, because the alignment might have produced indels in that sequence. +# Our strategy can be: +# - fetch the sequence from the alignment +# - remove all hyphens +# - find the range where the target sequence matches +# - count how many characters in all there are in the aligned sequence, up +# to the start and end of the match +# - these numbers define the range of the match in the alignment. + +x <- as.character(msaM)["MBP1_SACCE"] +xAA <- gsub("-", "", x) + +motif <- "ANFAKAKRTRILEKEVLKE" +(m <- regexpr(motif, xAA)) # matched in position 43, with a length of 19 +(motifStart <- as.numeric(m)) +(motifEnd <- attr(m, "match.length") + motifStart - 1) + +# To count characters, we split the string into single characters ... +x <- unlist(strsplit(x, "")) + +# ... convert this into a boolean, which is true if the character is not +# a hyphen ... +x <- x != "-" + +# ... cast this into a numeric, which turns TRUE into 1 and FALSE into 0 ... +x <- as.numeric(x) + +# ... and sum up the cumulative sum. +x <- cumsum(x) + +# Now we can find where the 43'd and 61'st characters are located in the +# alignment string ... +(aliStart <- which(x == motifStart)[1]) # get the first hit if there are more +(aliEnd <- which(x == motifEnd)[1]) + +# ... and subset the alignment + +(motifAli <- subseq(msaM@unmasked, start = aliStart, end = aliEnd)) + +# Packaging this into a function is convenient to have, therefore I have added +# such a function to the .utilities.R script: fetchMSAmotif(). Try it: + +wing <- "HEKVQGGFGKYQGTWV" # the MBP1_SACCE APSES "wing" sequence +writeALN(fetchMSAmotif(msaM, wing)) + + +# == 6.2 Plot a Sequence Logo ============================================== + +# The Bioconductor seqLogo:: packager handles only DNA sequences, but there are +# now several good options to plot sequence logos in R, these include dagLogo, +# DiffLogo, Logolas, and motifStack. For our example we will use ggseqlogo +# written by by Omar Waghi, a former UofT BCB student who is now at the EBI. + +if (! requireNamespace("ggseqlogo", quietly=TRUE)) { + install.packages(("ggseqlogo")) +} +# Package information: +# library(help=ggseqlogo) # basic information +# browseVignettes("ggseqlogo") # available vignettes +# data(package = "ggseqlogo") # available datasets + +ggseqlogo::ggseqlogo(as.character(motifAli)) + + + + + +# [END] diff --git a/BIN-ALI-Optimal_sequence_alignment.R b/BIN-ALI-Optimal_sequence_alignment.R index 54919f2..1960cd2 100644 --- a/BIN-ALI-Optimal_sequence_alignment.R +++ b/BIN-ALI-Optimal_sequence_alignment.R @@ -1,365 +1,365 @@ -# tocID <- "BIN-ALI-Optimal_sequence_alignment.R" -# -# Purpose: A Bioinformatics Course: -# R code accompanying the BIN-ALI-Optimal_sequence_alignment unit. -# -# ============================================================================== -# Version: 1.7.1 -# -# Date: 2017-09 - 2020-10 -# Author: Boris Steipe (boris.steipe@utoronto.ca) -# -# Versions: -# 1.7.1 add jsonlite:: to fromjJSON() in code sample and ./myScripts/ -# 1.7 2020 updates -# 1.6 Maintenance -# 1.5 Change from require() to requireNamespace(), -# use ::() idiom throughout -# 1.4 Pull s2c() from seqinr package, rather then loading the -# entire library. -# 1.3 Updated confirmation task with correct logic -# 1.2 Added missing load of seqinr package -# 1.1 Update annotation file logic - it could already have been -# prepared in the BIN-FUNC-Annotation unit. -# 1.0.1 bugfix -# 1.0 First 2017 live version. -# 0.1 First code copied from 2016 material. -# -# TODO: -# -# -# == DO NOT SIMPLY source() THIS FILE! ======================================= -# -# If there are portions you don't understand, use R's help system, Google for an -# answer, or ask your instructor. Don't continue if you don't understand what's -# going on. That's not how it works ... -# -# ============================================================================== - - -#TOC> ========================================================================== -#TOC> -#TOC> Section Title Line -#TOC> -------------------------------------------------------------------------- -#TOC> 1 Prepare 58 -#TOC> 2 Biostrings Pairwise Alignment 75 -#TOC> 2.1 Optimal global alignment 93 -#TOC> 2.2 Optimal local alignment 156 -#TOC> 3 APSES Domain annotation by alignment 180 -#TOC> 4 Update your database script 261 -#TOC> 4.1 Preparing an annotation file ... 267 -#TOC> 4.1.1 If you HAVE NOT done the BIN-FUNC-Annotation unit 269 -#TOC> 4.1.2 If you HAVE done the BIN-FUNC-Annotation unit 314 -#TOC> 4.2 Execute and Validate 338 -#TOC> -#TOC> ========================================================================== - - -# = 1 Prepare ============================================================= - -if (! requireNamespace("seqinr", quietly=TRUE)) { - install.packages("seqinr") -} -# You can get package information with the following commands: -# library(help = seqinr) # basic information -# browseVignettes("seqinr") # available vignettes -# data(package = "seqinr") # available datasets - - -# You need to recreate the protein database that you have constructed in the -# BIN-Storing_data unit. - -source("./myScripts/makeProteinDB.R") - - -# = 2 Biostrings Pairwise Alignment ======================================= - - -if (!requireNamespace("BiocManager", quietly=TRUE)) { - install.packages("BiocManager") -} -if (!requireNamespace("Biostrings", quietly=TRUE)) { - BiocManager::install("Biostrings") -} -# Package information: -# library(help = Biostrings) # basic information -# browseVignettes("Biostrings") # available vignettes -# data(package = "Biostrings") # available datasets - - -# Biostrings stores sequences in "XString" objects. Once we have converted our -# target sequences to AAString objects, the alignment itself is straightforward. - -# == 2.1 Optimal global alignment ========================================== - -# The pairwiseAlignment() function was written to behave -# exactly like the functions you encountered on the EMBOSS server. - -# First: make AAString objects ... -sel <- myDB$protein$name == "MBP1_SACCE" -aaMBP1_SACCE <- Biostrings::AAString(myDB$protein$sequence[sel]) - -sel <- myDB$protein$name == paste("MBP1_", biCode(MYSPE), sep = "") -aaMBP1_MYSPE <- Biostrings::AAString(myDB$protein$sequence[sel]) - -?pairwiseAlignment -# ... and align. -# Global optimal alignment with end-gap penalties is default. -ali1 <- Biostrings::pairwiseAlignment( - aaMBP1_SACCE, - aaMBP1_MYSPE, - substitutionMatrix = "BLOSUM62", - gapOpening = 10, - gapExtension = 0.5) - -str(ali1) # ... it's complicated - -# This is a Biostrings alignment object. But we can use Biostrings functions to -# tame it: -ali1 -Biostrings::writePairwiseAlignments(ali1) # That should look familiar - -# And we can make the internal structure work for us (@ is for classes as -# $ is for lists ...) -str(ali1@pattern) -ali1@pattern -ali1@pattern@range -ali1@pattern@indel -ali1@pattern@mismatch - -# or work with "normal" R functions -# the alignment length -nchar(as.character(ali1@pattern)) - -# the number of identities -sum(seqinr::s2c(as.character(ali1@pattern)) == - seqinr::s2c(as.character(ali1@subject))) - -# ... e.g. to calculate the percentage of identities -100 * - sum(seqinr::s2c(as.character(ali1@pattern)) == - seqinr::s2c(as.character(ali1@subject))) / - nchar(as.character(ali1@pattern)) -# ... which should be the same as reported in the writePairwiseAlignments() -# output. Awkward to type? Then it calls for a function: -# -percentID <- function(al) { - # returns the percent-identity of a Biostrings alignment object - return(100 * - sum(seqinr::s2c(as.character(al@pattern)) == - seqinr::s2c(as.character(al@subject))) / - nchar(as.character(al@pattern))) -} - -percentID(ali1) - -# == 2.2 Optimal local alignment =========================================== - -# Compare with local optimal alignment (like EMBOSS Water) -ali2 <- Biostrings::pairwiseAlignment( - aaMBP1_SACCE, - aaMBP1_MYSPE, - type = "local", - substitutionMatrix = "BLOSUM62", - gapOpening = 50, - gapExtension = 10) - -Biostrings::writePairwiseAlignments(ali2) -# This has probably only aligned the N-terminal DNA binding domain - but that -# one has quite high sequence identity: -percentID(ali2) - -# == TASK: == - -# Compare the two alignments. I have weighted the local alignment heavily -# towards an ungapped alignment by setting very high gap penalties. Try changing -# the gap penalties and see what happens: how does the number of indels change, -# how does the length of indels change... - - -# = 3 APSES Domain annotation by alignment ================================ - -# In this section we define the MYSPE APSES sequence by performing a global, -# optimal sequence alignment of the yeast APSES domain with the full length -# protein sequence of the protein that was the most similar to the yeast APSES -# domain. -# - -# I have annotated the yeast APSES domain as a feature in the -# database. To view the annotation, we can retrieve it via the proteinID and -# featureID. Here is the yeast protein ID: -(proID <- myDB$protein$ID[myDB$protein$name == "MBP1_SACCE"]) - - -# ... and if you look at the feature table, you can identify the feature ID -(ftrID <- myDB$feature$ID[myDB$feature$name == "APSES fold"]) - -# ... and with the two annotations we can get the corresponding ID from the -# annotation table -(fanID <- myDB$annotation$ID[myDB$annotation$proteinID == proID & - myDB$annotation$featureID == ftrID]) - -myDB$annotation[myDB$annotation$ID == proID & - myDB$annotation$ID == ftrID, ] - -# The annotation record contains the start and end coordinates which we can use -# to define the APSES domain sequence with a substr() expression. - -(start <- myDB$annotation$start[myDB$annotation$ID == fanID]) -(end <- myDB$annotation$end[myDB$annotation$ID == fanID]) -(apses <- substr(myDB$protein$sequence[myDB$protein$ID == proID], - start, - end)) - -# Lots of code. But don't get lost. Let's recapitulate what we have done: we -# have selected from the sequence column of the protein table the sequence whose -# name is "MBP1_SACCE", and selected from the annotation table the start -# and end coordinates of the annotation that joins an "APSES fold" feature with -# the sequence, and used the start and end coordinates to extract a substring. - -# Let's convert this to an AAstring and assign it: -aaMB1_SACCE_APSES <- Biostrings::AAString(apses) - -# Now let's align these two sequences of very different length without end-gap -# penalties using the "overlap" type. "overlap" turns the -# end-gap penalties off and that is crucially important since -# the sequences have very different length. - -aliApses <- Biostrings::pairwiseAlignment( - aaMB1_SACCE_APSES, - aaMBP1_MYSPE, - type = "overlap", - substitutionMatrix = "BLOSUM62", - gapOpening = 10, - gapExtension = 0.5) - -# Inspect the result. The aligned sequences should be clearly -# homologous, and have (almost) no indels. The entire "pattern" -# sequence from QIYSAR ... to ... KPLFDF should be matched -# with the "query". Is this correct? -Biostrings::writePairwiseAlignments(aliApses) - -# If this is correct, you can extract the matched sequence from -# the alignment object. The syntax is a bit different from what -# you have seen before: this is an "S4 object", not a list. No -# worries: as.character() returns a normal string. -as.character(aliApses@subject) - -# Now, what are the aligned start and end coordinates? You can read them from -# the output of writePairwiseAlignments(), or you can get them from the range of -# the match. - -str(aliApses@subject@range) - -# start is: -aliApses@subject@range@start - -# ... and end is: -aliApses@subject@range@start + aliApses@subject@range@width - 1 - - -# = 4 Update your database script ========================================= - - -# Since we have this feature defined now, we can create a feature annotation -# right away and store it in myDB. - -# == 4.1 Preparing an annotation file ... ================================== -# -# === 4.1.1 If you HAVE NOT done the BIN-FUNC-Annotation unit -# -# -# You DON'T already have a file called "-Annotations.json" in the -# ./myScripts/ directory: -# -# - Make a copy of the file "./data/refAnnotations.json" and put it in your -# myScripts/ directory. -# -# - Give it a name that is structured like "-Annotations.json" - e.g. -# if MYSPE is called "Crptycoccus neoformans", your file should be called -# "CRYNE-Annotations.json" (and the "name" of your Mbp1 orthologue is -# "MBP1_CRYNE"). -# -# - Open the file in the RStudio editor and delete all blocks for -# the Mbp1 protein annotations except the first one. -# -# - From that block, delete all lines except for the line that says: -# -# {"pName" : "MBP1_SACCE", "fName" : "APSES fold", "start" : "4", "end" : "102"}, -# -# - Then delete the comma at the end of the line (your file will just have -# this one annotation). -# -# - Edit that annotation: change MBP1_SACCE to MBP1_ and change the -# "start" and "end" features to the coordinates you just discovered for the -# APSES domain in your sequence. -# -# - Save the file in your myScripts/ directory -# -## - Validate your file online at https://jsonlint.com/ -# -# - Update your "./myScripts/makeProteinDB.R" script to load your new -# annotation when you recreate the database. Open the script in the -# RStudio editor, and add the following command at the end: -# -# myDB <- dbAddAnnotation(myDB, -# jsonlite::fromJSON("./myScripts/-Annotations.json")) -# ^^^^^^^ -# edit this! -# - save and close the file. -# -# Then SKIP the next section. -# -# -# === 4.1.2 If you HAVE done the BIN-FUNC-Annotation unit -# -# -# You DO already have a file called "-Annotations.json" in the -# ./myScripts/ directory: -# -# - Open the file in the RStudio editor. -# -# - Below the last feature lines (but before the closing "]") add the -# following feature line (without the "#") -# -# {"pName" : "MBP1_SACCE", "fName" : "APSES fold", "start" : "4", "end" : "102"} -# -# - Edit that annotation: change MBP1_SACCE to MBP1_ and change the -# "start" and "end" features to the coordinates you just discovered for the -# APSES domain in your sequence. -# -# - Add a comma after the preceding feature line. -# -# - Save your file. -# -# - Validate your file online at https://jsonlint.com/ -# -# -# == 4.2 Execute and Validate ============================================== -# -# - source() your database creation script: -# -# source("./myScripts/makeProteinDB.R") -# -# This should run without errors or warnings. If it doesn't work and you -# can't figure out quickly what's happening, ask on the mailing list for -# help. -# -# - Confirm -# The following commands should retrieve the correct start and end -# coordinates and sequence of the MBP1_MYSPE APSES domain: - -sel <- which(myDB$protein$name == paste("MBP1_", biCode(MYSPE), sep = "")) - -(proID <- myDB$protein$ID[sel]) -(ftrID <- myDB$feature$ID[myDB$feature$name == "APSES fold"]) -(fanID <- myDB$annotation$ID[myDB$annotation$proteinID == proID & - myDB$annotation$featureID == ftrID]) -(start <- myDB$annotation$start[myDB$annotation$ID == fanID]) -(end <- myDB$annotation$end[myDB$annotation$ID == fanID]) -(apses <- substr(myDB$protein$sequence[myDB$protein$ID == proID], - start, - end)) - - -# [END] +# tocID <- "BIN-ALI-Optimal_sequence_alignment.R" +# +# Purpose: A Bioinformatics Course: +# R code accompanying the BIN-ALI-Optimal_sequence_alignment unit. +# +# ============================================================================== +# Version: 1.7.1 +# +# Date: 2017-09 - 2020-10 +# Author: Boris Steipe (boris.steipe@utoronto.ca) +# +# Versions: +# 1.7.1 add jsonlite:: to fromjJSON() in code sample and ./myScripts/ +# 1.7 2020 updates +# 1.6 Maintenance +# 1.5 Change from require() to requireNamespace(), +# use ::() idiom throughout +# 1.4 Pull s2c() from seqinr package, rather then loading the +# entire library. +# 1.3 Updated confirmation task with correct logic +# 1.2 Added missing load of seqinr package +# 1.1 Update annotation file logic - it could already have been +# prepared in the BIN-FUNC-Annotation unit. +# 1.0.1 bugfix +# 1.0 First 2017 live version. +# 0.1 First code copied from 2016 material. +# +# TODO: +# +# +# == DO NOT SIMPLY source() THIS FILE! ======================================= +# +# If there are portions you don't understand, use R's help system, Google for an +# answer, or ask your instructor. Don't continue if you don't understand what's +# going on. That's not how it works ... +# +# ============================================================================== + + +#TOC> ========================================================================== +#TOC> +#TOC> Section Title Line +#TOC> -------------------------------------------------------------------------- +#TOC> 1 Prepare 58 +#TOC> 2 Biostrings Pairwise Alignment 75 +#TOC> 2.1 Optimal global alignment 93 +#TOC> 2.2 Optimal local alignment 156 +#TOC> 3 APSES Domain annotation by alignment 180 +#TOC> 4 Update your database script 261 +#TOC> 4.1 Preparing an annotation file ... 267 +#TOC> 4.1.1 If you HAVE NOT done the BIN-FUNC-Annotation unit 269 +#TOC> 4.1.2 If you HAVE done the BIN-FUNC-Annotation unit 314 +#TOC> 4.2 Execute and Validate 338 +#TOC> +#TOC> ========================================================================== + + +# = 1 Prepare ============================================================= + +if (! requireNamespace("seqinr", quietly=TRUE)) { + install.packages("seqinr") +} +# You can get package information with the following commands: +# library(help = seqinr) # basic information +# browseVignettes("seqinr") # available vignettes +# data(package = "seqinr") # available datasets + + +# You need to recreate the protein database that you have constructed in the +# BIN-Storing_data unit. + +source("./myScripts/makeProteinDB.R") + + +# = 2 Biostrings Pairwise Alignment ======================================= + + +if (!requireNamespace("BiocManager", quietly=TRUE)) { + install.packages("BiocManager") +} +if (!requireNamespace("Biostrings", quietly=TRUE)) { + BiocManager::install("Biostrings") +} +# Package information: +# library(help = Biostrings) # basic information +# browseVignettes("Biostrings") # available vignettes +# data(package = "Biostrings") # available datasets + + +# Biostrings stores sequences in "XString" objects. Once we have converted our +# target sequences to AAString objects, the alignment itself is straightforward. + +# == 2.1 Optimal global alignment ========================================== + +# The pairwiseAlignment() function was written to behave +# exactly like the functions you encountered on the EMBOSS server. + +# First: make AAString objects ... +sel <- myDB$protein$name == "MBP1_SACCE" +aaMBP1_SACCE <- Biostrings::AAString(myDB$protein$sequence[sel]) + +sel <- myDB$protein$name == paste("MBP1_", biCode(MYSPE), sep = "") +aaMBP1_MYSPE <- Biostrings::AAString(myDB$protein$sequence[sel]) + +?pairwiseAlignment +# ... and align. +# Global optimal alignment with end-gap penalties is default. +ali1 <- Biostrings::pairwiseAlignment( + aaMBP1_SACCE, + aaMBP1_MYSPE, + substitutionMatrix = "BLOSUM62", + gapOpening = 10, + gapExtension = 0.5) + +str(ali1) # ... it's complicated + +# This is a Biostrings alignment object. But we can use Biostrings functions to +# tame it: +ali1 +Biostrings::writePairwiseAlignments(ali1) # That should look familiar + +# And we can make the internal structure work for us (@ is for classes as +# $ is for lists ...) +str(ali1@pattern) +ali1@pattern +ali1@pattern@range +ali1@pattern@indel +ali1@pattern@mismatch + +# or work with "normal" R functions +# the alignment length +nchar(as.character(ali1@pattern)) + +# the number of identities +sum(seqinr::s2c(as.character(ali1@pattern)) == + seqinr::s2c(as.character(ali1@subject))) + +# ... e.g. to calculate the percentage of identities +100 * + sum(seqinr::s2c(as.character(ali1@pattern)) == + seqinr::s2c(as.character(ali1@subject))) / + nchar(as.character(ali1@pattern)) +# ... which should be the same as reported in the writePairwiseAlignments() +# output. Awkward to type? Then it calls for a function: +# +percentID <- function(al) { + # returns the percent-identity of a Biostrings alignment object + return(100 * + sum(seqinr::s2c(as.character(al@pattern)) == + seqinr::s2c(as.character(al@subject))) / + nchar(as.character(al@pattern))) +} + +percentID(ali1) + +# == 2.2 Optimal local alignment =========================================== + +# Compare with local optimal alignment (like EMBOSS Water) +ali2 <- Biostrings::pairwiseAlignment( + aaMBP1_SACCE, + aaMBP1_MYSPE, + type = "local", + substitutionMatrix = "BLOSUM62", + gapOpening = 50, + gapExtension = 10) + +Biostrings::writePairwiseAlignments(ali2) +# This has probably only aligned the N-terminal DNA binding domain - but that +# one has quite high sequence identity: +percentID(ali2) + +# == TASK: == + +# Compare the two alignments. I have weighted the local alignment heavily +# towards an ungapped alignment by setting very high gap penalties. Try changing +# the gap penalties and see what happens: how does the number of indels change, +# how does the length of indels change... + + +# = 3 APSES Domain annotation by alignment ================================ + +# In this section we define the MYSPE APSES sequence by performing a global, +# optimal sequence alignment of the yeast APSES domain with the full length +# protein sequence of the protein that was the most similar to the yeast APSES +# domain. +# + +# I have annotated the yeast APSES domain as a feature in the +# database. To view the annotation, we can retrieve it via the proteinID and +# featureID. Here is the yeast protein ID: +(proID <- myDB$protein$ID[myDB$protein$name == "MBP1_SACCE"]) + + +# ... and if you look at the feature table, you can identify the feature ID +(ftrID <- myDB$feature$ID[myDB$feature$name == "APSES fold"]) + +# ... and with the two annotations we can get the corresponding ID from the +# annotation table +(fanID <- myDB$annotation$ID[myDB$annotation$proteinID == proID & + myDB$annotation$featureID == ftrID]) + +myDB$annotation[myDB$annotation$ID == proID & + myDB$annotation$ID == ftrID, ] + +# The annotation record contains the start and end coordinates which we can use +# to define the APSES domain sequence with a substr() expression. + +(start <- myDB$annotation$start[myDB$annotation$ID == fanID]) +(end <- myDB$annotation$end[myDB$annotation$ID == fanID]) +(apses <- substr(myDB$protein$sequence[myDB$protein$ID == proID], + start, + end)) + +# Lots of code. But don't get lost. Let's recapitulate what we have done: we +# have selected from the sequence column of the protein table the sequence whose +# name is "MBP1_SACCE", and selected from the annotation table the start +# and end coordinates of the annotation that joins an "APSES fold" feature with +# the sequence, and used the start and end coordinates to extract a substring. + +# Let's convert this to an AAstring and assign it: +aaMB1_SACCE_APSES <- Biostrings::AAString(apses) + +# Now let's align these two sequences of very different length without end-gap +# penalties using the "overlap" type. "overlap" turns the +# end-gap penalties off and that is crucially important since +# the sequences have very different length. + +aliApses <- Biostrings::pairwiseAlignment( + aaMB1_SACCE_APSES, + aaMBP1_MYSPE, + type = "overlap", + substitutionMatrix = "BLOSUM62", + gapOpening = 10, + gapExtension = 0.5) + +# Inspect the result. The aligned sequences should be clearly +# homologous, and have (almost) no indels. The entire "pattern" +# sequence from QIYSAR ... to ... KPLFDF should be matched +# with the "query". Is this correct? +Biostrings::writePairwiseAlignments(aliApses) + +# If this is correct, you can extract the matched sequence from +# the alignment object. The syntax is a bit different from what +# you have seen before: this is an "S4 object", not a list. No +# worries: as.character() returns a normal string. +as.character(aliApses@subject) + +# Now, what are the aligned start and end coordinates? You can read them from +# the output of writePairwiseAlignments(), or you can get them from the range of +# the match. + +str(aliApses@subject@range) + +# start is: +aliApses@subject@range@start + +# ... and end is: +aliApses@subject@range@start + aliApses@subject@range@width - 1 + + +# = 4 Update your database script ========================================= + + +# Since we have this feature defined now, we can create a feature annotation +# right away and store it in myDB. + +# == 4.1 Preparing an annotation file ... ================================== +# +# === 4.1.1 If you HAVE NOT done the BIN-FUNC-Annotation unit +# +# +# You DON'T already have a file called "-Annotations.json" in the +# ./myScripts/ directory: +# +# - Make a copy of the file "./data/refAnnotations.json" and put it in your +# myScripts/ directory. +# +# - Give it a name that is structured like "-Annotations.json" - e.g. +# if MYSPE is called "Crptycoccus neoformans", your file should be called +# "CRYNE-Annotations.json" (and the "name" of your Mbp1 orthologue is +# "MBP1_CRYNE"). +# +# - Open the file in the RStudio editor and delete all blocks for +# the Mbp1 protein annotations except the first one. +# +# - From that block, delete all lines except for the line that says: +# +# {"pName" : "MBP1_SACCE", "fName" : "APSES fold", "start" : "4", "end" : "102"}, +# +# - Then delete the comma at the end of the line (your file will just have +# this one annotation). +# +# - Edit that annotation: change MBP1_SACCE to MBP1_ and change the +# "start" and "end" features to the coordinates you just discovered for the +# APSES domain in your sequence. +# +# - Save the file in your myScripts/ directory +# +## - Validate your file online at https://jsonlint.com/ +# +# - Update your "./myScripts/makeProteinDB.R" script to load your new +# annotation when you recreate the database. Open the script in the +# RStudio editor, and add the following command at the end: +# +# myDB <- dbAddAnnotation(myDB, +# jsonlite::fromJSON("./myScripts/-Annotations.json")) +# ^^^^^^^ +# edit this! +# - save and close the file. +# +# Then SKIP the next section. +# +# +# === 4.1.2 If you HAVE done the BIN-FUNC-Annotation unit +# +# +# You DO already have a file called "-Annotations.json" in the +# ./myScripts/ directory: +# +# - Open the file in the RStudio editor. +# +# - Below the last feature lines (but before the closing "]") add the +# following feature line (without the "#") +# +# {"pName" : "MBP1_SACCE", "fName" : "APSES fold", "start" : "4", "end" : "102"} +# +# - Edit that annotation: change MBP1_SACCE to MBP1_ and change the +# "start" and "end" features to the coordinates you just discovered for the +# APSES domain in your sequence. +# +# - Add a comma after the preceding feature line. +# +# - Save your file. +# +# - Validate your file online at https://jsonlint.com/ +# +# +# == 4.2 Execute and Validate ============================================== +# +# - source() your database creation script: +# +# source("./myScripts/makeProteinDB.R") +# +# This should run without errors or warnings. If it doesn't work and you +# can't figure out quickly what's happening, ask on the mailing list for +# help. +# +# - Confirm +# The following commands should retrieve the correct start and end +# coordinates and sequence of the MBP1_MYSPE APSES domain: + +sel <- which(myDB$protein$name == paste("MBP1_", biCode(MYSPE), sep = "")) + +(proID <- myDB$protein$ID[sel]) +(ftrID <- myDB$feature$ID[myDB$feature$name == "APSES fold"]) +(fanID <- myDB$annotation$ID[myDB$annotation$proteinID == proID & + myDB$annotation$featureID == ftrID]) +(start <- myDB$annotation$start[myDB$annotation$ID == fanID]) +(end <- myDB$annotation$end[myDB$annotation$ID == fanID]) +(apses <- substr(myDB$protein$sequence[myDB$protein$ID == proID], + start, + end)) + + +# [END] diff --git a/BIN-ALI-Similarity.R b/BIN-ALI-Similarity.R index 2af180e..6fcf204 100644 --- a/BIN-ALI-Similarity.R +++ b/BIN-ALI-Similarity.R @@ -1,313 +1,313 @@ -# tocID <- "BIN-ALI-Similarity.R" -# -# Purpose: A Bioinformatics Course: -# R code accompanying the BIN-ALI-Similarity unit. -# -# Version: 1.2 -# -# Date: 2017-10 - 2020-09 -# Author: Boris Steipe (boris.steipe@utoronto.ca) -# -# Versions: -# 1.2 2020 Updates -# 1.1 Change from require() to requireNamespace(), -# use ::() idiom throughout -# 1.0 Refactored for 2017; add aaindex, ternary plot. -# 0.1 First code copied from 2016 material. -# -# -# TODO: -# Update ggtern:: ternary plot to use aacol dots under text -# -# -# == DO NOT SIMPLY source() THIS FILE! ======================================= -# -# If there are portions you don't understand, use R's help system, Google for an -# answer, or ask your instructor. Don't continue if you don't understand what's -# going on. That's not how it works ... -# -# ============================================================================== - - -#TOC> ========================================================================== -#TOC> -#TOC> Section Title Line -#TOC> ---------------------------------------------- -#TOC> 1 Amino Acid Properties 43 -#TOC> 2 Mutation Data matrix 189 -#TOC> 3 Background score 230 -#TOC> -#TOC> ========================================================================== - - -# = 1 Amino Acid Properties =============================================== - -# A large collection of amino acid property tables is available via the seqinr -# package: - -if (! requireNamespace("seqinr", quietly=TRUE)) { - install.packages("seqinr") -} -# Package information: -# library(help = seqinr) # basic information -# browseVignettes("seqinr") # available vignettes -# data(package = "seqinr") # available datasets - -# A true Labor of Love has gone into the compilation of the seqinr "aaindex" -# data: - -?aaindex -data(aaindex, package = "seqinr") # load the aaindex list from the package - -length(aaindex) - -# Here are all the index descriptions -for (i in 1:length(aaindex)) { - cat(paste(i, ": ", aaindex[[i]]$D, "\n", sep="")) -} - -# It's a bit cumbersome to search through the descriptions ... here is a -# function to make this easier: - -searchAAindex <- function(patt) { - # Searches the aaindex descriptions for regular expression "patt" - # and prints index number and description. - hits <- which(sapply(aaindex, function(x) length(grep(patt, x$D)) > 0)) - for (i in seq_along(hits)) { - cat(sprintf("%3d\t%s\n", hits[i], aaindex[[ hits[i] ]]$D)) - } -} - - -searchAAindex("free energy") # Search for "free energy" -searchAAindex("(size)|(volume)") # Search for "size" or "volume": - - - - -# Let's examine ... -# ... a hydrophobicity index -(Y <- aaindex[[528]][c("D", "I")]) - -# ... a volume index -(V <- aaindex[[150]][c("D", "I")]) - -# ... and one of our own: side-chain pK values as reported by -# Pace et al. (2009) JBC 284:13285-13289, with non-ionizable pKs set -# to 7.4 (physiological pH) -K <- list(I = c( 7.4, # Ala - 12.3, # Arg - 7.4, # Asn - 3.9, # Asp - 8.6, # Cys - 7.4, # Gln - 4.3, # Glu - 7.4, # Gly - 6.5, # His - 7.4, # Ile - 7.4, # Leu - 10.4, # Lys - 7.4, # Met - 7.4, # Phe - 7.4, # Pro - 7.4, # Ser - 7.4, # Thr - 7.4, # Trp - 9.8, # Tyr - 7.4)) # Val -names(K$I) <- c("Ala","Arg","Asn","Asp","Cys","Gln","Glu","Gly","His","Ile", - "Leu","Lys","Met","Phe","Pro","Ser","Thr","Trp","Tyr","Val") - - -# Given these biophysical indices, how similar are the amino acids? We have three-dimensions of measures here. Scatterplots can only display two dimensions ... - -# pull the names from Y$I, convert them to single letter code, and reorder the -# AACOLS palette accordingly ... -aac <- AACOLS[toupper(seqinr::a(names(Y$I)))] - -plot(Y$I, V$I, - xlab = "hydrophobicity", ylab = "volume", - pch = 21, - cex = 6, - col = aac, - bg = aac) -text(Y$I, V$I, names(Y$I), cex = 0.8) - -plot(Y$I, K$I, - xlab = "hydrophobicity", ylab = "pK", - pch = 21, - cex = 6, - col = aac, - bg = aac) -text(Y$I, K$I, names(Y$I), cex = 0.8) - -# ... but how do we plot 3D data? Plotting into a 3D cube is possible, but such -# plots are in general unintuitive and hard to interpret. One alternative is a -# so-called "ternary plot": - -if (! requireNamespace("ggtern", quietly=TRUE)) { - install.packages("ggtern") -} -# Package information: -# library(help = ggtern) # basic information -# browseVignettes("ggtern") # available vignettes -# data(package = "ggtern") # available datasets - - - -# collect into data frame, normalize to (0.05, 0.95) -myDat <- data.frame("phi" = 0.9*(((Y$I-min(Y$I))/(max(Y$I)-min(Y$I))))+0.05, - "vol" = 0.9*(((V$I-min(V$I))/(max(V$I)-min(V$I))))+0.05, - "pK" = 0.9*(((K$I-min(K$I))/(max(K$I)-min(K$I))))+0.05, - stringsAsFactors = FALSE) -rownames(myDat) <- names(Y$I) - -ggtern::ggtern(data = myDat, - ggplot2::aes(x = vol, - y = phi, - z = pK, - label = rownames(myDat))) + ggplot2::geom_text() - -# This results in a mapping of amino acids relative to each other that is -# similar to the Venn diagram you have seen in the notes. - -# ... or we could use principal components analysis, to pull out the -# best projection of the three feature dimensions into two. (Done here without delving -# into the theory ...) -prc <- prcomp(myDat) -plot(prc$x[,1], prc$x[,2], xlab="", ylab="", xaxt="n", yaxt="n", - pch=19, cex=6, col=aad, cex.main=0.7, - main="Principal Component Analysis of Amino Acid Features") -text(prc$x[,1], prc$x[,2], names(Y$I), cex = 0.8, col="#00000088") - -# This matches the intuition rather well in that "similar" amino acids are close -# on the plot. But we can't interpret the distances in terms of just one of the -# parameters. Whatever - nature has a different way to define similarity: -# mutations to similar amino acids are less likely to break the protein. - - -# = 2 Mutation Data matrix ================================================ - -# A mutation data matrix encodes all amino acid pairscores in a matrix. - -# The Biostrings package contains the most common mutation data matrices. - -if (! requireNamespace("BiocManager", quietly=TRUE)) { - install.packages("BiocManager") -} -if (! requireNamespace("Biostrings", quietly=TRUE)) { - BiocManager::install("Biostrings") -} -# Package information: -# library(help=Biostrings) # basic information -# browseVignettes("Biostrings") # available vignettes -# data(package = "Biostrings") # available datasets - -# Let's attach the BLOSUM62 mutation data matrix from the package -data(BLOSUM62, package = "Biostrings") - -# ... and see what it contains. (You've seen this matrix before.) -BLOSUM62 - -# We can simply access values via the row/column names. -# Identical amino acids have high scores ... -BLOSUM62["H", "H"] # Score for a pair of two histidines -BLOSUM62["S", "S"] # Score for a pair of two serines - -# Similar amino acids have low positive scores ... -BLOSUM62["L", "I"] # Score for a leucine / lysine pair -BLOSUM62["F", "Y"] # etc. - -# Dissimilar amino acids have negative scores ... -BLOSUM62["L", "K"] # Score for a leucine / lysine pair -BLOSUM62["Q", "P"] # etc. - - -BLOSUM62["R", "W"] # the matrix is symmetric! -BLOSUM62["W", "R"] - - -# = 3 Background score ==================================================== - -# The mutation data matrix is designed to give high scores to homologous -# sequences, low scores to non-homologous sequences. What score on average -# should we expect for a random sequence? - -# If we sample amino acid pairs at random, we will get a score that is the -# average of the individual pairscores in the matrix. Omitting the ambiguity -# codes and the gap character: - -sum(BLOSUM62[1:20, 1:20])/400 - -# But that score could be higher for real sequences, for which the amino acid -# distribution is not random. For example membrane proteins have a large number -# of hydrophobic residues - an alignment of unrelated proteins might produce -# positive scores. And there are other proteins with biased amino acid -# compositions, in particular poteins that interact with multiple other -# proteins. Let's test how this impacts the background score by comparing a -# sequence with shuffled sequences. These have the same composition, but are -# obvioulsy not homologous. The data directory contains the FASTA file for the -# PDB ID 3FG7 - a villin headpiece structure with a large amount of -# low-complexity amino acid sequence ... - -aa3FG7 <- Biostrings::readAAStringSet("./data/3FG7.fa")[[1]] - -# ... and the FASTA file for the E. coli OmpG outer membrane porin (PDB: 2F1C) -# with an exceptionally high percentage of hydrophobic residues. - -aa2F1C <- Biostrings::readAAStringSet("./data/2F1C.fa")[[1]] - -# Here is a function that takes two sequences and -# returns their average pairscore. - -averagePairScore <- function(a, b, MDM = BLOSUM62) { - # Returns average pairscore of two sequences. - # Parameters: - # a, b chr amino acid sequence string - # MDM mutation data matrix. Default is BLOSUM62 - # Value: num average pairscore. - a <- unlist(strsplit(a, "")) - b <- unlist(strsplit(b, "")) - v <- 0 - for (i in seq_along(a)) { - v <- v + MDM[ a[i], b[i] ] - } - return(v / length(a)) -} - -orig3FG7 <- toString(aa3FG7) -orig2F1C <- toString(aa2F1C) -N <- 1000 -scores3FG7 <- numeric(N) -scores2F1C <- numeric(N) -for (i in 1:N) { - scores3FG7[i] <- averagePairScore(orig3FG7, toString(sample(aa3FG7))) - scores2F1C[i] <- averagePairScore(orig2F1C, toString(sample(aa2F1C))) -} - -# Plot the distributions -hist(scores3FG7, - col="#5599EE33", - breaks = seq(-1.5, 0, by=0.1), - main = "Pairscores for randomly shuffled sequences", - xlab = "Average pairscore from BLOSUM 62") -hist(scores2F1C, - col="#55EE9933", - breaks = seq(-1.5, 0, by=0.1), - add = TRUE) -abline(v = sum(BLOSUM62[1:20, 1:20])/400, col = "firebrick", lwd = 2) -legend('topright', - c("3FG7 (villin)", "2F1C (OmpG)"), - fill = c("#5599EE33", "#55EE9933"), bty = 'n', - inset = 0.1) - -# This is an important result: even though we have shuffled significantly biased -# sequences, and the average scores trend above the average of the mutation data -# matrix, the average scores still remain comfortably below zero. This means -# that we can't (in general) improve a high-scoring alignment by simply -# extending it with randomly matched residues. We will only improve the score if -# the similarity of newly added residues is larger than what we expect to get by -# random chance! - - -# [END] +# tocID <- "BIN-ALI-Similarity.R" +# +# Purpose: A Bioinformatics Course: +# R code accompanying the BIN-ALI-Similarity unit. +# +# Version: 1.2 +# +# Date: 2017-10 - 2020-09 +# Author: Boris Steipe (boris.steipe@utoronto.ca) +# +# Versions: +# 1.2 2020 Updates +# 1.1 Change from require() to requireNamespace(), +# use ::() idiom throughout +# 1.0 Refactored for 2017; add aaindex, ternary plot. +# 0.1 First code copied from 2016 material. +# +# +# TODO: +# Update ggtern:: ternary plot to use aacol dots under text +# +# +# == DO NOT SIMPLY source() THIS FILE! ======================================= +# +# If there are portions you don't understand, use R's help system, Google for an +# answer, or ask your instructor. Don't continue if you don't understand what's +# going on. That's not how it works ... +# +# ============================================================================== + + +#TOC> ========================================================================== +#TOC> +#TOC> Section Title Line +#TOC> ---------------------------------------------- +#TOC> 1 Amino Acid Properties 43 +#TOC> 2 Mutation Data matrix 189 +#TOC> 3 Background score 230 +#TOC> +#TOC> ========================================================================== + + +# = 1 Amino Acid Properties =============================================== + +# A large collection of amino acid property tables is available via the seqinr +# package: + +if (! requireNamespace("seqinr", quietly=TRUE)) { + install.packages("seqinr") +} +# Package information: +# library(help = seqinr) # basic information +# browseVignettes("seqinr") # available vignettes +# data(package = "seqinr") # available datasets + +# A true Labor of Love has gone into the compilation of the seqinr "aaindex" +# data: + +?aaindex +data(aaindex, package = "seqinr") # load the aaindex list from the package + +length(aaindex) + +# Here are all the index descriptions +for (i in 1:length(aaindex)) { + cat(paste(i, ": ", aaindex[[i]]$D, "\n", sep="")) +} + +# It's a bit cumbersome to search through the descriptions ... here is a +# function to make this easier: + +searchAAindex <- function(patt) { + # Searches the aaindex descriptions for regular expression "patt" + # and prints index number and description. + hits <- which(sapply(aaindex, function(x) length(grep(patt, x$D)) > 0)) + for (i in seq_along(hits)) { + cat(sprintf("%3d\t%s\n", hits[i], aaindex[[ hits[i] ]]$D)) + } +} + + +searchAAindex("free energy") # Search for "free energy" +searchAAindex("(size)|(volume)") # Search for "size" or "volume": + + + + +# Let's examine ... +# ... a hydrophobicity index +(Y <- aaindex[[528]][c("D", "I")]) + +# ... a volume index +(V <- aaindex[[150]][c("D", "I")]) + +# ... and one of our own: side-chain pK values as reported by +# Pace et al. (2009) JBC 284:13285-13289, with non-ionizable pKs set +# to 7.4 (physiological pH) +K <- list(I = c( 7.4, # Ala + 12.3, # Arg + 7.4, # Asn + 3.9, # Asp + 8.6, # Cys + 7.4, # Gln + 4.3, # Glu + 7.4, # Gly + 6.5, # His + 7.4, # Ile + 7.4, # Leu + 10.4, # Lys + 7.4, # Met + 7.4, # Phe + 7.4, # Pro + 7.4, # Ser + 7.4, # Thr + 7.4, # Trp + 9.8, # Tyr + 7.4)) # Val +names(K$I) <- c("Ala","Arg","Asn","Asp","Cys","Gln","Glu","Gly","His","Ile", + "Leu","Lys","Met","Phe","Pro","Ser","Thr","Trp","Tyr","Val") + + +# Given these biophysical indices, how similar are the amino acids? We have three-dimensions of measures here. Scatterplots can only display two dimensions ... + +# pull the names from Y$I, convert them to single letter code, and reorder the +# AACOLS palette accordingly ... +aac <- AACOLS[toupper(seqinr::a(names(Y$I)))] + +plot(Y$I, V$I, + xlab = "hydrophobicity", ylab = "volume", + pch = 21, + cex = 6, + col = aac, + bg = aac) +text(Y$I, V$I, names(Y$I), cex = 0.8) + +plot(Y$I, K$I, + xlab = "hydrophobicity", ylab = "pK", + pch = 21, + cex = 6, + col = aac, + bg = aac) +text(Y$I, K$I, names(Y$I), cex = 0.8) + +# ... but how do we plot 3D data? Plotting into a 3D cube is possible, but such +# plots are in general unintuitive and hard to interpret. One alternative is a +# so-called "ternary plot": + +if (! requireNamespace("ggtern", quietly=TRUE)) { + install.packages("ggtern") +} +# Package information: +# library(help = ggtern) # basic information +# browseVignettes("ggtern") # available vignettes +# data(package = "ggtern") # available datasets + + + +# collect into data frame, normalize to (0.05, 0.95) +myDat <- data.frame("phi" = 0.9*(((Y$I-min(Y$I))/(max(Y$I)-min(Y$I))))+0.05, + "vol" = 0.9*(((V$I-min(V$I))/(max(V$I)-min(V$I))))+0.05, + "pK" = 0.9*(((K$I-min(K$I))/(max(K$I)-min(K$I))))+0.05, + stringsAsFactors = FALSE) +rownames(myDat) <- names(Y$I) + +ggtern::ggtern(data = myDat, + ggplot2::aes(x = vol, + y = phi, + z = pK, + label = rownames(myDat))) + ggplot2::geom_text() + +# This results in a mapping of amino acids relative to each other that is +# similar to the Venn diagram you have seen in the notes. + +# ... or we could use principal components analysis, to pull out the +# best projection of the three feature dimensions into two. (Done here without delving +# into the theory ...) +prc <- prcomp(myDat) +plot(prc$x[,1], prc$x[,2], xlab="", ylab="", xaxt="n", yaxt="n", + pch=19, cex=6, col=aad, cex.main=0.7, + main="Principal Component Analysis of Amino Acid Features") +text(prc$x[,1], prc$x[,2], names(Y$I), cex = 0.8, col="#00000088") + +# This matches the intuition rather well in that "similar" amino acids are close +# on the plot. But we can't interpret the distances in terms of just one of the +# parameters. Whatever - nature has a different way to define similarity: +# mutations to similar amino acids are less likely to break the protein. + + +# = 2 Mutation Data matrix ================================================ + +# A mutation data matrix encodes all amino acid pairscores in a matrix. + +# The Biostrings package contains the most common mutation data matrices. + +if (! requireNamespace("BiocManager", quietly=TRUE)) { + install.packages("BiocManager") +} +if (! requireNamespace("Biostrings", quietly=TRUE)) { + BiocManager::install("Biostrings") +} +# Package information: +# library(help=Biostrings) # basic information +# browseVignettes("Biostrings") # available vignettes +# data(package = "Biostrings") # available datasets + +# Let's attach the BLOSUM62 mutation data matrix from the package +data(BLOSUM62, package = "Biostrings") + +# ... and see what it contains. (You've seen this matrix before.) +BLOSUM62 + +# We can simply access values via the row/column names. +# Identical amino acids have high scores ... +BLOSUM62["H", "H"] # Score for a pair of two histidines +BLOSUM62["S", "S"] # Score for a pair of two serines + +# Similar amino acids have low positive scores ... +BLOSUM62["L", "I"] # Score for a leucine / lysine pair +BLOSUM62["F", "Y"] # etc. + +# Dissimilar amino acids have negative scores ... +BLOSUM62["L", "K"] # Score for a leucine / lysine pair +BLOSUM62["Q", "P"] # etc. + + +BLOSUM62["R", "W"] # the matrix is symmetric! +BLOSUM62["W", "R"] + + +# = 3 Background score ==================================================== + +# The mutation data matrix is designed to give high scores to homologous +# sequences, low scores to non-homologous sequences. What score on average +# should we expect for a random sequence? + +# If we sample amino acid pairs at random, we will get a score that is the +# average of the individual pairscores in the matrix. Omitting the ambiguity +# codes and the gap character: + +sum(BLOSUM62[1:20, 1:20])/400 + +# But that score could be higher for real sequences, for which the amino acid +# distribution is not random. For example membrane proteins have a large number +# of hydrophobic residues - an alignment of unrelated proteins might produce +# positive scores. And there are other proteins with biased amino acid +# compositions, in particular poteins that interact with multiple other +# proteins. Let's test how this impacts the background score by comparing a +# sequence with shuffled sequences. These have the same composition, but are +# obvioulsy not homologous. The data directory contains the FASTA file for the +# PDB ID 3FG7 - a villin headpiece structure with a large amount of +# low-complexity amino acid sequence ... + +aa3FG7 <- Biostrings::readAAStringSet("./data/3FG7.fa")[[1]] + +# ... and the FASTA file for the E. coli OmpG outer membrane porin (PDB: 2F1C) +# with an exceptionally high percentage of hydrophobic residues. + +aa2F1C <- Biostrings::readAAStringSet("./data/2F1C.fa")[[1]] + +# Here is a function that takes two sequences and +# returns their average pairscore. + +averagePairScore <- function(a, b, MDM = BLOSUM62) { + # Returns average pairscore of two sequences. + # Parameters: + # a, b chr amino acid sequence string + # MDM mutation data matrix. Default is BLOSUM62 + # Value: num average pairscore. + a <- unlist(strsplit(a, "")) + b <- unlist(strsplit(b, "")) + v <- 0 + for (i in seq_along(a)) { + v <- v + MDM[ a[i], b[i] ] + } + return(v / length(a)) +} + +orig3FG7 <- toString(aa3FG7) +orig2F1C <- toString(aa2F1C) +N <- 1000 +scores3FG7 <- numeric(N) +scores2F1C <- numeric(N) +for (i in 1:N) { + scores3FG7[i] <- averagePairScore(orig3FG7, toString(sample(aa3FG7))) + scores2F1C[i] <- averagePairScore(orig2F1C, toString(sample(aa2F1C))) +} + +# Plot the distributions +hist(scores3FG7, + col="#5599EE33", + breaks = seq(-1.5, 0, by=0.1), + main = "Pairscores for randomly shuffled sequences", + xlab = "Average pairscore from BLOSUM 62") +hist(scores2F1C, + col="#55EE9933", + breaks = seq(-1.5, 0, by=0.1), + add = TRUE) +abline(v = sum(BLOSUM62[1:20, 1:20])/400, col = "firebrick", lwd = 2) +legend('topright', + c("3FG7 (villin)", "2F1C (OmpG)"), + fill = c("#5599EE33", "#55EE9933"), bty = 'n', + inset = 0.1) + +# This is an important result: even though we have shuffled significantly biased +# sequences, and the average scores trend above the average of the mutation data +# matrix, the average scores still remain comfortably below zero. This means +# that we can't (in general) improve a high-scoring alignment by simply +# extending it with randomly matched residues. We will only improve the score if +# the similarity of newly added residues is larger than what we expect to get by +# random chance! + + +# [END] diff --git a/BIN-Data_integration.R b/BIN-Data_integration.R index c5e9dc5..0097472 100644 --- a/BIN-Data_integration.R +++ b/BIN-Data_integration.R @@ -1,216 +1,216 @@ -# tocID <- "BIN-Data_integration.R" -# -# Purpose: A Bioinformatics Course: -# R code accompanying the BIN-Data_integration unit. -# -# Version: 1.2 -# -# Date: 2018-10 - 2020-09 -# Author: Boris Steipe (boris.steipe@utoronto.ca) -# -# Versions: -# 1.2 2020 Maintenance and updates -# 1.1 Change from require() to requireNamespace(), -# use ::() idiom throughout -# 1.0.1 Bugfix: UniProt ID Mapping service API change -# 1.0 First live version -# -# -# TODO: -# Develop a fungi-specific BioMart example. -# (cf. -# https://cran.r-project.org/web/packages/biomartr/vignettes/Functional_Annotation.html ) -# -# == DO NOT SIMPLY source() THIS FILE! ======================================= -# -# If there are portions you don't understand, use R's help system, Google for an -# answer, or ask your instructor. Don't continue if you don't understand what's -# going on. That's not how it works ... -# -# ============================================================================== - - -#TOC> ========================================================================== -#TOC> -#TOC> Section Title Line -#TOC> ------------------------------------------------- -#TOC> 1 Identifier mapping 42 -#TOC> 2 Cross-referencing tables 165 -#TOC> -#TOC> ========================================================================== - - -# = 1 Identifier mapping ================================================== - -# UniProt provides a well-designed ID mapping tool that can be accessed -# online at http://www.uniprot.org/mapping/ -# -# Here we will use the UniProt Web API for this tool to map identifiers. The -# UniProt ID mapping service supports a "RESTful API": responses can be obtained -# simply via a Web- browsers request. Such requests are commonly sent via the -# GET or POST verbs that a Webserver responds to, when a client asks for data. -# GET requests are visible in the URL of the request; POST requests are not -# directly visible, they are commonly used to send the contents of forms, or -# when transmitting larger, complex data items. The UniProt ID mapping sevice -# can accept long lists of IDs, thus using the POST mechanism makes sense. GET() -# and POST() functions are part of the httr package. - -# To begin, we load httr, which supports sending and receiving data via the -# http protocol, just like a Web browser. -if (! requireNamespace("httr", quietly=TRUE)) { - install.packages("httr") -} -# Package information: -# library(help = httr) # basic information -# browseVignettes("httr") # available vignettes -# data(package = "httr") # available datasets - - -# We will walk through the process with the refSeqID -# of yeast Mbp1 and Swi4, and we will also enter a dummy ID to check what -# happens if the ID can't be mapped: -myQueryIDs <- "NP_010227 NP_00000 NP_011036" - - -# The UniProt ID mapping service API is very straightforward to use: just define -# the URL of the server and send a list of items labelled as "query" in the body -# of the request. GET() and POST() are functions from httr. - -# Note. A recent bug in the interaction between the server expectations and the -# curl client libraries requires the following initialization -httr::set_config(httr::config(http_version = 0)) -# cf. https://stackoverflow.com/questions/44610845/stream-error-in-the-http-2-framing-layer-bigrquery-commands-error-in-r-studio-b - - -URL <- "https://www.uniprot.org/mapping/" -response <- httr::POST(URL, - body = list(from = "P_REFSEQ_AC", # Refseq Protein - to = "ACC", # UniProt ID - format = "tab", - query = myQueryIDs)) - -cat(httr::content(response)) - -# We need to check the status code - if it is not 200, an error ocurred and we -# can't process the result: -httr::status_code(response) - -# If the query is successful, tabbed text is returned. We can assign that to a -# data frame. Note that we use textConnection() to read data directly from a char object, which can go in the spot where read.delim() expects a file-name argument. - -myMappedIDs <- read.delim(file = textConnection(httr::content(response)), - sep = "\t", - stringsAsFactors = FALSE) -myMappedIDs - -# If this works as expected, you should see: -# From To -# 1 NP_010227 P39678 -# 2 NP_011036 P25302 -# -# ... and note that there are only two entries, because nothing was returned -# for the dummy "RefSeq ID" NP_00000 - -# If the query can't be fulfilled because of a problem with the server, a -# WebPage is returned. But the server status is also returned and we can check -# the status code. I have lately gotten many "503" status codes: Server Not -# Available... - -# We wrap this into a function: - -myIDmap <- function (s, mapFrom = "P_REFSEQ_AC", mapTo = "ACC") { - # Use UniProt ID mapping service to map one or more IDs - # Parameters: - # s char A string of separated IDs - # mapFrom char the database in which the IDs in s are valid. Default - # is RefSeq protein - # mapTo char the database in which the target IDs are valid. Default - # is UniProtKB - # Value - # a data frame of mapped IDs, with column names From and To, or an - # empty data frame if the mapping was unsuccessful. No rows are returned - # for IDs that are not mapped. - - # Initialize curl - httr::set_config(httr::config(http_version = 0)) - - URL <- "https://www.uniprot.org/uploadlists/" - response <- httr::POST(URL, - body = list(from = mapFrom, - to = mapTo, - format = "tab", - query = s)) - - if (httr::status_code(response) == 200) { # 200: oK - myMap <- read.delim(file = textConnection(httr::content(response)), - sep = "\t", - stringsAsFactors = FALSE) - colnames(myMap) <- c("From", "To") - } else { - myMap <- data.frame() - warning(paste("No uniProt ID mapping returned:", - "server sent status", - httr::status_code(response))) - } - - return(myMap) -} - -# Try it out ... -myIDmap("NP_010227 NP_011036 NP_012881 NP_013729 NP_012165") - -# A function UniProtIDmap() is in the ABC-dbUtilities.R script and it is loaded -# into your workspace on startup. - - -# = 2 Cross-referencing tables ============================================ - -# Sometimes we get the IDs we need to map in a large table, e.g. from a list of -# genes in a model organism database such as SGD, or from the Human Genen -# Nomenclature commission. How do we map one set of identifiers to another one? - -# The function to use is match(). -# Here is a tiny set of identifiers taken from a much larger table to -# illustrate the principle: -# - -myIDs <- data.frame(uID = c("P38903", "P31383", "P47177", "P47096", "Q07747", - "Q08641", "P47129", "P52910", "P00330", "P81450"), - name = c("2A5D", "2AAA", "2NDP", "3HAO", "AAD4", - "AB140", "ACF4", "ACS2", "ADH1", "ATP18"), - refID = c("NP_014657", "NP_009386", - "NP_012683", "NP_012559", - "NP_010038", "NP_014882", - "NP_012616", "NP_013254", - "NP_014555", "NP_013629")) - -myIDs - -# Say we want to map "NP_010038", "NP_012559", and "NP_013629", in that order to -# their gene names. -myQuery <- c("NP_010038", "NP_999999", "NP_013629") - -# %in% will only tell us if these IDs are present in the table: -myQuery %in% myIDs$refID - -# ... but not where they are located. But match() does what we need here: -match(myQuery, myIDs$refID) - -# ... and we can use the result to subset the column that we want to map to: -myIDs$name[match(myQuery, myIDs$refID)] - -# Note that the output preserves the NA - i.e. the length of the mapped -# values is exactly the same as the length of the query. - -# task: map the three genes to their UniProt Identifier. - - -# -# Note: if you want to do very many queries in very large tables, use the -# fmatch() function in the "fastmatch" package for a considerable -# speedup. - - - - -# [END] +# tocID <- "BIN-Data_integration.R" +# +# Purpose: A Bioinformatics Course: +# R code accompanying the BIN-Data_integration unit. +# +# Version: 1.2 +# +# Date: 2018-10 - 2020-09 +# Author: Boris Steipe (boris.steipe@utoronto.ca) +# +# Versions: +# 1.2 2020 Maintenance and updates +# 1.1 Change from require() to requireNamespace(), +# use ::() idiom throughout +# 1.0.1 Bugfix: UniProt ID Mapping service API change +# 1.0 First live version +# +# +# TODO: +# Develop a fungi-specific BioMart example. +# (cf. +# https://cran.r-project.org/web/packages/biomartr/vignettes/Functional_Annotation.html ) +# +# == DO NOT SIMPLY source() THIS FILE! ======================================= +# +# If there are portions you don't understand, use R's help system, Google for an +# answer, or ask your instructor. Don't continue if you don't understand what's +# going on. That's not how it works ... +# +# ============================================================================== + + +#TOC> ========================================================================== +#TOC> +#TOC> Section Title Line +#TOC> ------------------------------------------------- +#TOC> 1 Identifier mapping 42 +#TOC> 2 Cross-referencing tables 165 +#TOC> +#TOC> ========================================================================== + + +# = 1 Identifier mapping ================================================== + +# UniProt provides a well-designed ID mapping tool that can be accessed +# online at http://www.uniprot.org/mapping/ +# +# Here we will use the UniProt Web API for this tool to map identifiers. The +# UniProt ID mapping service supports a "RESTful API": responses can be obtained +# simply via a Web- browsers request. Such requests are commonly sent via the +# GET or POST verbs that a Webserver responds to, when a client asks for data. +# GET requests are visible in the URL of the request; POST requests are not +# directly visible, they are commonly used to send the contents of forms, or +# when transmitting larger, complex data items. The UniProt ID mapping sevice +# can accept long lists of IDs, thus using the POST mechanism makes sense. GET() +# and POST() functions are part of the httr package. + +# To begin, we load httr, which supports sending and receiving data via the +# http protocol, just like a Web browser. +if (! requireNamespace("httr", quietly=TRUE)) { + install.packages("httr") +} +# Package information: +# library(help = httr) # basic information +# browseVignettes("httr") # available vignettes +# data(package = "httr") # available datasets + + +# We will walk through the process with the refSeqID +# of yeast Mbp1 and Swi4, and we will also enter a dummy ID to check what +# happens if the ID can't be mapped: +myQueryIDs <- "NP_010227 NP_00000 NP_011036" + + +# The UniProt ID mapping service API is very straightforward to use: just define +# the URL of the server and send a list of items labelled as "query" in the body +# of the request. GET() and POST() are functions from httr. + +# Note. A recent bug in the interaction between the server expectations and the +# curl client libraries requires the following initialization +httr::set_config(httr::config(http_version = 0)) +# cf. https://stackoverflow.com/questions/44610845/stream-error-in-the-http-2-framing-layer-bigrquery-commands-error-in-r-studio-b + + +URL <- "https://www.uniprot.org/mapping/" +response <- httr::POST(URL, + body = list(from = "P_REFSEQ_AC", # Refseq Protein + to = "ACC", # UniProt ID + format = "tab", + query = myQueryIDs)) + +cat(httr::content(response)) + +# We need to check the status code - if it is not 200, an error ocurred and we +# can't process the result: +httr::status_code(response) + +# If the query is successful, tabbed text is returned. We can assign that to a +# data frame. Note that we use textConnection() to read data directly from a char object, which can go in the spot where read.delim() expects a file-name argument. + +myMappedIDs <- read.delim(file = textConnection(httr::content(response)), + sep = "\t", + stringsAsFactors = FALSE) +myMappedIDs + +# If this works as expected, you should see: +# From To +# 1 NP_010227 P39678 +# 2 NP_011036 P25302 +# +# ... and note that there are only two entries, because nothing was returned +# for the dummy "RefSeq ID" NP_00000 + +# If the query can't be fulfilled because of a problem with the server, a +# WebPage is returned. But the server status is also returned and we can check +# the status code. I have lately gotten many "503" status codes: Server Not +# Available... + +# We wrap this into a function: + +myIDmap <- function (s, mapFrom = "P_REFSEQ_AC", mapTo = "ACC") { + # Use UniProt ID mapping service to map one or more IDs + # Parameters: + # s char A string of separated IDs + # mapFrom char the database in which the IDs in s are valid. Default + # is RefSeq protein + # mapTo char the database in which the target IDs are valid. Default + # is UniProtKB + # Value + # a data frame of mapped IDs, with column names From and To, or an + # empty data frame if the mapping was unsuccessful. No rows are returned + # for IDs that are not mapped. + + # Initialize curl + httr::set_config(httr::config(http_version = 0)) + + URL <- "https://www.uniprot.org/uploadlists/" + response <- httr::POST(URL, + body = list(from = mapFrom, + to = mapTo, + format = "tab", + query = s)) + + if (httr::status_code(response) == 200) { # 200: oK + myMap <- read.delim(file = textConnection(httr::content(response)), + sep = "\t", + stringsAsFactors = FALSE) + colnames(myMap) <- c("From", "To") + } else { + myMap <- data.frame() + warning(paste("No uniProt ID mapping returned:", + "server sent status", + httr::status_code(response))) + } + + return(myMap) +} + +# Try it out ... +myIDmap("NP_010227 NP_011036 NP_012881 NP_013729 NP_012165") + +# A function UniProtIDmap() is in the ABC-dbUtilities.R script and it is loaded +# into your workspace on startup. + + +# = 2 Cross-referencing tables ============================================ + +# Sometimes we get the IDs we need to map in a large table, e.g. from a list of +# genes in a model organism database such as SGD, or from the Human Genen +# Nomenclature commission. How do we map one set of identifiers to another one? + +# The function to use is match(). +# Here is a tiny set of identifiers taken from a much larger table to +# illustrate the principle: +# + +myIDs <- data.frame(uID = c("P38903", "P31383", "P47177", "P47096", "Q07747", + "Q08641", "P47129", "P52910", "P00330", "P81450"), + name = c("2A5D", "2AAA", "2NDP", "3HAO", "AAD4", + "AB140", "ACF4", "ACS2", "ADH1", "ATP18"), + refID = c("NP_014657", "NP_009386", + "NP_012683", "NP_012559", + "NP_010038", "NP_014882", + "NP_012616", "NP_013254", + "NP_014555", "NP_013629")) + +myIDs + +# Say we want to map "NP_010038", "NP_012559", and "NP_013629", in that order to +# their gene names. +myQuery <- c("NP_010038", "NP_999999", "NP_013629") + +# %in% will only tell us if these IDs are present in the table: +myQuery %in% myIDs$refID + +# ... but not where they are located. But match() does what we need here: +match(myQuery, myIDs$refID) + +# ... and we can use the result to subset the column that we want to map to: +myIDs$name[match(myQuery, myIDs$refID)] + +# Note that the output preserves the NA - i.e. the length of the mapped +# values is exactly the same as the length of the query. + +# task: map the three genes to their UniProt Identifier. + + +# +# Note: if you want to do very many queries in very large tables, use the +# fmatch() function in the "fastmatch" package for a considerable +# speedup. + + + + +# [END] diff --git a/BIN-FUNC-Domain_annotation.R b/BIN-FUNC-Domain_annotation.R index 018b056..11b5103 100644 --- a/BIN-FUNC-Domain_annotation.R +++ b/BIN-FUNC-Domain_annotation.R @@ -1,435 +1,435 @@ -# tocID <- "BIN-FUNC-Domain_annotation.R" -# -# Purpose: A Bioinformatics Course: -# R code accompanying the BIN-FUNC-Domain_annotation unit. -# -# ============================================================================== -# Version: 1.4 -# -# Date: 2017-11 - 2020-10 -# Author: Boris Steipe (boris.steipe@utoronto.ca) -# -# Versions: -# 1.4 Add code for shared data import from the Wiki -# 1.3 Add code for database export to JSON and instructions -# for uploading annotations to the Public Student Wiki page -# 1.2 Consistently: data in ./myScripts/ ; -# begin SHARING DATA section -# 1.1 2020 Updates -# 1.0 Live version 2017 -# 0.1 First code copied from 2016 material. -# -# TODO: -# Put the domain plot into a function -# -# == DO NOT SIMPLY source() THIS FILE! ======================================= -# -# If there are portions you don't understand, use R's help system, Google for an -# answer, or ask your instructor. Don't continue if you don't understand what's -# going on. That's not how it works ... -# -# ============================================================================== - - -#TOC> ========================================================================== -#TOC> -#TOC> Section Title Line -#TOC> --------------------------------------------------------------------- -#TOC> 1 Update your database script 51 -#TOC> 1.1 Preparing an annotation file ... 58 -#TOC> 1.1.1 BEFORE "BIN-ALI-Optimal_sequence_alignment" 61 -#TOC> 1.1.2 AFTER "BIN-ALI-Optimal_sequence_alignment" 109 -#TOC> 1.2 Execute and Validate 136 -#TOC> 2 Plot Annotations 161 -#TOC> 3 SHARING DATA 287 -#TOC> 3.1 Post MBP1_MYSPE as JSON data 303 -#TOC> 3.2 Import shared MBP1_MYSPE from the Wiki 326 -#TOC> -#TOC> ========================================================================== - - -# = 1 Update your database script ========================================= - - -# Since you have recorded domain features at the SMART database, we can store -# the feature annotations in myDB ... - - -# == 1.1 Preparing an annotation file ... ================================== - - -# === 1.1.1 BEFORE "BIN-ALI-Optimal_sequence_alignment" -# -# IF YOU HAVE NOT YET COMPLETED THE BIN-ALI-OPTIMAL_SEQUENCE_ALIGNMENT UNIT: -# -# You DON'T already have a file called "-Annotations.json" in the -# ./myScripts/ directory: -# -# - Make a copy of the file "./data/refAnnotations.json" and put it in your -# myScripts/ directory. -# -# - Give it a name that is structured like "-Annotations.json" - e.g. -# if MYSPE is called "Crptycoccus neoformans", your file should be called -# "CRYNE-Annotations.json" (and the "name" of your Mbp1 orthologue is -# "MBP1_CRYNE"). -# -# - Open the file in the RStudio editor and delete all blocks for -# the Mbp1 protein annotations except the first one. -# -# - From that block, delete all lines that have annotations you did not -# find in SMART for MBP1_MYSPE. -# -# - Make enough copies of the "Ankyrin fold" and "low complexity" region -# lines to have a line for each feature you found. -# -# - Then delete the comma at the end of the last line. -# -# - Edit the annotations: change MBP1_SACCE to MBP1_ everywhere -# and change the "start" and "end" features to the coordinates you -# recorded in the SMART database. -# -# - Save your file in the ./myScripts/ folder. -# -# - Validate your file online at https://jsonlint.com/ -# -# - Update your "./myScripts/makeProteinDB.R" script to load your new -# annotation when you recreate the database. Open the script in the -# RStudio editor, and add the following command at the end: -# -# myDB <- dbAddAnnotation(myDB, -# jsonlite::fromJSON("./myScripts/-Annotations.json")) -# ^^^^^^^ -# edit this! -# -# - save and close the file. -# -# Then SKIP the next section. -# -# -# === 1.1.2 AFTER "BIN-ALI-Optimal_sequence_alignment" -# -# IF YOU HAVE ALREADY COMPLETED THE BIN-ALI-OPTIMAL_SEQUENCE_ALIGNMENT UNIT: -# -# You SHOULD have a file called "-Annotations.json" in the -# ./myScripts/ directory: -# -# - Open the file in the RStudio editor. -# -# - Make as many copies of the "APSES fold" line as you have found -# features in SMART. -# -# - Add a comma after every line except for the last one -# -# - Edit the annotations but include only features that are in the -# myDB$feature table. Check which features are in the database by executing -# -# myDB$feature$name -# -# - Update the "start" and "end" coordinates for each feature to the -# values you found. -# -# - Save your file. -# -# - Validate your file online at https://jsonlint.com/ -# -# -# == 1.2 Execute and Validate ============================================== -# -# - source() your database creation script: -# -# source("./myScripts/makeProteinDB.R") -# -# This should run without errors or warnings. If it doesn't work and you -# can't figure out quickly what's happening, ask for help on the -# Discussion Board. -# -# - Confirm -# The following commands should retrieve all of the features that have been -# annotated for MBP1_MYSPE - -sel <- myDB$protein$name == paste("MBP1_", biCode(MYSPE), sep = "") - -(proID <- myDB$protein$ID[sel]) -(fanIDs <- myDB$annotation$ID[myDB$annotation$proteinID == proID]) -(ftrIDs <- unique(myDB$annotation$featureID[fanIDs])) -myDB$feature$name[ftrIDs] # This should list ALL of your annotated features - # (once). If not, consider what could have gone wrong - # and ask on the list if you have difficulties fixing - # it. - - -# = 2 Plot Annotations ==================================================== - -# In this section we will plot domain annotations as colored rectangles on a -# sequence, as an example of using the R plotting system for generic, data -# driven images. - -# We need a small utility function that draws the annotation boxes on a -# representation of sequence. It should accept the start and end coordinates, -# the y value where it should be plotted and the color of the box, and plot a -# rectangle using R's rect() function. - -drawBox <- function(xStart, xEnd, y, myCol, DELTA = 0.2) { - # Draw a box from xStart to xEnd at y, filled with colour myCol - # The height of the box is y +- DELTA - rect(xStart, (y - DELTA), xEnd, (y + DELTA), - border = "black", col = myCol) -} - -# test this: -plot(c(-1.5, 1.5), c(0, 0), type = "l") -drawBox(-1, 1, 0.0, "peachpuff") - -# Next, we define a function to plot annotations for one protein: the name of -# the protein, a horizontal grey line for its length, and all of its features. - -plotProtein <- function(DB, name, y) { - # DB: protein database - # name: the name of the protein in the database. - # y: height where to draw the plot - # - # Define colors: we create a vector of color values, one for - # each feature, and we give it names of the feature ID. Then we - # can easily get the color value from the feature name. - # A: make a vector of color values. The syntax may appear unusual - - # colorRampPalette() returns a function, and we simply append - # the parameter (number-of-features) without assigning the function - # to its own variable name. - ftrCol <- colorRampPalette(c("#f2003c", "#F0A200", "#f0ea00", - "#62C923", "#0A9A9B", "#1958C3", - "#8000D3", "#D0007F"), - space="Lab", - interpolate="linear")(nrow(DB$feature)) - # B: Features may overlap, so we make the colors transparent by setting - # their "alpha channel" to 1/3 (hex: 55) - ftrCol <- paste0(ftrCol, "55") - # C: we asssign names - names(ftrCol) <- DB$feature$ID - # E.g. color for the third feature: ftrCol[ DB$feature$ID[3] ] - - # find the row-index of the protein ID in the protein table of DB - iProtein <- which(DB$protein$name == name) - - # write the name of the protein - text(-30, y, adj=1, labels=name, cex=0.75 ) - - #draw a line from 0 to nchar(sequence-of-the-protein) - lines(c(0, nchar(DB$protein$sequence[iProtein])), c(y, y), - lwd=3, col="#999999") - - # get the rows of feature annotations for the protein - iFtr <- which(DB$annotation$proteinID == DB$protein$ID[iProtein]) - - # draw a colored box for each feature - for (i in iFtr) { - drawBox(DB$annotation$start[i], - DB$annotation$end[i], - y, - ftrCol[ DB$annotation$featureID[i] ]) - } -} - -# Plot each annotated protein: -# Get the rows of all unique annotated Mbp1 proteins in myDB - -iRows <- grep("^MBP1_", myDB$protein$name) - -# define the size of the plot-frame to accomodate all proteins -yMax <- length(iRows) * 1.1 -xMax <- max(nchar(myDB$protein$sequence[iRows])) * 1.1 # longest sequence - -# plot an empty frame -oPar <- par(mar = c(4.2, 0.1, 3, 0.1)) # save the current plot parameters and - # decrease margins -plot(1, 1, - xlim = c(-200, xMax + 100), - ylim = c(0, yMax), - type = "n", - axes = FALSE, - bty = "n", - main = "Mbp1 orthologue domain annotations", - xlab = "sequence position", - cex.axis = 0.8, - ylab="") -axis(1, at = seq(0, xMax, by = 100)) -myCol <- colorRampPalette(c("#f2003c", "#F0A200", - "#f0ea00", "#62C923", - "#0A9A9B", "#1958C3", - "#8000D3", "#D0007F"), - space="Lab", - interpolate="linear")(nrow(myDB$feature)) -myCol <- paste0(myCol, "55") -legend(xMax - 150, 7, - legend = myDB$feature$name, - cex = 0.7, - fill = myCol, - bty = "n") - -# Finally, iterate over all proteins and call plotProtein() -for (i in seq_along(iRows)) { - plotProtein(myDB, myDB$protein$name[iRows[i]], i) -} -par(oPar) # reset the plot parameters - - -# The plot shows what is variable and what is constant about the annotations in -# a group of related proteins. Your MBP1_MYSPE annotations should appear at the -# top. - -# Task: -# Put a copy of the plot into your journal and interpret it with respect -# to MBP1_MYSPE, i.e. and note what you learn about MBP1_MYSPE from the plot. - -# Task: -# It would be better to align the motif borders, at least approximately (not -# all proteins have all motifs). How would you go about doing that? - -# = 3 SHARING DATA ======================================================== - -# It's particularly interesting to compare such annotations across many -# homologous proteins. I have created a page on the Student Wiki () that you can -# edit, and then download the data from the entire class directly to your -# RStudio project. -# - -# I have provided a function that extracts all information that refers to a -# single protein from the database, and prints it out as well-formatted JSON, -# suitable to be pasted into our shareable Wiki-page. There is a fair amount of -# bookkeeping involved, but the code is not otherwise very enlightening so I -# will spare you the details - it's in "./scripts/ABC-dbUtilities.R" if you -# would want to have a look. - - -# == 3.1 Post MBP1_MYSPE as JSON data ====================================== - -# Task: -# ===== -# 1: Run the following code: - -cat("{{Vspace}}", - "", - "
",
-    dbProt2JSON(sprintf("MBP1_%s", biCode(MYSPE))),
-    "
", - "", - "", sep = "\n" -) - -# 2: Copy the entire output from the console. -# 3: Navigate to -# http://steipe.biochemistry.utoronto.ca/abc/students/index.php/Public -# ... edit the page, and paste your output at the top. -# 4: Save your edits. - - - -# == 3.2 Import shared MBP1_MYSPE from the Wiki ============================ - -# Once we have collected a number of protein annotations, we can access the -# Wiki-page and import the data into our database. The Wiki page is an html -# document with lots of MediaWiki specific stuff - but the contents we are -# interested in is enclosed in 
 ...
tags. These -# work like normal HTML 
 tags, but we have defined a special class for them
-# to make it easy to parse out the contents we want. The rvest:: package in
-# combination with xml2:: provides us with all the tools we need for such
-# "Webscraping" of data....
-
-if (! requireNamespace("rvest", quietly=TRUE)) {
-  install.packages("rvest")
-}
-
-if (! requireNamespace("xml2", quietly=TRUE)) {
-  install.packages("xml2")
-}
-
-# Here's the process:
-# The URL is an "open" page on the student Wiki. Users that are not logged in
-# can view the contents, but you can only edit if you are logged in.
-myURL <- "http://steipe.biochemistry.utoronto.ca/abc/students/index.php/Public"
-
-# First thing is to retrieve the HTML from the url...
-x <- xml2::read_html(myURL)
-
-# This retrieves the page source, but that still needs to be parsed into its
-# logical elements. HTML is a subset of XML and such documents are structured as
-# trees, that have "nodes" which are demarcated with "tags". rvest::html_nodes()
-# parses out the document structure and then uses a so-called "xpath" expression
-# to select nodes we are interested in. Now, xpath is one of those specialized
-# languages of which there are a few more to learn than one would care for. You
-# MUST know how to format sprintf() expressions, and you SHOULD be competent
-# with regular expressions. But if you want to be really competent in your work,
-# basic HTML and CSS is required ... and enough knowledge about xpath to be able
-# to search on Stackoverflow for what you need for parsing data out of Web
-# documents...
-
-# The expression we use below is:
-#   - get any node anywhere in the tree ("//*") ...
-#   - that has a particular attribute("[@ ... ]").
-#   - The attribute we want is that the class of the node is "protein-data";
-#      that is the class we have defined for our 
 tags.
-# As a result of this selection, we get a list of pointers to the document tree.
-y <- rvest::html_nodes(x, xpath ='//*[@class="protein-data"]')
-
-# Next we fetch the actual payload - the text - from the tree:
-# rvest::html_text() gets the text from the list of pointers. The result is a
-# normal list of character strings.
-z <- rvest::html_text(y)
-
-# Finally we can iterate over the list, and add all proteins we don't already
-# have to our database. There may well be items that are rejected because they
-# are already present in the database - for example, unless somebody has
-# annotated new features, all of the features are already there. Don't worry -
-# that is intended; we don't want duplicate entries.
-
-for (thisJSON in z) {
-  thisData <- jsonlite::fromJSON(thisJSON)
-  if (! thisData$protein$name %in% myDB$protein$name) {
-    myDB <- dbAddProtein(myDB, thisData$protein)
-    myDB <- dbAddTaxonomy(myDB, thisData$taxonomy)
-    myDB <- dbAddFeature(myDB, thisData$feature)
-    myDB <- dbAddAnnotation(myDB, thisData$annotation)
-  }
-}
-
-# Finally, we can repeat our domain plot with the results - which now includes the shared proteins:
-
-iRows <- grep("^MBP1_", myDB$protein$name)
-yMax <- length(iRows) * 1.1
-xMax <- max(nchar(myDB$protein$sequence[iRows])) * 1.1  # longest sequence
-
-# plot an empty frame
-oPar <- par(mar = c(4.2, 0.1, 3, 0.1))
-plot(1, 1,
-     xlim = c(-200, xMax + 100),
-     ylim = c(0, yMax),
-     type = "n",
-     axes = FALSE,
-     bty = "n",
-     main = "Mbp1 orthologue domain annotations",
-     xlab = "sequence position",
-     cex.axis = 0.8,
-     ylab="")
-axis(1, at = seq(0, xMax, by = 100))
-myCol <- colorRampPalette(c("#f2003c", "#F0A200",
-                            "#f0ea00", "#62C923",
-                            "#0A9A9B", "#1958C3",
-                            "#8000D3", "#D0007F"),
-                          space="Lab",
-                          interpolate="linear")(nrow(myDB$feature))
-myCol <- paste0(myCol, "55")
-legend(xMax - 150, 7,
-       legend = myDB$feature$name,
-       cex = 0.7,
-       fill = myCol,
-       bty = "n")
-
-for (i in seq_along(iRows)) {
-  plotProtein(myDB, myDB$protein$name[iRows[i]], i)
-}
-par(oPar)  # reset the plot parameters
-
-# ... the more proteins we can compare, the more we learn about the
-# architectural principles of this family's domains.
-
-
-# [END]
+# tocID <- "BIN-FUNC-Domain_annotation.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the BIN-FUNC-Domain_annotation unit.
+#
+# ==============================================================================
+# Version:  1.4
+#
+# Date:     2017-11  -  2020-10
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.4    Add code for shared data import from the Wiki
+#           1.3    Add code for database export to JSON and instructions
+#                  for uploading annotations to the Public Student Wiki page
+#           1.2    Consistently: data in ./myScripts/ ;
+#                    begin SHARING DATA section
+#           1.1    2020 Updates
+#           1.0    Live version 2017
+#           0.1    First code copied from 2016 material.
+#
+# TODO:
+#           Put the domain plot into a function
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                                 Line
+#TOC> ---------------------------------------------------------------------
+#TOC>   1        Update your database script                             51
+#TOC>   1.1        Preparing an annotation file ...                      58
+#TOC>   1.1.1          BEFORE  "BIN-ALI-Optimal_sequence_alignment"      61
+#TOC>   1.1.2          AFTER "BIN-ALI-Optimal_sequence_alignment"       109
+#TOC>   1.2        Execute and Validate                                 136
+#TOC>   2        Plot Annotations                                       161
+#TOC>   3        SHARING DATA                                           287
+#TOC>   3.1        Post MBP1_MYSPE as JSON data                         303
+#TOC>   3.2        Import shared MBP1_MYSPE from the Wiki               326
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Update your database script  =========================================
+
+
+# Since you have recorded domain features at the SMART database, we can store
+# the feature annotations in myDB ...
+
+
+# ==   1.1  Preparing an annotation file ...  ==================================
+
+
+# ===   1.1.1  BEFORE  "BIN-ALI-Optimal_sequence_alignment"
+#
+#   IF YOU HAVE NOT YET COMPLETED THE BIN-ALI-OPTIMAL_SEQUENCE_ALIGNMENT UNIT:
+#
+#   You DON'T already have a file called "-Annotations.json" in the
+#   ./myScripts/ directory:
+#
+#   - Make a copy of the file "./data/refAnnotations.json" and put it in your
+#     myScripts/ directory.
+#
+#   - Give it a name that is structured like "-Annotations.json" - e.g.
+#     if MYSPE is called "Crptycoccus neoformans", your file should be called
+#     "CRYNE-Annotations.json" (and the "name" of your Mbp1 orthologue is
+#     "MBP1_CRYNE").
+#
+#   - Open the file in the RStudio editor and delete all blocks for
+#     the Mbp1 protein annotations except the first one.
+#
+#   - From that block, delete all lines that have annotations you did not
+#     find in SMART for MBP1_MYSPE.
+#
+#   - Make enough copies of the "Ankyrin fold" and "low complexity" region
+#     lines to have a line for each feature you found.
+#
+#   - Then delete the comma at the end of the last line.
+#
+#   - Edit the annotations: change MBP1_SACCE  to MBP1_ everywhere
+#     and change the "start" and "end" features to the coordinates you
+#     recorded in the SMART database.
+#
+#   - Save your file in the ./myScripts/ folder.
+#
+#   - Validate your file online at https://jsonlint.com/
+#
+#   - Update your "./myScripts/makeProteinDB.R" script to load your new
+#     annotation when you recreate the database. Open the script in the
+#     RStudio editor, and add the following command at the end:
+#
+#     myDB <- dbAddAnnotation(myDB,
+#         jsonlite::fromJSON("./myScripts/-Annotations.json"))
+#                                         ^^^^^^^
+#                                        edit this!
+#
+#   - save and close the file.
+#
+# Then SKIP the next section.
+#
+#
+# ===   1.1.2  AFTER "BIN-ALI-Optimal_sequence_alignment"  
+#
+#   IF YOU HAVE ALREADY COMPLETED THE BIN-ALI-OPTIMAL_SEQUENCE_ALIGNMENT UNIT:
+#
+#   You SHOULD have a file called "-Annotations.json" in the
+#  ./myScripts/ directory:
+#
+#   - Open the file in the RStudio editor.
+#
+#   - Make as many copies of the "APSES fold" line as you have found
+#     features in SMART.
+#
+#   - Add a comma after every line except for the last one
+#
+#   - Edit the annotations but include only features that are in the
+#     myDB$feature table. Check which features are in the database by executing
+#
+#        myDB$feature$name
+#
+#   - Update the "start" and "end" coordinates for each feature to the
+#     values you found.
+#
+#   - Save your file.
+#
+#   - Validate your file online at https://jsonlint.com/
+#
+#
+# ==   1.2  Execute and Validate  ==============================================
+#
+#   - source() your database creation script:
+#
+#     source("./myScripts/makeProteinDB.R")
+#
+#     This should run without errors or warnings. If it doesn't work and you
+#     can't figure out quickly what's happening, ask for help on the
+#     Discussion Board.
+#
+#   - Confirm
+#     The following commands should retrieve all of the features that have been
+#     annotated for MBP1_MYSPE
+
+sel <- myDB$protein$name == paste("MBP1_", biCode(MYSPE), sep = "")
+
+(proID  <- myDB$protein$ID[sel])
+(fanIDs <- myDB$annotation$ID[myDB$annotation$proteinID == proID])
+(ftrIDs <- unique(myDB$annotation$featureID[fanIDs]))
+myDB$feature$name[ftrIDs] # This should list ALL of your annotated features
+                          # (once). If not, consider what could have gone wrong
+                          # and ask on the list if you have difficulties fixing
+                          # it.
+
+
+# =    2  Plot Annotations  ====================================================
+
+# In this section we will plot domain annotations as colored rectangles on a
+# sequence, as an example of using the R plotting system for generic, data
+# driven images.
+
+# We need a small utility function that draws the annotation boxes on a
+# representation of sequence. It should accept the start and end coordinates,
+# the y value where it should be plotted and the color of the box, and plot a
+# rectangle using R's rect() function.
+
+drawBox <- function(xStart, xEnd, y, myCol, DELTA = 0.2) {
+  # Draw a box from xStart to xEnd at y, filled with colour myCol
+  # The height of the box is y +- DELTA
+  rect(xStart, (y - DELTA), xEnd, (y + DELTA),
+       border = "black", col = myCol)
+}
+
+# test this:
+plot(c(-1.5, 1.5), c(0, 0), type = "l")
+drawBox(-1, 1, 0.0, "peachpuff")
+
+# Next, we define a function to plot annotations for one protein: the name of
+# the protein, a horizontal grey line for its length, and all of its features.
+
+plotProtein <- function(DB, name, y) {
+  # DB: protein database
+  # name: the name of the protein in the database.
+  # y: height where to draw the plot
+  #
+  # Define colors: we create a vector of color values, one for
+  # each feature, and we give it names of the feature ID. Then we
+  # can easily get the color value from the feature name.
+  # A: make a vector of color values. The syntax may appear unusual -
+  #    colorRampPalette() returns a function, and we simply append
+  #    the parameter (number-of-features) without assigning the function
+  #    to its own variable name.
+  ftrCol <- colorRampPalette(c("#f2003c", "#F0A200", "#f0ea00",
+                               "#62C923", "#0A9A9B", "#1958C3",
+                               "#8000D3", "#D0007F"),
+                             space="Lab",
+                             interpolate="linear")(nrow(DB$feature))
+  # B: Features may overlap, so we make the colors transparent by setting
+  #    their "alpha channel" to 1/3  (hex: 55)
+  ftrCol <- paste0(ftrCol, "55")
+  # C: we asssign names
+  names(ftrCol) <- DB$feature$ID
+  # E.g. color for the third feature: ftrCol[ DB$feature$ID[3] ]
+
+  # find the row-index of the protein ID in the protein table of DB
+  iProtein <- which(DB$protein$name == name)
+
+  # write the name of the protein
+  text(-30, y, adj=1, labels=name, cex=0.75 )
+
+  #draw a line from 0 to nchar(sequence-of-the-protein)
+  lines(c(0, nchar(DB$protein$sequence[iProtein])), c(y, y),
+        lwd=3, col="#999999")
+
+  # get the rows of feature annotations for the protein
+  iFtr <- which(DB$annotation$proteinID == DB$protein$ID[iProtein])
+
+  # draw a colored box for each feature
+  for (i in iFtr) {
+    drawBox(DB$annotation$start[i],
+            DB$annotation$end[i],
+            y,
+            ftrCol[ DB$annotation$featureID[i] ])
+  }
+}
+
+# Plot each annotated protein:
+# Get the rows of all unique annotated Mbp1 proteins in myDB
+
+iRows <- grep("^MBP1_", myDB$protein$name)
+
+# define the size of the plot-frame to accomodate all proteins
+yMax <- length(iRows) * 1.1
+xMax <- max(nchar(myDB$protein$sequence[iRows])) * 1.1  # longest sequence
+
+# plot an empty frame
+oPar <- par(mar = c(4.2, 0.1, 3, 0.1))  # save the current plot parameters and
+                                        # decrease margins
+plot(1, 1,
+     xlim = c(-200, xMax + 100),
+     ylim = c(0, yMax),
+     type = "n",
+     axes = FALSE,
+     bty = "n",
+     main = "Mbp1 orthologue domain annotations",
+     xlab = "sequence position",
+     cex.axis = 0.8,
+     ylab="")
+axis(1, at = seq(0, xMax, by = 100))
+myCol <- colorRampPalette(c("#f2003c", "#F0A200",
+                            "#f0ea00", "#62C923",
+                            "#0A9A9B", "#1958C3",
+                            "#8000D3", "#D0007F"),
+                          space="Lab",
+                          interpolate="linear")(nrow(myDB$feature))
+myCol <- paste0(myCol, "55")
+legend(xMax - 150, 7,
+       legend = myDB$feature$name,
+       cex = 0.7,
+       fill = myCol,
+       bty = "n")
+
+# Finally, iterate over all proteins and call plotProtein()
+for (i in seq_along(iRows)) {
+  plotProtein(myDB, myDB$protein$name[iRows[i]], i)
+}
+par(oPar)  # reset the plot parameters
+
+
+# The plot shows what is variable and what is constant about the annotations in
+# a group of related proteins. Your MBP1_MYSPE annotations should appear at the
+# top.
+
+# Task:
+#    Put a copy of the plot into your journal and interpret it with respect
+#    to MBP1_MYSPE, i.e. and note what you learn about MBP1_MYSPE from the plot.
+
+# Task:
+#    It would be better to align the motif borders, at least approximately (not
+#    all proteins have all motifs). How would you go about doing that?
+
+# =    3  SHARING DATA  ========================================================
+
+# It's particularly interesting to compare such annotations across many
+# homologous proteins. I have created a page on the Student Wiki () that you can
+# edit, and then download the data from the entire class directly to your
+# RStudio project.
+#
+
+# I have provided a function that extracts all information that refers to a
+# single protein from the database, and prints it out as well-formatted JSON,
+# suitable to be pasted into our shareable Wiki-page. There is a fair amount of
+# bookkeeping involved, but the code is not otherwise very enlightening so I
+# will spare you the details - it's in "./scripts/ABC-dbUtilities.R" if you
+# would want to have a look.
+
+
+# ==   3.1  Post MBP1_MYSPE as JSON data  ======================================
+
+# Task:
+# =====
+# 1: Run the following code:
+
+cat("{{Vspace}}",
+    "",
+    "
",
+    dbProt2JSON(sprintf("MBP1_%s", biCode(MYSPE))),
+    "
",
+    "",
+    "", sep = "\n"
+)
+
+# 2: Copy the entire output from the console.
+# 3: Navigate to
+#      http://steipe.biochemistry.utoronto.ca/abc/students/index.php/Public
+#    ... edit the page, and paste your output at the top.
+# 4: Save your edits.
+
+
+
+# ==   3.2  Import shared MBP1_MYSPE from the Wiki  ============================
+
+# Once we have collected a number of protein annotations, we can access the
+# Wiki-page and import the data into our database. The Wiki page is  an html
+# document with lots of MediaWiki specific stuff - but the contents we are
+# interested in is enclosed in 
 ... 
 tags. These
+# work like normal HTML 
 tags, but we have defined a special class for them
+# to make it easy to parse out the contents we want. The rvest:: package in
+# combination with xml2:: provides us with all the tools we need for such
+# "Webscraping" of data....
+
+if (! requireNamespace("rvest", quietly=TRUE)) {
+  install.packages("rvest")
+}
+
+if (! requireNamespace("xml2", quietly=TRUE)) {
+  install.packages("xml2")
+}
+
+# Here's the process:
+# The URL is an "open" page on the student Wiki. Users that are not logged in
+# can view the contents, but you can only edit if you are logged in.
+myURL <- "http://steipe.biochemistry.utoronto.ca/abc/students/index.php/Public"
+
+# First thing is to retrieve the HTML from the url...
+x <- xml2::read_html(myURL)
+
+# This retrieves the page source, but that still needs to be parsed into its
+# logical elements. HTML is a subset of XML and such documents are structured as
+# trees, that have "nodes" which are demarcated with "tags". rvest::html_nodes()
+# parses out the document structure and then uses a so-called "xpath" expression
+# to select nodes we are interested in. Now, xpath is one of those specialized
+# languages of which there are a few more to learn than one would care for. You
+# MUST know how to format sprintf() expressions, and you SHOULD be competent
+# with regular expressions. But if you want to be really competent in your work,
+# basic HTML and CSS is required ... and enough knowledge about xpath to be able
+# to search on Stackoverflow for what you need for parsing data out of Web
+# documents...
+
+# The expression we use below is:
+#   - get any node anywhere in the tree ("//*") ...
+#   - that has a particular attribute("[@ ... ]").
+#   - The attribute we want is that the class of the node is "protein-data";
+#      that is the class we have defined for our 
 tags.
+# As a result of this selection, we get a list of pointers to the document tree.
+y <- rvest::html_nodes(x, xpath ='//*[@class="protein-data"]')
+
+# Next we fetch the actual payload - the text - from the tree:
+# rvest::html_text() gets the text from the list of pointers. The result is a
+# normal list of character strings.
+z <- rvest::html_text(y)
+
+# Finally we can iterate over the list, and add all proteins we don't already
+# have to our database. There may well be items that are rejected because they
+# are already present in the database - for example, unless somebody has
+# annotated new features, all of the features are already there. Don't worry -
+# that is intended; we don't want duplicate entries.
+
+for (thisJSON in z) {
+  thisData <- jsonlite::fromJSON(thisJSON)
+  if (! thisData$protein$name %in% myDB$protein$name) {
+    myDB <- dbAddProtein(myDB, thisData$protein)
+    myDB <- dbAddTaxonomy(myDB, thisData$taxonomy)
+    myDB <- dbAddFeature(myDB, thisData$feature)
+    myDB <- dbAddAnnotation(myDB, thisData$annotation)
+  }
+}
+
+# Finally, we can repeat our domain plot with the results - which now includes the shared proteins:
+
+iRows <- grep("^MBP1_", myDB$protein$name)
+yMax <- length(iRows) * 1.1
+xMax <- max(nchar(myDB$protein$sequence[iRows])) * 1.1  # longest sequence
+
+# plot an empty frame
+oPar <- par(mar = c(4.2, 0.1, 3, 0.1))
+plot(1, 1,
+     xlim = c(-200, xMax + 100),
+     ylim = c(0, yMax),
+     type = "n",
+     axes = FALSE,
+     bty = "n",
+     main = "Mbp1 orthologue domain annotations",
+     xlab = "sequence position",
+     cex.axis = 0.8,
+     ylab="")
+axis(1, at = seq(0, xMax, by = 100))
+myCol <- colorRampPalette(c("#f2003c", "#F0A200",
+                            "#f0ea00", "#62C923",
+                            "#0A9A9B", "#1958C3",
+                            "#8000D3", "#D0007F"),
+                          space="Lab",
+                          interpolate="linear")(nrow(myDB$feature))
+myCol <- paste0(myCol, "55")
+legend(xMax - 150, 7,
+       legend = myDB$feature$name,
+       cex = 0.7,
+       fill = myCol,
+       bty = "n")
+
+for (i in seq_along(iRows)) {
+  plotProtein(myDB, myDB$protein$name[iRows[i]], i)
+}
+par(oPar)  # reset the plot parameters
+
+# ... the more proteins we can compare, the more we learn about the
+# architectural principles of this family's domains.
+
+
+# [END]
diff --git a/BIN-FUNC-Semantic_similarity.R b/BIN-FUNC-Semantic_similarity.R
index 632468c..592cc89 100644
--- a/BIN-FUNC-Semantic_similarity.R
+++ b/BIN-FUNC-Semantic_similarity.R
@@ -1,169 +1,169 @@
-# tocID <- "BIN-FUNC-Semantic_similarity.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the BIN-FUNC_Semantic_similarity unit.
-#
-# Version:  1.2
-#
-# Date:     2017-11  -  2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    2020 Maintenance
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-#           1.0    New code.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                                Line
-#TOC> --------------------------------------------------------------------
-#TOC>   1        Preparations: Packages, AnnotationDB, Setup            43
-#TOC>   2        Fetch GO Annotations                                  100
-#TOC>   3        Semantic Similarities                                 109
-#TOC>   4        GO Term Enrichment in Gene Sets                       127
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Preparations: Packages, AnnotationDB, Setup  =========================
-
-if (! requireNamespace("BiocManager", quietly = TRUE)) {
-  install.packages("BiocManager")
-}
-
-# GOSim is an R-package in the Bioconductor project.
-if (! requireNamespace("GOSim", quietly = TRUE)) {
-  BiocManager::install("GOSim")
-}
-# Package information:
-#  library(help = GOSim)       # basic information
-#  browseVignettes("GOSim")    # available vignettes
-#  data(package = "GOSim")     # available datasets
-
-# GOSim makes extensive assumptions about loaded packages, and many base
-# methods are masked. We will thus use library(GOSim) to load it
-# in its entirety and with all packages it depends on. We will still use
-# the ::() syntax in the code below, but this now serves
-# more of a didactic purpose, rather than actual syntax requirements.
-
-library(GOSim)
-
-# GOSim loads human annotations in  org.Hs.eg.db  by default. We load yeast
-# annotations instead...
-if (! requireNamespace("org.Sc.sgd.db", quietly = TRUE)) {
-  BiocManager::install("org.Sc.sgd.db")
-}
-
-# Bioconductor annotation packages won't work stably unless we actually load
-# them:
-library(org.Sc.sgd.db)
-
-# org.Sc.sgd.db is a Bioconductor annotation database curated by SGD. Such
-# databases exist for all model organisms. It's a kind of a fancy data frame
-# from which we can get annotations by rows (genes) with the keys() funtion ...
-AnnotationDbi::keys(org.Sc.sgd.db)[1500:1510]
-
-# ... and the types of available annotations with the columns() function
-AnnotationDbi::columns(org.Sc.sgd.db)
-
-# Note that one of the columns is "GO" ... and we load that into the
-# datastructures used by GOSim:
-
-# Choose GOterms to use
-GOSim::setEvidenceLevel(evidences = "all",
-                        organism = org.Sc.sgdORGANISM,
-                        gomap = org.Sc.sgdGO)
-
-# Use Biological Process ontology
-GOSim::setOntology("BP", loadIC = FALSE)
-
-# confirm that we loaded the correct ontology
-head(get("gomap", envir = GOSimEnv))
-
-
-
-# =    2  Fetch GO Annotations  ================================================
-
-
-# All keys being used here are yeast systematic names.
-
-# Get one set of annotations
-GOSim::getGOInfo(c("YDL056W"))  # Mbp1
-
-
-# =    3  Semantic Similarities  ===============================================
-
-
-# Get semantic similarities between genes
-?getGeneSim
-
-# There are _many_ different metrics of term similarity implemented
-# in this package.
-
-                                                         # Mbp1 and...
-GOSim::getGeneSim("YDL056W","YLR182W",similarity = "OA") # Swi6 - MCB complex
-GOSim::getGeneSim("YDL056W","YER111C",similarity = "OA") # Swi4 - collaborators
-GOSim::getGeneSim("YDL056W","YBR160W",similarity = "OA") # Cdc28 - mediator
-GOSim::getGeneSim("YDL056W","YGR108W",similarity = "OA") # Clb1 - antagonist
-GOSim::getGeneSim("YDL056W","YLR079W",similarity = "OA") # Sic1 - antagonist
-GOSim::getGeneSim("YDL056W","YJL130C",similarity = "OA") # Pgk1 - Gluconeogenesis
-
-
-# =    4  GO Term Enrichment in Gene Sets  =====================================
-
-
-# Calculating GO term enrichment in gene sets is done with the Bioconductor
-# topGO package.
-if (! requireNamespace("topGO", quietly = TRUE)) {
-  BiocManager::install("topGO")
-}
-# Package information:
-#  library(help = topGO)       # basic information
-#  browseVignettes("topGO")    # available vignettes
-#  data(package = "topGO")     # available datasets
-
-# Once again - assumptions are made by GOsim that require us to load the
-# topGO package wholesale:
-library(topGO)
-
-# Let's define a gene set: GOterm enrichment for G1/S switch activators:
-mySet <- c("YFR028C", # Cdc14
-           "YDL056W", # Mbp1
-           "YLR182W", # Swi6
-           "YER111C", # Swi4
-           "YOR083W", # Whi5
-           "YBR160W", # Cdc28
-           "YMR199W", # Cln1
-           "YPL256C", # Cln2
-           "YAL040C") # Cln3
-
-allGenes <- AnnotationDbi::keys(org.Sc.sgd.db)
-allGenes <- allGenes[grep("^Y", allGenes)]  # This is the context against which
-                                            # we define enrichment
-
-myEnr <- GOenrichment(mySet, allGenes)
-
-sort(myEnr$p.values)  # Any significantly enriched terms? All of these are ...
-
-#Most significantly enriched is GO:0071931. What is this?
-annotate::getGOTerm("GO:0071931")  # ... makes sense.
-
-
-
-
-# [END]
+# tocID <- "BIN-FUNC-Semantic_similarity.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the BIN-FUNC_Semantic_similarity unit.
+#
+# Version:  1.2
+#
+# Date:     2017-11  -  2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    2020 Maintenance
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+#           1.0    New code.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                                Line
+#TOC> --------------------------------------------------------------------
+#TOC>   1        Preparations: Packages, AnnotationDB, Setup            43
+#TOC>   2        Fetch GO Annotations                                  100
+#TOC>   3        Semantic Similarities                                 109
+#TOC>   4        GO Term Enrichment in Gene Sets                       127
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Preparations: Packages, AnnotationDB, Setup  =========================
+
+if (! requireNamespace("BiocManager", quietly = TRUE)) {
+  install.packages("BiocManager")
+}
+
+# GOSim is an R-package in the Bioconductor project.
+if (! requireNamespace("GOSim", quietly = TRUE)) {
+  BiocManager::install("GOSim")
+}
+# Package information:
+#  library(help = GOSim)       # basic information
+#  browseVignettes("GOSim")    # available vignettes
+#  data(package = "GOSim")     # available datasets
+
+# GOSim makes extensive assumptions about loaded packages, and many base
+# methods are masked. We will thus use library(GOSim) to load it
+# in its entirety and with all packages it depends on. We will still use
+# the ::() syntax in the code below, but this now serves
+# more of a didactic purpose, rather than actual syntax requirements.
+
+library(GOSim)
+
+# GOSim loads human annotations in  org.Hs.eg.db  by default. We load yeast
+# annotations instead...
+if (! requireNamespace("org.Sc.sgd.db", quietly = TRUE)) {
+  BiocManager::install("org.Sc.sgd.db")
+}
+
+# Bioconductor annotation packages won't work stably unless we actually load
+# them:
+library(org.Sc.sgd.db)
+
+# org.Sc.sgd.db is a Bioconductor annotation database curated by SGD. Such
+# databases exist for all model organisms. It's a kind of a fancy data frame
+# from which we can get annotations by rows (genes) with the keys() funtion ...
+AnnotationDbi::keys(org.Sc.sgd.db)[1500:1510]
+
+# ... and the types of available annotations with the columns() function
+AnnotationDbi::columns(org.Sc.sgd.db)
+
+# Note that one of the columns is "GO" ... and we load that into the
+# datastructures used by GOSim:
+
+# Choose GOterms to use
+GOSim::setEvidenceLevel(evidences = "all",
+                        organism = org.Sc.sgdORGANISM,
+                        gomap = org.Sc.sgdGO)
+
+# Use Biological Process ontology
+GOSim::setOntology("BP", loadIC = FALSE)
+
+# confirm that we loaded the correct ontology
+head(get("gomap", envir = GOSimEnv))
+
+
+
+# =    2  Fetch GO Annotations  ================================================
+
+
+# All keys being used here are yeast systematic names.
+
+# Get one set of annotations
+GOSim::getGOInfo(c("YDL056W"))  # Mbp1
+
+
+# =    3  Semantic Similarities  ===============================================
+
+
+# Get semantic similarities between genes
+?getGeneSim
+
+# There are _many_ different metrics of term similarity implemented
+# in this package.
+
+                                                         # Mbp1 and...
+GOSim::getGeneSim("YDL056W","YLR182W",similarity = "OA") # Swi6 - MCB complex
+GOSim::getGeneSim("YDL056W","YER111C",similarity = "OA") # Swi4 - collaborators
+GOSim::getGeneSim("YDL056W","YBR160W",similarity = "OA") # Cdc28 - mediator
+GOSim::getGeneSim("YDL056W","YGR108W",similarity = "OA") # Clb1 - antagonist
+GOSim::getGeneSim("YDL056W","YLR079W",similarity = "OA") # Sic1 - antagonist
+GOSim::getGeneSim("YDL056W","YJL130C",similarity = "OA") # Pgk1 - Gluconeogenesis
+
+
+# =    4  GO Term Enrichment in Gene Sets  =====================================
+
+
+# Calculating GO term enrichment in gene sets is done with the Bioconductor
+# topGO package.
+if (! requireNamespace("topGO", quietly = TRUE)) {
+  BiocManager::install("topGO")
+}
+# Package information:
+#  library(help = topGO)       # basic information
+#  browseVignettes("topGO")    # available vignettes
+#  data(package = "topGO")     # available datasets
+
+# Once again - assumptions are made by GOsim that require us to load the
+# topGO package wholesale:
+library(topGO)
+
+# Let's define a gene set: GOterm enrichment for G1/S switch activators:
+mySet <- c("YFR028C", # Cdc14
+           "YDL056W", # Mbp1
+           "YLR182W", # Swi6
+           "YER111C", # Swi4
+           "YOR083W", # Whi5
+           "YBR160W", # Cdc28
+           "YMR199W", # Cln1
+           "YPL256C", # Cln2
+           "YAL040C") # Cln3
+
+allGenes <- AnnotationDbi::keys(org.Sc.sgd.db)
+allGenes <- allGenes[grep("^Y", allGenes)]  # This is the context against which
+                                            # we define enrichment
+
+myEnr <- GOenrichment(mySet, allGenes)
+
+sort(myEnr$p.values)  # Any significantly enriched terms? All of these are ...
+
+#Most significantly enriched is GO:0071931. What is this?
+annotate::getGOTerm("GO:0071931")  # ... makes sense.
+
+
+
+
+# [END]
diff --git a/BIN-MYSPE.R b/BIN-MYSPE.R
index 7abe397..57267e4 100644
--- a/BIN-MYSPE.R
+++ b/BIN-MYSPE.R
@@ -1,351 +1,351 @@
-# tocID <- "BIN-MYSPE.R"
-#
-# Purpose: A Bioinformatics Course:
-#              R code accompanying the BIN-MYSPE unit
-#
-#
-# Version: 1.4
-#
-# Date:    2017-09 - 2021-10
-# Author:  Boris Steipe (boris.steipe@utoronto.ca)
-#
-# V 1.4    Add troubleshooting hints via errText[[...]]
-# V 1.3    2021 update of MYSPE mechanics; fix a bug no one had complained about
-# V 1.2    Reorganized proportional plot section into a "further reading"
-#          section, added nested-box, and sankey plot visualization of
-#          proportions. Introduced plotly.
-# V 1.1    2020 Workflow changes
-# V 1.0.1  Move ABC-makeMYSPElist.R to ./scripts directory
-# V 1.0    Final code, after rewriting BLAST parser and updating MYSPElist
-# V 0.1    First code copied from BCH441_A03_makeMYSPElist.R
-#
-# TODO:    Sample solution for sankey plot function.
-#
-#
-# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
-#
-# DO NOT SIMPLY  source()  THESE FILES!
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-#  going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                             Line
-#TOC> -----------------------------------------------------------------
-#TOC>   1        PREPARATIONS                                        52
-#TOC>   2        SUITABLE MYSPE SPECIES                              65
-#TOC>   3        ADOPT "MYSPE"                                       89
-#TOC>   4        FURTHER READING: PLOTTING PROPORTIONS              128
-#TOC>   4.1        Percentages                                      146
-#TOC>   4.2        Visualizing proportions: Pie chart               165
-#TOC>   4.3        Visualizing proportions: Nested squares          243
-#TOC>   4.4        Visualizing proportions: Sankey diagrams         280
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  PREPARATIONS  ========================================================
-#
-
-# Execute the two conditionals below:
-if (! file.exists("./myScripts/.myProfile.R")) {
-  stop(errText[["noProfileFile"]])     # message defined in .Rprofile
-}
-
-if (! exists("myStudentNumber")) {
-  stop(errText[["noStudentNumber"]])   # message defined in .Rprofile
-}
-
-
-# =    2  SUITABLE MYSPE SPECIES  ==============================================
-
-
-# In this unit we will select one species from a list of genome sequenced fungi
-# and write it into your personalized profile file. This species will be called
-# "MYSPE" (My Species) for other learning units and exercises.
-
-# A detailed description of the process of compiling the list of genome
-# sequenced fungi with protein annotations and Mbp1 homologues is in the file
-# ./scripts/ABC-makeMYSPElist.R  In brief, data for genome-sequenced fungi
-# was retrieved from https://fungi.ensembl.org; a search for homologues to
-# yeast Mbp1 was performed with BLAST at the NCBI, and the data was merged.
-# A representative organism at each genus-level was chosen from those hits
-# that actual;ly have a homologue. Finally, a mapping table was constructed to
-# asymmetrically retrieve unique species: a student number will retrieve
-# a species, but (public) knowledge of the species cannot reconstruct the
-# student number.
-
-# Task: Study ./scripts/ABC-makeMYSPElist.R, it implements a typical workflow
-#       of selecting and combining data from various data resources. Studying
-#       it will give you a better sense of how such workflows can be
-#       implemented in practice.
-
-
-# =    3  ADOPT "MYSPE"  =======================================================
-
-# Execute:
-( MYSPE <- getMYSPE(myStudentNumber) )
-
-# If this produced an error, this session has not been properly set up. You
-# may not yet have run  init()  and edited  .myProfile.R , or that file is not
-# in your  myScripts/  folder. Fix this, and execute:
-#
-#    source(".Rprofile") .
-
-# If this produced NA, your Student Number may not be correct, or you are not in
-# my class-list. Contact me. Otherwise, this should have printed a species name,
-# and the taxonomy ID of its genome-sequenced strain. This is your unique
-# speciesfor this course. Note it in your journal ...
-
-biCode(MYSPE) # and also note it's "BiCode" ...
-( myTaxID <- names(MYSPE) )  # and its taxID
-
-
-# Task:
-# =====
-#   Note down the species name and its five letter BiCode on your Student
-#   Wiki user page. Use this species whenever this or future assignments refer
-#   to MYSPE. Whenever you start a session, it will automatically be loaded
-#   from  myScripts/.myProfile.R  and is available as  MYSPE .
-
-# Here is some more information about MYSPE, taken from the table of genome-
-# sequenced fungi that is in your ./data folder.
-fungiDat <- read.csv("data/Species.csv")
-iMs <- which(fungiDat$Taxon.ID == myTaxID)
-
-( myOr <- fungiDat$Classification[iMs] )  # Taxonomic order
-( myGn <- gsub("\\s.*", "", MYSPE))       # Taxonomic genus
-( mySt <- fungiDat$Name[iMs] )            # Taxonomic strain
-
-# That's all.
-
-
-# =    4  FURTHER READING: PLOTTING PROPORTIONS  ===============================
-
-# The material below is an exploration of data-preparation and plotting
-# techniques; you can treat this as additional practice and further reading and
-# I expect that some of the code and plotting examples may be useful in a
-# different context.
-
-# A frequent task is to visualize the proportion of elements with given
-# categories in a sample. For example, we might ask what the proportion of the
-# different orders of fungi is the order of MYSPE? Let's first collect the
-# numbers.
-
-( nFungi <- nrow(fungiDat) )                            # sequenced fungi
-( nOrder <- sum(grepl(myOr, fungiDat$Classification)) ) # same order as MYSPE
-( nGenus <- sum(grepl(myGn, fungiDat$Name)) )           # same genus as MYSPE
-( nSpecies <- sum(grepl(MYSPE, fungiDat$Name)) )        # same species as MYSPE
-
-
-# ==   4.1  Percentages  =======================================================
-
-# The zeroth-order approach to visualization is simply to print percentages:
-
-cat(sprintf("\n%s comprise %5.2f%% of fungi.",
-        myOr,
-        (nOrder * 100) / nFungi))
-
-# ... or, adding the actual numbers:
-
-cat(sprintf("\n%s comprise %5.2f%% of fungi (%d of %d).",
-            myOr,
-            (nOrder * 100) / nFungi,
-            nOrder,
-            nFungi))
-
-# But that's hard to visualize for most of us, and anyway, we don't know how
-# that relates to other orders.
-
-# ==   4.2  Visualizing proportions: Pie chart  ================================
-
-# Often, we will use a pie chart instead. Pie charts are rather informal types
-# of plots, not well suited for analysis. But easy to do:
-
-# Define four colors to identify the four categories
-pCol <- c("#ed394e", "#ff9582", "#ffd5c4", "#f2f2f0")
-
-oPar <- par(mar = c(0.1, 0.1, 2.5, 0.1))   # set margins to ~ 0
-                                           # and remember the
-                                           # previous setting
-
-pie(c(nSpecies,                            # subtract numbers since these
-      nGenus - nSpecies,                   # categories are mutually contained
-      nOrder - nGenus - nSpecies,          # in each other
-      nFungi - nOrder - nGenus - nSpecies),
-      labels = "",
-      radius = 0.9,
-      main = "MYSPE in genome-sequenced fungi",
-      lty = 0,                             # turn borders for wedges off
-      col = pCol,
-      clockwise = TRUE,
-      init.angle = 90)
-
-title(main=MYSPE, line=0, cex.main=0.7)    # add a title to the plot
-
-legend(x = 0.95, y = 0.8,    # place at legend here
-       legend = c("Species", "Genus", "Order", "Fungi"),
-       y.intersp = 2,                      # line spacing for labels
-       cex = 0.8,                          # character size for labels
-       bty = "n",                          # "no" box around the legend
-       pt.cex = 2,                         # size of colour boxes
-       pch = 15,                           # a filled square
-       col = pCol)
-
-par(oPar)                                  # reset graphics state
-
-# Unless MYSPE is one of the frequently sequenced species, there will only be a
-# very thin wedge visible. Pie charts are not well suited to visualize small
-# proportions.
-
-# It is a little more useful if we have non-nested proportions - like the
-# number of species in the same order overall:
-
-myTbl <- sort(table(fungiDat$Classification), decreasing = TRUE)
-head(myTbl)
-
-# pie() does a reasonable job out of the box to interpret table() data:
-pie(myTbl)
-
-# ... we can improve this quickly with a bit of tweaking:
-
-N <- length(myTbl)
-sel <- myOr == names(myTbl) # TRUE for the MYSPE order, FALSE elsewhere
-
-myCol <- rep(pCol[4], N)       # N elements of pCol[1]
-myCol[sel] <- pCol[1]          # replace this one color
-
-myLbl <- rep("", N)            # N labels of ""
-myLbl[sel] <- myOr             # replace this one label with the MYSPE order
-
-
-oPar <- par(mar = c(0.1, 0.1, 2.5, 0.1))   # set margins to ~ 0
-
-pie(myTbl,
-    labels = myLbl,
-    radius = 0.9,
-    main = "MYSPE order",
-    border = "#DDDDDD",
-    col = myCol,
-    clockwise = TRUE,
-    init.angle = 90)
-
-par(oPar)                                  # reset graphics state
-
-# But the overall problem remains.
-
-
-# ==   4.3  Visualizing proportions: Nested squares  ===========================
-
-# A simple alternative is to draw such proportions as nested squares:
-
-x <- sqrt(nFungi)
-
-# set margins to ~ 0 and type to square
-oPar <- par(mar = c(0.1, 0.1, 0.1, 0.1), pty = "s")
-
-# empty, square plot
-plot(c(0, x), c(0, x), xlim = c(0, x), ylim = c(0, x),
-     type="n", axes=FALSE, xlab="", ylab="")
-
-# basic square for all genomes
-rect(0, 0, x,              x,              col = pCol[4])
-
-# grid
-u <- 0:floor(x)
-N <- length(u)
-segments(rep(0, N), u, rep(x, N), u, col = "#0000FF18")
-segments(u, rep(0, N), u, rep(x, N), col = "#0000FF18")
-# each square on this grid is one genome
-
-# colored squares
-rect(0, 0, sqrt(nOrder),   sqrt(nOrder),   col = pCol[3])
-rect(0, 0, sqrt(nGenus),   sqrt(nGenus),   col = pCol[2])
-rect(0, 0, sqrt(nSpecies), sqrt(nSpecies), col = pCol[1])
-
-# labels
-text(x/2, x/2,      "Fungi")
-text(x * 0.08, x * 0.11, myOr,   pos = 4, cex = 0.9)
-text(x * 0.08, x * 0.06, myGn,   pos = 4, cex = 0.8)
-text(x * 0.08, x * 0.02, MYSPE, pos = 4, cex = 0.7)
-
-par(oPar)                                  # reset graphics state
-
-
-# ==   4.4  Visualizing proportions: Sankey diagrams  ==========================
-
-# Sankey diagrams are an excellent way to visualize complicated nested
-# proportions and their changes (see here for example:
-# https://www.r-graph-gallery.com/sankey-diagram.html). Here is a very simple
-# example with the MYSPE proportions, as an illustration of the plotting
-# principle.
-
-if (! requireNamespace("plotly")) {
-  install.packages("plotly")
-}
-# Package information:
-#  library(help   = plotly)     # basic information
-#  browseVignettes("plotly")    # available vignettes
-#  data(package  = "plotly")    # available datasets
-
-# Here, we use the plotly package that wraps a very well developed javascript
-# library with many options for interactive plots. I am producing this plot
-# hard-coded for the sample organism "Sporothrix schenkii"; you would need
-# to change the code to adapt it to your own MYSPE - or even build a function
-# for this. Do try this if you have a bit of coding experience, sankey diagrams
-# are a good way to show hierarchical data relations - and if you get this
-# working for your own organism you can be proud that you have understood
-# how preparing the data works.
-
-
-myNodes <- list(label = c("Fungi (1014)",              # 0 <- node ID
-                          "Ophiostomatales (6)",       # 1
-                          "Other...",                  # 2
-                          "Sporothrix (4)",            # 3
-                          "Other...",                  # 4
-                          "Sporothrix schenckii (2)",  # 5
-                          "Other..."                   # 6
-                          ),
-                x = c(0.1, 0.4, 0.4, 0.7, 0.7, 1.0, 1.0),
-                y = c(0.3, 0.1, 0.7, 0.2, 0.7, 0.3, 0.7),
-                color = c("#f2f2f0", #
-                          "#ffd5c4",
-                          "#CCCCCC",
-                          "#ff9582",
-                          "#CCCCCC",
-                          "#ed394e",
-                          "#CCCCCC"
-                          ),
-                pad = 15,
-                thickness = 20,
-                line = list(color = "black",
-                            width = 0.5))
-
-myLinks <- list(source = c(0, 0, 1, 1, 3, 3),   # i.e. there is a link of
-                target = c(1, 2, 3, 4, 5, 6),   # weight 6 between node 0
-                value =  c(6, 18, 4, 2, 2, 2))  # and node 1
-
-# Setting up the actual plot ...
-fig  <-  plotly::plot_ly(type = "sankey",
-                         arrangement = "snap",
-                         orientation = "h",
-                         node = myNodes,
-                         link = myLinks)
-
-# Adding and adjusting a few layout parameters
-fig <- plotly::layout(fig,
-              title = "Fungi Genomes - Classification",
-              font = list(size = 10))
-
-fig     # plot the diagram
-
-# Note that the plot appears in the Viewer window, not the Plot window, and that
-# it is interactive: you can hover over nodes and links, and drag the nodes
-# around.
-
-# [END]
+# tocID <- "BIN-MYSPE.R"
+#
+# Purpose: A Bioinformatics Course:
+#              R code accompanying the BIN-MYSPE unit
+#
+#
+# Version: 1.4
+#
+# Date:    2017-09 - 2021-10
+# Author:  Boris Steipe (boris.steipe@utoronto.ca)
+#
+# V 1.4    Add troubleshooting hints via errText[[...]]
+# V 1.3    2021 update of MYSPE mechanics; fix a bug no one had complained about
+# V 1.2    Reorganized proportional plot section into a "further reading"
+#          section, added nested-box, and sankey plot visualization of
+#          proportions. Introduced plotly.
+# V 1.1    2020 Workflow changes
+# V 1.0.1  Move ABC-makeMYSPElist.R to ./scripts directory
+# V 1.0    Final code, after rewriting BLAST parser and updating MYSPElist
+# V 0.1    First code copied from BCH441_A03_makeMYSPElist.R
+#
+# TODO:    Sample solution for sankey plot function.
+#
+#
+# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
+#
+# DO NOT SIMPLY  source()  THESE FILES!
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+#  going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                             Line
+#TOC> -----------------------------------------------------------------
+#TOC>   1        PREPARATIONS                                        52
+#TOC>   2        SUITABLE MYSPE SPECIES                              65
+#TOC>   3        ADOPT "MYSPE"                                       89
+#TOC>   4        FURTHER READING: PLOTTING PROPORTIONS              128
+#TOC>   4.1        Percentages                                      146
+#TOC>   4.2        Visualizing proportions: Pie chart               165
+#TOC>   4.3        Visualizing proportions: Nested squares          243
+#TOC>   4.4        Visualizing proportions: Sankey diagrams         280
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  PREPARATIONS  ========================================================
+#
+
+# Execute the two conditionals below:
+if (! file.exists("./myScripts/.myProfile.R")) {
+  stop(errText[["noProfileFile"]])     # message defined in .Rprofile
+}
+
+if (! exists("myStudentNumber")) {
+  stop(errText[["noStudentNumber"]])   # message defined in .Rprofile
+}
+
+
+# =    2  SUITABLE MYSPE SPECIES  ==============================================
+
+
+# In this unit we will select one species from a list of genome sequenced fungi
+# and write it into your personalized profile file. This species will be called
+# "MYSPE" (My Species) for other learning units and exercises.
+
+# A detailed description of the process of compiling the list of genome
+# sequenced fungi with protein annotations and Mbp1 homologues is in the file
+# ./scripts/ABC-makeMYSPElist.R  In brief, data for genome-sequenced fungi
+# was retrieved from https://fungi.ensembl.org; a search for homologues to
+# yeast Mbp1 was performed with BLAST at the NCBI, and the data was merged.
+# A representative organism at each genus-level was chosen from those hits
+# that actual;ly have a homologue. Finally, a mapping table was constructed to
+# asymmetrically retrieve unique species: a student number will retrieve
+# a species, but (public) knowledge of the species cannot reconstruct the
+# student number.
+
+# Task: Study ./scripts/ABC-makeMYSPElist.R, it implements a typical workflow
+#       of selecting and combining data from various data resources. Studying
+#       it will give you a better sense of how such workflows can be
+#       implemented in practice.
+
+
+# =    3  ADOPT "MYSPE"  =======================================================
+
+# Execute:
+( MYSPE <- getMYSPE(myStudentNumber) )
+
+# If this produced an error, this session has not been properly set up. You
+# may not yet have run  init()  and edited  .myProfile.R , or that file is not
+# in your  myScripts/  folder. Fix this, and execute:
+#
+#    source(".Rprofile") .
+
+# If this produced NA, your Student Number may not be correct, or you are not in
+# my class-list. Contact me. Otherwise, this should have printed a species name,
+# and the taxonomy ID of its genome-sequenced strain. This is your unique
+# speciesfor this course. Note it in your journal ...
+
+biCode(MYSPE) # and also note it's "BiCode" ...
+( myTaxID <- names(MYSPE) )  # and its taxID
+
+
+# Task:
+# =====
+#   Note down the species name and its five letter BiCode on your Student
+#   Wiki user page. Use this species whenever this or future assignments refer
+#   to MYSPE. Whenever you start a session, it will automatically be loaded
+#   from  myScripts/.myProfile.R  and is available as  MYSPE .
+
+# Here is some more information about MYSPE, taken from the table of genome-
+# sequenced fungi that is in your ./data folder.
+fungiDat <- read.csv("data/Species.csv")
+iMs <- which(fungiDat$Taxon.ID == myTaxID)
+
+( myOr <- fungiDat$Classification[iMs] )  # Taxonomic order
+( myGn <- gsub("\\s.*", "", MYSPE))       # Taxonomic genus
+( mySt <- fungiDat$Name[iMs] )            # Taxonomic strain
+
+# That's all.
+
+
+# =    4  FURTHER READING: PLOTTING PROPORTIONS  ===============================
+
+# The material below is an exploration of data-preparation and plotting
+# techniques; you can treat this as additional practice and further reading and
+# I expect that some of the code and plotting examples may be useful in a
+# different context.
+
+# A frequent task is to visualize the proportion of elements with given
+# categories in a sample. For example, we might ask what the proportion of the
+# different orders of fungi is the order of MYSPE? Let's first collect the
+# numbers.
+
+( nFungi <- nrow(fungiDat) )                            # sequenced fungi
+( nOrder <- sum(grepl(myOr, fungiDat$Classification)) ) # same order as MYSPE
+( nGenus <- sum(grepl(myGn, fungiDat$Name)) )           # same genus as MYSPE
+( nSpecies <- sum(grepl(MYSPE, fungiDat$Name)) )        # same species as MYSPE
+
+
+# ==   4.1  Percentages  =======================================================
+
+# The zeroth-order approach to visualization is simply to print percentages:
+
+cat(sprintf("\n%s comprise %5.2f%% of fungi.",
+        myOr,
+        (nOrder * 100) / nFungi))
+
+# ... or, adding the actual numbers:
+
+cat(sprintf("\n%s comprise %5.2f%% of fungi (%d of %d).",
+            myOr,
+            (nOrder * 100) / nFungi,
+            nOrder,
+            nFungi))
+
+# But that's hard to visualize for most of us, and anyway, we don't know how
+# that relates to other orders.
+
+# ==   4.2  Visualizing proportions: Pie chart  ================================
+
+# Often, we will use a pie chart instead. Pie charts are rather informal types
+# of plots, not well suited for analysis. But easy to do:
+
+# Define four colors to identify the four categories
+pCol <- c("#ed394e", "#ff9582", "#ffd5c4", "#f2f2f0")
+
+oPar <- par(mar = c(0.1, 0.1, 2.5, 0.1))   # set margins to ~ 0
+                                           # and remember the
+                                           # previous setting
+
+pie(c(nSpecies,                            # subtract numbers since these
+      nGenus - nSpecies,                   # categories are mutually contained
+      nOrder - nGenus - nSpecies,          # in each other
+      nFungi - nOrder - nGenus - nSpecies),
+      labels = "",
+      radius = 0.9,
+      main = "MYSPE in genome-sequenced fungi",
+      lty = 0,                             # turn borders for wedges off
+      col = pCol,
+      clockwise = TRUE,
+      init.angle = 90)
+
+title(main=MYSPE, line=0, cex.main=0.7)    # add a title to the plot
+
+legend(x = 0.95, y = 0.8,    # place at legend here
+       legend = c("Species", "Genus", "Order", "Fungi"),
+       y.intersp = 2,                      # line spacing for labels
+       cex = 0.8,                          # character size for labels
+       bty = "n",                          # "no" box around the legend
+       pt.cex = 2,                         # size of colour boxes
+       pch = 15,                           # a filled square
+       col = pCol)
+
+par(oPar)                                  # reset graphics state
+
+# Unless MYSPE is one of the frequently sequenced species, there will only be a
+# very thin wedge visible. Pie charts are not well suited to visualize small
+# proportions.
+
+# It is a little more useful if we have non-nested proportions - like the
+# number of species in the same order overall:
+
+myTbl <- sort(table(fungiDat$Classification), decreasing = TRUE)
+head(myTbl)
+
+# pie() does a reasonable job out of the box to interpret table() data:
+pie(myTbl)
+
+# ... we can improve this quickly with a bit of tweaking:
+
+N <- length(myTbl)
+sel <- myOr == names(myTbl) # TRUE for the MYSPE order, FALSE elsewhere
+
+myCol <- rep(pCol[4], N)       # N elements of pCol[1]
+myCol[sel] <- pCol[1]          # replace this one color
+
+myLbl <- rep("", N)            # N labels of ""
+myLbl[sel] <- myOr             # replace this one label with the MYSPE order
+
+
+oPar <- par(mar = c(0.1, 0.1, 2.5, 0.1))   # set margins to ~ 0
+
+pie(myTbl,
+    labels = myLbl,
+    radius = 0.9,
+    main = "MYSPE order",
+    border = "#DDDDDD",
+    col = myCol,
+    clockwise = TRUE,
+    init.angle = 90)
+
+par(oPar)                                  # reset graphics state
+
+# But the overall problem remains.
+
+
+# ==   4.3  Visualizing proportions: Nested squares  ===========================
+
+# A simple alternative is to draw such proportions as nested squares:
+
+x <- sqrt(nFungi)
+
+# set margins to ~ 0 and type to square
+oPar <- par(mar = c(0.1, 0.1, 0.1, 0.1), pty = "s")
+
+# empty, square plot
+plot(c(0, x), c(0, x), xlim = c(0, x), ylim = c(0, x),
+     type="n", axes=FALSE, xlab="", ylab="")
+
+# basic square for all genomes
+rect(0, 0, x,              x,              col = pCol[4])
+
+# grid
+u <- 0:floor(x)
+N <- length(u)
+segments(rep(0, N), u, rep(x, N), u, col = "#0000FF18")
+segments(u, rep(0, N), u, rep(x, N), col = "#0000FF18")
+# each square on this grid is one genome
+
+# colored squares
+rect(0, 0, sqrt(nOrder),   sqrt(nOrder),   col = pCol[3])
+rect(0, 0, sqrt(nGenus),   sqrt(nGenus),   col = pCol[2])
+rect(0, 0, sqrt(nSpecies), sqrt(nSpecies), col = pCol[1])
+
+# labels
+text(x/2, x/2,      "Fungi")
+text(x * 0.08, x * 0.11, myOr,   pos = 4, cex = 0.9)
+text(x * 0.08, x * 0.06, myGn,   pos = 4, cex = 0.8)
+text(x * 0.08, x * 0.02, MYSPE, pos = 4, cex = 0.7)
+
+par(oPar)                                  # reset graphics state
+
+
+# ==   4.4  Visualizing proportions: Sankey diagrams  ==========================
+
+# Sankey diagrams are an excellent way to visualize complicated nested
+# proportions and their changes (see here for example:
+# https://www.r-graph-gallery.com/sankey-diagram.html). Here is a very simple
+# example with the MYSPE proportions, as an illustration of the plotting
+# principle.
+
+if (! requireNamespace("plotly")) {
+  install.packages("plotly")
+}
+# Package information:
+#  library(help   = plotly)     # basic information
+#  browseVignettes("plotly")    # available vignettes
+#  data(package  = "plotly")    # available datasets
+
+# Here, we use the plotly package that wraps a very well developed javascript
+# library with many options for interactive plots. I am producing this plot
+# hard-coded for the sample organism "Sporothrix schenkii"; you would need
+# to change the code to adapt it to your own MYSPE - or even build a function
+# for this. Do try this if you have a bit of coding experience, sankey diagrams
+# are a good way to show hierarchical data relations - and if you get this
+# working for your own organism you can be proud that you have understood
+# how preparing the data works.
+
+
+myNodes <- list(label = c("Fungi (1014)",              # 0 <- node ID
+                          "Ophiostomatales (6)",       # 1
+                          "Other...",                  # 2
+                          "Sporothrix (4)",            # 3
+                          "Other...",                  # 4
+                          "Sporothrix schenckii (2)",  # 5
+                          "Other..."                   # 6
+                          ),
+                x = c(0.1, 0.4, 0.4, 0.7, 0.7, 1.0, 1.0),
+                y = c(0.3, 0.1, 0.7, 0.2, 0.7, 0.3, 0.7),
+                color = c("#f2f2f0", #
+                          "#ffd5c4",
+                          "#CCCCCC",
+                          "#ff9582",
+                          "#CCCCCC",
+                          "#ed394e",
+                          "#CCCCCC"
+                          ),
+                pad = 15,
+                thickness = 20,
+                line = list(color = "black",
+                            width = 0.5))
+
+myLinks <- list(source = c(0, 0, 1, 1, 3, 3),   # i.e. there is a link of
+                target = c(1, 2, 3, 4, 5, 6),   # weight 6 between node 0
+                value =  c(6, 18, 4, 2, 2, 2))  # and node 1
+
+# Setting up the actual plot ...
+fig  <-  plotly::plot_ly(type = "sankey",
+                         arrangement = "snap",
+                         orientation = "h",
+                         node = myNodes,
+                         link = myLinks)
+
+# Adding and adjusting a few layout parameters
+fig <- plotly::layout(fig,
+              title = "Fungi Genomes - Classification",
+              font = list(size = 10))
+
+fig     # plot the diagram
+
+# Note that the plot appears in the Viewer window, not the Plot window, and that
+# it is interactive: you can hover over nodes and links, and drag the nodes
+# around.
+
+# [END]
diff --git a/BIN-PHYLO-Data_preparation.R b/BIN-PHYLO-Data_preparation.R
index 407faff..41a8369 100644
--- a/BIN-PHYLO-Data_preparation.R
+++ b/BIN-PHYLO-Data_preparation.R
@@ -1,234 +1,234 @@
-# tocID <- "BIN-PHYLO-Data_preparation.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the BIN-PHYLO-Data_preparation unit.
-#
-# Version:  1.2
-#
-# Date:     2017-10  -  2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    2020 Maintenance
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-#           1.0    First 2017 version
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                     Line
-#TOC> ---------------------------------------------------------
-#TOC>   1        Preparations                                45
-#TOC>   2        Fetching sequences                          77
-#TOC>   3        Multiple Sequence Alignment                118
-#TOC>   4        Reviewing and Editing Alignments           137
-#TOC>   4.1        Masking workflow                         153
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Preparations  ========================================================
-
-
-# You need to reload your protein database, including changes that might have
-# been made to the reference files. If you have worked with the prerequiste
-# units, you should have a script named "makeProteinDB.R" that will create the
-# myDB object with a protein and feature database. Ask for advice if not.
-source("myScripts/makeProteinDB.R")
-
-# Load packages we need
-
-if (! requireNamespace("BiocManager", quietly = TRUE)) {
-  install.packages("BiocManager")
-}
-if (! requireNamespace("Biostrings", quietly = TRUE)) {
-  BiocManager::install("Biostrings")
-}
-# Package information:
-#  library(help = Biostrings)       # basic information
-#  browseVignettes("Biostrings")    # available vignettes
-#  data(package = "Biostrings")     # available datasets
-
-
-if (! requireNamespace("msa", quietly = TRUE)) {
-  BiocManager::install("msa")
-}
-# Package information:
-#  library(help = msa)       # basic information
-#  browseVignettes("msa")  # available vignettes
-#  data(package = "msa")   # available datasets
-
-
-# =    2  Fetching sequences  ==================================================
-
-
-# myDB contains the ten Mbp1 orthologues from the reference species and the Mbp1
-# RBM for MYSPE. We will construct a phylogenetic tree from the proteins' APSES
-# domains. You have annotated their ranges as a feature. The following code
-# retrieves the sequences from myDB. You have seen similar code in other units.
-
-sel <- grep("^MBP1_", myDB$protein$name)
-(proNames <- myDB$protein$name[sel])
-(proIDs <- myDB$protein$ID[sel])
-
-(sel <- myDB$feature$ID[myDB$feature$name == "APSES fold"])
-(fanIDs <- myDB$annotation$ID[myDB$annotation$proteinID %in% proIDs & # %in% !
-                              myDB$annotation$featureID == sel])      #  ==  !
-                                                                      # Why?
-APSI <- character(length(fanIDs))
-
-for (i in seq_along(fanIDs)) {
-  sel   <- myDB$annotation$ID == fanIDs[i]  # get the feature row index
-  proID <- myDB$annotation$proteinID[sel]   # get its protein ID
-  start <- myDB$annotation$start[sel]       # get start ...
-  end   <- myDB$annotation$end[sel]         # ... and end
-
-  sel <- myDB$protein$ID == proID           # get the protein row index ...
-                                            # ... and the sequence
-  APSI[i] <- substring(myDB$protein$sequence[sel], start, end)
-  names(APSI)[i] <- (myDB$protein$name[sel])
-}
-
-head(APSI)
-
-# Let's add the E.coli Kila-N domain sequence as an outgroup, for rooting our
-# phylogenetic tree (see the unit's Wiki page for details on the sequence).
-
-APSI <- c(APSI,
-"IDGEIIHLRAKDGYINATSMCRTAGKLLSDYTRLKTTQEFFDELSRDMGIPISELIQSFKGGRPENQGTWVHPDIAINLAQ")
-names(APSI)[length(APSI)] <- "KILA_ESCCO"
-tail(APSI)
-
-
-# =    3  Multiple Sequence Alignment  =========================================
-
-# This vector of sequences with named elements fulfills the requirements to be
-# imported as a Biostrings object - an AAStringSet - which we need as input for
-# the MSA algorithms in Biostrings.
-#
-
-APSESSet <- Biostrings::AAStringSet(APSI)
-APSESMsa <- msa::msaMuscle(APSESSet, order = "aligned")
-
-# Nb. msaMuscle() sometimes fails - reproducibly, but I am not sure why. If
-# that happens in your case, just use msaClustalOmega() instead.
-
-# inspect the alignment.
-writeALN(APSESMsa)
-
-# What do you think? Is this a good alignment for phylogenetic inference?
-
-
-# =    4  Reviewing and Editing Alignments  ====================================
-
-
-# Head back to the Wiki page for this unit and read up on the background
-# first.
-
-# Let's mask out all columns that have observations for
-# less than 1/3 of the sequences in the dataset. This
-# means they have more than round(nrow(msaSet) * (2/3))
-# hyphens in a column.
-#
-# We take all sequences, split them into single
-# characters, and put them into a matrix. Then we
-# go through the matrix, column by column and decide
-# whether we want to include that column.
-
-# ==   4.1  Masking workflow  ==================================================
-
-# get the length of the alignment
-(lenAli <- APSESMsa@unmasked@ranges@width[1])
-
-# initialize a matrix that can hold all characters
-# individually
-msaMatrix <- matrix(character(nrow(APSESMsa) * lenAli),
-                    ncol = lenAli)
-
-# assign the correct rownames
-rownames(msaMatrix) <- APSESMsa@unmasked@ranges@NAMES
-for (i in 1:nrow(APSESMsa)) {
-  msaMatrix[i, ] <- unlist(strsplit(as.character(APSESMsa@unmasked[i]), ""))
-}
-
-# inspect the result
-msaMatrix[1:7, 30:40]
-
-# Now let's make a logical vector with an element for each column that selects
-# which columns should be masked out.
-
-# The number of hyphens in a column is easy to count. Consider:
-
-    msaMatrix[ , 20]             # column 20
-    msaMatrix[ , 20] == "-"      # TRUE for all gap characters
-sum(msaMatrix[ , 20] == "-")     # adds 1 for each TRUE
-
-# Thus filling our logical vector is simple:
-
-# initialize a mask
-colMask <- logical(ncol(msaMatrix))
-
-# define the threshold for rejecting a column
-limit <- round(nrow(APSESMsa) * (2/3))
-
-# iterate over all columns, and write TRUE if there are less-or-equal to "limit"
-# hyphens, FALSE if there are more - i.e. TRUE columns will be used for analysis
-# and FALSE columns will be rejected.
-for (i in 1:ncol(msaMatrix)) {
-  count <- sum(msaMatrix[ , i] == "-")
-  colMask[i] <- count <= limit # TRUE if less-or-equal to limit, FALSE if not
-}
-
-# Inspect the mask
-colMask
-
-# How many positions are being kept?
-sum(colMask)
-
-cat(sprintf("We are masking %4.2f %% of alignment columns.\n",
-            100 * (1 - (sum(colMask) / length(colMask)))))
-
-
-# Next, we use colMask to remove the masked columns from the matrix
-# in one step:
-maskedMatrix <- msaMatrix[ , colMask]
-
-# check:
-ncol(maskedMatrix)
-
-# ... then collapse each row of single characters back into a string ...
-APSESphyloSet <- character()
-for (i in 1:nrow(maskedMatrix)) {
-  APSESphyloSet[i] <- paste(maskedMatrix[i, ], collapse="")
-}
-names(APSESphyloSet) <- rownames(maskedMatrix)
-
-# inspect ...
-writeALN(APSESphyloSet)
-
-# As you see, we have removed a three residue insertion from MBP1_NEUCR, and
-# several indels from the KILA_ESCCO outgroup sequence.
-
-
-# We save the aligned, masked domains to a file in the data/ directory,
-# in multi-FASTA format.
-writeMFA(APSESphyloSet, myCon = "data/APSESphyloSet.mfa")
-
-
-
-# [END]
+# tocID <- "BIN-PHYLO-Data_preparation.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the BIN-PHYLO-Data_preparation unit.
+#
+# Version:  1.2
+#
+# Date:     2017-10  -  2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    2020 Maintenance
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+#           1.0    First 2017 version
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                     Line
+#TOC> ---------------------------------------------------------
+#TOC>   1        Preparations                                45
+#TOC>   2        Fetching sequences                          77
+#TOC>   3        Multiple Sequence Alignment                118
+#TOC>   4        Reviewing and Editing Alignments           137
+#TOC>   4.1        Masking workflow                         153
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Preparations  ========================================================
+
+
+# You need to reload your protein database, including changes that might have
+# been made to the reference files. If you have worked with the prerequiste
+# units, you should have a script named "makeProteinDB.R" that will create the
+# myDB object with a protein and feature database. Ask for advice if not.
+source("myScripts/makeProteinDB.R")
+
+# Load packages we need
+
+if (! requireNamespace("BiocManager", quietly = TRUE)) {
+  install.packages("BiocManager")
+}
+if (! requireNamespace("Biostrings", quietly = TRUE)) {
+  BiocManager::install("Biostrings")
+}
+# Package information:
+#  library(help = Biostrings)       # basic information
+#  browseVignettes("Biostrings")    # available vignettes
+#  data(package = "Biostrings")     # available datasets
+
+
+if (! requireNamespace("msa", quietly = TRUE)) {
+  BiocManager::install("msa")
+}
+# Package information:
+#  library(help = msa)       # basic information
+#  browseVignettes("msa")  # available vignettes
+#  data(package = "msa")   # available datasets
+
+
+# =    2  Fetching sequences  ==================================================
+
+
+# myDB contains the ten Mbp1 orthologues from the reference species and the Mbp1
+# RBM for MYSPE. We will construct a phylogenetic tree from the proteins' APSES
+# domains. You have annotated their ranges as a feature. The following code
+# retrieves the sequences from myDB. You have seen similar code in other units.
+
+sel <- grep("^MBP1_", myDB$protein$name)
+(proNames <- myDB$protein$name[sel])
+(proIDs <- myDB$protein$ID[sel])
+
+(sel <- myDB$feature$ID[myDB$feature$name == "APSES fold"])
+(fanIDs <- myDB$annotation$ID[myDB$annotation$proteinID %in% proIDs & # %in% !
+                              myDB$annotation$featureID == sel])      #  ==  !
+                                                                      # Why?
+APSI <- character(length(fanIDs))
+
+for (i in seq_along(fanIDs)) {
+  sel   <- myDB$annotation$ID == fanIDs[i]  # get the feature row index
+  proID <- myDB$annotation$proteinID[sel]   # get its protein ID
+  start <- myDB$annotation$start[sel]       # get start ...
+  end   <- myDB$annotation$end[sel]         # ... and end
+
+  sel <- myDB$protein$ID == proID           # get the protein row index ...
+                                            # ... and the sequence
+  APSI[i] <- substring(myDB$protein$sequence[sel], start, end)
+  names(APSI)[i] <- (myDB$protein$name[sel])
+}
+
+head(APSI)
+
+# Let's add the E.coli Kila-N domain sequence as an outgroup, for rooting our
+# phylogenetic tree (see the unit's Wiki page for details on the sequence).
+
+APSI <- c(APSI,
+"IDGEIIHLRAKDGYINATSMCRTAGKLLSDYTRLKTTQEFFDELSRDMGIPISELIQSFKGGRPENQGTWVHPDIAINLAQ")
+names(APSI)[length(APSI)] <- "KILA_ESCCO"
+tail(APSI)
+
+
+# =    3  Multiple Sequence Alignment  =========================================
+
+# This vector of sequences with named elements fulfills the requirements to be
+# imported as a Biostrings object - an AAStringSet - which we need as input for
+# the MSA algorithms in Biostrings.
+#
+
+APSESSet <- Biostrings::AAStringSet(APSI)
+APSESMsa <- msa::msaMuscle(APSESSet, order = "aligned")
+
+# Nb. msaMuscle() sometimes fails - reproducibly, but I am not sure why. If
+# that happens in your case, just use msaClustalOmega() instead.
+
+# inspect the alignment.
+writeALN(APSESMsa)
+
+# What do you think? Is this a good alignment for phylogenetic inference?
+
+
+# =    4  Reviewing and Editing Alignments  ====================================
+
+
+# Head back to the Wiki page for this unit and read up on the background
+# first.
+
+# Let's mask out all columns that have observations for
+# less than 1/3 of the sequences in the dataset. This
+# means they have more than round(nrow(msaSet) * (2/3))
+# hyphens in a column.
+#
+# We take all sequences, split them into single
+# characters, and put them into a matrix. Then we
+# go through the matrix, column by column and decide
+# whether we want to include that column.
+
+# ==   4.1  Masking workflow  ==================================================
+
+# get the length of the alignment
+(lenAli <- APSESMsa@unmasked@ranges@width[1])
+
+# initialize a matrix that can hold all characters
+# individually
+msaMatrix <- matrix(character(nrow(APSESMsa) * lenAli),
+                    ncol = lenAli)
+
+# assign the correct rownames
+rownames(msaMatrix) <- APSESMsa@unmasked@ranges@NAMES
+for (i in 1:nrow(APSESMsa)) {
+  msaMatrix[i, ] <- unlist(strsplit(as.character(APSESMsa@unmasked[i]), ""))
+}
+
+# inspect the result
+msaMatrix[1:7, 30:40]
+
+# Now let's make a logical vector with an element for each column that selects
+# which columns should be masked out.
+
+# The number of hyphens in a column is easy to count. Consider:
+
+    msaMatrix[ , 20]             # column 20
+    msaMatrix[ , 20] == "-"      # TRUE for all gap characters
+sum(msaMatrix[ , 20] == "-")     # adds 1 for each TRUE
+
+# Thus filling our logical vector is simple:
+
+# initialize a mask
+colMask <- logical(ncol(msaMatrix))
+
+# define the threshold for rejecting a column
+limit <- round(nrow(APSESMsa) * (2/3))
+
+# iterate over all columns, and write TRUE if there are less-or-equal to "limit"
+# hyphens, FALSE if there are more - i.e. TRUE columns will be used for analysis
+# and FALSE columns will be rejected.
+for (i in 1:ncol(msaMatrix)) {
+  count <- sum(msaMatrix[ , i] == "-")
+  colMask[i] <- count <= limit # TRUE if less-or-equal to limit, FALSE if not
+}
+
+# Inspect the mask
+colMask
+
+# How many positions are being kept?
+sum(colMask)
+
+cat(sprintf("We are masking %4.2f %% of alignment columns.\n",
+            100 * (1 - (sum(colMask) / length(colMask)))))
+
+
+# Next, we use colMask to remove the masked columns from the matrix
+# in one step:
+maskedMatrix <- msaMatrix[ , colMask]
+
+# check:
+ncol(maskedMatrix)
+
+# ... then collapse each row of single characters back into a string ...
+APSESphyloSet <- character()
+for (i in 1:nrow(maskedMatrix)) {
+  APSESphyloSet[i] <- paste(maskedMatrix[i, ], collapse="")
+}
+names(APSESphyloSet) <- rownames(maskedMatrix)
+
+# inspect ...
+writeALN(APSESphyloSet)
+
+# As you see, we have removed a three residue insertion from MBP1_NEUCR, and
+# several indels from the KILA_ESCCO outgroup sequence.
+
+
+# We save the aligned, masked domains to a file in the data/ directory,
+# in multi-FASTA format.
+writeMFA(APSESphyloSet, myCon = "data/APSESphyloSet.mfa")
+
+
+
+# [END]
diff --git a/BIN-PHYLO-Tree_analysis.R b/BIN-PHYLO-Tree_analysis.R
index 3dabf5b..3e9da20 100644
--- a/BIN-PHYLO-Tree_analysis.R
+++ b/BIN-PHYLO-Tree_analysis.R
@@ -1,406 +1,406 @@
-# tocID <- "BIN-PHYLO-Tree_analysis.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the BIN-PHYLO-Tree_analysis unit.
-#
-# Version:  1.2
-#
-# Date:     2017-10  -  2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    2020 updates. Deprecate iTol and use taxize:: instead.
-#                  Rewrite of tip re-ordering. Better handling of
-#                  messages. pBar() for randomization.
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-#           1.0.2  Typo in variable name, style changes
-#           1.0.1  Wrong section heading
-#           1.0    First 2017 version
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                              Line
-#TOC> --------------------------------------------------
-#TOC>   1        Preparation and Tree Plot            50
-#TOC>   2        SPECIES REFERENCE TREE               66
-#TOC>   3        Tree Analysis                       117
-#TOC>   3.1        Rooting Trees                     177
-#TOC>   3.2        Rotating Clades                   222
-#TOC>   3.3        Computing tree distances          309
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Preparation and Tree Plot  ===========================================
-
-
-if (! requireNamespace("ape", quietly = TRUE)) {
-  install.packages("ape")
-}
-# Package information:
-#  library(help = ape)       # basic information
-#  browseVignettes("ape")    # available vignettes
-#  data(package = "ape")     # available datasets
-
-# We change the graphics parameters from time to time, let's define the
-# default so we can recreate a sane state:
-dev.off()
-PAR <- par()
-
-# =    2  SPECIES REFERENCE TREE  ==============================================
-
-# Before we do any kind of phylogenetic analysis of genes from several species,
-# we MUST have a reference tree of the taxonomic relationships in hand. This
-# context is absolutely required for the interpretation of our tree.
-
-# We have the tax-ids in our database, and the NCBI has the species tree - we just need some way to extract the subtree that corresponds to our taxons of interest. Here's how to use the taxize:: package.
-
-if (! requireNamespace("taxize", quietly = TRUE)) {
-  install.packages("taxize")
-}
-# Package information:
-#  library(help   = taxize)       # basic information
-#  browseVignettes("taxize")    # available vignettes
-#  data(package  = "taxize")     # available datasets
-
-( mySOI <- c(myDB$taxonomy$ID, "83333") )
-myClass <- taxize::classification(mySOI, db = "ncbi")
-str(myClass)
-
-myClass[[1]]
-
-fungiTree <- taxize::class2tree(myClass, check = TRUE)
-plot(fungiTree)
-
-# The tree produced by taxize:: contains full length species names,
-# but it would be more convenient if it had bicodes instead. Also, the actual
-# tree is only part of the list(), which will cause problems later:
-str(fungiTree)
-
-# we therefor simplify
-fungiTree <- fungiTree$phylo
-str(fungiTree)
-
-# The species names are in a vector $phylo$tip.label of this list.
-# We can use biCode() to shorten them.
-fungiTree$tip.label <- biCode(fungiTree$tip.label)
-
-# Plot the tree
-nSP <- length(fungiTree$tip.label)
-plot(fungiTree, cex = 0.8, root.edge = TRUE, no.margin = TRUE)
-text(-1, nSP - 0.5, "Species Tree:\nFungi", pos = 4)
-ape::nodelabels(text = fungiTree$node.label,
-                cex = 0.6,
-                adj = 0.2,
-                bg = "#D4F2DA")
-# Note that you can use the arrow buttons in the menu above the plot pane to
-# scroll back to plots you have created earlier - so you can reference back to
-# this species tree in your later analysis.
-
-
-# =    3  Tree Analysis  =======================================================
-
-
-# 1.1  Visualizing your tree
-# The trees that are produced by Rphylip are stored as an object of class
-# "phylo". This is a class for phylogenetic trees that is widely used in the
-# community, practically all R phylogenetics packages will options to read and
-# manipulate such trees. Outside of R, a popular interchange format is the
-# Newick_format that you have seen above. It's easy to output your calculated
-# trees in Newick format and visualize them elsewhere.
-
-# The "phylo" class object is one of R's "S3" objects and methods to plot and
-# print it have been defined with the Rphylip package, and in ape. You can
-# simply call plot() and R knows what to do with  and how
-# to plot it. The underlying function is plot.phylo(), and documentation for its
-# many options can by found by typing:
-
-?plot.phylo
-
-# We load the APSES sequence tree that you produced in the
-# BIN-PHYLO-Tree_building unit:
-apsTree <- readRDS(file = "data/APSEStreeRproml.rds")
-
-plot(apsTree) # default type is "phylogram"
-plot(apsTree, type = "unrooted")
-plot(apsTree, type = "fan", no.margin = TRUE)
-
-# rescale to show all of the labels:
-# record the current plot parameters by assigning them to a variable ...
-(tmp <- plot(apsTree, type="fan", no.margin = TRUE, plot=FALSE))
-# ... and adjust the plot limits for a new plot:
-plot(apsTree,
-     type = "fan",
-     x.lim = tmp$x.lim * 1.8,
-     y.lim = tmp$y.lim * 1.8,
-     cex = 0.8,
-     no.margin = TRUE)
-
-# Inspect the tree object
-str(apsTree)
-apsTree$tip.label
-apsTree$edge
-apsTree$edge.length
-
-# show the node / edge and tip labels on a plot
-plot(apsTree)
-ape::nodelabels()
-ape::edgelabels()
-ape::tiplabels()
-
-# show the number of nodes, edges and tips
-ape::Nnode(apsTree)
-ape::Nedge(apsTree)
-ape::Ntip(apsTree)
-
-par(PAR)   # reset graphics state
-
-# Finally, write the tree to console in Newick format
-ape::write.tree(apsTree)
-
-# ==   3.1  Rooting Trees  =====================================================
-
-# In order to analyse the tree, it is helpful to root it first and reorder its
-# clades. Contrary to documentation, Rproml() returns an unrooted tree.
-
-ape::is.rooted(apsTree)
-
-# You can root the tree with the command root() from the "ape" package.
-
-plot(apsTree)
-
-# add labels for internal nodes and tips
-ape::nodelabels(cex = 0.5, frame = "circle")
-ape::tiplabels(cex = 0.5, frame = "rect")
-
-# The outgroup of the tree (KILA ESCCO) is tip "11" in my sample tree, it may be a different
-# number in yours. Substitute the correct node number below for "outgroup".
-apsTree <- ape::root(apsTree, outgroup = 11, resolve.root = TRUE)
-plot(apsTree)
-ape::is.rooted(apsTree)
-
-# This tree _looks_ unchanged, beacuse when the root trifurcation was resolved,
-# an edge of length zero was added to connect the MRCA (Most Recent Common
-# Ancestor) of the ingroup.
-
-# The edge lengths are stored in the phylo object:
-apsTree$edge.length
-
-# ... and you can assign a small arbitrary value to the edge
-# to show how it connects to the tree without having an
-# overlap.
-apsTree$edge.length[1] <- 0.1
-plot(apsTree, cex = 0.7)
-ape::nodelabels(text = "MRCA", node = 12, cex = 0.5, adj = 0.1, bg = "#ff8866")
-
-
-# This procedure does however not assign an actual length to a root edge, and
-# therefore no root edge is visible on the plot. Why? , you might ask. I ask
-# myself that too. We'll just add a length by hand.
-
-apsTree$root.edge <- mean(apsTree$edge.length) * 1.5
-plot(apsTree, cex = 0.7, root.edge = TRUE)
-ape::nodelabels(text = "MRCA", node = 12, cex = 0.5, adj = 0.8, bg = "#ff8866")
-
-
-# ==   3.2  Rotating Clades  ===================================================
-
-# To interpret the tree, it is useful to rotate the clades so that they appear
-# in the order expected from the cladogram of species.
-
-# We can either rotate around individual internal nodes ...
-layout(matrix(1:2, 1, 2))
-plot(apsTree, no.margin = TRUE, root.edge = TRUE)
-ape::nodelabels(node = 13, cex = 0.7, bg = "#ff8866")
-plot(ape::rotate(apsTree, node = 13), no.margin = TRUE, root.edge = TRUE)
-ape::nodelabels(node = 13, cex = 0.7, bg = "#88ff66")
-# Note that the species at the bottom of the clade descending from node
-# 17 is now plotted at the top.
-
-par(PAR)   # reset graphics state
-
-# ... or we can rearrange the tree so it corresponds as well as possible to a
-# predefined tip ordering. Here we use the ordering that taxize:: has inferred
-# from the NCBI taxonomic classification.
-
-nOrg <- length(apsTree$tip.label)
-
-plot(fungiTree,
-     no.margin = FALSE, root.edge = TRUE)
-ape::nodelabels(text = fungiTree$node.label,
-                cex = 0.5,
-                adj = 0.2,
-                bg = "#D4F2DA")
-
-# These are the fungi tree tips ...
-fungiTree$tip.label
-# ... and their order is determined by the edge-list that is stored in
-fungiTree$edge
-# which edges join the tips?
-ape::tiplabels(cex = 0.5, frame = "rect")
-# as you can see, the tips (range [1:nOrg] ) are in column 2 and they are
-# ordered from bottom to top.
-# And each tip number is the index of the species in the tip.label vector. So we can take column 2, subset it, and use it to get a list of species in the order of the tree ...
-
-sel <- fungiTree$edge[ , 2 ] <= nOrg
-( oSp <- fungiTree$tip.label[fungiTree$edge[sel , 2 ]] )
-
-# Now, here are the genes of the apsTree tips ...
-apsTree$tip.label
-
-# ... and the "constraint"  we need for reordering, according to the help page
-# of ape::rotateConstr(), is "a vector specifying the order of the tips as they
-# should appear (from bottom to top)". Thus we need to add the "MBP1_" prefix to our vector
-oSp <- gsub("^", "MBP1_", oSp)
-( oSp <- gsub("MBP1_ESSCO", "KILA_ESCCO", oSp) )
-
-# Then we can plot the two trees to compare: the fungi- tree
-par(PAR)   # reset graphics state
-layout(matrix(1:2, 1, 2))
-plot(fungiTree,
-    no.margin = TRUE,
-     root.edge = TRUE)
-ape::nodelabels(text = fungiTree$node.label,
-                cex = 0.5,
-                adj = 0.2,
-                bg = "#D4F2DA")
-
-# and the re-organized apsesTree ...
-plot(ape::rotateConstr(apsTree, constraint = oSp[]),
-     no.margin = TRUE,
-     root.edge = TRUE)
-
-par(PAR)   # reset graphics state
-
-# As you can see, the reordering is not perfect, since the topologies are
-# different, mostly due to the unresolved nodes in the reference tree. One
-# could play with that ...
-
-
-# Task: Study the two trees and consider their similarities and differences.
-#         What do you expect? What do you find? Note that this is not a "mixed"
-#         gene tree yet, since it contains only a single gene for the species
-#         we considered. All of the branch points in this tree are speciation
-#         events. Thus the gene tree should have the same topology as the
-#         species tree. Does it? Are the differences important? How many
-#         branches would you need to remove and reinsert elsewhere to get the
-#         same topology as the species tree?
-
-# In order to quantify how different these two trees are, we need to compute
-# tree distances.
-
-
-# ==   3.3  Computing tree distances  ==========================================
-
-
-# Many superb phylogeny tools are contributed by the phangorn package.
-
-if (! requireNamespace("phangorn", quietly = TRUE)) {
-  install.packages("phangorn")
-}
-# Package information:
-#  library(help = phangorn)       # basic information
-#  browseVignettes("phangorn")    # available vignettes
-#  data(package = "phangorn")     # available datasets
-
-# To compare two trees, they must have the same tip labels. We delete "MBP1_" or
-# "KILA_" from the existing tip labels in a copy of our APSES domain tree.
-apsTree2 <- apsTree
-apsTree2$tip.label <- gsub("(MBP1_)|(KILA_)", "", apsTree2$tip.label)
-
-
-# phangorn provides several functions to compute tree-differences (and there
-# is a _whole_ lot of theory on how to compare trees). treedist() returns the
-# "symmetric difference"
-phangorn::treedist(fungiTree, apsTree2, check.labels = TRUE)
-
-# Numbers. What do they mean? How much more similar is our apsTree to the
-# (presumably) ground truth of fungiTree than a random tree would be?
-# The ape package provides the function rtree()
-# to compute random trees.
-
-ape::rtree(n = length(apsTree2$tip.label), # number of tips
-          rooted = TRUE,                   # we rooted the tree above,
-                                           #  and fungiTree is rooted anyway
-          tip.label = apsTree2$tip.label,  # use the apsTree2 labels
-          br = NULL)                       # don't generate branch lengths since
-                                           #   fungiTree has none, so we can't
-                                           #   compare them anyway.
-
-# (Note the warning message about non-binary trees; we'll suppress that later
-#  by wrapping the function call in supressMessages(); we don't want to
-#  print it 10,000 times :-)
-
-
-# Let's compute some random trees this way, calculate the distances to
-# fungiTree, and then compare the values we get for apsTree2. The random
-# trees are provided by ape::rtree().
-
-N <- 10000  # takes about 15 seconds, and we'll use the pBar function,
-            # defined in .utilities.R  to keep track of where we are at:
-myTreeDistances <- matrix(numeric(N * 2), ncol = 2)
-colnames(myTreeDistances) <- c("symm", "path")
-
-set.seed(112358)
-for (i in 1:N) {
-  pBar(i, N)
-  xTree <- ape::rtree(n = length(apsTree2$tip.label),
-                      rooted = TRUE,
-                      tip.label = apsTree2$tip.label,
-                      br = NULL)
-  myTreeDistances[i, ] <- suppressMessages(phangorn::treedist(fungiTree, xTree))
-}
-set.seed(NULL)                      # reset the random number generator
-
-table(myTreeDistances[, "symm"])
-
-( symmObs <- phangorn::treedist(fungiTree, apsTree2)[1] )
-
-# Random events less-or-equal to observation, divided by total number of
-# events gives us the empirical p-value.
-cat(sprintf("\nEmpirical p-value for symmetric diff. of observed tree is %1.4f\n",
-            (sum(myTreeDistances[ , "symm"] <= symmObs) + 1) / (N + 1)))
-
-par(PAR)   # reset graphics state
-hist(myTreeDistances[, "path"],
-     col = "aliceblue",
-     main = "Distances of random Trees to fungiTree")
-(pathObs <- phangorn::treedist(fungiTree, apsTree2)[2])
-abline(v = pathObs, col = "chartreuse")
-
-# Random events less-or-equal to observation, divided by total number of
-# events gives us the empirical p-value.
-cat(sprintf("\nEmpirical p-value for path diff. of observed tree is %1.4f\n",
-            (sum(myTreeDistances[ , "path"] <= symmObs) + 1) / (N + 1)))
-
-# Indeed, our apsTree is _very_ much more similar to the species tree than
-# we would expect by random chance.
-
-# What do we gain from that analysis? Analyzing the tree we get from a single
-# gene of orthologous sequences is a positive control in our computational
-# experiment. If these genes are indeed orthologues, a correct tree-building
-# program ought to give us a tree that exactly matches the species tree.
-# Evaluating how far off we are from the known correct result gives us a way to
-# validate our workflow and our algorithm. If we can't get that right, we can't
-# expect to get "real" data right either. Employing such positive controls in
-# every computational experiment is essential for research. Not doing so is
-# Cargo Cult Bioinformatics.
-
-
-# [END]
+# tocID <- "BIN-PHYLO-Tree_analysis.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the BIN-PHYLO-Tree_analysis unit.
+#
+# Version:  1.2
+#
+# Date:     2017-10  -  2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    2020 updates. Deprecate iTol and use taxize:: instead.
+#                  Rewrite of tip re-ordering. Better handling of
+#                  messages. pBar() for randomization.
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+#           1.0.2  Typo in variable name, style changes
+#           1.0.1  Wrong section heading
+#           1.0    First 2017 version
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                              Line
+#TOC> --------------------------------------------------
+#TOC>   1        Preparation and Tree Plot            50
+#TOC>   2        SPECIES REFERENCE TREE               66
+#TOC>   3        Tree Analysis                       117
+#TOC>   3.1        Rooting Trees                     177
+#TOC>   3.2        Rotating Clades                   222
+#TOC>   3.3        Computing tree distances          309
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Preparation and Tree Plot  ===========================================
+
+
+if (! requireNamespace("ape", quietly = TRUE)) {
+  install.packages("ape")
+}
+# Package information:
+#  library(help = ape)       # basic information
+#  browseVignettes("ape")    # available vignettes
+#  data(package = "ape")     # available datasets
+
+# We change the graphics parameters from time to time, let's define the
+# default so we can recreate a sane state:
+dev.off()
+PAR <- par()
+
+# =    2  SPECIES REFERENCE TREE  ==============================================
+
+# Before we do any kind of phylogenetic analysis of genes from several species,
+# we MUST have a reference tree of the taxonomic relationships in hand. This
+# context is absolutely required for the interpretation of our tree.
+
+# We have the tax-ids in our database, and the NCBI has the species tree - we just need some way to extract the subtree that corresponds to our taxons of interest. Here's how to use the taxize:: package.
+
+if (! requireNamespace("taxize", quietly = TRUE)) {
+  install.packages("taxize")
+}
+# Package information:
+#  library(help   = taxize)       # basic information
+#  browseVignettes("taxize")    # available vignettes
+#  data(package  = "taxize")     # available datasets
+
+( mySOI <- c(myDB$taxonomy$ID, "83333") )
+myClass <- taxize::classification(mySOI, db = "ncbi")
+str(myClass)
+
+myClass[[1]]
+
+fungiTree <- taxize::class2tree(myClass, check = TRUE)
+plot(fungiTree)
+
+# The tree produced by taxize:: contains full length species names,
+# but it would be more convenient if it had bicodes instead. Also, the actual
+# tree is only part of the list(), which will cause problems later:
+str(fungiTree)
+
+# we therefor simplify
+fungiTree <- fungiTree$phylo
+str(fungiTree)
+
+# The species names are in a vector $phylo$tip.label of this list.
+# We can use biCode() to shorten them.
+fungiTree$tip.label <- biCode(fungiTree$tip.label)
+
+# Plot the tree
+nSP <- length(fungiTree$tip.label)
+plot(fungiTree, cex = 0.8, root.edge = TRUE, no.margin = TRUE)
+text(-1, nSP - 0.5, "Species Tree:\nFungi", pos = 4)
+ape::nodelabels(text = fungiTree$node.label,
+                cex = 0.6,
+                adj = 0.2,
+                bg = "#D4F2DA")
+# Note that you can use the arrow buttons in the menu above the plot pane to
+# scroll back to plots you have created earlier - so you can reference back to
+# this species tree in your later analysis.
+
+
+# =    3  Tree Analysis  =======================================================
+
+
+# 1.1  Visualizing your tree
+# The trees that are produced by Rphylip are stored as an object of class
+# "phylo". This is a class for phylogenetic trees that is widely used in the
+# community, practically all R phylogenetics packages will options to read and
+# manipulate such trees. Outside of R, a popular interchange format is the
+# Newick_format that you have seen above. It's easy to output your calculated
+# trees in Newick format and visualize them elsewhere.
+
+# The "phylo" class object is one of R's "S3" objects and methods to plot and
+# print it have been defined with the Rphylip package, and in ape. You can
+# simply call plot() and R knows what to do with  and how
+# to plot it. The underlying function is plot.phylo(), and documentation for its
+# many options can by found by typing:
+
+?plot.phylo
+
+# We load the APSES sequence tree that you produced in the
+# BIN-PHYLO-Tree_building unit:
+apsTree <- readRDS(file = "data/APSEStreeRproml.rds")
+
+plot(apsTree) # default type is "phylogram"
+plot(apsTree, type = "unrooted")
+plot(apsTree, type = "fan", no.margin = TRUE)
+
+# rescale to show all of the labels:
+# record the current plot parameters by assigning them to a variable ...
+(tmp <- plot(apsTree, type="fan", no.margin = TRUE, plot=FALSE))
+# ... and adjust the plot limits for a new plot:
+plot(apsTree,
+     type = "fan",
+     x.lim = tmp$x.lim * 1.8,
+     y.lim = tmp$y.lim * 1.8,
+     cex = 0.8,
+     no.margin = TRUE)
+
+# Inspect the tree object
+str(apsTree)
+apsTree$tip.label
+apsTree$edge
+apsTree$edge.length
+
+# show the node / edge and tip labels on a plot
+plot(apsTree)
+ape::nodelabels()
+ape::edgelabels()
+ape::tiplabels()
+
+# show the number of nodes, edges and tips
+ape::Nnode(apsTree)
+ape::Nedge(apsTree)
+ape::Ntip(apsTree)
+
+par(PAR)   # reset graphics state
+
+# Finally, write the tree to console in Newick format
+ape::write.tree(apsTree)
+
+# ==   3.1  Rooting Trees  =====================================================
+
+# In order to analyse the tree, it is helpful to root it first and reorder its
+# clades. Contrary to documentation, Rproml() returns an unrooted tree.
+
+ape::is.rooted(apsTree)
+
+# You can root the tree with the command root() from the "ape" package.
+
+plot(apsTree)
+
+# add labels for internal nodes and tips
+ape::nodelabels(cex = 0.5, frame = "circle")
+ape::tiplabels(cex = 0.5, frame = "rect")
+
+# The outgroup of the tree (KILA ESCCO) is tip "11" in my sample tree, it may be a different
+# number in yours. Substitute the correct node number below for "outgroup".
+apsTree <- ape::root(apsTree, outgroup = 11, resolve.root = TRUE)
+plot(apsTree)
+ape::is.rooted(apsTree)
+
+# This tree _looks_ unchanged, beacuse when the root trifurcation was resolved,
+# an edge of length zero was added to connect the MRCA (Most Recent Common
+# Ancestor) of the ingroup.
+
+# The edge lengths are stored in the phylo object:
+apsTree$edge.length
+
+# ... and you can assign a small arbitrary value to the edge
+# to show how it connects to the tree without having an
+# overlap.
+apsTree$edge.length[1] <- 0.1
+plot(apsTree, cex = 0.7)
+ape::nodelabels(text = "MRCA", node = 12, cex = 0.5, adj = 0.1, bg = "#ff8866")
+
+
+# This procedure does however not assign an actual length to a root edge, and
+# therefore no root edge is visible on the plot. Why? , you might ask. I ask
+# myself that too. We'll just add a length by hand.
+
+apsTree$root.edge <- mean(apsTree$edge.length) * 1.5
+plot(apsTree, cex = 0.7, root.edge = TRUE)
+ape::nodelabels(text = "MRCA", node = 12, cex = 0.5, adj = 0.8, bg = "#ff8866")
+
+
+# ==   3.2  Rotating Clades  ===================================================
+
+# To interpret the tree, it is useful to rotate the clades so that they appear
+# in the order expected from the cladogram of species.
+
+# We can either rotate around individual internal nodes ...
+layout(matrix(1:2, 1, 2))
+plot(apsTree, no.margin = TRUE, root.edge = TRUE)
+ape::nodelabels(node = 13, cex = 0.7, bg = "#ff8866")
+plot(ape::rotate(apsTree, node = 13), no.margin = TRUE, root.edge = TRUE)
+ape::nodelabels(node = 13, cex = 0.7, bg = "#88ff66")
+# Note that the species at the bottom of the clade descending from node
+# 17 is now plotted at the top.
+
+par(PAR)   # reset graphics state
+
+# ... or we can rearrange the tree so it corresponds as well as possible to a
+# predefined tip ordering. Here we use the ordering that taxize:: has inferred
+# from the NCBI taxonomic classification.
+
+nOrg <- length(apsTree$tip.label)
+
+plot(fungiTree,
+     no.margin = FALSE, root.edge = TRUE)
+ape::nodelabels(text = fungiTree$node.label,
+                cex = 0.5,
+                adj = 0.2,
+                bg = "#D4F2DA")
+
+# These are the fungi tree tips ...
+fungiTree$tip.label
+# ... and their order is determined by the edge-list that is stored in
+fungiTree$edge
+# which edges join the tips?
+ape::tiplabels(cex = 0.5, frame = "rect")
+# as you can see, the tips (range [1:nOrg] ) are in column 2 and they are
+# ordered from bottom to top.
+# And each tip number is the index of the species in the tip.label vector. So we can take column 2, subset it, and use it to get a list of species in the order of the tree ...
+
+sel <- fungiTree$edge[ , 2 ] <= nOrg
+( oSp <- fungiTree$tip.label[fungiTree$edge[sel , 2 ]] )
+
+# Now, here are the genes of the apsTree tips ...
+apsTree$tip.label
+
+# ... and the "constraint"  we need for reordering, according to the help page
+# of ape::rotateConstr(), is "a vector specifying the order of the tips as they
+# should appear (from bottom to top)". Thus we need to add the "MBP1_" prefix to our vector
+oSp <- gsub("^", "MBP1_", oSp)
+( oSp <- gsub("MBP1_ESSCO", "KILA_ESCCO", oSp) )
+
+# Then we can plot the two trees to compare: the fungi- tree
+par(PAR)   # reset graphics state
+layout(matrix(1:2, 1, 2))
+plot(fungiTree,
+    no.margin = TRUE,
+     root.edge = TRUE)
+ape::nodelabels(text = fungiTree$node.label,
+                cex = 0.5,
+                adj = 0.2,
+                bg = "#D4F2DA")
+
+# and the re-organized apsesTree ...
+plot(ape::rotateConstr(apsTree, constraint = oSp[]),
+     no.margin = TRUE,
+     root.edge = TRUE)
+
+par(PAR)   # reset graphics state
+
+# As you can see, the reordering is not perfect, since the topologies are
+# different, mostly due to the unresolved nodes in the reference tree. One
+# could play with that ...
+
+
+# Task: Study the two trees and consider their similarities and differences.
+#         What do you expect? What do you find? Note that this is not a "mixed"
+#         gene tree yet, since it contains only a single gene for the species
+#         we considered. All of the branch points in this tree are speciation
+#         events. Thus the gene tree should have the same topology as the
+#         species tree. Does it? Are the differences important? How many
+#         branches would you need to remove and reinsert elsewhere to get the
+#         same topology as the species tree?
+
+# In order to quantify how different these two trees are, we need to compute
+# tree distances.
+
+
+# ==   3.3  Computing tree distances  ==========================================
+
+
+# Many superb phylogeny tools are contributed by the phangorn package.
+
+if (! requireNamespace("phangorn", quietly = TRUE)) {
+  install.packages("phangorn")
+}
+# Package information:
+#  library(help = phangorn)       # basic information
+#  browseVignettes("phangorn")    # available vignettes
+#  data(package = "phangorn")     # available datasets
+
+# To compare two trees, they must have the same tip labels. We delete "MBP1_" or
+# "KILA_" from the existing tip labels in a copy of our APSES domain tree.
+apsTree2 <- apsTree
+apsTree2$tip.label <- gsub("(MBP1_)|(KILA_)", "", apsTree2$tip.label)
+
+
+# phangorn provides several functions to compute tree-differences (and there
+# is a _whole_ lot of theory on how to compare trees). treedist() returns the
+# "symmetric difference"
+phangorn::treedist(fungiTree, apsTree2, check.labels = TRUE)
+
+# Numbers. What do they mean? How much more similar is our apsTree to the
+# (presumably) ground truth of fungiTree than a random tree would be?
+# The ape package provides the function rtree()
+# to compute random trees.
+
+ape::rtree(n = length(apsTree2$tip.label), # number of tips
+          rooted = TRUE,                   # we rooted the tree above,
+                                           #  and fungiTree is rooted anyway
+          tip.label = apsTree2$tip.label,  # use the apsTree2 labels
+          br = NULL)                       # don't generate branch lengths since
+                                           #   fungiTree has none, so we can't
+                                           #   compare them anyway.
+
+# (Note the warning message about non-binary trees; we'll suppress that later
+#  by wrapping the function call in supressMessages(); we don't want to
+#  print it 10,000 times :-)
+
+
+# Let's compute some random trees this way, calculate the distances to
+# fungiTree, and then compare the values we get for apsTree2. The random
+# trees are provided by ape::rtree().
+
+N <- 10000  # takes about 15 seconds, and we'll use the pBar function,
+            # defined in .utilities.R  to keep track of where we are at:
+myTreeDistances <- matrix(numeric(N * 2), ncol = 2)
+colnames(myTreeDistances) <- c("symm", "path")
+
+set.seed(112358)
+for (i in 1:N) {
+  pBar(i, N)
+  xTree <- ape::rtree(n = length(apsTree2$tip.label),
+                      rooted = TRUE,
+                      tip.label = apsTree2$tip.label,
+                      br = NULL)
+  myTreeDistances[i, ] <- suppressMessages(phangorn::treedist(fungiTree, xTree))
+}
+set.seed(NULL)                      # reset the random number generator
+
+table(myTreeDistances[, "symm"])
+
+( symmObs <- phangorn::treedist(fungiTree, apsTree2)[1] )
+
+# Random events less-or-equal to observation, divided by total number of
+# events gives us the empirical p-value.
+cat(sprintf("\nEmpirical p-value for symmetric diff. of observed tree is %1.4f\n",
+            (sum(myTreeDistances[ , "symm"] <= symmObs) + 1) / (N + 1)))
+
+par(PAR)   # reset graphics state
+hist(myTreeDistances[, "path"],
+     col = "aliceblue",
+     main = "Distances of random Trees to fungiTree")
+(pathObs <- phangorn::treedist(fungiTree, apsTree2)[2])
+abline(v = pathObs, col = "chartreuse")
+
+# Random events less-or-equal to observation, divided by total number of
+# events gives us the empirical p-value.
+cat(sprintf("\nEmpirical p-value for path diff. of observed tree is %1.4f\n",
+            (sum(myTreeDistances[ , "path"] <= symmObs) + 1) / (N + 1)))
+
+# Indeed, our apsTree is _very_ much more similar to the species tree than
+# we would expect by random chance.
+
+# What do we gain from that analysis? Analyzing the tree we get from a single
+# gene of orthologous sequences is a positive control in our computational
+# experiment. If these genes are indeed orthologues, a correct tree-building
+# program ought to give us a tree that exactly matches the species tree.
+# Evaluating how far off we are from the known correct result gives us a way to
+# validate our workflow and our algorithm. If we can't get that right, we can't
+# expect to get "real" data right either. Employing such positive controls in
+# every computational experiment is essential for research. Not doing so is
+# Cargo Cult Bioinformatics.
+
+
+# [END]
diff --git a/BIN-PHYLO-Tree_building.R b/BIN-PHYLO-Tree_building.R
index 106fac4..3ed7277 100644
--- a/BIN-PHYLO-Tree_building.R
+++ b/BIN-PHYLO-Tree_building.R
@@ -1,168 +1,168 @@
-# tocID <- "BIN-PHYLO-Tree_building.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the BIN-PHYLO-Tree_building unit.
-#
-# Version:  1.2
-#
-# Date:     2017-10   2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    deprecate save()/load() for saveRDS()/readRDS(); Mac:
-#                  instructions to authorize proml.app
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#           1.0    First 2017 version
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:
-#           Add MrBayes
-# https://cran.r-project.org/web/packages/phangorn/vignettes/IntertwiningTreesAndNetworks.html
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                       Line
-#TOC> -----------------------------------------------------------
-#TOC>   1        Calculating Trees                             48
-#TOC>   1.1        PROMLPATH ...                               68
-#TOC>   1.1.1          ... on the Mac                          73
-#TOC>   1.1.2          ... on Windows                         101
-#TOC>   1.1.3          ... on Linux                           115
-#TOC>   1.1.4          Confirming PROMLPATH                   120
-#TOC>   1.2        Building a maximum likelihood tree         134
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Calculating Trees  ===================================================
-
-
-# Follow the instructions found at phylip's home on the Web to install. If you
-# are on a Windows computer, take note of the installation directory.
-
-# After you have installed Phylip on your computer, install the R package that
-# provides an interface to the Phylip functions.
-
-if (! requireNamespace("Rphylip", quietly = TRUE)) {
-  install.packages("Rphylip")
-}
-# Package information:
-#  library(help = Rphylip)       # basic information
-#  browseVignettes("Rphylip")    # available vignettes
-#  data(package = "Rphylip")     # available datasets
-
-# This will install RPhylip, as well as its dependency, the package "ape".
-
-
-# ==   1.1  PROMLPATH ...  =====================================================
-# The next part may be tricky. You will need to figure out where
-# on your computer Phylip has been installed and define the path
-# to the proml program that calculates a maximum-likelihood tree.
-
-# ===   1.1.1  ... on the Mac                    
-# On the Mac, the standard installation places a phylip folder
-# in the /Applications directory. That folder contains all the
-# individual phylip programs as .app files. These are not
-# the actual executables, but "app" files are actually directories
-# that contain the required resources for a program to run.
-
-# The executable is in a subdirectory and you can point Rphylip
-# directly to that subdirectory to find the program it needs:
-# PROMLPATH <- "/Applications/phylip-3.695/exe/proml.app/Contents/MacOS"
-
-# However, RPHYLIP will not be able to run PHYLIP applications immediately,
-# because they have not been "signed" by the PHYLIP developers. The process
-# will terminate by your system, with a warning.
-
-#   -  Navigate to the phylip folder in your ~/Applications directory
-#   -  Descend into the "exe" folder and find  proml.app
-#   -  Ctrl-click  proml.app  and choose "Open". A dialogue will show that
-#      says: "macOS cannot verify the developer of “proml.app”.
-#             Are you sure you want to open it?"
-#   -  Click open to continue. You may need to allow access to the terminal
-#      as well. When the proml terminal session open, you can type
-#      Ctrl-c to abort the program and close the window.
-#
-#   This adds proml.app to the list of known-good programs and you will not
-#   need to repeat this process.
-#
-
-# ===   1.1.2  ... on Windows                    
-# On Windows you need to know where the programs have been installed, and you
-# need to specify a path that is correct for the Windows OS. Find the folder
-# that is named "exe", and right-click to inspect its properties. The path
-# should be listed among them.
-
-# If the path looks like "C:\Users\Meng\Programs\phylip-3.695\exe", then your
-# assignment has to be
-# PROMLPATH <- "C:/Users/Meng/Programs/phylip-3.695/exe"
-# (Note: "/", not "\")
-
-# I have heard that your path must not contain spaces, and it is prudent to
-# avoid other special characters as well.
-
-# ===   1.1.3  ... on Linux                      
-# If you are running Linux I trust you know what to do. It's probably
-# something like
-# PROMLPATH <- "/usr/local/phylip-3.695/bin"
-
-# ===   1.1.4  Confirming PROMLPATH              
-# Confirm that the settings are right.
-PROMLPATH                # returns the path
-list.dirs(PROMLPATH)     # returns the directories in that path
-list.files(PROMLPATH)    # lists the files [1] "proml"   "proml.command"
-
-# If "proml" is NOT among the files that the last command returns, you
-# can't continue. Ask on the mailing list for advice.
-
-# If everything is good, you can add the line that defines PROMLPATH to
-# myScripts/.myProfile.R - the path will then be automatically set when
-# you quit RStudio and return.
-
-
-# ==   1.2  Building a maximum likelihood tree  ================================
-# Now read the mfa file you have saved in the BIB-PHYLO-Data_preparation unit,
-# as a "proseq" object with the read.protein() function of the RPhylip package:
-
-apsIn <- Rphylip::read.protein("data/APSESphyloSet.mfa")
-str(apsIn)
-
-# ... and you are ready to build a tree.
-
-# There are many fast options in PHYLIP - we will use the most _accurate_ one
-# that it has: proml, a maximum-likelihood tree building program for protein
-# data.
-
-# Building maximum-likelihood trees can eat as much computer time
-# as you can throw at it. Calculating a tree of 48 APSES domains
-# with default parameters of Rproml() runs for more than half a day
-# on my computer. But we have only twelve sequences here, so the
-# process will take us about 5 to 15 minutes. Run this, and anjoy a good cup
-# of coffee while you are waiting.
-
-apsTree <- Rphylip::Rproml(apsIn, path=PROMLPATH)
-
-# A quick first look:
-
-plot(apsTree)
-
-# save your tree:
-saveRDS(apsTree, file = "data/APSEStreeRproml.rds")
-
-# If this did not work, ask for advice.
-
-
-
-
-# [END]
+# tocID <- "BIN-PHYLO-Tree_building.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the BIN-PHYLO-Tree_building unit.
+#
+# Version:  1.2
+#
+# Date:     2017-10   2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    deprecate save()/load() for saveRDS()/readRDS(); Mac:
+#                  instructions to authorize proml.app
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#           1.0    First 2017 version
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:
+#           Add MrBayes
+# https://cran.r-project.org/web/packages/phangorn/vignettes/IntertwiningTreesAndNetworks.html
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                       Line
+#TOC> -----------------------------------------------------------
+#TOC>   1        Calculating Trees                             48
+#TOC>   1.1        PROMLPATH ...                               68
+#TOC>   1.1.1          ... on the Mac                          73
+#TOC>   1.1.2          ... on Windows                         101
+#TOC>   1.1.3          ... on Linux                           115
+#TOC>   1.1.4          Confirming PROMLPATH                   120
+#TOC>   1.2        Building a maximum likelihood tree         134
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Calculating Trees  ===================================================
+
+
+# Follow the instructions found at phylip's home on the Web to install. If you
+# are on a Windows computer, take note of the installation directory.
+
+# After you have installed Phylip on your computer, install the R package that
+# provides an interface to the Phylip functions.
+
+if (! requireNamespace("Rphylip", quietly = TRUE)) {
+  install.packages("Rphylip")
+}
+# Package information:
+#  library(help = Rphylip)       # basic information
+#  browseVignettes("Rphylip")    # available vignettes
+#  data(package = "Rphylip")     # available datasets
+
+# This will install RPhylip, as well as its dependency, the package "ape".
+
+
+# ==   1.1  PROMLPATH ...  =====================================================
+# The next part may be tricky. You will need to figure out where
+# on your computer Phylip has been installed and define the path
+# to the proml program that calculates a maximum-likelihood tree.
+
+# ===   1.1.1  ... on the Mac                    
+# On the Mac, the standard installation places a phylip folder
+# in the /Applications directory. That folder contains all the
+# individual phylip programs as .app files. These are not
+# the actual executables, but "app" files are actually directories
+# that contain the required resources for a program to run.
+
+# The executable is in a subdirectory and you can point Rphylip
+# directly to that subdirectory to find the program it needs:
+# PROMLPATH <- "/Applications/phylip-3.695/exe/proml.app/Contents/MacOS"
+
+# However, RPHYLIP will not be able to run PHYLIP applications immediately,
+# because they have not been "signed" by the PHYLIP developers. The process
+# will terminate by your system, with a warning.
+
+#   -  Navigate to the phylip folder in your ~/Applications directory
+#   -  Descend into the "exe" folder and find  proml.app
+#   -  Ctrl-click  proml.app  and choose "Open". A dialogue will show that
+#      says: "macOS cannot verify the developer of “proml.app”.
+#             Are you sure you want to open it?"
+#   -  Click open to continue. You may need to allow access to the terminal
+#      as well. When the proml terminal session open, you can type
+#      Ctrl-c to abort the program and close the window.
+#
+#   This adds proml.app to the list of known-good programs and you will not
+#   need to repeat this process.
+#
+
+# ===   1.1.2  ... on Windows                    
+# On Windows you need to know where the programs have been installed, and you
+# need to specify a path that is correct for the Windows OS. Find the folder
+# that is named "exe", and right-click to inspect its properties. The path
+# should be listed among them.
+
+# If the path looks like "C:\Users\Meng\Programs\phylip-3.695\exe", then your
+# assignment has to be
+# PROMLPATH <- "C:/Users/Meng/Programs/phylip-3.695/exe"
+# (Note: "/", not "\")
+
+# I have heard that your path must not contain spaces, and it is prudent to
+# avoid other special characters as well.
+
+# ===   1.1.3  ... on Linux                      
+# If you are running Linux I trust you know what to do. It's probably
+# something like
+# PROMLPATH <- "/usr/local/phylip-3.695/bin"
+
+# ===   1.1.4  Confirming PROMLPATH              
+# Confirm that the settings are right.
+PROMLPATH                # returns the path
+list.dirs(PROMLPATH)     # returns the directories in that path
+list.files(PROMLPATH)    # lists the files [1] "proml"   "proml.command"
+
+# If "proml" is NOT among the files that the last command returns, you
+# can't continue. Ask on the mailing list for advice.
+
+# If everything is good, you can add the line that defines PROMLPATH to
+# myScripts/.myProfile.R - the path will then be automatically set when
+# you quit RStudio and return.
+
+
+# ==   1.2  Building a maximum likelihood tree  ================================
+# Now read the mfa file you have saved in the BIB-PHYLO-Data_preparation unit,
+# as a "proseq" object with the read.protein() function of the RPhylip package:
+
+apsIn <- Rphylip::read.protein("data/APSESphyloSet.mfa")
+str(apsIn)
+
+# ... and you are ready to build a tree.
+
+# There are many fast options in PHYLIP - we will use the most _accurate_ one
+# that it has: proml, a maximum-likelihood tree building program for protein
+# data.
+
+# Building maximum-likelihood trees can eat as much computer time
+# as you can throw at it. Calculating a tree of 48 APSES domains
+# with default parameters of Rproml() runs for more than half a day
+# on my computer. But we have only twelve sequences here, so the
+# process will take us about 5 to 15 minutes. Run this, and anjoy a good cup
+# of coffee while you are waiting.
+
+apsTree <- Rphylip::Rproml(apsIn, path=PROMLPATH)
+
+# A quick first look:
+
+plot(apsTree)
+
+# save your tree:
+saveRDS(apsTree, file = "data/APSEStreeRproml.rds")
+
+# If this did not work, ask for advice.
+
+
+
+
+# [END]
diff --git a/BIN-PPI-Analysis.R b/BIN-PPI-Analysis.R
index 4884ba8..9eb350e 100644
--- a/BIN-PPI-Analysis.R
+++ b/BIN-PPI-Analysis.R
@@ -1,323 +1,323 @@
-# tocID <- "BIN-PPI-Analysis.R"
-#
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the BIN-PPI-Analysis unit.
-#
-# Version:   1.4
-#
-# Date:     2017-08  -  2020-10
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.4    Update vector ID's for betweenness centrality.
-#           1.3    Bugfix: called the wrong function on ENSPsel in l. 220
-#           1.2    2020 Updates; Rewrite for new STRINg V11;
-#                  Deprecate save()/load() for saveRDS()/readRDS()
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-#           1.0    First live version
-#           0.1    First code copied from 2016 material.
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC>
-#TOC>   Section  Title                                           Line
-#TOC> ---------------------------------------------------------------
-#TOC>   1        Setup and data                                    50
-#TOC>   2        Functional Edges in the Human Proteome            86
-#TOC>   2.1        Cliques                                        129
-#TOC>   2.2        Communities                                    170
-#TOC>   2.3        Betweenness Centrality                         184
-#TOC>   3        biomaRt                                          231
-#TOC>   4        Task for submission                              302
-#TOC>
-#TOC> ==========================================================================
-
-
-# =    1  Setup and data  ======================================================
-
-
-# Not surprisingly, the analysis of PPI networks needs iGraph:
-
-if (! requireNamespace("igraph", quietly = TRUE)) {
-  install.packages("igraph")
-}
-# Package information:
-#  library(help = igraph)       # basic information
-#  browseVignettes("igraph")    # available vignettes
-#  data(package = "igraph")     # available datasets
-
-# In order for you to explore some real, biological networks, I give you a
-# dataframe of functional relationships of human proteins that I have downloaded
-# from the STRING database. The full table has 8.5 million records, here is a
-# subset of records with combined confidence scores > 980
-
-# The selected set of edges with a confidence of > 964 is a dataframe with about
-# 50,000 edges and 8,400 unique proteins. Incidentaly, that's about the size of
-# a fungal proteome. You can load the saved dataframe here (To read more about
-# what the scores mean, see http://www.ncbi.nlm.nih.gov/pubmed/15608232 ).
-
-STRINGedges <- readRDS("./data/STRINGedges.rds")
-
-head(STRINGedges)
-
-# Note that STRING has appended the tax-ID for Homo sapiens - 9606 - to the
-# Ensemble transcript identifiers that start with ENSP. We'll remove them:
-
-STRINGedges$a <- gsub("^9606\\.", "", STRINGedges$a)
-STRINGedges$b <- gsub("^9606\\.", "", STRINGedges$b)
-
-head(STRINGedges)
-
-
-# =    2  Functional Edges in the Human Proteome  ==============================
-
-
-# There are many possibilities to explore interesting aspects of biological
-# networks, we will keep with some very simple procedures here but you have
-# to be aware that this is barely scratching the surface of possibilities.
-# However, once the network exists in your computer, it is comparatively
-# easy to find information online about the many, many options to analyze.
-
-
-# Make a graph from this dataframe
-?igraph::graph_from_data_frame
-
-gSTR <- igraph::graph_from_data_frame(STRINGedges, directed = FALSE)
-
-# CAUTION you DON'T want to plot a graph with 8,000 nodes and 50,000 edges -
-# layout of such large graphs is possible, but requires specialized code. Google
-# for  if you are curious. Also, consider what one can
-# really learn from plotting such a graph ...
-
-# Of course simple computations on this graph are reasonably fast:
-
-compSTR <- igraph::components(gSTR)
-summary(compSTR) # our graph is fully connected!
-
-hist(log(igraph::degree(gSTR)), col="#FEE0AF")
-# this actually does look rather scale-free
-
-(freqRank <- table(igraph::degree(gSTR)))
-plot(log10(as.numeric(names(freqRank)) + 1),
-     log10(as.numeric(freqRank)), type = "b",
-     pch = 21, bg = "#FEE0AF",
-     xlab = "log(Rank)", ylab = "log(frequency)",
-     main = "8,400 nodes from the human functional interaction network")
-
-# This looks very scale-free indeed.
-
-(regressionLine <- lm(log10(as.numeric(freqRank)) ~
-                      log10(as.numeric(names(freqRank)) + 1)))
-abline(regressionLine, col = "firebrick")
-
-# Now explore some more:
-
-# ==   2.1  Cliques  ===========================================================
-
-# Let's find the largest cliques. Remember: a clique is a fully connected
-# subgraph, i.e. a subgraph in which every node is connected to every other.
-# Biological complexes often appear as cliques in interaction graphs.
-
-igraph::clique_num(gSTR)
-# The largest clique has 81 members.
-
-(C <- igraph::largest_cliques(gSTR)[[1]])
-
-# Pick one of the proteins and find out what this fully connected cluster of 81
-# proteins is (you can simply Google for any of the IDs). Is this expected?
-
-# Plot this ...
-R <- igraph::induced_subgraph(gSTR, C) # a graph from a selected set of vertices
-
-# color the vertices along a color spectrum
-vCol <- rainbow(igraph::gorder(R)) # "order" of a graph == number of nodes
-
-# color the edges to have the same color as the originating node
-eCol <- character()
-for (i in seq_along(vCol)) {
-  eCol <- c(eCol, rep(vCol[i], igraph::gorder(R)))
-}
-
-oPar <- par(mar= rep(0,4)) # Turn margins off
-plot(R,
-     layout = igraph::layout_in_circle(R),
-     vertex.size = 3,
-     vertex.color = vCol,
-     edge.color = eCol,
-     edge.width = 0.1,
-     vertex.label = NA)
-par(oPar)
-
-# ... well: remember: a clique means every node is connected to every other
-# node. We have 81 * 81 = 6,561 edges. This is what a matrix model of PPI
-# networks looks like for large complexes.
-
-
-# ==   2.2  Communities  =======================================================
-
-set.seed(112358)                       # set RNG seed for repeatable randomness
-gSTRclusters <- igraph::cluster_infomap(gSTR)
-set.seed(NULL)                         # reset the RNG
-
-igraph::modularity(gSTRclusters) # ... measures how separated the different
-                                 # membership types are from each other
-tMem <- table(igraph::membership(gSTRclusters))
-length(tMem)  # About 700 communities identified
-hist(tMem, breaks = 50, col = "skyblue")  # most clusters are small ...
-range(tMem) # ... but one has > 200 members
-
-
-# ==   2.3  Betweenness Centrality  ============================================
-
-# Let's find the nodes with the 10 - highest betweenness centralities.
-#
-BC <- igraph::centr_betw(gSTR)
-
-# remember: BC$res contains the results
-head(BC$res)
-
-BC$res[1]   # betweenness centrality of node 1 in the graph ...
-# ... which one is node 1?
-igraph::V(gSTR)[1]
-
-# to get the ten-highest nodes, we simply label the elements of BC with their
-# index ...
-names(BC$res) <- as.character(1:length(BC$res))
-
-# ... and then we sort:
-sBC <- sort(BC$res, decreasing = TRUE)
-head(sBC)
-
-# This ordered vector means: node 3 has the highest betweenness centrality,
-# node 721 has the second highest, etc.
-
-(BCsel <- as.numeric(names(sBC)[1:10]))
-
-# We can use the first ten labels to subset the nodes in gSTR and fetch the
-# IDs...
-(ENSPsel <- names(igraph::V(gSTR)[BCsel]))
-
-# Task:
-# =====
-# IMPORTANT, IF YOU INTEND TO SUBMIT YOUR ANALYSIS FOR CREDIT
-# We are going to use these IDs to produce some output for a submitted task:
-# therefore I need you to execute the following line, note the "seal" that this
-# returns, and not change myENSPsel later:
-
-myENSPsel <- selectENSP(ENSPsel)
-
-#  Next, to find what these proteins are...
-
-# We could now Google for all of these IDs to learn more about them. But really,
-# googling for IDs one after the other, that would be lame. Let's instead use
-# the very, very useful biomaRt package to translate these Ensemble IDs into
-# gene symbols.
-
-
-# =    3  biomaRt  =============================================================
-
-
-# IDs are just labels, but for _bio_informatics we need to learn more about the
-# biological function of the genes or proteins that we retrieve via graph data
-# mining. biomaRt is the tool of choice. It's a package distributed by the
-# bioconductor project. This here is not a biomaRt tutorial (that's for another
-# day), simply a few lines of sample code to get you started on the specific use
-# case of retrieving descriptions for ensembl protein IDs.
-
-if (! requireNamespace("BiocManager", quietly = TRUE)) {
-  install.packages("BiocManager")
-}
-if (! requireNamespace("biomaRt", quietly = TRUE)) {
-  BiocManager::install("biomaRt")
-}
-# Package information:
-#  library(help = biomaRt)       # basic information
-#  browseVignettes("biomaRt")    # available vignettes
-#  data(package = "biomaRt")     # available datasets
-
-# define which dataset to use ... this takes a while for download
-myMart <- biomaRt::useMart("ensembl", dataset="hsapiens_gene_ensembl")
-
-# what filters are defined?
-( filters <- biomaRt::listFilters(myMart) )
-
-
-# and what attributes can we filter for?
-( attributes <- biomaRt::listAttributes(myMart) )
-
-
-# Soooo many options - let's look for the correct name of filters that are
-# useful for ENSP IDs ...
-filters[grep("ENSP", filters$description), ]
-
-# ... and the correct attribute names for gene symbols and descriptions ...
-attributes[grep("symbol", attributes$description, ignore.case = TRUE), ]
-attributes[grep("description", attributes$description, ignore.case = TRUE), ]
-
-
-# ... so we can put this together: here is a syntax example:
-biomaRt::getBM(filters = "ensembl_peptide_id",
-               attributes = c("hgnc_symbol",
-                              "wikigene_description",
-                              "interpro_description",
-                              "phenotype_description"),
-               values = "ENSP00000000442",
-               mart = myMart)
-
-# A simple loop will now get us the information for our 10 most central genes
-# from the human subset of STRING.
-
-CPdefs <- list()  # Since we don't know how many matches one of our queries
-# will return, we'll put the result dataframes into a list.
-
-for (ID in myENSPsel) {
-  CPdefs[[ID]] <- biomaRt::getBM(filters = "ensembl_peptide_id",
-                                 attributes = c("hgnc_symbol",
-                                                "wikigene_description",
-                                                "interpro_description",
-                                                "phenotype_description"),
-                                 values = ID,
-                                 mart = myMart)
-}
-
-
-# So what are the proteins with the ten highest betweenness centralities?
-#  ... are you surprised? (I am! Really.)
-
-
-# =    4  Task for submission  =================================================
-
-# Write a loop that will go through your personalized list of Ensemble IDs and
-#    for each ID:
-#    --  print the ID,
-#    --  print the first row's HGNC symbol,
-#    --  print the first row's wikigene description.
-#    --  print the first row's phenotype.
-#
-# Write your thoughts about this group of genes.
-#
-# (Hint, you can structure your loop in the same way as the loop that
-# created CPdefs. )
-
-# Submit the "seal" for your ENSP vector, the ENSP vector itself, the R code
-# for this loop and its output into your report if you are submitting
-# anything for credit for this unit. Please read the requirements carefully.
-
-
-
-
-# [END]
+# tocID <- "BIN-PPI-Analysis.R"
+#
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the BIN-PPI-Analysis unit.
+#
+# Version:   1.4
+#
+# Date:     2017-08  -  2020-10
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.4    Update vector ID's for betweenness centrality.
+#           1.3    Bugfix: called the wrong function on ENSPsel in l. 220
+#           1.2    2020 Updates; Rewrite for new STRINg V11;
+#                  Deprecate save()/load() for saveRDS()/readRDS()
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+#           1.0    First live version
+#           0.1    First code copied from 2016 material.
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC>
+#TOC>   Section  Title                                           Line
+#TOC> ---------------------------------------------------------------
+#TOC>   1        Setup and data                                    50
+#TOC>   2        Functional Edges in the Human Proteome            86
+#TOC>   2.1        Cliques                                        129
+#TOC>   2.2        Communities                                    170
+#TOC>   2.3        Betweenness Centrality                         184
+#TOC>   3        biomaRt                                          231
+#TOC>   4        Task for submission                              302
+#TOC>
+#TOC> ==========================================================================
+
+
+# =    1  Setup and data  ======================================================
+
+
+# Not surprisingly, the analysis of PPI networks needs iGraph:
+
+if (! requireNamespace("igraph", quietly = TRUE)) {
+  install.packages("igraph")
+}
+# Package information:
+#  library(help = igraph)       # basic information
+#  browseVignettes("igraph")    # available vignettes
+#  data(package = "igraph")     # available datasets
+
+# In order for you to explore some real, biological networks, I give you a
+# dataframe of functional relationships of human proteins that I have downloaded
+# from the STRING database. The full table has 8.5 million records, here is a
+# subset of records with combined confidence scores > 980
+
+# The selected set of edges with a confidence of > 964 is a dataframe with about
+# 50,000 edges and 8,400 unique proteins. Incidentaly, that's about the size of
+# a fungal proteome. You can load the saved dataframe here (To read more about
+# what the scores mean, see http://www.ncbi.nlm.nih.gov/pubmed/15608232 ).
+
+STRINGedges <- readRDS("./data/STRINGedges.rds")
+
+head(STRINGedges)
+
+# Note that STRING has appended the tax-ID for Homo sapiens - 9606 - to the
+# Ensemble transcript identifiers that start with ENSP. We'll remove them:
+
+STRINGedges$a <- gsub("^9606\\.", "", STRINGedges$a)
+STRINGedges$b <- gsub("^9606\\.", "", STRINGedges$b)
+
+head(STRINGedges)
+
+
+# =    2  Functional Edges in the Human Proteome  ==============================
+
+
+# There are many possibilities to explore interesting aspects of biological
+# networks, we will keep with some very simple procedures here but you have
+# to be aware that this is barely scratching the surface of possibilities.
+# However, once the network exists in your computer, it is comparatively
+# easy to find information online about the many, many options to analyze.
+
+
+# Make a graph from this dataframe
+?igraph::graph_from_data_frame
+
+gSTR <- igraph::graph_from_data_frame(STRINGedges, directed = FALSE)
+
+# CAUTION you DON'T want to plot a graph with 8,000 nodes and 50,000 edges -
+# layout of such large graphs is possible, but requires specialized code. Google
+# for  if you are curious. Also, consider what one can
+# really learn from plotting such a graph ...
+
+# Of course simple computations on this graph are reasonably fast:
+
+compSTR <- igraph::components(gSTR)
+summary(compSTR) # our graph is fully connected!
+
+hist(log(igraph::degree(gSTR)), col="#FEE0AF")
+# this actually does look rather scale-free
+
+(freqRank <- table(igraph::degree(gSTR)))
+plot(log10(as.numeric(names(freqRank)) + 1),
+     log10(as.numeric(freqRank)), type = "b",
+     pch = 21, bg = "#FEE0AF",
+     xlab = "log(Rank)", ylab = "log(frequency)",
+     main = "8,400 nodes from the human functional interaction network")
+
+# This looks very scale-free indeed.
+
+(regressionLine <- lm(log10(as.numeric(freqRank)) ~
+                      log10(as.numeric(names(freqRank)) + 1)))
+abline(regressionLine, col = "firebrick")
+
+# Now explore some more:
+
+# ==   2.1  Cliques  ===========================================================
+
+# Let's find the largest cliques. Remember: a clique is a fully connected
+# subgraph, i.e. a subgraph in which every node is connected to every other.
+# Biological complexes often appear as cliques in interaction graphs.
+
+igraph::clique_num(gSTR)
+# The largest clique has 81 members.
+
+(C <- igraph::largest_cliques(gSTR)[[1]])
+
+# Pick one of the proteins and find out what this fully connected cluster of 81
+# proteins is (you can simply Google for any of the IDs). Is this expected?
+
+# Plot this ...
+R <- igraph::induced_subgraph(gSTR, C) # a graph from a selected set of vertices
+
+# color the vertices along a color spectrum
+vCol <- rainbow(igraph::gorder(R)) # "order" of a graph == number of nodes
+
+# color the edges to have the same color as the originating node
+eCol <- character()
+for (i in seq_along(vCol)) {
+  eCol <- c(eCol, rep(vCol[i], igraph::gorder(R)))
+}
+
+oPar <- par(mar= rep(0,4)) # Turn margins off
+plot(R,
+     layout = igraph::layout_in_circle(R),
+     vertex.size = 3,
+     vertex.color = vCol,
+     edge.color = eCol,
+     edge.width = 0.1,
+     vertex.label = NA)
+par(oPar)
+
+# ... well: remember: a clique means every node is connected to every other
+# node. We have 81 * 81 = 6,561 edges. This is what a matrix model of PPI
+# networks looks like for large complexes.
+
+
+# ==   2.2  Communities  =======================================================
+
+set.seed(112358)                       # set RNG seed for repeatable randomness
+gSTRclusters <- igraph::cluster_infomap(gSTR)
+set.seed(NULL)                         # reset the RNG
+
+igraph::modularity(gSTRclusters) # ... measures how separated the different
+                                 # membership types are from each other
+tMem <- table(igraph::membership(gSTRclusters))
+length(tMem)  # About 700 communities identified
+hist(tMem, breaks = 50, col = "skyblue")  # most clusters are small ...
+range(tMem) # ... but one has > 200 members
+
+
+# ==   2.3  Betweenness Centrality  ============================================
+
+# Let's find the nodes with the 10 - highest betweenness centralities.
+#
+BC <- igraph::centr_betw(gSTR)
+
+# remember: BC$res contains the results
+head(BC$res)
+
+BC$res[1]   # betweenness centrality of node 1 in the graph ...
+# ... which one is node 1?
+igraph::V(gSTR)[1]
+
+# to get the ten-highest nodes, we simply label the elements of BC with their
+# index ...
+names(BC$res) <- as.character(1:length(BC$res))
+
+# ... and then we sort:
+sBC <- sort(BC$res, decreasing = TRUE)
+head(sBC)
+
+# This ordered vector means: node 3 has the highest betweenness centrality,
+# node 721 has the second highest, etc.
+
+(BCsel <- as.numeric(names(sBC)[1:10]))
+
+# We can use the first ten labels to subset the nodes in gSTR and fetch the
+# IDs...
+(ENSPsel <- names(igraph::V(gSTR)[BCsel]))
+
+# Task:
+# =====
+# IMPORTANT, IF YOU INTEND TO SUBMIT YOUR ANALYSIS FOR CREDIT
+# We are going to use these IDs to produce some output for a submitted task:
+# therefore I need you to execute the following line, note the "seal" that this
+# returns, and not change myENSPsel later:
+
+myENSPsel <- selectENSP(ENSPsel)
+
+#  Next, to find what these proteins are...
+
+# We could now Google for all of these IDs to learn more about them. But really,
+# googling for IDs one after the other, that would be lame. Let's instead use
+# the very, very useful biomaRt package to translate these Ensemble IDs into
+# gene symbols.
+
+
+# =    3  biomaRt  =============================================================
+
+
+# IDs are just labels, but for _bio_informatics we need to learn more about the
+# biological function of the genes or proteins that we retrieve via graph data
+# mining. biomaRt is the tool of choice. It's a package distributed by the
+# bioconductor project. This here is not a biomaRt tutorial (that's for another
+# day), simply a few lines of sample code to get you started on the specific use
+# case of retrieving descriptions for ensembl protein IDs.
+
+if (! requireNamespace("BiocManager", quietly = TRUE)) {
+  install.packages("BiocManager")
+}
+if (! requireNamespace("biomaRt", quietly = TRUE)) {
+  BiocManager::install("biomaRt")
+}
+# Package information:
+#  library(help = biomaRt)       # basic information
+#  browseVignettes("biomaRt")    # available vignettes
+#  data(package = "biomaRt")     # available datasets
+
+# define which dataset to use ... this takes a while for download
+myMart <- biomaRt::useMart("ensembl", dataset="hsapiens_gene_ensembl")
+
+# what filters are defined?
+( filters <- biomaRt::listFilters(myMart) )
+
+
+# and what attributes can we filter for?
+( attributes <- biomaRt::listAttributes(myMart) )
+
+
+# Soooo many options - let's look for the correct name of filters that are
+# useful for ENSP IDs ...
+filters[grep("ENSP", filters$description), ]
+
+# ... and the correct attribute names for gene symbols and descriptions ...
+attributes[grep("symbol", attributes$description, ignore.case = TRUE), ]
+attributes[grep("description", attributes$description, ignore.case = TRUE), ]
+
+
+# ... so we can put this together: here is a syntax example:
+biomaRt::getBM(filters = "ensembl_peptide_id",
+               attributes = c("hgnc_symbol",
+                              "wikigene_description",
+                              "interpro_description",
+                              "phenotype_description"),
+               values = "ENSP00000000442",
+               mart = myMart)
+
+# A simple loop will now get us the information for our 10 most central genes
+# from the human subset of STRING.
+
+CPdefs <- list()  # Since we don't know how many matches one of our queries
+# will return, we'll put the result dataframes into a list.
+
+for (ID in myENSPsel) {
+  CPdefs[[ID]] <- biomaRt::getBM(filters = "ensembl_peptide_id",
+                                 attributes = c("hgnc_symbol",
+                                                "wikigene_description",
+                                                "interpro_description",
+                                                "phenotype_description"),
+                                 values = ID,
+                                 mart = myMart)
+}
+
+
+# So what are the proteins with the ten highest betweenness centralities?
+#  ... are you surprised? (I am! Really.)
+
+
+# =    4  Task for submission  =================================================
+
+# Write a loop that will go through your personalized list of Ensemble IDs and
+#    for each ID:
+#    --  print the ID,
+#    --  print the first row's HGNC symbol,
+#    --  print the first row's wikigene description.
+#    --  print the first row's phenotype.
+#
+# Write your thoughts about this group of genes.
+#
+# (Hint, you can structure your loop in the same way as the loop that
+# created CPdefs. )
+
+# Submit the "seal" for your ENSP vector, the ENSP vector itself, the R code
+# for this loop and its output into your report if you are submitting
+# anything for credit for this unit. Please read the requirements carefully.
+
+
+
+
+# [END]
diff --git a/BIN-SEQA-Composition.R b/BIN-SEQA-Composition.R
index cb0d111..f33b965 100644
--- a/BIN-SEQA-Composition.R
+++ b/BIN-SEQA-Composition.R
@@ -1,252 +1,252 @@
-# tocID <- "BIN-SEQA-Composition.R"
-#
-# Purpose: A Bioinformatics Course:
-#              R code accompanying the BIN-SEQA-Comparison unit
-#
-# Version: 1.2
-#
-# Date:    2017-11  -  2020-09
-# Author:  Boris Steipe (boris.steipe@utoronto.ca)
-#
-#           1.2    2020 Maintenance
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-# Versions:
-#           1.0    First live version 2017
-#           0.1    First code copied from BCH441_A03_makeYFOlist.R
-#
-# TODO:
-#
-#
-# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
-#
-# DO NOT SIMPLY  source()  THESE FILES!
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-#  going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                      Line
-#TOC> ----------------------------------------------------------
-#TOC>   1        Preparation                                  48
-#TOC>   2        Aggregate properties                         69
-#TOC>   3        Sequence Composition Enrichment             113
-#TOC>   3.1        Barplot, and side-by-side barplot         136
-#TOC>   3.2        Plotting ratios                           171
-#TOC>   3.3        Plotting log ratios                       188
-#TOC>   3.4        Sort by frequency                         204
-#TOC>   3.5        Color by amino acid type                  221
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Preparation  =========================================================
-
-if (! requireNamespace("seqinr", quietly = TRUE)) {
-  install.packages("seqinr")
-}
-# Package information:
-#  library(help = seqinr)       # basic information
-#  browseVignettes("seqinr")    # available vignettes
-#  data(package = "seqinr")     # available datasets
-
-# Load a reference sequence to work with:
-
-# If you have done the BIN-Storing_data unit:
-   source("makeProteinDB.R")
-   sel <- which(myDB$protein$name == sprintf("MBP1_%s", biCode(MYSPE)))
-   mySeq <- myDB$protein$sequence[sel]
-
-# If not, use the yeast Mbp1 sequence:
-   mySeq <- dbSanitizeSequence(fromJSON("./data/MBP1_SACCE.json")$sequence)
-
-
-# =    2  Aggregate properties  ================================================
-
-
-# Let's try a simple function from seqinr: computing the pI of the sequence
-?seqinr::computePI
-
-# This takes as input a vector of upper-case AA codes
-
-# We can use the function strsplit() to split the string
-# into single characters
-
-(s <- strsplit(mySeq, "")) # splitting on the empty spring
-                           # splits into single characters
-s <- unlist(s)             # strsplit() returns a list! Why?
-                           # (But we don't need a list now...)
-
-# Alternatively, seqinr provides
-# the function s2c() to convert strings into
-# character vectors (and c2s to convert them back).
-
-seqinr::s2c(mySeq)
-
-
-seqinr::computePI(seqinr::s2c(mySeq))  # isoelectric point
-seqinr::pmw(seqinr::s2c(mySeq))        # molecular weight
-seqinr::AAstat(seqinr::s2c(mySeq))     # This also plots the distribution of
-                                       # values along the sequence
-
-# A true Labor of Love has gone into the
-# compilation of the "aaindex" data:
-
-?seqinr::aaindex
-data(aaindex, package = "seqinr")  # "attach" the dataset - i.e. make it
-                                   # accessible as an R object
-
-length(aaindex)  # no seqinr:: needed for the dataset since we just
-                 # "attached" it with data()
-
-# Here are all the index descriptions
-for (i in 1:length(aaindex)) {
-  cat(paste(i, ": ", aaindex[[i]]$D, "\n", sep=""))
-}
-
-
-# =    3  Sequence Composition Enrichment  =====================================
-
-
-# Lets use one of the indices to calculate and plot amino-acid
-# composition enrichment:
-aaindex[[459]]$D
-
-#
-# Let's construct an enrichment plot to compare average frequencies
-# with the amino acid counts in our sequence.
-
-(refData <- aaindex[[459]]$I)                # reference frequencies in %
-names(refData) <- seqinr::a(names(refData))  # change names to single-letter
-                                             # code using seqinr's "a()" function
-sum(refData)
-refData        # ... in %
-
-
-# tabulate the amino acid counts in mySeq
-(obsData <- table(seqinr::s2c(mySeq)))        # counts
-(obsData <- 100 * (obsData / sum(obsData)))   # frequencies
-
-
-# ==   3.1  Barplot, and side-by-side barplot  =================================
-
-barplot(obsData, col = "#CCCCCC", cex.names = 0.7)
-abline(h = 100/20, col="#BB0000")
-
-barplot(refData, col = "#BB0000", cex.names = 0.7)
-abline(h = 100/20, col="#555555")
-
-# Ok: first problem - the values in obsData are in alphabetical order. But the
-# values in refData are in alphabetical order of amino acid name: alanine,
-# arginine, asparagine, aspartic acid ... A, R, N, D, E ... you will see this
-# order a lot - one of the old biochemistry tropes in the field. So we need to
-# re-order one of the vectors to match the other. That's easy though:
-refData
-(refData <- refData[names(obsData)])
-
-barplot(refData, col = "#BB0000", cex.names = 0.7)
-abline(h = 100/20, col="#555555")
-
-# To compare the values, we want to see them in a barplot, side-by-side ...
-barplot(rbind(obsData, refData),
-        ylim = c(0, 12),
-        beside = TRUE,
-        col = c("#CCCCCC", "#BB0000"),
-        cex.names = 0.7)
-abline(h = 100/20, col="#00000044")
-
-# ... and add a legend
-legend (x = 1, y = 12,
-        legend = c("mySeq", "Average composition"),
-        fill = c("#CCCCCC", "#BB0000"),
-        cex = 0.7,
-        bty = "n")
-
-
-# ==   3.2  Plotting ratios  ===================================================
-
-# To better compare the values, we'll calculate ratios between
-# obsData and refData
-
-barplot(obsData / refData,
-        col = "#CCCCCC",
-        ylab = "Sequence / Average",
-        ylim = c(0, 2.5),
-        cex.names = 0.7)
-abline(h = 1, col="#BB0000")
-abline(h = c(1/2, 2), lty = 2, col="#BB000055")
-
-# ... but  ratios are not very good here, since the difference in height on the
-# plot now depends on the order we compare in: ratios of 1/2 and 2 (dotted
-# lines) are exactly the same fold-difference !
-
-# ==   3.3  Plotting log ratios  ===============================================
-
-# A better way to display this
-# is to plot log(ratios).
-
-barplot(log(obsData / refData),
-        col = "#CCCCCC",
-        ylab = "log(Sequence / Average)",
-        ylim = log(c(1/3, 3)),
-        cex.names = 0.7)
-abline(h = log(1), col="#BB0000")
-abline(h = log(c(1/2, 2)), lty = 2, col="#BB000055")
-
-# Note how the two-fold difference lines are now the same distance from the
-# line of equal ratio.
-
-# ==   3.4  Sort by frequency  =================================================
-
-barplot(sort(log(obsData / refData), decreasing = TRUE),
-        ylim = log(c(1/3, 3)),
-        col = "#CCCCCC",
-        ylab = "log(Sequence / Average)",
-        cex.names = 0.7)
-abline(h = log(1), col="#BB0000")
-abline(h = log(c(1/2, 2)), lty = 2, col="#BB000055")
-
-yTxt <- log(0.9)
-arrows(4, yTxt, 0, yTxt, length = 0.07)
-text(5.5, yTxt, "Enriched", cex = 0.7)
-yTxt <- log(1.1)
-arrows(20, yTxt, 24, yTxt, length = 0.07)
-text(19.5, yTxt, "Depleted", pos = 2, cex = 0.7)
-
-# ==   3.5  Color by amino acid type  ==========================================
-
-# Color the bars by amino acid type. Use AACOLS , defined in the .utilities.R
-# script, or define your own.
-
-barplot(rep(1, 20), names.arg = names(AACOLS), col = AACOLS, cex.names = 0.5)
-
-lR <- sort(log(obsData / refData), decreasing = TRUE)
-barplot(lR,
-        ylim = log(c(1/3, 3)),
-        col = AACOLS[names(lR)],
-        ylab = "log(Sequence / Average)",
-        cex.names = 0.7)
-abline(h = log(1), col="#00000055")
-abline(h = log(c(1/2, 2)), lty = 2, col="#00000033")
-
-yTxt <- log(0.9)
-arrows(4, yTxt, 0, yTxt, length = 0.07)
-text(5.5, yTxt, "Enriched", cex = 0.7)
-yTxt <- log(1.1)
-arrows(20, yTxt, 24, yTxt, length = 0.07)
-text(19.5, yTxt, "Depleted", pos = 2, cex = 0.7)
-
-
-# Task:
-#   Interpret this plot. (Can you?) Which types of amino acids are enriched?
-#   Depleted?
-
-
-
-
-# [END]
+# tocID <- "BIN-SEQA-Composition.R"
+#
+# Purpose: A Bioinformatics Course:
+#              R code accompanying the BIN-SEQA-Comparison unit
+#
+# Version: 1.2
+#
+# Date:    2017-11  -  2020-09
+# Author:  Boris Steipe (boris.steipe@utoronto.ca)
+#
+#           1.2    2020 Maintenance
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+# Versions:
+#           1.0    First live version 2017
+#           0.1    First code copied from BCH441_A03_makeYFOlist.R
+#
+# TODO:
+#
+#
+# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
+#
+# DO NOT SIMPLY  source()  THESE FILES!
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+#  going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                      Line
+#TOC> ----------------------------------------------------------
+#TOC>   1        Preparation                                  48
+#TOC>   2        Aggregate properties                         69
+#TOC>   3        Sequence Composition Enrichment             113
+#TOC>   3.1        Barplot, and side-by-side barplot         136
+#TOC>   3.2        Plotting ratios                           171
+#TOC>   3.3        Plotting log ratios                       188
+#TOC>   3.4        Sort by frequency                         204
+#TOC>   3.5        Color by amino acid type                  221
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Preparation  =========================================================
+
+if (! requireNamespace("seqinr", quietly = TRUE)) {
+  install.packages("seqinr")
+}
+# Package information:
+#  library(help = seqinr)       # basic information
+#  browseVignettes("seqinr")    # available vignettes
+#  data(package = "seqinr")     # available datasets
+
+# Load a reference sequence to work with:
+
+# If you have done the BIN-Storing_data unit:
+   source("makeProteinDB.R")
+   sel <- which(myDB$protein$name == sprintf("MBP1_%s", biCode(MYSPE)))
+   mySeq <- myDB$protein$sequence[sel]
+
+# If not, use the yeast Mbp1 sequence:
+   mySeq <- dbSanitizeSequence(fromJSON("./data/MBP1_SACCE.json")$sequence)
+
+
+# =    2  Aggregate properties  ================================================
+
+
+# Let's try a simple function from seqinr: computing the pI of the sequence
+?seqinr::computePI
+
+# This takes as input a vector of upper-case AA codes
+
+# We can use the function strsplit() to split the string
+# into single characters
+
+(s <- strsplit(mySeq, "")) # splitting on the empty spring
+                           # splits into single characters
+s <- unlist(s)             # strsplit() returns a list! Why?
+                           # (But we don't need a list now...)
+
+# Alternatively, seqinr provides
+# the function s2c() to convert strings into
+# character vectors (and c2s to convert them back).
+
+seqinr::s2c(mySeq)
+
+
+seqinr::computePI(seqinr::s2c(mySeq))  # isoelectric point
+seqinr::pmw(seqinr::s2c(mySeq))        # molecular weight
+seqinr::AAstat(seqinr::s2c(mySeq))     # This also plots the distribution of
+                                       # values along the sequence
+
+# A true Labor of Love has gone into the
+# compilation of the "aaindex" data:
+
+?seqinr::aaindex
+data(aaindex, package = "seqinr")  # "attach" the dataset - i.e. make it
+                                   # accessible as an R object
+
+length(aaindex)  # no seqinr:: needed for the dataset since we just
+                 # "attached" it with data()
+
+# Here are all the index descriptions
+for (i in 1:length(aaindex)) {
+  cat(paste(i, ": ", aaindex[[i]]$D, "\n", sep=""))
+}
+
+
+# =    3  Sequence Composition Enrichment  =====================================
+
+
+# Lets use one of the indices to calculate and plot amino-acid
+# composition enrichment:
+aaindex[[459]]$D
+
+#
+# Let's construct an enrichment plot to compare average frequencies
+# with the amino acid counts in our sequence.
+
+(refData <- aaindex[[459]]$I)                # reference frequencies in %
+names(refData) <- seqinr::a(names(refData))  # change names to single-letter
+                                             # code using seqinr's "a()" function
+sum(refData)
+refData        # ... in %
+
+
+# tabulate the amino acid counts in mySeq
+(obsData <- table(seqinr::s2c(mySeq)))        # counts
+(obsData <- 100 * (obsData / sum(obsData)))   # frequencies
+
+
+# ==   3.1  Barplot, and side-by-side barplot  =================================
+
+barplot(obsData, col = "#CCCCCC", cex.names = 0.7)
+abline(h = 100/20, col="#BB0000")
+
+barplot(refData, col = "#BB0000", cex.names = 0.7)
+abline(h = 100/20, col="#555555")
+
+# Ok: first problem - the values in obsData are in alphabetical order. But the
+# values in refData are in alphabetical order of amino acid name: alanine,
+# arginine, asparagine, aspartic acid ... A, R, N, D, E ... you will see this
+# order a lot - one of the old biochemistry tropes in the field. So we need to
+# re-order one of the vectors to match the other. That's easy though:
+refData
+(refData <- refData[names(obsData)])
+
+barplot(refData, col = "#BB0000", cex.names = 0.7)
+abline(h = 100/20, col="#555555")
+
+# To compare the values, we want to see them in a barplot, side-by-side ...
+barplot(rbind(obsData, refData),
+        ylim = c(0, 12),
+        beside = TRUE,
+        col = c("#CCCCCC", "#BB0000"),
+        cex.names = 0.7)
+abline(h = 100/20, col="#00000044")
+
+# ... and add a legend
+legend (x = 1, y = 12,
+        legend = c("mySeq", "Average composition"),
+        fill = c("#CCCCCC", "#BB0000"),
+        cex = 0.7,
+        bty = "n")
+
+
+# ==   3.2  Plotting ratios  ===================================================
+
+# To better compare the values, we'll calculate ratios between
+# obsData and refData
+
+barplot(obsData / refData,
+        col = "#CCCCCC",
+        ylab = "Sequence / Average",
+        ylim = c(0, 2.5),
+        cex.names = 0.7)
+abline(h = 1, col="#BB0000")
+abline(h = c(1/2, 2), lty = 2, col="#BB000055")
+
+# ... but  ratios are not very good here, since the difference in height on the
+# plot now depends on the order we compare in: ratios of 1/2 and 2 (dotted
+# lines) are exactly the same fold-difference !
+
+# ==   3.3  Plotting log ratios  ===============================================
+
+# A better way to display this
+# is to plot log(ratios).
+
+barplot(log(obsData / refData),
+        col = "#CCCCCC",
+        ylab = "log(Sequence / Average)",
+        ylim = log(c(1/3, 3)),
+        cex.names = 0.7)
+abline(h = log(1), col="#BB0000")
+abline(h = log(c(1/2, 2)), lty = 2, col="#BB000055")
+
+# Note how the two-fold difference lines are now the same distance from the
+# line of equal ratio.
+
+# ==   3.4  Sort by frequency  =================================================
+
+barplot(sort(log(obsData / refData), decreasing = TRUE),
+        ylim = log(c(1/3, 3)),
+        col = "#CCCCCC",
+        ylab = "log(Sequence / Average)",
+        cex.names = 0.7)
+abline(h = log(1), col="#BB0000")
+abline(h = log(c(1/2, 2)), lty = 2, col="#BB000055")
+
+yTxt <- log(0.9)
+arrows(4, yTxt, 0, yTxt, length = 0.07)
+text(5.5, yTxt, "Enriched", cex = 0.7)
+yTxt <- log(1.1)
+arrows(20, yTxt, 24, yTxt, length = 0.07)
+text(19.5, yTxt, "Depleted", pos = 2, cex = 0.7)
+
+# ==   3.5  Color by amino acid type  ==========================================
+
+# Color the bars by amino acid type. Use AACOLS , defined in the .utilities.R
+# script, or define your own.
+
+barplot(rep(1, 20), names.arg = names(AACOLS), col = AACOLS, cex.names = 0.5)
+
+lR <- sort(log(obsData / refData), decreasing = TRUE)
+barplot(lR,
+        ylim = log(c(1/3, 3)),
+        col = AACOLS[names(lR)],
+        ylab = "log(Sequence / Average)",
+        cex.names = 0.7)
+abline(h = log(1), col="#00000055")
+abline(h = log(c(1/2, 2)), lty = 2, col="#00000033")
+
+yTxt <- log(0.9)
+arrows(4, yTxt, 0, yTxt, length = 0.07)
+text(5.5, yTxt, "Enriched", cex = 0.7)
+yTxt <- log(1.1)
+arrows(20, yTxt, 24, yTxt, length = 0.07)
+text(19.5, yTxt, "Depleted", pos = 2, cex = 0.7)
+
+
+# Task:
+#   Interpret this plot. (Can you?) Which types of amino acids are enriched?
+#   Depleted?
+
+
+
+
+# [END]
diff --git a/BIN-Sequence.R b/BIN-Sequence.R
index 4ce3e51..ba5f627 100644
--- a/BIN-Sequence.R
+++ b/BIN-Sequence.R
@@ -1,394 +1,394 @@
-# tocID <- "BIN-Sequence.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the BIN-Sequence unit.
-#
-# Version:  1.5
-#
-# Date:     2017-09  - 2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.5    2020 Updates
-#           1.4    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-#           1.3    Update set.seed() usage
-#           1.2    Removed irrelevant task. How did that even get in there? smh
-#           1.1    Add chartr()
-#           1.0    First live version 2017.
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC>
-#TOC>   Section  Title                                Line
-#TOC> ----------------------------------------------------
-#TOC>   1        Prepare                                63
-#TOC>   2        Storing Sequence                       80
-#TOC>   3        String properties                     109
-#TOC>   4        Substrings                            116
-#TOC>   5        Creating strings: sprintf()           137
-#TOC>   6        Changing strings                      172
-#TOC>   6.1.1          Changing case                   174
-#TOC>   6.1.2          Reverse                         179
-#TOC>   6.1.3          Change characters               183
-#TOC>   6.1.4          Substitute characters           211
-#TOC>   6.2        stringi and stringr                 231
-#TOC>   6.3        dbSanitizeSequence()                241
-#TOC>   7        Permuting and sampling                253
-#TOC>   7.1        Permutations                        260
-#TOC>   7.2        Sampling                            306
-#TOC>   7.2.1          Equiprobable characters         308
-#TOC>   7.2.2          Defined probability vector      350
-#TOC>
-#TOC> ==========================================================================
-
-
-# =    1  Prepare  =============================================================
-
-# Much basic sequence handling is supported by the Bioconductor package
-# Biostrings.
-
-if (! requireNamespace("BiocManager", quietly = TRUE)) {
-  install.packages("BiocManager")
-}
-if (! requireNamespace("Biostrings", quietly = TRUE)) {
-  BiocManager::install("Biostrings")
-}
-# Package information:
-#  library(help = Biostrings)       # basic information
-#  browseVignettes("Biostrings")    # available vignettes
-#  data(package = "Biostrings")     # available datasets
-
-
-# =    2  Storing Sequence  ====================================================
-
-
-# Sequences can be represented and stored as vectors of single characters ...
-(v <- c("D", "I", "V", "M", "T", "Q"))
-
-# ... as strings ...
-(s <- "DIVMTQ")
-
-# ... or as more complex objects with rich metadata e.g. as a Biostrings
-# DNAstring, RNAstring, AAString, etc.
-(a <- Biostrings::AAString("DIVMTQ"))
-
-# ... and all of these representations can be interconverted:
-
-# string to vector ...
-unlist(strsplit(s, ""))
-
-# vector to string ...
-paste(v, sep = "", collapse = "")
-
-# ... and AAstring to plain string.
-as.character(a)
-
-# Since operations with character vectors trivially follow all other vector
-# conventions and syntax, and we will look at Biostrings methods in more
-# detail in a later unit, we will focus on basic strings in the following.
-
-
-# =    3  String properties  ===================================================
-
-
-length(s) # why ???
-nchar(s)  # Aha!
-
-
-# =    4  Substrings  ==========================================================
-
-# Use the substr() function
-substr(s, 2, 4)
-
-# or the similar substring()
-substring(s, 2, 4)
-
-# Note: both functions are vectorized (i.e. they operate on vectors
-# of arguments, you don't need to loop over input)...
-myBiCodes <- c("HOMSA", "MUSMU", "FUGRU", "XENLA")
-substr(   myBiCodes, 1, 3)
-substring(myBiCodes, 1, 3)
-
-# ... however only substring() will also use vectors for start and stop
-s <- "gatattgtgatgacccagtaa"       # a DNA sequence
-(vI <- seq(1, nchar(s), by = 3))   # an index vector
-substr(   s, vI, vI+2)             # ... returns only the first nucleotide triplet
-substring(s, vI, vI+2)             # ... returns all triplets
-
-
-# =    5  Creating strings: sprintf()  =========================================
-
-
-# Sprintf is a very smart, very powerful function and has cognates in all
-# other programming languages. It has a bit of a  learning curve, but this is
-# totally worth it:
-# the function takes a format string, and a list of other arguments. It returns
-# a formatted string. Here are some examples - watch carefully for sprintf()
-# calls elsewhere in the code.
-
-sprintf("Just a string.")
-sprintf("A string and the number %d.", 5)
-sprintf("More numbers: %d ate %d.", 7, 9) # Sorry
-sprintf("Pi is ~ %1.2f ...", pi)
-sprintf("or more accurately ~ %1.11f.", pi)
-x <- "bottles of beer"
-N <- 99
-sprintf("%d %s on the wall, %d %s - \ntake %s: %d %s on the wall.",
-        N, x, N, x, "one down, and pass it around", N - 1, x)
-
-# Note that in the last example, the value of the string was displayed with
-# R's usual print-formatting function and therefore the line-break "\n" did
-# not actually break the line. To have line breaks, tabs etc, you need to use
-# cat() to display the string:
-
-for (i in N:(N-4)) {
-  cat(sprintf("%d %s on the wall, %d %s - \ntake %s: %d %s on the wall.\n\n",
-              i, x, i, x, "one down, and pass it around", i - 1, x))
-}
-
-# sprintf() is vectorized: if one of its parameters is a vector, it
-# will generate one output string for each of the vector's elements:
-cat(sprintf("\n%s fish", c("one", "two", "red", "blue")))
-
-
-# =    6  Changing strings  ====================================================
-
-# ===   6.1.1  Changing case
-tolower(s)
-toupper(tolower(s))
-
-
-# ===   6.1.2  Reverse
-# (This used to work in Biostrings, apparently it doesn't work anymore. Why?)
-# Biostrings::str_rev(s)
-# The following works, of course, but awkward:
-s
-paste0(rev(unlist(strsplit(s, ""))), collapse = "")
-
-# reverse complement
-COMP <- c("t", "g", "c", "a")
-names(COMP) <- c("a", "c", "g", "t")     # mapping the complement via names
-s
-paste0(COMP[rev(unlist(strsplit(s, "")))], collapse = "")
-
-
-# ===   6.1.3  Change characters
-# chartr(old, new, x) maps all characters in x that appear in "old" to the
-# correpsonding character in "new." Kind of like the COMP vector above ...
-
-chartr("aeio", "uuuu", "We hold these truths to be self-evident ...")
-
-# One could implement toupper() and tolower() with this - remember that R has
-# character vectors of uppercase and lowercase letters as language constants.
-chartr(paste0(letters, collapse = ""),
-       paste0(LETTERS, collapse = ""),
-       "Twinkle, twinkle little star, how I wonder what you are.")
-
-# One amusing way to use the function  is for a reversible substitution
-# cypher.
-alBet <- "ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz .,;:?0123456789"
-set.seed(112358)                       # set RNG seed for repeatable randomness
-( myCypher <- paste0(sample(unlist(strsplit(alBet, ""))), collapse = "") )
-set.seed(NULL)                         # reset the RNG
-
-# encode ...
-(x <- chartr(alBet, myCypher, "... seven for a secret, never to be told."))
-
-# decode ...
-chartr(myCypher, alBet, x)
-# (Nb. substitution cyphers are easy to crack!)
-
-
-# ===   6.1.4  Substitute characters
-# gsub can change lengths.
-#   Example: implementing the binary Fibonacci sequence:
-#   0 -> 1; 1 -> 10 , in three nested gsub() statements
-( s <- 1 )
-( s <- gsub("2", "10", gsub("0", "1", gsub("1", "2", s))) )
-
-# Iterate this line a few times ...
-#
-# cf. http://www.maths.surrey.ac.uk/hosted-sites/R.Knott/Fibonacci/fibrab.html
-# for the features of the sequence.
-
-# I use gsub() often to delete unwanted characters ...
-# ... select something, and substitute the empty string for it.
-(s <- gsub("-", "", s))
-
-# For example: clean up a sequence
-# copy/paste from UniProt
-(s <- "        10         20         30         40         50
-MSNQIYSARY SGVDVYEFIH STGSIMKRKK DDWVNATHIL KAANFAKAKR ")
-
-
-# remove numbers
-(s <- gsub("[0-9]", "", s))
-
-# remove "whitespace" (spaces, tabs, line breaks)...
-(s <- gsub("\\s", "", s))
-
-# ==   6.2  stringi and stringr  ===============================================
-
-# But there are also specialized functions eg. to remove leading/trailing
-# whitespace which may be important to sanitize user input etc. Have a look at
-# the function descriptions for the stringr and the stringi package. stringr is
-# part of the tidyverse, and for the most part a wrapper for stringi functions.
-# https://github.com/tidyverse/stringr
-
-
-
-# ==   6.3  dbSanitizeSequence()  ==============================================
-
-# In our learning units, we use a function dbSanitizeSequence() to clean up
-# sequences that may be copy/pasted from Web-sources
-
-cat( s <- ">FASTA header will be removed
-10         20         30         40         50
-MSNQIYSARY SGVDVYEFIH STGSIMKRKK DDWVNATHIL KAANFAKAKR " )
-
-dbSanitizeSequence(s)
-
-
-# =    7  Permuting and sampling  ==============================================
-
-
-# An important aspect of working with strings is generating random strings
-# with given statistical properties: reference items to evaluate significance.
-
-
-# ==   7.1  Permutations  ======================================================
-
-
-# One way to produce such reference items is to permute a string. A permuted
-# string has the same composition as the original, but all positional
-# information is lost. The sample() function can be used to permute:
-
-# This is the sequence of the ompA secretion signal
-(s <- unlist(strsplit("MKKTAIAVALAGFATVAQA", "")))
-
-(x <- sample(s, length(s)))  # permuted
-
-# Here's a small example how such permuted strings may be useful. As you look
-# at the ompA sequence, you suspect that the two lysines near the +-charged
-# N-terminus may not be accidental, but selected for a positively charged
-# N-terminus. What is the chance that such a sequence has two lysines close to
-# the N-terminus simply by chance? Or put differently: what is the average
-# distance of two lysines in such a sequence to the N-terminus. First, we
-# need an expression that measures the distance. A simple use of the which()
-# function will do just fine.
-
-which(s == "K")        # shows they are in position 2 and 3, so ...
-mean(which(s == "K"))  # ... gives us the average, and ...
-mean(which(x == "K"))  # ... gives us the average of the permuted sequence.
-
-# So what does the distribution look like? Lets do 10,000 trials.
-
-(s <- unlist(strsplit("MKKTAIAVALAGFATVAQA", "")))
-N <- 10000
-d <- numeric(N)
-
-set.seed(112358)                       # set RNG seed for repeatable randomness
-for (i in 1:N) {
-  d[i] <- mean(which(sample(s, length(s)) == "K"))
-}
-set.seed(NULL)                         # reset the RNG
-
-hist(d, breaks = 20)
-abline(v = 2.5, lwd = 2, col = "firebrick")
-sum(d <= 2.5) # 276. 276 of our 10000 samples are just as bunched near the
-              # N-terminus or more. That's just below the signifcance
-              # threshold of 5 %. It's a trend, but to be sure we are looking
-              # at a biological effect we would need to see more
-              # sequences.
-
-
-# ==   7.2  Sampling  ==========================================================
-
-# ===   7.2.1  Equiprobable characters
-
-# Assume you need a large random-nucleotide string for some statistical model.
-# How to create such a string? sample() can easily create it:
-
-nuc <- c("A", "C", "G", "T")
-N <- 100
-
-set.seed(16818)                        # set RNG seed for repeatable randomness
-v <- sample(nuc, N, replace = TRUE)
-set.seed(NULL)                         # reset the RNG
-
-(mySeq <- paste(v, collapse = ""))
-
-# What's the GC content?
-table(v)
-sum(table(v)[c("G", "C")]) # 51 is close to expected
-
-# What's the number of CpG motifs? Easy to check with the stringi
-# stri_match_all() function
-
-if (! requireNamespace("stringi", quietly = TRUE)) {
-  install.packages("stringi")
-}
-# Package information:
-#  library(help = stringi)       # basic information
-#  browseVignettes("stringi")    # available vignettes
-#  data(package = "stringi")     # available datasets
-
-
-(x <- stringi::stri_match_all(mySeq, regex = "CG"))
-length(unlist(x))
-
-# Now you could compare that number with yeast DNA sequences, and determine
-# whether there are more or less CpG motifs than expected by chance.
-# (cf. https://en.wikipedia.org/wiki/CpG_site)
-# But hold on: is that a fair comparison? sample() gives us all four nucleotides
-# with the same probability. But the yeast genomic DNA GC content is only
-# 38%. So you would expect fewer CpG motifs based on the statistical properties
-# of the smaller number of Cs and Gs - before biology even comes into play. How
-# do we account for that?
-
-# ===   7.2.2  Defined probability vector
-
-# This is where we need to know how to create samples with specific probability
-# distributions. A crude hack would be to create a sampling source vector with
-# 19 C, 19 G, 31 A and 31 T
-c(rep("C", 19), rep("G", 19), rep(c("A"), 31), rep(c("T"), 31))
-# ... but that doesn't scale if the numeric accuracy needs to be higher.
-#
-# However sample() has an argument that takes care of that: you can explicitly
-# specify the probabilities with which each element of the the sampling vector
-# should be chosen:
-
-nuc <- c("A", "C", "G", "T")
-N <- 100
-myProb <- c(0.31, 0.19, 0.19, 0.31)    # sampling probabilities
-
-set.seed(16818)                       # set RNG seed for repeatable randomness
-v <- sample(nuc, N, prob = myProb, replace = TRUE)
-set.seed(NULL)                         # reset the RNG
-
-(mySeq <- paste(v, collapse = ""))
-
-# What's the GC content?
-table(v)
-sum(table(v)[c("G", "C")]) # Close to expected
-
-# What's the number of CpG motifs?
-(x <- stringi::stri_match_all(mySeq, regex = "CG"))
-# ... not a single one in this case.
-
-
-
-# [END]
+# tocID <- "BIN-Sequence.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the BIN-Sequence unit.
+#
+# Version:  1.5
+#
+# Date:     2017-09  - 2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.5    2020 Updates
+#           1.4    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+#           1.3    Update set.seed() usage
+#           1.2    Removed irrelevant task. How did that even get in there? smh
+#           1.1    Add chartr()
+#           1.0    First live version 2017.
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC>
+#TOC>   Section  Title                                Line
+#TOC> ----------------------------------------------------
+#TOC>   1        Prepare                                63
+#TOC>   2        Storing Sequence                       80
+#TOC>   3        String properties                     109
+#TOC>   4        Substrings                            116
+#TOC>   5        Creating strings: sprintf()           137
+#TOC>   6        Changing strings                      172
+#TOC>   6.1.1          Changing case                   174
+#TOC>   6.1.2          Reverse                         179
+#TOC>   6.1.3          Change characters               183
+#TOC>   6.1.4          Substitute characters           211
+#TOC>   6.2        stringi and stringr                 231
+#TOC>   6.3        dbSanitizeSequence()                241
+#TOC>   7        Permuting and sampling                253
+#TOC>   7.1        Permutations                        260
+#TOC>   7.2        Sampling                            306
+#TOC>   7.2.1          Equiprobable characters         308
+#TOC>   7.2.2          Defined probability vector      350
+#TOC>
+#TOC> ==========================================================================
+
+
+# =    1  Prepare  =============================================================
+
+# Much basic sequence handling is supported by the Bioconductor package
+# Biostrings.
+
+if (! requireNamespace("BiocManager", quietly = TRUE)) {
+  install.packages("BiocManager")
+}
+if (! requireNamespace("Biostrings", quietly = TRUE)) {
+  BiocManager::install("Biostrings")
+}
+# Package information:
+#  library(help = Biostrings)       # basic information
+#  browseVignettes("Biostrings")    # available vignettes
+#  data(package = "Biostrings")     # available datasets
+
+
+# =    2  Storing Sequence  ====================================================
+
+
+# Sequences can be represented and stored as vectors of single characters ...
+(v <- c("D", "I", "V", "M", "T", "Q"))
+
+# ... as strings ...
+(s <- "DIVMTQ")
+
+# ... or as more complex objects with rich metadata e.g. as a Biostrings
+# DNAstring, RNAstring, AAString, etc.
+(a <- Biostrings::AAString("DIVMTQ"))
+
+# ... and all of these representations can be interconverted:
+
+# string to vector ...
+unlist(strsplit(s, ""))
+
+# vector to string ...
+paste(v, sep = "", collapse = "")
+
+# ... and AAstring to plain string.
+as.character(a)
+
+# Since operations with character vectors trivially follow all other vector
+# conventions and syntax, and we will look at Biostrings methods in more
+# detail in a later unit, we will focus on basic strings in the following.
+
+
+# =    3  String properties  ===================================================
+
+
+length(s) # why ???
+nchar(s)  # Aha!
+
+
+# =    4  Substrings  ==========================================================
+
+# Use the substr() function
+substr(s, 2, 4)
+
+# or the similar substring()
+substring(s, 2, 4)
+
+# Note: both functions are vectorized (i.e. they operate on vectors
+# of arguments, you don't need to loop over input)...
+myBiCodes <- c("HOMSA", "MUSMU", "FUGRU", "XENLA")
+substr(   myBiCodes, 1, 3)
+substring(myBiCodes, 1, 3)
+
+# ... however only substring() will also use vectors for start and stop
+s <- "gatattgtgatgacccagtaa"       # a DNA sequence
+(vI <- seq(1, nchar(s), by = 3))   # an index vector
+substr(   s, vI, vI+2)             # ... returns only the first nucleotide triplet
+substring(s, vI, vI+2)             # ... returns all triplets
+
+
+# =    5  Creating strings: sprintf()  =========================================
+
+
+# Sprintf is a very smart, very powerful function and has cognates in all
+# other programming languages. It has a bit of a  learning curve, but this is
+# totally worth it:
+# the function takes a format string, and a list of other arguments. It returns
+# a formatted string. Here are some examples - watch carefully for sprintf()
+# calls elsewhere in the code.
+
+sprintf("Just a string.")
+sprintf("A string and the number %d.", 5)
+sprintf("More numbers: %d ate %d.", 7, 9) # Sorry
+sprintf("Pi is ~ %1.2f ...", pi)
+sprintf("or more accurately ~ %1.11f.", pi)
+x <- "bottles of beer"
+N <- 99
+sprintf("%d %s on the wall, %d %s - \ntake %s: %d %s on the wall.",
+        N, x, N, x, "one down, and pass it around", N - 1, x)
+
+# Note that in the last example, the value of the string was displayed with
+# R's usual print-formatting function and therefore the line-break "\n" did
+# not actually break the line. To have line breaks, tabs etc, you need to use
+# cat() to display the string:
+
+for (i in N:(N-4)) {
+  cat(sprintf("%d %s on the wall, %d %s - \ntake %s: %d %s on the wall.\n\n",
+              i, x, i, x, "one down, and pass it around", i - 1, x))
+}
+
+# sprintf() is vectorized: if one of its parameters is a vector, it
+# will generate one output string for each of the vector's elements:
+cat(sprintf("\n%s fish", c("one", "two", "red", "blue")))
+
+
+# =    6  Changing strings  ====================================================
+
+# ===   6.1.1  Changing case
+tolower(s)
+toupper(tolower(s))
+
+
+# ===   6.1.2  Reverse
+# (This used to work in Biostrings, apparently it doesn't work anymore. Why?)
+# Biostrings::str_rev(s)
+# The following works, of course, but awkward:
+s
+paste0(rev(unlist(strsplit(s, ""))), collapse = "")
+
+# reverse complement
+COMP <- c("t", "g", "c", "a")
+names(COMP) <- c("a", "c", "g", "t")     # mapping the complement via names
+s
+paste0(COMP[rev(unlist(strsplit(s, "")))], collapse = "")
+
+
+# ===   6.1.3  Change characters
+# chartr(old, new, x) maps all characters in x that appear in "old" to the
+# correpsonding character in "new." Kind of like the COMP vector above ...
+
+chartr("aeio", "uuuu", "We hold these truths to be self-evident ...")
+
+# One could implement toupper() and tolower() with this - remember that R has
+# character vectors of uppercase and lowercase letters as language constants.
+chartr(paste0(letters, collapse = ""),
+       paste0(LETTERS, collapse = ""),
+       "Twinkle, twinkle little star, how I wonder what you are.")
+
+# One amusing way to use the function  is for a reversible substitution
+# cypher.
+alBet <- "ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz .,;:?0123456789"
+set.seed(112358)                       # set RNG seed for repeatable randomness
+( myCypher <- paste0(sample(unlist(strsplit(alBet, ""))), collapse = "") )
+set.seed(NULL)                         # reset the RNG
+
+# encode ...
+(x <- chartr(alBet, myCypher, "... seven for a secret, never to be told."))
+
+# decode ...
+chartr(myCypher, alBet, x)
+# (Nb. substitution cyphers are easy to crack!)
+
+
+# ===   6.1.4  Substitute characters
+# gsub can change lengths.
+#   Example: implementing the binary Fibonacci sequence:
+#   0 -> 1; 1 -> 10 , in three nested gsub() statements
+( s <- 1 )
+( s <- gsub("2", "10", gsub("0", "1", gsub("1", "2", s))) )
+
+# Iterate this line a few times ...
+#
+# cf. http://www.maths.surrey.ac.uk/hosted-sites/R.Knott/Fibonacci/fibrab.html
+# for the features of the sequence.
+
+# I use gsub() often to delete unwanted characters ...
+# ... select something, and substitute the empty string for it.
+(s <- gsub("-", "", s))
+
+# For example: clean up a sequence
+# copy/paste from UniProt
+(s <- "        10         20         30         40         50
+MSNQIYSARY SGVDVYEFIH STGSIMKRKK DDWVNATHIL KAANFAKAKR ")
+
+
+# remove numbers
+(s <- gsub("[0-9]", "", s))
+
+# remove "whitespace" (spaces, tabs, line breaks)...
+(s <- gsub("\\s", "", s))
+
+# ==   6.2  stringi and stringr  ===============================================
+
+# But there are also specialized functions eg. to remove leading/trailing
+# whitespace which may be important to sanitize user input etc. Have a look at
+# the function descriptions for the stringr and the stringi package. stringr is
+# part of the tidyverse, and for the most part a wrapper for stringi functions.
+# https://github.com/tidyverse/stringr
+
+
+
+# ==   6.3  dbSanitizeSequence()  ==============================================
+
+# In our learning units, we use a function dbSanitizeSequence() to clean up
+# sequences that may be copy/pasted from Web-sources
+
+cat( s <- ">FASTA header will be removed
+10         20         30         40         50
+MSNQIYSARY SGVDVYEFIH STGSIMKRKK DDWVNATHIL KAANFAKAKR " )
+
+dbSanitizeSequence(s)
+
+
+# =    7  Permuting and sampling  ==============================================
+
+
+# An important aspect of working with strings is generating random strings
+# with given statistical properties: reference items to evaluate significance.
+
+
+# ==   7.1  Permutations  ======================================================
+
+
+# One way to produce such reference items is to permute a string. A permuted
+# string has the same composition as the original, but all positional
+# information is lost. The sample() function can be used to permute:
+
+# This is the sequence of the ompA secretion signal
+(s <- unlist(strsplit("MKKTAIAVALAGFATVAQA", "")))
+
+(x <- sample(s, length(s)))  # permuted
+
+# Here's a small example how such permuted strings may be useful. As you look
+# at the ompA sequence, you suspect that the two lysines near the +-charged
+# N-terminus may not be accidental, but selected for a positively charged
+# N-terminus. What is the chance that such a sequence has two lysines close to
+# the N-terminus simply by chance? Or put differently: what is the average
+# distance of two lysines in such a sequence to the N-terminus. First, we
+# need an expression that measures the distance. A simple use of the which()
+# function will do just fine.
+
+which(s == "K")        # shows they are in position 2 and 3, so ...
+mean(which(s == "K"))  # ... gives us the average, and ...
+mean(which(x == "K"))  # ... gives us the average of the permuted sequence.
+
+# So what does the distribution look like? Lets do 10,000 trials.
+
+(s <- unlist(strsplit("MKKTAIAVALAGFATVAQA", "")))
+N <- 10000
+d <- numeric(N)
+
+set.seed(112358)                       # set RNG seed for repeatable randomness
+for (i in 1:N) {
+  d[i] <- mean(which(sample(s, length(s)) == "K"))
+}
+set.seed(NULL)                         # reset the RNG
+
+hist(d, breaks = 20)
+abline(v = 2.5, lwd = 2, col = "firebrick")
+sum(d <= 2.5) # 276. 276 of our 10000 samples are just as bunched near the
+              # N-terminus or more. That's just below the signifcance
+              # threshold of 5 %. It's a trend, but to be sure we are looking
+              # at a biological effect we would need to see more
+              # sequences.
+
+
+# ==   7.2  Sampling  ==========================================================
+
+# ===   7.2.1  Equiprobable characters
+
+# Assume you need a large random-nucleotide string for some statistical model.
+# How to create such a string? sample() can easily create it:
+
+nuc <- c("A", "C", "G", "T")
+N <- 100
+
+set.seed(16818)                        # set RNG seed for repeatable randomness
+v <- sample(nuc, N, replace = TRUE)
+set.seed(NULL)                         # reset the RNG
+
+(mySeq <- paste(v, collapse = ""))
+
+# What's the GC content?
+table(v)
+sum(table(v)[c("G", "C")]) # 51 is close to expected
+
+# What's the number of CpG motifs? Easy to check with the stringi
+# stri_match_all() function
+
+if (! requireNamespace("stringi", quietly = TRUE)) {
+  install.packages("stringi")
+}
+# Package information:
+#  library(help = stringi)       # basic information
+#  browseVignettes("stringi")    # available vignettes
+#  data(package = "stringi")     # available datasets
+
+
+(x <- stringi::stri_match_all(mySeq, regex = "CG"))
+length(unlist(x))
+
+# Now you could compare that number with yeast DNA sequences, and determine
+# whether there are more or less CpG motifs than expected by chance.
+# (cf. https://en.wikipedia.org/wiki/CpG_site)
+# But hold on: is that a fair comparison? sample() gives us all four nucleotides
+# with the same probability. But the yeast genomic DNA GC content is only
+# 38%. So you would expect fewer CpG motifs based on the statistical properties
+# of the smaller number of Cs and Gs - before biology even comes into play. How
+# do we account for that?
+
+# ===   7.2.2  Defined probability vector
+
+# This is where we need to know how to create samples with specific probability
+# distributions. A crude hack would be to create a sampling source vector with
+# 19 C, 19 G, 31 A and 31 T
+c(rep("C", 19), rep("G", 19), rep(c("A"), 31), rep(c("T"), 31))
+# ... but that doesn't scale if the numeric accuracy needs to be higher.
+#
+# However sample() has an argument that takes care of that: you can explicitly
+# specify the probabilities with which each element of the the sampling vector
+# should be chosen:
+
+nuc <- c("A", "C", "G", "T")
+N <- 100
+myProb <- c(0.31, 0.19, 0.19, 0.31)    # sampling probabilities
+
+set.seed(16818)                       # set RNG seed for repeatable randomness
+v <- sample(nuc, N, prob = myProb, replace = TRUE)
+set.seed(NULL)                         # reset the RNG
+
+(mySeq <- paste(v, collapse = ""))
+
+# What's the GC content?
+table(v)
+sum(table(v)[c("G", "C")]) # Close to expected
+
+# What's the number of CpG motifs?
+(x <- stringi::stri_match_all(mySeq, regex = "CG"))
+# ... not a single one in this case.
+
+
+
+# [END]
diff --git a/BIN-Storing_data.R b/BIN-Storing_data.R
index 7a76d12..f8bb4d7 100644
--- a/BIN-Storing_data.R
+++ b/BIN-Storing_data.R
@@ -1,684 +1,684 @@
-# tocID <- "BIN-Storing_data.R"
-#
-# Purpose: A Bioinformatics Course:
-#              R code accompanying the BIN-Storing_data unit
-#
-# Version: 1.3.2
-#
-# Date:    2017-10  -  2021-09
-# Author:  Boris Steipe (boris.steipe@utoronto.ca)
-#
-# V 1.3.2  2021 minimal maintenance
-# V 1.3.1  add overlooked  jsonlite:: prefix to fromJson()
-# V 1.3    Made file locations more consistent. All student-edited files
-#          go into the myScripts directory
-# V 1.2    2020 updates. Finally removed stringAsFactors  :-)
-# V 1.1    Add instructions to retrieve UniProt ID from ID mapping service.
-# V 1.0    First live version, complete rebuilt. Now using JSON data sources.
-# V 0.1    First code copied from BCH441_A03_makeYFOlist.R
-#
-# TODO:
-#  The sameSpecies() approach is a bit of a hack - can we solve the
-#  species vs. strain issue in a more principled way?
-#
-# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
-#
-# DO NOT SIMPLY  source()  THESE FILES!
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-#  going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC>
-#TOC>   Section  Title                                                   Line
-#TOC> -----------------------------------------------------------------------
-#TOC>   1        A Relational Datamodel in R: review                       63
-#TOC>   1.1        Building a sample database structure                   103
-#TOC>   1.1.1          completing the database                            209
-#TOC>   1.2        Querying the database                                  242
-#TOC>   1.3        Task: submit for credit (part 1/2)                     273
-#TOC>   2        Implementing the protein datamodel                       297
-#TOC>   2.1        JSON formatted source data                             323
-#TOC>   2.2        "Sanitizing" sequence data                             364
-#TOC>   2.3        Create a protein table for our data model              386
-#TOC>   2.3.1          Initialize the database                            388
-#TOC>   2.3.2          Add data                                           400
-#TOC>   2.4        Complete the database                                  420
-#TOC>   2.4.1          Examples of navigating the database                447
-#TOC>   2.5        Updating the database                                  479
-#TOC>   3        Add your own data                                        491
-#TOC>   3.1        Find a protein                                         499
-#TOC>   3.2        Put the information into JSON files                    530
-#TOC>   3.3        Create an R script to create your own database         572
-#TOC>   3.3.1          Check and validate                                 600
-#TOC>   3.4        Task: submit for credit (part 2/2)                     645
-#TOC>
-#TOC> ==========================================================================
-
-
-# =    1  A Relational Datamodel in R: review  =================================
-
-# A disclaimer at first: we are not building an industry-strength database at
-# all here - but we are employing principles of such a database to keep common
-# types of lab-data well organized. Don't think of this as emulating or even
-# replacing a "real" database, but think of this as improving the ad hoc
-# approaches we normally employ to store data in the lab. That does not mean
-# such ad hoc approaches are necessarily bad - the best solution always depends
-# on your objectives, the details of your tasks, and the context in which you
-# are working.
-
-# The principle we follow in implementing a relational data model is to build a
-# list of dataframes . This list is our "database":
-#  - Each _entity_ of the datamodel is a dataframe. In an SQL database, these
-#    would also be called "tables". In a spreadsheet this would be a "sheet".
-#  - Each instance of an entity, i.e. one stored _item_, is a row of the data
-#    frame. In an SQL database this would be a record. In a spreadsheet this is
-#    a row.
-#  - Each _attribute_ of an entity is is a column of the dataframe. In an SQL
-#    database this is a column, in a spreadsheet too.
-#  - This doesn't necessarily solve the question of how we will store and curate
-#    our source data - we will defer that to later. At first we talk only about
-#    data representation internal to our R session, where we need it for
-#    processing and analysis.
-
-# Lets review syntax for creating and accessing such a structure, a list of data
-# frames. You'll have to be absolutely confident with this, or you'll get lost
-# in all the later learning units. We'll start from a compact example, a tiny
-# database of philosophers to keep things brief. That database will have three
-# tables: person, works and book. Person stores biographical data, book stores
-# books, and works is a join table associating persons with their work. You
-# should already be familiar with "join tables" and why we need them. This is
-# the structure:
-#
-# person: id, name, born, died, school
-# book:   id, title, published
-# works:  id, person$id, book$id
-
-# Perhaps draw out this schema to make things more clear.
-
-# ==   1.1  Building a sample database structure  ==============================
-
-# Let's build this structure.
-
-philDB <- list()  # This is an empty list
-
-# This is a data frame that we initialize with two philosophers
-x <- data.frame(id = c(1,2),
-                name = c("Laozi", "Martin Heidegger"),
-                born = c(NA, "1889"),
-                died = c("531 BCE", "1976"),
-                school = c("Daoism", "Phenomenology"))
-str(x)
-
-# Lets add the dataframe to the philDB list and call it "person" there.
-philDB[["person"]] <- x
-str(philDB)
-
-# and let's remove x so we don't mix up things later.
-rm(x)
-
-# We can address elements with the usual subsetting operators. I will use
-# the $ operator for tables and columns, the [] operator for elements in
-# columns. For example ...
-
-philDB$person$name[1]   # Laozi
-
-# task: Write an expression that returns all "school" entries from the
-#       person table.
-
-# Let's now add another person. There are several ways to do this, the
-# conceptually cleanest is to create a one-row dataframe with the data, and
-# rbind() it to the existing dataframe. Doing this, we must take care that
-# the data frame column names are identical. What happens if they are not?
-# Let's find out:
-(x <- data.frame(a=1:4, b=11:14))
-(y <- data.frame(a=6, c=17))
-rbind(x, y)
-
-(y <- data.frame(a=6, b=17))
-rbind(x, y)
-
-# All clear? That's good - this behaviour provides us with a sanity check on the
-# operation. Incidentally: rbind(x, y) did NOT change the table ...
-x
-# rather rbind() had the chnaged table as its return value and that's why it
-# was printed. To actually change the table, you need to ASSIGN the return
-# value  of rbind() ... like so:
-x <- rbind(x, y)
-
-# To continue ...
-(x <- data.frame(id = 2,
-                 name = "Zhuangzi",
-                 born = "369 BCE",
-                 died = "286 BCE",
-                 school = "Daoism"))
-
-# Add this to the "person" table in our database with rbind() ...
-philDB$person <- rbind(philDB$person, x)
-
-# ... and examine the result:
-str(philDB)
-
-# We made a serious error in our data! Did you spot it?
-#
-# If not, look at ...
-philDB$person$id
-# ... does that look oK?
-#
-# Absolutely not! "id" is the Primary Key in the table, and it has to be
-# unique. How can we guarantee it to be unique? Certainly not when we
-# enter it by hand. We need a function that generates a unique key. Here's
-# a simple version, without any error-checking. It assumes that a column
-# named "id" exists in the table, and that it holds the Primary Keys:
-autoincrement <- function(table) {
-  return(max(table$id) + 1)
-}
-
-#Try it:
-autoincrement(philDB$person)
-
-# Once that is clear, let's remove the Zhuangzi entry and recreate it correctly.
-# Many ways to remove, here we use a logical expression to select matching
-# record(s), apply the results to subset the data frame, and overwrite the
-# existing table with the new one.
-
-sel <- !(philDB$person$name == "Zhuangzi")   # select ...
-philDB$person <- philDB$person[sel, ]        # ... and replace
-
-str(philDB)
-
-# Now let's add Zhuangzi with correct data. Note how we use the autoincrement
-# function for the id
-
-x <- data.frame(id = autoincrement(philDB$person),
-                name = "Zhuangzi",
-                born = "369 BCE",
-                died = "286 BCE",
-                school = "Daoism")
-philDB$person <- rbind(philDB$person, x)
-str(philDB)
-
-# So far so good. Be honest with yourself. If you didn't follow any of this,
-# go back, re-read, play with it, and ask for help. These are the foundations.
-
-
-# ===   1.1.1  completing the database
-
-
-# Next I'll add one more person, and create the other two tables:
-
-x <- data.frame(id = autoincrement(philDB$person),
-                name = "Kongzi",
-                born = "551 BCE",
-                died = "479 BCE",
-                school = "Confucianism")
-philDB$person <- rbind(philDB$person, x)
-
-# a table of major works ...
-philDB[["books"]] <- data.frame(id = 1:5,
-                                title = c("Zhuangzi",
-                                          "Analects",
-                                          "Being and Time",
-                                          "Daodejing",
-                                          "On the Way to Language"),
-                                published = c("300 BCE",
-                                              "220 BCE",
-                                              "1927",
-                                              "530 BCE",
-                                              "1959"))
-
-# a "join" table that links works and their author ...
-philDB[["works"]] <- data.frame(id = 1:5,
-                                personID = c(3, 4, 2, 1, 2),
-                                bookID = c(1, 2, 3, 4, 5))
-
-str(philDB)
-
-
-# ==   1.2  Querying the database  =============================================
-
-
-# To retrieve data, we need to subset tables, possibly based on conditions we
-# find in other tables. Sometimes we can simply get the information, e.g.
-# all names ...
-philDB$person$name
-# ... or all book titles ...
-philDB$books$title
-
-# ... but sometimes we need to cross-reference information via join tables. Here
-# is an example where we list authors and their works, sorted alphabetically by
-# author:
-(sel <- order(philDB$person$name))   # check out ?order and describe to
-                                     # someone you know what it does, so that
-                                     # you are sure you understand it. Its
-                                     # indirection can be a bit tricky to
-                                     # understand.
-( pID <- philDB$person$id[sel] )
-sel <- numeric()   # initialize the vector
-for (ID in pID) {
-  sel <- which(philDB$works$personID == ID)          # get all rows for which
-                                                     # the condition is TRUE
-  cat(sprintf("%s: ", philDB$person$name[ID]))       # output the person
-  cat(sprintf("\"%s\"  ", philDB$books$title[sel]))  # output the book
-  cat("\n")
-}
-
-# Examine the intermediate results and trace the logic until this is clear.
-
-
-# ==   1.3  Task: submit for credit (part 1/2)  ================================
-
-
-#    Write code that adds another philosopher to the datamodel:
-#       Immanuel Kant, (1724 - 1804), Enlightenment Philosophy.
-#       Works: Critique of Pure Reason (1781), Critique of Judgement (1790)
-#    Paste your code into your submission page. Enclose it in 
 ... 

-#    tags.
-#
-#    Write and submit code that lists the philosophical schools in
-#    alphabetical order, and the books associated with them, also
-#    alphabetically. Format your output like:
-#    Confucianism
-#       Analects - (220 BCE)
-#    Daoism
-#       Daodejing - (530 BCE)
-#       ... etc.
-#
-#    Show the output of your code. Make sure the code itself is enclosed
-#    in 
 ... 
 tags. DO NOT POST A SCREENSHOT OF YOUR OUTPUT,
-#    BUT COPY THE EXACT, COMPLETE  OUTPUT, PASTE IT INTO YOUR SUBMISSION,
-#    AND FORMAT IT CORRECTLY.
-
-# == Submission: Code to list the philosophical schools in alphabetical order as well as their respective books in alphabetical order.
-
-schools <- unique(philDB$person$school)
-schools <- sort(schools)
-
-for (s in schools) {
-  cat(sprintf("%s\n", s))
-  authors = which(philDB$person$school == s)
-  for (author in authors) {
-    works = which(philDB$works$personID == author)
-    for (work in works) {
-      bookId = which(philDB$books$id == philDB$works$bookID[work])
-      cat(sprintf("\t%s - (%s)\n", philDB$books$title[bookId], philDB$books$published[bookId]))
-    }
-  }
-}
-
-
-# =    2  Implementing the protein datamodel  ==================================
-
-
-# Working with the code above has probably illustrated a few concerns about
-# curating data and storing it for analysis. In particular the join tables
-# seem problematic - figuring out the correct IDs, it's easy to make
-# mistakes.
-#  - Data needs to be captured in a human-readable form so it can be verified
-#      and validated;
-#  - Some aspects of the database should _never_ be done by hand because
-#      errors are easy to make and hard to see. That essentially includes
-#      every operation that has to do with abstract, primary keys;
-#  - Elementary operations we need to support are: adding data, selecting
-#      data, modifying data and deleting data.
-
-# We will therefore construct our protein database in the following way:
-#  - For each table, we will keep the primary information in JSON files. There
-#      it is easy to read, edit if needed, and modify it.
-#  - We will use simple scripts to read the JSON data and assemble it in
-#      our database for further analysis.
-#  - I have constructed initial files for yeast Mbp1 and nine other reference
-#      species.
-#  - I have written a small number of utility functions to read those files
-#      and assemble them into a database.
-
-
-# ==   2.1  JSON formatted source data  ========================================
-
-
-# Have a look at the structure of the yeast Mbp1 protein data:
-file.show("./data/MBP1_SACCE.json")
-
-# - The whole thing is an array: [ ... ]. This is not necessary for a single
-#     object, but we will have more objects in other files. And it's perfectly
-#     legal to have an array with a single element.
-# - The data is formatted as "key" : "value" pairs inside an object { ... }.
-#     This keeps the association between data items and their semantics
-#     explicit.
-# - All keys are strings and they are unique in the object.
-# - Values are mostly single strings and integers ...
-# - ... except for "sequence". That one is an array of strings. Why? This is to
-#     make it easier to format and maintain the data. JSON does not allow line
-#     breaks within strings, but the strings we copy/paste from Genbank or other
-#     sources might have line breaks, sequence numbers etc. So we need to
-#     sanitize the sequence at some point. But since we need to do that
-#     anyway, it is easier to see the whole sequence if we store it in chunks.
-
-# The .utilities.R script that get's loaded whenever you open this project
-# has already made sure the "jsonlite" package exists on your computer. This
-# package supports our work with .json formatted data.
-
-if (! requireNamespace("jsonlite", quietly = TRUE)) {
-  install.packages("jsonlite")
-}
-# Package information:
-#  library(help = jsonlite)       # basic information
-#  browseVignettes("jsonlite")    # available vignettes
-#  data(package = "jsonlite")     # available datasets
-
-
-x <- jsonlite::fromJSON("./data/MBP1_SACCE.json")
-str(x)
-
-x$name
-unlist(x$sequence)
-
-
-# ==   2.2  "Sanitizing" sequence data  ========================================
-
-
-# Examine the dbSanitizeSequence() function:
-
-dbSanitizeSequence
-
-# Try:
-
-dbSanitizeSequence(c("GAA", "ttc"))
-dbSanitizeSequence("MsnQ00%0 I@#>YSary    S
-                     G1 V2DV3Y>")
-x <- "
-        1 msnqiysary sgvdvyefih stgsimkrkk ddwvnathil kaanfakakr trilekevlk
-       61 ethekvqggf gkyqgtwvpl niakqlaekf svydqlkplf dftqtdgsas pppapkhhha
-      121 skvdrkkair sastsaimet krnnkkaeen qfqsskilgn ptaaprkrgr pvgstrgsrr
-      ...
-     " # copy/paste from Genbank
-
-dbSanitizeSequence(x)
-
-
-# ==   2.3  Create a protein table for our data model  =========================
-
-# ===   2.3.1  Initialize the database
-
-
-# The function dbInit contains all the code to return a list of empty
-# data frames for our data model.
-
-dbInit
-
-myDB <- dbInit()
-str(myDB)
-
-
-# ===   2.3.2  Add data
-
-
-# fromJSON() returns a dataframe that we can readily process to add data
-# to our table. Have a look at the function to add protein entries:
-
-dbAddProtein
-
-myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./data/MBP1_SACCE.json"))
-str(myDB)
-
-# Lets check that the 833 amino acids of the yeast MBP1 sequence have
-# safely arrived. Note the genral idiom we use here to retrieve the data:
-# we define a boolean vector that satisfies a condition, then we subset
-# a column with that vector.
-
-sel <- myDB$protein$name == "MBP1_SACCE"
-nchar(myDB$protein$sequence[sel])
-
-
-# ==   2.4  Complete the database  =============================================
-
-
-# Completing the database with Mbp1 data and data for 9 other "reference"
-# species is more of the same. I have assembled the code in a script
-# "./scripts/ABC-createRefDB.R" - open it, check it out, and then source it.
-# It's really very simple, just reading some prepared files of data I have
-# formatted with JSON, and assembling the data in our data model.
-#
-# The code is also very simple and in particular there is no checking for errors
-# or inconsistencies. Have a look:
-
-# Totally straightforward ...
-dbAddTaxonomy
-dbAddFeature
-
-# Just slightly more complex, since we need to match the protein or feature
-# name in the JSON file with its internal ID, and, when doing that confirm
-# that it CAN be matched and that the match is UNIQUE
-dbAddAnnotation
-
-# Now: create the database
-source("./scripts/ABC-createRefDB.R")
-
-str(myDB)
-
-
-# ===   2.4.1  Examples of navigating the database
-
-
-# You can look at the contents of the tables in the usual way we access
-# elements from lists and dataframes. Here are some examples:
-myDB$protein
-myDB$protein$RefSeqID
-myDB$protein[,"name"]
-myDB$taxonomy
-myDB$taxonomy$species
-biCode(myDB$taxonomy$species)
-
-# Comparing two tables:
-# Are all of the taxonomyIDs in the protein table present in the
-# taxonomy table? We ought to check, because the way we imported the
-# data from JSON objects, we could have omitted or forgotten some. But we can
-# check this with one simple expression. Unravel it and study its components.
-
-all(myDB$protein$taxonomyID %in% myDB$taxonomy$ID)
-
-# If this is not TRUE, you MUST fix the problem before continuing.
-
-# Cross-referencing information:
-# What is the species name of the protein whose name is "MBP1_COPCI"?
-
-sel <- myDB$protein$name == "MBP1_COPCI"
-x <- myDB$protein$taxonomyID[sel]
-
-sel <- myDB$taxonomy$ID == x
-myDB$taxonomy$species[sel]
-
-
-# ==   2.5  Updating the database  =============================================
-
-
-# Basic tasks for databases include retrieving data, selecting data, updating
-# and deleting data. Here we will take a simple, pedestrian approach:
-#
-#     In case we need to modify any of the data, we modify it in the JSON file
-#     save that, and recreate the database. The myDB database will only be
-#     used for analysis.
-#
-
-
-# =    3  Add your own data  ===================================================
-
-
-# You have defined a genome sequence fungus as "MYSPE", and your final task
-# will be to find the protein in MYSPE that is most similar to yeast Mbp1, and
-# to enter its information into the database.
-
-
-# ==   3.1  Find a protein  ====================================================
-
-
-# The BLAST algorithm will be properly introduced in a later learning unit -
-# for now just use it in the following way:
-#
-# - Navigate to https://blast.ncbi.nlm.nih.gov/Blast.cgi and click on
-#   Protein BLAST.
-# - Enter NP_010227 into the "Query Sequence" field.
-# - Choose "Reference proteins (refseq_protein)" as the "Database" in the
-#   "Choose Search Set" section.
-# - Paste the MYSPE species name into the "Organism" field.
-#
-# - Click the "BLAST" button.
-
-# You will probably get more than one result. If you get dozens of results or
-# more, or if you get no results, something went wrong. Reconsider whether the
-# problem was with your input, try something different, or ask for help.
-
-# Otherwise, look for the top-hit in the "Descriptions" tab In some cases
-# there will be more than one hit with nearly similar E-values. If this is the
-# case for MYSPE, choose the one with the higher degree of similarity (more
-# identities) with the N-terminus of the query - i.e. the Query sequence of
-# the first ~ 100 amino acids.
-
-# -  If you are submitting this unit for credit, you will need to paste the
-#    relevant section of the BLAST results into your submission page (see task). # -  Follow the link to the protein data page, linked from "Accession".
-# -  From there, in a separate tab, open the link to the taxonomy database page
-#      for MYSPE which is linked from the "ORGANISM" record.
-
-
-# ==   3.2  Put the information into JSON files  ===============================
-
-
-# - Next make a copy of the file "./data/MBP1_SACCE.json" in the "data"
-#     directory and give it a new name that corresponds to MYSPE - e.g. if
-#     MYSPE is called "Crptycoccus neoformans", your file should be called
-#     "MBP1_CRYNE.json"; in that case "MBP1_CRYNE" would also be the
-#     "name" of your protein. Open the file in the RStudio editor and replace
-#     all of the MBP1_SACCE data with the corresponding data of your protein.
-#
-#     Note: The UniProt ID may not be listed on the NCBI page. To retrieve
-#     it, navigate to http://www.uniprot.org/mapping/ , paste your RefSeq ID
-#     into the query field, make sure "RefSeqProtein" is selected for "From"
-#     and "UniProtKB" is selected for "To", and click "Go". In case this does
-#     not retrieve a single UniProt ID, contact me.
-#
-#     Save your .json file into your myScripts directory.
-#
-#     Confirm this step:
-if (file.exists(sprintf("./myScripts/MBP1_%s.json", biCode(MYSPE)))) {
-  cat("Excellent - all good to continue.\n")
-} else {
-  stop(sprintf(" The file \"./myScripts/MBP1_%s.json\" does not exist",
-       biCode(MYSPE)))
-}
-#
-#
-# - Do a similar thing for the MYSPE taxonomy entry. Copy
-#     "./data/refTaxonomy.json" and make a new file named "MYSPEtaxonomy.json".
-#     Create a valid JSON file with only one single entry - that of MYSPE.
-#
-#     Confirm this step:
-if (file.exists(sprintf("./myScripts/%staxonomy.json", biCode(MYSPE)))) {
-  cat("Excellent - all good to continue.\n")
-} else {
-  stop(sprintf(" The file \"./myScripts/%staxonomy.json\" does not exist",
-               biCode(MYSPE)))
-}
-
-# - Validate your two files online at https://jsonlint.com/
-
-
-# ==   3.3  Create an R script to create your own database  ====================
-
-
-# Next: to create your own database.
-# - Make a new R script, call it "makeProteinDB.R"
-# - enter the following expression as the first command:
-#     source("./scripts/ABC-createRefDB.R")
-# - than add the two commands that add your protein and taxonomy data,
-#     they should look like:
-#
-# myDB <- dbAddProtein(myDB,
-#                      jsonlite::fromJSON("./myScripts/MBP1_.json"))
-# myDB <- dbAddTaxonomy(myDB,
-#                       jsonlite::fromJSON("./myScripts/taxonomy.json"))
-#
-#
-# - save the .json file in the ./myScripts/ folder and source() it:
-#
-#     source("./myScripts/makeProteinDB.R")  # <<<- This command ...
-#
-# ... needs to be executed whenever you recreate the database. In particular,
-# whenever you have added or modified data in any of the JSON files. Later you
-# will add more information.
-
-# Remember this principle. Don't rely on objects in memory - you might
-# "break" them with a code experiment. But always have a script with
-# which you can create what you need.
-
-# ===   3.3.1  Check and validate
-
-
-# Is your protein named according to the pattern "MBP1_MYSPE"? It should be.
-# And does the taxonomy table contain the systematic name? It should be the same
-# that you get when you type MYSPE into the console.
-
-# Let's compute sequence lengths on the fly (with the function nchar() ), and
-# open this with the table viewer function View()
-
-View(cbind(myDB$protein[ , c("ID", "name", "RefSeqID")],
-           length = nchar(myDB$protein$sequence)))
-
-# Does your protein appear in the last row of this table? Where does your
-# protein's length fall relative to the reference proteins? About the same? Much
-# shorter? Much longer? If it is less then 500 amino acids long, I would suspect
-# an error. Contact me for advice.
-
-# Is that the right sequence? Is it the same as the one on the NCBI protein
-# database page?
-myDB$protein$sequence[nrow(myDB$protein)]
-
-# If not, don't continue! Fix the problem first.
-# Let me repeat: If this does not give you the right sequence of the MYSPE
-#                Mbp1 homologue, DO NOT CONTINUE. Fix the problem.
-
-# Is that the right taxonomy ID and binomial name for MYSPE?
-# This question may be a bit non-trivial ... MYSPE is a species, but the
-# recorded taxonomy ID may be a strain. We have a utility function,
-# sameSpecies()  that normalizes organism name to the binomial species.
-#
-sel <- sameSpecies(myDB$taxonomy$species, MYSPE)
-myDB$taxonomy[sel, ]
-
-# If not, or if the result was "<0 rows> ... " then DO NOT CONTINUE.
-# Fix the problem first.
-
-# Does this give you the right refseq ID for MBP1_MYSPE?
-sel <- myDB$protein$name == paste0("MBP1_", biCode(MYSPE))
-myDB$protein$RefSeqID[sel]
-
-# If not, or if the result was "<0 rows> ... " then DO NOT CONTINUE.
-# Fix the problem first.
-
-
-# ==   3.4  Task: submit for credit (part 2/2)  ================================
-
-
-# - On your submission page, copy/paste the BLAST result headers from the
-#     "Alignments" tab, to demonstrate that the data justifies your choice of
-#     protein; you don't need to paste the whole alignment, just the header(s).
-#     Note the relevant values separately: eValue, coverage, %ID etc. and link
-#     to your protein's NCBI protein database page. (Note: in case there are
-#     more than one high-scoring segments included for the SAME protein, you
-#     need to show the results for all of its high-scoring segments.)
-# - Copy and paste the contents of your two JSON files on your submission
-#     page on the Student Wiki. Make sure they are enclosed in 
 ... 

-#     tags.
-# - Execute the three commands below and show the result on your submission page
-
-biCode(myDB$taxonomy$species) %in% biCode(MYSPE)
-sel <- sameSpecies(myDB$taxonomy$species, MYSPE)
-myDB$protein$taxonomyID %in% myDB$taxonomy$ID[sel]
-
-# That is all.
-
-
-# [END]
+# tocID <- "BIN-Storing_data.R"
+#
+# Purpose: A Bioinformatics Course:
+#              R code accompanying the BIN-Storing_data unit
+#
+# Version: 1.3.2
+#
+# Date:    2017-10  -  2021-09
+# Author:  Boris Steipe (boris.steipe@utoronto.ca)
+#
+# V 1.3.2  2021 minimal maintenance
+# V 1.3.1  add overlooked  jsonlite:: prefix to fromJson()
+# V 1.3    Made file locations more consistent. All student-edited files
+#          go into the myScripts directory
+# V 1.2    2020 updates. Finally removed stringAsFactors  :-)
+# V 1.1    Add instructions to retrieve UniProt ID from ID mapping service.
+# V 1.0    First live version, complete rebuilt. Now using JSON data sources.
+# V 0.1    First code copied from BCH441_A03_makeYFOlist.R
+#
+# TODO:
+#  The sameSpecies() approach is a bit of a hack - can we solve the
+#  species vs. strain issue in a more principled way?
+#
+# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
+#
+# DO NOT SIMPLY  source()  THESE FILES!
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+#  going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC>
+#TOC>   Section  Title                                                   Line
+#TOC> -----------------------------------------------------------------------
+#TOC>   1        A Relational Datamodel in R: review                       63
+#TOC>   1.1        Building a sample database structure                   103
+#TOC>   1.1.1          completing the database                            209
+#TOC>   1.2        Querying the database                                  242
+#TOC>   1.3        Task: submit for credit (part 1/2)                     273
+#TOC>   2        Implementing the protein datamodel                       297
+#TOC>   2.1        JSON formatted source data                             323
+#TOC>   2.2        "Sanitizing" sequence data                             364
+#TOC>   2.3        Create a protein table for our data model              386
+#TOC>   2.3.1          Initialize the database                            388
+#TOC>   2.3.2          Add data                                           400
+#TOC>   2.4        Complete the database                                  420
+#TOC>   2.4.1          Examples of navigating the database                447
+#TOC>   2.5        Updating the database                                  479
+#TOC>   3        Add your own data                                        491
+#TOC>   3.1        Find a protein                                         499
+#TOC>   3.2        Put the information into JSON files                    530
+#TOC>   3.3        Create an R script to create your own database         572
+#TOC>   3.3.1          Check and validate                                 600
+#TOC>   3.4        Task: submit for credit (part 2/2)                     645
+#TOC>
+#TOC> ==========================================================================
+
+
+# =    1  A Relational Datamodel in R: review  =================================
+
+# A disclaimer at first: we are not building an industry-strength database at
+# all here - but we are employing principles of such a database to keep common
+# types of lab-data well organized. Don't think of this as emulating or even
+# replacing a "real" database, but think of this as improving the ad hoc
+# approaches we normally employ to store data in the lab. That does not mean
+# such ad hoc approaches are necessarily bad - the best solution always depends
+# on your objectives, the details of your tasks, and the context in which you
+# are working.
+
+# The principle we follow in implementing a relational data model is to build a
+# list of dataframes . This list is our "database":
+#  - Each _entity_ of the datamodel is a dataframe. In an SQL database, these
+#    would also be called "tables". In a spreadsheet this would be a "sheet".
+#  - Each instance of an entity, i.e. one stored _item_, is a row of the data
+#    frame. In an SQL database this would be a record. In a spreadsheet this is
+#    a row.
+#  - Each _attribute_ of an entity is is a column of the dataframe. In an SQL
+#    database this is a column, in a spreadsheet too.
+#  - This doesn't necessarily solve the question of how we will store and curate
+#    our source data - we will defer that to later. At first we talk only about
+#    data representation internal to our R session, where we need it for
+#    processing and analysis.
+
+# Lets review syntax for creating and accessing such a structure, a list of data
+# frames. You'll have to be absolutely confident with this, or you'll get lost
+# in all the later learning units. We'll start from a compact example, a tiny
+# database of philosophers to keep things brief. That database will have three
+# tables: person, works and book. Person stores biographical data, book stores
+# books, and works is a join table associating persons with their work. You
+# should already be familiar with "join tables" and why we need them. This is
+# the structure:
+#
+# person: id, name, born, died, school
+# book:   id, title, published
+# works:  id, person$id, book$id
+
+# Perhaps draw out this schema to make things more clear.
+
+# ==   1.1  Building a sample database structure  ==============================
+
+# Let's build this structure.
+
+philDB <- list()  # This is an empty list
+
+# This is a data frame that we initialize with two philosophers
+x <- data.frame(id = c(1,2),
+                name = c("Laozi", "Martin Heidegger"),
+                born = c(NA, "1889"),
+                died = c("531 BCE", "1976"),
+                school = c("Daoism", "Phenomenology"))
+str(x)
+
+# Lets add the dataframe to the philDB list and call it "person" there.
+philDB[["person"]] <- x
+str(philDB)
+
+# and let's remove x so we don't mix up things later.
+rm(x)
+
+# We can address elements with the usual subsetting operators. I will use
+# the $ operator for tables and columns, the [] operator for elements in
+# columns. For example ...
+
+philDB$person$name[1]   # Laozi
+
+# task: Write an expression that returns all "school" entries from the
+#       person table.
+
+# Let's now add another person. There are several ways to do this, the
+# conceptually cleanest is to create a one-row dataframe with the data, and
+# rbind() it to the existing dataframe. Doing this, we must take care that
+# the data frame column names are identical. What happens if they are not?
+# Let's find out:
+(x <- data.frame(a=1:4, b=11:14))
+(y <- data.frame(a=6, c=17))
+rbind(x, y)
+
+(y <- data.frame(a=6, b=17))
+rbind(x, y)
+
+# All clear? That's good - this behaviour provides us with a sanity check on the
+# operation. Incidentally: rbind(x, y) did NOT change the table ...
+x
+# rather rbind() had the chnaged table as its return value and that's why it
+# was printed. To actually change the table, you need to ASSIGN the return
+# value  of rbind() ... like so:
+x <- rbind(x, y)
+
+# To continue ...
+(x <- data.frame(id = 2,
+                 name = "Zhuangzi",
+                 born = "369 BCE",
+                 died = "286 BCE",
+                 school = "Daoism"))
+
+# Add this to the "person" table in our database with rbind() ...
+philDB$person <- rbind(philDB$person, x)
+
+# ... and examine the result:
+str(philDB)
+
+# We made a serious error in our data! Did you spot it?
+#
+# If not, look at ...
+philDB$person$id
+# ... does that look oK?
+#
+# Absolutely not! "id" is the Primary Key in the table, and it has to be
+# unique. How can we guarantee it to be unique? Certainly not when we
+# enter it by hand. We need a function that generates a unique key. Here's
+# a simple version, without any error-checking. It assumes that a column
+# named "id" exists in the table, and that it holds the Primary Keys:
+autoincrement <- function(table) {
+  return(max(table$id) + 1)
+}
+
+#Try it:
+autoincrement(philDB$person)
+
+# Once that is clear, let's remove the Zhuangzi entry and recreate it correctly.
+# Many ways to remove, here we use a logical expression to select matching
+# record(s), apply the results to subset the data frame, and overwrite the
+# existing table with the new one.
+
+sel <- !(philDB$person$name == "Zhuangzi")   # select ...
+philDB$person <- philDB$person[sel, ]        # ... and replace
+
+str(philDB)
+
+# Now let's add Zhuangzi with correct data. Note how we use the autoincrement
+# function for the id
+
+x <- data.frame(id = autoincrement(philDB$person),
+                name = "Zhuangzi",
+                born = "369 BCE",
+                died = "286 BCE",
+                school = "Daoism")
+philDB$person <- rbind(philDB$person, x)
+str(philDB)
+
+# So far so good. Be honest with yourself. If you didn't follow any of this,
+# go back, re-read, play with it, and ask for help. These are the foundations.
+
+
+# ===   1.1.1  completing the database
+
+
+# Next I'll add one more person, and create the other two tables:
+
+x <- data.frame(id = autoincrement(philDB$person),
+                name = "Kongzi",
+                born = "551 BCE",
+                died = "479 BCE",
+                school = "Confucianism")
+philDB$person <- rbind(philDB$person, x)
+
+# a table of major works ...
+philDB[["books"]] <- data.frame(id = 1:5,
+                                title = c("Zhuangzi",
+                                          "Analects",
+                                          "Being and Time",
+                                          "Daodejing",
+                                          "On the Way to Language"),
+                                published = c("300 BCE",
+                                              "220 BCE",
+                                              "1927",
+                                              "530 BCE",
+                                              "1959"))
+
+# a "join" table that links works and their author ...
+philDB[["works"]] <- data.frame(id = 1:5,
+                                personID = c(3, 4, 2, 1, 2),
+                                bookID = c(1, 2, 3, 4, 5))
+
+str(philDB)
+
+
+# ==   1.2  Querying the database  =============================================
+
+
+# To retrieve data, we need to subset tables, possibly based on conditions we
+# find in other tables. Sometimes we can simply get the information, e.g.
+# all names ...
+philDB$person$name
+# ... or all book titles ...
+philDB$books$title
+
+# ... but sometimes we need to cross-reference information via join tables. Here
+# is an example where we list authors and their works, sorted alphabetically by
+# author:
+(sel <- order(philDB$person$name))   # check out ?order and describe to
+                                     # someone you know what it does, so that
+                                     # you are sure you understand it. Its
+                                     # indirection can be a bit tricky to
+                                     # understand.
+( pID <- philDB$person$id[sel] )
+sel <- numeric()   # initialize the vector
+for (ID in pID) {
+  sel <- which(philDB$works$personID == ID)          # get all rows for which
+                                                     # the condition is TRUE
+  cat(sprintf("%s: ", philDB$person$name[ID]))       # output the person
+  cat(sprintf("\"%s\"  ", philDB$books$title[sel]))  # output the book
+  cat("\n")
+}
+
+# Examine the intermediate results and trace the logic until this is clear.
+
+
+# ==   1.3  Task: submit for credit (part 1/2)  ================================
+
+
+#    Write code that adds another philosopher to the datamodel:
+#       Immanuel Kant, (1724 - 1804), Enlightenment Philosophy.
+#       Works: Critique of Pure Reason (1781), Critique of Judgement (1790)
+#    Paste your code into your submission page. Enclose it in 
 ... 

+#    tags.
+#
+#    Write and submit code that lists the philosophical schools in
+#    alphabetical order, and the books associated with them, also
+#    alphabetically. Format your output like:
+#    Confucianism
+#       Analects - (220 BCE)
+#    Daoism
+#       Daodejing - (530 BCE)
+#       ... etc.
+#
+#    Show the output of your code. Make sure the code itself is enclosed
+#    in 
 ... 
 tags. DO NOT POST A SCREENSHOT OF YOUR OUTPUT,
+#    BUT COPY THE EXACT, COMPLETE  OUTPUT, PASTE IT INTO YOUR SUBMISSION,
+#    AND FORMAT IT CORRECTLY.
+
+# == Submission: Code to list the philosophical schools in alphabetical order as well as their respective books in alphabetical order.
+
+schools <- unique(philDB$person$school)
+schools <- sort(schools)
+
+for (s in schools) {
+  cat(sprintf("%s\n", s))
+  authors = which(philDB$person$school == s)
+  for (author in authors) {
+    works = which(philDB$works$personID == author)
+    for (work in works) {
+      bookId = which(philDB$books$id == philDB$works$bookID[work])
+      cat(sprintf("\t%s - (%s)\n", philDB$books$title[bookId], philDB$books$published[bookId]))
+    }
+  }
+}
+
+
+# =    2  Implementing the protein datamodel  ==================================
+
+
+# Working with the code above has probably illustrated a few concerns about
+# curating data and storing it for analysis. In particular the join tables
+# seem problematic - figuring out the correct IDs, it's easy to make
+# mistakes.
+#  - Data needs to be captured in a human-readable form so it can be verified
+#      and validated;
+#  - Some aspects of the database should _never_ be done by hand because
+#      errors are easy to make and hard to see. That essentially includes
+#      every operation that has to do with abstract, primary keys;
+#  - Elementary operations we need to support are: adding data, selecting
+#      data, modifying data and deleting data.
+
+# We will therefore construct our protein database in the following way:
+#  - For each table, we will keep the primary information in JSON files. There
+#      it is easy to read, edit if needed, and modify it.
+#  - We will use simple scripts to read the JSON data and assemble it in
+#      our database for further analysis.
+#  - I have constructed initial files for yeast Mbp1 and nine other reference
+#      species.
+#  - I have written a small number of utility functions to read those files
+#      and assemble them into a database.
+
+
+# ==   2.1  JSON formatted source data  ========================================
+
+
+# Have a look at the structure of the yeast Mbp1 protein data:
+file.show("./data/MBP1_SACCE.json")
+
+# - The whole thing is an array: [ ... ]. This is not necessary for a single
+#     object, but we will have more objects in other files. And it's perfectly
+#     legal to have an array with a single element.
+# - The data is formatted as "key" : "value" pairs inside an object { ... }.
+#     This keeps the association between data items and their semantics
+#     explicit.
+# - All keys are strings and they are unique in the object.
+# - Values are mostly single strings and integers ...
+# - ... except for "sequence". That one is an array of strings. Why? This is to
+#     make it easier to format and maintain the data. JSON does not allow line
+#     breaks within strings, but the strings we copy/paste from Genbank or other
+#     sources might have line breaks, sequence numbers etc. So we need to
+#     sanitize the sequence at some point. But since we need to do that
+#     anyway, it is easier to see the whole sequence if we store it in chunks.
+
+# The .utilities.R script that get's loaded whenever you open this project
+# has already made sure the "jsonlite" package exists on your computer. This
+# package supports our work with .json formatted data.
+
+if (! requireNamespace("jsonlite", quietly = TRUE)) {
+  install.packages("jsonlite")
+}
+# Package information:
+#  library(help = jsonlite)       # basic information
+#  browseVignettes("jsonlite")    # available vignettes
+#  data(package = "jsonlite")     # available datasets
+
+
+x <- jsonlite::fromJSON("./data/MBP1_SACCE.json")
+str(x)
+
+x$name
+unlist(x$sequence)
+
+
+# ==   2.2  "Sanitizing" sequence data  ========================================
+
+
+# Examine the dbSanitizeSequence() function:
+
+dbSanitizeSequence
+
+# Try:
+
+dbSanitizeSequence(c("GAA", "ttc"))
+dbSanitizeSequence("MsnQ00%0 I@#>YSary    S
+                     G1 V2DV3Y>")
+x <- "
+        1 msnqiysary sgvdvyefih stgsimkrkk ddwvnathil kaanfakakr trilekevlk
+       61 ethekvqggf gkyqgtwvpl niakqlaekf svydqlkplf dftqtdgsas pppapkhhha
+      121 skvdrkkair sastsaimet krnnkkaeen qfqsskilgn ptaaprkrgr pvgstrgsrr
+      ...
+     " # copy/paste from Genbank
+
+dbSanitizeSequence(x)
+
+
+# ==   2.3  Create a protein table for our data model  =========================
+
+# ===   2.3.1  Initialize the database
+
+
+# The function dbInit contains all the code to return a list of empty
+# data frames for our data model.
+
+dbInit
+
+myDB <- dbInit()
+str(myDB)
+
+
+# ===   2.3.2  Add data
+
+
+# fromJSON() returns a dataframe that we can readily process to add data
+# to our table. Have a look at the function to add protein entries:
+
+dbAddProtein
+
+myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./data/MBP1_SACCE.json"))
+str(myDB)
+
+# Lets check that the 833 amino acids of the yeast MBP1 sequence have
+# safely arrived. Note the genral idiom we use here to retrieve the data:
+# we define a boolean vector that satisfies a condition, then we subset
+# a column with that vector.
+
+sel <- myDB$protein$name == "MBP1_SACCE"
+nchar(myDB$protein$sequence[sel])
+
+
+# ==   2.4  Complete the database  =============================================
+
+
+# Completing the database with Mbp1 data and data for 9 other "reference"
+# species is more of the same. I have assembled the code in a script
+# "./scripts/ABC-createRefDB.R" - open it, check it out, and then source it.
+# It's really very simple, just reading some prepared files of data I have
+# formatted with JSON, and assembling the data in our data model.
+#
+# The code is also very simple and in particular there is no checking for errors
+# or inconsistencies. Have a look:
+
+# Totally straightforward ...
+dbAddTaxonomy
+dbAddFeature
+
+# Just slightly more complex, since we need to match the protein or feature
+# name in the JSON file with its internal ID, and, when doing that confirm
+# that it CAN be matched and that the match is UNIQUE
+dbAddAnnotation
+
+# Now: create the database
+source("./scripts/ABC-createRefDB.R")
+
+str(myDB)
+
+
+# ===   2.4.1  Examples of navigating the database
+
+
+# You can look at the contents of the tables in the usual way we access
+# elements from lists and dataframes. Here are some examples:
+myDB$protein
+myDB$protein$RefSeqID
+myDB$protein[,"name"]
+myDB$taxonomy
+myDB$taxonomy$species
+biCode(myDB$taxonomy$species)
+
+# Comparing two tables:
+# Are all of the taxonomyIDs in the protein table present in the
+# taxonomy table? We ought to check, because the way we imported the
+# data from JSON objects, we could have omitted or forgotten some. But we can
+# check this with one simple expression. Unravel it and study its components.
+
+all(myDB$protein$taxonomyID %in% myDB$taxonomy$ID)
+
+# If this is not TRUE, you MUST fix the problem before continuing.
+
+# Cross-referencing information:
+# What is the species name of the protein whose name is "MBP1_COPCI"?
+
+sel <- myDB$protein$name == "MBP1_COPCI"
+x <- myDB$protein$taxonomyID[sel]
+
+sel <- myDB$taxonomy$ID == x
+myDB$taxonomy$species[sel]
+
+
+# ==   2.5  Updating the database  =============================================
+
+
+# Basic tasks for databases include retrieving data, selecting data, updating
+# and deleting data. Here we will take a simple, pedestrian approach:
+#
+#     In case we need to modify any of the data, we modify it in the JSON file
+#     save that, and recreate the database. The myDB database will only be
+#     used for analysis.
+#
+
+
+# =    3  Add your own data  ===================================================
+
+
+# You have defined a genome sequence fungus as "MYSPE", and your final task
+# will be to find the protein in MYSPE that is most similar to yeast Mbp1, and
+# to enter its information into the database.
+
+
+# ==   3.1  Find a protein  ====================================================
+
+
+# The BLAST algorithm will be properly introduced in a later learning unit -
+# for now just use it in the following way:
+#
+# - Navigate to https://blast.ncbi.nlm.nih.gov/Blast.cgi and click on
+#   Protein BLAST.
+# - Enter NP_010227 into the "Query Sequence" field.
+# - Choose "Reference proteins (refseq_protein)" as the "Database" in the
+#   "Choose Search Set" section.
+# - Paste the MYSPE species name into the "Organism" field.
+#
+# - Click the "BLAST" button.
+
+# You will probably get more than one result. If you get dozens of results or
+# more, or if you get no results, something went wrong. Reconsider whether the
+# problem was with your input, try something different, or ask for help.
+
+# Otherwise, look for the top-hit in the "Descriptions" tab In some cases
+# there will be more than one hit with nearly similar E-values. If this is the
+# case for MYSPE, choose the one with the higher degree of similarity (more
+# identities) with the N-terminus of the query - i.e. the Query sequence of
+# the first ~ 100 amino acids.
+
+# -  If you are submitting this unit for credit, you will need to paste the
+#    relevant section of the BLAST results into your submission page (see task). # -  Follow the link to the protein data page, linked from "Accession".
+# -  From there, in a separate tab, open the link to the taxonomy database page
+#      for MYSPE which is linked from the "ORGANISM" record.
+
+
+# ==   3.2  Put the information into JSON files  ===============================
+
+
+# - Next make a copy of the file "./data/MBP1_SACCE.json" in the "data"
+#     directory and give it a new name that corresponds to MYSPE - e.g. if
+#     MYSPE is called "Crptycoccus neoformans", your file should be called
+#     "MBP1_CRYNE.json"; in that case "MBP1_CRYNE" would also be the
+#     "name" of your protein. Open the file in the RStudio editor and replace
+#     all of the MBP1_SACCE data with the corresponding data of your protein.
+#
+#     Note: The UniProt ID may not be listed on the NCBI page. To retrieve
+#     it, navigate to http://www.uniprot.org/mapping/ , paste your RefSeq ID
+#     into the query field, make sure "RefSeqProtein" is selected for "From"
+#     and "UniProtKB" is selected for "To", and click "Go". In case this does
+#     not retrieve a single UniProt ID, contact me.
+#
+#     Save your .json file into your myScripts directory.
+#
+#     Confirm this step:
+if (file.exists(sprintf("./myScripts/MBP1_%s.json", biCode(MYSPE)))) {
+  cat("Excellent - all good to continue.\n")
+} else {
+  stop(sprintf(" The file \"./myScripts/MBP1_%s.json\" does not exist",
+       biCode(MYSPE)))
+}
+#
+#
+# - Do a similar thing for the MYSPE taxonomy entry. Copy
+#     "./data/refTaxonomy.json" and make a new file named "MYSPEtaxonomy.json".
+#     Create a valid JSON file with only one single entry - that of MYSPE.
+#
+#     Confirm this step:
+if (file.exists(sprintf("./myScripts/%staxonomy.json", biCode(MYSPE)))) {
+  cat("Excellent - all good to continue.\n")
+} else {
+  stop(sprintf(" The file \"./myScripts/%staxonomy.json\" does not exist",
+               biCode(MYSPE)))
+}
+
+# - Validate your two files online at https://jsonlint.com/
+
+
+# ==   3.3  Create an R script to create your own database  ====================
+
+
+# Next: to create your own database.
+# - Make a new R script, call it "makeProteinDB.R"
+# - enter the following expression as the first command:
+#     source("./scripts/ABC-createRefDB.R")
+# - than add the two commands that add your protein and taxonomy data,
+#     they should look like:
+#
+# myDB <- dbAddProtein(myDB,
+#                      jsonlite::fromJSON("./myScripts/MBP1_.json"))
+# myDB <- dbAddTaxonomy(myDB,
+#                       jsonlite::fromJSON("./myScripts/taxonomy.json"))
+#
+#
+# - save the .json file in the ./myScripts/ folder and source() it:
+#
+#     source("./myScripts/makeProteinDB.R")  # <<<- This command ...
+#
+# ... needs to be executed whenever you recreate the database. In particular,
+# whenever you have added or modified data in any of the JSON files. Later you
+# will add more information.
+
+# Remember this principle. Don't rely on objects in memory - you might
+# "break" them with a code experiment. But always have a script with
+# which you can create what you need.
+
+# ===   3.3.1  Check and validate
+
+
+# Is your protein named according to the pattern "MBP1_MYSPE"? It should be.
+# And does the taxonomy table contain the systematic name? It should be the same
+# that you get when you type MYSPE into the console.
+
+# Let's compute sequence lengths on the fly (with the function nchar() ), and
+# open this with the table viewer function View()
+
+View(cbind(myDB$protein[ , c("ID", "name", "RefSeqID")],
+           length = nchar(myDB$protein$sequence)))
+
+# Does your protein appear in the last row of this table? Where does your
+# protein's length fall relative to the reference proteins? About the same? Much
+# shorter? Much longer? If it is less then 500 amino acids long, I would suspect
+# an error. Contact me for advice.
+
+# Is that the right sequence? Is it the same as the one on the NCBI protein
+# database page?
+myDB$protein$sequence[nrow(myDB$protein)]
+
+# If not, don't continue! Fix the problem first.
+# Let me repeat: If this does not give you the right sequence of the MYSPE
+#                Mbp1 homologue, DO NOT CONTINUE. Fix the problem.
+
+# Is that the right taxonomy ID and binomial name for MYSPE?
+# This question may be a bit non-trivial ... MYSPE is a species, but the
+# recorded taxonomy ID may be a strain. We have a utility function,
+# sameSpecies()  that normalizes organism name to the binomial species.
+#
+sel <- sameSpecies(myDB$taxonomy$species, MYSPE)
+myDB$taxonomy[sel, ]
+
+# If not, or if the result was "<0 rows> ... " then DO NOT CONTINUE.
+# Fix the problem first.
+
+# Does this give you the right refseq ID for MBP1_MYSPE?
+sel <- myDB$protein$name == paste0("MBP1_", biCode(MYSPE))
+myDB$protein$RefSeqID[sel]
+
+# If not, or if the result was "<0 rows> ... " then DO NOT CONTINUE.
+# Fix the problem first.
+
+
+# ==   3.4  Task: submit for credit (part 2/2)  ================================
+
+
+# - On your submission page, copy/paste the BLAST result headers from the
+#     "Alignments" tab, to demonstrate that the data justifies your choice of
+#     protein; you don't need to paste the whole alignment, just the header(s).
+#     Note the relevant values separately: eValue, coverage, %ID etc. and link
+#     to your protein's NCBI protein database page. (Note: in case there are
+#     more than one high-scoring segments included for the SAME protein, you
+#     need to show the results for all of its high-scoring segments.)
+# - Copy and paste the contents of your two JSON files on your submission
+#     page on the Student Wiki. Make sure they are enclosed in 
 ... 

+#     tags.
+# - Execute the three commands below and show the result on your submission page
+
+biCode(myDB$taxonomy$species) %in% biCode(MYSPE)
+sel <- sameSpecies(myDB$taxonomy$species, MYSPE)
+myDB$protein$taxonomyID %in% myDB$taxonomy$ID[sel]
+
+# That is all.
+
+
+# [END]
diff --git a/FND-Genetic_code.R b/FND-Genetic_code.R
index 132d8ce..585f7b0 100644
--- a/FND-Genetic_code.R
+++ b/FND-Genetic_code.R
@@ -1,349 +1,349 @@
-# tocID <- "FND-Genetic_code.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the FND-Genetic_code unit.
-#
-# Version:  1.2
-#
-# Date:     2017  10  -  2019  01
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    2020 Maintenance
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-#           1.0.1  Comment on "incomplete final line" warning in FASTA
-#           1.0    First live version
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC>
-#TOC>   Section  Title                                            Line
-#TOC> ----------------------------------------------------------------
-#TOC>   1        Storing the genetic code                           45
-#TOC>   1.1        Genetic code in Biostrings                       63
-#TOC>   2        Working with the genetic code                      94
-#TOC>   2.1        Translate a sequence.                           129
-#TOC>   3        An alternative representation: 3D array           212
-#TOC>   3.1        Print a Genetic code table                      246
-#TOC>   4        Tasks                                             272
-#TOC>
-#TOC> ==========================================================================
-
-
-# =    1  Storing the genetic code  ============================================
-
-# The genetic code maps trinucleotide codons to amino acids. To store it, we
-# need some mechanism to associate the two representations. The most
-# convenient way to do that is a "named vector" which holds the amino acid
-# code and assigns the codons as names to its elements.
-
-x <- c("M", "H", "H", "*", "*", "*")
-names(x) <- c("ATG", "CAC", "CAT", "TAA", "TAG", "TGA")
-x
-
-# Then we can access the vector by the codon as name, and retrieve the
-# amino acid ...
-
-x["ATG"]
-x["CAC"]
-x["TAA"]
-
-# ... or the names of elements, to retrieve the codon(s)
-names(x)[x == "M"]
-names(x)[x == "H"]
-names(x)[x == "*"]
-
-
-# ==   1.1  Genetic code in Biostrings  ========================================
-
-# Coveniently, the standard genetic code as well as its alternatives are
-# available in the Bioconductor "Biostrings" package:
-
-
-if (! requireNamespace("BiocManager", quietly = TRUE)) {
-  install.packages("BiocManager")
-}
-if (! requireNamespace("Biostrings", quietly = TRUE)) {
-  BiocManager::install("Biostrings")
-}
-# Package information:
-#  library(help = Biostrings)       # basic information
-#  browseVignettes("Biostrings")    # available vignettes
-#  data(package = "Biostrings")     # available datasets
-
-
-# The standard genetic code vector
-Biostrings::GENETIC_CODE
-
-# The table of genetic codes. This information corresponds to this page
-# at the NCBI:
-# https://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html/index.cgi?chapter=tgencodes
-Biostrings::GENETIC_CODE_TABLE
-
-# Most of the alternative codes are mitochondrial codes. The id of the
-# Alternative Yeast Nuclear code is "12"
-Biostrings::getGeneticCode("12")  # Alternative Yeast Nuclear
-
-
-# =    2  Working with the genetic code  =======================================
-
-# We'll use Biostrings::GENETIC_CODE a lot in this script, so we'll assign it
-# to a "local" variable, rather than retrieving it from the package all the
-# time.
-
-GC <- Biostrings::GENETIC_CODE
-
-# This is a named vector of characters ...
-
-str(GC)
-
-# ... which also stores the alternative initiation codons TTG and CTG in
-# an attribute of the vector. (Alternative initiation codons sometimes are
-# used instead of ATG to intiate translation, if translation is not initiated
-# at ATG thses are still translated with fMet.)
-
-attr(GC, "alt_init_codons")
-
-# But the key to use this vector is in the "names" which we use for subsetting
-# the list of amino acids in whatever way we need.
-names(GC)
-
-# The translation of "TGG" ...
-GC["TGG"]
-
-# All stop codons
-names(GC)[GC == "*"]
-
-# All start codons
-names(GC)[GC == "M"] # ... or
-c(names(GC)[GC == "M"],
-  attr(GC, "alt_init_codons"))
-
-
-# ==   2.1  Translate a sequence.  =============================================
-
-
-# I have provided a gene sequence in the data directory:
-# S288C_YDL056W_MBP1_coding.fsa is the yeast Mbp1 FASTA sequence.
-
-# read it
-mbp1 <- readLines("./data/S288C_YDL056W_MBP1_coding.fsa")
-
-# You will notice that this generates a Warning message:
-#      Warning message:
-#        In readLines("./data/S288C_YDL056W_MBP1_coding.fsa") :
-#        incomplete final line found on './data/S288C_YDL056W_MBP1_coding.fsa'
-
-# The reason for this is that the last character of the file is the letter "A"
-# and not a "\n" line break. This file is exactly how it was sent from the
-# NCBI server; I think good, defensive programming practice would have been to
-# include some kind of an end-marker in the file, like a final "\n". This helps
-# us recognize an incomplete transmission. Let's parse the actual sequence from
-# the file, and then check for completeness.
-
-
-head(mbp1)
-
-# drop the first line (header)
-mbp1 <- mbp1[-1]
-head(mbp1)
-
-# concatenate it all to a single string
-mbp1 <- paste(mbp1, sep = "", collapse = "")
-
-# how long is it?
-nchar(mbp1)
-
-# how many codons?
-nchar(mbp1)/3
-
-# That looks correct for the 833 aa sequence plus 1 stop codon. This gives us a
-# first verification that the file we read is complete, the nucleotides of a
-# complete ORF should be divisible by 3.
-
-# Extract the codons. There are many ways to split a long string into chunks
-# of three characters. Here we use the Biostrings  codons()  function. codons()
-# requires an object of type DNAstring - a special kind of string with
-# attributes that are useful for Biostrings. Thus we convert the sequence first
-# with DNAstring(), then split it up, then convert it into a plain
-# character vector.
-mbp1Codons <- as.character(Biostrings::codons(Biostrings::DNAString(mbp1)))
-
-head(mbp1Codons)
-
-# now translate each codon
-
-mbp1AA <- character(834)
-for (i in seq_along(mbp1Codons)) {
-  mbp1AA[i] <- GC[mbp1Codons[i]]
-}
-
-head(mbp1Codons)
-head(mbp1AA)
-
-tail(mbp1Codons)
-tail(mbp1AA) # Note the stop!
-
-# The TAA "ochre" stop codon is our second verification that the nucleotide
-# sequence is complete: a stop codon can't appear internally in an ORF.
-
-# We can work with the mbp1AA vector, for example to tabulate the
-# amino acid frequencies:
-table(mbp1AA)
-sort(table(mbp1AA), decreasing = TRUE)
-
-# Or we can paste all elements together into a single string. But let's remove
-# the stop, it's not actually a part of the sequence. To remove the last element
-# of a vector, re-assign it with a vector minus the index of the last element:
-mbp1AA <- mbp1AA[-(length(mbp1AA))]
-tail(mbp1AA) # Note the stop is gone!
-
-# paste it together, collapsing the elements using an empty string as the
-# separation-character (i.e.: nothing)
-(Mbp1 <- paste(mbp1AA, sep = "", collapse = ""))
-
-
-# =    3  An alternative representation: 3D array  =============================
-
-
-# We don't use 3D arrays often - usually just 2D tables and data frames, so
-# here is a good opportunity to review the syntax of 3D arrays with a
-# genetic code cube:
-
-# Initialize, using A G C T as the names of the elements in each dimension
-cCube <- array(data     = character(64),
-               dim      = c(4, 4, 4),
-               dimnames = list(c("A", "G", "C", "T"),
-                               c("A", "G", "C", "T"),
-                               c("A", "G", "C", "T")))
-
-# fill it with amino acid codes using three nested loops
-for (i in 1:4) {
-  for (j in 1:4) {
-    for (k in 1:4) {
-      myCodon <- paste(dimnames(cCube)[[1]][i],
-                       dimnames(cCube)[[2]][j],
-                       dimnames(cCube)[[3]][k],
-                       sep = "",
-                       collapse = "")
-      cCube[i, j, k] <- GC[myCodon]
-    }
-  }
-}
-
-# confirm
-cCube["A", "T", "G"] # methionine
-cCube["T", "T", "T"] # phenylalanine
-cCube["T", "A", "G"] # stop (amber)
-
-
-
-# ==   3.1  Print a Genetic code table  ========================================
-
-
-# The data structure of our cCube is well suited to print a table. In the
-# "standard" way to print the genetic code, we write codons with the same
-# second nucleotide in columns, and arrange rows in blocks of same
-# first nucleotide, varying the third nucleotide fastest. This maximizes the
-# similarity of adjacent amino acids in the table if we print the
-# nucleotides in the order T C A G. It's immidiately obvious that the code
-# is not random: the universal genetic code is exceptionally error tolerant in
-# the sense that mutations (or single-nucleotide translation errors) are likely
-# to result in an amino acid with similar biophysical properties as the
-# original.
-
-nuc <- c("T", "C", "A", "G")
-
-# (calling variables f, s, t to indicate first, second, and third position ...)
-for (f in nuc) {      # first varies in blocks
-  for (t in nuc) {    # third varies in columns
-    for (s in nuc) {  # second varies in rows
-      cat(sprintf("%s%s%s: %s   ", f, s, t, cCube[f, s, t]))
-    }
-    cat("\n")
-  }
-  cat("\n")
-}
-
-
-# =    4  Tasks  ===============================================================
-
-
-# Task: What do you need to change to print the table with U instead
-#         of T? Try it.
-
-
-# Task: Point mutations are more often transitions (purine -> purine;
-#         pyrimidine -> pyrimidine) than transversions (purine -> pyrimidine;
-#         pyrimidine -> purine), even though twice as many transversions
-#         are possible in the code. This is most likely due a deamination /
-#         tautomerization process that favours C -> T changes. If the code
-#         indeed minimizes the effect of mutations, you would expect that
-#         codons that differ by a transition code for more similar amino acids
-#         than codons that differ by a transversion. Is that true? List the set
-#         of all amino acid pairs that are encoded by codons with a C -> T
-#         transition. Then list the set of amino acid pairs with a C -> A
-#         transversion. Which set of pairs is more similar?
-
-
-# Task: How many stop codons do the two mbp1-gene derived amino acid sequences
-#         have if you translate them in the 2. or the 3. frame?
-
-
-# Task: How does the amino acid composition change if you translate the mbp1
-#         gene with the Alternative Yeast Nuclear code that is used by the
-#         "GTC clade" of fungi?
-#         (cf. https://en.wikipedia.org/wiki/Alternative_yeast_nuclear_code )
-
-# Solution:
-
-    # Fetch the code
-    Biostrings::GENETIC_CODE_TABLE
-    Biostrings::GENETIC_CODE_TABLE$name[Biostrings::GENETIC_CODE_TABLE$id=="12"]
-    altYcode <- Biostrings::getGeneticCode("12")
-
-    # what's the difference?
-    (delta <- which(Biostrings::GENETIC_CODE != altYcode))
-
-    Biostrings::GENETIC_CODE[delta]
-    altYcode[delta]
-
-    # translate
-    altYAA <- character(834)
-    for (i in seq_along(mbp1Codons)) {
-      altYAA[i] <- altYcode[mbp1Codons[i]]
-    }
-
-    table(mbp1AA)
-    table(altYAA)
-
-# Task: The genetic code has significant redundacy, i.e. there are up to six
-#         codons that code for the same amino acid. Write code that lists how
-#         many amino acids are present how often i.e. it should tell you that
-#         two amino acids are encoded only with a single codon, three amino
-#         acids have six codons, etc. Solution below, but don't peek. There
-#         are many possible ways to do this.
-#
-#
-# Solution:
-( x <- table(table(Biostrings::GENETIC_CODE)) )
-
-# confirm
-sum(x * as.numeric(names(x)))
-
-
-
-# [END]
+# tocID <- "FND-Genetic_code.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the FND-Genetic_code unit.
+#
+# Version:  1.2
+#
+# Date:     2017  10  -  2019  01
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    2020 Maintenance
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+#           1.0.1  Comment on "incomplete final line" warning in FASTA
+#           1.0    First live version
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC>
+#TOC>   Section  Title                                            Line
+#TOC> ----------------------------------------------------------------
+#TOC>   1        Storing the genetic code                           45
+#TOC>   1.1        Genetic code in Biostrings                       63
+#TOC>   2        Working with the genetic code                      94
+#TOC>   2.1        Translate a sequence.                           129
+#TOC>   3        An alternative representation: 3D array           212
+#TOC>   3.1        Print a Genetic code table                      246
+#TOC>   4        Tasks                                             272
+#TOC>
+#TOC> ==========================================================================
+
+
+# =    1  Storing the genetic code  ============================================
+
+# The genetic code maps trinucleotide codons to amino acids. To store it, we
+# need some mechanism to associate the two representations. The most
+# convenient way to do that is a "named vector" which holds the amino acid
+# code and assigns the codons as names to its elements.
+
+x <- c("M", "H", "H", "*", "*", "*")
+names(x) <- c("ATG", "CAC", "CAT", "TAA", "TAG", "TGA")
+x
+
+# Then we can access the vector by the codon as name, and retrieve the
+# amino acid ...
+
+x["ATG"]
+x["CAC"]
+x["TAA"]
+
+# ... or the names of elements, to retrieve the codon(s)
+names(x)[x == "M"]
+names(x)[x == "H"]
+names(x)[x == "*"]
+
+
+# ==   1.1  Genetic code in Biostrings  ========================================
+
+# Coveniently, the standard genetic code as well as its alternatives are
+# available in the Bioconductor "Biostrings" package:
+
+
+if (! requireNamespace("BiocManager", quietly = TRUE)) {
+  install.packages("BiocManager")
+}
+if (! requireNamespace("Biostrings", quietly = TRUE)) {
+  BiocManager::install("Biostrings")
+}
+# Package information:
+#  library(help = Biostrings)       # basic information
+#  browseVignettes("Biostrings")    # available vignettes
+#  data(package = "Biostrings")     # available datasets
+
+
+# The standard genetic code vector
+Biostrings::GENETIC_CODE
+
+# The table of genetic codes. This information corresponds to this page
+# at the NCBI:
+# https://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html/index.cgi?chapter=tgencodes
+Biostrings::GENETIC_CODE_TABLE
+
+# Most of the alternative codes are mitochondrial codes. The id of the
+# Alternative Yeast Nuclear code is "12"
+Biostrings::getGeneticCode("12")  # Alternative Yeast Nuclear
+
+
+# =    2  Working with the genetic code  =======================================
+
+# We'll use Biostrings::GENETIC_CODE a lot in this script, so we'll assign it
+# to a "local" variable, rather than retrieving it from the package all the
+# time.
+
+GC <- Biostrings::GENETIC_CODE
+
+# This is a named vector of characters ...
+
+str(GC)
+
+# ... which also stores the alternative initiation codons TTG and CTG in
+# an attribute of the vector. (Alternative initiation codons sometimes are
+# used instead of ATG to intiate translation, if translation is not initiated
+# at ATG thses are still translated with fMet.)
+
+attr(GC, "alt_init_codons")
+
+# But the key to use this vector is in the "names" which we use for subsetting
+# the list of amino acids in whatever way we need.
+names(GC)
+
+# The translation of "TGG" ...
+GC["TGG"]
+
+# All stop codons
+names(GC)[GC == "*"]
+
+# All start codons
+names(GC)[GC == "M"] # ... or
+c(names(GC)[GC == "M"],
+  attr(GC, "alt_init_codons"))
+
+
+# ==   2.1  Translate a sequence.  =============================================
+
+
+# I have provided a gene sequence in the data directory:
+# S288C_YDL056W_MBP1_coding.fsa is the yeast Mbp1 FASTA sequence.
+
+# read it
+mbp1 <- readLines("./data/S288C_YDL056W_MBP1_coding.fsa")
+
+# You will notice that this generates a Warning message:
+#      Warning message:
+#        In readLines("./data/S288C_YDL056W_MBP1_coding.fsa") :
+#        incomplete final line found on './data/S288C_YDL056W_MBP1_coding.fsa'
+
+# The reason for this is that the last character of the file is the letter "A"
+# and not a "\n" line break. This file is exactly how it was sent from the
+# NCBI server; I think good, defensive programming practice would have been to
+# include some kind of an end-marker in the file, like a final "\n". This helps
+# us recognize an incomplete transmission. Let's parse the actual sequence from
+# the file, and then check for completeness.
+
+
+head(mbp1)
+
+# drop the first line (header)
+mbp1 <- mbp1[-1]
+head(mbp1)
+
+# concatenate it all to a single string
+mbp1 <- paste(mbp1, sep = "", collapse = "")
+
+# how long is it?
+nchar(mbp1)
+
+# how many codons?
+nchar(mbp1)/3
+
+# That looks correct for the 833 aa sequence plus 1 stop codon. This gives us a
+# first verification that the file we read is complete, the nucleotides of a
+# complete ORF should be divisible by 3.
+
+# Extract the codons. There are many ways to split a long string into chunks
+# of three characters. Here we use the Biostrings  codons()  function. codons()
+# requires an object of type DNAstring - a special kind of string with
+# attributes that are useful for Biostrings. Thus we convert the sequence first
+# with DNAstring(), then split it up, then convert it into a plain
+# character vector.
+mbp1Codons <- as.character(Biostrings::codons(Biostrings::DNAString(mbp1)))
+
+head(mbp1Codons)
+
+# now translate each codon
+
+mbp1AA <- character(834)
+for (i in seq_along(mbp1Codons)) {
+  mbp1AA[i] <- GC[mbp1Codons[i]]
+}
+
+head(mbp1Codons)
+head(mbp1AA)
+
+tail(mbp1Codons)
+tail(mbp1AA) # Note the stop!
+
+# The TAA "ochre" stop codon is our second verification that the nucleotide
+# sequence is complete: a stop codon can't appear internally in an ORF.
+
+# We can work with the mbp1AA vector, for example to tabulate the
+# amino acid frequencies:
+table(mbp1AA)
+sort(table(mbp1AA), decreasing = TRUE)
+
+# Or we can paste all elements together into a single string. But let's remove
+# the stop, it's not actually a part of the sequence. To remove the last element
+# of a vector, re-assign it with a vector minus the index of the last element:
+mbp1AA <- mbp1AA[-(length(mbp1AA))]
+tail(mbp1AA) # Note the stop is gone!
+
+# paste it together, collapsing the elements using an empty string as the
+# separation-character (i.e.: nothing)
+(Mbp1 <- paste(mbp1AA, sep = "", collapse = ""))
+
+
+# =    3  An alternative representation: 3D array  =============================
+
+
+# We don't use 3D arrays often - usually just 2D tables and data frames, so
+# here is a good opportunity to review the syntax of 3D arrays with a
+# genetic code cube:
+
+# Initialize, using A G C T as the names of the elements in each dimension
+cCube <- array(data     = character(64),
+               dim      = c(4, 4, 4),
+               dimnames = list(c("A", "G", "C", "T"),
+                               c("A", "G", "C", "T"),
+                               c("A", "G", "C", "T")))
+
+# fill it with amino acid codes using three nested loops
+for (i in 1:4) {
+  for (j in 1:4) {
+    for (k in 1:4) {
+      myCodon <- paste(dimnames(cCube)[[1]][i],
+                       dimnames(cCube)[[2]][j],
+                       dimnames(cCube)[[3]][k],
+                       sep = "",
+                       collapse = "")
+      cCube[i, j, k] <- GC[myCodon]
+    }
+  }
+}
+
+# confirm
+cCube["A", "T", "G"] # methionine
+cCube["T", "T", "T"] # phenylalanine
+cCube["T", "A", "G"] # stop (amber)
+
+
+
+# ==   3.1  Print a Genetic code table  ========================================
+
+
+# The data structure of our cCube is well suited to print a table. In the
+# "standard" way to print the genetic code, we write codons with the same
+# second nucleotide in columns, and arrange rows in blocks of same
+# first nucleotide, varying the third nucleotide fastest. This maximizes the
+# similarity of adjacent amino acids in the table if we print the
+# nucleotides in the order T C A G. It's immidiately obvious that the code
+# is not random: the universal genetic code is exceptionally error tolerant in
+# the sense that mutations (or single-nucleotide translation errors) are likely
+# to result in an amino acid with similar biophysical properties as the
+# original.
+
+nuc <- c("T", "C", "A", "G")
+
+# (calling variables f, s, t to indicate first, second, and third position ...)
+for (f in nuc) {      # first varies in blocks
+  for (t in nuc) {    # third varies in columns
+    for (s in nuc) {  # second varies in rows
+      cat(sprintf("%s%s%s: %s   ", f, s, t, cCube[f, s, t]))
+    }
+    cat("\n")
+  }
+  cat("\n")
+}
+
+
+# =    4  Tasks  ===============================================================
+
+
+# Task: What do you need to change to print the table with U instead
+#         of T? Try it.
+
+
+# Task: Point mutations are more often transitions (purine -> purine;
+#         pyrimidine -> pyrimidine) than transversions (purine -> pyrimidine;
+#         pyrimidine -> purine), even though twice as many transversions
+#         are possible in the code. This is most likely due a deamination /
+#         tautomerization process that favours C -> T changes. If the code
+#         indeed minimizes the effect of mutations, you would expect that
+#         codons that differ by a transition code for more similar amino acids
+#         than codons that differ by a transversion. Is that true? List the set
+#         of all amino acid pairs that are encoded by codons with a C -> T
+#         transition. Then list the set of amino acid pairs with a C -> A
+#         transversion. Which set of pairs is more similar?
+
+
+# Task: How many stop codons do the two mbp1-gene derived amino acid sequences
+#         have if you translate them in the 2. or the 3. frame?
+
+
+# Task: How does the amino acid composition change if you translate the mbp1
+#         gene with the Alternative Yeast Nuclear code that is used by the
+#         "GTC clade" of fungi?
+#         (cf. https://en.wikipedia.org/wiki/Alternative_yeast_nuclear_code )
+
+# Solution:
+
+    # Fetch the code
+    Biostrings::GENETIC_CODE_TABLE
+    Biostrings::GENETIC_CODE_TABLE$name[Biostrings::GENETIC_CODE_TABLE$id=="12"]
+    altYcode <- Biostrings::getGeneticCode("12")
+
+    # what's the difference?
+    (delta <- which(Biostrings::GENETIC_CODE != altYcode))
+
+    Biostrings::GENETIC_CODE[delta]
+    altYcode[delta]
+
+    # translate
+    altYAA <- character(834)
+    for (i in seq_along(mbp1Codons)) {
+      altYAA[i] <- altYcode[mbp1Codons[i]]
+    }
+
+    table(mbp1AA)
+    table(altYAA)
+
+# Task: The genetic code has significant redundacy, i.e. there are up to six
+#         codons that code for the same amino acid. Write code that lists how
+#         many amino acids are present how often i.e. it should tell you that
+#         two amino acids are encoded only with a single codon, three amino
+#         acids have six codons, etc. Solution below, but don't peek. There
+#         are many possible ways to do this.
+#
+#
+# Solution:
+( x <- table(table(Biostrings::GENETIC_CODE)) )
+
+# confirm
+sum(x * as.numeric(names(x)))
+
+
+
+# [END]
diff --git a/FND-MAT-Graphs_and_networks.R b/FND-MAT-Graphs_and_networks.R
index 760636c..654f909 100644
--- a/FND-MAT-Graphs_and_networks.R
+++ b/FND-MAT-Graphs_and_networks.R
@@ -1,691 +1,691 @@
-# tocID <- "FND-MAT-Graphs_and_networks.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the FND-MAT-Graphs_and_networks unit.
-#
-# Version:  1.2
-#
-# Date:     2017  10  -  2019  01
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout
-#           1.1    Update set.seed() usage
-#           1.0    First final version for learning units.
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:     Add some explicit tasks and sample solutions.
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                          Line
-#TOC> --------------------------------------------------------------
-#TOC>   1        REVIEW                                           50
-#TOC>   2        DEGREE DISTRIBUTIONS                            206
-#TOC>   2.1        Random graph                                  212
-#TOC>   2.2        scale-free graph (Barabasi-Albert)            260
-#TOC>   2.3        Random geometric graph                        326
-#TOC>   3        A CLOSER LOOK AT THE igraph:: PACKAGE           448
-#TOC>   3.1        Basics                                        451
-#TOC>   3.2        Components                                    523
-#TOC>   4        RANDOM GRAPHS AND GRAPH METRICS                 542
-#TOC>   4.1        Diameter                                      579
-#TOC>   5        GRAPH CLUSTERING                                648
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  REVIEW  ==============================================================
-
-# This tutorial covers basic concepts of graph theory and analysis in R. Make
-# sure you have pulled the latest version of the project from the GitHub
-# repository.
-
-# Let's explore some of the basic ideas of graph theory by starting with a small
-# random graph.
-
-
-# To begin let's write a little function that will create random "gene" names;
-# there's no particular purpose to this other than to make our graphs look a
-# little more "biological" ...
-makeRandomGenenames <- function(N) {
-  nam <- character()
-  while (length(nam) < N) {
-    a <- paste0(c(sample(LETTERS, 1), sample(letters, 2)),
-                collapse="") # one uppercase, two lowercase letters
-    n <- sample(1:9, 1)      # one number
-    nam[length(nam) + 1] <- paste(a, n, sep="") # store in vector
-    nam <- unique(nam)   # delete if this was a duplicate
-  }
-  return(nam)
-}
-
-N <- 20
-
-set.seed(112358)                       # set RNG seed for repeatable randomness
-( Nnames <- makeRandomGenenames(N) )
-set.seed(NULL)                         # reset the RNG
-
-# One way to represent graphs in a computer is as an "adjacency matrix". In this
-# matrix, each row and each column represents a node, and the cell at the
-# intersection of a row and column contains a value/TRUE if there is an edge,
-# 0/FALSE otherwise.
-
-# Let's create an adjacency matrix for our random graph: let's say a pair
-# of nodes has probability p <- 0.09 to have an edge, and our graph is
-# symmetric , i.e. it is an undirected graph, and it has neither self-edges,
-# i.e. loops, nor multiple edges between the same nodes, i.e. it
-# is a "simple" graph. We use the Nnames vector as node labels.
-
-makeRandomAM <- function(nam, p = 0.1) {
-  # Make a random adjacency matrix for a set of nodes with edge probability p
-  # Parameters:
-  #   nam: a character vector of unique node names.
-  #   p:   probability that a random pair of nodes will have an edge.
-  #
-  # Value: an adjacency matrix for a simple, undirected graph
-  #
-
-  N <- length(nam)
-  AM <- matrix(numeric(N * N), ncol = N)  # Adjacency matrix, pre-filled with 0
-  rownames(AM) <- nam
-  colnames(AM) <- nam
-  for (iRow in 1:(N-1)) { # Note how we make sure iRow != iCol - this prevents
-                          # loops (self-edges)
-    for (iCol in (iRow+1):N) {
-      if (runif(1) < p) {     # runif() creates uniform random numbers
-                              # between 0 and 1. The expression is TRUE with
-                              # probability p. if it is TRUE ...
-        AM[iRow, iCol] <- 1   # ... record an edge for the pair (iRow, iCol)
-      }
-    }
-  }
-  return(AM)
-}
-
-set.seed(112358)                       # set RNG seed for repeatable randomness
-( myRandAM <- makeRandomAM(Nnames, p = 0.09) )
-set.seed(NULL)                         # reset the RNG
-
-
-# Listing the matrix is not very informative - we should plot this graph. The
-# standard package for work with graphs in r is "igraph::". We'll go into more
-# details of the igraph:: package a bit later, for now we just use it to plot:
-
-if (! requireNamespace("igraph", quietly = TRUE)) {
-  install.packages("igraph")
-}
-# Package information:
-#  library(help = igraph)       # basic information
-#  browseVignettes("igraph")    # available vignettes
-#  data(package = "igraph")     # available datasets
-
-
-myG <- igraph::graph_from_adjacency_matrix(myRandAM, mode = "undirected")
-
-set.seed(112358)                       # set RNG seed for repeatable randomness
-                                       # calculate layout coordinates
-myGxy <- igraph::layout_with_graphopt(myG,
-                                      charge=0.0012)
-set.seed(NULL)                         # reset the RNG
-
-
-# The igraph:: package adds its own function to the collection of plot()
-# functions; R makes the selection which plot function to use based on the class
-# of the object that we request to plot. This plot function has parameters
-#  layout - the x,y coordinates of the nodes;
-#  vertex.color - which I define to color by node-degree
-#  vertex size - which I define to increase with node-degree
-#  vertex.label - which I set to combine the names of the vertices of the
-#                 graph - names(V(iG)) - with the node degree - degree(iG).
-# See ?igraph.plotting for the complete list of parameters
-
-
-oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
-plot(myG,
-     layout = myGxy,
-     rescale = FALSE,
-     xlim = c(min(myGxy[,1]) * 0.99, max(myGxy[,1]) * 1.01),
-     ylim = c(min(myGxy[,2]) * 0.99, max(myGxy[,2]) * 1.01),
-     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
-     vertex.size = 1000 + (900 * igraph::degree(myG)),
-     vertex.label = sprintf("%s(%i)", names(igraph::V(myG)), igraph::degree(myG)),
-     vertex.label.family = "sans",
-     vertex.label.cex = 0.7)
-par(oPar)  # reset plot window
-
-
-# The simplest descriptor of a graph are the number of nodes, edges, and the
-# degree-distribution. In our example, the number of nodes was given: N; the
-# number of edges can easily be calculated from the adjacency matrix. In our
-# matrix, we have entered 1 for every edge. Thus we simply sum over the matrix:
-sum(myRandAM)
-
-# Is that what you expect?
-
-# What about the degree distribution? We can get that simply by summing over the
-# rows and summing over the columns and adding the two vectors.
-
-rowSums(myRandAM) + colSums(myRandAM) # check this against the plot!
-
-# The function degree() gives the same values
-igraph::degree(myG)
-
-# Let's  plot the degree distribution in a histogram:
-degG <- igraph::degree(myG)
-brk <- seq(min(degG)-0.5, max(degG)+0.5, by=1)  # define histogram breaks
-hist(degG, breaks=brk, col="#A5CCF5",
-     xlim = c(-1,8), xaxt = "n",
-     main = "Node degrees", xlab = "Degree", ylab = "Number")  # plot histogram
-axis(side = 1, at = 0:7)
-
-# Note: I don't _have_ to define breaks, the hist() function usually does so
-# quite well, automatically. But for this purpose I want the columns of the
-# histogram to represent exactly one node-degree difference.
-
-# A degree distribution is actually a very informative descriptor of graphs,
-#  since it is very sensitive to the generating mechanism. For biological
-# networks, that is one of the key questions we are interested in: how was the
-# network formed? Asking about the mechanism, the way the interactions
-# support function and shape the fitness landscape in which the cell evolves,
-# connects our mathematical abstraction with biological insight.
-
-
-# =    2  DEGREE DISTRIBUTIONS  ================================================
-
-# Let's simulate a few graphs that are a bit bigger to get a better sense of
-# their degree distributions:
-#
-
-# ==   2.1  Random graph  ======================================================
-
-N <- 200
-
-set.seed(31415927)                     # set RNG seed for repeatable randomness
-my200AM <- makeRandomAM(as.character(1:N), p = 0.015)
-set.seed(NULL)                         # reset the RNG
-
-myG200 <- igraph::graph_from_adjacency_matrix(my200AM, mode = "undirected")
-myGxy <- igraph::layout_with_graphopt(myG200, charge=0.0001) # calculate layout
-                                                             # coordinates
-
-oPar <- par(mar= c(0, 0, 0, 0))             # Turn margins off, save graphics state
-plot(myG200,
-     layout = myGxy,
-     rescale = FALSE,
-     xlim = c(min(myGxy[,1]) * 0.99, max(myGxy[,1]) * 1.01),
-     ylim = c(min(myGxy[,2]) * 0.99, max(myGxy[,2]) * 1.01),
-     vertex.color=heat.colors(max(igraph::degree(myG200)+1))[igraph::degree(myG200)+1],
-     vertex.size = 150 + (70 * igraph::degree(myG200)),
-     vertex.label = NA)
-par(oPar)                              # restore graphics state
-
-# This graph has thirteen singletons and one large, connected component. Many
-# biological graphs look approximately like this.
-
-# Calculate degree distributions
-dg <- igraph::degree(myG200)
-brk <- seq(min(dg)-0.5, max(dg)+0.5, by=1)
-hist(dg, breaks=brk, col="#A5F5CC",
-     xlim = c(-1,11), xaxt = "n",
-     main = "Node degrees", xlab = "Degree", ylab = "Number")  # plot histogram
-axis(side = 1, at = 0:10)
-
-
-# Note the pronounced peak of this distribution: this is not "scale-free".
-# Here is the log-log plot of frequency vs. degree-rank ...
-
-( freqRank <- table(dg) )
-plot(log10(as.numeric(names(freqRank)) + 1),
-     log10(as.numeric(freqRank)), type = "b",
-     pch = 21, bg = "#A5F5CC",
-     xlab = "log(Rank)", ylab = "log(frequency)",
-     main = "200 nodes in a random network")
-
-# ... which shows us that this does NOT correspond to the single-slope linear
-# relationship that we expect for a "scale-free" graph.
-
-# ==   2.2  scale-free graph (Barabasi-Albert)  ================================
-
-# What does one of those intriguing "scale-free" distributions look like? The
-# iGraph:: package has a function to make random graphs according to the
-# Barabasi-Albert model of scale-free graphs. It is: sample_pa(), where pa
-# stands for "preferential attachment". Preferential attachment is _one_ type of
-# process that will yield scale-free distributions.
-
-N <- 200
-
-set.seed(31415927)                     # set RNG seed for repeatable randomness
-GBA <- igraph::sample_pa(N, power = 0.8, directed = FALSE)
-set.seed(NULL)                         # reset the RNG
-
-GBAxy <- igraph::layout_with_graphopt(GBA, charge=0.0001)
-
-oPar <- par(mar= c(0, 0, 0, 0))             # Turn margins off, save graphics state
-plot(GBA,
-     layout = GBAxy,
-     rescale = FALSE,
-     xlim = c(min(GBAxy[,1]) * 0.99, max(GBAxy[,1]) * 1.01),
-     ylim = c(min(GBAxy[,2]) * 0.99, max(GBAxy[,2]) * 1.01),
-     vertex.color=heat.colors(max(igraph::degree(GBA)+1))[igraph::degree(GBA)+1],
-     vertex.size = 200 + (30 * igraph::degree(GBA)),
-     vertex.label = NA)
-par(oPar)                              # restore graphics state
-
-# This is a very obviously different graph! Some biological networks have
-# features that look like that - but in my experience the hub nodes are usually
-# not that distinct. But then again, that really depends on the parameter
-# "power". Play with the "power" parameter and get a sense for what difference
-# this makes. Also: note that the graph has only a single component - no
-# singletons.
-
-# What's the degree distribution of this graph?
-( dg <- igraph::degree(GBA) )
-brk <- seq(min(dg)-0.5, max(dg)+0.5, by=1)
-hist(dg, breaks=brk, col="#DCF5B5",
-     xlim = c(0,max(dg)+1), xaxt = "n",
-     main = "Node degrees 200 nodes PA graph",
-     xlab = "Degree", ylab = "Number")
-axis(side = 1, at = seq(0, max(dg)+1, by=5))
-
-# Most nodes have a degree of 1, but one node has a degree of 19.
-
-(freqRank <- table(dg))
-plot(log10(as.numeric(names(freqRank)) + 1),
-     log10(as.numeric(freqRank)), type = "b",
-     pch = 21, bg = "#DCF5B5",
-     xlab = "log(Rank)", ylab = "log(frequency)",
-     main = "200 nodes in a preferential-attachment network")
-
-# Sort-of linear, but many of the higher ranked nodes have a frequency of only
-# one. That behaviour smooths out in larger graphs - let's try 100000 nodes:
-#
-N <- 10000
-X <- igraph::sample_pa(N, power = 0.8, directed = FALSE)  # 100,000 nodes
-freqRank <- table(igraph::degree(X))
-plot(log10(as.numeric(names(freqRank)) + 1),
-     log10(as.numeric(freqRank)), type = "b",
-     xlab = "log(Rank)", ylab = "log(frequency)",
-     pch = 21, bg = "#A5F5CC",
-     main = "100,000 nodes in a random, scale-free network")
-rm(X)
-
-
-# ==   2.3  Random geometric graph  ============================================
-
-# Finally, let's simulate a random geometric graph and look at the degree
-# distribution. Remember: these graphs have a high probability to have edges
-# between nodes that are "close" together - an entirely biological notion.
-
-# We'll randomly place our nodes in a box. Then we'll define the
-# probability for two nodes to have an edge to be a function of their Euclidian
-# distance in the box.
-
-# Here is a function that makes an adjacency matrix for such graphs. iGraph::
-# has a similar function, sample_grg(), which connects nodes that are closer
-# than a cutoff, the function I give you below is a bit more interesting since
-# it creates edges according to a probability that is determined by a
-# generalized logistic function of the distance. This sigmoidal function gives
-# a smooth cutoff and creates more "natural" graphs. Otherwise, the function is
-# very similar to the random graph function, except that we output the
-# "coordinates" of the nodes together with the adjacency matrix which we then
-# use for the layout. list() FTW.
-
-
-makeRandomGeometricAM <- function(nam, B = 25, Q = 0.001, t = 0.6) {
-  # Make an adjacency matrix for an undirected random geometric graph from
-  #    edges connected with probabilities according to a generalized logistic
-  #    function.
-  # Parameters:
-  #    nam: a character vector of unique names
-  #    B, Q, t:   probability that a random pair (i, j) of nodes gets an
-  #                 edge determined by a generalized logistic function
-  #                 p <- 1 - 1/((1 + (Q * (exp(-B * (x-t)))))^(1 / 0.9)))
-  #
-  # Value: a list with the following components:
-  #        AM$mat : an adjacency matrix
-  #        AM$nam : labels for the nodes
-  #        AM$x   : x-coordinates for the nodes
-  #        AM$y   : y-coordinates for the nodes
-  #
-  nu <- 1  # probably not useful to change
-  AM <- list()
-  AM$nam <- nam
-  N <- length(AM$nam)
-  AM$mat <- matrix(numeric(N * N), ncol = N)  # The adjacency matrix
-  rownames(AM$mat) <- AM$nam
-  colnames(AM$mat) <- AM$nam
-  AM$x <- runif(N) # Randomly place nodes into the unit square
-  AM$y <- runif(N)
-  for (iRow in 1:(N-1)) { # Same principles as in makeRandomGraph()
-    for (iCol in (iRow+1):N) {
-      # geometric distance ...
-      d <- sqrt((AM$x[iRow] - AM$x[iCol])^2 +
-                (AM$y[iRow] - AM$y[iCol])^2)  # Pythagoras
-      # distance dependent probability
-      p <- 1 - 1/((1 + (Q * (exp(-B * (d-t)))))^(1 / nu))
-      if (runif(1) < p) {
-        AM$mat[iRow, iCol] <- 1
-      }
-    }
-  }
-  return(AM)
-}
-
-# Getting the parameters of a generalized logistic right takes a bit of
-# experimenting. If you are interested, you can try a few variations. Or you can
-# look up the function at
-# https://en.wikipedia.org/wiki/Generalised_logistic_function
-
-# This function computes generalized logistics ...
-# genLog <- function(x, B = 25, Q = 0.001, t = 0.5) {
-#     # generalized logistic (sigmoid)
-#     nu <- 1
-#     return(1 - 1/((1 + (Q * (exp(-B * (x-t)))))^(1 / nu)))
-# }
-#
-# ... and this code plots p-values over the distances we could encouter between
-# our nodes: from 0 to sqrt(2) i.e. the diagonal of the unit square in which we
-# will place our nodes.
-# x <- seq(0, sqrt(2), length.out = 50)
-# plot(x, genLog(x), type="l", col="#AA0000", ylim = c(0, 1),
-#      xlab = "d", ylab = "p(edge)")
-
-# 200 node random geomteric graph
-N <- 200
-set.seed(112358)                       # set RNG seed for repeatable randomness
-rGAM <- makeRandomGeometricAM(as.character(1:N), t = 0.4)
-set.seed(NULL)                         # reset the RNG
-
-
-myGRG <- igraph::graph_from_adjacency_matrix(rGAM$mat, mode = "undirected")
-
-oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
-plot(myGRG,
-     layout = cbind(rGAM$x, rGAM$y), # use our node coordinates for layout,
-     rescale = FALSE,
-     xlim = c(min(rGAM$x) * 0.9, max(rGAM$x) * 1.1),
-     ylim = c(min(rGAM$y) * 0.9, max(rGAM$y) * 1.1),
-     vertex.color=heat.colors(max(igraph::degree(myGRG)+1))[igraph::degree(myGRG)+1],
-     vertex.size = 0.1 + (0.2 * igraph::degree(myGRG)),
-     vertex.label = NA)
-par(oPar)
-
-# degree distribution:
-(dg <- igraph::degree(myGRG))
-brk <- seq(min(dg) - 0.5, max(dg) + 0.5, by = 1)
-hist(dg, breaks = brk, col = "#FCC6D2",
-     xlim = c(0, 25), xaxt = "n",
-     main = "Node degrees: 200 nodes RG graph",
-     xlab = "Degree", ylab = "Number")
-axis(side = 1, at = c(0, min(dg):max(dg)))
-
-# You'll find that this is kind of in-between the random, and the scale-free
-# graph. We do have hubs, but they are not as extreme as in the scale-free case;
-# and we have have no singletons, in contrast to the random graph.
-
-(freqRank <- table(dg))
-plot(log10(as.numeric(names(freqRank)) + 1),
-     log10(as.numeric(freqRank)), type = "b",
-     pch = 21, bg = "#FCC6D2",
-     xlab = "log(Rank)", ylab = "log(frequency)",
-     main = "200 nodes in a random geometric network")
-
-
-
-# =    3  A CLOSER LOOK AT THE igraph:: PACKAGE  ===============================
-
-
-# ==   3.1  Basics  ============================================================
-
-# The basic object of the igraph:: package is a graph object. Let's explore the
-# first graph some more, the one we built with our random gene names:
-summary(myG)
-
-# This output means: this is an IGRAPH graph, with U = UN-directed edges
-#  and N = named nodes, that has 20 nodes and 20 edges. For details, see
-?igraph::print.igraph
-
-mode(myG)
-class(myG)
-
-# This means an igraph:: graph object is a special list object; it is opaque in
-# the sense that a user is never expected to modify its components directly, but
-# through a variety of helper functions which the package provides. There are
-# many ways to construct graphs - from adjacency matrices, as we have just done,
-# from edge lists, or by producing random graphs according to a variety of
-# recipes, called _games_ in this package.
-
-# Two basic functions retrieve nodes "Vertices", and "Edges":
-igraph::V(myG)
-igraph::E(myG)
-
-# additional properties can be retrieved from the Vertices ...
-igraph::V(myG)$name
-
-
-# As with many R objects, loading the package provides special functions that
-# can be accessed via the same name as the basic R functions, for example:
-
-print(myG)
-plot(myG)  # this is the result of default plot parameters
-
-# ... where plot() allows the usual flexibility of fine-tuning the plot. We
-# first layout the node coordinates with the Fruchtermann-Reingold algorithm - a
-# force-directed layout that applies an ettractive potential along edges (which
-# pulls nodes together) and a repulsive potential to nodes (so they don't
-# overlap). Note the use of the degree() function to color and scale nodes and
-# labels by degree and the use of the V() function to retrieve the vertex names.
-# See ?plot.igraph for details."
-
-# Plot with some customizing parameters
-oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
-plot(myG,
-     layout = igraph::layout_with_fr(myG),
-     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
-     vertex.size = 12 + (5 * igraph::degree(myG)),
-     vertex.label.cex = 0.4 + (0.15 * igraph::degree(myG)),
-     edge.width = 2,
-     vertex.label = igraph::V(myG)$name,
-     vertex.label.family = "sans",
-     vertex.label.cex = 0.9)
-par(oPar)
-
-# ... or with a different layout:
-oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
-plot(myG,
-     layout = igraph::layout_in_circle(myG),
-     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
-     vertex.size = 12 + (5 * igraph::degree(myG)),
-     vertex.label.cex = 0.4 + (0.15 * igraph::degree(myG)),
-     edge.width = 2,
-     vertex.label = igraph::V(myG)$name,
-     vertex.label.family = "sans",
-     vertex.label.cex = 0.9)
-par(oPar)
-
-# igraph:: has a large number of graph-layout functions: see
-# ?layout_  and try them all.
-
-
-# ==   3.2  Components  ========================================================
-
-# The function igrap::components() tells us whether there are components of the
-# graph in which there is no path to other components.
-igraph::components(myG)
-
-# In the _membership_ vector, nodes are annotated with the index of the
-# component they are part of. Sui7 is the only node of component 2, Cyj1 is in
-# the third component etc. This is perhaps more clear if we sort by component
-# index
-sort(igraph::components(myG)$membership, decreasing = TRUE)
-
-# Retrieving e.g. the members of the first component from the list can be done by subsetting:
-
-(sel <- igraph::components(myG)$membership == 1)  # boolean vector ..
-(c1 <- igraph::components(myG)$membership[sel])
-names(c1)
-
-
-# =    4  RANDOM GRAPHS AND GRAPH METRICS  =====================================
-
-
-# Let's explore some of the more interesting, topological graph measures. We
-# start by building a somewhat bigger graph. We aren't quite sure whether
-# biological graphs are small-world, or random-geometric, or
-# preferential-attachment ... but igraph:: has ways to simulate the basic ones
-# (and we could easily simulate our own). Look at the following help pages:
-
-?igraph::sample_gnm             # see also sample_gnp for the Erdös-Rényi models
-?igraph::sample_smallworld      # for the Watts & Strogatz model
-?igraph::sample_pa              # for the Barabasi-Albert model
-
-# But note that there are many more sample_ functions. Check out the docs!
-
-# Let's look at betweenness measures for our first graph. Here: the nodes again
-# colored by degree. Degree centrality states: nodes of higher degree are
-# considered to be more central. And that's also the way the force-directed
-# layout drawas them, obviously.
-
-set.seed(112358)                       # set RNG seed for repeatable randomness
-myGxy <- igraph::layout_with_fr(myG)   # calculate layout coordinates
-set.seed(NULL)                         # reset the RNG
-
-oPar <- par(mar = rep(0, 4))           # turn margins off, save graphics state
-plot(myG,
-     layout = myGxy,
-     rescale = FALSE,
-     xlim = c(min(myGxy[,1]) * 0.99, max(myGxy[,1]) * 1.01),
-     ylim = c(min(myGxy[,2]) * 0.99, max(myGxy[,2]) * 1.01),
-     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
-     vertex.size = 40 + (15 * igraph::degree(myG)),
-     vertex.label.cex = 0.4 + (0.15 * igraph::degree(myG)),
-     vertex.label = igraph::V(myG)$name,
-     vertex.label.family = "sans")
-par(oPar)                              # restore graphics state
-
-# ==   4.1  Diameter  ==========================================================
-
-igraph::diameter(myG)  # The diameter of a graph is its maximum length
-                       # shortest path.
-
-# let's plot this path: here are the nodes ...
-igraph::get_diameter(myG)
-
-# ... and we can get the x, y coordinates from iGxy by subsetting with the node
-# names. The we draw the diameter-path with a transparent, thick pink line:
-lines(myGxy[igraph::get_diameter(myG),], lwd=10, col="#ff63a788")
-
-# == Centralization scores
-
-?igraph::centralize
-# replot our graph, and color by log_betweenness:
-
-bC <- igraph::centr_betw(myG)  # calculate betweenness centrality
-nodeBetw <- bC$res
-nodeBetw <- round(log(nodeBetw +1)) + 1
-
-oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
-plot(myG,
-     layout = myGxy,
-     rescale = FALSE,
-     xlim = c(min(myGxy[,1]) * 0.99, max(myGxy[,1]) * 1.01),
-     ylim = c(min(myGxy[,2]) * 0.99, max(myGxy[,2]) * 1.01),
-     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
-     vertex.size = 40 + (15 * igraph::degree(myG)),
-     vertex.label.cex = 0.4 + (0.15 * igraph::degree(myG)),
-     vertex.label = igraph::V(myG)$name,
-     vertex.label.family = "sans")
-par(oPar)
-
-# Note that the betweenness - the number of shortest paths that pass through a
-# node, is in general higher for high-degree nodes - but not always: Eqr2 has
-# higher betweenness than Itv7: this measure really depends on the detailed
-# local topology of the graph."
-
-# Can you use centr_eigen() and centr_degree() to calculate the respective
-# values? That's something I would expect you to be able to do.
-#
-# Lets plot betweenness centrality for our random geometric graph:
-
-bCmyGRG <- igraph::centr_betw(myGRG)  # calculate betweenness centrality
-
-nodeBetw <- bCmyGRG$res
-nodeBetw <- round((log(nodeBetw +1))^2.5) + 1
-
-# colours and size proportional to betweenness
-oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
-plot(myGRG,
-     layout = cbind(rGAM$x, rGAM$y), # use our node coordinates for layout,
-     rescale = FALSE,
-     xlim = c(min(rGAM$x) * 0.9, max(rGAM$x) * 1.1),
-     ylim = c(min(rGAM$y) * 0.9, max(rGAM$y) * 1.1),
-     vertex.color=heat.colors(max(nodeBetw))[nodeBetw],
-     vertex.size = 0.1 + (0.03 * nodeBetw),
-     vertex.label = NA)
-par(oPar)
-
-igraph::diameter(myGRG)
-lines(rGAM$x[igraph::get_diameter(myGRG)],
-      rGAM$y[igraph::get_diameter(myGRG)],
-      lwd = 10,
-      col = "#ff335533")
-
-
-
-# =    5  GRAPH CLUSTERING  ====================================================
-
-
-# Clustering finds "communities" in graphs - and depending what the edges
-# represent, these could be complexes, pathways, biological systems or similar.
-# There are many graph-clustering algorithms. One approach with many attractive
-# properties is the Map Equation, developed by Martin Rosvall. See:
-# http://www.ncbi.nlm.nih.gov/pubmed/18216267 and htttp://www.mapequation.org
-
-
-myGRGclusters <- igraph::cluster_infomap(myGRG)
-igraph::modularity(myGRGclusters)  # ... measures how separated the different
-                                   # membership types are from each other
-igraph::membership(myGRGclusters)         # which nodes are in what cluster?
-table(igraph::membership(myGRGclusters))  # how large are the clusters?
-
-# The largest cluster has 48 members, the second largest has 25, etc.
-
-
-# Lets plot our graph again, coloring the nodes of the first five communities by
-# their cluster membership:
-
-# first, make a vector with as many grey colors as we have communities ...
-commColors <- rep("#f1eef6", max(igraph::membership(myGRGclusters)))
-# ... then overwrite the first five with "real colors" - something like rust,
-# lilac, pink, and mauve or so.
-commColors[1:5] <- c("#980043", "#dd1c77", "#df65b0", "#c994c7", "#d4b9da")
-
-
-oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
-plot(myGRG,
-     layout = cbind(rGAM$x, rGAM$y),
-     rescale = FALSE,
-     xlim = c(min(rGAM$x) * 0.9, max(rGAM$x) * 1.1),
-     ylim = c(min(rGAM$y) * 0.9, max(rGAM$y) * 1.1),
-     vertex.color=commColors[igraph::membership(myGRGclusters)],
-     vertex.size = 0.3 + (0.4 * igraph::degree(myGRG)),
-     vertex.label = NA)
-par(oPar)
-
-# That's all.
-
-
-# [END]
+# tocID <- "FND-MAT-Graphs_and_networks.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the FND-MAT-Graphs_and_networks unit.
+#
+# Version:  1.2
+#
+# Date:     2017  10  -  2019  01
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout
+#           1.1    Update set.seed() usage
+#           1.0    First final version for learning units.
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:     Add some explicit tasks and sample solutions.
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                          Line
+#TOC> --------------------------------------------------------------
+#TOC>   1        REVIEW                                           50
+#TOC>   2        DEGREE DISTRIBUTIONS                            206
+#TOC>   2.1        Random graph                                  212
+#TOC>   2.2        scale-free graph (Barabasi-Albert)            260
+#TOC>   2.3        Random geometric graph                        326
+#TOC>   3        A CLOSER LOOK AT THE igraph:: PACKAGE           448
+#TOC>   3.1        Basics                                        451
+#TOC>   3.2        Components                                    523
+#TOC>   4        RANDOM GRAPHS AND GRAPH METRICS                 542
+#TOC>   4.1        Diameter                                      579
+#TOC>   5        GRAPH CLUSTERING                                648
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  REVIEW  ==============================================================
+
+# This tutorial covers basic concepts of graph theory and analysis in R. Make
+# sure you have pulled the latest version of the project from the GitHub
+# repository.
+
+# Let's explore some of the basic ideas of graph theory by starting with a small
+# random graph.
+
+
+# To begin let's write a little function that will create random "gene" names;
+# there's no particular purpose to this other than to make our graphs look a
+# little more "biological" ...
+makeRandomGenenames <- function(N) {
+  nam <- character()
+  while (length(nam) < N) {
+    a <- paste0(c(sample(LETTERS, 1), sample(letters, 2)),
+                collapse="") # one uppercase, two lowercase letters
+    n <- sample(1:9, 1)      # one number
+    nam[length(nam) + 1] <- paste(a, n, sep="") # store in vector
+    nam <- unique(nam)   # delete if this was a duplicate
+  }
+  return(nam)
+}
+
+N <- 20
+
+set.seed(112358)                       # set RNG seed for repeatable randomness
+( Nnames <- makeRandomGenenames(N) )
+set.seed(NULL)                         # reset the RNG
+
+# One way to represent graphs in a computer is as an "adjacency matrix". In this
+# matrix, each row and each column represents a node, and the cell at the
+# intersection of a row and column contains a value/TRUE if there is an edge,
+# 0/FALSE otherwise.
+
+# Let's create an adjacency matrix for our random graph: let's say a pair
+# of nodes has probability p <- 0.09 to have an edge, and our graph is
+# symmetric , i.e. it is an undirected graph, and it has neither self-edges,
+# i.e. loops, nor multiple edges between the same nodes, i.e. it
+# is a "simple" graph. We use the Nnames vector as node labels.
+
+makeRandomAM <- function(nam, p = 0.1) {
+  # Make a random adjacency matrix for a set of nodes with edge probability p
+  # Parameters:
+  #   nam: a character vector of unique node names.
+  #   p:   probability that a random pair of nodes will have an edge.
+  #
+  # Value: an adjacency matrix for a simple, undirected graph
+  #
+
+  N <- length(nam)
+  AM <- matrix(numeric(N * N), ncol = N)  # Adjacency matrix, pre-filled with 0
+  rownames(AM) <- nam
+  colnames(AM) <- nam
+  for (iRow in 1:(N-1)) { # Note how we make sure iRow != iCol - this prevents
+                          # loops (self-edges)
+    for (iCol in (iRow+1):N) {
+      if (runif(1) < p) {     # runif() creates uniform random numbers
+                              # between 0 and 1. The expression is TRUE with
+                              # probability p. if it is TRUE ...
+        AM[iRow, iCol] <- 1   # ... record an edge for the pair (iRow, iCol)
+      }
+    }
+  }
+  return(AM)
+}
+
+set.seed(112358)                       # set RNG seed for repeatable randomness
+( myRandAM <- makeRandomAM(Nnames, p = 0.09) )
+set.seed(NULL)                         # reset the RNG
+
+
+# Listing the matrix is not very informative - we should plot this graph. The
+# standard package for work with graphs in r is "igraph::". We'll go into more
+# details of the igraph:: package a bit later, for now we just use it to plot:
+
+if (! requireNamespace("igraph", quietly = TRUE)) {
+  install.packages("igraph")
+}
+# Package information:
+#  library(help = igraph)       # basic information
+#  browseVignettes("igraph")    # available vignettes
+#  data(package = "igraph")     # available datasets
+
+
+myG <- igraph::graph_from_adjacency_matrix(myRandAM, mode = "undirected")
+
+set.seed(112358)                       # set RNG seed for repeatable randomness
+                                       # calculate layout coordinates
+myGxy <- igraph::layout_with_graphopt(myG,
+                                      charge=0.0012)
+set.seed(NULL)                         # reset the RNG
+
+
+# The igraph:: package adds its own function to the collection of plot()
+# functions; R makes the selection which plot function to use based on the class
+# of the object that we request to plot. This plot function has parameters
+#  layout - the x,y coordinates of the nodes;
+#  vertex.color - which I define to color by node-degree
+#  vertex size - which I define to increase with node-degree
+#  vertex.label - which I set to combine the names of the vertices of the
+#                 graph - names(V(iG)) - with the node degree - degree(iG).
+# See ?igraph.plotting for the complete list of parameters
+
+
+oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
+plot(myG,
+     layout = myGxy,
+     rescale = FALSE,
+     xlim = c(min(myGxy[,1]) * 0.99, max(myGxy[,1]) * 1.01),
+     ylim = c(min(myGxy[,2]) * 0.99, max(myGxy[,2]) * 1.01),
+     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
+     vertex.size = 1000 + (900 * igraph::degree(myG)),
+     vertex.label = sprintf("%s(%i)", names(igraph::V(myG)), igraph::degree(myG)),
+     vertex.label.family = "sans",
+     vertex.label.cex = 0.7)
+par(oPar)  # reset plot window
+
+
+# The simplest descriptor of a graph are the number of nodes, edges, and the
+# degree-distribution. In our example, the number of nodes was given: N; the
+# number of edges can easily be calculated from the adjacency matrix. In our
+# matrix, we have entered 1 for every edge. Thus we simply sum over the matrix:
+sum(myRandAM)
+
+# Is that what you expect?
+
+# What about the degree distribution? We can get that simply by summing over the
+# rows and summing over the columns and adding the two vectors.
+
+rowSums(myRandAM) + colSums(myRandAM) # check this against the plot!
+
+# The function degree() gives the same values
+igraph::degree(myG)
+
+# Let's  plot the degree distribution in a histogram:
+degG <- igraph::degree(myG)
+brk <- seq(min(degG)-0.5, max(degG)+0.5, by=1)  # define histogram breaks
+hist(degG, breaks=brk, col="#A5CCF5",
+     xlim = c(-1,8), xaxt = "n",
+     main = "Node degrees", xlab = "Degree", ylab = "Number")  # plot histogram
+axis(side = 1, at = 0:7)
+
+# Note: I don't _have_ to define breaks, the hist() function usually does so
+# quite well, automatically. But for this purpose I want the columns of the
+# histogram to represent exactly one node-degree difference.
+
+# A degree distribution is actually a very informative descriptor of graphs,
+#  since it is very sensitive to the generating mechanism. For biological
+# networks, that is one of the key questions we are interested in: how was the
+# network formed? Asking about the mechanism, the way the interactions
+# support function and shape the fitness landscape in which the cell evolves,
+# connects our mathematical abstraction with biological insight.
+
+
+# =    2  DEGREE DISTRIBUTIONS  ================================================
+
+# Let's simulate a few graphs that are a bit bigger to get a better sense of
+# their degree distributions:
+#
+
+# ==   2.1  Random graph  ======================================================
+
+N <- 200
+
+set.seed(31415927)                     # set RNG seed for repeatable randomness
+my200AM <- makeRandomAM(as.character(1:N), p = 0.015)
+set.seed(NULL)                         # reset the RNG
+
+myG200 <- igraph::graph_from_adjacency_matrix(my200AM, mode = "undirected")
+myGxy <- igraph::layout_with_graphopt(myG200, charge=0.0001) # calculate layout
+                                                             # coordinates
+
+oPar <- par(mar= c(0, 0, 0, 0))             # Turn margins off, save graphics state
+plot(myG200,
+     layout = myGxy,
+     rescale = FALSE,
+     xlim = c(min(myGxy[,1]) * 0.99, max(myGxy[,1]) * 1.01),
+     ylim = c(min(myGxy[,2]) * 0.99, max(myGxy[,2]) * 1.01),
+     vertex.color=heat.colors(max(igraph::degree(myG200)+1))[igraph::degree(myG200)+1],
+     vertex.size = 150 + (70 * igraph::degree(myG200)),
+     vertex.label = NA)
+par(oPar)                              # restore graphics state
+
+# This graph has thirteen singletons and one large, connected component. Many
+# biological graphs look approximately like this.
+
+# Calculate degree distributions
+dg <- igraph::degree(myG200)
+brk <- seq(min(dg)-0.5, max(dg)+0.5, by=1)
+hist(dg, breaks=brk, col="#A5F5CC",
+     xlim = c(-1,11), xaxt = "n",
+     main = "Node degrees", xlab = "Degree", ylab = "Number")  # plot histogram
+axis(side = 1, at = 0:10)
+
+
+# Note the pronounced peak of this distribution: this is not "scale-free".
+# Here is the log-log plot of frequency vs. degree-rank ...
+
+( freqRank <- table(dg) )
+plot(log10(as.numeric(names(freqRank)) + 1),
+     log10(as.numeric(freqRank)), type = "b",
+     pch = 21, bg = "#A5F5CC",
+     xlab = "log(Rank)", ylab = "log(frequency)",
+     main = "200 nodes in a random network")
+
+# ... which shows us that this does NOT correspond to the single-slope linear
+# relationship that we expect for a "scale-free" graph.
+
+# ==   2.2  scale-free graph (Barabasi-Albert)  ================================
+
+# What does one of those intriguing "scale-free" distributions look like? The
+# iGraph:: package has a function to make random graphs according to the
+# Barabasi-Albert model of scale-free graphs. It is: sample_pa(), where pa
+# stands for "preferential attachment". Preferential attachment is _one_ type of
+# process that will yield scale-free distributions.
+
+N <- 200
+
+set.seed(31415927)                     # set RNG seed for repeatable randomness
+GBA <- igraph::sample_pa(N, power = 0.8, directed = FALSE)
+set.seed(NULL)                         # reset the RNG
+
+GBAxy <- igraph::layout_with_graphopt(GBA, charge=0.0001)
+
+oPar <- par(mar= c(0, 0, 0, 0))             # Turn margins off, save graphics state
+plot(GBA,
+     layout = GBAxy,
+     rescale = FALSE,
+     xlim = c(min(GBAxy[,1]) * 0.99, max(GBAxy[,1]) * 1.01),
+     ylim = c(min(GBAxy[,2]) * 0.99, max(GBAxy[,2]) * 1.01),
+     vertex.color=heat.colors(max(igraph::degree(GBA)+1))[igraph::degree(GBA)+1],
+     vertex.size = 200 + (30 * igraph::degree(GBA)),
+     vertex.label = NA)
+par(oPar)                              # restore graphics state
+
+# This is a very obviously different graph! Some biological networks have
+# features that look like that - but in my experience the hub nodes are usually
+# not that distinct. But then again, that really depends on the parameter
+# "power". Play with the "power" parameter and get a sense for what difference
+# this makes. Also: note that the graph has only a single component - no
+# singletons.
+
+# What's the degree distribution of this graph?
+( dg <- igraph::degree(GBA) )
+brk <- seq(min(dg)-0.5, max(dg)+0.5, by=1)
+hist(dg, breaks=brk, col="#DCF5B5",
+     xlim = c(0,max(dg)+1), xaxt = "n",
+     main = "Node degrees 200 nodes PA graph",
+     xlab = "Degree", ylab = "Number")
+axis(side = 1, at = seq(0, max(dg)+1, by=5))
+
+# Most nodes have a degree of 1, but one node has a degree of 19.
+
+(freqRank <- table(dg))
+plot(log10(as.numeric(names(freqRank)) + 1),
+     log10(as.numeric(freqRank)), type = "b",
+     pch = 21, bg = "#DCF5B5",
+     xlab = "log(Rank)", ylab = "log(frequency)",
+     main = "200 nodes in a preferential-attachment network")
+
+# Sort-of linear, but many of the higher ranked nodes have a frequency of only
+# one. That behaviour smooths out in larger graphs - let's try 100000 nodes:
+#
+N <- 10000
+X <- igraph::sample_pa(N, power = 0.8, directed = FALSE)  # 100,000 nodes
+freqRank <- table(igraph::degree(X))
+plot(log10(as.numeric(names(freqRank)) + 1),
+     log10(as.numeric(freqRank)), type = "b",
+     xlab = "log(Rank)", ylab = "log(frequency)",
+     pch = 21, bg = "#A5F5CC",
+     main = "100,000 nodes in a random, scale-free network")
+rm(X)
+
+
+# ==   2.3  Random geometric graph  ============================================
+
+# Finally, let's simulate a random geometric graph and look at the degree
+# distribution. Remember: these graphs have a high probability to have edges
+# between nodes that are "close" together - an entirely biological notion.
+
+# We'll randomly place our nodes in a box. Then we'll define the
+# probability for two nodes to have an edge to be a function of their Euclidian
+# distance in the box.
+
+# Here is a function that makes an adjacency matrix for such graphs. iGraph::
+# has a similar function, sample_grg(), which connects nodes that are closer
+# than a cutoff, the function I give you below is a bit more interesting since
+# it creates edges according to a probability that is determined by a
+# generalized logistic function of the distance. This sigmoidal function gives
+# a smooth cutoff and creates more "natural" graphs. Otherwise, the function is
+# very similar to the random graph function, except that we output the
+# "coordinates" of the nodes together with the adjacency matrix which we then
+# use for the layout. list() FTW.
+
+
+makeRandomGeometricAM <- function(nam, B = 25, Q = 0.001, t = 0.6) {
+  # Make an adjacency matrix for an undirected random geometric graph from
+  #    edges connected with probabilities according to a generalized logistic
+  #    function.
+  # Parameters:
+  #    nam: a character vector of unique names
+  #    B, Q, t:   probability that a random pair (i, j) of nodes gets an
+  #                 edge determined by a generalized logistic function
+  #                 p <- 1 - 1/((1 + (Q * (exp(-B * (x-t)))))^(1 / 0.9)))
+  #
+  # Value: a list with the following components:
+  #        AM$mat : an adjacency matrix
+  #        AM$nam : labels for the nodes
+  #        AM$x   : x-coordinates for the nodes
+  #        AM$y   : y-coordinates for the nodes
+  #
+  nu <- 1  # probably not useful to change
+  AM <- list()
+  AM$nam <- nam
+  N <- length(AM$nam)
+  AM$mat <- matrix(numeric(N * N), ncol = N)  # The adjacency matrix
+  rownames(AM$mat) <- AM$nam
+  colnames(AM$mat) <- AM$nam
+  AM$x <- runif(N) # Randomly place nodes into the unit square
+  AM$y <- runif(N)
+  for (iRow in 1:(N-1)) { # Same principles as in makeRandomGraph()
+    for (iCol in (iRow+1):N) {
+      # geometric distance ...
+      d <- sqrt((AM$x[iRow] - AM$x[iCol])^2 +
+                (AM$y[iRow] - AM$y[iCol])^2)  # Pythagoras
+      # distance dependent probability
+      p <- 1 - 1/((1 + (Q * (exp(-B * (d-t)))))^(1 / nu))
+      if (runif(1) < p) {
+        AM$mat[iRow, iCol] <- 1
+      }
+    }
+  }
+  return(AM)
+}
+
+# Getting the parameters of a generalized logistic right takes a bit of
+# experimenting. If you are interested, you can try a few variations. Or you can
+# look up the function at
+# https://en.wikipedia.org/wiki/Generalised_logistic_function
+
+# This function computes generalized logistics ...
+# genLog <- function(x, B = 25, Q = 0.001, t = 0.5) {
+#     # generalized logistic (sigmoid)
+#     nu <- 1
+#     return(1 - 1/((1 + (Q * (exp(-B * (x-t)))))^(1 / nu)))
+# }
+#
+# ... and this code plots p-values over the distances we could encouter between
+# our nodes: from 0 to sqrt(2) i.e. the diagonal of the unit square in which we
+# will place our nodes.
+# x <- seq(0, sqrt(2), length.out = 50)
+# plot(x, genLog(x), type="l", col="#AA0000", ylim = c(0, 1),
+#      xlab = "d", ylab = "p(edge)")
+
+# 200 node random geomteric graph
+N <- 200
+set.seed(112358)                       # set RNG seed for repeatable randomness
+rGAM <- makeRandomGeometricAM(as.character(1:N), t = 0.4)
+set.seed(NULL)                         # reset the RNG
+
+
+myGRG <- igraph::graph_from_adjacency_matrix(rGAM$mat, mode = "undirected")
+
+oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
+plot(myGRG,
+     layout = cbind(rGAM$x, rGAM$y), # use our node coordinates for layout,
+     rescale = FALSE,
+     xlim = c(min(rGAM$x) * 0.9, max(rGAM$x) * 1.1),
+     ylim = c(min(rGAM$y) * 0.9, max(rGAM$y) * 1.1),
+     vertex.color=heat.colors(max(igraph::degree(myGRG)+1))[igraph::degree(myGRG)+1],
+     vertex.size = 0.1 + (0.2 * igraph::degree(myGRG)),
+     vertex.label = NA)
+par(oPar)
+
+# degree distribution:
+(dg <- igraph::degree(myGRG))
+brk <- seq(min(dg) - 0.5, max(dg) + 0.5, by = 1)
+hist(dg, breaks = brk, col = "#FCC6D2",
+     xlim = c(0, 25), xaxt = "n",
+     main = "Node degrees: 200 nodes RG graph",
+     xlab = "Degree", ylab = "Number")
+axis(side = 1, at = c(0, min(dg):max(dg)))
+
+# You'll find that this is kind of in-between the random, and the scale-free
+# graph. We do have hubs, but they are not as extreme as in the scale-free case;
+# and we have have no singletons, in contrast to the random graph.
+
+(freqRank <- table(dg))
+plot(log10(as.numeric(names(freqRank)) + 1),
+     log10(as.numeric(freqRank)), type = "b",
+     pch = 21, bg = "#FCC6D2",
+     xlab = "log(Rank)", ylab = "log(frequency)",
+     main = "200 nodes in a random geometric network")
+
+
+
+# =    3  A CLOSER LOOK AT THE igraph:: PACKAGE  ===============================
+
+
+# ==   3.1  Basics  ============================================================
+
+# The basic object of the igraph:: package is a graph object. Let's explore the
+# first graph some more, the one we built with our random gene names:
+summary(myG)
+
+# This output means: this is an IGRAPH graph, with U = UN-directed edges
+#  and N = named nodes, that has 20 nodes and 20 edges. For details, see
+?igraph::print.igraph
+
+mode(myG)
+class(myG)
+
+# This means an igraph:: graph object is a special list object; it is opaque in
+# the sense that a user is never expected to modify its components directly, but
+# through a variety of helper functions which the package provides. There are
+# many ways to construct graphs - from adjacency matrices, as we have just done,
+# from edge lists, or by producing random graphs according to a variety of
+# recipes, called _games_ in this package.
+
+# Two basic functions retrieve nodes "Vertices", and "Edges":
+igraph::V(myG)
+igraph::E(myG)
+
+# additional properties can be retrieved from the Vertices ...
+igraph::V(myG)$name
+
+
+# As with many R objects, loading the package provides special functions that
+# can be accessed via the same name as the basic R functions, for example:
+
+print(myG)
+plot(myG)  # this is the result of default plot parameters
+
+# ... where plot() allows the usual flexibility of fine-tuning the plot. We
+# first layout the node coordinates with the Fruchtermann-Reingold algorithm - a
+# force-directed layout that applies an ettractive potential along edges (which
+# pulls nodes together) and a repulsive potential to nodes (so they don't
+# overlap). Note the use of the degree() function to color and scale nodes and
+# labels by degree and the use of the V() function to retrieve the vertex names.
+# See ?plot.igraph for details."
+
+# Plot with some customizing parameters
+oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
+plot(myG,
+     layout = igraph::layout_with_fr(myG),
+     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
+     vertex.size = 12 + (5 * igraph::degree(myG)),
+     vertex.label.cex = 0.4 + (0.15 * igraph::degree(myG)),
+     edge.width = 2,
+     vertex.label = igraph::V(myG)$name,
+     vertex.label.family = "sans",
+     vertex.label.cex = 0.9)
+par(oPar)
+
+# ... or with a different layout:
+oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
+plot(myG,
+     layout = igraph::layout_in_circle(myG),
+     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
+     vertex.size = 12 + (5 * igraph::degree(myG)),
+     vertex.label.cex = 0.4 + (0.15 * igraph::degree(myG)),
+     edge.width = 2,
+     vertex.label = igraph::V(myG)$name,
+     vertex.label.family = "sans",
+     vertex.label.cex = 0.9)
+par(oPar)
+
+# igraph:: has a large number of graph-layout functions: see
+# ?layout_  and try them all.
+
+
+# ==   3.2  Components  ========================================================
+
+# The function igrap::components() tells us whether there are components of the
+# graph in which there is no path to other components.
+igraph::components(myG)
+
+# In the _membership_ vector, nodes are annotated with the index of the
+# component they are part of. Sui7 is the only node of component 2, Cyj1 is in
+# the third component etc. This is perhaps more clear if we sort by component
+# index
+sort(igraph::components(myG)$membership, decreasing = TRUE)
+
+# Retrieving e.g. the members of the first component from the list can be done by subsetting:
+
+(sel <- igraph::components(myG)$membership == 1)  # boolean vector ..
+(c1 <- igraph::components(myG)$membership[sel])
+names(c1)
+
+
+# =    4  RANDOM GRAPHS AND GRAPH METRICS  =====================================
+
+
+# Let's explore some of the more interesting, topological graph measures. We
+# start by building a somewhat bigger graph. We aren't quite sure whether
+# biological graphs are small-world, or random-geometric, or
+# preferential-attachment ... but igraph:: has ways to simulate the basic ones
+# (and we could easily simulate our own). Look at the following help pages:
+
+?igraph::sample_gnm             # see also sample_gnp for the Erdös-Rényi models
+?igraph::sample_smallworld      # for the Watts & Strogatz model
+?igraph::sample_pa              # for the Barabasi-Albert model
+
+# But note that there are many more sample_ functions. Check out the docs!
+
+# Let's look at betweenness measures for our first graph. Here: the nodes again
+# colored by degree. Degree centrality states: nodes of higher degree are
+# considered to be more central. And that's also the way the force-directed
+# layout drawas them, obviously.
+
+set.seed(112358)                       # set RNG seed for repeatable randomness
+myGxy <- igraph::layout_with_fr(myG)   # calculate layout coordinates
+set.seed(NULL)                         # reset the RNG
+
+oPar <- par(mar = rep(0, 4))           # turn margins off, save graphics state
+plot(myG,
+     layout = myGxy,
+     rescale = FALSE,
+     xlim = c(min(myGxy[,1]) * 0.99, max(myGxy[,1]) * 1.01),
+     ylim = c(min(myGxy[,2]) * 0.99, max(myGxy[,2]) * 1.01),
+     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
+     vertex.size = 40 + (15 * igraph::degree(myG)),
+     vertex.label.cex = 0.4 + (0.15 * igraph::degree(myG)),
+     vertex.label = igraph::V(myG)$name,
+     vertex.label.family = "sans")
+par(oPar)                              # restore graphics state
+
+# ==   4.1  Diameter  ==========================================================
+
+igraph::diameter(myG)  # The diameter of a graph is its maximum length
+                       # shortest path.
+
+# let's plot this path: here are the nodes ...
+igraph::get_diameter(myG)
+
+# ... and we can get the x, y coordinates from iGxy by subsetting with the node
+# names. The we draw the diameter-path with a transparent, thick pink line:
+lines(myGxy[igraph::get_diameter(myG),], lwd=10, col="#ff63a788")
+
+# == Centralization scores
+
+?igraph::centralize
+# replot our graph, and color by log_betweenness:
+
+bC <- igraph::centr_betw(myG)  # calculate betweenness centrality
+nodeBetw <- bC$res
+nodeBetw <- round(log(nodeBetw +1)) + 1
+
+oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
+plot(myG,
+     layout = myGxy,
+     rescale = FALSE,
+     xlim = c(min(myGxy[,1]) * 0.99, max(myGxy[,1]) * 1.01),
+     ylim = c(min(myGxy[,2]) * 0.99, max(myGxy[,2]) * 1.01),
+     vertex.color=heat.colors(max(igraph::degree(myG)+1))[igraph::degree(myG)+1],
+     vertex.size = 40 + (15 * igraph::degree(myG)),
+     vertex.label.cex = 0.4 + (0.15 * igraph::degree(myG)),
+     vertex.label = igraph::V(myG)$name,
+     vertex.label.family = "sans")
+par(oPar)
+
+# Note that the betweenness - the number of shortest paths that pass through a
+# node, is in general higher for high-degree nodes - but not always: Eqr2 has
+# higher betweenness than Itv7: this measure really depends on the detailed
+# local topology of the graph."
+
+# Can you use centr_eigen() and centr_degree() to calculate the respective
+# values? That's something I would expect you to be able to do.
+#
+# Lets plot betweenness centrality for our random geometric graph:
+
+bCmyGRG <- igraph::centr_betw(myGRG)  # calculate betweenness centrality
+
+nodeBetw <- bCmyGRG$res
+nodeBetw <- round((log(nodeBetw +1))^2.5) + 1
+
+# colours and size proportional to betweenness
+oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
+plot(myGRG,
+     layout = cbind(rGAM$x, rGAM$y), # use our node coordinates for layout,
+     rescale = FALSE,
+     xlim = c(min(rGAM$x) * 0.9, max(rGAM$x) * 1.1),
+     ylim = c(min(rGAM$y) * 0.9, max(rGAM$y) * 1.1),
+     vertex.color=heat.colors(max(nodeBetw))[nodeBetw],
+     vertex.size = 0.1 + (0.03 * nodeBetw),
+     vertex.label = NA)
+par(oPar)
+
+igraph::diameter(myGRG)
+lines(rGAM$x[igraph::get_diameter(myGRG)],
+      rGAM$y[igraph::get_diameter(myGRG)],
+      lwd = 10,
+      col = "#ff335533")
+
+
+
+# =    5  GRAPH CLUSTERING  ====================================================
+
+
+# Clustering finds "communities" in graphs - and depending what the edges
+# represent, these could be complexes, pathways, biological systems or similar.
+# There are many graph-clustering algorithms. One approach with many attractive
+# properties is the Map Equation, developed by Martin Rosvall. See:
+# http://www.ncbi.nlm.nih.gov/pubmed/18216267 and htttp://www.mapequation.org
+
+
+myGRGclusters <- igraph::cluster_infomap(myGRG)
+igraph::modularity(myGRGclusters)  # ... measures how separated the different
+                                   # membership types are from each other
+igraph::membership(myGRGclusters)         # which nodes are in what cluster?
+table(igraph::membership(myGRGclusters))  # how large are the clusters?
+
+# The largest cluster has 48 members, the second largest has 25, etc.
+
+
+# Lets plot our graph again, coloring the nodes of the first five communities by
+# their cluster membership:
+
+# first, make a vector with as many grey colors as we have communities ...
+commColors <- rep("#f1eef6", max(igraph::membership(myGRGclusters)))
+# ... then overwrite the first five with "real colors" - something like rust,
+# lilac, pink, and mauve or so.
+commColors[1:5] <- c("#980043", "#dd1c77", "#df65b0", "#c994c7", "#d4b9da")
+
+
+oPar <- par(mar= c(0, 0, 0, 0)) # Turn margins off
+plot(myGRG,
+     layout = cbind(rGAM$x, rGAM$y),
+     rescale = FALSE,
+     xlim = c(min(rGAM$x) * 0.9, max(rGAM$x) * 1.1),
+     ylim = c(min(rGAM$y) * 0.9, max(rGAM$y) * 1.1),
+     vertex.color=commColors[igraph::membership(myGRGclusters)],
+     vertex.size = 0.3 + (0.4 * igraph::degree(myGRG)),
+     vertex.label = NA)
+par(oPar)
+
+# That's all.
+
+
+# [END]
diff --git a/FND-STA-Information_theory.R b/FND-STA-Information_theory.R
index a5eb783..230e0a7 100644
--- a/FND-STA-Information_theory.R
+++ b/FND-STA-Information_theory.R
@@ -1,224 +1,224 @@
-# tocID <- "FND-STA-Information_theory.R"
-#
-# ==============================================================================
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the FND-STA-Information_theory unit.
-#
-# Version:  0.2.1
-#
-# Date:     2017 - 2021
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           0.2.1  Maintenance
-#           0.2    Under development
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                  Line
-#TOC> --------------------------------------
-#TOC>   1        ___Section___            39
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  ___Section___  =======================================================
-
-# What level of information is "significant"
-
-# Assume the background distribution is the database frequencies of
-# amino acids:
-
-AAref <- numeric()  # Uniprot frequencies October 2017, slightly adjusted to
-# sum to 1.0
-AAref["A"] <- 0.0904
-AAref["C"] <- 0.0123
-AAref["D"] <- 0.0545
-AAref["E"] <- 0.0617
-AAref["F"] <- 0.0394
-AAref["G"] <- 0.0724
-AAref["H"] <- 0.0221
-AAref["I"] <- 0.0573
-AAref["K"] <- 0.0504
-AAref["L"] <- 0.0986
-AAref["M"] <- 0.0240
-AAref["N"] <- 0.0392
-AAref["P"] <- 0.0486
-AAref["Q"] <- 0.0381
-AAref["R"] <- 0.0570
-AAref["S"] <- 0.0673
-AAref["T"] <- 0.0558
-AAref["V"] <- 0.0686
-AAref["W"] <- 0.0129
-AAref["Y"] <- 0.0294
-sum(AAref)
-
-# Function to calculate Shannon entropy
-H <- function(pmf) {
-  # Calculate Shannon entropy
-  # Parameters:
-  #   pmf (numeric) probability mass function: a vector of states and
-  #                 associated probabilities. Each element of
-  #                 pmf must be in (0, 1] and sum(pmf) must be 1.
-  # Value:
-  #   Shannon entropy in bits.
-  # Examples:
-  #   H(c(A=0.25, C=0.25, G=0.25, T=0.25))  # 2 bits entropy in a random
-  #                                         # nucleotide sequence
-  #   H(1)     # If all elements are the same, entropy is zero
-  #
-  if (any(pmf <= 0 | pmf > 1) || isFALSE(all.equal(1.0, sum(pmf)))) {
-    stop("Input is not a discrete probability distribution.")
-  }
-  H <- -sum(pmf * (log(pmf) / log(2)))
-  return(H)
-}
-
-# Why use all.equal()? Exact comparisons with floating point numbers are
-# brittle. Consider for example:
-1/6 + 1/6 + 1/6 + 1/6 + 1/6 + 1/6 == 1
-print(1/6 + 1/6 + 1/6 + 1/6 + 1/6 + 1/6, digits = 22) # 0.9999999999999998889777
-# all.equal() tests for _near_ equality with tolerance of ~ 1.5e-8
-
-
-
-# Entropy of the database frequencies (in bits):
-(Href <- H(AAref))
-
-# for comparison: entropy if all amino acids are equiprobable
-H(rep(0.05, 20))
-
-
-# Set up a simulation to estimate the distribution of Information values
-# from random sequences drawn from AAref. This is the distribution for the
-# statistical null hypothesis:
-nObs <- 15                      # number of observations (e.g aligned sequences)
-# nObs <- 80
-nTrials <- 10000                # number of trials
-IObs <- numeric(nTrials)        # vector to store Information in each trial
-simCounts <- numeric(20)        # vector to tabulate our information ...
-names(simCounts) <- names(AAref)# ... with the names of AAref
-
-
-for (i in 1:nTrials) {  # simulate ...
-
-  # sample AAref letters, nObs times, with the probabilities of AAref:
-  AAobs <- sample(names(AAref), size = nObs, prob = AAref, replace = TRUE)
-
-  x <- table(AAobs)                            # table simulated observations
-  simCounts[1:20] <- rep(0, length(simCounts)) # initialize simCounts to 0
-  simCounts[names(x)] <- x                     # overwrite with observed counts
-  simCounts <- simCounts + 0.5                 # add Jeffreys' pseudocounts
-  Hobs <- H(simCounts/sum(simCounts))          # counts to frequency, calc. H
-  IObs[i] <- Href - Hobs                       # store information
-}
-
-# evaluate
-hist(IObs, col = "#C9F4E3", xlim = c(-0.2, 1.0), breaks = 25)
-abline(v = quantile(IObs, c(0.05, 0.95)), col = "#AA00CC")
-
-# The purple lines are drawn at the 5% quantiles of the Iobs distributions -
-# i.e. an actual observation that lies outside the purple lines is deemed
-# "significant"(1)(2). Of course, this is only true to the degree that the
-# database frequencies are a valid model for the null-hypothesis on the
-# sequence position we are considering here.
-
-#  (1) If we use 5% quantiles, this means a value is significantly larger
-#      than expected, and we ignore cases when the value is < 0; if we
-#      consider both smaller and larger values, we need to use 2.5% quantiles,
-#      since 5% of all observations lie outside the 0.025 and 0.975
-#      quantiles.
-#
-#  (2) For an actual observation of counts, we calculate its observed
-#      _empirical_p_Value_ as (nCounts + 1)/(nTotal + 1).
-
-
-# You can probably now appreciate that information is a bit of a shortcut for
-# biological sequences, and does not really take the different inherent
-# frequencies based on the character of the amino acids into account. For
-# example, L is the most frequent and C is the least frequent, but if we have an
-# alignment of 1000 sequences and we see that the frequencies for L and C are
-# swapped, that would be _very_ surprising - nevertheless, the information would
-# be 0. In order to take that into account, we should actually compute
-# Kullback-Leibler divergences.
-
-
-# Swap C and L frequencies
-p <- AAref
-q <- AAref
-q["L"] <- AAref["C"]
-q["C"] <- AAref["L"]
-H(p)
-H(q)
-
-KLdiv <- function(p, q) {
-  # p and q are two pmfs of discrete probability distributions
-  # with the same outcomes, which are nowhere 0.
-  # Value:  Kullback-Leibler divergence  sum(p * log( p / q))).
-
-  if (length(p) != length(q)) {
-    stop("PANIC: input vector lengths differ!")
-  }
-  if (any(c((p == 0), (q == 0)))) {
-    stop("PANIC: 0's found in input vectors!")
-  }
-
-  return(sum(p * log( p / q )))
-}
-
-KLdiv(p, p)
-KLdiv(p, q)
-
-
-nObs <- 15                      # number of observations (e.g aligned sequences)
-# nObs <- 80
-nTrials <- 10000                # number of trials
-KLdivObs <- numeric(nTrials)        # vector to store Information in each trial
-simCounts <- numeric(20)        # vector to tabulate our information ...
-names(simCounts) <- names(AAref)# ... with the names of AAref
-
-
-for (i in 1:nTrials) {  # simulate ...
-
-  # sample AAref letters, nObs times, with the probabilities of AAref:
-  AAobs <- sample(names(AAref), size = nObs, prob = AAref, replace = TRUE)
-
-  x <- table(AAobs)                            # table simulated observations
-  simCounts[1:20] <- rep(0, length(simCounts)) # initialize simCounts to 0
-  simCounts[names(x)] <- x                     # overwrite with observed counts
-  simCounts <- simCounts + 0.5                 # add Jeffreys' pseudocounts
-  simCounts <- simCounts/sum(simCounts)        # counts to frequency
-  KLdivObs[i] <- sum(simCounts * log( simCounts / AAref )) # store KLdiv
-}
-
-# evaluate
-hist(KLdivObs, col = "#C9F4E3", breaks = 25)
-abline(v = quantile(KLdivObs, c(0.05, 0.95)), col = "#AA00CC")
-quantile(KLdivObs, 0.992)
-
-# Running the simulation with KL does not give a fundamentally
-# different behaviour - since we are just randomly sampling. But KL would be
-# more sensitive in case there is biological selection, where the sampling is no
-# longer random. If I run the same simulation, with nObs <- 80 but calculating
-# KLdiv instead of information, I get a 5% quantile at 0.15 - but the C/L
-# frequency swap gives me a KL divergence of 0.18 - this is significant at p =
-# 0.008 - (remember, Information is 0 in this case). So that's actually quite a
-# nice addition to the toolbox.
-
-
-# [END]
+# tocID <- "FND-STA-Information_theory.R"
+#
+# ==============================================================================
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the FND-STA-Information_theory unit.
+#
+# Version:  0.2.1
+#
+# Date:     2017 - 2021
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           0.2.1  Maintenance
+#           0.2    Under development
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                  Line
+#TOC> --------------------------------------
+#TOC>   1        ___Section___            39
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  ___Section___  =======================================================
+
+# What level of information is "significant"
+
+# Assume the background distribution is the database frequencies of
+# amino acids:
+
+AAref <- numeric()  # Uniprot frequencies October 2017, slightly adjusted to
+# sum to 1.0
+AAref["A"] <- 0.0904
+AAref["C"] <- 0.0123
+AAref["D"] <- 0.0545
+AAref["E"] <- 0.0617
+AAref["F"] <- 0.0394
+AAref["G"] <- 0.0724
+AAref["H"] <- 0.0221
+AAref["I"] <- 0.0573
+AAref["K"] <- 0.0504
+AAref["L"] <- 0.0986
+AAref["M"] <- 0.0240
+AAref["N"] <- 0.0392
+AAref["P"] <- 0.0486
+AAref["Q"] <- 0.0381
+AAref["R"] <- 0.0570
+AAref["S"] <- 0.0673
+AAref["T"] <- 0.0558
+AAref["V"] <- 0.0686
+AAref["W"] <- 0.0129
+AAref["Y"] <- 0.0294
+sum(AAref)
+
+# Function to calculate Shannon entropy
+H <- function(pmf) {
+  # Calculate Shannon entropy
+  # Parameters:
+  #   pmf (numeric) probability mass function: a vector of states and
+  #                 associated probabilities. Each element of
+  #                 pmf must be in (0, 1] and sum(pmf) must be 1.
+  # Value:
+  #   Shannon entropy in bits.
+  # Examples:
+  #   H(c(A=0.25, C=0.25, G=0.25, T=0.25))  # 2 bits entropy in a random
+  #                                         # nucleotide sequence
+  #   H(1)     # If all elements are the same, entropy is zero
+  #
+  if (any(pmf <= 0 | pmf > 1) || isFALSE(all.equal(1.0, sum(pmf)))) {
+    stop("Input is not a discrete probability distribution.")
+  }
+  H <- -sum(pmf * (log(pmf) / log(2)))
+  return(H)
+}
+
+# Why use all.equal()? Exact comparisons with floating point numbers are
+# brittle. Consider for example:
+1/6 + 1/6 + 1/6 + 1/6 + 1/6 + 1/6 == 1
+print(1/6 + 1/6 + 1/6 + 1/6 + 1/6 + 1/6, digits = 22) # 0.9999999999999998889777
+# all.equal() tests for _near_ equality with tolerance of ~ 1.5e-8
+
+
+
+# Entropy of the database frequencies (in bits):
+(Href <- H(AAref))
+
+# for comparison: entropy if all amino acids are equiprobable
+H(rep(0.05, 20))
+
+
+# Set up a simulation to estimate the distribution of Information values
+# from random sequences drawn from AAref. This is the distribution for the
+# statistical null hypothesis:
+nObs <- 15                      # number of observations (e.g aligned sequences)
+# nObs <- 80
+nTrials <- 10000                # number of trials
+IObs <- numeric(nTrials)        # vector to store Information in each trial
+simCounts <- numeric(20)        # vector to tabulate our information ...
+names(simCounts) <- names(AAref)# ... with the names of AAref
+
+
+for (i in 1:nTrials) {  # simulate ...
+
+  # sample AAref letters, nObs times, with the probabilities of AAref:
+  AAobs <- sample(names(AAref), size = nObs, prob = AAref, replace = TRUE)
+
+  x <- table(AAobs)                            # table simulated observations
+  simCounts[1:20] <- rep(0, length(simCounts)) # initialize simCounts to 0
+  simCounts[names(x)] <- x                     # overwrite with observed counts
+  simCounts <- simCounts + 0.5                 # add Jeffreys' pseudocounts
+  Hobs <- H(simCounts/sum(simCounts))          # counts to frequency, calc. H
+  IObs[i] <- Href - Hobs                       # store information
+}
+
+# evaluate
+hist(IObs, col = "#C9F4E3", xlim = c(-0.2, 1.0), breaks = 25)
+abline(v = quantile(IObs, c(0.05, 0.95)), col = "#AA00CC")
+
+# The purple lines are drawn at the 5% quantiles of the Iobs distributions -
+# i.e. an actual observation that lies outside the purple lines is deemed
+# "significant"(1)(2). Of course, this is only true to the degree that the
+# database frequencies are a valid model for the null-hypothesis on the
+# sequence position we are considering here.
+
+#  (1) If we use 5% quantiles, this means a value is significantly larger
+#      than expected, and we ignore cases when the value is < 0; if we
+#      consider both smaller and larger values, we need to use 2.5% quantiles,
+#      since 5% of all observations lie outside the 0.025 and 0.975
+#      quantiles.
+#
+#  (2) For an actual observation of counts, we calculate its observed
+#      _empirical_p_Value_ as (nCounts + 1)/(nTotal + 1).
+
+
+# You can probably now appreciate that information is a bit of a shortcut for
+# biological sequences, and does not really take the different inherent
+# frequencies based on the character of the amino acids into account. For
+# example, L is the most frequent and C is the least frequent, but if we have an
+# alignment of 1000 sequences and we see that the frequencies for L and C are
+# swapped, that would be _very_ surprising - nevertheless, the information would
+# be 0. In order to take that into account, we should actually compute
+# Kullback-Leibler divergences.
+
+
+# Swap C and L frequencies
+p <- AAref
+q <- AAref
+q["L"] <- AAref["C"]
+q["C"] <- AAref["L"]
+H(p)
+H(q)
+
+KLdiv <- function(p, q) {
+  # p and q are two pmfs of discrete probability distributions
+  # with the same outcomes, which are nowhere 0.
+  # Value:  Kullback-Leibler divergence  sum(p * log( p / q))).
+
+  if (length(p) != length(q)) {
+    stop("PANIC: input vector lengths differ!")
+  }
+  if (any(c((p == 0), (q == 0)))) {
+    stop("PANIC: 0's found in input vectors!")
+  }
+
+  return(sum(p * log( p / q )))
+}
+
+KLdiv(p, p)
+KLdiv(p, q)
+
+
+nObs <- 15                      # number of observations (e.g aligned sequences)
+# nObs <- 80
+nTrials <- 10000                # number of trials
+KLdivObs <- numeric(nTrials)        # vector to store Information in each trial
+simCounts <- numeric(20)        # vector to tabulate our information ...
+names(simCounts) <- names(AAref)# ... with the names of AAref
+
+
+for (i in 1:nTrials) {  # simulate ...
+
+  # sample AAref letters, nObs times, with the probabilities of AAref:
+  AAobs <- sample(names(AAref), size = nObs, prob = AAref, replace = TRUE)
+
+  x <- table(AAobs)                            # table simulated observations
+  simCounts[1:20] <- rep(0, length(simCounts)) # initialize simCounts to 0
+  simCounts[names(x)] <- x                     # overwrite with observed counts
+  simCounts <- simCounts + 0.5                 # add Jeffreys' pseudocounts
+  simCounts <- simCounts/sum(simCounts)        # counts to frequency
+  KLdivObs[i] <- sum(simCounts * log( simCounts / AAref )) # store KLdiv
+}
+
+# evaluate
+hist(KLdivObs, col = "#C9F4E3", breaks = 25)
+abline(v = quantile(KLdivObs, c(0.05, 0.95)), col = "#AA00CC")
+quantile(KLdivObs, 0.992)
+
+# Running the simulation with KL does not give a fundamentally
+# different behaviour - since we are just randomly sampling. But KL would be
+# more sensitive in case there is biological selection, where the sampling is no
+# longer random. If I run the same simulation, with nObs <- 80 but calculating
+# KLdiv instead of information, I get a 5% quantile at 0.15 - but the C/L
+# frequency swap gives me a KL divergence of 0.18 - this is significant at p =
+# 0.008 - (remember, Information is 0 in this case). So that's actually quite a
+# nice addition to the toolbox.
+
+
+# [END]
diff --git a/FND-STA-Probability_distribution.R b/FND-STA-Probability_distribution.R
index 0bd3573..60d1238 100644
--- a/FND-STA-Probability_distribution.R
+++ b/FND-STA-Probability_distribution.R
@@ -1,1323 +1,1323 @@
-# tocID <- "FND-STA-Probability_distribution.R"
-#
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the FND-STA-Probability_distribution unit.
-#
-# Version:  1.6
-#
-# Date:     2017-10  -  2020-11
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.6    Revise use of data argument to nls()/nlrob()
-#           1.5    Extensive additions on Poisson and binomial distributions
-#                    and regression fits
-#           1.4    2020 Maintenance
-#           1.3    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#           1.2    Update set.seed() usage
-#           1.1    Corrected empirical p-value
-#           1.0    First code live version
-#
-# TODO:
-#           Add tasks
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                                      Line
-#TOC> --------------------------------------------------------------------------
-#TOC>   1        Introduction                                                 68
-#TOC>   2        Three fundamental distributions                             131
-#TOC>   2.1        The Poisson Distribution                                  134
-#TOC>   2.2        The hypergeometric distribution                           228
-#TOC>   2.2.1          Digression: qqplot() and residuals                    376
-#TOC>   2.2.2          Fitting functions                                     436
-#TOC>   2.2.2.1        Fit a normal distribution (using nls() )              506
-#TOC>   2.2.2.2        Fit a normal distribution (using nlrob()) )           525
-#TOC>   2.2.2.3        Extreme Value distributions: Gumbel                   552
-#TOC>   2.2.2.4        Extreme Value distributions: Weibull                  579
-#TOC>   2.2.2.5        Logistic distribution                                 621
-#TOC>   2.2.2.6        Log-Logistic distribution                             650
-#TOC>   2.2.2.7        Fitting a negative binomial distribution              679
-#TOC>   2.2.2.8        Fitting a binomial distribution                       732
-#TOC>   2.3        The uniform distribution                                  844
-#TOC>   2.4        The Normal Distribution                                   864
-#TOC>   3        quantile-quantile comparison                                905
-#TOC>   3.1        qqnorm()                                                  915
-#TOC>   3.2        qqplot()                                                  981
-#TOC>   4        Quantifying the difference                                  998
-#TOC>   4.1        Chi2 test for discrete distributions                     1032
-#TOC>   4.2        Kullback-Leibler divergence                              1124
-#TOC>   4.2.1          An example from tossing dice                         1135
-#TOC>   4.2.2          An example from lognormal distributions              1257
-#TOC>   4.3        Continuous distributions: Kolmogorov-Smirnov test        1300
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Introduction  ========================================================
-
-# The space of possible outcomes of events is called a probability distribution
-# and the properties of probability distributions are crucial to our work. Many
-# distributions like the (discrete) Poisson, or the (continuous) Normal
-# distribution have been characterized in great detail, their behaviour is well
-# understood, and they are useful for countless applications - but we also need
-# to able to work with ad hoc distributions that have never been seen before.
-
-# Let's get a few facts about probability distributions out of the way:
-
-# The "support" of a probability distribution is the range of outcomes that have
-# a non-zero probability. The "domain" of a probability distribution is the
-# range of probabilities that the distribution can take over its support. Think
-# of this as the ranges on the x- and y-axis respectively. Thus the distribution
-# can be written as p = f(x).
-
-# The integral over a probability distribution is always 1. This means: the
-# distribution reflects the situation that an event does occur, any event, but
-# there is not "no event".
-
-# R's inbuilt probability functions always come in four flavours:
-# d...  for "density": this is the probability density function (p.d.f.),
-#         the value of f(x) at x.
-# p...  for "probability": this is the cumulative distribution function
-#         (c.d.f.). It is 0 at the left edge of the support, and 1 at
-#         the right edge.
-# q... for "quantile": The quantile function returns the x value at which p...
-#         takes a requested value.
-# r... for "random": produces random numbers that are distributed according
-#         to the p.d.f.
-
-# To illustrate with the "Normal Distribution" (Gaussian distribution):
-
-# 1000 normally distributed values with default parameters: mean 0, sd 1.
-r <- rnorm(1000)
-
-# pastel green: histogram of 1000 random samples
-hist(r,
-     freq = FALSE,
-     breaks = 30,
-     xlim = c(-4, 4),
-     ylim = c(0, 1),
-     main = "Normal Distribution",
-     xlab = "x",
-     ylab = "f(x)",
-     col = "#E6FFF6")
-
-# 100 equally spaced point along x
-x <- seq(-4, 4, length.out = 100)
-
-# black: c. d. f. along x. Note that this asymptotically reaches 1
-points(x, pnorm(x), type = "l")
-
-# dark red: p. d. f. along x
-points(x, dnorm(x), type = "l", lwd = 2, col="firebrick")
-
-# purple: 1% and 99% quantiles
-abline(v = qnorm(c(0.01, 0.99)), lwd = 0.5, col = "#CCAAFF")
-
-# Study this plot well and familiarize yourself with the terms.
-
-
-# =    2  Three fundamental distributions  =====================================
-
-
-# ==   2.1  The Poisson Distribution  ==========================================
-
-# The Poisson distribution is a discrete probability distribution that
-# characterizes how many events we expect among a given number of observations
-# if the mean probability of an event is known. Assume we know that there are
-# 256 transcription factors among the 6091 protein-coding genes of yeast, then
-# the probability of picking a transcription factor at random from all ORFs is
-# 256/6091 ~= 4.2%. How many transcription factors do we expect in a sample of
-# 250 genes - like, for example, the top 250 differentially expressed genes in
-# an assay? This is a frequently encountered type of question, converging on the
-# information contained in a "list of genes". Once an assay has yielded a list
-# of genes, what can we learn from looking at staistical features of its
-# membership. In the transcription factor model, the question is: how many
-# transcription factors do we expect as members of our list - and did we
-# actually observe more or less than that?
-#
-# It would seem that the the probability of encountering _one_ transcription
-# factor among our genes is 256/6091 and therefore the number of transcription
-# factors we expect to choose at random is (250 * 256)/6091 i.e. 10.50731 in the
-# average over many trials. Let's repeat our experiment a million times and see what we get:
-
-N <- 1000000             # One million trials
-genes <- numeric(6091)   # All genes are 0
-genes[1:256] <- 1        # TFs  are 1
-
-hAssays <- numeric(N)    # initialize vector
-set.seed(112358)
-for (i in 1:N) {
-  pBar(i, N)
-  hAssays[i] <- sum(sample(genes, 250)) # sum of TFs in our sample in this trial
-}
-set.seed(NULL)
-
-# And the average is:
-mean(hAssays)  # 10.50293
-
-# ... which is superbly close to our expectation of 10.50731
-
-# All good - but we won't get 10.5 transcription factors in our assay. We'll
-# observe five. Or thirteen. Or thirtysix. Or none at all ... and then we ask
-# ourselves: is the number of observed transcription factors significantly
-# different from what we would have expected if our experiment identified a
-# transcription factor just as likely as it identified any other gene? To answer
-# this, we need to consider the probability distribution of possible outcomes of
-# our assay. Back to the Poisson distribution. In R it is implemented as dpois()
-# and its parameters are: the number of observed events, and the probability of
-# observing an event:
-
-dpois(0,  (250 * 256) / 6091)       # Probability of seeing no TFs
-dpois(1,  (250 * 256) / 6091)       # Probability of seing one ...
-dpois(2,  (250 * 256) / 6091)       # Probability of seing two ...
-dpois(3:10, (250 * 256) / 6091)     # Probability of seing from three to ten ...
-sum(dpois(0:4, (250 * 256) / 6091)) # Probability of seeing four or less ...
-
-sum(dpois(0:250, (250*256)/6091))   # The sum over all possibilities is (for
-                                    # any probability distribution) exactly one.
-
-# Lets plot these probabilities ...
-nMax <- 28
-
-x <- dpois(0:nMax, (250 * 256) / 6091)
-
-barMids <- barplot(x,
-                   col = "#FCF3CF",
-                   names.arg = as.character(0:nMax),
-                   cex.names = 0.5,
-                   axes = TRUE,
-                   ylim = c(0, 0.15),
-                   xlab = "# of TF in set",
-                   ylab = "p")
-
-# ... and add our simulated assays:
-
-(th <- table(factor(hAssays, levels = 0:nMax))/N)
-
-points(barMids - 0.55, th, type = "s", col = "firebrick")
-abline(v = (((250 * 256) / 6091) * (barMids[2] - barMids[1])) + barMids[1],
-       col = "#5588FF")  # scale to the correct position in the barplot
-legend("topright",
-       legend = c("Poisson", "simulated", "expectation"),
-       pch = c(22, NA, NA),           # one box, two lines only
-       pt.cex = 1.4,                  # larger, to match bar-width better
-       pt.bg = c("#FCF3CF", NA, NA),  # bg color only for the box
-       lty = c(0, 1, 1),              # no line for the box
-       col = c("#000000", "firebrick", "#5588FF"),
-       bty = "n")                     # no frame around the legend
-
-# NOTE: The simulation shows us that our expectations about the number of
-#       transcription factors in a sample are almost, but not exactly Poisson
-#       distributed. Can you figure out where we went wrong? Maybe the
-#       Poisson distribution is not quite the correct distribution to
-#       model our expectations?
-
-
-# ==   2.2  The hypergeometric distribution  ===================================
-
-# With that suspicion in mind, we reconsider what we were trying to achieve at
-# each point of the Poisson distribution. Assume we have observed seven
-# transcription factors in our set of 250 genes. So we asked: what is the
-# probability of observing seven? And concluded:
-
-dpois(7,  (250 * 256) / 6091)       # Probability of seeing seven ...
-
-# ... which is the probability of seven events in 250 choices if the underlying
-# probability is equal to fraction of transcription factors among genes. But
-# wait: we weren't careful in our simulation. Assume that our first observed
-# gene was a transcription factor. Is the probability of the next sample the
-# same? Not quite: one transcription factor has been observed, 249 more samples
-# need to be considered, and there are now 6090 genes to choose from. I.e. the
-# mean probability changes with every observation:
-
-(250 * 256) / 6091                 # First sample, a TF: p = 10.50731
-(249 * (256 - 1)) / (6091 - 1)     # Second sample:      p = 10.42611 (-0.992 %)
-
-# This is actually noticeable: the mean probability for transcription factors
-# drops by about one percent after a transcription factor is observed. But what
-# if we would have observed the first transcription factor as the tenth gene?
-
-(239 * (256 - 1)) / (6091 - 10)    # Eleventh sample:    p = 10.0222  (-0.954 %)
-
-# This is getting complicated and we need a different way to think about this if
-# we don't want to enumerate all possibilities by hand. (There are far too
-# many!) Generally, the probability of observing a certain number of events in a
-# series is the number of ways to realize the desired outcome, divided by the
-# number of possible outcomes. So, if we code transcription factors by "1" and
-# other genes by "0", seven transcription factors could be
-
-#   01010100100100100100000000000000000000000 ..., or
-#   01110111100000000000000000000000000000000 ..., or
-#   11101001000010000000100000000000000000000 ..., or any other combination.
-
-# But crucially, our number of trials is limited and every "success" changes the
-# probability of future successes. This is sampling without replacement! And
-# sampling without replacement is modeled by the so-called "hypergeometric
-# distribution". This is the big difference: when we are sampling WITH
-# replacement, we can model the process with a Poisson distribution. When we are
-# sampling WITHOUT replacement, we use a hypergeometric distribution instead.
-
-# Let's first re-run our simulated assays. We put the previous run into the
-# vector "hAssays" which I prefixed "h" as in "hypergeometric" because I knew
-# what was coming, and that I had sampled WITHOUT replacement because that is
-# the default for the sample() function. Accordingly, we call the new samples
-# "pAssays", where "p" stands for Poisson:
-
-N <- 1000000             # One million trials
-genes <- numeric(6091)   # All genes are 0
-genes[1:256] <- 1        # TFs  are 1
-
-pAssays <- numeric(N)    # initialize vector
-set.seed(112358)
-for (i in 1:N) {
-  pBar(i, N)
-  pAssays[i] <- sum(sample(genes, 250, replace = TRUE))
-}
-set.seed(NULL)
-
-# Now the average is:
-mean(pAssays)  # 10.50312  which is essentially the same as 10.50293
-
-# And the plot ...
-
-nMax <- 28
-barMids <- barplot(dpois(0:nMax, (250 * 256) / 6091),
-                   names.arg = as.character(0:nMax),
-                   cex.names = 0.5,
-                   axes = TRUE,
-                   ylim = c(0, 0.15),
-                   xlab = "# of TF in set",
-                   ylab = "p",
-                   col = "#FCF3CF")
-abline(v = (((250 * 256) / 6091) * (barMids[2] - barMids[1])) + barMids[1],
-       col = "#5588FF")  # scale to the correct position in the barplot
-th <- table(factor(hAssays, levels = 0:nMax))/N
-points(barMids - 0.55, th, type = "s", col = "firebrick")
-
-# Here are the new assays:
-tp <- table(factor(pAssays, levels = 0:nMax))/N
-points(barMids - 0.55, tp, type = "s", col = "seagreen")
-
-legend("topright",
-       legend = c("Poisson",
-                  "no replacement",
-                  "with replacement",
-                  "expectation"),
-       pch = c(22, NA, NA, NA),
-       pt.cex = 1.4,
-       pt.bg = c("#FCF3CF", NA, NA, NA),
-       lty = c(0, 1, 1, 1),
-       col = c("#000000", "firebrick", "seagreen", "#5588FF"),
-       bty = "n")
-
-# Clearly .. the "correct" simulation, the simulation that is actually
-# appropriate for the Poisson distribution, matches the theoretical values
-# better. Now let's see how well the hypergeometric distribution matches our
-# original simulated assays.
-# The function dhyper(x, m, n, k) expects the following parameters:
-#   x: the number of observed positive events for which to
-#      compute the probability
-#   m: the number of positive events in the population
-#   n: the number of negative eventsw in the population
-#   k: the number of observations (or trials)
-
-    dhyper(0,    256, 6091 - 256, 250)  # Probability of seeing no TFs
-    dhyper(1,    256, 6091 - 256, 250)  # Probability of seing one ...
-    dhyper(2,    256, 6091 - 256, 250)  # Probability of seing two ...
-    dhyper(3:10, 256, 6091 - 256, 250)  # Probability of three to ten ...
-sum(dhyper(0:4,  256, 6091 - 256, 250)) # Probability of seeing four or less ...
-
-sum(dhyper(0:250, 256, 6091-256, 250)) # The sum over all possibilities is (for
-                                       # any probability distribution)
-                                       # exactly one.
-
-# Lets plot these probabilities like we did above ...
-nMax <- 28
-x <- dhyper(0:nMax,  256, 6091 - 256, 250)
-
-barMids <- barplot(x, col = "#E6FFF6",
-                   names.arg = as.character(0:nMax),
-                   cex.names = 0.5,
-                   axes = TRUE,
-                   ylim = c(0, 0.15),
-                   xlab = "# of TF in set",
-                   ylab = "p")
-abline(v = (mean(hAssays) * (barMids[2] - barMids[1])) + barMids[1],
-       col = "#5588FF")  # scale to the correct position in the barplot
-points(barMids - 0.55, th, type = "s", col = "firebrick")
-
-legend("topright",
-       legend = c("Hypergeometric",
-                  "no replacement",
-                  "expectation"),
-       pch = c(22, NA, NA),
-       pt.cex = 1.4,
-       pt.bg = c("#E6FFF6", NA, NA),
-       lty = c(0, 1, 1, 1),
-       col = c("#000000", "firebrick", "#5588FF"),
-       bty = "n")
-
-# This!
-# This is what a correctly simulated distribution looks like.
-
-
-# ===   2.2.1  Digression: qqplot() and residuals               
-
-# The indication that something was wrong with our simulation versus the
-# theoretical expectation came from the observation that the differences between
-# the barplot and theory were not quite random: the values near the mode were
-# systematically too high, the values in the tails were systematically too low.
-# This is a general principle: when you see a SYSTEMATIC deviation between
-# simulation and theory, something is wrong with your understanding. Either
-# there is a subtle error in how you set up the simulation, or a subtle
-# misunderstanding about the requirements for the particular theory to apply. R
-# has a general way to examine such differences: qqplot() plots the deviations
-# between theory and observation ordered as ranks, i.e. not affected by absolute
-# scale. (See here for an accessible introduction to qqplot() and the
-# "quantiles" that it uses:
-# https://data.library.virginia.edu/understanding-q-q-plots/)
-
-oPar <- par(mfrow = c(1, 2))
-qqplot( dpois(0:nMax, (250 * 256) / 6091),
-        th,
-        xlab = "Poisson distribution",
-        ylab = "sampling with replacement",
-        pch = 22, bg = "#FCF3CF")
-abline(lm(th ~ dpois(0:nMax, (250 * 256) / 6091)), col = "seagreen")
-
-qqplot( dhyper(0:nMax,  256, 6091 - 256, 250),
-        th,
-        xlab = "hypergeometric distribution",
-        ylab = "sampling with replacement",
-        pch = 22, bg = "#E6FFF6")
-abline(lm(th ~ dhyper(0:nMax,  256, 6091 - 256, 250)), col = "seagreen")
-
-par(oPar)
-
-# Similar information can be obtained from a residual plot, plotting differences
-# between prediction and observation:
-
-oPar <- par(mfrow = c(1, 2))
-plot( dpois(0:nMax, (250 * 256) / 6091) - as.numeric(th),
-      type = "b",
-      ylim = c(-0.006, 0.006),
-      xlab = "# observations",
-      ylab = "Poisson density - obs.",
-      pch = 22,
-      bg = "#FCF3CF",
-      col = "#000000")
-abline(h = 0, col = "seagreen")
-
-plot( dhyper(0:nMax,  256, 6091 - 256, 250) - as.numeric(th),
-      type = "b",
-      ylim = c(-0.006, 0.006),
-      xlab = "# observations",
-      ylab = "Hypergeometric density - obs.",
-      pch = 22,
-      bg = "#E6FFF6",
-      col = "#000000")
-abline(h = 0, col = "seagreen")
-
-par(oPar)
-
-
-# ===   2.2.2  Fitting functions                                
-
-# Note that there is a further subtle catch: We did not actually ask about seven
-# transcription factors! We asked about the probability of seven _different_
-# transcription factors - because, implicit in the assumptions I made about the
-# assay (and reasonable for most gene lists), we count duplicates only once!
-# Does this actually make a difference? We can model the situation by giving
-# each transcription factor a name (or a number), sampling at random, and
-# counting how many unique() factors we found in our sample:
-
-N <- 1000000             # One million trials
-genes <- numeric(6091)   # All genes are initially 0
-genes[1:256] <- 1:256    # TFs get a unique "name"
-
-# example sample:
-set.seed(11235)
-x <- sample(genes, 250, replace = TRUE)  # Pick 250 random genes.
-x[x != 0]                                # Note that 189 appears twice.
-length(x[x != 0])                        # We picked 8 transcription factors ...
-unique(x)                                # but only 7 are unique (plus zero).
-length(unique(x)) - 1                    # Ignore the zero.
-
-# Do this a million times
-uAssays <- numeric(N)    # initialize vector
-set.seed(112358)
-for (i in 1:N) {
-  pBar(i, N)
-  uAssays[i] <- length(unique(sample(genes, 250, replace = TRUE))) - 1
-}
-set.seed(NULL)
-
-# plot the poisson distribution (with replacement) as our baseline
-nMax <- 28
-barMids <- barplot(dpois(0:nMax, (250 * 256) / 6091),
-                   col = "#FCF3CF",
-                   names.arg = as.character(0:nMax),
-                   cex.names = 0.5,
-                   axes = TRUE,
-                   ylim = c(0, 0.15),
-                   xlab = "# of TF in set",
-                   ylab = "p")
-
-tu <- table(factor(uAssays, levels = 0:nMax))/N
-points(barMids - 0.55, tu, type = "s", col = "#EE22FF")
-
-legend("topright",
-       legend = c("Poisson",
-                  "unique genes"),
-       pch = c(22, NA),
-       pt.cex = 1.4,
-       pt.bg = c("#FCF3CF", NA),
-       lty = c(0, 1),
-       col = c("#000000", "#EE22FF"),
-       bty = "n")
-
-# Clearly, the distribution does not match our model exactly.
-
-# So what is the "correct" distribution that we could apply in this case? There
-# may or may not be one readily available. What we can do instead is to use a
-# more general model and fit parameters. This takes us to the domain of
-# regression analysis and curve fitting. The general approach is as follows:
-#  - Decide on a statistical model;
-#  - Express it in parametrized form;
-#  - Fit the parameters;
-#  - Analyze the coefficients;
-
-#  Insight into the underlying process that generated our data can be obtained
-#  by analyzing the fitted parameters, or simply plotting the results. Let's
-#  look at examples of fits to the sampled distribution above:
-
-# ====  2.2.2.1  Fit a normal distribution (using nls() )         
-
-x <- 0:28
-plot(x, tu, type="s")
-fit <- nls(tu ~ ( a / (sig*sqrt(2*pi)) ) * exp( (-1/2)*((x-mu)/sig)^2 ),
-           data = data.frame(x = 0:28, tu = tu),
-           start = c(a = 1, mu = 10, sig = 3))  # starting values
-
-points(x, predict(fit), col = "#CC00CC55", lwd = 2,
-       type = "s")
-
-coef(fit)
-#         a         mu        sig
-# 0.9990932 10.0717835  3.0588930
-
-sum(resid(fit)^2)
-# [1] 0.0001613488
-
-
-# ====  2.2.2.2  Fit a normal distribution (using nlrob()) )      
-
-# There's a bit of an art to chosing starting parameters correctly and if the
-# nls() fit does not converge, more robust methods are called for.
-
-if (! requireNamespace("robustbase", quietly = TRUE)) {
-  install.packages("robustbase")
-}
-
-x <- 0:28
-plot(x, tu, type="s")
-fit <- robustbase::nlrob(tu ~ ( a / (sig*sqrt(6.2831853072)) ) *
-                           exp( (-1/2)*((x-mu)/sig)^2 ),
-                         data = data.frame(x = 0:28,
-                                           tu = tu),
-                         start = c(a = 1, mu = 10, sig = 3))  # starting values
-
-points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
-
-coef(fit)
-#        a        mu       sig
-# 1.002162 10.059189  3.071217
-
-sum(resid(fit)^2)
-# [1] 0.0001630868
-
-
-# ====  2.2.2.3  Extreme Value distributions: Gumbel              
-
-# Many processes that involve "best-of" choices are better modelled with
-# so-called extreme-value distributions: here is the Gumbel distribution
-# from the evd package.
-
-if (! requireNamespace("evd", quietly = TRUE)) {
-  install.packages("evd")
-}
-
-x <- 0:28
-plot(x, tu, type="s")
-
-fit <- robustbase::nlrob(tu ~ evd::dgumbel(x, loc = L, scale = S),
-                         data = data.frame(tu = tu, x = 0:28),
-                         start = c(L = 7.3, S = 2.82))
-
-points(x, predict(fit), type = "s", col = "#55DD88")
-
-coef(fit)
-#        L        S
-# 9.322110 2.818266
-
-sum(resid(fit)^2)
-# [1] 0.001027447
-
-
-# ====  2.2.2.4  Extreme Value distributions: Weibull             
-
-# Weibull distributions are common in reliabilty analysis. I found the
-# distribution particularly hard to fit as it is quite sensitive to inital
-# parameter estimates. https://en.wikipedia.org/wiki/Weibull_distribution
-
-# NOTE: the parameter TH is > X
-idx <- 4:28
-myX <- idx
-myY <- as.numeric(tu)[idx]
-plot(myX, myY, type="s")
-
-dWei <- function(x, th, l, k) {
-  a <- k/l
-  b <- ((x-th)/l)^(k-1)
-  c <- exp(-((x-th)/l)^k)
-  y <- a * b * c
-  return(y)
-}
-
-set.seed(112358)
-fit <- robustbase::nlrob(y ~ dWei(x, th = TH, l = L, k = K),
-                         data = data.frame(y = myY,
-                                           x = myX),
-                         lower = c(TH = 3.5,
-                                   L = 8,
-                                   K = 2.5),
-                         upper = c(TH = 3.7,
-                                   L = 9,
-                                   K = 3),
-                         method = "mtl")
-
-points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
-
-coef(fit)
-#      TH        L        K
-#3.630807 8.573898 2.795116
-
-sum(resid(fit)^2)
-# [1] 7.807073e-05
-
-
-# ====  2.2.2.5  Logistic distribution                            
-
-# Similar to normal distribution, but with heavier tails
-# https://en.wikipedia.org/wiki/Logistic_distribution
-
-myX <- 0:28
-myY <- as.numeric(tu)
-plot(myX, myY, type="s")
-
-dLogi <- function(x, mu, s) {
-  y <- (exp(-(x-mu)/s)) / (s * (1+exp(-(x-mu)/s))^2)
-  return(y)
-}
-
-fit <- robustbase::nlrob(y ~ dLogi(x, mu = M, s = S),
-                         data = data.frame(y = myY,
-                                           x = myX),
-                         start = c(M = 10, S = 3))
-
-points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
-
-coef(fit)
-# M         S
-# 10.088968  1.891654
-
-sum(resid(fit)^2)
-# [1] 0.0004030595
-
-
-# ====  2.2.2.6  Log-Logistic distribution                        
-
-# Special case of logistic, often used in survival analysis
-# https://en.wikipedia.org/wiki/Log-logistic_distribution
-
-myX <- 0:28
-myY <- as.numeric(tu)
-plot(myX, myY, type="s")
-
-dLogLogi <- function(x, a, b) {
-  y <- ((b/a)*(x/a)^(b-1)) / (1+((x/a)^b))^2
-  return(y)
-}
-
-fit <- robustbase::nlrob(y ~ dLogLogi(x, a = A, b = B),
-                         data = data.frame(y = myY,
-                                           x = myX),
-                         start = c(A = 9.5, B = 4.8))
-
-points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
-
-coef(fit)
-#         A         B
-# 10.310181  5.288385
-
-sum(resid(fit)^2)
-# [1] 0.0006343927
-
-
-# ====  2.2.2.7  Fitting a negative binomial distribution         
-
-# The negative binomial distribution is related to the Poisson distribution.
-# Assume you are observing events and and counting how many successes of a
-# Bernoulli process (essentially a coin-flip) we encounter before we encounter a
-# failure. Unlike the Poisson, it models mean and variance separately and is therefore especially useful for overdispersed functions. (cf. https://en.wikipedia.org/wiki/Negative_binomial_distribution)
-#
-
-x <- 0:28
-plot(x, tu, type="s")
-
-# Negative binomial
-dNB <- function(x, r, p) {
-  # Note: r is an integer!
-  y <- choose((x + r - 1), (r - 1)) * (1-p)^x * p^r
-  return(y)
-}
-
-set.seed(112358)
-RR <- 104
-fit <- robustbase::nlrob(tu ~ dNB(x, r = RR, p = P),
-                         data = data.frame(x = x, RR = RR),
-                         lower = c(P = 0.01),
-                         upper = c(P = 0.99),
-                         method = "mtl")
-
-points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
-
-coef(fit)
-#         P
-# 0.9100729
-
-sum(resid(fit)^2)
-# [1] 0.0005669086
-
-# Nb. the parameter R is not continuous: to optimize it as an integer, we try
-# reasonable choices and record the best fit.
-N <- 150
-R <- numeric(N)
-for (thisR in 1:N) {
-  set.seed(112358)
-  fit <- robustbase::nlrob(y ~ dNB(x, r = thisR, p = P),
-                           data = data.frame(x = x,
-                                             thisR = thisR),
-                           lower = c(P = 0.01),
-                           upper = c(P = 0.99),
-                           method = "mtl")
-  R[thisR] <- sum(resid(fit)^2)
-}
-plot(R)
-which(R == min(R))
-
-
-# ====  2.2.2.8  Fitting a binomial distribution                  
-# The workhorse distribution for Bernoulli proceeses
-# cf. https://en.wikipedia.org/wiki/Binomial_distribution
-
-
-myX <- 0:28
-myY <- as.numeric(tu)
-plot(myX, myY, type="s")
-
-dBinom <- function(x, s, p) {
-  y <- choose(s, x) * (p^x) * ((1-p)^(s-x))
-  return(y)
-}
-
-fit <- robustbase::nlrob(y ~ dBinom(x, s = S, p = P),
-                         data = data.frame(y = myY,
-                                           x = myX),
-                         start = c(S = 240, P = 256/6091))
-
-points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
-
-coef(fit)
-#            S            P
-# 122.77746436   0.08376922
-
-sum(resid(fit)^2)
-# [1] 1.114272e-06
-
-# Here we go: near perfect fit. But note the parameters! Can you identify the
-# relationship of S and P to our model of choosing unique transcription factors
-# in a random sampling process?
-
-# Remember what we started out with:
-points(x, dBinom(x, 240, 256/6091),
-       col = "#00AAFF55", lwd = 2, type = "s")
-
-# The model has improved a lot from our starting-value guess. But how does an
-# effective sample size of 122.78 relate to the actual value of 250 samples? And
-# how does a probability for choosing a transcription factor of 0.0838 relate to
-# having 256 transcription factors among 6091 genes (a fraction of 0.0420)? Well
-# - if you stare at the numbers for a bit you might notice that the fitted
-# sample size is about half of what we had, while the fitted probability is
-# about twice that. Let's correct for the factor of two, and look at the fit ...
-
-points(x, dBinom(x, coef(fit)["S"] * 2 , coef(fit)["P"] / 2),
-       col = "#00FF8899", lwd = 2, type = "s")
-
-# interesting ... that's not so bad ... Essentially what this tells us is: our
-# model is very similar to one in which our effective sample size would have
-# been about 246 genes, not 250, and the number of our genes would have been
-# close to 0.04188461 * 6091 ~= 255 transcription factors, not 256. Close, to -
-# but not almost perfect.
-
-# Incidentally: would you have thought that we can
-# detect the number of transcription factors in our sample +- 1 if we just
-# sample frequently enough?
-
-# Let's examine the effect that applying various factors to size and probability
-# have on our distribution:
-
-
-z <- c(1/8:2 , 1, 2:8, 10, 20, 50)
-myCols <- colorRampPalette(c("#00000022",
-                             "#00000088",
-                             "#DD0000DD",
-                             "#0088FF88",
-                             "#0088FF55",
-                             "#0088FF22"),
-                           alpha=TRUE)(length(z))
-
-myLwd <- rep(1.25, length(z))
-myLwd[z == 1] <- 2.5 # make the actual fitted value stand out
-
-plot(x, y, type="s", ylim =c(0, 0.22), lwd = 5, col="#FF990077")
-
-for (i in seq_along(z)) {
-  points(x, dBinom(x, coef(fit)["S"] * z[i] , coef(fit)["P"] / z[i]),
-         col = myCols[i], type = "s")
-}
-
-legend("topright",
-       legend = sprintf("%3.2f", z),
-       cex = 0.5,
-       col = myCols,
-       lwd = myLwd,
-       bty = "n")
-
-# We see how factors less than 1 applied to our actual sample size and fraction
-# of transcription factors increasingly narrow the distribution; factors larger
-# than one increasingly broaden the distribution but in a much slower manner. A
-# factor of one (i.e. half size, double probability) hits the sweet spot and
-# recaptures the essence of our observation. Clearly, this is a case of
-# fortuitously cancelling errors.
-
-
-# What is the take-home message here?
-#  - The standard Poisson and hypergeometric distributions apply to
-#      very specific models of choice processes (with/without replacement);
-#  - It is not trivial to choose the right statistical model for any particular
-#      real-world specification of a sampling process. Our model of unique
-#      choices is neither Poisson nor hypergeometric distributed. Once we have
-#      identified the parameters of a binomial distribution that models the
-#      process perfectly, we nevertheless note that we don't seem to be
-#      able to interpret the parameters easily.
-#  - Stochastic modeling allows us to validate whether the model is correct,
-#      but in case there are discrepancies it is not obvious what might be
-#      a more appropriate model and how to parametrize it.
-#  - If building an explicit stochastic model is not possible, we'll have to
-#      to do the best we can, in this case that would mean: choose a more
-#      general distribution and parametrize it.
-
-
-# ==   2.3  The uniform distribution  ==========================================
-
-# The uniform distribution has the same probability over its entire support. R's
-# runif() function takes the desired number, the min and the max as arguments.
-# Let's plot a histogram of a million values between -1 and 1 to demonstrate.
-
-hist(runif(1e6, -1, 1), breaks = 20, col = "#FFE6F6")
-abline(h = 1e6/20, col="firebrick")
-
-# One of the important uses of the uniform distribution is to write conditional
-# expressions that are TRUE with a given probability. For example, to get TRUE
-# values with a probability of 1/3, we pick a random number between 0 and 1, and
-# ask whether the number is smaller than 1/3. Example:
-
-runif(10) < 1/3
-
-#confirm with a million trials
-sum(runif(1e6) < 1/3)/1e6  # should be close to 0.33333...
-
-
-# ==   2.4  The Normal Distribution  ===========================================
-
-# The king of probability distributions. Why? That's because of the Central
-# Limit Theorem (CLT) that essentially says that a process that is subject to
-# small fluctuations will tend to normally distributed outcomes ... and in
-# biology literally everything is subject to small fluctuations.
-
-# Lets simulate: Lets create a vector of 12345 numbers, choose samples of size
-# 77 from that vector and calculate the mean. We do that 9999 times. I am just
-# using odd numbers so it is clear in the code which number represents what.
-
-x <- runif(12345)
-v <- numeric(9999)
-for (i in 1:length(v)) {
-  v[i] <- mean(sample(x, 77))
-}
-
-hist(v, breaks = 20, col = "#F8DDFF")
-
-# Let's try this again, this time sampling from an exponential distribution ...
-x <- rexp(12345)
-v <- numeric(9999)
-for (i in 1:length(v)) {
-  v[i] <- mean(sample(x, 77))
-}
-
-hist(v, breaks = 20, col = "#F8DDFF")
-
-# ... or from a t-distribution ...
-x <- rt(12345, df = 3)
-v <- numeric(9999)
-for (i in 1:length(v)) {
-  v[i] <- mean(sample(x, 77))
-}
-
-hist(v, breaks = 20, col = "#F8DDFF", freq = FALSE)
-
-# The outcomes all give normal distributions, regardless what the details of our
-# original distribution were!
-
-
-# =    3  quantile-quantile comparison  ========================================
-
-
-# Once we have observed a distribution of outcomes, the next task is often to
-# quantify whether the values correspond to a known distribution. This can be
-# done with quantile-quantile plots that plot the quantile values of one
-# distribution against those of the other. Identically distributed quantiles lie
-# on a straight line.
-
-
-# ==   3.1  qqnorm()  ==========================================================
-
-# The functions qqnorm() and qqline() perform this
-# comparison with the normal distribution.
-
-set.seed(112358)
-x <- rnorm(100, mean=0, sd=1) # 100 normally distributed values
-set.seed(NULL)
-
-qqnorm(x)
-qqline(x, col = "seagreen")
-
-# Our variables in x appear normally distribute - which is not surprising since
-# we produced them with rnorm(). What about the kind of sampling we did above?
-# Let's test whether samples from an exponential distribution are normally
-# distributed (previously we just visually inspected the histogram.)
-
-# Create a vector of sample means from the exponential distribution; use
-# only a few samples for the mean
-x <- rexp(12345)
-v <- numeric(999)
-
-set.seed(112358)
-for (i in 1:length(v)) {
-  v[i] <- mean(sample(x, 12))
-}
-set.seed(NULL)
-
-qqnorm(v)
-qqline(v, col = "turquoise") # normal
-
-#try with more samples
-for (i in 1:length(v)) {
-  v[i] <- mean(sample(x, 77))
-}
-qqnorm(v)
-qqline(v, col = "steelblue") # normal
-
-#try with many samples
-for (i in 1:length(v)) {
-  v[i] <- mean(sample(x, 374))
-}
-qqnorm(v)
-qqline(v, col = "plum") # normal
-
-# Exactly as the CLT predicts, the more often we sample - we tried
-# 12, 77, and 374 samples - the more "normal" the distribution looks.
-
-# What does a distribution look like that is NOT normal?
-# Let's try simulating an "Extreme value distribution". This type of
-# distribution appears if we choose the max() of a sample
-
-set.seed(112358)
-rEVD <- numeric(9999)
-for (i in seq_along(rEVD)) {
-  rEVD[i] <- max(rnorm(100))
-}
-set.seed(NULL)
-
-hist(rEVD, breaks = 20, col = "orchid")
-# Note the long tail on the right!
-
-qqnorm(rEVD)
-qqline(rEVD, col = "orchid") # Definitely not "normal"!
-
-
-# ==   3.2  qqplot()  ==========================================================
-
-# qqplot() works like qqnorm(), except that we compare two arbitrary
-# distribtutions, rather than one distribution against the normal distribution
-# as we did before. Sample against sample.
-
-x <- seq(0, 4, length.out = 100)
-
-dl <- dlnorm(x) # log-normal distribution
-dg <- dgamma(x, shape=1.5)   # gamma distribution
-
-plot(dl, type="l")
-points(dg, type="l", col = "maroon")
-
-qqplot(dl, dg) # clearly not equal
-
-
-# =    4  Quantifying the difference  ==========================================
-
-# Quantile-quantile plots give us a visual estimate, but how do we quantify the
-# difference between distributions? Let's compare two types of extreme-value
-# distributions, a lognormal distribution with the same distribution that is
-# slightly shifted, and three gamma distributions with three different shape
-# parameters. Let's define and visualize the distributions first, to see what
-# we are comparing.
-
-x <- seq(0, 4, length.out = 100)
-
-set.seed(112358)
-dl1 <- dlnorm(x) # log-normal distribution
-dl2 <- dlnorm(x - 0.25) # log-normal distribution, shifted right (a bit)
-dg1.2 <- dgamma(x, shape=1.2)   # three gamma distributions with...
-dg1.5 <- dgamma(x, shape=1.5)   # ...wider, and wider...
-dg1.9 <- dgamma(x, shape=1.9)   # ...peak
-set.seed(NULL)
-
-myCols <- c("black", "grey", "maroon", "turquoise", "steelblue")
-
-plot(dl1, type="l", lwd=2)   # visualize the distributions
-points(dl2, type="l", col = myCols[2])
-points(dg1.2, type="l", col = myCols[3])
-points(dg1.5, type="l", col = myCols[4])
-points(dg1.9, type="l", col = myCols[5])
-legend("topright",
-       legend = c("dl1", "dl2", "dg1.2", "dg1.5", "dg1.9"),
-       lty = 1,
-       lwd = c(2, 1, 1, 1, 1),
-       col = myCols,
-       bty = "n")
-
-
-# ==   4.1  Chi2 test for discrete distributions  ==============================
-
-# The chi2 test can be used to compare discrete distributions - even though
-# it is not ideal for this purpose.
-# (https://stats.stackexchange.com/questions/113692)
-#
-# Let's draw 100 random variables according to our target distributions
-N <- 100
-set.seed(112358)
-rL1   <- rlnorm(N) # log-normal distribution
-rL2   <- rlnorm(N, meanlog = 0.25) # log-normal distribution, shifted right
-rG1.2 <- rgamma(N, shape=1.2)   # three gamma distributions with...
-rG1.5 <- rgamma(N, shape=1.5)   # ...wider, and wider...
-rG1.9 <- rgamma(N, shape=1.9)   # ...peak
-set.seed(NULL)
-
-maxX <- max(c(rL1, rL2, rG1.2, rG1.5, rG1.9))
-
-myBreaks <- seq(0, 5, length.out = 10) # 9 intervals from 0 to 5...
-myBreaks <- c(myBreaks, maxX) # ... and one that contains the outliers
-
-# It's easy to plot a histogram of one set of random deviates...
-hist(rG1.5, breaks = myBreaks, col = myCols[4])
-
-# ... but basic R has no inbuilt function to stack histogram bars side-by-side.
-# We use the multhist() function in the plotrix package: check out the
-# package information - plotrix has _many_ useful utilities to enhance
-# plots or produce informative visualizations.
-
-if (! requireNamespace("plotrix", quietly = TRUE)) {
-  install.packages("plotrix")
-}
-
-# Package information:
-#  library(help = plotrix)       # basic information
-#  browseVignettes("plotrix")    # available vignettes
-#  data(package = "plotrix")     # available datasets
-
-
-h <- plotrix::multhist(list(rL1, rL2, rG1.2, rG1.5, rG1.9 ),
-                       breaks = myBreaks,
-                       col = myCols)
-legend("topright",
-       legend = c("rL1", "rL2", "rG1.2", "rG1.5", "rG1.9"),
-       pch=15,
-       col = myCols,
-       bty="n")
-
-# We have assigned the output of multihist to the variable h, which now
-# contains the densities, midpoints, breaks etc. of the histogram ...
-# as well as the matrix of counts:
-h[[2]]
-
-# But using hist() or multhist() for binning is a bit of a hack - even though
-# it works, of course. The "real" R function to bin data is cut(). cut()
-# sorts the values of a vector into bins, and returns the bin-labels as
-# integers.
-
-x <- cut(rL1, breaks = myBreaks, labels = FALSE)
-table(x)
-
-countsL1   <- table(cut(rL1  , breaks = myBreaks, labels = FALSE))
-countsL2   <- table(cut(rL2  , breaks = myBreaks, labels = FALSE))
-countsG1.2 <- table(cut(rG1.2, breaks = myBreaks, labels = FALSE))
-countsG1.5 <- table(cut(rG1.5, breaks = myBreaks, labels = FALSE))
-countsG1.9 <- table(cut(rG1.9, breaks = myBreaks, labels = FALSE))
-
-
-chisq.test(countsL1, countsL2)
-
-# Note that this use of the chi2 test does not have very much power, since it
-# does not assume the values for the bins are ordered, but takes them to
-# be independent. Also, chisq.test() complains about the Chi-squared
-# approximation to be possibly incorrect because some of the counts are small.
-# In this case, rather than rely on the in-built chi-square table, we can do
-# an explicit simulation to estimate the p-value for the null hypothesis.
-#
-chisq.test(countsL1, countsL2, simulate.p.value = TRUE, B = 10000)
-
-# Note that the probability that the samples came from the same distribution is
-# quite high. We don't seem to be able to distinguish l1 and l2 with the chi2
-# test.
-
-# Let's calculate this for the other distribution too:
-
-chisq.test(countsL1, countsG1.2, simulate.p.value = TRUE, B = 10000)
-chisq.test(countsL1, countsG1.5, simulate.p.value = TRUE, B = 10000)
-chisq.test(countsL1, countsG1.9, simulate.p.value = TRUE, B = 10000)
-
-# As a result, we would conclude that none of these distributions are
-# significantly different.
-
-# ==   4.2  Kullback-Leibler divergence  =======================================
-
-# For discrete probability distributions, there is a much better statistic, the
-# Kullback-Leibler divergence (or relative entropy). It is based in information
-# theory, and evaluates how different the matched pairs of outcome categories
-# are. Its inputs are the probability mass functions (p.m.f.) of the two
-# functions to be compared. A probability mass function is the probability of
-# every outcome the process can have. Kullback-Leibler divergence therefore can
-# be applied to discrete distributions. But we need to talk a bit about
-# converting counts to p.m.f.'s.
-
-# ===   4.2.1  An example from tossing dice                     
-
-#  The p.m.f of an honest die is (1:1/6, 2:1/6, 3:1/6, 4:1/6, 5:1/6, 6:1/6). But
-#  there is an issue when we convert sampled counts to frequencies, and estimate
-#  probabilities with these frequencies. The problem is: by chance we might not
-#  have observed a particular outcome! Consider this example:
-
-set.seed(47)
-N <- 20
-(counts <- table(sample(1:6, N, replace = TRUE)))
-set.seed(NULL)
-
-# We have not observed a "2"!
-#
-# Now, if we convert the counts to frequencies, and assume these to be
-# probabilities, we get an observed p.m.f:
-pmf <- numeric(6)
-for (i in seq_along(counts)) {
-  outcome <- as.integer(names(counts)[i])
-  pmf[outcome] <- counts[i]/N
-}
-names(pmf) <- 1:6
-pmf
-
-# This means we assign a probability of 0 to the outcome "2" - because we
-# haven't observed it. But how do we compare it then? What does it mean when we
-# should have 1/6 of "2"s but we have none whatsoever? Taken at face value it
-# means we are comparing apples to oranges - essentially a five-faced die with a
-# six-faced die - and therefore divergence is infinitely large. Obviously, that
-# was just a problem caused by our limited sampling, but the question remains:
-# how do we account for missing data? There are several solutions, for example,
-# for ordered data one could substitute the average values of the two bracketing
-# outcomes. But a simple and quite robust solution is to add "pseudocounts".
-# This is called adding a Laplace prior, or a Jeffreys prior: in our case,
-# simply add 0.5 to every category.
-
-# pmf of an honest die
-pmfHD <- rep(1/6, 6)
-names(pmfHD) <- 1:6
-pmfHD
-
-# pmf, estimated from our sampled counts with and without pseudocounts
-
-pmfPC <- numeric(6) + 0.5
-for (i in seq_along(counts)) {
-  outcome <- as.integer(names(counts)[i])
-  pmfPC[outcome] <- counts[i] + pmfPC[outcome]
-}
-pmfPC <- pmfPC / sum(pmfPC)
-names(pmfPC) <- 1:6
-pmf     # before
-pmfPC   # after
-
-# The definition of a function that takes samples and returns a pmf
-# with pseudocounts is straightforward, but requires a bit of juggling
-# the observed values into the right slots. Here's what this can look like:
-
-pmfPC <- function(cts, nam) {
-  # Convert counts to a p.m.f, adding a pseudocount of 0.5 to all categories
-  # of outcomes (Jeffreys prior).
-  # Parameters:
-  #    cts  num   raw counts
-  #    nam        names of the categories, converted to char
-  # Value   a probability mass function
-
-  nam <- as.character(nam)
-  if (!all(names(cts) %in% nam)) {
-    stop("PANIC: names in \"cts\" do not match \"nam\"!")
-  }
-  pmf <- numeric(length(nam))
-  names(pmf) <- nam
-  pmf[names(cts)] <- cts[names(cts)]
-  pmf <- pmf + 0.5    # add pseudocounts
-  return(pmf/sum(pmf))
-}
-
-
-# The definition of the Kullback-Leibler divergence itself is quite simple
-# actually: for two distributions, p and q it is sum(p * log( p / q))
-
-KLdiv <- function(p, q) {
-  # p and q are two pmfs of discrete probability distributions
-  # with the same outcomes, which are nowhere 0.
-  # Value:  Kullback-Leibler divergence  sum(p * log( p / q))).
-
-  if (length(p) != length(q)) {
-    stop("PANIC: input vector lengths differ!")
-  }
-  if (any(c((p == 0), (q == 0)))) {
-    stop("PANIC: 0's found in input vectors!")
-  }
-
-  return(sum(p * log( p / q )))
-}
-
-# Now we can calculate KL-divergences for our six-faced die example:
-
-KLdiv(rep(1/6, 6), pmfPC(counts, 1:6)) # p.m.f. of an honest die vs. our
-                                       # actual counts
-
-# Is that a lot? Let's look at the distribution of KL-divergences in our
-# six-sided die scenario: p.m.f. of 20 samples each versus the theoretical
-# p.m.f.
-
-N <- 1000
-nSample <- 20
-divs <- numeric(N)
-for (i in 1:N) {
-  x <- table(sample(1:6, nSample, replace = TRUE))
-  divs[i] <- KLdiv(rep(1/6, 6), pmfPC(x, 1:6))
-}
-
-hist(divs,
-     col = "whitesmoke",
-     xlab = "Kullback-Leibler divergence",
-     main = sprintf("%d samples of honest die", nSample))
-abline(v = KLdiv(rep(1/6, 6), pmfPC(counts, 1:6)), col="firebrick")
-
-# We see that our example sample (KL-divergence marked with the red line) is
-# somewhat but not drastically atypical.
-
-
-# ===   4.2.2  An example from lognormal distributions          
-
-# We had compared a set of lognormal and gamma distributions above, now we
-# can use KL-divergence to quantify their similarity:
-
-pmfL1 <- pmfPC(countsL1, nam = 1:10)
-pmfL2 <- pmfPC(countsL2, nam = 1:10)
-KLdiv(pmfL1, pmfL2)  # 0.1087
-
-# To evaluate what this number means, we can run a simple simulation: we create
-# random samples according to the rL1 distribution, calculate the Kullback
-# Leibler divergence with countsL1, and compare the distribution we get with the
-# value we observed as the difference with discL2. Essentially, this tells us
-# the probability that countsL2 is actually a sample from the L1 function.
-# Here we go:
-
-N <- 1000
-divs <- numeric(N)
-
-set.seed(31416)
-for (i in 1:N) {
-  x <- rlnorm(100) # get random samples from our reference distributions
-  y <- table(cut(x, breaks = myBreaks, labels = FALSE))  # tabulate counts
-  q <- pmfPC(y, nam = 1:10)  # convert to p.m.f. with pseudocounts
-  divs[i] <- KLdiv(pmfL1, q)     # calculate Kullback-Leibler divergence
-}
-set.seed(NULL)
-
-hist(divs,
-     col = "thistle",
-     xlab = "Kullback-Leibler divergence",
-     main = sprintf("Samples from shifted lnorm()"))
-abline(v = KLdiv(pmfL1, pmfL2), col="firebrick")
-
-# How many KL-divergences were less than the difference we observed?
-sum(divs < KLdiv(pmfL1, pmfL2)) # 933
-
-# Therefore the empirical p-value that the samples came from the same
-# distribution is only 100 * ((N - 933) + 1) / (N + 1) (%) ... 6.8%. You see
-# that this gives a much more powerful statistical approach than the chi2 test
-# we used above.
-
-
-# ==   4.3  Continuous distributions: Kolmogorov-Smirnov test  =================
-
-# The Kolmogorov-Smirnov (KS) test is meant for continuous distributions, i.e.
-# the probability it calculates assumes that the function values are all
-# different. In the case of random samples, that is a reasonable assumption. KS
-# is a two-sample goodness of fit test, i.e. it has a null-hypothesis that the
-# samples were taken from the same (unknown) distribution, and then asks whether
-# this is likely, given the actual values. It is sensitive both to differences
-# in location (position of the mean), and differences in shape. R has the
-# ks.test() function to calculate it.
-
-ks.test(dl1, dl2)     # vs. shifted log-normal.
-ks.test(dl1, dg1.2)   # vs. the three gamma distributions
-ks.test(dl1, dg1.5)
-ks.test(dl1, dg1.9)
-ks.test(dg1.5, dg1.9) # the two last gammas against each other
-
-# (The warnings about the presence of ties comes from the 0's in our function
-# values). The p-value that these distributions are samples of the same
-# probability distribution gets progressively smaller.
-
-
-
-# [END]
+# tocID <- "FND-STA-Probability_distribution.R"
+#
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the FND-STA-Probability_distribution unit.
+#
+# Version:  1.6
+#
+# Date:     2017-10  -  2020-11
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.6    Revise use of data argument to nls()/nlrob()
+#           1.5    Extensive additions on Poisson and binomial distributions
+#                    and regression fits
+#           1.4    2020 Maintenance
+#           1.3    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#           1.2    Update set.seed() usage
+#           1.1    Corrected empirical p-value
+#           1.0    First code live version
+#
+# TODO:
+#           Add tasks
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                                      Line
+#TOC> --------------------------------------------------------------------------
+#TOC>   1        Introduction                                                 68
+#TOC>   2        Three fundamental distributions                             131
+#TOC>   2.1        The Poisson Distribution                                  134
+#TOC>   2.2        The hypergeometric distribution                           228
+#TOC>   2.2.1          Digression: qqplot() and residuals                    376
+#TOC>   2.2.2          Fitting functions                                     436
+#TOC>   2.2.2.1        Fit a normal distribution (using nls() )              506
+#TOC>   2.2.2.2        Fit a normal distribution (using nlrob()) )           525
+#TOC>   2.2.2.3        Extreme Value distributions: Gumbel                   552
+#TOC>   2.2.2.4        Extreme Value distributions: Weibull                  579
+#TOC>   2.2.2.5        Logistic distribution                                 621
+#TOC>   2.2.2.6        Log-Logistic distribution                             650
+#TOC>   2.2.2.7        Fitting a negative binomial distribution              679
+#TOC>   2.2.2.8        Fitting a binomial distribution                       732
+#TOC>   2.3        The uniform distribution                                  844
+#TOC>   2.4        The Normal Distribution                                   864
+#TOC>   3        quantile-quantile comparison                                905
+#TOC>   3.1        qqnorm()                                                  915
+#TOC>   3.2        qqplot()                                                  981
+#TOC>   4        Quantifying the difference                                  998
+#TOC>   4.1        Chi2 test for discrete distributions                     1032
+#TOC>   4.2        Kullback-Leibler divergence                              1124
+#TOC>   4.2.1          An example from tossing dice                         1135
+#TOC>   4.2.2          An example from lognormal distributions              1257
+#TOC>   4.3        Continuous distributions: Kolmogorov-Smirnov test        1300
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Introduction  ========================================================
+
+# The space of possible outcomes of events is called a probability distribution
+# and the properties of probability distributions are crucial to our work. Many
+# distributions like the (discrete) Poisson, or the (continuous) Normal
+# distribution have been characterized in great detail, their behaviour is well
+# understood, and they are useful for countless applications - but we also need
+# to able to work with ad hoc distributions that have never been seen before.
+
+# Let's get a few facts about probability distributions out of the way:
+
+# The "support" of a probability distribution is the range of outcomes that have
+# a non-zero probability. The "domain" of a probability distribution is the
+# range of probabilities that the distribution can take over its support. Think
+# of this as the ranges on the x- and y-axis respectively. Thus the distribution
+# can be written as p = f(x).
+
+# The integral over a probability distribution is always 1. This means: the
+# distribution reflects the situation that an event does occur, any event, but
+# there is not "no event".
+
+# R's inbuilt probability functions always come in four flavours:
+# d...  for "density": this is the probability density function (p.d.f.),
+#         the value of f(x) at x.
+# p...  for "probability": this is the cumulative distribution function
+#         (c.d.f.). It is 0 at the left edge of the support, and 1 at
+#         the right edge.
+# q... for "quantile": The quantile function returns the x value at which p...
+#         takes a requested value.
+# r... for "random": produces random numbers that are distributed according
+#         to the p.d.f.
+
+# To illustrate with the "Normal Distribution" (Gaussian distribution):
+
+# 1000 normally distributed values with default parameters: mean 0, sd 1.
+r <- rnorm(1000)
+
+# pastel green: histogram of 1000 random samples
+hist(r,
+     freq = FALSE,
+     breaks = 30,
+     xlim = c(-4, 4),
+     ylim = c(0, 1),
+     main = "Normal Distribution",
+     xlab = "x",
+     ylab = "f(x)",
+     col = "#E6FFF6")
+
+# 100 equally spaced point along x
+x <- seq(-4, 4, length.out = 100)
+
+# black: c. d. f. along x. Note that this asymptotically reaches 1
+points(x, pnorm(x), type = "l")
+
+# dark red: p. d. f. along x
+points(x, dnorm(x), type = "l", lwd = 2, col="firebrick")
+
+# purple: 1% and 99% quantiles
+abline(v = qnorm(c(0.01, 0.99)), lwd = 0.5, col = "#CCAAFF")
+
+# Study this plot well and familiarize yourself with the terms.
+
+
+# =    2  Three fundamental distributions  =====================================
+
+
+# ==   2.1  The Poisson Distribution  ==========================================
+
+# The Poisson distribution is a discrete probability distribution that
+# characterizes how many events we expect among a given number of observations
+# if the mean probability of an event is known. Assume we know that there are
+# 256 transcription factors among the 6091 protein-coding genes of yeast, then
+# the probability of picking a transcription factor at random from all ORFs is
+# 256/6091 ~= 4.2%. How many transcription factors do we expect in a sample of
+# 250 genes - like, for example, the top 250 differentially expressed genes in
+# an assay? This is a frequently encountered type of question, converging on the
+# information contained in a "list of genes". Once an assay has yielded a list
+# of genes, what can we learn from looking at staistical features of its
+# membership. In the transcription factor model, the question is: how many
+# transcription factors do we expect as members of our list - and did we
+# actually observe more or less than that?
+#
+# It would seem that the the probability of encountering _one_ transcription
+# factor among our genes is 256/6091 and therefore the number of transcription
+# factors we expect to choose at random is (250 * 256)/6091 i.e. 10.50731 in the
+# average over many trials. Let's repeat our experiment a million times and see what we get:
+
+N <- 1000000             # One million trials
+genes <- numeric(6091)   # All genes are 0
+genes[1:256] <- 1        # TFs  are 1
+
+hAssays <- numeric(N)    # initialize vector
+set.seed(112358)
+for (i in 1:N) {
+  pBar(i, N)
+  hAssays[i] <- sum(sample(genes, 250)) # sum of TFs in our sample in this trial
+}
+set.seed(NULL)
+
+# And the average is:
+mean(hAssays)  # 10.50293
+
+# ... which is superbly close to our expectation of 10.50731
+
+# All good - but we won't get 10.5 transcription factors in our assay. We'll
+# observe five. Or thirteen. Or thirtysix. Or none at all ... and then we ask
+# ourselves: is the number of observed transcription factors significantly
+# different from what we would have expected if our experiment identified a
+# transcription factor just as likely as it identified any other gene? To answer
+# this, we need to consider the probability distribution of possible outcomes of
+# our assay. Back to the Poisson distribution. In R it is implemented as dpois()
+# and its parameters are: the number of observed events, and the probability of
+# observing an event:
+
+dpois(0,  (250 * 256) / 6091)       # Probability of seeing no TFs
+dpois(1,  (250 * 256) / 6091)       # Probability of seing one ...
+dpois(2,  (250 * 256) / 6091)       # Probability of seing two ...
+dpois(3:10, (250 * 256) / 6091)     # Probability of seing from three to ten ...
+sum(dpois(0:4, (250 * 256) / 6091)) # Probability of seeing four or less ...
+
+sum(dpois(0:250, (250*256)/6091))   # The sum over all possibilities is (for
+                                    # any probability distribution) exactly one.
+
+# Lets plot these probabilities ...
+nMax <- 28
+
+x <- dpois(0:nMax, (250 * 256) / 6091)
+
+barMids <- barplot(x,
+                   col = "#FCF3CF",
+                   names.arg = as.character(0:nMax),
+                   cex.names = 0.5,
+                   axes = TRUE,
+                   ylim = c(0, 0.15),
+                   xlab = "# of TF in set",
+                   ylab = "p")
+
+# ... and add our simulated assays:
+
+(th <- table(factor(hAssays, levels = 0:nMax))/N)
+
+points(barMids - 0.55, th, type = "s", col = "firebrick")
+abline(v = (((250 * 256) / 6091) * (barMids[2] - barMids[1])) + barMids[1],
+       col = "#5588FF")  # scale to the correct position in the barplot
+legend("topright",
+       legend = c("Poisson", "simulated", "expectation"),
+       pch = c(22, NA, NA),           # one box, two lines only
+       pt.cex = 1.4,                  # larger, to match bar-width better
+       pt.bg = c("#FCF3CF", NA, NA),  # bg color only for the box
+       lty = c(0, 1, 1),              # no line for the box
+       col = c("#000000", "firebrick", "#5588FF"),
+       bty = "n")                     # no frame around the legend
+
+# NOTE: The simulation shows us that our expectations about the number of
+#       transcription factors in a sample are almost, but not exactly Poisson
+#       distributed. Can you figure out where we went wrong? Maybe the
+#       Poisson distribution is not quite the correct distribution to
+#       model our expectations?
+
+
+# ==   2.2  The hypergeometric distribution  ===================================
+
+# With that suspicion in mind, we reconsider what we were trying to achieve at
+# each point of the Poisson distribution. Assume we have observed seven
+# transcription factors in our set of 250 genes. So we asked: what is the
+# probability of observing seven? And concluded:
+
+dpois(7,  (250 * 256) / 6091)       # Probability of seeing seven ...
+
+# ... which is the probability of seven events in 250 choices if the underlying
+# probability is equal to fraction of transcription factors among genes. But
+# wait: we weren't careful in our simulation. Assume that our first observed
+# gene was a transcription factor. Is the probability of the next sample the
+# same? Not quite: one transcription factor has been observed, 249 more samples
+# need to be considered, and there are now 6090 genes to choose from. I.e. the
+# mean probability changes with every observation:
+
+(250 * 256) / 6091                 # First sample, a TF: p = 10.50731
+(249 * (256 - 1)) / (6091 - 1)     # Second sample:      p = 10.42611 (-0.992 %)
+
+# This is actually noticeable: the mean probability for transcription factors
+# drops by about one percent after a transcription factor is observed. But what
+# if we would have observed the first transcription factor as the tenth gene?
+
+(239 * (256 - 1)) / (6091 - 10)    # Eleventh sample:    p = 10.0222  (-0.954 %)
+
+# This is getting complicated and we need a different way to think about this if
+# we don't want to enumerate all possibilities by hand. (There are far too
+# many!) Generally, the probability of observing a certain number of events in a
+# series is the number of ways to realize the desired outcome, divided by the
+# number of possible outcomes. So, if we code transcription factors by "1" and
+# other genes by "0", seven transcription factors could be
+
+#   01010100100100100100000000000000000000000 ..., or
+#   01110111100000000000000000000000000000000 ..., or
+#   11101001000010000000100000000000000000000 ..., or any other combination.
+
+# But crucially, our number of trials is limited and every "success" changes the
+# probability of future successes. This is sampling without replacement! And
+# sampling without replacement is modeled by the so-called "hypergeometric
+# distribution". This is the big difference: when we are sampling WITH
+# replacement, we can model the process with a Poisson distribution. When we are
+# sampling WITHOUT replacement, we use a hypergeometric distribution instead.
+
+# Let's first re-run our simulated assays. We put the previous run into the
+# vector "hAssays" which I prefixed "h" as in "hypergeometric" because I knew
+# what was coming, and that I had sampled WITHOUT replacement because that is
+# the default for the sample() function. Accordingly, we call the new samples
+# "pAssays", where "p" stands for Poisson:
+
+N <- 1000000             # One million trials
+genes <- numeric(6091)   # All genes are 0
+genes[1:256] <- 1        # TFs  are 1
+
+pAssays <- numeric(N)    # initialize vector
+set.seed(112358)
+for (i in 1:N) {
+  pBar(i, N)
+  pAssays[i] <- sum(sample(genes, 250, replace = TRUE))
+}
+set.seed(NULL)
+
+# Now the average is:
+mean(pAssays)  # 10.50312  which is essentially the same as 10.50293
+
+# And the plot ...
+
+nMax <- 28
+barMids <- barplot(dpois(0:nMax, (250 * 256) / 6091),
+                   names.arg = as.character(0:nMax),
+                   cex.names = 0.5,
+                   axes = TRUE,
+                   ylim = c(0, 0.15),
+                   xlab = "# of TF in set",
+                   ylab = "p",
+                   col = "#FCF3CF")
+abline(v = (((250 * 256) / 6091) * (barMids[2] - barMids[1])) + barMids[1],
+       col = "#5588FF")  # scale to the correct position in the barplot
+th <- table(factor(hAssays, levels = 0:nMax))/N
+points(barMids - 0.55, th, type = "s", col = "firebrick")
+
+# Here are the new assays:
+tp <- table(factor(pAssays, levels = 0:nMax))/N
+points(barMids - 0.55, tp, type = "s", col = "seagreen")
+
+legend("topright",
+       legend = c("Poisson",
+                  "no replacement",
+                  "with replacement",
+                  "expectation"),
+       pch = c(22, NA, NA, NA),
+       pt.cex = 1.4,
+       pt.bg = c("#FCF3CF", NA, NA, NA),
+       lty = c(0, 1, 1, 1),
+       col = c("#000000", "firebrick", "seagreen", "#5588FF"),
+       bty = "n")
+
+# Clearly .. the "correct" simulation, the simulation that is actually
+# appropriate for the Poisson distribution, matches the theoretical values
+# better. Now let's see how well the hypergeometric distribution matches our
+# original simulated assays.
+# The function dhyper(x, m, n, k) expects the following parameters:
+#   x: the number of observed positive events for which to
+#      compute the probability
+#   m: the number of positive events in the population
+#   n: the number of negative eventsw in the population
+#   k: the number of observations (or trials)
+
+    dhyper(0,    256, 6091 - 256, 250)  # Probability of seeing no TFs
+    dhyper(1,    256, 6091 - 256, 250)  # Probability of seing one ...
+    dhyper(2,    256, 6091 - 256, 250)  # Probability of seing two ...
+    dhyper(3:10, 256, 6091 - 256, 250)  # Probability of three to ten ...
+sum(dhyper(0:4,  256, 6091 - 256, 250)) # Probability of seeing four or less ...
+
+sum(dhyper(0:250, 256, 6091-256, 250)) # The sum over all possibilities is (for
+                                       # any probability distribution)
+                                       # exactly one.
+
+# Lets plot these probabilities like we did above ...
+nMax <- 28
+x <- dhyper(0:nMax,  256, 6091 - 256, 250)
+
+barMids <- barplot(x, col = "#E6FFF6",
+                   names.arg = as.character(0:nMax),
+                   cex.names = 0.5,
+                   axes = TRUE,
+                   ylim = c(0, 0.15),
+                   xlab = "# of TF in set",
+                   ylab = "p")
+abline(v = (mean(hAssays) * (barMids[2] - barMids[1])) + barMids[1],
+       col = "#5588FF")  # scale to the correct position in the barplot
+points(barMids - 0.55, th, type = "s", col = "firebrick")
+
+legend("topright",
+       legend = c("Hypergeometric",
+                  "no replacement",
+                  "expectation"),
+       pch = c(22, NA, NA),
+       pt.cex = 1.4,
+       pt.bg = c("#E6FFF6", NA, NA),
+       lty = c(0, 1, 1, 1),
+       col = c("#000000", "firebrick", "#5588FF"),
+       bty = "n")
+
+# This!
+# This is what a correctly simulated distribution looks like.
+
+
+# ===   2.2.1  Digression: qqplot() and residuals               
+
+# The indication that something was wrong with our simulation versus the
+# theoretical expectation came from the observation that the differences between
+# the barplot and theory were not quite random: the values near the mode were
+# systematically too high, the values in the tails were systematically too low.
+# This is a general principle: when you see a SYSTEMATIC deviation between
+# simulation and theory, something is wrong with your understanding. Either
+# there is a subtle error in how you set up the simulation, or a subtle
+# misunderstanding about the requirements for the particular theory to apply. R
+# has a general way to examine such differences: qqplot() plots the deviations
+# between theory and observation ordered as ranks, i.e. not affected by absolute
+# scale. (See here for an accessible introduction to qqplot() and the
+# "quantiles" that it uses:
+# https://data.library.virginia.edu/understanding-q-q-plots/)
+
+oPar <- par(mfrow = c(1, 2))
+qqplot( dpois(0:nMax, (250 * 256) / 6091),
+        th,
+        xlab = "Poisson distribution",
+        ylab = "sampling with replacement",
+        pch = 22, bg = "#FCF3CF")
+abline(lm(th ~ dpois(0:nMax, (250 * 256) / 6091)), col = "seagreen")
+
+qqplot( dhyper(0:nMax,  256, 6091 - 256, 250),
+        th,
+        xlab = "hypergeometric distribution",
+        ylab = "sampling with replacement",
+        pch = 22, bg = "#E6FFF6")
+abline(lm(th ~ dhyper(0:nMax,  256, 6091 - 256, 250)), col = "seagreen")
+
+par(oPar)
+
+# Similar information can be obtained from a residual plot, plotting differences
+# between prediction and observation:
+
+oPar <- par(mfrow = c(1, 2))
+plot( dpois(0:nMax, (250 * 256) / 6091) - as.numeric(th),
+      type = "b",
+      ylim = c(-0.006, 0.006),
+      xlab = "# observations",
+      ylab = "Poisson density - obs.",
+      pch = 22,
+      bg = "#FCF3CF",
+      col = "#000000")
+abline(h = 0, col = "seagreen")
+
+plot( dhyper(0:nMax,  256, 6091 - 256, 250) - as.numeric(th),
+      type = "b",
+      ylim = c(-0.006, 0.006),
+      xlab = "# observations",
+      ylab = "Hypergeometric density - obs.",
+      pch = 22,
+      bg = "#E6FFF6",
+      col = "#000000")
+abline(h = 0, col = "seagreen")
+
+par(oPar)
+
+
+# ===   2.2.2  Fitting functions                                
+
+# Note that there is a further subtle catch: We did not actually ask about seven
+# transcription factors! We asked about the probability of seven _different_
+# transcription factors - because, implicit in the assumptions I made about the
+# assay (and reasonable for most gene lists), we count duplicates only once!
+# Does this actually make a difference? We can model the situation by giving
+# each transcription factor a name (or a number), sampling at random, and
+# counting how many unique() factors we found in our sample:
+
+N <- 1000000             # One million trials
+genes <- numeric(6091)   # All genes are initially 0
+genes[1:256] <- 1:256    # TFs get a unique "name"
+
+# example sample:
+set.seed(11235)
+x <- sample(genes, 250, replace = TRUE)  # Pick 250 random genes.
+x[x != 0]                                # Note that 189 appears twice.
+length(x[x != 0])                        # We picked 8 transcription factors ...
+unique(x)                                # but only 7 are unique (plus zero).
+length(unique(x)) - 1                    # Ignore the zero.
+
+# Do this a million times
+uAssays <- numeric(N)    # initialize vector
+set.seed(112358)
+for (i in 1:N) {
+  pBar(i, N)
+  uAssays[i] <- length(unique(sample(genes, 250, replace = TRUE))) - 1
+}
+set.seed(NULL)
+
+# plot the poisson distribution (with replacement) as our baseline
+nMax <- 28
+barMids <- barplot(dpois(0:nMax, (250 * 256) / 6091),
+                   col = "#FCF3CF",
+                   names.arg = as.character(0:nMax),
+                   cex.names = 0.5,
+                   axes = TRUE,
+                   ylim = c(0, 0.15),
+                   xlab = "# of TF in set",
+                   ylab = "p")
+
+tu <- table(factor(uAssays, levels = 0:nMax))/N
+points(barMids - 0.55, tu, type = "s", col = "#EE22FF")
+
+legend("topright",
+       legend = c("Poisson",
+                  "unique genes"),
+       pch = c(22, NA),
+       pt.cex = 1.4,
+       pt.bg = c("#FCF3CF", NA),
+       lty = c(0, 1),
+       col = c("#000000", "#EE22FF"),
+       bty = "n")
+
+# Clearly, the distribution does not match our model exactly.
+
+# So what is the "correct" distribution that we could apply in this case? There
+# may or may not be one readily available. What we can do instead is to use a
+# more general model and fit parameters. This takes us to the domain of
+# regression analysis and curve fitting. The general approach is as follows:
+#  - Decide on a statistical model;
+#  - Express it in parametrized form;
+#  - Fit the parameters;
+#  - Analyze the coefficients;
+
+#  Insight into the underlying process that generated our data can be obtained
+#  by analyzing the fitted parameters, or simply plotting the results. Let's
+#  look at examples of fits to the sampled distribution above:
+
+# ====  2.2.2.1  Fit a normal distribution (using nls() )         
+
+x <- 0:28
+plot(x, tu, type="s")
+fit <- nls(tu ~ ( a / (sig*sqrt(2*pi)) ) * exp( (-1/2)*((x-mu)/sig)^2 ),
+           data = data.frame(x = 0:28, tu = tu),
+           start = c(a = 1, mu = 10, sig = 3))  # starting values
+
+points(x, predict(fit), col = "#CC00CC55", lwd = 2,
+       type = "s")
+
+coef(fit)
+#         a         mu        sig
+# 0.9990932 10.0717835  3.0588930
+
+sum(resid(fit)^2)
+# [1] 0.0001613488
+
+
+# ====  2.2.2.2  Fit a normal distribution (using nlrob()) )      
+
+# There's a bit of an art to chosing starting parameters correctly and if the
+# nls() fit does not converge, more robust methods are called for.
+
+if (! requireNamespace("robustbase", quietly = TRUE)) {
+  install.packages("robustbase")
+}
+
+x <- 0:28
+plot(x, tu, type="s")
+fit <- robustbase::nlrob(tu ~ ( a / (sig*sqrt(6.2831853072)) ) *
+                           exp( (-1/2)*((x-mu)/sig)^2 ),
+                         data = data.frame(x = 0:28,
+                                           tu = tu),
+                         start = c(a = 1, mu = 10, sig = 3))  # starting values
+
+points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
+
+coef(fit)
+#        a        mu       sig
+# 1.002162 10.059189  3.071217
+
+sum(resid(fit)^2)
+# [1] 0.0001630868
+
+
+# ====  2.2.2.3  Extreme Value distributions: Gumbel              
+
+# Many processes that involve "best-of" choices are better modelled with
+# so-called extreme-value distributions: here is the Gumbel distribution
+# from the evd package.
+
+if (! requireNamespace("evd", quietly = TRUE)) {
+  install.packages("evd")
+}
+
+x <- 0:28
+plot(x, tu, type="s")
+
+fit <- robustbase::nlrob(tu ~ evd::dgumbel(x, loc = L, scale = S),
+                         data = data.frame(tu = tu, x = 0:28),
+                         start = c(L = 7.3, S = 2.82))
+
+points(x, predict(fit), type = "s", col = "#55DD88")
+
+coef(fit)
+#        L        S
+# 9.322110 2.818266
+
+sum(resid(fit)^2)
+# [1] 0.001027447
+
+
+# ====  2.2.2.4  Extreme Value distributions: Weibull             
+
+# Weibull distributions are common in reliabilty analysis. I found the
+# distribution particularly hard to fit as it is quite sensitive to inital
+# parameter estimates. https://en.wikipedia.org/wiki/Weibull_distribution
+
+# NOTE: the parameter TH is > X
+idx <- 4:28
+myX <- idx
+myY <- as.numeric(tu)[idx]
+plot(myX, myY, type="s")
+
+dWei <- function(x, th, l, k) {
+  a <- k/l
+  b <- ((x-th)/l)^(k-1)
+  c <- exp(-((x-th)/l)^k)
+  y <- a * b * c
+  return(y)
+}
+
+set.seed(112358)
+fit <- robustbase::nlrob(y ~ dWei(x, th = TH, l = L, k = K),
+                         data = data.frame(y = myY,
+                                           x = myX),
+                         lower = c(TH = 3.5,
+                                   L = 8,
+                                   K = 2.5),
+                         upper = c(TH = 3.7,
+                                   L = 9,
+                                   K = 3),
+                         method = "mtl")
+
+points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
+
+coef(fit)
+#      TH        L        K
+#3.630807 8.573898 2.795116
+
+sum(resid(fit)^2)
+# [1] 7.807073e-05
+
+
+# ====  2.2.2.5  Logistic distribution                            
+
+# Similar to normal distribution, but with heavier tails
+# https://en.wikipedia.org/wiki/Logistic_distribution
+
+myX <- 0:28
+myY <- as.numeric(tu)
+plot(myX, myY, type="s")
+
+dLogi <- function(x, mu, s) {
+  y <- (exp(-(x-mu)/s)) / (s * (1+exp(-(x-mu)/s))^2)
+  return(y)
+}
+
+fit <- robustbase::nlrob(y ~ dLogi(x, mu = M, s = S),
+                         data = data.frame(y = myY,
+                                           x = myX),
+                         start = c(M = 10, S = 3))
+
+points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
+
+coef(fit)
+# M         S
+# 10.088968  1.891654
+
+sum(resid(fit)^2)
+# [1] 0.0004030595
+
+
+# ====  2.2.2.6  Log-Logistic distribution                        
+
+# Special case of logistic, often used in survival analysis
+# https://en.wikipedia.org/wiki/Log-logistic_distribution
+
+myX <- 0:28
+myY <- as.numeric(tu)
+plot(myX, myY, type="s")
+
+dLogLogi <- function(x, a, b) {
+  y <- ((b/a)*(x/a)^(b-1)) / (1+((x/a)^b))^2
+  return(y)
+}
+
+fit <- robustbase::nlrob(y ~ dLogLogi(x, a = A, b = B),
+                         data = data.frame(y = myY,
+                                           x = myX),
+                         start = c(A = 9.5, B = 4.8))
+
+points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
+
+coef(fit)
+#         A         B
+# 10.310181  5.288385
+
+sum(resid(fit)^2)
+# [1] 0.0006343927
+
+
+# ====  2.2.2.7  Fitting a negative binomial distribution         
+
+# The negative binomial distribution is related to the Poisson distribution.
+# Assume you are observing events and and counting how many successes of a
+# Bernoulli process (essentially a coin-flip) we encounter before we encounter a
+# failure. Unlike the Poisson, it models mean and variance separately and is therefore especially useful for overdispersed functions. (cf. https://en.wikipedia.org/wiki/Negative_binomial_distribution)
+#
+
+x <- 0:28
+plot(x, tu, type="s")
+
+# Negative binomial
+dNB <- function(x, r, p) {
+  # Note: r is an integer!
+  y <- choose((x + r - 1), (r - 1)) * (1-p)^x * p^r
+  return(y)
+}
+
+set.seed(112358)
+RR <- 104
+fit <- robustbase::nlrob(tu ~ dNB(x, r = RR, p = P),
+                         data = data.frame(x = x, RR = RR),
+                         lower = c(P = 0.01),
+                         upper = c(P = 0.99),
+                         method = "mtl")
+
+points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
+
+coef(fit)
+#         P
+# 0.9100729
+
+sum(resid(fit)^2)
+# [1] 0.0005669086
+
+# Nb. the parameter R is not continuous: to optimize it as an integer, we try
+# reasonable choices and record the best fit.
+N <- 150
+R <- numeric(N)
+for (thisR in 1:N) {
+  set.seed(112358)
+  fit <- robustbase::nlrob(y ~ dNB(x, r = thisR, p = P),
+                           data = data.frame(x = x,
+                                             thisR = thisR),
+                           lower = c(P = 0.01),
+                           upper = c(P = 0.99),
+                           method = "mtl")
+  R[thisR] <- sum(resid(fit)^2)
+}
+plot(R)
+which(R == min(R))
+
+
+# ====  2.2.2.8  Fitting a binomial distribution                  
+# The workhorse distribution for Bernoulli proceeses
+# cf. https://en.wikipedia.org/wiki/Binomial_distribution
+
+
+myX <- 0:28
+myY <- as.numeric(tu)
+plot(myX, myY, type="s")
+
+dBinom <- function(x, s, p) {
+  y <- choose(s, x) * (p^x) * ((1-p)^(s-x))
+  return(y)
+}
+
+fit <- robustbase::nlrob(y ~ dBinom(x, s = S, p = P),
+                         data = data.frame(y = myY,
+                                           x = myX),
+                         start = c(S = 240, P = 256/6091))
+
+points(x, predict(fit), col = "#CC00CC55", lwd = 2, type = "s")
+
+coef(fit)
+#            S            P
+# 122.77746436   0.08376922
+
+sum(resid(fit)^2)
+# [1] 1.114272e-06
+
+# Here we go: near perfect fit. But note the parameters! Can you identify the
+# relationship of S and P to our model of choosing unique transcription factors
+# in a random sampling process?
+
+# Remember what we started out with:
+points(x, dBinom(x, 240, 256/6091),
+       col = "#00AAFF55", lwd = 2, type = "s")
+
+# The model has improved a lot from our starting-value guess. But how does an
+# effective sample size of 122.78 relate to the actual value of 250 samples? And
+# how does a probability for choosing a transcription factor of 0.0838 relate to
+# having 256 transcription factors among 6091 genes (a fraction of 0.0420)? Well
+# - if you stare at the numbers for a bit you might notice that the fitted
+# sample size is about half of what we had, while the fitted probability is
+# about twice that. Let's correct for the factor of two, and look at the fit ...
+
+points(x, dBinom(x, coef(fit)["S"] * 2 , coef(fit)["P"] / 2),
+       col = "#00FF8899", lwd = 2, type = "s")
+
+# interesting ... that's not so bad ... Essentially what this tells us is: our
+# model is very similar to one in which our effective sample size would have
+# been about 246 genes, not 250, and the number of our genes would have been
+# close to 0.04188461 * 6091 ~= 255 transcription factors, not 256. Close, to -
+# but not almost perfect.
+
+# Incidentally: would you have thought that we can
+# detect the number of transcription factors in our sample +- 1 if we just
+# sample frequently enough?
+
+# Let's examine the effect that applying various factors to size and probability
+# have on our distribution:
+
+
+z <- c(1/8:2 , 1, 2:8, 10, 20, 50)
+myCols <- colorRampPalette(c("#00000022",
+                             "#00000088",
+                             "#DD0000DD",
+                             "#0088FF88",
+                             "#0088FF55",
+                             "#0088FF22"),
+                           alpha=TRUE)(length(z))
+
+myLwd <- rep(1.25, length(z))
+myLwd[z == 1] <- 2.5 # make the actual fitted value stand out
+
+plot(x, y, type="s", ylim =c(0, 0.22), lwd = 5, col="#FF990077")
+
+for (i in seq_along(z)) {
+  points(x, dBinom(x, coef(fit)["S"] * z[i] , coef(fit)["P"] / z[i]),
+         col = myCols[i], type = "s")
+}
+
+legend("topright",
+       legend = sprintf("%3.2f", z),
+       cex = 0.5,
+       col = myCols,
+       lwd = myLwd,
+       bty = "n")
+
+# We see how factors less than 1 applied to our actual sample size and fraction
+# of transcription factors increasingly narrow the distribution; factors larger
+# than one increasingly broaden the distribution but in a much slower manner. A
+# factor of one (i.e. half size, double probability) hits the sweet spot and
+# recaptures the essence of our observation. Clearly, this is a case of
+# fortuitously cancelling errors.
+
+
+# What is the take-home message here?
+#  - The standard Poisson and hypergeometric distributions apply to
+#      very specific models of choice processes (with/without replacement);
+#  - It is not trivial to choose the right statistical model for any particular
+#      real-world specification of a sampling process. Our model of unique
+#      choices is neither Poisson nor hypergeometric distributed. Once we have
+#      identified the parameters of a binomial distribution that models the
+#      process perfectly, we nevertheless note that we don't seem to be
+#      able to interpret the parameters easily.
+#  - Stochastic modeling allows us to validate whether the model is correct,
+#      but in case there are discrepancies it is not obvious what might be
+#      a more appropriate model and how to parametrize it.
+#  - If building an explicit stochastic model is not possible, we'll have to
+#      to do the best we can, in this case that would mean: choose a more
+#      general distribution and parametrize it.
+
+
+# ==   2.3  The uniform distribution  ==========================================
+
+# The uniform distribution has the same probability over its entire support. R's
+# runif() function takes the desired number, the min and the max as arguments.
+# Let's plot a histogram of a million values between -1 and 1 to demonstrate.
+
+hist(runif(1e6, -1, 1), breaks = 20, col = "#FFE6F6")
+abline(h = 1e6/20, col="firebrick")
+
+# One of the important uses of the uniform distribution is to write conditional
+# expressions that are TRUE with a given probability. For example, to get TRUE
+# values with a probability of 1/3, we pick a random number between 0 and 1, and
+# ask whether the number is smaller than 1/3. Example:
+
+runif(10) < 1/3
+
+#confirm with a million trials
+sum(runif(1e6) < 1/3)/1e6  # should be close to 0.33333...
+
+
+# ==   2.4  The Normal Distribution  ===========================================
+
+# The king of probability distributions. Why? That's because of the Central
+# Limit Theorem (CLT) that essentially says that a process that is subject to
+# small fluctuations will tend to normally distributed outcomes ... and in
+# biology literally everything is subject to small fluctuations.
+
+# Lets simulate: Lets create a vector of 12345 numbers, choose samples of size
+# 77 from that vector and calculate the mean. We do that 9999 times. I am just
+# using odd numbers so it is clear in the code which number represents what.
+
+x <- runif(12345)
+v <- numeric(9999)
+for (i in 1:length(v)) {
+  v[i] <- mean(sample(x, 77))
+}
+
+hist(v, breaks = 20, col = "#F8DDFF")
+
+# Let's try this again, this time sampling from an exponential distribution ...
+x <- rexp(12345)
+v <- numeric(9999)
+for (i in 1:length(v)) {
+  v[i] <- mean(sample(x, 77))
+}
+
+hist(v, breaks = 20, col = "#F8DDFF")
+
+# ... or from a t-distribution ...
+x <- rt(12345, df = 3)
+v <- numeric(9999)
+for (i in 1:length(v)) {
+  v[i] <- mean(sample(x, 77))
+}
+
+hist(v, breaks = 20, col = "#F8DDFF", freq = FALSE)
+
+# The outcomes all give normal distributions, regardless what the details of our
+# original distribution were!
+
+
+# =    3  quantile-quantile comparison  ========================================
+
+
+# Once we have observed a distribution of outcomes, the next task is often to
+# quantify whether the values correspond to a known distribution. This can be
+# done with quantile-quantile plots that plot the quantile values of one
+# distribution against those of the other. Identically distributed quantiles lie
+# on a straight line.
+
+
+# ==   3.1  qqnorm()  ==========================================================
+
+# The functions qqnorm() and qqline() perform this
+# comparison with the normal distribution.
+
+set.seed(112358)
+x <- rnorm(100, mean=0, sd=1) # 100 normally distributed values
+set.seed(NULL)
+
+qqnorm(x)
+qqline(x, col = "seagreen")
+
+# Our variables in x appear normally distribute - which is not surprising since
+# we produced them with rnorm(). What about the kind of sampling we did above?
+# Let's test whether samples from an exponential distribution are normally
+# distributed (previously we just visually inspected the histogram.)
+
+# Create a vector of sample means from the exponential distribution; use
+# only a few samples for the mean
+x <- rexp(12345)
+v <- numeric(999)
+
+set.seed(112358)
+for (i in 1:length(v)) {
+  v[i] <- mean(sample(x, 12))
+}
+set.seed(NULL)
+
+qqnorm(v)
+qqline(v, col = "turquoise") # normal
+
+#try with more samples
+for (i in 1:length(v)) {
+  v[i] <- mean(sample(x, 77))
+}
+qqnorm(v)
+qqline(v, col = "steelblue") # normal
+
+#try with many samples
+for (i in 1:length(v)) {
+  v[i] <- mean(sample(x, 374))
+}
+qqnorm(v)
+qqline(v, col = "plum") # normal
+
+# Exactly as the CLT predicts, the more often we sample - we tried
+# 12, 77, and 374 samples - the more "normal" the distribution looks.
+
+# What does a distribution look like that is NOT normal?
+# Let's try simulating an "Extreme value distribution". This type of
+# distribution appears if we choose the max() of a sample
+
+set.seed(112358)
+rEVD <- numeric(9999)
+for (i in seq_along(rEVD)) {
+  rEVD[i] <- max(rnorm(100))
+}
+set.seed(NULL)
+
+hist(rEVD, breaks = 20, col = "orchid")
+# Note the long tail on the right!
+
+qqnorm(rEVD)
+qqline(rEVD, col = "orchid") # Definitely not "normal"!
+
+
+# ==   3.2  qqplot()  ==========================================================
+
+# qqplot() works like qqnorm(), except that we compare two arbitrary
+# distribtutions, rather than one distribution against the normal distribution
+# as we did before. Sample against sample.
+
+x <- seq(0, 4, length.out = 100)
+
+dl <- dlnorm(x) # log-normal distribution
+dg <- dgamma(x, shape=1.5)   # gamma distribution
+
+plot(dl, type="l")
+points(dg, type="l", col = "maroon")
+
+qqplot(dl, dg) # clearly not equal
+
+
+# =    4  Quantifying the difference  ==========================================
+
+# Quantile-quantile plots give us a visual estimate, but how do we quantify the
+# difference between distributions? Let's compare two types of extreme-value
+# distributions, a lognormal distribution with the same distribution that is
+# slightly shifted, and three gamma distributions with three different shape
+# parameters. Let's define and visualize the distributions first, to see what
+# we are comparing.
+
+x <- seq(0, 4, length.out = 100)
+
+set.seed(112358)
+dl1 <- dlnorm(x) # log-normal distribution
+dl2 <- dlnorm(x - 0.25) # log-normal distribution, shifted right (a bit)
+dg1.2 <- dgamma(x, shape=1.2)   # three gamma distributions with...
+dg1.5 <- dgamma(x, shape=1.5)   # ...wider, and wider...
+dg1.9 <- dgamma(x, shape=1.9)   # ...peak
+set.seed(NULL)
+
+myCols <- c("black", "grey", "maroon", "turquoise", "steelblue")
+
+plot(dl1, type="l", lwd=2)   # visualize the distributions
+points(dl2, type="l", col = myCols[2])
+points(dg1.2, type="l", col = myCols[3])
+points(dg1.5, type="l", col = myCols[4])
+points(dg1.9, type="l", col = myCols[5])
+legend("topright",
+       legend = c("dl1", "dl2", "dg1.2", "dg1.5", "dg1.9"),
+       lty = 1,
+       lwd = c(2, 1, 1, 1, 1),
+       col = myCols,
+       bty = "n")
+
+
+# ==   4.1  Chi2 test for discrete distributions  ==============================
+
+# The chi2 test can be used to compare discrete distributions - even though
+# it is not ideal for this purpose.
+# (https://stats.stackexchange.com/questions/113692)
+#
+# Let's draw 100 random variables according to our target distributions
+N <- 100
+set.seed(112358)
+rL1   <- rlnorm(N) # log-normal distribution
+rL2   <- rlnorm(N, meanlog = 0.25) # log-normal distribution, shifted right
+rG1.2 <- rgamma(N, shape=1.2)   # three gamma distributions with...
+rG1.5 <- rgamma(N, shape=1.5)   # ...wider, and wider...
+rG1.9 <- rgamma(N, shape=1.9)   # ...peak
+set.seed(NULL)
+
+maxX <- max(c(rL1, rL2, rG1.2, rG1.5, rG1.9))
+
+myBreaks <- seq(0, 5, length.out = 10) # 9 intervals from 0 to 5...
+myBreaks <- c(myBreaks, maxX) # ... and one that contains the outliers
+
+# It's easy to plot a histogram of one set of random deviates...
+hist(rG1.5, breaks = myBreaks, col = myCols[4])
+
+# ... but basic R has no inbuilt function to stack histogram bars side-by-side.
+# We use the multhist() function in the plotrix package: check out the
+# package information - plotrix has _many_ useful utilities to enhance
+# plots or produce informative visualizations.
+
+if (! requireNamespace("plotrix", quietly = TRUE)) {
+  install.packages("plotrix")
+}
+
+# Package information:
+#  library(help = plotrix)       # basic information
+#  browseVignettes("plotrix")    # available vignettes
+#  data(package = "plotrix")     # available datasets
+
+
+h <- plotrix::multhist(list(rL1, rL2, rG1.2, rG1.5, rG1.9 ),
+                       breaks = myBreaks,
+                       col = myCols)
+legend("topright",
+       legend = c("rL1", "rL2", "rG1.2", "rG1.5", "rG1.9"),
+       pch=15,
+       col = myCols,
+       bty="n")
+
+# We have assigned the output of multihist to the variable h, which now
+# contains the densities, midpoints, breaks etc. of the histogram ...
+# as well as the matrix of counts:
+h[[2]]
+
+# But using hist() or multhist() for binning is a bit of a hack - even though
+# it works, of course. The "real" R function to bin data is cut(). cut()
+# sorts the values of a vector into bins, and returns the bin-labels as
+# integers.
+
+x <- cut(rL1, breaks = myBreaks, labels = FALSE)
+table(x)
+
+countsL1   <- table(cut(rL1  , breaks = myBreaks, labels = FALSE))
+countsL2   <- table(cut(rL2  , breaks = myBreaks, labels = FALSE))
+countsG1.2 <- table(cut(rG1.2, breaks = myBreaks, labels = FALSE))
+countsG1.5 <- table(cut(rG1.5, breaks = myBreaks, labels = FALSE))
+countsG1.9 <- table(cut(rG1.9, breaks = myBreaks, labels = FALSE))
+
+
+chisq.test(countsL1, countsL2)
+
+# Note that this use of the chi2 test does not have very much power, since it
+# does not assume the values for the bins are ordered, but takes them to
+# be independent. Also, chisq.test() complains about the Chi-squared
+# approximation to be possibly incorrect because some of the counts are small.
+# In this case, rather than rely on the in-built chi-square table, we can do
+# an explicit simulation to estimate the p-value for the null hypothesis.
+#
+chisq.test(countsL1, countsL2, simulate.p.value = TRUE, B = 10000)
+
+# Note that the probability that the samples came from the same distribution is
+# quite high. We don't seem to be able to distinguish l1 and l2 with the chi2
+# test.
+
+# Let's calculate this for the other distribution too:
+
+chisq.test(countsL1, countsG1.2, simulate.p.value = TRUE, B = 10000)
+chisq.test(countsL1, countsG1.5, simulate.p.value = TRUE, B = 10000)
+chisq.test(countsL1, countsG1.9, simulate.p.value = TRUE, B = 10000)
+
+# As a result, we would conclude that none of these distributions are
+# significantly different.
+
+# ==   4.2  Kullback-Leibler divergence  =======================================
+
+# For discrete probability distributions, there is a much better statistic, the
+# Kullback-Leibler divergence (or relative entropy). It is based in information
+# theory, and evaluates how different the matched pairs of outcome categories
+# are. Its inputs are the probability mass functions (p.m.f.) of the two
+# functions to be compared. A probability mass function is the probability of
+# every outcome the process can have. Kullback-Leibler divergence therefore can
+# be applied to discrete distributions. But we need to talk a bit about
+# converting counts to p.m.f.'s.
+
+# ===   4.2.1  An example from tossing dice                     
+
+#  The p.m.f of an honest die is (1:1/6, 2:1/6, 3:1/6, 4:1/6, 5:1/6, 6:1/6). But
+#  there is an issue when we convert sampled counts to frequencies, and estimate
+#  probabilities with these frequencies. The problem is: by chance we might not
+#  have observed a particular outcome! Consider this example:
+
+set.seed(47)
+N <- 20
+(counts <- table(sample(1:6, N, replace = TRUE)))
+set.seed(NULL)
+
+# We have not observed a "2"!
+#
+# Now, if we convert the counts to frequencies, and assume these to be
+# probabilities, we get an observed p.m.f:
+pmf <- numeric(6)
+for (i in seq_along(counts)) {
+  outcome <- as.integer(names(counts)[i])
+  pmf[outcome] <- counts[i]/N
+}
+names(pmf) <- 1:6
+pmf
+
+# This means we assign a probability of 0 to the outcome "2" - because we
+# haven't observed it. But how do we compare it then? What does it mean when we
+# should have 1/6 of "2"s but we have none whatsoever? Taken at face value it
+# means we are comparing apples to oranges - essentially a five-faced die with a
+# six-faced die - and therefore divergence is infinitely large. Obviously, that
+# was just a problem caused by our limited sampling, but the question remains:
+# how do we account for missing data? There are several solutions, for example,
+# for ordered data one could substitute the average values of the two bracketing
+# outcomes. But a simple and quite robust solution is to add "pseudocounts".
+# This is called adding a Laplace prior, or a Jeffreys prior: in our case,
+# simply add 0.5 to every category.
+
+# pmf of an honest die
+pmfHD <- rep(1/6, 6)
+names(pmfHD) <- 1:6
+pmfHD
+
+# pmf, estimated from our sampled counts with and without pseudocounts
+
+pmfPC <- numeric(6) + 0.5
+for (i in seq_along(counts)) {
+  outcome <- as.integer(names(counts)[i])
+  pmfPC[outcome] <- counts[i] + pmfPC[outcome]
+}
+pmfPC <- pmfPC / sum(pmfPC)
+names(pmfPC) <- 1:6
+pmf     # before
+pmfPC   # after
+
+# The definition of a function that takes samples and returns a pmf
+# with pseudocounts is straightforward, but requires a bit of juggling
+# the observed values into the right slots. Here's what this can look like:
+
+pmfPC <- function(cts, nam) {
+  # Convert counts to a p.m.f, adding a pseudocount of 0.5 to all categories
+  # of outcomes (Jeffreys prior).
+  # Parameters:
+  #    cts  num   raw counts
+  #    nam        names of the categories, converted to char
+  # Value   a probability mass function
+
+  nam <- as.character(nam)
+  if (!all(names(cts) %in% nam)) {
+    stop("PANIC: names in \"cts\" do not match \"nam\"!")
+  }
+  pmf <- numeric(length(nam))
+  names(pmf) <- nam
+  pmf[names(cts)] <- cts[names(cts)]
+  pmf <- pmf + 0.5    # add pseudocounts
+  return(pmf/sum(pmf))
+}
+
+
+# The definition of the Kullback-Leibler divergence itself is quite simple
+# actually: for two distributions, p and q it is sum(p * log( p / q))
+
+KLdiv <- function(p, q) {
+  # p and q are two pmfs of discrete probability distributions
+  # with the same outcomes, which are nowhere 0.
+  # Value:  Kullback-Leibler divergence  sum(p * log( p / q))).
+
+  if (length(p) != length(q)) {
+    stop("PANIC: input vector lengths differ!")
+  }
+  if (any(c((p == 0), (q == 0)))) {
+    stop("PANIC: 0's found in input vectors!")
+  }
+
+  return(sum(p * log( p / q )))
+}
+
+# Now we can calculate KL-divergences for our six-faced die example:
+
+KLdiv(rep(1/6, 6), pmfPC(counts, 1:6)) # p.m.f. of an honest die vs. our
+                                       # actual counts
+
+# Is that a lot? Let's look at the distribution of KL-divergences in our
+# six-sided die scenario: p.m.f. of 20 samples each versus the theoretical
+# p.m.f.
+
+N <- 1000
+nSample <- 20
+divs <- numeric(N)
+for (i in 1:N) {
+  x <- table(sample(1:6, nSample, replace = TRUE))
+  divs[i] <- KLdiv(rep(1/6, 6), pmfPC(x, 1:6))
+}
+
+hist(divs,
+     col = "whitesmoke",
+     xlab = "Kullback-Leibler divergence",
+     main = sprintf("%d samples of honest die", nSample))
+abline(v = KLdiv(rep(1/6, 6), pmfPC(counts, 1:6)), col="firebrick")
+
+# We see that our example sample (KL-divergence marked with the red line) is
+# somewhat but not drastically atypical.
+
+
+# ===   4.2.2  An example from lognormal distributions          
+
+# We had compared a set of lognormal and gamma distributions above, now we
+# can use KL-divergence to quantify their similarity:
+
+pmfL1 <- pmfPC(countsL1, nam = 1:10)
+pmfL2 <- pmfPC(countsL2, nam = 1:10)
+KLdiv(pmfL1, pmfL2)  # 0.1087
+
+# To evaluate what this number means, we can run a simple simulation: we create
+# random samples according to the rL1 distribution, calculate the Kullback
+# Leibler divergence with countsL1, and compare the distribution we get with the
+# value we observed as the difference with discL2. Essentially, this tells us
+# the probability that countsL2 is actually a sample from the L1 function.
+# Here we go:
+
+N <- 1000
+divs <- numeric(N)
+
+set.seed(31416)
+for (i in 1:N) {
+  x <- rlnorm(100) # get random samples from our reference distributions
+  y <- table(cut(x, breaks = myBreaks, labels = FALSE))  # tabulate counts
+  q <- pmfPC(y, nam = 1:10)  # convert to p.m.f. with pseudocounts
+  divs[i] <- KLdiv(pmfL1, q)     # calculate Kullback-Leibler divergence
+}
+set.seed(NULL)
+
+hist(divs,
+     col = "thistle",
+     xlab = "Kullback-Leibler divergence",
+     main = sprintf("Samples from shifted lnorm()"))
+abline(v = KLdiv(pmfL1, pmfL2), col="firebrick")
+
+# How many KL-divergences were less than the difference we observed?
+sum(divs < KLdiv(pmfL1, pmfL2)) # 933
+
+# Therefore the empirical p-value that the samples came from the same
+# distribution is only 100 * ((N - 933) + 1) / (N + 1) (%) ... 6.8%. You see
+# that this gives a much more powerful statistical approach than the chi2 test
+# we used above.
+
+
+# ==   4.3  Continuous distributions: Kolmogorov-Smirnov test  =================
+
+# The Kolmogorov-Smirnov (KS) test is meant for continuous distributions, i.e.
+# the probability it calculates assumes that the function values are all
+# different. In the case of random samples, that is a reasonable assumption. KS
+# is a two-sample goodness of fit test, i.e. it has a null-hypothesis that the
+# samples were taken from the same (unknown) distribution, and then asks whether
+# this is likely, given the actual values. It is sensitive both to differences
+# in location (position of the mean), and differences in shape. R has the
+# ks.test() function to calculate it.
+
+ks.test(dl1, dl2)     # vs. shifted log-normal.
+ks.test(dl1, dg1.2)   # vs. the three gamma distributions
+ks.test(dl1, dg1.5)
+ks.test(dl1, dg1.9)
+ks.test(dg1.5, dg1.9) # the two last gammas against each other
+
+# (The warnings about the presence of ties comes from the 0's in our function
+# values). The p-value that these distributions are samples of the same
+# probability distribution gets progressively smaller.
+
+
+
+# [END]
diff --git a/FND-STA-Significance.R b/FND-STA-Significance.R
index d86dba9..3848e9b 100644
--- a/FND-STA-Significance.R
+++ b/FND-STA-Significance.R
@@ -1,351 +1,351 @@
-# tocID <- "FND-STA-Significance.R"
-#
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the FND-STA-Significance unit.
-#
-# Version:  1.3
-#
-# Date:     2017-09  - 2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.3    2020 Maintenance. Add sample solution.
-#           1.2    Update set.seed() usage
-#           1.1    Corrected treatment of empirical p-value
-#           1.0    First contents
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                              Line
-#TOC> ------------------------------------------------------------------
-#TOC>   1        Significance and p-value                             49
-#TOC>   1.1        Significance levels                                60
-#TOC>   1.2        probability and p-value                            77
-#TOC>   1.2.1          p-value illustrated                           109
-#TOC>   2        One- or two-sided                                   165
-#TOC>   3        Significance by integration                         209
-#TOC>   4        Significance by simulation or permutation           215
-#TOC>   5        Final tasks                                         327
-#TOC>   6        Sample solutions                                    336
-#TOC>   6.1                                                          338
-#TOC>   6.2                                                          342
-#TOC>   6.3                                                          346
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Significance and p-value  ============================================
-
-# The idea of the probability of an event has a precise mathematical
-# interpretation, but how is it useful to know the probability? Usually we are
-# interested in whether we should accept or reject a hypothesis based on the
-# observations we have. A rational way to do this is to say: if the probability
-# of observing the data is very small under the null-hypothesis, then we will
-# assume the observation is due to something other than the null-hypothesis. But
-# what do we mean by the "probability of our observation"? And what is "very
-# small"?
-
-# ==   1.1  Significance levels  ===============================================
-
-# A "very small" probability is purely a matter of convention - a cultural
-# convention. In the biomedical field we usually call probabilities of less then
-# 0.05 (5%) small enough to reject the null-hypothesis. Thus we call
-# observations with a probability of less than 0.05 "significant" and if we want
-# to highlight this in text or in a graph, we often mark them with an asterisk
-# (*). Also we often call observations with a probability of less than 0.01
-# "highly significant" and mark them with two asterisks (**). But there is no
-# special significance in these numbers, the cutoff point for significance could
-# also be 0.0498631, or 0.03, or 1/(pi^3). 0.05 is just the value that the
-# British statistician Ronald Fisher happened to propose for this purpose in
-# 1925. Incidentally, Fisher later recommended to use different cutoffs for
-# different purposes (cf.
-# https://en.wikipedia.org/wiki/Statistical_significance).
-
-
-# ==   1.2  probability and p-value  ===========================================
-
-# But what do we even mean by the probability of an observation?
-# Assume I am drawing samples from a normal distribution with a mean of 0 and a
-# standard deviation of 1. The sample I get is ...
-
-set.seed(sqrt(5))
-x <- rnorm(1)
-set.seed(NULL)
-
-print(x, digits = 22)
-# [1] -0.8969145466249813791748
-
-# So what's the probability of that number? Obviously, the probability of
-# getting exactly this number is very, very, very small. But also obviously,
-# this does not mean that observing this number is in any way significant - we
-# always observe some number. That's not what we mean in this case. There are
-# several implicit assumptions when we speak of the probability of an
-# observation:
-
-# 1: the observation can be compared to a probability distribution;
-# 2: that distribution can be integrated between any specific value
-#      and its upper and lower bounds (or +- infinity).
-
-# Then what we really mean by the probability of an observation in the context
-# of that distribution is: the probability of observing that value, or a value
-# more extreme than the one we have. We call this the p-value. Note that we are
-# not talking about an individual number anymore, we are talking about the area
-# under the curve between our observation and the upper (or lower) bound of the
-# curve, as a fraction of the whole.
-
-
-# ===   1.2.1  p-value illustrated                      
-
-# Let's illustrate. First we draw a million random values from our
-# standard, normal distribution:
-
-N <- 1e6                             # one million
-set.seed(112358)                     # set RNG seed for repeatable randomness
-r <- rnorm(N)                        # N values from a normal distribution
-set.seed(NULL)                       # reset the RNG
-
-# Let's see what the distribution looks like:
-
-(h <- hist(r))
-
-# The histogram details are now available in the list h -  e.g. h$counts
-
-# Where is the value we have drawn previously?
-abline(v = x, col = "#EE0000")
-
-# How many values are smaller?
-sum(r < x)
-
-# Let's color the bars:
-#    first, make a vector of red and green colors for the bars with breaks
-#    smaller and larger then x, white for the bar that contains x ...
-hCol <- rep("#EE000044", sum(h$breaks < x) - 1)
-hCol <- c(hCol, "#FFFFFFFF")
-hCol <- c(hCol, rep("#00EE0044", sum(h$breaks > x) - 1))
-# ... then plot the histogram, with colored bars ...
-hist(r, col = hCol)
-# ... add two colored rectangles into the white bar ...
-idx <- sum(h$breaks < x)
-xMin <- h$breaks[idx]
-xMax <- h$breaks[idx + 1]
-y <- h$counts[idx]
-rect(xMin, 0, x, y, col = "#EE000044", border = TRUE)
-rect(x, 0, xMax, y, col = "#00EE0044", border = TRUE)
-# ... and a red line for our observation.
-abline(v = x, col = "#EE0000", lwd = 2)
-
-# The p-value of our observation is the red area as a fraction of the
-# whole histogram (red + green).
-
-
-# Task:
-#    Explain how the expression sum(r < x) works to give us a count of values
-#    with the property we are looking for. E.g., examine -4:4 < x
-
-# Task:
-#    Write an expression to estimate the probability that a value
-#    drawn from the vector r is less-or-equal to x. The result you get
-#    will depend on the exact values that went into the vector r but it should
-#    be close to 0.185  That expression is the p-value associated with x.
-#    (Sample solution 6.1)
-
-
-# =    2  One- or two-sided  ===================================================
-
-# The shape of our histogram confirms that the rnorm() function has returned
-# values that appear distributed according to a normal distribution. In a normal
-# distribution, readily available tables tell us that 5% of the values (i.e. our
-# significance level) lie 1.96 (or approximately 2) standard deviations away
-# from the mean. Is this the case here? How many values in our vector r are
-# larger than 1.96?
-
-sum(r > 1.96)
-# [1] 24589
-
-# Wait - that's about 2.5% of 1,000,000, not 5% as expected. Why?
-
-# The answer is: we have to be careful with two-sided distributions. 2 standard
-# deviations away from the mean means either larger or smaller than 1.96 . This
-# can give rise to errors. If we are simply are interested in outliers, no
-# matter larger or smaller, then the 1.96 SD cutoff for significance is correct.
-# But if we are specifically interested in, say, larger values, because a
-# smaller value is not meaningful, then the significance cutoff, expressed as
-# standard deviations, is relaxed. We can use the quantile function to see what
-# the cutoff values are:
-
-quantile(r)
-quantile(r, probs = c(0.025, 0.975)) # for the symmetric 2.5% boundaries
-# close to ± 1.96, as expected
-quantile(r, probs = 0.95) # for the single 5% boundary
-# close to 1.64 . Check counts to confirm:
-sum(r > quantile(r, probs = 0.95))
-# [1] 50000
-# which is 5%, as expected.
-
-# Task:
-# Use abline() to add the p = 0.05 boundary for smaller values to the histogram.
-# (Sample solution 6.2)
-
-# To summarize: when we evaluate the significance of an event, we divide a
-# probability distribution into two parts at the point where the event was
-# observed. We then ask whether the integral over the more extreme part is less
-# or more than 5% of the whole. If it is less, we deem the event to be
-# significant.
-#
-
-
-# =    3  Significance by integration  =========================================
-
-# If the underlying probability distribution can be analytically or numerically
-# integrated, the siginificance of an observation can be directly computed.
-
-
-# =    4  Significance by simulation or permutation  ===========================
-
-# But whether the integration is correct, or relies on assumptions that may not
-# be warranted for biological data, can be a highly technical question.
-# Fortunately, we can often simply run a simulation, a random resampling, or a
-# permutation and then count the number of outcomes, just as we did with our
-# rnorm() samples. We call this an empirical p-value. (Actually, the "empirical
-# p-value" is defined as (Nobs + 1) / (N + 1).  )
-
-# Here is an example. Assume you have a protein sequence and
-# you speculate that positively charged residues are close to negatively charged
-# residues to balance charge locally. A statistic that would capture this is the
-# mean minimum distance between all D,E residues and the closest R,K,H
-# residue. Let's compute this for the sequence of yeast Mbp1.
-
-MBP1 <- paste0("MSNQIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLK",
-               "ETHEKVQGGFGKYQGTWVPLNIAKQLAEKFSVYDQLKPLFDFTQTDGSASPPPAPKHHHA",
-               "SKVDRKKAIRSASTSAIMETKRNNKKAEENQFQSSKILGNPTAAPRKRGRPVGSTRGSRR",
-               "KLGVNLQRSQSDMGFPRPAIPNSSISTTQLPSIRSTMGPQSPTLGILEEERHDSRQQQPQ",
-               "QNNSAQFKEIDLEDGLSSDVEPSQQLQQVFNQNTGFVPQQQSSLIQTQQTESMATSVSSS",
-               "PSLPTSPGDFADSNPFEERFPGGGTSPIISMIPRYPVTSRPQTSDINDKVNKYLSKLVDY",
-               "FISNEMKSNKSLPQVLLHPPPHSAPYIDAPIDPELHTAFHWACSMGNLPIAEALYEAGTS",
-               "IRSTNSQGQTPLMRSSLFHNSYTRRTFPRIFQLLHETVFDIDSQSQTVIHHIVKRKSTTP",
-               "SAVYYLDVVLSKIKDFSPQYRIELLLNTQDKNGDTALHIASKNGDVVFFNTLVKMGALTT",
-               "ISNKEGLTANEIMNQQYEQMMIQNGTNQHVNSSNTDLNIHVNTNNIETKNDVNSMVIMSP",
-               "VSPSDYITYPSQIATNISRNIPNVVNSMKQMASIYNDLHEQHDNEIKSLQKTLKSISKTK",
-               "IQVSLKTLEVLKESSKDENGEAQTNDDFEILSRLQEQNTKKLRKRLIRYKRLIKQKLEYR",
-               "QTVLLNKLIEDETQATTNNTVEKDNNTLERLELAQELTMLQLQRKNKLSSLVKKFEDNAK",
-               "IHKYRRIIREGTEMNIEEVDSSLDVILQTLIANNNKNKGAEQIITISNANSHA")
-
-# first we split this string into individual characters:
-v <- unlist(strsplit(MBP1, ""))
-
-# and find the positions of our charged residues
-
-ED  <- grep("[ED]", v)
-RKH <- grep("[RKH]", v)
-
-sep <- numeric(length(ED)) # this vector will hold the distances
-for (i in seq_along(ED)) {
-  sep[i] <- min(abs(RKH - ED[i]))
-}
-
-# Task: read and explain this bit of code
-
-# Now that sep is computed, what does it look like?
-
-table(sep)  # these are the minimum distances
-# 24 of D,E residues are adjacent to R,K,H;
-# the longest separation is 28 residues.
-
-# What is the mean separation?
-mean(sep)
-
-# The value is 4.1 . Is this significant? Honestly, I would be hard pressed
-# to solve this analytically. But by permutation it's soooo easy.
-
-# First, we combine what we have done above into a function:
-
-chSep <- function(v) {
-  # computes the mean minimum separation of oppositely charged residues
-  # Parameter: v (char) a vector of amino acids in the one-letter code
-  # Value: msep (numeric) mean minimum separation
-
-  ED  <- grep("[EDed]", v)
-  RKH <- grep("[RKHrkh]", v)
-
-  sep <- numeric(length(ED))
-  for (i in seq_along(ED)) {
-    sep[i] <- min(abs(RKH - ED[i]))
-  }
-  return(mean(sep))
-}
-
-# Execute the function to define it.
-
-# Confirm that the function gives the same result as the number we
-# calculated above:
-chSep(v)
-
-# Now we can produce a random permutation of v, and recalculate
-
-set.seed(pi)                       # set RNG seed for repeatable randomness
-w <- sample(v, length(v))          # This shuffles the vector v. Memorize this
-                                   # code paradigm. It is very useful.
-set.seed(NULL)                     # reset the RNG
-
-
-
-chSep(w)
-# 3.773 ... that's actually less than what we had before.
-
-# Let's do this 10000 times and record the results (takes a few seconds):
-
-N <- 10000
-chs <- numeric(N)
-for (i in 1:N) {
-  chs[i] <- chSep(sample(v, length(v))) # charge
-}
-
-hist(chs, breaks = 50)
-abline(v = chSep(v), col = "#EE0000")
-
-# Contrary to our expectations, the actual observed mean minimum charge
-# separation seems to be larger than what we observe in randomly permuted
-# sequences. But is this significant? Your task to find out.
-
-# Task:
-# Calculate the empirical p-value for chsep(v)
-# (Sample solution 6.3)
-
-
-# =    5  Final tasks  =========================================================
-
-# From chs, compute the empirical p-value of a mean minimum charge separation to
-#   be larger or equal to the value observed for the yeast MBP1 sequence. Note
-#   the result in your journal. Is it significant? Also note the result of
-#   the following expression for validation:
-seal(sum(chs))
-
-
-# =    6  Sample solutions  ====================================================
-
-# ==   6.1    ==================================================================
-#
-sum(r <= x) / length(r)
-
-# ==   6.2    ==================================================================
-#
-abline(v = quantile(r, probs = c(0.05)))
-
-# ==   6.3    ==================================================================
-#
-( x <- (sum(chs >= chSep(v)) + 1) / (length(chs) + 1) )
-
-
-# [END]
+# tocID <- "FND-STA-Significance.R"
+#
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the FND-STA-Significance unit.
+#
+# Version:  1.3
+#
+# Date:     2017-09  - 2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.3    2020 Maintenance. Add sample solution.
+#           1.2    Update set.seed() usage
+#           1.1    Corrected treatment of empirical p-value
+#           1.0    First contents
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                              Line
+#TOC> ------------------------------------------------------------------
+#TOC>   1        Significance and p-value                             49
+#TOC>   1.1        Significance levels                                60
+#TOC>   1.2        probability and p-value                            77
+#TOC>   1.2.1          p-value illustrated                           109
+#TOC>   2        One- or two-sided                                   165
+#TOC>   3        Significance by integration                         209
+#TOC>   4        Significance by simulation or permutation           215
+#TOC>   5        Final tasks                                         327
+#TOC>   6        Sample solutions                                    336
+#TOC>   6.1                                                          338
+#TOC>   6.2                                                          342
+#TOC>   6.3                                                          346
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Significance and p-value  ============================================
+
+# The idea of the probability of an event has a precise mathematical
+# interpretation, but how is it useful to know the probability? Usually we are
+# interested in whether we should accept or reject a hypothesis based on the
+# observations we have. A rational way to do this is to say: if the probability
+# of observing the data is very small under the null-hypothesis, then we will
+# assume the observation is due to something other than the null-hypothesis. But
+# what do we mean by the "probability of our observation"? And what is "very
+# small"?
+
+# ==   1.1  Significance levels  ===============================================
+
+# A "very small" probability is purely a matter of convention - a cultural
+# convention. In the biomedical field we usually call probabilities of less then
+# 0.05 (5%) small enough to reject the null-hypothesis. Thus we call
+# observations with a probability of less than 0.05 "significant" and if we want
+# to highlight this in text or in a graph, we often mark them with an asterisk
+# (*). Also we often call observations with a probability of less than 0.01
+# "highly significant" and mark them with two asterisks (**). But there is no
+# special significance in these numbers, the cutoff point for significance could
+# also be 0.0498631, or 0.03, or 1/(pi^3). 0.05 is just the value that the
+# British statistician Ronald Fisher happened to propose for this purpose in
+# 1925. Incidentally, Fisher later recommended to use different cutoffs for
+# different purposes (cf.
+# https://en.wikipedia.org/wiki/Statistical_significance).
+
+
+# ==   1.2  probability and p-value  ===========================================
+
+# But what do we even mean by the probability of an observation?
+# Assume I am drawing samples from a normal distribution with a mean of 0 and a
+# standard deviation of 1. The sample I get is ...
+
+set.seed(sqrt(5))
+x <- rnorm(1)
+set.seed(NULL)
+
+print(x, digits = 22)
+# [1] -0.8969145466249813791748
+
+# So what's the probability of that number? Obviously, the probability of
+# getting exactly this number is very, very, very small. But also obviously,
+# this does not mean that observing this number is in any way significant - we
+# always observe some number. That's not what we mean in this case. There are
+# several implicit assumptions when we speak of the probability of an
+# observation:
+
+# 1: the observation can be compared to a probability distribution;
+# 2: that distribution can be integrated between any specific value
+#      and its upper and lower bounds (or +- infinity).
+
+# Then what we really mean by the probability of an observation in the context
+# of that distribution is: the probability of observing that value, or a value
+# more extreme than the one we have. We call this the p-value. Note that we are
+# not talking about an individual number anymore, we are talking about the area
+# under the curve between our observation and the upper (or lower) bound of the
+# curve, as a fraction of the whole.
+
+
+# ===   1.2.1  p-value illustrated                      
+
+# Let's illustrate. First we draw a million random values from our
+# standard, normal distribution:
+
+N <- 1e6                             # one million
+set.seed(112358)                     # set RNG seed for repeatable randomness
+r <- rnorm(N)                        # N values from a normal distribution
+set.seed(NULL)                       # reset the RNG
+
+# Let's see what the distribution looks like:
+
+(h <- hist(r))
+
+# The histogram details are now available in the list h -  e.g. h$counts
+
+# Where is the value we have drawn previously?
+abline(v = x, col = "#EE0000")
+
+# How many values are smaller?
+sum(r < x)
+
+# Let's color the bars:
+#    first, make a vector of red and green colors for the bars with breaks
+#    smaller and larger then x, white for the bar that contains x ...
+hCol <- rep("#EE000044", sum(h$breaks < x) - 1)
+hCol <- c(hCol, "#FFFFFFFF")
+hCol <- c(hCol, rep("#00EE0044", sum(h$breaks > x) - 1))
+# ... then plot the histogram, with colored bars ...
+hist(r, col = hCol)
+# ... add two colored rectangles into the white bar ...
+idx <- sum(h$breaks < x)
+xMin <- h$breaks[idx]
+xMax <- h$breaks[idx + 1]
+y <- h$counts[idx]
+rect(xMin, 0, x, y, col = "#EE000044", border = TRUE)
+rect(x, 0, xMax, y, col = "#00EE0044", border = TRUE)
+# ... and a red line for our observation.
+abline(v = x, col = "#EE0000", lwd = 2)
+
+# The p-value of our observation is the red area as a fraction of the
+# whole histogram (red + green).
+
+
+# Task:
+#    Explain how the expression sum(r < x) works to give us a count of values
+#    with the property we are looking for. E.g., examine -4:4 < x
+
+# Task:
+#    Write an expression to estimate the probability that a value
+#    drawn from the vector r is less-or-equal to x. The result you get
+#    will depend on the exact values that went into the vector r but it should
+#    be close to 0.185  That expression is the p-value associated with x.
+#    (Sample solution 6.1)
+
+
+# =    2  One- or two-sided  ===================================================
+
+# The shape of our histogram confirms that the rnorm() function has returned
+# values that appear distributed according to a normal distribution. In a normal
+# distribution, readily available tables tell us that 5% of the values (i.e. our
+# significance level) lie 1.96 (or approximately 2) standard deviations away
+# from the mean. Is this the case here? How many values in our vector r are
+# larger than 1.96?
+
+sum(r > 1.96)
+# [1] 24589
+
+# Wait - that's about 2.5% of 1,000,000, not 5% as expected. Why?
+
+# The answer is: we have to be careful with two-sided distributions. 2 standard
+# deviations away from the mean means either larger or smaller than 1.96 . This
+# can give rise to errors. If we are simply are interested in outliers, no
+# matter larger or smaller, then the 1.96 SD cutoff for significance is correct.
+# But if we are specifically interested in, say, larger values, because a
+# smaller value is not meaningful, then the significance cutoff, expressed as
+# standard deviations, is relaxed. We can use the quantile function to see what
+# the cutoff values are:
+
+quantile(r)
+quantile(r, probs = c(0.025, 0.975)) # for the symmetric 2.5% boundaries
+# close to ± 1.96, as expected
+quantile(r, probs = 0.95) # for the single 5% boundary
+# close to 1.64 . Check counts to confirm:
+sum(r > quantile(r, probs = 0.95))
+# [1] 50000
+# which is 5%, as expected.
+
+# Task:
+# Use abline() to add the p = 0.05 boundary for smaller values to the histogram.
+# (Sample solution 6.2)
+
+# To summarize: when we evaluate the significance of an event, we divide a
+# probability distribution into two parts at the point where the event was
+# observed. We then ask whether the integral over the more extreme part is less
+# or more than 5% of the whole. If it is less, we deem the event to be
+# significant.
+#
+
+
+# =    3  Significance by integration  =========================================
+
+# If the underlying probability distribution can be analytically or numerically
+# integrated, the siginificance of an observation can be directly computed.
+
+
+# =    4  Significance by simulation or permutation  ===========================
+
+# But whether the integration is correct, or relies on assumptions that may not
+# be warranted for biological data, can be a highly technical question.
+# Fortunately, we can often simply run a simulation, a random resampling, or a
+# permutation and then count the number of outcomes, just as we did with our
+# rnorm() samples. We call this an empirical p-value. (Actually, the "empirical
+# p-value" is defined as (Nobs + 1) / (N + 1).  )
+
+# Here is an example. Assume you have a protein sequence and
+# you speculate that positively charged residues are close to negatively charged
+# residues to balance charge locally. A statistic that would capture this is the
+# mean minimum distance between all D,E residues and the closest R,K,H
+# residue. Let's compute this for the sequence of yeast Mbp1.
+
+MBP1 <- paste0("MSNQIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLK",
+               "ETHEKVQGGFGKYQGTWVPLNIAKQLAEKFSVYDQLKPLFDFTQTDGSASPPPAPKHHHA",
+               "SKVDRKKAIRSASTSAIMETKRNNKKAEENQFQSSKILGNPTAAPRKRGRPVGSTRGSRR",
+               "KLGVNLQRSQSDMGFPRPAIPNSSISTTQLPSIRSTMGPQSPTLGILEEERHDSRQQQPQ",
+               "QNNSAQFKEIDLEDGLSSDVEPSQQLQQVFNQNTGFVPQQQSSLIQTQQTESMATSVSSS",
+               "PSLPTSPGDFADSNPFEERFPGGGTSPIISMIPRYPVTSRPQTSDINDKVNKYLSKLVDY",
+               "FISNEMKSNKSLPQVLLHPPPHSAPYIDAPIDPELHTAFHWACSMGNLPIAEALYEAGTS",
+               "IRSTNSQGQTPLMRSSLFHNSYTRRTFPRIFQLLHETVFDIDSQSQTVIHHIVKRKSTTP",
+               "SAVYYLDVVLSKIKDFSPQYRIELLLNTQDKNGDTALHIASKNGDVVFFNTLVKMGALTT",
+               "ISNKEGLTANEIMNQQYEQMMIQNGTNQHVNSSNTDLNIHVNTNNIETKNDVNSMVIMSP",
+               "VSPSDYITYPSQIATNISRNIPNVVNSMKQMASIYNDLHEQHDNEIKSLQKTLKSISKTK",
+               "IQVSLKTLEVLKESSKDENGEAQTNDDFEILSRLQEQNTKKLRKRLIRYKRLIKQKLEYR",
+               "QTVLLNKLIEDETQATTNNTVEKDNNTLERLELAQELTMLQLQRKNKLSSLVKKFEDNAK",
+               "IHKYRRIIREGTEMNIEEVDSSLDVILQTLIANNNKNKGAEQIITISNANSHA")
+
+# first we split this string into individual characters:
+v <- unlist(strsplit(MBP1, ""))
+
+# and find the positions of our charged residues
+
+ED  <- grep("[ED]", v)
+RKH <- grep("[RKH]", v)
+
+sep <- numeric(length(ED)) # this vector will hold the distances
+for (i in seq_along(ED)) {
+  sep[i] <- min(abs(RKH - ED[i]))
+}
+
+# Task: read and explain this bit of code
+
+# Now that sep is computed, what does it look like?
+
+table(sep)  # these are the minimum distances
+# 24 of D,E residues are adjacent to R,K,H;
+# the longest separation is 28 residues.
+
+# What is the mean separation?
+mean(sep)
+
+# The value is 4.1 . Is this significant? Honestly, I would be hard pressed
+# to solve this analytically. But by permutation it's soooo easy.
+
+# First, we combine what we have done above into a function:
+
+chSep <- function(v) {
+  # computes the mean minimum separation of oppositely charged residues
+  # Parameter: v (char) a vector of amino acids in the one-letter code
+  # Value: msep (numeric) mean minimum separation
+
+  ED  <- grep("[EDed]", v)
+  RKH <- grep("[RKHrkh]", v)
+
+  sep <- numeric(length(ED))
+  for (i in seq_along(ED)) {
+    sep[i] <- min(abs(RKH - ED[i]))
+  }
+  return(mean(sep))
+}
+
+# Execute the function to define it.
+
+# Confirm that the function gives the same result as the number we
+# calculated above:
+chSep(v)
+
+# Now we can produce a random permutation of v, and recalculate
+
+set.seed(pi)                       # set RNG seed for repeatable randomness
+w <- sample(v, length(v))          # This shuffles the vector v. Memorize this
+                                   # code paradigm. It is very useful.
+set.seed(NULL)                     # reset the RNG
+
+
+
+chSep(w)
+# 3.773 ... that's actually less than what we had before.
+
+# Let's do this 10000 times and record the results (takes a few seconds):
+
+N <- 10000
+chs <- numeric(N)
+for (i in 1:N) {
+  chs[i] <- chSep(sample(v, length(v))) # charge
+}
+
+hist(chs, breaks = 50)
+abline(v = chSep(v), col = "#EE0000")
+
+# Contrary to our expectations, the actual observed mean minimum charge
+# separation seems to be larger than what we observe in randomly permuted
+# sequences. But is this significant? Your task to find out.
+
+# Task:
+# Calculate the empirical p-value for chsep(v)
+# (Sample solution 6.3)
+
+
+# =    5  Final tasks  =========================================================
+
+# From chs, compute the empirical p-value of a mean minimum charge separation to
+#   be larger or equal to the value observed for the yeast MBP1 sequence. Note
+#   the result in your journal. Is it significant? Also note the result of
+#   the following expression for validation:
+seal(sum(chs))
+
+
+# =    6  Sample solutions  ====================================================
+
+# ==   6.1    ==================================================================
+#
+sum(r <= x) / length(r)
+
+# ==   6.2    ==================================================================
+#
+abline(v = quantile(r, probs = c(0.05)))
+
+# ==   6.3    ==================================================================
+#
+( x <- (sum(chs >= chSep(v)) + 1) / (length(chs) + 1) )
+
+
+# [END]
diff --git a/README.md b/README.md
index dd3087f..6818577 100644
--- a/README.md
+++ b/README.md
@@ -1,3 +1,3 @@
-# BCH441-WORK-ABC-units
-
+# BCH441-WORK-ABC-units
+
 This is a fork of the project [ABC-units](https://github.com/hyginn/ABC-units) designed for BCH441. This setup allows changes to be committed here but updates pushed to the original repository can be fetched and pulled to keep up to date.
\ No newline at end of file
diff --git a/RPR-Biostrings.R b/RPR-Biostrings.R
index 0af5c4a..bd614f5 100644
--- a/RPR-Biostrings.R
+++ b/RPR-Biostrings.R
@@ -1,245 +1,245 @@
-# tocID <- "RPR-Biostrings.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the RPR-Biostrings unit.
-#
-# Version:  1.2
-#
-# Date:     2017-10  -  2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    2020 Updates
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-#           1.0    2017 Revisions
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                             Line
-#TOC> -----------------------------------------------------------------
-#TOC>   1        The Biostrings:: Package                            56
-#TOC>   2        Getting Data into Biostrings:: Objects              88
-#TOC>   3        Working with Biostrings:: Objects                  110
-#TOC>   3.1        Properties                                       127
-#TOC>   3.2        Subsetting                                       168
-#TOC>   3.3        Operators                                        180
-#TOC>   3.4        Transformations                                  187
-#TOC>   4        Getting Data out of Biostrings:: Objects           194
-#TOC>   5        More                                               203
-#TOC>   5.1        Views                                            205
-#TOC>   5.2        Iranges                                          219
-#TOC>   5.3        StringSets                                       225
-#TOC> 
-#TOC> ==========================================================================
-
-
-# This is a very brief introduction to the Biostrings:: package, other units will
-# be using more of the Biostrings:: functions.
-
-
-# =    1  The Biostrings:: Package  ============================================
-
-
-# First, we install and load the Biostrings:: package from bioconductor (if we
-# haven't done so already).
-
-if (! requireNamespace("BiocManager", quietly = TRUE)) {
-  install.packages("BiocManager")
-}
-if (! requireNamespace("Biostrings", quietly = TRUE)) {
-  BiocManager::install("Biostrings")
-}
-# Examine the package information:
-library(help = Biostrings)       # basic information
-browseVignettes("Biostrings")    # available vignettes
-data(package = "Biostrings")     # available datasets
-
-
-# At its core, Biostrings:: objects are "classes" of type XString (you can think
-# of a "class" in R as a special kind of list), that can take on particular
-# flavours for RNA, DNA or amino acid sequence information.
-
-class(Biostrings::RNAString("AUG"))
-class(Biostrings::DNAString("ATG"))
-class(Biostrings::AAString("M"))
-
-# An essential property of Biostrings:: objects is that they only allow letters
-# from the applicable IUPAC alphabet:
-Biostrings::RNAString("AUG")
-Biostrings::DNAString("AUG")  # Error! No "U" in IUPAC DNA codes
-
-
-# =    2  Getting Data into Biostrings:: Objects  ==============================
-
-
-# Example: read FASTA. Extract sequence. Convert to DNAString object.
-rawSeq <- readLines("./data/S288C_YDL056W_MBP1_coding.fsa")
-rawSeq <- dbSanitizeSequence(rawSeq)
-biosDNAseq <- Biostrings::DNAString(rawSeq) # converts the nucleotide sequence
-                                            # into an object of class DNAstring
-
-# Multi FASTA files can be read directly as a "XStringSet) ...
-rawMFAfile <- "./data/S288C_YDL056W_MBP1_coding.fsa"
-(biosDNASet <- Biostrings::readDNAStringSet(rawMFAfile))
-
-# ... and if you subset one sequence from the set, you get an XString object
-# back again.
-(Xseq <- biosDNASet[[1]])
-
-biosDNAseq == Xseq           # the comparison evaluates to TRUE ...
-identical(biosDNAseq, Xseq)  # ... and indeed the objects are deemed identical.
-
-
-
-# =    3  Working with Biostrings:: Objects  ===================================
-
-# Biostrings:: is a highly engineered package that is tightly integrated into
-# the Bioconductor world - unfortunately that brings with it a somewhat
-# undesirable level of computational overhead and dependencies. Using the
-# package as we normally do - i.e. calling required functions with their
-# explicit package prefix is therefore not advisable. There are generics
-# that won't be propery dispatched. If you only need a small number of
-# functions for a very specific context, you will probably get away with
-# Biostrings::() - but even in the demonstration code of this script
-# not everything works out of the box. We'll therefore load the library,
-# but we'll (redundantly) use the prefix anyway so as to emphasize where
-# the functions come from.
-
-library(Biostrings)
-
-
-# ==   3.1  Properties  ========================================================
-str(rawSeq)
-str(biosDNAseq)
-
-length(rawSeq)       # ... is 1: one string only. To get the number of
-                     # characters in a string, you need nchar().
-length(biosDNAseq)   # but the length of a "Bstring" is the number of elements
-nchar(rawSeq)
-nchar(biosDNAseq)    # ... but nchar() works too.
-
-(uL <- Biostrings::uniqueLetters(biosDNAseq))
-
-# Count frequencies - with strings, you would strsplit() into a character
-# vector and then use table(). biost
-Biostrings::alphabetFrequency(biosDNAseq)
-
-# letterFrequency() works with a defined alphabet - such as what uniqueLetters()
-# returns.
-Biostrings::letterFrequency(biosDNAseq, uL)
-sum(Biostrings::letterFrequency(biosDNAseq, c("G", "C"))) /
-  length(biosDNAseq) # GC contents
-
-Biostrings::dinucleotideFrequency(biosDNAseq)
-barplot(sort(Biostrings::dinucleotideFrequency(biosDNAseq)), cex.names = 0.5)
-
-(triNuc <- Biostrings::trinucleotideFrequency(biosDNAseq))
-barplot(sort(triNuc), col="#4499EE33")
-triNuc[triNuc == max(triNuc)]
-triNuc[triNuc == min(triNuc)]
-max(triNuc) / min(triNuc)  # AAA is more than 13 times as frequent as CGT
-
-# compare to a shuffled sequence:
-(triNuc <- Biostrings::trinucleotideFrequency(sample(biosDNAseq)))
-barplot(sort(triNuc), col="#EEEE4433", add = TRUE)
-max(triNuc)
-# Interpret this plot.
-(triNuc <- Biostrings::trinucleotideFrequency(sample(biosDNAseq)))
-barplot(sort(triNuc), col="#EEEE4433")
-max(triNuc)
-
-
-# ==   3.2  Subsetting  ========================================================
-
-# Subsetting any XString object works as expected:
-biosDNAseq[4:15]
-
-# ... well - maybe not expected, because rawSeq[4:15] would not work.
-
-# Alternatively to the "[" operator, use the subseq() function - especially for
-# long sequences. This is far more efficient.
-Biostrings::subseq(biosDNAseq, start = 1, end = 30)
-
-
-# ==   3.3  Operators  =========================================================
-
-# RNAstring() and DNAstring() objects compare U and T as equals!
-  Biostrings::RNAString("AUGUCUAACCAAAUAUACUCAGCGAGAUAU") ==
-  Biostrings::DNAString("ATGTCTAACCAAATATACTCAGCGAGATAT")
-
-
-# ==   3.4  Transformations  ===================================================
-
-biosDNAseq[4:15]
-Biostrings::reverseComplement(biosDNAseq[4:15])
-Biostrings::translate(biosDNAseq[4:15])
-
-
-# =    4  Getting Data out of Biostrings:: Objects  ============================
-
-# If you need a character object, use toString():
-
-Biostrings::toString(biosDNAseq[4:15])
-
-# saveRDS() and readRDS() works like on all other R objects.
-
-
-# =    5  More  ================================================================
-
-# ==   5.1  Views  =============================================================
-
-# Biostring "Views" are objects that store multiple substrings of one
-# Biostring object.
-
-(myView <- Biostrings::Views(biosDNAseq,
-                             start = c(1, 19, 37),
-                             end = c(15, 30, 45)))
-
-# Views are convenient to store feature annotations
-names(myView) <- c("Feature-A", "Feature-B", "Feature-C")
-cat(sprintf("\n%s\t(%d)\t%s", names(myView), width(myView), myView ))
-
-
-# ==   5.2  Iranges  ===========================================================
-
-# Biostrings:: Iranges are like Views with a common start point. These can be
-# useful for feature annotations. Instead of start/end you store start/width.
-
-
-# ==   5.3  StringSets  ========================================================
-
-# Biostring "StringSets" store multiple sequences.
-#
-ompA <- Biostrings::AAString("MKKTAIAIAVALAGFATVAQA")
-sample(ompA) # sample can work directly on a Biostring object to shuffle it
-
-x <- Biostrings::toString(ompA)
-for (i in 2:10) {
-  x[i] <- Biostrings::toString(sample(ompA))
-}
-shuffledPeptideSet <- Biostrings::AAStringSet(x)
-names(shuffledPeptideSet) <- c("ompA", paste("shuffle.", 1:9, sep=""))
-shuffledPeptideSet
-
-length(shuffledPeptideSet)
-Biostrings::width(shuffledPeptideSet)
-Biostrings::alphabetFrequency(shuffledPeptideSet)
-
-
-# [END]
+# tocID <- "RPR-Biostrings.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the RPR-Biostrings unit.
+#
+# Version:  1.2
+#
+# Date:     2017-10  -  2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    2020 Updates
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+#           1.0    2017 Revisions
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                             Line
+#TOC> -----------------------------------------------------------------
+#TOC>   1        The Biostrings:: Package                            56
+#TOC>   2        Getting Data into Biostrings:: Objects              88
+#TOC>   3        Working with Biostrings:: Objects                  110
+#TOC>   3.1        Properties                                       127
+#TOC>   3.2        Subsetting                                       168
+#TOC>   3.3        Operators                                        180
+#TOC>   3.4        Transformations                                  187
+#TOC>   4        Getting Data out of Biostrings:: Objects           194
+#TOC>   5        More                                               203
+#TOC>   5.1        Views                                            205
+#TOC>   5.2        Iranges                                          219
+#TOC>   5.3        StringSets                                       225
+#TOC> 
+#TOC> ==========================================================================
+
+
+# This is a very brief introduction to the Biostrings:: package, other units will
+# be using more of the Biostrings:: functions.
+
+
+# =    1  The Biostrings:: Package  ============================================
+
+
+# First, we install and load the Biostrings:: package from bioconductor (if we
+# haven't done so already).
+
+if (! requireNamespace("BiocManager", quietly = TRUE)) {
+  install.packages("BiocManager")
+}
+if (! requireNamespace("Biostrings", quietly = TRUE)) {
+  BiocManager::install("Biostrings")
+}
+# Examine the package information:
+library(help = Biostrings)       # basic information
+browseVignettes("Biostrings")    # available vignettes
+data(package = "Biostrings")     # available datasets
+
+
+# At its core, Biostrings:: objects are "classes" of type XString (you can think
+# of a "class" in R as a special kind of list), that can take on particular
+# flavours for RNA, DNA or amino acid sequence information.
+
+class(Biostrings::RNAString("AUG"))
+class(Biostrings::DNAString("ATG"))
+class(Biostrings::AAString("M"))
+
+# An essential property of Biostrings:: objects is that they only allow letters
+# from the applicable IUPAC alphabet:
+Biostrings::RNAString("AUG")
+Biostrings::DNAString("AUG")  # Error! No "U" in IUPAC DNA codes
+
+
+# =    2  Getting Data into Biostrings:: Objects  ==============================
+
+
+# Example: read FASTA. Extract sequence. Convert to DNAString object.
+rawSeq <- readLines("./data/S288C_YDL056W_MBP1_coding.fsa")
+rawSeq <- dbSanitizeSequence(rawSeq)
+biosDNAseq <- Biostrings::DNAString(rawSeq) # converts the nucleotide sequence
+                                            # into an object of class DNAstring
+
+# Multi FASTA files can be read directly as a "XStringSet) ...
+rawMFAfile <- "./data/S288C_YDL056W_MBP1_coding.fsa"
+(biosDNASet <- Biostrings::readDNAStringSet(rawMFAfile))
+
+# ... and if you subset one sequence from the set, you get an XString object
+# back again.
+(Xseq <- biosDNASet[[1]])
+
+biosDNAseq == Xseq           # the comparison evaluates to TRUE ...
+identical(biosDNAseq, Xseq)  # ... and indeed the objects are deemed identical.
+
+
+
+# =    3  Working with Biostrings:: Objects  ===================================
+
+# Biostrings:: is a highly engineered package that is tightly integrated into
+# the Bioconductor world - unfortunately that brings with it a somewhat
+# undesirable level of computational overhead and dependencies. Using the
+# package as we normally do - i.e. calling required functions with their
+# explicit package prefix is therefore not advisable. There are generics
+# that won't be propery dispatched. If you only need a small number of
+# functions for a very specific context, you will probably get away with
+# Biostrings::() - but even in the demonstration code of this script
+# not everything works out of the box. We'll therefore load the library,
+# but we'll (redundantly) use the prefix anyway so as to emphasize where
+# the functions come from.
+
+library(Biostrings)
+
+
+# ==   3.1  Properties  ========================================================
+str(rawSeq)
+str(biosDNAseq)
+
+length(rawSeq)       # ... is 1: one string only. To get the number of
+                     # characters in a string, you need nchar().
+length(biosDNAseq)   # but the length of a "Bstring" is the number of elements
+nchar(rawSeq)
+nchar(biosDNAseq)    # ... but nchar() works too.
+
+(uL <- Biostrings::uniqueLetters(biosDNAseq))
+
+# Count frequencies - with strings, you would strsplit() into a character
+# vector and then use table(). biost
+Biostrings::alphabetFrequency(biosDNAseq)
+
+# letterFrequency() works with a defined alphabet - such as what uniqueLetters()
+# returns.
+Biostrings::letterFrequency(biosDNAseq, uL)
+sum(Biostrings::letterFrequency(biosDNAseq, c("G", "C"))) /
+  length(biosDNAseq) # GC contents
+
+Biostrings::dinucleotideFrequency(biosDNAseq)
+barplot(sort(Biostrings::dinucleotideFrequency(biosDNAseq)), cex.names = 0.5)
+
+(triNuc <- Biostrings::trinucleotideFrequency(biosDNAseq))
+barplot(sort(triNuc), col="#4499EE33")
+triNuc[triNuc == max(triNuc)]
+triNuc[triNuc == min(triNuc)]
+max(triNuc) / min(triNuc)  # AAA is more than 13 times as frequent as CGT
+
+# compare to a shuffled sequence:
+(triNuc <- Biostrings::trinucleotideFrequency(sample(biosDNAseq)))
+barplot(sort(triNuc), col="#EEEE4433", add = TRUE)
+max(triNuc)
+# Interpret this plot.
+(triNuc <- Biostrings::trinucleotideFrequency(sample(biosDNAseq)))
+barplot(sort(triNuc), col="#EEEE4433")
+max(triNuc)
+
+
+# ==   3.2  Subsetting  ========================================================
+
+# Subsetting any XString object works as expected:
+biosDNAseq[4:15]
+
+# ... well - maybe not expected, because rawSeq[4:15] would not work.
+
+# Alternatively to the "[" operator, use the subseq() function - especially for
+# long sequences. This is far more efficient.
+Biostrings::subseq(biosDNAseq, start = 1, end = 30)
+
+
+# ==   3.3  Operators  =========================================================
+
+# RNAstring() and DNAstring() objects compare U and T as equals!
+  Biostrings::RNAString("AUGUCUAACCAAAUAUACUCAGCGAGAUAU") ==
+  Biostrings::DNAString("ATGTCTAACCAAATATACTCAGCGAGATAT")
+
+
+# ==   3.4  Transformations  ===================================================
+
+biosDNAseq[4:15]
+Biostrings::reverseComplement(biosDNAseq[4:15])
+Biostrings::translate(biosDNAseq[4:15])
+
+
+# =    4  Getting Data out of Biostrings:: Objects  ============================
+
+# If you need a character object, use toString():
+
+Biostrings::toString(biosDNAseq[4:15])
+
+# saveRDS() and readRDS() works like on all other R objects.
+
+
+# =    5  More  ================================================================
+
+# ==   5.1  Views  =============================================================
+
+# Biostring "Views" are objects that store multiple substrings of one
+# Biostring object.
+
+(myView <- Biostrings::Views(biosDNAseq,
+                             start = c(1, 19, 37),
+                             end = c(15, 30, 45)))
+
+# Views are convenient to store feature annotations
+names(myView) <- c("Feature-A", "Feature-B", "Feature-C")
+cat(sprintf("\n%s\t(%d)\t%s", names(myView), width(myView), myView ))
+
+
+# ==   5.2  Iranges  ===========================================================
+
+# Biostrings:: Iranges are like Views with a common start point. These can be
+# useful for feature annotations. Instead of start/end you store start/width.
+
+
+# ==   5.3  StringSets  ========================================================
+
+# Biostring "StringSets" store multiple sequences.
+#
+ompA <- Biostrings::AAString("MKKTAIAIAVALAGFATVAQA")
+sample(ompA) # sample can work directly on a Biostring object to shuffle it
+
+x <- Biostrings::toString(ompA)
+for (i in 2:10) {
+  x[i] <- Biostrings::toString(sample(ompA))
+}
+shuffledPeptideSet <- Biostrings::AAStringSet(x)
+names(shuffledPeptideSet) <- c("ompA", paste("shuffle.", 1:9, sep=""))
+shuffledPeptideSet
+
+length(shuffledPeptideSet)
+Biostrings::width(shuffledPeptideSet)
+Biostrings::alphabetFrequency(shuffledPeptideSet)
+
+
+# [END]
diff --git a/RPR-ChimeraX_remote.R b/RPR-ChimeraX_remote.R
index 5ee4710..e50648c 100644
--- a/RPR-ChimeraX_remote.R
+++ b/RPR-ChimeraX_remote.R
@@ -1,165 +1,165 @@
-# tocID <- "RPR-ChimeraX_remote.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code demonstrating remote scripting of ChimeraX.
-#
-# Version:  1.0.1
-#
-# Date:     2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.0.1  2021 Minimal updates
-#           1.0    First ABC units version
-#
-#
-# TODO:
-#    %-encode and escape quotes, or just pass-through?
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                  Line
-#TOC> ------------------------------------------------------
-#TOC>   1        ChimeraX REMOTE SCRIPTING                41
-#TOC>   1.1        Defining a Port                        59
-#TOC>   1.2        Open ChimeraX                          81
-#TOC>   2        WORKED EXAMPLE: SUPERPOSITION           113
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  ChimeraX REMOTE SCRIPTING  ===========================================
-
-
-# One of the cool features of ChimeraX is that it can be driven by Python code,
-# both within a running session and through Python scripts. What I find even
-# cooler though is that ChimeraX can be driven from any programming language via
-# its remote control function that can listen to commands sent from any other
-# application. The interface that is used here is the standard REST (method) -
-# the GET and POST verbs that ubiquitously underly the communication of clients
-# and servers on the Web.
-
-# In order to establish the communication between this script and ChimeraX, all
-# we need to do is:
-#  - open ChimeraX;
-#  - tell it to listen on a specific "port";
-#  - send commands to that port via httr::
-
-
-# ==   1.1  Defining a Port  ===================================================
-
-# The httr:: package needs to be available
-
-if (! requireNamespace("httr", quietly = TRUE)) {
-  install.packages("httr")
-}
-# Package information:
-#  library(help = httr)       # basic information
-#  browseVignettes("httr")    # available vignettes
-#  data(package = "httr")     # available datasets
-
-# We need to think od a port. Any available port number between 49152-65535 is
-# fine. We'll choose 61803 because that's the fractional part of the golden
-# ratio. But one could choose another.
-
-CXPORT <- 61803
-
-# Check that our current version of R supports sockets (default since V 3.3)
-capabilities("sockets")   # MUST be TRUE. If not, don't continue.
-
-
-# ==   1.2  Open ChimeraX  =====================================================
-
-#  - Open a fresh, new session of recently updated version of ChimeraX
-#  - type:
-#
-#       remotecontrol rest start port 61803
-#
-#    ... or whatever the value of CXPORT is.
-
-# Now watch what happens in ChimeraX when you execute the following line:
-( x <- httr::GET("http://127.0.0.1:61803/run?command=open+1BM8") )
-
-# The .utilities.R script includes the function CX(), based on this principle,
-# through which you can send commands to ChimeraX
-
-CX("camera sbs")
-CX("lighting soft")
-CX("color sequential #1 & protein target abc palette powderblue:orchid:white")
-
-# The command echos Chimera's response if the parameter "quietly" is
-# FALSE (default), and we can silence output with quietly = TRUE :
-CX("info models #1 attribute num_residues")
-CX("info models #1 attribute num_residues", quietly = TRUE)
-
-# Either way, the command also returns Chimera's responses "invisibly";
-# i.e. we can use the results by assigning the output to a variable:
-hBonds <- CX("hbonds #1 & protein makePseudobonds false log true", quietly=TRUE)
-x <- read.table(file = textConnection(hBonds), skip = 9,
-                blank.lines.skip = TRUE, fill = TRUE)
-hist(x[,13], main="H-bonds", xlab="D···A (Å)", ylab="counts", col="#c9dcff")
-
-
-# =    2  WORKED EXAMPLE: SUPERPOSITION  =======================================
-
-# We superimpose the 1BM8 structure with the 1DUX crystal structure to be able
-# to explore possible DNA binding regions in 1BM8
-
-# The model for 1BM8 is already open as model 1  (#1)
-CX("hide #1 cartoons")        # hide model 1 cartoon representation
-CX("open 1DUX")               # assume this is opened as model #2
-CX("hide #2")                 # hide everything ...
-CX("select #2/C")             # chain c (protein)
-CX("show sel cartoons")       # ... and show cartoons of chain c (protein)
-CX("color sequential sel target c palette steelblue:darkmagenta")
-CX("view #2/C")               # re-center the display
-CX("cofr #2/C:62@CA")         # set pivot to an interface residue
-CX("select #2/A,B & nucleic-acid") # chains A, B are the cognate DNA
-CX("style sel stick")
-CX("show sel target ab")      # show atoms/bonds
-CX("color sequential #2/A & nucleic-acid target ab palette teal:lightcyan")
-CX("color sequential #2/B & nucleic-acid target ab palette teal:lightcyan")
-CX("surface sel enclose sel") # compute joint accessible surface of both chains
-CX("transparency 50")
-CX("select clear")
-
-# Now superimpose the 1BM8 chain onto 1DUX chain C
-CX("show #1 cartoons")
-CX("matchmaker #1/A to #2/C pairing ss")  # the actual superposition
-
-# study the general layout, and the position of the 1mb8 secondary structure
-# elements relative to 1DUX
-
-# Let's examine side chain orientations in more detail
-CX("hide #2/C cartoons")  # hide the 1DUX protein
-
-# select all residues in 1BM8 that are within 3.5 A of the DNA chains (a, b)
-CX("select zone #2/A,B 3.5 #1 & protein residues true")
-CX("~select sel & H")  # de-select H atoms
-CX("show sel target ab")
-CX("size stickRadius 0.4")
-CX("select clear")
-
-# The overall architecture of the Mbp1 APSES domain is a good match for the Elk
-# transcription factor binding mode; the detailed conformations of side chains
-# would need to change only to a minor degree. There is a very significant
-# degree of structural similarity; remarkable, given that the DNA is not the
-# target sequence of the Mbp1 transcription factor, AND the 1MB8 structure was
-# determined without a DNA ligand.
-
-CX("remotecontrol rest stop")  # release the socket
-# Done.
-
-
-
-# [END]
+# tocID <- "RPR-ChimeraX_remote.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code demonstrating remote scripting of ChimeraX.
+#
+# Version:  1.0.1
+#
+# Date:     2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.0.1  2021 Minimal updates
+#           1.0    First ABC units version
+#
+#
+# TODO:
+#    %-encode and escape quotes, or just pass-through?
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                  Line
+#TOC> ------------------------------------------------------
+#TOC>   1        ChimeraX REMOTE SCRIPTING                41
+#TOC>   1.1        Defining a Port                        59
+#TOC>   1.2        Open ChimeraX                          81
+#TOC>   2        WORKED EXAMPLE: SUPERPOSITION           113
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  ChimeraX REMOTE SCRIPTING  ===========================================
+
+
+# One of the cool features of ChimeraX is that it can be driven by Python code,
+# both within a running session and through Python scripts. What I find even
+# cooler though is that ChimeraX can be driven from any programming language via
+# its remote control function that can listen to commands sent from any other
+# application. The interface that is used here is the standard REST (method) -
+# the GET and POST verbs that ubiquitously underly the communication of clients
+# and servers on the Web.
+
+# In order to establish the communication between this script and ChimeraX, all
+# we need to do is:
+#  - open ChimeraX;
+#  - tell it to listen on a specific "port";
+#  - send commands to that port via httr::
+
+
+# ==   1.1  Defining a Port  ===================================================
+
+# The httr:: package needs to be available
+
+if (! requireNamespace("httr", quietly = TRUE)) {
+  install.packages("httr")
+}
+# Package information:
+#  library(help = httr)       # basic information
+#  browseVignettes("httr")    # available vignettes
+#  data(package = "httr")     # available datasets
+
+# We need to think od a port. Any available port number between 49152-65535 is
+# fine. We'll choose 61803 because that's the fractional part of the golden
+# ratio. But one could choose another.
+
+CXPORT <- 61803
+
+# Check that our current version of R supports sockets (default since V 3.3)
+capabilities("sockets")   # MUST be TRUE. If not, don't continue.
+
+
+# ==   1.2  Open ChimeraX  =====================================================
+
+#  - Open a fresh, new session of recently updated version of ChimeraX
+#  - type:
+#
+#       remotecontrol rest start port 61803
+#
+#    ... or whatever the value of CXPORT is.
+
+# Now watch what happens in ChimeraX when you execute the following line:
+( x <- httr::GET("http://127.0.0.1:61803/run?command=open+1BM8") )
+
+# The .utilities.R script includes the function CX(), based on this principle,
+# through which you can send commands to ChimeraX
+
+CX("camera sbs")
+CX("lighting soft")
+CX("color sequential #1 & protein target abc palette powderblue:orchid:white")
+
+# The command echos Chimera's response if the parameter "quietly" is
+# FALSE (default), and we can silence output with quietly = TRUE :
+CX("info models #1 attribute num_residues")
+CX("info models #1 attribute num_residues", quietly = TRUE)
+
+# Either way, the command also returns Chimera's responses "invisibly";
+# i.e. we can use the results by assigning the output to a variable:
+hBonds <- CX("hbonds #1 & protein makePseudobonds false log true", quietly=TRUE)
+x <- read.table(file = textConnection(hBonds), skip = 9,
+                blank.lines.skip = TRUE, fill = TRUE)
+hist(x[,13], main="H-bonds", xlab="D···A (Å)", ylab="counts", col="#c9dcff")
+
+
+# =    2  WORKED EXAMPLE: SUPERPOSITION  =======================================
+
+# We superimpose the 1BM8 structure with the 1DUX crystal structure to be able
+# to explore possible DNA binding regions in 1BM8
+
+# The model for 1BM8 is already open as model 1  (#1)
+CX("hide #1 cartoons")        # hide model 1 cartoon representation
+CX("open 1DUX")               # assume this is opened as model #2
+CX("hide #2")                 # hide everything ...
+CX("select #2/C")             # chain c (protein)
+CX("show sel cartoons")       # ... and show cartoons of chain c (protein)
+CX("color sequential sel target c palette steelblue:darkmagenta")
+CX("view #2/C")               # re-center the display
+CX("cofr #2/C:62@CA")         # set pivot to an interface residue
+CX("select #2/A,B & nucleic-acid") # chains A, B are the cognate DNA
+CX("style sel stick")
+CX("show sel target ab")      # show atoms/bonds
+CX("color sequential #2/A & nucleic-acid target ab palette teal:lightcyan")
+CX("color sequential #2/B & nucleic-acid target ab palette teal:lightcyan")
+CX("surface sel enclose sel") # compute joint accessible surface of both chains
+CX("transparency 50")
+CX("select clear")
+
+# Now superimpose the 1BM8 chain onto 1DUX chain C
+CX("show #1 cartoons")
+CX("matchmaker #1/A to #2/C pairing ss")  # the actual superposition
+
+# study the general layout, and the position of the 1mb8 secondary structure
+# elements relative to 1DUX
+
+# Let's examine side chain orientations in more detail
+CX("hide #2/C cartoons")  # hide the 1DUX protein
+
+# select all residues in 1BM8 that are within 3.5 A of the DNA chains (a, b)
+CX("select zone #2/A,B 3.5 #1 & protein residues true")
+CX("~select sel & H")  # de-select H atoms
+CX("show sel target ab")
+CX("size stickRadius 0.4")
+CX("select clear")
+
+# The overall architecture of the Mbp1 APSES domain is a good match for the Elk
+# transcription factor binding mode; the detailed conformations of side chains
+# would need to change only to a minor degree. There is a very significant
+# degree of structural similarity; remarkable, given that the DNA is not the
+# target sequence of the Mbp1 transcription factor, AND the 1MB8 structure was
+# determined without a DNA ligand.
+
+CX("remotecontrol rest stop")  # release the socket
+# Done.
+
+
+
+# [END]
diff --git a/RPR-FASTA.R b/RPR-FASTA.R
index 6861439..d4d5088 100644
--- a/RPR-FASTA.R
+++ b/RPR-FASTA.R
@@ -1,322 +1,322 @@
-# tocID <- "RPR-FASTA.R"
-#
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the RPR-FASTA unit.
-#
-# Version:  1.1.2
-#
-# Date:     2017-10  -  2021-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.1.2  style update
-#           1.1.1  bugfix - wrong function name
-#           1.1    2020 Maintenance. Rewrite validation logic. Add data
-#                  to utilities. Define AACOLS
-#           1.0    New unit.
-#
-#
-# TODO: Make a simple solution first, then extend it to error checking, and
-#       to handle .mfa files.
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC>
-#TOC>   Section  Title                                 Line
-#TOC> -----------------------------------------------------
-#TOC>   1        Reading and validating FASTA            45
-#TOC>   1.1        Validating FASTA                      81
-#TOC>   2        Parsing FASTA                          227
-#TOC>   3        Interpreting FASTA                     247
-#TOC>   4        Writing FASTA                          274
-#TOC>
-#TOC> ==========================================================================
-
-
-# =    1  Reading and validating FASTA  ========================================
-
-# FASTA is a text based format, structured in lines that are separated by
-# line-feed or paragraph-break characters. Which one of these is used, depends
-# on your operating system. But R's readLines() function knows how to handle
-# these correctly, accross platforms. Don't try to read such files "by hand".
-# Here is the yeast Mbp1 gene, via SGD.
-
-file.show("./data/S288C_YDL056W_MBP1_coding.fsa")
-faMBP1 <- readLines("./data/S288C_YDL056W_MBP1_coding.fsa")
-
-# The warning is generated because the programmer at the NCBI who implemented
-# the code to write this FASTA file neglected to place a line-break character
-# after the last sequence character. While this is not technically incorrect,
-# it is poor practice: the resulting file can't be distinguished from one that
-# has been truncated in transmission.
-
-head(faMBP1)
-
-# Note that there are NO line-break characters ("\n") at the end of these
-# strings, even though they were present in the original file. readLines()
-# has "consumed" these characters while reading - but every single line is in
-# a vector of its own.
-
-tail(faMBP1)
-
-# Also note that the last line has fewer characters - this means readLines()
-# imported the whole line, despite it not being terminated by "\n".
-
-# It's very straightforward to work with such data, for example by collapsing
-# everything except the first line into a single string ...
-
-f <- c(faMBP1[1], paste(faMBP1[-1], sep = "", collapse = ""))
-
-f[1]
-nchar(f[2])
-
-# ==   1.1  Validating FASTA  ==================================================
-
-# The code above is making the assumption that everything from line 2 until
-#  the end IS sequence, the whole sequence and nothing but sequence.
-#  That assumption can break down in many ways:
-#
-#  - there could be more than one header line. The specification says otherwise,
-#       but some older files use multiple, consecutive header lines. You don't
-#       want that to end up in your sequence.
-#  - this could be not a FASTA file at all. It could be raw sequence, a
-#       different sequence file format, or a wholly different file altogether.
-#       If you look at the file, you can immediately tell, but if you are
-#       reading the file in a complex workflow, your could easily import wrong
-#       data into your analysis.
-#  - there could be more than one sequence in the file. Such Multi-FASTA files
-#       occur commonly, as downloads of ORFs from genome regions or other
-#       sets of genes or proteins, or as the input / output for multiple
-#       sequence alignment programs.
-#
-# Data "from the wild" can (and usually does) have the most unexpected
-# variations and it is really, really important to be clear about the
-# assumptions that you are making. It is possible to "fix" things, according
-# to the "Robustness Principle" :
-#      "Be conservative in what you send,
-#       be liberal in what you accept".
-#       (cf. https://en.wikipedia.org/wiki/Robustness_principle )
-# ... but if you think about this, that's actually a really poor idea,
-# which is much more likely to dilute standards, make unwarranted
-# assumptions, and allow errors to pass silently and corrupt data.
-#
-# Let's discard this principle on the trash-heap of
-# things-that-sound-like-a-good-idea-but-aren't. What we do instead is test,
-# identify problems, and follow the principle: "crash early, crash often". Of
-# course I can write code that would reformat any possible input as a FASTA
-# file - but what good will it do me if it parses the file I receive
-# from a server into FASTA format like:
-#
-#   >404- Page Not Found
-#   dyh-PagentfndhpThepageyreqesteddesnteistnthisserverCheckthe
-#   spellingrcntacttheadministratrsdyhtml
-#
-# Therefore, we write ourselves a FASTA checker that will enforce the following:
-#   (1) a FASTA file contains one or more sequences separated by zero or
-#       more empty lines
-#   (2) a sequence contains one header line followed by
-#       one or more sequence lines
-#   (3) a sequence line contains one or more uppercase or lowercase single
-#       letter amino acid codes, hyphens (gap character), or * (stop).
-#
-#   Anything else should generate an error.
-
-#   (Case 1): Header(s) exist
-fX <- c("ABC",
-        "defghi",
-        "klmnpq")
-sel <- grepl("^>", fX)  # "^>" is a regular expression that
-                        # means: the exact character ">" at the
-                        # beginning ("^") of the line.
-if ( ! any(sel) ) { stop("no header lines in input.") }
-
-
-#   (Case 2) No adjacent header lines
-fX <- c(">ABC",
-        ">123",
-        "defghi",
-        "klmnpq")
-sel <- grepl("^>", fX)
-sel <- sel[- length(sel)] & sel[-1] # comparing shifted vectors
-if ( any(sel)) { stop("adjacent header lines in input.") }
-
-#   (Case 3.1) all sequence lines contain only valid characters
-#              (constants for valid characters AAVALID, NUCVALID, and NUCAMBIG
-#               are defined with the .utilities.R script)
-AAVALID
-fX <- c(">ABC",
-        "def ;-) ghi",
-        "klmnpq")
-myRegex <- sprintf("[^%s]", AAVALID)  # NOT a valid character
-sel <- ! grepl("^>", fX)              # NOT headers
-if (any(grepl(myRegex, fX[sel]))) {
-  stop("invalid chracter(s) outside of header lines.")
-}
-
-#   (Case 3.2) all headers are followed directly by
-#              at least one letter of sequence
-fX <- c(">ABC",
-        "",
-        ">123",
-        "defghi",
-        "klmnpq")
-sel <- grep("^>", fX) + 1             # indexes of headers + 1
-myRegex <- sprintf("[%s]+", AAVALID)  # at least one valid character
-if (! all(grepl(myRegex, fX[sel]))) {
-  stop("a header has no adjacent sequence.")
-}
-# Ah, you might ask - couldn't we just have dropped all empty lines, and
-# then caught this in Case 2? No - for two reasons: we would still miss headers
-# at the end of file, and, we would have changed the line numbering - and
-# ideally our "production" function will create information about where the
-# error is to be found.
-
-
-# Now combine this into a function ...
-
-val <- function(fa) {
-
-  if ( ! any(grepl("^>", fa)) ) {
-    stop("no header lines in input.")
-  }
-
-  sel <- grepl("^>", fa)
-  if ( any(sel[- length(sel)] & sel[-1])) {
-    stop("adjacent header lines in input.")
-  }
-
-  sel <- ! grepl("^>", fa)
-  if ( any(grepl(sprintf("[^%s]", AAVALID), fa[sel]))) {
-    stop("invalid chracter(s) outside of header lines.")
-  }
-
-  sel <- grep("^>", fa) + 1
-  if (! all(grepl(sprintf("[%s]+", AAVALID), fa[sel]))) {
-    stop("a header has no adjacent sequence.")
-  }
-
-  return(invisible(NULL))
-}
-
-# Here is an example
-FA <- c(">head1",
-        "acdef",
-        "ghi",
-        "",
-        ">head2",
-        "kl",
-        ">head3",
-        "mn",
-        "pqrs")
-val(FA)     # ... should not create an error
-
-
-# A somewhat more elaborate validateFA() function was loaded with the
-# ./utilities.R script. It needs a bit more bookkeeping, since NCBI multi-
-# fasta files have space-characters in their spacer lines. Try it ...
-validateFA(FA)
-
-# =    2  Parsing FASTA  =======================================================
-
-# Once we have validated our assumptions about our input, it's quite
-# painless to parse it. I have put this together as a function and the function
-# gets loaded from ./.utilities.R
-#
-
-# Lets try this:
-#   - the first 3 elements of faMBP1:
-readFASTA(faMBP1[1:3])
-
-#   - a multi FASTA file of aligned APSES domain sequences:
-
-refAPSES <- readFASTA("./data/refAPSES.mfa")
-
-# Subset the sequence with "P39678" in the header
-refAPSES[grep("P39678", refAPSES$head) ,]
-
-
-
-# =    3  Interpreting FASTA  ==================================================
-
-
-# FASTA files are straightforward to interpret - just one thing may be of note:
-# when working with strings, we can use substr(, , ) to
-# extract substrings, but more often we expand the string into a vector of
-# single characters with strsplit(, ""). strsplit() returns a list,
-# to accommodate that  could be a vector of many elements, therefore
-# we usually unlist() the result if we use it only on a single string.
-
-# Example: How many positive charged residues in "MBP1_SACCE"?
-
-s <- unlist(strsplit(refAPSES$seq[grep("MBP1_SACCE", refAPSES$head)], ""))
-s
-
-sum(grepl("[HKR]", s)) # 20 (+) charged residues. grepl() returns TRUE and FALSE
-                       # for the characters, sum() coerces to 1 and 0
-                       # respectively, and that gives us the result.
-
-100 * sum(grepl("[HKR]", s)) / length(s) # in percent: 20.2 %
-
-# residue distribution
-x <- factor(s, levels = names(AACOLS))
-pie(table(x)[names(AACOLS)], col = AACOLS)
-
-
-
-# =    4  Writing FASTA  =======================================================
-
-
-# Writing FASTA files is mostly just the reverse of reading, with one
-# twist: we need to break the long sequence string into chunks of the desired
-# width. The FASTA specification calls for a maximum of 120 characters per line,
-# but writing out much less than that is common, since it allows to comfortably
-# view lines on the console, or printing them on a sheet of paper (do we still
-# do that actually?). How do we break a string into chunks? A combination of
-# seq(, , ) with substring(, , ) will work
-# nicely. (Note that substring() is vectorized, whereas substr() is not!) As we
-# loop through our FASTA object in memory, we can build the output by c()'ing
-# blocks of header + sequence to each other. For VERY large objects this might
-# be slow - in that case, we might want to precalculate the size of the output
-# object. But that's more of a hypothetical consideration.
-
-( s <- refAPSES$seq[2] )
-nchar(s)
-w <- 30     # width of chunk
-(starts <- seq(1, nchar(s), by = w))      # starting index of chunk
-(ends <- c((starts - 1)[-1], nchar(s)))   # ending index of chunk
-
-# Task: Is this safe? What happens if nchar(s) is shorter than w?
-#       What happens if nchar(s) is an exact multiple of w?
-
-substring(s, starts, ends)
-# confirm that the output contains the first and last residue, and both
-# residues adjacent to the breaks
-
-# As always, the function has been defined in ".utilities.R" for to use
-# any time...  type   writeFASTA  to examine it.
-
-# Let's try this...
-
-writeFASTA(refAPSES, width = 40)
-
-# roundtrip for validation: write refAPSES with a different format,
-# read it back in - the new dataframe must be identical
-# to the original dataframe.
-fname <- tempfile()
-writeFASTA(refAPSES, fn = fname, width = 30)
-identical(refAPSES, readFASTA(fname))
-
-# ...works for me  :-)
-
-
-# [END]
+# tocID <- "RPR-FASTA.R"
+#
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the RPR-FASTA unit.
+#
+# Version:  1.1.2
+#
+# Date:     2017-10  -  2021-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.1.2  style update
+#           1.1.1  bugfix - wrong function name
+#           1.1    2020 Maintenance. Rewrite validation logic. Add data
+#                  to utilities. Define AACOLS
+#           1.0    New unit.
+#
+#
+# TODO: Make a simple solution first, then extend it to error checking, and
+#       to handle .mfa files.
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC>
+#TOC>   Section  Title                                 Line
+#TOC> -----------------------------------------------------
+#TOC>   1        Reading and validating FASTA            45
+#TOC>   1.1        Validating FASTA                      81
+#TOC>   2        Parsing FASTA                          227
+#TOC>   3        Interpreting FASTA                     247
+#TOC>   4        Writing FASTA                          274
+#TOC>
+#TOC> ==========================================================================
+
+
+# =    1  Reading and validating FASTA  ========================================
+
+# FASTA is a text based format, structured in lines that are separated by
+# line-feed or paragraph-break characters. Which one of these is used, depends
+# on your operating system. But R's readLines() function knows how to handle
+# these correctly, accross platforms. Don't try to read such files "by hand".
+# Here is the yeast Mbp1 gene, via SGD.
+
+file.show("./data/S288C_YDL056W_MBP1_coding.fsa")
+faMBP1 <- readLines("./data/S288C_YDL056W_MBP1_coding.fsa")
+
+# The warning is generated because the programmer at the NCBI who implemented
+# the code to write this FASTA file neglected to place a line-break character
+# after the last sequence character. While this is not technically incorrect,
+# it is poor practice: the resulting file can't be distinguished from one that
+# has been truncated in transmission.
+
+head(faMBP1)
+
+# Note that there are NO line-break characters ("\n") at the end of these
+# strings, even though they were present in the original file. readLines()
+# has "consumed" these characters while reading - but every single line is in
+# a vector of its own.
+
+tail(faMBP1)
+
+# Also note that the last line has fewer characters - this means readLines()
+# imported the whole line, despite it not being terminated by "\n".
+
+# It's very straightforward to work with such data, for example by collapsing
+# everything except the first line into a single string ...
+
+f <- c(faMBP1[1], paste(faMBP1[-1], sep = "", collapse = ""))
+
+f[1]
+nchar(f[2])
+
+# ==   1.1  Validating FASTA  ==================================================
+
+# The code above is making the assumption that everything from line 2 until
+#  the end IS sequence, the whole sequence and nothing but sequence.
+#  That assumption can break down in many ways:
+#
+#  - there could be more than one header line. The specification says otherwise,
+#       but some older files use multiple, consecutive header lines. You don't
+#       want that to end up in your sequence.
+#  - this could be not a FASTA file at all. It could be raw sequence, a
+#       different sequence file format, or a wholly different file altogether.
+#       If you look at the file, you can immediately tell, but if you are
+#       reading the file in a complex workflow, your could easily import wrong
+#       data into your analysis.
+#  - there could be more than one sequence in the file. Such Multi-FASTA files
+#       occur commonly, as downloads of ORFs from genome regions or other
+#       sets of genes or proteins, or as the input / output for multiple
+#       sequence alignment programs.
+#
+# Data "from the wild" can (and usually does) have the most unexpected
+# variations and it is really, really important to be clear about the
+# assumptions that you are making. It is possible to "fix" things, according
+# to the "Robustness Principle" :
+#      "Be conservative in what you send,
+#       be liberal in what you accept".
+#       (cf. https://en.wikipedia.org/wiki/Robustness_principle )
+# ... but if you think about this, that's actually a really poor idea,
+# which is much more likely to dilute standards, make unwarranted
+# assumptions, and allow errors to pass silently and corrupt data.
+#
+# Let's discard this principle on the trash-heap of
+# things-that-sound-like-a-good-idea-but-aren't. What we do instead is test,
+# identify problems, and follow the principle: "crash early, crash often". Of
+# course I can write code that would reformat any possible input as a FASTA
+# file - but what good will it do me if it parses the file I receive
+# from a server into FASTA format like:
+#
+#   >404- Page Not Found
+#   dyh-PagentfndhpThepageyreqesteddesnteistnthisserverCheckthe
+#   spellingrcntacttheadministratrsdyhtml
+#
+# Therefore, we write ourselves a FASTA checker that will enforce the following:
+#   (1) a FASTA file contains one or more sequences separated by zero or
+#       more empty lines
+#   (2) a sequence contains one header line followed by
+#       one or more sequence lines
+#   (3) a sequence line contains one or more uppercase or lowercase single
+#       letter amino acid codes, hyphens (gap character), or * (stop).
+#
+#   Anything else should generate an error.
+
+#   (Case 1): Header(s) exist
+fX <- c("ABC",
+        "defghi",
+        "klmnpq")
+sel <- grepl("^>", fX)  # "^>" is a regular expression that
+                        # means: the exact character ">" at the
+                        # beginning ("^") of the line.
+if ( ! any(sel) ) { stop("no header lines in input.") }
+
+
+#   (Case 2) No adjacent header lines
+fX <- c(">ABC",
+        ">123",
+        "defghi",
+        "klmnpq")
+sel <- grepl("^>", fX)
+sel <- sel[- length(sel)] & sel[-1] # comparing shifted vectors
+if ( any(sel)) { stop("adjacent header lines in input.") }
+
+#   (Case 3.1) all sequence lines contain only valid characters
+#              (constants for valid characters AAVALID, NUCVALID, and NUCAMBIG
+#               are defined with the .utilities.R script)
+AAVALID
+fX <- c(">ABC",
+        "def ;-) ghi",
+        "klmnpq")
+myRegex <- sprintf("[^%s]", AAVALID)  # NOT a valid character
+sel <- ! grepl("^>", fX)              # NOT headers
+if (any(grepl(myRegex, fX[sel]))) {
+  stop("invalid chracter(s) outside of header lines.")
+}
+
+#   (Case 3.2) all headers are followed directly by
+#              at least one letter of sequence
+fX <- c(">ABC",
+        "",
+        ">123",
+        "defghi",
+        "klmnpq")
+sel <- grep("^>", fX) + 1             # indexes of headers + 1
+myRegex <- sprintf("[%s]+", AAVALID)  # at least one valid character
+if (! all(grepl(myRegex, fX[sel]))) {
+  stop("a header has no adjacent sequence.")
+}
+# Ah, you might ask - couldn't we just have dropped all empty lines, and
+# then caught this in Case 2? No - for two reasons: we would still miss headers
+# at the end of file, and, we would have changed the line numbering - and
+# ideally our "production" function will create information about where the
+# error is to be found.
+
+
+# Now combine this into a function ...
+
+val <- function(fa) {
+
+  if ( ! any(grepl("^>", fa)) ) {
+    stop("no header lines in input.")
+  }
+
+  sel <- grepl("^>", fa)
+  if ( any(sel[- length(sel)] & sel[-1])) {
+    stop("adjacent header lines in input.")
+  }
+
+  sel <- ! grepl("^>", fa)
+  if ( any(grepl(sprintf("[^%s]", AAVALID), fa[sel]))) {
+    stop("invalid chracter(s) outside of header lines.")
+  }
+
+  sel <- grep("^>", fa) + 1
+  if (! all(grepl(sprintf("[%s]+", AAVALID), fa[sel]))) {
+    stop("a header has no adjacent sequence.")
+  }
+
+  return(invisible(NULL))
+}
+
+# Here is an example
+FA <- c(">head1",
+        "acdef",
+        "ghi",
+        "",
+        ">head2",
+        "kl",
+        ">head3",
+        "mn",
+        "pqrs")
+val(FA)     # ... should not create an error
+
+
+# A somewhat more elaborate validateFA() function was loaded with the
+# ./utilities.R script. It needs a bit more bookkeeping, since NCBI multi-
+# fasta files have space-characters in their spacer lines. Try it ...
+validateFA(FA)
+
+# =    2  Parsing FASTA  =======================================================
+
+# Once we have validated our assumptions about our input, it's quite
+# painless to parse it. I have put this together as a function and the function
+# gets loaded from ./.utilities.R
+#
+
+# Lets try this:
+#   - the first 3 elements of faMBP1:
+readFASTA(faMBP1[1:3])
+
+#   - a multi FASTA file of aligned APSES domain sequences:
+
+refAPSES <- readFASTA("./data/refAPSES.mfa")
+
+# Subset the sequence with "P39678" in the header
+refAPSES[grep("P39678", refAPSES$head) ,]
+
+
+
+# =    3  Interpreting FASTA  ==================================================
+
+
+# FASTA files are straightforward to interpret - just one thing may be of note:
+# when working with strings, we can use substr(, , ) to
+# extract substrings, but more often we expand the string into a vector of
+# single characters with strsplit(, ""). strsplit() returns a list,
+# to accommodate that  could be a vector of many elements, therefore
+# we usually unlist() the result if we use it only on a single string.
+
+# Example: How many positive charged residues in "MBP1_SACCE"?
+
+s <- unlist(strsplit(refAPSES$seq[grep("MBP1_SACCE", refAPSES$head)], ""))
+s
+
+sum(grepl("[HKR]", s)) # 20 (+) charged residues. grepl() returns TRUE and FALSE
+                       # for the characters, sum() coerces to 1 and 0
+                       # respectively, and that gives us the result.
+
+100 * sum(grepl("[HKR]", s)) / length(s) # in percent: 20.2 %
+
+# residue distribution
+x <- factor(s, levels = names(AACOLS))
+pie(table(x)[names(AACOLS)], col = AACOLS)
+
+
+
+# =    4  Writing FASTA  =======================================================
+
+
+# Writing FASTA files is mostly just the reverse of reading, with one
+# twist: we need to break the long sequence string into chunks of the desired
+# width. The FASTA specification calls for a maximum of 120 characters per line,
+# but writing out much less than that is common, since it allows to comfortably
+# view lines on the console, or printing them on a sheet of paper (do we still
+# do that actually?). How do we break a string into chunks? A combination of
+# seq(, , ) with substring(, , ) will work
+# nicely. (Note that substring() is vectorized, whereas substr() is not!) As we
+# loop through our FASTA object in memory, we can build the output by c()'ing
+# blocks of header + sequence to each other. For VERY large objects this might
+# be slow - in that case, we might want to precalculate the size of the output
+# object. But that's more of a hypothetical consideration.
+
+( s <- refAPSES$seq[2] )
+nchar(s)
+w <- 30     # width of chunk
+(starts <- seq(1, nchar(s), by = w))      # starting index of chunk
+(ends <- c((starts - 1)[-1], nchar(s)))   # ending index of chunk
+
+# Task: Is this safe? What happens if nchar(s) is shorter than w?
+#       What happens if nchar(s) is an exact multiple of w?
+
+substring(s, starts, ends)
+# confirm that the output contains the first and last residue, and both
+# residues adjacent to the breaks
+
+# As always, the function has been defined in ".utilities.R" for to use
+# any time...  type   writeFASTA  to examine it.
+
+# Let's try this...
+
+writeFASTA(refAPSES, width = 40)
+
+# roundtrip for validation: write refAPSES with a different format,
+# read it back in - the new dataframe must be identical
+# to the original dataframe.
+fname <- tempfile()
+writeFASTA(refAPSES, fn = fname, width = 30)
+identical(refAPSES, readFASTA(fname))
+
+# ...works for me  :-)
+
+
+# [END]
diff --git a/RPR-GEO2R.R b/RPR-GEO2R.R
index a4820c2..6d21096 100644
--- a/RPR-GEO2R.R
+++ b/RPR-GEO2R.R
@@ -1,674 +1,674 @@
-# tocID <- "RPR-GEO2R.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the RPR_GEO2R unit.
-#
-#
-# ==============================================================================
-# Version:  1.3
-#
-# Date:     2017-09  -  2020-09
-# Author:   Boris Steipe 
-#
-# Versions:
-#           1.3    use saveRDS()/readRDS() rather than save()/load()
-#           1.2    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-#           1.1    Add section on GPL annotations
-#           1.0    Updates for BCH441 2017
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# TO SUBMIT FOR CREDIT....
-#
-# Note: to submit tasks for credit for this unit, report on the sections
-# that have "Task ..." section headers, and report on the lines that are
-# identified with #TASK>  comments.
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                                      Line
-#TOC> --------------------------------------------------------------------------
-#TOC>   1        Preparations                                                 62
-#TOC>   2        Loading a GEO Dataset                                        89
-#TOC>   2.1        Task - understanding the data                             155
-#TOC>   3        Column wise analysis - time points                          164
-#TOC>   3.1        Task - Comparison of experiments                          193
-#TOC>   3.2        Grouped Samples                                           226
-#TOC>   4        Row-wise Analysis: Expression Profiles                      261
-#TOC>   4.1        Task - Read a table of features                           296
-#TOC>   4.2        Selected Expression profiles                              349
-#TOC>   5        Differential Expression                                     392
-#TOC>   5.1        Final task: Gene descriptions                             532
-#TOC>   6        Improving on Discovery by Differential Expression           538
-#TOC>   7        Annotation data                                             633
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Preparations  ========================================================
-
-# To load and analyze GEO datasets we use a number of Bioconductor packages:
-
-
-if (! requireNamespace("BiocManager", quietly = TRUE)) {
-  install.packages("BiocManager")
-}
-
-if (! requireNamespace("Biobase", quietly = TRUE)) {
-  BiocManager::install("Biobase")
-}
-# Package information:
-#  library(help = Biobase)       # basic information
-#  browseVignettes("Biobase")    # available vignettes
-#  data(package = "Biobase")     # available datasets
-
-
-if (! requireNamespace("GEOquery", quietly = TRUE)) {
-  BiocManager::install("GEOquery")
-}
-# Package information:
-#  library(help = GEOquery)       # basic information
-#  browseVignettes("GEOquery")    # available vignettes
-#  data(package = "GEOquery")      # available datasets
-
-
-# =    2  Loading a GEO Dataset  ===============================================
-
-# The R code below is adapted from the GEO2R scripts produced by GEO for GSE3635
-# for the experiment conducted in the BIN-EXPR-GEO unit
-
-# Version info: R 3.2.3, Biobase 2.30.0, GEOquery 2.40.0, limma 3.26.8
-# R scripts generated  Wed Jan 11 17:39:46 EST 2017
-
-
-# Load series and platform data from GEO. The GEO server is a bit flakey and
-# I have experienced outages over several hours. If the command below does
-# not work for you, skip ahead to the fallback procedure.
-
-GSE3635 <- GEOquery::getGEO("GSE3635", GSEMatrix =TRUE, getGPL=FALSE)
-# Note: GEO2R scripts call the expression data set
-#       "gset" throughout ... in this script I give
-#       it the name "GSE3635" for clarity.
-
-# Subset, if the data contains multiple experiments with different platforms
-# since we should not be mixing data from different platforms. (That's
-# unfortunately very hard to do correctly). The "platform" is the type of chip
-# that was used, and what I selected online when this script was produced, so
-# GEO2R knows about the correct platform ID. Technically, subsetting to just one
-# platform is not necessary here because we _know_ that GSE3635 contains only
-# data produced with the GPL1914 platform. But that's the way GEO2R scripts are
-# setup be default since they have to be able to handle a variety of cases.
-if (length(GSE3635) > 1) {
-  idx <- grep("GPL1914", attr(GSE3635, "names"))
-} else {
-  idx <- 1
-}
-
-GSE3635 <- GSE3635[[idx]]
-
-# FALLBACK
-# ... in case the GEO server is not working, load the "GSE3635" object from
-# the data directory:
-#
-# GSE3635 <- readRDS(file="./data/GSE3635.rds")
-
-
-# Checkpoint ...
-if (! exists("GSE3635")) {
-  stop("PANIC: GSE3635 was not loaded. Can't continue.")
-}
-
-
-# GSE3635 is an "Expression Set" - cf.
-# https://bioconductor.org/packages/release/bioc/vignettes/Biobase/inst/doc/ExpressionSetIntroduction.pdf
-
-# What does this contain?
-help("ExpressionSet-class")
-
-# Print it
-GSE3635
-
-# Access contents via methods:
-Biobase::featureNames(GSE3635)[1:20]   # Rows. What are these features?
-Biobase::sampleNames(GSE3635)[1:10]    # Columns. What are these columns?
-
-# Access contents by subsetting:
-( tmp <- GSE3635[12:17, 1:6] )
-
-# Access data
-Biobase::exprs(tmp)   # exprs() gives us the actual expression values.
-
-# ==   2.1  Task - understanding the data  =====================================
-
-#TASK> What are the data values:
-#TASK>  ... in each cell?
-#TASK>  ... in each column?
-#TASK>  ... in each row?
-
-
-
-# =    3  Column wise analysis - time points  ==================================
-
-# Get an overview of the distribution of values in individual columns
-summary(Biobase::exprs(GSE3635)[ , 1])
-summary(Biobase::exprs(GSE3635)[ , 4])
-summary(Biobase::exprs(GSE3635)[ , 7])
-
-# This allows us to com pare the columns, comment on the quality of the data,
-# and get a sense for the distribution. We need to know how exactly these
-# numbers were produced: obviously, if we don't know how those numbers were
-# created in the first place, we would produce a major sin of Cargo Cult
-# bioinformatics if we would analyze them.
-
-
-
-# compare them in a a boxplot
-cyclicPalette <- colorRampPalette(c("#14b4c9",
-                                    "#d2d1e6",
-                                    "#e66594",
-                                    "#d2d1e6",
-                                    "#14b4c9",
-                                    "#d2d1e6",
-                                    "#e66594",
-                                    "#d2d1e6",
-                                    "#14b4c9"))
-tCols <- cyclicPalette(13)
-boxplot(Biobase::exprs(GSE3635), col = tCols)
-
-
-# ==   3.1  Task - Comparison of experiments  ==================================
-#TASK>     Study this boxplot. What's going on? Are these expression values?
-#TASK>     What do the numbers mean? (Summarize the process and computation
-#TASK>     that has gone i to the preprocessing. You need to understand why
-#TASK>     these columns all have the same mean and range.) Given what common
-#TASK>     sense tells you about the variability of experiments, do you
-#TASK>     believe your understanding is complete?
-
-
-# Lets plot the distributions of values in a more fine-grained manner:
-hT0  <- hist(Biobase::exprs(GSE3635)[ ,  1], breaks = 100, col =  tCols[1])
-hT3  <- hist(Biobase::exprs(GSE3635)[ ,  4], breaks = 100, col =  tCols[4])
-hT6  <- hist(Biobase::exprs(GSE3635)[ ,  7], breaks = 100, col =  tCols[7])
-hT9  <- hist(Biobase::exprs(GSE3635)[ , 10], breaks = 100, col =  tCols[10])
-hT12 <- hist(Biobase::exprs(GSE3635)[ , 13], breaks = 100, col =  tCols[13])
-
-
-plot(  hT0$mids,  hT0$counts,  type = "l", col =  tCols[1], xlim = c(-0.5, 0.5))
-points(hT3$mids,  hT3$counts,  type = "l", col =  tCols[4])
-points(hT6$mids,  hT6$counts,  type = "l", col =  tCols[7])
-points(hT9$mids,  hT9$counts,  type = "l", col =  tCols[10])
-points(hT12$mids, hT12$counts, type = "l", col =  tCols[13])
-legend("topright",
-       legend = c("hT0", "hT3", "hT6", "hT9", "hT12"),
-       col = tCols[c(1, 4, 7, 10, 13)],
-       lwd = 1)
-
-
-#TASK>   Study this plot. What does it tell you? Is there systematic, global
-#TASK>   change in the values over time? Within a cycle? Over the course of the
-#TASK>   experiment?
-
-
-# ==   3.2  Grouped Samples  ===================================================
-
-#  This is the GEO2R code that produces the histogram you saw on the NCBI
-#  Website if you went through the BIN-EXPR-GEO unit.
-
-#  Group names for all samples in a series
-gsms <- "0123450123450" # Each digit identifies one of the 13 columns
-sml <- c()
-for (i in 1:nchar(gsms)) {
-  sml[i] <- substr(gsms,i,i)
-}
-sml <- paste("G", sml, sep="")  # set group names
-
-# order samples by group
-ex <- Biobase::exprs(GSE3635)[ , order(sml)]
-sml <- sml[order(sml)]
-fl <- as.factor(sml)
-labels <- c("t0","t10","t20","t30","t40","t50") # these are the labels we
-                                                # assigned in the BIN-EXPR-GEO
-                                                # unit
-
-# Set parameters and draw the plot. I changed this from the original GEO2R
-# code which overwrote the global palette(). That's evil! Utility code
-# should _never_ mess with global parameters!
-GEOcols <- c("#dfeaf4", "#f4dfdf", "#f2cb98", "#dcdaa5",
-             "#dff4e4", "#f4dff4",  "#AABBCC")
-dev.new(width = 4 + dim(GSE3635)[[2]] / 5, height = 6) # plot into a new window
-par(mar = c(2 + round(max(nchar(Biobase::sampleNames(GSE3635))) / 2), 4, 2, 1))
-title <- paste ("GSE3635", '/', Biobase::annotation(GSE3635),
-                " grouped samples", sep ='')
-boxplot(ex, boxwex = 0.6, notch = TRUE, main = title, outline=FALSE,
-        las = 2, col = GEOcols[fl])
-legend("topleft", labels, fill = GEOcols, bty = "n")
-
-
-# =    4  Row-wise Analysis: Expression Profiles  ==============================
-
-# What we did above was column-wise analysis and it gave us an idea about how
-# our experiments relate to each other. To analyze individual genes, we need to
-# do row-wise analyis.
-
-#TASK>  Try to answer the following questions:
-#TASK>     Are all rows genes?
-#TASK>     What identifiers are being used?
-#          (cf. https://sites.google.com/view/yeastgenome-help/community-help/nomenclature-conventions)
-#TASK>     Are all rows/genes unique?
-#TASK>     Are all yeast genes accounted for?
-
-#     These are crucially important questions but you can't answer the last
-#     question  because you have no information other than the gene identifiers.
-#     However, any biological interpretation relies absolutely on understanding
-#     the semantics of the data. Merely manipulating abstract identifiers and
-#     numbers, that would surely be Cargo Cult bioinformatics.
-
-#     To answer these questions about the data semantics, I have provided the
-#     file "SGD_features.tab" in the data directory of this project. I have
-#     downloaded it from SGD
-#     (http://www.yeastgenome.org/download-data/curation), for a description of
-#     its contents see here:
-file.show("./data/SGD_features.README.txt")
-#     Note: the file as downloaded from SGD actually crashed RStudio due to an
-#           unbalanced quotation mark which caused R to try and read the whole
-#           of the subsequent file into a single string. This was caused by an
-#           alias gene name (B"). I have removed this abomination
-#           by editing the file. The version in the ./data directory can be
-#           read without issues.
-
-# Leets peek into the file:
-readLines("./data/SGD_features.tab", n = 5)
-
-# ==   4.1  Task - Read a table of features  ===================================
-
-#      Note: this task asks you to write code. You MUST identify your
-#      sources when you draw on other's examples.
-
-# This data file is rather typical of datasets that you will encounter "in the
-# wild". To proceed, you need to write code to read it into an R-object. Develop
-# the code in your script file according to the following specification:
-#
-#    -  read "./data/SGD_features.tab" into a data frame
-#          called "SGD_features"
-#    -  remove unneeded columns - keep the following data columns:
-#         -   Primary SGDID
-#         -   Feature type
-#         -   Feature qualifier
-#         -   Feature name - (the systematic name !)
-#         -   Standard gene name
-#         -   Description
-#    -  give the data frame meaningful column names:
-#    colnames(SGD_features) <- c("SGDID",
-#                                "type",
-#                                "qual",
-#                                "sysName",
-#                                "name",
-#                                "description")
-#
-#    -  remove all rows that don't have a systematic name. (You'll have to check
-#          what's in cells that don't have a systematic name)
-#    -  check that the systematic names are unique (Hint: use the duplicated()
-#          function.)
-#    -  assign the systematic names as row names
-#    -  confirm: are all rows of the expression data set represented in
-#                  the feature table? Hint: use setdiff() to print all that
-#                  are not.
-#                  Example usage of setdiff():
-#                      A <- c("duck", "crow", "gull", "tern")
-#                      B <- c("gull", "rook", "tern", "kite", "myna")
-#
-#                      setdiff(A, B)  #  [1] "duck" "crow"
-#                      setdiff(B, A)  #  [1] "rook" "kite" "myna"
-
-#       If some of the features in the expression set are not listed in the
-#       systematic names, you have to be aware of that, when you try to get
-#       more information on them. I presume they are missing because revisions
-#       of the yeast genome after these experiments were done showed that these
-#       genes did not actually exist.
-
-#    -  confirm: how many / which genes in the feature table do not
-#                have expression data?
-
-#  How should we handle rows/columns that are missing or not unique?
-
-
-# ==   4.2  Selected Expression profiles  ======================================
-
-# The code below assumes that you have read ./data/SGD_features.tab and assigned
-# the resulting data frame to SGD_features, with columns as specified above.
-
-# Here is an expression profile for Mbp1.
-
-gName <- "MBP1"
-(iFeature <- which(SGD_features$name == gName))
-(iExprs   <- which(featureNames(GSE3635) == SGD_features$sysName[iFeature]))
-plot(seq(0, 120, by = 10),
-     Biobase::exprs(GSE3635)[iExprs, ],
-     main = paste("Expression profile for", gName),
-     xlab = "time (min)",
-     ylab = "expression",
-     type = "b",
-     col= "maroon")
-abline(h =  0, col = "#00000055")
-abline(v = 60, col = "#00000055")
-
-# Print the description
-SGD_features$description[iFeature]
-
-# Here is a list of gene names that may be involved in the cell cycle switch,
-# and some genes that are controls (cf. BIN-SYS-Concepts):
-
-# Turning it on
-# Cdc14, Mbp1, Swi6, Swi4, Whi5, Cdc28, Cln1, Cln2, Cln3
-
-# Turning it off
-# Rad53, Cdc28, Clb1, Clb2, Clb6, Nrm1
-
-# Housekeeping genes
-# Act1, and Alg9
-
-#TASK>  Plot expression profiles for these genes and study them. What do you
-#TASK>  expect the profiles to look like, given the role of these genes? What
-#TASK>  do you find? (Hint: you will make your life much easier if you define
-#TASK>  a function that plots and prints descriptions with a gene name as input.
-#TASK>  Also: are the gene names in the feature table upper case, or lower case?
-#TASK>  Also: note that the absolute values of change are quite different.
-#TASK>  Also: note that some values may be outliers i.e. failed experiments.)
-
-# =    5  Differential Expression  =============================================
-
-# GEO2R discovers the top differentially expressed  expressed genes by
-# using functions in the Bioconductor limma package.
-
-if (! requireNamespace("limma", quietly = TRUE)) {
-  BiocManager::install("limma")
-}
-# Package information:
-#  library(help = limma)       # basic information
-#  browseVignettes("limma")    # available vignettes
-#  data(package = "limma")     # available datasets
-
-# The GEO2R limma code is virtually uncommented, and has not been written for
-# clarity, but for being easily produced by a code-generator that is triggered
-# by the parameters on the GEO Web-site. Most of it is actually dispensable for
-# our purposes.
-
-# In principle, the code goes through three steps:
-# 1. Prepare the data
-# 2. Define groups that are to be contrasted to define "Differential"
-# 3. Find genes whose expression levels are significantly different across
-#     the groups
-# 4. Format results.
-
-# Biobase is a highly engineered package that is tightly integrated into
-# the Bioconductor world - unfortunately that brings with it a somewhat
-# undesirable level of computational overhead and dependencies. Using the
-# package as we normally do - i.e. calling required functions with their
-# explicit package prefix is therefore not advisable. There are generics
-# that won't be propery dispatched. If you only need a small number of
-# functions for a very specific context, you will probably get away with
-# Biobase::() - but even in the demonstration code of this script
-# not everything works out of the box. We'll therefore load the library,
-# but we'll (redundantly) use the prefix anyway so as to emphasize where
-# the functions come from.
-
-library(Biobase)
-
-# We are recapitulating the experiment in which we assigned the 0, 10, 60 and
-# 70 minute samples to one group, the 30, 40, 90 and 100 minute samples to
-# another group, and calculated differential expression values between these
-# two groups.
-
-setA <- c(1, 2, 7, 8)    # columns for set A
-setB <- c(4, 5, 10, 11)  # columns for set B
-
-# We remove columns we don't need, and for simplicity put the experiments for
-# group A in the first four columns, and the group B in the next four.
-
-mySet <- GSE3635[ , c(setA, setB)]
-
-# limma needs the column descriptions as factors
-mySet$description <- as.factor(c(rep("A", 4), rep("B", 4)))
-
-# Next we build the "design Matrix" for the statistical test:
-myDesign <- model.matrix(~ description + 0, mySet)
-colnames(myDesign) <- levels(mySet$description)
-myDesign
-
-# Now we can calculate the fit of all rows to a linear model that depends
-# on the two groups as specified in the design:
-myFit <- limma::lmFit(mySet, myDesign)
-
-# Next we calculate the contrasts, given the fit ...
-myCont.matrix <- limma::makeContrasts(A - B, levels = myDesign)
-myFit2 <- limma::contrasts.fit(myFit, myCont.matrix)
-
-# ... compute appropriate probabilites from a modified t-test
-#     (empirical Bayes) ...
-myFit2 <- limma::eBayes(myFit2, 0.01)
-
-# ... add the gene names to the fit - object ...
-myFit2$genes <- featureNames(mySet)
-
-# ... and pick the top N differentially expressed genes while controlling
-#     for multiple testing with a False Discovery Rate (fdr) correction. GEO2R
-#     gave us only the top 250 genes, but we might as well do 1000, just so we
-#     can be reasonable sure that our gens of interest are included.
-N <- 1000
-myTable <- limma::topTable(myFit2,
-                           adjust.method = "fdr",
-                           sort.by = "B",
-                           number = N)
-
-str(myTable)
-# The gene names are now in the $ID column
-
-# These are the top 10
-write.table(myTable[1:10 , c("ID","P.Value","B")],
-            file = stdout(),
-            row.names = FALSE,
-            sep="\t")
-
-# Let's see what we got: let's plot the full expression profiles (all 13
-# columns) for the top ten genes from exprs(GSE3635).
-
-plot(seq(0, 120, by = 10),
-     rep(0, 13),
-     type = "n",
-     ylim = c(-1, 1),
-     xlab = "time",
-     ylab = "log-ratio expression")
-rect( 0,  -2,  15, 2, col = "#dfeaf4", border = NA)   # setA
-rect( 55, -2,  75, 2, col = "#dfeaf4", border = NA)   # setA
-rect( 25, -2,  45, 2, col = "#f4dfdf", border = NA)   # setB
-rect( 85, -2, 105, 2, col = "#f4dfdf", border = NA)   # setB
-abline(h = 0, col = "#00000055")
-
-for (i in 1:10) {
-  thisID <- myTable$ID[i]
-  points(seq(0, 120, by = 10), Biobase::exprs(GSE3635)[thisID, ], type = "b")
-}
-
-# Our guess that we might discover interesting genes by selecting groups A and B
-# like we did was not bad. But limma knows nothing about the biology and though
-# the expression profiles look good, there is no guarantee that these are the
-# most biologically relevant genes. Significantly different in expression
-# according to the groups we define is not necessarily the same as a cyclically
-# varying gene, nor does it necessarily find the genes whose expression levels
-# are _most_ different, i.e. if the variance of a highly, differentially
-# expressed gene within a group is large, it may not be very significant. Also,
-# we are not exploiting the fact that these values are time series.
-# Nevertheless, we find genes for which we see a change in expression levels
-# along two cell-cycles.
-
-# Let's superimpose some "real" cell-cycle genes:
-myControls <- c("Cdc14", "Mbp1", "Swi6", "Swi4", "Whi5", "Cln1", "Cln2", "Cln3")
-for (name in toupper(myControls)) {
-  thisID <- SGD_features$sysName[which(SGD_features$name == name)]
-  points(seq(0, 120, by=10),
-         Biobase::exprs(GSE3635)[thisID, ],
-         type="b",
-         col="#AA0000")
-}
-
-# Indeed, the discovered gene profiles look much "cleaner" than the real cycle
-# genes and this just means that differential expression in the way that we
-# have performed it is an approximation to the biology.
-
-# ==   5.1  Final task: Gene descriptions  =====================================
-
-#TASK> Print the descriptions of the top ten differentially expressed genes
-#TASK> and comment on what they have in common (or not).
-
-
-# =    6  Improving on Discovery by Differential Expression  ===================
-
-
-# There are many ways to improve on purely statistical methods, if we have
-# better ideas about the biology. I would just like to demonstrate one
-# possibility here: calculate correlation values to a sample gene - such as Cln2
-# for which we know that it is involved in the cell cycle. Let's plot it first:
-
-gName <- "CLN2"
-(iFeature <- which(SGD_features$name == gName))
-(iExprs   <- which(featureNames(GSE3635) == SGD_features$sysName[iFeature]))
-Cln2Profile <- Biobase::exprs(GSE3635)[iExprs, ]
-plot(seq(0, 120, by = 10),
-     Cln2Profile,
-     ylim = c(-1, 1),
-     main = paste("Expression profile for", gName),
-     xlab = "time (min)",
-     ylab = "expression",
-     type = "b",
-     pch = 16,
-     cex = 1.5,
-     lwd = 2,
-     col= "#40b886")
-abline(h =  0, col = "#0000FF55")
-abline(v = 60, col = "#0000FF55")
-
-# Set up a vector of correlation values
-
-
-myCorrelations <- numeric(nrow(Biobase::exprs(GSE3635)))
-names(myCorrelations) <- Biobase::featureNames(GSE3635)
-for (i in 1:length(myCorrelations)) {
-  myCorrelations[i] <- cor(Cln2Profile, Biobase::exprs(GSE3635)[i, ])
-}
-
-nTOP <- 20
-myTopC <- order(myCorrelations, decreasing = TRUE)[1:nTOP]
-
-# Number 1
-(ID <- Biobase::featureNames(GSE3635)[myTopC[1]])
-
-# Get information
-SGD_features[which(SGD_features$sysName == ID), ]
-# Of course: the highest correlation is Cln1 itself. This is our positive
-# control for the experiment.
-
-# Let's plot the rest
-myPal <- colorRampPalette(c("#82f58d", "#E0F2E2", "#f6f6f6"))
-
-for (i in 2:nTOP) {
-  ID <- Biobase::featureNames(GSE3635)[myTopC[i]]
-  points(seq(0, 120, by = 10),
-         Biobase::exprs(GSE3635)[ID, ],
-       type = "b",
-       cex = 0.8,
-       col= myPal(nTOP)[i])
-  print(SGD_features[which(SGD_features$sysName == ID),
-                     c("name", "description")])
-}
-
-# Note that all of these genes are highly correlated with a known cell cycle
-# gene, but because the absolute values of expression differences are not very
-# large for some of them, they might not be picked up by any algorithm that is
-# focussed on large differential expression changes. Do small relative changes
-# mean small biological effects? Certainly not!
-
-# And we haven't even looked at the anticorrelated genes yet...
-nBOT <- nTOP
-myBottomC <- order(myCorrelations, decreasing = FALSE)[1:nBOT]  # bottom ten
-myPal <- colorRampPalette(c("#ba112a", "#E3C8CC", "#ebebeb"))
-
-for (i in 1:nBOT) {
-  ID <- Biobase::featureNames(GSE3635)[myBottomC[i]]
-  points(seq(0, 120, by = 10),
-         Biobase::exprs(GSE3635)[ID, ],
-         type = "b",
-         cex = 0.8,
-         col= myPal(nBOT)[i])
-  print(SGD_features[which(SGD_features$sysName == ID),
-                     c("name", "description")])
-}
-# ... which are very interesting in their own right.
-
-# What I hope you appreciate from this example is:
-#   -  convenient general purpose methods exist that analyze expression data
-#        with sophisticated statistical methods;
-#   -  the results of these methods depend on whether the statistics model
-#        the biology well;
-#   -  you will draw Cargo Cult conclusions if you can't cast your biology
-#        of interest in terms of a model, "canned" solutions are unlikely
-#        to give you all the answers you need;
-#   -  being able to write your own code gives you the freedom to experiment
-#        and explore. There is a learning curve - but the payoffs are
-#        significant.
-
-# =    7  Annotation data  =====================================================
-#
-# Loading feature data "by hand" as we've done above, is usually not necessary
-# since GEO provides rich annotations in the GPL platform files, which are
-# associated with its Gene Expression Sets files. In the code above,
-# we used getGEO("GSE3635", GSEMatrix = TRUE, getGPL = FALSE), and the GPL
-# annotations were not loaded. We could use getGPL = TRUE instead ...
-
-GSE3635annot <- GEOquery::getGEO("GSE3635", GSEMatrix = TRUE, getGPL = TRUE)
-GSE3635annot <- GSE3635annot[[1]]
-
-# ... and the feature data is then available in the GSE3635@featureData@data
-#     slot:
-str(GSE3635annot@featureData@data)
-GSE3635annot@featureData@data[ 1:20 , ]
-
-# ... from where you can access the columns you need, e.g. spotIDs and gene
-#     symbols:
-
-myAnnot <- GSE3635annot@featureData@data[ , c("SPOT_ID", "Gene")]
-str(myAnnot)
-
-# ... Note that this is a data frame and it is easy to find things we
-#  might be looking for ...
-myAnnot[which(myAnnot$Gene == "MBP1"), ]
-
-# ... or identify rows that might give us trouble, such as probes that
-#     hybridize to more than one gene.
-
-
-# Alternatively, we could have identified the GPL file for this set:
-GSE3635@annotation   # "GPL1914"
-
-# ... and downloaded it directly from NCBI:
-GPL1914 <- GEOquery::getGEO("GPL1914")
-str(GPL1914)
-
-# ... from which we can get the data - which is however NOT necessarily
-# matched to the rows of our expression dataset.
-
-
-# [END]
+# tocID <- "RPR-GEO2R.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the RPR_GEO2R unit.
+#
+#
+# ==============================================================================
+# Version:  1.3
+#
+# Date:     2017-09  -  2020-09
+# Author:   Boris Steipe 
+#
+# Versions:
+#           1.3    use saveRDS()/readRDS() rather than save()/load()
+#           1.2    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+#           1.1    Add section on GPL annotations
+#           1.0    Updates for BCH441 2017
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# TO SUBMIT FOR CREDIT....
+#
+# Note: to submit tasks for credit for this unit, report on the sections
+# that have "Task ..." section headers, and report on the lines that are
+# identified with #TASK>  comments.
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                                      Line
+#TOC> --------------------------------------------------------------------------
+#TOC>   1        Preparations                                                 62
+#TOC>   2        Loading a GEO Dataset                                        89
+#TOC>   2.1        Task - understanding the data                             155
+#TOC>   3        Column wise analysis - time points                          164
+#TOC>   3.1        Task - Comparison of experiments                          193
+#TOC>   3.2        Grouped Samples                                           226
+#TOC>   4        Row-wise Analysis: Expression Profiles                      261
+#TOC>   4.1        Task - Read a table of features                           296
+#TOC>   4.2        Selected Expression profiles                              349
+#TOC>   5        Differential Expression                                     392
+#TOC>   5.1        Final task: Gene descriptions                             532
+#TOC>   6        Improving on Discovery by Differential Expression           538
+#TOC>   7        Annotation data                                             633
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Preparations  ========================================================
+
+# To load and analyze GEO datasets we use a number of Bioconductor packages:
+
+
+if (! requireNamespace("BiocManager", quietly = TRUE)) {
+  install.packages("BiocManager")
+}
+
+if (! requireNamespace("Biobase", quietly = TRUE)) {
+  BiocManager::install("Biobase")
+}
+# Package information:
+#  library(help = Biobase)       # basic information
+#  browseVignettes("Biobase")    # available vignettes
+#  data(package = "Biobase")     # available datasets
+
+
+if (! requireNamespace("GEOquery", quietly = TRUE)) {
+  BiocManager::install("GEOquery")
+}
+# Package information:
+#  library(help = GEOquery)       # basic information
+#  browseVignettes("GEOquery")    # available vignettes
+#  data(package = "GEOquery")      # available datasets
+
+
+# =    2  Loading a GEO Dataset  ===============================================
+
+# The R code below is adapted from the GEO2R scripts produced by GEO for GSE3635
+# for the experiment conducted in the BIN-EXPR-GEO unit
+
+# Version info: R 3.2.3, Biobase 2.30.0, GEOquery 2.40.0, limma 3.26.8
+# R scripts generated  Wed Jan 11 17:39:46 EST 2017
+
+
+# Load series and platform data from GEO. The GEO server is a bit flakey and
+# I have experienced outages over several hours. If the command below does
+# not work for you, skip ahead to the fallback procedure.
+
+GSE3635 <- GEOquery::getGEO("GSE3635", GSEMatrix =TRUE, getGPL=FALSE)
+# Note: GEO2R scripts call the expression data set
+#       "gset" throughout ... in this script I give
+#       it the name "GSE3635" for clarity.
+
+# Subset, if the data contains multiple experiments with different platforms
+# since we should not be mixing data from different platforms. (That's
+# unfortunately very hard to do correctly). The "platform" is the type of chip
+# that was used, and what I selected online when this script was produced, so
+# GEO2R knows about the correct platform ID. Technically, subsetting to just one
+# platform is not necessary here because we _know_ that GSE3635 contains only
+# data produced with the GPL1914 platform. But that's the way GEO2R scripts are
+# setup be default since they have to be able to handle a variety of cases.
+if (length(GSE3635) > 1) {
+  idx <- grep("GPL1914", attr(GSE3635, "names"))
+} else {
+  idx <- 1
+}
+
+GSE3635 <- GSE3635[[idx]]
+
+# FALLBACK
+# ... in case the GEO server is not working, load the "GSE3635" object from
+# the data directory:
+#
+# GSE3635 <- readRDS(file="./data/GSE3635.rds")
+
+
+# Checkpoint ...
+if (! exists("GSE3635")) {
+  stop("PANIC: GSE3635 was not loaded. Can't continue.")
+}
+
+
+# GSE3635 is an "Expression Set" - cf.
+# https://bioconductor.org/packages/release/bioc/vignettes/Biobase/inst/doc/ExpressionSetIntroduction.pdf
+
+# What does this contain?
+help("ExpressionSet-class")
+
+# Print it
+GSE3635
+
+# Access contents via methods:
+Biobase::featureNames(GSE3635)[1:20]   # Rows. What are these features?
+Biobase::sampleNames(GSE3635)[1:10]    # Columns. What are these columns?
+
+# Access contents by subsetting:
+( tmp <- GSE3635[12:17, 1:6] )
+
+# Access data
+Biobase::exprs(tmp)   # exprs() gives us the actual expression values.
+
+# ==   2.1  Task - understanding the data  =====================================
+
+#TASK> What are the data values:
+#TASK>  ... in each cell?
+#TASK>  ... in each column?
+#TASK>  ... in each row?
+
+
+
+# =    3  Column wise analysis - time points  ==================================
+
+# Get an overview of the distribution of values in individual columns
+summary(Biobase::exprs(GSE3635)[ , 1])
+summary(Biobase::exprs(GSE3635)[ , 4])
+summary(Biobase::exprs(GSE3635)[ , 7])
+
+# This allows us to com pare the columns, comment on the quality of the data,
+# and get a sense for the distribution. We need to know how exactly these
+# numbers were produced: obviously, if we don't know how those numbers were
+# created in the first place, we would produce a major sin of Cargo Cult
+# bioinformatics if we would analyze them.
+
+
+
+# compare them in a a boxplot
+cyclicPalette <- colorRampPalette(c("#14b4c9",
+                                    "#d2d1e6",
+                                    "#e66594",
+                                    "#d2d1e6",
+                                    "#14b4c9",
+                                    "#d2d1e6",
+                                    "#e66594",
+                                    "#d2d1e6",
+                                    "#14b4c9"))
+tCols <- cyclicPalette(13)
+boxplot(Biobase::exprs(GSE3635), col = tCols)
+
+
+# ==   3.1  Task - Comparison of experiments  ==================================
+#TASK>     Study this boxplot. What's going on? Are these expression values?
+#TASK>     What do the numbers mean? (Summarize the process and computation
+#TASK>     that has gone i to the preprocessing. You need to understand why
+#TASK>     these columns all have the same mean and range.) Given what common
+#TASK>     sense tells you about the variability of experiments, do you
+#TASK>     believe your understanding is complete?
+
+
+# Lets plot the distributions of values in a more fine-grained manner:
+hT0  <- hist(Biobase::exprs(GSE3635)[ ,  1], breaks = 100, col =  tCols[1])
+hT3  <- hist(Biobase::exprs(GSE3635)[ ,  4], breaks = 100, col =  tCols[4])
+hT6  <- hist(Biobase::exprs(GSE3635)[ ,  7], breaks = 100, col =  tCols[7])
+hT9  <- hist(Biobase::exprs(GSE3635)[ , 10], breaks = 100, col =  tCols[10])
+hT12 <- hist(Biobase::exprs(GSE3635)[ , 13], breaks = 100, col =  tCols[13])
+
+
+plot(  hT0$mids,  hT0$counts,  type = "l", col =  tCols[1], xlim = c(-0.5, 0.5))
+points(hT3$mids,  hT3$counts,  type = "l", col =  tCols[4])
+points(hT6$mids,  hT6$counts,  type = "l", col =  tCols[7])
+points(hT9$mids,  hT9$counts,  type = "l", col =  tCols[10])
+points(hT12$mids, hT12$counts, type = "l", col =  tCols[13])
+legend("topright",
+       legend = c("hT0", "hT3", "hT6", "hT9", "hT12"),
+       col = tCols[c(1, 4, 7, 10, 13)],
+       lwd = 1)
+
+
+#TASK>   Study this plot. What does it tell you? Is there systematic, global
+#TASK>   change in the values over time? Within a cycle? Over the course of the
+#TASK>   experiment?
+
+
+# ==   3.2  Grouped Samples  ===================================================
+
+#  This is the GEO2R code that produces the histogram you saw on the NCBI
+#  Website if you went through the BIN-EXPR-GEO unit.
+
+#  Group names for all samples in a series
+gsms <- "0123450123450" # Each digit identifies one of the 13 columns
+sml <- c()
+for (i in 1:nchar(gsms)) {
+  sml[i] <- substr(gsms,i,i)
+}
+sml <- paste("G", sml, sep="")  # set group names
+
+# order samples by group
+ex <- Biobase::exprs(GSE3635)[ , order(sml)]
+sml <- sml[order(sml)]
+fl <- as.factor(sml)
+labels <- c("t0","t10","t20","t30","t40","t50") # these are the labels we
+                                                # assigned in the BIN-EXPR-GEO
+                                                # unit
+
+# Set parameters and draw the plot. I changed this from the original GEO2R
+# code which overwrote the global palette(). That's evil! Utility code
+# should _never_ mess with global parameters!
+GEOcols <- c("#dfeaf4", "#f4dfdf", "#f2cb98", "#dcdaa5",
+             "#dff4e4", "#f4dff4",  "#AABBCC")
+dev.new(width = 4 + dim(GSE3635)[[2]] / 5, height = 6) # plot into a new window
+par(mar = c(2 + round(max(nchar(Biobase::sampleNames(GSE3635))) / 2), 4, 2, 1))
+title <- paste ("GSE3635", '/', Biobase::annotation(GSE3635),
+                " grouped samples", sep ='')
+boxplot(ex, boxwex = 0.6, notch = TRUE, main = title, outline=FALSE,
+        las = 2, col = GEOcols[fl])
+legend("topleft", labels, fill = GEOcols, bty = "n")
+
+
+# =    4  Row-wise Analysis: Expression Profiles  ==============================
+
+# What we did above was column-wise analysis and it gave us an idea about how
+# our experiments relate to each other. To analyze individual genes, we need to
+# do row-wise analyis.
+
+#TASK>  Try to answer the following questions:
+#TASK>     Are all rows genes?
+#TASK>     What identifiers are being used?
+#          (cf. https://sites.google.com/view/yeastgenome-help/community-help/nomenclature-conventions)
+#TASK>     Are all rows/genes unique?
+#TASK>     Are all yeast genes accounted for?
+
+#     These are crucially important questions but you can't answer the last
+#     question  because you have no information other than the gene identifiers.
+#     However, any biological interpretation relies absolutely on understanding
+#     the semantics of the data. Merely manipulating abstract identifiers and
+#     numbers, that would surely be Cargo Cult bioinformatics.
+
+#     To answer these questions about the data semantics, I have provided the
+#     file "SGD_features.tab" in the data directory of this project. I have
+#     downloaded it from SGD
+#     (http://www.yeastgenome.org/download-data/curation), for a description of
+#     its contents see here:
+file.show("./data/SGD_features.README.txt")
+#     Note: the file as downloaded from SGD actually crashed RStudio due to an
+#           unbalanced quotation mark which caused R to try and read the whole
+#           of the subsequent file into a single string. This was caused by an
+#           alias gene name (B"). I have removed this abomination
+#           by editing the file. The version in the ./data directory can be
+#           read without issues.
+
+# Leets peek into the file:
+readLines("./data/SGD_features.tab", n = 5)
+
+# ==   4.1  Task - Read a table of features  ===================================
+
+#      Note: this task asks you to write code. You MUST identify your
+#      sources when you draw on other's examples.
+
+# This data file is rather typical of datasets that you will encounter "in the
+# wild". To proceed, you need to write code to read it into an R-object. Develop
+# the code in your script file according to the following specification:
+#
+#    -  read "./data/SGD_features.tab" into a data frame
+#          called "SGD_features"
+#    -  remove unneeded columns - keep the following data columns:
+#         -   Primary SGDID
+#         -   Feature type
+#         -   Feature qualifier
+#         -   Feature name - (the systematic name !)
+#         -   Standard gene name
+#         -   Description
+#    -  give the data frame meaningful column names:
+#    colnames(SGD_features) <- c("SGDID",
+#                                "type",
+#                                "qual",
+#                                "sysName",
+#                                "name",
+#                                "description")
+#
+#    -  remove all rows that don't have a systematic name. (You'll have to check
+#          what's in cells that don't have a systematic name)
+#    -  check that the systematic names are unique (Hint: use the duplicated()
+#          function.)
+#    -  assign the systematic names as row names
+#    -  confirm: are all rows of the expression data set represented in
+#                  the feature table? Hint: use setdiff() to print all that
+#                  are not.
+#                  Example usage of setdiff():
+#                      A <- c("duck", "crow", "gull", "tern")
+#                      B <- c("gull", "rook", "tern", "kite", "myna")
+#
+#                      setdiff(A, B)  #  [1] "duck" "crow"
+#                      setdiff(B, A)  #  [1] "rook" "kite" "myna"
+
+#       If some of the features in the expression set are not listed in the
+#       systematic names, you have to be aware of that, when you try to get
+#       more information on them. I presume they are missing because revisions
+#       of the yeast genome after these experiments were done showed that these
+#       genes did not actually exist.
+
+#    -  confirm: how many / which genes in the feature table do not
+#                have expression data?
+
+#  How should we handle rows/columns that are missing or not unique?
+
+
+# ==   4.2  Selected Expression profiles  ======================================
+
+# The code below assumes that you have read ./data/SGD_features.tab and assigned
+# the resulting data frame to SGD_features, with columns as specified above.
+
+# Here is an expression profile for Mbp1.
+
+gName <- "MBP1"
+(iFeature <- which(SGD_features$name == gName))
+(iExprs   <- which(featureNames(GSE3635) == SGD_features$sysName[iFeature]))
+plot(seq(0, 120, by = 10),
+     Biobase::exprs(GSE3635)[iExprs, ],
+     main = paste("Expression profile for", gName),
+     xlab = "time (min)",
+     ylab = "expression",
+     type = "b",
+     col= "maroon")
+abline(h =  0, col = "#00000055")
+abline(v = 60, col = "#00000055")
+
+# Print the description
+SGD_features$description[iFeature]
+
+# Here is a list of gene names that may be involved in the cell cycle switch,
+# and some genes that are controls (cf. BIN-SYS-Concepts):
+
+# Turning it on
+# Cdc14, Mbp1, Swi6, Swi4, Whi5, Cdc28, Cln1, Cln2, Cln3
+
+# Turning it off
+# Rad53, Cdc28, Clb1, Clb2, Clb6, Nrm1
+
+# Housekeeping genes
+# Act1, and Alg9
+
+#TASK>  Plot expression profiles for these genes and study them. What do you
+#TASK>  expect the profiles to look like, given the role of these genes? What
+#TASK>  do you find? (Hint: you will make your life much easier if you define
+#TASK>  a function that plots and prints descriptions with a gene name as input.
+#TASK>  Also: are the gene names in the feature table upper case, or lower case?
+#TASK>  Also: note that the absolute values of change are quite different.
+#TASK>  Also: note that some values may be outliers i.e. failed experiments.)
+
+# =    5  Differential Expression  =============================================
+
+# GEO2R discovers the top differentially expressed  expressed genes by
+# using functions in the Bioconductor limma package.
+
+if (! requireNamespace("limma", quietly = TRUE)) {
+  BiocManager::install("limma")
+}
+# Package information:
+#  library(help = limma)       # basic information
+#  browseVignettes("limma")    # available vignettes
+#  data(package = "limma")     # available datasets
+
+# The GEO2R limma code is virtually uncommented, and has not been written for
+# clarity, but for being easily produced by a code-generator that is triggered
+# by the parameters on the GEO Web-site. Most of it is actually dispensable for
+# our purposes.
+
+# In principle, the code goes through three steps:
+# 1. Prepare the data
+# 2. Define groups that are to be contrasted to define "Differential"
+# 3. Find genes whose expression levels are significantly different across
+#     the groups
+# 4. Format results.
+
+# Biobase is a highly engineered package that is tightly integrated into
+# the Bioconductor world - unfortunately that brings with it a somewhat
+# undesirable level of computational overhead and dependencies. Using the
+# package as we normally do - i.e. calling required functions with their
+# explicit package prefix is therefore not advisable. There are generics
+# that won't be propery dispatched. If you only need a small number of
+# functions for a very specific context, you will probably get away with
+# Biobase::() - but even in the demonstration code of this script
+# not everything works out of the box. We'll therefore load the library,
+# but we'll (redundantly) use the prefix anyway so as to emphasize where
+# the functions come from.
+
+library(Biobase)
+
+# We are recapitulating the experiment in which we assigned the 0, 10, 60 and
+# 70 minute samples to one group, the 30, 40, 90 and 100 minute samples to
+# another group, and calculated differential expression values between these
+# two groups.
+
+setA <- c(1, 2, 7, 8)    # columns for set A
+setB <- c(4, 5, 10, 11)  # columns for set B
+
+# We remove columns we don't need, and for simplicity put the experiments for
+# group A in the first four columns, and the group B in the next four.
+
+mySet <- GSE3635[ , c(setA, setB)]
+
+# limma needs the column descriptions as factors
+mySet$description <- as.factor(c(rep("A", 4), rep("B", 4)))
+
+# Next we build the "design Matrix" for the statistical test:
+myDesign <- model.matrix(~ description + 0, mySet)
+colnames(myDesign) <- levels(mySet$description)
+myDesign
+
+# Now we can calculate the fit of all rows to a linear model that depends
+# on the two groups as specified in the design:
+myFit <- limma::lmFit(mySet, myDesign)
+
+# Next we calculate the contrasts, given the fit ...
+myCont.matrix <- limma::makeContrasts(A - B, levels = myDesign)
+myFit2 <- limma::contrasts.fit(myFit, myCont.matrix)
+
+# ... compute appropriate probabilites from a modified t-test
+#     (empirical Bayes) ...
+myFit2 <- limma::eBayes(myFit2, 0.01)
+
+# ... add the gene names to the fit - object ...
+myFit2$genes <- featureNames(mySet)
+
+# ... and pick the top N differentially expressed genes while controlling
+#     for multiple testing with a False Discovery Rate (fdr) correction. GEO2R
+#     gave us only the top 250 genes, but we might as well do 1000, just so we
+#     can be reasonable sure that our gens of interest are included.
+N <- 1000
+myTable <- limma::topTable(myFit2,
+                           adjust.method = "fdr",
+                           sort.by = "B",
+                           number = N)
+
+str(myTable)
+# The gene names are now in the $ID column
+
+# These are the top 10
+write.table(myTable[1:10 , c("ID","P.Value","B")],
+            file = stdout(),
+            row.names = FALSE,
+            sep="\t")
+
+# Let's see what we got: let's plot the full expression profiles (all 13
+# columns) for the top ten genes from exprs(GSE3635).
+
+plot(seq(0, 120, by = 10),
+     rep(0, 13),
+     type = "n",
+     ylim = c(-1, 1),
+     xlab = "time",
+     ylab = "log-ratio expression")
+rect( 0,  -2,  15, 2, col = "#dfeaf4", border = NA)   # setA
+rect( 55, -2,  75, 2, col = "#dfeaf4", border = NA)   # setA
+rect( 25, -2,  45, 2, col = "#f4dfdf", border = NA)   # setB
+rect( 85, -2, 105, 2, col = "#f4dfdf", border = NA)   # setB
+abline(h = 0, col = "#00000055")
+
+for (i in 1:10) {
+  thisID <- myTable$ID[i]
+  points(seq(0, 120, by = 10), Biobase::exprs(GSE3635)[thisID, ], type = "b")
+}
+
+# Our guess that we might discover interesting genes by selecting groups A and B
+# like we did was not bad. But limma knows nothing about the biology and though
+# the expression profiles look good, there is no guarantee that these are the
+# most biologically relevant genes. Significantly different in expression
+# according to the groups we define is not necessarily the same as a cyclically
+# varying gene, nor does it necessarily find the genes whose expression levels
+# are _most_ different, i.e. if the variance of a highly, differentially
+# expressed gene within a group is large, it may not be very significant. Also,
+# we are not exploiting the fact that these values are time series.
+# Nevertheless, we find genes for which we see a change in expression levels
+# along two cell-cycles.
+
+# Let's superimpose some "real" cell-cycle genes:
+myControls <- c("Cdc14", "Mbp1", "Swi6", "Swi4", "Whi5", "Cln1", "Cln2", "Cln3")
+for (name in toupper(myControls)) {
+  thisID <- SGD_features$sysName[which(SGD_features$name == name)]
+  points(seq(0, 120, by=10),
+         Biobase::exprs(GSE3635)[thisID, ],
+         type="b",
+         col="#AA0000")
+}
+
+# Indeed, the discovered gene profiles look much "cleaner" than the real cycle
+# genes and this just means that differential expression in the way that we
+# have performed it is an approximation to the biology.
+
+# ==   5.1  Final task: Gene descriptions  =====================================
+
+#TASK> Print the descriptions of the top ten differentially expressed genes
+#TASK> and comment on what they have in common (or not).
+
+
+# =    6  Improving on Discovery by Differential Expression  ===================
+
+
+# There are many ways to improve on purely statistical methods, if we have
+# better ideas about the biology. I would just like to demonstrate one
+# possibility here: calculate correlation values to a sample gene - such as Cln2
+# for which we know that it is involved in the cell cycle. Let's plot it first:
+
+gName <- "CLN2"
+(iFeature <- which(SGD_features$name == gName))
+(iExprs   <- which(featureNames(GSE3635) == SGD_features$sysName[iFeature]))
+Cln2Profile <- Biobase::exprs(GSE3635)[iExprs, ]
+plot(seq(0, 120, by = 10),
+     Cln2Profile,
+     ylim = c(-1, 1),
+     main = paste("Expression profile for", gName),
+     xlab = "time (min)",
+     ylab = "expression",
+     type = "b",
+     pch = 16,
+     cex = 1.5,
+     lwd = 2,
+     col= "#40b886")
+abline(h =  0, col = "#0000FF55")
+abline(v = 60, col = "#0000FF55")
+
+# Set up a vector of correlation values
+
+
+myCorrelations <- numeric(nrow(Biobase::exprs(GSE3635)))
+names(myCorrelations) <- Biobase::featureNames(GSE3635)
+for (i in 1:length(myCorrelations)) {
+  myCorrelations[i] <- cor(Cln2Profile, Biobase::exprs(GSE3635)[i, ])
+}
+
+nTOP <- 20
+myTopC <- order(myCorrelations, decreasing = TRUE)[1:nTOP]
+
+# Number 1
+(ID <- Biobase::featureNames(GSE3635)[myTopC[1]])
+
+# Get information
+SGD_features[which(SGD_features$sysName == ID), ]
+# Of course: the highest correlation is Cln1 itself. This is our positive
+# control for the experiment.
+
+# Let's plot the rest
+myPal <- colorRampPalette(c("#82f58d", "#E0F2E2", "#f6f6f6"))
+
+for (i in 2:nTOP) {
+  ID <- Biobase::featureNames(GSE3635)[myTopC[i]]
+  points(seq(0, 120, by = 10),
+         Biobase::exprs(GSE3635)[ID, ],
+       type = "b",
+       cex = 0.8,
+       col= myPal(nTOP)[i])
+  print(SGD_features[which(SGD_features$sysName == ID),
+                     c("name", "description")])
+}
+
+# Note that all of these genes are highly correlated with a known cell cycle
+# gene, but because the absolute values of expression differences are not very
+# large for some of them, they might not be picked up by any algorithm that is
+# focussed on large differential expression changes. Do small relative changes
+# mean small biological effects? Certainly not!
+
+# And we haven't even looked at the anticorrelated genes yet...
+nBOT <- nTOP
+myBottomC <- order(myCorrelations, decreasing = FALSE)[1:nBOT]  # bottom ten
+myPal <- colorRampPalette(c("#ba112a", "#E3C8CC", "#ebebeb"))
+
+for (i in 1:nBOT) {
+  ID <- Biobase::featureNames(GSE3635)[myBottomC[i]]
+  points(seq(0, 120, by = 10),
+         Biobase::exprs(GSE3635)[ID, ],
+         type = "b",
+         cex = 0.8,
+         col= myPal(nBOT)[i])
+  print(SGD_features[which(SGD_features$sysName == ID),
+                     c("name", "description")])
+}
+# ... which are very interesting in their own right.
+
+# What I hope you appreciate from this example is:
+#   -  convenient general purpose methods exist that analyze expression data
+#        with sophisticated statistical methods;
+#   -  the results of these methods depend on whether the statistics model
+#        the biology well;
+#   -  you will draw Cargo Cult conclusions if you can't cast your biology
+#        of interest in terms of a model, "canned" solutions are unlikely
+#        to give you all the answers you need;
+#   -  being able to write your own code gives you the freedom to experiment
+#        and explore. There is a learning curve - but the payoffs are
+#        significant.
+
+# =    7  Annotation data  =====================================================
+#
+# Loading feature data "by hand" as we've done above, is usually not necessary
+# since GEO provides rich annotations in the GPL platform files, which are
+# associated with its Gene Expression Sets files. In the code above,
+# we used getGEO("GSE3635", GSEMatrix = TRUE, getGPL = FALSE), and the GPL
+# annotations were not loaded. We could use getGPL = TRUE instead ...
+
+GSE3635annot <- GEOquery::getGEO("GSE3635", GSEMatrix = TRUE, getGPL = TRUE)
+GSE3635annot <- GSE3635annot[[1]]
+
+# ... and the feature data is then available in the GSE3635@featureData@data
+#     slot:
+str(GSE3635annot@featureData@data)
+GSE3635annot@featureData@data[ 1:20 , ]
+
+# ... from where you can access the columns you need, e.g. spotIDs and gene
+#     symbols:
+
+myAnnot <- GSE3635annot@featureData@data[ , c("SPOT_ID", "Gene")]
+str(myAnnot)
+
+# ... Note that this is a data frame and it is easy to find things we
+#  might be looking for ...
+myAnnot[which(myAnnot$Gene == "MBP1"), ]
+
+# ... or identify rows that might give us trouble, such as probes that
+#     hybridize to more than one gene.
+
+
+# Alternatively, we could have identified the GPL file for this set:
+GSE3635@annotation   # "GPL1914"
+
+# ... and downloaded it directly from NCBI:
+GPL1914 <- GEOquery::getGEO("GPL1914")
+str(GPL1914)
+
+# ... from which we can get the data - which is however NOT necessarily
+# matched to the rows of our expression dataset.
+
+
+# [END]
diff --git a/RPR-Genetic_code_optimality.R b/RPR-Genetic_code_optimality.R
index ef8f865..0bd5293 100644
--- a/RPR-Genetic_code_optimality.R
+++ b/RPR-Genetic_code_optimality.R
@@ -1,385 +1,385 @@
-# tocID <- "RPR-Genetic_code_optimality.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the RPR-Genetic_code_optimality unit.
-#
-# Version:  1.3
-#
-# Date:     2017-10  -  2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.3    2020 Maintenance
-#           1.2    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#                      use Biocmanager:: not biocLite()
-#           1.1      Update set.seed() usage
-#           1.0.1    Fixed two bugs discovered by Suan Chin Yeo.
-#           1.0      New material.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                          Line
-#TOC> --------------------------------------------------------------
-#TOC>   1        Designing a computational experiment             58
-#TOC>   2        Setting up the tools                             74
-#TOC>   2.1        Natural and alternative genetic codes          77
-#TOC>   2.2        Effect of mutations                           135
-#TOC>   2.2.1          reverse-translate                         146
-#TOC>   2.2.2          Randomly mutate                           171
-#TOC>   2.2.3          Forward- translate                        196
-#TOC>   2.2.4          measure effect                            213
-#TOC>   3        Run the experiment                              267
-#TOC>   4        Task solutions                                  363
-#TOC> 
-#TOC> ==========================================================================
-
-
-# This unit demonstrates R code to simulate alternate genetic codes and evaluate
-# their robsustness to code changes. The approaches are quite simple and you
-# will be able to come up with obvious refinements; the point of this code is to
-# demonstrate some R programming techniques, in preparation for more
-# sophisticated questions later.
-
-
-# =    1  Designing a computational experiment  ================================
-
-# Computational experiments are conducted like wet-lab experiments. We begin
-# with a hypothesis, then define the observables that relate to the hypothesis,
-# then define the measures we apply to observations, and finally we interpret
-# our observations. If we want to learn something about the evolution of the
-# genetic code ...
-
-#  - we construct a hypothesis such as: the genetic code has evolved so as to
-#      minimize the effect of mutations;
-#  - we define the observables: the effect of mutations in
-#      sequences, given the natural and possible alternative codes;
-#  - we define the measures to quantify the effect of mutations;
-#  - then we compute alternatives and interpret the results.
-
-
-# =    2  Setting up the tools  ================================================
-
-
-# ==   2.1  Natural and alternative genetic codes  =============================
-
-# Load genetic code tables from the Biostrings package
-if (! requireNamespace("BiocManager", quietly = TRUE)) {
-  install.packages("BiocManager")
-}
-if (! requireNamespace("Biostrings", quietly = TRUE)) {
-  BiocManager::install("Biostrings")
-}
-# Package information:
-#  library(help = Biostrings)       # basic information
-#  browseVignettes("Biostrings")    # available vignettes
-#  data(package = "Biostrings")     # available datasets
-
-
-# There are many ways to generate alternative codes. The simplest way is to
-# randomly assign amino acids to codons. A more sophisticated way is to keep the
-# redundancy of codons intact, since it may reflect some form of symmetry
-# breaking that ignores the third nucleotide of a codon for the most part;
-# therefore we only replace the amino acids of the existing code with random
-# others. Here are two functions that implement these two ideas about alternate
-# codes.
-
-randomGC <- function(GC) {
-  # Return a genetic code with randomly assigned amino acids.
-  # Parameters:
-  #    GC   named chr  length-64 character vector of 20 amino acid one-letter
-  #                       codes plus "*" (stop), named with the codon triplet.
-  # Value:  named chr  same vector with random amino acid assignments in which
-  #                       every amino acid and "*" is encoded at least once.
-
-  aa <- unique(GC)                           # the amino acids in the input code
-  GC[1:64] <- sample(aa, 64, replace = TRUE) # random code
-  while(length(unique(GC)) < length(aa)) {   # We could end up with a code that
-                                             # does not contain all amino acids,
-                                             # then we sample() again.
-    GC[1:64] <- sample(aa, 64, replace = TRUE)
-  }
-  return(GC)
-}
-
-swappedGC <- function(GC) {
-  # Return a genetic code with randomly swapped amino acids.
-  # Parameters:
-  #    GC   named chr  length-64 character vector of 20 amino acid one-letter
-  #                       codes plus "*" (stop), named with the codon triplet.
-  # Value:  named chr  same vector with random amino acid assignments where the
-  #                       amino acids have been swapped.
-
-  aaOrig <- unique(GC)                       # the amino acids in the input code
-  aaSwap <- sample(aaOrig, length(aaOrig))   # shuffled
-  names(aaSwap) <- aaOrig                    # name them after the original
-  GC[1:64] <- aaSwap[GC]                     # replace original with shuffled
-
-  return(GC)
-}
-
-
-# ==   2.2  Effect of mutations  ===============================================
-
-
-# To evaluate the effects of mutations we will do the following:
-#   - we take an amino acid sequence (Mbp1 will do just nicely);
-#   - we reverse-translate it into a nucleotide sequence;
-#   - we mutate it randomly;
-#   - we translate it back to amino acids;
-#   - we count the number of mutations and evaluate their severity.
-
-
-# ===   2.2.1  reverse-translate                    
-
-# To reverse-translate an amino acid vector, we randomly pick one of its
-# codons from a genetic code, and assemble all codons to a sequence.
-
-traRev <- function(s, GC) {
-  # Parameters:
-  #      s   chr   a sequence vector
-  #      GC  chr   a genetic code
-  # Value:
-  #      A reverse-translated vector of codons
-  vC <- character(length(s))
-
-  for (i in seq_along(s)) {
-    codon <- names(GC)[GC == s[i]]   # get all codons for this AA
-    if (length(codon) > 1) {         # if there's more than one ...
-      codon <- sample(codon, 1)      # pick one at random ...
-    }
-    vC[i] <- codon                   # store it
-  }
-
-  return(vC)
-}
-
-
-# ===   2.2.2  Randomly mutate                      
-
-# To mutate, we split a codon into it's three nucleotides, then randomly replace
-# one of the three with another nucleotide.
-
-randMut <- function(vC) {
-  # Parameter:
-  #    vC   chr     a vector of codons
-  # Value:  chr     a vector of codons with a single point mutation from vC
-
-  nuc <- c("A", "C", "G", "T")
-
-  for (i in seq_along(vC)) {
-    triplet <- unlist(strsplit(vC[i], ""))         # split into three nucl.
-    iNuc <- sample(1:3, 1)                         # choose one of the three
-    mutNuc <- sample(nuc[nuc != triplet[iNuc]], 1) # chose a mutated nucleotide
-    triplet[iNuc] <- mutNuc                        # replace the original
-    vC[i] <- paste0(triplet, collapse = "")        # collapse it to a codon
-  }
-  return(vC)
-
-}
-
-
-
-# ===   2.2.3  Forward- translate                   
-
-traFor <- function(vC, GC) {
-  # Parameters:
-  #      vC   chr   a codon vector
-  #      GC   chr   a genetic code
-  # Value:
-  #      A vector of amino acids
-  vAA <- character(length(vC))
-
-  for (i in seq_along(vC)) {
-    vAA[i] <- GC[vC[i]]         # translate and store
-  }
-  return(vAA)
-}
-
-
-# ===   2.2.4  measure effect                       
-
-# How do we evaluate the effect of the mutation? We'll take a simple ad hoc
-# approach: we divide amino acids into hydrophobic, hydrophilic, and neutral
-# categories, according to their free energy of transfer from water to octanol:
-aaHphobic <- c("M", "I", "L", "C", "W", "Y", "F")
-aaHphilic <- c("E", "D", "Q", "N", "P", "K", "R")
-aaNeutral <- c("A", "H", "T", "S", "V", "G")
-
-# Then we will penalize as follows:
-# Changes within one category: 0.1
-# Changes from hydrophobic or hydrophilic to neutral or back: 0.3
-# Changes from hydrophobic to hydrophilic or back: 1.0
-# Changes to stop-codon: 3.0
-
-evalMut <- function(nat, mut) {
-  # Evaluate severity of mutations between amino acid sequence vectors nat and
-  # mut in an ad hoc approach based on hydrophobicity changes.
-  aaHphobic <- c("M", "I", "L", "C", "W", "Y", "F")
-  aaHphilic <- c("E", "D", "Q", "N", "P", "K", "R")
-  aaNeutral <- c("A", "H", "T", "S", "V", "G")
-
-  penalties <- numeric(length(nat))
-  lMut <- nat != mut    # logical TRUE for all mutated positions
-
-  penalties[lMut & (nat %in% aaHphobic) & (mut %in% aaHphobic)] <- 0.1
-  penalties[lMut & (nat %in% aaHphobic) & (mut %in% aaHphilic)] <- 1.0
-  penalties[lMut & (nat %in% aaHphobic) & (mut %in% aaNeutral)] <- 0.3
-
-  penalties[lMut & (nat %in% aaHphilic) & (mut %in% aaHphobic)] <- 1.0
-  penalties[lMut & (nat %in% aaHphilic) & (mut %in% aaHphilic)] <- 0.1
-  penalties[lMut & (nat %in% aaHphilic) & (mut %in% aaNeutral)] <- 0.3
-
-  penalties[lMut & (nat %in% aaNeutral) & (mut %in% aaHphobic)] <- 0.3
-  penalties[lMut & (nat %in% aaNeutral) & (mut %in% aaHphilic)] <- 0.3
-  penalties[lMut & (nat %in% aaNeutral) & (mut %in% aaNeutral)] <- 0.1
-
-  return(sum(penalties))
-}
-
-# A more sophisticated approach could take additional quantities into account,
-# such as charge, size, or flexibility - and it could add heuristics, such as:
-# proline is always bad in secondary structure, charged amino acids are terrible
-# in the folded core of a protein, replacing a small by a large amino acid in
-# the core is very disruptive ... etc.
-#
-# For our experiment, we should not  use a mutation data matrix however:
-# empirical mutation probabilities are superbly suited to estimate evolutionary
-# relationships. Here however, as we are trying to evaluate effects of random
-# mutations on genetic codes, our reasoning would be circular - we would
-# discover that the natural genetic code is optimal ... because it is most
-# similar to the natural genetic code. That would be Cargo Cult bioinformatics.
-
-
-# =    3  Run the experiment  ==================================================
-
-# Fetch the standard Genetic code from Biostrings::
-
-stdCode <- Biostrings::GENETIC_CODE
-
-# Fetch the nucleotide sequence for MBP1:
-
-myDNA <- readLines("./data/S288C_YDL056W_MBP1_coding.fsa")[-1]
-myDNA <- paste0(myDNA, collapse = "")
-myDNA <- as.character(Biostrings::codons(Biostrings::DNAString(myDNA)))
-myDNA <- myDNA[-length(myDNA)]  # drop the stop codon
-
-myAA <- traFor(myDNA, stdCode)
-
-# Mutate and evaluate
-set.seed(112358)
-x <- randMut(myDNA)
-set.seed(NULL)
-x <- traFor(x, stdCode)
-evalMut(myAA, x)  # 166.4
-
-# Try this 200 times, and see how the values are distributed.
-N <- 200
-valSTDC <- numeric(N)
-
-set.seed(112358)                   # set RNG seed for repeatable randomness
-for (i in 1:N) {                   # this takes a few seconds ...
-  x <- randMut(myDNA)              # mutate
-  x <- traFor(x, stdCode)     # translate
-  valSTDC[i] <- evalMut(myAA, x)    # evaluate
-}
-set.seed(NULL)                     # reset the RNG
-
-hist(valSTDC,
-     breaks = 15,
-     col = "palegoldenrod",
-     xlim = c(0, 400),
-     ylim = c(0, N/4),
-     main = "Standard vs. Synthetic Genetic Code",
-     xlab = "Mutation penalty")
-
-# This looks like a normal distribution. Let's assume the effect of mutations
-# under the standard genetic code is the mean of this distribution:
-effectSTDC <- mean(valSTDC)  # 178.1
-
-# Now we can look at the effects of alternate genetic codes:
-
-set.seed(112358)
-# choose a new code
-GC <- randomGC(stdCode)
-set.seed(NULL)
-
-# reverse translate hypothetical sequence according to the new code
-x <- traRev(myAA, GC)
-
-x <- randMut(x)        # randomly mutate hypothetical nucleotide sequence
-x <- traFor(x, GC)     # translate back, with the new code
-evalMut(myAA, x)       # evaluate mutation effects: 298.5
-
-# That seems a fair bit higher than what we saw as "effectUGC"
-# Let's try with different genetic codes. 200 trials - but this time every trial
-# is with a different, synthetic genetic code.
-
-N <- 200
-valXGC <- numeric(N)
-
-set.seed(1414214)                # set RNG seed for repeatable randomness
-for (i in 1:N) {
-  GC <- randomGC(stdCode)   # Choose code
-  x <- traRev(myAA, GC)          # reverse translate
-  x <- randMut(x)                # mutate
-  x <- traFor(x, GC)             # translate
-  valXGC[i] <- evalMut(myAA, x)  # evaluate
-}
-set.seed(NULL)                   # reset the RNG
-
-hist(valXGC,
-     col = "plum",
-     breaks = 15,
-     add = TRUE)
-
-# These two distributions are very widely separated!
-
-# Task: Perform the same experiment with the swapped genetic code.
-#       Compare the distributions. Interpret the result.
-
-
-# These are simple experiments, under assumptions that can be refined in
-# meaningful ways. Yet, even those simple computational experiments show
-# that the Universal Genetic Code has features that one would predict if
-# it has evolved under selective pressure to minimize the effects of mutations.
-# Gradual change under mutation is benificial to evolution, disruptive
-# change is not.
-
-
-# =    4  Task solutions  ======================================================
-
-N <- 200
-valSGC <- numeric(N)
-
-set.seed(2718282)                # set RNG seed for repeatable randomness
-for (i in 1:N) {
-  GC <- swappedGC(stdCode)  # Choose code
-  x <- traRev(myAA, GC)          # reverse translate
-  x <- randMut(x)                # mutate
-  x <- traFor(x, GC)             # translate
-  valSGC[i] <- evalMut(myAA, x)  # evaluate
-}
-set.seed(NULL)                   # reset the RNG
-
-hist(valSGC,
-     col = "#6688FF88",
-     breaks = 15,
-     add = TRUE)
-
-
-
-# [END]
+# tocID <- "RPR-Genetic_code_optimality.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the RPR-Genetic_code_optimality unit.
+#
+# Version:  1.3
+#
+# Date:     2017-10  -  2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.3    2020 Maintenance
+#           1.2    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#                      use Biocmanager:: not biocLite()
+#           1.1      Update set.seed() usage
+#           1.0.1    Fixed two bugs discovered by Suan Chin Yeo.
+#           1.0      New material.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                          Line
+#TOC> --------------------------------------------------------------
+#TOC>   1        Designing a computational experiment             58
+#TOC>   2        Setting up the tools                             74
+#TOC>   2.1        Natural and alternative genetic codes          77
+#TOC>   2.2        Effect of mutations                           135
+#TOC>   2.2.1          reverse-translate                         146
+#TOC>   2.2.2          Randomly mutate                           171
+#TOC>   2.2.3          Forward- translate                        196
+#TOC>   2.2.4          measure effect                            213
+#TOC>   3        Run the experiment                              267
+#TOC>   4        Task solutions                                  363
+#TOC> 
+#TOC> ==========================================================================
+
+
+# This unit demonstrates R code to simulate alternate genetic codes and evaluate
+# their robsustness to code changes. The approaches are quite simple and you
+# will be able to come up with obvious refinements; the point of this code is to
+# demonstrate some R programming techniques, in preparation for more
+# sophisticated questions later.
+
+
+# =    1  Designing a computational experiment  ================================
+
+# Computational experiments are conducted like wet-lab experiments. We begin
+# with a hypothesis, then define the observables that relate to the hypothesis,
+# then define the measures we apply to observations, and finally we interpret
+# our observations. If we want to learn something about the evolution of the
+# genetic code ...
+
+#  - we construct a hypothesis such as: the genetic code has evolved so as to
+#      minimize the effect of mutations;
+#  - we define the observables: the effect of mutations in
+#      sequences, given the natural and possible alternative codes;
+#  - we define the measures to quantify the effect of mutations;
+#  - then we compute alternatives and interpret the results.
+
+
+# =    2  Setting up the tools  ================================================
+
+
+# ==   2.1  Natural and alternative genetic codes  =============================
+
+# Load genetic code tables from the Biostrings package
+if (! requireNamespace("BiocManager", quietly = TRUE)) {
+  install.packages("BiocManager")
+}
+if (! requireNamespace("Biostrings", quietly = TRUE)) {
+  BiocManager::install("Biostrings")
+}
+# Package information:
+#  library(help = Biostrings)       # basic information
+#  browseVignettes("Biostrings")    # available vignettes
+#  data(package = "Biostrings")     # available datasets
+
+
+# There are many ways to generate alternative codes. The simplest way is to
+# randomly assign amino acids to codons. A more sophisticated way is to keep the
+# redundancy of codons intact, since it may reflect some form of symmetry
+# breaking that ignores the third nucleotide of a codon for the most part;
+# therefore we only replace the amino acids of the existing code with random
+# others. Here are two functions that implement these two ideas about alternate
+# codes.
+
+randomGC <- function(GC) {
+  # Return a genetic code with randomly assigned amino acids.
+  # Parameters:
+  #    GC   named chr  length-64 character vector of 20 amino acid one-letter
+  #                       codes plus "*" (stop), named with the codon triplet.
+  # Value:  named chr  same vector with random amino acid assignments in which
+  #                       every amino acid and "*" is encoded at least once.
+
+  aa <- unique(GC)                           # the amino acids in the input code
+  GC[1:64] <- sample(aa, 64, replace = TRUE) # random code
+  while(length(unique(GC)) < length(aa)) {   # We could end up with a code that
+                                             # does not contain all amino acids,
+                                             # then we sample() again.
+    GC[1:64] <- sample(aa, 64, replace = TRUE)
+  }
+  return(GC)
+}
+
+swappedGC <- function(GC) {
+  # Return a genetic code with randomly swapped amino acids.
+  # Parameters:
+  #    GC   named chr  length-64 character vector of 20 amino acid one-letter
+  #                       codes plus "*" (stop), named with the codon triplet.
+  # Value:  named chr  same vector with random amino acid assignments where the
+  #                       amino acids have been swapped.
+
+  aaOrig <- unique(GC)                       # the amino acids in the input code
+  aaSwap <- sample(aaOrig, length(aaOrig))   # shuffled
+  names(aaSwap) <- aaOrig                    # name them after the original
+  GC[1:64] <- aaSwap[GC]                     # replace original with shuffled
+
+  return(GC)
+}
+
+
+# ==   2.2  Effect of mutations  ===============================================
+
+
+# To evaluate the effects of mutations we will do the following:
+#   - we take an amino acid sequence (Mbp1 will do just nicely);
+#   - we reverse-translate it into a nucleotide sequence;
+#   - we mutate it randomly;
+#   - we translate it back to amino acids;
+#   - we count the number of mutations and evaluate their severity.
+
+
+# ===   2.2.1  reverse-translate                    
+
+# To reverse-translate an amino acid vector, we randomly pick one of its
+# codons from a genetic code, and assemble all codons to a sequence.
+
+traRev <- function(s, GC) {
+  # Parameters:
+  #      s   chr   a sequence vector
+  #      GC  chr   a genetic code
+  # Value:
+  #      A reverse-translated vector of codons
+  vC <- character(length(s))
+
+  for (i in seq_along(s)) {
+    codon <- names(GC)[GC == s[i]]   # get all codons for this AA
+    if (length(codon) > 1) {         # if there's more than one ...
+      codon <- sample(codon, 1)      # pick one at random ...
+    }
+    vC[i] <- codon                   # store it
+  }
+
+  return(vC)
+}
+
+
+# ===   2.2.2  Randomly mutate                      
+
+# To mutate, we split a codon into it's three nucleotides, then randomly replace
+# one of the three with another nucleotide.
+
+randMut <- function(vC) {
+  # Parameter:
+  #    vC   chr     a vector of codons
+  # Value:  chr     a vector of codons with a single point mutation from vC
+
+  nuc <- c("A", "C", "G", "T")
+
+  for (i in seq_along(vC)) {
+    triplet <- unlist(strsplit(vC[i], ""))         # split into three nucl.
+    iNuc <- sample(1:3, 1)                         # choose one of the three
+    mutNuc <- sample(nuc[nuc != triplet[iNuc]], 1) # chose a mutated nucleotide
+    triplet[iNuc] <- mutNuc                        # replace the original
+    vC[i] <- paste0(triplet, collapse = "")        # collapse it to a codon
+  }
+  return(vC)
+
+}
+
+
+
+# ===   2.2.3  Forward- translate                   
+
+traFor <- function(vC, GC) {
+  # Parameters:
+  #      vC   chr   a codon vector
+  #      GC   chr   a genetic code
+  # Value:
+  #      A vector of amino acids
+  vAA <- character(length(vC))
+
+  for (i in seq_along(vC)) {
+    vAA[i] <- GC[vC[i]]         # translate and store
+  }
+  return(vAA)
+}
+
+
+# ===   2.2.4  measure effect                       
+
+# How do we evaluate the effect of the mutation? We'll take a simple ad hoc
+# approach: we divide amino acids into hydrophobic, hydrophilic, and neutral
+# categories, according to their free energy of transfer from water to octanol:
+aaHphobic <- c("M", "I", "L", "C", "W", "Y", "F")
+aaHphilic <- c("E", "D", "Q", "N", "P", "K", "R")
+aaNeutral <- c("A", "H", "T", "S", "V", "G")
+
+# Then we will penalize as follows:
+# Changes within one category: 0.1
+# Changes from hydrophobic or hydrophilic to neutral or back: 0.3
+# Changes from hydrophobic to hydrophilic or back: 1.0
+# Changes to stop-codon: 3.0
+
+evalMut <- function(nat, mut) {
+  # Evaluate severity of mutations between amino acid sequence vectors nat and
+  # mut in an ad hoc approach based on hydrophobicity changes.
+  aaHphobic <- c("M", "I", "L", "C", "W", "Y", "F")
+  aaHphilic <- c("E", "D", "Q", "N", "P", "K", "R")
+  aaNeutral <- c("A", "H", "T", "S", "V", "G")
+
+  penalties <- numeric(length(nat))
+  lMut <- nat != mut    # logical TRUE for all mutated positions
+
+  penalties[lMut & (nat %in% aaHphobic) & (mut %in% aaHphobic)] <- 0.1
+  penalties[lMut & (nat %in% aaHphobic) & (mut %in% aaHphilic)] <- 1.0
+  penalties[lMut & (nat %in% aaHphobic) & (mut %in% aaNeutral)] <- 0.3
+
+  penalties[lMut & (nat %in% aaHphilic) & (mut %in% aaHphobic)] <- 1.0
+  penalties[lMut & (nat %in% aaHphilic) & (mut %in% aaHphilic)] <- 0.1
+  penalties[lMut & (nat %in% aaHphilic) & (mut %in% aaNeutral)] <- 0.3
+
+  penalties[lMut & (nat %in% aaNeutral) & (mut %in% aaHphobic)] <- 0.3
+  penalties[lMut & (nat %in% aaNeutral) & (mut %in% aaHphilic)] <- 0.3
+  penalties[lMut & (nat %in% aaNeutral) & (mut %in% aaNeutral)] <- 0.1
+
+  return(sum(penalties))
+}
+
+# A more sophisticated approach could take additional quantities into account,
+# such as charge, size, or flexibility - and it could add heuristics, such as:
+# proline is always bad in secondary structure, charged amino acids are terrible
+# in the folded core of a protein, replacing a small by a large amino acid in
+# the core is very disruptive ... etc.
+#
+# For our experiment, we should not  use a mutation data matrix however:
+# empirical mutation probabilities are superbly suited to estimate evolutionary
+# relationships. Here however, as we are trying to evaluate effects of random
+# mutations on genetic codes, our reasoning would be circular - we would
+# discover that the natural genetic code is optimal ... because it is most
+# similar to the natural genetic code. That would be Cargo Cult bioinformatics.
+
+
+# =    3  Run the experiment  ==================================================
+
+# Fetch the standard Genetic code from Biostrings::
+
+stdCode <- Biostrings::GENETIC_CODE
+
+# Fetch the nucleotide sequence for MBP1:
+
+myDNA <- readLines("./data/S288C_YDL056W_MBP1_coding.fsa")[-1]
+myDNA <- paste0(myDNA, collapse = "")
+myDNA <- as.character(Biostrings::codons(Biostrings::DNAString(myDNA)))
+myDNA <- myDNA[-length(myDNA)]  # drop the stop codon
+
+myAA <- traFor(myDNA, stdCode)
+
+# Mutate and evaluate
+set.seed(112358)
+x <- randMut(myDNA)
+set.seed(NULL)
+x <- traFor(x, stdCode)
+evalMut(myAA, x)  # 166.4
+
+# Try this 200 times, and see how the values are distributed.
+N <- 200
+valSTDC <- numeric(N)
+
+set.seed(112358)                   # set RNG seed for repeatable randomness
+for (i in 1:N) {                   # this takes a few seconds ...
+  x <- randMut(myDNA)              # mutate
+  x <- traFor(x, stdCode)     # translate
+  valSTDC[i] <- evalMut(myAA, x)    # evaluate
+}
+set.seed(NULL)                     # reset the RNG
+
+hist(valSTDC,
+     breaks = 15,
+     col = "palegoldenrod",
+     xlim = c(0, 400),
+     ylim = c(0, N/4),
+     main = "Standard vs. Synthetic Genetic Code",
+     xlab = "Mutation penalty")
+
+# This looks like a normal distribution. Let's assume the effect of mutations
+# under the standard genetic code is the mean of this distribution:
+effectSTDC <- mean(valSTDC)  # 178.1
+
+# Now we can look at the effects of alternate genetic codes:
+
+set.seed(112358)
+# choose a new code
+GC <- randomGC(stdCode)
+set.seed(NULL)
+
+# reverse translate hypothetical sequence according to the new code
+x <- traRev(myAA, GC)
+
+x <- randMut(x)        # randomly mutate hypothetical nucleotide sequence
+x <- traFor(x, GC)     # translate back, with the new code
+evalMut(myAA, x)       # evaluate mutation effects: 298.5
+
+# That seems a fair bit higher than what we saw as "effectUGC"
+# Let's try with different genetic codes. 200 trials - but this time every trial
+# is with a different, synthetic genetic code.
+
+N <- 200
+valXGC <- numeric(N)
+
+set.seed(1414214)                # set RNG seed for repeatable randomness
+for (i in 1:N) {
+  GC <- randomGC(stdCode)   # Choose code
+  x <- traRev(myAA, GC)          # reverse translate
+  x <- randMut(x)                # mutate
+  x <- traFor(x, GC)             # translate
+  valXGC[i] <- evalMut(myAA, x)  # evaluate
+}
+set.seed(NULL)                   # reset the RNG
+
+hist(valXGC,
+     col = "plum",
+     breaks = 15,
+     add = TRUE)
+
+# These two distributions are very widely separated!
+
+# Task: Perform the same experiment with the swapped genetic code.
+#       Compare the distributions. Interpret the result.
+
+
+# These are simple experiments, under assumptions that can be refined in
+# meaningful ways. Yet, even those simple computational experiments show
+# that the Universal Genetic Code has features that one would predict if
+# it has evolved under selective pressure to minimize the effects of mutations.
+# Gradual change under mutation is benificial to evolution, disruptive
+# change is not.
+
+
+# =    4  Task solutions  ======================================================
+
+N <- 200
+valSGC <- numeric(N)
+
+set.seed(2718282)                # set RNG seed for repeatable randomness
+for (i in 1:N) {
+  GC <- swappedGC(stdCode)  # Choose code
+  x <- traRev(myAA, GC)          # reverse translate
+  x <- randMut(x)                # mutate
+  x <- traFor(x, GC)             # translate
+  valSGC[i] <- evalMut(myAA, x)  # evaluate
+}
+set.seed(NULL)                   # reset the RNG
+
+hist(valSGC,
+     col = "#6688FF88",
+     breaks = 15,
+     add = TRUE)
+
+
+
+# [END]
diff --git a/RPR-Introduction.R b/RPR-Introduction.R
index 1bedc58..e50b04b 100644
--- a/RPR-Introduction.R
+++ b/RPR-Introduction.R
@@ -1,50 +1,50 @@
-# tocID <- "RPR-Introduction.R"
-#
-#
-# Purpose: A Bioinformatics Course:
-#              R code accompanying the RPR-Introduction unit
-#
-# Version: 1.0
-#
-# Date:    2020-09-18
-# Author:  Boris Steipe (boris.steipe@utoronto.ca)
-#
-# V 1.0    Updtaed workflow; live
-# V 0.1    First code
-#
-# TODO:
-#
-#
-# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
-#
-# DO NOT SIMPLY  source()  THESE FILES!
-
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-#  going on. That's not how it works ...
-#
-# ==============================================================================
-
-# === TASK: Local script
-#
-# - Open the file myScript.R
-#
-# - Create a section header with a date.
-# - Enter an R-expression that will produce the first 11 powers of 2 (starting
-#     from 0). Not a loop - a single expression. The first number you get must
-#     be 1. The last number you get must be 1024.
-#
-# - Save the file in the myScripts folder, and close it.
-#
-# - Open the file again, select the expression and type Cmd+Enter (or Cmd+R)
-#   to execute it.
-#
-# - Done
-
-# (This task is meant  to make sure that writing R expressions, saving
-#  them in scripts, opening script files and executing code in the file works
-#  for you. If there is an issue, get in touch.)
-
-
-
-# [END]
+# tocID <- "RPR-Introduction.R"
+#
+#
+# Purpose: A Bioinformatics Course:
+#              R code accompanying the RPR-Introduction unit
+#
+# Version: 1.0
+#
+# Date:    2020-09-18
+# Author:  Boris Steipe (boris.steipe@utoronto.ca)
+#
+# V 1.0    Updtaed workflow; live
+# V 0.1    First code
+#
+# TODO:
+#
+#
+# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
+#
+# DO NOT SIMPLY  source()  THESE FILES!
+
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+#  going on. That's not how it works ...
+#
+# ==============================================================================
+
+# === TASK: Local script
+#
+# - Open the file myScript.R
+#
+# - Create a section header with a date.
+# - Enter an R-expression that will produce the first 11 powers of 2 (starting
+#     from 0). Not a loop - a single expression. The first number you get must
+#     be 1. The last number you get must be 1024.
+#
+# - Save the file in the myScripts folder, and close it.
+#
+# - Open the file again, select the expression and type Cmd+Enter (or Cmd+R)
+#   to execute it.
+#
+# - Done
+
+# (This task is meant  to make sure that writing R expressions, saving
+#  them in scripts, opening script files and executing code in the file works
+#  for you. If there is an issue, get in touch.)
+
+
+
+# [END]
diff --git a/RPR-PROSITE_POST.R b/RPR-PROSITE_POST.R
index 1736a3d..5ca7758 100644
--- a/RPR-PROSITE_POST.R
+++ b/RPR-PROSITE_POST.R
@@ -1,168 +1,168 @@
-# tocID <- "RPR-PROSITE_POST.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the RPR-Scripting_data_downloads unit.
-#
-# Version:  1.2
-#
-# Date:     2017-10  -  2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    2020 Maintenance
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout,
-#           1.0.1  Updates for slightly changed interfaces
-#           1.0    First ABC units version
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                                 Line
-#TOC> ---------------------------------------------------------------------
-#TOC>   1        Constructing a POST command from a Web query            43
-#TOC>   1.1        Task - fetchPrositeFeatures() function               148
-#TOC>   2        Task solutions                                         156
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Constructing a POST command from a Web query  ========================
-
-
-if (! requireNamespace("httr", quietly = TRUE)) {
-  install.packages("httr")
-}
-# Package information:
-#  library(help = httr)       # basic information
-#  browseVignettes("httr")    # available vignettes
-#  data(package = "httr")     # available datasets
-
-
-
-
-# We have reverse engineered the Web form for a ScanProsite request, and can
-# construct a valid POST request from knowing the required field names. The POST
-# command is similar to GET(), but we need an explicit request body that
-# contains a list of key/value pairs
-
-UniProtID <- "P39678"
-
-URL <- "https://prosite.expasy.org/cgi-bin/prosite/PSScan.cgi"
-
-response <- httr::POST(URL,
-                       body = list(meta = "opt1",
-                                   meta1_protein = "opt1",
-                                   seq = UniProtID,
-                                   skip = "on",
-                                   output = "tabular"))
-
-# Send off this request, and you should have a response in a few
-# seconds. Let's check the status first:
-
-httr::status_code(response)  # If this is not 200, something went wrong and it
-                             # makes no sense to continue. If this persists, ask
-                             # on the Discussion Board what to do.
-
-
-# The text contents of the response is available with the
-# content() function:
-httr::content(response, "text")
-
-# ... should show you the same as the page contents that you have seen in the
-# browser. Now we need to extract the data from the page. For this simple
-# example we can get away with using regular expressions, but in general we need
-# a real XML parser to parse HTML. We'll cover that in a later unit. Here, we
-# strsplit() the response into individual lines, since each of our data elements
-# is on its own line, and then capture the contents. The way Prosite has
-# formatted their HTML we can simply split on the "\\n" newline character - but
-# they could write the same valid HTML without any newline-characters at all.
-# Understand that we are working with a bit of a "hack" here: exploting
-# empirical assumptions rather than a formal specification. But sometimes quick
-# and dirty is fine, because quick.
-
-lines <- unlist(strsplit(httr::content(response, "text"), "\\n"))
-head(lines)
-
-# Now we define a query pattern for the lines we want:
-# we can use the uID, bracketed by two "|" pipe
-# characters:
-
-patt <- sprintf("\\|%s\\|", UniProtID)
-
-# ... and select only the lines that match this
-# pattern:
-
-( lines <- lines[grep(patt, lines)] )
-
-# ... captures the three lines of output.
-
-# Now we break the lines apart into tokens: this is another application of
-# strsplit(), but this time we split either on "pipe" characters, "|" OR on tabs
-# "\t". Look at the regex "\\t|\\|" in the strsplit() call:
-
-unlist(strsplit(lines[1], "\\t|\\|"))
-
-# Its parts are (\\t)=tab (|)=or (\\|)=pipe. Both "t" and "|" need to be escaped
-# with a backslash. "t" has to be escaped because we want to match a tab (\t),
-# not the literal character "t". And "|" has to be escaped because we mean the
-# literal pipe character, not its metacharacter meaning OR. Thus sometimes the
-# backslash turns a special meaning off, and sometimes it turns a special
-# meaning on. Unfortunately there's no easy way to tell - you just need to
-# remember the characters - or have a reference handy. The metacharacters are
-# (){}[]^$?*+.|&-   ... and some of them have different meanings depending on
-# where in the regex they are.
-
-# Let's put the tokens into named slots of a data frame
-
-features <- data.frame()
-for (line in lines) {
-  tokens <- unlist(strsplit(line, "\\t|\\|"))
-  features <- rbind(features,
-                    data.frame(uID   =  tokens[2],
-                               start =  as.numeric(tokens[4]),
-                               end   =  as.numeric(tokens[5]),
-                               psID  =  tokens[6],
-                               psName = tokens[7],
-                               psSeq  = tokens[11]))
-}
-features
-
-#  This forms the base of a function that collects the features automatically
-#  from a PrositeScan result. You can write this!
-
-
-# ==   1.1  Task - fetchPrositeFeatures() function  ============================
-
-
-# Task: write a function that takes as input a UniProt ID, fetches the
-# features it contains from ScanProsite and returns a data frame as given above, or
-# an empty data frame if there is an error.
-
-
-# =    2  Task solutions  ======================================================
-
-
-# I have placed such a function into the ABC-dbUtilities.R script: look it up by
-# clicking on  dbFetchPrositeFeatures() in the Environment pane.
-
-# Test:
-dbFetchPrositeFeatures("Q5KMQ9")
-
-
-
-
-# [END]
+# tocID <- "RPR-PROSITE_POST.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the RPR-Scripting_data_downloads unit.
+#
+# Version:  1.2
+#
+# Date:     2017-10  -  2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    2020 Maintenance
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout,
+#           1.0.1  Updates for slightly changed interfaces
+#           1.0    First ABC units version
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                                 Line
+#TOC> ---------------------------------------------------------------------
+#TOC>   1        Constructing a POST command from a Web query            43
+#TOC>   1.1        Task - fetchPrositeFeatures() function               148
+#TOC>   2        Task solutions                                         156
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Constructing a POST command from a Web query  ========================
+
+
+if (! requireNamespace("httr", quietly = TRUE)) {
+  install.packages("httr")
+}
+# Package information:
+#  library(help = httr)       # basic information
+#  browseVignettes("httr")    # available vignettes
+#  data(package = "httr")     # available datasets
+
+
+
+
+# We have reverse engineered the Web form for a ScanProsite request, and can
+# construct a valid POST request from knowing the required field names. The POST
+# command is similar to GET(), but we need an explicit request body that
+# contains a list of key/value pairs
+
+UniProtID <- "P39678"
+
+URL <- "https://prosite.expasy.org/cgi-bin/prosite/PSScan.cgi"
+
+response <- httr::POST(URL,
+                       body = list(meta = "opt1",
+                                   meta1_protein = "opt1",
+                                   seq = UniProtID,
+                                   skip = "on",
+                                   output = "tabular"))
+
+# Send off this request, and you should have a response in a few
+# seconds. Let's check the status first:
+
+httr::status_code(response)  # If this is not 200, something went wrong and it
+                             # makes no sense to continue. If this persists, ask
+                             # on the Discussion Board what to do.
+
+
+# The text contents of the response is available with the
+# content() function:
+httr::content(response, "text")
+
+# ... should show you the same as the page contents that you have seen in the
+# browser. Now we need to extract the data from the page. For this simple
+# example we can get away with using regular expressions, but in general we need
+# a real XML parser to parse HTML. We'll cover that in a later unit. Here, we
+# strsplit() the response into individual lines, since each of our data elements
+# is on its own line, and then capture the contents. The way Prosite has
+# formatted their HTML we can simply split on the "\\n" newline character - but
+# they could write the same valid HTML without any newline-characters at all.
+# Understand that we are working with a bit of a "hack" here: exploting
+# empirical assumptions rather than a formal specification. But sometimes quick
+# and dirty is fine, because quick.
+
+lines <- unlist(strsplit(httr::content(response, "text"), "\\n"))
+head(lines)
+
+# Now we define a query pattern for the lines we want:
+# we can use the uID, bracketed by two "|" pipe
+# characters:
+
+patt <- sprintf("\\|%s\\|", UniProtID)
+
+# ... and select only the lines that match this
+# pattern:
+
+( lines <- lines[grep(patt, lines)] )
+
+# ... captures the three lines of output.
+
+# Now we break the lines apart into tokens: this is another application of
+# strsplit(), but this time we split either on "pipe" characters, "|" OR on tabs
+# "\t". Look at the regex "\\t|\\|" in the strsplit() call:
+
+unlist(strsplit(lines[1], "\\t|\\|"))
+
+# Its parts are (\\t)=tab (|)=or (\\|)=pipe. Both "t" and "|" need to be escaped
+# with a backslash. "t" has to be escaped because we want to match a tab (\t),
+# not the literal character "t". And "|" has to be escaped because we mean the
+# literal pipe character, not its metacharacter meaning OR. Thus sometimes the
+# backslash turns a special meaning off, and sometimes it turns a special
+# meaning on. Unfortunately there's no easy way to tell - you just need to
+# remember the characters - or have a reference handy. The metacharacters are
+# (){}[]^$?*+.|&-   ... and some of them have different meanings depending on
+# where in the regex they are.
+
+# Let's put the tokens into named slots of a data frame
+
+features <- data.frame()
+for (line in lines) {
+  tokens <- unlist(strsplit(line, "\\t|\\|"))
+  features <- rbind(features,
+                    data.frame(uID   =  tokens[2],
+                               start =  as.numeric(tokens[4]),
+                               end   =  as.numeric(tokens[5]),
+                               psID  =  tokens[6],
+                               psName = tokens[7],
+                               psSeq  = tokens[11]))
+}
+features
+
+#  This forms the base of a function that collects the features automatically
+#  from a PrositeScan result. You can write this!
+
+
+# ==   1.1  Task - fetchPrositeFeatures() function  ============================
+
+
+# Task: write a function that takes as input a UniProt ID, fetches the
+# features it contains from ScanProsite and returns a data frame as given above, or
+# an empty data frame if there is an error.
+
+
+# =    2  Task solutions  ======================================================
+
+
+# I have placed such a function into the ABC-dbUtilities.R script: look it up by
+# clicking on  dbFetchPrositeFeatures() in the Environment pane.
+
+# Test:
+dbFetchPrositeFeatures("Q5KMQ9")
+
+
+
+
+# [END]
diff --git a/RPR-Pipe.R b/RPR-Pipe.R
index 517da92..41936d1 100644
--- a/RPR-Pipe.R
+++ b/RPR-Pipe.R
@@ -1,135 +1,135 @@
-# tocID <- "RPR-Pipe.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              Discussing pipe operators.
-#
-# Version:  1.0
-#
-# Date:     2021  10
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.0    New code
-#
-#
-# TODO:
-#   - find more interesting examples
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC>
-#TOC>   Section  Title                            Line
-#TOC> ------------------------------------------------
-#TOC>   1        Pipe  Concept                      41
-#TOC>   2        Nested Expression                  73
-#TOC>   3        magrittr:: Pipe                    78
-#TOC>   4        Base R Pipe                        93
-#TOC>   5        Intermediate Assignment           108
-#TOC>   6        Postscript                        127
-#TOC>
-#TOC> ==========================================================================
-
-
-# =    1  Pipe  Concept  =======================================================
-
-# Pipes are actually an awesome idea for any code that implements a workflow -
-# a sequence of operations, each of which transforms data in a specialized way.
-#
-# This principle is familiar from maths: chained functions. If have a function
-# y = f(x) and want to use those results as in z = g(y), I can just write
-# z = g(f(x))
-#
-# On the unix command line, pipes were used from the very beginning, implemented
-# with the "|" pipe character.
-#
-# In R, the magrittr package provided the %>% operator, and recently the |>
-# operator has been introduced into base R.
-#
-# However there are alternatives: intermediate assignment, and nested functions
-# that have always existed in base R anyway.
-#
-# Let us look at an example. In writing this, I found out that virtually
-# ALL non-trivial examples I came up with don't translate well into this idiom
-# at all. It is actually quite limited to simple filtering operations on
-# data. A more interesting example might be added in the future, let me know if
-# you have a good idea.
-#
-# A somewhat contrived example is to sort a list of files by the
-# length of the file names:
-
-myFiles <- list.files(pattern = "\\.R$")
-
-# nchar() gives the number of characters in a string, order() produces indices
-# that map an array to its sorted form.
-#
-# =    2  Nested Expression  ===================================================
-
-myFiles[order(nchar(myFiles))]
-
-
-# =    3  magrittr:: Pipe  =====================================================
-
-if (! requireNamespace("magrittr", quietly = TRUE)) {
-  install.packages("magrittr")
-}
-# Package information:
-#  library(help = magrittr)       # basic information
-#  browseVignettes("magrittr")    # available vignettes
-#  data(package = "magrittr")     # available datasets
-
-
-library(magrittr)
-
-myFiles  %>% nchar %>% order %>% myFiles[.]
-
-# =    4  Base R Pipe  =========================================================
-
-# Since version 4.1, base R now supports a pipe operator without the need
-# to load a special package. Such an introductions of external functionality
-# into the language is very rare.
-#
-# Unfortunately it won't (yet) work with the '[' function, so we need to write
-# an intermediate function for this example
-extract <- function(x, v) {
-  return(v[x])
-}
-
-myFiles |> nchar() |> order() |> extract(myFiles)
-
-
-# =    5  Intermediate Assignment  =============================================
-
-# So what's the problem? As you can see, the piped code may be concise and
-# expressive. But there is also a large amount of implicit assignment and
-# processing going on and that is usually a bad idea because it makes code hard
-# to maintain. I am NOT a big fan of the nested syntax, but I don't think that
-# replacing it with the pipe makes things much better. My preferred idiom is
-# to use intermediate assignments. Only then is it convenient to examine
-# the code step by step and validate every single step. And that is the most
-# important objective at all: no code is good if it does not compute
-# correctly.
-
-
-x <- nchar(myFiles)
-x <- order(x)
-myFiles[x]
-
-
-
-# =    6  Postscript  ==========================================================
-
-# I tried to write an example that strips all comments from a list of files, and
-# another example that finds all files that were not yet updated this year
-# (according to the "# Date: in the header). Neither examples can be well
-# written without intermediate assignments, or at least sapply() functions
-# that are not simpler at all than the intermediate assignment.
-
-# [END]
+# tocID <- "RPR-Pipe.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              Discussing pipe operators.
+#
+# Version:  1.0
+#
+# Date:     2021  10
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.0    New code
+#
+#
+# TODO:
+#   - find more interesting examples
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC>
+#TOC>   Section  Title                            Line
+#TOC> ------------------------------------------------
+#TOC>   1        Pipe  Concept                      41
+#TOC>   2        Nested Expression                  73
+#TOC>   3        magrittr:: Pipe                    78
+#TOC>   4        Base R Pipe                        93
+#TOC>   5        Intermediate Assignment           108
+#TOC>   6        Postscript                        127
+#TOC>
+#TOC> ==========================================================================
+
+
+# =    1  Pipe  Concept  =======================================================
+
+# Pipes are actually an awesome idea for any code that implements a workflow -
+# a sequence of operations, each of which transforms data in a specialized way.
+#
+# This principle is familiar from maths: chained functions. If have a function
+# y = f(x) and want to use those results as in z = g(y), I can just write
+# z = g(f(x))
+#
+# On the unix command line, pipes were used from the very beginning, implemented
+# with the "|" pipe character.
+#
+# In R, the magrittr package provided the %>% operator, and recently the |>
+# operator has been introduced into base R.
+#
+# However there are alternatives: intermediate assignment, and nested functions
+# that have always existed in base R anyway.
+#
+# Let us look at an example. In writing this, I found out that virtually
+# ALL non-trivial examples I came up with don't translate well into this idiom
+# at all. It is actually quite limited to simple filtering operations on
+# data. A more interesting example might be added in the future, let me know if
+# you have a good idea.
+#
+# A somewhat contrived example is to sort a list of files by the
+# length of the file names:
+
+myFiles <- list.files(pattern = "\\.R$")
+
+# nchar() gives the number of characters in a string, order() produces indices
+# that map an array to its sorted form.
+#
+# =    2  Nested Expression  ===================================================
+
+myFiles[order(nchar(myFiles))]
+
+
+# =    3  magrittr:: Pipe  =====================================================
+
+if (! requireNamespace("magrittr", quietly = TRUE)) {
+  install.packages("magrittr")
+}
+# Package information:
+#  library(help = magrittr)       # basic information
+#  browseVignettes("magrittr")    # available vignettes
+#  data(package = "magrittr")     # available datasets
+
+
+library(magrittr)
+
+myFiles  %>% nchar %>% order %>% myFiles[.]
+
+# =    4  Base R Pipe  =========================================================
+
+# Since version 4.1, base R now supports a pipe operator without the need
+# to load a special package. Such an introductions of external functionality
+# into the language is very rare.
+#
+# Unfortunately it won't (yet) work with the '[' function, so we need to write
+# an intermediate function for this example
+extract <- function(x, v) {
+  return(v[x])
+}
+
+myFiles |> nchar() |> order() |> extract(myFiles)
+
+
+# =    5  Intermediate Assignment  =============================================
+
+# So what's the problem? As you can see, the piped code may be concise and
+# expressive. But there is also a large amount of implicit assignment and
+# processing going on and that is usually a bad idea because it makes code hard
+# to maintain. I am NOT a big fan of the nested syntax, but I don't think that
+# replacing it with the pipe makes things much better. My preferred idiom is
+# to use intermediate assignments. Only then is it convenient to examine
+# the code step by step and validate every single step. And that is the most
+# important objective at all: no code is good if it does not compute
+# correctly.
+
+
+x <- nchar(myFiles)
+x <- order(x)
+myFiles[x]
+
+
+
+# =    6  Postscript  ==========================================================
+
+# I tried to write an example that strips all comments from a list of files, and
+# another example that finds all files that were not yet updated this year
+# (according to the "# Date: in the header). Neither examples can be well
+# written without intermediate assignments, or at least sapply() functions
+# that are not simpler at all than the intermediate assignment.
+
+# [END]
diff --git a/RPR-RegEx.R b/RPR-RegEx.R
index f9f8a5b..4e49fb0 100644
--- a/RPR-RegEx.R
+++ b/RPR-RegEx.R
@@ -1,180 +1,180 @@
-# tocID <- "RPR-RegEx.R"
-#
-# Purpose: A Bioinformatics Course:
-#              R code accompanying the RPR-RegEx unit
-#
-# Version: 1.0
-#
-# Date:    2017-08  -  2020-09
-# Author:  Boris Steipe (boris.steipe@utoronto.ca)
-#
-# V 0.1    Maintenance 2020
-# V 0.1    First code
-#
-# TODO:
-#
-#
-# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
-#
-# DO NOT SIMPLY  source()  THESE FILES!
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-#  going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC>
-#TOC>   Section  Title                                Line
-#TOC> ----------------------------------------------------
-#TOC>   1        A regex example                        41
-#TOC>   2        Counting lines                        108
-#TOC>   2.1        Counting C-alpha atoms only         126
-#TOC>   3        Code Solutions                        142
-#TOC>   3.1        Counting atoms                      144
-#TOC>   3.2        Counting C-alpha records            160
-#TOC>
-#TOC> ==========================================================================
-
-
-# =    1  A regex example  =====================================================
-
-# The canonical FASTA version of yeast Mbp1 at Uniprot
-s <- ">sp|P39678|MBP1_YEAST Transcription factor MBP1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MBP1 PE=1 SV=1
-MSNQIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLK
-ETHEKVQGGFGKYQGTWVPLNIAKQLAEKFSVYDQLKPLFDFTQTDGSASPPPAPKHHHA
-SKVDRKKAIRSASTSAIMETKRNNKKAEENQFQSSKILGNPTAAPRKRGRPVGSTRGSRR
-KLGVNLQRSQSDMGFPRPAIPNSSISTTQLPSIRSTMGPQSPTLGILEEERHDSRQQQPQ
-QNNSAQFKEIDLEDGLSSDVEPSQQLQQVFNQNTGFVPQQQSSLIQTQQTESMATSVSSS
-PSLPTSPGDFADSNPFEERFPGGGTSPIISMIPRYPVTSRPQTSDINDKVNKYLSKLVDY
-FISNEMKSNKSLPQVLLHPPPHSAPYIDAPIDPELHTAFHWACSMGNLPIAEALYEAGTS
-IRSTNSQGQTPLMRSSLFHNSYTRRTFPRIFQLLHETVFDIDSQSQTVIHHIVKRKSTTP
-SAVYYLDVVLSKIKDFSPQYRIELLLNTQDKNGDTALHIASKNGDVVFFNTLVKMGALTT
-ISNKEGLTANEIMNQQYEQMMIQNGTNQHVNSSNTDLNIHVNTNNIETKNDVNSMVIMSP
-VSPSDYITYPSQIATNISRNIPNVVNSMKQMASIYNDLHEQHDNEIKSLQKTLKSISKTK
-IQVSLKTLEVLKESSKDENGEAQTNDDFEILSRLQEQNTKKLRKRLIRYKRLIKQKLEYR
-QTVLLNKLIEDETQATTNNTVEKDNNTLERLELAQELTMLQLQRKNKLSSLVKKFEDNAK
-IHKYRRIIREGTEMNIEEVDSSLDVILQTLIANNNKNKGAEQIITISNANSHA"
-
-nchar(s)
-# Must be 969
-
-# Task: Fetch the Uniprot ID by retrieving the first string that appears between
-# two vertical bars ("pipes") in the header record.
-#
-
-# Develop the regular expression:
-                      # Just five characters returned, so we know we are using
-patt <- "^>(.{5})"    # the right functions
-regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
-
-patt <- "^>(.*)|"    # everything to the pipe character
-regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
-
-# Ooops - "|" is a metacharacter - we must escape it
-
-patt <- "^>(.*)\|"    # using "\|"
-# Ooops - that's not how we escape: must double the \ to send a literal
-# "\" plus the character "|" to the regex engine.
-
-patt <- "^>(.*)\\|"    # using "\\|"
-regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
-
-# Good. Now let's first match everything that is not a "|", then match a "|"
-patt <- "^>([^|]*)\\|"
-regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
-
-# the same thing again, but capture the second match. And insist that there
-# must be at least one character captured
-
-patt <- "^>[^|]*\\|([^|]+)\\|"
-# Analyze this pattern:
-#    ^           anchor the match at the beginning of the line
-#    >           ">" must be the first character
-#    [^|]*       all-characters-except-a-vertical-bar, 0 or more times because
-#                  we don't know what other versions of the string "sp"
-#                  might appear. Note that within the brackets "|" is NOT a
-#                  metacharacter.
-#    \\|         "|" character: ouside of square brackets "|" is a metacharacter
-#                  and means "OR"; we need to escape it to match a literal "|".
-#    (           open parenthesis: capture what comes next ...
-#       [^|]+    all-characters-except-a-vertical-bar, 1 or more times
-#    )           close parenthesis: stop capturing here
-#    \\|           second "|" character, escaped
-regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
-
-
-# =    2  Counting lines  ======================================================
-
-# Task: Write a function that returns the number of atoms in a PDB file. Call it
-#       atomCount(). Sample data is here:
-myPDB <- readLines("./data/0TST.pdb")
-
-#       Specification:
-#       Read a file from its path given as the only argument.
-#       Return the number of lines in that file that begin with "ATOM  "
-#       or with "HETATM".
-
-#       Try this. Write a function. Solution code is at the end of this file.
-#       Don't peek.
-
-atomCount("./data/0TST.pdb")  # must return 6
-
-
-
-# ==   2.1  Counting C-alpha atoms only  =======================================
-
-# Task: write a function based on the previous one that matches only CA records,
-#       i.e. it can be used to count the number of amino acids. Don't get
-#       fooled by calcium atoms, or the string CA appearing elsewhere.
-#       cf. https://www.wwpdb.org/documentation/file-format-content/format33/sect9.html#ATOM
-
-#       Specification:
-#       Read a file from its path given as the only argument.
-#       Return the number of lines in that file that have a C-alpha atom.
-
-#       Try this. Solution code is at the end of this file. Don't peek.
-
-CAcount("./data/0TST.pdb")  # must return 1
-
-
-# =    3  Code Solutions  ======================================================
-
-# ==   3.1  Counting atoms  ====================================================
-
-atomCount <- function(IN) {
-  # count the number of atoms in a PDB formatted file
-  # Parameters:
-  #     IN  chr  path of the file to read
-  # Value:
-  #         numeric  number of lines that match "^ATOM  " or "^HETATM"
-  # Note: the regex MUST be anchored to the beginning of the line, otherwise
-  # it might match somewhere in a comment!
-  x <- readLines(IN)
-  patt <- "(^ATOM  )|(^HETATM)"
-  return(length(grep(patt, x)))
-}
-
-
-# ==   3.2  Counting C-alpha records  ==========================================
-
-
-CAcount <- function(IN) {
-  # count the number of C-alpha atoms in a PDB formatted file
-  # Parameters:
-  #     IN  chr  path of the file to read
-  # Value:
-  #         numeric  number of lines that match " CA " in position 13 - 16 of
-  #                  an ATOM record.
-  # Note: the regex MUST be aligned into the right position, otherwise it
-  #       might match Calcium records!
-  x <- readLines(IN)
-  patt <- "^ATOM  ...... CA "
-  return(length(grep(patt, x)))
-}
-
-
-
-# [END]
+# tocID <- "RPR-RegEx.R"
+#
+# Purpose: A Bioinformatics Course:
+#              R code accompanying the RPR-RegEx unit
+#
+# Version: 1.0
+#
+# Date:    2017-08  -  2020-09
+# Author:  Boris Steipe (boris.steipe@utoronto.ca)
+#
+# V 0.1    Maintenance 2020
+# V 0.1    First code
+#
+# TODO:
+#
+#
+# == HOW TO WORK WITH LEARNING UNIT FILES ======================================
+#
+# DO NOT SIMPLY  source()  THESE FILES!
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+#  going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC>
+#TOC>   Section  Title                                Line
+#TOC> ----------------------------------------------------
+#TOC>   1        A regex example                        41
+#TOC>   2        Counting lines                        108
+#TOC>   2.1        Counting C-alpha atoms only         126
+#TOC>   3        Code Solutions                        142
+#TOC>   3.1        Counting atoms                      144
+#TOC>   3.2        Counting C-alpha records            160
+#TOC>
+#TOC> ==========================================================================
+
+
+# =    1  A regex example  =====================================================
+
+# The canonical FASTA version of yeast Mbp1 at Uniprot
+s <- ">sp|P39678|MBP1_YEAST Transcription factor MBP1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MBP1 PE=1 SV=1
+MSNQIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLK
+ETHEKVQGGFGKYQGTWVPLNIAKQLAEKFSVYDQLKPLFDFTQTDGSASPPPAPKHHHA
+SKVDRKKAIRSASTSAIMETKRNNKKAEENQFQSSKILGNPTAAPRKRGRPVGSTRGSRR
+KLGVNLQRSQSDMGFPRPAIPNSSISTTQLPSIRSTMGPQSPTLGILEEERHDSRQQQPQ
+QNNSAQFKEIDLEDGLSSDVEPSQQLQQVFNQNTGFVPQQQSSLIQTQQTESMATSVSSS
+PSLPTSPGDFADSNPFEERFPGGGTSPIISMIPRYPVTSRPQTSDINDKVNKYLSKLVDY
+FISNEMKSNKSLPQVLLHPPPHSAPYIDAPIDPELHTAFHWACSMGNLPIAEALYEAGTS
+IRSTNSQGQTPLMRSSLFHNSYTRRTFPRIFQLLHETVFDIDSQSQTVIHHIVKRKSTTP
+SAVYYLDVVLSKIKDFSPQYRIELLLNTQDKNGDTALHIASKNGDVVFFNTLVKMGALTT
+ISNKEGLTANEIMNQQYEQMMIQNGTNQHVNSSNTDLNIHVNTNNIETKNDVNSMVIMSP
+VSPSDYITYPSQIATNISRNIPNVVNSMKQMASIYNDLHEQHDNEIKSLQKTLKSISKTK
+IQVSLKTLEVLKESSKDENGEAQTNDDFEILSRLQEQNTKKLRKRLIRYKRLIKQKLEYR
+QTVLLNKLIEDETQATTNNTVEKDNNTLERLELAQELTMLQLQRKNKLSSLVKKFEDNAK
+IHKYRRIIREGTEMNIEEVDSSLDVILQTLIANNNKNKGAEQIITISNANSHA"
+
+nchar(s)
+# Must be 969
+
+# Task: Fetch the Uniprot ID by retrieving the first string that appears between
+# two vertical bars ("pipes") in the header record.
+#
+
+# Develop the regular expression:
+                      # Just five characters returned, so we know we are using
+patt <- "^>(.{5})"    # the right functions
+regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
+
+patt <- "^>(.*)|"    # everything to the pipe character
+regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
+
+# Ooops - "|" is a metacharacter - we must escape it
+
+patt <- "^>(.*)\|"    # using "\|"
+# Ooops - that's not how we escape: must double the \ to send a literal
+# "\" plus the character "|" to the regex engine.
+
+patt <- "^>(.*)\\|"    # using "\\|"
+regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
+
+# Good. Now let's first match everything that is not a "|", then match a "|"
+patt <- "^>([^|]*)\\|"
+regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
+
+# the same thing again, but capture the second match. And insist that there
+# must be at least one character captured
+
+patt <- "^>[^|]*\\|([^|]+)\\|"
+# Analyze this pattern:
+#    ^           anchor the match at the beginning of the line
+#    >           ">" must be the first character
+#    [^|]*       all-characters-except-a-vertical-bar, 0 or more times because
+#                  we don't know what other versions of the string "sp"
+#                  might appear. Note that within the brackets "|" is NOT a
+#                  metacharacter.
+#    \\|         "|" character: ouside of square brackets "|" is a metacharacter
+#                  and means "OR"; we need to escape it to match a literal "|".
+#    (           open parenthesis: capture what comes next ...
+#       [^|]+    all-characters-except-a-vertical-bar, 1 or more times
+#    )           close parenthesis: stop capturing here
+#    \\|           second "|" character, escaped
+regmatches(s, regexec(patt, s, perl = TRUE))[[1]][2]
+
+
+# =    2  Counting lines  ======================================================
+
+# Task: Write a function that returns the number of atoms in a PDB file. Call it
+#       atomCount(). Sample data is here:
+myPDB <- readLines("./data/0TST.pdb")
+
+#       Specification:
+#       Read a file from its path given as the only argument.
+#       Return the number of lines in that file that begin with "ATOM  "
+#       or with "HETATM".
+
+#       Try this. Write a function. Solution code is at the end of this file.
+#       Don't peek.
+
+atomCount("./data/0TST.pdb")  # must return 6
+
+
+
+# ==   2.1  Counting C-alpha atoms only  =======================================
+
+# Task: write a function based on the previous one that matches only CA records,
+#       i.e. it can be used to count the number of amino acids. Don't get
+#       fooled by calcium atoms, or the string CA appearing elsewhere.
+#       cf. https://www.wwpdb.org/documentation/file-format-content/format33/sect9.html#ATOM
+
+#       Specification:
+#       Read a file from its path given as the only argument.
+#       Return the number of lines in that file that have a C-alpha atom.
+
+#       Try this. Solution code is at the end of this file. Don't peek.
+
+CAcount("./data/0TST.pdb")  # must return 1
+
+
+# =    3  Code Solutions  ======================================================
+
+# ==   3.1  Counting atoms  ====================================================
+
+atomCount <- function(IN) {
+  # count the number of atoms in a PDB formatted file
+  # Parameters:
+  #     IN  chr  path of the file to read
+  # Value:
+  #         numeric  number of lines that match "^ATOM  " or "^HETATM"
+  # Note: the regex MUST be anchored to the beginning of the line, otherwise
+  # it might match somewhere in a comment!
+  x <- readLines(IN)
+  patt <- "(^ATOM  )|(^HETATM)"
+  return(length(grep(patt, x)))
+}
+
+
+# ==   3.2  Counting C-alpha records  ==========================================
+
+
+CAcount <- function(IN) {
+  # count the number of C-alpha atoms in a PDB formatted file
+  # Parameters:
+  #     IN  chr  path of the file to read
+  # Value:
+  #         numeric  number of lines that match " CA " in position 13 - 16 of
+  #                  an ATOM record.
+  # Note: the regex MUST be aligned into the right position, otherwise it
+  #       might match Calcium records!
+  x <- readLines(IN)
+  patt <- "^ATOM  ...... CA "
+  return(length(grep(patt, x)))
+}
+
+
+
+# [END]
diff --git a/RPR-SX-PDB.R b/RPR-SX-PDB.R
index 14db8ca..d51e8ee 100644
--- a/RPR-SX-PDB.R
+++ b/RPR-SX-PDB.R
@@ -1,829 +1,829 @@
-# tocID <- "RPR-SX-PDB.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the RPR-SX-PDB unit.
-#
-# Version:  1.3
-#
-# Date:     2017-10  -  2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.3    2020 Maintenance
-#           1.2    2019 Maintenance
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout
-#           1.0    First live version, completely refactores 2016 code
-#                     with remarkable speed gains. Added section on x, y, z
-#                     (density) plots.
-#           0.1    First code copied from 2016 material.
-#
-# TODO:
-#          Confirm that SS residue numbers are indices
-#          Set task seed from student number
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                      Line
-#TOC> ----------------------------------------------------------
-#TOC>   1        Introduction to the bio3D package            63
-#TOC>   2        A Ramachandran plot                         155
-#TOC>   3        Density plots                               231
-#TOC>   3.1        Density-based colours                     245
-#TOC>   3.2        Plotting with smoothScatter()             264
-#TOC>   3.3        Plotting hexbins                          279
-#TOC>   3.4        Plotting density contours                 307
-#TOC>   3.4.1          ... as overlay on a coloured grid     340
-#TOC>   3.4.2          ... as filled countour                357
-#TOC>   3.4.3          ... as a perspective plot             388
-#TOC>   4        cis-peptide bonds                           406
-#TOC>   5        H-bond lengths                              421
-#TOC> 
-#TOC> ==========================================================================
-
-
-# In this example of protein structure interpretation, we ...
-#   - download the package bio3D:: which supports work with
-#     protein structure files,
-#   - explore some elementary functions of the package
-#   - explore plotting of density values with scatterplots
-#   - assemble a script to see whether H-bond lengths systematically differ
-#     between alpha-helical and beta-sheet structures.
-
-
-# =    1  Introduction to the bio3D package  ===================================
-
-
-if (! requireNamespace("bio3d", quietly = TRUE)) {
-  install.packages("bio3d")
-}
-# Package information:
-#  library(help = bio3d)       # basic information
-#  browseVignettes("bio3d")    # available vignettes
-#  data(package = "bio3d")     # available datasets
-
-
-# bio3d:: can load molecules directly from the PDB servers, you don't _have_ to
-# store them locally, but you could.
-#
-# But before you _load_ a file, have a look what such a file contains. I have
-# packaged the 1BM8 file into the project:
-file.show("./data/1BM8.pdb")
-
-# Have a look at the header section, the atom records, the coordinate records
-# etc.
-#
-# Task:
-#   Answer the following questions:
-#     What is the resolution of the structure?
-#     Is the first residue in the SEQRES section also the first residue
-#         with an ATOM record?
-#     How many water molecules does the structure contain?
-#     Can you explain REMARK 525 regarding HOH 459 and HOH 473?
-#     Are all atoms of the N-terminal residue present?
-#     Are all atoms of the C-terminal residue present?
-
-apses <- bio3d::read.pdb("1bm8")  # load a molecule directly from the PDB via
-                                  # the Internet.
-
-# check what we have:
-apses
-
-# what is this actually?
-str(apses)
-
-# bio3d's pdb objects are simple lists. Great! You know lists!
-
-# You see that there is a list element called $atom which is a data frame in
-# which the columns arevectors of the same length - namely the number of atoms
-# in the structure file. And there is a matrix of (x, y, z) triplets called xyz.
-# And there is a vector that holds sequence, and two tables called helix and
-# sheet. Let's pull out a few values to confirm how selection and subsetting
-# works here:
-
-# selection by atom ...
-i <- 5
-apses$atom[i,]
-apses$atom[i, c("x", "y", "z")]   # here we are selecting with column names!
-apses$xyz[c(i*3-2, i*3-1, i*3)]   # here we are selecting with row numbers
-
-# all atoms of a residue ...
-i <- 48
-apses$atom[apses$atom[,"resno"] == i, ]
-
-# sequence of the first ten residues
-apses$seqres[1:10]  # the "A"s here identify chain "A"
-
-# Can we convert this to one letter code?
-bio3d::aa321(apses$seqres[1:10])
-
-# Lets get the implicit sequence:
-bio3d::aa321((apses$atom$resid[apses$calpha])[1:10])
-# Do you understand this code?
-
-# Do explicit and implicit sequence have the same length?
-length(apses$seqres)
-length(apses$atom$resid[apses$calpha])
-
-# Are the sequences the same?
-any(apses$seqres != apses$atom$resid[apses$calpha])
-
-# get a list of all CA atoms of arginine residues
-cols <- c("eleno", "elety", "resid", "chain", "resno", "insert")
-sel <- apses$atom$resid == "ARG" & apses$atom$elety == "CA"
-apses$atom[sel, cols]
-
-# The introduction to bio3d tutorial at
-#   http://thegrantlab.org/bio3d/tutorials/structure-analysis
-# has the following example:
-bio3d::plot.bio3d(apses$atom$b[apses$calpha],
-                  sse=apses,
-                  typ="l",
-                  ylab="B-factor")
-
-# Good for now. Let's do some real work.
-
-# =    2  A Ramachandran plot  =================================================
-
-# Calculate a Ramachandran plot for the structure. The torsion.pdb() function
-# calculates all dihedral angles for backbone and sidechain bonds, NA where
-# the bond does not exist in an amino acid.
-tor <- bio3d::torsion.pdb(apses)
-plot(tor$phi, tor$psi,
-     xlim = c(-180, 180), ylim = c(-180, 180),
-     main = "Ramachandran plot for 1BM8",
-     xlab = expression(phi),
-     ylab = expression(psi))
-abline(h = 0, lwd = 0.5, col = "#00000044")
-abline(v = 0, lwd = 0.5, col = "#00000044")
-# As you can see, there are a number of points in the upper-right
-# quadrant of the plot. This combination of phi-psi angles defines
-# the conformation of a left-handed alpha helix and is generally
-# only observed for glycine residues. Let's replot the data, but
-# colour the points for glycine residues differently. First, we
-# get a vector of glycine residue indices in the structure:
-
-mySeq <- bio3d::pdbseq(apses)
-
-# Explore the result object and extract the indices of GLY resiues.
-              mySeq == "G"
-        which(mySeq == "G")
-iGly <- which(mySeq == "G")
-
-# Now plot all non-gly residues.
-# Remember: negative indices exclude items from a vector
-plot(tor$phi[-iGly], tor$psi[-iGly],
-     xlim=c(-180,180), ylim=c(-180,180),
-     main = "Ramachandran plot for 1BM8",
-     xlab = expression(phi),
-     ylab = expression(psi))
-abline(h = 0, lwd = 0.5, col = "#00000044")
-abline(v = 0, lwd = 0.5, col = "#00000044")
-
-# Now plot GLY only, but with green dots:
-points(tor$phi[iGly], tor$psi[iGly], pch=21, cex=0.9, bg="#00CC00")
-
-# As you see, four residues in the upper-right quadrant are
-# not glycine. But what residues are these? Is there an
-# error in our script? Let's get their coordinate records:
-
-# subset CA records
-CA <- apses$atom[apses$calpha, c("eleno", "elety", "resid", "chain", "resno")]
-
-# get index of outliers
-iOutliers <- which(tor$phi > 30 & tor$phi < 90 &
-                     tor$psi > 0 & tor$psi < 90)
-
-# cbind records together
-(dat <- cbind(CA[iOutliers, ],
-              phi = tor$phi[iOutliers],
-              psi = tor$psi[iOutliers]))
-
-
-# remove the glycine ...
-(dat <- dat[dat$resid != "GLY", ])
-
-
-# let's add the residue numbers to the plot with the text function:
-for (i in 1:nrow(dat)) {
-  points(dat$phi[i], dat$psi[i], pch=21, cex=0.9, bg="#CC0000")
-  text(dat$phi[i],
-       dat$psi[i],
-       labels = sprintf("%s%d", bio3d::aa321(dat$resid[i]), dat$resno[i]),
-       pos = 4,
-       offset = 0.4,
-       cex = 0.7)
-}
-
-# You can check the residues in Chimera. Is there anything unusual about these
-# residues?
-
-
-# =    3  Density plots  =======================================================
-
-# Such x, y scatter-plots of data that is sampled from a distribution can tell
-# us a lot about what shapes the distribution. The distribution is governed by
-# the free energy of the phi-psi landscape in folded proteins, since folded
-# proteins generally minimize the free energy of their conformations. We observe
-# empirically, from comparing frequency statistics and mutation experiments,
-# that this generall follows a Boltzmann distribution, where the free energy
-# changes we observe in experments that change one conformation into another are
-# proportional to the log-ratio of the number of times we observe each
-# observation in the protein structure database (after correcting for
-# observation bias). The proper way to visualize such 2D landscapes is with
-# contour plots.
-
-# ==   3.1  Density-based colours  =============================================
-
-# A first approximation to  scatterplots that visualize the density of the
-# underlying distribution is colouring via the densCols() function.
-?densCols
-iNA <- c(which(is.na(tor$phi)), which(is.na(tor$psi)))
-phi <- tor$phi[-iNA]
-psi <- tor$psi[-iNA]
-plot (phi, psi,
-      xlim = c(-180, 180), ylim = c(-180, 180),
-      col=densCols(phi,psi),
-      pch=20, cex=2,
-      main = "Ramachandran plot for 1BM8",
-      xlab = expression(phi),
-      ylab = expression(psi))
-abline(h = 0, lwd = 0.5, col = "#00000044")
-abline(v = 0, lwd = 0.5, col = "#00000044")
-
-
-# ==   3.2  Plotting with smoothScatter()  =====================================
-
-# A better way, that spreads out the underlying density is smoothScatter()
-smoothScatter(phi,psi)
-smoothScatter(phi, psi,
-              xlim = c(-180, 180), ylim = c(-180, 180),
-              col = "#0033BB33",
-              pch = 3, cex = 0.6,
-              main = "Ramachandran plot for 1BM8",
-              xlab = expression(phi),
-              ylab = expression(psi))
-abline(h = 0, lwd = 0.5, col = "#00000044")
-abline(v = 0, lwd = 0.5, col = "#00000044")
-
-
-# ==   3.3  Plotting hexbins  ==================================================
-
-# If we wish to approximate values in a histogram-like fashion, we can use
-# hexbin()
-if (! requireNamespace("hexbin", quietly = TRUE)) {
-  install.packages("hexbin")
-}
-# Package information:
-#  library(help = hexbin)       # basic information
-#  browseVignettes("hexbin")    # available vignettes
-#  data(package = "hexbin")     # available datasets
-
-
-myColorRamp <- colorRampPalette(c("#EEEEEE",
-                                  "#3399CC",
-                                  "#2266DD"))
-hexbin::gplot.hexbin(hexbin::hexbin(phi, psi, xbins = 10),
-                     colramp = myColorRamp,
-                     main = "phi-psi Density Bins for 1BM8",
-                     xlab = expression(phi),
-                     ylab = expression(psi))
-
-# Note:
-# Had we loaded hexbin with library(hexbin), the plot function would have
-# been dispatched by the plot() generic, and we could simply have written:
-#   plot(hexbin(phi, psi, xbins = 10), ...
-
-
-# ==   3.4  Plotting density contours  =========================================
-
-
-# The best way to handle such data is provided by the function contour():
-?contour
-
-# Contour plots are not produced along the haphazardly sampled values of a data
-# set, but on a regular grid. This means, we need to convert observed values
-# into estimated densities. Density estimation is an important topic for
-# exploratory data analysis, base R has the density() function for 1D
-# distributions. But for 2D data like or phi-psi plots, we need a function from
-# the MASS package: kde2d()
-
-if (! requireNamespace("MASS", quietly = TRUE)) {
-  install.packages("MASS")
-}
-# Package information:
-#  library(help = MASS)       # basic information
-#  browseVignettes("MASS")    # available vignettes
-#  data(package = "MASS")     # available datasets
-
-?MASS::kde2d
-dPhiPsi <-MASS::kde2d(phi, psi,
-                      n = 60,
-                      lims = c(-180, 180, -180, 180))
-
-str(dPhiPsi)
-# This is a list, with gridpoints in x and y, and the estimated densities in z.
-
-# Generic plot with default parameters
-contour(dPhiPsi)
-
-
-# ===   3.4.1  ... as overlay on a coloured grid
-
-image(dPhiPsi,
-      col = myColorRamp(100),
-      main = "Ramachandran plot for 1BM8",
-      xlab = expression(phi),
-      ylab = expression(psi))
-contour(dPhiPsi, col = "royalblue",
-        add = TRUE,
-        method = "edge",
-        nlevels = 10,
-        lty = 2)
-points(phi, psi, col = "#00338866", pch = 3, cex = 0.7)
-abline(h = 0, lwd = 0.5, col = "#00000044")
-abline(v = 0, lwd = 0.5, col = "#00000044")
-
-
-# ===   3.4.2  ... as filled countour           
-
-filled.contour(dPhiPsi,
-               xlim = c(-180, 180), ylim = c(-180, 180),
-               nlevels = 10,
-               color.palette = myColorRamp,
-               main = "Ramachandran plot for 1BM8",
-               xlab = expression(phi),
-               ylab = expression(psi))
-
-# Note: we can pass additional plotting and overlay commands to the counter plot
-# in a block of expressions passed via the plot.axes parameter:
-
-filled.contour(dPhiPsi,
-               xlim = c(-180, 180), ylim = c(-180, 180),
-               nlevels = 10,
-               color.palette = myColorRamp,
-               main = "Ramachandran plot for 1BM8",
-               xlab = expression(phi),
-               ylab = expression(psi),
-               plot.axes = {
-                  contour(dPhiPsi, col = "#00000044",
-                          add = TRUE,
-                          method = "edge",
-                          nlevels = 10,
-                          lty = 2)
-                    points(phi, psi, col = "#00338866", pch = 3, cex = 0.7)
-                    abline(h = 0, lwd = 0.5, col = "#00000044")
-                    abline(v = 0, lwd = 0.5, col = "#00000044")
-                  })
-
-# ===   3.4.3  ... as a perspective plot        
-
-persp(dPhiPsi,
-      xlab = "phi",
-      ylab = "psi",
-      zlab = "Density")
-
-
-persp(dPhiPsi,
-      theta = 40,
-      phi = 10,
-      col = "#99AACC",
-      xlab = "phi",
-      ylab = "psi",
-      zlab = "Density")
-
-
-
-# =    4  cis-peptide bonds  ===================================================
-
-# Are there any cis-peptide bonds in the structure?
-tor$omega
-#... gives us a quick answer. But wait - what values do we
-# expect? And why are the values so different, ranging from -180° to 180°?
-# Consider this plot: what am I doing here and why?
-om <- c(360 + tor$omega[tor$omega < 0],
-        tor$omega[tor$omega >= 0])
-hist(om, xlim=c(0,360))
-abline(v=180, col="red")
-
-# Note: a cis-peptide bond will have an omega torsion angle around 0°
-
-
-# =    5  H-bond lengths  ======================================================
-
-# Let's do something a little less trivial and compare
-# backbone H-bond lengths between helices and strands.
-
-# Secondary structure is defined in the bio3d object's ...$helix and ...$strand
-# list elements.
-str(apses)
-
-# We need to
-# - collect all N atoms in alpha helices resp.
-#      beta strands;
-# - collect all O atoms in alpha helices resp.
-#      beta strands;
-# - fetch the atom coordinates;
-# - calculate all N, O distances;
-# - filter them for distances that indicate H-bonds; and,
-# - plot the results.
-
-# Secondary structure can either be obtained from definitions contained in most
-# PDB files, or by running the DSSP algorithm IF(!) you have it installed on
-# your machine. See the dssp() function of bio3d for instructions how to obtain
-# and install DSSP and STRIDE. This is highly recommended for "real" work with
-# structure coordinate files. The 1BM8 file contains secondary structure
-# definitions:
-
-apses$helix
-apses$sheet
-
-
-# A function to collect atom indices for particular type of secondary structure
-
-ssSelect <- function(PDB, myChain = "A", ssType, myElety) {
-  # Function to retrieve specified atom types from specified secondary
-  # structure types in a PDB object.
-  # Parameters:
-  #    PDB              A bio3D PDB object
-  #    myChain     chr  The chain to use. Default: chain "A".
-  #    ssType      chr  A vector of keywords "helix" and/or "sheet"
-  #    myElety     chr  A vector of $eletype atom types to return
-  # Value:         num  Indices of the matching atom rows in PDB$atom
-
-  # Build a vector of $resno numbers
-  starts <- numeric()
-  ends   <- numeric()
-  if ("helix" %in% ssType) {
-    sel <- PDB$helix$chain %in% myChain
-    starts <- c(starts, PDB$helix$start[sel])
-    ends   <- c(ends,   PDB$helix$end[sel])
-  }
-  if ("sheet" %in% ssType) {
-    sel <- PDB$sheet$chain %in% myChain
-    starts <- c(starts, PDB$sheet$start[sel])
-    ends   <- c(ends,   PDB$sheet$end[sel])
-  }
-  myResno <- numeric()
-  for (i in seq_along(starts)) {
-    myResno <- c(myResno, starts[i]:ends[i])
-  }
-
-  # get id's from PDB
-
-  x <- bio3d::atom.select(PDB,
-                          string = "protein",
-                          type = "ATOM",
-                          chain = myChain,
-                          resno = myResno,
-                          elety = myElety)
-
-  return(x$atom)
-}
-
-# Example:
-ssSelect(apses, ssType = "sheet", myElety = "N")
-ssSelect(apses, ssType = "sheet", myElety = "O")
-
-# That looks correct: O atoms should be stored three index position after N: the
-# sequence of atoms in a PDB file is usually N, CA, C, O ... followed by the
-# side chain coordinates.
-
-# Now to extract the coordinates and calculate distances. Our function needs to
-# take the PDB object and two vectors of atom indices as argument, and return a
-# vector of pair-distances (actually  dist.xyz() returns a matrix).
-
-pairDist <- function(PDB, a, b) {
-  # Calculate pairwise distances between atoms indicated by a and b
-  # Parameters:
-  #    PDB       A bio3D PDB object
-  #    a    int  A vector of atom indexes
-  #    b    int  A vector of atom indexes
-  # Value:  num  matrix of Euclidian distances between the atoms given in a, b.
-  #                There are as many rows as atoms in a, as many columns as
-  #                atoms in b.
-
-  dMat <- numeric()
-  if (length(a) > 0 && length(b) > 0) {
-
-  A <- PDB$atom[a, c("x", "y", "z")]
-  B <- PDB$atom[b, c("x", "y", "z")]
-  dMat <- bio3d::dist.xyz(A, B)
-
-  }
-  return(dMat)
-}
-
-# Let's see if this looks correct. Let's look at all the pairwise distances
-# between N and O atoms in both types of secondary structure:
-
-iN <- ssSelect(apses, ssType = c("helix", "sheet"), myElety = "N")
-iO <- ssSelect(apses, ssType = c("helix", "sheet"), myElety = "O")
-x <- pairDist(apses, iN, iO)
-hist(x,
-     breaks = 80,
-     col = "lavenderblush",
-     main = "",
-     xlab = "N-O distances (Å)")
-
-# Since we are collecting distance from all secondary structure elements, we
-# are just seing a big peak of (meaningless) long-distance separations. We
-# need to zoom in on the shorter distances, in which we expect
-# hydrogen bonds:
-hist(x[x < 4.2],                # restrict to N-O distance less than 4.2 Å long
-     breaks=seq(2.0, 4.2, 0.1),
-     xlim=c(2.0,4.2),
-     col = "lavenderblush",
-     main = "",
-     xlab = "N-O distances (Å)")
-
-# There is a large peak at about 2.2Å, and another
-# large peak above 3.5Å. But these are not typical hydrogen
-# bond distances! Rather these are (N,O) pairs in peptide
-# bonds, and within residues. That's not good, because these will contaminate
-# our statistics.
-# We need to exclude all distances between N of a residue
-# and O of a preceeding residue, and all (N,O) pairs in the
-# same residue. We need a function to filter distances by residue numbers. And while we are filtering, we might as well throw away the non-H bond distances too.
-
-filterHB <- function(PDB, iN, iO, dMat, cutoff = 3.9) {
-  # Filters distances between O(i-1) and N(i), and between N(i) and O(i)
-  # in a distance matrix where there is one row per N-atom and one
-  # column per O atom.
-  # Parameters:
-  #    PDB            a bio3D PDB object
-  #    iN       int   a vector of N atom indexes
-  #    iO       int   a vector of O atom indexes
-  #    dMat     num   a distance matrix created by pairDist()
-  #    cutoff   num   only return distances that are shorter than "cutoff
-  # Value:  a distance matrix in which values that do not match the
-  #            filter criteria have bee set to NA.
-
-  if (length(iN) > 0 && length(iO) > 0) {
-
-    resN <- PDB$atom$resno[iN]
-    resO <- PDB$atom$resno[iO]
-
-    for (i in seq_along(resN)) {        # for all N atoms
-      for (j in seq_along(resO)) {      # for all O atoms
-        if (dMat[i, j] > cutoff ||      # if: distance > cutoff, or ...
-            (resN[i] - 1) == resO[j] || #     distance is N(i)---O(i-1), or ...
-            resN[i] == resO[j]) {       #     distance is N(i)---O(i), then:
-          dMat[i, j] <- NA              # set this distance to NA.
-        }
-      }
-    }
-  }
-  return(dMat)
-}
-
-# Inspect the result:
-hist(filterHB(apses, iN, iO, x),
-     breaks=seq(2.0, 4.2, 0.1),
-     xlim=c(2.0,4.2),
-     col = "paleturquoise",
-     main = "",
-     xlab = "N-O distances (Å)")
-
-
-# Finally we can calculate alpha- and beta- structure
-# bonds and compare them. In this section we'll explore
-# different options for histogram plots.
-
-# H-bonds in helices ...
-iN <- ssSelect(apses, ssType = c("helix"), myElety = "N")
-iO <- ssSelect(apses, ssType = c("helix"), myElety = "O")
-dH <- filterHB(apses, iN, iO, pairDist(apses, iN, iO))
-dH <- dH[!is.na(dH)]
-
-# H-bonds in sheets. (We commonly use the letter "E" to symbolize a beta
-# strand or sheet, because "E" visually evokes an extended strand with
-# protruding sidechains.)
-iN <- ssSelect(apses, ssType = c("sheet"), myElety = "N")
-iO <- ssSelect(apses, ssType = c("sheet"), myElety = "O")
-dE <- filterHB(apses, iN, iO, pairDist(apses, iN, iO))
-dE <- dE[!is.na(dE)]
-
-# The plain histogram functions without parameters
-# give us white stacks.
-
-hist(dH)
-
-# and ...
-hist(dE)
-
-# We can see that the histrograms look different
-# but that is better visualized by showing two plots
-# in the same window. We use the par() function, for
-# more flexible layout, look up the layout() function.
-?par
-?layout
-
-opar <- par(no.readonly=TRUE)  # store current state
-par(mfrow=c(2,1))  # set graphics parameters: 2 rows, one column
-
-# plot two histograms
-hist(dH)
-hist(dE)
-
-
-# add colour:
-hist(dH, col="#DD0055")
-hist(dE, col="#00AA70")
-
-
-
-# For better comparison, plot both in the
-# same window (use the "add = TRUE" parameter in hist() ):
-
-hist(dH, col="#DD0055")
-hist(dE, col="#00AA70", add = TRUE)
-
-# ... oops, we dind't reset the graphics parameters. You can either use
-# the broom icon of the  Plot  tab to clear asll plots, or ...
-par(opar)      # ... reset the graphics parameters
-
-hist(dH, col = "#DD0055")
-hist(dE, col = "#00AA70", add = TRUE)
-
-# We see that the leftmost column of the sheet bonds hides the helix bonds in
-# that column. Not good. But we can make the colours transparent! We just need to
-# add a fourth set of two hexadecimal-numbers to the #RRGGBB triplet. (This
-# sets the transparency of the colour, it is called the "alpha channel"). Lets
-# use 2/3 transparent, in hexadecimal, 1/3 of 256 is x55 - i.e. an RGB triplet
-# specied as #RRGGBB55 is only 33% opaque:
-
-hist(dH, col = "#DD005555")
-hist(dE, col = "#00AA7055", add = TRUE)
-
-# To finalize the plots, let's do two more things: Explicitly define the breaks,
-# to make sure they match up - otherwise they would not need to... like in this
-# example:
-
-hist(dH, col ="#DD005555")
-hist(dE[dE < 3], col = "#00AA7055", add = TRUE)
-
-# Breaks are a parameter in hist() that can either be a scalar, to define how
-# many columns you want, or a vector, that defines the actual breakpoints.
-brk=seq(2.4, 4.0, 0.1)
-
-hist(dH, col="#DD005555", breaks=brk)
-hist(dE, col="#00AA7055", breaks=brk, add=TRUE)
-
-# The last thing to do is to think about rescaling the plot. You notice that the
-# y-axis is scaled in absolute frequency (i.e. counts). That gives us some
-# impression of the relative frequency, but it is of course skewed by observing
-# relatively more or less of one type of secondary structure in a protein. As
-# part of the hist() function we can rescale the values so that the sum over all
-# is one: set the parameter freq=FALSE. And we explicitly set y-axis limits
-# to accommodate bot distributions.
-
-hist(dH, col="#DD005555", breaks=brk, freq=FALSE, ylim = c(0, 4))
-hist(dE, col="#00AA7055", breaks=brk, freq=FALSE, add=TRUE)
-
-# Adding labels and legend ...
-
-hH <- hist(dH,
-           freq=FALSE,
-           breaks=brk,
-           col="#DD005550",
-           xlab="(N,O) distance (Å)",
-           ylab="Density",
-           ylim=c(0,4),
-           main="Helix and Sheet H-bond lengths")
-hE <- hist(dE,
-           freq=FALSE,
-           breaks=brk,
-           col="#00AA7060",
-           add=TRUE)
-
-legend("topright",
-       c(sprintf("alpha (N = %3d)", sum(hH$counts)),
-         sprintf("beta  (N = %3d)", sum(hE$counts))),
-       fill = c("#DD005550", "#00AA7060"), bty = 'n',
-       border = NA)
-
-
-# With all the functions we have defined,
-# it is easy to try this with a larger protein.
-# 3ugj for example is VERY large.
-
-pdb <- bio3d::read.pdb("3ugj")
-
-# helices...
-iN <- ssSelect(pdb, ssType = c("helix"), myElety = "N")
-iO <- ssSelect(pdb, ssType = c("helix"), myElety = "O")
-dH <- filterHB(pdb, iN, iO, pairDist(pdb, iN, iO))
-dH <- dH[!is.na(dH)]
-
-# sheets
-iN <- ssSelect(pdb, ssType = c("sheet"), myElety = "N")
-iO <- ssSelect(pdb, ssType = c("sheet"), myElety = "O")
-dE <- filterHB(pdb, iN, iO, pairDist(pdb, iN, iO))
-dE <- dE[!is.na(dE)]
-
-# histograms ...
-brk=seq(2.4, 4.0, 0.1)
-
-hH <- hist(dH,
-           freq=FALSE,
-           breaks=brk,
-           col="#DD005550",
-           xlab="(N,O) distance (Å)",
-           ylab="Density",
-           ylim=c(0,4),
-           main="Helix and Sheet H-bond lengths")
-hE <- hist(dE,
-           freq=FALSE,
-           breaks=brk,
-           col="#00AA7060",
-           add=TRUE)
-
-legend('topright',
-       c(paste("alpha (N = ", sum(hH$counts), ")"),
-         paste("beta  (N = ", sum(hE$counts), ")")),
-       fill = c("#DD005550", "#00AA7060"), bty = 'n',
-       border = NA,
-       inset = 0.1)
-
-# It's apparent that the distributions are indeed different. Our sample
-# is large, but derives from a single protein. To do database scale statistics,
-# we should look at many more proteins. To give you a sense of how, let's do
-# this for just ten proteins, randomly selected from non-homologous,
-# high-resolution, single domain structures. I have provided a utility function
-# for such a selection (details beyond the scope of this project).
-
-myPDBs <- selectPDBrep(10)
-# My selection is "2OVJ", "1HQS", "3BON", "4JZX", "3BQ3", "2IUM", "2C9E",
-# "4X1F", "2V3I", "3GE3". Yours will be different.
-
-# We are loading the files online - don't do this if you have bandwidth
-# limitations.
-
-
-dH <- c() # collect all helix H-bonds here
-dE <- c() # collect all sheet H-bonds here
-
-for (i in seq_along(myPDBs)) {
-  pdb <- bio3d::read.pdb(myPDBs[i])
-
-  # helices...
-  iN <- ssSelect(pdb, ssType = c("helix"), myElety = "N")
-  iO <- ssSelect(pdb, ssType = c("helix"), myElety = "O")
-  x  <- filterHB(pdb, iN, iO, pairDist(pdb, iN, iO))
-  dH <- c(dH, x[!is.na(x)])
-
-  # sheets
-  iN <- ssSelect(pdb, ssType = c("sheet"), myElety = "N")
-  iO <- ssSelect(pdb, ssType = c("sheet"), myElety = "O")
-  x  <- filterHB(pdb, iN, iO, pairDist(pdb, iN, iO))
-  dE <- c(dE, x[!is.na(x)])
-}
-
-# Inspect the results
-
-length(dH)  # 4415 (your numbers are different, but there should be many)
-length(dE)  # 262
-
-brk=seq(2.0, 4.0, 0.1)
-
-hH <- hist(dH,
-           freq=FALSE,
-           breaks=brk,
-           col="#DD005550",
-           xlab="(N,O) distance (Å)",
-           ylab="Density",
-           ylim=c(0,4),
-           cex.main = 0.8,
-           main="Helix and Sheet H-bond lengths (10 representative structures)")
-hE <- hist(dE,
-           freq=FALSE,
-           breaks=brk,
-           col="#00AA7060",
-           add=TRUE)
-
-legend('topright',
-       c(paste("alpha (N = ", sum(hH$counts), ")"),
-         paste("beta  (N = ", sum(hE$counts), ")")),
-       fill = c("#DD005550", "#00AA7060"), bty = 'n',
-       border = NA,
-       inset = 0.1)
-
-# Task:
-#    Why do you think these distributions are different?
-#    At what distance do you think H-bonds have the lowest energy?
-#    For alpha-helices? For beta-strands?
-
-
-
-
-# [END]
+# tocID <- "RPR-SX-PDB.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the RPR-SX-PDB unit.
+#
+# Version:  1.3
+#
+# Date:     2017-10  -  2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.3    2020 Maintenance
+#           1.2    2019 Maintenance
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout
+#           1.0    First live version, completely refactores 2016 code
+#                     with remarkable speed gains. Added section on x, y, z
+#                     (density) plots.
+#           0.1    First code copied from 2016 material.
+#
+# TODO:
+#          Confirm that SS residue numbers are indices
+#          Set task seed from student number
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC>
+#TOC>   Section  Title                                      Line
+#TOC> ----------------------------------------------------------
+#TOC>   1        Introduction to the bio3D package            63
+#TOC>   2        A Ramachandran plot                         155
+#TOC>   3        Density plots                               231
+#TOC>   3.1        Density-based colours                     245
+#TOC>   3.2        Plotting with smoothScatter()             264
+#TOC>   3.3        Plotting hexbins                          279
+#TOC>   3.4        Plotting density contours                 307
+#TOC>   3.4.1          ... as overlay on a coloured grid     340
+#TOC>   3.4.2          ... as filled countour                357
+#TOC>   3.4.3          ... as a perspective plot             388
+#TOC>   4        cis-peptide bonds                           406
+#TOC>   5        H-bond lengths                              421
+#TOC>
+#TOC> ==========================================================================
+
+
+# In this example of protein structure interpretation, we ...
+#   - download the package bio3D:: which supports work with
+#     protein structure files,
+#   - explore some elementary functions of the package
+#   - explore plotting of density values with scatterplots
+#   - assemble a script to see whether H-bond lengths systematically differ
+#     between alpha-helical and beta-sheet structures.
+
+
+# =    1  Introduction to the bio3D package  ===================================
+
+
+if (! requireNamespace("bio3d", quietly = TRUE)) {
+  install.packages("bio3d")
+}
+# Package information:
+#  library(help = bio3d)       # basic information
+#  browseVignettes("bio3d")    # available vignettes
+#  data(package = "bio3d")     # available datasets
+
+
+# bio3d:: can load molecules directly from the PDB servers, you don't _have_ to
+# store them locally, but you could.
+#
+# But before you _load_ a file, have a look what such a file contains. I have
+# packaged the 1BM8 file into the project:
+file.show("./data/1BM8.pdb")
+
+# Have a look at the header section, the atom records, the coordinate records
+# etc.
+#
+# Task:
+#   Answer the following questions:
+#     What is the resolution of the structure?
+#     Is the first residue in the SEQRES section also the first residue
+#         with an ATOM record?
+#     How many water molecules does the structure contain?
+#     Can you explain REMARK 525 regarding HOH 459 and HOH 473?
+#     Are all atoms of the N-terminal residue present?
+#     Are all atoms of the C-terminal residue present?
+
+apses <- bio3d::read.pdb("1bm8")  # load a molecule directly from the PDB via
+                                  # the Internet.
+
+# check what we have:
+apses
+
+# what is this actually?
+str(apses)
+
+# bio3d's pdb objects are simple lists. Great! You know lists!
+
+# You see that there is a list element called $atom which is a data frame in
+# which the columns are vectors of the same length - namely the number of atoms
+# in the structure file. And there is a matrix of (x, y, z) triplets called xyz.
+# And there is a vector that holds sequence, and two tables called helix and
+# sheet. Let's pull out a few values to confirm how selection and subsetting
+# works here:
+
+# selection by atom ...
+i <- 5
+apses$atom[i,]
+apses$atom[i, c("x", "y", "z")]   # here we are selecting with column names!
+apses$xyz[c(i*3-2, i*3-1, i*3)]   # here we are selecting with row numbers
+
+# all atoms of a residue ...
+i <- 48
+apses$atom[apses$atom[,"resno"] == i, ]
+
+# sequence of the first ten residues
+apses$seqres[1:10]  # the "A"s here identify chain "A"
+
+# Can we convert this to one letter code?
+bio3d::aa321(apses$seqres[1:10])
+
+# Lets get the implicit sequence:
+bio3d::aa321((apses$atom$resid[apses$calpha])[1:10])
+# Do you understand this code?
+
+# Do explicit and implicit sequence have the same length?
+length(apses$seqres)
+length(apses$atom$resid[apses$calpha])
+
+# Are the sequences the same?
+any(apses$seqres != apses$atom$resid[apses$calpha])
+
+# get a list of all CA atoms of arginine residues
+cols <- c("eleno", "elety", "resid", "chain", "resno", "insert")
+sel <- apses$atom$resid == "ARG" & apses$atom$elety == "CA"
+apses$atom[sel, cols]
+
+# The introduction to bio3d tutorial at
+#   http://thegrantlab.org/bio3d/tutorials/structure-analysis
+# has the following example:
+bio3d::plot.bio3d(apses$atom$b[apses$calpha],
+                  sse=apses,
+                  typ="l",
+                  ylab="B-factor")
+
+# Good for now. Let's do some real work.
+
+# =    2  A Ramachandran plot  =================================================
+
+# Calculate a Ramachandran plot for the structure. The torsion.pdb() function
+# calculates all dihedral angles for backbone and sidechain bonds, NA where
+# the bond does not exist in an amino acid.
+tor <- bio3d::torsion.pdb(apses)
+plot(tor$phi, tor$psi,
+     xlim = c(-180, 180), ylim = c(-180, 180),
+     main = "Ramachandran plot for 1BM8",
+     xlab = expression(phi),
+     ylab = expression(psi))
+abline(h = 0, lwd = 0.5, col = "#00000044")
+abline(v = 0, lwd = 0.5, col = "#00000044")
+# As you can see, there are a number of points in the upper-right
+# quadrant of the plot. This combination of phi-psi angles defines
+# the conformation of a left-handed alpha helix and is generally
+# only observed for glycine residues. Let's replot the data, but
+# colour the points for glycine residues differently. First, we
+# get a vector of glycine residue indices in the structure:
+
+mySeq <- bio3d::pdbseq(apses)
+
+# Explore the result object and extract the indices of GLY resiues.
+              mySeq == "G"
+        which(mySeq == "G")
+iGly <- which(mySeq == "G")
+
+# Now plot all non-gly residues.
+# Remember: negative indices exclude items from a vector
+plot(tor$phi[-iGly], tor$psi[-iGly],
+     xlim=c(-180,180), ylim=c(-180,180),
+     main = "Ramachandran plot for 1BM8",
+     xlab = expression(phi),
+     ylab = expression(psi))
+abline(h = 0, lwd = 0.5, col = "#00000044")
+abline(v = 0, lwd = 0.5, col = "#00000044")
+
+# Now plot GLY only, but with green dots:
+points(tor$phi[iGly], tor$psi[iGly], pch=21, cex=0.9, bg="#00CC00")
+
+# As you see, four residues in the upper-right quadrant are
+# not glycine. But what residues are these? Is there an
+# error in our script? Let's get their coordinate records:
+
+# subset CA records
+CA <- apses$atom[apses$calpha, c("eleno", "elety", "resid", "chain", "resno")]
+
+# get index of outliers
+iOutliers <- which(tor$phi > 30 & tor$phi < 90 &
+                     tor$psi > 0 & tor$psi < 90)
+
+# cbind records together
+(dat <- cbind(CA[iOutliers, ],
+              phi = tor$phi[iOutliers],
+              psi = tor$psi[iOutliers]))
+
+
+# remove the glycine ...
+(dat <- dat[dat$resid != "GLY", ])
+
+
+# let's add the residue numbers to the plot with the text function:
+for (i in 1:nrow(dat)) {
+  points(dat$phi[i], dat$psi[i], pch=21, cex=0.9, bg="#CC0000")
+  text(dat$phi[i],
+       dat$psi[i],
+       labels = sprintf("%s%d", bio3d::aa321(dat$resid[i]), dat$resno[i]),
+       pos = 4,
+       offset = 0.4,
+       cex = 0.7)
+}
+
+# You can check the residues in Chimera. Is there anything unusual about these
+# residues?
+
+
+# =    3  Density plots  =======================================================
+
+# Such x, y scatter-plots of data that is sampled from a distribution can tell
+# us a lot about what shapes the distribution. The distribution is governed by
+# the free energy of the phi-psi landscape in folded proteins, since folded
+# proteins generally minimize the free energy of their conformations. We observe
+# empirically, from comparing frequency statistics and mutation experiments,
+# that this generall follows a Boltzmann distribution, where the free energy
+# changes we observe in experments that change one conformation into another are
+# proportional to the log-ratio of the number of times we observe each
+# observation in the protein structure database (after correcting for
+# observation bias). The proper way to visualize such 2D landscapes is with
+# contour plots.
+
+# ==   3.1  Density-based colours  =============================================
+
+# A first approximation to  scatterplots that visualize the density of the
+# underlying distribution is colouring via the densCols() function.
+?densCols
+iNA <- c(which(is.na(tor$phi)), which(is.na(tor$psi)))
+phi <- tor$phi[-iNA]
+psi <- tor$psi[-iNA]
+plot (phi, psi,
+      xlim = c(-180, 180), ylim = c(-180, 180),
+      col=densCols(phi,psi),
+      pch=20, cex=2,
+      main = "Ramachandran plot for 1BM8",
+      xlab = expression(phi),
+      ylab = expression(psi))
+abline(h = 0, lwd = 0.5, col = "#00000044")
+abline(v = 0, lwd = 0.5, col = "#00000044")
+
+
+# ==   3.2  Plotting with smoothScatter()  =====================================
+
+# A better way, that spreads out the underlying density is smoothScatter()
+smoothScatter(phi,psi)
+smoothScatter(phi, psi,
+              xlim = c(-180, 180), ylim = c(-180, 180),
+              col = "#0033BB33",
+              pch = 3, cex = 0.6,
+              main = "Ramachandran plot for 1BM8",
+              xlab = expression(phi),
+              ylab = expression(psi))
+abline(h = 0, lwd = 0.5, col = "#00000044")
+abline(v = 0, lwd = 0.5, col = "#00000044")
+
+
+# ==   3.3  Plotting hexbins  ==================================================
+
+# If we wish to approximate values in a histogram-like fashion, we can use
+# hexbin()
+if (! requireNamespace("hexbin", quietly = TRUE)) {
+  install.packages("hexbin")
+}
+# Package information:
+#  library(help = hexbin)       # basic information
+#  browseVignettes("hexbin")    # available vignettes
+#  data(package = "hexbin")     # available datasets
+
+
+myColorRamp <- colorRampPalette(c("#EEEEEE",
+                                  "#3399CC",
+                                  "#2266DD"))
+hexbin::gplot.hexbin(hexbin::hexbin(phi, psi, xbins = 10),
+                     colramp = myColorRamp,
+                     main = "phi-psi Density Bins for 1BM8",
+                     xlab = expression(phi),
+                     ylab = expression(psi))
+
+# Note:
+# Had we loaded hexbin with library(hexbin), the plot function would have
+# been dispatched by the plot() generic, and we could simply have written:
+#   plot(hexbin(phi, psi, xbins = 10), ...
+
+
+# ==   3.4  Plotting density contours  =========================================
+
+
+# The best way to handle such data is provided by the function contour():
+?contour
+
+# Contour plots are not produced along the haphazardly sampled values of a data
+# set, but on a regular grid. This means, we need to convert observed values
+# into estimated densities. Density estimation is an important topic for
+# exploratory data analysis, base R has the density() function for 1D
+# distributions. But for 2D data like or phi-psi plots, we need a function from
+# the MASS package: kde2d()
+
+if (! requireNamespace("MASS", quietly = TRUE)) {
+  install.packages("MASS")
+}
+# Package information:
+#  library(help = MASS)       # basic information
+#  browseVignettes("MASS")    # available vignettes
+#  data(package = "MASS")     # available datasets
+
+?MASS::kde2d
+dPhiPsi <-MASS::kde2d(phi, psi,
+                      n = 60,
+                      lims = c(-180, 180, -180, 180))
+
+str(dPhiPsi)
+# This is a list, with gridpoints in x and y, and the estimated densities in z.
+
+# Generic plot with default parameters
+contour(dPhiPsi)
+
+
+# ===   3.4.1  ... as overlay on a coloured grid
+
+image(dPhiPsi,
+      col = myColorRamp(100),
+      main = "Ramachandran plot for 1BM8",
+      xlab = expression(phi),
+      ylab = expression(psi))
+contour(dPhiPsi, col = "royalblue",
+        add = TRUE,
+        method = "edge",
+        nlevels = 10,
+        lty = 2)
+points(phi, psi, col = "#00338866", pch = 3, cex = 0.7)
+abline(h = 0, lwd = 0.5, col = "#00000044")
+abline(v = 0, lwd = 0.5, col = "#00000044")
+
+
+# ===   3.4.2  ... as filled countour
+
+filled.contour(dPhiPsi,
+               xlim = c(-180, 180), ylim = c(-180, 180),
+               nlevels = 10,
+               color.palette = myColorRamp,
+               main = "Ramachandran plot for 1BM8",
+               xlab = expression(phi),
+               ylab = expression(psi))
+
+# Note: we can pass additional plotting and overlay commands to the counter plot
+# in a block of expressions passed via the plot.axes parameter:
+
+filled.contour(dPhiPsi,
+               xlim = c(-180, 180), ylim = c(-180, 180),
+               nlevels = 10,
+               color.palette = myColorRamp,
+               main = "Ramachandran plot for 1BM8",
+               xlab = expression(phi),
+               ylab = expression(psi),
+               plot.axes = {
+                  contour(dPhiPsi, col = "#00000044",
+                          add = TRUE,
+                          method = "edge",
+                          nlevels = 10,
+                          lty = 2)
+                    points(phi, psi, col = "#00338866", pch = 3, cex = 0.7)
+                    abline(h = 0, lwd = 0.5, col = "#00000044")
+                    abline(v = 0, lwd = 0.5, col = "#00000044")
+                  })
+
+# ===   3.4.3  ... as a perspective plot
+
+persp(dPhiPsi,
+      xlab = "phi",
+      ylab = "psi",
+      zlab = "Density")
+
+
+persp(dPhiPsi,
+      theta = 40,
+      phi = 10,
+      col = "#99AACC",
+      xlab = "phi",
+      ylab = "psi",
+      zlab = "Density")
+
+
+
+# =    4  cis-peptide bonds  ===================================================
+
+# Are there any cis-peptide bonds in the structure?
+tor$omega
+#... gives us a quick answer. But wait - what values do we
+# expect? And why are the values so different, ranging from -180° to 180°?
+# Consider this plot: what am I doing here and why?
+om <- c(360 + tor$omega[tor$omega < 0],
+        tor$omega[tor$omega >= 0])
+hist(om, xlim=c(0,360))
+abline(v=180, col="red")
+
+# Note: a cis-peptide bond will have an omega torsion angle around 0°
+
+
+# =    5  H-bond lengths  ======================================================
+
+# Let's do something a little less trivial and compare
+# backbone H-bond lengths between helices and strands.
+
+# Secondary structure is defined in the bio3d object's ...$helix and ...$strand
+# list elements.
+str(apses)
+
+# We need to
+# - collect all N atoms in alpha helices resp.
+#      beta strands;
+# - collect all O atoms in alpha helices resp.
+#      beta strands;
+# - fetch the atom coordinates;
+# - calculate all N, O distances;
+# - filter them for distances that indicate H-bonds; and,
+# - plot the results.
+
+# Secondary structure can either be obtained from definitions contained in most
+# PDB files, or by running the DSSP algorithm IF(!) you have it installed on
+# your machine. See the dssp() function of bio3d for instructions how to obtain
+# and install DSSP and STRIDE. This is highly recommended for "real" work with
+# structure coordinate files. The 1BM8 file contains secondary structure
+# definitions:
+
+apses$helix
+apses$sheet
+
+
+# A function to collect atom indices for particular type of secondary structure
+
+ssSelect <- function(PDB, myChain = "A", ssType, myElety) {
+  # Function to retrieve specified atom types from specified secondary
+  # structure types in a PDB object.
+  # Parameters:
+  #    PDB              A bio3D PDB object
+  #    myChain     chr  The chain to use. Default: chain "A".
+  #    ssType      chr  A vector of keywords "helix" and/or "sheet"
+  #    myElety     chr  A vector of $eletype atom types to return
+  # Value:         num  Indices of the matching atom rows in PDB$atom
+
+  # Build a vector of $resno numbers
+  starts <- numeric()
+  ends   <- numeric()
+  if ("helix" %in% ssType) {
+    sel <- PDB$helix$chain %in% myChain
+    starts <- c(starts, PDB$helix$start[sel])
+    ends   <- c(ends,   PDB$helix$end[sel])
+  }
+  if ("sheet" %in% ssType) {
+    sel <- PDB$sheet$chain %in% myChain
+    starts <- c(starts, PDB$sheet$start[sel])
+    ends   <- c(ends,   PDB$sheet$end[sel])
+  }
+  myResno <- numeric()
+  for (i in seq_along(starts)) {
+    myResno <- c(myResno, starts[i]:ends[i])
+  }
+
+  # get id's from PDB
+
+  x <- bio3d::atom.select(PDB,
+                          string = "protein",
+                          type = "ATOM",
+                          chain = myChain,
+                          resno = myResno,
+                          elety = myElety)
+
+  return(x$atom)
+}
+
+# Example:
+ssSelect(apses, ssType = "sheet", myElety = "N")
+ssSelect(apses, ssType = "sheet", myElety = "O")
+
+# That looks correct: O atoms should be stored three index position after N: the
+# sequence of atoms in a PDB file is usually N, CA, C, O ... followed by the
+# side chain coordinates.
+
+# Now to extract the coordinates and calculate distances. Our function needs to
+# take the PDB object and two vectors of atom indices as argument, and return a
+# vector of pair-distances (actually  dist.xyz() returns a matrix).
+
+pairDist <- function(PDB, a, b) {
+  # Calculate pairwise distances between atoms indicated by a and b
+  # Parameters:
+  #    PDB       A bio3D PDB object
+  #    a    int  A vector of atom indexes
+  #    b    int  A vector of atom indexes
+  # Value:  num  matrix of Euclidian distances between the atoms given in a, b.
+  #                There are as many rows as atoms in a, as many columns as
+  #                atoms in b.
+
+  dMat <- numeric()
+  if (length(a) > 0 && length(b) > 0) {
+
+  A <- PDB$atom[a, c("x", "y", "z")]
+  B <- PDB$atom[b, c("x", "y", "z")]
+  dMat <- bio3d::dist.xyz(A, B)
+
+  }
+  return(dMat)
+}
+
+# Let's see if this looks correct. Let's look at all the pairwise distances
+# between N and O atoms in both types of secondary structure:
+
+iN <- ssSelect(apses, ssType = c("helix", "sheet"), myElety = "N")
+iO <- ssSelect(apses, ssType = c("helix", "sheet"), myElety = "O")
+x <- pairDist(apses, iN, iO)
+hist(x,
+     breaks = 80,
+     col = "lavenderblush",
+     main = "",
+     xlab = "N-O distances (Å)")
+
+# Since we are collecting distance from all secondary structure elements, we
+# are just seing a big peak of (meaningless) long-distance separations. We
+# need to zoom in on the shorter distances, in which we expect
+# hydrogen bonds:
+hist(x[x < 4.2],                # restrict to N-O distance less than 4.2 Å long
+     breaks=seq(2.0, 4.2, 0.1),
+     xlim=c(2.0,4.2),
+     col = "lavenderblush",
+     main = "",
+     xlab = "N-O distances (Å)")
+
+# There is a large peak at about 2.2Å, and another
+# large peak above 3.5Å. But these are not typical hydrogen
+# bond distances! Rather these are (N,O) pairs in peptide
+# bonds, and within residues. That's not good, because these will contaminate
+# our statistics.
+# We need to exclude all distances between N of a residue
+# and O of a preceeding residue, and all (N,O) pairs in the
+# same residue. We need a function to filter distances by residue numbers. And while we are filtering, we might as well throw away the non-H bond distances too.
+
+filterHB <- function(PDB, iN, iO, dMat, cutoff = 3.9) {
+  # Filters distances between O(i-1) and N(i), and between N(i) and O(i)
+  # in a distance matrix where there is one row per N-atom and one
+  # column per O atom.
+  # Parameters:
+  #    PDB            a bio3D PDB object
+  #    iN       int   a vector of N atom indexes
+  #    iO       int   a vector of O atom indexes
+  #    dMat     num   a distance matrix created by pairDist()
+  #    cutoff   num   only return distances that are shorter than "cutoff
+  # Value:  a distance matrix in which values that do not match the
+  #            filter criteria have bee set to NA.
+
+  if (length(iN) > 0 && length(iO) > 0) {
+
+    resN <- PDB$atom$resno[iN]
+    resO <- PDB$atom$resno[iO]
+
+    for (i in seq_along(resN)) {        # for all N atoms
+      for (j in seq_along(resO)) {      # for all O atoms
+        if (dMat[i, j] > cutoff ||      # if: distance > cutoff, or ...
+            (resN[i] - 1) == resO[j] || #     distance is N(i)---O(i-1), or ...
+            resN[i] == resO[j]) {       #     distance is N(i)---O(i), then:
+          dMat[i, j] <- NA              # set this distance to NA.
+        }
+      }
+    }
+  }
+  return(dMat)
+}
+
+# Inspect the result:
+hist(filterHB(apses, iN, iO, x),
+     breaks=seq(2.0, 4.2, 0.1),
+     xlim=c(2.0,4.2),
+     col = "paleturquoise",
+     main = "",
+     xlab = "N-O distances (Å)")
+
+
+# Finally we can calculate alpha- and beta- structure
+# bonds and compare them. In this section we'll explore
+# different options for histogram plots.
+
+# H-bonds in helices ...
+iN <- ssSelect(apses, ssType = c("helix"), myElety = "N")
+iO <- ssSelect(apses, ssType = c("helix"), myElety = "O")
+dH <- filterHB(apses, iN, iO, pairDist(apses, iN, iO))
+dH <- dH[!is.na(dH)]
+
+# H-bonds in sheets. (We commonly use the letter "E" to symbolize a beta
+# strand or sheet, because "E" visually evokes an extended strand with
+# protruding sidechains.)
+iN <- ssSelect(apses, ssType = c("sheet"), myElety = "N")
+iO <- ssSelect(apses, ssType = c("sheet"), myElety = "O")
+dE <- filterHB(apses, iN, iO, pairDist(apses, iN, iO))
+dE <- dE[!is.na(dE)]
+
+# The plain histogram functions without parameters
+# give us white stacks.
+
+hist(dH)
+
+# and ...
+hist(dE)
+
+# We can see that the histrograms look different
+# but that is better visualized by showing two plots
+# in the same window. We use the par() function, for
+# more flexible layout, look up the layout() function.
+?par
+?layout
+
+opar <- par(no.readonly=TRUE)  # store current state
+par(mfrow=c(2,1))  # set graphics parameters: 2 rows, one column
+
+# plot two histograms
+hist(dH)
+hist(dE)
+
+
+# add colour:
+hist(dH, col="#DD0055")
+hist(dE, col="#00AA70")
+
+
+
+# For better comparison, plot both in the
+# same window (use the "add = TRUE" parameter in hist() ):
+
+hist(dH, col="#DD0055")
+hist(dE, col="#00AA70", add = TRUE)
+
+# ... oops, we dind't reset the graphics parameters. You can either use
+# the broom icon of the  Plot  tab to clear asll plots, or ...
+par(opar)      # ... reset the graphics parameters
+
+hist(dH, col = "#DD0055")
+hist(dE, col = "#00AA70", add = TRUE)
+
+# We see that the leftmost column of the sheet bonds hides the helix bonds in
+# that column. Not good. But we can make the colours transparent! We just need to
+# add a fourth set of two hexadecimal-numbers to the #RRGGBB triplet. (This
+# sets the transparency of the colour, it is called the "alpha channel"). Lets
+# use 2/3 transparent, in hexadecimal, 1/3 of 256 is x55 - i.e. an RGB triplet
+# specied as #RRGGBB55 is only 33% opaque:
+
+hist(dH, col = "#DD005555")
+hist(dE, col = "#00AA7055", add = TRUE)
+
+# To finalize the plots, let's do two more things: Explicitly define the breaks,
+# to make sure they match up - otherwise they would not need to... like in this
+# example:
+
+hist(dH, col ="#DD005555")
+hist(dE[dE < 3], col = "#00AA7055", add = TRUE)
+
+# Breaks are a parameter in hist() that can either be a scalar, to define how
+# many columns you want, or a vector, that defines the actual breakpoints.
+brk=seq(2.4, 4.0, 0.1)
+
+hist(dH, col="#DD005555", breaks=brk)
+hist(dE, col="#00AA7055", breaks=brk, add=TRUE)
+
+# The last thing to do is to think about rescaling the plot. You notice that the
+# y-axis is scaled in absolute frequency (i.e. counts). That gives us some
+# impression of the relative frequency, but it is of course skewed by observing
+# relatively more or less of one type of secondary structure in a protein. As
+# part of the hist() function we can rescale the values so that the sum over all
+# is one: set the parameter freq=FALSE. And we explicitly set y-axis limits
+# to accommodate bot distributions.
+
+hist(dH, col="#DD005555", breaks=brk, freq=FALSE, ylim = c(0, 4))
+hist(dE, col="#00AA7055", breaks=brk, freq=FALSE, add=TRUE)
+
+# Adding labels and legend ...
+
+hH <- hist(dH,
+           freq=FALSE,
+           breaks=brk,
+           col="#DD005550",
+           xlab="(N,O) distance (Å)",
+           ylab="Density",
+           ylim=c(0,4),
+           main="Helix and Sheet H-bond lengths")
+hE <- hist(dE,
+           freq=FALSE,
+           breaks=brk,
+           col="#00AA7060",
+           add=TRUE)
+
+legend("topright",
+       c(sprintf("alpha (N = %3d)", sum(hH$counts)),
+         sprintf("beta  (N = %3d)", sum(hE$counts))),
+       fill = c("#DD005550", "#00AA7060"), bty = 'n',
+       border = NA)
+
+
+# With all the functions we have defined,
+# it is easy to try this with a larger protein.
+# 3ugj for example is VERY large.
+
+pdb <- bio3d::read.pdb("3ugj")
+
+# helices...
+iN <- ssSelect(pdb, ssType = c("helix"), myElety = "N")
+iO <- ssSelect(pdb, ssType = c("helix"), myElety = "O")
+dH <- filterHB(pdb, iN, iO, pairDist(pdb, iN, iO))
+dH <- dH[!is.na(dH)]
+
+# sheets
+iN <- ssSelect(pdb, ssType = c("sheet"), myElety = "N")
+iO <- ssSelect(pdb, ssType = c("sheet"), myElety = "O")
+dE <- filterHB(pdb, iN, iO, pairDist(pdb, iN, iO))
+dE <- dE[!is.na(dE)]
+
+# histograms ...
+brk=seq(2.4, 4.0, 0.1)
+
+hH <- hist(dH,
+           freq=FALSE,
+           breaks=brk,
+           col="#DD005550",
+           xlab="(N,O) distance (Å)",
+           ylab="Density",
+           ylim=c(0,4),
+           main="Helix and Sheet H-bond lengths")
+hE <- hist(dE,
+           freq=FALSE,
+           breaks=brk,
+           col="#00AA7060",
+           add=TRUE)
+
+legend('topright',
+       c(paste("alpha (N = ", sum(hH$counts), ")"),
+         paste("beta  (N = ", sum(hE$counts), ")")),
+       fill = c("#DD005550", "#00AA7060"), bty = 'n',
+       border = NA,
+       inset = 0.1)
+
+# It's apparent that the distributions are indeed different. Our sample
+# is large, but derives from a single protein. To do database scale statistics,
+# we should look at many more proteins. To give you a sense of how, let's do
+# this for just ten proteins, randomly selected from non-homologous,
+# high-resolution, single domain structures. I have provided a utility function
+# for such a selection (details beyond the scope of this project).
+
+myPDBs <- selectPDBrep(10)
+# My selection is "2OVJ", "1HQS", "3BON", "4JZX", "3BQ3", "2IUM", "2C9E",
+# "4X1F", "2V3I", "3GE3". Yours will be different.
+
+# We are loading the files online - don't do this if you have bandwidth
+# limitations.
+
+
+dH <- c() # collect all helix H-bonds here
+dE <- c() # collect all sheet H-bonds here
+
+for (i in seq_along(myPDBs)) {
+  pdb <- bio3d::read.pdb(myPDBs[i])
+
+  # helices...
+  iN <- ssSelect(pdb, ssType = c("helix"), myElety = "N")
+  iO <- ssSelect(pdb, ssType = c("helix"), myElety = "O")
+  x  <- filterHB(pdb, iN, iO, pairDist(pdb, iN, iO))
+  dH <- c(dH, x[!is.na(x)])
+
+  # sheets
+  iN <- ssSelect(pdb, ssType = c("sheet"), myElety = "N")
+  iO <- ssSelect(pdb, ssType = c("sheet"), myElety = "O")
+  x  <- filterHB(pdb, iN, iO, pairDist(pdb, iN, iO))
+  dE <- c(dE, x[!is.na(x)])
+}
+
+# Inspect the results
+
+length(dH)  # 4415 (your numbers are different, but there should be many)
+length(dE)  # 262
+
+brk=seq(2.0, 4.0, 0.1)
+
+hH <- hist(dH,
+           freq=FALSE,
+           breaks=brk,
+           col="#DD005550",
+           xlab="(N,O) distance (Å)",
+           ylab="Density",
+           ylim=c(0,4),
+           cex.main = 0.8,
+           main="Helix and Sheet H-bond lengths (10 representative structures)")
+hE <- hist(dE,
+           freq=FALSE,
+           breaks=brk,
+           col="#00AA7060",
+           add=TRUE)
+
+legend('topright',
+       c(paste("alpha (N = ", sum(hH$counts), ")"),
+         paste("beta  (N = ", sum(hE$counts), ")")),
+       fill = c("#DD005550", "#00AA7060"), bty = 'n',
+       border = NA,
+       inset = 0.1)
+
+# Task:
+#    Why do you think these distributions are different?
+#    At what distance do you think H-bonds have the lowest energy?
+#    For alpha-helices? For beta-strands?
+
+
+
+
+# [END]
diff --git a/RPR-UniProt_GET.R b/RPR-UniProt_GET.R
index 6a87854..4b6b4d4 100644
--- a/RPR-UniProt_GET.R
+++ b/RPR-UniProt_GET.R
@@ -1,135 +1,135 @@
-# tocID <- "RPR-UniProt_GET.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the RPR-Scripting_data_downloads unit.
-#
-# Version:  1.2
-#
-# Date:     2017-10  -  2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    2020 Maintenance. Made dbFetchUniProtSeq() vector-safe and
-#                  added FASTA headers as attribute
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout
-#           1.0    First ABC units version
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                      Line
-#TOC> ----------------------------------------------------------
-#TOC>   1        UniProt files via GET                        43
-#TOC>   1.1        Task - fetchUniProtSeq() function         105
-#TOC>   2        Task solutions                              118
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  UniProt files via GET  ===============================================
-
-
-# Perhaps the simplest example of scripted download is to retrieve a protein
-# FASTA sequence from UniProt. All we need is to construct an URL with the
-# correct UniProt ID.
-
-# An interface between R scripts and Web servers is provided by the httr::
-# package. This sends and receives information via the http protocol, just like
-# a Web browser. Since this is a short and simple request, the GET verb is the
-# right tool:
-
-if (! requireNamespace("httr", quietly = TRUE)) {
-  install.packages("httr")
-}
-# Package information:
-#  library(help = httr)       # basic information
-#  browseVignettes("httr")    # available vignettes
-#  data(package = "httr")     # available datasets
-
-
-# The UniProt ID for Mbp1 is ...
-
-UniProtID <- "P39678"
-
-# and the base URL to retrieve data is  ...
-# http://www.uniprot.org/uniprot/ . We can construct a simple URL to
-# retrieve a FASTA sequence:
-
-(URL <- sprintf("http://www.uniprot.org/uniprot/%s.fasta", UniProtID))
-
-# the GET() function from httr will get the data.
-response <- httr::GET(URL)
-
-str(response) # the response object is a bit complex ...
-as.character(response) # ... but it is easy to pull out the data.
-
-# to process  ...
-x <- as.character(response)
-x <- strsplit(x, "\n")
-dbSanitizeSequence(x)
-
-# Simple.
-# But what happens if there is an error, e.g. the uniprot ID does not exist?
-
-response <- httr::GET("http://www.uniprot.org/uniprot/X000000.fasta")
-as.character(response)
-# this is a large HTML page that tells us the URL was not found. So we need to
-# check for errors.  The Right Way to do this is to evaluate the staus code that
-# every Web server returns for every transaction.
-#
-httr::status_code(response)  # 404 == Page Not Found
-
-# There are many possible codes, but the only code we will be happy with
-# is 200 - oK.
-# (cf. https://en.wikipedia.org/wiki/List_of_HTTP_status_codes )
-
-URL <- sprintf("http://www.uniprot.org/uniprot/%s.fasta", UniProtID)
-response <- httr::GET(URL)
-httr::status_code(response)
-
-
-# ==   1.1  Task - fetchUniProtSeq() function  =================================
-
-# Task: write a function that
-#   - takes as input a vector of UniProt IDs,
-#   - fetches the FASTA sequence for each
-#   - returns a vector of the same length as the input, where an element is:
-#   -  ...  the sequence, if the query was successful
-#   -  ...  NA if there was an error
-#   - each element has the UniProt ID as the name()
-#   - bonus: the output has an attribute "headers" that is a vector of the
-#            FASTA headers ( cf. ?attr )
-
-
-# =    2  Task solutions  ======================================================
-
-
-# I have placed such a function - dbFetchUniProtSeq() - into
-# "./scripts/ABC-dbUtilities.R": look it up by clicking on  dbFetchUniProtSeq()
-# in the Environment pane.
-
-# Test this:
-( x <- dbFetchUniProtSeq("P39678") )
-names(x)[1]
-attr(x, "headers")[1]
-x[1]
-cat(writeFASTA(data.frame(head = attr(x, "headers")[1], seq  =x[1]),
-               width = 40), sep = "\n")
-
-
-
-# [END]
+# tocID <- "RPR-UniProt_GET.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the RPR-Scripting_data_downloads unit.
+#
+# Version:  1.2
+#
+# Date:     2017-10  -  2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    2020 Maintenance. Made dbFetchUniProtSeq() vector-safe and
+#                  added FASTA headers as attribute
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout
+#           1.0    First ABC units version
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                      Line
+#TOC> ----------------------------------------------------------
+#TOC>   1        UniProt files via GET                        43
+#TOC>   1.1        Task - fetchUniProtSeq() function         105
+#TOC>   2        Task solutions                              118
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  UniProt files via GET  ===============================================
+
+
+# Perhaps the simplest example of scripted download is to retrieve a protein
+# FASTA sequence from UniProt. All we need is to construct an URL with the
+# correct UniProt ID.
+
+# An interface between R scripts and Web servers is provided by the httr::
+# package. This sends and receives information via the http protocol, just like
+# a Web browser. Since this is a short and simple request, the GET verb is the
+# right tool:
+
+if (! requireNamespace("httr", quietly = TRUE)) {
+  install.packages("httr")
+}
+# Package information:
+#  library(help = httr)       # basic information
+#  browseVignettes("httr")    # available vignettes
+#  data(package = "httr")     # available datasets
+
+
+# The UniProt ID for Mbp1 is ...
+
+UniProtID <- "P39678"
+
+# and the base URL to retrieve data is  ...
+# http://www.uniprot.org/uniprot/ . We can construct a simple URL to
+# retrieve a FASTA sequence:
+
+(URL <- sprintf("http://www.uniprot.org/uniprot/%s.fasta", UniProtID))
+
+# the GET() function from httr will get the data.
+response <- httr::GET(URL)
+
+str(response) # the response object is a bit complex ...
+as.character(response) # ... but it is easy to pull out the data.
+
+# to process  ...
+x <- as.character(response)
+x <- strsplit(x, "\n")
+dbSanitizeSequence(x)
+
+# Simple.
+# But what happens if there is an error, e.g. the uniprot ID does not exist?
+
+response <- httr::GET("http://www.uniprot.org/uniprot/X000000.fasta")
+as.character(response)
+# this is a large HTML page that tells us the URL was not found. So we need to
+# check for errors.  The Right Way to do this is to evaluate the staus code that
+# every Web server returns for every transaction.
+#
+httr::status_code(response)  # 404 == Page Not Found
+
+# There are many possible codes, but the only code we will be happy with
+# is 200 - oK.
+# (cf. https://en.wikipedia.org/wiki/List_of_HTTP_status_codes )
+
+URL <- sprintf("http://www.uniprot.org/uniprot/%s.fasta", UniProtID)
+response <- httr::GET(URL)
+httr::status_code(response)
+
+
+# ==   1.1  Task - fetchUniProtSeq() function  =================================
+
+# Task: write a function that
+#   - takes as input a vector of UniProt IDs,
+#   - fetches the FASTA sequence for each
+#   - returns a vector of the same length as the input, where an element is:
+#   -  ...  the sequence, if the query was successful
+#   -  ...  NA if there was an error
+#   - each element has the UniProt ID as the name()
+#   - bonus: the output has an attribute "headers" that is a vector of the
+#            FASTA headers ( cf. ?attr )
+
+
+# =    2  Task solutions  ======================================================
+
+
+# I have placed such a function - dbFetchUniProtSeq() - into
+# "./scripts/ABC-dbUtilities.R": look it up by clicking on  dbFetchUniProtSeq()
+# in the Environment pane.
+
+# Test this:
+( x <- dbFetchUniProtSeq("P39678") )
+names(x)[1]
+attr(x, "headers")[1]
+x[1]
+cat(writeFASTA(data.frame(head = attr(x, "headers")[1], seq  =x[1]),
+               width = 40), sep = "\n")
+
+
+
+# [END]
diff --git a/RPR-Unit_testing.R b/RPR-Unit_testing.R
index 5f4a26e..c599648 100644
--- a/RPR-Unit_testing.R
+++ b/RPR-Unit_testing.R
@@ -1,234 +1,234 @@
-# tocID <- "RPR-Unit_testing.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the RPR-Unit_testing unit.
-#
-# Version:  1.2
-#
-# Date:     2017  10  -  2019  01
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    2020 Updates. Discuss local tests.
-#           1.1    Change from require() to requireNamespace()
-#           1.0    New code
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                             Line
-#TOC> -------------------------------------------------
-#TOC>   1        Unit Tests with testthat            42
-#TOC>   2        Organizing your tests              165
-#TOC>   2.1        Testing scripts                  189
-#TOC>   2.2        Rethinking testing               202
-#TOC>   3        Task solutions                     220
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Unit Tests with testthat  ============================================
-
-# The testthat package supports writing and executing unit tests in many ways.
-
-if (! requireNamespace("testthat", quietly = TRUE)) {
-  install.packages("testthat")
-}
-# Package information:
-#  library(help = testthat)       # basic information
-#  browseVignettes("testthat")    # available vignettes
-#  data(package = "testthat")     # available datasets
-
-# testthat is one of those packages that we either use A LOT in a script,
-# or not at all. Therefore it's more reasonable to depart from our usual
-# ::() idiom, and load the entire library. In fact, if
-# we author packages, it is common practice to load testthat in the part
-# of the package that automates testing.
-
-library(testthat)
-
-# An atomic test consists of an expectation about the bahaviour of a function or
-# the existence of an object. testthat provides a number of useful expectations:
-
-# At the most basic level, you can use expect_true() and expect_false():
-
-expect_true(file.exists("./data/S288C_YDL056W_MBP1_coding.fsa"))
-expect_true(file.exists("NO-SUCH-FILE.txt"))
-
-expect_false(is.integer(NA))
-
-# More commonly, you will test for equality of an output with a given result.
-# But you need to consider what it means for two numbers to be "equal" on a
-# digital computer. Consider:
-
-49*(1/49) == 1      # Surprised? Read FAQ 7.31
-                    # https://cran.r-project.org/doc/FAQ/R-FAQ.html
-49*(1/49) - 1       # NOT zero (but almost)
-
-# This is really unpredictable ...
-0.1 + 0.05 == 0.15
-0.2 + 0.07 == 0.27
-
-# It's easy to be caught on the wrong foot with numeric comparisons, therefore
-# R uses the function all.equal() to test whether two numbers are equal for
-# practical puposes up to machine precision.
-49*(1/49) == 1
-all.equal(49*(1/49), 1)
-
-# The testthat function expect_equal() uses all.equal internally:
-expect_equal(49*(1/49), 1)
-
-# ... which is reasonable, or, if things MUST be exactly the same ...
-expect_identical(49*(1/49), 1)
-
-# ... but consider:
-expect_identical(2, 2L) # one is typeof() "double", the other is integer"
-
-# Some very useful expectations are expect_warning(), and expect_error(), for
-# constructing tests that check for erroneous output:
-
-as.integer(c("1", "2", "three"))
-expect_warning(as.integer(c("1", "2", "three"))) # Note that the warning is NOT
-                                                 # printed.
-1/"x"
-expect_warning(1/"x")
-expect_error(1/"x")      # Again: note that the error is NOT printed, as well
-                         # code execution will continue.
-
-# Even better, you can check if the warning or error is what you expect it
-# to be - because it could actually have occured somewhere else in your code.
-
-v <- c("1", "x")
-log(v[1:2])
-expect_error(log(v[1:2]), "non-numeric argument to mathematical function")
-expect_error(log(v[1:2]), "non-numeric") # We can abbreviate the error message.
-expect_error(log(v[1,2]))                # This appears oK, but ...
-expect_error(log(v[1,2]), "non-numeric") # ... it's actually a different error!
-
-# Producing unit tests simply means: we define a function, and then we check
-# whether all test pass. Consider a function that is loaded on startup from
-# the .utilities.R script:
-
-biCode
-
-# We could test it like so:
-
-expect_equal(biCode(""), ".....")
-expect_equal(biCode(" "), ".....")
-expect_equal(biCode("123 12"), ".....")
-expect_equal(biCode("h sapiens"), "H..SA")
-expect_equal(biCode("homo sapiens"), "HOMSA")
-expect_equal(biCode("[homo sapiens neanderthaliensis]"), "HOMSA")
-expect_equal(biCode(c("Phascolarctos cinereus", "Macropus rufus")),
-             c("PHACI", "MACRU"))
-expect_error(biCode(), "argument \"s\" is missing, with no default")
-
-# The test_that() function allows to group related tests, include an informative
-# message which test is being executed, and run a number of tests that are
-# passed to the function inside a code block - i.e. {...}
-# test_that(", {})
-
-test_that("NA values are preserved", {
-  # bicode() respects vector length: input and output must have the smae length.
-  # Therefore NA's can't be simply skipped, bust must be properly passed
-  # into output:
-  expect_true(is.na((biCode(NA))))
-  expect_equal(biCode(c("first", NA, "last")),
-               c("FIRST", NA, "LAST."))
-})
-
-
-# Task: Write a function calcGC() that calculates GC content in a sequence.
-#       Hint: you could strsplit() the sequence into a vector, and count
-#       G's and C's; or you could use gsub("[AT]", "", ) to remove
-#       A's and T's, and use nchar() before and after to calculate the content
-#       from the length difference.
-#       Then write tests that:
-#          confirm that calcGC("AATT") is 0;
-#          confirm that calcGC("ATGC") is 0.5;
-#          confirm that calcGC("AC")   is 0.5;
-#          confirm that calcGC("CGCG") is 1;
-
-
-# =    2  Organizing your tests  ===============================================
-
-
-# Tests are only useful if they are actually executed and we need to make sure
-# there are no barriers to do that. The testthat package supports automatic
-# execution of tests:
-#  - put your tests into an R-script,
-#  - save your tests in a file called "test_.R"
-#  - execute the test with test_file("test_.R") ...
-#  ... or, if you are working on a project ...
-#  - place the file in a test-directory (e.g. the directory "test" in this
-#      project),
-#  - execute all your tests with test_dir("")
-
-# For example I have provided a "tests" directory with this project, and
-# placed the file "test_biCode.R" inside.
-file.show("./tests/test_biCode.R")
-
-# Execute the file ...
-test_file("./tests/test_biCode.R")
-
-# .. or execute all the test files in the directory:
-test_dir("./tests")
-
-# ==   2.1  Testing scripts  ===================================================
-
-# Scripts need special consideration since we do not necessarily source() them
-# entirely. Therefore automated testing is not reasonable. What you can do
-# instead is to place a conditional block at the end of your script, that
-# never gets executed - then you can manually execute the code in the block
-# whenever you wish to test your functions. For example:
-
-if (FALSE) {
-  # ... your tests go here
-
-}
-
-# ==   2.2  Rethinking testing  ================================================
-
-# However, it is important to keep in mind that different objectives lead to
-# different ideas of what works best. There is never a "best" in and of itself,
-# the question is always: "Best for what?" While automated unit testing is a
-# great way to assure the integrity of packages and larger software artefacts as
-# they are being developed, more loosely conceived aggregates of code - like the
-# scripts for this course for example - have different objectives and in this
-# case I find the testthat approach to actually be inferior. The reason is its
-# tendency to physically separate code and tests. Keeping assets, and functions
-# that operate on those assets separated is always poor design. I have found
-# over time that a more stable approach is to move individual functions into
-# their individual scripts, all in one folder, one function (and its helpers)
-# per file, and examples, demos and tests in an if (FALSE) { ... } block, as
-# explained above.
-
-
-
-# =    3  Task solutions  ======================================================
-
-calcGC <- function(s) {
-  s <- gsub("[^agctAGCT]", "", s)
-  return(nchar(gsub("[atAT]", "", s)) / nchar(s))
-}
-
-expect_equal(calcGC("AATT"), 0)
-expect_equal(calcGC("ATGC"), 0.5)
-expect_equal(calcGC("AC"),   0.5)
-expect_equal(calcGC("CGCG"), 1)
-
-
-
-# [END]
+# tocID <- "RPR-Unit_testing.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the RPR-Unit_testing unit.
+#
+# Version:  1.2
+#
+# Date:     2017  10  -  2019  01
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    2020 Updates. Discuss local tests.
+#           1.1    Change from require() to requireNamespace()
+#           1.0    New code
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                             Line
+#TOC> -------------------------------------------------
+#TOC>   1        Unit Tests with testthat            42
+#TOC>   2        Organizing your tests              165
+#TOC>   2.1        Testing scripts                  189
+#TOC>   2.2        Rethinking testing               202
+#TOC>   3        Task solutions                     220
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Unit Tests with testthat  ============================================
+
+# The testthat package supports writing and executing unit tests in many ways.
+
+if (! requireNamespace("testthat", quietly = TRUE)) {
+  install.packages("testthat")
+}
+# Package information:
+#  library(help = testthat)       # basic information
+#  browseVignettes("testthat")    # available vignettes
+#  data(package = "testthat")     # available datasets
+
+# testthat is one of those packages that we either use A LOT in a script,
+# or not at all. Therefore it's more reasonable to depart from our usual
+# ::() idiom, and load the entire library. In fact, if
+# we author packages, it is common practice to load testthat in the part
+# of the package that automates testing.
+
+library(testthat)
+
+# An atomic test consists of an expectation about the bahaviour of a function or
+# the existence of an object. testthat provides a number of useful expectations:
+
+# At the most basic level, you can use expect_true() and expect_false():
+
+expect_true(file.exists("./data/S288C_YDL056W_MBP1_coding.fsa"))
+expect_true(file.exists("NO-SUCH-FILE.txt"))
+
+expect_false(is.integer(NA))
+
+# More commonly, you will test for equality of an output with a given result.
+# But you need to consider what it means for two numbers to be "equal" on a
+# digital computer. Consider:
+
+49*(1/49) == 1      # Surprised? Read FAQ 7.31
+                    # https://cran.r-project.org/doc/FAQ/R-FAQ.html
+49*(1/49) - 1       # NOT zero (but almost)
+
+# This is really unpredictable ...
+0.1 + 0.05 == 0.15
+0.2 + 0.07 == 0.27
+
+# It's easy to be caught on the wrong foot with numeric comparisons, therefore
+# R uses the function all.equal() to test whether two numbers are equal for
+# practical puposes up to machine precision.
+49*(1/49) == 1
+all.equal(49*(1/49), 1)
+
+# The testthat function expect_equal() uses all.equal internally:
+expect_equal(49*(1/49), 1)
+
+# ... which is reasonable, or, if things MUST be exactly the same ...
+expect_identical(49*(1/49), 1)
+
+# ... but consider:
+expect_identical(2, 2L) # one is typeof() "double", the other is integer"
+
+# Some very useful expectations are expect_warning(), and expect_error(), for
+# constructing tests that check for erroneous output:
+
+as.integer(c("1", "2", "three"))
+expect_warning(as.integer(c("1", "2", "three"))) # Note that the warning is NOT
+                                                 # printed.
+1/"x"
+expect_warning(1/"x")
+expect_error(1/"x")      # Again: note that the error is NOT printed, as well
+                         # code execution will continue.
+
+# Even better, you can check if the warning or error is what you expect it
+# to be - because it could actually have occured somewhere else in your code.
+
+v <- c("1", "x")
+log(v[1:2])
+expect_error(log(v[1:2]), "non-numeric argument to mathematical function")
+expect_error(log(v[1:2]), "non-numeric") # We can abbreviate the error message.
+expect_error(log(v[1,2]))                # This appears oK, but ...
+expect_error(log(v[1,2]), "non-numeric") # ... it's actually a different error!
+
+# Producing unit tests simply means: we define a function, and then we check
+# whether all test pass. Consider a function that is loaded on startup from
+# the .utilities.R script:
+
+biCode
+
+# We could test it like so:
+
+expect_equal(biCode(""), ".....")
+expect_equal(biCode(" "), ".....")
+expect_equal(biCode("123 12"), ".....")
+expect_equal(biCode("h sapiens"), "H..SA")
+expect_equal(biCode("homo sapiens"), "HOMSA")
+expect_equal(biCode("[homo sapiens neanderthaliensis]"), "HOMSA")
+expect_equal(biCode(c("Phascolarctos cinereus", "Macropus rufus")),
+             c("PHACI", "MACRU"))
+expect_error(biCode(), "argument \"s\" is missing, with no default")
+
+# The test_that() function allows to group related tests, include an informative
+# message which test is being executed, and run a number of tests that are
+# passed to the function inside a code block - i.e. {...}
+# test_that(", {})
+
+test_that("NA values are preserved", {
+  # bicode() respects vector length: input and output must have the smae length.
+  # Therefore NA's can't be simply skipped, bust must be properly passed
+  # into output:
+  expect_true(is.na((biCode(NA))))
+  expect_equal(biCode(c("first", NA, "last")),
+               c("FIRST", NA, "LAST."))
+})
+
+
+# Task: Write a function calcGC() that calculates GC content in a sequence.
+#       Hint: you could strsplit() the sequence into a vector, and count
+#       G's and C's; or you could use gsub("[AT]", "", ) to remove
+#       A's and T's, and use nchar() before and after to calculate the content
+#       from the length difference.
+#       Then write tests that:
+#          confirm that calcGC("AATT") is 0;
+#          confirm that calcGC("ATGC") is 0.5;
+#          confirm that calcGC("AC")   is 0.5;
+#          confirm that calcGC("CGCG") is 1;
+
+
+# =    2  Organizing your tests  ===============================================
+
+
+# Tests are only useful if they are actually executed and we need to make sure
+# there are no barriers to do that. The testthat package supports automatic
+# execution of tests:
+#  - put your tests into an R-script,
+#  - save your tests in a file called "test_.R"
+#  - execute the test with test_file("test_.R") ...
+#  ... or, if you are working on a project ...
+#  - place the file in a test-directory (e.g. the directory "test" in this
+#      project),
+#  - execute all your tests with test_dir("")
+
+# For example I have provided a "tests" directory with this project, and
+# placed the file "test_biCode.R" inside.
+file.show("./tests/test_biCode.R")
+
+# Execute the file ...
+test_file("./tests/test_biCode.R")
+
+# .. or execute all the test files in the directory:
+test_dir("./tests")
+
+# ==   2.1  Testing scripts  ===================================================
+
+# Scripts need special consideration since we do not necessarily source() them
+# entirely. Therefore automated testing is not reasonable. What you can do
+# instead is to place a conditional block at the end of your script, that
+# never gets executed - then you can manually execute the code in the block
+# whenever you wish to test your functions. For example:
+
+if (FALSE) {
+  # ... your tests go here
+
+}
+
+# ==   2.2  Rethinking testing  ================================================
+
+# However, it is important to keep in mind that different objectives lead to
+# different ideas of what works best. There is never a "best" in and of itself,
+# the question is always: "Best for what?" While automated unit testing is a
+# great way to assure the integrity of packages and larger software artefacts as
+# they are being developed, more loosely conceived aggregates of code - like the
+# scripts for this course for example - have different objectives and in this
+# case I find the testthat approach to actually be inferior. The reason is its
+# tendency to physically separate code and tests. Keeping assets, and functions
+# that operate on those assets separated is always poor design. I have found
+# over time that a more stable approach is to move individual functions into
+# their individual scripts, all in one folder, one function (and its helpers)
+# per file, and examples, demos and tests in an if (FALSE) { ... } block, as
+# explained above.
+
+
+
+# =    3  Task solutions  ======================================================
+
+calcGC <- function(s) {
+  s <- gsub("[^agctAGCT]", "", s)
+  return(nchar(gsub("[atAT]", "", s)) / nchar(s))
+}
+
+expect_equal(calcGC("AATT"), 0)
+expect_equal(calcGC("ATGC"), 0.5)
+expect_equal(calcGC("AC"),   0.5)
+expect_equal(calcGC("CGCG"), 1)
+
+
+
+# [END]
diff --git a/RPR-eUtils_XML.R b/RPR-eUtils_XML.R
index f22f6c6..e097588 100644
--- a/RPR-eUtils_XML.R
+++ b/RPR-eUtils_XML.R
@@ -1,166 +1,166 @@
-# tocID <- "RPR-eUtils_XML.R"
-#
-# Purpose:  A Bioinformatics Course:
-#              R code accompanying the RPR-Scripting_data_downloads unit.
-#
-# Version:  1.2.1
-#
-# Date:     2017-10  -  2021-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2.1  2021 Maintenance
-#           1.2    2020 Updates
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout
-#           1.0    First ABC units version
-#           0.1    First code copied from 2016 material.
-#
-#
-# TODO:
-#
-#
-# == DO NOT SIMPLY  source()  THIS FILE! =======================================
-#
-# If there are portions you don't understand, use R's help system, Google for an
-# answer, or ask your instructor. Don't continue if you don't understand what's
-# going on. That's not how it works ...
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                       Line
-#TOC> -----------------------------------------------------------
-#TOC>   1        Working with NCBI eUtils                      43
-#TOC>   1.1        Task - fetchNCBItaxData() function         145
-#TOC>   2        Task solutions                               152
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Working with NCBI eUtils  ============================================
-
-
-# To begin, we load the xml2 package that contains functions
-# we need to receive and parse html data. NCBI's eUtils send information in
-# XML format so we need to be able to parse XML.
-if (! requireNamespace("xml2", quietly=TRUE)) {
-  install.packages("xml2")
-}
-# Package information:
-#  library(help = xml2)       # basic information
-#  browseVignettes("xml2")    # available vignettes
-#  data(package = "xml2")     # available datasets
-
-
-
-# We will walk through the process with the refSeqID
-# of yeast Mbp1
-refSeqID <- "NP_010227"
-
-
-# First we build a query URL...
-eUtilsBase <- "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/"
-
-
-# Then we assemble an URL that will search for get the
-# unique, NCBI internal identifier,
-# for our refSeqID...
-URL <- paste(eUtilsBase,
-             "esearch.fcgi?",     # ...using the esearch program
-                                  # that finds an entry in an
-                                  # NCBI database
-             "db=protein",
-             "&term=", refSeqID,
-             sep="")
-# Copy the URL and paste it into your browser to see
-# what the response should look like.
-URL
-
-# To fetch a response in R, we use the function read_xml()
-# with our URL as its argument.
-( myXML <- xml2::read_xml(URL) )
-
-# This is XML. We can take the response apart into
-# its individual components with the as_list() function.
-
-xml2::as_list(myXML)
-
-# Note how the XML "tree" is represented as a list of
-# lists of lists ...
-# If we know exactly what element we are looking for,
-# we can extract it from this structure:
-xml2::as_list(myXML)[["eSearchResult"]][["IdList"]][["Id"]][[1]]
-
-# But this is not very robust, it would break with the
-# slightest change that the NCBI makes to their data format -
-# and the NCBI changes things A LOT!
-
-# Somewhat more robust is to specify the type of element
-# we want - its the text contained in an ...
-# element, and use the XPath XML parsing language to
-# retrieve it.
-
-xml2::xml_find_all(myXML, "//Id") # returns a "node set"
-
-xml2::xml_text(xml2::xml_find_all(myXML, "//Id")) # returns the contents
-                                                  # of the node set
-
-# We will need to do this more than once, so we write a function
-# for it...
-node2text <- function(doc, tag) {
-  # an extractor function for the contents of elements
-  # between given tags in an XML response.
-  # Contents of all matching elements is returned in
-  # a vector of strings.
-  path <- paste0("//", tag)
-  nodes <- xml2::xml_find_all(doc, path)
-  return(xml2::xml_text(nodes))
-}
-
-# using node2text() ...
-(GID <- node2text(myXML, "Id"))
-
-# The GI is the pivot for data requests at the
-# NCBI.
-
-# Let's first get the associated data for this GI
-URL <- paste0(eUtilsBase,
-              "esummary.fcgi?",
-              "db=protein",
-              "&id=",
-              GID,
-              "&version=2.0")
-(myXML <- xml2::read_xml(URL))
-
-(taxID <- node2text(myXML, "TaxId"))
-(organism <- node2text(myXML, "Organism"))
-
-#  This forms the base of a function that gets taxonomy data
-#  from an Entrez result. You can write this!
-
-
-# ==   1.1  Task - fetchNCBItaxData() function  ================================
-
-# Task: write a function that takes as input a RefSeq ID, fetches the taxonomy
-# information, returns a list with taxID and organism, if the operation is
-# successful, or a list of length 0 if there is an error.
-
-
-# =    2  Task solutions  ======================================================
-
-# I have placed such a function into the dbUtilities script: look it up by
-# clicking on  dbFetchNCBItaxData() in the Environment pane.
-
-# Test:
-dbFetchNCBItaxData("XP_001837394")
-
-# Expected outout:
-# ----------------
-# taxID                         organism
-# 1 240176 Coprinopsis cinerea okayama7#130
-
-
-# [END]
+# tocID <- "RPR-eUtils_XML.R"
+#
+# Purpose:  A Bioinformatics Course:
+#              R code accompanying the RPR-Scripting_data_downloads unit.
+#
+# Version:  1.2.1
+#
+# Date:     2017-10  -  2021-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2.1  2021 Maintenance
+#           1.2    2020 Updates
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout
+#           1.0    First ABC units version
+#           0.1    First code copied from 2016 material.
+#
+#
+# TODO:
+#
+#
+# == DO NOT SIMPLY  source()  THIS FILE! =======================================
+#
+# If there are portions you don't understand, use R's help system, Google for an
+# answer, or ask your instructor. Don't continue if you don't understand what's
+# going on. That's not how it works ...
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                       Line
+#TOC> -----------------------------------------------------------
+#TOC>   1        Working with NCBI eUtils                      43
+#TOC>   1.1        Task - fetchNCBItaxData() function         145
+#TOC>   2        Task solutions                               152
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Working with NCBI eUtils  ============================================
+
+
+# To begin, we load the xml2 package that contains functions
+# we need to receive and parse html data. NCBI's eUtils send information in
+# XML format so we need to be able to parse XML.
+if (! requireNamespace("xml2", quietly=TRUE)) {
+  install.packages("xml2")
+}
+# Package information:
+#  library(help = xml2)       # basic information
+#  browseVignettes("xml2")    # available vignettes
+#  data(package = "xml2")     # available datasets
+
+
+
+# We will walk through the process with the refSeqID
+# of yeast Mbp1
+refSeqID <- "NP_010227"
+
+
+# First we build a query URL...
+eUtilsBase <- "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/"
+
+
+# Then we assemble an URL that will search for get the
+# unique, NCBI internal identifier,
+# for our refSeqID...
+URL <- paste(eUtilsBase,
+             "esearch.fcgi?",     # ...using the esearch program
+                                  # that finds an entry in an
+                                  # NCBI database
+             "db=protein",
+             "&term=", refSeqID,
+             sep="")
+# Copy the URL and paste it into your browser to see
+# what the response should look like.
+URL
+
+# To fetch a response in R, we use the function read_xml()
+# with our URL as its argument.
+( myXML <- xml2::read_xml(URL) )
+
+# This is XML. We can take the response apart into
+# its individual components with the as_list() function.
+
+xml2::as_list(myXML)
+
+# Note how the XML "tree" is represented as a list of
+# lists of lists ...
+# If we know exactly what element we are looking for,
+# we can extract it from this structure:
+xml2::as_list(myXML)[["eSearchResult"]][["IdList"]][["Id"]][[1]]
+
+# But this is not very robust, it would break with the
+# slightest change that the NCBI makes to their data format -
+# and the NCBI changes things A LOT!
+
+# Somewhat more robust is to specify the type of element
+# we want - its the text contained in an ...
+# element, and use the XPath XML parsing language to
+# retrieve it.
+
+xml2::xml_find_all(myXML, "//Id") # returns a "node set"
+
+xml2::xml_text(xml2::xml_find_all(myXML, "//Id")) # returns the contents
+                                                  # of the node set
+
+# We will need to do this more than once, so we write a function
+# for it...
+node2text <- function(doc, tag) {
+  # an extractor function for the contents of elements
+  # between given tags in an XML response.
+  # Contents of all matching elements is returned in
+  # a vector of strings.
+  path <- paste0("//", tag)
+  nodes <- xml2::xml_find_all(doc, path)
+  return(xml2::xml_text(nodes))
+}
+
+# using node2text() ...
+(GID <- node2text(myXML, "Id"))
+
+# The GI is the pivot for data requests at the
+# NCBI.
+
+# Let's first get the associated data for this GI
+URL <- paste0(eUtilsBase,
+              "esummary.fcgi?",
+              "db=protein",
+              "&id=",
+              GID,
+              "&version=2.0")
+(myXML <- xml2::read_xml(URL))
+
+(taxID <- node2text(myXML, "TaxId"))
+(organism <- node2text(myXML, "Organism"))
+
+#  This forms the base of a function that gets taxonomy data
+#  from an Entrez result. You can write this!
+
+
+# ==   1.1  Task - fetchNCBItaxData() function  ================================
+
+# Task: write a function that takes as input a RefSeq ID, fetches the taxonomy
+# information, returns a list with taxID and organism, if the operation is
+# successful, or a list of length 0 if there is an error.
+
+
+# =    2  Task solutions  ======================================================
+
+# I have placed such a function into the dbUtilities script: look it up by
+# clicking on  dbFetchNCBItaxData() in the Environment pane.
+
+# Test:
+dbFetchNCBItaxData("XP_001837394")
+
+# Expected outout:
+# ----------------
+# taxID                         organism
+# 1 240176 Coprinopsis cinerea okayama7#130
+
+
+# [END]
diff --git a/data/0TST.pdb b/data/0TST.pdb
index ccb631c..44bf1bd 100644
--- a/data/0TST.pdb
+++ b/data/0TST.pdb
@@ -1,10 +1,10 @@
-HEADER   TEST                                                 0TST      0TST   1
-REMARK     A CATALOGUE OF ATOM AND HETATM RECORDS                       0TST   2
-ATOM      1  N   GLY     1      -6.253  75.745  53.559  1.00 36.34      0TST   3
-ATOM      2  CA  GLY     1      -5.789  75.223  52.264  1.00 44.94      0TST   4
-ATOM      3  C   GLY     1      -5.592  73.702  52.294  1.00 32.28      0TST   5
-ATOM      4  O   GLY     1      -5.140  73.148  53.304  1.00 19.32      0TST   6
-TER       5      GLY     1                                              0TST   7
-HETATM    6  O   HOH     1      -4.169  60.050  40.145  1.00  3.00      0TST   8
-HETATM    7 CA   CA      1      -1.258 -71.579  50.253  1.00  3.00      0TST   9
-END                                                                     0TST  10
+HEADER   TEST                                                 0TST      0TST   1
+REMARK     A CATALOGUE OF ATOM AND HETATM RECORDS                       0TST   2
+ATOM      1  N   GLY     1      -6.253  75.745  53.559  1.00 36.34      0TST   3
+ATOM      2  CA  GLY     1      -5.789  75.223  52.264  1.00 44.94      0TST   4
+ATOM      3  C   GLY     1      -5.592  73.702  52.294  1.00 32.28      0TST   5
+ATOM      4  O   GLY     1      -5.140  73.148  53.304  1.00 19.32      0TST   6
+TER       5      GLY     1                                              0TST   7
+HETATM    6  O   HOH     1      -4.169  60.050  40.145  1.00  3.00      0TST   8
+HETATM    7 CA   CA      1      -1.258 -71.579  50.253  1.00  3.00      0TST   9
+END                                                                     0TST  10
diff --git a/data/1BM8.pdb b/data/1BM8.pdb
index 552801e..91daf57 100644
--- a/data/1BM8.pdb
+++ b/data/1BM8.pdb
@@ -1,1552 +1,1552 @@
-HEADER    CELL CYCLE                              29-JUL-98   1BM8              
-TITLE     DNA-BINDING DOMAIN OF MBP1                                            
-COMPND    MOL_ID: 1;                                                            
-COMPND   2 MOLECULE: TRANSCRIPTION FACTOR MBP1;                                 
-COMPND   3 CHAIN: A;                                                            
-COMPND   4 FRAGMENT: N-TERMINAL DNA-BINDING DOMAIN;                             
-COMPND   5 SYNONYM: MCB (MLUI CELL-CYLE BOX) BINDING PROTEIN;                   
-COMPND   6 ENGINEERED: YES                                                      
-SOURCE    MOL_ID: 1;                                                            
-SOURCE   2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE;                       
-SOURCE   3 ORGANISM_COMMON: BAKER'S YEAST;                                      
-SOURCE   4 ORGANISM_TAXID: 4932;                                                
-SOURCE   5 CELL_LINE: BL21;                                                     
-SOURCE   6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;                                 
-SOURCE   7 EXPRESSION_SYSTEM_TAXID: 562;                                        
-SOURCE   8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) PLYSS;                          
-SOURCE   9 EXPRESSION_SYSTEM_PLASMID: BL21 (DE3) PLYSS/PET43                    
-KEYWDS    CELL CYCLE, CYCLINS, DNA SYNTHESIS, HELIX-TURN-HELIX DNA-             
-KEYWDS   2 BINDING DOMAIN, MULTIWAVELENGTH ANOMALOUS DIFFRACTION,               
-KEYWDS   3 TRANSCRIPTION FACTOR                                                 
-EXPDTA    X-RAY DIFFRACTION                                                     
-AUTHOR    R.-M.XU,C.KOCH,Y.LIU,J.R.HORTON,D.KNAPP,K.NASMYTH,X.CHENG             
-REVDAT   2   24-FEB-09 1BM8    1       VERSN                                    
-REVDAT   1   02-MAR-99 1BM8    0                                                
-JRNL        AUTH   R.M.XU,C.KOCH,Y.LIU,J.R.HORTON,D.KNAPP,K.NASMYTH,            
-JRNL        AUTH 2 X.CHENG                                                      
-JRNL        TITL   CRYSTAL STRUCTURE OF THE DNA-BINDING DOMAIN OF               
-JRNL        TITL 2 MBP1, A TRANSCRIPTION FACTOR IMPORTANT IN                    
-JRNL        TITL 3 CELL-CYCLE CONTROL OF DNA SYNTHESIS.                         
-JRNL        REF    STRUCTURE                     V.   5   349 1997              
-JRNL        REFN                   ISSN 0969-2126                               
-JRNL        PMID   9083114                                                      
-JRNL        DOI    10.1016/S0969-2126(97)00192-5                                
-REMARK   1                                                                      
-REMARK   2                                                                      
-REMARK   2 RESOLUTION.    1.71 ANGSTROMS.                                       
-REMARK   3                                                                      
-REMARK   3 REFINEMENT.                                                          
-REMARK   3   PROGRAM     : X-PLOR 3.851                                         
-REMARK   3   AUTHORS     : BRUNGER                                              
-REMARK   3                                                                      
-REMARK   3  DATA USED IN REFINEMENT.                                            
-REMARK   3   RESOLUTION RANGE HIGH (ANGSTROMS) : 1.71                           
-REMARK   3   RESOLUTION RANGE LOW  (ANGSTROMS) : 5.00                           
-REMARK   3   DATA CUTOFF            (SIGMA(F)) : 0.000                          
-REMARK   3   DATA CUTOFF HIGH         (ABS(F)) : NULL                           
-REMARK   3   DATA CUTOFF LOW          (ABS(F)) : NULL                           
-REMARK   3   COMPLETENESS (WORKING+TEST)   (%) : 93.6                           
-REMARK   3   NUMBER OF REFLECTIONS             : 10273                          
-REMARK   3                                                                      
-REMARK   3  FIT TO DATA USED IN REFINEMENT.                                     
-REMARK   3   CROSS-VALIDATION METHOD          : NULL                            
-REMARK   3   FREE R VALUE TEST SET SELECTION  : RANDOM                          
-REMARK   3   R VALUE            (WORKING SET) : 0.197                           
-REMARK   3   FREE R VALUE                     : 0.261                           
-REMARK   3   FREE R VALUE TEST SET SIZE   (%) : 10.000                          
-REMARK   3   FREE R VALUE TEST SET COUNT      : NULL                            
-REMARK   3   ESTIMATED ERROR OF FREE R VALUE  : NULL                            
-REMARK   3                                                                      
-REMARK   3  FIT IN THE HIGHEST RESOLUTION BIN.                                  
-REMARK   3   TOTAL NUMBER OF BINS USED           : 8                            
-REMARK   3   BIN RESOLUTION RANGE HIGH       (A) : 1.71                         
-REMARK   3   BIN RESOLUTION RANGE LOW        (A) : 1.78                         
-REMARK   3   BIN COMPLETENESS (WORKING+TEST) (%) : 34.10                        
-REMARK   3   REFLECTIONS IN BIN    (WORKING SET) : 535                          
-REMARK   3   BIN R VALUE           (WORKING SET) : 0.4020                       
-REMARK   3   BIN FREE R VALUE                    : 0.3350                       
-REMARK   3   BIN FREE R VALUE TEST SET SIZE  (%) : 10.00                        
-REMARK   3   BIN FREE R VALUE TEST SET COUNT     : NULL                         
-REMARK   3   ESTIMATED ERROR OF BIN FREE R VALUE : NULL                         
-REMARK   3                                                                      
-REMARK   3  NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.                    
-REMARK   3   PROTEIN ATOMS            : 812                                     
-REMARK   3   NUCLEIC ACID ATOMS       : 0                                       
-REMARK   3   HETEROGEN ATOMS          : 0                                       
-REMARK   3   SOLVENT ATOMS            : 66                                      
-REMARK   3                                                                      
-REMARK   3  B VALUES.                                                           
-REMARK   3   FROM WILSON PLOT           (A**2) : NULL                           
-REMARK   3   MEAN B VALUE      (OVERALL, A**2) : 36.00                          
-REMARK   3   OVERALL ANISOTROPIC B VALUE.                                       
-REMARK   3    B11 (A**2) : NULL                                                 
-REMARK   3    B22 (A**2) : NULL                                                 
-REMARK   3    B33 (A**2) : NULL                                                 
-REMARK   3    B12 (A**2) : NULL                                                 
-REMARK   3    B13 (A**2) : NULL                                                 
-REMARK   3    B23 (A**2) : NULL                                                 
-REMARK   3                                                                      
-REMARK   3  ESTIMATED COORDINATE ERROR.                                         
-REMARK   3   ESD FROM LUZZATI PLOT        (A) : NULL                            
-REMARK   3   ESD FROM SIGMAA              (A) : NULL                            
-REMARK   3   LOW RESOLUTION CUTOFF        (A) : 5.00                            
-REMARK   3                                                                      
-REMARK   3  CROSS-VALIDATED ESTIMATED COORDINATE ERROR.                         
-REMARK   3   ESD FROM C-V LUZZATI PLOT    (A) : NULL                            
-REMARK   3   ESD FROM C-V SIGMAA          (A) : NULL                            
-REMARK   3                                                                      
-REMARK   3  RMS DEVIATIONS FROM IDEAL VALUES.                                   
-REMARK   3   BOND LENGTHS                 (A) : 0.009                           
-REMARK   3   BOND ANGLES            (DEGREES) : 1.11                            
-REMARK   3   DIHEDRAL ANGLES        (DEGREES) : 23.30                           
-REMARK   3   IMPROPER ANGLES        (DEGREES) : 0.98                            
-REMARK   3                                                                      
-REMARK   3  ISOTROPIC THERMAL MODEL : RESTRAINED                                
-REMARK   3                                                                      
-REMARK   3  ISOTROPIC THERMAL FACTOR RESTRAINTS.    RMS    SIGMA                
-REMARK   3   MAIN-CHAIN BOND              (A**2) : NULL  ; NULL                 
-REMARK   3   MAIN-CHAIN ANGLE             (A**2) : NULL  ; NULL                 
-REMARK   3   SIDE-CHAIN BOND              (A**2) : NULL  ; NULL                 
-REMARK   3   SIDE-CHAIN ANGLE             (A**2) : NULL  ; NULL                 
-REMARK   3                                                                      
-REMARK   3  NCS MODEL : NULL                                                    
-REMARK   3                                                                      
-REMARK   3  NCS RESTRAINTS.                         RMS   SIGMA/WEIGHT          
-REMARK   3   GROUP  1  POSITIONAL            (A) : NULL  ; NULL                 
-REMARK   3   GROUP  1  B-FACTOR           (A**2) : NULL  ; NULL                 
-REMARK   3                                                                      
-REMARK   3  PARAMETER FILE  1  : PARHCSDX.PRO                                   
-REMARK   3  PARAMETER FILE  2  : NULL                                           
-REMARK   3  PARAMETER FILE  3  : NULL                                           
-REMARK   3  TOPOLOGY FILE  1   : TOPHCSDX.PRO                                   
-REMARK   3  TOPOLOGY FILE  2   : NULL                                           
-REMARK   3  TOPOLOGY FILE  3   : NULL                                           
-REMARK   3                                                                      
-REMARK   3  OTHER REFINEMENT REMARKS: ISOTROPIC THERMAL FACTOR RESTRAINTS:      
-REMARK   3  36. (A**2) FOR MAIN-CHAIN BONDS AND 40.3 (A**2) FOR SIDE-CHAIN      
-REMARK   3  BONDS.                                                              
-REMARK   4                                                                      
-REMARK   4 1BM8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08                         
-REMARK 100                                                                      
-REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.                                
-REMARK 200                                                                      
-REMARK 200 EXPERIMENTAL DETAILS                                                 
-REMARK 200  EXPERIMENT TYPE                : X-RAY DIFFRACTION                  
-REMARK 200  DATE OF DATA COLLECTION        : JUN-96                             
-REMARK 200  TEMPERATURE           (KELVIN) : 289                                
-REMARK 200  PH                             : 8.0                                
-REMARK 200  NUMBER OF CRYSTALS USED        : 3                                  
-REMARK 200                                                                      
-REMARK 200  SYNCHROTRON              (Y/N) : Y                                  
-REMARK 200  RADIATION SOURCE               : NSLS                               
-REMARK 200  BEAMLINE                       : X12C                               
-REMARK 200  X-RAY GENERATOR MODEL          : NULL                               
-REMARK 200  MONOCHROMATIC OR LAUE    (M/L) : M                                  
-REMARK 200  WAVELENGTH OR RANGE        (A) : 0.96                               
-REMARK 200  MONOCHROMATOR                  : NI FILTER                          
-REMARK 200  OPTICS                         : MIRRORS                            
-REMARK 200                                                                      
-REMARK 200  DETECTOR TYPE                  : IMAGE PLATE                        
-REMARK 200  DETECTOR MANUFACTURER          : RIGAKU RAXIS IIC                   
-REMARK 200  INTENSITY-INTEGRATION SOFTWARE : DENZO                              
-REMARK 200  DATA SCALING SOFTWARE          : SCALEPACK                          
-REMARK 200                                                                      
-REMARK 200  NUMBER OF UNIQUE REFLECTIONS   : 12811                              
-REMARK 200  RESOLUTION RANGE HIGH      (A) : 1.700                              
-REMARK 200  RESOLUTION RANGE LOW       (A) : 30.000                             
-REMARK 200  REJECTION CRITERIA  (SIGMA(I)) : -3.000                             
-REMARK 200                                                                      
-REMARK 200 OVERALL.                                                             
-REMARK 200  COMPLETENESS FOR RANGE     (%) : 93.6                               
-REMARK 200  DATA REDUNDANCY                : 5.300                              
-REMARK 200  R MERGE                    (I) : 0.05200                            
-REMARK 200  R SYM                      (I) : NULL                               
-REMARK 200   FOR THE DATA SET  : 11.4000                            
-REMARK 200                                                                      
-REMARK 200 IN THE HIGHEST RESOLUTION SHELL.                                     
-REMARK 200  HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.71                     
-REMARK 200  HIGHEST RESOLUTION SHELL, RANGE LOW  (A) : 1.78                     
-REMARK 200  COMPLETENESS FOR SHELL     (%) : 34.0                               
-REMARK 200  DATA REDUNDANCY IN SHELL       : NULL                               
-REMARK 200  R MERGE FOR SHELL          (I) : NULL                               
-REMARK 200  R SYM FOR SHELL            (I) : NULL                               
-REMARK 200   FOR SHELL         : NULL                               
-REMARK 200                                                                      
-REMARK 200 DIFFRACTION PROTOCOL: NULL                                           
-REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL                         
-REMARK 200 SOFTWARE USED: PHASES                                                
-REMARK 200 STARTING MODEL: NULL                                                 
-REMARK 200                                                                      
-REMARK 200 REMARK: NULL                                                         
-REMARK 280                                                                      
-REMARK 280 CRYSTAL                                                              
-REMARK 280 SOLVENT CONTENT, VS   (%): 34.00                                     
-REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.85                     
-REMARK 280                                                                      
-REMARK 280 CRYSTALLIZATION CONDITIONS: PH 8.0                                   
-REMARK 290                                                                      
-REMARK 290 CRYSTALLOGRAPHIC SYMMETRY                                            
-REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2                        
-REMARK 290                                                                      
-REMARK 290      SYMOP   SYMMETRY                                                
-REMARK 290     NNNMMM   OPERATOR                                                
-REMARK 290       1555   X,Y,Z                                                   
-REMARK 290       2555   -X,-Y,Z+1/2                                             
-REMARK 290       3555   -Y+1/2,X+1/2,Z+1/4                                      
-REMARK 290       4555   Y+1/2,-X+1/2,Z+3/4                                      
-REMARK 290       5555   -X+1/2,Y+1/2,-Z+1/4                                     
-REMARK 290       6555   X+1/2,-Y+1/2,-Z+3/4                                     
-REMARK 290       7555   Y,X,-Z                                                  
-REMARK 290       8555   -Y,-X,-Z+1/2                                            
-REMARK 290                                                                      
-REMARK 290     WHERE NNN -> OPERATOR NUMBER                                     
-REMARK 290           MMM -> TRANSLATION VECTOR                                  
-REMARK 290                                                                      
-REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS                            
-REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM             
-REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY                
-REMARK 290 RELATED MOLECULES.                                                   
-REMARK 290   SMTRY1   1  1.000000  0.000000  0.000000        0.00000            
-REMARK 290   SMTRY2   1  0.000000  1.000000  0.000000        0.00000            
-REMARK 290   SMTRY3   1  0.000000  0.000000  1.000000        0.00000            
-REMARK 290   SMTRY1   2 -1.000000  0.000000  0.000000        0.00000            
-REMARK 290   SMTRY2   2  0.000000 -1.000000  0.000000        0.00000            
-REMARK 290   SMTRY3   2  0.000000  0.000000  1.000000       62.11000            
-REMARK 290   SMTRY1   3  0.000000 -1.000000  0.000000       21.67500            
-REMARK 290   SMTRY2   3  1.000000  0.000000  0.000000       21.67500            
-REMARK 290   SMTRY3   3  0.000000  0.000000  1.000000       31.05500            
-REMARK 290   SMTRY1   4  0.000000  1.000000  0.000000       21.67500            
-REMARK 290   SMTRY2   4 -1.000000  0.000000  0.000000       21.67500            
-REMARK 290   SMTRY3   4  0.000000  0.000000  1.000000       93.16500            
-REMARK 290   SMTRY1   5 -1.000000  0.000000  0.000000       21.67500            
-REMARK 290   SMTRY2   5  0.000000  1.000000  0.000000       21.67500            
-REMARK 290   SMTRY3   5  0.000000  0.000000 -1.000000       31.05500            
-REMARK 290   SMTRY1   6  1.000000  0.000000  0.000000       21.67500            
-REMARK 290   SMTRY2   6  0.000000 -1.000000  0.000000       21.67500            
-REMARK 290   SMTRY3   6  0.000000  0.000000 -1.000000       93.16500            
-REMARK 290   SMTRY1   7  0.000000  1.000000  0.000000        0.00000            
-REMARK 290   SMTRY2   7  1.000000  0.000000  0.000000        0.00000            
-REMARK 290   SMTRY3   7  0.000000  0.000000 -1.000000        0.00000            
-REMARK 290   SMTRY1   8  0.000000 -1.000000  0.000000        0.00000            
-REMARK 290   SMTRY2   8 -1.000000  0.000000  0.000000        0.00000            
-REMARK 290   SMTRY3   8  0.000000  0.000000 -1.000000       62.11000            
-REMARK 290                                                                      
-REMARK 290 REMARK: NULL                                                         
-REMARK 300                                                                      
-REMARK 300 BIOMOLECULE: 1                                                       
-REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM                
-REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN                  
-REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON               
-REMARK 300 BURIED SURFACE AREA.                                                 
-REMARK 350                                                                      
-REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN           
-REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE                
-REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS          
-REMARK 350 GIVEN BELOW.  BOTH NON-CRYSTALLOGRAPHIC AND                          
-REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN.                               
-REMARK 350                                                                      
-REMARK 350 BIOMOLECULE: 1                                                       
-REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC                         
-REMARK 350 APPLY THE FOLLOWING TO CHAINS: A                                     
-REMARK 350   BIOMT1   1  1.000000  0.000000  0.000000        0.00000            
-REMARK 350   BIOMT2   1  0.000000  1.000000  0.000000        0.00000            
-REMARK 350   BIOMT3   1  0.000000  0.000000  1.000000        0.00000            
-REMARK 525                                                                      
-REMARK 525 SOLVENT                                                              
-REMARK 525                                                                      
-REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT                    
-REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST                  
-REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT                 
-REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE                       
-REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER;                             
-REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE                  
-REMARK 525 NUMBER; I=INSERTION CODE):                                           
-REMARK 525                                                                      
-REMARK 525  M RES CSSEQI                                                        
-REMARK 525    HOH A 459        DISTANCE =  6.67 ANGSTROMS                       
-REMARK 525    HOH A 473        DISTANCE =  6.70 ANGSTROMS                       
-DBREF  1BM8 A    4   102  UNP    P39678   MBP1_YEAST       4    102             
-SEQRES   1 A   99  GLN ILE TYR SER ALA ARG TYR SER GLY VAL ASP VAL TYR          
-SEQRES   2 A   99  GLU PHE ILE HIS SER THR GLY SER ILE MET LYS ARG LYS          
-SEQRES   3 A   99  LYS ASP ASP TRP VAL ASN ALA THR HIS ILE LEU LYS ALA          
-SEQRES   4 A   99  ALA ASN PHE ALA LYS ALA LYS ARG THR ARG ILE LEU GLU          
-SEQRES   5 A   99  LYS GLU VAL LEU LYS GLU THR HIS GLU LYS VAL GLN GLY          
-SEQRES   6 A   99  GLY PHE GLY LYS TYR GLN GLY THR TRP VAL PRO LEU ASN          
-SEQRES   7 A   99  ILE ALA LYS GLN LEU ALA GLU LYS PHE SER VAL TYR ASP          
-SEQRES   8 A   99  GLN LEU LYS PRO LEU PHE ASP PHE                              
-FORMUL   2  HOH   *83(H2 O)                                                     
-HELIX    1   1 ALA A   36  ALA A   42  1                                   7    
-HELIX    2   2 LYS A   47  GLU A   57  1                                  11    
-HELIX    3   3 LEU A   80  LYS A   89  1                                  10    
-HELIX    4   4 TYR A   93  PHE A  100  1                                   8    
-SHEET    1   A 3 ILE A   5  TYR A  10  0                                        
-SHEET    2   A 3 VAL A  13  ILE A  19 -1  N  GLU A  17   O  TYR A   6           
-SHEET    3   A 3 SER A  24  ARG A  28 -1  N  LYS A  27   O  TYR A  16           
-SHEET    1   B 2 GLU A  64  VAL A  66  0                                        
-SHEET    2   B 2 GLY A  75  TRP A  77 -1  N  TRP A  77   O  GLU A  64           
-CRYST1   43.350   43.350  124.220  90.00  90.00  90.00 P 41 21 2     8          
-ORIGX1      1.000000  0.000000  0.000000        0.00000                         
-ORIGX2      0.000000  1.000000  0.000000        0.00000                         
-ORIGX3      0.000000  0.000000  1.000000        0.00000                         
-SCALE1      0.023068  0.000000  0.000000        0.00000                         
-SCALE2      0.000000  0.023068  0.000000        0.00000                         
-SCALE3      0.000000  0.000000  0.008050        0.00000                         
-ATOM      1  N   GLN A   4      -0.991   4.920  14.982  1.00 52.28           N  
-ATOM      2  CA  GLN A   4      -0.575   5.127  16.398  1.00 51.22           C  
-ATOM      3  C   GLN A   4       0.344   6.335  16.538  1.00 48.16           C  
-ATOM      4  O   GLN A   4       0.893   6.823  15.540  1.00 46.43           O  
-ATOM      5  CB  GLN A   4       0.121   3.877  16.961  1.00 53.87           C  
-ATOM      6  CG  GLN A   4      -0.797   3.008  17.820  1.00 57.21           C  
-ATOM      7  CD  GLN A   4      -0.029   2.066  18.730  1.00 60.18           C  
-ATOM      8  OE1 GLN A   4       1.135   2.325  19.071  1.00 61.12           O  
-ATOM      9  NE2 GLN A   4      -0.673   0.970  19.131  1.00 61.27           N  
-ATOM     10  H1  GLN A   4      -1.493   5.767  14.644  1.00  0.00           H  
-ATOM     11  H2  GLN A   4      -0.148   4.764  14.393  1.00  0.00           H  
-ATOM     12  H3  GLN A   4      -1.618   4.097  14.918  1.00  0.00           H  
-ATOM     13 HE21 GLN A   4      -0.200   0.339  19.714  1.00  0.00           H  
-ATOM     14 HE22 GLN A   4      -1.594   0.835  18.832  1.00  0.00           H  
-ATOM     15  N   ILE A   5       0.487   6.801  17.778  1.00 44.78           N  
-ATOM     16  CA  ILE A   5       1.300   7.959  18.076  1.00 42.51           C  
-ATOM     17  C   ILE A   5       2.358   7.589  19.087  1.00 40.28           C  
-ATOM     18  O   ILE A   5       2.041   7.137  20.170  1.00 41.33           O  
-ATOM     19  CB  ILE A   5       0.424   9.104  18.631  1.00 42.76           C  
-ATOM     20  CG1 ILE A   5      -0.582   9.523  17.557  1.00 44.06           C  
-ATOM     21  CG2 ILE A   5       1.281  10.293  19.056  1.00 43.55           C  
-ATOM     22  CD1 ILE A   5      -1.471  10.684  17.936  1.00 43.93           C  
-ATOM     23  H   ILE A   5       0.039   6.338  18.519  1.00  0.00           H  
-ATOM     24  N   TYR A   6       3.607   7.754  18.720  1.00 38.87           N  
-ATOM     25  CA  TYR A   6       4.710   7.452  19.621  1.00 38.04           C  
-ATOM     26  C   TYR A   6       5.273   8.733  20.218  1.00 34.53           C  
-ATOM     27  O   TYR A   6       5.170   9.805  19.650  1.00 33.71           O  
-ATOM     28  CB  TYR A   6       5.892   6.794  18.889  1.00 42.49           C  
-ATOM     29  CG  TYR A   6       5.619   5.559  18.078  1.00 49.90           C  
-ATOM     30  CD1 TYR A   6       4.759   4.551  18.520  1.00 52.40           C  
-ATOM     31  CD2 TYR A   6       6.290   5.367  16.884  1.00 53.52           C  
-ATOM     32  CE1 TYR A   6       4.603   3.377  17.787  1.00 56.29           C  
-ATOM     33  CE2 TYR A   6       6.148   4.208  16.144  1.00 56.87           C  
-ATOM     34  CZ  TYR A   6       5.307   3.211  16.595  1.00 58.22           C  
-ATOM     35  OH  TYR A   6       5.213   2.023  15.883  1.00 62.12           O  
-ATOM     36  H   TYR A   6       3.803   8.092  17.823  1.00  0.00           H  
-ATOM     37  HH  TYR A   6       4.525   1.471  16.264  1.00  0.00           H  
-ATOM     38  N   SER A   7       5.887   8.595  21.343  1.00 29.82           N  
-ATOM     39  CA  SER A   7       6.641   9.658  21.907  1.00 27.41           C  
-ATOM     40  C   SER A   7       8.065   9.484  21.365  1.00 25.27           C  
-ATOM     41  O   SER A   7       8.573   8.364  21.336  1.00 24.52           O  
-ATOM     42  CB  SER A   7       6.604   9.491  23.411  1.00 27.69           C  
-ATOM     43  OG  SER A   7       7.393  10.446  24.052  1.00 34.18           O  
-ATOM     44  H   SER A   7       5.839   7.737  21.817  1.00  0.00           H  
-ATOM     45  HG  SER A   7       8.257  10.478  23.644  1.00  0.00           H  
-ATOM     46  N   ALA A   8       8.709  10.555  20.901  1.00 23.35           N  
-ATOM     47  CA  ALA A   8      10.071  10.423  20.364  1.00 20.99           C  
-ATOM     48  C   ALA A   8      10.887  11.696  20.574  1.00 21.47           C  
-ATOM     49  O   ALA A   8      10.370  12.693  21.084  1.00 21.33           O  
-ATOM     50  CB  ALA A   8      10.016  10.075  18.875  1.00 20.24           C  
-ATOM     51  H   ALA A   8       8.274  11.435  20.918  1.00  0.00           H  
-ATOM     52  N   ARG A   9      12.163  11.644  20.207  1.00 21.36           N  
-ATOM     53  CA  ARG A   9      13.054  12.817  20.318  1.00 23.94           C  
-ATOM     54  C   ARG A   9      14.026  12.854  19.153  1.00 24.02           C  
-ATOM     55  O   ARG A   9      14.629  11.831  18.835  1.00 22.48           O  
-ATOM     56  CB  ARG A   9      13.864  12.818  21.615  1.00 24.91           C  
-ATOM     57  CG  ARG A   9      14.921  13.922  21.647  1.00 28.68           C  
-ATOM     58  CD  ARG A   9      15.735  13.904  22.931  1.00 31.98           C  
-ATOM     59  NE  ARG A   9      14.979  14.426  24.042  1.00 35.74           N  
-ATOM     60  CZ  ARG A   9      15.234  15.602  24.583  1.00 37.58           C  
-ATOM     61  NH1 ARG A   9      16.262  16.324  24.162  1.00 38.78           N  
-ATOM     62  NH2 ARG A   9      14.475  16.048  25.571  1.00 40.26           N  
-ATOM     63  H   ARG A   9      12.518  10.810  19.832  1.00  0.00           H  
-ATOM     64  HE  ARG A   9      14.250  13.885  24.413  1.00  0.00           H  
-ATOM     65 HH11 ARG A   9      16.855  15.976  23.436  1.00  0.00           H  
-ATOM     66 HH12 ARG A   9      16.446  17.220  24.568  1.00  0.00           H  
-ATOM     67 HH21 ARG A   9      13.711  15.495  25.906  1.00  0.00           H  
-ATOM     68 HH22 ARG A   9      14.657  16.944  25.977  1.00  0.00           H  
-ATOM     69  N   TYR A  10      14.154  14.035  18.532  1.00 24.15           N  
-ATOM     70  CA  TYR A  10      15.034  14.236  17.379  1.00 26.92           C  
-ATOM     71  C   TYR A  10      15.730  15.585  17.504  1.00 28.93           C  
-ATOM     72  O   TYR A  10      15.085  16.571  17.814  1.00 29.46           O  
-ATOM     73  CB  TYR A  10      14.234  14.252  16.072  1.00 23.90           C  
-ATOM     74  CG  TYR A  10      13.510  12.977  15.778  1.00 24.39           C  
-ATOM     75  CD1 TYR A  10      14.171  11.907  15.185  1.00 25.27           C  
-ATOM     76  CD2 TYR A  10      12.174  12.813  16.148  1.00 25.41           C  
-ATOM     77  CE1 TYR A  10      13.521  10.695  14.967  1.00 27.01           C  
-ATOM     78  CE2 TYR A  10      11.520  11.609  15.936  1.00 27.17           C  
-ATOM     79  CZ  TYR A  10      12.196  10.556  15.346  1.00 26.47           C  
-ATOM     80  OH  TYR A  10      11.540   9.379  15.101  1.00 27.96           O  
-ATOM     81  H   TYR A  10      13.640  14.801  18.866  1.00  0.00           H  
-ATOM     82  HH  TYR A  10      12.100   8.804  14.574  1.00  0.00           H  
-ATOM     83  N   SER A  11      17.029  15.630  17.266  1.00 30.98           N  
-ATOM     84  CA  SER A  11      17.751  16.893  17.349  1.00 32.54           C  
-ATOM     85  C   SER A  11      17.509  17.599  18.695  1.00 32.28           C  
-ATOM     86  O   SER A  11      17.377  18.827  18.737  1.00 33.57           O  
-ATOM     87  CB  SER A  11      17.299  17.821  16.212  1.00 34.50           C  
-ATOM     88  OG  SER A  11      17.469  17.220  14.934  1.00 39.12           O  
-ATOM     89  H   SER A  11      17.508  14.810  17.019  1.00  0.00           H  
-ATOM     90  HG  SER A  11      18.388  16.968  14.813  1.00  0.00           H  
-ATOM     91  N   GLY A  12      17.410  16.826  19.780  1.00 30.27           N  
-ATOM     92  CA  GLY A  12      17.187  17.403  21.099  1.00 27.72           C  
-ATOM     93  C   GLY A  12      15.760  17.867  21.361  1.00 26.67           C  
-ATOM     94  O   GLY A  12      15.474  18.436  22.414  1.00 28.11           O  
-ATOM     95  H   GLY A  12      17.494  15.856  19.690  1.00  0.00           H  
-ATOM     96  N   VAL A  13      14.855  17.590  20.434  1.00 25.00           N  
-ATOM     97  CA  VAL A  13      13.459  18.045  20.539  1.00 22.39           C  
-ATOM     98  C   VAL A  13      12.471  16.877  20.723  1.00 22.62           C  
-ATOM     99  O   VAL A  13      12.494  15.913  19.959  1.00 21.65           O  
-ATOM    100  CB  VAL A  13      13.075  18.819  19.253  1.00 21.97           C  
-ATOM    101  CG1 VAL A  13      11.652  19.334  19.343  1.00 18.81           C  
-ATOM    102  CG2 VAL A  13      14.057  19.964  19.042  1.00 22.24           C  
-ATOM    103  H   VAL A  13      15.123  17.070  19.648  1.00  0.00           H  
-ATOM    104  N   ASP A  14      11.617  16.976  21.734  1.00 21.41           N  
-ATOM    105  CA  ASP A  14      10.622  15.950  22.003  1.00 21.86           C  
-ATOM    106  C   ASP A  14       9.377  16.206  21.197  1.00 21.71           C  
-ATOM    107  O   ASP A  14       8.837  17.312  21.204  1.00 20.60           O  
-ATOM    108  CB  ASP A  14      10.237  15.913  23.494  1.00 24.96           C  
-ATOM    109  CG  ASP A  14      11.414  15.636  24.396  1.00 25.52           C  
-ATOM    110  OD1 ASP A  14      12.057  14.597  24.232  1.00 27.41           O  
-ATOM    111  OD2 ASP A  14      11.704  16.473  25.257  1.00 30.85           O  
-ATOM    112  H   ASP A  14      11.653  17.765  22.313  1.00  0.00           H  
-ATOM    113  N   VAL A  15       8.897  15.168  20.550  1.00 21.11           N  
-ATOM    114  CA  VAL A  15       7.740  15.281  19.686  1.00 20.99           C  
-ATOM    115  C   VAL A  15       6.819  14.096  19.900  1.00 23.45           C  
-ATOM    116  O   VAL A  15       7.178  13.132  20.595  1.00 24.63           O  
-ATOM    117  CB  VAL A  15       8.149  15.282  18.166  1.00 19.89           C  
-ATOM    118  CG1 VAL A  15       9.103  16.420  17.854  1.00 16.46           C  
-ATOM    119  CG2 VAL A  15       8.795  13.934  17.785  1.00 18.59           C  
-ATOM    120  H   VAL A  15       9.323  14.292  20.662  1.00  0.00           H  
-ATOM    121  N   TYR A  16       5.632  14.216  19.339  1.00 24.96           N  
-ATOM    122  CA  TYR A  16       4.726  13.114  19.215  1.00 26.21           C  
-ATOM    123  C   TYR A  16       4.746  12.756  17.744  1.00 26.48           C  
-ATOM    124  O   TYR A  16       4.631  13.643  16.884  1.00 25.01           O  
-ATOM    125  CB  TYR A  16       3.314  13.507  19.644  1.00 29.28           C  
-ATOM    126  CG  TYR A  16       3.170  13.632  21.144  1.00 32.30           C  
-ATOM    127  CD1 TYR A  16       3.375  12.530  21.959  1.00 34.32           C  
-ATOM    128  CD2 TYR A  16       2.859  14.843  21.746  1.00 33.14           C  
-ATOM    129  CE1 TYR A  16       3.272  12.625  23.332  1.00 36.05           C  
-ATOM    130  CE2 TYR A  16       2.755  14.950  23.125  1.00 35.60           C  
-ATOM    131  CZ  TYR A  16       2.962  13.832  23.907  1.00 37.33           C  
-ATOM    132  OH  TYR A  16       2.870  13.922  25.273  1.00 42.80           O  
-ATOM    133  H   TYR A  16       5.364  15.082  18.983  1.00  0.00           H  
-ATOM    134  HH  TYR A  16       3.304  13.159  25.678  1.00  0.00           H  
-ATOM    135  N   GLU A  17       4.950  11.483  17.454  1.00 27.52           N  
-ATOM    136  CA  GLU A  17       5.040  11.030  16.074  1.00 29.95           C  
-ATOM    137  C   GLU A  17       3.841  10.167  15.709  1.00 30.66           C  
-ATOM    138  O   GLU A  17       3.533   9.205  16.390  1.00 27.27           O  
-ATOM    139  CB  GLU A  17       6.349  10.268  15.880  1.00 29.55           C  
-ATOM    140  CG  GLU A  17       6.689   9.958  14.439  1.00 32.47           C  
-ATOM    141  CD  GLU A  17       8.068   9.340  14.291  1.00 34.84           C  
-ATOM    142  OE1 GLU A  17       8.917   9.552  15.182  1.00 36.30           O  
-ATOM    143  OE2 GLU A  17       8.307   8.643  13.282  1.00 38.82           O  
-ATOM    144  H   GLU A  17       5.048  10.834  18.179  1.00  0.00           H  
-ATOM    145  N   PHE A  18       3.157  10.574  14.657  1.00 34.09           N  
-ATOM    146  CA  PHE A  18       1.992   9.874  14.154  1.00 38.16           C  
-ATOM    147  C   PHE A  18       2.404   9.093  12.906  1.00 40.68           C  
-ATOM    148  O   PHE A  18       3.066   9.635  12.005  1.00 38.31           O  
-ATOM    149  CB  PHE A  18       0.911  10.908  13.837  1.00 39.21           C  
-ATOM    150  CG  PHE A  18      -0.309  10.396  13.139  1.00 43.44           C  
-ATOM    151  CD1 PHE A  18      -1.285   9.683  13.838  1.00 45.30           C  
-ATOM    152  CD2 PHE A  18      -0.520  10.684  11.789  1.00 45.30           C  
-ATOM    153  CE1 PHE A  18      -2.451   9.269  13.205  1.00 45.73           C  
-ATOM    154  CE2 PHE A  18      -1.682  10.275  11.146  1.00 46.28           C  
-ATOM    155  CZ  PHE A  18      -2.651   9.568  11.854  1.00 46.51           C  
-ATOM    156  H   PHE A  18       3.446  11.386  14.198  1.00  0.00           H  
-ATOM    157  N   ILE A  19       2.060   7.813  12.875  1.00 43.87           N  
-ATOM    158  CA  ILE A  19       2.451   6.970  11.756  1.00 47.64           C  
-ATOM    159  C   ILE A  19       1.361   6.905  10.701  1.00 50.18           C  
-ATOM    160  O   ILE A  19       0.316   6.280  10.907  1.00 50.83           O  
-ATOM    161  CB  ILE A  19       2.787   5.548  12.208  1.00 48.13           C  
-ATOM    162  CG1 ILE A  19       3.734   5.597  13.406  1.00 49.26           C  
-ATOM    163  CG2 ILE A  19       3.425   4.793  11.061  1.00 48.27           C  
-ATOM    164  CD1 ILE A  19       5.016   6.356  13.140  1.00 51.27           C  
-ATOM    165  H   ILE A  19       1.535   7.436  13.609  1.00  0.00           H  
-ATOM    166  N   HIS A  20       1.623   7.574   9.587  1.00 52.47           N  
-ATOM    167  CA  HIS A  20       0.710   7.602   8.461  1.00 54.63           C  
-ATOM    168  C   HIS A  20       1.325   6.738   7.359  1.00 54.62           C  
-ATOM    169  O   HIS A  20       2.518   6.415   7.424  1.00 54.75           O  
-ATOM    170  CB  HIS A  20       0.553   9.056   7.990  1.00 57.40           C  
-ATOM    171  CG  HIS A  20      -0.664   9.340   7.157  1.00 60.64           C  
-ATOM    172  ND1 HIS A  20      -0.604   9.703   5.820  1.00 61.69           N  
-ATOM    173  CD2 HIS A  20      -1.991   9.341   7.470  1.00 61.84           C  
-ATOM    174  CE1 HIS A  20      -1.811   9.917   5.323  1.00 62.25           C  
-ATOM    175  NE2 HIS A  20      -2.653   9.699   6.317  1.00 63.47           N  
-ATOM    176  H   HIS A  20       2.472   8.058   9.517  1.00  0.00           H  
-ATOM    177  HD1 HIS A  20       0.226   9.797   5.306  1.00  0.00           H  
-ATOM    178  HE2 HIS A  20      -3.628   9.768   6.238  1.00  0.00           H  
-ATOM    179  N   SER A  21       0.535   6.358   6.354  1.00 54.36           N  
-ATOM    180  CA  SER A  21       1.057   5.528   5.265  1.00 52.80           C  
-ATOM    181  C   SER A  21       2.204   6.221   4.504  1.00 52.38           C  
-ATOM    182  O   SER A  21       3.242   5.606   4.237  1.00 51.68           O  
-ATOM    183  CB  SER A  21      -0.081   5.142   4.322  1.00 51.54           C  
-ATOM    184  OG  SER A  21      -0.940   6.237   4.107  1.00 51.51           O  
-ATOM    185  H   SER A  21      -0.408   6.625   6.348  1.00  0.00           H  
-ATOM    186  HG  SER A  21      -1.720   5.940   3.628  1.00  0.00           H  
-ATOM    187  N   THR A  22       2.030   7.509   4.195  1.00 52.22           N  
-ATOM    188  CA  THR A  22       3.058   8.284   3.475  1.00 52.84           C  
-ATOM    189  C   THR A  22       4.294   8.548   4.334  1.00 50.76           C  
-ATOM    190  O   THR A  22       5.358   8.913   3.827  1.00 50.70           O  
-ATOM    191  CB  THR A  22       2.503   9.648   3.031  1.00 54.77           C  
-ATOM    192  OG1 THR A  22       1.746  10.224   4.115  1.00 57.43           O  
-ATOM    193  CG2 THR A  22       1.604   9.504   1.816  1.00 56.57           C  
-ATOM    194  H   THR A  22       1.193   7.951   4.445  1.00  0.00           H  
-ATOM    195  HG1 THR A  22       1.603  11.155   3.928  1.00  0.00           H  
-ATOM    196  N   GLY A  23       4.142   8.376   5.635  1.00 49.11           N  
-ATOM    197  CA  GLY A  23       5.238   8.640   6.541  1.00 45.68           C  
-ATOM    198  C   GLY A  23       4.739   9.133   7.876  1.00 43.53           C  
-ATOM    199  O   GLY A  23       3.521   9.157   8.138  1.00 42.97           O  
-ATOM    200  H   GLY A  23       3.287   8.054   5.988  1.00  0.00           H  
-ATOM    201  N   SER A  24       5.655   9.533   8.719  1.00 40.66           N  
-ATOM    202  CA  SER A  24       5.279  10.004  10.026  1.00 38.67           C  
-ATOM    203  C   SER A  24       5.066  11.517  10.046  1.00 36.42           C  
-ATOM    204  O   SER A  24       5.714  12.267   9.291  1.00 34.95           O  
-ATOM    205  CB  SER A  24       6.335   9.598  11.029  1.00 39.09           C  
-ATOM    206  OG  SER A  24       7.622   9.743  10.472  1.00 44.40           O  
-ATOM    207  H   SER A  24       6.597   9.521   8.458  1.00  0.00           H  
-ATOM    208  HG  SER A  24       7.777   9.032   9.837  1.00  0.00           H  
-ATOM    209  N   ILE A  25       4.129  11.946  10.890  1.00 32.56           N  
-ATOM    210  CA  ILE A  25       3.824  13.356  11.064  1.00 29.27           C  
-ATOM    211  C   ILE A  25       4.108  13.725  12.516  1.00 27.24           C  
-ATOM    212  O   ILE A  25       3.698  13.017  13.431  1.00 26.25           O  
-ATOM    213  CB  ILE A  25       2.354  13.628  10.682  1.00 30.38           C  
-ATOM    214  CG1 ILE A  25       2.172  13.204   9.219  1.00 33.50           C  
-ATOM    215  CG2 ILE A  25       2.011  15.105  10.843  1.00 28.01           C  
-ATOM    216  CD1 ILE A  25       0.746  13.027   8.780  1.00 35.33           C  
-ATOM    217  H   ILE A  25       3.628  11.287  11.414  1.00  0.00           H  
-ATOM    218  N   MET A  26       4.821  14.815  12.713  1.00 24.03           N  
-ATOM    219  CA  MET A  26       5.282  15.188  14.040  1.00 22.95           C  
-ATOM    220  C   MET A  26       4.649  16.463  14.576  1.00 23.00           C  
-ATOM    221  O   MET A  26       4.398  17.426  13.832  1.00 19.80           O  
-ATOM    222  CB  MET A  26       6.800  15.397  14.034  1.00 22.54           C  
-ATOM    223  CG  MET A  26       7.632  14.152  13.821  1.00 22.25           C  
-ATOM    224  SD  MET A  26       9.393  14.520  13.783  1.00 27.59           S  
-ATOM    225  CE  MET A  26      10.026  13.008  13.046  1.00 27.15           C  
-ATOM    226  H   MET A  26       5.012  15.401  11.961  1.00  0.00           H  
-ATOM    227  N   LYS A  27       4.443  16.453  15.891  1.00 23.73           N  
-ATOM    228  CA  LYS A  27       3.998  17.625  16.632  1.00 23.46           C  
-ATOM    229  C   LYS A  27       4.942  17.793  17.828  1.00 22.79           C  
-ATOM    230  O   LYS A  27       5.244  16.813  18.522  1.00 22.50           O  
-ATOM    231  CB  LYS A  27       2.550  17.459  17.133  1.00 24.99           C  
-ATOM    232  CG  LYS A  27       2.055  18.665  17.923  1.00 27.08           C  
-ATOM    233  CD  LYS A  27       0.574  18.594  18.223  1.00 29.52           C  
-ATOM    234  CE  LYS A  27       0.272  17.523  19.243  1.00 32.06           C  
-ATOM    235  NZ  LYS A  27      -1.178  17.499  19.580  1.00 35.59           N  
-ATOM    236  H   LYS A  27       4.599  15.620  16.384  1.00  0.00           H  
-ATOM    237  HZ1 LYS A  27      -1.732  17.319  18.719  1.00  0.00           H  
-ATOM    238  HZ2 LYS A  27      -1.359  16.745  20.272  1.00  0.00           H  
-ATOM    239  HZ3 LYS A  27      -1.452  18.414  19.986  1.00  0.00           H  
-ATOM    240  N   ARG A  28       5.455  19.003  18.033  1.00 21.34           N  
-ATOM    241  CA  ARG A  28       6.361  19.253  19.141  1.00 21.22           C  
-ATOM    242  C   ARG A  28       5.615  19.292  20.464  1.00 20.99           C  
-ATOM    243  O   ARG A  28       4.534  19.902  20.557  1.00 20.62           O  
-ATOM    244  CB  ARG A  28       7.090  20.582  18.971  1.00 20.55           C  
-ATOM    245  CG  ARG A  28       8.119  20.580  17.884  1.00 23.75           C  
-ATOM    246  CD  ARG A  28       9.092  21.725  18.053  1.00 24.37           C  
-ATOM    247  NE  ARG A  28       8.452  23.024  17.897  1.00 22.21           N  
-ATOM    248  CZ  ARG A  28       8.906  23.947  17.062  1.00 22.16           C  
-ATOM    249  NH1 ARG A  28       9.932  23.686  16.260  1.00 21.40           N  
-ATOM    250  NH2 ARG A  28       8.314  25.124  17.006  1.00 22.10           N  
-ATOM    251  H   ARG A  28       5.216  19.737  17.429  1.00  0.00           H  
-ATOM    252  HE  ARG A  28       7.659  23.223  18.432  1.00  0.00           H  
-ATOM    253 HH11 ARG A  28      10.372  22.788  16.284  1.00  0.00           H  
-ATOM    254 HH12 ARG A  28      10.278  24.394  15.642  1.00  0.00           H  
-ATOM    255 HH21 ARG A  28       7.520  25.312  17.581  1.00  0.00           H  
-ATOM    256 HH22 ARG A  28       8.657  25.824  16.379  1.00  0.00           H  
-ATOM    257  N   LYS A  29       6.215  18.701  21.488  1.00 20.40           N  
-ATOM    258  CA  LYS A  29       5.601  18.678  22.813  1.00 22.71           C  
-ATOM    259  C   LYS A  29       5.623  20.043  23.491  1.00 22.45           C  
-ATOM    260  O   LYS A  29       4.669  20.397  24.190  1.00 21.87           O  
-ATOM    261  CB  LYS A  29       6.298  17.668  23.723  1.00 25.87           C  
-ATOM    262  CG  LYS A  29       6.214  16.228  23.225  1.00 31.52           C  
-ATOM    263  CD  LYS A  29       6.749  15.268  24.259  1.00 32.96           C  
-ATOM    264  CE  LYS A  29       6.701  13.831  23.781  1.00 33.83           C  
-ATOM    265  NZ  LYS A  29       7.106  12.908  24.868  1.00 35.21           N  
-ATOM    266  H   LYS A  29       7.088  18.274  21.356  1.00  0.00           H  
-ATOM    267  HZ1 LYS A  29       6.552  13.117  25.721  1.00  0.00           H  
-ATOM    268  HZ2 LYS A  29       6.929  11.933  24.575  1.00  0.00           H  
-ATOM    269  HZ3 LYS A  29       8.116  13.033  25.071  1.00  0.00           H  
-ATOM    270  N   LYS A  30       6.693  20.822  23.275  1.00 21.91           N  
-ATOM    271  CA  LYS A  30       6.818  22.108  23.970  1.00 22.50           C  
-ATOM    272  C   LYS A  30       5.797  23.154  23.535  1.00 22.00           C  
-ATOM    273  O   LYS A  30       5.348  23.925  24.374  1.00 21.27           O  
-ATOM    274  CB  LYS A  30       8.230  22.683  23.839  1.00 23.91           C  
-ATOM    275  CG  LYS A  30       8.602  23.159  22.448  1.00 30.91           C  
-ATOM    276  CD  LYS A  30      10.047  23.652  22.422  1.00 35.19           C  
-ATOM    277  CE  LYS A  30      10.510  24.019  21.007  1.00 36.53           C  
-ATOM    278  NZ  LYS A  30       9.871  25.274  20.519  1.00 36.17           N  
-ATOM    279  H   LYS A  30       7.397  20.528  22.662  1.00  0.00           H  
-ATOM    280  HZ1 LYS A  30       8.838  25.181  20.585  1.00  0.00           H  
-ATOM    281  HZ2 LYS A  30      10.185  26.073  21.106  1.00  0.00           H  
-ATOM    282  HZ3 LYS A  30      10.142  25.441  19.531  1.00  0.00           H  
-ATOM    283  N   ASP A  31       5.401  23.183  22.245  1.00 18.95           N  
-ATOM    284  CA  ASP A  31       4.499  24.232  21.794  1.00 20.45           C  
-ATOM    285  C   ASP A  31       3.382  23.785  20.872  1.00 21.56           C  
-ATOM    286  O   ASP A  31       2.634  24.636  20.361  1.00 23.45           O  
-ATOM    287  CB  ASP A  31       5.298  25.339  21.113  1.00 21.42           C  
-ATOM    288  CG  ASP A  31       6.231  24.825  20.027  1.00 26.39           C  
-ATOM    289  OD1 ASP A  31       6.013  23.695  19.518  1.00 25.20           O  
-ATOM    290  OD2 ASP A  31       7.181  25.546  19.686  1.00 24.41           O  
-ATOM    291  H   ASP A  31       5.715  22.499  21.621  1.00  0.00           H  
-ATOM    292  N   ASP A  32       3.265  22.484  20.634  1.00 21.07           N  
-ATOM    293  CA  ASP A  32       2.221  21.961  19.749  1.00 21.22           C  
-ATOM    294  C   ASP A  32       2.374  22.381  18.293  1.00 20.57           C  
-ATOM    295  O   ASP A  32       1.426  22.253  17.511  1.00 22.37           O  
-ATOM    296  CB  ASP A  32       0.809  22.358  20.226  1.00 23.08           C  
-ATOM    297  CG  ASP A  32       0.375  21.651  21.495  1.00 25.24           C  
-ATOM    298  OD1 ASP A  32       1.027  20.663  21.882  1.00 26.63           O  
-ATOM    299  OD2 ASP A  32      -0.615  22.083  22.104  1.00 26.97           O  
-ATOM    300  H   ASP A  32       3.881  21.858  21.068  1.00  0.00           H  
-ATOM    301  N   TRP A  33       3.525  22.886  17.903  1.00 18.75           N  
-ATOM    302  CA  TRP A  33       3.708  23.213  16.488  1.00 20.17           C  
-ATOM    303  C   TRP A  33       3.768  21.917  15.706  1.00 20.21           C  
-ATOM    304  O   TRP A  33       4.182  20.893  16.259  1.00 20.80           O  
-ATOM    305  CB  TRP A  33       4.991  24.009  16.266  1.00 20.31           C  
-ATOM    306  CG  TRP A  33       4.872  25.450  16.661  1.00 22.77           C  
-ATOM    307  CD1 TRP A  33       4.129  25.972  17.696  1.00 23.36           C  
-ATOM    308  CD2 TRP A  33       5.470  26.570  15.984  1.00 23.95           C  
-ATOM    309  NE1 TRP A  33       4.240  27.334  17.673  1.00 22.96           N  
-ATOM    310  CE2 TRP A  33       5.046  27.743  16.657  1.00 22.56           C  
-ATOM    311  CE3 TRP A  33       6.318  26.696  14.877  1.00 22.29           C  
-ATOM    312  CZ2 TRP A  33       5.442  29.023  16.257  1.00 24.90           C  
-ATOM    313  CZ3 TRP A  33       6.702  27.969  14.481  1.00 25.00           C  
-ATOM    314  CH2 TRP A  33       6.268  29.117  15.169  1.00 24.02           C  
-ATOM    315  H   TRP A  33       4.245  23.030  18.542  1.00  0.00           H  
-ATOM    316  HE1 TRP A  33       3.780  27.938  18.295  1.00  0.00           H  
-ATOM    317  N   VAL A  34       3.368  21.950  14.440  1.00 20.68           N  
-ATOM    318  CA  VAL A  34       3.355  20.734  13.613  1.00 18.96           C  
-ATOM    319  C   VAL A  34       4.219  20.947  12.371  1.00 20.18           C  
-ATOM    320  O   VAL A  34       4.331  22.074  11.871  1.00 18.53           O  
-ATOM    321  CB  VAL A  34       1.892  20.385  13.183  1.00 20.63           C  
-ATOM    322  CG1 VAL A  34       1.843  19.102  12.349  1.00 17.40           C  
-ATOM    323  CG2 VAL A  34       1.006  20.252  14.422  1.00 19.03           C  
-ATOM    324  H   VAL A  34       3.075  22.803  14.050  1.00  0.00           H  
-ATOM    325  N   ASN A  35       4.858  19.876  11.891  1.00 18.57           N  
-ATOM    326  CA  ASN A  35       5.684  19.962  10.692  1.00 18.84           C  
-ATOM    327  C   ASN A  35       4.771  20.026   9.459  1.00 19.27           C  
-ATOM    328  O   ASN A  35       4.149  19.040   9.101  1.00 20.41           O  
-ATOM    329  CB  ASN A  35       6.607  18.737  10.627  1.00 18.29           C  
-ATOM    330  CG  ASN A  35       7.711  18.858   9.586  1.00 19.87           C  
-ATOM    331  OD1 ASN A  35       7.497  19.373   8.481  1.00 23.76           O  
-ATOM    332  ND2 ASN A  35       8.909  18.410   9.922  1.00 17.21           N  
-ATOM    333  H   ASN A  35       4.769  19.017  12.356  1.00  0.00           H  
-ATOM    334  N   ALA A  36       4.686  21.185   8.820  1.00 18.30           N  
-ATOM    335  CA  ALA A  36       3.779  21.366   7.681  1.00 20.19           C  
-ATOM    336  C   ALA A  36       4.218  20.577   6.451  1.00 20.67           C  
-ATOM    337  O   ALA A  36       3.395  20.256   5.596  1.00 21.70           O  
-ATOM    338  CB  ALA A  36       3.662  22.854   7.326  1.00 20.68           C  
-ATOM    339  H   ALA A  36       5.227  21.939   9.126  1.00  0.00           H  
-ATOM    340  N   THR A  37       5.520  20.304   6.337  1.00 20.05           N  
-ATOM    341  CA  THR A  37       6.027  19.490   5.233  1.00 21.46           C  
-ATOM    342  C   THR A  37       5.430  18.061   5.316  1.00 23.26           C  
-ATOM    343  O   THR A  37       5.035  17.455   4.301  1.00 22.30           O  
-ATOM    344  CB  THR A  37       7.565  19.411   5.296  1.00 22.61           C  
-ATOM    345  OG1 THR A  37       8.110  20.735   5.383  1.00 21.49           O  
-ATOM    346  CG2 THR A  37       8.117  18.703   4.063  1.00 24.86           C  
-ATOM    347  H   THR A  37       6.144  20.670   6.994  1.00  0.00           H  
-ATOM    348  HG1 THR A  37       7.816  21.252   4.621  1.00  0.00           H  
-ATOM    349  N   HIS A  38       5.356  17.534   6.551  1.00 22.61           N  
-ATOM    350  CA  HIS A  38       4.747  16.236   6.788  1.00 22.32           C  
-ATOM    351  C   HIS A  38       3.266  16.262   6.404  1.00 23.66           C  
-ATOM    352  O   HIS A  38       2.720  15.268   5.928  1.00 24.58           O  
-ATOM    353  CB  HIS A  38       4.859  15.863   8.257  1.00 20.45           C  
-ATOM    354  CG  HIS A  38       6.246  15.623   8.731  1.00 20.07           C  
-ATOM    355  ND1 HIS A  38       6.563  15.505  10.070  1.00 19.75           N  
-ATOM    356  CD2 HIS A  38       7.419  15.519   8.069  1.00 20.62           C  
-ATOM    357  CE1 HIS A  38       7.858  15.336  10.243  1.00 21.58           C  
-ATOM    358  NE2 HIS A  38       8.380  15.347   9.033  1.00 21.07           N  
-ATOM    359  H   HIS A  38       5.719  18.035   7.308  1.00  0.00           H  
-ATOM    360  HD1 HIS A  38       5.914  15.546  10.794  1.00  0.00           H  
-ATOM    361  HE2 HIS A  38       9.344  15.267   8.845  1.00  0.00           H  
-ATOM    362  N   ILE A  39       2.600  17.377   6.659  1.00 22.79           N  
-ATOM    363  CA  ILE A  39       1.189  17.509   6.277  1.00 25.79           C  
-ATOM    364  C   ILE A  39       1.049  17.441   4.739  1.00 27.01           C  
-ATOM    365  O   ILE A  39       0.113  16.832   4.209  1.00 27.50           O  
-ATOM    366  CB  ILE A  39       0.593  18.857   6.784  1.00 25.78           C  
-ATOM    367  CG1 ILE A  39       0.451  18.822   8.308  1.00 25.82           C  
-ATOM    368  CG2 ILE A  39      -0.753  19.136   6.133  1.00 25.83           C  
-ATOM    369  CD1 ILE A  39      -0.033  20.127   8.900  1.00 26.05           C  
-ATOM    370  H   ILE A  39       3.050  18.121   7.112  1.00  0.00           H  
-ATOM    371  N   LEU A  40       1.986  18.075   4.038  1.00 27.04           N  
-ATOM    372  CA  LEU A  40       1.953  18.101   2.581  1.00 28.05           C  
-ATOM    373  C   LEU A  40       2.329  16.742   1.996  1.00 28.75           C  
-ATOM    374  O   LEU A  40       1.788  16.329   0.960  1.00 29.82           O  
-ATOM    375  CB  LEU A  40       2.879  19.202   2.054  1.00 27.15           C  
-ATOM    376  CG  LEU A  40       2.515  20.627   2.472  1.00 27.87           C  
-ATOM    377  CD1 LEU A  40       3.470  21.612   1.841  1.00 26.87           C  
-ATOM    378  CD2 LEU A  40       1.078  20.936   2.072  1.00 27.13           C  
-ATOM    379  H   LEU A  40       2.709  18.541   4.512  1.00  0.00           H  
-ATOM    380  N   LYS A  41       3.242  16.043   2.643  1.00 29.67           N  
-ATOM    381  CA  LYS A  41       3.570  14.693   2.203  1.00 32.88           C  
-ATOM    382  C   LYS A  41       2.353  13.772   2.380  1.00 32.92           C  
-ATOM    383  O   LYS A  41       2.113  12.887   1.562  1.00 33.65           O  
-ATOM    384  CB  LYS A  41       4.764  14.129   2.980  1.00 35.05           C  
-ATOM    385  CG  LYS A  41       6.078  14.828   2.690  1.00 40.79           C  
-ATOM    386  CD  LYS A  41       7.262  14.033   3.222  1.00 45.43           C  
-ATOM    387  CE  LYS A  41       8.571  14.734   2.889  1.00 49.42           C  
-ATOM    388  NZ  LYS A  41       9.755  13.979   3.371  1.00 52.09           N  
-ATOM    389  H   LYS A  41       3.699  16.431   3.415  1.00  0.00           H  
-ATOM    390  HZ1 LYS A  41       9.699  13.866   4.403  1.00  0.00           H  
-ATOM    391  HZ2 LYS A  41       9.776  13.041   2.920  1.00  0.00           H  
-ATOM    392  HZ3 LYS A  41      10.619  14.502   3.124  1.00  0.00           H  
-ATOM    393  N   ALA A  42       1.581  13.997   3.446  1.00 32.20           N  
-ATOM    394  CA  ALA A  42       0.382  13.209   3.702  1.00 32.15           C  
-ATOM    395  C   ALA A  42      -0.678  13.434   2.618  1.00 33.55           C  
-ATOM    396  O   ALA A  42      -1.459  12.535   2.319  1.00 33.31           O  
-ATOM    397  CB  ALA A  42      -0.179  13.540   5.083  1.00 31.12           C  
-ATOM    398  H   ALA A  42       1.831  14.705   4.078  1.00  0.00           H  
-ATOM    399  N   ALA A  43      -0.704  14.637   2.027  1.00 34.01           N  
-ATOM    400  CA  ALA A  43      -1.639  14.935   0.940  1.00 34.26           C  
-ATOM    401  C   ALA A  43      -1.164  14.317  -0.400  1.00 35.09           C  
-ATOM    402  O   ALA A  43      -1.780  14.532  -1.444  1.00 36.00           O  
-ATOM    403  CB  ALA A  43      -1.812  16.443   0.800  1.00 32.11           C  
-ATOM    404  H   ALA A  43      -0.088  15.334   2.334  1.00  0.00           H  
-ATOM    405  N   ASN A  44      -0.054  13.575  -0.350  1.00 35.94           N  
-ATOM    406  CA  ASN A  44       0.485  12.867  -1.520  1.00 37.87           C  
-ATOM    407  C   ASN A  44       1.070  13.799  -2.591  1.00 36.65           C  
-ATOM    408  O   ASN A  44       1.132  13.449  -3.777  1.00 37.27           O  
-ATOM    409  CB  ASN A  44      -0.587  11.961  -2.122  1.00 41.40           C  
-ATOM    410  CG  ASN A  44      -1.094  10.943  -1.116  1.00 46.56           C  
-ATOM    411  OD1 ASN A  44      -2.261  10.973  -0.701  1.00 49.78           O  
-ATOM    412  ND2 ASN A  44      -0.215  10.039  -0.707  1.00 48.00           N  
-ATOM    413  H   ASN A  44       0.421  13.500   0.500  1.00  0.00           H  
-ATOM    414 HD21 ASN A  44      -0.504   9.368  -0.057  1.00  0.00           H  
-ATOM    415 HD22 ASN A  44       0.693  10.076  -1.076  1.00  0.00           H  
-ATOM    416  N   PHE A  45       1.542  14.961  -2.165  1.00 33.67           N  
-ATOM    417  CA  PHE A  45       2.126  15.914  -3.079  1.00 31.23           C  
-ATOM    418  C   PHE A  45       3.596  15.632  -3.306  1.00 31.80           C  
-ATOM    419  O   PHE A  45       4.332  15.338  -2.381  1.00 32.20           O  
-ATOM    420  CB  PHE A  45       1.945  17.322  -2.540  1.00 31.12           C  
-ATOM    421  CG  PHE A  45       0.517  17.781  -2.553  1.00 33.41           C  
-ATOM    422  CD1 PHE A  45      -0.390  17.273  -3.496  1.00 32.61           C  
-ATOM    423  CD2 PHE A  45       0.076  18.765  -1.663  1.00 33.98           C  
-ATOM    424  CE1 PHE A  45      -1.696  17.732  -3.548  1.00 32.35           C  
-ATOM    425  CE2 PHE A  45      -1.239  19.230  -1.713  1.00 34.17           C  
-ATOM    426  CZ  PHE A  45      -2.122  18.716  -2.658  1.00 33.76           C  
-ATOM    427  H   PHE A  45       1.504  15.175  -1.209  1.00  0.00           H  
-ATOM    428  N   ALA A  46       4.016  15.712  -4.549  1.00 31.48           N  
-ATOM    429  CA  ALA A  46       5.402  15.509  -4.899  1.00 30.26           C  
-ATOM    430  C   ALA A  46       6.235  16.683  -4.414  1.00 30.35           C  
-ATOM    431  O   ALA A  46       5.724  17.782  -4.212  1.00 28.10           O  
-ATOM    432  CB  ALA A  46       5.546  15.368  -6.420  1.00 30.02           C  
-ATOM    433  H   ALA A  46       3.373  15.924  -5.256  1.00  0.00           H  
-ATOM    434  N   LYS A  47       7.531  16.442  -4.304  1.00 32.10           N  
-ATOM    435  CA  LYS A  47       8.483  17.418  -3.792  1.00 32.24           C  
-ATOM    436  C   LYS A  47       8.395  18.800  -4.429  1.00 30.73           C  
-ATOM    437  O   LYS A  47       8.277  19.801  -3.722  1.00 30.50           O  
-ATOM    438  CB  LYS A  47       9.899  16.853  -3.944  1.00 37.40           C  
-ATOM    439  CG  LYS A  47      10.972  17.841  -3.565  1.00 42.56           C  
-ATOM    440  CD  LYS A  47      12.341  17.207  -3.556  1.00 46.91           C  
-ATOM    441  CE  LYS A  47      13.321  18.163  -2.910  1.00 50.20           C  
-ATOM    442  NZ  LYS A  47      12.820  18.645  -1.584  1.00 52.19           N  
-ATOM    443  H   LYS A  47       7.867  15.565  -4.578  1.00  0.00           H  
-ATOM    444  HZ1 LYS A  47      12.666  17.831  -0.956  1.00  0.00           H  
-ATOM    445  HZ2 LYS A  47      13.522  19.283  -1.159  1.00  0.00           H  
-ATOM    446  HZ3 LYS A  47      11.922  19.155  -1.715  1.00  0.00           H  
-ATOM    447  N   ALA A  48       8.475  18.884  -5.757  1.00 29.18           N  
-ATOM    448  CA  ALA A  48       8.416  20.192  -6.406  1.00 27.07           C  
-ATOM    449  C   ALA A  48       7.120  20.934  -6.061  1.00 26.43           C  
-ATOM    450  O   ALA A  48       7.125  22.153  -5.856  1.00 26.30           O  
-ATOM    451  CB  ALA A  48       8.549  20.032  -7.907  1.00 27.43           C  
-ATOM    452  H   ALA A  48       8.573  18.072  -6.295  1.00  0.00           H  
-ATOM    453  N   LYS A  49       6.004  20.204  -5.990  1.00 25.81           N  
-ATOM    454  CA  LYS A  49       4.739  20.835  -5.644  1.00 25.14           C  
-ATOM    455  C   LYS A  49       4.708  21.228  -4.149  1.00 26.02           C  
-ATOM    456  O   LYS A  49       4.271  22.333  -3.807  1.00 26.28           O  
-ATOM    457  CB  LYS A  49       3.557  19.911  -5.998  1.00 23.26           C  
-ATOM    458  CG  LYS A  49       2.204  20.550  -5.749  1.00 21.88           C  
-ATOM    459  CD  LYS A  49       1.068  19.673  -6.205  1.00 21.75           C  
-ATOM    460  CE  LYS A  49      -0.261  20.341  -5.886  1.00 23.25           C  
-ATOM    461  NZ  LYS A  49      -1.431  19.580  -6.417  1.00 25.36           N  
-ATOM    462  H   LYS A  49       6.035  19.244  -6.171  1.00  0.00           H  
-ATOM    463  HZ1 LYS A  49      -1.317  19.440  -7.442  1.00  0.00           H  
-ATOM    464  HZ2 LYS A  49      -1.486  18.656  -5.945  1.00  0.00           H  
-ATOM    465  HZ3 LYS A  49      -2.302  20.115  -6.235  1.00  0.00           H  
-ATOM    466  N   ARG A  50       5.175  20.346  -3.257  1.00 26.65           N  
-ATOM    467  CA  ARG A  50       5.214  20.698  -1.829  1.00 28.25           C  
-ATOM    468  C   ARG A  50       6.004  21.993  -1.639  1.00 29.71           C  
-ATOM    469  O   ARG A  50       5.571  22.889  -0.911  1.00 29.79           O  
-ATOM    470  CB  ARG A  50       5.861  19.596  -0.974  1.00 28.86           C  
-ATOM    471  CG  ARG A  50       5.095  18.281  -0.903  1.00 29.69           C  
-ATOM    472  CD  ARG A  50       5.631  17.384   0.212  1.00 31.10           C  
-ATOM    473  NE  ARG A  50       7.081  17.183   0.132  1.00 33.71           N  
-ATOM    474  CZ  ARG A  50       7.649  16.086  -0.374  1.00 32.93           C  
-ATOM    475  NH1 ARG A  50       6.913  15.086  -0.812  1.00 33.08           N  
-ATOM    476  NH2 ARG A  50       8.962  15.997  -0.433  1.00 34.05           N  
-ATOM    477  H   ARG A  50       5.491  19.468  -3.555  1.00  0.00           H  
-ATOM    478  HE  ARG A  50       7.666  17.894   0.470  1.00  0.00           H  
-ATOM    479 HH11 ARG A  50       5.915  15.141  -0.768  1.00  0.00           H  
-ATOM    480 HH12 ARG A  50       7.351  14.268  -1.183  1.00  0.00           H  
-ATOM    481 HH21 ARG A  50       9.530  16.754  -0.109  1.00  0.00           H  
-ATOM    482 HH22 ARG A  50       9.390  15.182  -0.821  1.00  0.00           H  
-ATOM    483  N   THR A  51       7.156  22.103  -2.293  1.00 30.60           N  
-ATOM    484  CA  THR A  51       7.940  23.328  -2.202  1.00 34.13           C  
-ATOM    485  C   THR A  51       7.126  24.546  -2.664  1.00 36.23           C  
-ATOM    486  O   THR A  51       7.116  25.572  -1.989  1.00 37.79           O  
-ATOM    487  CB  THR A  51       9.229  23.248  -3.045  1.00 34.90           C  
-ATOM    488  OG1 THR A  51      10.012  22.129  -2.618  1.00 37.41           O  
-ATOM    489  CG2 THR A  51      10.053  24.516  -2.883  1.00 34.97           C  
-ATOM    490  H   THR A  51       7.478  21.356  -2.840  1.00  0.00           H  
-ATOM    491  HG1 THR A  51      10.112  22.153  -1.662  1.00  0.00           H  
-ATOM    492  N   ARG A  52       6.437  24.426  -3.808  1.00 36.91           N  
-ATOM    493  CA  ARG A  52       5.643  25.532  -4.334  1.00 37.18           C  
-ATOM    494  C   ARG A  52       4.606  25.971  -3.336  1.00 36.76           C  
-ATOM    495  O   ARG A  52       4.440  27.160  -3.082  1.00 36.25           O  
-ATOM    496  CB  ARG A  52       4.936  25.144  -5.645  1.00 40.06           C  
-ATOM    497  CG  ARG A  52       5.789  25.346  -6.882  1.00 46.55           C  
-ATOM    498  CD  ARG A  52       5.012  25.112  -8.177  1.00 50.64           C  
-ATOM    499  NE  ARG A  52       4.800  23.686  -8.469  1.00 54.17           N  
-ATOM    500  CZ  ARG A  52       3.586  23.152  -8.595  1.00 55.29           C  
-ATOM    501  NH1 ARG A  52       2.510  23.914  -8.453  1.00 55.77           N  
-ATOM    502  NH2 ARG A  52       3.448  21.863  -8.859  1.00 54.72           N  
-ATOM    503  H   ARG A  52       6.465  23.577  -4.298  1.00  0.00           H  
-ATOM    504  HE  ARG A  52       5.582  23.107  -8.573  1.00  0.00           H  
-ATOM    505 HH11 ARG A  52       2.609  24.886  -8.243  1.00  0.00           H  
-ATOM    506 HH12 ARG A  52       1.601  23.516  -8.532  1.00  0.00           H  
-ATOM    507 HH21 ARG A  52       4.256  21.283  -8.962  1.00  0.00           H  
-ATOM    508 HH22 ARG A  52       2.534  21.466  -8.949  1.00  0.00           H  
-ATOM    509  N   ILE A  53       3.911  25.007  -2.763  1.00 35.47           N  
-ATOM    510  CA  ILE A  53       2.880  25.315  -1.797  1.00 34.72           C  
-ATOM    511  C   ILE A  53       3.469  25.944  -0.519  1.00 36.40           C  
-ATOM    512  O   ILE A  53       2.917  26.915   0.007  1.00 35.83           O  
-ATOM    513  CB  ILE A  53       2.060  24.063  -1.457  1.00 32.23           C  
-ATOM    514  CG1 ILE A  53       1.312  23.604  -2.722  1.00 29.11           C  
-ATOM    515  CG2 ILE A  53       1.091  24.371  -0.326  1.00 31.92           C  
-ATOM    516  CD1 ILE A  53       0.519  22.328  -2.562  1.00 26.86           C  
-ATOM    517  H   ILE A  53       4.101  24.073  -2.991  1.00  0.00           H  
-ATOM    518  N   LEU A  54       4.593  25.421  -0.035  1.00 37.08           N  
-ATOM    519  CA  LEU A  54       5.218  26.007   1.135  1.00 40.29           C  
-ATOM    520  C   LEU A  54       5.580  27.455   0.843  1.00 44.75           C  
-ATOM    521  O   LEU A  54       5.191  28.352   1.593  1.00 46.69           O  
-ATOM    522  CB  LEU A  54       6.455  25.213   1.570  1.00 36.32           C  
-ATOM    523  CG  LEU A  54       6.184  23.848   2.250  1.00 35.63           C  
-ATOM    524  CD1 LEU A  54       7.482  23.082   2.415  1.00 35.47           C  
-ATOM    525  CD2 LEU A  54       5.495  24.031   3.599  1.00 32.30           C  
-ATOM    526  H   LEU A  54       4.995  24.636  -0.465  1.00  0.00           H  
-ATOM    527  N   GLU A  55       6.255  27.694  -0.278  1.00 48.95           N  
-ATOM    528  CA  GLU A  55       6.653  29.057  -0.641  1.00 53.87           C  
-ATOM    529  C   GLU A  55       5.475  30.011  -0.879  1.00 55.01           C  
-ATOM    530  O   GLU A  55       5.632  31.220  -0.716  1.00 56.05           O  
-ATOM    531  CB  GLU A  55       7.559  29.061  -1.867  1.00 56.02           C  
-ATOM    532  CG  GLU A  55       8.998  28.661  -1.574  1.00 61.71           C  
-ATOM    533  CD  GLU A  55       9.913  28.817  -2.782  1.00 65.77           C  
-ATOM    534  OE1 GLU A  55       9.578  29.620  -3.692  1.00 67.68           O  
-ATOM    535  OE2 GLU A  55      10.972  28.141  -2.825  1.00 67.99           O  
-ATOM    536  H   GLU A  55       6.487  26.949  -0.871  1.00  0.00           H  
-ATOM    537  N   LYS A  56       4.300  29.504  -1.233  1.00 56.16           N  
-ATOM    538  CA  LYS A  56       3.190  30.407  -1.512  1.00 57.49           C  
-ATOM    539  C   LYS A  56       2.177  30.484  -0.374  1.00 57.70           C  
-ATOM    540  O   LYS A  56       1.709  31.565  -0.027  1.00 58.88           O  
-ATOM    541  CB  LYS A  56       2.462  30.010  -2.805  1.00 59.37           C  
-ATOM    542  CG  LYS A  56       3.353  29.694  -4.000  1.00 60.92           C  
-ATOM    543  CD  LYS A  56       4.379  30.776  -4.270  1.00 62.11           C  
-ATOM    544  CE  LYS A  56       5.349  30.325  -5.346  1.00 62.44           C  
-ATOM    545  NZ  LYS A  56       6.619  31.101  -5.312  1.00 63.21           N  
-ATOM    546  H   LYS A  56       4.182  28.533  -1.316  1.00  0.00           H  
-ATOM    547  HZ1 LYS A  56       6.413  32.110  -5.451  1.00  0.00           H  
-ATOM    548  HZ2 LYS A  56       7.083  30.968  -4.390  1.00  0.00           H  
-ATOM    549  HZ3 LYS A  56       7.249  30.768  -6.070  1.00  0.00           H  
-ATOM    550  N   GLU A  57       1.827  29.347   0.196  1.00 57.07           N  
-ATOM    551  CA  GLU A  57       0.797  29.311   1.235  1.00 56.65           C  
-ATOM    552  C   GLU A  57       1.332  29.368   2.684  1.00 54.52           C  
-ATOM    553  O   GLU A  57       0.620  29.824   3.598  1.00 54.61           O  
-ATOM    554  CB  GLU A  57      -0.062  28.043   1.078  1.00 59.13           C  
-ATOM    555  CG  GLU A  57      -1.132  28.102  -0.004  1.00 63.67           C  
-ATOM    556  CD  GLU A  57      -0.571  28.357  -1.387  1.00 67.30           C  
-ATOM    557  OE1 GLU A  57      -0.072  27.402  -2.017  1.00 69.12           O  
-ATOM    558  OE2 GLU A  57      -0.632  29.519  -1.849  1.00 70.26           O  
-ATOM    559  H   GLU A  57       2.257  28.521  -0.082  1.00  0.00           H  
-ATOM    560  N   VAL A  58       2.570  28.937   2.917  1.00 49.63           N  
-ATOM    561  CA  VAL A  58       3.017  28.786   4.292  1.00 44.43           C  
-ATOM    562  C   VAL A  58       4.100  29.778   4.744  1.00 42.78           C  
-ATOM    563  O   VAL A  58       4.065  30.242   5.888  1.00 40.70           O  
-ATOM    564  CB  VAL A  58       3.470  27.322   4.534  1.00 43.06           C  
-ATOM    565  CG1 VAL A  58       3.795  27.092   5.998  1.00 40.87           C  
-ATOM    566  CG2 VAL A  58       2.370  26.369   4.086  1.00 40.46           C  
-ATOM    567  H   VAL A  58       3.172  28.726   2.171  1.00  0.00           H  
-ATOM    568  N   LEU A  59       5.045  30.125   3.873  1.00 39.75           N  
-ATOM    569  CA  LEU A  59       6.126  31.020   4.281  1.00 38.99           C  
-ATOM    570  C   LEU A  59       5.649  32.438   4.643  1.00 38.81           C  
-ATOM    571  O   LEU A  59       6.371  33.182   5.311  1.00 38.40           O  
-ATOM    572  CB  LEU A  59       7.220  31.083   3.218  1.00 40.26           C  
-ATOM    573  CG  LEU A  59       8.011  29.793   2.935  1.00 42.18           C  
-ATOM    574  CD1 LEU A  59       9.048  30.068   1.854  1.00 43.46           C  
-ATOM    575  CD2 LEU A  59       8.705  29.285   4.187  1.00 40.89           C  
-ATOM    576  H   LEU A  59       5.019  29.775   2.957  1.00  0.00           H  
-ATOM    577  N   LYS A  60       4.442  32.824   4.220  1.00 37.98           N  
-ATOM    578  CA  LYS A  60       3.900  34.140   4.604  1.00 38.59           C  
-ATOM    579  C   LYS A  60       3.195  34.061   5.973  1.00 36.39           C  
-ATOM    580  O   LYS A  60       2.649  35.028   6.474  1.00 35.79           O  
-ATOM    581  CB  LYS A  60       2.940  34.673   3.522  1.00 41.34           C  
-ATOM    582  CG  LYS A  60       1.766  33.760   3.171  1.00 47.49           C  
-ATOM    583  CD  LYS A  60       0.876  34.407   2.102  1.00 50.85           C  
-ATOM    584  CE  LYS A  60      -0.508  33.757   2.010  1.00 53.27           C  
-ATOM    585  NZ  LYS A  60      -0.459  32.368   1.466  1.00 54.66           N  
-ATOM    586  H   LYS A  60       3.915  32.232   3.649  1.00  0.00           H  
-ATOM    587  HZ1 LYS A  60       0.153  31.784   2.070  1.00  0.00           H  
-ATOM    588  HZ2 LYS A  60      -1.418  31.967   1.451  1.00  0.00           H  
-ATOM    589  HZ3 LYS A  60      -0.076  32.388   0.500  1.00  0.00           H  
-ATOM    590  N   GLU A  61       3.241  32.884   6.559  1.00 35.74           N  
-ATOM    591  CA  GLU A  61       2.635  32.606   7.849  1.00 34.60           C  
-ATOM    592  C   GLU A  61       3.719  32.560   8.935  1.00 30.62           C  
-ATOM    593  O   GLU A  61       4.924  32.542   8.646  1.00 28.48           O  
-ATOM    594  CB  GLU A  61       1.990  31.214   7.782  1.00 39.66           C  
-ATOM    595  CG  GLU A  61       0.636  31.096   8.418  1.00 45.92           C  
-ATOM    596  CD  GLU A  61      -0.377  31.877   7.639  1.00 48.95           C  
-ATOM    597  OE1 GLU A  61      -0.692  31.467   6.495  1.00 51.19           O  
-ATOM    598  OE2 GLU A  61      -0.850  32.904   8.161  1.00 51.71           O  
-ATOM    599  H   GLU A  61       3.711  32.155   6.108  1.00  0.00           H  
-ATOM    600  N   THR A  62       3.293  32.544  10.171  1.00 27.25           N  
-ATOM    601  CA  THR A  62       4.222  32.307  11.253  1.00 25.63           C  
-ATOM    602  C   THR A  62       4.784  30.874  11.059  1.00 24.77           C  
-ATOM    603  O   THR A  62       4.029  29.932  10.840  1.00 25.37           O  
-ATOM    604  CB  THR A  62       3.489  32.435  12.612  1.00 24.97           C  
-ATOM    605  OG1 THR A  62       3.032  33.783  12.735  1.00 26.20           O  
-ATOM    606  CG2 THR A  62       4.398  32.117  13.789  1.00 21.20           C  
-ATOM    607  H   THR A  62       2.346  32.689  10.363  1.00  0.00           H  
-ATOM    608  HG1 THR A  62       2.683  34.075  11.886  1.00  0.00           H  
-ATOM    609  N   HIS A  63       6.090  30.727  11.103  1.00 22.46           N  
-ATOM    610  CA  HIS A  63       6.689  29.428  10.867  1.00 21.88           C  
-ATOM    611  C   HIS A  63       8.151  29.435  11.272  1.00 22.48           C  
-ATOM    612  O   HIS A  63       8.745  30.495  11.513  1.00 21.68           O  
-ATOM    613  CB  HIS A  63       6.608  29.071   9.366  1.00 20.21           C  
-ATOM    614  CG  HIS A  63       7.519  29.918   8.512  1.00 20.30           C  
-ATOM    615  ND1 HIS A  63       7.125  31.124   7.953  1.00 21.50           N  
-ATOM    616  CD2 HIS A  63       8.845  29.800   8.198  1.00 20.65           C  
-ATOM    617  CE1 HIS A  63       8.126  31.727   7.333  1.00 20.90           C  
-ATOM    618  NE2 HIS A  63       9.169  30.942   7.478  1.00 21.55           N  
-ATOM    619  H   HIS A  63       6.663  31.500  11.309  1.00  0.00           H  
-ATOM    620  HD1 HIS A  63       6.209  31.477   7.991  1.00  0.00           H  
-ATOM    621  HE2 HIS A  63      10.052  31.147   7.133  1.00  0.00           H  
-ATOM    622  N   GLU A  64       8.738  28.251  11.238  1.00 22.95           N  
-ATOM    623  CA  GLU A  64      10.138  28.055  11.535  1.00 23.61           C  
-ATOM    624  C   GLU A  64      10.697  27.100  10.460  1.00 24.98           C  
-ATOM    625  O   GLU A  64      10.132  26.021  10.254  1.00 24.19           O  
-ATOM    626  CB  GLU A  64      10.199  27.431  12.901  1.00 25.13           C  
-ATOM    627  CG  GLU A  64      11.558  27.257  13.499  1.00 33.54           C  
-ATOM    628  CD  GLU A  64      11.474  26.481  14.804  1.00 36.59           C  
-ATOM    629  OE1 GLU A  64      10.501  26.685  15.558  1.00 36.12           O  
-ATOM    630  OE2 GLU A  64      12.376  25.665  15.070  1.00 41.18           O  
-ATOM    631  H   GLU A  64       8.200  27.468  10.997  1.00  0.00           H  
-ATOM    632  N   LYS A  65      11.739  27.531   9.737  1.00 24.36           N  
-ATOM    633  CA  LYS A  65      12.353  26.718   8.693  1.00 28.24           C  
-ATOM    634  C   LYS A  65      13.510  25.954   9.251  1.00 28.33           C  
-ATOM    635  O   LYS A  65      14.585  26.503   9.412  1.00 28.08           O  
-ATOM    636  CB  LYS A  65      12.896  27.587   7.556  1.00 31.73           C  
-ATOM    637  CG  LYS A  65      12.049  27.649   6.299  1.00 36.91           C  
-ATOM    638  CD  LYS A  65      12.165  29.023   5.643  1.00 40.14           C  
-ATOM    639  CE  LYS A  65      11.933  30.111   6.681  1.00 39.32           C  
-ATOM    640  NZ  LYS A  65      11.630  31.435   6.088  1.00 36.54           N  
-ATOM    641  H   LYS A  65      12.110  28.420   9.924  1.00  0.00           H  
-ATOM    642  HZ1 LYS A  65      12.425  31.734   5.487  1.00  0.00           H  
-ATOM    643  HZ2 LYS A  65      10.766  31.367   5.511  1.00  0.00           H  
-ATOM    644  HZ3 LYS A  65      11.487  32.131   6.847  1.00  0.00           H  
-ATOM    645  N   VAL A  66      13.291  24.696   9.552  1.00 31.01           N  
-ATOM    646  CA  VAL A  66      14.358  23.851  10.050  1.00 34.94           C  
-ATOM    647  C   VAL A  66      14.962  23.049   8.896  1.00 39.67           C  
-ATOM    648  O   VAL A  66      14.428  22.006   8.483  1.00 37.52           O  
-ATOM    649  CB  VAL A  66      13.862  22.887  11.168  1.00 34.61           C  
-ATOM    650  CG1 VAL A  66      14.973  21.935  11.594  1.00 33.81           C  
-ATOM    651  CG2 VAL A  66      13.401  23.687  12.375  1.00 34.49           C  
-ATOM    652  H   VAL A  66      12.388  24.323   9.443  1.00  0.00           H  
-ATOM    653  N   GLN A  67      16.040  23.586   8.332  1.00 46.01           N  
-ATOM    654  CA  GLN A  67      16.763  22.891   7.275  1.00 53.84           C  
-ATOM    655  C   GLN A  67      18.179  22.570   7.732  1.00 58.95           C  
-ATOM    656  O   GLN A  67      19.013  22.109   6.948  1.00 60.26           O  
-ATOM    657  CB  GLN A  67      16.784  23.703   5.985  1.00 53.89           C  
-ATOM    658  CG  GLN A  67      15.426  23.779   5.294  1.00 59.07           C  
-ATOM    659  CD  GLN A  67      14.657  22.452   5.300  1.00 60.32           C  
-ATOM    660  OE1 GLN A  67      15.031  21.480   4.629  1.00 62.98           O  
-ATOM    661  NE2 GLN A  67      13.571  22.404   6.053  1.00 59.66           N  
-ATOM    662  H   GLN A  67      16.348  24.470   8.627  1.00  0.00           H  
-ATOM    663 HE21 GLN A  67      13.049  21.578   6.062  1.00  0.00           H  
-ATOM    664 HE22 GLN A  67      13.328  23.200   6.571  1.00  0.00           H  
-ATOM    665  N   GLY A  68      18.428  22.811   9.025  1.00 63.66           N  
-ATOM    666  CA  GLY A  68      19.718  22.513   9.608  1.00 67.82           C  
-ATOM    667  C   GLY A  68      19.631  21.327  10.546  1.00 70.65           C  
-ATOM    668  O   GLY A  68      20.590  20.563  10.690  1.00 72.02           O  
-ATOM    669  H   GLY A  68      17.727  23.193   9.587  1.00  0.00           H  
-ATOM    670  N   GLY A  69      18.484  21.187  11.208  1.00 72.32           N  
-ATOM    671  CA  GLY A  69      18.274  20.048  12.083  1.00 73.41           C  
-ATOM    672  C   GLY A  69      18.041  18.789  11.270  1.00 73.97           C  
-ATOM    673  O   GLY A  69      16.899  18.441  10.969  1.00 75.24           O  
-ATOM    674  H   GLY A  69      17.778  21.853  11.102  1.00  0.00           H  
-ATOM    675  N   PHE A  70      19.137  18.135  10.900  1.00 73.39           N  
-ATOM    676  CA  PHE A  70      19.106  16.920  10.080  1.00 72.45           C  
-ATOM    677  C   PHE A  70      18.165  15.833  10.606  1.00 69.47           C  
-ATOM    678  O   PHE A  70      18.036  15.622  11.819  1.00 69.28           O  
-ATOM    679  CB  PHE A  70      20.534  16.352   9.963  1.00 77.03           C  
-ATOM    680  CG  PHE A  70      20.600  14.896   9.586  1.00 79.94           C  
-ATOM    681  CD1 PHE A  70      20.367  14.492   8.269  1.00 81.63           C  
-ATOM    682  CD2 PHE A  70      20.858  13.920  10.561  1.00 80.76           C  
-ATOM    683  CE1 PHE A  70      20.384  13.141   7.933  1.00 82.97           C  
-ATOM    684  CE2 PHE A  70      20.875  12.571  10.232  1.00 81.33           C  
-ATOM    685  CZ  PHE A  70      20.638  12.181   8.917  1.00 82.90           C  
-ATOM    686  H   PHE A  70      20.007  18.487  11.182  1.00  0.00           H  
-ATOM    687  N   GLY A  71      17.534  15.127   9.666  1.00 65.37           N  
-ATOM    688  CA  GLY A  71      16.681  14.014  10.024  1.00 60.61           C  
-ATOM    689  C   GLY A  71      15.251  14.174   9.548  1.00 56.43           C  
-ATOM    690  O   GLY A  71      14.949  15.071   8.766  1.00 56.11           O  
-ATOM    691  H   GLY A  71      17.632  15.378   8.724  1.00  0.00           H  
-ATOM    692  N   LYS A  72      14.367  13.295  10.036  1.00 51.93           N  
-ATOM    693  CA  LYS A  72      12.939  13.359   9.704  1.00 47.12           C  
-ATOM    694  C   LYS A  72      12.312  14.620  10.322  1.00 42.99           C  
-ATOM    695  O   LYS A  72      11.172  14.976  10.019  1.00 41.22           O  
-ATOM    696  CB  LYS A  72      12.214  12.127  10.263  1.00 47.52           C  
-ATOM    697  CG  LYS A  72      12.828  10.789   9.890  1.00 47.51           C  
-ATOM    698  CD  LYS A  72      13.208   9.975  11.122  1.00 45.89           C  
-ATOM    699  CE  LYS A  72      12.024   9.749  12.053  1.00 45.99           C  
-ATOM    700  NZ  LYS A  72      10.946   8.941  11.439  1.00 43.61           N  
-ATOM    701  H   LYS A  72      14.682  12.587  10.635  1.00  0.00           H  
-ATOM    702  HZ1 LYS A  72      10.620   9.405  10.566  1.00  0.00           H  
-ATOM    703  HZ2 LYS A  72      11.311   7.995  11.214  1.00  0.00           H  
-ATOM    704  HZ3 LYS A  72      10.153   8.856  12.105  1.00  0.00           H  
-ATOM    705  N   TYR A  73      13.084  15.252  11.211  1.00 38.82           N  
-ATOM    706  CA  TYR A  73      12.666  16.439  11.926  1.00 35.13           C  
-ATOM    707  C   TYR A  73      12.654  17.679  11.023  1.00 33.18           C  
-ATOM    708  O   TYR A  73      11.879  18.607  11.253  1.00 30.17           O  
-ATOM    709  CB  TYR A  73      13.600  16.649  13.125  1.00 32.68           C  
-ATOM    710  CG  TYR A  73      13.198  17.796  14.018  1.00 32.41           C  
-ATOM    711  CD1 TYR A  73      12.116  17.691  14.884  1.00 31.25           C  
-ATOM    712  CD2 TYR A  73      13.835  19.025  13.921  1.00 32.40           C  
-ATOM    713  CE1 TYR A  73      11.679  18.785  15.613  1.00 30.72           C  
-ATOM    714  CE2 TYR A  73      13.400  20.120  14.644  1.00 32.39           C  
-ATOM    715  CZ  TYR A  73      12.317  19.993  15.478  1.00 30.86           C  
-ATOM    716  OH  TYR A  73      11.840  21.094  16.130  1.00 32.23           O  
-ATOM    717  H   TYR A  73      13.974  14.893  11.393  1.00  0.00           H  
-ATOM    718  HH  TYR A  73      12.352  21.867  15.869  1.00  0.00           H  
-ATOM    719  N   GLN A  74      13.525  17.690  10.013  1.00 31.23           N  
-ATOM    720  CA  GLN A  74      13.605  18.814   9.066  1.00 29.72           C  
-ATOM    721  C   GLN A  74      12.254  19.162   8.468  1.00 26.23           C  
-ATOM    722  O   GLN A  74      11.409  18.291   8.229  1.00 24.41           O  
-ATOM    723  CB  GLN A  74      14.535  18.475   7.902  1.00 33.74           C  
-ATOM    724  CG  GLN A  74      16.010  18.494   8.213  1.00 41.63           C  
-ATOM    725  CD  GLN A  74      16.825  17.988   7.039  1.00 47.74           C  
-ATOM    726  OE1 GLN A  74      17.535  16.971   7.143  1.00 52.12           O  
-ATOM    727  NE2 GLN A  74      16.728  18.678   5.908  1.00 49.67           N  
-ATOM    728  H   GLN A  74      14.129  16.927   9.898  1.00  0.00           H  
-ATOM    729 HE21 GLN A  74      17.240  18.365   5.133  1.00  0.00           H  
-ATOM    730 HE22 GLN A  74      16.152  19.471   5.887  1.00  0.00           H  
-ATOM    731  N   GLY A  75      12.066  20.432   8.182  1.00 24.61           N  
-ATOM    732  CA  GLY A  75      10.849  20.850   7.522  1.00 22.59           C  
-ATOM    733  C   GLY A  75      10.439  22.235   7.929  1.00 22.00           C  
-ATOM    734  O   GLY A  75      11.189  22.944   8.595  1.00 20.96           O  
-ATOM    735  H   GLY A  75      12.741  21.096   8.433  1.00  0.00           H  
-ATOM    736  N   THR A  76       9.267  22.641   7.507  1.00 22.18           N  
-ATOM    737  CA  THR A  76       8.739  23.926   7.925  1.00 23.13           C  
-ATOM    738  C   THR A  76       7.705  23.707   9.012  1.00 21.22           C  
-ATOM    739  O   THR A  76       6.677  23.047   8.785  1.00 20.41           O  
-ATOM    740  CB  THR A  76       8.129  24.677   6.750  1.00 22.98           C  
-ATOM    741  OG1 THR A  76       9.172  24.951   5.823  1.00 23.34           O  
-ATOM    742  CG2 THR A  76       7.529  25.993   7.203  1.00 22.12           C  
-ATOM    743  H   THR A  76       8.743  22.073   6.908  1.00  0.00           H  
-ATOM    744  HG1 THR A  76       9.671  24.146   5.648  1.00  0.00           H  
-ATOM    745  N   TRP A  77       8.007  24.190  10.198  1.00 18.01           N  
-ATOM    746  CA  TRP A  77       7.115  24.000  11.334  1.00 19.61           C  
-ATOM    747  C   TRP A  77       6.172  25.179  11.495  1.00 20.15           C  
-ATOM    748  O   TRP A  77       6.569  26.324  11.307  1.00 21.17           O  
-ATOM    749  CB  TRP A  77       7.954  23.797  12.587  1.00 18.45           C  
-ATOM    750  CG  TRP A  77       8.738  22.517  12.563  1.00 16.73           C  
-ATOM    751  CD1 TRP A  77       9.924  22.262  11.889  1.00 19.52           C  
-ATOM    752  CD2 TRP A  77       8.383  21.314  13.246  1.00 16.18           C  
-ATOM    753  NE1 TRP A  77      10.287  20.964  12.134  1.00 18.03           N  
-ATOM    754  CE2 TRP A  77       9.378  20.351  12.952  1.00 18.24           C  
-ATOM    755  CE3 TRP A  77       7.303  20.950  14.076  1.00 15.09           C  
-ATOM    756  CZ2 TRP A  77       9.333  19.052  13.464  1.00 17.80           C  
-ATOM    757  CZ3 TRP A  77       7.263  19.657  14.586  1.00 16.17           C  
-ATOM    758  CH2 TRP A  77       8.271  18.728  14.275  1.00 16.88           C  
-ATOM    759  H   TRP A  77       8.844  24.682  10.320  1.00  0.00           H  
-ATOM    760  HE1 TRP A  77      11.083  20.525  11.763  1.00  0.00           H  
-ATOM    761  N   VAL A  78       4.940  24.916  11.848  1.00 19.79           N  
-ATOM    762  CA  VAL A  78       3.960  25.992  11.977  1.00 21.20           C  
-ATOM    763  C   VAL A  78       3.102  25.800  13.232  1.00 22.23           C  
-ATOM    764  O   VAL A  78       3.039  24.692  13.785  1.00 20.52           O  
-ATOM    765  CB  VAL A  78       3.014  26.045  10.738  1.00 20.50           C  
-ATOM    766  CG1 VAL A  78       3.805  26.352   9.464  1.00 19.09           C  
-ATOM    767  CG2 VAL A  78       2.264  24.722  10.594  1.00 19.19           C  
-ATOM    768  H   VAL A  78       4.670  23.993  12.035  1.00  0.00           H  
-ATOM    769  N   PRO A  79       2.461  26.879  13.729  1.00 22.62           N  
-ATOM    770  CA  PRO A  79       1.579  26.796  14.902  1.00 23.25           C  
-ATOM    771  C   PRO A  79       0.479  25.793  14.613  1.00 23.88           C  
-ATOM    772  O   PRO A  79       0.126  25.577  13.452  1.00 22.74           O  
-ATOM    773  CB  PRO A  79       1.009  28.217  15.030  1.00 22.80           C  
-ATOM    774  CG  PRO A  79       2.089  29.063  14.441  1.00 23.48           C  
-ATOM    775  CD  PRO A  79       2.583  28.279  13.243  1.00 21.77           C  
-ATOM    776  N   LEU A  80      -0.081  25.221  15.664  1.00 25.83           N  
-ATOM    777  CA  LEU A  80      -1.142  24.222  15.543  1.00 26.16           C  
-ATOM    778  C   LEU A  80      -2.338  24.712  14.733  1.00 28.51           C  
-ATOM    779  O   LEU A  80      -2.846  23.991  13.849  1.00 27.56           O  
-ATOM    780  CB  LEU A  80      -1.606  23.815  16.940  1.00 25.96           C  
-ATOM    781  CG  LEU A  80      -2.660  22.728  17.020  1.00 26.73           C  
-ATOM    782  CD1 LEU A  80      -2.142  21.452  16.363  1.00 25.64           C  
-ATOM    783  CD2 LEU A  80      -3.028  22.488  18.480  1.00 29.49           C  
-ATOM    784  H   LEU A  80       0.229  25.469  16.557  1.00  0.00           H  
-ATOM    785  N   ASN A  81      -2.811  25.922  15.016  1.00 30.41           N  
-ATOM    786  CA  ASN A  81      -3.989  26.411  14.305  1.00 33.34           C  
-ATOM    787  C   ASN A  81      -3.726  26.541  12.797  1.00 33.24           C  
-ATOM    788  O   ASN A  81      -4.593  26.200  11.979  1.00 32.55           O  
-ATOM    789  CB  ASN A  81      -4.522  27.720  14.912  1.00 36.72           C  
-ATOM    790  CG  ASN A  81      -3.615  28.898  14.707  1.00 41.39           C  
-ATOM    791  OD1 ASN A  81      -2.520  28.954  15.254  1.00 45.06           O  
-ATOM    792  ND2 ASN A  81      -4.064  29.855  13.912  1.00 44.46           N  
-ATOM    793  H   ASN A  81      -2.379  26.474  15.701  1.00  0.00           H  
-ATOM    794 HD21 ASN A  81      -3.494  30.640  13.765  1.00  0.00           H  
-ATOM    795 HD22 ASN A  81      -4.947  29.746  13.504  1.00  0.00           H  
-ATOM    796  N   ILE A  82      -2.509  26.970  12.436  1.00 33.12           N  
-ATOM    797  CA  ILE A  82      -2.133  27.108  11.022  1.00 33.42           C  
-ATOM    798  C   ILE A  82      -1.996  25.751  10.338  1.00 33.66           C  
-ATOM    799  O   ILE A  82      -2.344  25.611   9.172  1.00 33.06           O  
-ATOM    800  CB  ILE A  82      -0.820  27.882  10.878  1.00 34.68           C  
-ATOM    801  CG1 ILE A  82      -1.027  29.318  11.381  1.00 35.90           C  
-ATOM    802  CG2 ILE A  82      -0.364  27.862   9.424  1.00 32.30           C  
-ATOM    803  CD1 ILE A  82       0.246  30.062  11.708  1.00 36.35           C  
-ATOM    804  H   ILE A  82      -1.856  27.193  13.129  1.00  0.00           H  
-ATOM    805  N   ALA A  83      -1.487  24.751  11.078  1.00 33.47           N  
-ATOM    806  CA  ALA A  83      -1.385  23.383  10.547  1.00 32.68           C  
-ATOM    807  C   ALA A  83      -2.796  22.798  10.314  1.00 32.07           C  
-ATOM    808  O   ALA A  83      -3.034  22.097   9.335  1.00 30.79           O  
-ATOM    809  CB  ALA A  83      -0.586  22.496  11.509  1.00 31.27           C  
-ATOM    810  H   ALA A  83      -1.184  24.937  11.992  1.00  0.00           H  
-ATOM    811  N   LYS A  84      -3.729  23.093  11.215  1.00 33.43           N  
-ATOM    812  CA  LYS A  84      -5.093  22.639  11.041  1.00 35.11           C  
-ATOM    813  C   LYS A  84      -5.693  23.212   9.756  1.00 36.73           C  
-ATOM    814  O   LYS A  84      -6.318  22.491   8.974  1.00 36.83           O  
-ATOM    815  CB  LYS A  84      -5.948  23.050  12.228  1.00 37.36           C  
-ATOM    816  CG  LYS A  84      -5.607  22.354  13.530  1.00 40.04           C  
-ATOM    817  CD  LYS A  84      -6.871  22.073  14.319  1.00 42.74           C  
-ATOM    818  CE  LYS A  84      -6.559  21.578  15.716  1.00 45.28           C  
-ATOM    819  NZ  LYS A  84      -6.384  22.711  16.664  1.00 49.86           N  
-ATOM    820  H   LYS A  84      -3.489  23.619  12.006  1.00  0.00           H  
-ATOM    821  HZ1 LYS A  84      -5.641  23.348  16.311  1.00  0.00           H  
-ATOM    822  HZ2 LYS A  84      -7.280  23.233  16.744  1.00  0.00           H  
-ATOM    823  HZ3 LYS A  84      -6.113  22.344  17.598  1.00  0.00           H  
-ATOM    824  N   GLN A  85      -5.504  24.510   9.535  1.00 37.40           N  
-ATOM    825  CA  GLN A  85      -5.981  25.141   8.298  1.00 38.47           C  
-ATOM    826  C   GLN A  85      -5.414  24.411   7.065  1.00 37.19           C  
-ATOM    827  O   GLN A  85      -6.144  24.015   6.168  1.00 36.76           O  
-ATOM    828  CB  GLN A  85      -5.550  26.617   8.243  1.00 41.65           C  
-ATOM    829  CG  GLN A  85      -6.176  27.513   9.302  1.00 47.67           C  
-ATOM    830  CD  GLN A  85      -5.653  28.953   9.274  1.00 52.44           C  
-ATOM    831  OE1 GLN A  85      -4.985  29.379   8.321  1.00 53.70           O  
-ATOM    832  NE2 GLN A  85      -5.956  29.710  10.327  1.00 54.30           N  
-ATOM    833  H   GLN A  85      -5.029  25.050  10.201  1.00  0.00           H  
-ATOM    834 HE21 GLN A  85      -5.645  30.638  10.336  1.00  0.00           H  
-ATOM    835 HE22 GLN A  85      -6.483  29.308  11.051  1.00  0.00           H  
-ATOM    836  N   LEU A  86      -4.107  24.239   7.050  1.00 35.90           N  
-ATOM    837  CA  LEU A  86      -3.427  23.593   5.952  1.00 35.57           C  
-ATOM    838  C   LEU A  86      -3.973  22.187   5.705  1.00 36.04           C  
-ATOM    839  O   LEU A  86      -4.216  21.789   4.568  1.00 35.67           O  
-ATOM    840  CB  LEU A  86      -1.940  23.522   6.282  1.00 35.24           C  
-ATOM    841  CG  LEU A  86      -0.979  23.392   5.104  1.00 37.99           C  
-ATOM    842  CD1 LEU A  86      -1.046  24.641   4.236  1.00 37.21           C  
-ATOM    843  CD2 LEU A  86       0.434  23.187   5.623  1.00 37.56           C  
-ATOM    844  H   LEU A  86      -3.579  24.563   7.810  1.00  0.00           H  
-ATOM    845  N   ALA A  87      -4.167  21.440   6.774  1.00 37.61           N  
-ATOM    846  CA  ALA A  87      -4.658  20.075   6.672  1.00 40.07           C  
-ATOM    847  C   ALA A  87      -6.071  20.045   6.108  1.00 42.25           C  
-ATOM    848  O   ALA A  87      -6.423  19.123   5.387  1.00 44.08           O  
-ATOM    849  CB  ALA A  87      -4.614  19.402   8.041  1.00 37.62           C  
-ATOM    850  H   ALA A  87      -3.984  21.816   7.658  1.00  0.00           H  
-ATOM    851  N   GLU A  88      -6.881  21.042   6.453  1.00 44.94           N  
-ATOM    852  CA  GLU A  88      -8.250  21.137   5.934  1.00 47.72           C  
-ATOM    853  C   GLU A  88      -8.249  21.462   4.446  1.00 46.92           C  
-ATOM    854  O   GLU A  88      -8.935  20.809   3.652  1.00 46.82           O  
-ATOM    855  CB  GLU A  88      -9.029  22.238   6.647  1.00 51.27           C  
-ATOM    856  CG  GLU A  88      -9.499  21.887   8.035  1.00 58.64           C  
-ATOM    857  CD  GLU A  88     -10.532  22.873   8.532  1.00 63.08           C  
-ATOM    858  OE1 GLU A  88     -11.497  23.154   7.774  1.00 65.53           O  
-ATOM    859  OE2 GLU A  88     -10.381  23.370   9.674  1.00 64.92           O  
-ATOM    860  H   GLU A  88      -6.554  21.730   7.069  1.00  0.00           H  
-ATOM    861  N   LYS A  89      -7.484  22.490   4.087  1.00 45.19           N  
-ATOM    862  CA  LYS A  89      -7.401  22.930   2.722  1.00 45.73           C  
-ATOM    863  C   LYS A  89      -7.064  21.776   1.802  1.00 45.59           C  
-ATOM    864  O   LYS A  89      -7.728  21.571   0.792  1.00 46.84           O  
-ATOM    865  CB  LYS A  89      -6.346  24.019   2.592  1.00 46.57           C  
-ATOM    866  CG  LYS A  89      -6.374  24.759   1.269  1.00 49.11           C  
-ATOM    867  CD  LYS A  89      -5.470  25.976   1.314  1.00 52.19           C  
-ATOM    868  CE  LYS A  89      -5.826  26.963   0.216  1.00 55.10           C  
-ATOM    869  NZ  LYS A  89      -5.139  28.274   0.395  1.00 56.62           N  
-ATOM    870  H   LYS A  89      -6.963  22.959   4.773  1.00  0.00           H  
-ATOM    871  HZ1 LYS A  89      -4.109  28.127   0.406  1.00  0.00           H  
-ATOM    872  HZ2 LYS A  89      -5.390  28.905  -0.391  1.00  0.00           H  
-ATOM    873  HZ3 LYS A  89      -5.437  28.704   1.294  1.00  0.00           H  
-ATOM    874  N   PHE A  90      -6.055  21.001   2.163  1.00 44.53           N  
-ATOM    875  CA  PHE A  90      -5.631  19.900   1.314  1.00 44.24           C  
-ATOM    876  C   PHE A  90      -6.275  18.576   1.716  1.00 44.45           C  
-ATOM    877  O   PHE A  90      -5.737  17.496   1.463  1.00 44.80           O  
-ATOM    878  CB  PHE A  90      -4.099  19.837   1.283  1.00 43.69           C  
-ATOM    879  CG  PHE A  90      -3.510  21.100   0.707  1.00 43.58           C  
-ATOM    880  CD1 PHE A  90      -3.664  21.403  -0.642  1.00 44.38           C  
-ATOM    881  CD2 PHE A  90      -2.881  22.034   1.523  1.00 44.26           C  
-ATOM    882  CE1 PHE A  90      -3.212  22.610  -1.165  1.00 43.38           C  
-ATOM    883  CE2 PHE A  90      -2.425  23.246   1.011  1.00 43.71           C  
-ATOM    884  CZ  PHE A  90      -2.592  23.535  -0.337  1.00 43.90           C  
-ATOM    885  H   PHE A  90      -5.588  21.170   3.009  1.00  0.00           H  
-ATOM    886  N   SER A  91      -7.444  18.690   2.345  1.00 45.17           N  
-ATOM    887  CA  SER A  91      -8.282  17.543   2.686  1.00 45.85           C  
-ATOM    888  C   SER A  91      -7.553  16.348   3.290  1.00 45.16           C  
-ATOM    889  O   SER A  91      -7.662  15.229   2.790  1.00 45.12           O  
-ATOM    890  CB  SER A  91      -9.061  17.113   1.441  1.00 48.12           C  
-ATOM    891  OG  SER A  91      -9.727  18.233   0.864  1.00 51.11           O  
-ATOM    892  H   SER A  91      -7.764  19.584   2.580  1.00  0.00           H  
-ATOM    893  HG  SER A  91     -10.205  17.955   0.079  1.00  0.00           H  
-ATOM    894  N   VAL A  92      -6.811  16.583   4.361  1.00 44.55           N  
-ATOM    895  CA  VAL A  92      -6.196  15.487   5.129  1.00 44.43           C  
-ATOM    896  C   VAL A  92      -6.451  15.690   6.627  1.00 43.59           C  
-ATOM    897  O   VAL A  92      -5.911  14.975   7.471  1.00 42.35           O  
-ATOM    898  CB  VAL A  92      -4.657  15.344   4.880  1.00 44.50           C  
-ATOM    899  CG1 VAL A  92      -4.413  14.652   3.553  1.00 44.93           C  
-ATOM    900  CG2 VAL A  92      -3.972  16.697   4.904  1.00 43.55           C  
-ATOM    901  H   VAL A  92      -6.657  17.507   4.637  1.00  0.00           H  
-ATOM    902  N   TYR A  93      -7.311  16.652   6.938  1.00 44.06           N  
-ATOM    903  CA  TYR A  93      -7.606  16.994   8.321  1.00 46.56           C  
-ATOM    904  C   TYR A  93      -8.156  15.815   9.115  1.00 47.20           C  
-ATOM    905  O   TYR A  93      -7.747  15.568  10.249  1.00 45.84           O  
-ATOM    906  CB  TYR A  93      -8.590  18.172   8.392  1.00 48.04           C  
-ATOM    907  CG  TYR A  93      -8.880  18.600   9.814  1.00 51.15           C  
-ATOM    908  CD1 TYR A  93      -8.058  19.512  10.466  1.00 52.01           C  
-ATOM    909  CD2 TYR A  93      -9.901  17.996  10.550  1.00 51.74           C  
-ATOM    910  CE1 TYR A  93      -8.234  19.796  11.806  1.00 53.05           C  
-ATOM    911  CE2 TYR A  93     -10.083  18.274  11.891  1.00 52.13           C  
-ATOM    912  CZ  TYR A  93      -9.243  19.172  12.513  1.00 53.58           C  
-ATOM    913  OH  TYR A  93      -9.405  19.442  13.848  1.00 56.47           O  
-ATOM    914  H   TYR A  93      -7.753  17.146   6.220  1.00  0.00           H  
-ATOM    915  HH  TYR A  93     -10.182  18.981  14.176  1.00  0.00           H  
-ATOM    916  N   ASP A  94      -9.076  15.086   8.529  1.00 48.64           N  
-ATOM    917  CA  ASP A  94      -9.678  13.962   9.232  1.00 50.01           C  
-ATOM    918  C   ASP A  94      -8.697  12.805   9.419  1.00 49.07           C  
-ATOM    919  O   ASP A  94      -8.827  12.031  10.370  1.00 48.92           O  
-ATOM    920  CB  ASP A  94     -10.964  13.515   8.517  1.00 53.54           C  
-ATOM    921  CG  ASP A  94     -12.120  14.474   8.796  1.00 54.92           C  
-ATOM    922  OD1 ASP A  94     -12.762  14.329   9.852  1.00 57.73           O  
-ATOM    923  OD2 ASP A  94     -12.379  15.377   7.969  1.00 56.24           O  
-ATOM    924  H   ASP A  94      -9.357  15.301   7.615  1.00  0.00           H  
-ATOM    925  N   GLN A  95      -7.712  12.698   8.520  1.00 49.21           N  
-ATOM    926  CA  GLN A  95      -6.664  11.678   8.659  1.00 49.95           C  
-ATOM    927  C   GLN A  95      -5.677  12.029   9.780  1.00 48.73           C  
-ATOM    928  O   GLN A  95      -5.206  11.146  10.495  1.00 48.14           O  
-ATOM    929  CB  GLN A  95      -5.871  11.526   7.358  1.00 51.32           C  
-ATOM    930  CG  GLN A  95      -6.617  10.859   6.227  1.00 54.77           C  
-ATOM    931  CD  GLN A  95      -5.805  10.848   4.952  1.00 57.17           C  
-ATOM    932  OE1 GLN A  95      -4.715  10.277   4.905  1.00 57.65           O  
-ATOM    933  NE2 GLN A  95      -6.325  11.483   3.912  1.00 58.76           N  
-ATOM    934  H   GLN A  95      -7.694  13.305   7.752  1.00  0.00           H  
-ATOM    935 HE21 GLN A  95      -5.808  11.509   3.079  1.00  0.00           H  
-ATOM    936 HE22 GLN A  95      -7.202  11.904   4.016  1.00  0.00           H  
-ATOM    937  N   LEU A  96      -5.360  13.327   9.908  1.00 48.04           N  
-ATOM    938  CA  LEU A  96      -4.374  13.800  10.893  1.00 46.14           C  
-ATOM    939  C   LEU A  96      -5.003  14.231  12.202  1.00 45.87           C  
-ATOM    940  O   LEU A  96      -4.285  14.496  13.166  1.00 44.88           O  
-ATOM    941  CB  LEU A  96      -3.579  14.981  10.323  1.00 43.86           C  
-ATOM    942  CG  LEU A  96      -3.107  14.825   8.881  1.00 43.10           C  
-ATOM    943  CD1 LEU A  96      -2.080  15.892   8.542  1.00 40.00           C  
-ATOM    944  CD2 LEU A  96      -2.533  13.432   8.681  1.00 42.10           C  
-ATOM    945  H   LEU A  96      -5.794  13.981   9.318  1.00  0.00           H  
-ATOM    946  N   LYS A  97      -6.332  14.297  12.237  1.00 47.18           N  
-ATOM    947  CA  LYS A  97      -7.053  14.723  13.436  1.00 47.61           C  
-ATOM    948  C   LYS A  97      -6.528  14.080  14.736  1.00 45.43           C  
-ATOM    949  O   LYS A  97      -6.293  14.784  15.717  1.00 44.43           O  
-ATOM    950  CB  LYS A  97      -8.568  14.489  13.291  1.00 50.67           C  
-ATOM    951  CG  LYS A  97      -9.336  15.078  14.463  1.00 56.31           C  
-ATOM    952  CD  LYS A  97     -10.823  15.199  14.216  1.00 59.48           C  
-ATOM    953  CE  LYS A  97     -11.463  16.020  15.331  1.00 61.13           C  
-ATOM    954  NZ  LYS A  97     -12.926  16.202  15.134  1.00 63.44           N  
-ATOM    955  H   LYS A  97      -6.842  14.065  11.432  1.00  0.00           H  
-ATOM    956  HZ1 LYS A  97     -13.098  16.675  14.224  1.00  0.00           H  
-ATOM    957  HZ2 LYS A  97     -13.392  15.273  15.137  1.00  0.00           H  
-ATOM    958  HZ3 LYS A  97     -13.309  16.784  15.906  1.00  0.00           H  
-ATOM    959  N   PRO A  98      -6.334  12.753  14.803  1.00 44.31           N  
-ATOM    960  CA  PRO A  98      -5.818  12.119  16.014  1.00 45.37           C  
-ATOM    961  C   PRO A  98      -4.589  12.847  16.590  1.00 46.45           C  
-ATOM    962  O   PRO A  98      -4.526  13.091  17.795  1.00 47.44           O  
-ATOM    963  CB  PRO A  98      -5.497  10.687  15.575  1.00 43.63           C  
-ATOM    964  CG  PRO A  98      -5.537  10.749  14.086  1.00 44.43           C  
-ATOM    965  CD  PRO A  98      -6.611  11.744  13.777  1.00 43.98           C  
-ATOM    966  N   LEU A  99      -3.638  13.217  15.725  1.00 46.20           N  
-ATOM    967  CA  LEU A  99      -2.427  13.892  16.177  1.00 45.20           C  
-ATOM    968  C   LEU A  99      -2.731  15.288  16.672  1.00 46.29           C  
-ATOM    969  O   LEU A  99      -2.212  15.707  17.705  1.00 45.15           O  
-ATOM    970  CB  LEU A  99      -1.386  13.979  15.053  1.00 42.84           C  
-ATOM    971  CG  LEU A  99      -0.093  14.741  15.389  1.00 41.15           C  
-ATOM    972  CD1 LEU A  99       0.804  13.895  16.275  1.00 38.20           C  
-ATOM    973  CD2 LEU A  99       0.626  15.131  14.117  1.00 39.05           C  
-ATOM    974  H   LEU A  99      -3.759  13.036  14.770  1.00  0.00           H  
-ATOM    975  N   PHE A 100      -3.564  16.007  15.933  1.00 48.58           N  
-ATOM    976  CA  PHE A 100      -3.896  17.372  16.305  1.00 52.20           C  
-ATOM    977  C   PHE A 100      -4.517  17.429  17.688  1.00 56.06           C  
-ATOM    978  O   PHE A 100      -4.089  18.213  18.537  1.00 56.52           O  
-ATOM    979  CB  PHE A 100      -4.865  18.008  15.296  1.00 50.34           C  
-ATOM    980  CG  PHE A 100      -4.309  18.236  13.913  1.00 48.52           C  
-ATOM    981  CD1 PHE A 100      -2.950  18.478  13.717  1.00 46.65           C  
-ATOM    982  CD2 PHE A 100      -5.158  18.231  12.803  1.00 47.63           C  
-ATOM    983  CE1 PHE A 100      -2.447  18.713  12.445  1.00 46.95           C  
-ATOM    984  CE2 PHE A 100      -4.662  18.466  11.530  1.00 46.65           C  
-ATOM    985  CZ  PHE A 100      -3.304  18.707  11.350  1.00 46.70           C  
-ATOM    986  H   PHE A 100      -3.954  15.615  15.124  1.00  0.00           H  
-ATOM    987  N   ASP A 101      -5.517  16.594  17.924  1.00 60.72           N  
-ATOM    988  CA  ASP A 101      -6.204  16.632  19.205  1.00 66.29           C  
-ATOM    989  C   ASP A 101      -5.449  15.864  20.289  1.00 68.12           C  
-ATOM    990  O   ASP A 101      -5.728  16.047  21.477  1.00 69.45           O  
-ATOM    991  CB  ASP A 101      -7.653  16.132  19.071  1.00 68.88           C  
-ATOM    992  CG  ASP A 101      -7.782  14.625  19.028  1.00 72.53           C  
-ATOM    993  OD1 ASP A 101      -7.085  13.994  18.212  1.00 74.44           O  
-ATOM    994  OD2 ASP A 101      -8.584  14.071  19.818  1.00 73.84           O  
-ATOM    995  H   ASP A 101      -5.795  15.955  17.233  1.00  0.00           H  
-ATOM    996  N   PHE A 102      -4.497  15.014  19.881  1.00 69.09           N  
-ATOM    997  CA  PHE A 102      -3.676  14.272  20.835  1.00 69.65           C  
-ATOM    998  C   PHE A 102      -3.031  15.235  21.825  1.00 70.64           C  
-ATOM    999  O   PHE A 102      -2.775  14.878  22.974  1.00 72.94           O  
-ATOM   1000  CB  PHE A 102      -2.583  13.502  20.091  1.00 70.00           C  
-ATOM   1001  CG  PHE A 102      -1.745  12.597  20.951  1.00 71.29           C  
-ATOM   1002  CD1 PHE A 102      -0.639  13.089  21.637  1.00 71.76           C  
-ATOM   1003  CD2 PHE A 102      -2.053  11.238  21.062  1.00 72.61           C  
-ATOM   1004  CE1 PHE A 102       0.139  12.248  22.414  1.00 72.74           C  
-ATOM   1005  CE2 PHE A 102      -1.274  10.387  21.838  1.00 72.58           C  
-ATOM   1006  CZ  PHE A 102      -0.177  10.895  22.516  1.00 73.27           C  
-ATOM   1007  H   PHE A 102      -4.346  14.884  18.921  1.00  0.00           H  
-TER    1008      PHE A 102                                                      
-HETATM 1009  O   HOH A 401      11.442  26.376  18.419  1.00 38.23           O  
-HETATM 1010  H1  HOH A 401      12.360  26.094  18.365  1.00  0.00           H  
-HETATM 1011  H2  HOH A 401      11.489  27.267  18.767  1.00  0.00           H  
-HETATM 1012  O   HOH A 402       8.649  28.512  17.527  1.00 47.94           O  
-HETATM 1013  H1  HOH A 402       9.202  27.788  17.213  1.00  0.00           H  
-HETATM 1014  H2  HOH A 402       7.878  28.486  16.957  1.00  0.00           H  
-HETATM 1015  O   HOH A 403       7.263  28.403  19.944  1.00 38.55           O  
-HETATM 1016  H1  HOH A 403       7.266  27.444  19.925  1.00  0.00           H  
-HETATM 1017  H2  HOH A 403       7.891  28.655  19.252  1.00  0.00           H  
-HETATM 1018  O   HOH A 404      13.823  23.249  15.906  1.00 61.76           O  
-HETATM 1019  H1  HOH A 404      14.758  23.159  15.681  1.00  0.00           H  
-HETATM 1020  H2  HOH A 404      13.741  24.157  16.204  1.00  0.00           H  
-HETATM 1021  O   HOH A 405       8.756  28.493  22.514  1.00 66.03           O  
-HETATM 1022  H1  HOH A 405       8.339  28.510  21.650  1.00  0.00           H  
-HETATM 1023  H2  HOH A 405       8.556  29.355  22.893  1.00  0.00           H  
-HETATM 1024  O   HOH A 406       9.224  19.780  22.203  1.00 22.24           O  
-HETATM 1025  H1  HOH A 406       9.276  19.201  21.436  1.00  0.00           H  
-HETATM 1026  H2  HOH A 406       9.990  19.533  22.736  1.00  0.00           H  
-HETATM 1027  O   HOH A 407      11.643  19.276  23.871  1.00 44.82           O  
-HETATM 1028  H1  HOH A 407      12.275  19.960  23.620  1.00  0.00           H  
-HETATM 1029  H2  HOH A 407      11.978  18.952  24.712  1.00  0.00           H  
-HETATM 1030  O   HOH A 408       7.638  19.412  26.856  1.00 66.34           O  
-HETATM 1031  H1  HOH A 408       7.334  19.672  27.732  1.00  0.00           H  
-HETATM 1032  H2  HOH A 408       8.293  18.736  27.024  1.00  0.00           H  
-HETATM 1033  O   HOH A 409       9.788  12.718  23.881  1.00 35.90           O  
-HETATM 1034  H1  HOH A 409      10.485  13.349  24.074  1.00  0.00           H  
-HETATM 1035  H2  HOH A 409       9.534  12.912  22.975  1.00  0.00           H  
-HETATM 1036  O   HOH A 410      -7.039  27.560  12.371  1.00 76.53           O  
-HETATM 1037  H1  HOH A 410      -7.871  27.092  12.461  1.00  0.00           H  
-HETATM 1038  H2  HOH A 410      -6.381  26.862  12.283  1.00  0.00           H  
-HETATM 1039  O   HOH A 411      10.636  15.015  28.679  1.00 79.82           O  
-HETATM 1040  H1  HOH A 411      10.754  14.224  29.205  1.00  0.00           H  
-HETATM 1041  H2  HOH A 411       9.685  15.085  28.566  1.00  0.00           H  
-HETATM 1042  O   HOH A 412      -5.406  19.815  21.604  1.00 67.01           O  
-HETATM 1043  H1  HOH A 412      -5.059  20.294  22.359  1.00  0.00           H  
-HETATM 1044  H2  HOH A 412      -5.402  18.897  21.884  1.00  0.00           H  
-HETATM 1045  O   HOH A 413       0.948  26.025  18.289  1.00 28.37           O  
-HETATM 1046  H1  HOH A 413       1.360  25.442  18.933  1.00  0.00           H  
-HETATM 1047  H2  HOH A 413       1.280  26.901  18.518  1.00  0.00           H  
-HETATM 1048  O   HOH A 414       2.348  27.103  21.691  1.00 40.51           O  
-HETATM 1049  H1  HOH A 414       2.244  26.285  21.195  1.00  0.00           H  
-HETATM 1050  H2  HOH A 414       2.771  27.701  21.073  1.00  0.00           H  
-HETATM 1051  O   HOH A 415       1.783  28.751  19.142  1.00 45.14           O  
-HETATM 1052  H1  HOH A 415       2.466  29.079  19.741  1.00  0.00           H  
-HETATM 1053  H2  HOH A 415       1.057  29.370  19.247  1.00  0.00           H  
-HETATM 1054  O   HOH A 416      -1.813  27.629  17.603  1.00 63.33           O  
-HETATM 1055  H1  HOH A 416      -0.906  27.508  17.899  1.00  0.00           H  
-HETATM 1056  H2  HOH A 416      -1.823  28.521  17.231  1.00  0.00           H  
-HETATM 1057  O   HOH A 417       0.364  33.475  10.829  1.00 43.72           O  
-HETATM 1058  H1  HOH A 417      -0.450  33.139  10.448  1.00  0.00           H  
-HETATM 1059  H2  HOH A 417       0.123  33.712  11.729  1.00  0.00           H  
-HETATM 1060  O   HOH A 418       3.290  35.799  10.789  1.00 45.96           O  
-HETATM 1061  H1  HOH A 418       2.521  35.871  11.354  1.00  0.00           H  
-HETATM 1062  H2  HOH A 418       2.954  36.032   9.910  1.00  0.00           H  
-HETATM 1063  O   HOH A 419       8.914  16.633  -7.731  1.00 47.58           O  
-HETATM 1064  H1  HOH A 419       8.580  16.211  -8.527  1.00  0.00           H  
-HETATM 1065  H2  HOH A 419       9.739  17.055  -8.014  1.00  0.00           H  
-HETATM 1066  O   HOH A 420      16.804  28.181   7.657  1.00 52.61           O  
-HETATM 1067  H1  HOH A 420      17.349  28.921   7.925  1.00  0.00           H  
-HETATM 1068  H2  HOH A 420      17.428  27.548   7.300  1.00  0.00           H  
-HETATM 1069  O   HOH A 421       4.841   5.174   7.671  1.00 54.02           O  
-HETATM 1070  H1  HOH A 421       4.992   4.811   6.796  1.00  0.00           H  
-HETATM 1071  H2  HOH A 421       3.969   5.585   7.610  1.00  0.00           H  
-HETATM 1072  O   HOH A 422       6.123  12.466   6.644  1.00 38.59           O  
-HETATM 1073  H1  HOH A 422       6.354  11.569   6.880  1.00  0.00           H  
-HETATM 1074  H2  HOH A 422       5.242  12.393   6.258  1.00  0.00           H  
-HETATM 1075  O   HOH A 423       3.623  12.224   6.231  1.00 46.24           O  
-HETATM 1076  H1  HOH A 423       3.260  11.491   6.732  1.00  0.00           H  
-HETATM 1077  H2  HOH A 423       3.150  12.995   6.560  1.00  0.00           H  
-HETATM 1078  O   HOH A 424       8.696  11.998   9.005  1.00 59.93           O  
-HETATM 1079  H1  HOH A 424       7.734  12.042   9.009  1.00  0.00           H  
-HETATM 1080  H2  HOH A 424       8.947  12.160   9.914  1.00  0.00           H  
-HETATM 1081  O   HOH A 425       8.405   9.129   7.648  1.00 61.20           O  
-HETATM 1082  H1  HOH A 425       9.210   8.614   7.550  1.00  0.00           H  
-HETATM 1083  H2  HOH A 425       8.701   9.956   8.049  1.00  0.00           H  
-HETATM 1084  O   HOH A 426      18.447  13.535  15.604  1.00 34.60           O  
-HETATM 1085  H1  HOH A 426      18.325  12.712  16.083  1.00  0.00           H  
-HETATM 1086  H2  HOH A 426      17.838  13.470  14.861  1.00  0.00           H  
-HETATM 1087  O   HOH A 427      12.794  20.256   3.954  1.00 62.89           O  
-HETATM 1088  H1  HOH A 427      13.638  20.705   4.102  1.00  0.00           H  
-HETATM 1089  H2  HOH A 427      13.034  19.453   3.487  1.00  0.00           H  
-HETATM 1090  O   HOH A 428       8.847  19.809   0.651  1.00 65.07           O  
-HETATM 1091  H1  HOH A 428       8.427  19.180   1.242  1.00  0.00           H  
-HETATM 1092  H2  HOH A 428       8.764  20.651   1.101  1.00  0.00           H  
-HETATM 1093  O   HOH A 429      -2.878  19.586  20.641  1.00 55.95           O  
-HETATM 1094  H1  HOH A 429      -3.712  19.246  20.304  1.00  0.00           H  
-HETATM 1095  H2  HOH A 429      -2.949  20.533  20.530  1.00  0.00           H  
-HETATM 1096  O   HOH A 430      -3.389  10.814   2.153  1.00 68.44           O  
-HETATM 1097  H1  HOH A 430      -3.370  10.574   1.223  1.00  0.00           H  
-HETATM 1098  H2  HOH A 430      -2.731  11.518   2.225  1.00  0.00           H  
-HETATM 1099  O   HOH A 431       7.974   6.841   9.094  1.00 81.57           O  
-HETATM 1100  H1  HOH A 431       7.873   7.036   8.159  1.00  0.00           H  
-HETATM 1101  H2  HOH A 431       7.642   5.943   9.185  1.00  0.00           H  
-HETATM 1102  O   HOH A 432       8.985  13.925  -7.061  1.00 46.17           O  
-HETATM 1103  H1  HOH A 432       9.892  13.636  -6.937  1.00  0.00           H  
-HETATM 1104  H2  HOH A 432       9.045  14.887  -7.113  1.00  0.00           H  
-HETATM 1105  O   HOH A 433      11.459  17.807  -8.216  1.00 61.98           O  
-HETATM 1106  H1  HOH A 433      12.207  17.850  -7.615  1.00  0.00           H  
-HETATM 1107  H2  HOH A 433      11.478  18.651  -8.675  1.00  0.00           H  
-HETATM 1108  O   HOH A 434     -10.484  15.879   5.891  1.00 49.08           O  
-HETATM 1109  H1  HOH A 434     -10.763  16.064   4.990  1.00  0.00           H  
-HETATM 1110  H2  HOH A 434     -11.213  16.190   6.431  1.00  0.00           H  
-HETATM 1111  O   HOH A 435      12.930  13.009  26.185  1.00 43.86           O  
-HETATM 1112  H1  HOH A 435      12.963  13.330  27.087  1.00  0.00           H  
-HETATM 1113  H2  HOH A 435      13.476  13.625  25.694  1.00  0.00           H  
-HETATM 1114  O   HOH A 436      -3.464  25.858  19.747  1.00 63.70           O  
-HETATM 1115  H1  HOH A 436      -3.471  26.403  18.954  1.00  0.00           H  
-HETATM 1116  H2  HOH A 436      -2.587  25.992  20.114  1.00  0.00           H  
-HETATM 1117  O   HOH A 437       6.235  16.677  28.203  1.00 68.03           O  
-HETATM 1118  H1  HOH A 437       6.291  17.517  28.663  1.00  0.00           H  
-HETATM 1119  H2  HOH A 437       5.340  16.667  27.835  1.00  0.00           H  
-HETATM 1120  O   HOH A 438       7.423  17.512 -10.650  1.00 57.40           O  
-HETATM 1121  H1  HOH A 438       7.010  16.951  -9.986  1.00  0.00           H  
-HETATM 1122  H2  HOH A 438       7.702  16.894 -11.334  1.00  0.00           H  
-HETATM 1123  O   HOH A 439      -5.355  10.866  19.619  1.00 51.92           O  
-HETATM 1124  H1  HOH A 439      -6.252  10.945  19.294  1.00  0.00           H  
-HETATM 1125  H2  HOH A 439      -4.871  11.550  19.149  1.00  0.00           H  
-HETATM 1126  O   HOH A 440      -8.867  11.724  17.801  1.00 59.09           O  
-HETATM 1127  H1  HOH A 440      -8.909  12.448  18.427  1.00  0.00           H  
-HETATM 1128  H2  HOH A 440      -9.457  11.061  18.162  1.00  0.00           H  
-HETATM 1129  O   HOH A 441      13.107  15.120   7.186  1.00 56.17           O  
-HETATM 1130  H1  HOH A 441      12.362  15.432   7.708  1.00  0.00           H  
-HETATM 1131  H2  HOH A 441      13.869  15.225   7.770  1.00  0.00           H  
-HETATM 1132  O   HOH A 442      -2.200  10.629  25.072  1.00 84.96           O  
-HETATM 1133  H1  HOH A 442      -1.698  11.431  25.238  1.00  0.00           H  
-HETATM 1134  H2  HOH A 442      -3.040  10.942  24.729  1.00  0.00           H  
-HETATM 1135  O   HOH A 444       1.798  36.196   8.660  1.00 69.55           O  
-HETATM 1136  H1  HOH A 444       2.171  36.075   7.775  1.00  0.00           H  
-HETATM 1137  H2  HOH A 444       1.186  35.465   8.757  1.00  0.00           H  
-HETATM 1138  O   HOH A 446      12.829  16.619  28.388  1.00 76.91           O  
-HETATM 1139  H1  HOH A 446      12.031  17.139  28.283  1.00  0.00           H  
-HETATM 1140  H2  HOH A 446      12.511  15.764  28.684  1.00  0.00           H  
-HETATM 1141  O   HOH A 447      -1.714   7.995  25.869  1.00 53.32           O  
-HETATM 1142  H1  HOH A 447      -1.215   7.807  25.076  1.00  0.00           H  
-HETATM 1143  H2  HOH A 447      -1.895   8.941  25.818  1.00  0.00           H  
-HETATM 1144  O   HOH A 449      17.342  21.354  17.381  1.00 78.08           O  
-HETATM 1145  H1  HOH A 449      17.257  20.526  17.868  1.00  0.00           H  
-HETATM 1146  H2  HOH A 449      17.020  22.020  17.988  1.00  0.00           H  
-HETATM 1147  O   HOH A 450      17.554  22.356  21.606  1.00 81.11           O  
-HETATM 1148  H1  HOH A 450      17.863  21.463  21.445  1.00  0.00           H  
-HETATM 1149  H2  HOH A 450      18.333  22.902  21.491  1.00  0.00           H  
-HETATM 1150  O   HOH A 451      21.261  19.604  17.525  1.00 60.20           O  
-HETATM 1151  H1  HOH A 451      21.971  20.078  17.088  1.00  0.00           H  
-HETATM 1152  H2  HOH A 451      20.490  20.166  17.407  1.00  0.00           H  
-HETATM 1153  O   HOH A 452      20.618  19.027  20.159  1.00 71.08           O  
-HETATM 1154  H1  HOH A 452      20.831  19.188  19.232  1.00  0.00           H  
-HETATM 1155  H2  HOH A 452      21.279  18.398  20.447  1.00  0.00           H  
-HETATM 1156  O   HOH A 454       3.691  16.091  27.806  1.00 75.85           O  
-HETATM 1157  H1  HOH A 454       3.113  15.469  27.354  1.00  0.00           H  
-HETATM 1158  H2  HOH A 454       3.644  15.832  28.729  1.00  0.00           H  
-HETATM 1159  O   HOH A 456      17.778  15.979   4.727  1.00 87.15           O  
-HETATM 1160  H1  HOH A 456      17.578  15.048   4.815  1.00  0.00           H  
-HETATM 1161  H2  HOH A 456      17.841  16.297   5.638  1.00  0.00           H  
-HETATM 1162  O   HOH A 457       2.784   6.732   0.413  1.00 58.64           O  
-HETATM 1163  H1  HOH A 457       3.270   6.190   1.038  1.00  0.00           H  
-HETATM 1164  H2  HOH A 457       2.569   6.134  -0.304  1.00  0.00           H  
-HETATM 1165  O   HOH A 458       6.812   6.267   3.872  1.00 78.10           O  
-HETATM 1166  H1  HOH A 458       6.068   6.869   3.796  1.00  0.00           H  
-HETATM 1167  H2  HOH A 458       7.515   6.697   3.386  1.00  0.00           H  
-HETATM 1168  O   HOH A 459      11.360  23.250  27.379  1.00 91.15           O  
-HETATM 1169  H1  HOH A 459      10.875  24.075  27.257  1.00  0.00           H  
-HETATM 1170  H2  HOH A 459      11.895  23.176  26.588  1.00  0.00           H  
-HETATM 1171  O   HOH A 460      11.533  21.478  -4.909  1.00 61.19           O  
-HETATM 1172  H1  HOH A 460      11.125  21.466  -4.035  1.00  0.00           H  
-HETATM 1173  H2  HOH A 460      11.171  22.260  -5.324  1.00  0.00           H  
-HETATM 1174  O   HOH A 461      -2.761  38.231   3.181  1.00 84.62           O  
-HETATM 1175  H1  HOH A 461      -1.871  38.468   3.455  1.00  0.00           H  
-HETATM 1176  H2  HOH A 461      -2.645  37.814   2.327  1.00  0.00           H  
-HETATM 1177  O   HOH A 462      -5.015  39.320   4.311  1.00 88.70           O  
-HETATM 1178  H1  HOH A 462      -4.698  40.216   4.219  1.00  0.00           H  
-HETATM 1179  H2  HOH A 462      -4.298  38.779   3.950  1.00  0.00           H  
-HETATM 1180  O   HOH A 463      10.179  21.307   3.687  1.00 49.11           O  
-HETATM 1181  H1  HOH A 463       9.722  21.057   4.495  1.00  0.00           H  
-HETATM 1182  H2  HOH A 463      11.079  20.973   3.815  1.00  0.00           H  
-HETATM 1183  O   HOH A 464      -1.283  31.486  14.715  1.00 75.28           O  
-HETATM 1184  H1  HOH A 464      -0.458  31.251  14.289  1.00  0.00           H  
-HETATM 1185  H2  HOH A 464      -1.540  30.684  15.190  1.00  0.00           H  
-HETATM 1186  O   HOH A 465      -3.174  28.185   6.783  1.00 76.66           O  
-HETATM 1187  H1  HOH A 465      -3.814  28.666   7.321  1.00  0.00           H  
-HETATM 1188  H2  HOH A 465      -3.169  28.650   5.944  1.00  0.00           H  
-HETATM 1189  O   HOH A 466      -5.798  24.608  20.375  1.00 86.02           O  
-HETATM 1190  H1  HOH A 466      -5.419  23.785  20.680  1.00  0.00           H  
-HETATM 1191  H2  HOH A 466      -5.032  25.168  20.192  1.00  0.00           H  
-HETATM 1192  O   HOH A 467     -10.433  22.178  -0.029  1.00 70.77           O  
-HETATM 1193  H1  HOH A 467     -10.696  21.582   0.672  1.00  0.00           H  
-HETATM 1194  H2  HOH A 467      -9.472  22.144  -0.019  1.00  0.00           H  
-HETATM 1195  O   HOH A 468     -12.736  19.373  14.748  1.00 67.61           O  
-HETATM 1196  H1  HOH A 468     -13.404  19.567  14.089  1.00  0.00           H  
-HETATM 1197  H2  HOH A 468     -12.581  20.211  15.186  1.00  0.00           H  
-HETATM 1198  O   HOH A 469     -12.719  15.279  19.686  1.00 72.04           O  
-HETATM 1199  H1  HOH A 469     -11.938  15.746  19.984  1.00  0.00           H  
-HETATM 1200  H2  HOH A 469     -12.734  14.477  20.208  1.00  0.00           H  
-HETATM 1201  O   HOH A 470      14.152  20.306  23.565  1.00 67.11           O  
-HETATM 1202  H1  HOH A 470      14.822  20.685  24.137  1.00  0.00           H  
-HETATM 1203  H2  HOH A 470      14.616  19.594  23.101  1.00  0.00           H  
-HETATM 1204  O   HOH A 471      13.538  23.641  18.923  1.00 71.61           O  
-HETATM 1205  H1  HOH A 471      13.182  23.149  18.177  1.00  0.00           H  
-HETATM 1206  H2  HOH A 471      13.920  22.968  19.489  1.00  0.00           H  
-HETATM 1207  O   HOH A 472      -2.426  22.296  24.456  1.00 58.68           O  
-HETATM 1208  H1  HOH A 472      -1.824  21.550  24.486  1.00  0.00           H  
-HETATM 1209  H2  HOH A 472      -2.172  22.837  25.206  1.00  0.00           H  
-HETATM 1210  O   HOH A 473      -4.196  19.616  27.496  1.00 73.73           O  
-HETATM 1211  H1  HOH A 473      -4.186  20.369  28.087  1.00  0.00           H  
-HETATM 1212  H2  HOH A 473      -3.490  19.052  27.815  1.00  0.00           H  
-HETATM 1213  O   HOH A 474      -3.309   5.980   5.845  1.00 68.19           O  
-HETATM 1214  H1  HOH A 474      -3.838   5.345   6.332  1.00  0.00           H  
-HETATM 1215  H2  HOH A 474      -3.906   6.325   5.178  1.00  0.00           H  
-HETATM 1216  O   HOH A 475      17.838  23.280   1.198  1.00 77.31           O  
-HETATM 1217  H1  HOH A 475      18.005  22.946   2.080  1.00  0.00           H  
-HETATM 1218  H2  HOH A 475      16.886  23.249   1.107  1.00  0.00           H  
-HETATM 1219  O   HOH A 476      10.307  16.081   6.990  1.00 59.61           O  
-HETATM 1220  H1  HOH A 476      10.750  16.852   7.367  1.00  0.00           H  
-HETATM 1221  H2  HOH A 476      10.894  15.787   6.290  1.00  0.00           H  
-HETATM 1222  O   HOH A 477      11.355  23.439   4.466  1.00 66.34           O  
-HETATM 1223  H1  HOH A 477      10.901  22.829   3.870  1.00  0.00           H  
-HETATM 1224  H2  HOH A 477      12.059  23.808   3.935  1.00  0.00           H  
-HETATM 1225  O   HOH A 478      17.221  12.554  13.119  1.00 53.33           O  
-HETATM 1226  H1  HOH A 478      17.675  13.340  12.793  1.00  0.00           H  
-HETATM 1227  H2  HOH A 478      17.910  11.893  13.189  1.00  0.00           H  
-HETATM 1228  O   HOH A 479       6.483  28.190   5.603  1.00 90.05           O  
-HETATM 1229  H1  HOH A 479       6.350  28.405   4.680  1.00  0.00           H  
-HETATM 1230  H2  HOH A 479       6.782  27.278   5.595  1.00  0.00           H  
-HETATM 1231  O   HOH A 480      -1.050  28.108   4.394  1.00 85.46           O  
-HETATM 1232  H1  HOH A 480      -0.904  27.942   5.328  1.00  0.00           H  
-HETATM 1233  H2  HOH A 480      -0.405  28.792   4.169  1.00  0.00           H  
-HETATM 1234  O   HOH A 481       7.764   6.413  14.803  1.00 47.44           O  
-HETATM 1235  H1  HOH A 481       7.927   7.153  15.390  1.00  0.00           H  
-HETATM 1236  H2  HOH A 481       7.543   6.819  13.965  1.00  0.00           H  
-HETATM 1237  O   HOH A 482      -1.304  30.550  17.203  1.00 47.05           O  
-HETATM 1238  H1  HOH A 482      -2.121  30.831  17.619  1.00  0.00           H  
-HETATM 1239  H2  HOH A 482      -0.966  31.348  16.785  1.00  0.00           H  
-HETATM 1240  O   HOH A 484       3.582  11.825  -5.019  1.00 54.04           O  
-HETATM 1241  H1  HOH A 484       4.118  12.609  -4.883  1.00  0.00           H  
-HETATM 1242  H2  HOH A 484       2.776  12.157  -5.424  1.00  0.00           H  
-HETATM 1243  O   HOH A 485      10.477  17.818   1.534  1.00 52.39           O  
-HETATM 1244  H1  HOH A 485      10.080  18.415   0.889  1.00  0.00           H  
-HETATM 1245  H2  HOH A 485      11.050  18.380   2.054  1.00  0.00           H  
-HETATM 1246  O   HOH A 486       8.350  13.220  -2.518  1.00 51.86           O  
-HETATM 1247  H1  HOH A 486       7.500  12.811  -2.685  1.00  0.00           H  
-HETATM 1248  H2  HOH A 486       8.871  13.018  -3.295  1.00  0.00           H  
-HETATM 1249  O   HOH A 487      10.766  31.335  -1.067  1.00 53.16           O  
-HETATM 1250  H1  HOH A 487       9.819  31.209  -0.984  1.00  0.00           H  
-HETATM 1251  H2  HOH A 487      11.147  30.557  -0.661  1.00  0.00           H  
-HETATM 1252  O   HOH A 488      -1.322  36.803   5.890  1.00 51.31           O  
-HETATM 1253  H1  HOH A 488      -2.260  36.695   6.053  1.00  0.00           H  
-HETATM 1254  H2  HOH A 488      -0.911  36.077   6.358  1.00  0.00           H  
-HETATM 1255  O   HOH A 489      -8.558  12.902   5.180  1.00 53.15           O  
-HETATM 1256  H1  HOH A 489      -8.421  13.507   4.441  1.00  0.00           H  
-HETATM 1257  H2  HOH A 489      -9.446  12.564   5.045  1.00  0.00           H  
-MASTER      234    0    0    4    5    0    0    6 1256    1    0    8          
-END                                                                             
+HEADER    CELL CYCLE                              29-JUL-98   1BM8              
+TITLE     DNA-BINDING DOMAIN OF MBP1                                            
+COMPND    MOL_ID: 1;                                                            
+COMPND   2 MOLECULE: TRANSCRIPTION FACTOR MBP1;                                 
+COMPND   3 CHAIN: A;                                                            
+COMPND   4 FRAGMENT: N-TERMINAL DNA-BINDING DOMAIN;                             
+COMPND   5 SYNONYM: MCB (MLUI CELL-CYLE BOX) BINDING PROTEIN;                   
+COMPND   6 ENGINEERED: YES                                                      
+SOURCE    MOL_ID: 1;                                                            
+SOURCE   2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE;                       
+SOURCE   3 ORGANISM_COMMON: BAKER'S YEAST;                                      
+SOURCE   4 ORGANISM_TAXID: 4932;                                                
+SOURCE   5 CELL_LINE: BL21;                                                     
+SOURCE   6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;                                 
+SOURCE   7 EXPRESSION_SYSTEM_TAXID: 562;                                        
+SOURCE   8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) PLYSS;                          
+SOURCE   9 EXPRESSION_SYSTEM_PLASMID: BL21 (DE3) PLYSS/PET43                    
+KEYWDS    CELL CYCLE, CYCLINS, DNA SYNTHESIS, HELIX-TURN-HELIX DNA-             
+KEYWDS   2 BINDING DOMAIN, MULTIWAVELENGTH ANOMALOUS DIFFRACTION,               
+KEYWDS   3 TRANSCRIPTION FACTOR                                                 
+EXPDTA    X-RAY DIFFRACTION                                                     
+AUTHOR    R.-M.XU,C.KOCH,Y.LIU,J.R.HORTON,D.KNAPP,K.NASMYTH,X.CHENG             
+REVDAT   2   24-FEB-09 1BM8    1       VERSN                                    
+REVDAT   1   02-MAR-99 1BM8    0                                                
+JRNL        AUTH   R.M.XU,C.KOCH,Y.LIU,J.R.HORTON,D.KNAPP,K.NASMYTH,            
+JRNL        AUTH 2 X.CHENG                                                      
+JRNL        TITL   CRYSTAL STRUCTURE OF THE DNA-BINDING DOMAIN OF               
+JRNL        TITL 2 MBP1, A TRANSCRIPTION FACTOR IMPORTANT IN                    
+JRNL        TITL 3 CELL-CYCLE CONTROL OF DNA SYNTHESIS.                         
+JRNL        REF    STRUCTURE                     V.   5   349 1997              
+JRNL        REFN                   ISSN 0969-2126                               
+JRNL        PMID   9083114                                                      
+JRNL        DOI    10.1016/S0969-2126(97)00192-5                                
+REMARK   1                                                                      
+REMARK   2                                                                      
+REMARK   2 RESOLUTION.    1.71 ANGSTROMS.                                       
+REMARK   3                                                                      
+REMARK   3 REFINEMENT.                                                          
+REMARK   3   PROGRAM     : X-PLOR 3.851                                         
+REMARK   3   AUTHORS     : BRUNGER                                              
+REMARK   3                                                                      
+REMARK   3  DATA USED IN REFINEMENT.                                            
+REMARK   3   RESOLUTION RANGE HIGH (ANGSTROMS) : 1.71                           
+REMARK   3   RESOLUTION RANGE LOW  (ANGSTROMS) : 5.00                           
+REMARK   3   DATA CUTOFF            (SIGMA(F)) : 0.000                          
+REMARK   3   DATA CUTOFF HIGH         (ABS(F)) : NULL                           
+REMARK   3   DATA CUTOFF LOW          (ABS(F)) : NULL                           
+REMARK   3   COMPLETENESS (WORKING+TEST)   (%) : 93.6                           
+REMARK   3   NUMBER OF REFLECTIONS             : 10273                          
+REMARK   3                                                                      
+REMARK   3  FIT TO DATA USED IN REFINEMENT.                                     
+REMARK   3   CROSS-VALIDATION METHOD          : NULL                            
+REMARK   3   FREE R VALUE TEST SET SELECTION  : RANDOM                          
+REMARK   3   R VALUE            (WORKING SET) : 0.197                           
+REMARK   3   FREE R VALUE                     : 0.261                           
+REMARK   3   FREE R VALUE TEST SET SIZE   (%) : 10.000                          
+REMARK   3   FREE R VALUE TEST SET COUNT      : NULL                            
+REMARK   3   ESTIMATED ERROR OF FREE R VALUE  : NULL                            
+REMARK   3                                                                      
+REMARK   3  FIT IN THE HIGHEST RESOLUTION BIN.                                  
+REMARK   3   TOTAL NUMBER OF BINS USED           : 8                            
+REMARK   3   BIN RESOLUTION RANGE HIGH       (A) : 1.71                         
+REMARK   3   BIN RESOLUTION RANGE LOW        (A) : 1.78                         
+REMARK   3   BIN COMPLETENESS (WORKING+TEST) (%) : 34.10                        
+REMARK   3   REFLECTIONS IN BIN    (WORKING SET) : 535                          
+REMARK   3   BIN R VALUE           (WORKING SET) : 0.4020                       
+REMARK   3   BIN FREE R VALUE                    : 0.3350                       
+REMARK   3   BIN FREE R VALUE TEST SET SIZE  (%) : 10.00                        
+REMARK   3   BIN FREE R VALUE TEST SET COUNT     : NULL                         
+REMARK   3   ESTIMATED ERROR OF BIN FREE R VALUE : NULL                         
+REMARK   3                                                                      
+REMARK   3  NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.                    
+REMARK   3   PROTEIN ATOMS            : 812                                     
+REMARK   3   NUCLEIC ACID ATOMS       : 0                                       
+REMARK   3   HETEROGEN ATOMS          : 0                                       
+REMARK   3   SOLVENT ATOMS            : 66                                      
+REMARK   3                                                                      
+REMARK   3  B VALUES.                                                           
+REMARK   3   FROM WILSON PLOT           (A**2) : NULL                           
+REMARK   3   MEAN B VALUE      (OVERALL, A**2) : 36.00                          
+REMARK   3   OVERALL ANISOTROPIC B VALUE.                                       
+REMARK   3    B11 (A**2) : NULL                                                 
+REMARK   3    B22 (A**2) : NULL                                                 
+REMARK   3    B33 (A**2) : NULL                                                 
+REMARK   3    B12 (A**2) : NULL                                                 
+REMARK   3    B13 (A**2) : NULL                                                 
+REMARK   3    B23 (A**2) : NULL                                                 
+REMARK   3                                                                      
+REMARK   3  ESTIMATED COORDINATE ERROR.                                         
+REMARK   3   ESD FROM LUZZATI PLOT        (A) : NULL                            
+REMARK   3   ESD FROM SIGMAA              (A) : NULL                            
+REMARK   3   LOW RESOLUTION CUTOFF        (A) : 5.00                            
+REMARK   3                                                                      
+REMARK   3  CROSS-VALIDATED ESTIMATED COORDINATE ERROR.                         
+REMARK   3   ESD FROM C-V LUZZATI PLOT    (A) : NULL                            
+REMARK   3   ESD FROM C-V SIGMAA          (A) : NULL                            
+REMARK   3                                                                      
+REMARK   3  RMS DEVIATIONS FROM IDEAL VALUES.                                   
+REMARK   3   BOND LENGTHS                 (A) : 0.009                           
+REMARK   3   BOND ANGLES            (DEGREES) : 1.11                            
+REMARK   3   DIHEDRAL ANGLES        (DEGREES) : 23.30                           
+REMARK   3   IMPROPER ANGLES        (DEGREES) : 0.98                            
+REMARK   3                                                                      
+REMARK   3  ISOTROPIC THERMAL MODEL : RESTRAINED                                
+REMARK   3                                                                      
+REMARK   3  ISOTROPIC THERMAL FACTOR RESTRAINTS.    RMS    SIGMA                
+REMARK   3   MAIN-CHAIN BOND              (A**2) : NULL  ; NULL                 
+REMARK   3   MAIN-CHAIN ANGLE             (A**2) : NULL  ; NULL                 
+REMARK   3   SIDE-CHAIN BOND              (A**2) : NULL  ; NULL                 
+REMARK   3   SIDE-CHAIN ANGLE             (A**2) : NULL  ; NULL                 
+REMARK   3                                                                      
+REMARK   3  NCS MODEL : NULL                                                    
+REMARK   3                                                                      
+REMARK   3  NCS RESTRAINTS.                         RMS   SIGMA/WEIGHT          
+REMARK   3   GROUP  1  POSITIONAL            (A) : NULL  ; NULL                 
+REMARK   3   GROUP  1  B-FACTOR           (A**2) : NULL  ; NULL                 
+REMARK   3                                                                      
+REMARK   3  PARAMETER FILE  1  : PARHCSDX.PRO                                   
+REMARK   3  PARAMETER FILE  2  : NULL                                           
+REMARK   3  PARAMETER FILE  3  : NULL                                           
+REMARK   3  TOPOLOGY FILE  1   : TOPHCSDX.PRO                                   
+REMARK   3  TOPOLOGY FILE  2   : NULL                                           
+REMARK   3  TOPOLOGY FILE  3   : NULL                                           
+REMARK   3                                                                      
+REMARK   3  OTHER REFINEMENT REMARKS: ISOTROPIC THERMAL FACTOR RESTRAINTS:      
+REMARK   3  36. (A**2) FOR MAIN-CHAIN BONDS AND 40.3 (A**2) FOR SIDE-CHAIN      
+REMARK   3  BONDS.                                                              
+REMARK   4                                                                      
+REMARK   4 1BM8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08                         
+REMARK 100                                                                      
+REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.                                
+REMARK 200                                                                      
+REMARK 200 EXPERIMENTAL DETAILS                                                 
+REMARK 200  EXPERIMENT TYPE                : X-RAY DIFFRACTION                  
+REMARK 200  DATE OF DATA COLLECTION        : JUN-96                             
+REMARK 200  TEMPERATURE           (KELVIN) : 289                                
+REMARK 200  PH                             : 8.0                                
+REMARK 200  NUMBER OF CRYSTALS USED        : 3                                  
+REMARK 200                                                                      
+REMARK 200  SYNCHROTRON              (Y/N) : Y                                  
+REMARK 200  RADIATION SOURCE               : NSLS                               
+REMARK 200  BEAMLINE                       : X12C                               
+REMARK 200  X-RAY GENERATOR MODEL          : NULL                               
+REMARK 200  MONOCHROMATIC OR LAUE    (M/L) : M                                  
+REMARK 200  WAVELENGTH OR RANGE        (A) : 0.96                               
+REMARK 200  MONOCHROMATOR                  : NI FILTER                          
+REMARK 200  OPTICS                         : MIRRORS                            
+REMARK 200                                                                      
+REMARK 200  DETECTOR TYPE                  : IMAGE PLATE                        
+REMARK 200  DETECTOR MANUFACTURER          : RIGAKU RAXIS IIC                   
+REMARK 200  INTENSITY-INTEGRATION SOFTWARE : DENZO                              
+REMARK 200  DATA SCALING SOFTWARE          : SCALEPACK                          
+REMARK 200                                                                      
+REMARK 200  NUMBER OF UNIQUE REFLECTIONS   : 12811                              
+REMARK 200  RESOLUTION RANGE HIGH      (A) : 1.700                              
+REMARK 200  RESOLUTION RANGE LOW       (A) : 30.000                             
+REMARK 200  REJECTION CRITERIA  (SIGMA(I)) : -3.000                             
+REMARK 200                                                                      
+REMARK 200 OVERALL.                                                             
+REMARK 200  COMPLETENESS FOR RANGE     (%) : 93.6                               
+REMARK 200  DATA REDUNDANCY                : 5.300                              
+REMARK 200  R MERGE                    (I) : 0.05200                            
+REMARK 200  R SYM                      (I) : NULL                               
+REMARK 200   FOR THE DATA SET  : 11.4000                            
+REMARK 200                                                                      
+REMARK 200 IN THE HIGHEST RESOLUTION SHELL.                                     
+REMARK 200  HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.71                     
+REMARK 200  HIGHEST RESOLUTION SHELL, RANGE LOW  (A) : 1.78                     
+REMARK 200  COMPLETENESS FOR SHELL     (%) : 34.0                               
+REMARK 200  DATA REDUNDANCY IN SHELL       : NULL                               
+REMARK 200  R MERGE FOR SHELL          (I) : NULL                               
+REMARK 200  R SYM FOR SHELL            (I) : NULL                               
+REMARK 200   FOR SHELL         : NULL                               
+REMARK 200                                                                      
+REMARK 200 DIFFRACTION PROTOCOL: NULL                                           
+REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL                         
+REMARK 200 SOFTWARE USED: PHASES                                                
+REMARK 200 STARTING MODEL: NULL                                                 
+REMARK 200                                                                      
+REMARK 200 REMARK: NULL                                                         
+REMARK 280                                                                      
+REMARK 280 CRYSTAL                                                              
+REMARK 280 SOLVENT CONTENT, VS   (%): 34.00                                     
+REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.85                     
+REMARK 280                                                                      
+REMARK 280 CRYSTALLIZATION CONDITIONS: PH 8.0                                   
+REMARK 290                                                                      
+REMARK 290 CRYSTALLOGRAPHIC SYMMETRY                                            
+REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2                        
+REMARK 290                                                                      
+REMARK 290      SYMOP   SYMMETRY                                                
+REMARK 290     NNNMMM   OPERATOR                                                
+REMARK 290       1555   X,Y,Z                                                   
+REMARK 290       2555   -X,-Y,Z+1/2                                             
+REMARK 290       3555   -Y+1/2,X+1/2,Z+1/4                                      
+REMARK 290       4555   Y+1/2,-X+1/2,Z+3/4                                      
+REMARK 290       5555   -X+1/2,Y+1/2,-Z+1/4                                     
+REMARK 290       6555   X+1/2,-Y+1/2,-Z+3/4                                     
+REMARK 290       7555   Y,X,-Z                                                  
+REMARK 290       8555   -Y,-X,-Z+1/2                                            
+REMARK 290                                                                      
+REMARK 290     WHERE NNN -> OPERATOR NUMBER                                     
+REMARK 290           MMM -> TRANSLATION VECTOR                                  
+REMARK 290                                                                      
+REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS                            
+REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM             
+REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY                
+REMARK 290 RELATED MOLECULES.                                                   
+REMARK 290   SMTRY1   1  1.000000  0.000000  0.000000        0.00000            
+REMARK 290   SMTRY2   1  0.000000  1.000000  0.000000        0.00000            
+REMARK 290   SMTRY3   1  0.000000  0.000000  1.000000        0.00000            
+REMARK 290   SMTRY1   2 -1.000000  0.000000  0.000000        0.00000            
+REMARK 290   SMTRY2   2  0.000000 -1.000000  0.000000        0.00000            
+REMARK 290   SMTRY3   2  0.000000  0.000000  1.000000       62.11000            
+REMARK 290   SMTRY1   3  0.000000 -1.000000  0.000000       21.67500            
+REMARK 290   SMTRY2   3  1.000000  0.000000  0.000000       21.67500            
+REMARK 290   SMTRY3   3  0.000000  0.000000  1.000000       31.05500            
+REMARK 290   SMTRY1   4  0.000000  1.000000  0.000000       21.67500            
+REMARK 290   SMTRY2   4 -1.000000  0.000000  0.000000       21.67500            
+REMARK 290   SMTRY3   4  0.000000  0.000000  1.000000       93.16500            
+REMARK 290   SMTRY1   5 -1.000000  0.000000  0.000000       21.67500            
+REMARK 290   SMTRY2   5  0.000000  1.000000  0.000000       21.67500            
+REMARK 290   SMTRY3   5  0.000000  0.000000 -1.000000       31.05500            
+REMARK 290   SMTRY1   6  1.000000  0.000000  0.000000       21.67500            
+REMARK 290   SMTRY2   6  0.000000 -1.000000  0.000000       21.67500            
+REMARK 290   SMTRY3   6  0.000000  0.000000 -1.000000       93.16500            
+REMARK 290   SMTRY1   7  0.000000  1.000000  0.000000        0.00000            
+REMARK 290   SMTRY2   7  1.000000  0.000000  0.000000        0.00000            
+REMARK 290   SMTRY3   7  0.000000  0.000000 -1.000000        0.00000            
+REMARK 290   SMTRY1   8  0.000000 -1.000000  0.000000        0.00000            
+REMARK 290   SMTRY2   8 -1.000000  0.000000  0.000000        0.00000            
+REMARK 290   SMTRY3   8  0.000000  0.000000 -1.000000       62.11000            
+REMARK 290                                                                      
+REMARK 290 REMARK: NULL                                                         
+REMARK 300                                                                      
+REMARK 300 BIOMOLECULE: 1                                                       
+REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM                
+REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN                  
+REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON               
+REMARK 300 BURIED SURFACE AREA.                                                 
+REMARK 350                                                                      
+REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN           
+REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE                
+REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS          
+REMARK 350 GIVEN BELOW.  BOTH NON-CRYSTALLOGRAPHIC AND                          
+REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN.                               
+REMARK 350                                                                      
+REMARK 350 BIOMOLECULE: 1                                                       
+REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC                         
+REMARK 350 APPLY THE FOLLOWING TO CHAINS: A                                     
+REMARK 350   BIOMT1   1  1.000000  0.000000  0.000000        0.00000            
+REMARK 350   BIOMT2   1  0.000000  1.000000  0.000000        0.00000            
+REMARK 350   BIOMT3   1  0.000000  0.000000  1.000000        0.00000            
+REMARK 525                                                                      
+REMARK 525 SOLVENT                                                              
+REMARK 525                                                                      
+REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT                    
+REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST                  
+REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT                 
+REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE                       
+REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER;                             
+REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE                  
+REMARK 525 NUMBER; I=INSERTION CODE):                                           
+REMARK 525                                                                      
+REMARK 525  M RES CSSEQI                                                        
+REMARK 525    HOH A 459        DISTANCE =  6.67 ANGSTROMS                       
+REMARK 525    HOH A 473        DISTANCE =  6.70 ANGSTROMS                       
+DBREF  1BM8 A    4   102  UNP    P39678   MBP1_YEAST       4    102             
+SEQRES   1 A   99  GLN ILE TYR SER ALA ARG TYR SER GLY VAL ASP VAL TYR          
+SEQRES   2 A   99  GLU PHE ILE HIS SER THR GLY SER ILE MET LYS ARG LYS          
+SEQRES   3 A   99  LYS ASP ASP TRP VAL ASN ALA THR HIS ILE LEU LYS ALA          
+SEQRES   4 A   99  ALA ASN PHE ALA LYS ALA LYS ARG THR ARG ILE LEU GLU          
+SEQRES   5 A   99  LYS GLU VAL LEU LYS GLU THR HIS GLU LYS VAL GLN GLY          
+SEQRES   6 A   99  GLY PHE GLY LYS TYR GLN GLY THR TRP VAL PRO LEU ASN          
+SEQRES   7 A   99  ILE ALA LYS GLN LEU ALA GLU LYS PHE SER VAL TYR ASP          
+SEQRES   8 A   99  GLN LEU LYS PRO LEU PHE ASP PHE                              
+FORMUL   2  HOH   *83(H2 O)                                                     
+HELIX    1   1 ALA A   36  ALA A   42  1                                   7    
+HELIX    2   2 LYS A   47  GLU A   57  1                                  11    
+HELIX    3   3 LEU A   80  LYS A   89  1                                  10    
+HELIX    4   4 TYR A   93  PHE A  100  1                                   8    
+SHEET    1   A 3 ILE A   5  TYR A  10  0                                        
+SHEET    2   A 3 VAL A  13  ILE A  19 -1  N  GLU A  17   O  TYR A   6           
+SHEET    3   A 3 SER A  24  ARG A  28 -1  N  LYS A  27   O  TYR A  16           
+SHEET    1   B 2 GLU A  64  VAL A  66  0                                        
+SHEET    2   B 2 GLY A  75  TRP A  77 -1  N  TRP A  77   O  GLU A  64           
+CRYST1   43.350   43.350  124.220  90.00  90.00  90.00 P 41 21 2     8          
+ORIGX1      1.000000  0.000000  0.000000        0.00000                         
+ORIGX2      0.000000  1.000000  0.000000        0.00000                         
+ORIGX3      0.000000  0.000000  1.000000        0.00000                         
+SCALE1      0.023068  0.000000  0.000000        0.00000                         
+SCALE2      0.000000  0.023068  0.000000        0.00000                         
+SCALE3      0.000000  0.000000  0.008050        0.00000                         
+ATOM      1  N   GLN A   4      -0.991   4.920  14.982  1.00 52.28           N  
+ATOM      2  CA  GLN A   4      -0.575   5.127  16.398  1.00 51.22           C  
+ATOM      3  C   GLN A   4       0.344   6.335  16.538  1.00 48.16           C  
+ATOM      4  O   GLN A   4       0.893   6.823  15.540  1.00 46.43           O  
+ATOM      5  CB  GLN A   4       0.121   3.877  16.961  1.00 53.87           C  
+ATOM      6  CG  GLN A   4      -0.797   3.008  17.820  1.00 57.21           C  
+ATOM      7  CD  GLN A   4      -0.029   2.066  18.730  1.00 60.18           C  
+ATOM      8  OE1 GLN A   4       1.135   2.325  19.071  1.00 61.12           O  
+ATOM      9  NE2 GLN A   4      -0.673   0.970  19.131  1.00 61.27           N  
+ATOM     10  H1  GLN A   4      -1.493   5.767  14.644  1.00  0.00           H  
+ATOM     11  H2  GLN A   4      -0.148   4.764  14.393  1.00  0.00           H  
+ATOM     12  H3  GLN A   4      -1.618   4.097  14.918  1.00  0.00           H  
+ATOM     13 HE21 GLN A   4      -0.200   0.339  19.714  1.00  0.00           H  
+ATOM     14 HE22 GLN A   4      -1.594   0.835  18.832  1.00  0.00           H  
+ATOM     15  N   ILE A   5       0.487   6.801  17.778  1.00 44.78           N  
+ATOM     16  CA  ILE A   5       1.300   7.959  18.076  1.00 42.51           C  
+ATOM     17  C   ILE A   5       2.358   7.589  19.087  1.00 40.28           C  
+ATOM     18  O   ILE A   5       2.041   7.137  20.170  1.00 41.33           O  
+ATOM     19  CB  ILE A   5       0.424   9.104  18.631  1.00 42.76           C  
+ATOM     20  CG1 ILE A   5      -0.582   9.523  17.557  1.00 44.06           C  
+ATOM     21  CG2 ILE A   5       1.281  10.293  19.056  1.00 43.55           C  
+ATOM     22  CD1 ILE A   5      -1.471  10.684  17.936  1.00 43.93           C  
+ATOM     23  H   ILE A   5       0.039   6.338  18.519  1.00  0.00           H  
+ATOM     24  N   TYR A   6       3.607   7.754  18.720  1.00 38.87           N  
+ATOM     25  CA  TYR A   6       4.710   7.452  19.621  1.00 38.04           C  
+ATOM     26  C   TYR A   6       5.273   8.733  20.218  1.00 34.53           C  
+ATOM     27  O   TYR A   6       5.170   9.805  19.650  1.00 33.71           O  
+ATOM     28  CB  TYR A   6       5.892   6.794  18.889  1.00 42.49           C  
+ATOM     29  CG  TYR A   6       5.619   5.559  18.078  1.00 49.90           C  
+ATOM     30  CD1 TYR A   6       4.759   4.551  18.520  1.00 52.40           C  
+ATOM     31  CD2 TYR A   6       6.290   5.367  16.884  1.00 53.52           C  
+ATOM     32  CE1 TYR A   6       4.603   3.377  17.787  1.00 56.29           C  
+ATOM     33  CE2 TYR A   6       6.148   4.208  16.144  1.00 56.87           C  
+ATOM     34  CZ  TYR A   6       5.307   3.211  16.595  1.00 58.22           C  
+ATOM     35  OH  TYR A   6       5.213   2.023  15.883  1.00 62.12           O  
+ATOM     36  H   TYR A   6       3.803   8.092  17.823  1.00  0.00           H  
+ATOM     37  HH  TYR A   6       4.525   1.471  16.264  1.00  0.00           H  
+ATOM     38  N   SER A   7       5.887   8.595  21.343  1.00 29.82           N  
+ATOM     39  CA  SER A   7       6.641   9.658  21.907  1.00 27.41           C  
+ATOM     40  C   SER A   7       8.065   9.484  21.365  1.00 25.27           C  
+ATOM     41  O   SER A   7       8.573   8.364  21.336  1.00 24.52           O  
+ATOM     42  CB  SER A   7       6.604   9.491  23.411  1.00 27.69           C  
+ATOM     43  OG  SER A   7       7.393  10.446  24.052  1.00 34.18           O  
+ATOM     44  H   SER A   7       5.839   7.737  21.817  1.00  0.00           H  
+ATOM     45  HG  SER A   7       8.257  10.478  23.644  1.00  0.00           H  
+ATOM     46  N   ALA A   8       8.709  10.555  20.901  1.00 23.35           N  
+ATOM     47  CA  ALA A   8      10.071  10.423  20.364  1.00 20.99           C  
+ATOM     48  C   ALA A   8      10.887  11.696  20.574  1.00 21.47           C  
+ATOM     49  O   ALA A   8      10.370  12.693  21.084  1.00 21.33           O  
+ATOM     50  CB  ALA A   8      10.016  10.075  18.875  1.00 20.24           C  
+ATOM     51  H   ALA A   8       8.274  11.435  20.918  1.00  0.00           H  
+ATOM     52  N   ARG A   9      12.163  11.644  20.207  1.00 21.36           N  
+ATOM     53  CA  ARG A   9      13.054  12.817  20.318  1.00 23.94           C  
+ATOM     54  C   ARG A   9      14.026  12.854  19.153  1.00 24.02           C  
+ATOM     55  O   ARG A   9      14.629  11.831  18.835  1.00 22.48           O  
+ATOM     56  CB  ARG A   9      13.864  12.818  21.615  1.00 24.91           C  
+ATOM     57  CG  ARG A   9      14.921  13.922  21.647  1.00 28.68           C  
+ATOM     58  CD  ARG A   9      15.735  13.904  22.931  1.00 31.98           C  
+ATOM     59  NE  ARG A   9      14.979  14.426  24.042  1.00 35.74           N  
+ATOM     60  CZ  ARG A   9      15.234  15.602  24.583  1.00 37.58           C  
+ATOM     61  NH1 ARG A   9      16.262  16.324  24.162  1.00 38.78           N  
+ATOM     62  NH2 ARG A   9      14.475  16.048  25.571  1.00 40.26           N  
+ATOM     63  H   ARG A   9      12.518  10.810  19.832  1.00  0.00           H  
+ATOM     64  HE  ARG A   9      14.250  13.885  24.413  1.00  0.00           H  
+ATOM     65 HH11 ARG A   9      16.855  15.976  23.436  1.00  0.00           H  
+ATOM     66 HH12 ARG A   9      16.446  17.220  24.568  1.00  0.00           H  
+ATOM     67 HH21 ARG A   9      13.711  15.495  25.906  1.00  0.00           H  
+ATOM     68 HH22 ARG A   9      14.657  16.944  25.977  1.00  0.00           H  
+ATOM     69  N   TYR A  10      14.154  14.035  18.532  1.00 24.15           N  
+ATOM     70  CA  TYR A  10      15.034  14.236  17.379  1.00 26.92           C  
+ATOM     71  C   TYR A  10      15.730  15.585  17.504  1.00 28.93           C  
+ATOM     72  O   TYR A  10      15.085  16.571  17.814  1.00 29.46           O  
+ATOM     73  CB  TYR A  10      14.234  14.252  16.072  1.00 23.90           C  
+ATOM     74  CG  TYR A  10      13.510  12.977  15.778  1.00 24.39           C  
+ATOM     75  CD1 TYR A  10      14.171  11.907  15.185  1.00 25.27           C  
+ATOM     76  CD2 TYR A  10      12.174  12.813  16.148  1.00 25.41           C  
+ATOM     77  CE1 TYR A  10      13.521  10.695  14.967  1.00 27.01           C  
+ATOM     78  CE2 TYR A  10      11.520  11.609  15.936  1.00 27.17           C  
+ATOM     79  CZ  TYR A  10      12.196  10.556  15.346  1.00 26.47           C  
+ATOM     80  OH  TYR A  10      11.540   9.379  15.101  1.00 27.96           O  
+ATOM     81  H   TYR A  10      13.640  14.801  18.866  1.00  0.00           H  
+ATOM     82  HH  TYR A  10      12.100   8.804  14.574  1.00  0.00           H  
+ATOM     83  N   SER A  11      17.029  15.630  17.266  1.00 30.98           N  
+ATOM     84  CA  SER A  11      17.751  16.893  17.349  1.00 32.54           C  
+ATOM     85  C   SER A  11      17.509  17.599  18.695  1.00 32.28           C  
+ATOM     86  O   SER A  11      17.377  18.827  18.737  1.00 33.57           O  
+ATOM     87  CB  SER A  11      17.299  17.821  16.212  1.00 34.50           C  
+ATOM     88  OG  SER A  11      17.469  17.220  14.934  1.00 39.12           O  
+ATOM     89  H   SER A  11      17.508  14.810  17.019  1.00  0.00           H  
+ATOM     90  HG  SER A  11      18.388  16.968  14.813  1.00  0.00           H  
+ATOM     91  N   GLY A  12      17.410  16.826  19.780  1.00 30.27           N  
+ATOM     92  CA  GLY A  12      17.187  17.403  21.099  1.00 27.72           C  
+ATOM     93  C   GLY A  12      15.760  17.867  21.361  1.00 26.67           C  
+ATOM     94  O   GLY A  12      15.474  18.436  22.414  1.00 28.11           O  
+ATOM     95  H   GLY A  12      17.494  15.856  19.690  1.00  0.00           H  
+ATOM     96  N   VAL A  13      14.855  17.590  20.434  1.00 25.00           N  
+ATOM     97  CA  VAL A  13      13.459  18.045  20.539  1.00 22.39           C  
+ATOM     98  C   VAL A  13      12.471  16.877  20.723  1.00 22.62           C  
+ATOM     99  O   VAL A  13      12.494  15.913  19.959  1.00 21.65           O  
+ATOM    100  CB  VAL A  13      13.075  18.819  19.253  1.00 21.97           C  
+ATOM    101  CG1 VAL A  13      11.652  19.334  19.343  1.00 18.81           C  
+ATOM    102  CG2 VAL A  13      14.057  19.964  19.042  1.00 22.24           C  
+ATOM    103  H   VAL A  13      15.123  17.070  19.648  1.00  0.00           H  
+ATOM    104  N   ASP A  14      11.617  16.976  21.734  1.00 21.41           N  
+ATOM    105  CA  ASP A  14      10.622  15.950  22.003  1.00 21.86           C  
+ATOM    106  C   ASP A  14       9.377  16.206  21.197  1.00 21.71           C  
+ATOM    107  O   ASP A  14       8.837  17.312  21.204  1.00 20.60           O  
+ATOM    108  CB  ASP A  14      10.237  15.913  23.494  1.00 24.96           C  
+ATOM    109  CG  ASP A  14      11.414  15.636  24.396  1.00 25.52           C  
+ATOM    110  OD1 ASP A  14      12.057  14.597  24.232  1.00 27.41           O  
+ATOM    111  OD2 ASP A  14      11.704  16.473  25.257  1.00 30.85           O  
+ATOM    112  H   ASP A  14      11.653  17.765  22.313  1.00  0.00           H  
+ATOM    113  N   VAL A  15       8.897  15.168  20.550  1.00 21.11           N  
+ATOM    114  CA  VAL A  15       7.740  15.281  19.686  1.00 20.99           C  
+ATOM    115  C   VAL A  15       6.819  14.096  19.900  1.00 23.45           C  
+ATOM    116  O   VAL A  15       7.178  13.132  20.595  1.00 24.63           O  
+ATOM    117  CB  VAL A  15       8.149  15.282  18.166  1.00 19.89           C  
+ATOM    118  CG1 VAL A  15       9.103  16.420  17.854  1.00 16.46           C  
+ATOM    119  CG2 VAL A  15       8.795  13.934  17.785  1.00 18.59           C  
+ATOM    120  H   VAL A  15       9.323  14.292  20.662  1.00  0.00           H  
+ATOM    121  N   TYR A  16       5.632  14.216  19.339  1.00 24.96           N  
+ATOM    122  CA  TYR A  16       4.726  13.114  19.215  1.00 26.21           C  
+ATOM    123  C   TYR A  16       4.746  12.756  17.744  1.00 26.48           C  
+ATOM    124  O   TYR A  16       4.631  13.643  16.884  1.00 25.01           O  
+ATOM    125  CB  TYR A  16       3.314  13.507  19.644  1.00 29.28           C  
+ATOM    126  CG  TYR A  16       3.170  13.632  21.144  1.00 32.30           C  
+ATOM    127  CD1 TYR A  16       3.375  12.530  21.959  1.00 34.32           C  
+ATOM    128  CD2 TYR A  16       2.859  14.843  21.746  1.00 33.14           C  
+ATOM    129  CE1 TYR A  16       3.272  12.625  23.332  1.00 36.05           C  
+ATOM    130  CE2 TYR A  16       2.755  14.950  23.125  1.00 35.60           C  
+ATOM    131  CZ  TYR A  16       2.962  13.832  23.907  1.00 37.33           C  
+ATOM    132  OH  TYR A  16       2.870  13.922  25.273  1.00 42.80           O  
+ATOM    133  H   TYR A  16       5.364  15.082  18.983  1.00  0.00           H  
+ATOM    134  HH  TYR A  16       3.304  13.159  25.678  1.00  0.00           H  
+ATOM    135  N   GLU A  17       4.950  11.483  17.454  1.00 27.52           N  
+ATOM    136  CA  GLU A  17       5.040  11.030  16.074  1.00 29.95           C  
+ATOM    137  C   GLU A  17       3.841  10.167  15.709  1.00 30.66           C  
+ATOM    138  O   GLU A  17       3.533   9.205  16.390  1.00 27.27           O  
+ATOM    139  CB  GLU A  17       6.349  10.268  15.880  1.00 29.55           C  
+ATOM    140  CG  GLU A  17       6.689   9.958  14.439  1.00 32.47           C  
+ATOM    141  CD  GLU A  17       8.068   9.340  14.291  1.00 34.84           C  
+ATOM    142  OE1 GLU A  17       8.917   9.552  15.182  1.00 36.30           O  
+ATOM    143  OE2 GLU A  17       8.307   8.643  13.282  1.00 38.82           O  
+ATOM    144  H   GLU A  17       5.048  10.834  18.179  1.00  0.00           H  
+ATOM    145  N   PHE A  18       3.157  10.574  14.657  1.00 34.09           N  
+ATOM    146  CA  PHE A  18       1.992   9.874  14.154  1.00 38.16           C  
+ATOM    147  C   PHE A  18       2.404   9.093  12.906  1.00 40.68           C  
+ATOM    148  O   PHE A  18       3.066   9.635  12.005  1.00 38.31           O  
+ATOM    149  CB  PHE A  18       0.911  10.908  13.837  1.00 39.21           C  
+ATOM    150  CG  PHE A  18      -0.309  10.396  13.139  1.00 43.44           C  
+ATOM    151  CD1 PHE A  18      -1.285   9.683  13.838  1.00 45.30           C  
+ATOM    152  CD2 PHE A  18      -0.520  10.684  11.789  1.00 45.30           C  
+ATOM    153  CE1 PHE A  18      -2.451   9.269  13.205  1.00 45.73           C  
+ATOM    154  CE2 PHE A  18      -1.682  10.275  11.146  1.00 46.28           C  
+ATOM    155  CZ  PHE A  18      -2.651   9.568  11.854  1.00 46.51           C  
+ATOM    156  H   PHE A  18       3.446  11.386  14.198  1.00  0.00           H  
+ATOM    157  N   ILE A  19       2.060   7.813  12.875  1.00 43.87           N  
+ATOM    158  CA  ILE A  19       2.451   6.970  11.756  1.00 47.64           C  
+ATOM    159  C   ILE A  19       1.361   6.905  10.701  1.00 50.18           C  
+ATOM    160  O   ILE A  19       0.316   6.280  10.907  1.00 50.83           O  
+ATOM    161  CB  ILE A  19       2.787   5.548  12.208  1.00 48.13           C  
+ATOM    162  CG1 ILE A  19       3.734   5.597  13.406  1.00 49.26           C  
+ATOM    163  CG2 ILE A  19       3.425   4.793  11.061  1.00 48.27           C  
+ATOM    164  CD1 ILE A  19       5.016   6.356  13.140  1.00 51.27           C  
+ATOM    165  H   ILE A  19       1.535   7.436  13.609  1.00  0.00           H  
+ATOM    166  N   HIS A  20       1.623   7.574   9.587  1.00 52.47           N  
+ATOM    167  CA  HIS A  20       0.710   7.602   8.461  1.00 54.63           C  
+ATOM    168  C   HIS A  20       1.325   6.738   7.359  1.00 54.62           C  
+ATOM    169  O   HIS A  20       2.518   6.415   7.424  1.00 54.75           O  
+ATOM    170  CB  HIS A  20       0.553   9.056   7.990  1.00 57.40           C  
+ATOM    171  CG  HIS A  20      -0.664   9.340   7.157  1.00 60.64           C  
+ATOM    172  ND1 HIS A  20      -0.604   9.703   5.820  1.00 61.69           N  
+ATOM    173  CD2 HIS A  20      -1.991   9.341   7.470  1.00 61.84           C  
+ATOM    174  CE1 HIS A  20      -1.811   9.917   5.323  1.00 62.25           C  
+ATOM    175  NE2 HIS A  20      -2.653   9.699   6.317  1.00 63.47           N  
+ATOM    176  H   HIS A  20       2.472   8.058   9.517  1.00  0.00           H  
+ATOM    177  HD1 HIS A  20       0.226   9.797   5.306  1.00  0.00           H  
+ATOM    178  HE2 HIS A  20      -3.628   9.768   6.238  1.00  0.00           H  
+ATOM    179  N   SER A  21       0.535   6.358   6.354  1.00 54.36           N  
+ATOM    180  CA  SER A  21       1.057   5.528   5.265  1.00 52.80           C  
+ATOM    181  C   SER A  21       2.204   6.221   4.504  1.00 52.38           C  
+ATOM    182  O   SER A  21       3.242   5.606   4.237  1.00 51.68           O  
+ATOM    183  CB  SER A  21      -0.081   5.142   4.322  1.00 51.54           C  
+ATOM    184  OG  SER A  21      -0.940   6.237   4.107  1.00 51.51           O  
+ATOM    185  H   SER A  21      -0.408   6.625   6.348  1.00  0.00           H  
+ATOM    186  HG  SER A  21      -1.720   5.940   3.628  1.00  0.00           H  
+ATOM    187  N   THR A  22       2.030   7.509   4.195  1.00 52.22           N  
+ATOM    188  CA  THR A  22       3.058   8.284   3.475  1.00 52.84           C  
+ATOM    189  C   THR A  22       4.294   8.548   4.334  1.00 50.76           C  
+ATOM    190  O   THR A  22       5.358   8.913   3.827  1.00 50.70           O  
+ATOM    191  CB  THR A  22       2.503   9.648   3.031  1.00 54.77           C  
+ATOM    192  OG1 THR A  22       1.746  10.224   4.115  1.00 57.43           O  
+ATOM    193  CG2 THR A  22       1.604   9.504   1.816  1.00 56.57           C  
+ATOM    194  H   THR A  22       1.193   7.951   4.445  1.00  0.00           H  
+ATOM    195  HG1 THR A  22       1.603  11.155   3.928  1.00  0.00           H  
+ATOM    196  N   GLY A  23       4.142   8.376   5.635  1.00 49.11           N  
+ATOM    197  CA  GLY A  23       5.238   8.640   6.541  1.00 45.68           C  
+ATOM    198  C   GLY A  23       4.739   9.133   7.876  1.00 43.53           C  
+ATOM    199  O   GLY A  23       3.521   9.157   8.138  1.00 42.97           O  
+ATOM    200  H   GLY A  23       3.287   8.054   5.988  1.00  0.00           H  
+ATOM    201  N   SER A  24       5.655   9.533   8.719  1.00 40.66           N  
+ATOM    202  CA  SER A  24       5.279  10.004  10.026  1.00 38.67           C  
+ATOM    203  C   SER A  24       5.066  11.517  10.046  1.00 36.42           C  
+ATOM    204  O   SER A  24       5.714  12.267   9.291  1.00 34.95           O  
+ATOM    205  CB  SER A  24       6.335   9.598  11.029  1.00 39.09           C  
+ATOM    206  OG  SER A  24       7.622   9.743  10.472  1.00 44.40           O  
+ATOM    207  H   SER A  24       6.597   9.521   8.458  1.00  0.00           H  
+ATOM    208  HG  SER A  24       7.777   9.032   9.837  1.00  0.00           H  
+ATOM    209  N   ILE A  25       4.129  11.946  10.890  1.00 32.56           N  
+ATOM    210  CA  ILE A  25       3.824  13.356  11.064  1.00 29.27           C  
+ATOM    211  C   ILE A  25       4.108  13.725  12.516  1.00 27.24           C  
+ATOM    212  O   ILE A  25       3.698  13.017  13.431  1.00 26.25           O  
+ATOM    213  CB  ILE A  25       2.354  13.628  10.682  1.00 30.38           C  
+ATOM    214  CG1 ILE A  25       2.172  13.204   9.219  1.00 33.50           C  
+ATOM    215  CG2 ILE A  25       2.011  15.105  10.843  1.00 28.01           C  
+ATOM    216  CD1 ILE A  25       0.746  13.027   8.780  1.00 35.33           C  
+ATOM    217  H   ILE A  25       3.628  11.287  11.414  1.00  0.00           H  
+ATOM    218  N   MET A  26       4.821  14.815  12.713  1.00 24.03           N  
+ATOM    219  CA  MET A  26       5.282  15.188  14.040  1.00 22.95           C  
+ATOM    220  C   MET A  26       4.649  16.463  14.576  1.00 23.00           C  
+ATOM    221  O   MET A  26       4.398  17.426  13.832  1.00 19.80           O  
+ATOM    222  CB  MET A  26       6.800  15.397  14.034  1.00 22.54           C  
+ATOM    223  CG  MET A  26       7.632  14.152  13.821  1.00 22.25           C  
+ATOM    224  SD  MET A  26       9.393  14.520  13.783  1.00 27.59           S  
+ATOM    225  CE  MET A  26      10.026  13.008  13.046  1.00 27.15           C  
+ATOM    226  H   MET A  26       5.012  15.401  11.961  1.00  0.00           H  
+ATOM    227  N   LYS A  27       4.443  16.453  15.891  1.00 23.73           N  
+ATOM    228  CA  LYS A  27       3.998  17.625  16.632  1.00 23.46           C  
+ATOM    229  C   LYS A  27       4.942  17.793  17.828  1.00 22.79           C  
+ATOM    230  O   LYS A  27       5.244  16.813  18.522  1.00 22.50           O  
+ATOM    231  CB  LYS A  27       2.550  17.459  17.133  1.00 24.99           C  
+ATOM    232  CG  LYS A  27       2.055  18.665  17.923  1.00 27.08           C  
+ATOM    233  CD  LYS A  27       0.574  18.594  18.223  1.00 29.52           C  
+ATOM    234  CE  LYS A  27       0.272  17.523  19.243  1.00 32.06           C  
+ATOM    235  NZ  LYS A  27      -1.178  17.499  19.580  1.00 35.59           N  
+ATOM    236  H   LYS A  27       4.599  15.620  16.384  1.00  0.00           H  
+ATOM    237  HZ1 LYS A  27      -1.732  17.319  18.719  1.00  0.00           H  
+ATOM    238  HZ2 LYS A  27      -1.359  16.745  20.272  1.00  0.00           H  
+ATOM    239  HZ3 LYS A  27      -1.452  18.414  19.986  1.00  0.00           H  
+ATOM    240  N   ARG A  28       5.455  19.003  18.033  1.00 21.34           N  
+ATOM    241  CA  ARG A  28       6.361  19.253  19.141  1.00 21.22           C  
+ATOM    242  C   ARG A  28       5.615  19.292  20.464  1.00 20.99           C  
+ATOM    243  O   ARG A  28       4.534  19.902  20.557  1.00 20.62           O  
+ATOM    244  CB  ARG A  28       7.090  20.582  18.971  1.00 20.55           C  
+ATOM    245  CG  ARG A  28       8.119  20.580  17.884  1.00 23.75           C  
+ATOM    246  CD  ARG A  28       9.092  21.725  18.053  1.00 24.37           C  
+ATOM    247  NE  ARG A  28       8.452  23.024  17.897  1.00 22.21           N  
+ATOM    248  CZ  ARG A  28       8.906  23.947  17.062  1.00 22.16           C  
+ATOM    249  NH1 ARG A  28       9.932  23.686  16.260  1.00 21.40           N  
+ATOM    250  NH2 ARG A  28       8.314  25.124  17.006  1.00 22.10           N  
+ATOM    251  H   ARG A  28       5.216  19.737  17.429  1.00  0.00           H  
+ATOM    252  HE  ARG A  28       7.659  23.223  18.432  1.00  0.00           H  
+ATOM    253 HH11 ARG A  28      10.372  22.788  16.284  1.00  0.00           H  
+ATOM    254 HH12 ARG A  28      10.278  24.394  15.642  1.00  0.00           H  
+ATOM    255 HH21 ARG A  28       7.520  25.312  17.581  1.00  0.00           H  
+ATOM    256 HH22 ARG A  28       8.657  25.824  16.379  1.00  0.00           H  
+ATOM    257  N   LYS A  29       6.215  18.701  21.488  1.00 20.40           N  
+ATOM    258  CA  LYS A  29       5.601  18.678  22.813  1.00 22.71           C  
+ATOM    259  C   LYS A  29       5.623  20.043  23.491  1.00 22.45           C  
+ATOM    260  O   LYS A  29       4.669  20.397  24.190  1.00 21.87           O  
+ATOM    261  CB  LYS A  29       6.298  17.668  23.723  1.00 25.87           C  
+ATOM    262  CG  LYS A  29       6.214  16.228  23.225  1.00 31.52           C  
+ATOM    263  CD  LYS A  29       6.749  15.268  24.259  1.00 32.96           C  
+ATOM    264  CE  LYS A  29       6.701  13.831  23.781  1.00 33.83           C  
+ATOM    265  NZ  LYS A  29       7.106  12.908  24.868  1.00 35.21           N  
+ATOM    266  H   LYS A  29       7.088  18.274  21.356  1.00  0.00           H  
+ATOM    267  HZ1 LYS A  29       6.552  13.117  25.721  1.00  0.00           H  
+ATOM    268  HZ2 LYS A  29       6.929  11.933  24.575  1.00  0.00           H  
+ATOM    269  HZ3 LYS A  29       8.116  13.033  25.071  1.00  0.00           H  
+ATOM    270  N   LYS A  30       6.693  20.822  23.275  1.00 21.91           N  
+ATOM    271  CA  LYS A  30       6.818  22.108  23.970  1.00 22.50           C  
+ATOM    272  C   LYS A  30       5.797  23.154  23.535  1.00 22.00           C  
+ATOM    273  O   LYS A  30       5.348  23.925  24.374  1.00 21.27           O  
+ATOM    274  CB  LYS A  30       8.230  22.683  23.839  1.00 23.91           C  
+ATOM    275  CG  LYS A  30       8.602  23.159  22.448  1.00 30.91           C  
+ATOM    276  CD  LYS A  30      10.047  23.652  22.422  1.00 35.19           C  
+ATOM    277  CE  LYS A  30      10.510  24.019  21.007  1.00 36.53           C  
+ATOM    278  NZ  LYS A  30       9.871  25.274  20.519  1.00 36.17           N  
+ATOM    279  H   LYS A  30       7.397  20.528  22.662  1.00  0.00           H  
+ATOM    280  HZ1 LYS A  30       8.838  25.181  20.585  1.00  0.00           H  
+ATOM    281  HZ2 LYS A  30      10.185  26.073  21.106  1.00  0.00           H  
+ATOM    282  HZ3 LYS A  30      10.142  25.441  19.531  1.00  0.00           H  
+ATOM    283  N   ASP A  31       5.401  23.183  22.245  1.00 18.95           N  
+ATOM    284  CA  ASP A  31       4.499  24.232  21.794  1.00 20.45           C  
+ATOM    285  C   ASP A  31       3.382  23.785  20.872  1.00 21.56           C  
+ATOM    286  O   ASP A  31       2.634  24.636  20.361  1.00 23.45           O  
+ATOM    287  CB  ASP A  31       5.298  25.339  21.113  1.00 21.42           C  
+ATOM    288  CG  ASP A  31       6.231  24.825  20.027  1.00 26.39           C  
+ATOM    289  OD1 ASP A  31       6.013  23.695  19.518  1.00 25.20           O  
+ATOM    290  OD2 ASP A  31       7.181  25.546  19.686  1.00 24.41           O  
+ATOM    291  H   ASP A  31       5.715  22.499  21.621  1.00  0.00           H  
+ATOM    292  N   ASP A  32       3.265  22.484  20.634  1.00 21.07           N  
+ATOM    293  CA  ASP A  32       2.221  21.961  19.749  1.00 21.22           C  
+ATOM    294  C   ASP A  32       2.374  22.381  18.293  1.00 20.57           C  
+ATOM    295  O   ASP A  32       1.426  22.253  17.511  1.00 22.37           O  
+ATOM    296  CB  ASP A  32       0.809  22.358  20.226  1.00 23.08           C  
+ATOM    297  CG  ASP A  32       0.375  21.651  21.495  1.00 25.24           C  
+ATOM    298  OD1 ASP A  32       1.027  20.663  21.882  1.00 26.63           O  
+ATOM    299  OD2 ASP A  32      -0.615  22.083  22.104  1.00 26.97           O  
+ATOM    300  H   ASP A  32       3.881  21.858  21.068  1.00  0.00           H  
+ATOM    301  N   TRP A  33       3.525  22.886  17.903  1.00 18.75           N  
+ATOM    302  CA  TRP A  33       3.708  23.213  16.488  1.00 20.17           C  
+ATOM    303  C   TRP A  33       3.768  21.917  15.706  1.00 20.21           C  
+ATOM    304  O   TRP A  33       4.182  20.893  16.259  1.00 20.80           O  
+ATOM    305  CB  TRP A  33       4.991  24.009  16.266  1.00 20.31           C  
+ATOM    306  CG  TRP A  33       4.872  25.450  16.661  1.00 22.77           C  
+ATOM    307  CD1 TRP A  33       4.129  25.972  17.696  1.00 23.36           C  
+ATOM    308  CD2 TRP A  33       5.470  26.570  15.984  1.00 23.95           C  
+ATOM    309  NE1 TRP A  33       4.240  27.334  17.673  1.00 22.96           N  
+ATOM    310  CE2 TRP A  33       5.046  27.743  16.657  1.00 22.56           C  
+ATOM    311  CE3 TRP A  33       6.318  26.696  14.877  1.00 22.29           C  
+ATOM    312  CZ2 TRP A  33       5.442  29.023  16.257  1.00 24.90           C  
+ATOM    313  CZ3 TRP A  33       6.702  27.969  14.481  1.00 25.00           C  
+ATOM    314  CH2 TRP A  33       6.268  29.117  15.169  1.00 24.02           C  
+ATOM    315  H   TRP A  33       4.245  23.030  18.542  1.00  0.00           H  
+ATOM    316  HE1 TRP A  33       3.780  27.938  18.295  1.00  0.00           H  
+ATOM    317  N   VAL A  34       3.368  21.950  14.440  1.00 20.68           N  
+ATOM    318  CA  VAL A  34       3.355  20.734  13.613  1.00 18.96           C  
+ATOM    319  C   VAL A  34       4.219  20.947  12.371  1.00 20.18           C  
+ATOM    320  O   VAL A  34       4.331  22.074  11.871  1.00 18.53           O  
+ATOM    321  CB  VAL A  34       1.892  20.385  13.183  1.00 20.63           C  
+ATOM    322  CG1 VAL A  34       1.843  19.102  12.349  1.00 17.40           C  
+ATOM    323  CG2 VAL A  34       1.006  20.252  14.422  1.00 19.03           C  
+ATOM    324  H   VAL A  34       3.075  22.803  14.050  1.00  0.00           H  
+ATOM    325  N   ASN A  35       4.858  19.876  11.891  1.00 18.57           N  
+ATOM    326  CA  ASN A  35       5.684  19.962  10.692  1.00 18.84           C  
+ATOM    327  C   ASN A  35       4.771  20.026   9.459  1.00 19.27           C  
+ATOM    328  O   ASN A  35       4.149  19.040   9.101  1.00 20.41           O  
+ATOM    329  CB  ASN A  35       6.607  18.737  10.627  1.00 18.29           C  
+ATOM    330  CG  ASN A  35       7.711  18.858   9.586  1.00 19.87           C  
+ATOM    331  OD1 ASN A  35       7.497  19.373   8.481  1.00 23.76           O  
+ATOM    332  ND2 ASN A  35       8.909  18.410   9.922  1.00 17.21           N  
+ATOM    333  H   ASN A  35       4.769  19.017  12.356  1.00  0.00           H  
+ATOM    334  N   ALA A  36       4.686  21.185   8.820  1.00 18.30           N  
+ATOM    335  CA  ALA A  36       3.779  21.366   7.681  1.00 20.19           C  
+ATOM    336  C   ALA A  36       4.218  20.577   6.451  1.00 20.67           C  
+ATOM    337  O   ALA A  36       3.395  20.256   5.596  1.00 21.70           O  
+ATOM    338  CB  ALA A  36       3.662  22.854   7.326  1.00 20.68           C  
+ATOM    339  H   ALA A  36       5.227  21.939   9.126  1.00  0.00           H  
+ATOM    340  N   THR A  37       5.520  20.304   6.337  1.00 20.05           N  
+ATOM    341  CA  THR A  37       6.027  19.490   5.233  1.00 21.46           C  
+ATOM    342  C   THR A  37       5.430  18.061   5.316  1.00 23.26           C  
+ATOM    343  O   THR A  37       5.035  17.455   4.301  1.00 22.30           O  
+ATOM    344  CB  THR A  37       7.565  19.411   5.296  1.00 22.61           C  
+ATOM    345  OG1 THR A  37       8.110  20.735   5.383  1.00 21.49           O  
+ATOM    346  CG2 THR A  37       8.117  18.703   4.063  1.00 24.86           C  
+ATOM    347  H   THR A  37       6.144  20.670   6.994  1.00  0.00           H  
+ATOM    348  HG1 THR A  37       7.816  21.252   4.621  1.00  0.00           H  
+ATOM    349  N   HIS A  38       5.356  17.534   6.551  1.00 22.61           N  
+ATOM    350  CA  HIS A  38       4.747  16.236   6.788  1.00 22.32           C  
+ATOM    351  C   HIS A  38       3.266  16.262   6.404  1.00 23.66           C  
+ATOM    352  O   HIS A  38       2.720  15.268   5.928  1.00 24.58           O  
+ATOM    353  CB  HIS A  38       4.859  15.863   8.257  1.00 20.45           C  
+ATOM    354  CG  HIS A  38       6.246  15.623   8.731  1.00 20.07           C  
+ATOM    355  ND1 HIS A  38       6.563  15.505  10.070  1.00 19.75           N  
+ATOM    356  CD2 HIS A  38       7.419  15.519   8.069  1.00 20.62           C  
+ATOM    357  CE1 HIS A  38       7.858  15.336  10.243  1.00 21.58           C  
+ATOM    358  NE2 HIS A  38       8.380  15.347   9.033  1.00 21.07           N  
+ATOM    359  H   HIS A  38       5.719  18.035   7.308  1.00  0.00           H  
+ATOM    360  HD1 HIS A  38       5.914  15.546  10.794  1.00  0.00           H  
+ATOM    361  HE2 HIS A  38       9.344  15.267   8.845  1.00  0.00           H  
+ATOM    362  N   ILE A  39       2.600  17.377   6.659  1.00 22.79           N  
+ATOM    363  CA  ILE A  39       1.189  17.509   6.277  1.00 25.79           C  
+ATOM    364  C   ILE A  39       1.049  17.441   4.739  1.00 27.01           C  
+ATOM    365  O   ILE A  39       0.113  16.832   4.209  1.00 27.50           O  
+ATOM    366  CB  ILE A  39       0.593  18.857   6.784  1.00 25.78           C  
+ATOM    367  CG1 ILE A  39       0.451  18.822   8.308  1.00 25.82           C  
+ATOM    368  CG2 ILE A  39      -0.753  19.136   6.133  1.00 25.83           C  
+ATOM    369  CD1 ILE A  39      -0.033  20.127   8.900  1.00 26.05           C  
+ATOM    370  H   ILE A  39       3.050  18.121   7.112  1.00  0.00           H  
+ATOM    371  N   LEU A  40       1.986  18.075   4.038  1.00 27.04           N  
+ATOM    372  CA  LEU A  40       1.953  18.101   2.581  1.00 28.05           C  
+ATOM    373  C   LEU A  40       2.329  16.742   1.996  1.00 28.75           C  
+ATOM    374  O   LEU A  40       1.788  16.329   0.960  1.00 29.82           O  
+ATOM    375  CB  LEU A  40       2.879  19.202   2.054  1.00 27.15           C  
+ATOM    376  CG  LEU A  40       2.515  20.627   2.472  1.00 27.87           C  
+ATOM    377  CD1 LEU A  40       3.470  21.612   1.841  1.00 26.87           C  
+ATOM    378  CD2 LEU A  40       1.078  20.936   2.072  1.00 27.13           C  
+ATOM    379  H   LEU A  40       2.709  18.541   4.512  1.00  0.00           H  
+ATOM    380  N   LYS A  41       3.242  16.043   2.643  1.00 29.67           N  
+ATOM    381  CA  LYS A  41       3.570  14.693   2.203  1.00 32.88           C  
+ATOM    382  C   LYS A  41       2.353  13.772   2.380  1.00 32.92           C  
+ATOM    383  O   LYS A  41       2.113  12.887   1.562  1.00 33.65           O  
+ATOM    384  CB  LYS A  41       4.764  14.129   2.980  1.00 35.05           C  
+ATOM    385  CG  LYS A  41       6.078  14.828   2.690  1.00 40.79           C  
+ATOM    386  CD  LYS A  41       7.262  14.033   3.222  1.00 45.43           C  
+ATOM    387  CE  LYS A  41       8.571  14.734   2.889  1.00 49.42           C  
+ATOM    388  NZ  LYS A  41       9.755  13.979   3.371  1.00 52.09           N  
+ATOM    389  H   LYS A  41       3.699  16.431   3.415  1.00  0.00           H  
+ATOM    390  HZ1 LYS A  41       9.699  13.866   4.403  1.00  0.00           H  
+ATOM    391  HZ2 LYS A  41       9.776  13.041   2.920  1.00  0.00           H  
+ATOM    392  HZ3 LYS A  41      10.619  14.502   3.124  1.00  0.00           H  
+ATOM    393  N   ALA A  42       1.581  13.997   3.446  1.00 32.20           N  
+ATOM    394  CA  ALA A  42       0.382  13.209   3.702  1.00 32.15           C  
+ATOM    395  C   ALA A  42      -0.678  13.434   2.618  1.00 33.55           C  
+ATOM    396  O   ALA A  42      -1.459  12.535   2.319  1.00 33.31           O  
+ATOM    397  CB  ALA A  42      -0.179  13.540   5.083  1.00 31.12           C  
+ATOM    398  H   ALA A  42       1.831  14.705   4.078  1.00  0.00           H  
+ATOM    399  N   ALA A  43      -0.704  14.637   2.027  1.00 34.01           N  
+ATOM    400  CA  ALA A  43      -1.639  14.935   0.940  1.00 34.26           C  
+ATOM    401  C   ALA A  43      -1.164  14.317  -0.400  1.00 35.09           C  
+ATOM    402  O   ALA A  43      -1.780  14.532  -1.444  1.00 36.00           O  
+ATOM    403  CB  ALA A  43      -1.812  16.443   0.800  1.00 32.11           C  
+ATOM    404  H   ALA A  43      -0.088  15.334   2.334  1.00  0.00           H  
+ATOM    405  N   ASN A  44      -0.054  13.575  -0.350  1.00 35.94           N  
+ATOM    406  CA  ASN A  44       0.485  12.867  -1.520  1.00 37.87           C  
+ATOM    407  C   ASN A  44       1.070  13.799  -2.591  1.00 36.65           C  
+ATOM    408  O   ASN A  44       1.132  13.449  -3.777  1.00 37.27           O  
+ATOM    409  CB  ASN A  44      -0.587  11.961  -2.122  1.00 41.40           C  
+ATOM    410  CG  ASN A  44      -1.094  10.943  -1.116  1.00 46.56           C  
+ATOM    411  OD1 ASN A  44      -2.261  10.973  -0.701  1.00 49.78           O  
+ATOM    412  ND2 ASN A  44      -0.215  10.039  -0.707  1.00 48.00           N  
+ATOM    413  H   ASN A  44       0.421  13.500   0.500  1.00  0.00           H  
+ATOM    414 HD21 ASN A  44      -0.504   9.368  -0.057  1.00  0.00           H  
+ATOM    415 HD22 ASN A  44       0.693  10.076  -1.076  1.00  0.00           H  
+ATOM    416  N   PHE A  45       1.542  14.961  -2.165  1.00 33.67           N  
+ATOM    417  CA  PHE A  45       2.126  15.914  -3.079  1.00 31.23           C  
+ATOM    418  C   PHE A  45       3.596  15.632  -3.306  1.00 31.80           C  
+ATOM    419  O   PHE A  45       4.332  15.338  -2.381  1.00 32.20           O  
+ATOM    420  CB  PHE A  45       1.945  17.322  -2.540  1.00 31.12           C  
+ATOM    421  CG  PHE A  45       0.517  17.781  -2.553  1.00 33.41           C  
+ATOM    422  CD1 PHE A  45      -0.390  17.273  -3.496  1.00 32.61           C  
+ATOM    423  CD2 PHE A  45       0.076  18.765  -1.663  1.00 33.98           C  
+ATOM    424  CE1 PHE A  45      -1.696  17.732  -3.548  1.00 32.35           C  
+ATOM    425  CE2 PHE A  45      -1.239  19.230  -1.713  1.00 34.17           C  
+ATOM    426  CZ  PHE A  45      -2.122  18.716  -2.658  1.00 33.76           C  
+ATOM    427  H   PHE A  45       1.504  15.175  -1.209  1.00  0.00           H  
+ATOM    428  N   ALA A  46       4.016  15.712  -4.549  1.00 31.48           N  
+ATOM    429  CA  ALA A  46       5.402  15.509  -4.899  1.00 30.26           C  
+ATOM    430  C   ALA A  46       6.235  16.683  -4.414  1.00 30.35           C  
+ATOM    431  O   ALA A  46       5.724  17.782  -4.212  1.00 28.10           O  
+ATOM    432  CB  ALA A  46       5.546  15.368  -6.420  1.00 30.02           C  
+ATOM    433  H   ALA A  46       3.373  15.924  -5.256  1.00  0.00           H  
+ATOM    434  N   LYS A  47       7.531  16.442  -4.304  1.00 32.10           N  
+ATOM    435  CA  LYS A  47       8.483  17.418  -3.792  1.00 32.24           C  
+ATOM    436  C   LYS A  47       8.395  18.800  -4.429  1.00 30.73           C  
+ATOM    437  O   LYS A  47       8.277  19.801  -3.722  1.00 30.50           O  
+ATOM    438  CB  LYS A  47       9.899  16.853  -3.944  1.00 37.40           C  
+ATOM    439  CG  LYS A  47      10.972  17.841  -3.565  1.00 42.56           C  
+ATOM    440  CD  LYS A  47      12.341  17.207  -3.556  1.00 46.91           C  
+ATOM    441  CE  LYS A  47      13.321  18.163  -2.910  1.00 50.20           C  
+ATOM    442  NZ  LYS A  47      12.820  18.645  -1.584  1.00 52.19           N  
+ATOM    443  H   LYS A  47       7.867  15.565  -4.578  1.00  0.00           H  
+ATOM    444  HZ1 LYS A  47      12.666  17.831  -0.956  1.00  0.00           H  
+ATOM    445  HZ2 LYS A  47      13.522  19.283  -1.159  1.00  0.00           H  
+ATOM    446  HZ3 LYS A  47      11.922  19.155  -1.715  1.00  0.00           H  
+ATOM    447  N   ALA A  48       8.475  18.884  -5.757  1.00 29.18           N  
+ATOM    448  CA  ALA A  48       8.416  20.192  -6.406  1.00 27.07           C  
+ATOM    449  C   ALA A  48       7.120  20.934  -6.061  1.00 26.43           C  
+ATOM    450  O   ALA A  48       7.125  22.153  -5.856  1.00 26.30           O  
+ATOM    451  CB  ALA A  48       8.549  20.032  -7.907  1.00 27.43           C  
+ATOM    452  H   ALA A  48       8.573  18.072  -6.295  1.00  0.00           H  
+ATOM    453  N   LYS A  49       6.004  20.204  -5.990  1.00 25.81           N  
+ATOM    454  CA  LYS A  49       4.739  20.835  -5.644  1.00 25.14           C  
+ATOM    455  C   LYS A  49       4.708  21.228  -4.149  1.00 26.02           C  
+ATOM    456  O   LYS A  49       4.271  22.333  -3.807  1.00 26.28           O  
+ATOM    457  CB  LYS A  49       3.557  19.911  -5.998  1.00 23.26           C  
+ATOM    458  CG  LYS A  49       2.204  20.550  -5.749  1.00 21.88           C  
+ATOM    459  CD  LYS A  49       1.068  19.673  -6.205  1.00 21.75           C  
+ATOM    460  CE  LYS A  49      -0.261  20.341  -5.886  1.00 23.25           C  
+ATOM    461  NZ  LYS A  49      -1.431  19.580  -6.417  1.00 25.36           N  
+ATOM    462  H   LYS A  49       6.035  19.244  -6.171  1.00  0.00           H  
+ATOM    463  HZ1 LYS A  49      -1.317  19.440  -7.442  1.00  0.00           H  
+ATOM    464  HZ2 LYS A  49      -1.486  18.656  -5.945  1.00  0.00           H  
+ATOM    465  HZ3 LYS A  49      -2.302  20.115  -6.235  1.00  0.00           H  
+ATOM    466  N   ARG A  50       5.175  20.346  -3.257  1.00 26.65           N  
+ATOM    467  CA  ARG A  50       5.214  20.698  -1.829  1.00 28.25           C  
+ATOM    468  C   ARG A  50       6.004  21.993  -1.639  1.00 29.71           C  
+ATOM    469  O   ARG A  50       5.571  22.889  -0.911  1.00 29.79           O  
+ATOM    470  CB  ARG A  50       5.861  19.596  -0.974  1.00 28.86           C  
+ATOM    471  CG  ARG A  50       5.095  18.281  -0.903  1.00 29.69           C  
+ATOM    472  CD  ARG A  50       5.631  17.384   0.212  1.00 31.10           C  
+ATOM    473  NE  ARG A  50       7.081  17.183   0.132  1.00 33.71           N  
+ATOM    474  CZ  ARG A  50       7.649  16.086  -0.374  1.00 32.93           C  
+ATOM    475  NH1 ARG A  50       6.913  15.086  -0.812  1.00 33.08           N  
+ATOM    476  NH2 ARG A  50       8.962  15.997  -0.433  1.00 34.05           N  
+ATOM    477  H   ARG A  50       5.491  19.468  -3.555  1.00  0.00           H  
+ATOM    478  HE  ARG A  50       7.666  17.894   0.470  1.00  0.00           H  
+ATOM    479 HH11 ARG A  50       5.915  15.141  -0.768  1.00  0.00           H  
+ATOM    480 HH12 ARG A  50       7.351  14.268  -1.183  1.00  0.00           H  
+ATOM    481 HH21 ARG A  50       9.530  16.754  -0.109  1.00  0.00           H  
+ATOM    482 HH22 ARG A  50       9.390  15.182  -0.821  1.00  0.00           H  
+ATOM    483  N   THR A  51       7.156  22.103  -2.293  1.00 30.60           N  
+ATOM    484  CA  THR A  51       7.940  23.328  -2.202  1.00 34.13           C  
+ATOM    485  C   THR A  51       7.126  24.546  -2.664  1.00 36.23           C  
+ATOM    486  O   THR A  51       7.116  25.572  -1.989  1.00 37.79           O  
+ATOM    487  CB  THR A  51       9.229  23.248  -3.045  1.00 34.90           C  
+ATOM    488  OG1 THR A  51      10.012  22.129  -2.618  1.00 37.41           O  
+ATOM    489  CG2 THR A  51      10.053  24.516  -2.883  1.00 34.97           C  
+ATOM    490  H   THR A  51       7.478  21.356  -2.840  1.00  0.00           H  
+ATOM    491  HG1 THR A  51      10.112  22.153  -1.662  1.00  0.00           H  
+ATOM    492  N   ARG A  52       6.437  24.426  -3.808  1.00 36.91           N  
+ATOM    493  CA  ARG A  52       5.643  25.532  -4.334  1.00 37.18           C  
+ATOM    494  C   ARG A  52       4.606  25.971  -3.336  1.00 36.76           C  
+ATOM    495  O   ARG A  52       4.440  27.160  -3.082  1.00 36.25           O  
+ATOM    496  CB  ARG A  52       4.936  25.144  -5.645  1.00 40.06           C  
+ATOM    497  CG  ARG A  52       5.789  25.346  -6.882  1.00 46.55           C  
+ATOM    498  CD  ARG A  52       5.012  25.112  -8.177  1.00 50.64           C  
+ATOM    499  NE  ARG A  52       4.800  23.686  -8.469  1.00 54.17           N  
+ATOM    500  CZ  ARG A  52       3.586  23.152  -8.595  1.00 55.29           C  
+ATOM    501  NH1 ARG A  52       2.510  23.914  -8.453  1.00 55.77           N  
+ATOM    502  NH2 ARG A  52       3.448  21.863  -8.859  1.00 54.72           N  
+ATOM    503  H   ARG A  52       6.465  23.577  -4.298  1.00  0.00           H  
+ATOM    504  HE  ARG A  52       5.582  23.107  -8.573  1.00  0.00           H  
+ATOM    505 HH11 ARG A  52       2.609  24.886  -8.243  1.00  0.00           H  
+ATOM    506 HH12 ARG A  52       1.601  23.516  -8.532  1.00  0.00           H  
+ATOM    507 HH21 ARG A  52       4.256  21.283  -8.962  1.00  0.00           H  
+ATOM    508 HH22 ARG A  52       2.534  21.466  -8.949  1.00  0.00           H  
+ATOM    509  N   ILE A  53       3.911  25.007  -2.763  1.00 35.47           N  
+ATOM    510  CA  ILE A  53       2.880  25.315  -1.797  1.00 34.72           C  
+ATOM    511  C   ILE A  53       3.469  25.944  -0.519  1.00 36.40           C  
+ATOM    512  O   ILE A  53       2.917  26.915   0.007  1.00 35.83           O  
+ATOM    513  CB  ILE A  53       2.060  24.063  -1.457  1.00 32.23           C  
+ATOM    514  CG1 ILE A  53       1.312  23.604  -2.722  1.00 29.11           C  
+ATOM    515  CG2 ILE A  53       1.091  24.371  -0.326  1.00 31.92           C  
+ATOM    516  CD1 ILE A  53       0.519  22.328  -2.562  1.00 26.86           C  
+ATOM    517  H   ILE A  53       4.101  24.073  -2.991  1.00  0.00           H  
+ATOM    518  N   LEU A  54       4.593  25.421  -0.035  1.00 37.08           N  
+ATOM    519  CA  LEU A  54       5.218  26.007   1.135  1.00 40.29           C  
+ATOM    520  C   LEU A  54       5.580  27.455   0.843  1.00 44.75           C  
+ATOM    521  O   LEU A  54       5.191  28.352   1.593  1.00 46.69           O  
+ATOM    522  CB  LEU A  54       6.455  25.213   1.570  1.00 36.32           C  
+ATOM    523  CG  LEU A  54       6.184  23.848   2.250  1.00 35.63           C  
+ATOM    524  CD1 LEU A  54       7.482  23.082   2.415  1.00 35.47           C  
+ATOM    525  CD2 LEU A  54       5.495  24.031   3.599  1.00 32.30           C  
+ATOM    526  H   LEU A  54       4.995  24.636  -0.465  1.00  0.00           H  
+ATOM    527  N   GLU A  55       6.255  27.694  -0.278  1.00 48.95           N  
+ATOM    528  CA  GLU A  55       6.653  29.057  -0.641  1.00 53.87           C  
+ATOM    529  C   GLU A  55       5.475  30.011  -0.879  1.00 55.01           C  
+ATOM    530  O   GLU A  55       5.632  31.220  -0.716  1.00 56.05           O  
+ATOM    531  CB  GLU A  55       7.559  29.061  -1.867  1.00 56.02           C  
+ATOM    532  CG  GLU A  55       8.998  28.661  -1.574  1.00 61.71           C  
+ATOM    533  CD  GLU A  55       9.913  28.817  -2.782  1.00 65.77           C  
+ATOM    534  OE1 GLU A  55       9.578  29.620  -3.692  1.00 67.68           O  
+ATOM    535  OE2 GLU A  55      10.972  28.141  -2.825  1.00 67.99           O  
+ATOM    536  H   GLU A  55       6.487  26.949  -0.871  1.00  0.00           H  
+ATOM    537  N   LYS A  56       4.300  29.504  -1.233  1.00 56.16           N  
+ATOM    538  CA  LYS A  56       3.190  30.407  -1.512  1.00 57.49           C  
+ATOM    539  C   LYS A  56       2.177  30.484  -0.374  1.00 57.70           C  
+ATOM    540  O   LYS A  56       1.709  31.565  -0.027  1.00 58.88           O  
+ATOM    541  CB  LYS A  56       2.462  30.010  -2.805  1.00 59.37           C  
+ATOM    542  CG  LYS A  56       3.353  29.694  -4.000  1.00 60.92           C  
+ATOM    543  CD  LYS A  56       4.379  30.776  -4.270  1.00 62.11           C  
+ATOM    544  CE  LYS A  56       5.349  30.325  -5.346  1.00 62.44           C  
+ATOM    545  NZ  LYS A  56       6.619  31.101  -5.312  1.00 63.21           N  
+ATOM    546  H   LYS A  56       4.182  28.533  -1.316  1.00  0.00           H  
+ATOM    547  HZ1 LYS A  56       6.413  32.110  -5.451  1.00  0.00           H  
+ATOM    548  HZ2 LYS A  56       7.083  30.968  -4.390  1.00  0.00           H  
+ATOM    549  HZ3 LYS A  56       7.249  30.768  -6.070  1.00  0.00           H  
+ATOM    550  N   GLU A  57       1.827  29.347   0.196  1.00 57.07           N  
+ATOM    551  CA  GLU A  57       0.797  29.311   1.235  1.00 56.65           C  
+ATOM    552  C   GLU A  57       1.332  29.368   2.684  1.00 54.52           C  
+ATOM    553  O   GLU A  57       0.620  29.824   3.598  1.00 54.61           O  
+ATOM    554  CB  GLU A  57      -0.062  28.043   1.078  1.00 59.13           C  
+ATOM    555  CG  GLU A  57      -1.132  28.102  -0.004  1.00 63.67           C  
+ATOM    556  CD  GLU A  57      -0.571  28.357  -1.387  1.00 67.30           C  
+ATOM    557  OE1 GLU A  57      -0.072  27.402  -2.017  1.00 69.12           O  
+ATOM    558  OE2 GLU A  57      -0.632  29.519  -1.849  1.00 70.26           O  
+ATOM    559  H   GLU A  57       2.257  28.521  -0.082  1.00  0.00           H  
+ATOM    560  N   VAL A  58       2.570  28.937   2.917  1.00 49.63           N  
+ATOM    561  CA  VAL A  58       3.017  28.786   4.292  1.00 44.43           C  
+ATOM    562  C   VAL A  58       4.100  29.778   4.744  1.00 42.78           C  
+ATOM    563  O   VAL A  58       4.065  30.242   5.888  1.00 40.70           O  
+ATOM    564  CB  VAL A  58       3.470  27.322   4.534  1.00 43.06           C  
+ATOM    565  CG1 VAL A  58       3.795  27.092   5.998  1.00 40.87           C  
+ATOM    566  CG2 VAL A  58       2.370  26.369   4.086  1.00 40.46           C  
+ATOM    567  H   VAL A  58       3.172  28.726   2.171  1.00  0.00           H  
+ATOM    568  N   LEU A  59       5.045  30.125   3.873  1.00 39.75           N  
+ATOM    569  CA  LEU A  59       6.126  31.020   4.281  1.00 38.99           C  
+ATOM    570  C   LEU A  59       5.649  32.438   4.643  1.00 38.81           C  
+ATOM    571  O   LEU A  59       6.371  33.182   5.311  1.00 38.40           O  
+ATOM    572  CB  LEU A  59       7.220  31.083   3.218  1.00 40.26           C  
+ATOM    573  CG  LEU A  59       8.011  29.793   2.935  1.00 42.18           C  
+ATOM    574  CD1 LEU A  59       9.048  30.068   1.854  1.00 43.46           C  
+ATOM    575  CD2 LEU A  59       8.705  29.285   4.187  1.00 40.89           C  
+ATOM    576  H   LEU A  59       5.019  29.775   2.957  1.00  0.00           H  
+ATOM    577  N   LYS A  60       4.442  32.824   4.220  1.00 37.98           N  
+ATOM    578  CA  LYS A  60       3.900  34.140   4.604  1.00 38.59           C  
+ATOM    579  C   LYS A  60       3.195  34.061   5.973  1.00 36.39           C  
+ATOM    580  O   LYS A  60       2.649  35.028   6.474  1.00 35.79           O  
+ATOM    581  CB  LYS A  60       2.940  34.673   3.522  1.00 41.34           C  
+ATOM    582  CG  LYS A  60       1.766  33.760   3.171  1.00 47.49           C  
+ATOM    583  CD  LYS A  60       0.876  34.407   2.102  1.00 50.85           C  
+ATOM    584  CE  LYS A  60      -0.508  33.757   2.010  1.00 53.27           C  
+ATOM    585  NZ  LYS A  60      -0.459  32.368   1.466  1.00 54.66           N  
+ATOM    586  H   LYS A  60       3.915  32.232   3.649  1.00  0.00           H  
+ATOM    587  HZ1 LYS A  60       0.153  31.784   2.070  1.00  0.00           H  
+ATOM    588  HZ2 LYS A  60      -1.418  31.967   1.451  1.00  0.00           H  
+ATOM    589  HZ3 LYS A  60      -0.076  32.388   0.500  1.00  0.00           H  
+ATOM    590  N   GLU A  61       3.241  32.884   6.559  1.00 35.74           N  
+ATOM    591  CA  GLU A  61       2.635  32.606   7.849  1.00 34.60           C  
+ATOM    592  C   GLU A  61       3.719  32.560   8.935  1.00 30.62           C  
+ATOM    593  O   GLU A  61       4.924  32.542   8.646  1.00 28.48           O  
+ATOM    594  CB  GLU A  61       1.990  31.214   7.782  1.00 39.66           C  
+ATOM    595  CG  GLU A  61       0.636  31.096   8.418  1.00 45.92           C  
+ATOM    596  CD  GLU A  61      -0.377  31.877   7.639  1.00 48.95           C  
+ATOM    597  OE1 GLU A  61      -0.692  31.467   6.495  1.00 51.19           O  
+ATOM    598  OE2 GLU A  61      -0.850  32.904   8.161  1.00 51.71           O  
+ATOM    599  H   GLU A  61       3.711  32.155   6.108  1.00  0.00           H  
+ATOM    600  N   THR A  62       3.293  32.544  10.171  1.00 27.25           N  
+ATOM    601  CA  THR A  62       4.222  32.307  11.253  1.00 25.63           C  
+ATOM    602  C   THR A  62       4.784  30.874  11.059  1.00 24.77           C  
+ATOM    603  O   THR A  62       4.029  29.932  10.840  1.00 25.37           O  
+ATOM    604  CB  THR A  62       3.489  32.435  12.612  1.00 24.97           C  
+ATOM    605  OG1 THR A  62       3.032  33.783  12.735  1.00 26.20           O  
+ATOM    606  CG2 THR A  62       4.398  32.117  13.789  1.00 21.20           C  
+ATOM    607  H   THR A  62       2.346  32.689  10.363  1.00  0.00           H  
+ATOM    608  HG1 THR A  62       2.683  34.075  11.886  1.00  0.00           H  
+ATOM    609  N   HIS A  63       6.090  30.727  11.103  1.00 22.46           N  
+ATOM    610  CA  HIS A  63       6.689  29.428  10.867  1.00 21.88           C  
+ATOM    611  C   HIS A  63       8.151  29.435  11.272  1.00 22.48           C  
+ATOM    612  O   HIS A  63       8.745  30.495  11.513  1.00 21.68           O  
+ATOM    613  CB  HIS A  63       6.608  29.071   9.366  1.00 20.21           C  
+ATOM    614  CG  HIS A  63       7.519  29.918   8.512  1.00 20.30           C  
+ATOM    615  ND1 HIS A  63       7.125  31.124   7.953  1.00 21.50           N  
+ATOM    616  CD2 HIS A  63       8.845  29.800   8.198  1.00 20.65           C  
+ATOM    617  CE1 HIS A  63       8.126  31.727   7.333  1.00 20.90           C  
+ATOM    618  NE2 HIS A  63       9.169  30.942   7.478  1.00 21.55           N  
+ATOM    619  H   HIS A  63       6.663  31.500  11.309  1.00  0.00           H  
+ATOM    620  HD1 HIS A  63       6.209  31.477   7.991  1.00  0.00           H  
+ATOM    621  HE2 HIS A  63      10.052  31.147   7.133  1.00  0.00           H  
+ATOM    622  N   GLU A  64       8.738  28.251  11.238  1.00 22.95           N  
+ATOM    623  CA  GLU A  64      10.138  28.055  11.535  1.00 23.61           C  
+ATOM    624  C   GLU A  64      10.697  27.100  10.460  1.00 24.98           C  
+ATOM    625  O   GLU A  64      10.132  26.021  10.254  1.00 24.19           O  
+ATOM    626  CB  GLU A  64      10.199  27.431  12.901  1.00 25.13           C  
+ATOM    627  CG  GLU A  64      11.558  27.257  13.499  1.00 33.54           C  
+ATOM    628  CD  GLU A  64      11.474  26.481  14.804  1.00 36.59           C  
+ATOM    629  OE1 GLU A  64      10.501  26.685  15.558  1.00 36.12           O  
+ATOM    630  OE2 GLU A  64      12.376  25.665  15.070  1.00 41.18           O  
+ATOM    631  H   GLU A  64       8.200  27.468  10.997  1.00  0.00           H  
+ATOM    632  N   LYS A  65      11.739  27.531   9.737  1.00 24.36           N  
+ATOM    633  CA  LYS A  65      12.353  26.718   8.693  1.00 28.24           C  
+ATOM    634  C   LYS A  65      13.510  25.954   9.251  1.00 28.33           C  
+ATOM    635  O   LYS A  65      14.585  26.503   9.412  1.00 28.08           O  
+ATOM    636  CB  LYS A  65      12.896  27.587   7.556  1.00 31.73           C  
+ATOM    637  CG  LYS A  65      12.049  27.649   6.299  1.00 36.91           C  
+ATOM    638  CD  LYS A  65      12.165  29.023   5.643  1.00 40.14           C  
+ATOM    639  CE  LYS A  65      11.933  30.111   6.681  1.00 39.32           C  
+ATOM    640  NZ  LYS A  65      11.630  31.435   6.088  1.00 36.54           N  
+ATOM    641  H   LYS A  65      12.110  28.420   9.924  1.00  0.00           H  
+ATOM    642  HZ1 LYS A  65      12.425  31.734   5.487  1.00  0.00           H  
+ATOM    643  HZ2 LYS A  65      10.766  31.367   5.511  1.00  0.00           H  
+ATOM    644  HZ3 LYS A  65      11.487  32.131   6.847  1.00  0.00           H  
+ATOM    645  N   VAL A  66      13.291  24.696   9.552  1.00 31.01           N  
+ATOM    646  CA  VAL A  66      14.358  23.851  10.050  1.00 34.94           C  
+ATOM    647  C   VAL A  66      14.962  23.049   8.896  1.00 39.67           C  
+ATOM    648  O   VAL A  66      14.428  22.006   8.483  1.00 37.52           O  
+ATOM    649  CB  VAL A  66      13.862  22.887  11.168  1.00 34.61           C  
+ATOM    650  CG1 VAL A  66      14.973  21.935  11.594  1.00 33.81           C  
+ATOM    651  CG2 VAL A  66      13.401  23.687  12.375  1.00 34.49           C  
+ATOM    652  H   VAL A  66      12.388  24.323   9.443  1.00  0.00           H  
+ATOM    653  N   GLN A  67      16.040  23.586   8.332  1.00 46.01           N  
+ATOM    654  CA  GLN A  67      16.763  22.891   7.275  1.00 53.84           C  
+ATOM    655  C   GLN A  67      18.179  22.570   7.732  1.00 58.95           C  
+ATOM    656  O   GLN A  67      19.013  22.109   6.948  1.00 60.26           O  
+ATOM    657  CB  GLN A  67      16.784  23.703   5.985  1.00 53.89           C  
+ATOM    658  CG  GLN A  67      15.426  23.779   5.294  1.00 59.07           C  
+ATOM    659  CD  GLN A  67      14.657  22.452   5.300  1.00 60.32           C  
+ATOM    660  OE1 GLN A  67      15.031  21.480   4.629  1.00 62.98           O  
+ATOM    661  NE2 GLN A  67      13.571  22.404   6.053  1.00 59.66           N  
+ATOM    662  H   GLN A  67      16.348  24.470   8.627  1.00  0.00           H  
+ATOM    663 HE21 GLN A  67      13.049  21.578   6.062  1.00  0.00           H  
+ATOM    664 HE22 GLN A  67      13.328  23.200   6.571  1.00  0.00           H  
+ATOM    665  N   GLY A  68      18.428  22.811   9.025  1.00 63.66           N  
+ATOM    666  CA  GLY A  68      19.718  22.513   9.608  1.00 67.82           C  
+ATOM    667  C   GLY A  68      19.631  21.327  10.546  1.00 70.65           C  
+ATOM    668  O   GLY A  68      20.590  20.563  10.690  1.00 72.02           O  
+ATOM    669  H   GLY A  68      17.727  23.193   9.587  1.00  0.00           H  
+ATOM    670  N   GLY A  69      18.484  21.187  11.208  1.00 72.32           N  
+ATOM    671  CA  GLY A  69      18.274  20.048  12.083  1.00 73.41           C  
+ATOM    672  C   GLY A  69      18.041  18.789  11.270  1.00 73.97           C  
+ATOM    673  O   GLY A  69      16.899  18.441  10.969  1.00 75.24           O  
+ATOM    674  H   GLY A  69      17.778  21.853  11.102  1.00  0.00           H  
+ATOM    675  N   PHE A  70      19.137  18.135  10.900  1.00 73.39           N  
+ATOM    676  CA  PHE A  70      19.106  16.920  10.080  1.00 72.45           C  
+ATOM    677  C   PHE A  70      18.165  15.833  10.606  1.00 69.47           C  
+ATOM    678  O   PHE A  70      18.036  15.622  11.819  1.00 69.28           O  
+ATOM    679  CB  PHE A  70      20.534  16.352   9.963  1.00 77.03           C  
+ATOM    680  CG  PHE A  70      20.600  14.896   9.586  1.00 79.94           C  
+ATOM    681  CD1 PHE A  70      20.367  14.492   8.269  1.00 81.63           C  
+ATOM    682  CD2 PHE A  70      20.858  13.920  10.561  1.00 80.76           C  
+ATOM    683  CE1 PHE A  70      20.384  13.141   7.933  1.00 82.97           C  
+ATOM    684  CE2 PHE A  70      20.875  12.571  10.232  1.00 81.33           C  
+ATOM    685  CZ  PHE A  70      20.638  12.181   8.917  1.00 82.90           C  
+ATOM    686  H   PHE A  70      20.007  18.487  11.182  1.00  0.00           H  
+ATOM    687  N   GLY A  71      17.534  15.127   9.666  1.00 65.37           N  
+ATOM    688  CA  GLY A  71      16.681  14.014  10.024  1.00 60.61           C  
+ATOM    689  C   GLY A  71      15.251  14.174   9.548  1.00 56.43           C  
+ATOM    690  O   GLY A  71      14.949  15.071   8.766  1.00 56.11           O  
+ATOM    691  H   GLY A  71      17.632  15.378   8.724  1.00  0.00           H  
+ATOM    692  N   LYS A  72      14.367  13.295  10.036  1.00 51.93           N  
+ATOM    693  CA  LYS A  72      12.939  13.359   9.704  1.00 47.12           C  
+ATOM    694  C   LYS A  72      12.312  14.620  10.322  1.00 42.99           C  
+ATOM    695  O   LYS A  72      11.172  14.976  10.019  1.00 41.22           O  
+ATOM    696  CB  LYS A  72      12.214  12.127  10.263  1.00 47.52           C  
+ATOM    697  CG  LYS A  72      12.828  10.789   9.890  1.00 47.51           C  
+ATOM    698  CD  LYS A  72      13.208   9.975  11.122  1.00 45.89           C  
+ATOM    699  CE  LYS A  72      12.024   9.749  12.053  1.00 45.99           C  
+ATOM    700  NZ  LYS A  72      10.946   8.941  11.439  1.00 43.61           N  
+ATOM    701  H   LYS A  72      14.682  12.587  10.635  1.00  0.00           H  
+ATOM    702  HZ1 LYS A  72      10.620   9.405  10.566  1.00  0.00           H  
+ATOM    703  HZ2 LYS A  72      11.311   7.995  11.214  1.00  0.00           H  
+ATOM    704  HZ3 LYS A  72      10.153   8.856  12.105  1.00  0.00           H  
+ATOM    705  N   TYR A  73      13.084  15.252  11.211  1.00 38.82           N  
+ATOM    706  CA  TYR A  73      12.666  16.439  11.926  1.00 35.13           C  
+ATOM    707  C   TYR A  73      12.654  17.679  11.023  1.00 33.18           C  
+ATOM    708  O   TYR A  73      11.879  18.607  11.253  1.00 30.17           O  
+ATOM    709  CB  TYR A  73      13.600  16.649  13.125  1.00 32.68           C  
+ATOM    710  CG  TYR A  73      13.198  17.796  14.018  1.00 32.41           C  
+ATOM    711  CD1 TYR A  73      12.116  17.691  14.884  1.00 31.25           C  
+ATOM    712  CD2 TYR A  73      13.835  19.025  13.921  1.00 32.40           C  
+ATOM    713  CE1 TYR A  73      11.679  18.785  15.613  1.00 30.72           C  
+ATOM    714  CE2 TYR A  73      13.400  20.120  14.644  1.00 32.39           C  
+ATOM    715  CZ  TYR A  73      12.317  19.993  15.478  1.00 30.86           C  
+ATOM    716  OH  TYR A  73      11.840  21.094  16.130  1.00 32.23           O  
+ATOM    717  H   TYR A  73      13.974  14.893  11.393  1.00  0.00           H  
+ATOM    718  HH  TYR A  73      12.352  21.867  15.869  1.00  0.00           H  
+ATOM    719  N   GLN A  74      13.525  17.690  10.013  1.00 31.23           N  
+ATOM    720  CA  GLN A  74      13.605  18.814   9.066  1.00 29.72           C  
+ATOM    721  C   GLN A  74      12.254  19.162   8.468  1.00 26.23           C  
+ATOM    722  O   GLN A  74      11.409  18.291   8.229  1.00 24.41           O  
+ATOM    723  CB  GLN A  74      14.535  18.475   7.902  1.00 33.74           C  
+ATOM    724  CG  GLN A  74      16.010  18.494   8.213  1.00 41.63           C  
+ATOM    725  CD  GLN A  74      16.825  17.988   7.039  1.00 47.74           C  
+ATOM    726  OE1 GLN A  74      17.535  16.971   7.143  1.00 52.12           O  
+ATOM    727  NE2 GLN A  74      16.728  18.678   5.908  1.00 49.67           N  
+ATOM    728  H   GLN A  74      14.129  16.927   9.898  1.00  0.00           H  
+ATOM    729 HE21 GLN A  74      17.240  18.365   5.133  1.00  0.00           H  
+ATOM    730 HE22 GLN A  74      16.152  19.471   5.887  1.00  0.00           H  
+ATOM    731  N   GLY A  75      12.066  20.432   8.182  1.00 24.61           N  
+ATOM    732  CA  GLY A  75      10.849  20.850   7.522  1.00 22.59           C  
+ATOM    733  C   GLY A  75      10.439  22.235   7.929  1.00 22.00           C  
+ATOM    734  O   GLY A  75      11.189  22.944   8.595  1.00 20.96           O  
+ATOM    735  H   GLY A  75      12.741  21.096   8.433  1.00  0.00           H  
+ATOM    736  N   THR A  76       9.267  22.641   7.507  1.00 22.18           N  
+ATOM    737  CA  THR A  76       8.739  23.926   7.925  1.00 23.13           C  
+ATOM    738  C   THR A  76       7.705  23.707   9.012  1.00 21.22           C  
+ATOM    739  O   THR A  76       6.677  23.047   8.785  1.00 20.41           O  
+ATOM    740  CB  THR A  76       8.129  24.677   6.750  1.00 22.98           C  
+ATOM    741  OG1 THR A  76       9.172  24.951   5.823  1.00 23.34           O  
+ATOM    742  CG2 THR A  76       7.529  25.993   7.203  1.00 22.12           C  
+ATOM    743  H   THR A  76       8.743  22.073   6.908  1.00  0.00           H  
+ATOM    744  HG1 THR A  76       9.671  24.146   5.648  1.00  0.00           H  
+ATOM    745  N   TRP A  77       8.007  24.190  10.198  1.00 18.01           N  
+ATOM    746  CA  TRP A  77       7.115  24.000  11.334  1.00 19.61           C  
+ATOM    747  C   TRP A  77       6.172  25.179  11.495  1.00 20.15           C  
+ATOM    748  O   TRP A  77       6.569  26.324  11.307  1.00 21.17           O  
+ATOM    749  CB  TRP A  77       7.954  23.797  12.587  1.00 18.45           C  
+ATOM    750  CG  TRP A  77       8.738  22.517  12.563  1.00 16.73           C  
+ATOM    751  CD1 TRP A  77       9.924  22.262  11.889  1.00 19.52           C  
+ATOM    752  CD2 TRP A  77       8.383  21.314  13.246  1.00 16.18           C  
+ATOM    753  NE1 TRP A  77      10.287  20.964  12.134  1.00 18.03           N  
+ATOM    754  CE2 TRP A  77       9.378  20.351  12.952  1.00 18.24           C  
+ATOM    755  CE3 TRP A  77       7.303  20.950  14.076  1.00 15.09           C  
+ATOM    756  CZ2 TRP A  77       9.333  19.052  13.464  1.00 17.80           C  
+ATOM    757  CZ3 TRP A  77       7.263  19.657  14.586  1.00 16.17           C  
+ATOM    758  CH2 TRP A  77       8.271  18.728  14.275  1.00 16.88           C  
+ATOM    759  H   TRP A  77       8.844  24.682  10.320  1.00  0.00           H  
+ATOM    760  HE1 TRP A  77      11.083  20.525  11.763  1.00  0.00           H  
+ATOM    761  N   VAL A  78       4.940  24.916  11.848  1.00 19.79           N  
+ATOM    762  CA  VAL A  78       3.960  25.992  11.977  1.00 21.20           C  
+ATOM    763  C   VAL A  78       3.102  25.800  13.232  1.00 22.23           C  
+ATOM    764  O   VAL A  78       3.039  24.692  13.785  1.00 20.52           O  
+ATOM    765  CB  VAL A  78       3.014  26.045  10.738  1.00 20.50           C  
+ATOM    766  CG1 VAL A  78       3.805  26.352   9.464  1.00 19.09           C  
+ATOM    767  CG2 VAL A  78       2.264  24.722  10.594  1.00 19.19           C  
+ATOM    768  H   VAL A  78       4.670  23.993  12.035  1.00  0.00           H  
+ATOM    769  N   PRO A  79       2.461  26.879  13.729  1.00 22.62           N  
+ATOM    770  CA  PRO A  79       1.579  26.796  14.902  1.00 23.25           C  
+ATOM    771  C   PRO A  79       0.479  25.793  14.613  1.00 23.88           C  
+ATOM    772  O   PRO A  79       0.126  25.577  13.452  1.00 22.74           O  
+ATOM    773  CB  PRO A  79       1.009  28.217  15.030  1.00 22.80           C  
+ATOM    774  CG  PRO A  79       2.089  29.063  14.441  1.00 23.48           C  
+ATOM    775  CD  PRO A  79       2.583  28.279  13.243  1.00 21.77           C  
+ATOM    776  N   LEU A  80      -0.081  25.221  15.664  1.00 25.83           N  
+ATOM    777  CA  LEU A  80      -1.142  24.222  15.543  1.00 26.16           C  
+ATOM    778  C   LEU A  80      -2.338  24.712  14.733  1.00 28.51           C  
+ATOM    779  O   LEU A  80      -2.846  23.991  13.849  1.00 27.56           O  
+ATOM    780  CB  LEU A  80      -1.606  23.815  16.940  1.00 25.96           C  
+ATOM    781  CG  LEU A  80      -2.660  22.728  17.020  1.00 26.73           C  
+ATOM    782  CD1 LEU A  80      -2.142  21.452  16.363  1.00 25.64           C  
+ATOM    783  CD2 LEU A  80      -3.028  22.488  18.480  1.00 29.49           C  
+ATOM    784  H   LEU A  80       0.229  25.469  16.557  1.00  0.00           H  
+ATOM    785  N   ASN A  81      -2.811  25.922  15.016  1.00 30.41           N  
+ATOM    786  CA  ASN A  81      -3.989  26.411  14.305  1.00 33.34           C  
+ATOM    787  C   ASN A  81      -3.726  26.541  12.797  1.00 33.24           C  
+ATOM    788  O   ASN A  81      -4.593  26.200  11.979  1.00 32.55           O  
+ATOM    789  CB  ASN A  81      -4.522  27.720  14.912  1.00 36.72           C  
+ATOM    790  CG  ASN A  81      -3.615  28.898  14.707  1.00 41.39           C  
+ATOM    791  OD1 ASN A  81      -2.520  28.954  15.254  1.00 45.06           O  
+ATOM    792  ND2 ASN A  81      -4.064  29.855  13.912  1.00 44.46           N  
+ATOM    793  H   ASN A  81      -2.379  26.474  15.701  1.00  0.00           H  
+ATOM    794 HD21 ASN A  81      -3.494  30.640  13.765  1.00  0.00           H  
+ATOM    795 HD22 ASN A  81      -4.947  29.746  13.504  1.00  0.00           H  
+ATOM    796  N   ILE A  82      -2.509  26.970  12.436  1.00 33.12           N  
+ATOM    797  CA  ILE A  82      -2.133  27.108  11.022  1.00 33.42           C  
+ATOM    798  C   ILE A  82      -1.996  25.751  10.338  1.00 33.66           C  
+ATOM    799  O   ILE A  82      -2.344  25.611   9.172  1.00 33.06           O  
+ATOM    800  CB  ILE A  82      -0.820  27.882  10.878  1.00 34.68           C  
+ATOM    801  CG1 ILE A  82      -1.027  29.318  11.381  1.00 35.90           C  
+ATOM    802  CG2 ILE A  82      -0.364  27.862   9.424  1.00 32.30           C  
+ATOM    803  CD1 ILE A  82       0.246  30.062  11.708  1.00 36.35           C  
+ATOM    804  H   ILE A  82      -1.856  27.193  13.129  1.00  0.00           H  
+ATOM    805  N   ALA A  83      -1.487  24.751  11.078  1.00 33.47           N  
+ATOM    806  CA  ALA A  83      -1.385  23.383  10.547  1.00 32.68           C  
+ATOM    807  C   ALA A  83      -2.796  22.798  10.314  1.00 32.07           C  
+ATOM    808  O   ALA A  83      -3.034  22.097   9.335  1.00 30.79           O  
+ATOM    809  CB  ALA A  83      -0.586  22.496  11.509  1.00 31.27           C  
+ATOM    810  H   ALA A  83      -1.184  24.937  11.992  1.00  0.00           H  
+ATOM    811  N   LYS A  84      -3.729  23.093  11.215  1.00 33.43           N  
+ATOM    812  CA  LYS A  84      -5.093  22.639  11.041  1.00 35.11           C  
+ATOM    813  C   LYS A  84      -5.693  23.212   9.756  1.00 36.73           C  
+ATOM    814  O   LYS A  84      -6.318  22.491   8.974  1.00 36.83           O  
+ATOM    815  CB  LYS A  84      -5.948  23.050  12.228  1.00 37.36           C  
+ATOM    816  CG  LYS A  84      -5.607  22.354  13.530  1.00 40.04           C  
+ATOM    817  CD  LYS A  84      -6.871  22.073  14.319  1.00 42.74           C  
+ATOM    818  CE  LYS A  84      -6.559  21.578  15.716  1.00 45.28           C  
+ATOM    819  NZ  LYS A  84      -6.384  22.711  16.664  1.00 49.86           N  
+ATOM    820  H   LYS A  84      -3.489  23.619  12.006  1.00  0.00           H  
+ATOM    821  HZ1 LYS A  84      -5.641  23.348  16.311  1.00  0.00           H  
+ATOM    822  HZ2 LYS A  84      -7.280  23.233  16.744  1.00  0.00           H  
+ATOM    823  HZ3 LYS A  84      -6.113  22.344  17.598  1.00  0.00           H  
+ATOM    824  N   GLN A  85      -5.504  24.510   9.535  1.00 37.40           N  
+ATOM    825  CA  GLN A  85      -5.981  25.141   8.298  1.00 38.47           C  
+ATOM    826  C   GLN A  85      -5.414  24.411   7.065  1.00 37.19           C  
+ATOM    827  O   GLN A  85      -6.144  24.015   6.168  1.00 36.76           O  
+ATOM    828  CB  GLN A  85      -5.550  26.617   8.243  1.00 41.65           C  
+ATOM    829  CG  GLN A  85      -6.176  27.513   9.302  1.00 47.67           C  
+ATOM    830  CD  GLN A  85      -5.653  28.953   9.274  1.00 52.44           C  
+ATOM    831  OE1 GLN A  85      -4.985  29.379   8.321  1.00 53.70           O  
+ATOM    832  NE2 GLN A  85      -5.956  29.710  10.327  1.00 54.30           N  
+ATOM    833  H   GLN A  85      -5.029  25.050  10.201  1.00  0.00           H  
+ATOM    834 HE21 GLN A  85      -5.645  30.638  10.336  1.00  0.00           H  
+ATOM    835 HE22 GLN A  85      -6.483  29.308  11.051  1.00  0.00           H  
+ATOM    836  N   LEU A  86      -4.107  24.239   7.050  1.00 35.90           N  
+ATOM    837  CA  LEU A  86      -3.427  23.593   5.952  1.00 35.57           C  
+ATOM    838  C   LEU A  86      -3.973  22.187   5.705  1.00 36.04           C  
+ATOM    839  O   LEU A  86      -4.216  21.789   4.568  1.00 35.67           O  
+ATOM    840  CB  LEU A  86      -1.940  23.522   6.282  1.00 35.24           C  
+ATOM    841  CG  LEU A  86      -0.979  23.392   5.104  1.00 37.99           C  
+ATOM    842  CD1 LEU A  86      -1.046  24.641   4.236  1.00 37.21           C  
+ATOM    843  CD2 LEU A  86       0.434  23.187   5.623  1.00 37.56           C  
+ATOM    844  H   LEU A  86      -3.579  24.563   7.810  1.00  0.00           H  
+ATOM    845  N   ALA A  87      -4.167  21.440   6.774  1.00 37.61           N  
+ATOM    846  CA  ALA A  87      -4.658  20.075   6.672  1.00 40.07           C  
+ATOM    847  C   ALA A  87      -6.071  20.045   6.108  1.00 42.25           C  
+ATOM    848  O   ALA A  87      -6.423  19.123   5.387  1.00 44.08           O  
+ATOM    849  CB  ALA A  87      -4.614  19.402   8.041  1.00 37.62           C  
+ATOM    850  H   ALA A  87      -3.984  21.816   7.658  1.00  0.00           H  
+ATOM    851  N   GLU A  88      -6.881  21.042   6.453  1.00 44.94           N  
+ATOM    852  CA  GLU A  88      -8.250  21.137   5.934  1.00 47.72           C  
+ATOM    853  C   GLU A  88      -8.249  21.462   4.446  1.00 46.92           C  
+ATOM    854  O   GLU A  88      -8.935  20.809   3.652  1.00 46.82           O  
+ATOM    855  CB  GLU A  88      -9.029  22.238   6.647  1.00 51.27           C  
+ATOM    856  CG  GLU A  88      -9.499  21.887   8.035  1.00 58.64           C  
+ATOM    857  CD  GLU A  88     -10.532  22.873   8.532  1.00 63.08           C  
+ATOM    858  OE1 GLU A  88     -11.497  23.154   7.774  1.00 65.53           O  
+ATOM    859  OE2 GLU A  88     -10.381  23.370   9.674  1.00 64.92           O  
+ATOM    860  H   GLU A  88      -6.554  21.730   7.069  1.00  0.00           H  
+ATOM    861  N   LYS A  89      -7.484  22.490   4.087  1.00 45.19           N  
+ATOM    862  CA  LYS A  89      -7.401  22.930   2.722  1.00 45.73           C  
+ATOM    863  C   LYS A  89      -7.064  21.776   1.802  1.00 45.59           C  
+ATOM    864  O   LYS A  89      -7.728  21.571   0.792  1.00 46.84           O  
+ATOM    865  CB  LYS A  89      -6.346  24.019   2.592  1.00 46.57           C  
+ATOM    866  CG  LYS A  89      -6.374  24.759   1.269  1.00 49.11           C  
+ATOM    867  CD  LYS A  89      -5.470  25.976   1.314  1.00 52.19           C  
+ATOM    868  CE  LYS A  89      -5.826  26.963   0.216  1.00 55.10           C  
+ATOM    869  NZ  LYS A  89      -5.139  28.274   0.395  1.00 56.62           N  
+ATOM    870  H   LYS A  89      -6.963  22.959   4.773  1.00  0.00           H  
+ATOM    871  HZ1 LYS A  89      -4.109  28.127   0.406  1.00  0.00           H  
+ATOM    872  HZ2 LYS A  89      -5.390  28.905  -0.391  1.00  0.00           H  
+ATOM    873  HZ3 LYS A  89      -5.437  28.704   1.294  1.00  0.00           H  
+ATOM    874  N   PHE A  90      -6.055  21.001   2.163  1.00 44.53           N  
+ATOM    875  CA  PHE A  90      -5.631  19.900   1.314  1.00 44.24           C  
+ATOM    876  C   PHE A  90      -6.275  18.576   1.716  1.00 44.45           C  
+ATOM    877  O   PHE A  90      -5.737  17.496   1.463  1.00 44.80           O  
+ATOM    878  CB  PHE A  90      -4.099  19.837   1.283  1.00 43.69           C  
+ATOM    879  CG  PHE A  90      -3.510  21.100   0.707  1.00 43.58           C  
+ATOM    880  CD1 PHE A  90      -3.664  21.403  -0.642  1.00 44.38           C  
+ATOM    881  CD2 PHE A  90      -2.881  22.034   1.523  1.00 44.26           C  
+ATOM    882  CE1 PHE A  90      -3.212  22.610  -1.165  1.00 43.38           C  
+ATOM    883  CE2 PHE A  90      -2.425  23.246   1.011  1.00 43.71           C  
+ATOM    884  CZ  PHE A  90      -2.592  23.535  -0.337  1.00 43.90           C  
+ATOM    885  H   PHE A  90      -5.588  21.170   3.009  1.00  0.00           H  
+ATOM    886  N   SER A  91      -7.444  18.690   2.345  1.00 45.17           N  
+ATOM    887  CA  SER A  91      -8.282  17.543   2.686  1.00 45.85           C  
+ATOM    888  C   SER A  91      -7.553  16.348   3.290  1.00 45.16           C  
+ATOM    889  O   SER A  91      -7.662  15.229   2.790  1.00 45.12           O  
+ATOM    890  CB  SER A  91      -9.061  17.113   1.441  1.00 48.12           C  
+ATOM    891  OG  SER A  91      -9.727  18.233   0.864  1.00 51.11           O  
+ATOM    892  H   SER A  91      -7.764  19.584   2.580  1.00  0.00           H  
+ATOM    893  HG  SER A  91     -10.205  17.955   0.079  1.00  0.00           H  
+ATOM    894  N   VAL A  92      -6.811  16.583   4.361  1.00 44.55           N  
+ATOM    895  CA  VAL A  92      -6.196  15.487   5.129  1.00 44.43           C  
+ATOM    896  C   VAL A  92      -6.451  15.690   6.627  1.00 43.59           C  
+ATOM    897  O   VAL A  92      -5.911  14.975   7.471  1.00 42.35           O  
+ATOM    898  CB  VAL A  92      -4.657  15.344   4.880  1.00 44.50           C  
+ATOM    899  CG1 VAL A  92      -4.413  14.652   3.553  1.00 44.93           C  
+ATOM    900  CG2 VAL A  92      -3.972  16.697   4.904  1.00 43.55           C  
+ATOM    901  H   VAL A  92      -6.657  17.507   4.637  1.00  0.00           H  
+ATOM    902  N   TYR A  93      -7.311  16.652   6.938  1.00 44.06           N  
+ATOM    903  CA  TYR A  93      -7.606  16.994   8.321  1.00 46.56           C  
+ATOM    904  C   TYR A  93      -8.156  15.815   9.115  1.00 47.20           C  
+ATOM    905  O   TYR A  93      -7.747  15.568  10.249  1.00 45.84           O  
+ATOM    906  CB  TYR A  93      -8.590  18.172   8.392  1.00 48.04           C  
+ATOM    907  CG  TYR A  93      -8.880  18.600   9.814  1.00 51.15           C  
+ATOM    908  CD1 TYR A  93      -8.058  19.512  10.466  1.00 52.01           C  
+ATOM    909  CD2 TYR A  93      -9.901  17.996  10.550  1.00 51.74           C  
+ATOM    910  CE1 TYR A  93      -8.234  19.796  11.806  1.00 53.05           C  
+ATOM    911  CE2 TYR A  93     -10.083  18.274  11.891  1.00 52.13           C  
+ATOM    912  CZ  TYR A  93      -9.243  19.172  12.513  1.00 53.58           C  
+ATOM    913  OH  TYR A  93      -9.405  19.442  13.848  1.00 56.47           O  
+ATOM    914  H   TYR A  93      -7.753  17.146   6.220  1.00  0.00           H  
+ATOM    915  HH  TYR A  93     -10.182  18.981  14.176  1.00  0.00           H  
+ATOM    916  N   ASP A  94      -9.076  15.086   8.529  1.00 48.64           N  
+ATOM    917  CA  ASP A  94      -9.678  13.962   9.232  1.00 50.01           C  
+ATOM    918  C   ASP A  94      -8.697  12.805   9.419  1.00 49.07           C  
+ATOM    919  O   ASP A  94      -8.827  12.031  10.370  1.00 48.92           O  
+ATOM    920  CB  ASP A  94     -10.964  13.515   8.517  1.00 53.54           C  
+ATOM    921  CG  ASP A  94     -12.120  14.474   8.796  1.00 54.92           C  
+ATOM    922  OD1 ASP A  94     -12.762  14.329   9.852  1.00 57.73           O  
+ATOM    923  OD2 ASP A  94     -12.379  15.377   7.969  1.00 56.24           O  
+ATOM    924  H   ASP A  94      -9.357  15.301   7.615  1.00  0.00           H  
+ATOM    925  N   GLN A  95      -7.712  12.698   8.520  1.00 49.21           N  
+ATOM    926  CA  GLN A  95      -6.664  11.678   8.659  1.00 49.95           C  
+ATOM    927  C   GLN A  95      -5.677  12.029   9.780  1.00 48.73           C  
+ATOM    928  O   GLN A  95      -5.206  11.146  10.495  1.00 48.14           O  
+ATOM    929  CB  GLN A  95      -5.871  11.526   7.358  1.00 51.32           C  
+ATOM    930  CG  GLN A  95      -6.617  10.859   6.227  1.00 54.77           C  
+ATOM    931  CD  GLN A  95      -5.805  10.848   4.952  1.00 57.17           C  
+ATOM    932  OE1 GLN A  95      -4.715  10.277   4.905  1.00 57.65           O  
+ATOM    933  NE2 GLN A  95      -6.325  11.483   3.912  1.00 58.76           N  
+ATOM    934  H   GLN A  95      -7.694  13.305   7.752  1.00  0.00           H  
+ATOM    935 HE21 GLN A  95      -5.808  11.509   3.079  1.00  0.00           H  
+ATOM    936 HE22 GLN A  95      -7.202  11.904   4.016  1.00  0.00           H  
+ATOM    937  N   LEU A  96      -5.360  13.327   9.908  1.00 48.04           N  
+ATOM    938  CA  LEU A  96      -4.374  13.800  10.893  1.00 46.14           C  
+ATOM    939  C   LEU A  96      -5.003  14.231  12.202  1.00 45.87           C  
+ATOM    940  O   LEU A  96      -4.285  14.496  13.166  1.00 44.88           O  
+ATOM    941  CB  LEU A  96      -3.579  14.981  10.323  1.00 43.86           C  
+ATOM    942  CG  LEU A  96      -3.107  14.825   8.881  1.00 43.10           C  
+ATOM    943  CD1 LEU A  96      -2.080  15.892   8.542  1.00 40.00           C  
+ATOM    944  CD2 LEU A  96      -2.533  13.432   8.681  1.00 42.10           C  
+ATOM    945  H   LEU A  96      -5.794  13.981   9.318  1.00  0.00           H  
+ATOM    946  N   LYS A  97      -6.332  14.297  12.237  1.00 47.18           N  
+ATOM    947  CA  LYS A  97      -7.053  14.723  13.436  1.00 47.61           C  
+ATOM    948  C   LYS A  97      -6.528  14.080  14.736  1.00 45.43           C  
+ATOM    949  O   LYS A  97      -6.293  14.784  15.717  1.00 44.43           O  
+ATOM    950  CB  LYS A  97      -8.568  14.489  13.291  1.00 50.67           C  
+ATOM    951  CG  LYS A  97      -9.336  15.078  14.463  1.00 56.31           C  
+ATOM    952  CD  LYS A  97     -10.823  15.199  14.216  1.00 59.48           C  
+ATOM    953  CE  LYS A  97     -11.463  16.020  15.331  1.00 61.13           C  
+ATOM    954  NZ  LYS A  97     -12.926  16.202  15.134  1.00 63.44           N  
+ATOM    955  H   LYS A  97      -6.842  14.065  11.432  1.00  0.00           H  
+ATOM    956  HZ1 LYS A  97     -13.098  16.675  14.224  1.00  0.00           H  
+ATOM    957  HZ2 LYS A  97     -13.392  15.273  15.137  1.00  0.00           H  
+ATOM    958  HZ3 LYS A  97     -13.309  16.784  15.906  1.00  0.00           H  
+ATOM    959  N   PRO A  98      -6.334  12.753  14.803  1.00 44.31           N  
+ATOM    960  CA  PRO A  98      -5.818  12.119  16.014  1.00 45.37           C  
+ATOM    961  C   PRO A  98      -4.589  12.847  16.590  1.00 46.45           C  
+ATOM    962  O   PRO A  98      -4.526  13.091  17.795  1.00 47.44           O  
+ATOM    963  CB  PRO A  98      -5.497  10.687  15.575  1.00 43.63           C  
+ATOM    964  CG  PRO A  98      -5.537  10.749  14.086  1.00 44.43           C  
+ATOM    965  CD  PRO A  98      -6.611  11.744  13.777  1.00 43.98           C  
+ATOM    966  N   LEU A  99      -3.638  13.217  15.725  1.00 46.20           N  
+ATOM    967  CA  LEU A  99      -2.427  13.892  16.177  1.00 45.20           C  
+ATOM    968  C   LEU A  99      -2.731  15.288  16.672  1.00 46.29           C  
+ATOM    969  O   LEU A  99      -2.212  15.707  17.705  1.00 45.15           O  
+ATOM    970  CB  LEU A  99      -1.386  13.979  15.053  1.00 42.84           C  
+ATOM    971  CG  LEU A  99      -0.093  14.741  15.389  1.00 41.15           C  
+ATOM    972  CD1 LEU A  99       0.804  13.895  16.275  1.00 38.20           C  
+ATOM    973  CD2 LEU A  99       0.626  15.131  14.117  1.00 39.05           C  
+ATOM    974  H   LEU A  99      -3.759  13.036  14.770  1.00  0.00           H  
+ATOM    975  N   PHE A 100      -3.564  16.007  15.933  1.00 48.58           N  
+ATOM    976  CA  PHE A 100      -3.896  17.372  16.305  1.00 52.20           C  
+ATOM    977  C   PHE A 100      -4.517  17.429  17.688  1.00 56.06           C  
+ATOM    978  O   PHE A 100      -4.089  18.213  18.537  1.00 56.52           O  
+ATOM    979  CB  PHE A 100      -4.865  18.008  15.296  1.00 50.34           C  
+ATOM    980  CG  PHE A 100      -4.309  18.236  13.913  1.00 48.52           C  
+ATOM    981  CD1 PHE A 100      -2.950  18.478  13.717  1.00 46.65           C  
+ATOM    982  CD2 PHE A 100      -5.158  18.231  12.803  1.00 47.63           C  
+ATOM    983  CE1 PHE A 100      -2.447  18.713  12.445  1.00 46.95           C  
+ATOM    984  CE2 PHE A 100      -4.662  18.466  11.530  1.00 46.65           C  
+ATOM    985  CZ  PHE A 100      -3.304  18.707  11.350  1.00 46.70           C  
+ATOM    986  H   PHE A 100      -3.954  15.615  15.124  1.00  0.00           H  
+ATOM    987  N   ASP A 101      -5.517  16.594  17.924  1.00 60.72           N  
+ATOM    988  CA  ASP A 101      -6.204  16.632  19.205  1.00 66.29           C  
+ATOM    989  C   ASP A 101      -5.449  15.864  20.289  1.00 68.12           C  
+ATOM    990  O   ASP A 101      -5.728  16.047  21.477  1.00 69.45           O  
+ATOM    991  CB  ASP A 101      -7.653  16.132  19.071  1.00 68.88           C  
+ATOM    992  CG  ASP A 101      -7.782  14.625  19.028  1.00 72.53           C  
+ATOM    993  OD1 ASP A 101      -7.085  13.994  18.212  1.00 74.44           O  
+ATOM    994  OD2 ASP A 101      -8.584  14.071  19.818  1.00 73.84           O  
+ATOM    995  H   ASP A 101      -5.795  15.955  17.233  1.00  0.00           H  
+ATOM    996  N   PHE A 102      -4.497  15.014  19.881  1.00 69.09           N  
+ATOM    997  CA  PHE A 102      -3.676  14.272  20.835  1.00 69.65           C  
+ATOM    998  C   PHE A 102      -3.031  15.235  21.825  1.00 70.64           C  
+ATOM    999  O   PHE A 102      -2.775  14.878  22.974  1.00 72.94           O  
+ATOM   1000  CB  PHE A 102      -2.583  13.502  20.091  1.00 70.00           C  
+ATOM   1001  CG  PHE A 102      -1.745  12.597  20.951  1.00 71.29           C  
+ATOM   1002  CD1 PHE A 102      -0.639  13.089  21.637  1.00 71.76           C  
+ATOM   1003  CD2 PHE A 102      -2.053  11.238  21.062  1.00 72.61           C  
+ATOM   1004  CE1 PHE A 102       0.139  12.248  22.414  1.00 72.74           C  
+ATOM   1005  CE2 PHE A 102      -1.274  10.387  21.838  1.00 72.58           C  
+ATOM   1006  CZ  PHE A 102      -0.177  10.895  22.516  1.00 73.27           C  
+ATOM   1007  H   PHE A 102      -4.346  14.884  18.921  1.00  0.00           H  
+TER    1008      PHE A 102                                                      
+HETATM 1009  O   HOH A 401      11.442  26.376  18.419  1.00 38.23           O  
+HETATM 1010  H1  HOH A 401      12.360  26.094  18.365  1.00  0.00           H  
+HETATM 1011  H2  HOH A 401      11.489  27.267  18.767  1.00  0.00           H  
+HETATM 1012  O   HOH A 402       8.649  28.512  17.527  1.00 47.94           O  
+HETATM 1013  H1  HOH A 402       9.202  27.788  17.213  1.00  0.00           H  
+HETATM 1014  H2  HOH A 402       7.878  28.486  16.957  1.00  0.00           H  
+HETATM 1015  O   HOH A 403       7.263  28.403  19.944  1.00 38.55           O  
+HETATM 1016  H1  HOH A 403       7.266  27.444  19.925  1.00  0.00           H  
+HETATM 1017  H2  HOH A 403       7.891  28.655  19.252  1.00  0.00           H  
+HETATM 1018  O   HOH A 404      13.823  23.249  15.906  1.00 61.76           O  
+HETATM 1019  H1  HOH A 404      14.758  23.159  15.681  1.00  0.00           H  
+HETATM 1020  H2  HOH A 404      13.741  24.157  16.204  1.00  0.00           H  
+HETATM 1021  O   HOH A 405       8.756  28.493  22.514  1.00 66.03           O  
+HETATM 1022  H1  HOH A 405       8.339  28.510  21.650  1.00  0.00           H  
+HETATM 1023  H2  HOH A 405       8.556  29.355  22.893  1.00  0.00           H  
+HETATM 1024  O   HOH A 406       9.224  19.780  22.203  1.00 22.24           O  
+HETATM 1025  H1  HOH A 406       9.276  19.201  21.436  1.00  0.00           H  
+HETATM 1026  H2  HOH A 406       9.990  19.533  22.736  1.00  0.00           H  
+HETATM 1027  O   HOH A 407      11.643  19.276  23.871  1.00 44.82           O  
+HETATM 1028  H1  HOH A 407      12.275  19.960  23.620  1.00  0.00           H  
+HETATM 1029  H2  HOH A 407      11.978  18.952  24.712  1.00  0.00           H  
+HETATM 1030  O   HOH A 408       7.638  19.412  26.856  1.00 66.34           O  
+HETATM 1031  H1  HOH A 408       7.334  19.672  27.732  1.00  0.00           H  
+HETATM 1032  H2  HOH A 408       8.293  18.736  27.024  1.00  0.00           H  
+HETATM 1033  O   HOH A 409       9.788  12.718  23.881  1.00 35.90           O  
+HETATM 1034  H1  HOH A 409      10.485  13.349  24.074  1.00  0.00           H  
+HETATM 1035  H2  HOH A 409       9.534  12.912  22.975  1.00  0.00           H  
+HETATM 1036  O   HOH A 410      -7.039  27.560  12.371  1.00 76.53           O  
+HETATM 1037  H1  HOH A 410      -7.871  27.092  12.461  1.00  0.00           H  
+HETATM 1038  H2  HOH A 410      -6.381  26.862  12.283  1.00  0.00           H  
+HETATM 1039  O   HOH A 411      10.636  15.015  28.679  1.00 79.82           O  
+HETATM 1040  H1  HOH A 411      10.754  14.224  29.205  1.00  0.00           H  
+HETATM 1041  H2  HOH A 411       9.685  15.085  28.566  1.00  0.00           H  
+HETATM 1042  O   HOH A 412      -5.406  19.815  21.604  1.00 67.01           O  
+HETATM 1043  H1  HOH A 412      -5.059  20.294  22.359  1.00  0.00           H  
+HETATM 1044  H2  HOH A 412      -5.402  18.897  21.884  1.00  0.00           H  
+HETATM 1045  O   HOH A 413       0.948  26.025  18.289  1.00 28.37           O  
+HETATM 1046  H1  HOH A 413       1.360  25.442  18.933  1.00  0.00           H  
+HETATM 1047  H2  HOH A 413       1.280  26.901  18.518  1.00  0.00           H  
+HETATM 1048  O   HOH A 414       2.348  27.103  21.691  1.00 40.51           O  
+HETATM 1049  H1  HOH A 414       2.244  26.285  21.195  1.00  0.00           H  
+HETATM 1050  H2  HOH A 414       2.771  27.701  21.073  1.00  0.00           H  
+HETATM 1051  O   HOH A 415       1.783  28.751  19.142  1.00 45.14           O  
+HETATM 1052  H1  HOH A 415       2.466  29.079  19.741  1.00  0.00           H  
+HETATM 1053  H2  HOH A 415       1.057  29.370  19.247  1.00  0.00           H  
+HETATM 1054  O   HOH A 416      -1.813  27.629  17.603  1.00 63.33           O  
+HETATM 1055  H1  HOH A 416      -0.906  27.508  17.899  1.00  0.00           H  
+HETATM 1056  H2  HOH A 416      -1.823  28.521  17.231  1.00  0.00           H  
+HETATM 1057  O   HOH A 417       0.364  33.475  10.829  1.00 43.72           O  
+HETATM 1058  H1  HOH A 417      -0.450  33.139  10.448  1.00  0.00           H  
+HETATM 1059  H2  HOH A 417       0.123  33.712  11.729  1.00  0.00           H  
+HETATM 1060  O   HOH A 418       3.290  35.799  10.789  1.00 45.96           O  
+HETATM 1061  H1  HOH A 418       2.521  35.871  11.354  1.00  0.00           H  
+HETATM 1062  H2  HOH A 418       2.954  36.032   9.910  1.00  0.00           H  
+HETATM 1063  O   HOH A 419       8.914  16.633  -7.731  1.00 47.58           O  
+HETATM 1064  H1  HOH A 419       8.580  16.211  -8.527  1.00  0.00           H  
+HETATM 1065  H2  HOH A 419       9.739  17.055  -8.014  1.00  0.00           H  
+HETATM 1066  O   HOH A 420      16.804  28.181   7.657  1.00 52.61           O  
+HETATM 1067  H1  HOH A 420      17.349  28.921   7.925  1.00  0.00           H  
+HETATM 1068  H2  HOH A 420      17.428  27.548   7.300  1.00  0.00           H  
+HETATM 1069  O   HOH A 421       4.841   5.174   7.671  1.00 54.02           O  
+HETATM 1070  H1  HOH A 421       4.992   4.811   6.796  1.00  0.00           H  
+HETATM 1071  H2  HOH A 421       3.969   5.585   7.610  1.00  0.00           H  
+HETATM 1072  O   HOH A 422       6.123  12.466   6.644  1.00 38.59           O  
+HETATM 1073  H1  HOH A 422       6.354  11.569   6.880  1.00  0.00           H  
+HETATM 1074  H2  HOH A 422       5.242  12.393   6.258  1.00  0.00           H  
+HETATM 1075  O   HOH A 423       3.623  12.224   6.231  1.00 46.24           O  
+HETATM 1076  H1  HOH A 423       3.260  11.491   6.732  1.00  0.00           H  
+HETATM 1077  H2  HOH A 423       3.150  12.995   6.560  1.00  0.00           H  
+HETATM 1078  O   HOH A 424       8.696  11.998   9.005  1.00 59.93           O  
+HETATM 1079  H1  HOH A 424       7.734  12.042   9.009  1.00  0.00           H  
+HETATM 1080  H2  HOH A 424       8.947  12.160   9.914  1.00  0.00           H  
+HETATM 1081  O   HOH A 425       8.405   9.129   7.648  1.00 61.20           O  
+HETATM 1082  H1  HOH A 425       9.210   8.614   7.550  1.00  0.00           H  
+HETATM 1083  H2  HOH A 425       8.701   9.956   8.049  1.00  0.00           H  
+HETATM 1084  O   HOH A 426      18.447  13.535  15.604  1.00 34.60           O  
+HETATM 1085  H1  HOH A 426      18.325  12.712  16.083  1.00  0.00           H  
+HETATM 1086  H2  HOH A 426      17.838  13.470  14.861  1.00  0.00           H  
+HETATM 1087  O   HOH A 427      12.794  20.256   3.954  1.00 62.89           O  
+HETATM 1088  H1  HOH A 427      13.638  20.705   4.102  1.00  0.00           H  
+HETATM 1089  H2  HOH A 427      13.034  19.453   3.487  1.00  0.00           H  
+HETATM 1090  O   HOH A 428       8.847  19.809   0.651  1.00 65.07           O  
+HETATM 1091  H1  HOH A 428       8.427  19.180   1.242  1.00  0.00           H  
+HETATM 1092  H2  HOH A 428       8.764  20.651   1.101  1.00  0.00           H  
+HETATM 1093  O   HOH A 429      -2.878  19.586  20.641  1.00 55.95           O  
+HETATM 1094  H1  HOH A 429      -3.712  19.246  20.304  1.00  0.00           H  
+HETATM 1095  H2  HOH A 429      -2.949  20.533  20.530  1.00  0.00           H  
+HETATM 1096  O   HOH A 430      -3.389  10.814   2.153  1.00 68.44           O  
+HETATM 1097  H1  HOH A 430      -3.370  10.574   1.223  1.00  0.00           H  
+HETATM 1098  H2  HOH A 430      -2.731  11.518   2.225  1.00  0.00           H  
+HETATM 1099  O   HOH A 431       7.974   6.841   9.094  1.00 81.57           O  
+HETATM 1100  H1  HOH A 431       7.873   7.036   8.159  1.00  0.00           H  
+HETATM 1101  H2  HOH A 431       7.642   5.943   9.185  1.00  0.00           H  
+HETATM 1102  O   HOH A 432       8.985  13.925  -7.061  1.00 46.17           O  
+HETATM 1103  H1  HOH A 432       9.892  13.636  -6.937  1.00  0.00           H  
+HETATM 1104  H2  HOH A 432       9.045  14.887  -7.113  1.00  0.00           H  
+HETATM 1105  O   HOH A 433      11.459  17.807  -8.216  1.00 61.98           O  
+HETATM 1106  H1  HOH A 433      12.207  17.850  -7.615  1.00  0.00           H  
+HETATM 1107  H2  HOH A 433      11.478  18.651  -8.675  1.00  0.00           H  
+HETATM 1108  O   HOH A 434     -10.484  15.879   5.891  1.00 49.08           O  
+HETATM 1109  H1  HOH A 434     -10.763  16.064   4.990  1.00  0.00           H  
+HETATM 1110  H2  HOH A 434     -11.213  16.190   6.431  1.00  0.00           H  
+HETATM 1111  O   HOH A 435      12.930  13.009  26.185  1.00 43.86           O  
+HETATM 1112  H1  HOH A 435      12.963  13.330  27.087  1.00  0.00           H  
+HETATM 1113  H2  HOH A 435      13.476  13.625  25.694  1.00  0.00           H  
+HETATM 1114  O   HOH A 436      -3.464  25.858  19.747  1.00 63.70           O  
+HETATM 1115  H1  HOH A 436      -3.471  26.403  18.954  1.00  0.00           H  
+HETATM 1116  H2  HOH A 436      -2.587  25.992  20.114  1.00  0.00           H  
+HETATM 1117  O   HOH A 437       6.235  16.677  28.203  1.00 68.03           O  
+HETATM 1118  H1  HOH A 437       6.291  17.517  28.663  1.00  0.00           H  
+HETATM 1119  H2  HOH A 437       5.340  16.667  27.835  1.00  0.00           H  
+HETATM 1120  O   HOH A 438       7.423  17.512 -10.650  1.00 57.40           O  
+HETATM 1121  H1  HOH A 438       7.010  16.951  -9.986  1.00  0.00           H  
+HETATM 1122  H2  HOH A 438       7.702  16.894 -11.334  1.00  0.00           H  
+HETATM 1123  O   HOH A 439      -5.355  10.866  19.619  1.00 51.92           O  
+HETATM 1124  H1  HOH A 439      -6.252  10.945  19.294  1.00  0.00           H  
+HETATM 1125  H2  HOH A 439      -4.871  11.550  19.149  1.00  0.00           H  
+HETATM 1126  O   HOH A 440      -8.867  11.724  17.801  1.00 59.09           O  
+HETATM 1127  H1  HOH A 440      -8.909  12.448  18.427  1.00  0.00           H  
+HETATM 1128  H2  HOH A 440      -9.457  11.061  18.162  1.00  0.00           H  
+HETATM 1129  O   HOH A 441      13.107  15.120   7.186  1.00 56.17           O  
+HETATM 1130  H1  HOH A 441      12.362  15.432   7.708  1.00  0.00           H  
+HETATM 1131  H2  HOH A 441      13.869  15.225   7.770  1.00  0.00           H  
+HETATM 1132  O   HOH A 442      -2.200  10.629  25.072  1.00 84.96           O  
+HETATM 1133  H1  HOH A 442      -1.698  11.431  25.238  1.00  0.00           H  
+HETATM 1134  H2  HOH A 442      -3.040  10.942  24.729  1.00  0.00           H  
+HETATM 1135  O   HOH A 444       1.798  36.196   8.660  1.00 69.55           O  
+HETATM 1136  H1  HOH A 444       2.171  36.075   7.775  1.00  0.00           H  
+HETATM 1137  H2  HOH A 444       1.186  35.465   8.757  1.00  0.00           H  
+HETATM 1138  O   HOH A 446      12.829  16.619  28.388  1.00 76.91           O  
+HETATM 1139  H1  HOH A 446      12.031  17.139  28.283  1.00  0.00           H  
+HETATM 1140  H2  HOH A 446      12.511  15.764  28.684  1.00  0.00           H  
+HETATM 1141  O   HOH A 447      -1.714   7.995  25.869  1.00 53.32           O  
+HETATM 1142  H1  HOH A 447      -1.215   7.807  25.076  1.00  0.00           H  
+HETATM 1143  H2  HOH A 447      -1.895   8.941  25.818  1.00  0.00           H  
+HETATM 1144  O   HOH A 449      17.342  21.354  17.381  1.00 78.08           O  
+HETATM 1145  H1  HOH A 449      17.257  20.526  17.868  1.00  0.00           H  
+HETATM 1146  H2  HOH A 449      17.020  22.020  17.988  1.00  0.00           H  
+HETATM 1147  O   HOH A 450      17.554  22.356  21.606  1.00 81.11           O  
+HETATM 1148  H1  HOH A 450      17.863  21.463  21.445  1.00  0.00           H  
+HETATM 1149  H2  HOH A 450      18.333  22.902  21.491  1.00  0.00           H  
+HETATM 1150  O   HOH A 451      21.261  19.604  17.525  1.00 60.20           O  
+HETATM 1151  H1  HOH A 451      21.971  20.078  17.088  1.00  0.00           H  
+HETATM 1152  H2  HOH A 451      20.490  20.166  17.407  1.00  0.00           H  
+HETATM 1153  O   HOH A 452      20.618  19.027  20.159  1.00 71.08           O  
+HETATM 1154  H1  HOH A 452      20.831  19.188  19.232  1.00  0.00           H  
+HETATM 1155  H2  HOH A 452      21.279  18.398  20.447  1.00  0.00           H  
+HETATM 1156  O   HOH A 454       3.691  16.091  27.806  1.00 75.85           O  
+HETATM 1157  H1  HOH A 454       3.113  15.469  27.354  1.00  0.00           H  
+HETATM 1158  H2  HOH A 454       3.644  15.832  28.729  1.00  0.00           H  
+HETATM 1159  O   HOH A 456      17.778  15.979   4.727  1.00 87.15           O  
+HETATM 1160  H1  HOH A 456      17.578  15.048   4.815  1.00  0.00           H  
+HETATM 1161  H2  HOH A 456      17.841  16.297   5.638  1.00  0.00           H  
+HETATM 1162  O   HOH A 457       2.784   6.732   0.413  1.00 58.64           O  
+HETATM 1163  H1  HOH A 457       3.270   6.190   1.038  1.00  0.00           H  
+HETATM 1164  H2  HOH A 457       2.569   6.134  -0.304  1.00  0.00           H  
+HETATM 1165  O   HOH A 458       6.812   6.267   3.872  1.00 78.10           O  
+HETATM 1166  H1  HOH A 458       6.068   6.869   3.796  1.00  0.00           H  
+HETATM 1167  H2  HOH A 458       7.515   6.697   3.386  1.00  0.00           H  
+HETATM 1168  O   HOH A 459      11.360  23.250  27.379  1.00 91.15           O  
+HETATM 1169  H1  HOH A 459      10.875  24.075  27.257  1.00  0.00           H  
+HETATM 1170  H2  HOH A 459      11.895  23.176  26.588  1.00  0.00           H  
+HETATM 1171  O   HOH A 460      11.533  21.478  -4.909  1.00 61.19           O  
+HETATM 1172  H1  HOH A 460      11.125  21.466  -4.035  1.00  0.00           H  
+HETATM 1173  H2  HOH A 460      11.171  22.260  -5.324  1.00  0.00           H  
+HETATM 1174  O   HOH A 461      -2.761  38.231   3.181  1.00 84.62           O  
+HETATM 1175  H1  HOH A 461      -1.871  38.468   3.455  1.00  0.00           H  
+HETATM 1176  H2  HOH A 461      -2.645  37.814   2.327  1.00  0.00           H  
+HETATM 1177  O   HOH A 462      -5.015  39.320   4.311  1.00 88.70           O  
+HETATM 1178  H1  HOH A 462      -4.698  40.216   4.219  1.00  0.00           H  
+HETATM 1179  H2  HOH A 462      -4.298  38.779   3.950  1.00  0.00           H  
+HETATM 1180  O   HOH A 463      10.179  21.307   3.687  1.00 49.11           O  
+HETATM 1181  H1  HOH A 463       9.722  21.057   4.495  1.00  0.00           H  
+HETATM 1182  H2  HOH A 463      11.079  20.973   3.815  1.00  0.00           H  
+HETATM 1183  O   HOH A 464      -1.283  31.486  14.715  1.00 75.28           O  
+HETATM 1184  H1  HOH A 464      -0.458  31.251  14.289  1.00  0.00           H  
+HETATM 1185  H2  HOH A 464      -1.540  30.684  15.190  1.00  0.00           H  
+HETATM 1186  O   HOH A 465      -3.174  28.185   6.783  1.00 76.66           O  
+HETATM 1187  H1  HOH A 465      -3.814  28.666   7.321  1.00  0.00           H  
+HETATM 1188  H2  HOH A 465      -3.169  28.650   5.944  1.00  0.00           H  
+HETATM 1189  O   HOH A 466      -5.798  24.608  20.375  1.00 86.02           O  
+HETATM 1190  H1  HOH A 466      -5.419  23.785  20.680  1.00  0.00           H  
+HETATM 1191  H2  HOH A 466      -5.032  25.168  20.192  1.00  0.00           H  
+HETATM 1192  O   HOH A 467     -10.433  22.178  -0.029  1.00 70.77           O  
+HETATM 1193  H1  HOH A 467     -10.696  21.582   0.672  1.00  0.00           H  
+HETATM 1194  H2  HOH A 467      -9.472  22.144  -0.019  1.00  0.00           H  
+HETATM 1195  O   HOH A 468     -12.736  19.373  14.748  1.00 67.61           O  
+HETATM 1196  H1  HOH A 468     -13.404  19.567  14.089  1.00  0.00           H  
+HETATM 1197  H2  HOH A 468     -12.581  20.211  15.186  1.00  0.00           H  
+HETATM 1198  O   HOH A 469     -12.719  15.279  19.686  1.00 72.04           O  
+HETATM 1199  H1  HOH A 469     -11.938  15.746  19.984  1.00  0.00           H  
+HETATM 1200  H2  HOH A 469     -12.734  14.477  20.208  1.00  0.00           H  
+HETATM 1201  O   HOH A 470      14.152  20.306  23.565  1.00 67.11           O  
+HETATM 1202  H1  HOH A 470      14.822  20.685  24.137  1.00  0.00           H  
+HETATM 1203  H2  HOH A 470      14.616  19.594  23.101  1.00  0.00           H  
+HETATM 1204  O   HOH A 471      13.538  23.641  18.923  1.00 71.61           O  
+HETATM 1205  H1  HOH A 471      13.182  23.149  18.177  1.00  0.00           H  
+HETATM 1206  H2  HOH A 471      13.920  22.968  19.489  1.00  0.00           H  
+HETATM 1207  O   HOH A 472      -2.426  22.296  24.456  1.00 58.68           O  
+HETATM 1208  H1  HOH A 472      -1.824  21.550  24.486  1.00  0.00           H  
+HETATM 1209  H2  HOH A 472      -2.172  22.837  25.206  1.00  0.00           H  
+HETATM 1210  O   HOH A 473      -4.196  19.616  27.496  1.00 73.73           O  
+HETATM 1211  H1  HOH A 473      -4.186  20.369  28.087  1.00  0.00           H  
+HETATM 1212  H2  HOH A 473      -3.490  19.052  27.815  1.00  0.00           H  
+HETATM 1213  O   HOH A 474      -3.309   5.980   5.845  1.00 68.19           O  
+HETATM 1214  H1  HOH A 474      -3.838   5.345   6.332  1.00  0.00           H  
+HETATM 1215  H2  HOH A 474      -3.906   6.325   5.178  1.00  0.00           H  
+HETATM 1216  O   HOH A 475      17.838  23.280   1.198  1.00 77.31           O  
+HETATM 1217  H1  HOH A 475      18.005  22.946   2.080  1.00  0.00           H  
+HETATM 1218  H2  HOH A 475      16.886  23.249   1.107  1.00  0.00           H  
+HETATM 1219  O   HOH A 476      10.307  16.081   6.990  1.00 59.61           O  
+HETATM 1220  H1  HOH A 476      10.750  16.852   7.367  1.00  0.00           H  
+HETATM 1221  H2  HOH A 476      10.894  15.787   6.290  1.00  0.00           H  
+HETATM 1222  O   HOH A 477      11.355  23.439   4.466  1.00 66.34           O  
+HETATM 1223  H1  HOH A 477      10.901  22.829   3.870  1.00  0.00           H  
+HETATM 1224  H2  HOH A 477      12.059  23.808   3.935  1.00  0.00           H  
+HETATM 1225  O   HOH A 478      17.221  12.554  13.119  1.00 53.33           O  
+HETATM 1226  H1  HOH A 478      17.675  13.340  12.793  1.00  0.00           H  
+HETATM 1227  H2  HOH A 478      17.910  11.893  13.189  1.00  0.00           H  
+HETATM 1228  O   HOH A 479       6.483  28.190   5.603  1.00 90.05           O  
+HETATM 1229  H1  HOH A 479       6.350  28.405   4.680  1.00  0.00           H  
+HETATM 1230  H2  HOH A 479       6.782  27.278   5.595  1.00  0.00           H  
+HETATM 1231  O   HOH A 480      -1.050  28.108   4.394  1.00 85.46           O  
+HETATM 1232  H1  HOH A 480      -0.904  27.942   5.328  1.00  0.00           H  
+HETATM 1233  H2  HOH A 480      -0.405  28.792   4.169  1.00  0.00           H  
+HETATM 1234  O   HOH A 481       7.764   6.413  14.803  1.00 47.44           O  
+HETATM 1235  H1  HOH A 481       7.927   7.153  15.390  1.00  0.00           H  
+HETATM 1236  H2  HOH A 481       7.543   6.819  13.965  1.00  0.00           H  
+HETATM 1237  O   HOH A 482      -1.304  30.550  17.203  1.00 47.05           O  
+HETATM 1238  H1  HOH A 482      -2.121  30.831  17.619  1.00  0.00           H  
+HETATM 1239  H2  HOH A 482      -0.966  31.348  16.785  1.00  0.00           H  
+HETATM 1240  O   HOH A 484       3.582  11.825  -5.019  1.00 54.04           O  
+HETATM 1241  H1  HOH A 484       4.118  12.609  -4.883  1.00  0.00           H  
+HETATM 1242  H2  HOH A 484       2.776  12.157  -5.424  1.00  0.00           H  
+HETATM 1243  O   HOH A 485      10.477  17.818   1.534  1.00 52.39           O  
+HETATM 1244  H1  HOH A 485      10.080  18.415   0.889  1.00  0.00           H  
+HETATM 1245  H2  HOH A 485      11.050  18.380   2.054  1.00  0.00           H  
+HETATM 1246  O   HOH A 486       8.350  13.220  -2.518  1.00 51.86           O  
+HETATM 1247  H1  HOH A 486       7.500  12.811  -2.685  1.00  0.00           H  
+HETATM 1248  H2  HOH A 486       8.871  13.018  -3.295  1.00  0.00           H  
+HETATM 1249  O   HOH A 487      10.766  31.335  -1.067  1.00 53.16           O  
+HETATM 1250  H1  HOH A 487       9.819  31.209  -0.984  1.00  0.00           H  
+HETATM 1251  H2  HOH A 487      11.147  30.557  -0.661  1.00  0.00           H  
+HETATM 1252  O   HOH A 488      -1.322  36.803   5.890  1.00 51.31           O  
+HETATM 1253  H1  HOH A 488      -2.260  36.695   6.053  1.00  0.00           H  
+HETATM 1254  H2  HOH A 488      -0.911  36.077   6.358  1.00  0.00           H  
+HETATM 1255  O   HOH A 489      -8.558  12.902   5.180  1.00 53.15           O  
+HETATM 1256  H1  HOH A 489      -8.421  13.507   4.441  1.00  0.00           H  
+HETATM 1257  H2  HOH A 489      -9.446  12.564   5.045  1.00  0.00           H  
+MASTER      234    0    0    4    5    0    0    6 1256    1    0    8          
+END                                                                             
diff --git a/data/2F1C.fa b/data/2F1C.fa
index f7eac38..5281bb4 100644
--- a/data/2F1C.fa
+++ b/data/2F1C.fa
@@ -1,5 +1,5 @@
->2F1C:X|PDBID|CHAIN|SEQUENCE
-EERNDWHFNIGAMYEIENVEGYGEDMDGLAEPSVYFNAANGPWRIALAYYQEGPVDYSAGKRGTWFDRPELEVHYQFLEN
-DDFSFGLTGGFRNYGYHYVDEPGKDTANMQRWKIAPDWDVKLTDDLRFNGWLSMYKFANDLNTTGYADTRVETETGLQYT
-FNETVALRVNYYLERGFNMDDSRNNGEFSTQEIRAYLPLTLGNHSVTPYTRIGLDRWSNWDWQDDIEREGHDFNRVGLFY
+>2F1C:X|PDBID|CHAIN|SEQUENCE
+EERNDWHFNIGAMYEIENVEGYGEDMDGLAEPSVYFNAANGPWRIALAYYQEGPVDYSAGKRGTWFDRPELEVHYQFLEN
+DDFSFGLTGGFRNYGYHYVDEPGKDTANMQRWKIAPDWDVKLTDDLRFNGWLSMYKFANDLNTTGYADTRVETETGLQYT
+FNETVALRVNYYLERGFNMDDSRNNGEFSTQEIRAYLPLTLGNHSVTPYTRIGLDRWSNWDWQDDIEREGHDFNRVGLFY
 GYDFQNGLSVSLEYAFEWQDHDEGDSDKFHYAGVGVNYSFHHHHHH
\ No newline at end of file
diff --git a/data/3FG7.fa b/data/3FG7.fa
index aa22c46..5fb7df0 100644
--- a/data/3FG7.fa
+++ b/data/3FG7.fa
@@ -1,6 +1,6 @@
->3FG7:A|PDBID|CHAIN|SEQUENCE
-MAEEHHHHHHHHLEVLFQGPGRPKTHTVGSVAKVEQVKFDATSMHVKPQVAAQQKMVDDGSGEVQVWRIENLELVPVDSK
-WLGHFYGGDCYLLLYTYLIGEKQHYLLYVWQGSQASQDEITASAYQAVILDQKYNGEPVQIRVPMGKEPPHLMSIFKGRM
-VVYQGGTSRTNNLETGPSTRLFQVQGTGANNTKAFEVPARANFLNSNDVFVLKTQSCCYLWCGKGCSGDEREMAKMVADT
-ISRTEKQVVVEGQEPANFWMALGGKAPYANTKRLQEENLVITPRLFECSNKTGRFLATEIPDFNQDDLEEDDVFLLDVWD
-QVFFWIGKHANEEEKKAAATTAQEYLKTHPSGRDPETPIIVVKQGHEPPTFTGWFLAWDPFKWSGIHVVPNLSPLSNN
+>3FG7:A|PDBID|CHAIN|SEQUENCE
+MAEEHHHHHHHHLEVLFQGPGRPKTHTVGSVAKVEQVKFDATSMHVKPQVAAQQKMVDDGSGEVQVWRIENLELVPVDSK
+WLGHFYGGDCYLLLYTYLIGEKQHYLLYVWQGSQASQDEITASAYQAVILDQKYNGEPVQIRVPMGKEPPHLMSIFKGRM
+VVYQGGTSRTNNLETGPSTRLFQVQGTGANNTKAFEVPARANFLNSNDVFVLKTQSCCYLWCGKGCSGDEREMAKMVADT
+ISRTEKQVVVEGQEPANFWMALGGKAPYANTKRLQEENLVITPRLFECSNKTGRFLATEIPDFNQDDLEEDDVFLLDVWD
+QVFFWIGKHANEEEKKAAATTAQEYLKTHPSGRDPETPIIVVKQGHEPPTFTGWFLAWDPFKWSGIHVVPNLSPLSNN
diff --git a/data/MBP1_SACCE.json b/data/MBP1_SACCE.json
index 56e91a3..46c695f 100644
--- a/data/MBP1_SACCE.json
+++ b/data/MBP1_SACCE.json
@@ -1,20 +1,20 @@
-[
-  { "name" : "MBP1_SACCE",
-    "RefSeqID" : "NP_010227",
-    "UniProtID" : "P39678",
-    "taxonomyID" : 559292,
-    "sequence" : [
-       "MSNQIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLKETHEKVQGGF",
-       "GKYQGTWVPLNIAKQLAEKFSVYDQLKPLFDFTQTDGSASPPPAPKHHHASKVDRKKAIRSASTSAIMET",
-       "KRNNKKAEENQFQSSKILGNPTAAPRKRGRPVGSTRGSRRKLGVNLQRSQSDMGFPRPAIPNSSISTTQL",
-       "PSIRSTMGPQSPTLGILEEERHDSRQQQPQQNNSAQFKEIDLEDGLSSDVEPSQQLQQVFNQNTGFVPQQ",
-       "QSSLIQTQQTESMATSVSSSPSLPTSPGDFADSNPFEERFPGGGTSPIISMIPRYPVTSRPQTSDINDKV",
-       "NKYLSKLVDYFISNEMKSNKSLPQVLLHPPPHSAPYIDAPIDPELHTAFHWACSMGNLPIAEALYEAGTS",
-       "IRSTNSQGQTPLMRSSLFHNSYTRRTFPRIFQLLHETVFDIDSQSQTVIHHIVKRKSTTPSAVYYLDVVL",
-       "SKIKDFSPQYRIELLLNTQDKNGDTALHIASKNGDVVFFNTLVKMGALTTISNKEGLTANEIMNQQYEQM",
-       "MIQNGTNQHVNSSNTDLNIHVNTNNIETKNDVNSMVIMSPVSPSDYITYPSQIATNISRNIPNVVNSMKQ",
-       "MASIYNDLHEQHDNEIKSLQKTLKSISKTKIQVSLKTLEVLKESSKDENGEAQTNDDFEILSRLQEQNTK",
-       "KLRKRLIRYKRLIKQKLEYRQTVLLNKLIEDETQATTNNTVEKDNNTLERLELAQELTMLQLQRKNKLSS",
-       "LVKKFEDNAKIHKYRRIIREGTEMNIEEVDSSLDVILQTLIANNNKNKGAEQIITISNANSHA"]
-  }
-]
+[
+  { "name" : "MBP1_SACCE",
+    "RefSeqID" : "NP_010227",
+    "UniProtID" : "P39678",
+    "taxonomyID" : 559292,
+    "sequence" : [
+       "MSNQIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLKETHEKVQGGF",
+       "GKYQGTWVPLNIAKQLAEKFSVYDQLKPLFDFTQTDGSASPPPAPKHHHASKVDRKKAIRSASTSAIMET",
+       "KRNNKKAEENQFQSSKILGNPTAAPRKRGRPVGSTRGSRRKLGVNLQRSQSDMGFPRPAIPNSSISTTQL",
+       "PSIRSTMGPQSPTLGILEEERHDSRQQQPQQNNSAQFKEIDLEDGLSSDVEPSQQLQQVFNQNTGFVPQQ",
+       "QSSLIQTQQTESMATSVSSSPSLPTSPGDFADSNPFEERFPGGGTSPIISMIPRYPVTSRPQTSDINDKV",
+       "NKYLSKLVDYFISNEMKSNKSLPQVLLHPPPHSAPYIDAPIDPELHTAFHWACSMGNLPIAEALYEAGTS",
+       "IRSTNSQGQTPLMRSSLFHNSYTRRTFPRIFQLLHETVFDIDSQSQTVIHHIVKRKSTTPSAVYYLDVVL",
+       "SKIKDFSPQYRIELLLNTQDKNGDTALHIASKNGDVVFFNTLVKMGALTTISNKEGLTANEIMNQQYEQM",
+       "MIQNGTNQHVNSSNTDLNIHVNTNNIETKNDVNSMVIMSPVSPSDYITYPSQIATNISRNIPNVVNSMKQ",
+       "MASIYNDLHEQHDNEIKSLQKTLKSISKTKIQVSLKTLEVLKESSKDENGEAQTNDDFEILSRLQEQNTK",
+       "KLRKRLIRYKRLIKQKLEYRQTVLLNKLIEDETQATTNNTVEKDNNTLERLELAQELTMLQLQRKNKLSS",
+       "LVKKFEDNAKIHKYRRIIREGTEMNIEEVDSSLDVILQTLIANNNKNKGAEQIITISNANSHA"]
+  }
+]
diff --git a/data/PTPN5_HSa_coding.fa b/data/PTPN5_HSa_coding.fa
index 4a11b7e..3337caf 100644
--- a/data/PTPN5_HSa_coding.fa
+++ b/data/PTPN5_HSa_coding.fa
@@ -1,30 +1,30 @@
->PTPN5-201 cds:protein_coding (ENST00000358540.7)
-ATGAATTATGAGGGAGCCAGGAGTGAGAGAGAGAACCACGCTGCTGATGACTCCGAGGGA
-GGGGCCCTGGACATGTGCTGCAGTGAGAGGCTACCGGGTCTCCCCCAGCCGATAGTGATG
-GAGGCACTGGACGAGGCTGAAGGGCTCCAGGACTCACAGAGAGAGATGCCGCCACCCCCT
-CCTCCCTCGCCGCCCTCAGATCCAGCTCAGAAGCCACCACCTCGAGGCGCTGGGAGCCAC
-TCCCTCACTGTCAGGAGCAGCCTGTGCCTGTTCGCTGCCTCACAGTTCCTGCTTGCCTGT
-GGGGTGCTCTGGTTCAGCGGTTATGGCCACATCTGGTCACAGAACGCCACAAACCTCGTC
-TCCTCTTTGCTGACGCTCCTGAAACAGCTGGAACCCACGGCCTGGCTTGACTCTGGGACG
-TGGGGAGTCCCCAGTCTGCTGCTGGTCTTTCTGTCCGTGGGCCTGGTCCTCGTTACCACC
-CTGGTGTGGCACCTCCTGAGGACACCCCCAGAGCCACCCACCCCACTGCCCCCTGAGGAC
-AGGCGCCAGTCAGTGAGCCGCCAGCCCTCCTTCACCTACTCAGAGTGGATGGAGGAGAAG
-ATCGAGGATGACTTCCTGGACCTCGACCCGGTGCCCGAGACTCCTGTGTTTGATTGTGTG
-ATGGACATCAAGCCTGAGGCTGACCCCACCTCACTCACCGTCAAGTCCATGGGTCTGCAG
-GAGAGGAGGGGTTCCAATGTCTCCCTGACCCTGGACATGTGCACTCCGGGCTGCAACGAG
-GAGGGCTTTGGCTATCTCATGTCCCCACGTGAGGAGTCCGCCCGCGAGTACCTGCTCAGC
-GCCTCCCGTGTCCTCCAAGCAGAAGAGCTTCATGAAAAGGCCCTGGACCCTTTCCTGCTG
-CAGGCGGAATTCTTTGAAATCCCCATGAACTTTGTGGATCCGAAAGAGTACGACATCCCT
-GGGCTGGTGCGGAAGAACCGGTACAAAACCATACTTCCCAACCCTCACAGCAGAGTGTGT
-CTGACCTCACCAGACCCTGACGACCCTCTGAGTTCCTACATCAATGCCAACTACATCCGG
-GGCTATGGTGGGGAGGAGAAGGTGTACATCGCCACTCAGGGACCCATCGTCAGCACGGTC
-GCCGACTTCTGGCGCATGGTGTGGCAGGAGCACACGCCCATCATTGTCATGATCACCAAC
-ATCGAGGAGATGAACGAGAAATGCACCGAGTATTGGCCGGAGGAGCAGGTGGCGTACGAC
-GGTGTTGAGATCACTGTGCAGAAAGTCATTCACACGGAGGATTACCGGCTGCGACTCATC
-TCCCTCAAGAGTGGGACTGAGGAGCGAGGCCTGAAGCATTACTGGTTCACATCCTGGCCC
-GACCAGAAGACCCCAGACCGGGCCCCCCCACTCCTGCACCTGGTGCGGGAGGTGGAGGAG
-GCAGCCCAGCAGGAGGGGCCCCACTGTGCCCCCATCATCGTCCACTGCAGTGCAGGGATT
-GGGAGGACCGGCTGCTTCATTGCCACCAGCATCTGCTGCCAGCAGCTGCGGCAGGAGGGT
-GTGGTGGACATCCTGAAGACCACGTGCCAGCTCCGTCAGGACAGGGGCGGCATGATCCAG
-ACATGCGAGCAGTACCAGTTTGTGCACCACGTCATGAGCCTCTACGAAAAGCAGCTGTCC
-CACCAGTCCCCAGAATGA
+>PTPN5-201 cds:protein_coding (ENST00000358540.7)
+ATGAATTATGAGGGAGCCAGGAGTGAGAGAGAGAACCACGCTGCTGATGACTCCGAGGGA
+GGGGCCCTGGACATGTGCTGCAGTGAGAGGCTACCGGGTCTCCCCCAGCCGATAGTGATG
+GAGGCACTGGACGAGGCTGAAGGGCTCCAGGACTCACAGAGAGAGATGCCGCCACCCCCT
+CCTCCCTCGCCGCCCTCAGATCCAGCTCAGAAGCCACCACCTCGAGGCGCTGGGAGCCAC
+TCCCTCACTGTCAGGAGCAGCCTGTGCCTGTTCGCTGCCTCACAGTTCCTGCTTGCCTGT
+GGGGTGCTCTGGTTCAGCGGTTATGGCCACATCTGGTCACAGAACGCCACAAACCTCGTC
+TCCTCTTTGCTGACGCTCCTGAAACAGCTGGAACCCACGGCCTGGCTTGACTCTGGGACG
+TGGGGAGTCCCCAGTCTGCTGCTGGTCTTTCTGTCCGTGGGCCTGGTCCTCGTTACCACC
+CTGGTGTGGCACCTCCTGAGGACACCCCCAGAGCCACCCACCCCACTGCCCCCTGAGGAC
+AGGCGCCAGTCAGTGAGCCGCCAGCCCTCCTTCACCTACTCAGAGTGGATGGAGGAGAAG
+ATCGAGGATGACTTCCTGGACCTCGACCCGGTGCCCGAGACTCCTGTGTTTGATTGTGTG
+ATGGACATCAAGCCTGAGGCTGACCCCACCTCACTCACCGTCAAGTCCATGGGTCTGCAG
+GAGAGGAGGGGTTCCAATGTCTCCCTGACCCTGGACATGTGCACTCCGGGCTGCAACGAG
+GAGGGCTTTGGCTATCTCATGTCCCCACGTGAGGAGTCCGCCCGCGAGTACCTGCTCAGC
+GCCTCCCGTGTCCTCCAAGCAGAAGAGCTTCATGAAAAGGCCCTGGACCCTTTCCTGCTG
+CAGGCGGAATTCTTTGAAATCCCCATGAACTTTGTGGATCCGAAAGAGTACGACATCCCT
+GGGCTGGTGCGGAAGAACCGGTACAAAACCATACTTCCCAACCCTCACAGCAGAGTGTGT
+CTGACCTCACCAGACCCTGACGACCCTCTGAGTTCCTACATCAATGCCAACTACATCCGG
+GGCTATGGTGGGGAGGAGAAGGTGTACATCGCCACTCAGGGACCCATCGTCAGCACGGTC
+GCCGACTTCTGGCGCATGGTGTGGCAGGAGCACACGCCCATCATTGTCATGATCACCAAC
+ATCGAGGAGATGAACGAGAAATGCACCGAGTATTGGCCGGAGGAGCAGGTGGCGTACGAC
+GGTGTTGAGATCACTGTGCAGAAAGTCATTCACACGGAGGATTACCGGCTGCGACTCATC
+TCCCTCAAGAGTGGGACTGAGGAGCGAGGCCTGAAGCATTACTGGTTCACATCCTGGCCC
+GACCAGAAGACCCCAGACCGGGCCCCCCCACTCCTGCACCTGGTGCGGGAGGTGGAGGAG
+GCAGCCCAGCAGGAGGGGCCCCACTGTGCCCCCATCATCGTCCACTGCAGTGCAGGGATT
+GGGAGGACCGGCTGCTTCATTGCCACCAGCATCTGCTGCCAGCAGCTGCGGCAGGAGGGT
+GTGGTGGACATCCTGAAGACCACGTGCCAGCTCCGTCAGGACAGGGGCGGCATGATCCAG
+ACATGCGAGCAGTACCAGTTTGTGCACCACGTCATGAGCCTCTACGAAAAGCAGCTGTCC
+CACCAGTCCCCAGAATGA
diff --git a/data/RAB39B_HSa_coding.fa b/data/RAB39B_HSa_coding.fa
index 2e6e3d8..4d0dd37 100644
--- a/data/RAB39B_HSa_coding.fa
+++ b/data/RAB39B_HSa_coding.fa
@@ -1,12 +1,12 @@
->RAB39B cds:protein_coding (ENST00000369454.4)
-ATGGAGGCCATCTGGCTGTACCAGTTCCGGCTCATTGTCATCGGGGATTCCACAGTGGGC
-AAGTCCTGCCTGATCCGCCGCTTCACCGAGGGTCGCTTTGCCCAGGTTTCTGACCCCACC
-GTGGGGGTGGATTTTTTCTCCCGCTTGGTGGAGATCGAGCCAGGAAAACGCATCAAGCTC
-CAGATCTGGGATACCGCGGGTCAAGAGAGGTTCAGATCCATCACTCGCGCCTACTACAGG
-AACTCAGTAGGTGGTCTTCTCTTATTTGACATTACCAACCGCAGGTCCTTCCAGAATGTC
-CATGAGTGGTTAGAAGAGACCAAAGTACACGTTCAGCCCTACCAAATTGTATTTGTTCTG
-GTGGGTCACAAGTGTGACCTGGATACACAGAGGCAAGTGACTCGCCACGAGGCCGAGAAA
-CTGGCTGCTGCATACGGCATGAAGTACATTGAAACGTCAGCCCGAGATGCCATTAATGTG
-GAGAAAGCCTTCACAGACCTGACAAGAGACATATATGAGCTGGTTAAAAGGGGGGAGATT
-ACAATCCAGGAGGGCTGGGAAGGGGTGAAGAGTGGATTTGTACCAAATGTGGTTCACTCT
-TCAGAAGAGGTTGTCAAATCAGAGAGGAGATGTTTGTGCTAG
+>RAB39B cds:protein_coding (ENST00000369454.4)
+ATGGAGGCCATCTGGCTGTACCAGTTCCGGCTCATTGTCATCGGGGATTCCACAGTGGGC
+AAGTCCTGCCTGATCCGCCGCTTCACCGAGGGTCGCTTTGCCCAGGTTTCTGACCCCACC
+GTGGGGGTGGATTTTTTCTCCCGCTTGGTGGAGATCGAGCCAGGAAAACGCATCAAGCTC
+CAGATCTGGGATACCGCGGGTCAAGAGAGGTTCAGATCCATCACTCGCGCCTACTACAGG
+AACTCAGTAGGTGGTCTTCTCTTATTTGACATTACCAACCGCAGGTCCTTCCAGAATGTC
+CATGAGTGGTTAGAAGAGACCAAAGTACACGTTCAGCCCTACCAAATTGTATTTGTTCTG
+GTGGGTCACAAGTGTGACCTGGATACACAGAGGCAAGTGACTCGCCACGAGGCCGAGAAA
+CTGGCTGCTGCATACGGCATGAAGTACATTGAAACGTCAGCCCGAGATGCCATTAATGTG
+GAGAAAGCCTTCACAGACCTGACAAGAGACATATATGAGCTGGTTAAAAGGGGGGAGATT
+ACAATCCAGGAGGGCTGGGAAGGGGTGAAGAGTGGATTTGTACCAAATGTGGTTCACTCT
+TCAGAAGAGGTTGTCAAATCAGAGAGGAGATGTTTGTGCTAG
diff --git a/data/RandomPhobiaPage.txt b/data/RandomPhobiaPage.txt
index 75153c9..57296cb 100644
--- a/data/RandomPhobiaPage.txt
+++ b/data/RandomPhobiaPage.txt
@@ -1,131 +1,131 @@
-
-
-```{css, echo = FALSE}
-
-.striped tr:nth-child(even) {
-  background: #eaf1ff;
-}
-.striped {
-  padding: 5px;
-}
-```
-Random Phobias - .Rmd sample code for BCH441 at the University of Toronto. (c) Boris Steipe 2020 -->
-
-
-```{r setup, include=FALSE}
-knitr::opts_chunk$set(echo = TRUE)
-```
-
-## Phobias! ##
-We all have some, but we could always use more. How to know them all? With this code we access the [Wikipedia list of phobias](https://en.wikipedia.org/wiki/List_of_phobias), scrape the contents and assemble a dataframe. Then we write a function to retrieve a random phobia, which we can subsequently ponder on - either to delight in the fact that we don't have that fear, or to add to our daily quota of anxieties (like our well-founded [fear of bad programming practice](http://xkcd.com/292/)).
-
-To load the list, we will "screenscrape" the contents of Wikipedia's [List of Phobias](https://en.wikipedia.org/wiki/List_of_phobias). First, we install the `rvest` library and the `xml2` library from CRAN, if we don't have it.
-```{r packages}
-if (! requireNamespace("rvest", quietly=TRUE)) {
-  install.packages("rvest")
-}
-if (! requireNamespace("xml2", quietly=TRUE)) {
-  install.packages("xml2")
-}
-```
-As we customarily do, we avoid using the `library()` function to make the package contents accessible, but use the `package::` syntax instead. This makes our code more explicit and maintainable.
-
-`xml2` handles reading and parsing of documents. The `rvest` package was designed for screenscraping and has functions to make our life very easy: it accesses the response of an `xml2` query, looks for all HTML formatted tables, parses them with an XPATH expression and returns them as lists from which we can get data frames.
-
-```{r getPageData, cache=TRUE}
-webPage <- xml2::read_html("https://en.wikipedia.org/wiki/List_of_phobias")
-allTables <- rvest::html_table(webPage, fill = TRUE)
-```
-
-There are ```r length(allTables)``` tables in the list, but the ones we are interested in are data frames with two columns named `Phobia` and `Condition`.
-
-```{r collateTables, cache=TRUE}
-phobiaTable <- data.frame(Phobia = character(), Condition = character())
-for (i in seq_along(allTables)) {
-  df <- allTables[[i]]
-  if (all(colnames(df) == c("Phobia", "Condition"))) {
-    phobiaTable <- rbind(phobiaTable, df)
-  }
-}
-```
-
-Done, we collected ```r nrow(phobiaTable)``` phobias. Let's randomly select a few and print them.
-
-
 
-

-
-```{r , ref.label="randRow", echo=FALSE}
-```
-
-**Table**: seven random phobias

-```{r renderPhobiaTable, echo=FALSE, results='asis'}
-sel <- sample(1:nrow(phobiaTable), 7)
-knitr::kable(phobiaTable[sel, ], table.attr = "class=\"striped\"", format = "html")
-```
-
-
 
-

-To pick a single random phobia from the list, we take a (pseudo) random sample of size 1 from the number of rows in the `phobiaFrame` object. Our function thus returns a random row from a matrix or dataframe, and it uses an optional argument: `seed`. This can either be Boolean `FALSE` (the default), or an integer that is used in R's `set.seed()` function.
-
-```{r randRow}
-randRow <- function(M, seed = FALSE) {
-  # Return a random row from a dataframe M.
-  if (seed) {
-    oldseed <- .Random.seed                # play nice and save the RNG state ...
-    set.seed(as.integer(seed))
-  }
-  r <- M[sample(1:nrow(M), 1), ]           # fetch one random row
-  if (seed) { .Random.seed  <- oldseed }   # ... restore the RNG state
-  return(r)
-}
-```
-
 
-

-With this useful tool we can ponder on our favourite phobia of the day. For today, let it be **`r randRow(phobiaTable, seed=1123581321)[2]`**, the `r randRow(phobiaTable, seed=1123581321)[1]`.
-
-_`r randRow(phobiaTable, seed=1123581321)[1]`_! Really!!? Awful.
-
-
 
-

-
-Finally: let's plot a histogram of phobia name lengths just to illustrate plots. A little preprocessing is required, since some names collate synonyms, like _"Hypnophobia, somniphobia"_. We'll break these up.
-
-```{r preProcess}
-
-# select only single-word phobias that end with "phobia"
-sel <- ! grepl(" ", phobiaTable$Phobia) & grepl(".phobia$", phobiaTable$Phobia)
-names <- phobiaTable$Phobia[sel]
-
-# extract the ones we did _not_ select
-x <- phobiaTable$Phobia[! sel]
-# use strsplit() to split them apart and flatten the resulting list
-x <- unlist(strsplit(x, ", "))
-x <- unlist(strsplit(x, " "))
-x <- unlist(strsplit(x, "/"))
-# use the same selection as above, and append the result to our "names""
-sel <- ! grepl(" ", x) & grepl(".phobia$", x)
-names <- c(names, x[sel])
-
-```
-
-Done, we collected ```r length(names)``` names for phobias. Here is a histogram of their lengths.
-
-```{r showHist}
-
-x <- nchar(names)
-pShort <- names[which(x == min(x))[1]]  # pull out the shortest name ...
-pLong  <- names[which(x == max(x))[1]]  # ... and the longest name too.
-hist(x,
-     main = "Length of phobia-names",
-     sub = sprintf("Shortest: %s (%d), Longest: %s (%d)",
-                   pShort, nchar(pShort), pLong, nchar(pLong)),
-     cex.sub = 0.8,
-     xlab = "name",
-     ylab = "counts",
-     col ="#aef5ee")
-
-```
-
-That's all.
-
-
+
+
+```{css, echo = FALSE}
+
+.striped tr:nth-child(even) {
+  background: #eaf1ff;
+}
+.striped {
+  padding: 5px;
+}
+```
+Random Phobias - .Rmd sample code for BCH441 at the University of Toronto. (c) Boris Steipe 2020 -->
+
+
+```{r setup, include=FALSE}
+knitr::opts_chunk$set(echo = TRUE)
+```
+
+## Phobias! ##
+We all have some, but we could always use more. How to know them all? With this code we access the [Wikipedia list of phobias](https://en.wikipedia.org/wiki/List_of_phobias), scrape the contents and assemble a dataframe. Then we write a function to retrieve a random phobia, which we can subsequently ponder on - either to delight in the fact that we don't have that fear, or to add to our daily quota of anxieties (like our well-founded [fear of bad programming practice](http://xkcd.com/292/)).
+
+To load the list, we will "screenscrape" the contents of Wikipedia's [List of Phobias](https://en.wikipedia.org/wiki/List_of_phobias). First, we install the `rvest` library and the `xml2` library from CRAN, if we don't have it.
+```{r packages}
+if (! requireNamespace("rvest", quietly=TRUE)) {
+  install.packages("rvest")
+}
+if (! requireNamespace("xml2", quietly=TRUE)) {
+  install.packages("xml2")
+}
+```
+As we customarily do, we avoid using the `library()` function to make the package contents accessible, but use the `package::` syntax instead. This makes our code more explicit and maintainable.
+
+`xml2` handles reading and parsing of documents. The `rvest` package was designed for screenscraping and has functions to make our life very easy: it accesses the response of an `xml2` query, looks for all HTML formatted tables, parses them with an XPATH expression and returns them as lists from which we can get data frames.
+
+```{r getPageData, cache=TRUE}
+webPage <- xml2::read_html("https://en.wikipedia.org/wiki/List_of_phobias")
+allTables <- rvest::html_table(webPage, fill = TRUE)
+```
+
+There are ```r length(allTables)``` tables in the list, but the ones we are interested in are data frames with two columns named `Phobia` and `Condition`.
+
+```{r collateTables, cache=TRUE}
+phobiaTable <- data.frame(Phobia = character(), Condition = character())
+for (i in seq_along(allTables)) {
+  df <- allTables[[i]]
+  if (all(colnames(df) == c("Phobia", "Condition"))) {
+    phobiaTable <- rbind(phobiaTable, df)
+  }
+}
+```
+
+Done, we collected ```r nrow(phobiaTable)``` phobias. Let's randomly select a few and print them.
+
+
 
+

+
+```{r , ref.label="randRow", echo=FALSE}
+```
+
+**Table**: seven random phobias

+```{r renderPhobiaTable, echo=FALSE, results='asis'}
+sel <- sample(1:nrow(phobiaTable), 7)
+knitr::kable(phobiaTable[sel, ], table.attr = "class=\"striped\"", format = "html")
+```
+
+
 
+

+To pick a single random phobia from the list, we take a (pseudo) random sample of size 1 from the number of rows in the `phobiaFrame` object. Our function thus returns a random row from a matrix or dataframe, and it uses an optional argument: `seed`. This can either be Boolean `FALSE` (the default), or an integer that is used in R's `set.seed()` function.
+
+```{r randRow}
+randRow <- function(M, seed = FALSE) {
+  # Return a random row from a dataframe M.
+  if (seed) {
+    oldseed <- .Random.seed                # play nice and save the RNG state ...
+    set.seed(as.integer(seed))
+  }
+  r <- M[sample(1:nrow(M), 1), ]           # fetch one random row
+  if (seed) { .Random.seed  <- oldseed }   # ... restore the RNG state
+  return(r)
+}
+```
+
 
+

+With this useful tool we can ponder on our favourite phobia of the day. For today, let it be **`r randRow(phobiaTable, seed=1123581321)[2]`**, the `r randRow(phobiaTable, seed=1123581321)[1]`.
+
+_`r randRow(phobiaTable, seed=1123581321)[1]`_! Really!!? Awful.
+
+
 
+

+
+Finally: let's plot a histogram of phobia name lengths just to illustrate plots. A little preprocessing is required, since some names collate synonyms, like _"Hypnophobia, somniphobia"_. We'll break these up.
+
+```{r preProcess}
+
+# select only single-word phobias that end with "phobia"
+sel <- ! grepl(" ", phobiaTable$Phobia) & grepl(".phobia$", phobiaTable$Phobia)
+names <- phobiaTable$Phobia[sel]
+
+# extract the ones we did _not_ select
+x <- phobiaTable$Phobia[! sel]
+# use strsplit() to split them apart and flatten the resulting list
+x <- unlist(strsplit(x, ", "))
+x <- unlist(strsplit(x, " "))
+x <- unlist(strsplit(x, "/"))
+# use the same selection as above, and append the result to our "names""
+sel <- ! grepl(" ", x) & grepl(".phobia$", x)
+names <- c(names, x[sel])
+
+```
+
+Done, we collected ```r length(names)``` names for phobias. Here is a histogram of their lengths.
+
+```{r showHist}
+
+x <- nchar(names)
+pShort <- names[which(x == min(x))[1]]  # pull out the shortest name ...
+pLong  <- names[which(x == max(x))[1]]  # ... and the longest name too.
+hist(x,
+     main = "Length of phobia-names",
+     sub = sprintf("Shortest: %s (%d), Longest: %s (%d)",
+                   pShort, nchar(pShort), pLong, nchar(pLong)),
+     cex.sub = 0.8,
+     xlab = "name",
+     ylab = "counts",
+     col ="#aef5ee")
+
+```
+
+That's all.
+
+
diff --git a/data/S288C_YDL056W_MBP1_coding.fsa b/data/S288C_YDL056W_MBP1_coding.fsa
index c528751..befe459 100644
--- a/data/S288C_YDL056W_MBP1_coding.fsa
+++ b/data/S288C_YDL056W_MBP1_coding.fsa
@@ -1,43 +1,43 @@
->MBP1 YDL056W SGDID:S000002214
-ATGTCTAACCAAATATACTCAGCGAGATATTCGGGGGTTGATGTTTATGAATTCATTCAT
-TCTACAGGATCTATCATGAAAAGGAAAAAGGATGATTGGGTCAATGCTACACATATTTTA
-AAGGCCGCCAATTTTGCCAAGGCTAAAAGAACAAGGATTCTAGAGAAGGAAGTACTTAAG
-GAAACTCATGAAAAAGTTCAGGGTGGATTTGGTAAATATCAGGGTACATGGGTCCCACTG
-AACATAGCGAAACAACTGGCAGAAAAATTTAGTGTCTACGATCAGCTGAAACCGTTGTTC
-GACTTTACGCAAACAGATGGGTCTGCTTCTCCACCTCCTGCTCCAAAACATCACCATGCC
-TCGAAGGTGGATAGGAAAAAGGCTATTAGAAGTGCAAGTACTTCCGCAATTATGGAAACA
-AAAAGAAACAACAAGAAAGCCGAGGAAAATCAATTTCAAAGCAGCAAAATATTGGGAAAT
-CCCACGGCTGCACCAAGGAAAAGAGGTAGACCGGTAGGATCTACGAGGGGAAGTAGGCGG
-AAGTTAGGTGTCAATTTACAACGTTCTCAAAGTGATATGGGATTTCCTAGACCGGCGATA
-CCGAATTCTTCAATATCGACAACGCAACTTCCCTCTATTAGATCCACCATGGGACCACAA
-TCCCCTACATTGGGTATTCTGGAAGAAGAAAGGCACGATTCTCGACAGCAGCAGCCGCAA
-CAAAATAATTCTGCACAGTTCAAAGAAATTGATCTTGAGGACGGCTTATCAAGCGATGTG
-GAACCTTCACAACAATTACAACAAGTTTTTAATCAAAATACTGGATTTGTACCCCAACAA
-CAATCTTCCTTGATACAGACACAGCAAACAGAATCAATGGCCACGTCCGTATCTTCCTCT
-CCTTCATTACCTACGTCACCGGGCGATTTTGCCGATAGTAATCCATTTGAAGAGCGATTT
-CCCGGTGGTGGAACATCTCCTATTATTTCCATGATCCCGCGTTATCCTGTAACTTCAAGG
-CCTCAAACATCGGATATTAATGATAAAGTTAACAAATACCTTTCAAAATTGGTTGATTAT
-TTTATTTCCAATGAAATGAAGTCAAATAAGTCCCTACCACAAGTGTTATTGCACCCACCT
-CCACACAGCGCTCCCTATATAGATGCTCCAATCGATCCAGAATTACATACTGCCTTCCAT
-TGGGCTTGTTCTATGGGTAATTTACCAATTGCTGAGGCGTTGTACGAAGCCGGAACAAGT
-ATCAGATCGACAAATTCTCAAGGCCAAACTCCATTGATGAGAAGTTCCTTATTCCACAAT
-TCATACACTAGAAGAACTTTCCCTAGAATTTTCCAGCTACTGCACGAGACCGTATTTGAT
-ATCGATTCGCAATCACAAACAGTAATTCACCATATTGTGAAACGAAAATCAACAACACCT
-TCTGCAGTTTATTATCTTGATGTTGTGCTATCTAAGATCAAGGATTTTTCCCCACAGTAT
-AGAATTGAATTACTTTTAAACACACAAGACAAAAATGGCGATACCGCACTTCATATTGCT
-TCTAAAAATGGAGATGTTGTTTTTTTTAATACACTGGTCAAAATGGGTGCATTAACTACT
-ATTTCCAATAAGGAAGGATTAACCGCCAATGAAATAATGAATCAACAATATGAGCAAATG
-ATGATACAAAATGGTACAAATCAACATGTCAATTCTTCAAACACGGACTTGAATATCCAC
-GTTAATACAAACAACATTGAAACGAAAAATGATGTTAATTCAATGGTAATCATGTCGCCT
-GTTTCTCCTTCGGATTACATAACCTATCCATCTCAAATTGCCACCAATATATCAAGAAAT
-ATTCCAAATGTAGTGAATTCTATGAAGCAAATGGCTAGCATATACAACGATCTTCATGAA
-CAGCATGACAACGAAATAAAAAGTTTGCAAAAAACTTTAAAAAGCATTTCTAAGACGAAA
-ATACAGGTAAGCCTAAAAACTTTAGAGGTATTGAAAGAGAGCAGTAAAGATGAAAACGGC
-GAAGCTCAGACTAATGATGACTTCGAAATTTTATCTCGTCTACAAGAACAAAATACTAAG
-AAATTGAGAAAAAGGCTCATACGATACAAACGGTTGATAAAACAAAAGCTGGAATACAGG
-CAAACGGTTTTATTGAACAAATTAATAGAAGATGAAACTCAGGCTACCACCAATAACACA
-GTTGAGAAAGATAATAATACGCTGGAAAGGTTGGAATTGGCTCAAGAACTAACGATGTTG
-CAATTACAAAGGAAAAACAAATTGAGTTCCTTGGTGAAGAAATTTGAAGACAATGCCAAG
-ATTCATAAATATAGACGGATTATCAGGGAAGGTACGGAAATGAATATTGAAGAAGTAGAT
-AGTTCGCTGGATGTAATACTACAGACATTGATAGCCAACAATAATAAAAATAAGGGCGCA
+>MBP1 YDL056W SGDID:S000002214
+ATGTCTAACCAAATATACTCAGCGAGATATTCGGGGGTTGATGTTTATGAATTCATTCAT
+TCTACAGGATCTATCATGAAAAGGAAAAAGGATGATTGGGTCAATGCTACACATATTTTA
+AAGGCCGCCAATTTTGCCAAGGCTAAAAGAACAAGGATTCTAGAGAAGGAAGTACTTAAG
+GAAACTCATGAAAAAGTTCAGGGTGGATTTGGTAAATATCAGGGTACATGGGTCCCACTG
+AACATAGCGAAACAACTGGCAGAAAAATTTAGTGTCTACGATCAGCTGAAACCGTTGTTC
+GACTTTACGCAAACAGATGGGTCTGCTTCTCCACCTCCTGCTCCAAAACATCACCATGCC
+TCGAAGGTGGATAGGAAAAAGGCTATTAGAAGTGCAAGTACTTCCGCAATTATGGAAACA
+AAAAGAAACAACAAGAAAGCCGAGGAAAATCAATTTCAAAGCAGCAAAATATTGGGAAAT
+CCCACGGCTGCACCAAGGAAAAGAGGTAGACCGGTAGGATCTACGAGGGGAAGTAGGCGG
+AAGTTAGGTGTCAATTTACAACGTTCTCAAAGTGATATGGGATTTCCTAGACCGGCGATA
+CCGAATTCTTCAATATCGACAACGCAACTTCCCTCTATTAGATCCACCATGGGACCACAA
+TCCCCTACATTGGGTATTCTGGAAGAAGAAAGGCACGATTCTCGACAGCAGCAGCCGCAA
+CAAAATAATTCTGCACAGTTCAAAGAAATTGATCTTGAGGACGGCTTATCAAGCGATGTG
+GAACCTTCACAACAATTACAACAAGTTTTTAATCAAAATACTGGATTTGTACCCCAACAA
+CAATCTTCCTTGATACAGACACAGCAAACAGAATCAATGGCCACGTCCGTATCTTCCTCT
+CCTTCATTACCTACGTCACCGGGCGATTTTGCCGATAGTAATCCATTTGAAGAGCGATTT
+CCCGGTGGTGGAACATCTCCTATTATTTCCATGATCCCGCGTTATCCTGTAACTTCAAGG
+CCTCAAACATCGGATATTAATGATAAAGTTAACAAATACCTTTCAAAATTGGTTGATTAT
+TTTATTTCCAATGAAATGAAGTCAAATAAGTCCCTACCACAAGTGTTATTGCACCCACCT
+CCACACAGCGCTCCCTATATAGATGCTCCAATCGATCCAGAATTACATACTGCCTTCCAT
+TGGGCTTGTTCTATGGGTAATTTACCAATTGCTGAGGCGTTGTACGAAGCCGGAACAAGT
+ATCAGATCGACAAATTCTCAAGGCCAAACTCCATTGATGAGAAGTTCCTTATTCCACAAT
+TCATACACTAGAAGAACTTTCCCTAGAATTTTCCAGCTACTGCACGAGACCGTATTTGAT
+ATCGATTCGCAATCACAAACAGTAATTCACCATATTGTGAAACGAAAATCAACAACACCT
+TCTGCAGTTTATTATCTTGATGTTGTGCTATCTAAGATCAAGGATTTTTCCCCACAGTAT
+AGAATTGAATTACTTTTAAACACACAAGACAAAAATGGCGATACCGCACTTCATATTGCT
+TCTAAAAATGGAGATGTTGTTTTTTTTAATACACTGGTCAAAATGGGTGCATTAACTACT
+ATTTCCAATAAGGAAGGATTAACCGCCAATGAAATAATGAATCAACAATATGAGCAAATG
+ATGATACAAAATGGTACAAATCAACATGTCAATTCTTCAAACACGGACTTGAATATCCAC
+GTTAATACAAACAACATTGAAACGAAAAATGATGTTAATTCAATGGTAATCATGTCGCCT
+GTTTCTCCTTCGGATTACATAACCTATCCATCTCAAATTGCCACCAATATATCAAGAAAT
+ATTCCAAATGTAGTGAATTCTATGAAGCAAATGGCTAGCATATACAACGATCTTCATGAA
+CAGCATGACAACGAAATAAAAAGTTTGCAAAAAACTTTAAAAAGCATTTCTAAGACGAAA
+ATACAGGTAAGCCTAAAAACTTTAGAGGTATTGAAAGAGAGCAGTAAAGATGAAAACGGC
+GAAGCTCAGACTAATGATGACTTCGAAATTTTATCTCGTCTACAAGAACAAAATACTAAG
+AAATTGAGAAAAAGGCTCATACGATACAAACGGTTGATAAAACAAAAGCTGGAATACAGG
+CAAACGGTTTTATTGAACAAATTAATAGAAGATGAAACTCAGGCTACCACCAATAACACA
+GTTGAGAAAGATAATAATACGCTGGAAAGGTTGGAATTGGCTCAAGAACTAACGATGTTG
+CAATTACAAAGGAAAAACAAATTGAGTTCCTTGGTGAAGAAATTTGAAGACAATGCCAAG
+ATTCATAAATATAGACGGATTATCAGGGAAGGTACGGAAATGAATATTGAAGAAGTAGAT
+AGTTCGCTGGATGTAATACTACAGACATTGATAGCCAACAATAATAAAAATAAGGGCGCA
 GAACAGATCATCACAATCTCAAACGCGAATAGTCATGCATAA
\ No newline at end of file
diff --git a/data/SGD_features.README.txt b/data/SGD_features.README.txt
index 2f527d4..5b6364d 100644
--- a/data/SGD_features.README.txt
+++ b/data/SGD_features.README.txt
@@ -1,47 +1,47 @@
-SGD_features.tab
-
-The latest version of the SGD_features.tab file is based on Genome Version R64-2-1.
-
-The SGD_features.tab file is updated weekly (Saturday).
-
-NOTE: On 4 September 2004, the SGD_features.tab file replaced the previously
-used chromosomal_feature.tab file.
-
-File contents:
-
-1. Information on current chromosomal features in SGD, including Dubious ORFs. 
-Also contains coordinates of intron, exons, and other subfeatures that are located
-within a chromosomal feature.
-
-2. The relationship between subfeatures and the feature in which they
-are located is identified by the feature name in column #7 (parent
-feature). For example, the parent feature of the intron found in
-ACT1/YFL039C will be YFL039C. The parent feature of YFL039C is
-chromosome 6.
-
-3. The coordinates of all features are in chromosomal coordinates.
-
-
-Columns within SGD_features.tab:
-
-1.   Primary SGDID (mandatory)
-2.   Feature type (mandatory)
-3.   Feature qualifier (optional)
-4.   Feature name (optional)
-5.   Standard gene name (optional)
-6.   Alias (optional, multiples separated by |)
-7.   Parent feature name (optional)
-8.   Secondary SGDID (optional, multiples separated by |)
-9.   Chromosome (optional)
-10.  Start_coordinate (optional)
-11.  Stop_coordinate (optional)
-12.  Strand (optional)
-13.  Genetic position (optional)
-14.  Coordinate version (optional)
-15.  Sequence version (optional)
-16.  Description (optional)
-
-Note that "chromosome 17" is the mitochondrial chromosome.
-
-The SGD_features.tab file is complemented by GFF3 file saccharomyces_cerevisiae.gff
-
+SGD_features.tab
+
+The latest version of the SGD_features.tab file is based on Genome Version R64-2-1.
+
+The SGD_features.tab file is updated weekly (Saturday).
+
+NOTE: On 4 September 2004, the SGD_features.tab file replaced the previously
+used chromosomal_feature.tab file.
+
+File contents:
+
+1. Information on current chromosomal features in SGD, including Dubious ORFs. 
+Also contains coordinates of intron, exons, and other subfeatures that are located
+within a chromosomal feature.
+
+2. The relationship between subfeatures and the feature in which they
+are located is identified by the feature name in column #7 (parent
+feature). For example, the parent feature of the intron found in
+ACT1/YFL039C will be YFL039C. The parent feature of YFL039C is
+chromosome 6.
+
+3. The coordinates of all features are in chromosomal coordinates.
+
+
+Columns within SGD_features.tab:
+
+1.   Primary SGDID (mandatory)
+2.   Feature type (mandatory)
+3.   Feature qualifier (optional)
+4.   Feature name (optional)
+5.   Standard gene name (optional)
+6.   Alias (optional, multiples separated by |)
+7.   Parent feature name (optional)
+8.   Secondary SGDID (optional, multiples separated by |)
+9.   Chromosome (optional)
+10.  Start_coordinate (optional)
+11.  Stop_coordinate (optional)
+12.  Strand (optional)
+13.  Genetic position (optional)
+14.  Coordinate version (optional)
+15.  Sequence version (optional)
+16.  Description (optional)
+
+Note that "chromosome 17" is the mitochondrial chromosome.
+
+The SGD_features.tab file is complemented by GFF3 file saccharomyces_cerevisiae.gff
+
diff --git a/data/SGD_features.tab b/data/SGD_features.tab
index 7dbfb32..f9340e9 100644
--- a/data/SGD_features.tab
+++ b/data/SGD_features.tab
@@ -1,16454 +1,16454 @@
-S000002143	ORF	Dubious	YAL069W			chromosome 1		1	335	649	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031098	CDS					YAL069W		1	335	649	W		1996-07-31	1996-07-31	
-S000028594	ORF	Dubious	YAL068W-A			chromosome 1		1	538	792	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031372	CDS					YAL068W-A		1	538	792	W		2003-07-29	2003-07-29	
-S000121252	ARS		ARS102		ARSI-1	chromosome 1		1	707	776			2014-11-18	2014-11-18|2007-03-07	Autonomously Replicating Sequence
-S000028862	telomere		TEL01L			chromosome 1		1	801	1	C	-64	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome I; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
-S000028864	telomeric_repeat					TEL01L		1	62	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome I
-S000028865	X_element					TEL01L		1	801	337	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome I; contains an ARS consensus sequence, an Abf1p binding site consensus sequence and two small overlapping ORFs (YAL068W-A and YAL069W)
-S000028866	X_element_combinatorial_repeat					TEL01L		1	336	63	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr I; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000002142	ORF	Verified	YAL068C	PAU8	seripauperin PAU8	chromosome 1		1	2169	1807	C		1996-07-31	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions
-S000030944	CDS					YAL068C		1	2169	1807	C		1996-07-31	1996-07-31	
-S000028593	ORF	Uncharacterized	YAL067W-A			chromosome 1		1	2480	2707	W		2003-07-29	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031368	CDS					YAL067W-A		1	2480	2707	W		2003-07-29	2003-07-29	
-S000121253	ARS		ARS103		ARSI-8	chromosome 1		1	7997	8547			2011-02-03	2007-03-07	Autonomously Replicating Sequence; replication origin of very weak function
-S000000062	ORF	Verified	YAL067C	SEO1	putative permease SEO1	chromosome 1	L000003363	1	9016	7235	C		2011-02-03	1996-07-31	Putative permease; member of the allantoate transporter subfamily of the major facilitator superfamily; mutation confers resistance to ethionine sulfoxide
-S000029932	CDS					YAL067C		1	9016	7235	C		2011-02-03	1996-07-31	
-S000000061	ORF	Dubious	YAL066W			chromosome 1		1	10091	10399	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000029887	CDS					YAL066W		1	10091	10399	W		2011-02-03	1996-07-31	
-S000001817	ORF	Uncharacterized	YAL065C			chromosome 1		1	11951	11565	C		2011-02-03	1996-07-31	Putative protein of unknown function; shows sequence similarity to FLO1 and other flocculins
-S000037154	CDS					YAL065C		1	11951	11565	C		2011-02-03	1996-07-31	
-S000002141	ORF	Uncharacterized	YAL064W-B			chromosome 1		1	12046	12426	W		2011-02-03	1999-07-17	Fungal-specific protein of unknown function
-S000034793	CDS					YAL064W-B		1	12046	12426	W		2011-02-03	1999-07-17	
-S000002140	ORF	Uncharacterized	YAL064C-A	TDA8	YAL065C-A	chromosome 1		1	13743	13363	C		2011-02-03	1996-07-31	Putative protein of unknown function; null mutant is sensitive to expression of the top1-T722A allele; not an essential gene
-S000031541	CDS					YAL064C-A		1	13743	13363	C		2011-02-03	1996-07-31	
-S000000060	ORF	Verified	YAL064W			chromosome 1		1	21566	21850	W		2011-02-03	1996-07-31|2011-02-03	Protein of unknown function; may interact with ribosomes, based on co-purification experiments
-S000037087	CDS					YAL064W		1	21566	21850	W		2011-02-03	1996-07-31|2011-02-03	
-S000006787	long_terminal_repeat		YALWdelta1			chromosome 1		1	22230	22552	W		2011-02-03	2000-05-19	Ty1 LTR
-S000028813	ORF	Uncharacterized	YAL063C-A			chromosome 1		1	22685	22395	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000033613	CDS					YAL063C-A		1	22685	22395	C		2011-02-03	2003-07-29	
-S000000059	ORF	Verified	YAL063C	FLO9	flocculin FLO9	chromosome 1	L000003331	1	27968	24000	C		2011-02-03	1996-07-31	Lectin-like protein with similarity to Flo1p; thought to be expressed and involved in flocculation
-S000036982	CDS					YAL063C		1	27968	24000	C		2011-02-03	1996-07-31	
-S000118317	ARS		ARS104		ARSI-31	chromosome 1		1	30946	31183			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178034	ARS_consensus_sequence					ARS104		1	31002	31018	W		2014-11-18	2014-11-18	
-S000000058	ORF	Verified	YAL062W	GDH3	glutamate dehydrogenase (NADP(+)) GDH3|FUN51	chromosome 1	L000000698	1	31567	32940	W		2011-02-03	1996-07-31	NADP(+)-dependent glutamate dehydrogenase; synthesizes glutamate from ammonia and alpha-ketoglutarate; rate of alpha-ketoglutarate utilization differs from Gdh1p; expression regulated by nitrogen and carbon sources; GDH3 has a paralog, GDH1, that arose from the whole genome duplication
-S000036963	CDS					YAL062W		1	31567	32940	W		2011-02-03	1996-07-31	
-S000000057	ORF	Uncharacterized	YAL061W	BDH2	putative dehydrogenase BDH2	chromosome 1		1	33448	34701	W		2011-02-03	1996-07-31	Putative medium-chain alcohol dehydrogenase with similarity to BDH1; transcription induced by constitutively active PDR1 and PDR3
-S000036902	CDS					YAL061W		1	33448	34701	W		2011-02-03	1996-07-31	
-S000000056	ORF	Verified	YAL060W	BDH1	(R,R)-butanediol dehydrogenase|BDH	chromosome 1		1	35155	36303	W		2011-02-03	1996-07-31|2011-02-03	NAD-dependent (R,R)-butanediol dehydrogenase; catalyzes oxidation of (R,R)-2,3-butanediol to (3R)-acetoin, oxidation of meso-butanediol to (3S)-acetoin, and reduction of acetoin; enhances use of 2,3-butanediol as an aerobic carbon source
-S000036089	CDS					YAL060W		1	35155	36303	W		2011-02-03	1996-07-31|2011-02-03	
-S000000055	ORF	Verified	YAL059W	ECM1		chromosome 1	L000003052	1	36509	37147	W		2011-02-03	1996-07-31|2011-02-03	Pre-ribosomal factor involved in 60S ribosomal protein subunit export; associates with the pre-60S particle; shuttles between the nucleus and cytoplasm
-S000035122	CDS					YAL059W		1	36509	37147	W		2011-02-03	1996-07-31|2011-02-03	
-S000028734	ORF	Dubious	YAL059C-A			chromosome 1		1	36918	36496	C		2011-02-03	2003-07-29|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene ECM1/YAL059W
-S000033378	CDS					YAL059C-A		1	36918	36496	C		2011-02-03	2003-07-29|2011-02-03	
-S000000054	ORF	Verified	YAL058W	CNE1	calnexin|FUN48	chromosome 1	L000000373	1	37464	38972	W		2011-02-03	1996-07-31	Calnexin; integral membrane ER chaperone involved in folding and quality control of glycoproteins; chaperone activity is inhibited by Mpd1p, with which Cne1p interacts; 24% identical to mammalian calnexin; Ca+ binding not yet shown in yeast
-S000034933	CDS					YAL058W		1	37464	38972	W		2011-02-03	1996-07-31	
-S000002139	ORF	Dubious	YAL056C-A		YAL058C-A	chromosome 1		1	39046	38696	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035879	CDS					YAL056C-A		1	39046	38696	C		2011-02-03	1996-07-31	
-S000000052	ORF	Verified	YAL056W	GPB2	KRH1	chromosome 1		1	39259	41901	W		2011-02-03	2004-01-20|1996-07-31|2011-02-03	Multistep regulator of cAMP-PKA signaling; inhibits PKA downstream of Gpa2p and Cyr1p, thereby increasing cAMP dependency; inhibits Ras activity through direct interactions with Ira1p/2p; regulated by G-alpha protein Gpa2p; GPB2 has a paralog, GPB1, that arose from the whole genome duplication
-S000033885	CDS					YAL056W		1	39259	41901	W		2011-02-03	2004-01-20|1996-07-31|2011-02-03	
-S000121254	ARS		ARS105		ARSI-42	chromosome 1		1	41992	42151			2014-11-18	2014-11-18|2007-03-07	Autonomously Replicating Sequence
-S000000051	ORF	Verified	YAL055W	PEX22	ubiquitin-protein transferase activating protein PEX22|YAF5	chromosome 1		1	42177	42719	W		2011-02-03	1996-07-31	Putative peroxisomal membrane protein; required for import of peroxisomal proteins; functionally complements a Pichia pastoris pex22 mutation
-S000033812	CDS					YAL055W		1	42177	42719	W		2011-02-03	1996-07-31	
-S000000050	ORF	Verified	YAL054C	ACS1	acetate--CoA ligase 1|FUN44	chromosome 1	L000000024	1	45022	42881	C	-63.11	2011-02-03	1996-07-31	Acetyl-coA synthetase isoform; along with Acs2p, acetyl-coA synthetase isoform is the nuclear source of acetyl-coA for histone acetylation; expressed during growth on nonfermentable carbon sources and under aerobic conditions
-S000033073	CDS					YAL054C		1	45022	42881	C		2011-02-03	1996-07-31	
-S000000049	ORF	Verified	YAL053W	FLC2	flavin adenine dinucleotide transporter FLC2|HUF2	chromosome 1		1	45899	48250	W		2011-02-03	1996-07-31|2011-02-03	Putative calcium channel involved in calcium release under hypotonic stress; required for uptake of FAD into endoplasmic reticulum; involved in cell wall maintenance; FLC2 has a paralog, YOR365C, that arose from the whole genome duplication
-S000033037	CDS					YAL053W		1	45899	48250	W		2011-02-03	1996-07-31|2011-02-03	
-S000000048	ORF	Verified	YAL051W	OAF1	oleate-activated transcription factor OAF1|YAF1	chromosome 1	L000004197	1	48564	51707	W		2011-02-03	2004-07-20|1996-07-31|2011-02-03	Oleate-activated transcription factor; subunit of a heterodimeric complex with Pip2p, which binds to oleate-response elements (ORE) in the promoter of genes involved in beta-oxidation of fatty acids, peroxisome organization and biogenesis, activating transcription in the presence of oleate; regulates chromatin silencing at telomeres; involved in diauxic shift; OAF1 has a paralog, PIP2, that arose from the whole genome duplication
-S000032862	CDS					YAL051W		1	48564	51707	W		2011-02-03	2004-07-20|1996-07-31|2011-02-03	
-S000000047	ORF	Verified	YAL049C	AIM2	protein AIM2	chromosome 1		1	52595	51855	C		2011-02-03	1996-07-31	Cytoplasmic protein involved in mitochondrial function or organization; null mutant displays reduced frequency of mitochondrial genome loss; potential Hsp82p interactor
-S000031896	CDS					YAL049C		1	52595	51855	C		2011-02-03	1996-07-31	
-S000028733	ORF	Dubious	YAL047W-A			chromosome 1		1	54584	54913	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF GEM1/YAL048C
-S000033377	CDS					YAL047W-A		1	54584	54913	W		2011-02-03	2003-07-29	
-S000000046	ORF	Verified	YAL048C	GEM1	ERMES complex Ca(2+)-binding regulatory GTPase GEM1|GON1	chromosome 1		1	54789	52801	C		2011-02-03	1996-07-31	Outer mitochondrial membrane GTPase, subunit of the ERMES complex; potential regulatory subunit of the ERMES complex that links the ER to mitochondria and may promote inter-organellar calcium and phospholipid exchange as well as coordinating mitochondrial DNA replication and growth; cells lacking Gem1p contain collapsed, globular, or grape-like mitochondria; ortholog of metazoan Miro GTPases
-S000030895	CDS					YAL048C		1	54789	52801	C		2011-02-03	1996-07-31	
-S000000045	ORF	Verified	YAL047C	SPC72	gamma-tubulin complex subunit SPC72|LDB4	chromosome 1	L000003455	1	56857	54989	C		2011-02-03	1996-07-31|2011-02-03	Gamma-tubulin small complex (gamma-TuSC) receptor; recruits the gamma-TuSC complex to the cytoplasmic side of the SPB, connecting nuclear microtubules to the SPB; involved in astral microtubule formation, stabilization, and with Stu2p, anchoring astral MTs at the cytoplasmic face of the SPB, and regulating plus-end MT dynamics; regulated by Cdc5 kinase
-S000030803	CDS					YAL047C		1	56857	54989	C		2011-02-03	1996-07-31|2011-02-03	
-S000000044	ORF	Verified	YAL046C	BOL3	AIM1	chromosome 1		1	57385	57029	C		2011-02-03	1996-07-31	Protein involved in Fe-S cluster transfer to mitochondrial clients; protects [4Fe-4S] clusters from damage due to oxidative stress by acting along with Nfu1p at a late step in the transfer of [4Fe-4S] clusters from the ISA complex to mitochondrial client proteins like lipoate synthase and succinate dehydrogenase; sequence similarity to human BOLA family member, BOLA3, mutations of which are associated with Multiple Mitochondria Dysfunctions Syndrome (MMDS2)
-S000030666	CDS					YAL046C		1	57385	57029	C		2011-02-03	1996-07-31	
-S000007586	ORF	Verified	YAL044W-A	BOL1		chromosome 1		1	57518	57850	W		2011-02-03	2001-01-30	Mitochondrial matrix protein involved in Fe-S cluster biogenesis; facilitates [4Fe-2S] cluster inception into mitochondrial proteins such as lipoate synthase and succinate dehydrogenase; interacts and may function with Grx5p at an early step in Fe-S cluster biosynthesis; forms dimeric complexes with Grx5p and Nfu1p that alter the stability of shared Fe/S clusters; sequence similarity to human BOLA family member, BOLA1 and S. pombe uvi31, a putative DNA repair protein
-S000037097	CDS					YAL044W-A		1	57518	57850	W		2011-02-03	2001-01-30	
-S000000043	ORF	Dubious	YAL045C			chromosome 1		1	57796	57488	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps YAL044W-A
-S000030576	CDS					YAL045C		1	57796	57488	C		2011-02-03	1996-07-31	
-S000000042	ORF	Verified	YAL044C	GCV3	glycine decarboxylase subunit H	chromosome 1	L000003501	1	58462	57950	C		2011-02-03	2003-09-22|1996-07-31|2008-03-05	H subunit of the mitochondrial glycine decarboxylase complex; glycine decarboxylase is required for the catabolism of glycine to 5,10-methylene-THF; also required for all protein lipoylation; expression is regulated by levels of 5,10-methylene-THF
-S000037751	CDS					YAL044C		1	58462	57950	C		2011-02-03	2003-09-22|1996-07-31|2008-03-05	
-S000000041	ORF	Verified	YAL043C	PTA1	RNA-processing protein PTA1|FUN39	chromosome 1	L000001522	1	61052	58695	C		2011-02-03	1996-07-31	Subunit of holo-CPF; holo-CPF is a multiprotein complex and functional homolog of mammalian CPSF, required for the cleavage and polyadenylation of mRNA and snoRNA 3' ends; involved in pre-tRNA processing; binds to the phosphorylated CTD of RNAPII
-S000037691	CDS					YAL043C		1	61052	58695	C		2011-02-03	1996-07-31	
-S000000040	ORF	Verified	YAL042W	ERV46	FUN9	chromosome 1	L000000633	1	61316	62563	W		2011-02-03	1996-07-31	Protein localized to COPII-coated vesicles; forms a complex with Erv41p; involved in the membrane fusion stage of transport
-S000037669	CDS					YAL042W		1	61316	62563	W		2011-02-03	1996-07-31	
-S000002138	ORF	Dubious	YAL042C-A		YAL043C-A	chromosome 1		1	61608	61231	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF ERV46/YAL042W; YAL042C-A is a non-essential gene
-S000030422	CDS					YAL042C-A		1	61608	61231	C		2011-02-03	1996-07-31	
-S000000039	ORF	Verified	YAL041W	CDC24	Rho family guanine nucleotide exchange factor CDC24|CLS4	chromosome 1	L000000262	1	62840	65404	W	-56	2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for Cdc42p; required for polarity establishment and maintenance, and mutants have morphological defects in bud formation and shmooing; relocalizes from nucleus to cytoplasm upon DNA replication stress; thermosensitivity of the cdc24-4 mutant in the presence of sorbitol is functionally complemented by human CDC42
-S000037599	CDS					YAL041W		1	62840	65404	W		2011-02-03	1996-07-31	
-S000000038	ORF	Verified	YAL040C	CLN3	cyclin CLN3|WHI1|FUN10|DAF1	chromosome 1	L000000359	1	67520	65778	C	-56	2011-02-03	1996-07-31	G1 cyclin involved in cell cycle progression; activates Cdc28p kinase to promote G1 to S phase transition; plays a role in regulating transcription of other G1 cyclins, CLN1 and CLN2; regulated by phosphorylation and proteolysis; acetyl-CoA induces CLN3 transcription in response to nutrient repletion to promote cell-cycle entry; cell cycle arrest phenotype of the cln1 cln2 cln3 triple null mutant is complemented by any of human cyclins CCNA2, CCNB1, CCNC, CCND1, or CCNE1
-S000036825	CDS					YAL040C		1	67520	65778	C		2011-02-03	1996-07-31	
-S000000037	ORF	Verified	YAL039C	CYC3	holocytochrome c synthase CYC3|CCHL	chromosome 1	L000000450	1	69525	68716	C	-47	2011-02-03	1996-07-31	Cytochrome c heme lyase (holocytochrome c synthase); attaches heme to apo-cytochrome c (Cyc1p or Cyc7p) in mitochondrial intermembrane space; human homolog HCCS implicated in microphthalmia with linear skin defects (MLS), and can complement yeast null mutant
-S000035956	CDS					YAL039C		1	69525	68716	C		2011-02-03	1996-07-31	
-S000118318	ARS		ARS106		ARSI-70	chromosome 1		1	70300	70469			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178035	ARS_consensus_sequence					ARS106		1	70434	70418	C		2014-11-18	2014-11-18	
-S000000036	ORF	Verified	YAL038W	CDC19	pyruvate kinase CDC19|PYK1	chromosome 1	L000000258	1	71786	73288	W	-45	2011-02-03	1996-07-31	Pyruvate kinase; functions as a homotetramer in glycolysis to convert phosphoenolpyruvate to pyruvate, the input for aerobic (TCA cycle) or anaerobic (glucose fermentation) respiration; regulated via allosteric activation by fructose bisphosphate; CDC19 has a paralog, PYK2, that arose from the whole genome duplication
-S000035915	CDS					YAL038W		1	71786	73288	W		2011-02-03	1996-07-31	
-S000028592	ORF	Dubious	YAL037C-B			chromosome 1		1	73300	72326	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031366	CDS					YAL037C-B		1	73300	72326	C		2011-02-03	2003-07-29	
-S000028732	ORF	Uncharacterized	YAL037C-A			chromosome 1		1	73518	73426	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000033376	CDS					YAL037C-A		1	73518	73426	C		2011-02-03	2003-07-29	
-S000000035	ORF	Uncharacterized	YAL037W			chromosome 1		1	74020	74823	W		2011-02-03	1996-07-31	Putative protein of unknown function; YAL037W has a paralog, YOR342C, that arose from the whole genome duplication
-S000035798	CDS					YAL037W		1	74020	74823	W		2011-02-03	1996-07-31	
-S000000034	ORF	Verified	YAL036C	RBG1	GTP-binding protein RBG1|FUN11	chromosome 1	L000000634	1	76152	75043	C		2011-02-03	1996-07-31	Member of the DRG family of GTP-binding proteins; associates with translating ribosomes; interacts with Tma46p, Ygr250cp, Gir2p and Yap1p via two-hybrid
-S000034719	CDS					YAL036C		1	76152	75043	C		2011-02-03	1996-07-31	
-S000000033	ORF	Verified	YAL035W	FUN12	translation initiation factor eIF5B|eIF5B|yIF2	chromosome 1	L000000635	1	76427	79435	W		2011-02-03	1996-07-31	Translation initiation factor eIF5B; GTPase that promotes Met-tRNAiMet binding to ribosomes and ribosomal subunit joining; promotes GTP-dependent maturation of 18S rRNA by Nob1p; protein abundance increases in response to DNA replication stress; homolog of bacterial IF2
-S000034678	CDS					YAL035W		1	76427	79435	W		2011-02-03	1996-07-31	
-S000000032	ORF	Verified	YAL034W-A	MTW1	MIND complex subunit MTW1|NSL2|DSN3	chromosome 1	S000007418	1	79718	80587	W		2011-02-03	1996-07-31	Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; critical to kinetochore assembly; complex consists of Mtw1p Including Nnf1p-Nsl1p-Dsn1p (MIND)
-S000031836	CDS					YAL034W-A		1	79718	80587	W		2011-02-03	1996-07-31	
-S000002137	ORF	Dubious	YAL034C-B		YAL035C-A	chromosome 1		1	79842	79489	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031374	CDS					YAL034C-B		1	79842	79489	C		2011-02-03	1996-07-31	
-S000002134	ORF	Verified	YAL034C	FUN19		chromosome 1	L000000637	1	81951	80710	C		2011-02-03	2003-09-22|1996-07-31	Non-essential protein of unknown function; expression induced in response to heat stress; FUN19 has a paralog, YOR338W, that arose from the whole genome duplication
-S000034508	CDS					YAL034C		1	81951	80710	C		2011-02-03	2003-09-22|1996-07-31	
-S000000031	ORF	Verified	YAL033W	POP5	RNA-binding protein POP5|FUN53	chromosome 1	L000004301|L000000649	1	82706	83227	W		2011-02-03	1996-07-31	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs
-S000034465	CDS					YAL033W		1	82706	83227	W		2011-02-03	1996-07-31	
-S000000030	ORF	Verified	YAL032C	PRP45	mRNA splicing protein PRP45|FUN20	chromosome 1	L000000638	1	84474	83335	C		2011-02-03	1996-07-31	Protein required for pre-mRNA splicing; associates with the spliceosome and interacts with splicing factors Prp22p and Prp46p; orthologous to human transcriptional coactivator SKIP and can activate transcription of a reporter gene
-S000033541	CDS					YAL032C		1	84474	83335	C		2011-02-03	1996-07-31	
-S000028731	ORF	Dubious	YAL031W-A			chromosome 1		1	84669	84977	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF GIP4/YAL031C
-S000033375	CDS					YAL031W-A		1	84669	84977	W		2011-02-03	2003-07-29	
-S000000029	ORF	Verified	YAL031C	GIP4	protein phosphatase regulator GIP4|FUN21	chromosome 1	L000000639	1	87031	84749	C		2011-02-03	1996-07-31	Cytoplasmic protein that regulates protein phosphatase 1 Glc7p; protein overexpression relocalizes Glc7p from the nucleus and prevents chromosome segregation; potential Cdc28p substrate
-S000033476	CDS					YAL031C		1	87031	84749	C		2011-02-03	1996-07-31	
-S000000028	ORF	Verified	YAL030W	SNC1	SNAP receptor SNC1	chromosome 1	L000001942	1	87286	87752	W		2011-02-03	1996-07-31	Vesicle membrane receptor protein (v-SNARE); involved in the fusion between Golgi-derived secretory vesicles with the plasma membrane; proposed to be involved in endocytosis; member of the synaptobrevin/VAMP family of R-type v-SNARE proteins; SNC1 has a paralog, SNC2, that arose from the whole genome duplication
-S000033437	CDS					YAL030W		1	87286	87387	W		2011-02-03	1996-07-31	
-S000033438	CDS					YAL030W		1	87501	87752	W		2011-02-03	1996-07-31	
-S000033439	intron					YAL030W		1	87388	87500	W		2011-02-03	1996-07-31	
-S000000027	ORF	Verified	YAL029C	MYO4	myosin 4|SHE1|FUN22	chromosome 1	L000000640|L000001224	1	92270	87855	C		2011-02-03	1996-07-31	Type V myosin motor involved in actin-based transport of cargos; required for mRNA transport, including ASH1 mRNA, and facilitating the growth and movement of ER tubules into the growing bud along with She3p; MYO4 has a paralog, MYO2, that arose from the whole genome duplication
-S000033821	CDS					YAL029C		1	92270	87855	C		2011-02-03	1996-07-31	
-S000000026	ORF	Verified	YAL028W	FRT2	HPH2	chromosome 1		1	92900	94486	W		2011-02-03	1996-07-31	Tail-anchored ER membrane protein of unknown function; interacts with homolog Frt1p; promotes growth in conditions of high Na+, alkaline pH, or cell wall stress, possibly via a role in posttranslational translocation; potential Cdc28p substrate; FRT2 has a paralog, FRT1, that arose from the whole genome duplication
-S000033747	CDS					YAL028W		1	92900	94486	W		2011-02-03	1996-07-31	
-S000000025	ORF	Verified	YAL027W	SAW1	DNA-binding protein SAW1	chromosome 1		1	94687	95472	W		2011-02-03	1996-07-31	5'- and 3'-flap DNA binding protein; recruits Rad1p-Rad10p to single-strand annealing intermediates with 3' non-homologous tails for removal during double-strand break repair; complexes with Rad1p-Rad10p and stimulates its endonuclease activity; green fluorescent protein (GFP)-fusion protein localizes to the nucleus
-S000033629	CDS					YAL027W		1	94687	95472	W		2011-02-03	1996-07-31	
-S000028730	ORF	Dubious	YAL026C-A			chromosome 1		1	95823	95386	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YAL027W and the verified gene DRS2
-S000033374	CDS					YAL026C-A		1	95823	95386	C		2011-02-03	2003-07-29	
-S000119380	ncRNA_gene		HRA1	HRA1		chromosome 1		1	99305	99868	W		2011-02-03	2007-02-06|2007-05-08|2011-02-03	Non-protein-coding RNA; substrate of RNase P, possibly involved in rRNA processing, specifically maturation of 20S precursor into the mature 18S rRNA
-S000120654	noncoding_exon					HRA1		1	99305	99868	W		2011-02-03	2007-02-06|2007-05-08|2011-02-03	
-S000000024	ORF	Verified	YAL026C	DRS2	aminophospholipid-translocating P4-type ATPase DRS2|SWA3|FUN38	chromosome 1	L000000526	1	99697	95630	C		2011-02-03	1996-07-31|2011-02-03	Trans-golgi network aminophospholipid translocase (flippase); maintains membrane lipid asymmetry in post-Golgi secretory vesicles; contributes to clathrin-coated vesicle formation, endocytosis, protein trafficking between the Golgi and endosomal system and the cellular response to mating pheromone; autoinhibited by its C-terminal tail; localizes to the trans-Golgi network; mutations in human homolog ATP8B1 result in liver disease
-S000030197	CDS					YAL026C		1	99697	95630	C		2011-02-03	1996-07-31|2011-02-03	
-S000000023	ORF	Verified	YAL025C	MAK16	ribosome biosynthesis protein MAK16	chromosome 1	L000000989	1	101145	100225	C	-31	2011-02-03	1996-07-31|2011-02-03	Essential nuclear protein; constituent of 66S pre-ribosomal particles; required for maturation of 25S and 5.8S rRNAs; required for maintenance of M1 satellite double-stranded RNA of the L-A virus
-S000030064	CDS					YAL025C		1	101145	100225	C		2011-02-03	1996-07-31|2011-02-03	
-S000000022	ORF	Verified	YAL024C	LTE1	mitotic regulator LTE1|MSI2	chromosome 1	L000000955	1	105872	101565	C	-31	2011-02-03	1996-07-31	Protein similar to GDP/GTP exchange factors; without detectable GEF activity; required for asymmetric localization of Bfa1p at daughter-directed spindle pole bodies and for mitotic exit at low temperatures
-S000029981	CDS					YAL024C		1	105872	101565	C		2011-02-03	1996-07-31	
-S000000021	ORF	Verified	YAL023C	PMT2	dolichyl-phosphate-mannose-protein mannosyltransferase PMT2|FUN25	chromosome 1	L000000642|L000001459	1	108551	106272	C		2011-02-03	2002-12-17|1996-07-31	Protein O-mannosyltransferase of the ER membrane; transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues; involved in ER quality control; acts in a complex with Pmt1p, can instead interact with Pmt5p; antifungal drug target; PMT2 has a paralog, PMT3, that arose from the whole genome duplication
-S000037355	CDS					YAL023C		1	108551	106272	C		2011-02-03	2002-12-17|1996-07-31	
-S000000020	ORF	Verified	YAL022C	FUN26	nucleoside transmembrane transporter FUN26	chromosome 1	L000000643	1	110430	108877	C		2011-02-03	1996-07-31	High affinity, broad selectivity, nucleoside/nucleobase transporter; vacuolar membrane localized transporter which may regulate the balance of nicotinamide riboside (NmR) levels between the cytosol and vacuole, contributing to salvage of NmR for use in cytosolic NAD+ synthesis; equilibrative nucleoside transporter (ENT) family member
-S000037286	CDS					YAL022C		1	110430	108877	C		2011-02-03	1996-07-31	
-S000000019	ORF	Verified	YAL021C	CCR4	CCR4-NOT core exoribonuclease subunit CCR4|NUT21|FUN27	chromosome 1	L000000239	1	113359	110846	C	-25	2011-02-03	1996-07-31	Component of the CCR4-NOT transcriptional complex; CCR4-NOT is involved in regulation of gene expression; component of the major cytoplasmic deadenylase, which is involved in mRNA poly(A) tail shortening
-S000037200	CDS					YAL021C		1	113359	110846	C		2011-02-03	1996-07-31	
-S000028729	ORF	Dubious	YAL019W-A			chromosome 1		1	114250	114819	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF ATS1/YAL020C
-S000032720	CDS					YAL019W-A		1	114250	114819	W		2011-02-03	2003-07-29	
-S000000018	ORF	Verified	YAL020C	ATS1	KTI13|FUN28	chromosome 1	L000000644|L000000154	1	114615	113614	C		2011-02-03	1996-07-31|2011-02-03	Protein required for modification of wobble nucleosides in tRNA; acts with Elongator complex, Kti11p, and Kti12p; has a potential role in regulatory interactions between microtubules and the cell cycle; forms a stable heterodimer with Kti11p
-S000037124	CDS					YAL020C		1	114615	113614	C		2011-02-03	1996-07-31|2011-02-03	
-S000000017	ORF	Verified	YAL019W	FUN30	DNA-dependent ATPase FUN30	chromosome 1	L000000645	1	114919	118314	W		2011-02-03	1996-07-31	Snf2p family member with ATP-dependent chromatin remodeling activity; has a role in silencing at the mating type locus, telomeres and centromeres; enriched at centromeres and is required for correct chromatin structure around centromeres, as well as at the boundary element of the silent HMR; recruited to DNA double-strand breaks (DSBs) where it promotes 5' strand resection of DSBs; potential Cdc28p substrate
-S000037555	CDS					YAL019W		1	114919	118314	W		2011-02-03	1996-07-31	
-S000000016	ORF	Verified	YAL018C	LDS1		chromosome 1		1	119541	118564	C		2011-02-03	1996-07-31	Protein Involved in spore wall assembly; localizes to lipid droplets found on or outside of the prospore membrane; shares similarity with Lds2p and Rrt8p, and a strain mutant for all 3 genes exhibits reduced dityrosine fluorescence relative to the single mutants
-S000032033	CDS					YAL018C		1	119541	118564	C		2011-02-03	1996-07-31	
-S000000015	ORF	Verified	YAL017W	PSK1	serine/threonine protein kinase PSK1|FUN31	chromosome 1	L000000646	1	120225	124295	W		2011-02-03	1996-07-31|2011-02-03	PAS domain-containing serine/threonine protein kinase; coordinately regulates protein synthesis and carbohydrate metabolism and storage in response to a unknown metabolite that reflects nutritional status; PSK1 has a paralog, PSK2, that arose from the whole genome duplication
-S000031992	CDS					YAL017W		1	120225	124295	W		2011-02-03	1996-07-31|2011-02-03	
-S000118319	ARS		ARS107		ARSI-125	chromosome 1		1	124349	124597			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178036	ARS_consensus_sequence					ARS107		1	124479	124463	C		2014-11-18	2014-11-18	
-S000028528	ORF	Dubious	YAL016C-B			chromosome 1		1	124492	124307	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030333	CDS					YAL016C-B		1	124492	124307	C		2011-02-03	2003-07-29	
-S000000014	ORF	Verified	YAL016W	TPD3	protein phosphatase 2A structural subunit TPD3|FUN32	chromosome 1	L000002325	1	124879	126786	W	.5	2011-02-03	1996-07-31	Regulatory subunit A of the heterotrimeric PP2A complex; the heterotrimeric protein phosphatase 2A (PP2A) complex also contains regulatory subunit Cdc55p and either catalytic subunit Pph21p or Pph22p; required for cell morphogenesis and transcription by RNA polymerase III
-S000031874	CDS					YAL016W		1	124879	126786	W		2011-02-03	1996-07-31	
-S000028728	ORF	Dubious	YAL016C-A			chromosome 1		1	125069	124755	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF TPD3/YAL016W
-S000032719	CDS					YAL016C-A		1	125069	124755	C		2011-02-03	2003-07-29	
-S000000013	ORF	Verified	YAL015C	NTG1	bifunctional N-glycosylase/AP lyase NTG1|ogg2|SCR1|FUN33	chromosome 1	L000004114	1	128102	126903	C		2011-02-03	1996-07-31	DNA N-glycosylase and apurinic/apyrimidinic (AP) lyase; involved in base excision repair; acts in both nucleus and mitochondrion; creates a double-strand break at mtDNA origins that stimulates replication in response to oxidative stress; required for maintaining mitochondrial genome integrity; NTG1 has a paralog, NTG2, that arose from the whole genome duplication
-S000036247	CDS					YAL015C		1	128102	126903	C		2011-02-03	1996-07-31	
-S000000012	ORF	Verified	YAL014C	SYN8	syntaxin|SLT2|UIP2	chromosome 1		1	129019	128252	C		2011-02-03	2002-12-17|1996-07-31	Endosomal SNARE related to mammalian syntaxin 8
-S000036146	CDS					YAL014C		1	129019	128252	C		2011-02-03	2002-12-17|1996-07-31	
-S000000011	ORF	Verified	YAL013W	DEP1	Rpd3L histone deacetylase complex subunit DEP1|FUN54	chromosome 1	L000000502	1	129270	130487	W	12	2011-02-03	2003-12-15|1996-07-31|2011-02-03	Component of the Rpd3L histone deacetylase complex; required for diauxic shift-induced histone H2B deposition onto rDNA genes; transcriptional modulator involved in regulation of structural phospholipid biosynthesis genes and metabolically unrelated genes, as well as maintenance of telomeres, mating efficiency, and sporulation
-S000036100	CDS					YAL013W		1	129270	130487	W		2011-02-03	2003-12-15|1996-07-31|2011-02-03	
-S000000010	ORF	Verified	YAL012W	CYS3	cystathionine gamma-lyase CYS3|STR1|FUN35|CYI1	chromosome 1	L000000470	1	130799	131983	W	-16	2011-02-03	1996-07-31	Cystathionine gamma-lyase; catalyzes one of the two reactions involved in the transsulfuration pathway that yields cysteine from homocysteine with the intermediary formation of cystathionine; protein abundance increases in response to DNA replication stress
-S000035250	CDS					YAL012W		1	130799	131983	W		2011-02-03	1996-07-31	
-S000000009	ORF	Verified	YAL011W	SWC3	SWC1	chromosome 1		1	132199	134076	W		2011-02-03	2003-09-22|1996-07-31	Protein of unknown function; component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; required for formation of nuclear-associated array of smooth endoplasmic reticulum known as karmellae
-S000035116	CDS					YAL011W		1	132199	134076	W		2011-02-03	2003-09-22|1996-07-31	
-S000000008	ORF	Verified	YAL010C	MDM10	FUN37	chromosome 1	L000000648|L000001053	1	135665	134184	C		2011-02-03	1996-07-31|2011-02-03	Subunit of both the ERMES and the SAM complex; component of ERMES complex which acts as a molecular tether between the mitochondria and the ER, necessary for efficient phospholipid exchange between organelles and for mitophagy; SAM/TOB complex component that functions in the assembly of outer membrane beta-barrel proteins; involved in mitochondrial inheritance and morphology; ERMES complex is often co-localized with peroxisomes and concentrated areas of pyruvate dehydrogenase
-S000034958	CDS					YAL010C		1	135665	134184	C		2011-02-03	1996-07-31|2011-02-03	
-S000000007	ORF	Verified	YAL009W	SPO7	Nem1-Spo7 phosphatase regulatory subunit SPO7	chromosome 1	L000002000	1	135854	136633	W	-4	2011-02-03	1996-07-31	Putative regulatory subunit of Nem1p-Spo7p phosphatase holoenzyme; regulates nuclear growth by controlling phospholipid biosynthesis, required for normal nuclear envelope morphology, premeiotic replication, and sporulation
-S000034070	CDS					YAL009W		1	135854	136633	W		2011-02-03	1996-07-31	
-S000000006	ORF	Verified	YAL008W	FUN14	MCP3	chromosome 1	L000000636	1	136914	137510	W		2011-02-03	1996-07-31	Integral mitochondrial outer membrane (MOM) protein; dosage suppressor of an MDM10 null that reduces ERMES-related phenotypes, such as alterations in mitochondrial morphology, protein complex assembly, and lipid profile; dosage suppressor of MDM12, MDM34, and MMM1 null mutant growth defects; novel mechanism of MOM import involving Tom70p, the TOM complex, and the TIM23 complex, requiring mitochondrial membrane potential and processing by the IMP complex for correct biogenesis
-S000033957	CDS					YAL008W		1	136914	137510	W		2011-02-03	1996-07-31	
-S000000005	ORF	Verified	YAL007C	ERP2		chromosome 1	L000004679	1	138345	137698	C		2011-02-03	1996-07-31	Member of the p24 family involved in ER to Golgi transport; similar to Emp24p and Erv25p; role in misfolded protein quality control; forms a heterotrimeric complex with Erp1p, Emp24p, and Erv25p; localized to COPII-coated vesicles; ERP2 has a paralog, ERP4, that arose from the whole genome duplication
-S000033112	CDS					YAL007C		1	138345	137698	C		2011-02-03	1996-07-31	
-S000006786	long_terminal_repeat		YALCdelta2			chromosome 1		1	138992	138831	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006680	tRNA_gene		tP(UGG)A	TRN1		chromosome 1	L000003601	1	139152	139254	W	-2	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin; can mutate to suppress +1 frameshift mutations in proline codons
-S000035969	intron					tP(UGG)A		1	139188	139218	W		2011-02-03	2000-05-19	
-S000035967	noncoding_exon					tP(UGG)A		1	139152	139187	W		2011-02-03	2000-05-19	
-S000035968	noncoding_exon					tP(UGG)A		1	139219	139254	W		2011-02-03	2000-05-19	
-S000002136	ORF	Dubious	YAL004W			chromosome 1		1	140760	141407	W		2011-02-03	1996-07-31|2007-04-05	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene SSA1/YAL005C
-S000032057	CDS					YAL004W		1	140760	141407	W		2011-02-03	1996-07-31|2007-04-05	
-S000000004	ORF	Verified	YAL005C	SSA1	Hsp70 family ATPase SSA1|YG100	chromosome 1	L000002069	1	141431	139503	C	-1	2011-02-03	1996-07-31|2007-04-05	ATPase involved in protein folding and NLS-directed nuclear transport; member of HSP70 family; required for ubiquitin-dependent degradation of short-lived proteins; forms chaperone complex with Ydj1p; localized to nucleus, cytoplasm, cell wall; 98% identical to paralog Ssa2p with different functional specificity in propagation of yeast [URE3] prions, vacuolar-mediated degradations of gluconeogenesis enzymes; general targeting factor of Hsp104p to prion fibrils
-S000032096	CDS					YAL005C		1	141431	139503	C		2011-02-03	1996-07-31|2007-04-05	
-S000000003	ORF	Verified	YAL003W	EFB1	translation elongation factor 1 subunit beta|EF-1beta|eEF1Balpha|TEF5	chromosome 1	L000000542	1	142174	143160	W		2011-02-03	1996-07-31|1999-07-17	Translation elongation factor 1 beta; stimulates nucleotide exchange to regenerate EF-1 alpha-GTP for the next elongation cycle; part of the EF-1 complex, which facilitates binding of aminoacyl-tRNA to the ribosomal A site; human homolog EEF1B2 can complement yeast efb1 mutants
-S000031941	CDS					YAL003W		1	142174	142253	W		2011-02-03	1999-07-17|1996-07-31	
-S000031942	CDS					YAL003W		1	142620	143160	W		2011-02-03	1999-07-17|1996-07-31	
-S000031943	intron					YAL003W		1	142254	142619	W		2011-02-03	1999-07-17|1996-07-31	
-S000007500	snoRNA_gene		snR18	SNR18		chromosome 1		1	142367	142468	W		2011-02-03	2000-05-19|2007-05-08	C/D box small nucleolar RNA (snoRNA); commonly referred to as U18; guides 2'-O-methylation of large subunit (LSU) rRNA at positions A649 and C650
-S000036595	noncoding_exon					snR18		1	142367	142468	W		2011-02-03	2000-05-19|2007-05-08	
-S000000002	ORF	Verified	YAL002W	VPS8	CORVET complex membrane-binding subunit VPS8|VPL8|VPT8|FUN15	chromosome 1	L000003013	1	143707	147531	W		2011-02-03	2004-01-14|1996-07-31	Membrane-binding component of the CORVET complex; involved in endosomal vesicle tethering and fusion in the endosome to vacuole protein targeting pathway; interacts with Vps21p; contains RING finger motif
-S000031737	CDS					YAL002W		1	143707	147531	W		2011-02-03	2004-01-14|1996-07-31	
-S000121255	ARS		ARS108		ARSI-147	chromosome 1		1	147398	147717			2014-11-18	2014-11-18|2007-03-07	Autonomously Replicating Sequence
-S000000001	ORF	Verified	YAL001C	TFC3	transcription factor TFIIIC subunit TFC3|tau 138|TSV115|FUN24	chromosome 1	L000000641|L000002287	1	151166	147594	C	-1	2011-02-03	1996-07-31	Subunit of RNA polymerase III transcription initiation factor complex; part of the TauB domain of TFIIIC that binds DNA at the BoxB promoter sites of tRNA and similar genes; cooperates with Tfc6p in DNA binding; largest of six subunits of the RNA polymerase III transcription initiation factor complex (TFIIIC)
-S000030735	CDS					YAL001C		1	151006	147594	C		2011-02-03	1996-07-31	
-S000030734	CDS					YAL001C		1	151166	151097	C		2011-02-03	1996-07-31	
-S000030736	intron					YAL001C		1	151096	151007	C		2011-02-03	1996-07-31	
-S000006463	centromere		CEN1	CEN1		chromosome 1	L000000294	1	151465	151582	W	0	2011-02-03	2000-05-19|2006-05-08	Chromosome I centromere
-S000077257	centromere_DNA_Element_I					CEN1		1	151465	151474	W		2011-02-03	2004-10-04	
-S000077258	centromere_DNA_Element_II					CEN1		1	151475	151557	W		2011-02-03	2004-10-04	
-S000077259	centromere_DNA_Element_III					CEN1		1	151558	151582	W		2011-02-03	2004-10-04	
-S000000063	ORF	Verified	YAR002W	NUP60	FG-nucleoporin NUP60	chromosome 1		1	152257	153876	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier and is involved in gene tethering at the nuclear periphery; relocalizes to the cytosol in response to hypoxia; both NUP1 and NUP60 are homologous to human NUP153
-S000035473	CDS					YAR002W		1	152257	153876	W		2011-02-03	1996-07-31	
-S000002129	ORF	Verified	YAR002C-A	ERP1		chromosome 1	L000004678	1	154724	154065	C		2011-02-03	1999-07-17	Member of the p24 family involved in ER to Golgi transport; role in misfolded protein quality control; forms heterotrimeric complex with Erp2p, Emp24p, and Erv25p; localized to COPII-coated vesicles; ERP1 has a paralog, ERP6, that arose from the whole genome duplication
-S000032940	CDS					YAR002C-A		1	154724	154065	C		2011-02-03	1999-07-17	
-S000000064	ORF	Verified	YAR003W	SWD1	COMPASS subunit protein SWD1|SAF49|CPS50|FUN16	chromosome 1		1	155005	156285	W		2011-02-03	1996-07-31	Subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3 on lysine 4 and is required in transcriptional silencing near telomeres; WD40 beta propeller superfamily member with similarity to mammalian Rbbp7
-S000035547	CDS					YAR003W		1	155005	156285	W		2011-02-03	1996-07-31	
-S000000065	ORF	Verified	YAR007C	RFA1	replication factor A subunit protein RFA1|RPA70|RPA1|FUN3|BUF2	chromosome 1	L000000204|L000001620	1	158619	156754	C	-3	2011-02-03	1996-07-31	Subunit of heterotrimeric Replication Protein A (RPA); RPA is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination; RPA protects against inappropriate telomere recombination, and upon telomere uncapping, prevents cell proliferation by a checkpoint-independent pathway; role in DNA catenation/decatenation pathway of chromosome disentangling; relocalizes to the cytosol in response to hypoxia
-S000036676	CDS					YAR007C		1	158619	156754	C		2011-02-03	1996-07-31	
-S000000066	ORF	Verified	YAR008W	SEN34	tRNA splicing endonuclease subunit SEN34|FUN4	chromosome 1	L000003973	1	158966	159793	W		2011-02-03	1996-07-31	Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease (Sen complex) is composed of Sen2p, Sen15p, Sen34p, and Sen54p; Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface; Sen34p contains the active site for tRNA 3' splice site cleavage and has similarity to Sen2p and to Archaeal tRNA splicing endonuclease
-S000037450	CDS					YAR008W		1	158966	159793	W		2011-02-03	1996-07-31	
-S000077372	ARS		ARS109	ARS101	ARSI-160	chromosome 1		1	159907	160127			2011-02-03	2004-10-18|2006-09-06	ARS containing multiple redundant ORC binding sites; ORC is the acronym for origin recognition complex
-S000121251	ARS_consensus_sequence					ARS109		1	159945	159935	C		2011-02-03	2007-03-07	
-S000118986	ARS_consensus_sequence					ARS109		1	159952	159966	W		2011-02-03	2006-10-02	
-S000006788	long_terminal_repeat		YARCdelta3			chromosome 1		1	160237	160105	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006789	long_terminal_repeat		YARCdelta4			chromosome 1		1	160574	160238	C		2011-02-03	2000-05-19	Ty1 LTR
-S000000067	transposable_element_gene		YAR009C		truncated gag-pol fusion protein|YARCTyB1-1	chromosome 1		1	164187	160597	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; Gag processing produces capsid proteins, Pol is cleaved to produce protease, reverse transcriptase and integrase activities; in YARCTy1-1 TYB is mutant and probably non-functional; protein product forms cytoplasmic foci upon DNA replication stress
-S000037508	CDS					YAR009C		1	164187	160597	C		2011-02-03	1996-07-31	
-S000000068	transposable_element_gene		YAR010C		gag protein|YARCTyA1-1	chromosome 1		1	165866	164544	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; Gag processing produces capsid proteins; in YARCTy1-1 TYB is mutant and probably non-functional
-S000030210	CDS					YAR010C		1	165866	164544	C		2011-02-03	1996-07-31	
-S000006792	LTR_retrotransposon		YARCTy1-1		Ty1	chromosome 1		1	166162	160238	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
-S000006790	long_terminal_repeat		YARCdelta5			chromosome 1		1	166162	165826	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006521	tRNA_gene		tA(UGC)A	TGA1		chromosome 1	L000003602|S000029601|L000002292	1	166267	166339	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
-S000034842	noncoding_exon					tA(UGC)A		1	166267	166339	W		2011-02-03	2000-05-19	
-S000000069	ORF	Verified	YAR014C	BUD14	protein phosphatase regulator BUD14	chromosome 1		1	168871	166742	C		2011-02-03	2004-01-27|1996-07-31|2011-02-03	Protein involved in bud-site selection; Bud14p-Glc7p complex is a cortical regulator of dynein; forms a complex with Kel1p and Kel2p that regulates Bnr1p (formin) to affect actin cable assembly, cytokinesis, and polarized growth; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern; relative distribution to the nucleus increases upon DNA replication stress
-S000031457	CDS					YAR014C		1	168871	166742	C		2011-02-03	2004-01-27|1996-07-31|2011-02-03	
-S000000070	ORF	Verified	YAR015W	ADE1	phosphoribosylaminoimidazolesuccinocarboxamide synthase	chromosome 1	L000000031	1	169375	170295	W	4	2011-02-03	1996-07-31	N-succinyl-5-aminoimidazole-4-carboxamide ribotide synthetase; required for 'de novo' purine nucleotide biosynthesis; red pigment accumulates in mutant cells deprived of adenine; protein abundance increases in response to DNA replication stress
-S000031548	CDS					YAR015W		1	169375	170295	W		2011-02-03	1996-07-31	
-S000000071	ORF	Verified	YAR018C	KIN3	serine/threonine protein kinase KIN3|NPK1|FUN52	chromosome 1	L000000903	1	171703	170396	C		2011-02-03	1996-07-31	Nonessential serine/threonine protein kinase; possible role in DNA damage response; influences tolerance to high levels of ethanol
-S000032711	CDS					YAR018C		1	171703	170396	C		2011-02-03	1996-07-31	
-S000028735	ORF	Dubious	YAR019W-A			chromosome 1		1	174998	175330	W		2011-02-03	2003-07-29|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF CDC15/YAR019C
-S000033379	CDS					YAR019W-A		1	174998	175330	W		2011-02-03	2003-07-29|2011-02-03	
-S000000072	ORF	Verified	YAR019C	CDC15	serine/threonine protein kinase CDC15|LYT1	chromosome 1	L000000255	1	175135	172211	C	6	2011-02-03	1996-07-31|2011-02-03	Protein kinase of the Mitotic Exit Network; localized to the spindle pole bodies at late anaphase; promotes mitotic exit by directly switching on the kinase activity of Dbf2p; required for spindle disassembly after meiosis II; relocalizes to the cytoplasm upon DNA replication stress
-S000032794	CDS					YAR019C		1	175135	172211	C		2011-02-03	1996-07-31|2011-02-03	
-S000114488	ARS		ARS110	ARS110	ARSI-176	chromosome 1		1	176157	176404			2011-02-03	2006-09-06|2006-02-28	Autonomously Replicating Sequence; originally referred to as ADE1 ARS
-S000178037	ARS_consensus_sequence					ARS110		1	176232	176248	W		2014-11-18	2014-11-18	
-S000000073	ORF	Verified	YAR020C	PAU7	seripauperin PAU7	chromosome 1		1	177023	176856	C		2011-02-03	1996-07-31	Member of the seripauperin multigene family; active during alcoholic fermentation, regulated by anaerobiosis, inhibited by oxygen, repressed by heme
-S000034578	CDS					YAR020C		1	177023	176856	C		2011-02-03	1996-07-31	
-S000000074	ORF	Uncharacterized	YAR023C		DUP240 family protein	chromosome 1		1	179820	179281	C		2011-02-03	1996-07-31|2011-02-03	Putative integral membrane protein; member of DUP240 gene family
-S000035643	CDS					YAR023C		1	179820	179281	C		2011-02-03	1996-07-31|2011-02-03	
-S000006636	tRNA_gene		tL(CAA)A	SUP56		chromosome 1	L000003603	1	181141	181254	W	10	2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; can mutate to suppress amber nonsense mutations
-S000033745	intron					tL(CAA)A		1	181179	181210	W		2011-02-03	2000-05-19	
-S000033743	noncoding_exon					tL(CAA)A		1	181141	181178	W		2011-02-03	2000-05-19	
-S000033744	noncoding_exon					tL(CAA)A		1	181211	181254	W		2011-02-03	2000-05-19	
-S000006719	tRNA_gene		tS(AGA)A			chromosome 1	L000003604	1	182603	182522	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000032337	noncoding_exon					tS(AGA)A		1	182603	182522	C		2011-02-03	2000-05-19	
-S000006795	long_terminal_repeat		YARWsigma1			chromosome 1		1	182620	182959	W		2011-02-03	2000-05-19	Ty3 LTR
-S000006793	long_terminal_repeat		YARWdelta6			chromosome 1		1	183142	183474	W		2011-02-03	2000-05-19	Ty1 LTR
-S000000075	ORF	Verified	YAR027W	UIP3	DUP240 family protein UIP3	chromosome 1		1	183770	184477	W		2011-02-03	1996-07-31	Putative integral membrane protein of unknown function; interacts with Ulp1p at the nuclear periphery; member of DUP240 gene family
-S000036855	CDS					YAR027W		1	183770	184477	W		2011-02-03	1996-07-31	
-S000000076	ORF	Uncharacterized	YAR028W		DUP240 family protein	chromosome 1		1	184892	185596	W		2011-02-03	1996-07-31	Putative integral membrane protein; member of DUP240 gene family; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
-S000036899	CDS					YAR028W		1	184892	185596	W		2011-02-03	1996-07-31	
-S000000077	ORF	Uncharacterized	YAR029W		DUP240 family protein	chromosome 1		1	186321	186545	W		2011-02-03	1996-07-31	Member of DUP240 gene family but contains no transmembrane domains; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
-S000036967	CDS					YAR029W		1	186321	186545	W		2011-02-03	1996-07-31	
-S000000078	ORF	Verified	YAR031W	PRM9	pheromone-regulated DUP240 family protein PRM9	chromosome 1		1	186836	187732	W		2011-02-03	1996-07-31	Pheromone-regulated protein; contains 3 predicted transmembrane segments and an FF sequence, a motif involved in COPII binding; member of DUP240 gene family; PRM9 has a paralog, PRM8, that arose from a segmental duplication
-S000030609	CDS					YAR031W		1	186836	187732	W		2011-02-03	1996-07-31	
-S000001821	ORF	Dubious	YAR030C			chromosome 1		1	186853	186512	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YAR029W and the verified gene PRM9
-S000036694	CDS					YAR030C		1	186853	186512	C		2011-02-03	1996-07-31	
-S000000079	ORF	Verified	YAR033W	MST28	DUP240 family protein MST28	chromosome 1		1	188107	188811	W		2011-02-03	1996-07-31	Putative integral membrane protein, involved in vesicle formation; forms complex with Mst27p; member of DUP240 gene family; binds COPI and COPII vesicles; MST28 has a paralog, MST27, that arose from a segmental duplication
-S000030819	CDS					YAR033W		1	188107	188811	W		2011-02-03	1996-07-31	
-S000006794	long_terminal_repeat		YARWdelta7			chromosome 1		1	189426	189757	W		2011-02-03	2000-05-19	Ty2 LTR
-S000000080	ORF	Verified	YAR035W	YAT1	carnitine O-acetyltransferase YAT1	chromosome 1	L000002497	1	190193	192256	W		2011-02-03	1996-07-31	Outer mitochondrial carnitine acetyltransferase; minor ethanol-inducible enzyme involved in transport of activated acyl groups from the cytoplasm into the mitochondrial matrix; phosphorylated
-S000031976	CDS					YAR035W		1	190193	192256	W		2011-02-03	1996-07-31	
-S000028595	ORF	Uncharacterized	YAR035C-A			chromosome 1		1	192417	192337	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; predicted to have a role in cell budding based on computational "guilt by association" analysis
-S000031375	CDS					YAR035C-A		1	192417	192337	C		2011-02-03	2003-07-29	
-S000000081	ORF	Verified	YAR042W	SWH1	oxysterol-binding protein related protein SWH1|OSH1|YAR044W	chromosome 1	L000002249	1	192619	196185	W		2011-02-03	2003-09-27|2006-01-19|1996-07-31	Protein similar to mammalian oxysterol-binding protein; contains ankyrin repeats and FFAT motif; interacts with ER anchor Scs2p at the nucleus-vacuole junction; regulated by sterol binding; SWH1 has a paralog, OSH2, that arose from the whole genome duplication
-S000035065	CDS					YAR042W		1	192619	196185	W		2011-02-03	2003-09-27|2006-01-19|1996-07-31	
-S000000083	ORF	Dubious	YAR047C			chromosome 1		1	201787	201467	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031684	CDS					YAR047C		1	201787	201467	C		2011-02-03	1996-07-31	
-S000000084	ORF	Verified	YAR050W	FLO1	flocculin FLO1|FLO4|FLO2	chromosome 1	L000000617|L000000616	1	203403	208016	W	44	2011-02-03	1998-09-02|1996-07-31	Lectin-like protein involved in flocculation; cell wall protein that binds mannose chains on the surface of other cells, confers floc-forming ability that is chymotrypsin sensitive and heat resistant; important for co-flocculation with other yeasts, mediating interaction with specific species; FLO1 has a paralog, FLO5, that arose from a segmental duplication
-S000036444	CDS					YAR050W		1	203403	208016	W		2011-02-03	1998-09-02|1996-07-31	
-S000000085	ORF	Dubious	YAR053W			chromosome 1		1	208367	208663	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037285	CDS					YAR053W		1	208367	208663	W		2011-02-03	1996-07-31	
-S000006791	long_terminal_repeat		YARCdelta8			chromosome 1		1	209778	209448	C		2011-02-03	2000-05-19	Ty1 LTR
-S000121256	ARS		ARS111		ARSI-215	chromosome 1		1	214888	215644			2011-02-03	2007-03-07	Autonomously Replicating Sequence
-S000178038	ARS_consensus_sequence					ARS111		1	215028	215012	C		2014-11-18	2014-11-18	
-S000000086	ORF	Dubious	YAR060C			chromosome 1		1	217492	217157	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YAR060C has a paralog, YHR212C, that arose from a segmental duplication
-S000032661	CDS					YAR060C		1	217492	217157	C		2011-02-03	1996-07-31	
-S000000087	pseudogene		YAR061W		YAR062W	chromosome 1		1	218140	219145	W		2014-11-18	1996-07-31|2014-11-18	Pseudogenic fragment with similarity to flocculins; YAR061W has a paralog, YHR212W-A, that arose from a segmental duplication
-S000033393	CDS					YAR061W		1	218140	219145	W		2014-11-18	1996-07-31|2014-11-18	
-S000000089	ORF	Uncharacterized	YAR064W			chromosome 1		1	220198	220497	W		2011-02-03	1996-07-31	Pseudogenic fragment with similarity to flocculins; YAR064W has a paralog, YHR213W-B, that arose from a segmental duplication
-S000033577	CDS					YAR064W		1	220198	220497	W		2011-02-03	1996-07-31	
-S000002144	ORF	Uncharacterized	YAR066W			chromosome 1		1	221049	221660	W		2011-02-03	1996-07-31	Putative GPI protein; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; YAR066W has a paralog, YHR214W, that arose from a segmental duplication
-S000034603	CDS					YAR066W		1	221049	221660	W		2011-02-03	1996-07-31	
-S000000091	ORF	Uncharacterized	YAR068W			chromosome 1		1	222406	222891	W		2011-02-03	1996-07-31	Fungal-specific protein of unknown function; induced in respiratory-deficient cells; YAR068W has a paralog, YHR214W-A, that arose from a segmental duplication
-S000035691	CDS					YAR068W		1	222406	222891	W		2011-02-03	1996-07-31	
-S000121257	ARS		ARS112		ARSI-223	chromosome 1		1	222880	224046			2011-02-03	2007-03-07	Autonomously Replicating Sequence
-S000000092	ORF	Dubious	YAR069C			chromosome 1		1	224304	224011	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a protein, based on available experimental and comparative sequence data; YAR069C has a paralog, YHR214C-D, that arose from a segmental duplication
-S000035758	CDS					YAR069C		1	224304	224011	C		2011-02-03	1996-07-31	
-S000000093	ORF	Dubious	YAR070C			chromosome 1		1	224862	224563	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a protein, based on available experimental and comparative sequence data; YAR070C has a paralog, YHR214C-B, that arose from a segmental duplication
-S000036733	CDS					YAR070C		1	224862	224563	C		2011-02-03	1996-07-31	
-S000000094	ORF	Verified	YAR071W	PHO11	acid phosphatase PHO11	chromosome 1	L000001423	1	225460	226863	W	48	2011-02-03	1996-07-31	One of three repressible acid phosphatases; glycoprotein that is transported to the cell surface by the secretory pathway; induced by phosphate starvation and coordinately regulated by PHO4 and PHO2; PHO11 has a paralog, PHO12, that arose from a segmental duplication
-S000036824	CDS					YAR071W		1	225460	226863	W		2011-02-03	1996-07-31	
-S000000095	ORF	Dubious	YAR073W	IMD1		chromosome 1		1	227742	228953	W		2011-02-03	1996-07-31	Nonfunctional protein with homology to IMP dehydrogenase; blocked reading frame, located close to the telomere; not expressed at detectable levels; YAR073W and YAR075W comprise a continuous reading frame in most strains of S. cerevisiae; YAR073W/YAR075W together have a paralog, IMD2, that arose from a segmental duplication
-S000037618	CDS					YAR073W		1	227742	228953	W		2011-02-03	1996-07-31	
-S000002145	ORF	Dubious	YAR075W			chromosome 1		1	228844	229317	W		2011-02-03	1996-07-31	Non-functional protein with homology IMP dehydrogenase; YAR073W/IMD1 and YAR075W comprise a continuous reading frame in most strains of S. cerevisiae; YAR073W/YAR075W together have a paralog, IMD2, that arose from a segmental duplication
-S000037740	CDS					YAR075W		1	228844	229317	W		2011-02-03	1996-07-31	
-S000028937	telomere		TEL01R			chromosome 1		1	229411	230218	W	51	2011-02-03	2003-09-09|2011-02-03	Telomeric region on the right arm of Chromosome I; composed of an X element core sequence and a short terminal stretch of telomeric repeats
-S000028938	telomeric_repeat					TEL01R		1	230121	230218	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome I
-S000028939	X_element					TEL01R		1	229411	229871	W		2011-02-03	2003-09-09|2011-02-03	Telomeric X element Core sequence on the right arm of Chromosome I; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028438	ARS		ARS1001			chromosome 10		10	65	577			2002-12-16	2002-12-16	Autonomously Replicating Sequence
-S000028665	ORF	Dubious	YJL225W-A			chromosome 10		10	829	1311	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized gene YJL225C
-S000032490	CDS					YJL225W-A		10	829	1311	W		2003-07-29	2003-07-29	
-S000003760	ORF	Uncharacterized	YJL225C		Y' element ATP-dependent helicase	chromosome 10		10	6130	466	C		1996-07-31	1996-07-31	Putative Y' element ATP-dependent helicase
-S000033322	CDS					YJL225C		10	4581	466	C		1996-07-31	1996-07-31	
-S000033321	CDS					YJL225C		10	6130	4970	C		1996-07-31	1996-07-31	
-S000033323	intron					YJL225C		10	4969	4582	C		1996-07-31	1996-07-31	
-S000028439	ARS		ARS1002			chromosome 10		10	7445	7943			2002-12-16	2002-12-16	Autonomously Replicating Sequence
-S000028901	telomere		TEL10L			chromosome 10		10	7767	1	C	-125	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome X; composed of an X element core sequence, X element combinatorial repeats, a long Y' element, and a short terminal stretch of telomeric repeats
-S000028902	telomeric_repeat					TEL10L		10	60	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome X
-S000028903	X_element					TEL10L		10	7767	7305	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome X; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028904	X_element_combinatorial_repeat					TEL10L		10	7304	6932	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr X; contains a repeat of the D type with a group I mitochondrial bI4 intron insertion; formerly called SubTelomeric Repeats
-S000028905	Y_prime_element					TEL10L		10	6931	61	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome X; contains an ARS consensus sequence, a region of 36-bp repeats, and two ORFs YJL225C and YJL225W-A
-S000003759	ORF	Verified	YJL223C	PAU1	seripauperin PAU1	chromosome 10	L000001343	10	9138	8776	C		1996-07-31	1996-07-31	Member of the seripauperin multigene family; encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole; active during alcoholic fermentation; regulated by anaerobiosis, negatively regulated by oxygen; repressed by heme; identical to Pau14p
-S000032445	CDS					YJL223C		10	9138	8776	C		1996-07-31	1996-07-31	
-S000028664	ORF	Dubious	YJL222W-B			chromosome 10		10	9346	9483	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032489	CDS					YJL222W-B		10	9346	9483	W		2003-07-29	2003-07-29	
-S000028663	ORF	Dubious	YJL222W-A			chromosome 10		10	9452	9679	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032488	CDS					YJL222W-A		10	9452	9679	W		2003-07-29	2003-07-29	
-S000003758	ORF	Verified	YJL222W	VTH2	signal sequence-binding protein	chromosome 10		10	11475	16124	W		1996-07-31	1996-07-31	Putative membrane glycoprotein; has strong similarity to Vth1p and Pep1p/Vps10p; may be involved in vacuolar protein sorting
-S000032381	CDS					YJL222W		10	11475	16124	W		1996-07-31	1996-07-31	
-S000028440	ARS		ARS1003			chromosome 10		10	16124	16762			2002-12-16	2002-12-16	Autonomously Replicating Sequence
-S000003756	ORF	Dubious	YJL220W			chromosome 10		10	18243	18695	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL221C/FSP2
-S000032208	CDS					YJL220W		10	18243	18695	W		1996-07-31	1996-07-31	
-S000003757	ORF	Verified	YJL221C	IMA4	oligo-1,6-glucosidase IMA4|FSP2	chromosome 10	L000002901	10	18536	16767	C		1996-07-31	1996-07-31	Alpha-glucosidase; weak, but broad substrate specificity for alpha-1,4- and alpha-1,6-glucosides; member of IMA isomaltase family; not required for isomaltose utilization, but Ima4p overexpression allows the ima1 null mutant to grow on isomaltose; identical to IMA3
-S000032237	CDS					YJL221C		10	18536	16767	C		1996-07-31	1996-07-31	
-S000003755	ORF	Verified	YJL219W	HXT9	hexose transporter HXT9	chromosome 10	L000000843	10	19497	21200	W		1996-07-31	1996-07-31	Putative hexose transporter that is nearly identical to Hxt11p; has similarity to major facilitator superfamily (MFS) transporters, expression of HXT9 is regulated by transcription factors Pdr1p and Pdr3p
-S000031251	CDS					YJL219W		10	19497	21200	W		1996-07-31	1996-07-31	
-S000003754	ORF	Uncharacterized	YJL218W		acetyltransferase	chromosome 10		10	21973	22563	W		1996-07-31	1996-07-31	Putative acetyltransferase; similar to bacterial galactoside O-acetyltransferases; induced by oleate in an OAF1/PIP2-dependent manner; promoter contains an oleate response element consensus sequence; non-essential gene
-S000031119	CDS					YJL218W		10	21973	22563	W		1996-07-31	1996-07-31	
-S000003753	ORF	Verified	YJL217W	REE1		chromosome 10		10	23133	23729	W		1996-07-31	1996-07-31	Cytoplasmic protein involved in the regulation of enolase (ENO1); mRNA expression is induced by calcium shortage, copper deficiency (via Mac1p) and the presence of galactose (via Gal4p); mRNA expression is also regulated by the cell cycle
-S000030093	CDS					YJL217W		10	23133	23729	W		1996-07-31	1996-07-31	
-S000028441	ARS		ARS1004			chromosome 10		10	23662	24158			2002-12-16	2002-12-16	Autonomously Replicating Sequence
-S000178121	ARS_consensus_sequence					ARS1004		10	23819	23835	W		2014-11-18	2014-11-18	
-S000003752	ORF	Verified	YJL216C	IMA5	oligo-1,6-glucosidase IMA5	chromosome 10		10	26086	24341	C		1996-07-31	1996-07-31	Alpha-glucosidase; specificity for isomaltose, maltose, and palatinose, but not alpha-methylglucoside; most distant member of the IMA isomaltase family, but with similar catalytic properties as Ima1p and Ima2p; not required for isomaltose utilization, but Ima5p overexpression allows the ima1 null mutant to grow on isomaltose; can cleave alpha-1,3 linkage of nigerose and turanose and alpha-1,5 linkage of leucrose and is very sensitive to temperature in vitro
-S000029921	CDS					YJL216C		10	26086	24341	C		1996-07-31	1996-07-31	
-S000003751	ORF	Dubious	YJL215C			chromosome 10		10	26771	26412	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037269	CDS					YJL215C		10	26771	26412	C		1996-07-31	1996-07-31	
-S000003750	ORF	Verified	YJL214W	HXT8	hexose transporter HXT8	chromosome 10	L000000842	10	26887	28596	W		1996-07-31	1996-07-31	Protein of unknown function with similarity to hexose transporters; expression is induced by low levels of glucose and repressed by high levels of glucose
-S000037229	CDS					YJL214W		10	26887	28596	W		1996-07-31	1996-07-31	
-S000003749	ORF	Verified	YJL213W			chromosome 10		10	32163	33158	W		1996-07-31	1996-07-31	Protein of unknown function that may interact with ribosomes; periodically expressed during the yeast metabolic cycle; phosphorylated in vitro by the mitotic exit network (MEN) kinase complex, Dbf2p/Mob1p
-S000037130	CDS					YJL213W		10	32163	33158	W		1996-07-31	1996-07-31	
-S000003748	ORF	Verified	YJL212C	OPT1	oligopeptide transporter OPT1|GSH11|HGT1	chromosome 10		10	36249	33850	C		1996-07-31	1996-07-31	Proton-coupled oligopeptide transporter of the plasma membrane; also transports glutathione and phytochelatin; member of the OPT family
-S000037000	CDS					YJL212C		10	36249	33850	C		1996-07-31	1996-07-31	
-S000003746	ORF	Verified	YJL210W	PEX2	ubiquitin-protein ligase peroxin 2|PAS5|CRT1	chromosome 10	L000000422|L000003076	10	36919	37734	W		1996-07-31	1996-07-31	RING-finger peroxin and E3 ubiquitin ligase; peroxisomal membrane protein with a C-terminal zinc-binding RING domain, forms translocation subcomplex with Pex10p and Pex12p which functions in peroxisomal matrix protein import
-S000036292	CDS					YJL210W		10	36919	37734	W		1996-07-31	1996-07-31	
-S000003747	ORF	Dubious	YJL211C			chromosome 10		10	37200	36757	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL210W/PEX2
-S000036326	CDS					YJL211C		10	37200	36757	C		1996-07-31	1996-07-31	
-S000003745	ORF	Verified	YJL209W	CBP1		chromosome 10	L000000224	10	38005	39969	W		1996-07-31	1996-07-31	Mitochondrial protein, regulator of COB mRNA stability and translation; interacts with the 5'-untranslated region of the COB mRNA; found in a complex at the inner membrane along with Pet309p; localizes to mitochondrial foci upon DNA replication stress
-S000034944	CDS					YJL209W		10	38005	39969	W		1996-07-31	1996-07-31	
-S000003744	ORF	Verified	YJL208C	NUC1	ribonuclease	chromosome 10	L000001283	10	41183	40194	C		1996-07-31	1996-07-31	Major mitochondrial nuclease; has RNAse and DNA endo- and exonucleolytic activities; roles in mitochondrial recombination, apoptosis and maintenance of polyploidy; involved in fragmentation of genomic DNA during PND (programmed nuclear destruction); encodes ortholog of mammalian endoG
-S000033945	CDS					YJL208C		10	41183	40194	C		1996-07-31	1996-07-31	
-S000003743	ORF	Verified	YJL207C	LAA1		chromosome 10		10	47433	41389	C		1996-07-31	1996-07-31	AP-1 accessory protein; colocalizes with clathrin to the late-Golgi apparatus; involved in TGN-endosome transport; physically interacts with AP-1; similar to the mammalian p200; may interact with ribosomes; YJL207C is a non-essential gene
-S000033803	CDS					YJL207C		10	47433	41389	C		1996-07-31	1996-07-31	
-S000003741	ORF	Uncharacterized	YJL206C			chromosome 10		10	49935	47659	C		1996-07-31	1996-07-31	Putative protein of unknown function; similar to transcriptional regulators from the Zn[2]-Cys[6] binuclear cluster protein family; mRNA is weakly cell cycle regulated, peaking in S phase; induced rapidly upon MMS treatment
-S000033077	CDS					YJL206C		10	49935	47659	C		1996-07-31	1996-07-31	
-S000003742	ORF	Verified	YJL205C	NCE101	YJL205C-A|YJL206C-A|NCE1	chromosome 10	L000003097	10	50443	50139	C		1996-07-31	1996-07-31	Protein of unknown function; involved in secretion of proteins that lack classical secretory signal sequences; SWAT-GFP and mCherry fusion proteins localize to the cytosol
-S000034430	CDS					YJL205C		10	50268	50139	C		1996-07-31	1996-07-31	
-S000034429	CDS					YJL205C		10	50443	50412	C		1996-07-31	1996-07-31	
-S000034431	intron					YJL205C		10	50411	50269	C		1996-07-31	1996-07-31	
-S000003740	ORF	Verified	YJL204C	RCY1		chromosome 10		10	53151	50629	C		1996-07-31	1996-07-31	F-box protein involved in recycling endocytosed proteins; involved in recycling plasma membrane proteins internalized by endocytosis; localized to sites of polarized growth; direct interaction with C-terminal cytoplasmic region of Drs2p plays an important role for Drs2p function in endocytic recycling pathway
-S000032878	CDS					YJL204C		10	53151	50629	C		1996-07-31	1996-07-31	
-S000003739	ORF	Verified	YJL203W	PRP21	SPP91	chromosome 10	L000001507	10	53341	54183	W		1996-07-31	1996-07-31	Subunit of the SF3a splicing factor complex; required for spliceosome assembly
-S000032839	CDS					YJL203W		10	53341	54183	W		1996-07-31	1996-07-31	
-S000003738	ORF	Dubious	YJL202C			chromosome 10		10	54290	53943	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 3' end of essential PRP21 gene encoding a subunit of the SF3a splicing factor complex
-S000031876	CDS					YJL202C		10	54290	53943	C		1996-07-31	1996-07-31	
-S000003737	ORF	Verified	YJL201W	ECM25		chromosome 10	L000003897	10	54379	56178	W		1996-07-31	1996-07-31	Non-essential protein of unknown function; promoter contains a consensus binding sequence for factor Abf1p
-S000031819	CDS					YJL201W		10	54379	56178	W		1996-07-31	1996-07-31	
-S000003736	ORF	Verified	YJL200C	ACO2	aconitate hydratase ACO2	chromosome 10		10	58813	56444	C		1996-07-31	1996-07-31	Putative mitochondrial aconitase isozyme; similarity to Aco1p, an aconitase required for the TCA cycle; expression induced during growth on glucose, by amino acid starvation via Gcn4p, and repressed on ethanol
-S000031641	CDS					YJL200C		10	58813	56444	C		1996-07-31	1996-07-31	
-S000006743	tRNA_gene		tT(AGU)J			chromosome 10	L000003628	10	59172	59100	C		2000-05-19	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000032173	noncoding_exon					tT(AGU)J		10	59172	59100	C		2000-05-19	2000-05-19	
-S000007027	long_terminal_repeat		YJLWdelta1			chromosome 10		10	59505	59784	W		2011-02-03	2000-05-19	Ty1 LTR
-S000003735	ORF	Uncharacterized	YJL199C	MBB1		chromosome 10		10	60182	59856	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains, not conserved in closely related Saccharomyces species; protein detected in large-scale protein-protein interaction studies; YJL199C is not an essential gene
-S000035098	CDS					YJL199C		10	60182	59856	C		2011-02-03	1996-07-31	
-S000003734	ORF	Verified	YJL198W	PHO90	SPX domain-containing inorganic phosphate transporter	chromosome 10		10	60844	63489	W		2011-02-03	1996-07-31	Low-affinity phosphate transporter; acts upstream of Pho81p in regulation of the PHO pathway; deletion of pho84, pho87, pho89, pho90, and pho91 causes synthetic lethality; transcription independent of Pi and Pho4p activity; overexpression results in vigorous growth; PHO90 has a paralog, PHO87, that arose from the whole genome duplication
-S000034201	CDS					YJL198W		10	60844	63489	W		2011-02-03	1996-07-31	
-S000003733	ORF	Verified	YJL197W	UBP12	putative ubiquitin-specific protease UBP12	chromosome 10	L000003033	10	63805	67569	W		2011-02-03	1996-07-31	Ubiquitin-specific protease; cleaves ubiquitin from ubiquitinated proteins; present in the nucleus and cytoplasm
-S000034104	CDS					YJL197W		10	63805	67569	W		2011-02-03	1996-07-31	
-S000028839	ORF	Dubious	YJL197C-A			chromosome 10		10	66086	65805	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YJL197C/UBP12
-S000034494	CDS					YJL197C-A		10	66086	65805	C		2011-02-03	2003-07-29	
-S000028442	ARS		ARS1005			chromosome 10		10	67663	67736			2014-11-18	2002-12-16|2014-11-18	Autonomously Replicating Sequence
-S000003732	ORF	Verified	YJL196C	ELO1	fatty acid elongase ELO1	chromosome 10	L000003442	10	68782	67850	C		2011-02-03	1996-07-31	Elongase I, medium-chain acyl elongase; catalyzes carboxy-terminal elongation of unsaturated C12-C16 fatty acyl-CoAs to C16-C18 fatty acids; ELO1 has a paralog, ELO2, that arose from the whole genome duplication
-S000033953	CDS					YJL196C		10	68782	67850	C		2011-02-03	1996-07-31	
-S000003730	ORF	Verified	YJL194W	CDC6	AAA family ATPase CDC6	chromosome 10	L000000246	10	69338	70879	W	-124	2011-02-03	1996-07-31	Essential ATP-binding protein required for DNA replication; component of the pre-replicative complex (pre-RC) which requires ORC to associate with chromatin and is in turn required for Mcm2-7p DNA association; homologous to S. pombe Cdc18p; relocalizes from nucleus to cytoplasm upon DNA replication stress; degraded in response to plasma membrane stress
-S000033118	CDS					YJL194W		10	69338	70879	W		2011-02-03	1996-07-31	
-S000003731	ORF	Dubious	YJL195C			chromosome 10		10	69942	69241	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL194W/CDC6
-S000033155	CDS					YJL195C		10	69942	69241	C		2011-02-03	1996-07-31	
-S000003729	ORF	Uncharacterized	YJL193W			chromosome 10		10	71366	72574	W		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to encode a triose phosphate transporter subfamily member based on phylogenetic analysis; similar to YOR307C/SLY41; deletion mutant has a respiratory growth defect
-S000033028	CDS					YJL193W		10	71366	72574	W		2011-02-03	1996-07-31	
-S000003728	ORF	Verified	YJL192C	SOP4	EMC7	chromosome 10		10	73414	72710	C		2011-02-03	1996-07-31	ER-membrane protein; subunit of evolutionarily conserved EMC (Endoplasmic Reticulum Membrane Complex) implicated in ERAD (ER-associated degradation) and proper assembly of multi-pass transmembrane (TM) proteins; EMC acts in yeast as an ER-mitochondria tether that interacts with outer membrane protein Tom5 of TOM (Translocase of the Mitochondrial Outer Membrane) complex; suppressor of pma1-7, deletion of SOP4 slows down export of wild-type Pma1p and Pma1-7 from the ER
-S000032055	CDS					YJL192C		10	73414	72710	C		2011-02-03	1996-07-31	
-S000003727	ORF	Verified	YJL191W	RPS14B	uS11|ribosomal 40S subunit protein S14B|S11|rp59B|S14B|CRY2	chromosome 10	L000000424	10	73787	74611	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; required for ribosome assembly and 20S pre-rRNA processing; mutations confer cryptopleurine resistance; homologous to mammalian ribosomal protein S14 and bacterial S11; RPS14B has a paralog, RPS14A, that arose from the whole genome duplication
-S000032004	CDS					YJL191W		10	73787	73796	W		2011-02-03	1996-07-31	
-S000032005	CDS					YJL191W		10	74205	74611	W		2011-02-03	1996-07-31	
-S000032006	intron					YJL191W		10	73797	74204	W		2011-02-03	1996-07-31	
-S000003726	ORF	Verified	YJL190C	RPS22A	uS8|ribosomal 40S subunit protein S22A|S8|rp50|YS22|S24A|S22A|RPS24	chromosome 10	L000003150|L000001760	10	75302	74910	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S15A and bacterial S8; RPS22A has a paralog, RPS22B, that arose from the whole genome duplication
-S000031736	CDS					YJL190C		10	75302	74910	C		2011-02-03	1996-07-31	
-S000003725	ORF	Verified	YJL189W	RPL39	eL39|ribosomal 60S subunit protein L39|L39e|YL40|L46|L39|SPB2|RPL46	chromosome 10	L000001737	10	75933	76474	W		2011-02-03	1996-07-31|2011-02-03	Ribosomal 60S subunit protein L39; required for ribosome biogenesis; loss of both Rpl31p and Rpl39p confers lethality; also exhibits genetic interactions with SIS1 and PAB1; homologous to mammalian ribosomal protein L39, no bacterial homolog
-S000030844	CDS					YJL189W		10	75933	75938	W		2011-02-03	1996-07-31	
-S000030845	CDS					YJL189W		10	76325	76474	W		2011-02-03	1996-07-31	
-S000030846	intron					YJL189W		10	75939	76324	W		2011-02-03	1996-07-31|2011-02-03	
-S000003724	ORF	Dubious	YJL188C	BUD19		chromosome 10		10	76510	76202	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 88% of ORF overlaps the verified gene RPL39; diploid mutant displays a weak budding pattern phenotype in a systematic assay
-S000037873	CDS					YJL188C		10	76510	76202	C		2011-02-03	1996-07-31|2011-02-03	
-S000003723	ORF	Verified	YJL187C	SWE1	tyrosine protein kinase SWE1|WEE1	chromosome 10	L000002248	10	79262	76803	C		2011-02-03	1996-07-31	Protein kinase that regulates the G2/M transition; negative regulator of the Cdc28p kinase; morphogenesis checkpoint kinase; positive regulator of sphingolipid biosynthesis via Orm2p; phosphorylates a tyrosine residue in the N-terminus of Hsp90 in a cell-cycle associated manner, thus modulating the ability of Hsp90 to chaperone a selected clientele; localizes to the nucleus and to the daughter side of the mother-bud neck; homolog of S. pombe Wee1p; potential Cdc28p substrate
-S000037770	CDS					YJL187C		10	79262	76803	C		2011-02-03	1996-07-31	
-S000003722	ORF	Verified	YJL186W	MNN5	alpha-1,2-mannosyltransferase MNN5	chromosome 10	L000004918	10	80155	81915	W		2011-02-03	1996-07-31|2011-02-03	Alpha-1,2-mannosyltransferase; responsible for addition of the second alpha-1,2-linked mannose of the branches on the mannan backbone of oligosaccharides, localizes to an early Golgi compartment
-S000037744	CDS					YJL186W		10	80155	81915	W		2011-02-03	1996-07-31|2011-02-03	
-S000003721	ORF	Verified	YJL185C	ATG36		chromosome 10		10	82976	82095	C		2011-02-03	1996-07-31	Pex3p interacting protein, required for pexophagy; interacts with Atg8p and Atg11p; mRNA is weakly cell cycle regulated, peaking in G2 phase; YJL185C is a non-essential gene
-S000036951	CDS					YJL185C		10	82976	82095	C		2011-02-03	1996-07-31	
-S000003720	ORF	Verified	YJL184W	GON7	chromatin DNA-binding EKC/KEOPS complex subunit GON7|PCC2|LDB6	chromosome 10		10	83448	83819	W		2011-02-03	1996-07-31	Component of the EKC/KEOPS protein complex; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription; implicated in osmotic stress response; other complex members are Kae1p, Cgi121p, Pcc1p, and Bud32p
-S000036918	CDS					YJL184W		10	83448	83819	W		2011-02-03	1996-07-31	
-S000003719	ORF	Verified	YJL183W	MNN11	alpha-1,6-mannosyltransferase	chromosome 10	L000004260	10	84068	85336	W		2011-02-03	1996-07-31|2011-02-03	Subunit of a Golgi mannosyltransferase complex; this complex also contains Anp1p, Mnn9p, Mnn10p, and Hoc1p, and mediates elongation of the polysaccharide mannan backbone; has homology to Mnn10p
-S000036862	CDS					YJL183W		10	84068	85336	W		2011-02-03	1996-07-31|2011-02-03	
-S000003717	ORF	Uncharacterized	YJL181W	RBH1	RBH1	chromosome 10		10	85660	87495	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression is cell-cycle regulated as shown by microarray analysis; potential regulatory target of Mbp1p, which binds to the YJL181W promoter region; contains a PH-like domain; RBH1 has a paralog, RBH2, that arose from the whole genome duplication
-S000035872	CDS					YJL181W		10	85660	87495	W		2011-02-03	1996-07-31	
-S000003718	ORF	Dubious	YJL182C			chromosome 10		10	85752	85435	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized ORF YJL181W
-S000035944	CDS					YJL182C		10	85752	85435	C		2011-02-03	1996-07-31	
-S000003716	ORF	Verified	YJL180C	ATP12	ATP synthase complex assembly protein ATP12	chromosome 10	L000000149	10	88560	87583	C		2011-02-03	1996-07-31	Assembly factor for F1 sector of mitochondrial F1F0 ATP synthase; conserved protein; required for assembly of alpha and beta subunits into F1 sector of mitochondrial F1F0 ATP synthase; human homolog ATPAF2 can complement yeast atp12 mutant; mutation of human homolog reduces active ATP synthase levels and is associated with the disorder ATPAF2 deficiency
-S000035717	CDS					YJL180C		10	88560	87583	C		2011-02-03	1996-07-31	
-S000003715	ORF	Verified	YJL179W	PFD1	prefolding complex chaperone subunit|GIM6	chromosome 10	L000004367	10	88787	89116	W		2011-02-03	1996-07-31|2011-02-03	Subunit of heterohexameric prefoldin; prefoldin binds cytosolic chaperonin and transfers target proteins to it; involved in the biogenesis of actin and of alpha- and gamma-tubulin; prefoldin complex also localizes to chromatin of actively transcribed genes in the nucleus and facilitates transcriptional elongation
-S000034696	CDS					YJL179W		10	88787	89116	W		2011-02-03	1996-07-31|2011-02-03	
-S000003714	ORF	Verified	YJL178C	ATG27	ETF1	chromosome 10		10	90097	89282	C		2011-02-03	2004-02-12|1996-07-31	Type I membrane protein involved in autophagy and the Cvt pathway; may be involved in membrane delivery to the phagophore assembly site
-S000033739	CDS					YJL178C		10	90097	89282	C		2011-02-03	2004-02-12|1996-07-31	
-S000003713	ORF	Verified	YJL177W	RPL17B	uL22|ribosomal 60S subunit protein L17B|L22|YL17|L20B|L17B	chromosome 10	L000004457	10	90786	91657	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L17B; required for processing of 27SB pre-rRNA and formation of stable 66S assembly intermediates; homologous to mammalian ribosomal protein L17 and bacterial L22; RPL17B has a paralog, RPL17A, that arose from the whole genome duplication
-S000033683	CDS					YJL177W		10	90786	91094	W		2011-02-03	1996-07-31	
-S000033684	CDS					YJL177W		10	91412	91657	W		2011-02-03	1996-07-31	
-S000033685	intron					YJL177W		10	91095	91411	W		2011-02-03	1996-07-31	
-S000003711	ORF	Dubious	YJL175W			chromosome 10		10	94049	94561	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; deletion confers resistance to cisplatin, hypersensitivity to 5-fluorouracil, and growth defect at high pH with high calcium; overlaps gene for SWI3 transcription factor
-S000033497	CDS					YJL175W		10	94049	94561	W		2011-02-03	1996-07-31	
-S000003712	ORF	Verified	YJL176C	SWI3	HAF2|TYE2	chromosome 10	L000002251	10	94530	92053	C		2011-02-03	1996-07-31	Subunit of the SWI/SNF chromatin remodeling complex; SWI/SNF regulates transcription by remodeling chromosomes; contains SANT domain that is required for SWI/SNF assembly; is essential for displacement of histone H2A-H2B dimers during ATP-dependent remodeling; required for transcription of many genes, including ADH1, ADH2, GAL1, HO, INO1 and SUC2; relocates to the cytosol under hypoxic conditions
-S000033535	CDS					YJL176C		10	94530	92053	C		2011-02-03	1996-07-31	
-S000003710	ORF	Verified	YJL174W	KRE9		chromosome 10	L000000916	10	95092	95922	W	-111.26	2011-02-03	1996-07-31	Glycoprotein involved in cell wall beta-glucan assembly; null mutation leads to severe growth defects, aberrant multibudded morphology, and mating defects
-S000032753	CDS					YJL174W		10	95092	95922	W		2011-02-03	1996-07-31	
-S000003709	ORF	Verified	YJL173C	RFA3	RPA14|RPA3	chromosome 10	L000001622	10	96529	96161	C		2011-02-03	1996-07-31	Subunit of heterotrimeric Replication Protein A (RPA); RPA is a highly conserved single-stranded DNA binding protein complex involved in DNA replication, repair, recombination; RPA protects against inappropriate telomere recombination, and upon telomere uncapping, prevents cell proliferation by a checkpoint-independent pathway; with Sgs1p-Top2p-Rmi1p, stimulates DNA catenation/decatenation activity of Top3p; protein abundance increases in response to DNA replication stress
-S000032609	CDS					YJL173C		10	96529	96161	C		2011-02-03	1996-07-31	
-S000003708	ORF	Verified	YJL172W	CPS1	Gly-Xaa carboxypeptidase	chromosome 10	L000000403	10	97737	99467	W		2011-02-03	1996-07-31	Vacuolar carboxypeptidase S; expression is induced under low-nitrogen conditions
-S000032538	CDS					YJL172W		10	97737	99467	W		2011-02-03	1996-07-31	
-S000028443	ARS		ARS1006			chromosome 10		10	99458	99678			2014-11-18	2002-12-16|2014-11-18|2011-02-03	Autonomously Replicating Sequence
-S000178122	ARS_consensus_sequence					ARS1006		10	99617	99601	C		2014-11-18	2014-11-18	
-S000003707	ORF	Verified	YJL171C	TOH1		chromosome 10		10	100894	99704	C		2011-02-03	1996-07-31|2011-02-03	GPI-anchored cell wall protein of unknown function; induced in response to cell wall damaging agents and by mutations in genes involved in cell wall biogenesis; sequence similarity to YBR162C/TOS1, a covalently bound cell wall protein; protein abundance increases in response to DNA replication stress
-S000031523	CDS					YJL171C		10	100894	99704	C		2011-02-03	1996-07-31|2011-02-03	
-S000003706	ORF	Verified	YJL170C	ASG7		chromosome 10	L000004055	10	101779	101150	C		2011-02-03	1996-07-31|2006-01-18	Protein that regulates signaling from G protein beta subunit Ste4p; contributes to relocalization of Ste4p within the cell; specific to a-cells and induced by alpha-factor
-S000031474	CDS					YJL170C		10	101779	101150	C		2011-02-03	1996-07-31|2006-01-18	
-S000003705	ORF	Dubious	YJL169W			chromosome 10		10	102099	102467	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL168C/SET2
-S000030718	CDS					YJL169W		10	102099	102467	W		2011-02-03	1996-07-31|2011-02-03	
-S000003704	ORF	Verified	YJL168C	SET2	histone methyltransferase SET2|KMT3|EZL1	chromosome 10	L000003090	10	104428	102227	C		2011-02-03	1996-07-31|2011-02-03	Histone methyltransferase with a role in transcriptional elongation; methylates H3 lysine 36 (H3K36), which suppresses incorporation of acetylated histones and signals for the deacetylation of these histones within transcribed genes; associates with the C-terminal domain(CTD) of Rpo21p; H3K36me3 (trimethylation) requires Spt6p, proline 38 on H3, CTD of Rpo21p, Ctk1p, and C-terminal SRI domain of Ste2p; relocalizes to the cytosol in response to hypoxia
-S000030590	CDS					YJL168C		10	104428	102227	C		2011-02-03	1996-07-31|2011-02-03	
-S000003703	ORF	Verified	YJL167W	ERG20	bifunctional (2E,6E)-farnesyl diphosphate synthase/dimethylallyltranstransferase|FPP1|FDS1|BOT3	chromosome 10	L000000579	10	105014	106072	W		2011-02-03	1996-07-31	Farnesyl pyrophosphate synthetase; has both dimethylallyltranstransferase and geranyltranstransferase activities; catalyzes the formation of C15 farnesyl pyrophosphate units for isoprenoid and sterol biosynthesis
-S000030519	CDS					YJL167W		10	105014	106072	W		2011-02-03	1996-07-31	
-S000003702	ORF	Verified	YJL166W	QCR8	ubiquinol--cytochrome-c reductase subunit 8|COR5	chromosome 10	L000001548	10	106434	106718	W		2011-02-03	1996-07-31	Subunit 8 of ubiquinol cytochrome-c reductase (Complex III); Complex III is a component of the mitochondrial inner membrane electron transport chain; oriented facing the intermembrane space; expression is regulated by Abf1p and Cpf1p
-S000030370	CDS					YJL166W		10	106434	106718	W		2011-02-03	1996-07-31	
-S000003701	ORF	Verified	YJL165C	HAL5	protein kinase HAL5	chromosome 10	L000000751	10	109461	106894	C		2011-02-03	1996-07-31	Putative protein kinase; overexpression increases sodium and lithium tolerance, whereas gene disruption increases cation and low pH sensitivity and impairs potassium uptake, suggesting a role in regulation of Trk1p and/or Trk2p transporters; HAL5 has a paralog, KKQ8, that arose from the whole genome duplication
-S000037517	CDS					YJL165C		10	109461	106894	C		2011-02-03	1996-07-31	
-S000003700	ORF	Verified	YJL164C	TPK1	cAMP-dependent protein kinase catalytic subunit TPK1|SRA3|PKA1	chromosome 10	L000002045	10	111159	109966	C	-106	2011-02-03	1996-07-31|2011-02-03	cAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; inhibited by regulatory subunit Bcy1p in the absence of cAMP; phosphorylates and inhibits Whi3p to promote G1/S phase passage; partially redundant with Tpk2p and Tpk3p; phosphorylates pre-Tom40p, which impairs its import into mitochondria under non-respiratory conditions; TPK1 has a paralog, TPK3, that arose from the whole genome duplication
-S000037409	CDS					YJL164C		10	111159	109966	C		2011-02-03	1996-07-31|2011-02-03	
-S000003699	ORF	Uncharacterized	YJL163C			chromosome 10		10	113333	111666	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000036682	CDS					YJL163C		10	113333	111666	C		2011-02-03	1996-07-31	
-S000028444	ARS		ARS1007			chromosome 10		10	113678	113749			2014-11-18	2002-12-16|2014-11-18	Autonomously Replicating Sequence
-S000178123	ARS_consensus_sequence					ARS1007		10	113744	113728	C		2014-11-18	2014-11-18	
-S000003698	ORF	Verified	YJL162C	JJJ2		chromosome 10		10	115629	113878	C		2011-02-03	1996-07-31|2006-01-18	Protein of unknown function; contains a J-domain, which is a region with homology to the E. coli DnaJ protein
-S000036580	CDS					YJL162C		10	115629	113878	C		2011-02-03	1996-07-31|2006-01-18	
-S000006557	tRNA_gene		tE(UUC)J			chromosome 10	L000003627	10	116010	115939	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
-S000035988	noncoding_exon					tE(UUC)J		10	116010	115939	C		2011-02-03	2000-05-19	
-S000003697	ORF	Uncharacterized	YJL161W	FMP33		chromosome 10		10	117245	117787	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000036525	CDS					YJL161W		10	117245	117787	W		2011-02-03	1996-07-31	
-S000003696	ORF	Uncharacterized	YJL160C	PIR5	beta-1,3-glucan linked protein	chromosome 10		10	118825	117962	C		2011-02-03	2004-02-19|1996-07-31	Putative protein of unknown function; member of the PIR (Proteins with Internal Repeats) family of cell wall proteins; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, and mCherry fusion localizes to the vacuole; non-essential gene that is required for sporulation; mRNA is weakly cell cycle regulated, peaking in mitosis; YJL160C has a paralog, PIR1, that arose from the whole genome duplication
-S000035585	CDS					YJL160C		10	118825	117962	C		2011-02-03	2004-02-19|1996-07-31	
-S000003695	ORF	Verified	YJL159W	HSP150	heat shock protein HSP150|PIR2|ORE1|CCW7	chromosome 10	L000000824|L000001442	10	120449	121690	W		2011-02-03	2004-02-18|1996-07-31|2006-10-04	O-mannosylated heat shock protein; secreted and covalently attached to the cell wall via beta-1,3-glucan and disulfide bridges; required for cell wall stability; induced by heat shock, oxidative stress, and nitrogen limitation; HSP150 has a paralog, PIR3, that arose from the whole genome duplication
-S000035769	CDS					YJL159W		10	120449	121690	W		2011-02-03	2004-02-18|1996-07-31|2006-10-04	
-S000003694	ORF	Verified	YJL158C	CIS3	SCW8|CCW5|PIR4|CCW11	chromosome 10	S000029072|L000003951|L000004553|S000029439|L000004569	10	122948	122265	C		2011-02-03	1996-07-31	Mannose-containing glycoprotein constituent of the cell wall; member of the PIR (proteins with internal repeats) family
-S000035606	CDS					YJL158C		10	122948	122265	C		2011-02-03	1996-07-31	
-S000003693	ORF	Verified	YJL157C	FAR1	cyclin-dependent protein serine/threonine kinase inhibiting protein FAR1	chromosome 10	L000000600	10	126328	123836	C		2011-02-03	1996-07-31	CDK inhibitor and nuclear anchor; during the cell cycle Far1p sequesters the GEF Cdc24p in the nucleus; phosphorylation by Cdc28p-Cln results in SCFCdc4 complex-mediated ubiquitin-dependent degradation, releasing Cdc24p for export and activation of GTPase Cdc42p; in response to pheromone, phosphorylation of Far1p by MAPK Fus3p results in association with, and inhibition of Cdc28p-Cln, as well as Msn5p mediated nuclear export of Far1p-Cdc24p, targeting Cdc24p to polarity sites
-S000035524	CDS					YJL157C		10	126328	123836	C		2011-02-03	1996-07-31	
-S000007613	ORF	Dubious	YJL156W-A			chromosome 10		10	126604	126825	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037190	CDS					YJL156W-A		10	126604	126825	W		2011-02-03	2001-02-26	
-S000003692	ORF	Verified	YJL156C	SSY5	RAA3	chromosome 10	L000003187|S000029401|L000004045	10	128952	126853	C		2011-02-03	1996-07-31|2009-02-18	Serine protease of SPS plasma membrane amino acid sensor system; contains an inhibitory domain that dissociates in response to extracellular amino acids, freeing a catalytic domain to activate transcription factor Stp1p; other members are Ssy1p and Ptr3p
-S000034507	CDS					YJL156C		10	128952	126853	C		2011-02-03	1996-07-31|2009-02-18	
-S000003691	ORF	Verified	YJL155C	FBP26	fructose-2,6-bisphosphatase	chromosome 10	L000000606	10	130643	129285	C		2011-02-03	1996-07-31	Fructose-2,6-bisphosphatase, required for glucose metabolism; protein abundance increases in response to DNA replication stress
-S000034402	CDS					YJL155C		10	130643	129285	C		2011-02-03	1996-07-31	
-S000003690	ORF	Verified	YJL154C	VPS35	retromer subunit VPS35|VPT7|GRD9	chromosome 10	L000002477	10	133935	131101	C	-102	2011-02-03	1996-07-31	Endosomal subunit of membrane-associated retromer complex; required for retrograde transport; receptor that recognizes retrieval signals on cargo proteins, forms subcomplex with Vps26p and Vps29p that selects cargo proteins for retrieval; interacts with Ypt7p; overexpression of wild-type human VPS35 or Parkinson's-associated vps35-D686N or vps35-P299S variants complements Ni2+ resistance and Cd2+ sensitivity of yeast vps35 null mutant
-S000034312	CDS					YJL154C		10	133935	131101	C		2011-02-03	1996-07-31	
-S000003689	ORF	Verified	YJL153C	INO1	inositol-3-phosphate synthase INO1|APR1	chromosome 10	L000000867	10	135933	134332	C	-101	2011-02-03	2003-09-22|1996-07-31	Inositol-3-phosphate synthase; involved in synthesis of inositol phosphates and inositol-containing phospholipids; transcription is coregulated with other phospholipid biosynthetic genes by Ino2p and Ino4p, which bind the UASINO DNA element
-S000033398	CDS					YJL153C		10	135933	134332	C		2011-02-03	2003-09-22|1996-07-31	
-S000003688	ORF	Dubious	YJL152W			chromosome 10		10	136174	136533	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033364	CDS					YJL152W		10	136174	136533	W		2011-02-03	1996-07-31	
-S000003687	ORF	Verified	YJL151C	SNA3		chromosome 10		10	136773	136372	C		2011-02-03	1996-07-31	Protein involved in efficient MVB sorting of proteins to the vacuole; may function as an RSP5 adapter protein for MVB cargos; integral membrane protein localized to vacuolar intralumenal vesicles
-S000033267	CDS					YJL151C		10	136773	136372	C		2011-02-03	1996-07-31	
-S000003686	ORF	Dubious	YJL150W			chromosome 10		10	137123	137425	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033233	CDS					YJL150W		10	137123	137425	W		2011-02-03	1996-07-31	
-S000003685	ORF	Verified	YJL149W	DAS1	DUH1|SCF ubiquitin ligase complex subunit DAS1	chromosome 10		10	137379	139370	W		2011-02-03	1996-07-31	Putative SCF ubiquitin ligase F-box protein; interacts physically with both Cdc53p and Skp1 and genetically with CDC34; similar to putative F-box protein YDR131C
-S000032472	CDS					YJL149W		10	137379	139370	W		2011-02-03	1996-07-31	
-S000006508	snoRNA_gene		snR128	SNR128	U14	chromosome 10	L000001975	10	139691	139566	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); referred to as U14; essential gene required for cleavage of 35S primary rRNA transcript to release the precursor to the 18S rRNA; guides 2'-O-methylation of small subunit (SSU) rRNA at position C414
-S000035225	noncoding_exon					snR128		10	139691	139566	C		2011-02-03	2000-05-19	
-S000006509	snoRNA_gene		snR190	SNR190		chromosome 10	L000001977	10	139950	139761	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); predicted to guide 2'-O-methylation of large subunit (LSU) rRNA at position G2395; not shown to be active
-S000030414	noncoding_exon					snR190		10	139950	139761	C		2011-02-03	2000-05-19	
-S000003684	ORF	Verified	YJL148W	RPA34	DNA-directed RNA polymerase I subunit RPA34|CST21|A34.5	chromosome 10	L000004132|L000003000|S000029123	10	140437	141138	W		2011-02-03	1996-07-31	RNA polymerase I subunit A34.5; essential for nucleolar assembly and for high polymerase loading rate; nucleolar localization depends on Rpa49p
-S000032342	CDS					YJL148W		10	140437	141138	W		2011-02-03	1996-07-31	
-S000003683	ORF	Uncharacterized	YJL147C	MRX5		chromosome 10		10	142567	141419	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; homozygous diploid deletion strain has a sporulation defect characterized by elevated dityrosine in the soluble fraction; expression induced by calcium shortage; YJL147W is a non-essential gene
-S000031289	CDS					YJL147C		10	142567	141419	C		2011-02-03	1996-07-31	
-S000003682	ORF	Verified	YJL146W	IDS2		chromosome 10	L000000853	10	143292	144701	W		2011-02-03	1996-07-31	Protein involved in modulation of Ime2p activity during meiosis; appears to act indirectly to promote Ime2p-mediated late meiotic functions; found in growing cells and degraded during sporulation
-S000031249	CDS					YJL146W		10	143292	144701	W		2011-02-03	1996-07-31	
-S000003681	ORF	Verified	YJL145W	SFH5		chromosome 10		10	145160	146044	W		2011-02-03	1996-07-31	Non-classical phosphatidylinositol transfer protein (PITP); exhibits PI- but not PC-transfer activity; localizes to the peripheral endoplasmic reticulum, cytosol and microsomes; similar to Sec14p; partially relocalizes to the plasma membrane upon DNA replication stress
-S000031116	CDS					YJL145W		10	145160	146044	W		2011-02-03	1996-07-31	
-S000003680	ORF	Verified	YJL144W			chromosome 10		10	146359	146673	W		2011-02-03	1996-07-31	Cytoplasmic hydrophilin essential in desiccation-rehydration process; expression induced by osmotic stress, starvation and during stationary phase; protein abundance increases in response to DNA replication stress
-S000030090	CDS					YJL144W		10	146359	146673	W		2011-02-03	1996-07-31	
-S000003679	ORF	Verified	YJL143W	TIM17	protein transporter TIM17|SMS1|MPI2|MIM17	chromosome 10	L000001139	10	147101	147577	W		2011-02-03	1996-07-31	Essential component of the TIM23 complex; with Tim23p, contributes to the architecture and function of the import channel; may link the import motor to the core Translocase of the Inner Mitochondrial membrane (TIM23 complex)
-S000029979	CDS					YJL143W		10	147101	147577	W		2011-02-03	1996-07-31	
-S000003678	ORF	Dubious	YJL142C	IRC9		chromosome 10		10	148211	147819	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene YJL141C; null mutant displays increased levels of spontaneous Rad52p foci
-S000037267	CDS					YJL142C		10	148211	147819	C		2011-02-03	1996-07-31	
-S000003677	ORF	Verified	YJL141C	YAK1	serine/threonine protein kinase YAK1	chromosome 10	L000002490	10	150390	147967	C		2011-02-03	1996-07-31	Serine-threonine protein kinase; component of a glucose-sensing system that inhibits growth in response to glucose availability; upon nutrient deprivation Yak1p phosphorylates Pop2p to regulate mRNA deadenylation, the co-repressor Crf1p to inhibit transcription of ribosomal genes, and the stress-responsive transcription factors Hsf1p and Msn2p; nuclear localization negatively regulated by the Ras/PKA signaling pathway in the presence of glucose
-S000037175	CDS					YJL141C		10	150390	147967	C		2011-02-03	1996-07-31	
-S000003676	ORF	Verified	YJL140W	RPB4	DNA-directed RNA polymerase II subunit RPB4|B32|CTF15	chromosome 10	L000001678	10	150961	151626	W		2011-02-03	1996-07-31	RNA polymerase II subunit B32; forms dissociable heterodimer with Rpb7p; Rpb4/7 dissociates from RNAPII as Ser2 CTD phosphorylation increases; Rpb4/7 regulates cellular lifespan via mRNA decay process; involved in recruitment of 3'-end processing factors to transcribing RNAPII complex, export of mRNA to cytoplasm under stress conditions; also involved in translation initiation
-S000037123	CDS					YJL140W		10	150961	151626	W		2011-02-03	1996-07-31	
-S000003675	ORF	Verified	YJL139C	YUR1	mannosyltransferase YUR1	chromosome 10	L000002566	10	152999	151713	C	-90.66	2011-02-03	1996-07-31	Mannosyltransferase involved in protein N-glycosylation; member of the KTR1 family; located in the Golgi apparatus; YUR1 has a paralog, KTR2, that arose from the whole genome duplication
-S000035317	CDS					YJL139C		10	152999	151713	C		2011-02-03	1996-07-31	
-S000003674	ORF	Verified	YJL138C	TIF2	translation initiation factor eIF4A|eIF4A	chromosome 10	L000002303	10	154691	153504	C	-92	2011-02-03	1996-07-31	Translation initiation factor eIF4A; DEA(D/H)-box RNA helicase that couples ATPase activity to RNA binding and unwinding; forms a dumbbell structure of two compact domains connected by a linker; interacts with eIF4G; protein abundance increases in response to DNA replication stress; TIF2 has a paralog, TIF1, that arose from the whole genome duplication
-S000035154	CDS					YJL138C		10	154691	153504	C		2011-02-03	1996-07-31	
-S000003673	ORF	Verified	YJL137C	GLG2	glycogenin glucosyltransferase GLG2	chromosome 10	L000003159	10	156127	154985	C		2011-02-03	1996-07-31	Glycogenin glucosyltransferase; self-glucosylating initiator of glycogen synthesis, also glucosylates n-dodecyl-beta-D-maltoside; similar to mammalian glycogenin; GLG2 has a paralog, GLG1, that arose from the whole genome duplication
-S000035008	CDS					YJL137C		10	156127	154985	C		2011-02-03	1996-07-31	
-S000028806	ORF	Uncharacterized	YJL136W-A			chromosome 10		10	156169	156252	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by SAGE
-S000033589	CDS					YJL136W-A		10	156169	156252	W		2011-02-03	2003-07-29	
-S000003672	ORF	Verified	YJL136C	RPS21B	eS21|ribosomal 40S subunit protein S21B|S21e|YS25|S26B|S21B	chromosome 10	L000003031	10	157273	156550	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S21, no bacterial homolog; RPS21B has a paralog, RPS21A, that arose from the whole genome duplication
-S000034084	CDS					YJL136C		10	156789	156550	C		2011-02-03	1996-07-31	
-S000034083	CDS					YJL136C		10	157273	157250	C		2011-02-03	1996-07-31	
-S000034085	intron					YJL136C		10	157249	156790	C		2011-02-03	1996-07-31	
-S000003671	ORF	Dubious	YJL135W			chromosome 10		10	157877	158194	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified genes YJL134W/LCB3
-S000034027	CDS					YJL135W		10	157877	158194	W		2011-02-03	1996-07-31	
-S000003670	ORF	Verified	YJL134W	LCB3	sphinganine kinase LCB3|YSR2|LBP1	chromosome 10	L000004101	10	158188	159417	W		2011-02-03	1996-07-31	Long-chain base-1-phosphate phosphatase; specific for dihydrosphingosine-1-phosphate, regulates ceramide and long-chain base phosphates levels, involved in incorporation of exogenous long chain bases in sphingolipids; LCB3 has a paralog, YSR3, that arose from the whole genome duplication
-S000033888	CDS					YJL134W		10	158188	159417	W		2011-02-03	1996-07-31	
-S000028805	ORF	Uncharacterized	YJL133C-A			chromosome 10		10	159847	159623	C		2011-02-03	2003-07-29	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000033587	CDS					YJL133C-A		10	159847	159623	C		2011-02-03	2003-07-29	
-S000003669	ORF	Verified	YJL133W	MRS3	Fe(2+) transporter	chromosome 10	L000001179	10	160619	161563	W		2011-02-03	1996-07-31	Iron transporter, mediates Fe2+ transport across inner mito membrane; mitochondrial carrier family member; active under low-iron conditions; may transport other cations; MRS3 has a paralog, MRS4, that arose from the whole genome duplication
-S000033746	CDS					YJL133W		10	160619	161563	W		2011-02-03	1996-07-31	
-S000003668	ORF	Uncharacterized	YJL132W			chromosome 10		10	161914	164166	W		2011-02-03	1996-07-31	Putative protein of unknown function; localizes to the membrane fraction; possible Zap1p-regulated target gene induced by zinc deficiency; YJL132W is a non-essential gene
-S000033018	CDS					YJL132W		10	161914	164166	W		2011-02-03	1996-07-31	
-S000003667	ORF	Verified	YJL131C	AIM23		chromosome 10		10	165348	164278	C		2011-02-03	1996-07-31	Mitochondrial translation initiation factor 3 (IF3, mIF3); evolutionarily conserved; binds to E. coli ribosomes in vitro; null mutant displays severe respiratory growth defect and elevated frequency of mitochondrial genome loss
-S000032877	CDS					YJL131C		10	165348	164278	C		2011-02-03	1996-07-31	
-S000003666	ORF	Verified	YJL130C	URA2	bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase	chromosome 10	L000002431	10	172367	165723	C	-89	2011-02-03	1996-07-31|2011-02-03	Bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase; catalyzes the first two enzymatic steps in the de novo biosynthesis of pyrimidines; both activities are subject to feedback inhibition by UTP
-S000031969	CDS					YJL130C		10	172367	165723	C		2011-02-03	1996-07-31|2011-02-03	
-S000122104	five_prime_UTR_intron					YJL130C		10	172752	172433	C		2011-02-03	2007-04-04	
-S000003665	ORF	Verified	YJL129C	TRK1		chromosome 10	L000002334	10	177306	173599	C		2011-02-03	1996-07-31	Component of the Trk1p-Trk2p potassium transport system; 180 kDa high affinity potassium transporter; phosphorylated in vivo and interacts physically with the phosphatase Ppz1p, suggesting Trk1p acitivy is regulated by phosphorylation; TRK1 has a paralog, TRK2, that arose from the whole genome duplication
-S000032672	CDS					YJL129C		10	177306	173599	C		2011-02-03	1996-07-31	
-S000003664	ORF	Verified	YJL128C	PBS2	mitogen-activated protein kinase kinase PBS2|SSK4|SFS4|HOG4	chromosome 10	L000001346|L000001874	10	180103	178097	C	-85	2011-02-03	1996-07-31|2011-02-03	MAP kinase kinase of the HOG signaling pathway; activated under severe osmotic stress; mitophagy-specific regulator; plays a role in regulating Ty1 transposition
-S000031693	CDS					YJL128C		10	180103	178097	C		2011-02-03	1996-07-31|2011-02-03	
-S000007612	ORF	Dubious	YJL127W-A		YJL127W-B	chromosome 10		10	180194	180310	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037189	CDS					YJL127W-A		10	180194	180310	W		2011-02-03	2001-02-26	
-S000028522	ORF	Uncharacterized	YJL127C-B		YJL127C-A	chromosome 10		10	181709	181551	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified based on homology to the filamentous fungus, Ashbya gossypii; SWAT-GFP and seamless-GFP fusion proteins localize to the mitochondria
-S000030318	CDS					YJL127C-B		10	181709	181551	C		2011-02-03	2003-07-29	
-S000003663	ORF	Verified	YJL127C	SPT10	SUD1|CRE1	chromosome 10	L000002035	10	184220	182298	C	-87	2011-02-03	1996-07-31	Histone H3 acetylase with a role in transcriptional regulation; sequence-specific activator of histone genes, binds specifically and cooperatively to pairs of UAS elements in core histone promoters, functions at or near TATA box; involved in S phase-specific acetylation of H3K56 at histone promoters, which is required for recruitment of SWI/SNF nucleosome remodeling complex and subsequent transcription
-S000031537	CDS					YJL127C		10	184220	182298	C		2011-02-03	1996-07-31	
-S000003662	ORF	Verified	YJL126W	NIT2	putative hydrolase	chromosome 10	L000004212	10	184501	185424	W		2011-02-03	1996-07-31	Nit protein; one of two proteins in S. cerevisiae with similarity to the Nit domain of NitFhit from fly and worm and to the mouse and human Nit protein which interacts with the Fhit tumor suppressor; nitrilase superfamily member
-S000031498	CDS					YJL126W		10	184501	185424	W		2011-02-03	1996-07-31	
-S000003661	ORF	Verified	YJL125C	GCD14	tRNA 1-methyladenosine methyltransferase subunit GCD14|TRM61	chromosome 10	L000002902	10	186679	185528	C		2011-02-03	1996-07-31	Subunit of tRNA (1-methyladenosine) methyltransferase; required, along with Gcd10p, for the modification of the adenine at position 58 in tRNAs, especially tRNAi-Met; first identified as a negative regulator of GCN4 expression
-S000030509	CDS					YJL125C		10	186679	185528	C		2011-02-03	1996-07-31	
-S000003660	ORF	Verified	YJL124C	LSM1	SPB8	chromosome 10	L000004427	10	187644	187126	C		2011-02-03	1996-07-31	Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and Lsm7p) involved in degradation of cytoplasmic mRNAs; also enters the nucleus and positively regulates transcription initiation; unlike most Sm-like proteins, Lsm1p requires both its SM-domain and C-terminal domain for RNA-binding; binds to mRNAs under glucose starvation, most often in the 3' UTR; forms cytoplasmic foci upon DNA replication stress
-S000030388	CDS					YJL124C		10	187644	187126	C		2011-02-03	1996-07-31	
-S000003659	ORF	Verified	YJL123C	MTC1		chromosome 10		10	189440	188004	C		2011-02-03	1996-07-31	Protein of unknown function that may interact with ribosomes; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to COPI-coated vesicles (early Golgi); mtc1 is synthetically lethal with cdc13-1
-S000030206	CDS					YJL123C		10	189440	188004	C		2011-02-03	1996-07-31	
-S000003658	ORF	Verified	YJL122W	ALB1		chromosome 10		10	189716	190243	W		2011-02-03	1996-07-31	Shuttling pre-60S factor; involved in the biogenesis of ribosomal large subunit; interacts directly with Arx1p; responsible for Tif6p recycling defects in absence of Rei1p
-S000037544	CDS					YJL122W		10	189716	190243	W		2011-02-03	1996-07-31	
-S000003656	ORF	Dubious	YJL120W			chromosome 10		10	191022	191345	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL121C/RPE1; deletion confers sensitivity to GSAO
-S000037326	CDS					YJL120W		10	191022	191345	W		2011-02-03	1996-07-31	
-S000003657	ORF	Verified	YJL121C	RPE1	ribulose-phosphate 3-epimerase RPE1|POS18|EPI1	chromosome 10	L000004023|L000002588	10	191090	190374	C		2011-02-03	1996-07-31	D-ribulose-5-phosphate 3-epimerase; catalyzes a reaction in the non-oxidative part of the pentose-phosphate pathway; mutants are sensitive to oxidative stress
-S000037363	CDS					YJL121C		10	191090	190374	C		2011-02-03	1996-07-31	
-S000003654	ORF	Verified	YJL118W			chromosome 10		10	191639	192298	W		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; YJL118W is a non-essential gene; deletion enhances the toxicity of heterologously expressed human alpha-synuclein
-S000035604	CDS					YJL118W		10	191639	192298	W		2011-02-03	1996-07-31	
-S000003655	ORF	Dubious	YJL119C			chromosome 10		10	191895	191572	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035622	CDS					YJL119C		10	191895	191572	C		2011-02-03	1996-07-31	
-S000003653	ORF	Verified	YJL117W	PHO86		chromosome 10	L000002945	10	192531	193466	W		2011-02-03	1996-07-31	Endoplasmic reticulum (ER) resident protein; required for ER exit of the high-affinity phosphate transporter Pho84p, specifically required for packaging of Pho84p into COPII vesicles; protein abundance increases in response to DNA replication stress
-S000035509	CDS					YJL117W		10	192531	193466	W		2011-02-03	1996-07-31	
-S000003652	ORF	Verified	YJL116C	NCA3	SUN family protein NCA3	chromosome 10	L000002936	10	194873	193860	C		2011-02-03	1996-07-31	Protein involved in mitochondrion organization; functions with Nca2p to regulate mitochondrial expression of subunits 6 (Atp6p) and 8 (Atp8p) of the Fo-F1 ATP synthase; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the vacuole; member of the SUN family; expression induced in cells treated with the mycotoxin patulin; NCA3 has a paralog, UTH1, that arose from the whole genome duplication
-S000034420	CDS					YJL116C		10	194873	193860	C		2011-02-03	1996-07-31	
-S000003651	ORF	Verified	YJL115W	ASF1	nucleosome assembly factor ASF1|CIA1	chromosome 10	L000000126	10	196287	197126	W	-80.06	2011-02-03	1996-07-31	Nucleosome assembly factor; involved in chromatin assembly, disassembly; required for recovery after DSB repair; role in H3K56 acetylation required for expression homeostasis, buffering mRNA synthesis rate against gene dosage changes in S phase; anti-silencing protein, derepresses silent loci when overexpressed; role in regulating Ty1 transposition; relocalizes to cytosol under hypoxia; growth defect of asf1 null is functionally complemented by either human ASF1A or ASF1B
-S000034387	CDS					YJL115W		10	196287	197126	W		2011-02-03	1996-07-31	
-S000006514	tRNA_gene		tA(AGC)J			chromosome 10	L000003626	10	197385	197313	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000032283	noncoding_exon					tA(AGC)J		10	197385	197313	C		2011-02-03	2000-05-19	
-S000007035	long_terminal_repeat		YJLWsigma1			chromosome 10		10	197401	197494	W		2011-02-03	2000-05-19	Ty3 LTR
-S000007036	long_terminal_repeat		YJLWtau1			chromosome 10		10	197545	197915	W		2011-02-03	2000-05-19	Ty4 LTR
-S000007039	LTR_retrotransposon		YJLWTy4-1		Ty4	chromosome 10		10	197545	203768	W		2011-02-03	2000-05-19|2011-02-03	Ty4 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000003650	transposable_element_gene		YJL114W		gag protein	chromosome 10		10	197915	198595	W		2011-02-03	1996-07-31|2011-02-03	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000034265	CDS					YJL114W		10	197915	198595	W		2011-02-03	1996-07-31|2011-02-03	
-S000003649	transposable_element_gene		YJL113W		gag-pol fusion protein	chromosome 10		10	198678	203325	W		2011-02-03	1996-07-31|2011-02-03	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000034131	CDS					YJL113W		10	198678	198998	W		2011-02-03	1996-07-31|2011-02-03	
-S000034132	CDS					YJL113W		10	199000	203325	W		2011-02-03	1996-07-31	
-S000034133	plus_1_translational_frameshift					YJL113W		10	198999	198999	W		2011-02-03	1996-07-31	
-S000007037	long_terminal_repeat		YJLWtau2			chromosome 10		10	203398	203768	W		2011-02-03	2000-05-19	Ty4 LTR
-S000028445	ARS		ARS1008			chromosome 10		10	204029	204917			2011-02-03	2002-12-16|2011-02-03	Autonomously Replicating Sequence
-S000178124	ARS_consensus_sequence					ARS1008		10	204241	204225	C		2014-11-18	2014-11-18	
-S000007022	long_terminal_repeat		YJLCdelta3			chromosome 10		10	204114	203783	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006536	tRNA_gene		tD(GUC)J1			chromosome 10	L000003605	10	204735	204806	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000030769	noncoding_exon					tD(GUC)J1		10	204735	204806	W		2011-02-03	2000-05-19	
-S000003648	ORF	Verified	YJL112W	MDV1	NET2|GAG3|FIS2	chromosome 10		10	205305	207449	W		2011-02-03	1996-07-31|2011-02-03	Peripheral protein of cytosolic face of mitochondrial outer membrane; required for mitochondrial fission; interacts with Fis1p and with the self-assembled oligomeric form of the dynamin-related GTPase Dnm1p; contains WD repeats; MDV1 has a paralog, CAF4, that arose from the whole genome duplication
-S000033273	CDS					YJL112W		10	205305	207449	W		2011-02-03	1996-07-31|2011-02-03	
-S000003647	ORF	Verified	YJL111W	CCT7	chaperonin-containing T-complex subunit CCT7|TCP7	chromosome 10	L000002763	10	207877	209529	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo; mutant has increased aneuploidy tolerance
-S000033222	CDS					YJL111W		10	207877	209529	W		2011-02-03	1996-07-31	
-S000003646	ORF	Verified	YJL110C	GZF3	NIL2|DEH1	chromosome 10	L000002858|L000003382	10	211577	209922	C		2011-02-03	1996-07-31	GATA zinc finger protein; negatively regulates nitrogen catabolic gene expression by competing with Gat1p for GATA site binding; function requires a repressive carbon source; dimerizes with Dal80p and binds to Tor1p; GZF3 has a paralog, DAL80, that arose from the whole genome duplication
-S000033132	CDS					YJL110C		10	211577	209922	C		2011-02-03	1996-07-31	
-S000003645	ORF	Verified	YJL109C	UTP10	snoRNA-binding rRNA-processing protein UTP10	chromosome 10		10	217309	212000	C		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA; mutant has increased aneuploidy tolerance
-S000032396	CDS					YJL109C		10	217309	212000	C		2011-02-03	1996-07-31	
-S000003644	ORF	Verified	YJL108C	PRM10	pheromone-regulated protein PRM10	chromosome 10		10	218856	217705	C		2011-02-03	1996-07-31	Pheromone-regulated protein; proposed to be involved in mating; predicted to have 5 transmembrane segments; induced by treatment with 8-methoxypsoralen and UVA irradiation
-S000032288	CDS					YJL108C		10	218856	217705	C		2011-02-03	1996-07-31	
-S000003643	ORF	Uncharacterized	YJL107C			chromosome 10		10	220016	218853	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression is induced by activation of the HOG1 mitogen-activated signaling pathway and this induction is Hog1p/Pbs2p dependent; YJL107C and adjacent ORF, YJL108C are merged in related fungi
-S000031290	CDS					YJL107C		10	220016	218853	C		2011-02-03	1996-07-31	
-S000003642	ORF	Verified	YJL106W	IME2	protein kinase IME2|SME1	chromosome 10	L000000862	10	221390	223327	W		2011-02-03	1996-07-31	Serine/threonine protein kinase involved in activation of meiosis; associates with Ime1p and mediates its stability, activates Ndt80p; IME2 expression is positively regulated by Ime1p; human CDK2 can complement ime2 null mutant
-S000031252	CDS					YJL106W		10	221390	223327	W		2011-02-03	1996-07-31	
-S000003641	ORF	Verified	YJL105W	SET4		chromosome 10		10	225055	226737	W		2011-02-03	1996-07-31	Protein of unknown function, contains a SET domain; SET4 has a paralog, SET3, that arose from the whole genome duplication
-S000031110	CDS					YJL105W		10	225055	226737	W		2011-02-03	1996-07-31	
-S000003640	ORF	Verified	YJL104W	PAM16	import motor complex subunit PAM16|TIM16|MIA1	chromosome 10		10	227327	227776	W		2011-02-03	1996-07-31	Subunit of the import motor (PAM complex); the PAM complex is a  component of the Translocase of the Inner Mitochondrial membrane (TIM23 complex); forms a 1:1 subcomplex with Pam18p and inhibits its cochaperone activity; contains a J-like domain
-S000031000	CDS					YJL104W		10	227327	227776	W		2011-02-03	1996-07-31	
-S000006501	snoRNA_gene		snR37	SNR37		chromosome 10	L000003502	10	228479	228094	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2944
-S000036767	noncoding_exon					snR37		10	228479	228094	C		2011-02-03	2000-05-19	
-S000028446	ARS		ARS1009			chromosome 10		10	228552	229043			2011-02-03	2002-12-16	Autonomously Replicating Sequence
-S000178125	ARS_consensus_sequence					ARS1009		10	228575	228559	C		2014-11-18	2014-11-18	
-S000003639	ORF	Verified	YJL103C	GSM1		chromosome 10		10	230881	229025	C		2011-02-03	1996-07-31	Putative zinc cluster protein of unknown function; proposed to be involved in the regulation of energy metabolism, based on patterns of expression and sequence analysis
-S000029933	CDS					YJL103C		10	230881	229025	C		2011-02-03	1996-07-31	
-S000003638	ORF	Verified	YJL102W	MEF2		chromosome 10	L000001058	10	231301	233760	W		2011-02-03	1996-07-31	Mitochondrial elongation factor involved in translational elongation
-S000029898	CDS					YJL102W		10	231301	233760	W		2011-02-03	1996-07-31	
-S000006702	tRNA_gene		tR(ACG)J			chromosome 10	L000003606	10	233939	234011	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000030405	noncoding_exon					tR(ACG)J		10	233939	234011	W		2011-02-03	2000-05-19	
-S000003637	ORF	Verified	YJL101C	GSH1	glutamate--cysteine ligase	chromosome 10	L000000735	10	236356	234320	C		2011-02-03	1996-07-31	Gamma glutamylcysteine synthetase; catalyzes the first step in glutathione (GSH) biosynthesis; expression induced by oxidants, cadmium, and mercury; protein abundance increases in response to DNA replication stress
-S000037157	CDS					YJL101C		10	236356	234320	C		2011-02-03	1996-07-31	
-S000003636	ORF	Verified	YJL100W	LSB6	1-phosphatidylinositol 4-kinase LSB6	chromosome 10		10	237263	239086	W		2011-02-03	1996-07-31	Type II phosphatidylinositol 4-kinase; binds Las17p, a homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly and actin polymerization
-S000037110	CDS					YJL100W		10	237263	239086	W		2011-02-03	1996-07-31	
-S000003635	ORF	Verified	YJL099W	CHS6	CSD3	chromosome 10	L000000334	10	239414	241654	W		2011-02-03	1996-07-31	Member of the ChAPs (Chs5p-Arf1p-binding proteins) family; part of the exomer complex that mediates export of specific cargo proteins, including Chs3p, from the Golgi to the plasma membrane; primary component of the Chs5/6 complex that binds directly to membranes; CHS6 has a paralog, BCH2, that arose from the whole genome duplication
-S000031796	CDS					YJL099W		10	239414	241654	W		2011-02-03	1996-07-31	
-S000003634	ORF	Verified	YJL098W	SAP185		chromosome 10	L000003246	10	242082	245258	W		2011-02-03	1996-07-31	Protein that forms a complex with the Sit4p protein phosphatase; required for Sit4p function; member of a family of similar proteins including Sap4p, Sap155p, and Sap190p; SAP185 has a paralog, SAP190, that arose from the whole genome duplication
-S000031694	CDS					YJL098W		10	242082	245258	W		2011-02-03	1996-07-31	
-S000003633	ORF	Verified	YJL097W	PHS1	enoyl-CoA hydratase PHS1	chromosome 10		10	245591	246244	W		2011-02-03	1996-07-31	Essential 3-hydroxyacyl-CoA dehydratase of the ER membrane; involved in elongation of very long-chain fatty acids; evolutionarily conserved, similar to mammalian PTPLA and PTPLB; involved in sphingolipid biosynthesis and protein trafficking
-S000031576	CDS					YJL097W		10	245591	246244	W		2011-02-03	1996-07-31	
-S000003632	ORF	Verified	YJL096W	MRPL49	mitochondrial 54S ribosomal protein YmL49|YmL49	chromosome 10		10	246490	246975	W		2011-02-03	2003-09-22|1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000030716	CDS					YJL096W		10	246490	246975	W		2011-02-03	2003-09-22|1996-07-31	
-S000077074	matrix_attachment_site		ETC3	ETC3		chromosome 10		10	247060	247082	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; located between MRPL49 and BCK1
-S000003631	ORF	Verified	YJL095W	BCK1	mitogen-activated protein kinase kinase kinase BCK1|SSP31|SLK1|SAP3|LAS3	chromosome 10	L000000162	10	247255	251691	W	-64	2011-02-03	1996-07-31	MAPKKK acting in the protein kinase C signaling pathway; the kinase C signaling pathway controls cell integrity; upon activation by Pkc1p phosphorylates downstream kinases Mkk1p and Mkk2p; MAPKKK is an acronym for mitogen-activated protein (MAP) kinase kinase kinase
-S000030629	CDS					YJL095W		10	247255	251691	W		2011-02-03	1996-07-31	
-S000003630	ORF	Verified	YJL094C	KHA1		chromosome 10		10	254442	251821	C		2011-02-03	1996-07-31	Putative K+/H+ antiporter; has a probable role in intracellular cation homeostasis; localized to Golgi vesicles and detected in highly purified mitochondria in high-throughput studies
-S000030439	CDS					YJL094C		10	254442	251821	C		2011-02-03	1996-07-31	
-S000003629	ORF	Verified	YJL093C	TOK1	YPK1|YORK|YKC1|DUK1	chromosome 10	L000003009	10	256812	254737	C		2011-02-03	1996-07-31	Outward-rectifier potassium channel of the plasma membrane; has two pore domains in tandem, each of which forms a functional channel permeable to potassium; carboxy tail functions to prevent inner gate closures; target of K1 toxin
-S000037648	CDS					YJL093C		10	256812	254737	C		2011-02-03	1996-07-31	
-S000003628	ORF	Verified	YJL092W	SRS2	DNA helicase SRS2|HPR5|RADH1|RADH	chromosome 10	L000000809|L000001578	10	257423	260947	W	-61	2011-02-03	1996-07-31	DNA helicase and DNA-dependent ATPase; involved in DNA repair and checkpoint recovery, needed for proper timing of commitment to meiotic recombination and transition from Meiosis I to II; blocks trinucleotide repeat expansion; affects genome stability; disassembles Rad51p nucleoprotein filaments during meiotic recombination; stimulates activity of the Mus81p-Mms4p endonuclease, independently of Srs2p catalytic activity; functional homolog of human RTEL1
-S000037603	CDS					YJL092W		10	257423	260947	W		2011-02-03	1996-07-31	
-S000003627	ORF	Verified	YJL091C	GWT1	glucosaminyl-phosphotidylinositol O-acyltransferase	chromosome 10		10	262552	261080	C		2011-02-03	2003-09-22|1996-07-31	Protein involved in the inositol acylation of GlcN-PI; the inositol acylation of glucosaminyl phosphatidylinositol (GlcN-PI) forms glucosaminyl(acyl)phosphatidylinositol (GlcN(acyl)PI), an intermediate in the biosynthesis of glycosylphosphatidylinositol (GPI) anchors
-S000037407	CDS					YJL091C		10	262552	261080	C		2011-02-03	2003-09-22|1996-07-31	
-S000003626	ORF	Verified	YJL090C	DPB11	protein kinase activating protein DPB11	chromosome 10	L000003001	10	265051	262757	C		2011-02-03	1996-07-31	DNA replication initiation protein; loads DNA pol epsilon onto pre-replication complexes at origins; checkpoint sensor recruited to stalled replication forks by the checkpoint clamp complex where it activates Mec1p; along with Rfa1p, binds to ultrafine anaphase bridges in mitotic cells and prevents accumulation of chromatin bridges by stimulating the Mec1p kinase and suppressing homologous recombination; ortholog of human TopBP1; forms nuclear foci upon DNA replication stress
-S000036680	CDS					YJL090C		10	265051	262757	C		2011-02-03	1996-07-31	
-S000003625	ORF	Verified	YJL089W	SIP4		chromosome 10	L000001893	10	265926	268415	W		2011-02-03	1996-07-31	C6 zinc cluster transcriptional activator; binds to the carbon source-responsive element (CSRE) of gluconeogenic genes; involved in the positive regulation of gluconeogenesis; regulated by Snf1p protein kinase; localized to the nucleus
-S000036795	CDS					YJL089W		10	265926	268415	W		2011-02-03	1996-07-31	
-S000003624	ORF	Verified	YJL088W	ARG3	ornithine carbamoyltransferase|argF	chromosome 10	L000000108	10	268799	269815	W	-61	2011-02-03	1999-02-28|1996-07-31	Ornithine carbamoyltransferase; also known as carbamoylphosphate:L-ornithine carbamoyltransferase; catalyzes the biosynthesis of the arginine precursor citrulline
-S000036728	CDS					YJL088W		10	268799	269815	W		2011-02-03	1999-02-28|1996-07-31	
-S000003623	ORF	Verified	YJL087C	TRL1	tRNA ligase|RLG1|LIG1	chromosome 10	L000002336	10	272485	270002	C		2011-02-03	1996-07-31	tRNA ligase; required for tRNA splicing and for both splicing and translation of HAC1 mRNA in the UPR; has phosphodiesterase, polynucleotide kinase, and ligase activities; localized at the inner nuclear envelope and partially to polysomes
-S000036631	CDS					YJL087C		10	272485	270002	C		2011-02-03	1996-07-31	
-S000003621	ORF	Verified	YJL085W	EXO70	GTP-Rho binding exocyst subunit EXO70	chromosome 10	L000003349	10	272827	274698	W		2011-02-03	1996-07-31	Subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis prior to SNARE-mediated fusion; PtdIns[4,5]P2-binding protein that localizes to exocytic sites in an actin-independent manner, targeting and anchoring the exocyst with Sec3p; involved in exocyst assembly; direct downstream effector of Rho3p and Cdc42p; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000035634	CDS					YJL085W		10	272827	274698	W		2011-02-03	1996-07-31	
-S000003622	ORF	Dubious	YJL086C			chromosome 10		10	272846	272478	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified genes YJL085W/EXO70 and YJL087C/TRL1
-S000035697	CDS					YJL086C		10	272846	272478	C		2011-02-03	1996-07-31	
-S000003620	ORF	Verified	YJL084C	ALY2	ART3	chromosome 10		10	278002	274862	C		2011-02-03	1997-07-27|1996-07-31	Alpha arrestin; controls nutrient-mediated intracellular sorting of permease Gap1p; interacts with AP-1 subunit Apl4p; phosphorylated by Npr1p and also by cyclin-CDK complex Pcl7p-Pho85p; promotes endocytosis of plasma membrane proteins; ALY2 has a paralog, ALY1, that arose from the whole genome duplication
-S000035516	CDS					YJL084C		10	278002	274862	C		2011-02-03	1997-07-27|1996-07-31	
-S000003619	ORF	Verified	YJL083W	TAX4		chromosome 10		10	278841	280655	W		2011-02-03	1996-07-31	EH domain-containing protein; involved in regulating phosphatidylinositol 4,5-bisphosphate levels and autophagy; Irs4p and Tax4p bind and activate the PtdIns phosphatase Inp51p; Irs4p and Tax4p are involved in localizing Atg17p to the PAS; TAX4 has a paralog, IRS4, that arose from the whole genome duplication
-S000034560	CDS					YJL083W		10	278841	280655	W		2011-02-03	1996-07-31	
-S000003618	ORF	Verified	YJL082W	IML2		chromosome 10		10	281185	283380	W		2011-02-03	1996-07-31	Protein required for clearance of inclusion bodies; localizes to the inclusion bodies formed under protein misfolding stress; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress; IML2 has a paralog, YKR018C, that arose from the whole genome duplication
-S000034438	CDS					YJL082W		10	281185	283380	W		2011-02-03	1996-07-31	
-S000003617	ORF	Verified	YJL081C	ARP4	ACT3	chromosome 10	L000000027	10	285271	283802	C		2011-02-03	1996-07-31	Nuclear actin-related protein involved in chromatin remodeling; component of chromatin-remodeling enzyme complexes
-S000034308	CDS					YJL081C		10	285271	283802	C		2011-02-03	1996-07-31	
-S000003616	ORF	Verified	YJL080C	SCP160		chromosome 10	L000001817	10	289226	285558	C		2011-02-03	1996-07-31	Essential RNA-binding G protein effector of mating response pathway; ligand-activated RNA-binding protein that delivers RNAs involved in polarization and perpetualizing mating signal to shmoo tip during pheromone signaling; Scp160p-mediated RNA trafficking essential for chemotropism and successful mating; mainly associated with nuclear envelope and ER, interacts in mRNA-dependent manner with translating ribosomes via multiple KH domains, similar to vertebrate vigilins
-S000033394	CDS					YJL080C		10	289226	285558	C		2011-02-03	1996-07-31	
-S000003615	ORF	Verified	YJL079C	PRY1	sterol-binding protein	chromosome 10	L000003216	10	290774	289875	C		2011-02-03	1996-07-31	Sterol binding protein involved in the export of acetylated sterols; secreted glycoprotein and member of the CAP protein superfamily (cysteine-rich secretory proteins (CRISP), antigen 5, and pathogenesis related 1 proteins); sterol export function is redundant with that of PRY2; may be involved in detoxification of hydrophobic compounds; PRY1 has a paralog, PRY2, that arose from the whole genome duplication
-S000033334	CDS					YJL079C		10	290774	289875	C		2011-02-03	1996-07-31	
-S000003614	ORF	Verified	YJL078C	PRY3		chromosome 10	L000003218	10	293981	291336	C		2011-02-03	1996-07-31	Cell wall-associated protein involved in export of acetylated sterols; member of the CAP protein superfamily (cysteine-rich secretory proteins (CRISP), antigen 5, and pathogenesis related 1 proteins); role in mating efficiency; expression of full-length transcript is daughter cell-specific; in response to alpha factor, a short transcript starting at +452 is expressed and the long form is repressed by Ste12p
-S000032582	CDS					YJL078C		10	293981	291336	C		2011-02-03	1996-07-31	
-S000028662	ORF	Uncharacterized	YJL077W-B			chromosome 10		10	294047	294145	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032487	CDS					YJL077W-B		10	294047	294145	W		2011-02-03	2003-07-29	
-S000028661	ORF	Uncharacterized	YJL077W-A			chromosome 10		10	294799	294885	W		2011-02-03	2003-07-29	Protein of unknown function; mRNA identified as translated by ribosome profiling data; completely overlaps the verified gene YJL077C/ICS3
-S000032486	CDS					YJL077W-A		10	294799	294885	W		2011-02-03	2003-07-29	
-S000003613	ORF	Verified	YJL077C	ICS3		chromosome 10		10	295061	294666	C		2011-02-03	1996-07-31	Protein with a role in copper homeostasis; possible role in vacuolar sorting and processing of secretory proteins; null mutants are hypersensitive to sortin2
-S000032502	CDS					YJL077C		10	295061	294666	C		2011-02-03	1996-07-31	
-S000003612	ORF	Verified	YJL076W	NET1	SRM8|CFI1|ESC5	chromosome 10	L000004425	10	295245	298814	W		2011-02-03	1996-07-31	Core subunit of the RENT complex; involved in nucleolar silencing and telophase exit; stimulates transcription by RNA polymerase I and regulates nucleolar structure; NET1 has a paralog, TOF2, that arose from the whole genome duplication
-S000032450	CDS					YJL076W		10	295245	298814	W		2011-02-03	1996-07-31	
-S000003611	ORF	Dubious	YJL075C	APQ13		chromosome 10		10	298876	298460	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 85% of ORF overlaps the verified gene NET1; null mutant is sensitive to sorbate
-S000031391	CDS					YJL075C		10	298876	298460	C		2011-02-03	1996-07-31	
-S000028447	ARS		ARS1010			chromosome 10		10	298981	299245			2014-11-18	2002-12-16|2014-11-18	Autonomously Replicating Sequence
-S000003610	ORF	Verified	YJL074C	SMC3	cohesin subunit SMC3	chromosome 10	L000003992	10	302849	299157	C		2011-02-03	1996-07-31	Subunit of the multiprotein cohesin complex; required for sister chromatid cohesion in mitotic cells; also required, with Rec8p, for cohesion and recombination during meiosis; phylogenetically conserved SMC chromosomal ATPase family member
-S000031287	CDS					YJL074C		10	302849	299157	C		2011-02-03	1996-07-31	
-S000003609	ORF	Verified	YJL073W	JEM1	KAR8	chromosome 10	L000003533	10	303181	305118	W		2011-02-03	1997-10-20|1996-07-31	DnaJ-like chaperone required for nuclear membrane fusion during mating; localizes to the ER membrane; exhibits genetic interactions with KAR2
-S000031229	CDS					YJL073W		10	303181	305118	W		2011-02-03	1997-10-20|1996-07-31	
-S000003608	ORF	Verified	YJL072C	PSF2	DNA replication protein PSF2|CDC102	chromosome 10		10	305862	305221	C		2011-02-03	1996-07-31	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p); complex is localized to DNA replication origins and implicated in assembly of the DNA replication machinery
-S000030195	CDS					YJL072C		10	305862	305221	C		2011-02-03	1996-07-31	
-S000003607	ORF	Verified	YJL071W	ARG2	acetyl-CoA:L-glutamate N-acetyltransferase|HRB574	chromosome 10	L000003263	10	306132	307856	W		2011-02-03	1996-07-31	Acetylglutamate synthase (glutamate N-acetyltransferase); mitochondrial enzyme that catalyzes the first step in the biosynthesis of the arginine precursor ornithine; forms a complex with Arg5,6p
-S000030084	CDS					YJL071W		10	306132	307856	W		2011-02-03	1996-07-31	
-S000003606	ORF	Uncharacterized	YJL070C		metallo-dependent hydrolase superfamily protein	chromosome 10		10	310637	307971	C		2011-02-03	1996-07-31	Putative metallo-dependent hydrolase superfamily protein; similar to AMP deaminases but lacks key catalytic residues and does not rescue purine nucleotide metabolic defect of quadruple aah1 ade8 amd1 his1 mutant; may regulate purine nucleotide homeostasis as overexpression in an AMD1 strain grown in adenine results in greatly reduced GDP and GTP intracellular levels; not an essential gene; YJL070C has a paralog, YBR284W, that arose from the whole genome duplication
-S000029919	CDS					YJL070C		10	310637	307971	C		2011-02-03	1996-07-31	
-S000003605	ORF	Verified	YJL069C	UTP18		chromosome 10		10	312706	310922	C		2011-02-03	1996-07-31	Small-subunit processome protein involved in pre-18S rRNA maturation; part of a subunit of the 90S preribosomal particle capable of interacting directly with the 5' ETS of the 35S pre-rRNA; contains WD40 repeats
-S000036438	CDS					YJL069C		10	312706	310922	C		2011-02-03	1996-07-31	
-S000003604	ORF	Verified	YJL068C		S-formylglutathione hydrolase|SFGH	chromosome 10		10	313915	313016	C		2011-02-03	1996-07-31	Esterase that can function as an S-formylglutathione hydrolase; non-essential intracellular esterase; may be involved in the detoxification of formaldehyde, which can be metabolized to S-formylglutathione; similar to human esterase D
-S000036339	CDS					YJL068C		10	313915	313016	C		2011-02-03	1996-07-31	
-S000003603	ORF	Dubious	YJL067W			chromosome 10		10	314084	314434	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036295	CDS					YJL067W		10	314084	314434	W		2011-02-03	1996-07-31	
-S000003602	ORF	Verified	YJL066C	MPM1		chromosome 10		10	314872	314114	C		2011-02-03	1996-07-31	Mitochondrial intermembrane space protein of unknown function
-S000035314	CDS					YJL066C		10	314872	314114	C		2011-02-03	1996-07-31	
-S000003600	ORF	Dubious	YJL064W			chromosome 10		10	315175	315570	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YJL065C/DLS1
-S000035084	CDS					YJL064W		10	315175	315570	W		2011-02-03	1996-07-31	
-S000003601	ORF	Verified	YJL065C	DLS1		chromosome 10		10	315557	315054	C		2011-02-03	1996-07-31	Subunit of ISW2/yCHRAC chromatin accessibility complex; ISW2/yCHRAC also includes Itc1p, Isw2p, and Dpb4p; involved in inheritance of telomeric silencing; DLS1 has a paralog, DPB3, that arose from the whole genome duplication
-S000035150	CDS					YJL065C		10	315557	315054	C		2011-02-03	1996-07-31	
-S000003599	ORF	Verified	YJL063C	MRPL8	mitochondrial 54S ribosomal protein YmL8|YmL8|HRD238	chromosome 10	L000001162|L000002524	10	316475	315759	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000034082	CDS					YJL063C		10	316475	315759	C		2011-02-03	1996-07-31	
-S000007611	ORF	Verified	YJL062W-A	COA3	COX25|RRG10	chromosome 10		10	316723	316980	W		2011-02-03	2001-02-26	Mitochondrial protein required for cytochrome c oxidase assembly; also involved in translational regulation of Cox1p and prevention of Cox1p aggregation before assembly; located in the mitochondrial inner membrane
-S000037188	CDS					YJL062W-A		10	316723	316980	W		2011-02-03	2001-02-26	
-S000003598	ORF	Verified	YJL062W	LAS21	mannose-ethanolamine phosphotransferase LAS21|GPI7	chromosome 10	L000004283|L000004818	10	317284	319776	W		2011-02-03	1996-07-31	Integral plasma membrane protein; involved in the synthesis of the glycosylphosphatidylinositol (GPI) core structure; mutations affect cell wall integrity
-S000034026	CDS					YJL062W		10	317284	319776	W		2011-02-03	1996-07-31	
-S000003597	ORF	Verified	YJL061W	NUP82	linker nucleoporin NUP82|HRB187	chromosome 10	L000002941	10	320016	322157	W		2011-02-03	1996-07-31	Linker nucleoporin component of the nuclear pore complex (NPC); also part of the NPC cytoplasmic filaments; contributes to nucleocytoplasmic transport and NPC biogenesis; forms stable associations with three FG-nucleoporins (Nsp1p, Nup159p, and Nup116p); relocalizes to the cytosol in response to hypoxia
-S000033873	CDS					YJL061W		10	320016	322157	W		2011-02-03	1996-07-31	
-S000003596	ORF	Verified	YJL060W	BNA3	kynurenine--oxoglutarate transaminase	chromosome 10		10	323386	324720	W		2011-02-03	1996-07-31	Kynurenine aminotransferase; catalyzes formation of kynurenic acid from kynurenine; potential Cdc28p substrate
-S000033737	CDS					YJL060W		10	323386	324720	W		2011-02-03	1996-07-31	
-S000003595	ORF	Verified	YJL059W	YHC3	amino acid transporter YHC3|BTN1	chromosome 10	L000003332|L000003284	10	324964	326190	W		2011-02-03	1996-07-31	Protein required for the ATP-dependent transport of arginine; vacuolar membrane protein; involved in the ATP-dependent transport of arginine into the vacuole and possibly in balancing ion homeostasis; human homolog CLN3 involved in Batten disease (juvenile onset neuronal ceroid lipofuscinosis) can complement yeast null mutant
-S000034862	CDS					YJL059W		10	324964	326190	W		2011-02-03	1996-07-31	
-S000003594	ORF	Verified	YJL058C	BIT61		chromosome 10		10	327873	326242	C		2011-02-03	1996-07-31	Subunit of TORC2 membrane-associated complex; involved in regulation of cell cycle-dependent actin cytoskeletal dynamics during polarized growth and cell wall integrity; BIT61 has a paralog, BIT2, that arose from the whole genome duplication
-S000032844	CDS					YJL058C		10	327873	326242	C		2011-02-03	1996-07-31	
-S000003593	ORF	Verified	YJL057C	IKS1	protein kinase IKS1	chromosome 10	L000004209	10	330121	328118	C		2011-02-03	1996-07-31	Protein kinase of unknown cellular role; putative serine/threonine kinase; expression is induced during mild heat stress; deletion mutants are hypersensitive to copper sulphate and resistant to sorbate; interacts with an N-terminal fragment of Sst2p
-S000032730	CDS					YJL057C		10	330121	328118	C		2011-02-03	1996-07-31	
-S000003592	ORF	Verified	YJL056C	ZAP1	ZRG10	chromosome 10	L000003321	10	333073	330431	C		2011-02-03	1996-07-31	Zinc-regulated transcription factor; binds to zinc-responsive promoters to induce transcription of certain genes in presence of zinc, represses other genes in low zinc; regulates its own transcription; contains seven zinc-finger domains
-S000032670	CDS					YJL056C		10	333073	330431	C		2011-02-03	1996-07-31	
-S000003591	ORF	Uncharacterized	YJL055W			chromosome 10		10	333357	334094	W		2011-02-03	1996-07-31	Putative protein of unknown function; functions together with HAM1 to mediate resistance to 5-FU; specifically reduces the incorporation of 5-FU into RNA, without affecting uptake or incorporation of uracil into RNA; proposed to be involved in the metabolism of purine and pyrimidine base analogues; deletion mutants are sensitive to HAP and AHA
-S000032627	CDS					YJL055W		10	333357	334094	W		2011-02-03	1996-07-31	
-S000003590	ORF	Verified	YJL054W	TIM54		chromosome 10	L000004342	10	334265	335701	W		2011-02-03	1996-07-31	Component of the mitochondrial TIM22 complex; involved in insertion of polytopic proteins into the inner membrane
-S000031626	CDS					YJL054W		10	334265	335701	W		2011-02-03	1996-07-31	
-S000003589	ORF	Verified	YJL053W	PEP8	retromer subunit PEP8|VPT4|VPS26|GRD6	chromosome 10	L000001378	10	335898	337037	W		2011-02-03	1996-07-31	Vacuolar protein component of the retromer; forms part of the multimeric membrane-associated retromer complex involved in vacuolar protein sorting along with Vps35p, Vps29p, Vps17p, and Vps5p; essential for endosome-to-Golgi retrograde protein transport; interacts with Ypt7p; protein abundance increases in response to DNA replication stress
-S000031497	CDS					YJL053W		10	335898	337037	W		2011-02-03	1996-07-31	
-S000028448	ARS		ARS1011		ARSX-337	chromosome 10		10	337281	337529			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
-S000007610	ORF	Uncharacterized	YJL052C-A			chromosome 10		10	338003	337884	C		2011-02-03	2001-02-26	Putative protein of unknown function; identified based on comparison to related yeast species; mCherry fusion protein localizes to the vacuole
-S000037187	CDS					YJL052C-A		10	338003	337884	C		2011-02-03	2001-02-26	
-S000003588	ORF	Verified	YJL052W	TDH1	glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) TDH1|GAPDH|GLD3	chromosome 10	L000002272	10	338271	339269	W		2011-02-03	1996-07-31	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH), isozyme 1; involved in glycolysis and gluconeogenesis; tetramer that catalyzes the reaction of glyceraldehyde-3-phosphate to 1,3 bis-phosphoglycerate; detected in the cytoplasm and cell wall; protein abundance increases in response to DNA replication stress; GAPDH-derived antimicrobial peptides secreted by S. cerevisiae are active against a wide variety of wine-related yeasts and bateria
-S000031373	CDS					YJL052W		10	338271	339269	W		2011-02-03	1996-07-31	
-S000003587	ORF	Verified	YJL051W	IRC8		chromosome 10		10	339787	342255	W		2011-02-03	1996-07-31	Bud tip localized protein of unknown function; mRNA is targeted to the bud by a She2p dependent transport system; mRNA is cell cycle regulated via Fkh2p, peaking in G2/M phase; null mutant displays increased levels of spontaneous Rad52p foc
-S000030449	CDS					YJL051W		10	339787	342255	W		2011-02-03	1996-07-31	
-S000003586	ORF	Verified	YJL050W	MTR4	ATP-dependent RNA helicase MTR4|DOB1	chromosome 10	L000004110	10	342522	345743	W		2011-02-03	1996-07-31	ATP-dependent 3'-5' RNA helicase of the DExD/H family; involved in nuclear RNA processing and degradation both as a component of TRAMP complex and in TRAMP-independent processes; TRAMP unwinds RNA duplexes, with Mtr4p unwinding activity stimulated by Pap2p/Air2p but not dependent on ongoing polyadenylation; contains an arch domain, with two coiled-coil arms/stalks and a globular fist/KOW domain, which has RNA binding activity and is required for 5.8S rRNA processing
-S000030313	CDS					YJL050W		10	342522	345743	W		2011-02-03	1996-07-31	
-S000003585	ORF	Uncharacterized	YJL049W	CHM7		chromosome 10		10	345973	347325	W		2011-02-03	1996-07-31	Yeast homolog of human CHMP7, localizes to the endoplasmic reticulum presumably as part of an ESCRT-III like complex; null mutant has growth defect at 37 C in an apq12 deletion background; non-essential gene
-S000036773	CDS					YJL049W		10	345973	347325	W		2011-02-03	1996-07-31	
-S000003584	ORF	Verified	YJL048C	UBX6	CUI2	chromosome 10		10	348637	347447	C		2011-02-03	1996-07-31	UBX (ubiquitin regulatory X) domain-containing protein; interacts with Cdc48p, transcription is repressed when cells are grown in media containing inositol and choline; UBX6 has a paralog, UBX7, that arose from the whole genome duplication
-S000036634	CDS					YJL048C		10	348637	347447	C		2011-02-03	1996-07-31	
-S000028804	ORF	Uncharacterized	YJL047C-A			chromosome 10		10	349178	349044	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000033585	CDS					YJL047C-A		10	349178	349044	C		2011-02-03	2003-07-29	
-S000006451	snoRNA_gene		snR60	SNR60		chromosome 10	L000004529	10	349233	349130	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at positions A817 and G908
-S000030821	noncoding_exon					snR60		10	349233	349130	C		2011-02-03	2000-05-19	
-S000003583	ORF	Verified	YJL047C	RTT101	cullin RTT101|CULC|CUL8	chromosome 10	L000004737	10	352108	349580	C		2011-02-03	1996-07-31	Cullin subunit of a Roc1p-dependent E3 ubiquitin ligase complex; role in anaphase progression; required for recovery after DSB repair; implicated in Mms22-dependent DNA repair; involved with Mms1p in nonfunctional rRNA decay; modified by the ubiquitin-like protein, Rub1p
-S000036565	CDS					YJL047C		10	352108	349580	C		2011-02-03	1996-07-31	
-S000003582	ORF	Verified	YJL046W	AIM22	putative lipoate--protein ligase|RRG3|LIP3	chromosome 10		10	352386	353615	W		2011-02-03	1996-07-31|2005-12-01	Putative lipoate-protein ligase; required along with Lip2 and Lip5 for lipoylation of Lat1p and Kgd2p; similar to E. coli LplA; null mutant displays reduced frequency of mitochondrial genome loss
-S000036505	CDS					YJL046W		10	352386	353615	W		2011-02-03	1996-07-31|2005-12-01	
-S000006781	tRNA_gene		tY(GUA)J1	SUP7		chromosome 10	L000003607|L000002186	10	354244	354332	W	-32	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000032080	intron					tY(GUA)J1		10	354283	354296	W		2011-02-03	2000-05-19	
-S000032078	noncoding_exon					tY(GUA)J1		10	354244	354282	W		2011-02-03	2000-05-19	
-S000032079	noncoding_exon					tY(GUA)J1		10	354297	354332	W		2011-02-03	2000-05-19	
-S000007024	long_terminal_repeat		YJLCdelta5			chromosome 10		10	355175	354844	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007023	long_terminal_repeat		YJLCdelta4			chromosome 10		10	355204	354538	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006714	tRNA_gene		tR(UCU)J1			chromosome 10	L000003608	10	355374	355445	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000030321	noncoding_exon					tR(UCU)J1		10	355374	355445	W		2011-02-03	2000-05-19	
-S000006537	tRNA_gene		tD(GUC)J2			chromosome 10	L000003609	10	355456	355527	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000030790	noncoding_exon					tD(GUC)J2		10	355456	355527	W		2011-02-03	2000-05-19	
-S000003581	ORF	Verified	YJL045W		succinate dehydrogenase SDH1b|SDH1b	chromosome 10		10	356024	357928	W		2011-02-03	1996-07-31	Minor succinate dehydrogenase isozyme; participates in oxidation of succinate and transfer of electrons to ubiquinone; induced during the diauxic shift in a Cat8p-dependent manner; YJL045W has a paralog, SDH1, that arose from the whole genome duplication
-S000035600	CDS					YJL045W		10	356024	357928	W		2011-02-03	1996-07-31	
-S000003580	ORF	Verified	YJL044C	GYP6		chromosome 10	L000000748	10	359676	358300	C		2011-02-03	1996-07-31	GTPase-activating protein (GAP) for yeast Rab family member Ypt6p; involved in vesicle mediated protein transport
-S000035463	CDS					YJL044C		10	359676	358300	C		2011-02-03	1996-07-31	
-S000003579	ORF	Uncharacterized	YJL043W			chromosome 10		10	360130	360903	W		2011-02-03	1996-07-31	Putative protein of unknown function; YJL043W is a non-essential gene
-S000035409	CDS					YJL043W		10	360130	360903	W		2011-02-03	1996-07-31	
-S000003578	ORF	Verified	YJL042W	MHP1		chromosome 10	L000002720	10	361249	365445	W		2011-02-03	1996-07-31	Microtubule-associated protein involved in microtubule organization; involved in assembly and stabilization of microtubules; overproduction results in cell cycle arrest at G2 phase; similar to Drosophila protein MAP and to mammalian MAP4 proteins
-S000034384	CDS					YJL042W		10	361249	365445	W		2011-02-03	1996-07-31	
-S000003577	ORF	Verified	YJL041W	NSP1	FG-nucleoporin NSP1	chromosome 10	L000001277	10	365784	368373	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; also part of the nuclear pore complex (NPC) nuclear basket; contributes directly to nucleocytoplasmic transport and maintenance of the NPC permeability barrier; found in stable complex with Nup82p, Gle2p and two other FG-nucleoporins (Nup159p and Nup116p); also found in stable complex with Nic96p and two other FG-nucleoproteins (Nup49p and Nup57p)
-S000034258	CDS					YJL041W		10	365784	365784	W		2011-02-03	1996-07-31	
-S000034259	CDS					YJL041W		10	365903	368373	W		2011-02-03	1996-07-31	
-S000034260	intron					YJL041W		10	365785	365902	W		2011-02-03	1996-07-31	
-S000003576	ORF	Verified	YJL039C	NUP192		chromosome 10	S000007465	10	373799	368748	C		2011-02-03	1996-07-31	Essential subunit of inner ring of nuclear pore complex (NPC); plays a role in modulating transport through the NPC; homologous to human NUP205
-S000034602	CDS					YJL039C		10	373799	368748	C		2011-02-03	1996-07-31	
-S000006538	tRNA_gene		tD(GUC)J3			chromosome 10	L000003625	10	374495	374424	C		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000030793	noncoding_exon					tD(GUC)J3		10	374495	374424	C		2011-02-03	2000-05-19	
-S000006715	tRNA_gene		tR(UCU)J2			chromosome 10	L000003624	10	374577	374506	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000030328	noncoding_exon					tR(UCU)J2		10	374577	374506	C		2011-02-03	2000-05-19	
-S000028449	ARS		ARS1012		ARSX-375	chromosome 10		10	374880	375122			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
-S000007025	long_terminal_repeat		YJLCdelta6			chromosome 10		10	374935	374844	C		2011-02-03	2000-05-19	Ty1 LTR
-S000028450	ARS		ARS1013			chromosome 10		10	375706	376227			2011-02-03	2002-12-16	Autonomously Replicating Sequence; inefficient as chromosomal replication origin; replication capacity dependent upon Sum1p
-S000003575	ORF	Verified	YJL038C	LOH1	OSW4	chromosome 10		10	375774	375115	C		2011-02-03	1996-07-31	Protein involved in outer spore wall assembly; likely involved directly in dityrosine layer assembly; induced during sporulation; repressed during vegetative growth by Sum1p and Hst1p; sequence similar to adjacent ORF, IRC18/YJL037W, and the irc18 loh1 double mutant exhibits reduced dityrosine fluorescence relative to the single mutants; SWAT-GFP and mCherry fusion proteins localize to the cytosol; proposed role in maintenance of genome integrity
-S000034497	CDS					YJL038C		10	375774	375115	C		2011-02-03	1996-07-31	
-S000003574	ORF	Verified	YJL037W	IRC18	OSW6	chromosome 10		10	376662	377336	W		2011-02-03	1996-07-31	Protein involved in outer spore wall assembly; possible role in assembly of the dityrosine layer; similar to adjacent ORF, LOH1; irc18 loh1 double mutant exhibits reduced dityrosine fluorescence relative to single mutants; SWAT-GFP fusion protein localizes to the ER and vacuole, while mCherry fusion localizes to the vacuole; expression induced in respiratory-deficient cells and carbon-limited chemostat culture; null mutant displays increased levels of spontaneous Rad52p foci
-S000034457	CDS					YJL037W		10	376662	377336	W		2011-02-03	1996-07-31	
-S000007026	long_terminal_repeat		YJLCdelta7			chromosome 10		10	377870	377598	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006759	tRNA_gene		tV(AAC)J			chromosome 10	L000003610	10	378360	378433	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000032964	noncoding_exon					tV(AAC)J		10	378360	378433	W		2011-02-03	2000-05-19	
-S000003573	ORF	Verified	YJL036W	SNX4	ATG24|CVT13	chromosome 10	S000007467|L000004764	10	378825	380096	W		2011-02-03	1996-07-31	Sorting nexin; involved in retrieval of late-Golgi SNAREs from post-Golgi endosomes to the trans-Golgi network and in cytoplasm to vacuole transport; contains a PX phosphoinositide-binding domain; forms complexes with Snx41p and with Atg20p
-S000032435	CDS					YJL036W		10	378825	380096	W		2011-02-03	1996-07-31	
-S000003572	ORF	Verified	YJL035C	TAD2	tRNA(adenine34) deaminase	chromosome 10	S000007489	10	381001	380249	C		2011-02-03	1996-07-31	Subunit of tRNA-specific adenosine-34 deaminase; forms a heterodimer with Tad3p that converts adenosine to inosine at the wobble position of several tRNAs
-S000032286	CDS					YJL035C		10	381001	380249	C		2011-02-03	1996-07-31	
-S000003571	ORF	Verified	YJL034W	KAR2	Hsp70 family ATPase KAR2|BIP|GRP78	chromosome 10	L000000887	10	381327	383375	W		2011-02-03	1996-07-31	ATPase involved in protein import into the ER; also acts as a chaperone to mediate protein folding in the ER and may play a role in ER export of soluble proteins; regulates the unfolded protein response via interaction with Ire1p
-S000032230	CDS					YJL034W		10	381327	383375	W		2011-02-03	1996-07-31	
-S000003570	ORF	Verified	YJL033W	HCA4	RNA-dependent ATPase HCA4|ECM24|DBP4	chromosome 10	L000003421	10	383837	386149	W		2011-02-03	1996-07-31	DEAD box RNA helicase; component of the SSU; interacts with Bfr2p and Enp2p; high-copy number suppression of a U14 snoRNA processing mutant suggests an involvement in 18S rRNA synthesis
-S000031248	CDS					YJL033W		10	383837	386149	W		2011-02-03	1996-07-31	
-S000003569	ORF	Dubious	YJL032W			chromosome 10		10	386348	386662	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 3' end of essential BET4 gene encoding the alpha subunit of Type II geranylgeranyltransferase
-S000031093	CDS					YJL032W		10	386348	386662	W		2011-02-03	1996-07-31	
-S000003568	ORF	Verified	YJL031C	BET4	Rab geranylgeranyltransferase BET4	chromosome 10	L000000173	10	387438	386368	C		2011-02-03	2004-01-27|1996-07-31	Alpha subunit of Type II geranylgeranyltransferase; required for vesicular transport between the endoplasmic reticulum and the Golgi; provides a membrane attachment moiety to Rab-like proteins Ypt1p and Sec4p
-S000030060	CDS					YJL031C		10	387348	386368	C		2011-02-03	2004-01-27	
-S000030059	CDS					YJL031C		10	387438	387436	C		2011-02-03	2004-01-27|1996-07-31	
-S000030061	intron					YJL031C		10	387435	387349	C		2011-02-03	2004-01-27	
-S000003567	ORF	Verified	YJL030W	MAD2	spindle checkpoint protein MAD2	chromosome 10	L000000975	10	387657	388247	W		2011-02-03	1996-07-31	Component of the spindle-assembly checkpoint complex; delays onset of anaphase in cells with defects in mitotic spindle assembly; forms a complex with Mad1p; regulates APC/C activity during prometaphase and metaphase of meiosis I; gene dosage imbalance between MAD1 and MAD2 leads to chromosome instability
-S000030009	CDS					YJL030W		10	387657	388247	W		2011-02-03	1996-07-31	
-S000003566	ORF	Verified	YJL029C	VPS53		chromosome 10		10	390853	388385	C		2011-02-03	1996-07-31	Component of the GARP (Golgi-associated retrograde protein) complex; GARP is required for the recycling of proteins from endosomes to the late Golgi, and for mitosis after DNA damage induced checkpoint arrest; required for vacuolar protein sorting; members of the GARP complex are Vps51p-Vps52p-Vps53p-Vps54p; human ortholog is implicated in progressive cerebello-cerebral atrophy type 2 (PCCA2)
-S000030293	CDS					YJL029C		10	390853	388385	C		2011-02-03	1996-07-31	
-S000006661	tRNA_gene		tM(CAU)J1	EMT5		chromosome 10	L000000555|L000003623	10	391115	391043	C		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
-S000029920	noncoding_exon					tM(CAU)J1		10	391115	391043	C		2011-02-03	2000-05-19	
-S000003565	ORF	Verified	YJL028W			chromosome 10		10	391311	391646	W		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments
-S000030214	CDS					YJL028W		10	391311	391646	W		2011-02-03	1996-07-31	
-S000003564	ORF	Uncharacterized	YJL027C			chromosome 10		10	392249	391833	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000036407	CDS					YJL027C		10	392249	391833	C		2011-02-03	1996-07-31	
-S000003563	ORF	Verified	YJL026W	RNR2	ribonucleotide-diphosphate reductase subunit RNR2|CRT6	chromosome 10	L000001656	10	392404	393603	W	0	2011-02-03	1996-07-31	Ribonucleotide-diphosphate reductase (RNR), small subunit; the RNR complex catalyzes the rate-limiting step in dNTP synthesis and is regulated by DNA replication and DNA damage checkpoint pathways via localization of the small subunits; RNR2 has a paralog, RNR4, that arose from the whole genome duplication
-S000036365	CDS					YJL026W		10	392404	393603	W		2011-02-03	1996-07-31	
-S000028660	ORF	Dubious	YJL026C-A			chromosome 10		10	393287	393066	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YJL026W/RNR2
-S000032485	CDS					YJL026C-A		10	393287	393066	C		2011-02-03	2003-07-29	
-S000003562	ORF	Verified	YJL025W	RRN7		chromosome 10	L000001773	10	393967	395511	W		2011-02-03	1996-07-31	Component of the core factor (CF) rDNA transcription factor complex; CF is required for transcription of 35S rRNA genes by RNA polymerase I and is composed of Rrn6p, Rrn7p, and Rrn11p
-S000036283	CDS					YJL025W		10	393967	395511	W		2011-02-03	1996-07-31	
-S000003561	ORF	Verified	YJL024C	APS3	YKS7	chromosome 10	L000003174	10	396592	395931	C		2011-02-03	1996-07-31	Small subunit of the clathrin-associated adaptor complex AP-3; involved in vacuolar protein sorting; related to the sigma subunit of the mammalian clathrin AP-3 complex; suppressor of loss of casein kinase 1 function; protein abundance increases in response to DNA replication stress
-S000036076	CDS					YJL024C		10	396493	395931	C		2011-02-03	1996-07-31	
-S000036075	CDS					YJL024C		10	396592	396571	C		2011-02-03	1996-07-31	
-S000036077	intron					YJL024C		10	396570	396494	C		2011-02-03	1996-07-31	
-S000006583	tRNA_gene		tG(GCC)J1			chromosome 10	L000003622	10	396796	396726	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000030415	noncoding_exon					tG(GCC)J1		10	396796	396726	C		2011-02-03	2000-05-19	
-S000003559	ORF	Dubious	YJL022W			chromosome 10		10	398109	398417	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene PET130
-S000035121	CDS					YJL022W		10	398109	398417	W		2011-02-03	1996-07-31	
-S000003560	ORF	Verified	YJL023C	PET130		chromosome 10	L000003025	10	398398	397355	C		2011-02-03	1996-07-31	Protein required for respiratory growth; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000035183	CDS					YJL023C		10	398398	397355	C		2011-02-03	1996-07-31	
-S000028659	ORF	Dubious	YJL020W-A			chromosome 10		10	400981	401238	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YJL020C/BBC1
-S000032463	CDS					YJL020W-A		10	400981	401238	W		2011-02-03	2003-07-29	
-S000003557	ORF	Verified	YJL020C	BBC1	YJL021C|MTI1	chromosome 10		10	402410	398937	C		2011-02-03	2001-06-28|1996-07-31	Protein possibly involved in assembly of actin patches; interacts with an actin assembly factor Las17p and with the SH3 domains of Type I myosins Myo3p and Myo5p; localized predominantly to cortical actin patches
-S000033969	CDS					YJL020C		10	402410	398937	C		2011-02-03	2001-06-28|1996-07-31	
-S000003556	ORF	Verified	YJL019W	MPS3	YJL018W|NEP98	chromosome 10		10	402897	404945	W		2011-02-03	2003-01-02|1996-07-31	Nuclear envelope protein; required for SPB insertion, SPB duplication, Kar5p localization near the SPB and nuclear fusion; interacts with Mps2p to tether half-bridge to core SPB; N-terminal acetylation by Eco1p regulates its role in nuclear organization; localizes to the SPB half bridge and telomeres during meiosis; required with Ndj1p and Csm4p for meiotic bouquet formation and telomere-led rapid prophase movement; member of the SUN protein family (Sad1-UNC-84 homology)
-S000035368	CDS					YJL019W		10	402897	404945	W		2011-02-03	2003-01-02|1996-07-31	
-S000003553	ORF	Uncharacterized	YJL016W	TPH3	YJL017W	chromosome 10		10	405588	407273	W		2011-02-03	2003-09-29|1996-07-31	Putative protein of unknown function; GFP-fusion protein localizes to the cytoplasm; contains two adjacent PH-like domains; conserved in closely related Saccharomyces species
-S000034286	CDS					YJL016W		10	405588	407273	W		2011-02-03	2003-09-29|1996-07-31	
-S000003552	ORF	Dubious	YJL015C			chromosome 10		10	407426	407142	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame unlikely to encode a functional protein; expression if heat-inducible; located in promoter region of essential CCT3 gene encoding a subunit of the cytosolic chaperonin Cct ring complex, overlaps ORF YJL016W
-S000034109	CDS					YJL015C		10	407426	407142	C		2011-02-03	1996-07-31|2011-02-03	
-S000003551	ORF	Verified	YJL014W	CCT3	chaperonin-containing T-complex subunit CCT3|TCP3|BIN2	chromosome 10	L000002270	10	407558	409162	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo; capable of binding Q/N rich proteins and mediating their folding
-S000034079	CDS					YJL014W		10	407558	409162	W		2011-02-03	1996-07-31	
-S000003550	ORF	Verified	YJL013C	MAD3		chromosome 10	L000003179	10	411040	409493	C		2011-02-03	1996-07-31	Subunit of spindle-assembly checkpoint complex; involved in delaying anaphase onset in cells with defects in mitotic spindle assembly; pseudosubstrate inhibitor of APC(Cdc20), the anaphase promoting complex involved in securin (Pds1p) turnover; MAD3 has a paralog, BUB1, that arose from the whole genome duplication
-S000032025	CDS					YJL013C		10	411040	409493	C		2011-02-03	1996-07-31	
-S000003549	ORF	Verified	YJL012C	VTC4	YJL012C-A|PHM3	chromosome 10	S000007513	10	413399	411234	C		2011-02-03	2004-02-19|1996-07-31	Vacuolar membrane polyphosphate polymerase; subunit of the vacuolar transporter chaperone (VTC) complex involved in synthesis and transfer of polyP to the vacuole; regulates membrane trafficking; role in non-autophagic vacuolar fusion; protein abundance increases in response to DNA replication stress
-S000031895	CDS					YJL012C		10	413399	411234	C		2011-02-03	2004-02-19|1996-07-31	
-S000003548	ORF	Verified	YJL011C	RPC17	DNA-directed RNA polymerase III subunit RPC17|C17	chromosome 10		10	414770	414285	C		2011-02-03	1996-07-31|2011-02-03	RNA polymerase III subunit C17; physically interacts with C31, C11, and TFIIIB70; may be involved in the recruitment of pol III by the preinitiation complex; protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
-S000030894	CDS					YJL011C		10	414770	414285	C		2011-02-03	1996-07-31|2011-02-03	
-S000006625	tRNA_gene		tK(CUU)J			chromosome 10	L000003611	10	414966	415038	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000036030	noncoding_exon					tK(CUU)J		10	414966	415038	W		2011-02-03	2000-05-19	
-S000006773	tRNA_gene		tW(CCA)J			chromosome 10	L000003621	10	416036	415931	C		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
-S000033314	intron					tW(CCA)J		10	416000	415967	C		2011-02-03	2000-05-19	
-S000033313	noncoding_exon					tW(CCA)J		10	415966	415931	C		2011-02-03	2000-05-19	
-S000033312	noncoding_exon					tW(CCA)J		10	416036	416001	C		2011-02-03	2000-05-19	
-S000007047	long_terminal_repeat		YJLWtau3		YJRWtau3	chromosome 10		10	416266	416441	W		2011-02-03	2000-05-19	Ty4 LTR
-S000007029	long_terminal_repeat		YJLWdelta8			chromosome 10		10	416506	416650	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007030	long_terminal_repeat		YJLWdelta9			chromosome 10		10	416899	417026	W		2011-02-03	2000-05-19	Ty1 LTR
-S000028451	ARS		ARS1014		ARSX-417	chromosome 10		10	417195	417440			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
-S000003547	ORF	Verified	YJL010C	NOP9	RNA-binding RNA processing protein NOP9	chromosome 10		10	419562	417562	C		2011-02-03	1996-07-31	Essential subunit of U3-containing 90S preribosome; involved in production of 18S rRNA and assembly of small ribosomal subunit; also part of pre-40S ribosome and required for its export into cytoplasm; binds RNA and contains pumilio domain
-S000030801	CDS					YJL010C		10	419562	417562	C		2011-02-03	1996-07-31	
-S000003546	ORF	Dubious	YJL009W			chromosome 10		10	419855	420181	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps CCT8/YJL008C, a verified gene encoding a subunit of the cytosolic chaperonin Cct ring complex
-S000031233	CDS					YJL009W		10	419855	420181	W		2011-02-03	1996-07-31	
-S000003545	ORF	Verified	YJL008C	CCT8	chaperonin-containing T-complex subunit CCT8	chromosome 10	L000002764	10	421663	419957	C		2011-02-03	1996-07-31|2011-02-03	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo
-S000031107	CDS					YJL008C		10	421663	419957	C		2011-02-03	1996-07-31|2011-02-03	
-S000007038	long_terminal_repeat		YJLWtau4			chromosome 10		10	421946	422295	W		2011-02-03	2000-05-19|2011-02-03	Ty4 LTR
-S000007031	long_terminal_repeat		YJLWdelta10			chromosome 10		10	422601	422887	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006662	tRNA_gene		tM(CAU)J2	EMT3		chromosome 10	L000000553|L000003612	10	422937	423009	W		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
-S000029922	noncoding_exon					tM(CAU)J2		10	422937	423009	W		2011-02-03	2000-05-19	
-S000003544	ORF	Dubious	YJL007C			chromosome 10		10	423012	422698	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031008	CDS					YJL007C		10	423012	422698	C		2011-02-03	1996-07-31	
-S000003543	ORF	Verified	YJL006C	CTK2		chromosome 10	L000003011	10	424109	423138	C		2011-02-03	1996-07-31	Beta subunit of C-terminal domain kinase I (CTDK-I); which phosphorylates both RNA pol II subunit Rpo21p to affect transcription and pre-mRNA 3' end processing, and ribosomal protein Rps2p to increase translational fidelity; relocalizes to the cytosol in response to hypoxia
-S000030929	CDS					YJL006C		10	424109	423138	C		2011-02-03	1996-07-31	
-S000006650	tRNA_gene		tL(UAA)J	SUP51	SUP52	chromosome 10	L000002209|L000003620	10	424515	424432	C	0	2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; can mutate to suppress amber nonsense mutations
-S000037406	noncoding_exon					tL(UAA)J		10	424515	424432	C		2011-02-03	2000-05-19	
-S000003542	ORF	Verified	YJL005W	CYR1	adenylate cyclase|FIL1|TSM0185|SRA4|HSR1|CDC35	chromosome 10	L000000467	10	425157	431237	W	2	2011-02-03	1996-07-31	Adenylate cyclase; required for cAMP production and cAMP-dependent protein kinase signaling; the cAMP pathway controls a variety of cellular processes, including metabolism, cell cycle, stress response, stationary phase, and sporulation
-S000029993	CDS					YJL005W		10	425157	431237	W		2011-02-03	1996-07-31	
-S000003541	ORF	Verified	YJL004C	SYS1		chromosome 10	L000004153	10	432200	431589	C		2011-02-03	1996-07-31	Integral membrane protein of the Golgi; required for targeting of the Arf-like GTPase Arl3p to the Golgi; multicopy suppressor of ypt6 null mutation
-S000037910	CDS					YJL004C		10	432200	431589	C		2011-02-03	1996-07-31	
-S000003540	ORF	Verified	YJL003W	COX16		chromosome 10		10	432644	433000	W		2011-02-03	1996-07-31	Mitochondrial inner membrane protein; required for assembly of cytochrome c oxidase
-S000037880	CDS					YJL003W		10	432644	433000	W		2011-02-03	1996-07-31	
-S000003539	ORF	Verified	YJL002C	OST1	dolichyl-diphosphooligosaccharide--protein glycotransferase subunit OST1|NLT1	chromosome 10	L000002649	10	434651	433221	C		2011-02-03	1996-07-31	Alpha subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins
-S000035955	CDS					YJL002C		10	434651	433221	C		2011-02-03	1996-07-31	
-S000003538	ORF	Verified	YJL001W	PRE3	proteasome core particle subunit beta 1|CRL21	chromosome 10	L000000418|L000001485	10	435163	435926	W		2011-02-03	1996-07-31	Beta 1 subunit of the 20S proteasome; responsible for cleavage after acidic residues in peptides
-S000035909	CDS					YJL001W		10	435163	435227	W		2011-02-03	1996-07-31	
-S000035910	CDS					YJL001W		10	435344	435926	W		2011-02-03	1996-07-31	
-S000035911	intron					YJL001W		10	435228	435343	W		2011-02-03	1996-07-31	
-S000006471	centromere		CEN10	CEN10		chromosome 10	L000000303	10	436425	436307	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome X centromere
-S000077296	centromere_DNA_Element_I					CEN10		10	436425	436416	C		2011-02-03	2004-10-08	
-S000077297	centromere_DNA_Element_II					CEN10		10	436415	436332	C		2011-02-03	2004-10-08	
-S000077298	centromere_DNA_Element_III					CEN10		10	436331	436307	C		2011-02-03	2004-10-08	
-S000003761	ORF	Verified	YJR001W	AVT1		chromosome 10		10	436802	438610	W		2011-02-03	1996-07-31	Vacuolar transporter; imports large neutral amino acids into the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
-S000033093	CDS					YJR001W		10	436802	438610	W		2011-02-03	1996-07-31	
-S000003762	ORF	Verified	YJR002W	MPP10	rRNA-processing protein MPP10	chromosome 10	L000004335	10	438865	440646	W		2011-02-03	1996-07-31	Component of the SSU processome and 90S preribosome; required for pre-18S rRNA processing, interacts with and controls the stability of Imp3p and Imp4p, essential for viability; similar to human Mpp10p
-S000033184	CDS					YJR002W		10	438865	440646	W		2011-02-03	1996-07-31	
-S000003763	ORF	Uncharacterized	YJR003C	MRX12		chromosome 10		10	442553	440994	C		2011-02-03	1996-07-31|2006-05-09	Protein that associates with mitochondrial ribosome; detected in highly purified mitochondria in high-throughput studies; predicted to be involved in ribosome biogenesis
-S000033209	CDS					YJR003C		10	442553	440994	C		2011-02-03	1996-07-31|2006-05-09	
-S000028452	ARS		ARS1015			chromosome 10		10	442556	442965			2011-02-03	2002-12-16	Autonomously Replicating Sequence
-S000003764	ORF	Verified	YJR004C	SAG1	AG(ALPHA)1	chromosome 10	L000001796	10	444861	442909	C	2	2011-02-03	1996-07-31	Alpha-agglutinin of alpha-cells; binds to Aga1p during agglutination, N-terminal half is homologous to the immunoglobulin superfamily and contains binding site for a-agglutinin, C-terminal half is highly glycosylated and contains GPI anchor
-S000034030	CDS					YJR004C		10	444861	442909	C		2011-02-03	1996-07-31	
-S000003765	ORF	Verified	YJR005W	APL1	YAP80	chromosome 10	L000002495	10	445923	448025	W		2011-02-03	1996-07-31	Beta-adaptin; large subunit of the clathrin associated protein complex (AP-2); involved in vesicle mediated transport; similar to mammalian beta-chain of the clathrin associated protein complex
-S000034176	CDS					YJR005W		10	445923	448025	W		2011-02-03	1996-07-31	
-S000028523	ORF	Verified	YJR005C-A	LSO1		chromosome 10		10	448758	448477	C		2011-02-03	2003-07-29	Protein with a potential role in response to iron deprivation; transcription increases during iron deprivation and during treatment with 2-(6-benzyl-2-pyridyl)quinazoline (BPQ) and copper; regulated by Aft1p and, to a lesser extent, by Aft2p; originally identified as a syntenic homolog of an Ashbya gossypii gene; localizes to nucleus and cytoplasm, and nuclear localization is enhanced under iron-replete conditions
-S000030322	CDS					YJR005C-A		10	448758	448477	C		2011-02-03	2003-07-29	
-S000003766	ORF	Verified	YJR006W	POL31	DNA-directed DNA polymerase delta subunit POL31|HYS2|SDP5|HUS2	chromosome 10	L000002981	10	449202	450665	W		2011-02-03	1996-07-31	Subunit of DNA polymerase delta (polymerase III); essential for cell viability; involved in DNA replication and DNA repair; forms a complex with Rev3p, Rev7p and Pol32p; relocalizes to the cytosol in response to hypoxia
-S000035159	CDS					YJR006W		10	449202	450665	W		2011-02-03	1996-07-31	
-S000003767	ORF	Verified	YJR007W	SUI2	translation initiation factor eIF2 subunit alpha	chromosome 10	L000002178	10	451020	451934	W	2	2011-02-03	1996-07-31	Alpha subunit of the translation initiation factor eIF2; eIF2 is involved in identification of the start codon; phosphorylation of Ser51 is required for regulation of translation by inhibiting the exchange of GDP for GTP; protein abundance increases in response to DNA replication stress
-S000035254	CDS					YJR007W		10	451020	451934	W		2011-02-03	1996-07-31	
-S000003768	ORF	Verified	YJR008W	MHO1		chromosome 10		10	452430	453446	W		2011-02-03	1996-07-31	Protein of unknown function; inhibits haploid invasive growth when overexpressed; synthetically lethal with phospholipase C (PLC1); expression induced by mild heat-stress on a non-fermentable carbon source, upon entry into stationary phase and upon nitrogen deprivation; repressed by inosine and choline in an Opi1p-dependent manner; highly conserved from bacteria to human; Memo, the human homolog, is an ErbB2 interacting protein with an essential function in cell motility
-S000035336	CDS					YJR008W		10	452430	453446	W		2011-02-03	1996-07-31	
-S000028453	ARS		ARS1016			chromosome 10		10	454584	455555			2011-02-03	2002-12-16	Autonomously Replicating Sequence
-S000003769	ORF	Verified	YJR009C	TDH2	glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) TDH2|GAPDH|GLD2	chromosome 10	L000002273	10	454681	453683	C	2.95	2011-02-03	1996-07-31	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH), isozyme 2; involved in glycolysis and gluconeogenesis; tetramer that catalyzes reaction of glyceraldehyde-3-phosphate to 1,3 bis-phosphoglycerate; detected in cytoplasm and cell wall; protein abundance increases in response to DNA replication stress; GAPDH-derived antimicrobial peptides are active against a wide variety of wine-related yeasts and bateria; TDH2 has a paralog, TDH3, that arose from the whole genome duplication
-S000035380	CDS					YJR009C		10	454681	453683	C		2011-02-03	1996-07-31	
-S000003771	ORF	Verified	YJR010W	MET3	sulfate adenylyltransferase	chromosome 10	L000001078	10	456239	457774	W	3	2011-02-03	1996-07-31	ATP sulfurylase; catalyzes the primary step of intracellular sulfate activation, essential for assimilatory reduction of sulfate to sulfide, involved in methionine metabolism; human homolog PAPSS2 complements yeast null mutant
-S000031767	CDS					YJR010W		10	456239	457774	W		2011-02-03	1996-07-31	
-S000003770	ORF	Verified	YJR010C-A	SPC1	signal peptidase complex subunit SPC1	chromosome 10	L000003006	10	458361	458077	C		2011-02-03	1996-07-31	Subunit of the signal peptidase complex (SPC); SPC cleaves the signal sequence from proteins targeted to the endoplasmic reticulum (ER); homolog of the SPC12 subunit of mammalian signal peptidase complex; protein abundance increases in response to DNA replication stress
-S000037612	CDS					YJR010C-A		10	458361	458077	C		2011-02-03	1996-07-31	
-S000028454	ARS		ARS1017			chromosome 10		10	459337	459895			2011-02-03	2002-12-16	Autonomously Replicating Sequence
-S000003772	ORF	Uncharacterized	YJR011C			chromosome 10		10	459426	458641	C		2011-02-03	1996-07-31	Putative protein of unknown function; GFP-fusion protein expression is induced in response to the DNA-damaging agent MMS
-S000031827	CDS					YJR011C		10	459426	458641	C		2011-02-03	1996-07-31	
-S000003774	ORF	Verified	YJR013W	GPI14	glycosylphosphatidylinositol-alpha 1,4 mannosyltransferase I|PMH1	chromosome 10		10	460382	461593	W		2011-02-03	2004-02-12|1996-07-31	Glycosylphosphatidylinositol-alpha 1,4 mannosyltransferase I; involved in GPI anchor biosynthesis, requires Pbn1p for function; homolog of mammalian PIG-M
-S000037491	CDS					YJR013W		10	460382	461593	W		2011-02-03	2004-02-12|1996-07-31	
-S000003773	ORF	Uncharacterized	YJR012C			chromosome 10		10	460418	459795	C		2011-02-03	1996-07-31	Essential protein of unknown function; proposed involvement in transport based on mass spectrometry analysis of copurifying proteins; partially overlaps neighboring ORF, GPI14/YJR013W
-S000031960	CDS					YJR012C		10	460418	459795	C		2011-02-03	1996-07-31	
-S000003775	ORF	Verified	YJR014W	TMA22	RBF22	chromosome 10		10	461829	462425	W		2011-02-03	1996-07-31	Protein of unknown function; associates with ribosomes and has a putative RNA binding domain; interacts with Tma20p; similar to human GRAP and human DRP1, which interacts with human Tma20p homolog MCT-1; protein abundance increases in response to DNA replication stress
-S000037578	CDS					YJR014W		10	461829	462425	W		2011-02-03	1996-07-31	
-S000003776	ORF	Uncharacterized	YJR015W			chromosome 10		10	462721	464253	W		2011-02-03	1996-07-31	Putative protein of unknown function; localizes to endoplasmic reticulum and cytoplasm; predicted to encode a membrane transporter based on phylogenetic analysis; not an essential gene; YJR015W has a paralog, SNG1, that arose from the whole genome duplication
-S000037660	CDS					YJR015W		10	462721	464253	W		2011-02-03	1996-07-31	
-S000003777	ORF	Verified	YJR016C	ILV3	dihydroxy-acid dehydratase ILV3	chromosome 10	L000000859	10	466208	464451	C	10	2011-02-03	1996-07-31	Dihydroxyacid dehydratase; catalyzes third step in the common pathway leading to biosynthesis of branched-chain amino acids
-S000037686	CDS					YJR016C		10	466208	464451	C		2011-02-03	1996-07-31	
-S000003779	ORF	Dubious	YJR018W			chromosome 10		10	466786	467148	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030641	CDS					YJR018W		10	466786	467148	W		2011-02-03	1996-07-31	
-S000003778	ORF	Verified	YJR017C	ESS1	peptidylprolyl isomerase ESS1|PIN1|PTF1	chromosome 10	L000000587	10	467033	466521	C	17	2011-02-03	2003-09-22|1996-07-31	Peptidylprolyl-cis/trans-isomerase (PPIase); specific for phosphorylated S/T residues N-terminal to proline; regulates phosphorylation of RNAPII large subunit (Rpo21p) C-terminal domain (CTD) at Ser7; associates with phospho-Ser5 form of RNAPII in vivo; present along entire coding length of genes; represses initiation of CUTs; required for efficient termination of mRNA transcription, trimethylation of histone H3; human ortholog PIN1 can complement yeast null and ts mutants
-S000030503	CDS					YJR017C		10	467033	466521	C		2011-02-03	2003-09-22|1996-07-31	
-S000003781	ORF	Dubious	YJR020W			chromosome 10		10	468001	468333	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030190	CDS					YJR020W		10	468001	468333	W		2011-02-03	1996-07-31	
-S000003780	ORF	Verified	YJR019C	TES1	PTE1	chromosome 10	L000003343	10	468281	467232	C		2011-02-03	1996-07-31	Peroxisomal acyl-CoA thioesterase; likely to be involved in fatty acid oxidation rather than fatty acid synthesis; conserved protein also found in human peroxisomes; TES1 mRNA levels increase during growth on fatty acids
-S000030681	CDS					YJR019C		10	468281	467232	C		2011-02-03	1996-07-31	
-S000003782	ORF	Verified	YJR021C	REC107	MER2	chromosome 10	L000001606	10	469579	468555	C		2011-02-03	1996-07-31	Protein involved in early stages of meiotic recombination; involved in coordination between the initiation of recombination and the first division of meiosis; part of a complex (Rec107p-Mei4p-Rec114p) required for ds break formation
-S000030251	CDS					YJR021C		10	469183	468555	C		2011-02-03	1996-07-31	
-S000030250	CDS					YJR021C		10	469579	469264	C		2011-02-03	1996-07-31	
-S000030252	intron					YJR021C		10	469263	469184	C		2011-02-03	1996-07-31	
-S000003783	ORF	Verified	YJR022W	LSM8	U4/U6-U5 snRNP complex subunit LSM8	chromosome 10	L000004687	10	469784	470113	W		2011-02-03	2003-09-22|1996-07-31	Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and Lsm7p) that is part of spliceosomal U6 snRNP and is also implicated in processing of pre-tRNA, pre-snoRNA, and pre-rRNA
-S000033657	CDS					YJR022W		10	469784	470113	W		2011-02-03	2003-09-22|1996-07-31	
-S000003784	ORF	Dubious	YJR023C			chromosome 10		10	470205	469804	C		2011-02-03	1996-07-31	Putative protein of unknown function; open reading frame overlaps LSM8/YJR022W encoding an essential snRNP protein required for RNA processing and splicing
-S000033704	CDS					YJR023C		10	470205	469804	C		2011-02-03	1996-07-31	
-S000003785	ORF	Verified	YJR024C	MDE1	methylthioribulose 1-phosphate dehydratase MDE1	chromosome 10		10	470964	470230	C		2011-02-03	1996-07-31	5'-methylthioribulose-1-phosphate dehydratase; acts in the methionine salvage pathway; potential Smt3p sumoylation substrate; expression downregulated by caspofungin and deletion mutant is caspofungin resistant
-S000033856	CDS					YJR024C		10	470964	470230	C		2011-02-03	1996-07-31	
-S000003786	ORF	Verified	YJR025C	BNA1	3-hydroxyanthranilate 3,4-dioxygenase|HAD1	chromosome 10	L000003490	10	471671	471138	C		2011-02-03	1996-07-31	3-hydroxyanthranilic acid dioxygenase; required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
-S000033981	CDS					YJR025C		10	471671	471138	C		2011-02-03	1996-07-31	
-S000007040	long_terminal_repeat		YJRWdelta11			chromosome 10		10	472463	472800	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007048	LTR_retrotransposon		YJRWTy1-1		Ty1	chromosome 10		10	472463	478384	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000003787	transposable_element_gene		YJR026W		gag protein	chromosome 10		10	472760	474082	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000034898	CDS					YJR026W		10	472760	474082	W		2011-02-03	1996-07-31	
-S000003788	transposable_element_gene		YJR027W		gag-pol fusion protein	chromosome 10		10	472760	478028	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000035049	CDS					YJR027W		10	472760	474061	W		2011-02-03	1996-07-31	
-S000035050	CDS					YJR027W		10	474063	478028	W		2011-02-03	1996-07-31	
-S000035051	plus_1_translational_frameshift					YJR027W		10	474062	474062	W		2011-02-03	1996-07-31	
-S000007041	long_terminal_repeat		YJRWdelta12			chromosome 10		10	478051	478384	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007049	LTR_retrotransposon		YJRWTy1-2		Ty1	chromosome 10		10	478051	483972	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000003789	transposable_element_gene		YJR028W		gag protein	chromosome 10		10	478344	479666	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000035151	CDS					YJR028W		10	478344	479666	W		2011-02-03	1996-07-31	
-S000003790	transposable_element_gene		YJR029W		gag-pol fusion protein	chromosome 10		10	478344	483612	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000036043	CDS					YJR029W		10	478344	479644	W		2011-02-03	1996-07-31	
-S000036044	CDS					YJR029W		10	479646	483612	W		2011-02-03	1996-07-31	
-S000036045	plus_1_translational_frameshift					YJR029W		10	479645	479645	W		2011-02-03	1996-07-31	
-S000007042	long_terminal_repeat		YJRWdelta13			chromosome 10		10	483635	483972	W		2011-02-03	2000-05-19	Ty1 LTR
-S000003791	ORF	Uncharacterized	YJR030C	RBH2	RBH2	chromosome 10		10	486196	483959	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression repressed in carbon limited vs carbon replete chemostat cultures; non-essential gene; contains a PH-like domain; RBH2 has a paralog, RBH1, that arose from the whole genome duplication
-S000034642	CDS					YJR030C		10	486196	483959	C		2011-02-03	1996-07-31	
-S000003792	ORF	Verified	YJR031C	GEA1	Arf family guanine nucleotide exchange factor GEA1	chromosome 10	L000004312	10	490812	486586	C		2011-02-03	1996-07-31	Guanine nucleotide exchange factor for ADP ribosylation factors (ARFs); involved in vesicular transport between the Golgi and ER, Golgi organization, and actin cytoskeleton organization; GEA1 has a paralog, GEA2, that arose from the whole genome duplication
-S000034771	CDS					YJR031C		10	490812	486586	C		2011-02-03	1996-07-31	
-S000003793	ORF	Verified	YJR032W	CPR7	peptidylprolyl isomerase CPR7	chromosome 10	L000003230	10	491081	492262	W		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; binds to Hsp82p and contributes to chaperone activity; plays a role in determining prion variants
-S000035830	CDS					YJR032W		10	491081	492262	W		2011-02-03	1996-07-31	
-S000003794	ORF	Verified	YJR033C	RAV1	SOI3	chromosome 10	S000029472|L000002969	10	496451	492378	C		2011-02-03	1996-07-31	Subunit of RAVE complex (Rav1p, Rav2p, Skp1p); the RAVE complex promotes assembly of the V-ATPase holoenzyme; required for transport between the early and late endosome/PVC and for localization of TGN membrane proteins; potential Cdc28p substrate
-S000035875	CDS					YJR033C		10	496451	492378	C		2011-02-03	1996-07-31	
-S000003795	ORF	Verified	YJR034W	PET191		chromosome 10	L000001400	10	496683	497009	W		2011-02-03	1996-07-31	Protein required for assembly of cytochrome c oxidase; exists as an oligomer; described as both an integral mitochondrial inner membrane protein facing the intermembrane space (IMS) and as a soluble IMS protein; contains a twin Cx9C motif; imported into the IMS via the MIA import machinery
-S000037813	CDS					YJR034W		10	496683	497009	W		2011-02-03	1996-07-31	
-S000003796	ORF	Verified	YJR035W	RAD26	DNA-dependent ATPase RAD26	chromosome 10	L000001569	10	497355	500612	W		2011-02-03	1996-07-31	Protein involved in transcription-coupled nucleotide excision repair; repairs UV-induced DNA lesions; recruitment to DNA lesions is dependent on an elongating RNA polymerase II; homolog of human CSB protein
-S000037907	CDS					YJR035W		10	497355	500612	W		2011-02-03	1996-07-31	
-S000003798	ORF	Dubious	YJR037W			chromosome 10		10	503102	503485	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene HUL4/YJR036C; deletion mutant has decreased spore survival in Drosophila feces
-S000030927	CDS					YJR037W		10	503102	503485	W		2011-02-03	1996-07-31	
-S000003797	ORF	Verified	YJR036C	HUL4	putative E3 ubiquitin-protein ligase HUL4	chromosome 10		10	503391	500713	C		2011-02-03	1996-07-31	Protein with similarity to hect domain E3 ubiquitin-protein ligases; not essential for viability; found in association with Trf4 in TRAMP complex
-S000029850	CDS					YJR036C		10	503391	500713	C		2011-02-03	1996-07-31	
-S000003800	ORF	Uncharacterized	YJR039W			chromosome 10		10	503936	507301	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000031105	CDS					YJR039W		10	503936	507301	W		2011-02-03	1996-07-31	
-S000003799	ORF	Dubious	YJR038C			chromosome 10		10	504072	503710	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030967	CDS					YJR038C		10	504072	503710	C		2011-02-03	1996-07-31	
-S000003801	ORF	Verified	YJR040W	GEF1	CLC	chromosome 10	L000000701	10	507746	510085	W		2011-02-03	1996-07-31	Voltage-gated chloride channel; localized to the golgi, the endosomal system, and plasma membrane; involved in cation homeostasis; highly homologous to vertebrate voltage-gated chloride channels; modulates TBSV model (+) RNA virus replication by regulating copper metabolism
-S000030664	CDS					YJR040W		10	507746	510085	W		2011-02-03	1996-07-31	
-S000003802	ORF	Verified	YJR041C	URB2	NPA2	chromosome 10		10	513763	510239	C		2011-02-03	1996-07-31	Protein required for normal metabolism of the rRNA primary transcript; nucleolar protein; proposed to be involved in ribosome biogenesis
-S000030713	CDS					YJR041C		10	513763	510239	C		2011-02-03	1996-07-31	
-S000003803	ORF	Verified	YJR042W	NUP85	RAT9	chromosome 10	L000003023	10	514055	516289	W		2011-02-03	1996-07-31	Subunit of the Nup84p subcomplex of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport and NPC biogenesis and is involved in establishment of a normal nucleocytoplasmic concentration gradient of the GTPase Gsp1p; also plays roles in several processes that may require localization of genes or chromosomes at the nuclear periphery, including double-strand break repair, transcription and chromatin silencing; homologous to human NUP85 aka NUP75
-S000030892	CDS					YJR042W		10	514055	516289	W		2011-02-03	1996-07-31	
-S000003804	ORF	Verified	YJR043C	POL32	DNA polymerase delta subunit POL32|REV5	chromosome 10	L000004337|S000029416|L000001617	10	517513	516461	C		2011-02-03	1996-07-31	Third subunit of DNA polymerase delta; involved in chromosomal DNA replication; required for error-prone DNA synthesis in the presence of DNA damage and processivity; forms a complex with Rev3p, Rev7p and Pol31p; interacts with Hys2p, PCNA (Pol30p), and Pol1p
-S000031802	CDS					YJR043C		10	517513	516461	C		2011-02-03	1996-07-31	
-S000006663	tRNA_gene		tM(CAU)J3	IMT3		chromosome 10	L000003619	10	517884	517813	C		2011-02-03	2000-05-19	Methionine initiator tRNA (tRNA-Met); predicted by tRNAscan-SE analysis; one of four initiator methionine tRNAs in yeast that are functional for translation
-S000029924	noncoding_exon					tM(CAU)J3		10	517884	517813	C		2011-02-03	2000-05-19	
-S000007043	long_terminal_repeat		YJRWdelta14			chromosome 10		10	517959	518099	W		2011-02-03	2000-05-19	Ty1 LTR
-S000003805	ORF	Verified	YJR044C	VPS55		chromosome 10		10	519185	518763	C		2011-02-03	1996-07-31	Late endosomal protein involved in late endosome to vacuole transport; functional homolog of human obesity receptor gene-related protein (OB-RGRP)
-S000031950	CDS					YJR044C		10	519185	518763	C		2011-02-03	1996-07-31	
-S000003806	ORF	Verified	YJR045C	SSC1	Hsp70 family ATPase SSC1|mtHSP70|ENS1	chromosome 10	L000000561	10	521602	519638	C		2011-02-03	1996-07-31	Hsp70 family ATPase; constituent of the import motor component of the Translocase of the Inner Mitochondrial membrane (TIM23 complex); involved in protein translocation and folding; subunit of SceI endonuclease; SSC1 has a paralog, ECM10, that arose from the whole genome duplication
-S000032104	CDS					YJR045C		10	521602	519638	C		2011-02-03	1996-07-31	
-S000003807	ORF	Verified	YJR046W	TAH11	CDT1|SID2	chromosome 10	L000004733	10	522048	523862	W		2011-02-03	1996-07-31	DNA replication licensing factor; required for pre-replication complex assembly
-S000034108	CDS					YJR046W		10	522048	523862	W		2011-02-03	1996-07-31	
-S000006727	tRNA_gene		tS(AGA)J			chromosome 10	L000003618	10	524093	524012	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000032380	noncoding_exon					tS(AGA)J		10	524093	524012	C		2011-02-03	2000-05-19	
-S000003808	ORF	Verified	YJR047C	ANB1	translation elongation factor eIF-5A|eIF-5A|eIF5A|TIF51B|HYP1	chromosome 10	L000000085|L000000846|L000002308	10	525381	524908	C		2011-02-03	1996-07-31	Translation elongation factor eIF-5A; previously thought to function in translation initiation; undergoes an essential hypusination modification; expressed under anaerobic conditions; ANB1 has a paralog, HYP2, that arose from the whole genome duplication; human EIF5A complements the inviability of the yeast hyp2 anb1 double null mutant
-S000034179	CDS					YJR047C		10	525381	524908	C		2011-02-03	1996-07-31	
-S000003809	ORF	Verified	YJR048W	CYC1	cytochrome c isoform 1	chromosome 10	L000000448	10	526335	526664	W	34	2011-02-03	1996-07-31	Cytochrome c, isoform 1; also known as iso-1-cytochrome c; electron carrier of mitochondrial intermembrane space that transfers electrons from ubiquinone-cytochrome c oxidoreductase to cytochrome c oxidase during cellular respiration; CYC1 has a paralog, CYC7, that arose from the whole genome duplication; human homolog CYC1 can complement yeast null mutant; mutations in human CYC1 cause insulin-responsive hyperglycemia
-S000034309	CDS					YJR048W		10	526335	526664	W		2011-02-03	1996-07-31	
-S000003810	ORF	Verified	YJR049C	UTR1	NADH/NAD(+) kinase	chromosome 10	L000002680	10	528476	526884	C		2011-02-03	1996-07-31	ATP-NADH kinase; phosphorylates both NAD and NADH; active as a hexamer; enhances the activity of ferric reductase (Fre1p); UTR1 has a paralog, YEF1, that arose from the whole genome duplication
-S000034337	CDS					YJR049C		10	528476	526884	C		2011-02-03	1996-07-31	
-S000003811	ORF	Verified	YJR050W	ISY1	NTC30|UTR3	chromosome 10	L000002730	10	528697	529404	W		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); NTC contains Prp19p and stabilizes U6 snRNA in catalytic forms of spliceosome containing U2, U5, and U6 snRNAs; interacts with Prp16p to modulate splicing fidelity; isy1 syf2 cells have defective spindles 
-S000033850	CDS					YJR050W		10	528697	529404	W		2011-02-03	1996-07-31	
-S000003812	ORF	Verified	YJR051W	OSM1	fumarate reductase|FRDS2	chromosome 10	L000001317	10	529861	531366	W	34	2011-02-03	1996-07-31	Fumarate reductase, catalyzes the reduction of fumarate to succinate; required for the reoxidation of intracellular NADH under anaerobic conditions; mutations cause osmotic sensitivity; has two translation start sites, one at the annotated start codon which produces an ER-targeted form required for anaerobic growth, and one at codon 32 which produces a mitochondrially-targeted form; OSM1 has a paralog, FRD1, that arose from the whole genome duplication
-S000033966	CDS					YJR051W		10	529861	531366	W		2011-02-03	1996-07-31	
-S000007032	long_terminal_repeat		YJRCdelta15		YJLWdelta15	chromosome 10		10	531675	531516	C		2011-02-03	2000-05-19|2007-04-04	Ty1 LTR
-S000006584	tRNA_gene		tG(GCC)J2	SUF23		chromosome 10	L000003613|S000029541|L000002170	10	531828	531898	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly); can mutate to suppress +1 frameshift mutations
-S000030417	noncoding_exon					tG(GCC)J2		10	531828	531898	W		2011-02-03	2000-05-19	
-S000003813	ORF	Verified	YJR052W	RAD7	UV-damaged DNA-binding protein RAD7	chromosome 10	L000001561	10	532062	533759	W	35	2011-02-03	1996-07-31	Nucleotide excision repair (NER) protein; binds damaged DNA during NER; binds DNA in an ATP-dependent manner (with Rad16p) during NER; required for repair of non-transcribed chromatin; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex
-S000034844	CDS					YJR052W		10	532062	533759	W		2011-02-03	1996-07-31	
-S000003814	ORF	Verified	YJR053W	BFA1	IBD1	chromosome 10		10	534027	535751	W		2011-02-03	1996-07-31	Subunit of a two-component GTPase-activating protein, Bfa1p-Bub2p; contributes to GAP activity, inactivating Tem1 by stimulating GTP hydrolysis following damage or misalignment of the mitotic spindle; functions as a guanine-nucleotide exchange inhibitor (GDI) for Tem1p; involved in multiple cell cycle checkpoint pathways that control mitotic exit; required when telomeres are damaged, but not for all types of chromosomal DNA damage; phosphorylated by the Polo-like kinase Cdc5p
-S000034983	CDS					YJR053W		10	534027	535751	W		2011-02-03	1996-07-31	
-S000003815	ORF	Verified	YJR054W	KCH1	ERM6	chromosome 10		10	536056	537549	W		2011-02-03	1996-07-31	Potassium transporter that mediates K+ influx; activates high-affinity Ca2+ influx system (HACS) during mating pheromone response; expression up-regulated in response to alpha factor; localized to sites of polarized growth; member of a fungal-specific gene family; potential Cdc28p substrate; KCH1 has a paralog, PRM6, that arose from the whole genome duplication
-S000035180	CDS					YJR054W		10	536056	537549	W		2011-02-03	1996-07-31	
-S000007033	long_terminal_repeat		YJRCdelta16		YJLWdelta16	chromosome 10		10	538041	537741	C		2011-02-03	2000-05-19|2007-04-04	Ty1 LTR
-S000007044	long_terminal_repeat		YJRWdelta17			chromosome 10		10	538103	538434	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006707	tRNA_gene		tR(CCU)J	HSX1		chromosome 10		10	538555	538626	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; low abundance tRNA required for growth on nonfermentable carbon sources at high temperatures, for synthesis of heat shock protein Ssc1p, and for Ty1 retrotransposition through the regulation of translational frameshifting
-S000032860	noncoding_exon					tR(CCU)J		10	538555	538626	W		2011-02-03	2000-05-19	
-S000003816	ORF	Verified	YJR055W	HIT1		chromosome 10	L000000786	10	538772	539266	W		2011-02-03	1996-07-31	Protein involved in C/D snoRNP assembly; regulates abundance of Rsa1p; required for growth at high temperature; similar to human ZNHIT3
-S000036066	CDS					YJR055W		10	538772	539266	W		2011-02-03	1996-07-31	
-S000028455	ARS		ARS1018		ARSX-540	chromosome 10		10	540546	540780			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
-S000007045	long_terminal_repeat		YJRWdelta18			chromosome 10		10	540766	541087	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007034	long_terminal_repeat		YJRCdelta19		YJLWdelta19	chromosome 10		10	541427	541095	C		2011-02-03	2000-05-19|2007-04-04	Ty1 LTR
-S000006539	tRNA_gene		tD(GUC)J4			chromosome 10	L000003615	10	541508	541579	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000030795	noncoding_exon					tD(GUC)J4		10	541508	541579	W		2011-02-03	2000-05-19	
-S000003817	ORF	Verified	YJR056C			chromosome 10		10	542502	541792	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus; relative distribution to the nucleus increases upon DNA replication stress
-S000036154	CDS					YJR056C		10	542502	541792	C		2011-02-03	1996-07-31	
-S000006782	tRNA_gene		tY(GUA)J2	SUP4		chromosome 10	L000003617|L000002183	10	543044	542956	C	36	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000032087	intron					tY(GUA)J2		10	543005	542992	C		2011-02-03	2000-05-19	
-S000032086	noncoding_exon					tY(GUA)J2		10	542991	542956	C		2011-02-03	2000-05-19	
-S000032085	noncoding_exon					tY(GUA)J2		10	543044	543006	C		2011-02-03	2000-05-19	
-S000007046	long_terminal_repeat		YJRWdelta20			chromosome 10		10	543448	543770	W		2011-02-03	2000-05-19	Ty1 LTR
-S000003818	ORF	Verified	YJR057W	CDC8	bifunctional thymidylate/uridylate kinase	chromosome 10	L000000248	10	544062	544712	W	36	2011-02-03	1996-07-31	Thymidylate and uridylate kinase; functions in de novo biosynthesis of pyrimidine deoxyribonucleotides; converts dTMP to dTDP and dUMP to dUTP; essential for mitotic and meiotic DNA replication; homologous to S. pombe tmp1; human homolog DTYMK can complement yeast cdc8 null mutant
-S000036320	CDS					YJR057W		10	544062	544712	W		2011-02-03	1996-07-31	
-S000003819	ORF	Verified	YJR058C	APS2	YAP17	chromosome 10	L000002492	10	545175	544732	C		2011-02-03	1996-07-31	Small subunit of the clathrin-associated adaptor complex AP-2; AP-2 is involved in protein sorting at the plasma membrane; related to the sigma subunit of the mammalian plasma membrane clathrin-associated protein (AP-2) complex
-S000036359	CDS					YJR058C		10	545175	544732	C		2011-02-03	1996-07-31	
-S000003820	ORF	Verified	YJR059W	PTK2	protein kinase PTK2|STK2	chromosome 10	L000003492	10	545787	548243	W		2011-02-03	1996-07-31	Serine/threonine protein kinase; involved in regulation of ion transport across plasma membrane; carboxyl terminus is essential for glucose-dependent Pma1p activation via phosphorylation of Pma1p-Ser899; enhances spermine uptake; PTK2 has a paralog, PTK1, that arose from the whole genome duplication
-S000030117	CDS					YJR059W		10	545787	548243	W		2011-02-03	1996-07-31	
-S000003821	ORF	Verified	YJR060W	CBF1	GFII|CP1|CPF1|CEP1	chromosome 10	L000000311|L000000401	10	548759	549814	W	40	2011-02-03	1996-07-31	Basic helix-loop-helix (bHLH) protein; forms homodimer to bind E-box consensus sequence CACGTG present at MET gene promoters and centromere DNA element I (CDEI); affects nucleosome positioning at this motif; associates with other transcription factors such as Met4p and Isw1p to mediate transcriptional activation or repression; associates with kinetochore proteins, required for chromosome segregation; protein abundance increases in response to DNA replication stress
-S000037892	CDS					YJR060W		10	548759	549814	W		2011-02-03	1996-07-31	
-S000003822	ORF	Uncharacterized	YJR061W			chromosome 10		10	550511	553318	W		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene; transcription repressed by Rm101p; YJR061W has a paralog, MNN4, that arose from the whole genome duplication
-S000029930	CDS					YJR061W		10	550511	553318	W		2011-02-03	1996-07-31	
-S000003823	ORF	Verified	YJR062C	NTA1	amidase|DEA1	chromosome 10	L000001279	10	554849	553476	C		2011-02-03	1996-07-31	Amidase; removes the amide group from N-terminal asparagine and glutamine residues to generate proteins with N-terminal aspartate and glutamate residues that are targets of ubiquitin-mediated degradation
-S000029976	CDS					YJR062C		10	554849	553476	C		2011-02-03	1996-07-31	
-S000003824	ORF	Verified	YJR063W	RPA12	DNA-directed RNA polymerase I core subunit RPA12|A12.2|RRN4	chromosome 10	L000001672	10	555195	555572	W		2011-02-03	1996-07-31	RNA polymerase I subunit A12.2; contains two zinc binding domains, and the N terminal domain is responsible for anchoring to the RNA pol I complex; physically interacts with transcriptional activator Msn4p, to regulate transcription of AYR1, a gene involved in lipid metabolism
-S000031049	CDS					YJR063W		10	555195	555572	W		2011-02-03	1996-07-31	
-S000003825	ORF	Verified	YJR064W	CCT5	chaperonin-containing T-complex subunit CCT5|TCP5	chromosome 10	L000002717	10	555914	557602	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo
-S000031152	CDS					YJR064W		10	555914	557602	W		2011-02-03	1996-07-31	
-S000003826	ORF	Verified	YJR065C	ARP3	actin-related protein 3|ACT4	chromosome 10	L000003198	10	559158	557809	C		2011-02-03	1996-07-31	Essential component of the Arp2/3 complex; Arp2/3 is a highly conserved actin nucleation center required for the motility and integrity of actin patches; involved in endocytosis and membrane growth and polarity
-S000031207	CDS					YJR065C		10	559158	557809	C		2011-02-03	1996-07-31	
-S000003827	ORF	Verified	YJR066W	TOR1	phosphatidylinositol kinase-related protein kinase TOR1|DRR1	chromosome 10	L000002322	10	559416	566828	W	44.84	2011-02-03	1996-07-31	PIK-related protein kinase and rapamycin target; subunit of TORC1, a complex that controls growth in response to nutrients by regulating translation, transcription, ribosome biogenesis, nutrient transport and autophagy; involved in meiosis; TOR1 has a paralog, TOR2, that arose from the whole genome duplication
-S000032272	CDS					YJR066W		10	559416	566828	W		2011-02-03	1996-07-31	
-S000003828	ORF	Verified	YJR067C	YAE1		chromosome 10	L000004159	10	567444	567019	C		2011-02-03	1996-07-31	Protein that forms a complex with Lto1p and Rli1p; essential for growth under standard (aerobic) conditions but not under anaerobic conditions; may have a role in protection of ribosomal assembly and function from damage due to reactive oxygen species
-S000032323	CDS					YJR067C		10	567444	567019	C		2011-02-03	1996-07-31	
-S000003829	ORF	Verified	YJR068W	RFC2	replication factor C subunit 2	chromosome 10	L000001623	10	567643	568704	W		2011-02-03	1996-07-31	Subunit of heteropentameric Replication factor C (RF-C); RF-C is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon
-S000032475	CDS					YJR068W		10	567643	568704	W		2011-02-03	1996-07-31	
-S000003830	ORF	Verified	YJR069C	HAM1	nucleoside triphosphate pyrophosphohydrolase HAM1	chromosome 10	L000003233	10	569399	568806	C		2011-02-03	1996-07-31	Nucleoside triphosphate pyrophosphohydrolase; active against various substrates including ITP, dITP and XTP; mediates exclusion of non canonical purines, pyrimidines from dNTP pools; functions with YJL055W to mediate resistance to 5-FU; specifically reduces the incorporation of 5-FU into RNA without affecting uptake or incorporation of uracil into RNA; protein abundance increases in response to DNA replication stress; yeast HAM1 can complement knockdown of human homolog ITPA
-S000034432	CDS					YJR069C		10	569399	568806	C		2011-02-03	1996-07-31	
-S000003832	ORF	Dubious	YJR071W			chromosome 10		10	570405	570773	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033295	CDS					YJR071W		10	570405	570773	W		2011-02-03	1996-07-31	
-S000003831	ORF	Verified	YJR070C	LIA1	MMD1	chromosome 10		10	570598	569621	C		2011-02-03	1996-07-31	Deoxyhypusine hydroxylase; HEAT-repeat containing metalloenzyme that catalyzes hypusine formation; binds to and is required for the modification of Hyp2p (eIF5A); complements S. pombe mmd1 mutants defective in mitochondrial positioning; protein abundance increases in response to DNA replication stress
-S000033205	CDS					YJR070C		10	570598	569621	C		2011-02-03	1996-07-31	
-S000003833	ORF	Verified	YJR072C	NPA3	GTPase NPA3|GPN1|EPA1	chromosome 10		10	572124	570967	C		2011-02-03	1996-07-31	Member of the conserved GPN-loop GTPase family; has a role in transport of RNA polymerase II to the nucleus; exhibits GTP-dependent binding to PolII; has ATPase activity; involved in sister chromatid cohesion; phosphorylated by the Pcl1p-Pho85p kinase complex; human homolog XAB1 interacts with human RNA polymerase II; protein abundance increases in response to DNA replication stress
-S000034114	CDS					YJR072C		10	572124	570967	C		2011-02-03	1996-07-31	
-S000003834	ORF	Verified	YJR073C	OPI3	bifunctional phosphatidyl-N-methylethanolamine N-methyltransferase/phosphatidyl-N-dimethylethanolamine N-methyltransferase|PEM2	chromosome 10	L000001304	10	572935	572315	C		2011-02-03	1996-07-31	Methylene-fatty-acyl-phospholipid synthase; catalyzes the last two steps in phosphatidylcholine biosynthesis; also known as phospholipid methyltransferase
-S000034233	CDS					YJR073C		10	572935	572315	C		2011-02-03	1996-07-31	
-S000003835	ORF	Verified	YJR074W	MOG1	Ran GTPase-binding protein MOG1	chromosome 10	L000004615	10	573095	573751	W		2011-02-03	1996-07-31	Conserved nuclear protein that interacts with GTP-Gsp1p; stimulates nucleotide release from Gsp1p; involved in nuclear protein import; nucleotide release is inhibited by Yrb1p
-S000034411	CDS					YJR074W		10	573095	573751	W		2011-02-03	1996-07-31	
-S000003836	ORF	Verified	YJR075W	HOC1	alpha-1,6-mannosyltransferase	chromosome 10	L000003274	10	573981	575171	W		2011-02-03	1996-07-31	Alpha-1,6-mannosyltransferase; involved in cell wall mannan biosynthesis; subunit of a Golgi-localized complex that also contains Anp1p, Mnn9p, Mnn11p, and Mnn10p; identified as a suppressor of a cell lysis sensitive pkc1-371 allele
-S000035455	CDS					YJR075W		10	573981	575171	W		2011-02-03	1996-07-31	
-S000003837	ORF	Verified	YJR076C	CDC11	septin CDC11|PSL9	chromosome 10	L000000251	10	576601	575354	C	54	2011-02-03	1996-07-31	Component of the septin ring that is required for cytokinesis; present at the ends of rod-like septin hetero-oligomers; C-terminal extension is important for recruitment of Bni5p to the mother-bud neck, which in turn is required for Myo1p recruitment and cytokinesis; septin rings at the mother-bud neck act as scaffolds for recruiting cell division factors and as barriers to prevent diffusion of specific proteins between mother and daughter cells
-S000035494	CDS					YJR076C		10	576601	575354	C		2011-02-03	1996-07-31	
-S000003838	ORF	Verified	YJR077C	MIR1	PTP	chromosome 10	L000001114	10	578190	577255	C		2011-02-03	1996-07-31	Mitochondrial phosphate carrier; imports inorganic phosphate into mitochondria; functionally redundant with Pic2p but more abundant than Pic2p under normal conditions; phosphorylated
-S000035596	CDS					YJR077C		10	578190	577255	C		2011-02-03	1996-07-31	
-S000003839	ORF	Verified	YJR078W	BNA2	dioxygenase BNA2	chromosome 10		10	578860	580221	W		2011-02-03	1996-07-31	Tryptophan 2,3-dioxygenase or indoleamine 2,3-dioxygenase; required for de novo biosynthesis of NAD from tryptophan via kynurenine; interacts genetically with telomere capping gene CDC13; regulated by Hst1p and Aftp
-S000036561	CDS					YJR078W		10	578860	580221	W		2011-02-03	1996-07-31	
-S000003840	ORF	Uncharacterized	YJR079W			chromosome 10		10	580205	581239	W		2011-02-03	1996-07-31	Putative protein of unknown function; mutation results in impaired mitochondrial respiration
-S000036624	CDS					YJR079W		10	580205	580347	W		2011-02-03	1996-07-31	
-S000036625	CDS					YJR079W		10	581053	581239	W		2011-02-03	1996-07-31	
-S000036626	intron					YJR079W		10	580348	581052	W		2011-02-03	1996-07-31	
-S000003841	ORF	Verified	YJR080C	AIM24	FMP26	chromosome 10		10	581616	580432	C		2011-02-03	1996-07-31	Protein with a role in determining mitochondrial architecture; inner membrane protein that interacts physically and genetically with the MICOS complex and is required for its integrity
-S000037402	CDS					YJR080C		10	581616	580432	C		2011-02-03	1996-07-31	
-S000003842	ORF	Verified	YJR082C	EAF6		chromosome 10		10	582255	581914	C		2011-02-03	1996-07-31	Subunit of the NuA4 acetyltransferase complex; this complex acetylates histone H4 and NuA3 acetyltransferase complex that acetylates histone H3
-S000030287	CDS					YJR082C		10	582255	581914	C		2011-02-03	1996-07-31	
-S000003843	ORF	Verified	YJR083C	ACF4		chromosome 10		10	583537	582608	C		2011-02-03	1996-07-31	Protein of unknown function; computational analysis of large-scale protein-protein interaction data suggests a possible role in actin cytoskeleton organization; potential Cdc28p substrate
-S000030434	CDS					YJR083C		10	583537	582608	C		2011-02-03	1996-07-31	
-S000003844	ORF	Verified	YJR084W		CSN12	chromosome 10	S000007581	10	583733	585004	W		2011-02-03	1996-07-31	Protein that forms a complex with Thp3p; may have a role in transcription elongation and/or mRNA splicing; identified as a COP9 signalosome component but phenotype and interactions suggest it may not be involved with the signalosome
-S000031409	CDS					YJR084W		10	583733	585004	W		2011-02-03	1996-07-31	
-S000003845	ORF	Verified	YJR085C			chromosome 10		10	585437	585120	C		2011-02-03	1996-07-31	Protein of unknown function; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress
-S000031477	CDS					YJR085C		10	585437	585120	C		2011-02-03	1996-07-31	
-S000003846	ORF	Verified	YJR086W	STE18		chromosome 10	L000002122	10	586068	586400	W	59	2011-02-03	1996-07-31	G protein gamma subunit; forms a dimer with Ste4p to activate the mating signaling pathway, forms a heterotrimer with Gpa1p and Ste4p to dampen signaling; C-terminus is palmitoylated and farnesylated, which are required for normal signaling
-S000031665	CDS					YJR086W		10	586068	586400	W		2011-02-03	1996-07-31	
-S000003847	ORF	Dubious	YJR087W			chromosome 10		10	586400	586750	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified genes STE18 and ECM2
-S000032646	CDS					YJR087W		10	586400	586750	W		2011-02-03	1996-07-31	
-S000003848	ORF	Verified	YJR088C	EMC2		chromosome 10		10	587373	586495	C		2011-02-03	1996-07-31	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; homologous to worm Y57G7A.10/EMC-2, fly CG17556, human TTC35
-S000032686	CDS					YJR088C		10	587373	586495	C		2011-02-03	1996-07-31	
-S000003849	ORF	Verified	YJR089W	BIR1		chromosome 10	L000004754	10	587718	590582	W		2011-02-03	1996-07-31	Subunit of chromosomal passenger complex (CPC); CPC is comprised of Ipl1p-Sli15p-Bir1p-Nbl1p and regulates chromosome segregation; required for chromosome bi-orientation and for spindle assembly checkpoint activation upon reduced sister kinetochore tension; relative distribution to shortened microtubules increases upon DNA replication stress; sumoylated in an Mms21p-dependent manner; human survivin homolog
-S000032816	CDS					YJR089W		10	587718	590582	W		2011-02-03	1996-07-31	
-S000003850	ORF	Verified	YJR090C	GRR1	SCF ubiquitin ligase complex subunit GRR1|SDC1|SSU2|COT2|CAT80	chromosome 10	L000000730	10	594327	590872	C	60	2011-02-03	1996-07-31	F-box protein component of an SCF ubiquitin-ligase complex; modular substrate specificity factor which associates with core SCF (Cdc53p, Skp1p and Hrt1p/Rbx1p) to form the SCF(Grr1) complex; SCF(Grr1) acts as a ubiquitin-protein ligase directing ubiquitination of substrates such as: Gic2p, Mks1p, Mth1p, Cln1p, Cln2p and Cln3p; involved in carbon catabolite repression, glucose-dependent divalent cation transport, glucose transport, morphogenesis, and sulfite detoxification
-S000032905	CDS					YJR090C		10	594327	590872	C		2011-02-03	1996-07-31	
-S000003851	ORF	Verified	YJR091C	JSN1	PUF1	chromosome 10	L000002964	10	598336	595061	C		2011-02-03	1996-07-31	Member of the Puf family of RNA-binding proteins; interacts with mRNAs encoding membrane-associated proteins; involved in localizing the Arp2/3 complex to mitochondria; overexpression causes increased sensitivity to benomyl; JSN1 has a paralog, PUF2, that arose from the whole genome duplication
-S000033011	CDS					YJR091C		10	598336	595061	C		2011-02-03	1996-07-31	
-S000003852	ORF	Verified	YJR092W	BUD4		chromosome 10	L000000201	10	598735	603078	W		2011-02-03	2004-04-20|1996-07-31|1997-07-27|2008-06-04	Anillin-like protein involved in bud-site selection; required for the axial budding pattern; required for the formation and disassembly of the double septin ring structure, and generally for septin organization; functions as a platform linking the cytokinesis tag septins to the axial landmark through its multiple domains; in vivo substrate of Cdc28p/Clb2p
-S000033797	CDS					YJR092W		10	598735	603078	W		2011-02-03	2004-04-20|1996-07-31|1997-07-27|2008-06-04	
-S000003853	ORF	Verified	YJR093C	FIP1	cleavage polyadenylation factor subunit FIP1	chromosome 10	L000002775	10	604203	603220	C		2011-02-03	1996-07-31	Subunit of cleavage polyadenylation factor (CPF); interacts directly with poly(A) polymerase (Pap1p) to regulate its activity; bridging factor that links Pap1p and the CPF complex via Yth1p
-S000033863	CDS					YJR093C		10	604203	603220	C		2011-02-03	1996-07-31	
-S000003854	ORF	Verified	YJR094C	IME1	transcription factor IME1	chromosome 10	L000000861	10	605651	604569	C		2011-02-03	1996-07-31	Master regulator of meiosis that is active only during meiotic events; activates transcription of early meiotic genes through interaction with Ume6p; degraded by the 26S proteasome following phosphorylation by Ime2p; transcription is negatively regulated in cis by the IRT1 long noncoding antisense RNA
-S000034019	CDS					YJR094C		10	605651	604569	C		2011-02-03	1996-07-31	
-S000178119	ncRNA_gene		IRT1	IRT1	SUT643	chromosome 10		10	607424	605936	C		2014-11-18	2014-11-18	Long noncoding RNA that governs mating-type control of gametogenesis; located in the IME1 promoter; in haploids, expression of IME1, the central inducer of gametogenesis, is inhibited in cis by transcription of IRT1, which recruits the Set2p histone methyltransferase and the Set3p histone deacetylase complex to establish repressive chromatin at the IME1 promoter
-S000178120	noncoding_exon					IRT1		10	607424	605936	C		2014-11-18	2014-11-18	
-S000003855	ORF	Verified	YJR094W-A	RPL43B	eL43|ribosomal 60S subunit protein L43B|L43e|L43B	chromosome 10	L000004470	10	608305	608858	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L43B; homologous to mammalian ribosomal protein L37A, no bacterial homolog; RPL43B has a paralog, RPL43A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000034757	CDS					YJR094W-A		10	608305	608306	W		2011-02-03	1996-07-31	
-S000034758	CDS					YJR094W-A		10	608582	608858	W		2011-02-03	1996-07-31	
-S000034759	intron					YJR094W-A		10	608307	608581	W		2011-02-03	1996-07-31	
-S000003856	ORF	Verified	YJR095W	SFC1	ACR1	chromosome 10	L000000023	10	609773	610741	W		2011-02-03	1996-07-31	Mitochondrial succinate-fumarate transporter; transports succinate into and fumarate out of the mitochondrion; required for ethanol and acetate utilization
-S000034990	CDS					YJR095W		10	609773	610741	W		2011-02-03	1996-07-31	
-S000003857	ORF	Verified	YJR096W		aldo-keto reductase superfamily protein	chromosome 10		10	611195	612043	W		2011-02-03	1996-07-31	Xylose and arabinose reductase; member of the aldo-keto reductase (AKR) family; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
-S000035147	CDS					YJR096W		10	611195	612043	W		2011-02-03	1996-07-31	
-S000003858	ORF	Verified	YJR097W	JJJ3	DPH4	chromosome 10		10	612413	612931	W		2011-02-03	1996-07-31	Protein of unknown function; contains a CSL Zn finger and a DnaJ-domain; involved in diphthamide biosynthesis; ortholog human Dph4
-S000035313	CDS					YJR097W		10	612413	612931	W		2011-02-03	1996-07-31	
-S000028456	ARS		ARS1019			chromosome 10		10	612846	613278			2011-02-03	2002-12-16	Autonomously Replicating Sequence
-S000003859	ORF	Uncharacterized	YJR098C			chromosome 10		10	615156	613186	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000036139	CDS					YJR098C		10	615156	613186	C		2011-02-03	1996-07-31|2011-02-03	
-S000003860	ORF	Verified	YJR099W	YUH1	ubiquitin-specific protease YUH1	chromosome 10	L000002565	10	615576	616286	W	57	2011-02-03	1996-07-31	Ubiquitin C-terminal hydrolase; cleaves ubiquitin-protein fusions to generate monomeric ubiquitin; hydrolyzes the peptide bond at the C-terminus of ubiquitin; also the major processing enzyme for the ubiquitin-like protein Rub1p
-S000036337	CDS					YJR099W		10	615576	616286	W		2011-02-03	1996-07-31	
-S000003861	ORF	Verified	YJR100C	AIM25	SLM35	chromosome 10		10	617334	616351	C		2011-02-03	1996-07-31	Mitochondria protein of unknown function; interacts genetically with TOR1 to regulate chronological lifespan, and the response to both heat shock and oxidative stress; involved in maintaining the integrity of the mitochondrial network; negative regulator of mitophagy flux; non-tagged protein is detected in purified mitochondria in high-throughput studies; null mutant is viable and displays an elevated frequency of mitochondrial genome loss; similar to murine NOR1
-S000033573	CDS					YJR100C		10	617334	616351	C		2011-02-03	1996-07-31	
-S000006654	tRNA_gene		tL(UAG)J			chromosome 10	L000003616	10	617919	618019	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000035855	intron					tL(UAG)J		10	617957	617975	W		2011-02-03	2000-05-19	
-S000035853	noncoding_exon					tL(UAG)J		10	617919	617956	W		2011-02-03	2000-05-19	
-S000035854	noncoding_exon					tL(UAG)J		10	617976	618019	W		2011-02-03	2000-05-19	
-S000003862	ORF	Verified	YJR101W	RSM26	mitochondrial 37S ribosomal protein RSM26	chromosome 10		10	618234	619034	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000034505	CDS					YJR101W		10	618234	619034	W		2011-02-03	1996-07-31	
-S000003863	ORF	Verified	YJR102C	VPS25	ESCRT-II subunit protein VPS25|VPL12|VPT25	chromosome 10		10	619765	619157	C		2011-02-03	1996-07-31	Component of the ESCRT-II complex; ESCRT-II is involved in ubiquitin-dependent sorting of proteins into the endosome
-S000034557	CDS					YJR102C		10	619765	619157	C		2011-02-03	1996-07-31	
-S000003864	ORF	Verified	YJR103W	URA8	CTP synthase URA8	chromosome 10	L000002437	10	620754	622490	W		2011-02-03	1996-07-31|2011-02-03	Minor CTP synthase isozyme (see also URA7); catalyzes the ATP-dependent transfer of the amide nitrogen from glutamine to UTP, forming CTP, the final step in de novo biosynthesis of pyrimidines; involved in phospholipid biosynthesis; capable of forming cytoplasmic filaments termed cytoophidium, especially during conditions of glucose depletion; URA8 has a paralog, URA7, that arose from the whole genome duplication
-S000034718	CDS					YJR103W		10	620754	622490	W		2011-02-03	1996-07-31|2011-02-03	
-S000003865	ORF	Verified	YJR104C	SOD1	superoxide dismutase SOD1|CRS4	chromosome 10	L000001978	10	623014	622550	C		2011-02-03	1996-07-31	Cytosolic copper-zinc superoxide dismutase; detoxifies superoxide; stabilizes Yck1p and Yck2p kinases in glucose to repress respiration; phosphorylated by Dun1p, enters nucleus under oxidative stress to promote transcription of stress response genes; human ortholog SOD1 implicated in ALS complements a null allele; abundance increases under DNA replication stress and during exposure to boric acid; localization to mitochondrial intermembrane space is modulated by MICOS complex
-S000035647	CDS					YJR104C		10	623014	622550	C		2011-02-03	1996-07-31	
-S000003866	ORF	Verified	YJR105W	ADO1	adenosine kinase	chromosome 10		10	623581	624603	W		2011-02-03	1996-07-31	Adenosine kinase; required for the utilization of S-adenosylmethionine (AdoMet); may be involved in recycling adenosine produced through the methyl cycle
-S000035831	CDS					YJR105W		10	623581	624603	W		2011-02-03	1996-07-31	
-S000003867	ORF	Verified	YJR106W	ECM27		chromosome 10	L000003898	10	624838	627015	W		2011-02-03	1996-07-31|2011-02-03	Protein involved in calcium homeostasis and exit from quiescence; required for proper trehalose levels during quiescence; may play a role in cell wall biosynthesis, mutants are hypersensitive to antifungal, Papulacandin B; null mutants have increased plasmid loss; interacts with Pdr5p
-S000035951	CDS					YJR106W		10	624838	627015	W		2011-02-03	1996-07-31|2011-02-03	
-S000003868	ORF	Uncharacterized	YJR107W	LIH1	putative lipase	chromosome 10		10	627340	628326	W		2011-02-03	1996-07-31|2011-02-03	Putative lipase
-S000037815	CDS					YJR107W		10	627340	628326	W		2011-02-03	1996-07-31|2011-02-03	
-S000003869	ORF	Verified	YJR108W	ABM1		chromosome 10		10	628712	629083	W		2011-02-03	1996-07-31	Protein of unknown function; required for normal microtubule organization
-S000037909	CDS					YJR108W		10	628712	629083	W		2011-02-03	1996-07-31	
-S000003870	ORF	Verified	YJR109C	CPA2	carbamoyl-phosphate synthase (glutamine-hydrolyzing) CPA2	chromosome 10	L000000400	10	632941	629585	C		2011-02-03	1996-07-31	Large subunit of carbamoyl phosphate synthetase; carbamoyl phosphate synthetase catalyzes a step in the synthesis of citrulline, an arginine precursor
-S000029885	CDS					YJR109C		10	632941	629585	C		2011-02-03	1996-07-31	
-S000003871	ORF	Verified	YJR110W	YMR1	phosphatidylinositol-3-phosphatase YMR1	chromosome 10		10	633615	635681	W		2011-02-03	1996-07-31	Phosphatidylinositol 3-phosphate (PI3P) phosphatase; involved in various protein sorting pathways, including CVT targeting and endosome to vacuole transport; has similarity to the conserved myotubularin dual specificity phosphatase family
-S000037677	CDS					YJR110W		10	633615	635681	W		2011-02-03	1996-07-31	
-S000003872	ORF	Verified	YJR111C	PXP2		chromosome 10		10	636706	635855	C		2011-02-03	1996-07-31	Peroxisomal matrix protein with naturally active promoter; well-conserved in fungi; localized to peroxisomes under physiological growth conditions; levels of some amino acids are altered upon both knockout and overexpression, suggesting potential involvement of Pxp2p in amino acid metabolism or related cellular metabolic processes (needs further study); GFP-fusion protein displays inherent dual localization with large proportion localizing to cytosol
-S000037709	CDS					YJR111C		10	636706	635855	C		2011-02-03	1996-07-31	
-S000003873	ORF	Verified	YJR112W	NNF1	MIND complex subunit NNF1	chromosome 10	L000003072	10	637030	637635	W		2011-02-03	1996-07-31	Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; required for accurate chromosome segregation; complex consists of Mtw1p Including Nnf1p-Nsl1p-Dsn1p (MIND)
-S000037783	CDS					YJR112W		10	637030	637635	W		2011-02-03	1996-07-31	
-S000028513	ORF	Uncharacterized	YJR112W-A			chromosome 10		10	637790	638168	W		2011-02-03	2003-07-29	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; identified based on homology to Ashbya gossypii
-S000030277	CDS					YJR112W-A		10	637790	637809	W		2011-02-03	2003-07-29	
-S000030278	CDS					YJR112W-A		10	637859	638168	W		2011-02-03	2003-07-29	
-S000030279	intron					YJR112W-A		10	637810	637858	W		2011-02-03	2003-07-29	
-S000003875	ORF	Dubious	YJR114W		SRF2	chromosome 10		10	638659	639051	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RSM7/YJR113C
-S000030784	CDS					YJR114W		10	638659	639051	W		2011-02-03	1996-07-31	
-S000003874	ORF	Verified	YJR113C	RSM7	mitochondrial 37S ribosomal protein RSM7	chromosome 10		10	638975	638232	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S7 ribosomal protein
-S000030623	CDS					YJR113C		10	638975	638232	C		2011-02-03	1996-07-31	
-S000003876	ORF	Uncharacterized	YJR115W			chromosome 10		10	639942	640451	W		2011-02-03	1996-07-31	Putative protein of unknown function; YJR115W has a paralog, ECM13, that arose from the whole genome duplication
-S000030893	CDS					YJR115W		10	639942	640451	W		2011-02-03	1996-07-31	
-S000003877	ORF	Uncharacterized	YJR116W	TDA4		chromosome 10		10	640825	641664	W		2011-02-03	1996-07-31	Putative protein of unknown function; null mutant is sensitive to expression of the top1-T722A allele
-S000031858	CDS					YJR116W		10	640825	641664	W		2011-02-03	1996-07-31	
-S000003878	ORF	Verified	YJR117W	STE24	zinc metalloprotease|PIO2|AFC1	chromosome 10	L000003457	10	642007	643368	W		2011-02-03	1996-07-31	Highly conserved zinc metalloprotease; functions in two steps of a-factor maturation, C-terminal CAAX proteolysis and the first step of N-terminal proteolytic processing; cleaves both isoprenylated and non-prenylated oligopeptides; contains multiple transmembrane spans; human homolog ZMPSTE24 implicated in mandibuloacral dysplasia (MAD), and can complement yeast null mutant
-S000032024	CDS					YJR117W		10	642007	643368	W		2011-02-03	1996-07-31	
-S000003879	ORF	Verified	YJR118C	ILM1		chromosome 10		10	644101	643490	C		2011-02-03	1996-07-31	Protein of unknown function; may be involved in mitochondrial DNA maintenance; required for slowed DNA synthesis-induced filamentous growth
-S000032105	CDS					YJR118C		10	644101	643490	C		2011-02-03	1996-07-31	
-S000003880	ORF	Verified	YJR119C	JHD2	histone demethylase|KDM5	chromosome 10		10	646490	644304	C		2011-02-03	1996-07-31	JmjC domain family histone demethylase; promotes global demethylation of H3K4 and repression of noncoding intergenic transcription during sporulation; removes methyl groups added by Set1p methyltransferase; negatively regulated by H3K14 acetylation; protein levels regulated by Not4p polyubiquitin-mediated degradation; regulates sporulation timing by extending period of active transcription in opposition to programmed global transcriptional quiescence; regulates rDNA silencing
-S000034072	CDS					YJR119C		10	646490	644304	C		2011-02-03	1996-07-31	
-S000003881	ORF	Verified	YJR120W			chromosome 10		10	647126	647476	W		2011-02-03	1996-07-31	Protein of unknown function; essential for growth under anaerobic conditions; mutation causes decreased expression of ATP2, impaired respiration, defective sterol uptake, and altered levels/localization of ABC transporters Aus1p and Pdr11p
-S000032979	CDS					YJR120W		10	647126	647476	W		2011-02-03	1996-07-31	
-S000003882	ORF	Verified	YJR121W	ATP2	F1F0 ATP synthase subunit beta	chromosome 10	L000000142	10	647607	649142	W		2011-02-03	1996-07-31	Beta subunit of the F1 sector of mitochondrial F1F0 ATP synthase; which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; F1 translationally regulates ATP6 and ATP8 expression to achieve a balanced output of ATP synthase genes encoded in nucleus and mitochondria; phosphorylated
-S000033071	CDS					YJR121W		10	647607	649142	W		2011-02-03	1996-07-31	
-S000003883	ORF	Verified	YJR122W	IBA57	CAF17	chromosome 10	L000003419	10	649776	651269	W		2011-02-03	1996-07-31	Protein involved in incorporating iron-sulfur clusters into proteins; mitochondrial matrix protein; involved in the incorporation of iron-sulfur clusters into mitochondrial aconitase-type proteins; activates the radical-SAM family members Bio2p and Lip5p; interacts with Ccr4p in the two-hybrid system
-S000033750	CDS					YJR122W		10	649776	651269	W		2011-02-03	1996-07-31	
-S000003884	ORF	Verified	YJR123W	RPS5	uS7|ribosomal 40S subunit protein S5|S7|rp14|YS8|S5|S2	chromosome 10	L000002821	10	651901	652578	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; least basic of non-acidic ribosomal proteins; phosphorylated in vivo; essential for viability; homologous to mammalian ribosomal protein S5 and bacterial S7
-S000033852	CDS					YJR123W		10	651901	652578	W		2011-02-03	1996-07-31	
-S000003885	ORF	Uncharacterized	YJR124C			chromosome 10		10	654238	652892	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression induced under calcium shortage
-S000033876	CDS					YJR124C		10	654238	652892	C		2011-02-03	1996-07-31	
-S000028457	ARS		ARS1020		ARSX-654	chromosome 10		10	654375	654614			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
-S000003886	ORF	Verified	YJR125C	ENT3		chromosome 10		10	655963	654737	C		2011-02-03	1996-07-31	Protein containing an N-terminal epsin-like domain; involved in clathrin recruitment and traffic between the Golgi and endosomes; associates with the clathrin adaptor Gga2p
-S000034017	CDS					YJR125C		10	655963	654737	C		2011-02-03	1996-07-31	
-S000003887	ORF	Verified	YJR126C	VPS70	putative zinc metalloprotease	chromosome 10		10	658689	656254	C		2011-02-03	1996-07-31	Protein of unknown function involved in vacuolar protein sorting; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
-S000034920	CDS					YJR126C		10	658689	656254	C		2011-02-03	1996-07-31	
-S000003889	ORF	Dubious	YJR128W			chromosome 10		10	662921	663280	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RSF2
-S000036069	CDS					YJR128W		10	662921	663280	W		2011-02-03	1996-07-31	
-S000003888	ORF	Verified	YJR127C	RSF2	ZMS1	chromosome 10	L000002569	10	663059	658917	C		2011-02-03	1996-07-31	Zinc-finger protein; involved in transcriptional control of both nuclear and mitochondrial genes, many of which specify products required for glycerol-based growth, respiration, and other functions; RSF2 has a paralog, TDA9, that arose from the whole genome duplication; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000035071	CDS					YJR127C		10	663059	658917	C		2011-02-03	1996-07-31	
-S000006492	snoRNA_gene		snR3	SNR3		chromosome 10	L000001958	10	663749	663942	W		2011-02-03	2000-05-19|2007-05-08	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U2129, U2133, and U2264
-S000034301	noncoding_exon					snR3		10	663749	663942	W		2011-02-03	2000-05-19|2007-05-08	
-S000003890	ORF	Verified	YJR129C	EFM3	protein-lysine N-methyltransferase	chromosome 10		10	665019	664000	C		2011-02-03	1996-07-31|2011-02-03	S-adenosylmethionine-dependent methyltransferase; seven-beta-strand lysine methyltransferase which trimethylates translation elongation factor EF2 (Eft1p and Eft2p) at lysine 509; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; ortholog of human gene FAM86A
-S000036155	CDS					YJR129C		10	665019	664000	C		2011-02-03	1996-07-31|2011-02-03	
-S000003891	ORF	Verified	YJR130C	STR2	cystathionine gamma-synthase	chromosome 10		10	667137	665218	C		2011-02-03	1996-07-31	Cystathionine gamma-synthase, converts cysteine into cystathionine; STR2 has a paralog, YML082W, that arose from the whole genome duplication
-S000036945	CDS					YJR130C		10	667137	665218	C		2011-02-03	1996-07-31	
-S000003892	ORF	Verified	YJR131W	MNS1	mannosyl-oligosaccharide 1,2-alpha-mannosidase	chromosome 10	L000001130	10	667644	669293	W		2011-02-03	1996-07-31	Alpha-1,2-mannosidase; involved in ER-associated protein degradation (ERAD); catalyzes the removal of one mannose residue from a glycosylated protein, converting the modification from Man9GlcNAc to Man8GlcNAc; catalyzes the last step in glycoprotein maturation in the ER and is critical for ER protein degradation
-S000037068	CDS					YJR131W		10	667644	669293	W		2011-02-03	1996-07-31	
-S000003893	ORF	Verified	YJR132W	NMD5	KAP119	chromosome 10	L000002939	10	669522	672668	W		2011-02-03	1996-07-31|2011-02-03	Karyopherin; a carrier protein involved in nuclear import of proteins; importin beta homolog
-S000037153	CDS					YJR132W		10	669522	672668	W		2011-02-03	1996-07-31|2011-02-03	
-S000003894	ORF	Verified	YJR133W	XPT1	xanthine phosphoribosyltransferase	chromosome 10		10	672991	673620	W		2011-02-03	1996-07-31	Xanthine-guanine phosphoribosyl transferase; required for xanthine utilization and for optimal utilization of guanine
-S000037899	CDS					YJR133W		10	672991	673620	W		2011-02-03	1996-07-31	
-S000003895	ORF	Verified	YJR134C	SGM1		chromosome 10		10	675852	673729	C		2011-02-03	1996-07-31	Protein of unknown function; required for wild-type growth rate on galactose and mannose; localizes to COPI coated vesicles and the Golgi apparatus
-S000029858	CDS					YJR134C		10	675852	673729	C		2011-02-03	1996-07-31	
-S000003896	ORF	Verified	YJR135C	MCM22		chromosome 10	L000003999	10	676778	676059	C		2011-02-03	1996-07-31	Outer kinetochore protein and component of the Ctf3 subcomplex; binds to centromeric DNA in a Ctf19p-dependent manner; involved in chromosome segregation and minichromosome maintenance; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-K and fission yeast sim4
-S000030000	CDS					YJR135C		10	676778	676059	C		2011-02-03	1996-07-31	
-S000007348	ORF	Verified	YJR135W-A	TIM8	protein transporter TIM8	chromosome 10		10	676971	677234	W		2011-02-03	1999-07-17	Mitochondrial intermembrane space protein; forms a complex with Tim13p that delivers a subset of hydrophobic proteins to the TIM22 complex for inner membrane insertion; homolog of human TIMM8A, implicated in Mohr-Tranebjaerg syndrome, also known as deafness-dystonia-optic neuronopathy (DDON) syndrome; human TIMM8A can complement yeast null mutant
-S000032075	CDS					YJR135W-A		10	676971	677234	W		2011-02-03	1999-07-17	
-S000003897	ORF	Verified	YJR136C	TTI2		chromosome 10		10	678706	677441	C		2011-02-03	1996-07-31	Subunit of the ASTRA complex, involved in chromatin remodeling; telomere length regulator involved in the stability or biogenesis of PIKKs such as TORC1; involved in the cellular stress response; similar to S. pombe Tti2p; may interact with Rsm23p; GFP-fusion protein localizes to the cytoplasm
-S000030982	CDS					YJR136C		10	678706	677441	C		2011-02-03	1996-07-31	
-S000003898	ORF	Verified	YJR137C	MET5	sulfite reductase (NADPH) subunit beta|ECM17	chromosome 10	L000001080|L000003892	10	683285	678957	C	84	2011-02-03	1996-07-31	Sulfite reductase beta subunit; involved in amino acid biosynthesis, transcription repressed by methionine
-S000031082	CDS					YJR137C		10	683285	678957	C		2011-02-03	1996-07-31	
-S000007553	ARS		ARS1021		ARS121	chromosome 10		10	684009	684098			2014-11-18	2000-10-17|2014-11-18	Autonomously Replicating Sequence
-S000003899	ORF	Verified	YJR138W	IML1	SEA1	chromosome 10		10	684567	689321	W		2011-02-03	1996-07-31|2011-02-03	GTPase-activating protein (GAP) subunit of the Iml1p/SEACIT complex; SEACIT (Iml1p-Npr2p-Npr3p) is a subcomplex of the SEA complex, a coatomer-related complex that associates dynamically with the vacuole; Iml1p functions in the SEACIT complex as a GAP for the Rag family GTPase Gtr1p (EGOC subunit), resulting in the inhibition of TORC1 signaling in response to amino acid deprivation; the Iml1p/SEACIT complex is required for non-nitrogen-starvation (NNS)-induced autophagy
-S000031284	CDS					YJR138W		10	684567	689321	W		2011-02-03	1996-07-31|2011-02-03	
-S000003900	ORF	Verified	YJR139C	HOM6	homoserine dehydrogenase|THR6	chromosome 10	L000000801	10	690524	689445	C	87	2011-02-03	1996-07-31	Homoserine dehydrogenase (L-homoserine:NADP oxidoreductase); dimeric enzyme that catalyzes the third step in the common pathway for methionine and threonine biosynthesis; enzyme has nucleotide-binding, dimerization and catalytic regions
-S000032214	CDS					YJR139C		10	690524	689445	C		2011-02-03	1996-07-31	
-S000028666	ORF	Dubious	YJR140W-A			chromosome 10		10	690961	691110	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene HIR3; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032491	CDS					YJR140W-A		10	690961	691110	W		2011-02-03	2003-07-29	
-S000003901	ORF	Verified	YJR140C	HIR3	HPC1	chromosome 10	L000003127	10	695696	690750	C		2011-02-03	1996-07-31	Subunit of the HIR complex; a nucleosome assembly complex involved in regulation of histone gene transcription; involved in position-dependent gene silencing and nucleosome reassembly; ortholog of human CABIN1 protein
-S000032216	CDS					YJR140C		10	695696	690750	C		2011-02-03	1996-07-31	
-S000003902	ORF	Uncharacterized	YJR141W	IPA1	putative polyadenylation protein	chromosome 10		10	695906	696949	W		2011-02-03	1996-07-31	Essential protein of unknown function
-S000033127	CDS					YJR141W		10	695906	696949	W		2011-02-03	1996-07-31	
-S000003903	ORF	Verified	YJR142W			chromosome 10		10	697141	698169	W		2011-02-03	1996-07-31	8-oxo-dGTP diphosphatase of the Nudix hydrolase family; converts diphosphates of damaged forms of thiamin to monophosphates; GST fusion protein is a Dbf2p-Mob1p phosphorylation target in a proteome chip analysis; synthetic lethal with PH085 deletion; plays a role in restricting Ty1 transposition
-S000033186	CDS					YJR142W		10	697141	698169	W		2011-02-03	1996-07-31	
-S000003904	ORF	Verified	YJR143C	PMT4	dolichyl-phosphate-mannose-protein mannosyltransferase	chromosome 10	L000002623	10	700614	698326	C		2011-02-03	1996-07-31	Protein O-mannosyltransferase; transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues; appears to form homodimers in vivo and does not complex with other Pmt proteins; target for new antifungals
-S000033214	CDS					YJR143C		10	700614	698326	C		2011-02-03	1996-07-31	
-S000003905	ORF	Verified	YJR144W	MGM101	MGM9	chromosome 10	L000001104	10	700882	701691	W		2011-02-03	1996-07-31	Protein with a role in mitochondrial DNA recombinational repair; also involved in interstrand cross-link repair; binds to and catalyzes the annealing of single-stranded mtDNA; oligomerizes to form rings and filaments; related to Rad52-type recombination proteins, with limited overall similarity but sharing conserved functionally important residues; component of the mitochondrial nucleoid, required for the repair of oxidative mtDNA damage and mitochondrial genome maintenance
-S000033297	CDS					YJR144W		10	700882	701691	W		2011-02-03	1996-07-31	
-S000003906	ORF	Verified	YJR145C	RPS4A	eS4|ribosomal 40S subunit protein S4A|S4e|rp5|YS6|S7A|S4A	chromosome 10	L000001751	10	703068	702027	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; mutation affects 20S pre-rRNA processing; homologous to mammalian ribosomal protein S4, no bacterial homolog; RPS4A has a paralog, RPS4B, that arose from the whole genome duplication
-S000034116	CDS					YJR145C		10	702798	702027	C		2011-02-03	1996-07-31	
-S000034115	CDS					YJR145C		10	703068	703055	C		2011-02-03	1996-07-31	
-S000034117	intron					YJR145C		10	703054	702799	C		2011-02-03	1996-07-31	
-S000003907	ORF	Uncharacterized	YJR146W			chromosome 10		10	703885	704238	W		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; partially overlaps HMS2
-S000034307	CDS					YJR146W		10	703885	704238	W		2011-02-03	1996-07-31	
-S000003908	ORF	Verified	YJR147W	HMS2		chromosome 10	L000004442	10	704196	705272	W		2011-02-03	1996-07-31	Protein with similarity to heat shock transcription factors; overexpression suppresses the pseudohyphal filamentation defect of a diploid mep1 mep2 homozygous null mutant; HMS2 has a paralog, SKN7, that arose from the whole genome duplication
-S000034417	CDS					YJR147W		10	704196	705272	W		2011-02-03	1996-07-31	
-S000003909	ORF	Verified	YJR148W	BAT2	branched-chain-amino-acid transaminase BAT2|ECA40|TWT2	chromosome 10	L000003082	10	705744	706874	W		2011-02-03	1996-07-31	Cytosolic branched-chain amino acid (BCAA) aminotransferase; preferentially involved in BCAA catabolism; homolog of murine ECA39; highly expressed during stationary phase and repressed during logarithmic phase; BAT2 has a paralog, BAT1, that arose from the whole genome duplication
-S000035457	CDS					YJR148W		10	705744	706874	W		2011-02-03	1996-07-31	
-S000003910	ORF	Uncharacterized	YJR149W		putative nitronate monooxygenase	chromosome 10		10	707160	708374	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000035545	CDS					YJR149W		10	707160	708374	W		2011-02-03	1996-07-31|2011-02-03	
-S000003911	ORF	Verified	YJR150C	DAN1	CCW13	chromosome 10	L000003381	10	709707	708811	C		2011-02-03	1996-07-31|2011-02-03	Cell wall mannoprotein; has similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
-S000036513	CDS					YJR150C		10	709707	708811	C		2011-02-03	1996-07-31|2011-02-03	
-S000028458	ARS		ARS1022		ARSX-712	chromosome 10		10	711896	712142			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
-S000003912	ORF	Verified	YJR151C	DAN4		chromosome 10		10	715740	712255	C		2011-02-03	1996-07-31|2011-02-03	Cell wall mannoprotein; has similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
-S000036600	CDS					YJR151C		10	715740	712255	C		2011-02-03	1996-07-31|2011-02-03	
-S000028557	ORF	Uncharacterized	YJR151W-A			chromosome 10		10	717580	717630	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR; predicted to have a role in transcription based on computational "guilt by association" analysis
-S000031243	CDS					YJR151W-A		10	717580	717630	W		2011-02-03	2003-07-29	
-S000003913	ORF	Verified	YJR152W	DAL5	allantoate permease|UREP1	chromosome 10	L000000478	10	719666	721297	W	97	2011-02-03	1996-07-31	Allantoate permease; ureidosuccinate permease; also transports dipeptides, though with lower affinity than for allantoate and ureidosuccinate; expression is constitutive but sensitive to nitrogen catabolite repression
-S000037362	CDS					YJR152W		10	719666	721297	W		2011-02-03	1996-07-31	
-S000003914	ORF	Verified	YJR153W	PGU1	PSM1|PGL1	chromosome 10	L000004371|L000004261	10	722815	723900	W		2011-02-03	1996-07-31	Endo-polygalacturonase; pectolytic enzyme that hydrolyzes the alpha-1,4-glycosidic bonds in the rhamnogalacturonan chains in pectins
-S000037481	CDS					YJR153W		10	722815	723900	W		2011-02-03	1996-07-31	
-S000003915	ORF	Uncharacterized	YJR154W			chromosome 10		10	725784	726824	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000030205	CDS					YJR154W		10	725784	726824	W		2011-02-03	1996-07-31	
-S000003916	ORF	Verified	YJR155W	AAD10	putative aryl-alcohol dehydrogenase	chromosome 10	L000004639	10	727405	728271	W		2011-02-03	1996-07-31	Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
-S000030387	CDS					YJR155W		10	727405	728271	W		2011-02-03	1996-07-31	
-S000003917	ORF	Verified	YJR156C	THI11	4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase	chromosome 10	L000003222	10	729596	728574	C		2011-02-03	1996-07-31	Protein involved in synthesis of the thiamine precursor HMP; member of a subtelomeric gene family including THI5, THI11, THI12, and THI13; hydroxymethylpyrimidine is also known as HMP
-S000030438	CDS					YJR156C		10	729596	728574	C		2011-02-03	1996-07-31	
-S000028459	ARS		ARS1023			chromosome 10		10	729983	730513			2011-02-03	2002-12-16	Autonomously Replicating Sequence
-S000003918	ORF	Dubious	YJR157W			chromosome 10		10	730515	730877	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031435	CDS					YJR157W		10	730515	730877	W		2011-02-03	1996-07-31	
-S000003919	ORF	Verified	YJR158W	HXT16	HLT3|hexose transporter HXT16	chromosome 10	L000003264	10	732440	734143	W		2011-02-03	1996-07-31	Putative transmembrane polyol transporter; supports growth on and uptake of sorbitol with moderate affinity and mannitol with lower affinity when overexpressed in a strain deleted for hexose family members; minor hexose transport activity when overexpressed in a similar strain; similarity to hexose transporters; expression is repressed by high levels of glucose
-S000031532	CDS					YJR158W		10	732440	734143	W		2011-02-03	1996-07-31	
-S000003920	ORF	Verified	YJR159W	SOR1	L-iditol 2-dehydrogenase SOR1|SDH1	chromosome 10	L000002753	10	736044	737117	W		2011-02-03	1996-07-31	Sorbitol dehydrogenase; protein sequence is 99% identical to the Sor2p sorbitol dehydrogenase; expression is induced in the presence of sorbitol or xylose
-S000031666	CDS					YJR159W		10	736044	737117	W		2011-02-03	1996-07-31	
-S000028460	ARS		ARS1024		ARSX-737	chromosome 10		10	737034	737275			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
-S000003921	ORF	Verified	YJR160C	MPH3	alpha-glucoside permease	chromosome 10		10	739816	738008	C		2011-02-03	1996-07-31	Alpha-glucoside permease; transports maltose, maltotriose, alpha-methylglucoside, and turanose; identical to Mph2p; encoded in a subtelomeric position in a region likely to have undergone duplication
-S000031772	CDS					YJR160C		10	739816	738008	C		2011-02-03	1996-07-31	
-S000003922	ORF	Verified	YJR161C	COS5		chromosome 10	L000004063	10	743999	742848	C		2011-02-03	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000031918	CDS					YJR161C		10	743999	742848	C		2011-02-03	1996-07-31	
-S000028461	ARS		ARS1025			chromosome 10		10	744408	745008			2011-02-03	2002-12-16	Autonomously Replicating Sequence
-S000178126	ARS_consensus_sequence					ARS1025		10	744632	744648	W		2014-11-18	2014-11-18	
-S000028974	telomere		TEL10R			chromosome 10		10	744902	745751	W	100	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome X; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
-S000028975	telomeric_repeat					TEL10R		10	745663	745751	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome X
-S000028976	X_element					TEL10R		10	744902	745361	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome X; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YJR162C
-S000028977	X_element_combinatorial_repeat					TEL10R		10	745362	745662	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr X; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000003923	ORF	Dubious	YJR162C			chromosome 10		10	745261	744911	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032831	CDS					YJR162C		10	745261	744911	C		2011-02-03	1996-07-31	
-S000001708	ORF	Dubious	YKL225W			chromosome 11		11	451	798	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032685	CDS					YKL225W		11	451	798	W		2011-02-03	1996-07-31	
-S000028906	telomere		TEL11L			chromosome 11		11	807	1	C	-162	2011-02-03	2003-09-09|2011-02-03	Telomeric region on the left arm of Chromosome XI; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
-S000028907	telomeric_repeat					TEL11L		11	67	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome XI
-S000028908	X_element					TEL11L		11	807	347	C		2011-02-03	2003-09-09|2011-02-03	Telomeric X element Core sequence on the left arm of Chromosome XI; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YKL225W
-S000028909	X_element_combinatorial_repeat					TEL11L		11	346	68	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XI; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000001707	ORF	Verified	YKL224C	PAU16	seripauperin PAU16	chromosome 11		11	2181	1810	C		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole
-S000031625	CDS					YKL224C		11	2181	1810	C		2011-02-03	1996-07-31	
-S000001706	ORF	Dubious	YKL223W			chromosome 11		11	2389	2721	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031556	CDS					YKL223W		11	2389	2721	W		2011-02-03	1996-07-31	
-S000001705	ORF	Verified	YKL222C			chromosome 11		11	5620	3503	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; similar to transcriptional regulators from the zinc cluster (binuclear cluster) family; null mutant is sensitive to caffeine
-S000031466	CDS					YKL222C		11	5620	3503	C		2011-02-03	1996-07-31	
-S000001704	ORF	Verified	YKL221W	MCH2		chromosome 11		11	6107	7528	W		2011-02-03	1996-07-31|2011-02-03	Protein with similarity to mammalian monocarboxylate permeases; monocarboxylate permeases are involved in transport of monocarboxylic acids across the plasma membrane but mutant is not deficient in monocarboxylate transport
-S000031419	CDS					YKL221W		11	6107	7528	W		2011-02-03	1996-07-31|2011-02-03	
-S000130137	ARS		ARS1102		ARSXI-8	chromosome 11		11	7528	8309			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000001703	ORF	Verified	YKL220C	FRE2	ferric/cupric-chelate reductase	chromosome 11	L000002805	11	11226	9091	C		2011-02-03	1996-07-31	Ferric reductase and cupric reductase; reduces siderophore-bound iron and oxidized copper prior to uptake by transporters; expression induced by low iron levels but not by low copper levels
-S000031305	CDS					YKL220C		11	11226	9091	C		2011-02-03	1996-07-31	
-S000001702	ORF	Verified	YKL219W	COS9		chromosome 11	L000004067	11	14485	15708	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000030515	CDS					YKL219W		11	14485	15708	W		1996-07-31	1996-07-31	
-S000001701	ORF	Verified	YKL218C	SRY1	threo-3-hydroxy-L-aspartate ammonia-lyase SRY1	chromosome 11	S000007485	11	18339	17359	C		1996-07-31	1996-07-31	3-hydroxyaspartate dehydratase; deaminates L-threo-3-hydroxyaspartate to form oxaloacetate and ammonia; required in the presence of hydroxyaspartate; highly similar to mouse serine racemase (Srr) but has no serine racemase activity
-S000037646	CDS					YKL218C		11	18339	17359	C		1996-07-31	1996-07-31	
-S000001700	ORF	Verified	YKL217W	JEN1		chromosome 11	L000002666	11	22234	24084	W		1996-07-31	1996-07-31	Monocarboxylate/proton symporter of the plasma membrane; transport activity is dependent on the pH gradient across the membrane; mediates high-affinity uptake of carbon sources lactate, pyuvate, and acetate, and also of the micronutrient selenite, whose structure mimics that of monocarboxylates; expression and localization are tightly regulated, with transcription repression, mRNA degradation, and protein endocytosis and degradation all occurring in the presence of glucose
-S000037602	CDS					YKL217W		11	22234	24084	W		1996-07-31	1996-07-31	
-S000001699	ORF	Verified	YKL216W	URA1	dihydroorotate dehydrogenase	chromosome 11	L000002430	11	25215	26159	W	-159.7	2011-02-03	1996-07-31	Dihydroorotate dehydrogenase; catalyzes the fourth enzymatic step in the de novo biosynthesis of pyrimidines, converting dihydroorotic acid into orotic acid
-S000037467	CDS					YKL216W		11	25215	26159	W		2011-02-03	1996-07-31	
-S000001698	ORF	Verified	YKL215C	OXP1	5-oxoprolinase	chromosome 11		11	30687	26827	C		2011-02-03	1996-07-31	5-oxoprolinase; enzyme is ATP-dependent and functions as a dimer; similar to mouse Oplah gene; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; protein abundance increases in response to DNA replication stress
-S000036677	CDS					YKL215C		11	30687	26827	C		2011-02-03	1996-07-31	
-S000001697	ORF	Verified	YKL214C	YRA2		chromosome 11		11	31693	31082	C		2011-02-03	1996-07-31	Member of the REF (RNA and export factor binding proteins) family; when overexpressed, can substitute for the function of Yra1p in export of poly(A)+ mRNA from the nucleus
-S000036577	CDS					YKL214C		11	31693	31082	C		2011-02-03	1996-07-31	
-S000001696	ORF	Verified	YKL213C	DOA1	ZZZ4|UFD3	chromosome 11	L000002961	11	34107	31960	C		2011-02-03	1996-07-31	WD repeat protein required for ubiquitin-mediated protein degradation; ubiquitin binding cofactor that complexes with Cdc48p; required for ribophagy; controls cellular ubiquitin concentration; promotes efficient NHEJ in postdiauxic/stationary phase; facilitates N-terminus-dependent proteolysis of centromeric histone H3 (Cse4p) for faithful chromosome segregation; protein increases in abundance and relocalizes from nucleus to nuclear periphery upon DNA replication stress
-S000036488	CDS					YKL213C		11	34107	31960	C		2011-02-03	1996-07-31	
-S000001695	ORF	Verified	YKL212W	SAC1	phosphatidylinositol-3-phosphatase SAC1|RSD1	chromosome 11	L000001790	11	34543	36414	W	-153.8	2011-02-03	1996-07-31	Phosphatidylinositol phosphate (PtdInsP) phosphatase; involved in hydrolysis of PtdIns[4]P in the early and medial Golgi; regulated by interaction with Vps74p; ER localized transmembrane protein which cycles through the Golgi; involved in protein trafficking and processing, secretion, and cell wall maintenance; regulates sphingolipid biosynthesis through the modulation of PtdIns(4)P metabolism
-S000036459	CDS					YKL212W		11	34543	36414	W		2011-02-03	1996-07-31	
-S000001694	ORF	Verified	YKL211C	TRP3	bifunctional anthranilate synthase/indole-3-glycerol-phosphate synthase	chromosome 11	L000002354	11	38153	36699	C	-153.8	2011-02-03	1996-07-31	Indole-3-glycerol-phosphate synthase; forms bifunctional hetero-oligomeric anthranilate synthase:indole-3-glycerol phosphate synthase enzyme complex with Trp2p
-S000035520	CDS					YKL211C		11	38153	36699	C		2011-02-03	1996-07-31	
-S000006455	snoRNA_gene		snR64	SNR64		chromosome 11	L000004533	11	38811	38911	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C2337
-S000030843	noncoding_exon					snR64		11	38811	38911	W		2011-02-03	2000-05-19	
-S000001693	ORF	Verified	YKL210W	UBA1	E1 ubiquitin-activating protein UBA1	chromosome 11	L000002405	11	39163	42237	W	-153.3	2011-02-03	1996-07-31	Ubiquitin activating enzyme (E1); involved in ubiquitin-mediated protein degradation and essential for viability; protein abundance increases in response to DNA replication stress
-S000035493	CDS					YKL210W		11	39163	42237	W		2011-02-03	1996-07-31	
-S000001692	ORF	Verified	YKL209C	STE6	ATP-binding cassette a-factor transporter STE6	chromosome 11	L000002116	11	46295	42423	C	-152.3	2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; required for the export of a-factor, catalyzes ATP hydrolysis coupled to a-factor transport; contains 12 transmembrane domains and two ATP binding domains; expressed only in MATa cells; human homolog ABCB1 mediates multidrug resistance in many chemotherapy-resistant tumors by effluxing toxic compounds from the cell
-S000035512	CDS					YKL209C		11	46295	42423	C		2011-02-03	1996-07-31	
-S000006748	tRNA_gene		tT(CGU)K	TRT2		chromosome 11	L000003644	11	46806	46735	C		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis; correct folding and efficient aminoacylation require Lhp1p
-S000032223	noncoding_exon					tT(CGU)K		11	46806	46735	C		2011-02-03	2000-05-19	
-S000001691	ORF	Verified	YKL208W	CBT1	SOC1	chromosome 11	L000004295|S000029465|L000004597	11	47157	47972	W		2011-02-03	1996-07-31	Protein involved in 5' RNA end processing; substrates include mitochondrial COB, 15S_rRNA, and RPM1 transcripts; may also have a role in 3' end processing of the COB pre-mRNA; displays genetic interaction with cell cycle-regulated kinase Dbf2p
-S000034559	CDS					YKL208W		11	47157	47972	W		2011-02-03	1996-07-31	
-S000001690	ORF	Verified	YKL207W	EMC3	AIM27|LRC3	chromosome 11		11	48194	48955	W		2011-02-03	2004-02-13|1996-07-31|2006-05-08	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; required for respiratory growth; null mutant displays induction of the unfolded protein response; homologous to worm Y62E10A.10/EMC-3, fly CG6750, human TMEM111
-S000034425	CDS					YKL207W		11	48194	48955	W		2011-02-03	2004-02-13|1996-07-31|2006-05-08	
-S000001689	ORF	Verified	YKL206C	ADD66	POC2|PBA2	chromosome 11		11	49809	49006	C		2011-02-03	1996-07-31	Protein involved in 20S proteasome assembly; forms a heterodimer with Pba1p that binds to proteasome precursors; interaction with Pba1p-Add66p may affect function of the mature proteasome and its role in maintaining respiratory metabolism; similar to human PAC2 constituent of the PAC1-PAC2 complex involved in proteasome assembly
-S000034304	CDS					YKL206C		11	49809	49006	C		2011-02-03	1996-07-31	
-S000001688	ORF	Verified	YKL205W	LOS1	Ran GTPase-binding protein LOS1	chromosome 11	L000000950	11	50051	53353	W	-149.7	2011-02-03	1996-07-31	Nuclear pore protein; involved in nuclear export of pre-tRNA and in re-export of mature tRNAs after their retrograde import from the cytoplasm; deletion mutation extends replicative lifespan, as does exclusion of Los1p from the nucleus in response to caloric restriction
-S000034266	CDS					YKL205W		11	50051	53353	W		2011-02-03	1996-07-31	
-S000001687	ORF	Verified	YKL204W	EAP1		chromosome 11		11	53704	55602	W		2011-02-03	1996-07-31	eIF4E-associated protein, competes with eIF4G for binding to eIF4E; accelerates mRNA degradation by promoting decapping, facilitated by interaction with eIF4E; essential for Puf5p mediated repression; associates with Puf5p and Dhh1p; inhibits cap-dependent translation; functions independently of eIF4E to maintain genetic stability; plays a role in cell growth, implicated in the TOR signaling cascade
-S000033363	CDS					YKL204W		11	53704	55602	W		2011-02-03	1996-07-31	
-S000118401	ARS		ARS1103		ARSXI-56	chromosome 11		11	55671	55917			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178127	ARS_consensus_sequence					ARS1103		11	55867	55851	C		2014-11-18	2014-11-18	
-S000001686	ORF	Verified	YKL203C	TOR2	phosphatidylinositol kinase-related protein kinase TOR2|DRR2	chromosome 11	L000002323	11	63359	55935	C	-152.3	2011-02-03	2004-02-13|1996-07-31	PIK-related protein kinase and rapamycin target; subunit of TORC1, a complex that regulates growth in response to nutrients and TORC2, a complex that regulates cell-cycle dependent polarization of the actin cytoskeleton; involved in meiosis; TOR2 has a paralog, TOR1, that arose from the whole genome duplication
-S000033266	CDS					YKL203C		11	63359	55935	C		2011-02-03	2004-02-13|1996-07-31	
-S000001685	ORF	Dubious	YKL202W			chromosome 11		11	63821	64402	W		2011-02-03	2001-05-31|1996-07-31|1999-03-12	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033230	CDS					YKL202W		11	63821	64402	W		2011-02-03	2001-05-31|1996-07-31|1999-03-12	
-S000001684	ORF	Verified	YKL201C	MNN4	YKL200C	chromosome 11	L000001128	11	67466	63930	C	-132.6	2011-02-03	2001-05-31|1996-07-31|1999-03-12	Putative positive regulator of mannosylphosphate transferase Mnn6p; involved in mannosylphosphorylation of N-linked oligosaccharides; expression increases in late-logarithmic and stationary growth phases; coding sequence contains length polymorphisms in different strains; MNN4 has a paralog, YJR061W, that arose from the whole genome duplication
-S000032315	CDS					YKL201C		11	67466	63930	C		2011-02-03	2001-05-31|1999-03-12|1996-07-31	
-S000001681	ORF	Verified	YKL198C	PTK1	putative serine/threonine protein kinase PTK1|POT1|YKT9|YKL199C|STK1|KKT8	chromosome 11	L000003491	11	70220	68232	C		2011-02-03	2003-01-08|1999-03-12|1996-07-31|2011-02-03	Putative serine/threonine protein kinase; regulates spermine uptake; involved in polyamine transport; possible mitochondrial protein; PTK1 has a paralog, PTK2, that arose from the whole genome duplication
-S000034854	CDS					YKL198C		11	70220	68232	C		2011-02-03	2003-01-08|1996-07-31|1999-03-12|2011-02-03	
-S000001680	ORF	Verified	YKL197C	PEX1	AAA family ATPase peroxin 1|PAS1	chromosome 11	L000001337	11	73865	70734	C		2011-02-03	1996-07-31	AAA-peroxin; heterodimerizes with AAA-peroxin Pex6p and participates in the recycling of peroxisomal signal receptor Pex5p from the peroxisomal membrane to the cystosol; induced by oleic acid and upregulated during anaerobiosis; mutations in human PEX1 can lead to severe peroxisomal disorders and early death
-S000033983	CDS					YKL197C		11	73865	70734	C		2011-02-03	1996-07-31	
-S000007055	long_terminal_repeat		YKLWdelta1			chromosome 11		11	74236	74518	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006671	tRNA_gene		tN(GUU)K			chromosome 11	L000003629	11	74624	74697	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000030740	noncoding_exon					tN(GUU)K		11	74624	74697	W		2011-02-03	2000-05-19	
-S000001679	ORF	Verified	YKL196C	YKT6	palmitoyltransferase YKT6	chromosome 11	L000004163	11	75534	74932	C		2011-02-03	1996-07-31	Vesicle membrane protein (v-SNARE) with acyltransferase activity; involved in trafficking to and within the Golgi, endocytic trafficking to the vacuole, and vacuolar fusion; membrane localization due to prenylation at the carboxy-terminus; human homolog YKT6 can complement yeast ykt6 mutant
-S000033862	CDS					YKL196C		11	75534	74932	C		2011-02-03	1996-07-31	
-S000001678	ORF	Verified	YKL195W	MIA40	TIM40|FMP15	chromosome 11		11	75821	77032	W		2011-02-03	2003-09-22|1996-07-31	Import and assembly protein in mitochondrial intermembrane space; component of MIA pathway which mediates import and oxidative folding of substrates including small proteins containing twin cysteine motifs; acts in concert with Erv1p, which oxidizes the cysteine residues of Mia40p to comprise a disulfide relay system that catalyzes import; also mediates folding of Atp23p via a chaperone-like activity; forms a dimer that binds iron-sulfur cluster in vitro
-S000033827	CDS					YKL195W		11	75821	77032	W		2011-02-03	2003-09-22|1996-07-31	
-S000001677	ORF	Verified	YKL194C	MST1	threonine--tRNA ligase MST1	chromosome 11	L000001207	11	78646	77258	C		2011-02-03	1996-07-31	Mitochondrial threonyl-tRNA synthetase; aminoacylates both the canonical threonine tRNA tT(UGU)Q1 and the unusual threonine tRNA tT(UAG)Q2 in vitro; lacks a typical editing domain, but has pre-transfer editing activity stimulated by the unusual tRNA-Thr
-S000030386	CDS					YKL194C		11	78646	77258	C		2011-02-03	1996-07-31	
-S000001676	ORF	Verified	YKL193C	SDS22	type 1 protein phosphatase-activating protein SDS22|EGP1	chromosome 11	L000002590	11	79882	78866	C		2011-02-03	1996-07-31	Regulatory subunit of the type 1 protein phosphatase (PP1) Glc7p; whether it functions as a positive or negative regulator of Glc7p is controversial; involved in the regulation of Glc7p nuclear localization and function
-S000030304	CDS					YKL193C		11	79882	78866	C		2011-02-03	1996-07-31	
-S000001675	ORF	Verified	YKL192C	ACP1	acyl carrier protein	chromosome 11	L000004843	11	80537	80160	C		2011-02-03	1996-07-31	Mitochondrial matrix acyl carrier protein; involved in biosynthesis of octanoate, which is a precursor to lipoic acid; activated by phosphopantetheinylation catalyzed by Ppt2p
-S000030104	CDS					YKL192C		11	80537	80160	C		2011-02-03	1996-07-31	
-S000001674	ORF	Verified	YKL191W	DPH2		chromosome 11	L000000522	11	81035	82639	W		2011-02-03	1996-07-31	Protein required for synthesis of diphthamide; required along with Dph1p, Kti11p, Jjj3p, and Dph5p; diphthamide is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); may act in a complex with Dph1p and Kti11p
-S000030067	CDS					YKL191W		11	81035	82639	W		2011-02-03	1996-07-31	
-S000001673	ORF	Verified	YKL190W	CNB1	calcineurin regulatory subunit B|YCN2|CRV1	chromosome 11	L000000371	11	82947	83550	W		2011-02-03	1996-07-31	Calcineurin B; regulatory subunit of calcineurin, a Ca++/calmodulin-regulated type 2B protein phosphatase which regulates Crz1p (stress-response transcription factor); other calcineurin subunit encoded by CNA1 and/or CMP1; regulates function of Aly1p alpha-arrestin; myristoylation by Nmt1p reduces calcineurin activity in response to submaximal Ca signals, is needed to prevent constitutive phosphatase activity; protein abundance increases in response to DNA replication stress
-S000029989	CDS					YKL190W		11	82947	82998	W		2011-02-03	1996-07-31	
-S000029990	CDS					YKL190W		11	83075	83550	W		2011-02-03	1996-07-31	
-S000029991	intron					YKL190W		11	82999	83074	W		2011-02-03	1996-07-31	
-S000007050	long_terminal_repeat		YKLCdelta2			chromosome 11		11	84115	83808	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006651	tRNA_gene		tL(UAA)K			chromosome 11	L000003630	11	84208	84291	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000037408	noncoding_exon					tL(UAA)K		11	84208	84291	W		2011-02-03	2000-05-19	
-S000001672	ORF	Verified	YKL189W	HYM1		chromosome 11	L000004365	11	84704	85903	W		2011-02-03	1996-07-31	Component of the RAM signaling network; is involved in regulation of Ace2p activity and cellular morphogenesis, interacts with Kic1p and Sog2p, localizes to sites of polarized growth during budding and during the mating response
-S000030561	CDS					YKL189W		11	84704	85903	W		2011-02-03	1996-07-31	
-S000001671	ORF	Verified	YKL188C	PXA2	ATP-binding cassette long-chain fatty acid transporter PXA2|PAT1	chromosome 11	L000003538	11	88786	86225	C		2011-02-03	1996-07-31	Subunit of heterodimeric peroxisomal ABC transport complex, with Pxa1p; required for import of long-chain fatty acids into peroxisomes; similar to human adrenoleukodystrophy transportesr ABCD1 and ABCD2, and ALD-related proteins; mutations in ABCD1 cause X-linked adrenoleukodystrophy (X-ALD), a peroxisomal disorder; human ABCD1 and ABCD2 can each partially complement yeast pxa1 pxa2 double null mutant
-S000030413	CDS					YKL188C		11	88786	86225	C		2011-02-03	1996-07-31	
-S000130138	ARS		ARS1104		ARSXI-89	chromosome 11		11	88789	89287			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000001670	ORF	Verified	YKL187C	FAT3		chromosome 11		11	91536	89284	C		2011-02-03	1996-07-31	Protein required for fatty acid uptake; protein abundance increases in cortical patches in response to oleate exposure; the authentic, non-tagged protein is detected in a phosphorylated state in highly purified mitochondria in high-throughput studies; FAT3 has a paralog, YLR413W, that arose from the whole genome duplication
-S000037608	CDS					YKL187C		11	91536	89284	C		2011-02-03	1996-07-31	
-S000001669	ORF	Verified	YKL186C	MTR2		chromosome 11	L000002934	11	93298	92744	C		2011-02-03	1996-07-31	mRNA transport regulator; essential nuclear protein; Mex67p and Mtr2p form a mRNA export complex which binds to RNA
-S000037550	CDS					YKL186C		11	93298	92744	C		2011-02-03	1996-07-31	
-S000122106	five_prime_UTR_intron					YKL186C		11	93465	93312	C		2011-02-03	2007-04-04	
-S000001668	ORF	Verified	YKL185W	ASH1	DNA-binding transcription repressor ASH1	chromosome 11	L000003058	11	94499	96265	W		2011-02-03	1996-07-31	Component of the Rpd3L histone deacetylase complex; zinc-finger inhibitor of HO transcription; mRNA is localized and translated in the distal tip of anaphase cells, resulting in accumulation of Ash1p in daughter cell nuclei and inhibition of HO expression; potential Cdc28p substrate
-S000037492	CDS					YKL185W		11	94499	96265	W		2011-02-03	1996-07-31	
-S000001667	ORF	Verified	YKL184W	SPE1	ornithine decarboxylase SPE1|SPE10|ORD1	chromosome 11	L000001307|L000001993|L000001995	11	96757	98157	W	-130.3	2011-02-03	1996-07-31	Ornithine decarboxylase; catalyzes the first step in polyamine biosynthesis; degraded in a proteasome-dependent manner in the presence of excess polyamines; deletion decreases lifespan, and increases necrotic cell death and ROS generation
-S000032037	CDS					YKL184W		11	96757	98157	W		2011-02-03	1996-07-31	
-S000119035	ARS		ARS1125		ARSXI-98|ARS1104.5	chromosome 11		11	98364	98523			2014-11-18	2014-11-18|2006-10-03	Autonomously Replicating Sequence
-S000178128	ARS_consensus_sequence					ARS1125		11	98385	98401	W		2014-11-18	2014-11-18	
-S000028558	ORF	Uncharacterized	YKL183C-A			chromosome 11		11	98607	98395	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031244	CDS					YKL183C-A		11	98607	98395	C		2011-02-03	2003-07-29	
-S000001666	ORF	Verified	YKL183W	LOT5		chromosome 11		11	98721	99641	W		2011-02-03	1996-07-31	Protein of unknown function; gene expression increases in cultures shifted to a lower temperature; protein abundance increases in response to DNA replication stress
-S000031917	CDS					YKL183W		11	98721	99641	W		2011-02-03	1996-07-31	
-S000001665	ORF	Verified	YKL182W	FAS1	tetrafunctional fatty acid synthase subunit FAS1	chromosome 11	L000000601	11	100671	106826	W	-116.7	2011-02-03	1996-07-31	Beta subunit of fatty acid synthetase; complex catalyzes the synthesis of long-chain saturated fatty acids; contains acetyltransacylase, dehydratase, enoyl reductase, malonyl transacylase, and palmitoyl transacylase activities
-S000031771	CDS					YKL182W		11	100671	106826	W		2011-02-03	1996-07-31	
-S000001664	ORF	Verified	YKL181W	PRS1	ribose phosphate diphosphokinase subunit PRS1|PRP1	chromosome 11	L000001494	11	107316	108599	W		2011-02-03	1996-07-31	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase; synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; plays a key role in cell wall integrity (CWI) pathway; one of five related enzymes, which are active as heteromultimeric complexes; missense mutations in human homolog PRPS1 are associated with neuropathic Arts syndrome and Charcot-Marie Tooth (CMTX5) disease
-S000029853	CDS					YKL181W		11	107316	108599	W		2011-02-03	1996-07-31	
-S000001663	ORF	Verified	YKL180W	RPL17A	uL22|ribosomal 60S subunit protein L17A|L22|YL17|L20A|L17A|RPL17	chromosome 11	L000001715	11	109269	110129	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L17A; required for processing of 27SB pre-rRNA and formation of stable 66S assembly intermediates; copurifies with the Dam1 complex (aka DASH complex); homologous to mammalian ribosomal protein L17 and bacterial L22; RPL17A has a paralog, RPL17B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000036148	CDS					YKL180W		11	109269	109577	W		2011-02-03	1996-07-31	
-S000036149	CDS					YKL180W		11	109884	110129	W		2011-02-03	1996-07-31	
-S000036150	intron					YKL180W		11	109578	109883	W		2011-02-03	1996-07-31	
-S000001662	ORF	Verified	YKL179C	COY1		chromosome 11		11	112503	110464	C		2011-02-03	1996-07-31	Golgi membrane protein with similarity to mammalian CASP; genetic interactions with GOS1 (encoding a Golgi snare protein) suggest a role in Golgi function
-S000035207	CDS					YKL179C		11	112503	110464	C		2011-02-03	1996-07-31	
-S000001660	ORF	Dubious	YKL177W			chromosome 11		11	114356	114694	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene STE3
-S000034192	CDS					YKL177W		11	114356	114694	W		2011-02-03	1996-07-31	
-S000001661	ORF	Verified	YKL178C	STE3	DAF2	chromosome 11	L000002113	11	114627	113215	C		2011-02-03	1996-07-31	Receptor for a factor pheromone; couples to MAP kinase cascade to mediate pheromone response; transcribed in alpha cells and required for mating by alpha cells, ligand bound receptors endocytosed and recycled to the plasma membrane; GPCR
-S000035096	CDS					YKL178C		11	114627	113215	C		2011-02-03	1996-07-31	
-S000001659	ORF	Verified	YKL176C	LST4		chromosome 11	L000004354	11	117986	115500	C		2011-02-03	1996-07-31	Subunit of the Lst4p-Lst7p GTPase activating protein complex for Gtr2p; stimulates the GTPase activity of Rag family GTPase Gtr2p, within the context of the Gtr1p-Gtr2p heterodimer, after amino acid stimulation; required for activation of TORC1 in response to amino acid stimulation; recruited to the vacuolar membrane during amino acid starvation and released from the membrane by TORC1; required for the transport of amino acid permease Gap1p from the Golgi to the cell surface
-S000034038	CDS					YKL176C		11	117986	115500	C		2011-02-03	1996-07-31	
-S000001658	ORF	Verified	YKL175W	ZRT3	Zn(2+) transporter ZRT3	chromosome 11		11	118793	120304	W		2011-02-03	1996-07-31	Vacuolar membrane zinc transporter; transports zinc from storage in the vacuole to the cytoplasm when needed; transcription is induced under conditions of zinc deficiency
-S000033999	CDS					YKL175W		11	118793	120304	W		2011-02-03	1996-07-31	
-S000001657	ORF	Verified	YKL174C	TPO5		chromosome 11		11	122236	120380	C		2011-02-03	1996-07-31	Protein involved in excretion of putrescine and spermidine; putative polyamine transporter in the Golgi or post-Golgi vesicles
-S000033149	CDS					YKL174C		11	122236	120380	C		2011-02-03	1996-07-31	
-S000001656	ORF	Verified	YKL173W	SNU114	U5 snRNP GTPase SNU114|GIN10	chromosome 11	L000003541	11	122517	125543	W		2011-02-03	1996-07-31	GTPase component of U5 snRNP involved in mRNA splicing via spliceosome; binds directly to U5 snRNA; proposed to be involved in conformational changes of the spliceosome; similarity to ribosomal translocation factor EF-2
-S000033113	CDS					YKL173W		11	122517	125543	W		2011-02-03	1996-07-31	
-S000001655	ORF	Verified	YKL172W	EBP2		chromosome 11	L000004646	11	125759	127042	W		2011-02-03	1996-07-31	Required for 25S rRNA maturation and 60S ribosomal subunit assembly; localizes to the nucleolus and in foci along nuclear periphery; constituent of 66S pre-ribosomal particles; cooperates with Rrs1p and Mps3p to mediate telomere clustering by binding Sir4p, but is not involved in telomere tethering
-S000033024	CDS					YKL172W		11	125759	127042	W		2011-02-03	1996-07-31	
-S000001654	ORF	Verified	YKL171W	NNK1	protein kinase NNK1	chromosome 11		11	127475	130261	W		2011-02-03	1996-07-31	Protein kinase; implicated in proteasome function; interacts with TORC1, Ure2 and Gdh2; overexpression leads to hypersensitivity to rapamycin and nuclear accumulation of Gln3; epitope-tagged protein localizes to the cytoplasm
-S000032097	CDS					YKL171W		11	127475	130261	W		2011-02-03	1996-07-31	
-S000001653	ORF	Verified	YKL170W	MRPL38	mitochondrial 54S ribosomal protein YmL38/YmL34|YmL38|YmL34|MRPL34	chromosome 11	S000029310|L000002693|L000001173	11	130634	131050	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; appears as two protein spots (YmL34 and YmL38) on two-dimensional SDS gels; protein abundance increases in response to DNA replication stress
-S000031979	CDS					YKL170W		11	130634	131050	W		2011-02-03	1996-07-31	
-S000001652	ORF	Dubious	YKL169C			chromosome 11		11	131068	130685	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene MRPL38
-S000030884	CDS					YKL169C		11	131068	130685	C		2011-02-03	1996-07-31	
-S000001651	ORF	Verified	YKL168C	KKQ8	putative serine/threonine protein kinase KKQ8	chromosome 11	L000004097	11	133462	131288	C		2011-02-03	1996-07-31|2006-05-08	Putative serine/threonine protein kinase with unknown cellular role; KKQ8 has a paralog, HAL5, that arose from the whole genome duplication
-S000030812	CDS					YKL168C		11	133462	131288	C		2011-02-03	1996-07-31|2006-05-08	
-S000001650	ORF	Verified	YKL167C	MRP49	mitochondrial 54S ribosomal protein MRP49	chromosome 11	L000001159	11	134134	133721	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; not essential for mitochondrial translation
-S000037870	CDS					YKL167C		11	134134	133721	C		2011-02-03	1996-07-31	
-S000001649	ORF	Verified	YKL166C	TPK3	cAMP-dependent protein kinase catalytic subunit TPK3	chromosome 11	L000002327	11	135705	134509	C		2011-02-03	1996-07-31	cAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; partially redundant with Tpk1p and Tpk2p; localizes to P-bodies during stationary phase; TPK3 has a paralog, TPK1, that arose from the whole genome duplication
-S000037767	CDS					YKL166C		11	135705	134509	C		2011-02-03	1996-07-31	
-S000007617	ORF	Dubious	YKL165C-A			chromosome 11		11	136023	135790	C		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037215	CDS					YKL165C-A		11	136023	135790	C		2011-02-03	2001-02-26	
-S000001648	ORF	Verified	YKL165C	MCD4	mannose-ethanolamine phosphotransferase MCD4|FSR2|SSU21|ZRG16	chromosome 11	L000003913|S000029172|L000003584	11	140691	137932	C		2011-02-03	1996-07-31	Protein involved in GPI anchor synthesis; multimembrane-spanning protein that localizes to the endoplasmic reticulum; highly conserved among eukaryotes; GPI stands for glycosylphosphatidylinositol
-S000037706	CDS					YKL165C		11	140691	137932	C		2011-02-03	1996-07-31	
-S000006558	tRNA_gene		tE(UUC)K			chromosome 11	L000003643	11	141089	141018	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000036005	noncoding_exon					tE(UUC)K		11	141089	141018	C		2011-02-03	2000-05-19	
-S000001647	ORF	Verified	YKL164C	PIR1	beta-1,3-glucan linked protein|CCW6	chromosome 11	L000001441	11	142819	141794	C		2011-02-03	1996-07-31	O-glycosylated protein required for cell wall stability; attached to the cell wall via beta-1,3-glucan; mediates mitochondrial translocation of Apn1p; expression regulated by the cell integrity pathway and by Swi5p during the cell cycle; PIR1 has a paralog, YJL160C, that arose from the whole genome duplication
-S000036944	CDS					YKL164C		11	142819	141794	C		2011-02-03	1996-07-31	
-S000001646	ORF	Verified	YKL163W	PIR3	beta-1,3-glucan linked protein|CCW8	chromosome 11	L000001443	11	144401	145378	W		2011-02-03	1996-07-31	O-glycosylated covalently-bound cell wall protein; required for cell wall stability; expression is cell cycle regulated, peaking in M/G1 and also subject to regulation by the cell integrity pathway; coding sequence contains length polymorphisms in different strains; PIR3 has a paralog, HSP150, that arose from the whole genome duplication
-S000036912	CDS					YKL163W		11	144401	145378	W		2011-02-03	1996-07-31	
-S000007244	ORF	Dubious	YKL162C-A			chromosome 11		11	146074	145922	C		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032863	CDS					YKL162C-A		11	146074	145922	C		2011-02-03	1999-07-17	
-S000001645	ORF	Uncharacterized	YKL162C			chromosome 11		11	148838	147630	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion
-S000036809	CDS					YKL162C		11	148838	147630	C		2011-02-03	1996-07-31	
-S000001644	ORF	Verified	YKL161C	KDX1	putative protein kinase KDX1|MLP1	chromosome 11		11	150687	149386	C		2011-02-03	1996-07-31	Protein kinase; implicated in Slt2p mitogen-activated (MAP) kinase signaling pathway; interacts with numerous components in the mating pheromone and CWI MAPK pathways; associates with Rlm1p; KDX1 has a paralog, SLT2, that arose from the whole genome duplication
-S000035941	CDS					YKL161C		11	150687	149386	C		2011-02-03	1996-07-31	
-S000118402	ARS		ARS1106		ARSXI-153	chromosome 11		11	153020	153135			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178129	ARS_consensus_sequence					ARS1106		11	153122	153106	C		2014-11-18	2014-11-18	
-S000001643	ORF	Verified	YKL160W	ELF1		chromosome 11		11	153269	153706	W		2011-02-03	1996-07-31	Transcription elongation factor with a conserved zinc finger domain; implicated in the maintenance of proper chromatin structure in actively transcribed regions; deletion inhibits Brome mosaic virus (BMV) gene expression
-S000035865	CDS					YKL160W		11	153269	153706	W		2011-02-03	1996-07-31	
-S000001642	ORF	Verified	YKL159C	RCN1		chromosome 11	S000007456	11	154451	153816	C		2011-02-03	1996-07-31	Protein involved in calcineurin regulation during calcium signaling; has similarity to H. sapiens DSCR1 which is found in the Down Syndrome candidate region
-S000034776	CDS					YKL159C		11	154451	153816	C		2011-02-03	1996-07-31	
-S000001640	ORF	Verified	YKL157W	APE2	metallo-aminopeptidase|YKL158W|LAP1	chromosome 11	S000001641|L000000092	11	154991	158232	W	-124.8	2011-02-03	2000-07-14|1996-07-31|2011-02-03	Aminopeptidase yscII; may have a role in obtaining leucine from dipeptide substrates; APE2 has a paralog, AAP1, that arose from the whole genome duplication
-S000033809	CDS					YKL157W		11	154991	155271	W		2011-02-03	2000-07-14|1996-07-31	
-S000033810	CDS					YKL157W		11	155655	158232	W		2011-02-03	2000-07-14|2011-02-03	
-S000033811	intron					YKL157W		11	155272	155654	W		2011-02-03	2000-07-14	
-S000001639	ORF	Verified	YKL156W	RPS27A	eS27|ribosomal 40S subunit protein S27A|S27e|rp61|YS20|S27A	chromosome 11	L000002712	11	158613	159212	W		2011-02-03	1996-07-31|2011-02-03	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S27, no bacterial homolog; RPS27A has a paralog, RPS27B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000033664	CDS					YKL156W		11	158613	158615	W		2011-02-03	1996-07-31	
-S000033665	CDS					YKL156W		11	158967	159212	W		2011-02-03	1996-07-31	
-S000033666	intron					YKL156W		11	158616	158966	W		2011-02-03	1996-07-31|2011-02-03	
-S000028668	ORF	Dubious	YKL156C-A			chromosome 11		11	159091	158975	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene RPS27A; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032493	CDS					YKL156C-A		11	159091	158975	C		2011-02-03	2003-07-29	
-S000001638	ORF	Verified	YKL155C	RSM22	mitochondrial 37S ribosomal protein RSM22	chromosome 11		11	161342	159456	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; also predicted to be an S-adenosylmethionine-dependent RNA methyltransferase
-S000033531	CDS					YKL155C		11	161342	159456	C		2011-02-03	1996-07-31	
-S000001637	ORF	Verified	YKL154W	SRP102	Signal recognition particle receptor subunit beta	chromosome 11		11	161601	162335	W		2011-02-03	1996-07-31	Signal recognition particle (SRP) receptor beta subunit; involved in SRP-dependent protein targeting; anchors the alpha subunit, Srp101p to the ER membrane
-S000033491	CDS					YKL154W		11	161601	162335	W		2011-02-03	1996-07-31	
-S000006716	tRNA_gene		tR(UCU)K			chromosome 11	L000003642	11	162558	162487	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000037862	noncoding_exon					tR(UCU)K		11	162558	162487	C		2011-02-03	2000-05-19	
-S000007056	long_terminal_repeat		YKLWdelta3			chromosome 11		11	162831	163169	W		2011-02-03	2000-05-19	Ty1 LTR
-S000001636	ORF	Dubious	YKL153W			chromosome 11		11	163600	164109	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcription of both YLK153W and the overlapping essential gene GPM1 is reduced in the gcr1 null mutant
-S000032752	CDS					YKL153W		11	163600	164109	W		2011-02-03	1996-07-31	
-S000001635	ORF	Verified	YKL152C	GPM1	phosphoglycerate mutase GPM1	chromosome 11	L000000726	11	164385	163642	C		2011-02-03	1996-07-31	Tetrameric phosphoglycerate mutase; mediates the conversion of 3-phosphoglycerate to 2-phosphoglycerate during glycolysis and the reverse reaction during gluconeogenesis
-S000032605	CDS					YKL152C		11	164385	163642	C		2011-02-03	1996-07-31	
-S000001634	ORF	Verified	YKL151C	NNR2	NADHX dehydratase	chromosome 11		11	165930	164917	C		2011-02-03	1996-07-31	Widely-conserved NADHX dehydratase; converts (S)-NADHX to NADH in ATP-dependent manner; YKL151C promoter contains STREs (stress response elements) and expression is induced by heat shock or methyl methanesulfonate; downstream intergenic region drives antisense expression and mediates coordinated regulation of YKL151C and GPM1 phosphoglycerate mutase; protein abundance increases in response to DNA replication stress; homolog of Carkd in mammals and C-terminus of YjeF in E.coli
-S000031623	CDS					YKL151C		11	165930	164917	C		2011-02-03	1996-07-31	
-S000001633	ORF	Verified	YKL150W	MCR1	cytochrome-b5 reductase	chromosome 11	L000003134	11	166544	167452	W		2011-02-03	1996-07-31	Mitochondrial NADH-cytochrome b5 reductase; involved in ergosterol biosynthesis
-S000031554	CDS					YKL150W		11	166544	167452	W		2011-02-03	1996-07-31	
-S000122105	five_prime_UTR_intron					YKL150W		11	166400	166487	W		2011-02-03	2007-04-04	
-S000001632	ORF	Verified	YKL149C	DBR1	RNA lariat debranching enzyme|PRP26	chromosome 11	L000000495	11	168829	167612	C	-106.4	2011-02-03	1996-07-31	RNA lariat debranching enzyme; catalyzes debranching of lariat introns formed during pre-mRNA splicing; required for efficient Ty1 transposition; knockdown of human homolog Dbr1 rescues toxicity of RNA-binding proteins TDP-43 and FUS which are implicated in amyotrophic lateral sclerosis (ALS), suggests potential therapeutic target for ALS and related TDP-43 proteinopathies; human homolog DBR1 can complement yeast dbr1 null mutant
-S000031536	CDS					YKL149C		11	168829	167612	C		2011-02-03	1996-07-31	
-S000001631	ORF	Verified	YKL148C	SDH1	succinate dehydrogenase flavoprotein subunit SDH1|SDHA	chromosome 11	L000001823	11	171129	169207	C		2011-02-03	1996-07-31	Flavoprotein subunit of succinate dehydrogenase; couples the oxidation of succinate to the transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; FAD binding to Sdh1p is required for the assembly of the succinate dehydrogenase subunits; mutations in human ortholog SDHA are associated with Leigh syndrome
-S000030671	CDS					YKL148C		11	171129	169207	C		2011-02-03	1996-07-31	
-S000001629	ORF	Verified	YKL146W	AVT3		chromosome 11		11	171783	173861	W		2011-02-03	1996-07-31	Vacuolar transporter; exports large neutral amino acids from the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
-S000030513	CDS					YKL146W		11	171783	173861	W		2011-02-03	1996-07-31	
-S000001630	ORF	Dubious	YKL147C			chromosome 11		11	172168	171551	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified gene AVT3
-S000030585	CDS					YKL147C		11	172168	171551	C		2011-02-03	1996-07-31	
-S000001628	ORF	Verified	YKL145W	RPT1	proteasome regulatory particle base subunit RPT1|YTA3|CIM5	chromosome 11	L000002557	11	174213	175616	W		2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; required for optimal CDC20 transcription; interacts with Rpn12p and Ubr1p; mutant has aneuploidy tolerance
-S000030368	CDS					YKL145W		11	174213	175616	W		2011-02-03	1996-07-31	
-S000028841	ORF	Dubious	YKL145W-A			chromosome 11		11	174958	175050	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified essential gene RPT1; identified by expression profiling and mass spectrometry
-S000034526	CDS					YKL145W-A		11	174958	175050	W		2011-02-03	2003-07-29	
-S000001627	ORF	Verified	YKL144C	RPC25	DNA-directed RNA polymerase III subunit RPC25|C25|YKL1	chromosome 11	L000002427	11	176481	175843	C		2011-02-03	1996-07-31	RNA polymerase III subunit C25; required for transcription initiation; forms a heterodimer with Rpc17p; paralog of Rpb7p
-S000037515	CDS					YKL144C		11	176481	175843	C		2011-02-03	1996-07-31	
-S000001626	ORF	Verified	YKL143W	LTV1	YKL2	chromosome 11	L000000962	11	176781	178172	W		2011-02-03	1996-07-31	Component of the GSE complex; GSE is required for proper sorting of amino acid permease Gap1p; required for ribosomal small subunit export from nucleus; required for growth at low temperature
-S000037465	CDS					YKL143W		11	176781	178172	W		2011-02-03	1996-07-31	
-S000001625	ORF	Verified	YKL142W	MRP8	YKL3	chromosome 11	L000001156	11	178515	179174	W		2011-02-03	1996-07-31	Protein of unknown function; undergoes sumoylation; transcription induced under cell wall stress; protein levels are reduced under anaerobic conditions; protein abundance increases in response to DNA replication stress; originally thought to be a mitochondrial ribosomal protein based on sequence analysis
-S000036742	CDS					YKL142W		11	178515	179174	W		2011-02-03	1996-07-31	
-S000001624	ORF	Verified	YKL141W	SDH3	succinate dehydrogenase cytochrome b subunit SDH3|YKL4|CYB3	chromosome 11	L000001825	11	179667	180263	W		2011-02-03	1996-07-31	Subunit of succinate dehydrogenase and of TIM22 translocase; functions as cytochrome b subunit of succinate dehydrogenase, which couples oxidation of succinate to transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; also required for mitochondrial inner membrane protein import as part of the TIM22 complex; SDH3 has a paralog, SHH3, that arose from the whole genome duplication
-S000036643	CDS					YKL141W		11	179667	180263	W		2011-02-03	1996-07-31	
-S000001623	ORF	Verified	YKL140W	TGL1	YKL5	chromosome 11	L000002293	11	180779	182425	W		2011-02-03	1996-07-31	Steryl ester hydrolase; one of three gene products (Yeh1p, Yeh2p, Tgl1p) responsible for steryl ester hydrolase activity and involved in sterol homeostasis; localized to lipid particle membranes
-S000036522	CDS					YKL140W		11	180779	182425	W		2011-02-03	1996-07-31	
-S000001622	ORF	Verified	YKL139W	CTK1	cyclin-dependent serine/threonine protein kinase CTK1	chromosome 11	L000000432	11	182958	184544	W		2011-02-03	1996-07-31	Catalytic (alpha) subunit of C-terminal domain kinase I (CTDK-I); phosphorylates both RNA pol II subunit Rpo21p to affect transcription and pre-mRNA 3' end processing, and ribosomal protein Rps2p to increase translational fidelity; required for H3K36 trimethylation but not dimethylation by Set2p; suggested stimulatory role in 80S formation during translation initiation; similar to the Drosophila dCDK12 and human CDK12 and probably CDK13
-S000036668	CDS					YKL139W		11	182958	184544	W		2011-02-03	1996-07-31	
-S000028421	ORF	Verified	YKL138C-A	HSK3		chromosome 11	S000028418	11	185012	184803	C		2011-02-03	2002-06-20	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
-S000029957	CDS					YKL138C-A		11	185012	184803	C		2011-02-03	2002-06-20	
-S000001621	ORF	Verified	YKL138C	MRPL31	mitochondrial 54S ribosomal protein YmL31|YmL31	chromosome 11	L000001168|L000002529	11	185681	185286	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000035696	CDS					YKL138C		11	185681	185286	C		2011-02-03	1996-07-31	
-S000001620	ORF	Verified	YKL137W	CMC1		chromosome 11		11	185957	186292	W		2011-02-03	1996-07-31|2005-12-15	Copper-binding protein of the mitochondrial intermembrane space; evolutionarily conserved; may be involved in delivering copper from the matrix to the cytochrome c oxidase complex; contains a twin CX9C motif
-S000035632	CDS					YKL137W		11	185957	186292	W		2011-02-03	1996-07-31|2005-12-15	
-S000001619	ORF	Dubious	YKL136W			chromosome 11		11	186416	186814	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF APL2/YKL135C
-S000035555	CDS					YKL136W		11	186416	186814	W		2011-02-03	1996-07-31	
-S000001618	ORF	Verified	YKL135C	APL2		chromosome 11	L000000094	11	188640	186460	C		2011-02-03	1996-07-31	Beta-adaptin subunit of the clathrin-associated protein (AP-1) complex; binds clathrin; involved in clathrin-dependent Golgi protein sorting; protein abundance increases in response to DNA replication stress
-S000034478	CDS					YKL135C		11	188640	186460	C		2011-02-03	1996-07-31	
-S000001617	ORF	Verified	YKL134C	OCT1	metalloendopeptidase	chromosome 11	L000004860	11	191442	189124	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial intermediate peptidase; cleaves destabilizing N-terminal residues of a subset of proteins upon import, after their cleavage by mitochondrial processing peptidase (Mas1p-Mas2p); may contribute to mitochondrial iron homeostasis
-S000034401	CDS					YKL134C		11	191442	189124	C		2011-02-03	1996-07-31|2011-02-03	
-S000001616	ORF	Uncharacterized	YKL133C			chromosome 11		11	193070	191679	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; not required for growth of cells lacking the mitochondrial genome; SWAT-GFP and mCherry fusion proteins localize to the mitochondria; YKL133C has a paralog, MGR3, that arose from the whole genome duplication
-S000034300	CDS					YKL133C		11	193070	191679	C		2011-02-03	1996-07-31|2011-02-03	
-S000001614	ORF	Dubious	YKL131W			chromosome 11		11	194478	194999	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033359	CDS					YKL131W		11	194478	194999	W		2011-02-03	1996-07-31	
-S000001615	ORF	Verified	YKL132C	RMA1	putative tetrahydrofolate synthase	chromosome 11		11	194866	193574	C		2011-02-03	1996-07-31	Putative dihydrofolate synthetase; similar to E. coli folylpolyglutamate synthetase/dihydrofolate synthetase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; RMA1 has a paralog, FOL3, that arose from the whole genome duplication
-S000033390	CDS					YKL132C		11	194866	193574	C		2011-02-03	1996-07-31	
-S000001613	ORF	Verified	YKL130C	SHE2		chromosome 11	L000004571	11	196028	195288	C		2011-02-03	1996-07-31	RNA-binding protein that binds specific mRNAs and interacts with She3p; part of the mRNA localization machinery that restricts accumulation of certain proteins to the bud; binds to ER-derived membranes and targets mRNAs to cortical ER
-S000033257	CDS					YKL130C		11	196028	195288	C		2011-02-03	1996-07-31	
-S000119036	ARS		ARS1126		ARSXI-196|ARS1106.3	chromosome 11		11	196042	196287			2011-02-03	2006-10-03	Autonomously Replicating Sequence
-S000001612	ORF	Verified	YKL129C	MYO3	myosin 3	chromosome 11	L000002889	11	200167	196349	C		2011-02-03	1996-07-31|2011-02-03	One of two type I myosins; localizes to actin cortical patches; deletion of MYO3 has little effect on growth, but myo3 myo5 double deletion causes severe defects in growth and actin cytoskeleton organization; MYO3 has a paralog, MYO5, that arose from the whole genome duplication
-S000032500	CDS					YKL129C		11	200167	196349	C		2011-02-03	1996-07-31|2011-02-03	
-S000001611	ORF	Verified	YKL128C	PMU1	putative phosphomutase	chromosome 11	L000003276	11	201771	200884	C		2011-02-03	1996-07-31	Putative phosphomutase; contains a region homologous to the active site of phosphomutases; overexpression suppresses the histidine auxotrophy of an ade3 ade16 ade17 triple mutant and the temperature sensitivity of a tps2 mutant
-S000032407	CDS					YKL128C		11	201771	200884	C		2011-02-03	1996-07-31	
-S000007054	long_terminal_repeat		YKLCsigma1			chromosome 11		11	202983	202644	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006626	tRNA_gene		tK(CUU)K			chromosome 11	L000003631	11	202999	203071	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000036035	noncoding_exon					tK(CUU)K		11	202999	203071	W		2011-02-03	2000-05-19	
-S000001610	ORF	Verified	YKL127W	PGM1	phosphoglucomutase PGM1	chromosome 11	L000001412	11	203541	205253	W	-108.4	2011-02-03	1996-07-31	Phosphoglucomutase, minor isoform; catalyzes the conversion from glucose-1-phosphate to glucose-6-phosphate, which is a key step in hexose metabolism; PGM1 has a paralog, PGM2, that arose from the whole genome duplication
-S000032331	CDS					YKL127W		11	203541	205253	W		2011-02-03	1996-07-31	
-S000001609	ORF	Verified	YKL126W	YPK1	serine/threonine protein kinase YPK1|SLI2	chromosome 11	L000002541	11	205707	207749	W	-97.7	2011-02-03	1996-07-31	S/T protein kinase; phosphorylates, downregulates flippase activator Fpk1p; inactivates Orm1p and Orm2p by phosphorylation in response to compromised sphingolipid synthesis; involved in the TORC-dependent phosphorylation of ribosomal proteins Rps6a/b (S6); mutations affect receptor-mediated endocytosis and sphingolipid-mediated and cell integrity signaling pathways; human homolog SGK1 can complement a null mutant; human homolog SGK2 can complement a ypk1 ypk2 double mutant
-S000031322	CDS					YKL126W		11	205707	207749	W		2011-02-03	1996-07-31	
-S000001608	ORF	Verified	YKL125W	RRN3	rDNA-binding RNA polymerase I transcriptional factor	chromosome 11	L000003362	11	208247	210130	W		2011-02-03	1996-07-31	Protein required for transcription of rDNA by RNA polymerase I; transcription factor independent of DNA template; involved in recruitment of RNA polymerase I to rDNA; structure reveals unique HEAT repeat fold and a surface serine patch; phosphorylation of serine patch impairs cell growth and reduces RNA polymerase I binding in vitro and RNA polymerase I recruitment to the rDNA gene in vivo
-S000031219	CDS					YKL125W		11	208247	210130	W		2011-02-03	1996-07-31	
-S000001607	ORF	Verified	YKL124W	SSH4	MLF4	chromosome 11	L000002951	11	210593	212332	W		2011-02-03	1996-07-31	Specificity factor required for Rsp5p-dependent ubiquitination; also required for sorting of cargo proteins at the multivesicular body; identified as a high-copy suppressor of a SHR3 deletion, increasing steady-state levels of amino acid permeases
-S000031112	CDS					YKL124W		11	210593	212332	W		2011-02-03	1996-07-31	
-S000001606	ORF	Dubious	YKL123W			chromosome 11		11	212043	212423	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SSH4
-S000030083	CDS					YKL123W		11	212043	212423	W		2011-02-03	1996-07-31	
-S000001605	ORF	Verified	YKL122C	SRP21	signal recognition particle subunit SRP21	chromosome 11	L000002062	11	212998	212495	C		2011-02-03	1996-07-31	Subunit of the signal recognition particle (SRP); SRP functions in protein targeting to the endoplasmic reticulum membrane; not found in mammalian SRP; forms a pre-SRP structure in the nucleolus that is translocated to the cytoplasm
-S000029913	CDS					YKL122C		11	212998	212495	C		2011-02-03	1996-07-31	
-S000119037	ARS		ARS1127		ARSXI-213|ARS1106.7	chromosome 11		11	213439	213743			2011-02-03	2006-10-03	Autonomously Replicating Sequence
-S000001604	ORF	Uncharacterized	YKL121W	DGR2		chromosome 11		11	214142	216700	W		2011-02-03	1996-07-31	Protein of unknown function; null mutant is resistant to 2-deoxy-D-glucose and displays abnormally elongated buds; DGR2 has a paralog, YMR102C, that arose from the whole genome duplication
-S000029872	CDS					YKL121W		11	214142	216700	W		2011-02-03	1996-07-31	
-S000001603	ORF	Verified	YKL120W	OAC1		chromosome 11	S000007413	11	217344	218318	W		2011-02-03	1996-07-31	Mitochondrial inner membrane transporter; transports oxaloacetate, sulfate, thiosulfate, and isopropylmalate; member of the mitochondrial carrier family
-S000037208	CDS					YKL120W		11	217344	218318	W		2011-02-03	1996-07-31	
-S000001601	ORF	Dubious	YKL118W			chromosome 11		11	219126	219437	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene VPH2
-S000036185	CDS					YKL118W		11	219126	219437	W		2011-02-03	1996-07-31	
-S000001602	ORF	Verified	YKL119C	VPH2	VMA12|CLS10	chromosome 11	L000002468	11	219217	218570	C		2011-02-03	1996-07-31	Integral membrane protein required for V-ATPase function; not an actual component of the vacuolar H+-ATPase (V-ATPase) complex; functions in the assembly of the V-ATPase; localized to the endoplasmic reticulum (ER); involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner
-S000036236	CDS					YKL119C		11	219217	218570	C		2011-02-03	1996-07-31	
-S000007051	long_terminal_repeat		YKLCdelta4			chromosome 11		11	219723	219395	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006515	tRNA_gene		tA(AGC)K1			chromosome 11	L000003632	11	219895	219967	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000036246	noncoding_exon					tA(AGC)K1		11	219895	219967	W		2011-02-03	2000-05-19	
-S000001600	ORF	Verified	YKL117W	SBA1	Hsp90 cochaperone SBA1|CST18	chromosome 11	L000004284|L000002999|S000029122	11	220324	220974	W		2011-02-03	1996-07-31	Co-chaperone that binds and regulates Hsp90 family chaperones; plays a role in determining prion variants; important for pp60v-src activity in yeast; homologous to the mammalian p23 proteins, and like p23 can regulate telomerase activity; protein abundance increases in response to DNA replication stress
-S000035238	CDS					YKL117W		11	220324	220974	W		2011-02-03	1996-07-31	
-S000001599	ORF	Verified	YKL116C	PRR1	serine/threonine protein kinase PRR1	chromosome 11		11	222900	221344	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; inhibits pheromone induced signaling downstream of MAPK, possibly at the level of the Ste12p transcription factor
-S000034995	CDS					YKL116C		11	222900	221344	C		2011-02-03	1996-07-31	
-S000001598	ORF	Dubious	YKL115C			chromosome 11		11	223285	222893	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene PRR1
-S000034081	CDS					YKL115C		11	223285	222893	C		2011-02-03	1996-07-31	
-S000001597	ORF	Verified	YKL114C	APN1	DNA-(apurinic or apyrimidinic site) lyase APN1	chromosome 11	L000000096	11	224455	223352	C		2011-02-03	1996-07-31	Major apurinic/apyrimidinic endonuclease; 3'-repair diesterase; involved in repair of DNA damage by oxidation and alkylating agents; also functions as a 3'-5' exonuclease to repair 7,8-dihydro-8-oxodeoxyguanosine; genetically interacts with NTG1 to maintain mitochondrial genome integrity
-S000033938	CDS					YKL114C		11	224455	223352	C		2011-02-03	1996-07-31	
-S000001596	ORF	Verified	YKL113C	RAD27	multifunctional nuclease RAD27|FEN1|RTH1|ERC11	chromosome 11	L000002742|L000000565	11	225875	224727	C		2011-02-03	1996-07-31	5' to 3' exonuclease, 5' flap endonuclease; required for Okazaki fragment processing and maturation, for long-patch base-excision repair and large loop repair (LLR), ribonucleotide excision repair; member of the S. pombe RAD2/FEN1 family; relocalizes to the cytosol in response to hypoxia
-S000033801	CDS					YKL113C		11	225875	224727	C		2011-02-03	1996-07-31	
-S000001595	ORF	Verified	YKL112W	ABF1	GFI|SBF-B|DNA-binding protein ABF1|SBF1|REB2|OBF1|BAF1	chromosome 11	L000000159	11	226570	228765	W		2011-02-03	1996-07-31	DNA binding protein with possible chromatin-reorganizing activity; involved in transcriptional activation, gene silencing, and DNA replication and repair
-S000033734	CDS					YKL112W		11	226570	228765	W		2011-02-03	1996-07-31	
-S000001594	ORF	Dubious	YKL111C			chromosome 11		11	228799	228464	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified essential gene ABF1
-S000032984	CDS					YKL111C		11	228799	228464	C		2011-02-03	1996-07-31	
-S000001593	ORF	Verified	YKL110C	KTI12	TOT4	chromosome 11	L000000923	11	229880	228939	C		2011-02-03	1996-07-31	Protein that plays a role in modification of tRNA wobble nucleosides; protein plays role in tRNA wobble nucleoside modification with Elongator complex; involved in sensitivity to G1 arrest induced by zymocin; interacts with chromatin throughout the genome; also interacts with Cdc19p
-S000032867	CDS					YKL110C		11	229880	228939	C		2011-02-03	1996-07-31	
-S000001592	ORF	Verified	YKL109W	HAP4	transcription factor HAP4	chromosome 11	L000000754	11	232227	233891	W		2011-02-03	1996-07-31	Transcription factor; subunit of the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex, a transcriptional activator and global regulator of respiratory gene expression; provides the principal activation function of the complex; involved in diauxic shift
-S000032773	CDS					YKL109W		11	232227	233891	W		2011-02-03	1996-07-31	
-S000001591	ORF	Verified	YKL108W	SLD2	DRC1	chromosome 11	L000004708	11	234426	235787	W		2011-02-03	1996-07-31	Single-stranded DNA origin-binding and annealing protein; required for initiation of DNA replication; phosphorylated in S phase by cyclin-dependent kinases (Cdks), promoting origin binding, DNA replication and Dpb11p complex formation; component of the preloading complex; binds the Mcm2-7p complex to prevent inappropriate Mcm2-7p interaction with the GINS complex in G1; required for S phase checkpoint; relative distribution to the nucleus increases upon DNA replication stress
-S000032698	CDS					YKL108W		11	234426	235787	W		2011-02-03	1996-07-31	
-S000001590	ORF	Uncharacterized	YKL107W		putative short-chain dehydrogenase/reductase	chromosome 11		11	236141	237070	W		2011-02-03	1996-07-31	Putative short-chain dehydrogenase/reductase; proposed to be a palmitoylated membrane protein
-S000032626	CDS					YKL107W		11	236141	237070	W		2011-02-03	1996-07-31	
-S000007616	ORF	Uncharacterized	YKL106C-A			chromosome 11		11	237266	237147	C		2011-02-03	2001-02-26	Putative protein of unknown function; identified by homology to uncharacterized proteins in other fungi
-S000037214	CDS					YKL106C-A		11	237266	237147	C		2011-02-03	2001-02-26	
-S000001589	ORF	Verified	YKL106W	AAT1	aspartate transaminase AAT1	chromosome 11	L000000009	11	237536	238891	W		2011-02-03	1996-07-31	Mitochondrial aspartate aminotransferase; catalyzes the conversion of oxaloacetate to aspartate in aspartate and asparagine biosynthesis
-S000031616	CDS					YKL106W		11	237536	238891	W		2011-02-03	1996-07-31	
-S000001588	ORF	Verified	YKL105C	SEG2		chromosome 11		11	242583	239185	C		2011-02-03	1996-07-31	Eisosome component; likely plays only a minor role in eisosome assembly; shown to interact with Seg1p by affinity purification and mass spec; SWAT-GFP and mCherry fusion proteins localize to the cell periphery; similar to A. gossypii SEG gene which is important for stabilizing eisosomes; SEG2 has a paralog, SEG1, that arose from the whole genome duplication
-S000031413	CDS					YKL105C		11	242583	239185	C		2011-02-03	1996-07-31	
-S000001587	ORF	Verified	YKL104C	GFA1	glutamine--fructose-6-phosphate transaminase (isomerizing) GFA1	chromosome 11	L000000702	11	245373	243220	C		2011-02-03	1996-07-31	Glutamine-fructose-6-phosphate amidotransferase; catalyzes the formation of glucosamine-6-P and glutamate from fructose-6-P and glutamine in the first step of chitin biosynthesis; GFA1 has a paralogous region, comprising ORFs YMR084W-YMR085W, that arose from the whole genome duplication
-S000030506	CDS					YKL104C		11	245373	243220	C		2011-02-03	1996-07-31	
-S000001586	ORF	Verified	YKL103C	APE1	metalloaminopeptidase APE1|LAP4|API|YSC1	chromosome 11	L000000930	11	247682	246138	C	-138	2011-02-03	1996-07-31	Vacuolar aminopeptidase yscI; zinc metalloproteinase that belongs to the peptidase family M18; often used as a marker protein in studies of autophagy and cytosol to vacuole targeting (CVT) pathway; protein increases in abundance and relative distribution to cytoplasmic foci increases upon DNA replication stress
-S000030363	CDS					YKL103C		11	247682	246138	C		2011-02-03	1996-07-31	
-S000001585	ORF	Dubious	YKL102C			chromosome 11		11	248367	248062	C		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; deletion confers sensitivity to citric acid; predicted protein would include a thiol-disulfide oxidoreductase active site
-S000030203	CDS					YKL102C		11	248367	248062	C		2011-02-03	1996-07-31	
-S000001584	ORF	Verified	YKL101W	HSL1	protein kinase HSL1|ELM2|NIK1	chromosome 11	L000003129|L000002839	11	248920	253476	W		2011-02-03	1996-07-31|2011-02-03	Nim1p-related protein kinase; septin-binding kinase that localizes to the bud neck septin ring and regulates the morphogenesis checkpoint; phosphorylates Hsl7p and cooperates with Elm1p to recruit Hsl7p to the mother-bud neck, as a prerequisite for the subsequent recruitment, phosphorylation, and degradation of Swe1p; autophosphorylation enhances interactions with Hsl7p
-S000037537	CDS					YKL101W		11	248920	253476	W		2011-02-03	1996-07-31|2011-02-03	
-S000028840	ORF	Dubious	YKL100W-A			chromosome 11		11	254159	254248	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034525	CDS					YKL100W-A		11	254159	254248	W		2011-02-03	2003-07-29	
-S000001583	ORF	Verified	YKL100C	YPF1	aspartic endopeptidase	chromosome 11		11	255460	253697	C		2011-02-03	1996-07-31	Intramembrane aspartyl protease of the perinuclear ER membrane; acts in a branch of ER-associated degradation (ERAD) that degrades functional proteins rather than misfolded proteins; regulates abundance of high-affinity plasma membrane transporters, such as Ctr1p and Zrt1p, during the starvation response; has a presenilin fold; member of the GxGD family of intramembrane proteases; closest human homolog is signal peptide peptidase (SPP)
-S000037360	CDS					YKL100C		11	255460	253697	C		2011-02-03	1996-07-31	
-S000001582	ORF	Verified	YKL099C	UTP11	rRNA-processing protein UTP11	chromosome 11		11	256472	255720	C		2011-02-03	1996-07-31|2005-12-15	Subunit of U3-containing Small Subunit (SSU) processome complex; involved in production of 18S rRNA and assembly of small ribosomal subunit
-S000031999	CDS					YKL099C		11	256472	255720	C		2011-02-03	1996-07-31|2005-12-15	
-S000001581	ORF	Verified	YKL098W	MTC2		chromosome 11		11	256770	257843	W		2011-02-03	1996-07-31	Protein of unknown function; mtc2 is synthetically sick with cdc13-1
-S000031070	CDS					YKL098W		11	256770	257843	W		2011-02-03	1996-07-31	
-S000001580	ORF	Dubious	YKL097C			chromosome 11		11	258913	258503	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species
-S000030940	CDS					YKL097C		11	258913	258503	C		2011-02-03	1996-07-31	
-S000028667	ORF	Uncharacterized	YKL096C-B			chromosome 11		11	259222	259073	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032492	CDS					YKL096C-B		11	259222	259073	C		2011-02-03	2003-07-29	
-S000001956	ORF	Verified	YKL096W-A	CWP2	YKL097W-A|LPR1	chromosome 11	L000000952|L000002857	11	259253	259531	W		2011-02-03	1996-07-31	Covalently linked cell wall mannoprotein; major constituent of the cell wall; plays a role in stabilizing the cell wall; involved in low pH resistance; precursor is GPI-anchored
-S000037786	CDS					YKL096W-A		11	259253	259531	W		2011-02-03	1996-07-31	
-S000001579	ORF	Verified	YKL096W	CWP1	YJU1	chromosome 11	L000000446|L000002512	11	261132	261851	W		2011-02-03	1996-07-31	Cell wall mannoprotein that localizes to birth scars of daughter cells; linked to a beta-1,3- and beta-1,6-glucan heteropolymer through a phosphodiester bond; required for propionic acid resistance
-S000030917	CDS					YKL096W		11	261132	261851	W		2011-02-03	1996-07-31	
-S000001578	ORF	Verified	YKL095W	YJU2	mRNA splicing protein YJU2|CWC16	chromosome 11	L000002513	11	262277	263113	W		2011-02-03	1996-07-31	Essential protein required for pre-mRNA splicing; associates transiently with the spliceosomal NTC ("nineteen complex") and acts after Prp2p to promote the first catalytic reaction of splicing
-S000030823	CDS					YKL095W		11	262277	263113	W		2011-02-03	1996-07-31	
-S000001577	ORF	Verified	YKL094W	YJU3	acylglycerol lipase	chromosome 11	L000002514	11	263349	264290	W		2011-02-03	1996-07-31	Monoglyceride lipase (MGL); functional ortholog of mammalian MGL, localizes to lipid particles and membranes, also member of the eukaryotic serine hydrolase family
-S000037906	CDS					YKL094W		11	263349	264290	W		2011-02-03	1996-07-31	
-S000001576	ORF	Verified	YKL093W	MBR1		chromosome 11	L000001033	11	264789	265808	W		2011-02-03	1996-07-31	Protein involved in mitochondrial functions and stress response; overexpression suppresses growth defects of hap2, hap3, and hap4 mutants; MBR1 has a paralog, ISF1, that arose from the whole genome duplication
-S000037808	CDS					YKL093W		11	264789	265808	W		2011-02-03	1996-07-31	
-S000001575	ORF	Verified	YKL092C	BUD2	ERC25|CLA2	chromosome 11	L000000199	11	269459	266145	C		2011-02-03	1996-07-31	GTPase activating factor for Rsr1p/Bud1p; plays a role in spindle position checkpoint distinct from its role in bud site selection; required for both axial and bipolar budding patterns; mutants exhibit random budding in all cell types; contains two PH-like domains
-S000037705	CDS					YKL092C		11	269459	266145	C		2011-02-03	1996-07-31	
-S000001574	ORF	Verified	YKL091C		phosphatidylinositol/phosphatidylcholine-binding protein|SFH1	chromosome 11		11	270650	269718	C		2011-02-03	1996-07-31	Putative phosphatidylinositol/phosphatidylcholine transfer protein; possibly involved in lipid metabolism; localizes to the nucleus; contains a CRAL/TRIO domain and binds several lipids in a large-scale study; YKL091C has a paralog, SEC14, that arose from the whole genome duplication
-S000036936	CDS					YKL091C		11	270650	269718	C		2011-02-03	1996-07-31	
-S000001573	ORF	Verified	YKL090W	CUE2		chromosome 11		11	271878	273209	W		2011-02-03	1996-07-31	Protein of unknown function; has two CUE domains that bind ubiquitin, which may facilitate intramolecular monoubiquitination
-S000036908	CDS					YKL090W		11	271878	273209	W		2011-02-03	1996-07-31	
-S000001572	ORF	Verified	YKL089W	MIF2		chromosome 11	L000001109	11	273394	275043	W	-43	2011-02-03	1996-07-31	Protein required for structural integrity of elongating spindles; localizes to the kinetochore; interacts with histones H2A, H2B, and H4; phosphorylated by Ipl1p; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-C and fission yeast cnp3
-S000036033	CDS					YKL089W		11	273394	275043	W		2011-02-03	1996-07-31	
-S000001571	ORF	Verified	YKL088W	CAB3	phosphopantothenoylcysteine decarboxylase complex subunit CAB3	chromosome 11		11	275283	276998	W		2011-02-03	1996-07-31	Subunit of PPCDC and CoA-SPC complexes involved in CoA biosynthesis; subunits of the phosphopantothenoylcysteine decarboxylase (PPCDC) complex are: Cab3p, Sis2p, Vhs3p, while the subunits of the CoA-synthesizing protein complex (CoA-SPC) are: Cab2p, Cab3p, Cab4p, and Cab5p as well as Sis2p and Vhs3p; null mutant lethality is complemented by E. coli coaBC
-S000035891	CDS					YKL088W		11	275283	276998	W		2011-02-03	1996-07-31	
-S000001570	ORF	Verified	YKL087C	CYT2	cytochrome c1 heme lyase CYT2|CC1HL	chromosome 11	L000000473	11	277863	277189	C		2011-02-03	1996-07-31	Cytochrome c1 heme lyase; involved in maturation of cytochrome c1, which is a subunit of the mitochondrial ubiquinol-cytochrome-c reductase; links heme covalently to apocytochrome c1; human homolog HCCS can complement yeast cyt2 null mutant
-S000034890	CDS					YKL087C		11	277863	277189	C		2011-02-03	1996-07-31	
-S000001569	ORF	Verified	YKL086W	SRX1	sulfiredoxin	chromosome 11		11	278281	278664	W		2011-02-03	1996-07-31	Sulfiredoxin; contributes to oxidative stress resistance by reducing cysteine-sulfinic acid groups in the peroxiredoxin Tsa1p, which is formed upon exposure to oxidants; conserved in higher eukaryotes; protein abundance increases in response to DNA replication stress
-S000034838	CDS					YKL086W		11	278281	278664	W		2011-02-03	1996-07-31	
-S000001568	ORF	Verified	YKL085W	MDH1	malate dehydrogenase MDH1	chromosome 11	L000001045	11	279123	280127	W		2011-02-03	1996-07-31	Mitochondrial malate dehydrogenase; catalyzes interconversion of malate and oxaloacetate; involved in the tricarboxylic acid (TCA) cycle; phosphorylated
-S000034670	CDS					YKL085W		11	279123	280127	W		2011-02-03	1996-07-31	
-S000001567	ORF	Verified	YKL084W	HOT13		chromosome 11		11	280509	280859	W		2011-02-03	1996-07-31	Zinc-binding mitochondrial intermembrane space (IMS) protein; involved in a disulfide relay system for IMS import of cysteine-containing proteins; binds Mia40p and stimulates its Erv1p-dependent oxidation, probably by sequestering zinc
-S000033808	CDS					YKL084W		11	280509	280859	W		2011-02-03	1996-07-31	
-S000001566	ORF	Dubious	YKL083W			chromosome 11		11	280921	281535	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified essential gene RRP14
-S000033660	CDS					YKL083W		11	280921	281535	W		2011-02-03	1996-07-31	
-S000001565	ORF	Verified	YKL082C	RRP14	ribosome biosynthesis protein RRP14	chromosome 11		11	282329	281025	C		2011-02-03	1996-07-31	Essential protein, constituent of 66S pre-ribosomal particles; interacts with proteins involved in ribosomal biogenesis and cell polarity; member of the SURF-6 family
-S000033529	CDS					YKL082C		11	282329	281025	C		2011-02-03	1996-07-31	
-S000001564	ORF	Verified	YKL081W	TEF4	translation elongation factor EF1B gamma|EFC1	chromosome 11	L000002280	11	282891	284455	W		2011-02-03	1996-07-31	Gamma subunit of translational elongation factor eEF1B; stimulates the binding of aminoacyl-tRNA (AA-tRNA) to ribosomes by releasing eEF1A (Tef1p/Tef2p) from the ribosomal complex
-S000033487	CDS					YKL081W		11	282891	283095	W		2011-02-03	1996-07-31	
-S000033488	CDS					YKL081W		11	283422	284455	W		2011-02-03	1996-07-31	
-S000033489	intron					YKL081W		11	283096	283421	W		2011-02-03	1996-07-31	
-S000007301	snoRNA_gene		snR38	SNR38		chromosome 11	L000003053	11	283185	283279	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position G2815
-S000036768	noncoding_exon					snR38		11	283185	283279	W		2011-02-03	2000-05-19	
-S000001563	ORF	Verified	YKL080W	VMA5	H(+)-transporting V1 sector ATPase subunit C|VAT3|CSL5	chromosome 11	L000002460	11	285030	286208	W		2011-02-03	1996-07-31	Subunit C of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; required for the V1 domain to assemble onto the vacuolar membrane; the V1 peripheral membrane domain of vacuolar H+-ATPase (V-ATPase) has eight subunits
-S000032748	CDS					YKL080W		11	285030	286208	W		2011-02-03	1996-07-31	
-S000001562	ORF	Verified	YKL079W	SMY1		chromosome 11	L000001940	11	286603	288573	W		2011-02-03	1996-07-31	Kinesin-like myosin passenger-protein; interacts with Myo2p and enhances its interaction with Sec4p during transport of secretory vesicles; controls actin cable structure and dynamics
-S000031903	CDS					YKL079W		11	286603	288573	W		2011-02-03	1996-07-31	
-S000001561	ORF	Verified	YKL078W	DHR2	RNA helicase	chromosome 11		11	288845	291052	W		2011-02-03	1996-07-31	Predominantly nucleolar DEAH-box ATP-dependent RNA helicase; required for 18S rRNA synthesis
-S000031760	CDS					YKL078W		11	288845	291052	W		2011-02-03	1996-07-31	
-S000001560	ORF	Uncharacterized	YKL077W			chromosome 11		11	291453	292631	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole
-S000031669	CDS					YKL077W		11	291453	292631	W		2011-02-03	1996-07-31	
-S000001559	ORF	Dubious	YKL076C	PSY1		chromosome 11		11	293221	292838	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 69% of ORF overlaps the uncharacterized ORF YKL075C
-S000031531	CDS					YKL076C		11	293221	292838	C		2011-02-03	1996-07-31	
-S000001558	ORF	Uncharacterized	YKL075C			chromosome 11		11	294308	292956	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; proposed to be involved in resistance to streptozotocin and camptothecin
-S000030667	CDS					YKL075C		11	294308	292956	C		2011-02-03	1996-07-31	
-S000001557	ORF	Verified	YKL074C	MUD2		chromosome 11	L000002794	11	296193	294610	C		2011-02-03	1996-07-31	Protein involved in early pre-mRNA splicing; component of the pre-mRNA-U1 snRNP complex, the commitment complex; interacts with Msl5p/BBP splicing factor and Sub2p; similar to metazoan splicing factor U2AF65
-S000030581	CDS					YKL074C		11	296193	294610	C		2011-02-03	1996-07-31	
-S000001556	ORF	Verified	YKL073W	LHS1	Hsp70 family chaperone LHS1|SSI1|CER1	chromosome 11	L000004102	11	296430	299075	W		2011-02-03	1996-07-31	Molecular chaperone of the endoplasmic reticulum lumen; involved in polypeptide translocation and folding; nucleotide exchange factor for the ER lumenal Hsp70 chaperone Kar2p; regulated by the unfolded protein response pathway
-S000030511	CDS					YKL073W		11	296430	299075	W		2011-02-03	1996-07-31	
-S000001555	ORF	Verified	YKL072W	STB6		chromosome 11	L000003369	11	299582	301882	W		2011-02-03	1996-07-31	Protein that binds Sin3p in a two-hybrid assay; STB6 has a paralog, STB2, that arose from the whole genome duplication
-S000030364	CDS					YKL072W		11	299582	301882	W		2011-02-03	1996-07-31	
-S000007052	long_terminal_repeat		YKLCdelta5			chromosome 11		11	302625	302334	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006774	tRNA_gene		tW(CCA)K			chromosome 11	L000003633	11	302918	303023	W		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
-S000033327	intron					tW(CCA)K		11	302954	302987	W		2011-02-03	2000-05-19	
-S000033325	noncoding_exon					tW(CCA)K		11	302918	302953	W		2011-02-03	2000-05-19	
-S000033326	noncoding_exon					tW(CCA)K		11	302988	303023	W		2011-02-03	2000-05-19	
-S000001554	ORF	Uncharacterized	YKL071W			chromosome 11		11	305114	305884	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression induced in cells treated with the mycotoxin patulin, and also the quinone methide triterpene celastrol; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000037597	CDS					YKL071W		11	305114	305884	W		2011-02-03	1996-07-31	
-S000001553	ORF	Uncharacterized	YKL070W			chromosome 11		11	306211	306720	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression induced in cells treated with mycotoxins patulin or citrinin; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000037452	CDS					YKL070W		11	306211	306720	W		2011-02-03	1996-07-31	
-S000001552	ORF	Verified	YKL069W		L-methionine (R)-S-oxide reductase|fRMsr|YKG9	chromosome 11		11	307285	307827	W		2011-02-03	1996-07-31	Methionine-R-sulfoxide reductase; reduces the R enantiomer of free Met-SO, in contrast to Ycl033Cp which reduces Met-R-SO in a peptide linkage; has a role in protection against oxidative stress; relative distribution to the nucleus increases upon DNA replication stress
-S000036847	CDS					YKL069W		11	307285	307827	W		2011-02-03	1996-07-31	
-S000006760	tRNA_gene		tV(AAC)K1			chromosome 11	L000003641	11	308217	308144	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000037869	noncoding_exon					tV(AAC)K1		11	308217	308144	C		2011-02-03	2000-05-19	
-S000028524	ORF	Uncharacterized	YKL068W-A			chromosome 11		11	309206	309442	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by homology to Ashbya gossypii
-S000030323	CDS					YKL068W-A		11	309206	309442	W		2011-02-03	2003-07-29	
-S000001551	ORF	Verified	YKL068W	NUP100	FG-nucleoporin NUP100|[NUP100+]|NSP100	chromosome 11	L000001292	11	310199	313078	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier and is involved in gene tethering at the nuclear periphery; NUP100 has a paralog, NUP116, that arose from the whole genome duplication
-S000036782	CDS					YKL068W		11	310199	313078	W		2011-02-03	1996-07-31	
-S000006598	tRNA_gene		tH(GUG)K			chromosome 11	L000003640	11	313472	313401	C		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
-S000033889	noncoding_exon					tH(GUG)K		11	313472	313401	C		2011-02-03	2000-05-19	
-S000007053	long_terminal_repeat		YKLCdelta6			chromosome 11		11	313919	313602	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007057	long_terminal_repeat		YKLWdelta7			chromosome 11		11	314193	314524	W		2011-02-03	2000-05-19	Ty1 LTR
-S000001550	ORF	Verified	YKL067W	YNK1	nucleoside diphosphate kinase|NDK1	chromosome 11	L000002536	11	314812	315273	W		2011-02-03	1996-07-31	Nucleoside diphosphate kinase; catalyzes the transfer of gamma phosphates from nucleoside triphosphates, usually ATP, to nucleoside diphosphates by a mechanism that involves formation of an autophosphorylated enzyme intermediate; protein abundance increases in response to DNA replication stress
-S000036722	CDS					YKL067W		11	314812	315273	W		2011-02-03	1996-07-31	
-S000001549	ORF	Dubious	YKL066W			chromosome 11		11	315281	315724	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified gene YNK1
-S000036665	CDS					YKL066W		11	315281	315724	W		2011-02-03	1996-07-31	
-S000113563	ORF	Uncharacterized	YKL065W-A			chromosome 11		11	315954	316175	W		2011-02-03	2005-11-17	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum (ER) while mCherry fusion localizes to both the ER and vacuole
-S000113565	CDS					YKL065W-A		11	315954	316175	W		2011-02-03	2005-11-17	
-S000001548	ORF	Verified	YKL065C	YET1		chromosome 11	L000003484	11	317057	316437	C		2011-02-03	1996-07-31|2011-02-03	Endoplasmic reticulum transmembrane protein; may interact with ribosomes, based on co-purification experiments; homolog of human BAP31 protein; YET1 has a paralog, YET2, that arose from the whole genome duplication
-S000035692	CDS					YKL065C		11	317057	316437	C		2011-02-03	1996-07-31|2011-02-03	
-S000001547	ORF	Verified	YKL064W	MNR2	putative Mg(2+) transporter MNR2	chromosome 11	L000003203	11	317764	320673	W		2011-02-03	1996-07-31	Vacuolar membrane protein required for magnesium homeostasis; putative magnesium transporter; has similarity to Alr1p and Alr2p, which mediate influx of Mg2+ and other divalent cations; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs)
-S000035630	CDS					YKL064W		11	317764	320673	W		2011-02-03	1996-07-31	
-S000001546	ORF	Uncharacterized	YKL063C			chromosome 11		11	321518	321015	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the Golgi
-S000035510	CDS					YKL063C		11	321518	321015	C		2011-02-03	1996-07-31	
-S000001545	ORF	Verified	YKL062W	MSN4	stress-responsive transcriptional activator MSN4	chromosome 11	L000001199	11	323228	325120	W		2011-02-03	1996-07-31	Stress-responsive transcriptional activator; activated in stochastic pulses of nuclear localization in response to various stress conditions; binds DNA at stress response elements of responsive genes, inducing gene expression; involved in diauxic shift
-S000034556	CDS					YKL062W		11	323228	325120	W		2011-02-03	1996-07-31	
-S000001544	ORF	Verified	YKL061W	BLI1		chromosome 11		11	325771	326112	W		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; interacts with Msb3p; green fluorescent protein (GFP)-fusion protein localizes to the endosome
-S000034423	CDS					YKL061W		11	325771	326112	W		2011-02-03	1996-07-31	
-S000001543	ORF	Verified	YKL060C	FBA1	fructose-bisphosphate aldolase FBA1|LOT1	chromosome 11	L000000604	11	327487	326408	C		2011-02-03	1996-07-31	Fructose 1,6-bisphosphate aldolase; required for glycolysis and gluconeogenesis; catalyzes conversion of fructose 1,6 bisphosphate to glyceraldehyde-3-P and dihydroxyacetone-P; locates to mitochondrial outer surface upon oxidative stress; N-terminally propionylated in vivo
-S000034296	CDS					YKL060C		11	327487	326408	C		2011-02-03	1996-07-31	
-S000001542	ORF	Verified	YKL059C	MPE1	cleavage polyadenylation factor subunit MPE1	chromosome 11		11	329443	328118	C		2011-02-03	1996-07-31	Essential conserved subunit of CPF cleavage and polyadenylation factor; plays a role in 3' end formation of mRNA via the specific cleavage and polyadenylation of pre-mRNA; contains a ubiquitin-like (UBL) domain, a RNA-binding zinc knuckle motif and a RING finger domain; both the zinc knuckle and RING finger are required for pre-mRNA binding; possible role in ubiquitination of Pap1p; relocalizes to the cytosol in response to hypoxia
-S000033369	CDS					YKL059C		11	329443	328118	C		2011-02-03	1996-07-31	
-S000118403	ARS		ARS1109		ARSXI-329	chromosome 11		11	329682	329930			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000001541	ORF	Verified	YKL058W	TOA2	transcription initiation factor IIA subunit gamma	chromosome 11	L000002317	11	330166	330534	W		2011-02-03	1996-07-31	TFIIA small subunit; involved in transcriptional activation, acts as antirepressor or as coactivator; required, along with Toa1p, for ribosomal protein gene transcription in vivo; homologous to smallest subunit of human and Drosophila TFIIA; protein abundance increases in response to DNA replication stress
-S000033347	CDS					YKL058W		11	330166	330534	W		2011-02-03	1996-07-31	
-S000001540	ORF	Verified	YKL057C	NUP120	RAT2	chromosome 11	L000003138	11	333969	330856	C		2011-02-03	1996-07-31	Subunit of the Nup84p subcomplex of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport and NPC biogenesis and is involved in establishment of a normal nucleocytoplasmic concentration gradient of the GTPase Gsp1p; also plays roles in several processes that may require localization of genes or chromosomes at the nuclear periphery, including double-strand break repair, transcription and chromatin silencing; homologous to human NUP160
-S000032581	CDS					YKL057C		11	333969	330856	C		2011-02-03	1996-07-31	
-S000001539	ORF	Verified	YKL056C	TMA19	MMI1|RBF18	chromosome 11		11	334915	334412	C		2011-02-03	1996-07-31	Protein that associates with ribosomes; homolog of translationally controlled tumor protein; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and relocates to the mitochondrial outer surface upon oxidative stress
-S000032498	CDS					YKL056C		11	334915	334412	C		2011-02-03	1996-07-31	
-S000001538	ORF	Verified	YKL055C	OAR1	3-oxoacyl-[acyl-carrier-protein] reductase (NADPH)	chromosome 11		11	336157	335321	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial 3-oxoacyl-[acyl-carrier-protein] reductase; may comprise a type II mitochondrial fatty acid synthase along with Mct1p; human homolog CBR4 complements yeast null mutant
-S000032402	CDS					YKL055C		11	336157	335321	C		2011-02-03	1996-07-31|2011-02-03	
-S000001537	ORF	Verified	YKL054C	DEF1	DNA damage-responsive RNA polymerase-degradation factor DEF1|VID31	chromosome 11		11	338753	336537	C		2011-02-03	1996-07-31	RNAPII degradation factor; forms a complex with Rad26p in chromatin, enables ubiquitination and proteolysis of RNAPII present in an elongation complex; mutant is deficient in Zip1p loading onto chromosomes during meiosis
-S000031390	CDS					YKL054C		11	338753	336537	C		2011-02-03	1996-07-31	
-S000007243	ORF	Verified	YKL053C-A	MDM35		chromosome 11		11	339442	339182	C		2011-02-03	1999-07-17	Mitochondrial intermembrane space protein; forms complex with Ups2p that transfers phosphatidylserine from outer membrane to inner membrane for phosphatidylethanolamine synthesis; mutation affects mitochondrial distribution and morphology; contains twin cysteine-x9-cysteine motifs; protein abundance increases in response to DNA replication stress
-S000032996	CDS					YKL053C-A		11	339442	339182	C		2011-02-03	1999-07-17	
-S000001536	ORF	Dubious	YKL053W			chromosome 11		11	339572	339946	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF ASK1
-S000031321	CDS					YKL053W		11	339572	339946	W		2011-02-03	1996-07-31	
-S000001535	ORF	Verified	YKL052C	ASK1		chromosome 11		11	340546	339668	C		2011-02-03	1996-07-31|2008-06-03	Essential subunit of the Dam1 complex (aka DASH complex); couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; phosphorylated during the cell cycle by cyclin-dependent kinases; sumoylated in an Mms21p-dependent manner; protein abundance increases in response to DNA replication stress
-S000031156	CDS					YKL052C		11	340546	339668	C		2011-02-03	1996-07-31|2008-06-03	
-S000001534	ORF	Verified	YKL051W	SFK1		chromosome 11		11	341312	342373	W		2011-02-03	1996-07-31	Plasma membrane protein that may act to generate normal levels of PI4P; may act together with or upstream of Stt4p; at least partially mediates proper localization of Stt4p to the plasma membrane
-S000031104	CDS					YKL051W		11	341312	342373	W		2011-02-03	1996-07-31	
-S000001533	ORF	Verified	YKL050C			chromosome 11		11	345620	342852	C		2011-02-03	1996-07-31	Protein of unknown function; the YKL050W protein is a target of the SCFCdc4 ubiquitin ligase complex and YKL050W transcription is regulated by Azf1p; YKL050C has a paralog, EIS1, that arose from the whole genome duplication
-S000030029	CDS					YKL050C		11	345620	342852	C		2011-02-03	1996-07-31	
-S000001532	ORF	Verified	YKL049C	CSE4	centromeric DNA-binding histone H3-like protein CSE4|CSL2	chromosome 11	L000002719	11	346764	346075	C		2011-02-03	2003-01-10|1996-07-31|2003-01-08	Histone H3-like centromere protein; associated with promoters, accessible chromatin, RNAPII-bound regions; phosphorylated Cse4p associates with centromeres; required for proper kinetochore function; levels regulated by E3 ubiquitin ligase Psh1p; phosphorylation may destabilize defective kinetochores to promote bi-orientation; ubiquitination of N-terminus regulates proteolysis for faithful chromosome segregation; yeast CSE4 can complement mutations in human homolog CENPA
-S000037076	CDS					YKL049C		11	346764	346075	C		2011-02-03	2003-01-10|1996-07-31|2003-01-08	
-S000001531	ORF	Verified	YKL048C	ELM1	serine/threonine protein kinase ELM1|LDB9	chromosome 11	L000000548	11	349136	347214	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; regulates the orientation checkpoint, the morphogenesis checkpoint and the metabolic switch from fermentative to oxidative metabolism by phosphorylating the activation loop of Kin4p, Hsl1p and Snf4p respectively; cooperates with Hsl7p in recruiting Hsl1p to the septin ring, a prerequisite for subsequent recruitment, phosphorylation, and degradation of Swe1p; forms part of the bud neck ring; regulates cytokinesis
-S000036436	CDS					YKL048C		11	349136	347214	C		2011-02-03	1996-07-31	
-S000001530	ORF	Verified	YKL047W	ANR2		chromosome 11	S000114863	11	349463	351013	W		2011-02-03	1996-07-31	Protein of unknown function; may have a role in lipid metabolism, based on localization to lipid droplets; predicted to be palmitoylated
-S000036411	CDS					YKL047W		11	349463	351013	W		2011-02-03	1996-07-31	
-S000001529	ORF	Verified	YKL046C	DCW1	putative mannan endo-1,6-alpha-mannosidase	chromosome 11		11	352624	351275	C		2011-02-03	1996-07-31	Putative mannosidase; GPI-anchored membrane protein required for cell wall biosynthesis in bud formation;homologous to Dfg5p
-S000036235	CDS					YKL046C		11	352624	351275	C		2011-02-03	1996-07-31	
-S000001528	ORF	Verified	YKL045W	PRI2	DNA primase subunit PRI2	chromosome 11	L000001490	11	353493	355079	W		2011-02-03	1996-07-31	Subunit of DNA primase; DNA primase is required for DNA synthesis and double-strand break repair
-S000036183	CDS					YKL045W		11	353493	355079	W		2011-02-03	1996-07-31	
-S000001527	ORF	Verified	YKL044W	MMO1		chromosome 11		11	356322	356642	W		2011-02-03	1996-07-31	Protein of unknown function; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the mitochondria; mRNA identified as translated by ribosome profiling data; MMO1 is a non-essential gene
-S000035237	CDS					YKL044W		11	356322	356642	W		2011-02-03	1996-07-31	
-S000001526	ORF	Verified	YKL043W	PHD1		chromosome 11	L000001417	11	356748	357848	W		2011-02-03	1996-07-31	Transcriptional activator that enhances pseudohyphal growth; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; regulates expression of FLO11, an adhesin required for pseudohyphal filament formation; similar to StuA, an A. nidulans developmental regulator; potential Cdc28p substrate; PHD1 has a paralog, SOK2, that arose from the whole genome duplication
-S000035082	CDS					YKL043W		11	356748	357848	W		2011-02-03	1996-07-31	
-S000001525	ORF	Verified	YKL042W	SPC42		chromosome 11	L000004148	11	358475	359566	W		2011-02-03	1996-07-31	Central plaque component of spindle pole body (SPB); involved in SPB duplication, may facilitate attachment of the SPB to the nuclear membrane
-S000034904	CDS					YKL042W		11	358475	359566	W		2011-02-03	1996-07-31	
-S000001524	ORF	Verified	YKL041W	VPS24	ESCRT-III subunit protein VPS24|VPL26|DID3	chromosome 11	L000004158	11	360143	360817	W		2011-02-03	1996-07-31	One of four subunits of the ESCRT-III complex; forms an endosomal sorting complex required for transport III (ESCRT-III) subcomplex with Did4p; involved in the sorting of transmembrane proteins into the multivesicular body (MVB) pathway
-S000034024	CDS					YKL041W		11	360143	360817	W		2011-02-03	1996-07-31	
-S000001523	ORF	Verified	YKL040C	NFU1	NUB1	chromosome 11	L000004771	11	361828	361058	C		2011-02-03	1996-07-31	Protein involved in Fe-S cluster transfer to mitochondrial clients; protects [4Fe-4S] clusters from damage due to oxidative stress; acts along with Bol3 at a late step in the transfer of [4Fe-4S] clusters from the ISA complex to client proteins; Fe-S loaded homodimer at steady state; similar to NifU, a bacterial protein required for Fe/S cluster maturation; ortholog of the human NFU1, mutations of which are associated with Multiple Mitochondria Dysfunctions Syndrome (MMDS1)
-S000033793	CDS					YKL040C		11	361828	361058	C		2011-02-03	1996-07-31	
-S000001522	ORF	Verified	YKL039W	PTM1		chromosome 11	L000001524	11	362622	364193	W		2011-02-03	1996-07-31|2005-12-15	Protein of unknown function; copurifies with late Golgi vesicles containing the v-SNARE Tlg2p; PTM1 has a paralog, YHL017W, that arose from the whole genome duplication
-S000035013	CDS					YKL039W		11	362622	364193	W		2011-02-03	1996-07-31|2005-12-15	
-S000006460	snoRNA_gene		snR69	SNR69		chromosome 11	L000004538	11	364776	364876	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C2948
-S000030857	noncoding_exon					snR69		11	364776	364876	W		2011-02-03	2000-05-19	
-S000001521	ORF	Verified	YKL038W	RGT1		chromosome 11	L000003482	11	365605	369117	W		2011-02-03	1996-07-31	Glucose-responsive transcription factor; regulates expression of several glucose transporter (HXT) genes in response to glucose; binds to promoters and acts both as a transcriptional activator and repressor; recruits Tup1p/Cyc8p to target gene promoters; RGT1 has a paralog, EDS1, that arose from the whole genome duplication
-S000034833	CDS					YKL038W		11	365605	369117	W		2011-02-03	1996-07-31	
-S000001520	ORF	Verified	YKL037W	AIM26		chromosome 11		11	369365	369721	W		2011-02-03	1996-07-31	Protein of unknown function; null mutant is viable and displays elevated frequency of mitochondrial genome loss; null mutation confers sensitivity to tunicamycin and DTT
-S000032888	CDS					YKL037W		11	369365	369721	W		2011-02-03	1996-07-31	
-S000001518	ORF	Verified	YKL035W	UGP1	UTP glucose-1-phosphate uridylyltransferase	chromosome 11	L000003118	11	369891	371390	W		2011-02-03	1996-07-31	UDP-glucose pyrophosphorylase (UGPase); catalyses the reversible formation of UDP-Glc from glucose 1-phosphate and UTP, involved in a wide variety of metabolic pathways, expression modulated by Pho85p through Pho4p; involved in PKA-mediated oxidative stress resistance and long-term survival in stationary phase; UGP1 has a paralog, YHL012W, that arose from the whole genome duplication
-S000032697	CDS					YKL035W		11	369891	371390	W		2011-02-03	1996-07-31	
-S000001519	ORF	Dubious	YKL036C			chromosome 11		11	369920	369528	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the essential gene UGP1 gene and uncharacterized ORF YKL037W
-S000032729	CDS					YKL036C		11	369920	369528	C		2011-02-03	1996-07-31	
-S000001517	ORF	Verified	YKL034W	TUL1	ubiquitin-protein ligase TUL1	chromosome 11		11	371829	374105	W		2011-02-03	1996-07-31	Subunit of the DSC ubiquitin ligase complex; golgi-localized RING-finger ubiquitin ligase (E3) involved in sorting polar transmembrane domain containing membrane proteins to multivesicular bodies for delivery to the vacuole; proposed involvement in the quality control of misfolded TMD containing proteins; ortholog of fission yeast dsc1
-S000032625	CDS					YKL034W		11	371829	374105	W		2011-02-03	1996-07-31	
-S000007242	ORF	Uncharacterized	YKL033W-A		putative hydrolase	chromosome 11		11	374505	375215	W		2011-02-03	2004-02-13|1999-07-17	Putative protein of unknown function; similar to uncharacterized proteins from other fungi
-S000036238	CDS					YKL033W-A		11	374505	375215	W		2011-02-03	2004-02-13|1999-07-17	
-S000001516	ORF	Verified	YKL033W	TTI1	FMP47	chromosome 11		11	375456	378572	W		2011-02-03	1996-07-31	Subunit of the ASTRA complex, involved in chromatin remodeling; telomere length regulator involved in the stability or biogenesis of PIKKs such as TORC1; similar to S. pombe Tti1p; detected in highly purified mitochondria in high-throughput studies
-S000031614	CDS					YKL033W		11	375456	378572	W		2011-02-03	1996-07-31	
-S000006761	tRNA_gene		tV(AAC)K2			chromosome 11	L000003634	11	379680	379753	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000037883	noncoding_exon					tV(AAC)K2		11	379680	379753	W		2011-02-03	2000-05-19	
-S000001515	ORF	Verified	YKL032C	IXR1	DNA-binding transcription repressor IXR1|ORD1	chromosome 11	L000000881	11	381858	380065	C		2011-02-03	1996-07-31	Transcriptional repressor that regulates hypoxic genes during normoxia; involved in the aerobic repression of genes such as COX5b, TIR1, and HEM13; binds DNA intrastrand cross-links formed by cisplatin; HMG (high mobility group box) domain containing protein which binds and bends cisplatin-modified DNA, blocking excision repair; IXR1 has a paralog, ABF2, that arose from the whole genome duplication
-S000031407	CDS					YKL032C		11	381858	380065	C		2011-02-03	1996-07-31	
-S000001514	ORF	Dubious	YKL031W			chromosome 11		11	382072	382485	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species
-S000031365	CDS					YKL031W		11	382072	382485	W		2011-02-03	1996-07-31	
-S000001513	ORF	Dubious	YKL030W			chromosome 11		11	382498	383103	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified gene MAE1
-S000030446	CDS					YKL030W		11	382498	383103	W		2011-02-03	1996-07-31	
-S000001512	ORF	Verified	YKL029C	MAE1	malate dehydrogenase (oxaloacetate-decarboxylating)	chromosome 11	L000003506	11	384725	382716	C		2011-02-03	1996-07-31	Mitochondrial malic enzyme; catalyzes the oxidative decarboxylation of malate to pyruvate, which is a key intermediate in sugar metabolism and a precursor for synthesis of several amino acids
-S000030570	CDS					YKL029C		11	384725	382716	C		2011-02-03	1996-07-31	
-S000001511	ORF	Verified	YKL028W	TFA1	transcription factor TFIIE subunit TFA1	chromosome 11	L000002595	11	385758	387206	W		2011-02-03	1996-07-31	TFIIE large subunit; involved in recruitment of RNA polymerase II to the promoter, activation of TFIIH, and promoter opening
-S000036771	CDS					YKL028W		11	385758	387206	W		2011-02-03	1996-07-31	
-S000001510	ORF	Verified	YKL027W	TCD2	tRNA threonylcarbamoyladenosine dehydratase	chromosome 11		11	387562	388905	W		2011-02-03	1996-07-31	tRNA threonylcarbamoyladenosine dehydratase; required for the ct6A tRNA base modification, where an adenosine at position 37 is modified to form a cyclized active ester with an oxazolone ring; localized to the mitochondrial outer membrane; TCD2 has a paralog, TCD1, that arose from the whole genome duplication
-S000036685	CDS					YKL027W		11	387562	388905	W		2011-02-03	1996-07-31	
-S000118404	ARS		ARS1112		ARSXI-389	chromosome 11		11	388970	389264			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000001509	ORF	Verified	YKL026C	GPX1	glutathione peroxidase GPX1	chromosome 11		11	389883	389380	C		2011-02-03	1996-07-31	Phospholipid hydroperoxide glutathione peroxidase; induced by glucose starvation that protects cells from phospholipid hydroperoxides and nonphospholipid peroxides during oxidative stress; GPX1 has a paralog, HYR1, that arose from the whole genome duplication
-S000036560	CDS					YKL026C		11	389883	389380	C		2011-02-03	1996-07-31	
-S000001508	ORF	Verified	YKL025C	PAN3	ECM35	chromosome 11	L000003340	11	392279	390240	C		2011-02-03	1996-07-31	Essential subunit of the Pan2p-Pan3p poly(A)-ribonuclease complex; poly (A) mRNA binding subunit which recruits mRNA to the complex; the Pan2p-Pan3p complex controls poly(A) tail length and regulates the stoichiometry and activity of postreplication repair complexes
-S000035620	CDS					YKL025C		11	392279	390240	C		2011-02-03	1996-07-31	
-S000001507	ORF	Verified	YKL024C	URA6	bifunctional uridylate/adenylate kinase|SOC8	chromosome 11	L000002435	11	393140	392526	C	18	2011-02-03	1996-07-31	Uridylate kinase; catalyzes the seventh enzymatic step in the de novo biosynthesis of pyrimidines, converting uridine monophosphate (UMP) into uridine-5'-diphosphate (UDP)
-S000035543	CDS					YKL024C		11	393140	392526	C		2011-02-03	1996-07-31	
-S000113559	ORF	Uncharacterized	YKL023C-A			chromosome 11		11	393373	393146	C		2011-02-03	2005-11-17	Putative protein of unknown function
-S000113560	CDS					YKL023C-A		11	393373	393146	C		2011-02-03	2005-11-17	
-S000001506	ORF	Uncharacterized	YKL023W			chromosome 11		11	393721	394554	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; predicted by computational methods to be involved in mRNA degradation; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000035506	CDS					YKL023W		11	393721	394554	W		2011-02-03	1996-07-31|2011-02-03	
-S000001505	ORF	Verified	YKL022C	CDC16	anaphase promoting complex subunit CDC16	chromosome 11	L000000256	11	397248	394726	C	-15	2011-02-03	1996-07-31	Subunit of the anaphase-promoting complex/cyclosome (APC/C); which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; required for sporulation; relocalizes to the cytosol in response to hypoxia
-S000034410	CDS					YKL022C		11	397248	394726	C		2011-02-03	1996-07-31	
-S000001504	ORF	Verified	YKL021C	MAK11		chromosome 11	L000000984	11	398750	397344	C	-16	2011-02-03	1996-07-31	Protein involved in an early step of 60S ribosomal subunit biogenesis; essential for cell growth and replication of killer M1 dsRNA virus; contains four beta-transducin repeats
-S000034298	CDS					YKL021C		11	398750	397344	C		2011-02-03	1996-07-31	
-S000001503	ORF	Verified	YKL020C	SPT23		chromosome 11	L000002041	11	402080	398832	C		2011-02-03	1996-07-31	ER membrane protein involved in regulation of OLE1 transcription; inactive ER form dimerizes and one subunit is then activated by ubiquitin/proteasome-dependent processing followed by nuclear targeting; SPT23 has a paralog, MGA2, that arose from the whole genome duplication
-S000034167	CDS					YKL020C		11	402080	398832	C		2011-02-03	1996-07-31	
-S000001502	ORF	Verified	YKL019W	RAM2	bifunctional protein farnesyltransferase/protein geranylgeranyltransferase	chromosome 11	L000001580	11	402568	403518	W		2011-02-03	1996-07-31	Alpha subunit of farnesyltransferase and geranylgeranyltransferase-I; farnesyltransferase (Ram2p-Ram1p heterodimer) catalyzes the addition of 15-carbon isoprenoid farnesyl to substrate proteins containing a CAAX consensus motif; type I geranylgeranyltransferase (Ram2p-Cdc43p heterodimer) catalyzes the addition of the 20-carbon isoprenoid geranylgeranyl to substrate proteins containing a CaaL consensus motif; required for membrane localization of Ras proteins and a-factor
-S000034702	CDS					YKL019W		11	402568	403518	W		2011-02-03	1996-07-31	
-S000007615	ORF	Uncharacterized	YKL018C-A			chromosome 11		11	403879	403580	C		2011-02-03	2001-02-26	Putative protein of unknown function; identified by homology; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000037213	CDS					YKL018C-A		11	403879	403580	C		2011-02-03	2001-02-26	
-S000001501	ORF	Verified	YKL018W	SWD2	WD-repeat containing protein SWD2|SAF37|CPS35	chromosome 11		11	404102	405091	W		2011-02-03	1996-07-31	Subunit of the COMPASS (Set1C) histone H3K4 methyltransferase complex; required for Set1C stability and optimal activity; COMPASS methylates histone H3 on lys 4 and is involved in telomeric silencing; subunit of CPF (cleavage and polyadenylation factor), a complex involved in RNAP II transcription termination
-S000034635	CDS					YKL018W		11	404102	405091	W		2011-02-03	1996-07-31	
-S000001500	ORF	Verified	YKL017C	HCS1	ATP-dependent 5'-3' DNA helicase HCS1|DIP1	chromosome 11	L000003087|L000004272	11	407241	405190	C		2011-02-03	1996-07-31	Hexameric DNA polymerase alpha-associated DNA helicase A; involved in lagging strand DNA synthesis; contains single-stranded DNA stimulated ATPase and dATPase activities; replication protein A stimulates helicase and ATPase activities
-S000034495	CDS					YKL017C		11	407241	405190	C		2011-02-03	1996-07-31	
-S000001499	ORF	Verified	YKL016C	ATP7	F1F0 ATP synthase subunit d	chromosome 11	L000000146	11	407989	407465	C		2011-02-03	1996-07-31	Subunit d of the stator stalk of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis
-S000032473	CDS					YKL016C		11	407989	407465	C		2011-02-03	1996-07-31	
-S000001498	ORF	Verified	YKL015W	PUT3		chromosome 11	L000001537|L000001528	11	408544	411483	W	-5	2011-02-03	1996-07-31	Transcriptional activator; binds specific gene recruitment sequences and is required for DNA zip code-mediated targeting of genes to nuclear periphery; regulates proline utilization genes, constitutively binds PUT1 and PUT2 promoters as a dimer, undergoes conformational change to form active state; binds other promoters only under activating conditions; differentially phosphorylated in presence of different nitrogen sources; has a Zn(2)-Cys(6) binuclear cluster domain
-S000032428	CDS					YKL015W		11	408544	411483	W		2011-02-03	1996-07-31	
-S000001497	ORF	Verified	YKL014C	URB1	NPA1	chromosome 11		11	416913	411619	C		2011-02-03	1996-07-31	Protein required for the normal accumulation of 25S and 5.8S rRNAs; nucleolar protein; associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit
-S000032267	CDS					YKL014C		11	416913	411619	C		2011-02-03	1996-07-31	
-S000118405	ARS		ARS1113		ARSXI-417	chromosome 11		11	417185	417417			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000001496	ORF	Verified	YKL013C	ARC19		chromosome 11	L000004034	11	418023	417508	C		2011-02-03	1996-07-31	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches; mutation is functionally complemented by human ARPC4
-S000031281	CDS					YKL013C		11	418023	417508	C		2011-02-03	1996-07-31	
-S000001495	ORF	Verified	YKL012W	PRP40		chromosome 11	L000003078	11	418310	420061	W		2011-02-03	1996-07-31	U1 snRNP protein involved in splicing; interacts with the branchpoint-binding protein during the formation of the second commitment complex
-S000031220	CDS					YKL012W		11	418310	420061	W		2011-02-03	1996-07-31	
-S000001494	ORF	Verified	YKL011C	CCE1	cruciform cutting endonuclease|MGT1	chromosome 11	L000000236	11	421216	420155	C	-2	2011-02-03	1996-07-31	Mitochondrial cruciform cutting endonuclease; cleaves Holliday junctions formed during recombination of mitochondrial DNA; CCE1 has a paralog, MRS1, that arose from the whole genome duplication
-S000031036	CDS					YKL011C		11	421216	420155	C		2011-02-03	1996-07-31	
-S000001493	ORF	Verified	YKL010C	UFD4	putative ubiquitin-protein ligase UFD4	chromosome 11	L000003509	11	425875	421424	C		2011-02-03	1996-07-31	Ubiquitin-protein ligase (E3); interacts with Rpt4p and Rpt6p, two subunits of the 19S particle of the 26S proteasome; cytoplasmic E3 involved in the degradation of ubiquitin fusion proteins; relative distribution to the nucleus increases upon DNA replication stress
-S000030049	CDS					YKL010C		11	425875	421424	C		2011-02-03	1996-07-31	
-S000001492	ORF	Verified	YKL009W	MRT4		chromosome 11	L000004450	11	426242	426952	W		2011-02-03	1996-07-31	Protein involved in mRNA turnover and ribosome assembly; required at post-transcriptional step for efficient retrotransposition; localizes to the nucleolus
-S000030485	CDS					YKL009W		11	426242	426952	W		2011-02-03	1996-07-31	
-S000001491	ORF	Verified	YKL008C	LAC1	sphingosine N-acyltransferase LAC1|DGT1	chromosome 11		11	428551	427295	C		2011-02-03	1996-07-31	Ceramide synthase component; involved in synthesis of ceramide from C26(acyl)-coenzyme A and dihydrosphingosine or phytosphingosine, functionally equivalent to Lag1p; LAC1 has a paralog, LAG1, that arose from the whole genome duplication
-S000030290	CDS					YKL008C		11	428551	427295	C		2011-02-03	1996-07-31	
-S000001490	ORF	Verified	YKL007W	CAP1		chromosome 11	L000000214	11	429302	430108	W	-2	2011-02-03	1996-07-31	Alpha subunit of the capping protein heterodimer (Cap1p and Cap2p); capping protein (CP) binds to the barbed ends of actin filaments preventing further polymerization; localized predominantly to cortical actin patches; protein increases in abundance and relocalizes from bud neck to plasma membrane upon DNA replication stress
-S000030183	CDS					YKL007W		11	429302	430108	W		2011-02-03	1996-07-31	
-S000002101	ORF	Verified	YKL006C-A	SFT1		chromosome 11	L000002949	11	430632	430198	C		2011-02-03	1996-07-31	Intra-Golgi v-SNARE; required for transport of proteins between an early and a later Golgi compartment
-S000037319	CDS					YKL006C-A		11	430455	430198	C		2011-02-03	1996-07-31	
-S000037318	CDS					YKL006C-A		11	430632	430597	C		2011-02-03	1996-07-31	
-S000037320	intron					YKL006C-A		11	430596	430456	C		2011-02-03	1996-07-31	
-S000114301	snoRNA_gene		snR87	SNR87		chromosome 11		11	431138	431030	C		2011-02-03	2006-03-02	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position A436
-S000114518	noncoding_exon					snR87		11	431138	431030	C		2011-02-03	2006-03-02	
-S000001489	ORF	Verified	YKL006W	RPL14A	eL14|ribosomal 60S subunit protein L14A|L14e|L14A	chromosome 11	L000002706	11	431906	432720	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L14A; N-terminally acetylated; homologous to mammalian ribosomal protein L14, no bacterial homolog; RPL14A has a paralog, RPL14B, that arose from the whole genome duplication
-S000030075	CDS					YKL006W		11	431906	432034	W		2011-02-03	1996-07-31	
-S000030076	CDS					YKL006W		11	432433	432720	W		2011-02-03	1996-07-31	
-S000030077	intron					YKL006W		11	432035	432432	W		2011-02-03	1996-07-31	
-S000001488	ORF	Verified	YKL005C	BYE1		chromosome 11		11	434877	433093	C		2011-02-03	1996-07-31	Negative regulator of transcription elongation; contains a TFIIS-like domain that associates with chromatin and a PHD domain that interacts with H3K4me3; multicopy suppressor of temperature-sensitive ess1 mutations, binds RNA polymerase II large subunit
-S000036319	CDS					YKL005C		11	434877	433093	C		2011-02-03	1996-07-31	
-S000001487	ORF	Verified	YKL004W	AUR1	inositol phosphorylceramide synthase	chromosome 11	L000002767	11	435580	436785	W		2011-02-03	1996-07-31	Phosphatidylinositol:ceramide phosphoinositol transferase; required for sphingolipid synthesis; can mutate to confer aureobasidin A resistance; also known as IPC synthase
-S000036280	CDS					YKL004W		11	435580	436785	W		2011-02-03	1996-07-31	
-S000001486	ORF	Verified	YKL003C	MRP17	mitochondrial 37S ribosomal protein YmS16	chromosome 11	L000002616	11	437492	437097	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; MRP17 exhibits genetic interactions with PET122, encoding a COX3-specific translational activator
-S000036065	CDS					YKL003C		11	437492	437097	C		2011-02-03	1996-07-31	
-S000001485	ORF	Verified	YKL002W	DID4	ESCRT-III subunit protein DID4|VPS14|CHM2|VPS2|VPT14|VPL2|REN1|GRD7	chromosome 11	L000002955	11	437778	438544	W		2011-02-03	2000-07-22|1996-07-31	Class E Vps protein of the ESCRT-III complex; required for sorting of integral membrane proteins into lumenal vesicles of multivesicular bodies, and for delivery of newly synthesized vacuolar enzymes to the vacuole, involved in endocytosis
-S000035271	CDS					YKL002W		11	437778	437837	W		2011-02-03	2000-07-22|1996-07-31	
-S000035272	CDS					YKL002W		11	437906	438544	W		2011-02-03	2000-07-22	
-S000035273	intron					YKL002W		11	437838	437905	W		2011-02-03	2000-07-22	
-S000001484	ORF	Verified	YKL001C	MET14	adenylyl-sulfate kinase	chromosome 11	L000001086	11	439385	438777	C	.8	2011-02-03	1996-07-31	Adenylylsulfate kinase; required for sulfate assimilation and involved in methionine metabolism; human homolog PAPSS2 complements yeast null mutant
-S000034979	CDS					YKL001C		11	439385	438777	C		2011-02-03	1996-07-31	
-S000006472	centromere		CEN11	CEN11		chromosome 11	L000000304	11	440246	440129	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome XI centromere
-S000077299	centromere_DNA_Element_I					CEN11		11	440246	440237	C		2011-02-03	2004-10-08	
-S000077300	centromere_DNA_Element_II					CEN11		11	440236	440154	C		2011-02-03	2004-10-08	
-S000077301	centromere_DNA_Element_III					CEN11		11	440153	440129	C		2011-02-03	2004-10-08	
-S000001709	ORF	Verified	YKR001C	VPS1	dynamin-like GTPase VPS1|VPT26|VPL1|SPO15|LAM1|GRD1	chromosome 11	L000002006	11	442722	440608	C	-1	2011-02-03	1996-07-31	Dynamin-like GTPase required for vacuolar sorting; also involved in actin cytoskeleton organization, endocytosis, late Golgi-retention of some proteins, regulation of peroxisome biogenesis
-S000030382	CDS					YKR001C		11	442722	440608	C		2011-02-03	1996-07-31	
-S000001710	ORF	Verified	YKR002W	PAP1	polynucleotide adenylyltransferase PAP1	chromosome 11	L000001336	11	443232	444938	W	-1	2011-02-03	1996-07-31	Poly(A) polymerase; one of three factors required for mRNA 3'-end polyadenylation, forms multiprotein complex with polyadenylation factor I (PF I), also required for mRNA nuclear export; may also polyadenylate rRNAs; required for gene looping
-S000033778	CDS					YKR002W		11	443232	444938	W		2011-02-03	1996-07-31	
-S000001711	ORF	Verified	YKR003W	OSH6	oxysterol-binding protein OSH6	chromosome 11		11	445381	446727	W		2011-02-03	1996-07-31	Member of an oxysterol-binding protein family; family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability; GFP-fusion protein localizes to the cell periphery; overexpression extends lifespan by promoting vacuolar fusion; OSH6 has a paralog, OSH7, that arose from the whole genome duplication
-S000033901	CDS					YKR003W		11	445381	446727	W		2011-02-03	1996-07-31	
-S000118406	ARS		ARS1114		ARSXI-448	chromosome 11		11	448020	448254			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000001712	ORF	Verified	YKR004C	ECM9	YKR004C-A	chromosome 11	L000003884	11	448036	446799	C		2011-02-03	2003-09-27|1996-07-31	Non-essential protein of unknown function
-S000033974	CDS					YKR004C		11	447706	446799	C		2011-02-03	2003-09-27	
-S000033973	CDS					YKR004C		11	448036	447811	C		2011-02-03	2003-09-27|1996-07-31	
-S000033975	intron					YKR004C		11	447810	447707	C		2011-02-03	2003-09-27	
-S000001713	ORF	Uncharacterized	YKR005C			chromosome 11		11	450167	448521	C		2011-02-03	1996-07-31|2007-09-05	Putative protein of unknown function
-S000123939	CDS					YKR005C		11	449951	448521	C		2011-02-03	2007-09-05	
-S000034843	CDS					YKR005C		11	450167	450021	C		2011-02-03	1996-07-31|2007-09-05	
-S000123938	intron					YKR005C		11	450020	449952	C		2011-02-03	2007-09-05	
-S000001714	ORF	Verified	YKR006C	MRPL13	mitochondrial 54S ribosomal protein YmL13|YmL13|YK105	chromosome 11	L000001164|L000002526	11	451217	450423	C		2011-02-03	2003-09-22|1996-07-31	Mitochondrial ribosomal protein of the large subunit; not essential for mitochondrial translation
-S000034952	CDS					YKR006C		11	451217	450423	C		2011-02-03	2003-09-22|1996-07-31	
-S000001715	ORF	Verified	YKR007W	MEH1	GSE2|EGO1	chromosome 11		11	451434	451988	W		2011-02-03	1996-07-31	Component of the EGO and GSE complexes; EGO is involved in the regulation of microautophagy and GSE is required for proper sorting of amino acid permease Gap1p; loss results in a defect in vacuolar acidification
-S000035149	CDS					YKR007W		11	451434	451988	W		2011-02-03	1996-07-31	
-S000001716	ORF	Verified	YKR008W	RSC4		chromosome 11	L000004026	11	452201	454078	W		2011-02-03	1996-07-31|2011-02-03	Component of the RSC chromatin remodeling complex; found in close proximity to nucleosomal DNA; displaced from the surface of nucleosomal DNA after chromatin remodeling; acetylated (K25) by Gcn5p, altering replication stress tolerance; contains tandem bromodomains that recognize histone H3 acetylated on K14 (H3K14ac) by Gcn5p
-S000036038	CDS					YKR008W		11	452201	454078	W		2011-02-03	1996-07-31|2011-02-03	
-S000001717	ORF	Verified	YKR009C	FOX2	bifunctional hydroxyacyl-CoA dehydrogenase/enoyl-CoA hydratase FOX2|POX2	chromosome 11	L000000622	11	457054	454352	C		2011-02-03	1996-07-31	3-hydroxyacyl-CoA dehydrogenase and enoyl-CoA hydratase; multifunctional enzyme of the peroxisomal fatty acid beta-oxidation pathway; mutation is functionally complemented by human HSD17B4
-S000036079	CDS					YKR009C		11	457054	454352	C		2011-02-03	1996-07-31	
-S000007058	long_terminal_repeat		YKRCdelta8			chromosome 11		11	458471	458140	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006642	tRNA_gene		tL(CAA)K			chromosome 11	L000003635	11	458557	458670	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000033792	intron					tL(CAA)K		11	458595	458626	W		2011-02-03	2000-05-19	
-S000033790	noncoding_exon					tL(CAA)K		11	458557	458594	W		2011-02-03	2000-05-19	
-S000033791	noncoding_exon					tL(CAA)K		11	458627	458670	W		2011-02-03	2000-05-19	
-S000001718	ORF	Verified	YKR010C	TOF2		chromosome 11	L000004245	11	461239	458924	C		2011-02-03	1996-07-31	Protein required for rDNA silencing and mitotic rDNA condensation; stimulates Cdc14p phosphatase activity and biphasic release to promote rDNA repeat segregation; required for condensin recruitment to the replication fork barrier site; TOF2 has a paralog, NET1, that arose from the whole genome duplication
-S000034767	CDS					YKR010C		11	461239	458924	C		2011-02-03	1996-07-31	
-S000001719	ORF	Verified	YKR011C		TOS5	chromosome 11		11	462696	461635	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; protein abundance increases in response to DNA replication stress
-S000035735	CDS					YKR011C		11	462696	461635	C		2011-02-03	1996-07-31	
-S000130139	ARS		ARS1115		ARSXI-463	chromosome 11		11	462699	463742			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000001721	ORF	Verified	YKR013W	PRY2	sterol-binding protein|YFW12	chromosome 11	L000003217	11	463959	464948	W		2011-02-03	1996-07-31	Sterol binding protein involved in the export of acetylated sterols; secreted glycoprotein and member of the CAP protein superfamily (cysteine-rich secretory proteins (CRISP), antigen 5, and pathogenesis related 1 proteins); sterol export function is redundant with that of PRY1; may be involved in detoxification of hydrophobic compounds; PRY2 has a paralog, PRY1, that arose from the whole genome duplication
-S000037809	CDS					YKR013W		11	463959	464948	W		2011-02-03	1996-07-31	
-S000001720	ORF	Dubious	YKR012C			chromosome 11		11	464116	463739	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene PRY2
-S000035867	CDS					YKR012C		11	464116	463739	C		2011-02-03	1996-07-31|2011-02-03	
-S000001722	ORF	Verified	YKR014C	YPT52	Rab family GTPase YPT52	chromosome 11	L000002546	11	466071	465367	C		2011-02-03	1996-07-31	Endosomal Rab family GTPase; required for vacuolar protein sorting, endocytosis and multivesicular body (MVB) biogenesis and sorting; required for localization of the CORVET complex to endosomes; involved in autophagy and ionic stress tolerance; similar to Vps21p and Ypt53p; mammalian Rab5 homolog; protein abundance increases in response to DNA replication stress
-S000037843	CDS					YKR014C		11	466071	465367	C		2011-02-03	1996-07-31	
-S000001723	ORF	Uncharacterized	YKR015C			chromosome 11		11	468667	466961	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000029849	CDS					YKR015C		11	468667	466961	C		2011-02-03	1996-07-31	
-S000001724	ORF	Verified	YKR016W	MIC60	FCJ1|AIM28|FMP13	chromosome 11		11	469717	471339	W		2011-02-03	1996-07-31	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; Mic60p is also involved in import of intermembrane space (IMS) proteins, probably by positioning Mia40p relative to the TOM complex to receive incoming proteins; ortholog of mammalian mitofilin
-S000030918	CDS					YKR016W		11	469717	471339	W		2011-02-03	1996-07-31	
-S000001725	ORF	Verified	YKR017C	HEL1	E3 ubiquitin-protein ligase HEL1	chromosome 11		11	473349	471694	C		2011-02-03	1996-07-31	RING finger ubiquitin ligase (E3); involved in ubiquitination and degradation of excess histones; interacts with Ubc4p and Rad53p; null mutant sensitive to hydroxyurea (HU)
-S000030959	CDS					YKR017C		11	473349	471694	C		2011-02-03	1996-07-31	
-S000001726	ORF	Verified	YKR018C			chromosome 11		11	475900	473723	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; protein abundance increases in response to DNA replication stress; YKR018C has a paralog, IML2, that arose from the whole genome duplication
-S000031035	CDS					YKR018C		11	475900	473723	C		2011-02-03	1996-07-31	
-S000001727	ORF	Verified	YKR019C	IRS4		chromosome 11	L000004394	11	478063	476216	C		2011-02-03	1996-07-31	EH domain-containing protein; involved in regulating phosphatidylinositol 4,5-bisphosphate levels and autophagy; Irs4p and Tax4p bind and activate the PtdIns phosphatase Inp51p; Irs4p and Tax4p are involved in localizing Atg17p to the PAS; IRS4 has a paralog, TAX4, that arose from the whole genome duplication
-S000031136	CDS					YKR019C		11	478063	476216	C		2011-02-03	1996-07-31	
-S000001728	ORF	Verified	YKR020W	VPS51	VPS67|API3|WHI6	chromosome 11		11	478338	478832	W		2011-02-03	1996-07-31	Component of the GARP (Golgi-associated retrograde protein) complex; GARP is required for the recycling of proteins from endosomes to the late Golgi, and for mitosis after DNA damage induced checkpoint arrest; links the (VFT/GARP) complex to the SNARE Tlg1p; members of the GARP complex are Vps51p-Vps52p-Vps53p-Vps54p
-S000030781	CDS					YKR020W		11	478338	478832	W		2011-02-03	1996-07-31	
-S000001729	ORF	Verified	YKR021W	ALY1	ART6	chromosome 11		11	479234	481981	W		2011-02-03	1996-07-31|2011-02-03	Alpha arrestin, substrate of calcineurin; controls nutrient-mediated intracellular sorting of permease Gap1p; interacts with AP-1 subunit Apl4p; dephosphorylation of Aly1p required for the endocytosis of Dip5p; may regulate endocytosis of plasma membrane proteins by recruiting ubiquitin ligase Rsp5p to plasma membrane targets; ALY1 has a paralog, ALY2, that arose from the whole genome duplication
-S000030869	CDS					YKR021W		11	479234	481981	W		2011-02-03	1996-07-31|2011-02-03	
-S000001730	ORF	Verified	YKR022C	NTR2		chromosome 11		11	483139	482171	C		2011-02-03	1996-07-31	Essential protein that forms a dimer with Ntr1p; also forms a trimer, with Ntr2p and the DExD/H-box RNA helicase Prp43p, that is involved in spliceosome disassembly
-S000031793	CDS					YKR022C		11	483139	482171	C		2011-02-03	1996-07-31	
-S000001731	ORF	Uncharacterized	YKR023W			chromosome 11		11	483419	485011	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000032021	CDS					YKR023W		11	483419	485011	W		2011-02-03	1996-07-31	
-S000001732	ORF	Verified	YKR024C	DBP7	putative ATP-dependent RNA helicase	chromosome 11	L000004205	11	487372	485144	C		2011-02-03	1996-07-31	Putative ATP-dependent RNA helicase of the DEAD-box family; involved in ribosomal biogenesis; required at post-transcriptional step for efficient retrotransposition; essential for growth under anaerobic conditions
-S000032100	CDS					YKR024C		11	487372	485144	C		2011-02-03	1996-07-31	
-S000001733	ORF	Verified	YKR025W	RPC37	DNA-directed RNA polymerase III subunit C37|C37	chromosome 11		11	487770	488618	W		2011-02-03	1996-07-31	RNA polymerase III subunit C37
-S000034103	CDS					YKR025W		11	487770	488618	W		2011-02-03	1996-07-31	
-S000001734	ORF	Verified	YKR026C	GCN3	translation initiation factor eIF2B subunit alpha|AAS2	chromosome 11	L000000682	11	489655	488738	C	7	2011-02-03	1996-07-31	Alpha subunit of translation initiation factor eIF2B; guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; positive regulator of GCN4 expression; assembles into filaments with Gcd2p, Gcd6p, Gcd7p, and Sui2p as cells approach stationary phase and under cytosolic acidification and starvation conditions; human homolog EIF2B1 can complement yeast null mutant
-S000034170	CDS					YKR026C		11	489655	488738	C		2011-02-03	1996-07-31	
-S000007059	long_terminal_repeat		YKRCdelta9			chromosome 11		11	490416	490286	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007062	long_terminal_repeat		YKRWdelta10			chromosome 11		11	490464	490787	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006703	tRNA_gene		tR(ACG)K			chromosome 11	L000003636	11	490968	491040	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000030411	noncoding_exon					tR(ACG)K		11	490968	491040	W		2011-02-03	2000-05-19	
-S000001735	ORF	Verified	YKR027W	BCH2	FMP50	chromosome 11		11	491364	493661	W		2011-02-03	1996-07-31	Member of the ChAPs (Chs5p-Arf1p-binding proteins) family; part of the exomer complex with Chs5p to mediate export of specific cargo proteins, including Chs3p, from the Golgi to the plasma membrane; BCH2 has a paralog, CHS6, that arose from the whole genome duplication
-S000034303	CDS					YKR027W		11	491364	493661	W		2011-02-03	1996-07-31	
-S000001736	ORF	Verified	YKR028W	SAP190		chromosome 11	L000002600	11	494257	497358	W		2011-02-03	1996-07-31|2011-02-03	Protein that forms a complex with the Sit4p protein phosphatase; required for Sit4p function; member of a family of similar proteins including Sap4p, Sap155p, and Sap185p; SAP190 has a paralog, SAP185, that arose from the whole genome duplication
-S000034368	CDS					YKR028W		11	494257	497358	W		2011-02-03	1996-07-31|2011-02-03	
-S000001737	ORF	Verified	YKR029C	SET3	histone-binding protein SET3	chromosome 11		11	499833	497578	C		2011-02-03	1996-07-31	Defining member of the SET3 histone deacetylase complex; which is a meiosis-specific repressor of sporulation genes; necessary for efficient transcription by RNAPII; one of two yeast proteins that contains both SET and PHD domains; SET3 has a paralog, SET4, that arose from the whole genome duplication
-S000035298	CDS					YKR029C		11	499833	497578	C		2011-02-03	1996-07-31	
-S000001738	ORF	Verified	YKR030W	GMH1	MSG1	chromosome 11		11	500282	501103	W		2011-02-03	1996-07-31	Golgi membrane protein of unknown function; interacts with Gea1p and Gea2p; required for localization of Gea2p; computational analysis suggests a possible role in either cell wall synthesis or protein-vacuolar targeting
-S000033925	CDS					YKR030W		11	500282	501103	W		2011-02-03	1996-07-31	
-S000001739	ORF	Verified	YKR031C	SPO14	phospholipase D|PLD1	chromosome 11	L000002005|L000002946	11	506395	501344	C	18	2011-02-03	1996-07-31	Phospholipase D; catalyzes the hydrolysis of phosphatidylcholine, producing choline and phosphatidic acid; involved in Sec14p-independent secretion; required for meiosis and spore formation; differently regulated in secretion and meiosis; participates in transcription initiation and/or early elongation of specific genes; interacts with "foot domain" of RNA polymerase II; deletion results in abnormal CTD-Ser5 phosphorylation of RNA polymerase II at specific promoter regions
-S000034013	CDS					YKR031C		11	506395	501344	C		2011-02-03	1996-07-31	
-S000001740	ORF	Dubious	YKR032W			chromosome 11		11	506517	506831	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034971	CDS					YKR032W		11	506517	506831	W		2011-02-03	1996-07-31	
-S000001742	ORF	Verified	YKR034W	DAL80	UGA43	chromosome 11	L000000480	11	506898	507707	W	14	2011-02-03	1996-07-31	Negative regulator of genes in multiple nitrogen degradation pathways; expression is regulated by nitrogen levels and by Gln3p; member of the GATA-binding family, forms homodimers and heterodimers with Gzf3p; DAL80 has a paralog, GZF3, that arose from the whole genome duplication
-S000036062	CDS					YKR034W		11	506898	507707	W		2011-02-03	1996-07-31	
-S000001741	ORF	Dubious	YKR033C			chromosome 11		11	507304	506879	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene DAL80
-S000035067	CDS					YKR033C		11	507304	506879	C		2011-02-03	1996-07-31	
-S000006435	ORF	Verified	YKR035W-A	DID2	VPL30|VPS46|CHM1|FTI1	chromosome 11	L000004496	11	507939	508553	W		2011-02-03	1999-07-17	Class E protein of the vacuolar protein-sorting (Vps) pathway; binds Vps4p and directs it to dissociate ESCRT-III complexes; forms a functional and physical complex with Ist1p; human ortholog may be altered in breast tumors
-S000034954	CDS					YKR035W-A		11	507939	508553	W		2011-02-03	1999-07-17	
-S000001743	ORF	Dubious	YKR035C	OPI8		chromosome 11		11	508561	507920	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene DID2/YKR035W-A
-S000036116	CDS					YKR035C		11	508561	507920	C		2011-02-03	1996-07-31	
-S000001744	ORF	Verified	YKR036C	CAF4		chromosome 11	L000003417	11	510633	508702	C		2011-02-03	1996-07-31|2006-05-08|2011-02-03	WD40 repeat-containing protein associated with the CCR4-NOT complex; interacts in a Ccr4p-dependent manner with Ssn2p; also interacts with Fis1p, Mdv1p and Dnm1p and plays a role in mitochondrial fission; CAF4 has a paralog, MDV1, that arose from the whole genome duplication
-S000036256	CDS					YKR036C		11	510633	508702	C		2011-02-03	1996-07-31|2006-05-08|2011-02-03	
-S000001745	ORF	Verified	YKR037C	SPC34		chromosome 11	L000004696	11	511797	510910	C		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; also localized to nuclear side of spindle pole body
-S000036356	CDS					YKR037C		11	511797	510910	C		2011-02-03	1996-07-31	
-S000001746	ORF	Verified	YKR038C	KAE1	tRNA N6-adenosine threonylcarbamoyltransferase	chromosome 11		11	513159	511999	C		2011-02-03	2003-09-22|1996-07-31	Highly conserved ATPase of HSP70/DnaK family; essential functional component of the EKC/KEOPS complex, with Bud32p, Cgi121p, Pcc1p, and Gon7p; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription
-S000036434	CDS					YKR038C		11	513159	511999	C		2011-02-03	2003-09-22|1996-07-31	
-S000006540	tRNA_gene		tD(GUC)K			chromosome 11	L000003639	11	513403	513332	C		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000037688	noncoding_exon					tD(GUC)K		11	513403	513332	C		2011-02-03	2000-05-19	
-S000007060	long_terminal_repeat		YKRCdelta11			chromosome 11		11	513846	513532	C		2011-02-03	2000-05-19	Ty1 LTR
-S000001747	ORF	Verified	YKR039W	GAP1	amino acid permease GAP1	chromosome 11	L000000667	11	515063	516871	W	27	2011-02-03	1996-07-31	General amino acid permease; Gap1p senses the presence of amino acid substrates to regulate localization to the plasma membrane when needed; essential for invasive growth
-S000030283	CDS					YKR039W		11	515063	516871	W		2011-02-03	1996-07-31	
-S000118407	ARS		ARS1116		ARSXI-517	chromosome 11		11	517017	517265			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000007061	long_terminal_repeat		YKRCdelta12			chromosome 11		11	517784	517453	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006516	tRNA_gene		tA(AGC)K2			chromosome 11	L000003637	11	517988	518060	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000036249	noncoding_exon					tA(AGC)K2		11	517988	518060	W		2011-02-03	2000-05-19	
-S000001749	ORF	Verified	YKR041W			chromosome 11		11	518198	518950	W		2011-02-03	1996-07-31	Protein of unknown function; localizes to the mitotic spindle; overexpression of YKR041W affects endocytic protein trafficking
-S000030043	CDS					YKR041W		11	518198	518950	W		2011-02-03	1996-07-31	
-S000001748	ORF	Dubious	YKR040C			chromosome 11		11	518566	518063	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YKR041W
-S000029852	CDS					YKR040C		11	518566	518063	C		2011-02-03	1996-07-31	
-S000001750	ORF	Verified	YKR042W	UTH1	SUN family protein UTH1	chromosome 11	L000002766	11	519527	520624	W		2011-02-03	1996-07-31|2005-11-03	Mitochondrial inner membrane protein; role in mitophagy is disputed; implicated in cell wall biogenesis, the oxidative stress response, life span during starvation, and cell death; SUN family member; UTH1 has a paralog, NCA3, that arose from the whole genome duplication
-S000031030	CDS					YKR042W		11	519527	520624	W		2011-02-03	1996-07-31|2005-11-03	
-S000001751	ORF	Verified	YKR043C	SHB17	sedoheptulose-bisphosphatase	chromosome 11		11	521712	520897	C		2011-02-03	1996-07-31	Sedoheptulose bisphosphatase involved in riboneogenesis; dephosphorylates sedoheptulose 1,7-bisphosphate, which is converted via the nonoxidative pentose phosphate pathway to ribose-5-phosphate; facilitates the conversion of glycolytic intermediates to pentose phosphate units; also has fructose 1,6-bisphosphatase activity but this is probably not biologically relevant, since deletion does not affect FBP levels; GFP-fusion protein localizes to the cytoplasm and nucleus
-S000031078	CDS					YKR043C		11	521712	520897	C		2011-02-03	1996-07-31	
-S000001752	ORF	Verified	YKR044W	UIP5		chromosome 11		11	522015	523346	W		2011-02-03	1996-07-31	Protein of unknown function that interacts with Ulp1p; a Ubl (ubiquitin-like protein)-specific protease for Smt3p protein conjugates
-S000031276	CDS					YKR044W		11	522015	523346	W		2011-02-03	1996-07-31	
-S000001753	ORF	Uncharacterized	YKR045C			chromosome 11		11	523969	523418	C		2011-02-03	2003-09-22|1996-07-31	Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm
-S000032206	CDS					YKR045C		11	523969	523418	C		2011-02-03	2003-09-22|1996-07-31	
-S000001754	ORF	Verified	YKR046C	PET10		chromosome 11		11	525074	524223	C		2011-02-03	1996-07-31	Protein of unknown function that localizes to lipid particles; localization suggests a role in lipid metabolism; expression pattern suggests a role in respiratory growth; computational analysis of large-scale protein-protein interaction data suggests a role in ATP/ADP exchange
-S000032320	CDS					YKR046C		11	525074	524223	C		2011-02-03	1996-07-31	
-S000001755	ORF	Dubious	YKR047W			chromosome 11		11	525257	525562	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene NAP1
-S000032471	CDS					YKR047W		11	525257	525562	W		2011-02-03	1996-07-31	
-S000001756	ORF	Verified	YKR048C	NAP1	histone chaperone NAP1	chromosome 11	L000001232	11	526640	525387	C		2011-02-03	1996-07-31	Histone chaperone; involved in histone exchange by removing and replacing histone H2A-H2B dimers or histone variant dimers from assembled nucleosomes; involved in the transport of H2A and H2B histones to the nucleus; required for the regulation of microtubule dynamics during mitosis; interacts with mitotic cyclin Clb2p; controls bud morphogenesis; phosphorylated by CK2; protein abundance increases in response to DNA replication stress
-S000034427	CDS					YKR048C		11	526640	525387	C		2011-02-03	1996-07-31	
-S000001757	ORF	Verified	YKR049C	FMP46	putative redox protein	chromosome 11		11	527231	526830	C		2011-02-03	1996-07-31	Putative redox protein containing a thioredoxin fold; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000034545	CDS					YKR049C		11	527231	526830	C		2011-02-03	1996-07-31	
-S000001758	ORF	Verified	YKR050W	TRK2	RPD2	chromosome 11	L000002335	11	527815	530484	W	15	2011-02-03	1996-07-31	Component of the Trk1p-Trk2p potassium transport system; contributes to K(+) supply and maintenance of plasma-membrane potential; TRK2 has a paralog, TRK1, that arose from the whole genome duplication
-S000033289	CDS					YKR050W		11	527815	530484	W		2011-02-03	1996-07-31	
-S000001759	ORF	Uncharacterized	YKR051W			chromosome 11		11	530946	532202	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000034162	CDS					YKR051W		11	530946	532202	W		2011-02-03	1996-07-31	
-S000001760	ORF	Verified	YKR052C	MRS4	Fe(2+) transporter	chromosome 11	L000001180	11	533464	532550	C		2011-02-03	1996-07-31	Iron transporter of the mitochondrial carrier family; mediates Fe2+ transport across the inner mitochondrial membrane; active under low-iron conditions; may transport other cations; protein abundance increases in response to DNA replication stress; MRS4 has a paralog, MRS3, that arose from the whole genome duplication
-S000034228	CDS					YKR052C		11	533464	532550	C		2011-02-03	1996-07-31	
-S000001761	ORF	Verified	YKR053C	YSR3	sphinganine kinase YSR3|LBP2	chromosome 11	L000004404	11	535281	534067	C		2011-02-03	1996-07-31	Dihydrosphingosine 1-phosphate phosphatase; membrane protein involved in sphingolipid metabolism; YSR3 has a paralog, LCB3, that arose from the whole genome duplication
-S000034357	CDS					YKR053C		11	535281	534067	C		2011-02-03	1996-07-31	
-S000001762	ORF	Verified	YKR054C	DYN1	dynein heavy chain|PAC6|DHC1	chromosome 11	L000000538	11	547925	535647	C	24.6	2011-02-03	1996-07-31	Cytoplasmic heavy chain dynein; microtubule motor protein; member of the AAA+ protein family, required for anaphase spindle elongation; involved in spindle assembly, chromosome movement, and spindle orientation during cell division, targeted to microtubule tips by Pac1p; motility along microtubules inhibited by She1p
-S000035346	CDS					YKR054C		11	547925	535647	C		2011-02-03	1996-07-31	
-S000001763	ORF	Verified	YKR055W	RHO4	Rho family GTPase RHO4	chromosome 11	L000001633	11	548216	549091	W		2011-02-03	1996-07-31	Non-essential small GTPase; member of the Rho/Rac subfamily of Ras-like proteins; likely to be involved in the establishment of cell polarity; has long N-terminal extension that plays an important role in Rho4p function and is shared with Rho4 homologs in other yeasts and filamentous fungi
-S000035541	CDS					YKR055W		11	548216	549091	W		2011-02-03	1996-07-31	
-S000001764	ORF	Verified	YKR056W	TRM2	RNC1|NUD1|NUC2	chromosome 11	L000001652|L000001284	11	549448	551367	W		2011-02-03	2004-02-13|1996-07-31	tRNA methyltransferase; 5-methylates the uridine residue at position 54 of tRNAs and may also have a role in tRNA stabilization or maturation; endo-exonuclease with a role in DNA repair
-S000035618	CDS					YKR056W		11	549448	551367	W		2011-02-03	2004-02-13|1996-07-31	
-S000001765	ORF	Verified	YKR057W	RPS21A	eS21|ribosomal 40S subunit protein S21A|S21e|YS25|S26A|S21A|RPS25	chromosome 11	L000001761	11	551657	552242	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S21, no bacterial homolog; RPS21A has a paralog, RPS21B, that arose from the whole genome duplication
-S000036538	CDS					YKR057W		11	551657	551680	W		2011-02-03	1996-07-31	
-S000036539	CDS					YKR057W		11	552003	552242	W		2011-02-03	1996-07-31	
-S000036540	intron					YKR057W		11	551681	552002	W		2011-02-03	1996-07-31	
-S000001766	ORF	Verified	YKR058W	GLG1	glycogenin glucosyltransferase GLG1	chromosome 11	L000002878	11	552770	554620	W		2011-02-03	1996-07-31|2005-12-01	Glycogenin glucosyltransferase; self-glucosylating initiator of glycogen synthesis, also glucosylates n-dodecyl-beta-D-maltoside; SWAT-GFP and mCherry fusion proteins localize to the cell periphery and vacuole respectively; similar to mammalian glycogenin; GLG1 has a paralog, GLG2, that arose from the whole genome duplication
-S000036619	CDS					YKR058W		11	552770	554620	W		2011-02-03	1996-07-31|2005-12-01	
-S000001767	ORF	Verified	YKR059W	TIF1	translation initiation factor eIF4A|eIF4A	chromosome 11	L000002302	11	554987	556174	W	22	2011-02-03	1996-07-31	Translation initiation factor eIF4A; DEA(D/H)-box RNA helicase that couples ATPase activity to RNA binding and unwinding; forms a dumbbell structure of two compact domains connected by a linker; interacts with eIF4G; protein abundance increases in response to DNA replication stress; TIF1 has a paralog, TIF2, that arose from the whole genome duplication
-S000036719	CDS					YKR059W		11	554987	556174	W		2011-02-03	1996-07-31	
-S000001768	ORF	Verified	YKR060W	UTP30		chromosome 11		11	556518	557342	W		2011-02-03	1996-07-31	Putative subunit of U3-containing 90S preribosome complex; complex is involved in production of 18S rRNA and assembly of small ribosomal subunit
-S000030161	CDS					YKR060W		11	556518	557342	W		2011-02-03	1996-07-31	
-S000001769	ORF	Verified	YKR061W	KTR2	mannosyltransferase KTR2	chromosome 11	L000000925	11	557677	558954	W		2011-02-03	1996-07-31	Mannosyltransferase involved in N-linked protein glycosylation; member of the KRE2/MNT1 mannosyltransferase family; KTR2 has a paralog, YUR1, that arose from the whole genome duplication
-S000030356	CDS					YKR061W		11	557677	558954	W		2011-02-03	1996-07-31	
-S000006502	snoRNA_gene		snR42	SNR42		chromosome 11	L000003409	11	559366	559016	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2975
-S000030613	noncoding_exon					snR42		11	559366	559016	C		2011-02-03	2000-05-19	
-S000001770	ORF	Verified	YKR062W	TFA2	transcription factor TFIIE subunit TFA2	chromosome 11	L000002596	11	559666	560652	W		2011-02-03	1996-07-31	TFIIE small subunit; involved in RNA polymerase II transcription initiation
-S000030483	CDS					YKR062W		11	559666	560652	W		2011-02-03	1996-07-31	
-S000001771	ORF	Verified	YKR063C	LAS1	rRNA-processing protein LAS1	chromosome 11	L000000931	11	562297	560789	C		2011-02-03	1996-07-31	Endonuclease involved in pre-rRNA processing at both ends of ITS2; functions with Grc3p in a conserved mechanism to modulate rRNA processing and ribosome biogenesis; may coordinate the action of the Rat1p-Rai1p exoRNAse; required for the G1/S cell cycle transition; human ortholog is Las1L; mutants require the SSD1-v allele for viability
-S000030551	CDS					YKR063C		11	562297	560789	C		2011-02-03	1996-07-31	
-S000001772	ORF	Verified	YKR064W	OAF3		chromosome 11		11	562547	565138	W		2011-02-03	1996-07-31	Putative transcriptional repressor with Zn(2)-Cys(6) finger; negatively regulates transcription in response to oleate levels, based on mutant phenotype and localization to oleate-responsive promoters; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; forms nuclear foci upon DNA replication stress
-S000031527	CDS					YKR064W		11	562547	565138	W		2011-02-03	1996-07-31	
-S000001773	ORF	Verified	YKR065C	PAM17	FMP18	chromosome 11		11	565892	565299	C		2011-02-03	1996-07-31	Constituent of the TIM23 complex; proposed alternatively to be a component of the import motor (PAM complex) or to interact with and modulate the core TIM23 (Translocase of the Inner mitochondrial Membrane) complex; protein abundance increases in response to DNA replication stress
-S000031607	CDS					YKR065C		11	565892	565299	C		2011-02-03	1996-07-31	
-S000001774	ORF	Verified	YKR066C	CCP1	cytochrome-c peroxidase	chromosome 11	L000000238	11	567198	566113	C		2011-02-03	1996-07-31	Mitochondrial cytochrome-c peroxidase; degrades reactive oxygen species in mitochondria, involved in the response to oxidative stress
-S000032588	CDS					YKR066C		11	567198	566113	C		2011-02-03	1996-07-31	
-S000001775	ORF	Verified	YKR067W	GPT2	bifunctional glycerol-3-phosphate/glycerone-phosphate O-acyltransferase GPT2|GAT1	chromosome 11		11	567918	570149	W		2011-02-03	1996-07-31	Glycerol-3-phosphate/dihydroxyacetone phosphate sn-1 acyltransferase; located in lipid particles and the ER; involved in the stepwise acylation of glycerol-3-phosphate and dihydroxyacetone in lipid biosynthesis; the most conserved motifs and functionally relevant residues are oriented towards the ER lumen
-S000032727	CDS					YKR067W		11	567918	570149	W		2011-02-03	1996-07-31	
-S000001776	ORF	Verified	YKR068C	BET3	TRAPP complex core subunit BET3	chromosome 11	L000004057	11	570909	570328	C		2011-02-03	1996-07-31	Core component of transport protein particle (TRAPP) complexes I-III; TRAPP complexes are related multimeric guanine nucleotide-exchange factors for the GTPase Ypt1, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII); hydrophilic homodimeric protein that acts in conjunction with SNARE proteins in targeting and fusion of ER to Golgi transport vesicles
-S000032759	CDS					YKR068C		11	570909	570328	C		2011-02-03	1996-07-31	
-S000001777	ORF	Verified	YKR069W	MET1	uroporphyrinogen-III C-methyltransferase|MET20	chromosome 11	L000001089	11	571612	573393	W		2011-02-03	1996-07-31	S-adenosyl-L-methionine uroporphyrinogen III transmethylase; involved in the biosynthesis of siroheme, a prosthetic group used by sulfite reductase; required for sulfate assimilation and methionine biosynthesis
-S000032921	CDS					YKR069W		11	571612	573393	W		2011-02-03	1996-07-31	
-S000001778	ORF	Uncharacterized	YKR070W			chromosome 11		11	573574	574632	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000033052	CDS					YKR070W		11	573574	574632	W		2011-02-03	1996-07-31	
-S000001779	ORF	Verified	YKR071C	DRE2	electron carrier DRE2	chromosome 11		11	575980	574934	C		2011-02-03	1996-07-31	Component of the cytosolic Fe-S protein assembly (CIA) machinery; contains an Fe-S cluster that receives electrons from NADPH via the action of Tah18p in an early step in the CIA pathway; ortholog of human Ciapin1; protein abundance increases in response to DNA replication stress; inviability of the null mutant is functionally complemented by human CIAPIN1
-S000033101	CDS					YKR071C		11	575980	574934	C		2011-02-03	1996-07-31	
-S000001780	ORF	Verified	YKR072C	SIS2	phosphopantothenoylcysteine decarboxylase complex subunit SIS2|HAL3	chromosome 11	L000001899	11	578123	576435	C	57	2011-02-03	1996-07-31	Negative regulatory subunit of protein phosphatase 1 (Ppz1p); involved in coenzyme A biosynthesis; subunit of phosphopantothenoylcysteine decarboxylase (PPCDC: Cab3p, Sis2p, Vhs3p) complex and the CoA-Synthesizing Protein Complex (CoA-SPC: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p); SIS2 has a paralog, VHS3, that arose from the whole genome duplication
-S000033861	CDS					YKR072C		11	578123	576435	C		2011-02-03	1996-07-31	
-S000001781	ORF	Dubious	YKR073C			chromosome 11		11	578507	578187	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033995	CDS					YKR073C		11	578507	578187	C		2011-02-03	1996-07-31	
-S000006632	tRNA_gene		tK(UUU)K			chromosome 11	L000003638	11	578965	579060	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034204	intron					tK(UUU)K		11	579002	579024	W		2011-02-03	2000-05-19	
-S000034202	noncoding_exon					tK(UUU)K		11	578965	579001	W		2011-02-03	2000-05-19	
-S000034203	noncoding_exon					tK(UUU)K		11	579025	579060	W		2011-02-03	2000-05-19	
-S000001782	ORF	Verified	YKR074W	AIM29		chromosome 11		11	579209	579676	W		2011-02-03	1996-07-31	Protein of unknown function; epitope-tagged protein localizes to the cytoplasm; YKR074W is not an essential gene; null mutant displays elevated frequency of mitochondrial genome loss
-S000034957	CDS					YKR074W		11	579209	579676	W		2011-02-03	1996-07-31	
-S000028669	ORF	Dubious	YKR075W-A			chromosome 11		11	580212	580481	W		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a protein; completely overlaps the uncharacterized gene YKR075C; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032494	CDS					YKR075W-A		11	580212	580481	W		2011-02-03	2003-07-29	
-S000001783	ORF	Uncharacterized	YKR075C			chromosome 11		11	580750	579827	C		2011-02-03	1996-07-31	Protein of unknown function; similar to Reg1p; expression regulated by glucose and Rgt1p; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; YKR075C has a paralog, YOR062C, that arose from the whole genome duplication
-S000035052	CDS					YKR075C		11	580750	579827	C		2011-02-03	1996-07-31	
-S000118408	ARS		ARS1118		ARSXI-582	chromosome 11		11	581833	582070			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000001784	ORF	Verified	YKR076W	ECM4	S-glutathionyl-(chloro)hydroquinone reductase|GTO2	chromosome 11	L000003880	11	582283	583395	W		2011-02-03	1996-07-31	S-glutathionyl-(chloro)hydroquinone reductase (GS-HQR); glutathione transferase involved in cell-surface biosynthesis and architecture; catalyzes glutathione (GSH)-dependent reduction of GS-trichloro-p-hydroquinone to trichloro-p-hydroquinone; expression upregulated upon exposure to genotoxic agents, such as methyl methanesulfonate, cisplatin and bleomycin; not an essential gene; similar to YGR154C; green fluorescent protein (GFP)-fusion protein localizes to cytoplasm
-S000035311	CDS					YKR076W		11	582283	583395	W		2011-02-03	1996-07-31	
-S000001785	ORF	Verified	YKR077W	MSA2		chromosome 11		11	583653	584744	W		2011-02-03	1996-07-31	Putative transcriptional activator; interacts with G1-specific transcription factor MBF and G1-specific promoters; MSA2 has a paralog, MSA1, that arose from the whole genome duplication
-S000036232	CDS					YKR077W		11	583653	584744	W		2011-02-03	1996-07-31	
-S000001786	ORF	Verified	YKR078W			chromosome 11		11	584952	586709	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; potential Cdc28p substrate; contains a Phox homology (PX) domain and specifically binds phosphatidylinositol 3-phosphate (PtdIns-3-P); YKR078W has a paralog, VPS5, that arose from the whole genome duplication
-S000036335	CDS					YKR078W		11	584952	586709	W		2011-02-03	1996-07-31	
-S000001787	ORF	Verified	YKR079C	TRZ1	tRNase Z	chromosome 11		11	589305	586789	C		2011-02-03	1996-07-31	tRNA 3'-end processing endonuclease tRNase Z; also localized to mitochondria and interacts genetically with Rex2 exonuclease; homolog of the human candidate prostate cancer susceptibility gene ELAC2
-S000036383	CDS					YKR079C		11	589305	586789	C		2011-02-03	1996-07-31	
-S000001788	ORF	Verified	YKR080W	MTD1	methylenetetrahydrofolate dehydrogenase (NAD(+))	chromosome 11	L000001210	11	590395	591357	W		2011-02-03	1996-07-31	NAD-dependent 5,10-methylenetetrahydrafolate dehydrogenase; plays a catalytic role in oxidation of cytoplasmic one-carbon units; expression is regulated by Bas1p and Bas2p, repressed by adenine, and may be induced by inositol and choline
-S000029910	CDS					YKR080W		11	590395	591357	W		2011-02-03	1996-07-31	
-S000001789	ORF	Verified	YKR081C	RPF2	rRNA-binding ribosome biosynthesis protein RPF2	chromosome 11		11	592540	591506	C		2011-02-03	1996-07-31	Essential protein involved in rRNA maturation and ribosomal assembly; involved in the processing of pre-rRNA and the assembly of the 60S ribosomal subunit; interacts with ribosomal protein L11; localizes predominantly to the nucleolus; constituent of 66S pre-ribosomal particles
-S000029955	CDS					YKR081C		11	592540	591506	C		2011-02-03	1996-07-31	
-S000001790	ORF	Verified	YKR082W	NUP133	RAT3	chromosome 11	L000002620	11	592825	596298	W		2011-02-03	1996-07-31	Subunit of Nup84p subcomplex of nuclear pore complex (NPC); contributes to nucleocytoplasmic transport, NPC biogenesis; is involved in establishment of a normal nucleocytoplasmic concentration gradient of GTPase Gsp1p; also plays roles in several processes that may require localization of genes or chromosomes at nuclear periphery, including double-strand break repair, transcription and chromatin silencing; relocalizes to cytosol in response to hypoxia; homolog of human NUP133
-S000030187	CDS					YKR082W		11	592825	596298	W		2011-02-03	1996-07-31	
-S000001791	ORF	Verified	YKR083C	DAD2	HSK1	chromosome 11		11	596822	596421	C		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
-S000031089	CDS					YKR083C		11	596822	596421	C		2011-02-03	1996-07-31	
-S000001792	ORF	Verified	YKR084C	HBS1	ribosome dissociation factor GTPase HBS1	chromosome 11	L000000756	11	598890	597055	C		2011-02-03	1996-07-31	GTPase with similarity to translation release factors; together with binding partner Dom34p, facilitates ribosomal subunit dissociation and peptidyl-tRNA release when translation is stalled, particularly in 3' UTRs; genetically implicated in mRNA no-go decay; HBS1 has a paralog, SKI7, that arose from the whole genome duplication
-S000031204	CDS					YKR084C		11	598890	597055	C		2011-02-03	1996-07-31	
-S000001793	ORF	Verified	YKR085C	MRPL20	mitochondrial 54S ribosomal protein YmL20|YmL20	chromosome 11	L000002527|L000001166	11	599681	599094	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000031317	CDS					YKR085C		11	599681	599094	C		2011-02-03	1996-07-31	
-S000001794	ORF	Verified	YKR086W	PRP16	DEAH-box RNA helicase PRP16|PRP23|RNA16	chromosome 11	L000001504	11	599857	603072	W		2011-02-03	1996-07-31	DEAH-box RNA helicase involved in second catalytic step of splicing and in exon ligation; exhibits ATP-dependent RNA unwinding activity; mediates the release of Yju2p and Cwc25p in the second step; in the absence of ATP, stabilizes the binding of Cwc25p to the spliceosome in the first catalytic step; missense mutation in human ortholog DHX38 associated with early-onset retinitis pigmentosa
-S000032379	CDS					YKR086W		11	599857	603072	W		2011-02-03	1996-07-31	
-S000001795	ORF	Verified	YKR087C	OMA1	metalloendopeptidase	chromosome 11		11	604232	603195	C		2011-02-03	2004-07-23|1996-07-31	Metalloendopeptidase of the mitochondrial inner membrane; important for adaptive responses to various homeostatic insults, preservation of normal mitochondrial function under damage-eliciting conditions, and stability of respiratory supercomplexes; involved in turnover of membrane-embedded proteins; mediates degradation of Cox1p in coa2 mutant cells; zebrafish ortholog has a role in organ development and mouse ortholog is also required for respiratory supercomplex stability
-S000032444	CDS					YKR087C		11	604232	603195	C		2011-02-03	2004-07-23|1996-07-31	
-S000001796	ORF	Verified	YKR088C	TVP38		chromosome 11		11	605418	604405	C		2011-02-03	1996-07-31	Integral membrane protein; localized to late Golgi vesicles along with the v-SNARE Tlg2p; required for asymmetric localization of Kar9p during mitosis; GFP-fusion protein localizes to the cytoplasm in a punctate pattern
-S000032545	CDS					YKR088C		11	605418	604405	C		2011-02-03	1996-07-31	
-S000001797	ORF	Verified	YKR089C	TGL4	STC1	chromosome 11		11	608365	605633	C		2011-02-03	1996-07-31	Multifunctional lipase/hydrolase/phospholipase; triacylglycerol lipase, steryl ester hydrolase, and Ca2+-independent phospholipase A2; catalyzes acyl-CoA dependent acylation of LPA to PA; required with Tgl3p for timely bud formation; phosphorylated and activated by Cdc28p; TGL4 has a paralog, TGL5, that arose from the whole genome duplication
-S000032624	CDS					YKR089C		11	608365	605633	C		2011-02-03	1996-07-31	
-S000001798	ORF	Verified	YKR090W	PXL1		chromosome 11		11	608946	611066	W		2011-02-03	1996-07-31|2011-02-03	Protein that localizes to sites of polarized growth; required for selection and/or maintenance of polarized growth sites, may modulate signaling by the GTPases Cdc42p and Rho1p; contains LIM domains and has similarity to metazoan paxillin; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000033373	CDS					YKR090W		11	608946	611066	W		2011-02-03	1996-07-31|2011-02-03	
-S000001799	ORF	Verified	YKR091W	SRL3	DNA-binding protein SRL3|WHI7	chromosome 11	L000004671	11	611525	612265	W		2011-02-03	2004-07-23|1996-07-31	GTB motif (G1/S transcription factor binding) containing protein; binds SBF-regulated promoters in hydroxyurea-treated cells; when overexpressed, suppresses the lethality of a rad53 null mutation; potential Cdc28p substrate; SRL3 has a paralog, WHI5, that arose from the whole genome duplication
-S000034294	CDS					YKR091W		11	611525	612265	W		2011-02-03	2004-07-23|1996-07-31	
-S000118409	ARS		ARS1120		ARSXI-612	chromosome 11		11	612378	612463			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000001800	ORF	Verified	YKR092C	SRP40		chromosome 11	L000002063	11	613885	612665	C		2011-02-03	1996-07-31	Nucleolar serine-rich protein; role in preribosome assembly or transport; may function as a chaperone of small nucleolar ribonucleoprotein particles (snoRNPs); immunologically and structurally to rat Nopp140
-S000034345	CDS					YKR092C		11	613885	612665	C		2011-02-03	1996-07-31	
-S000001801	ORF	Verified	YKR093W	PTR2		chromosome 11	L000001527	11	615730	617535	W		2011-02-03	1996-07-31	Integral membrane peptide transporter; mediates transport of di- and tri-peptides; conserved protein that contains 12 transmembrane domains; PTR2 expression is regulated by the N-end rule pathway via repression by Cup9p
-S000034474	CDS					YKR093W		11	615730	617535	W		2011-02-03	1996-07-31	
-S000001802	ORF	Verified	YKR094C	RPL40B	eL40|ubiquitin-ribosomal 60S subunit protein L40B fusion protein|L40e|L40B|UB12|CEP52B|UBI2	chromosome 11	L000002412|L000000314	11	618750	617996	C		2011-02-03	1996-07-31|2011-02-03	Ubiquitin-ribosomal 60S subunit protein L40B fusion protein; cleaved to yield ubiquitin and ribosomal protein L40B; ubiquitin may facilitate assembly of the ribosomal protein into ribosomes; homologous to mammalian ribosomal protein L40, no bacterial homolog; RPL40B has a paralog, RPL40A, that arose from the whole genome duplication
-S000034523	CDS					YKR094C		11	618374	617996	C		2011-02-03	1996-07-31	
-S000034522	CDS					YKR094C		11	618750	618743	C		2011-02-03	1996-07-31	
-S000034524	intron					YKR094C		11	618742	618375	C		2011-02-03	1996-07-31|2011-02-03	
-S000001803	ORF	Verified	YKR095W	MLP1	MPL1	chromosome 11	L000001141|L000001122	11	619805	625432	W	80.3	2011-02-03	1996-07-31	Myosin-like protein associated with the nuclear envelope; nuclear basket protein that connects the nuclear pore complex with the nuclear interior; involved with Tel1p in telomere length control; involved with Pml1p and Pml39p in nuclear retention of unspliced mRNAs; MLP1 has a paralog, MLP2, that arose from the whole genome duplication
-S000035599	CDS					YKR095W		11	619805	625432	W		2011-02-03	1996-07-31	
-S000028512	ORF	Verified	YKR095W-A	PCC1	chromatin DNA-binding EKC/KEOPS complex subunit PCC1	chromosome 11		11	625864	626205	W		2011-02-03	2004-01-28|2003-07-29	Component of the EKC/KEOPS protein complex; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription; other complex members are Kae1p, Gon7p, Bud32p, and Cgi121p
-S000030270	CDS					YKR095W-A		11	625864	625901	W		2011-02-03	2004-01-28|2003-07-29	
-S000030272	CDS					YKR095W-A		11	625977	626205	W		2011-02-03	2004-01-28	
-S000030273	intron					YKR095W-A		11	625902	625976	W		2011-02-03	2004-01-28|2003-07-29	
-S000001804	ORF	Verified	YKR096W	ESL2		chromosome 11		11	626793	630380	W		2011-02-03	1996-07-31	hEST1A/B (SMG5/6)-like protein; contributes to environment-sensing adaptive gene expression responses; Esl2p and Esl1p contain a 14-3-3-like domain and a putative PilT N-terminus ribonuclease domain; interacts with Pex14p; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; ESL2 has a paralog, ESL1, that arose from the whole genome duplication
-S000035688	CDS					YKR096W		11	626793	630380	W		2011-02-03	1996-07-31	
-S000001805	ORF	Verified	YKR097W	PCK1	phosphoenolpyruvate carboxykinase PCK1|PPC1|JPM2	chromosome 11	L000001350	11	631152	632801	W	73.2	2011-02-03	1996-07-31	Phosphoenolpyruvate carboxykinase; key enzyme in gluconeogenesis, catalyzes early reaction in carbohydrate biosynthesis, glucose represses transcription and accelerates mRNA degradation, regulated by Mcm1p and Cat8p, located in the cytosol
-S000036623	CDS					YKR097W		11	631152	632801	W		2011-02-03	1996-07-31	
-S000001806	ORF	Verified	YKR098C	UBP11	ubiquitin-specific protease UBP11	chromosome 11	L000003171	11	635179	633026	C		2011-02-03	1996-07-31	Ubiquitin-specific protease; cleaves ubiquitin from ubiquitinated proteins; UBP11 has a paralog, UBP7, that arose from the whole genome duplication
-S000036658	CDS					YKR098C		11	635179	633026	C		2011-02-03	1996-07-31	
-S000001807	ORF	Verified	YKR099W	BAS1		chromosome 11	L000000161	11	635851	638286	W	82	2011-02-03	1996-07-31	Myb-related transcription factor; involved in regulating basal and induced expression of genes of the purine and histidine biosynthesis pathways; also involved in regulation of meiotic recombination at specific genes
-S000036756	CDS					YKR099W		11	635851	638286	W		2011-02-03	1996-07-31	
-S000001808	ORF	Verified	YKR100C	SKG1	YKR099C-A	chromosome 11		11	639968	638901	C		2011-02-03	2004-02-13|1996-07-31	Transmembrane protein with a role in cell wall polymer composition; localizes on inner surface of plasma membrane at bud and in daughter cell; SKG1 has a paralog, AIM20, that arose from the whole genome duplication
-S000033006	CDS					YKR100C		11	639968	638901	C		2011-02-03	2004-02-13|1996-07-31	
-S000001809	ORF	Verified	YKR101W	SIR1		chromosome 11	L000001894	11	640540	642504	W	84	2011-02-03	1996-07-31|2009-02-20	Protein involved in silencing at mating-type loci HML and HMR; recruitment to silent chromatin requires interactions with Orc1p and with Sir4p, through a common Sir1p domain; binds to centromeric chromatin
-S000033721	CDS					YKR101W		11	640540	642504	W		2011-02-03	1996-07-31|2009-02-20	
-S000118410	ARS		ARS1123		ARSXI-642	chromosome 11		11	642727	642973			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000001810	ORF	Verified	YKR102W	FLO10		chromosome 11	L000004081	11	646356	649865	W		2011-02-03	1996-07-31	Member of the FLO family of cell wall flocculation proteins; not expressed in most lab strains; overproduction induces flocculation that can be inhibited by mannose, sucrose, or glucose; overproduction also promotes haploid invasive growth and diploid filamentous growth
-S000033847	CDS					YKR102W		11	646356	649865	W		2011-02-03	1996-07-31	
-S000001811	ORF	Verified	YKR103W	NFT1	putative multidrug transporter NFT1	chromosome 11		11	653080	656736	W		2011-02-03	1996-07-31	Putative transporter of the MRP subfamily; adjacent ORFs YKR103W and YKR104W are merged in different strain backgrounds; MRP stands for multidrug resistance-associated protein
-S000033929	CDS					YKR103W		11	653080	656736	W		2011-02-03	1996-07-31	
-S000001812	ORF	Verified	YKR104W		NFT1	chromosome 11		11	656836	657756	W		2011-02-03	1996-07-31	Putative transporter of the MRP subfamily; contains a stop codon in S288C; adjacent ORFs YKR103W and YKR104W are merged in different strain backgrounds; MRP stands for multidrug resistance-associated protein
-S000034837	CDS					YKR104W		11	656836	657756	W		2011-02-03	1996-07-31	
-S000001813	ORF	Verified	YKR105C	VBA5	basic amino acid transporter	chromosome 11		11	660464	658716	C		2011-02-03	1996-07-31	Plasma membrane protein of the Major Facilitator Superfamily (MFS); involved in amino acid uptake and drug sensitivity; VBA5 has a paralog, VBA3, that arose from a segmental duplication
-S000034879	CDS					YKR105C		11	660464	658716	C		2011-02-03	1996-07-31	
-S000001814	ORF	Verified	YKR106W	GEX2	glutathione exchanger	chromosome 11		11	661442	663289	W		2011-02-03	1996-07-31	Proton:glutathione antiporter; localized to the vacuolar and plasma membranes; expressed at a very low level; potential role in resistance to oxidative stress and modulation of the PKA pathway; GEX2 has a paralog, GEX1, that arose from a segmental duplication
-S000035177	CDS					YKR106W		11	661442	663289	W		2011-02-03	1996-07-31	
-S000007063	long_terminal_repeat		YKRWomega1			chromosome 11		11	665430	665668	W		2011-02-03	2000-05-19	Ty5 LTR
-S000028978	telomere		TEL11R			chromosome 11		11	665904	666816	W	89	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XI; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
-S000028979	telomeric_repeat					TEL11R		11	666609	666816	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome XI
-S000028980	X_element					TEL11R		11	665904	666364	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XI; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028981	X_element_combinatorial_repeat					TEL11R		11	666365	666608	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XI; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000029411	gene_group		RDN1	RDN1		chromosome 12	L000001595	12				105			Ribosomal DNA (rDNA); an approximately 1-2 Mb region on the right arm of chr. XII consisting of 100-200 tandem copies of a 9.1 kb repeat which contains the genes for 5S, 5.8S, 25S and 18S rRNAs (represented by the RDN37, RDN25, RDN18, RDN58, and RDN5 loci); a specific histone modification (H3K56ac) regulates RNA polymerase I transcription of the ribosomal DNA
-S000028673	ORF	Dubious	YLL067W-A			chromosome 12		12	843	1325	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps YLL067C
-S000032519	CDS					YLL067W-A		12	843	1325	W		2003-07-29	2003-07-29	
-S000003990	ORF	Uncharacterized	YLL067C		Y' element ATP-dependent helicase	chromosome 12		12	4301	585	C		1996-07-31	1996-07-31	Putative Y' element ATP-dependent helicase
-S000034997	CDS					YLL067C		12	3915	585	C		1996-07-31	1996-07-31	
-S000034996	CDS					YLL067C		12	4301	4015	C		1996-07-31	1996-07-31	
-S000034998	intron					YLL067C		12	4014	3916	C		1996-07-31	1996-07-31	
-S000028672	ORF	Uncharacterized	YLL066W-B			chromosome 12		12	5605	5775	W		2003-07-29	2003-07-29	Putative protein of unknown function; overexpression causes a cell cycle delay or arrest
-S000032518	CDS					YLL066W-B		12	5605	5775	W		2003-07-29	2003-07-29	
-S000028671	ORF	Dubious	YLL066W-A			chromosome 12		12	6486	6968	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized ORF YLL066C
-S000032517	CDS					YLL066W-A		12	6486	6968	W		2003-07-29	2003-07-29	
-S000003989	ORF	Uncharacterized	YLL066C		Y' element ATP-dependent helicase	chromosome 12		12	9836	6120	C		1996-07-31	1996-07-31	Putative Y' element ATP-dependent helicase; YLL066C is not an essential gene
-S000034882	CDS					YLL066C		12	9450	6120	C		1996-07-31	1996-07-31	
-S000034881	CDS					YLL066C		12	9836	9550	C		1996-07-31	1996-07-31	
-S000034883	intron					YLL066C		12	9549	9451	C		1996-07-31	1996-07-31	
-S000003988	ORF	Dubious	YLL065W		GIN11	chromosome 12	L000002674	12	11726	12076	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps chromosome XII telomeric element core sequences
-S000034819	CDS					YLL065W		12	11726	12076	W		1996-07-31	1996-07-31	
-S000028910	telomere		TEL12L			chromosome 12		12	12085	1	C	-33	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XII; composed of an X element core sequence, X element combinatorial repeats, and three distinct regions of telomeric repeats separated by two short Y' elements
-S000028911	telomeric_repeat					TEL12L		12	75	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome XII
-S000028912	telomeric_repeat					TEL12L		12	5723	5662	C		2003-09-09	2003-09-09	Middle stretch of telomeric repeats on the left arm of Chromosome XII
-S000028913	telomeric_repeat					TEL12L		12	11358	11197	C		2003-09-09	2003-09-09	Internal telomeric repeats on the left arm of Chromosome XII
-S000028914	X_element					TEL12L		12	12085	11626	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XII; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YLL065W
-S000028915	X_element_combinatorial_repeat					TEL12L		12	11625	11359	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000028916	Y_prime_element					TEL12L		12	5661	76	C		2003-09-09	2003-09-09	Short telomeric Y' element on the left arm of Chromosome XII; more end-proximal of two two short telomeric Y' elements; contains an ARS consensus sequence, a region of 36-bp repeats, and two ORFs YLL067C and YLL067W-A
-S000028917	Y_prime_element					TEL12L		12	11196	5724	C		2003-09-09	2003-09-09	Short Y' element in the left telomere of Chromosome XII; more centromere-proximal of two short Y' elements; contains an ARS consensus sequence, a region of 36-bp repeats, and two ORFs YLL066C and YLL066W-A
-S000003987	ORF	Verified	YLL064C	PAU18	seripauperin PAU18	chromosome 12		12	13445	13083	C		1996-07-31	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; identical to Pau6p
-S000034617	CDS					YLL064C		12	13445	13083	C		1996-07-31	1996-07-31	
-S000003986	ORF	Verified	YLL063C	AYT1	acetyltransferase	chromosome 12	L000004544	12	16072	14648	C		1996-07-31	1996-07-31	Acetyltransferase; catalyzes trichothecene 3-O-acetylation, suggesting a possible role in trichothecene biosynthesis
-S000033720	CDS					YLL063C		12	16072	14648	C		1996-07-31	1996-07-31	
-S000003985	ORF	Verified	YLL062C	MHT1	S-adenosylmethionine-homocysteine S-methyltransferase MHT1	chromosome 12		12	17613	16639	C		1996-07-31	1996-07-31	S-methylmethionine-homocysteine methyltransferase; functions along with Sam4p in the conversion of S-adenosylmethionine (AdoMet) to methionine to control the methionine/AdoMet ratio
-S000033626	CDS					YLL062C		12	17613	16639	C		1996-07-31	1996-07-31	
-S000003984	ORF	Verified	YLL061W	MMP1	S-methylmethionine permease MMP1	chromosome 12	L000004869	12	17956	19707	W		1996-07-31	1996-07-31	High-affinity S-methylmethionine permease; required for utilization of S-methylmethionine as a sulfur source; has similarity to S-adenosylmethionine permease Sam3p
-S000033583	CDS					YLL061W		12	17956	19707	W		1996-07-31	1996-07-31	
-S000003983	ORF	Verified	YLL060C	GTT2	glutathione transferase GTT2	chromosome 12	L000004613	12	21839	21138	C		1996-07-31	1996-07-31	Glutathione S-transferase capable of homodimerization; functional overlap with Gtt2p, Grx1p, and Grx2p; protein abundance increases in response to DNA replication stress
-S000032819	CDS					YLL060C		12	21839	21138	C		1996-07-31	1996-07-31	
-S000003982	ORF	Dubious	YLL059C			chromosome 12		12	22980	22474	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032747	CDS					YLL059C		12	22980	22474	C		1996-07-31	1996-07-31	
-S000003981	ORF	Uncharacterized	YLL058W		cystathionine gamma-synthase	chromosome 12		12	23569	25296	W		1996-07-31	1996-07-31	Putative protein of unknown function with similarity to Str2p; Str2p is a cystathionine gamma-synthase important in sulfur metabolism; YLL058W is not an essential gene
-S000031898	CDS					YLL058W		12	23569	25296	W		1996-07-31	1996-07-31	
-S000003980	ORF	Verified	YLL057C	JLP1	sulfonate dioxygenase	chromosome 12		12	26994	25756	C		1996-07-31	1996-07-31	Fe(II)-dependent sulfonate/alpha-ketoglutarate dioxygenase; involved in sulfonate catabolism for use as a sulfur source; contains sequence that resembles a J domain (typified by the E. coli DnaJ protein); induced by sulphur starvation
-S000031705	CDS					YLL057C		12	26994	25756	C		1996-07-31	1996-07-31	
-S000003979	ORF	Uncharacterized	YLL056C			chromosome 12		12	28305	27409	C		1996-07-31	1996-07-31	Putative protein of unknown function; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p and genes involved in pleiotropic drug resistance (PDR); expression is induced in cells treated with the mycotoxin patulin; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000031618	CDS					YLL056C		12	28305	27409	C		1996-07-31	1996-07-31	
-S000003978	ORF	Verified	YLL055W	YCT1		chromosome 12		12	30109	31704	W		1996-07-31	1996-07-31	High-affinity cysteine-specific transporter; has similarity to the Dal5p family of transporters; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YCT1 is not an essential gene
-S000031573	CDS					YLL055W		12	30109	31704	W		1996-07-31	1996-07-31	
-S000130180	ARS		ARS1202			chromosome 12		12	30209	31384			2009-05-08	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000003977	ORF	Uncharacterized	YLL054C			chromosome 12		12	35204	32673	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function with similarity to Pip2p; an oleate-specific transcriptional activator of peroxisome proliferation; YLL054C is not an essential gene
-S000030665	CDS					YLL054C		12	35204	32673	C		2011-02-03	1996-07-31|2011-02-03	
-S000003976	ORF	Uncharacterized	YLL053C			chromosome 12		12	35961	35503	C		2011-02-03	1996-07-31	Putative protein; in the Sigma 1278B strain background YLL053C is contiguous with AQY2 which encodes an aquaporin
-S000030554	CDS					YLL053C		12	35961	35503	C		2011-02-03	1996-07-31	
-S000003975	ORF	Verified	YLL052C	AQY2		chromosome 12	L000004844	12	36361	35912	C		2011-02-03	1996-07-31	Water channel that mediates water transport across cell membranes; only expressed in proliferating cells; controlled by osmotic signals; may be involved in freeze tolerance; disrupted by a stop codon in many S. cerevisiae strains
-S000030412	CDS					YLL052C		12	36361	35912	C		2011-02-03	1996-07-31	
-S000003974	ORF	Verified	YLL051C	FRE6	putative ferric-chelate reductase	chromosome 12	L000003558	12	39471	37333	C		2011-02-03	1996-07-31	Putative ferric reductase with similarity to Fre2p; expression induced by low iron levels
-S000037644	CDS					YLL051C		12	39471	37333	C		2011-02-03	1996-07-31	
-S000003973	ORF	Verified	YLL050C	COF1	cofilin	chromosome 12	L000000377	12	40414	39804	C		2011-02-03	1996-07-31	Cofilin, involved in pH-dependent actin filament depolarization; binds both actin monomers and filaments and severs filaments; involved in the selective sorting, export of the secretory cargo from the late golgi; genetically interacts with pmr1; thought to be regulated by phosphorylation at SER4; ubiquitous and essential in eukaryotes
-S000037511	CDS					YLL050C		12	40221	39804	C		2011-02-03	1996-07-31	
-S000037510	CDS					YLL050C		12	40414	40401	C		2011-02-03	1996-07-31	
-S000037512	intron					YLL050C		12	40400	40222	C		2011-02-03	1996-07-31	
-S000003972	ORF	Verified	YLL049W	LDB18		chromosome 12		12	40666	41205	W		2011-02-03	1996-07-31	Component of the dynactin complex; dynactin is required for dynein activity; null mutant exhibits defects in nuclear migration and spindle orientation and has reduced affinity for alcian blue dye; has homology to mammalian dynactin subunit p24
-S000037568	CDS					YLL049W		12	40666	41205	W		2011-02-03	1996-07-31	
-S000003971	ORF	Verified	YLL048C	YBT1	bile acid-transporting ATPase YBT1|BAT1	chromosome 12	L000004345	12	46265	41280	C		2011-02-03	1996-07-31	Transporter of the ATP-binding cassette (ABC) family; involved in bile acid transport; negative regulator of vacuole fusion; regulates release of lumenal Ca2+ stores; similar to mammalian bile transporters; YBT1 has a paralog, VMR1, that arose from the whole genome duplication
-S000036801	CDS					YLL048C		12	46265	41280	C		2011-02-03	1996-07-31	
-S000003970	ORF	Dubious	YLL047W			chromosome 12		12	46672	47055	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene RNP1
-S000036777	CDS					YLL047W		12	46672	47055	W		2011-02-03	1996-07-31	
-S000003969	ORF	Verified	YLL046C	RNP1		chromosome 12	L000001654	12	47463	46714	C		2011-02-03	1996-07-31	Ribonucleoprotein that contains two RNA recognition motifs (RRM); RNP1 has a paralog, SBP1, that arose from the whole genome duplication
-S000036697	CDS					YLL046C		12	47463	46714	C		2011-02-03	1996-07-31	
-S000003967	ORF	Dubious	YLL044W			chromosome 12		12	48216	48662	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcription of both YLL044W and the overlapping gene RPL8B is reduced in the gcr1 null mutant
-S000035737	CDS					YLL044W		12	48216	48662	W		2011-02-03	1996-07-31	
-S000003968	ORF	Verified	YLL045C	RPL8B	eL8|ribosomal 60S subunit protein L8B|L8e|rp6|YL5|L8B|L4B|SCL41|KRB1	chromosome 12	L000000911|L000001705	12	48629	47859	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L8B; required for processing of 27SA3 pre-rRNA to 27SB pre-rRNA during assembly of large ribosomal subunit; depletion leads to a turnover of pre-rRNA; L8 binds to Domain I of 25S and 5.8 S rRNAs; mutation results in decreased amounts of free 60S subunits; homologous to mammalian ribosomal protein L7A, no bacterial homolog; RPL8B has a paralog, RPL8A, that arose from the whole genome duplication
-S000036622	CDS					YLL045C		12	48629	47859	C		2011-02-03	1996-07-31	
-S000003966	ORF	Verified	YLL043W	FPS1		chromosome 12	L000000625	12	49938	51947	W		2011-02-03	1996-07-31	Aquaglyceroporin, plasma membrane channel; involved in efflux of glycerol and xylitol, and in uptake of acetic acid, arsenite, and antimonite; key factor in maintaining redox balance by mediating passive diffusion of glycerol; phosphorylated by Hog1p MAPK under acetate stress; deletion improves xylose fermentation; regulated by Rgc1p and Ask10p, which are regulated by Hog1p phosphorylation under osmotic stress; phosphorylation by Ypk1p required to maintain an open state
-S000035628	CDS					YLL043W		12	49938	51947	W		2011-02-03	1996-07-31	
-S000003965	ORF	Verified	YLL042C	ATG10	E2-like conjugating enzyme|APG10	chromosome 12	L000004785	12	52590	52087	C		2011-02-03	1996-07-31	Conserved E2-like conjugating enzyme; mediates formation of the Atg12p-Atg5p conjugate, which is a critical step in autophagy
-S000035508	CDS					YLL042C		12	52590	52087	C		2011-02-03	1996-07-31	
-S000003964	ORF	Verified	YLL041C	SDH2	succinate dehydrogenase iron-sulfur protein subunit SDH2|SDHB|ACN17	chromosome 12	L000001824	12	53931	53131	C		2011-02-03	1996-07-31	Iron-sulfur protein subunit of succinate dehydrogenase; the complex couples the oxidation of succinate to the transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; other members are Sdh1p, Sdh3p, and Sdh4p
-S000034473	CDS					YLL041C		12	53931	53131	C		2011-02-03	1996-07-31	
-S000003963	ORF	Verified	YLL040C	VPS13	membrane morphogenesis protein VPS13|VPT2|SOI1	chromosome 12	L000003510|L000002967	12	63645	54211	C		2011-02-03	1996-07-31	Protein involved in prospore membrane morphogenesis; peripheral membrane protein that localizes to the prospore membrane and at numerous membrane contact sites; involved in sporulation, vacuolar protein sorting, prospore membrane formation during sporulation, and protein-Golgi retention; required for mitochondrial integrity; contains a PH-like domain; homologous to human CHAC and COH1 which are involved in Chorea-acanthocytosis and Cohen syndrome, respectively
-S000034394	CDS					YLL040C		12	63645	54211	C		2011-02-03	1996-07-31	
-S000003962	ORF	Verified	YLL039C	UBI4	ubiquitin|UB14|SCD2	chromosome 12	L000002414	12	65207	64062	C		2011-02-03	1996-07-31	Ubiquitin; becomes conjugated to proteins, marking them for selective degradation via the ubiquitin-26S proteasome system; essential for the cellular stress response; encoded as a polyubiquitin precursor comprised of 5 head-to-tail repeats; protein abundance increases in response to DNA replication stress
-S000033435	CDS					YLL039C		12	65207	64062	C		2011-02-03	1996-07-31	
-S000003961	ORF	Verified	YLL038C	ENT4		chromosome 12		12	66518	65775	C		2011-02-03	1996-07-31	Protein of unknown function; contains an N-terminal epsin-like domain; proposed to be involved in the trafficking of Arn1p in the absence of ferrichrome
-S000033366	CDS					YLL038C		12	66518	65775	C		2011-02-03	1996-07-31	
-S000003960	ORF	Dubious	YLL037W			chromosome 12		12	66562	66942	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 3' end of essential PRP19 gene encoding an RNA splicing factor
-S000033343	CDS					YLL037W		12	66562	66942	W		2011-02-03	1996-07-31	
-S000003959	ORF	Verified	YLL036C	PRP19	E3 ubiquitin-protein ligase PRP19|PSO4	chromosome 12	L000001506	12	68256	66745	C		2011-02-03	1996-07-31	Splicing factor associated with the spliceosome; contains a U-box, a motif found in a class of ubiquitin ligases, and a WD40 domain; relocalizes to the cytosol in response to hypoxia
-S000032580	CDS					YLL036C		12	68256	66745	C		2011-02-03	1996-07-31	
-S000003958	ORF	Verified	YLL035W	GRC3	polynucleotide 5'-hydroxyl-kinase	chromosome 12		12	68580	70478	W		2011-02-03	1996-07-31	Polynucleotide kinase present on rDNA; required for efficient transcription termination by RNA polymerase I; functions with Las1p in a conserved mechanism to modulate rRNA processing and ribosome biogenesis; required for cell growth; mRNA is cell-cycle regulated
-S000032549	CDS					YLL035W		12	68580	70478	W		2011-02-03	1996-07-31	
-S000003957	ORF	Verified	YLL034C	RIX7	putative AAA family ATPase RIX7	chromosome 12		12	73146	70633	C		2011-02-03	1996-07-31	Putative ATPase of the AAA family; required for export of pre-ribosomal large subunits from the nucleus; distributed between the nucleolus, nucleoplasm, and nuclear periphery depending on growth conditions
-S000032376	CDS					YLL034C		12	73146	70633	C		2011-02-03	1996-07-31	
-S000003956	ORF	Verified	YLL033W	IRC19	RRG4|GON2	chromosome 12		12	73409	74101	W		2011-02-03	1996-07-31	Protein of unknown function; YLL033W is not an essential gene but mutant is defective in spore formation; null mutant displays increased levels of spontaneous Rad52p foci
-S000032327	CDS					YLL033W		12	73409	74101	W		2011-02-03	1996-07-31	
-S000003955	ORF	Verified	YLL032C			chromosome 12		12	76747	74270	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLL032C is not an essential gene
-S000031283	CDS					YLL032C		12	76747	74270	C		2011-02-03	1996-07-31	
-S000003954	ORF	Verified	YLL031C	GPI13	mannose-ethanolamine phosphotransferase GPI13|MPC1	chromosome 12		12	80205	77152	C		2011-02-03	1996-07-31	ER membrane localized phosphoryltransferase; adds phosphoethanolamine onto the third mannose residue of the glycosylphosphatidylinositol (GPI) anchor precursor; similar to human PIG-O protein
-S000031131	CDS					YLL031C		12	80205	77152	C		2011-02-03	1996-07-31	
-S000003953	ORF	Dubious	YLL030C	RRT7		chromosome 12		12	80697	80356	C		2011-02-03	1996-07-31	Protein of unknown function; identified in a screen for mutants with increased levels of rDNA transcription; dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
-S000030186	CDS					YLL030C		12	80697	80356	C		2011-02-03	1996-07-31	
-S000003952	ORF	Verified	YLL029W	FRA1	RUP2	chromosome 12		12	81461	83710	W		2011-02-03	1996-07-31	Protein involved in negative regulation of iron regulon transcription; forms an iron independent complex with Fra2p, Grx3p, and Grx4p; cytosolic; mutant fails to repress transcription of iron regulon and is defective in spore formation
-S000037209	CDS					YLL029W		12	81461	83710	W		2011-02-03	1996-07-31	
-S000003951	ORF	Verified	YLL028W	TPO1		chromosome 12		12	84804	86564	W		2011-02-03	1996-07-31	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; recognizes spermine, putrescine, and spermidine; catalyzes uptake of polyamines at alkaline pH and excretion at acidic pH; during oxidative stress exports spermine, spermidine from the cell, which controls timing of expression of stress-responsive genes; phosphorylation enhances activity and sorting to the plasma membrane
-S000037134	CDS					YLL028W		12	84804	86564	W		2011-02-03	1996-07-31	
-S000003950	ORF	Verified	YLL027W	ISA1	Fe-binding Fe/S cluster assembly protein ISA1	chromosome 12	L000004953	12	87403	88155	W		2011-02-03	1996-07-31	Protein required for maturation of mitochondrial [4Fe-4S] proteins; functions in a complex with Isa2p and possibly Iba57p; isa1 deletion causes loss of mitochondrial DNA and respiratory deficiency; depletion reduces growth on nonfermentable carbon sources; functional ortholog of bacterial A-type ISC proteins; human ISCA1 can complement isa1 null mutant
-S000036472	CDS					YLL027W		12	87403	88155	W		2011-02-03	1996-07-31	
-S000003949	ORF	Verified	YLL026W	HSP104	chaperone ATPase HSP104	chromosome 12	L000000823	12	88623	91349	W		2011-02-03	1996-07-31	Disaggregase; heat shock protein that cooperates with Ydj1p (Hsp40) and Ssa1p (Hsp70) to refold and reactivate previously denatured, aggregated proteins; responsive to stresses including: heat, ethanol, and sodium arsenite; involved in [PSI+] propagation; protein becomes more abundant and forms cytoplasmic foci in response to DNA replication stress; potentiated Hsp104p variants decrease TDP-43 proteotoxicity by eliminating its cytoplasmic aggregation
-S000036386	CDS					YLL026W		12	88623	91349	W		2011-02-03	1996-07-31	
-S000118469	ARS		ARS1206		ARSXII-91	chromosome 12		12	91419	91660			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178130	ARS_consensus_sequence					ARS1206		12	91466	91482	W		2014-11-18	2014-11-18	
-S000007064	long_terminal_repeat		YLLCdelta1			chromosome 12		12	92381	92050	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006683	tRNA_gene		tP(UGG)L			chromosome 12	L000003645	12	92548	92650	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
-S000036013	intron					tP(UGG)L		12	92584	92614	W		2011-02-03	2000-05-19	
-S000036011	noncoding_exon					tP(UGG)L		12	92548	92583	W		2011-02-03	2000-05-19	
-S000036012	noncoding_exon					tP(UGG)L		12	92615	92650	W		2011-02-03	2000-05-19	
-S000003948	ORF	Verified	YLL025W	PAU17	seripauperin PAU17	chromosome 12		12	94747	95121	W		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole; YLL025W is not an essential gene
-S000036278	CDS					YLL025W		12	94747	95121	W		2011-02-03	1996-07-31	
-S000003947	ORF	Verified	YLL024C	SSA2	Hsp70 family chaperone SSA2|YG102	chromosome 12	L000002070	12	97485	95566	C		2011-02-03	1996-07-31	HSP70 family ATP-binding protein; involved in protein folding, vacuolar import of proteins; required for ubiquitin-dependent degradation of short-lived proteins; associated with chaperonin-containing T-complex; 98% identical to paralog Ssa1p with distinct functional specificity in propagation of yeast [URE3] prions and vacuolar-mediated degradation of gluconeogenesis enzymes; binds tRNA, has role in tRNA nuclear import during starvation
-S000035290	CDS					YLL024C		12	97485	95566	C		2011-02-03	1996-07-31	
-S000003946	ORF	Verified	YLL023C	POM33	nucleoporin POM33	chromosome 12		12	98836	97997	C		2011-02-03	1996-07-31	Transmembrane nucleoporin; involved in nuclear pore complex (NPC) distribution, assembly or stabilization; highly conserved across species, orthologous to human TMEM33 and paralogous to Per33p; protein abundance increases in response to DNA replication stress
-S000035143	CDS					YLL023C		12	98836	97997	C		2011-02-03	1996-07-31	
-S000003945	ORF	Verified	YLL022C	HIF1		chromosome 12	L000004439	12	100201	99044	C		2011-02-03	1996-07-31	Non-essential component of the HAT-B histone acetyltransferase complex; localized to the nucleus; has a role in telomeric silencing; other members are Hat1p and Hat2p
-S000034956	CDS					YLL022C		12	100201	99044	C		2011-02-03	1996-07-31	
-S000003944	ORF	Verified	YLL021W	SPA2	PPF1|PEA1|FUS6	chromosome 12	L000001989	12	100947	105347	W	-28	2011-02-03	1996-07-31	Component of the polarisome; functions in actin cytoskeletal organization during polarized growth; acts as a scaffold for Mkk1p and Mpk1p cell wall integrity signaling components; potential Cdc28p substrate; coding sequence contains length polymorphisms in different strains; SPA2 has a paralog, SPH1, that arose from the whole genome duplication
-S000034900	CDS					YLL021W		12	100947	105347	W		2011-02-03	1996-07-31	
-S000003943	ORF	Dubious	YLL020C			chromosome 12		12	105861	105556	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene KNS1
-S000033932	CDS					YLL020C		12	105861	105556	C		2011-02-03	1996-07-31	
-S000028670	ORF	Dubious	YLL019W-A			chromosome 12		12	106908	107000	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene KNS1
-S000032516	CDS					YLL019W-A		12	106908	107000	W		2011-02-03	2003-07-29	
-S000003942	ORF	Verified	YLL019C	KNS1	serine/threonine protein kinase KNS1|L124	chromosome 12	L000000910	12	107899	105686	C	-28	2011-02-03	1996-07-31	Protein kinase involved in negative regulation of PolIII transcription; effector kinase of the TOR signaling pathway and phosphorylates Rpc53p to regulate ribosome and tRNA biosynthesis; member of the LAMMER family of protein kinases, which are serine/threonine kinases also capable of phosphorylating tyrosine residues; capable of autophosphorylation
-S000035019	CDS					YLL019C		12	107899	105686	C		2011-02-03	1996-07-31	
-S000007245	ORF	Verified	YLL018C-A	COX19		chromosome 12	L000004848	12	108972	108676	C		2011-02-03	1999-07-17	Protein required for cytochrome c oxidase assembly; located in the cytosol and mitochondrial intermembrane space; putative copper metallochaperone that delivers copper to cytochrome c oxidase; contains twin cysteine-x9-cysteine motifs
-S000037730	CDS					YLL018C-A		12	108972	108676	C		2011-02-03	1999-07-17	
-S000003941	ORF	Verified	YLL018C	DPS1	aspartate--tRNA ligase DPS1|AspRS	chromosome 12	L000002834	12	111575	109902	C		2011-02-03	1996-07-31	Aspartyl-tRNA synthetase, primarily cytoplasmic; homodimeric enzyme that catalyzes the specific aspartylation of tRNA(Asp); class II aminoacyl tRNA synthetase; binding to its own mRNA may confer autoregulation; shares five highly conserved amino acids with human that when mutated cause leukoencephalopathy characterized by hypomyelination with brain stem and spinal cord involvement and leg spasticity (HBSL)
-S000034907	CDS					YLL018C		12	111575	109902	C		2011-02-03	1996-07-31	
-S000003940	pseudogene		YLL017W		Ras family guanine nucleotide exchange factor SDC25|SDC25	chromosome 12	L000002822|L000003262	12	112234	112545	W		2011-02-03	1996-07-31	Non-essential Ras guanine nucleotide exchange factor (GEF); localized to the membrane; expressed in poor nutrient conditions and on nonfermentable carbon sources; contains a stop codon in S288C, full-length gene includes YLL016W; SDC25 has a paralog, CDC25, that arose from the whole genome duplication
-S000034831	CDS					YLL017W		12	112234	112545	W		2011-02-03	1996-07-31	
-S000003939	pseudogene		YLL016W	SDC25	Ras family guanine nucleotide exchange factor SDC25	chromosome 12		12	112847	115993	W	-3	2011-02-03	1996-07-31	Non-essential Ras guanine nucleotide exchange factor (GEF); localized to the membrane; expressed in poor nutrient conditions and on nonfermentable carbon sources; contains a stop codon in S288C, full-length gene includes YLL017W; SDC25 has a paralog, CDC25, that arose from the whole genome duplication
-S000032886	CDS					YLL016W		12	112847	115993	W		2011-02-03	1996-07-31	
-S000003938	ORF	Verified	YLL015W	BPT1	ATP-binding cassette bilirubin transporter BPT1	chromosome 12		12	116432	121111	W		2011-02-03	1996-07-31	ABC type transmembrane transporter of MRP/CFTR family; found in vacuolar membrane, involved in the transport of unconjugated bilirubin and in heavy metal detoxification via glutathione conjugates, along with Ycf1p
-S000032769	CDS					YLL015W		12	116432	121111	W		2011-02-03	1996-07-31	
-S000003937	ORF	Verified	YLL014W	EMC6		chromosome 12		12	121322	121648	W		2011-02-03	1996-07-31	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; homologous to worm F33D4.7/EMC-6, fly CG11781, human TMEM93
-S000032696	CDS					YLL014W		12	121322	121648	W		2011-02-03	1996-07-31	
-S000003936	ORF	Verified	YLL013C	PUF3	mRNA-binding protein PUF3	chromosome 12		12	124714	122075	C		2011-02-03	1996-07-31	Protein of the mitochondrial outer surface; links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation of mRNAs for select nuclear-encoded mitochondrial proteins
-S000031656	CDS					YLL013C		12	124714	122075	C		2011-02-03	1996-07-31	
-S000003935	ORF	Verified	YLL012W	YEH1	sterol esterase	chromosome 12		12	125534	127255	W		2011-02-03	1996-07-31	Steryl ester hydrolase; one of three gene products (Yeh1p, Yeh2p, Tgl1p) responsible for steryl ester hydrolase activity and involved in sterol homeostasis; localized to lipid particle membranes; YEH1 has a paralog, YEH2, that arose from the whole genome duplication
-S000031612	CDS					YLL012W		12	125534	127255	W		2011-02-03	1996-07-31	
-S000003934	ORF	Verified	YLL011W	SOF1	rRNA-processing protein SOF1	chromosome 12	L000001981	12	127523	128992	W		2011-02-03	1996-07-31	Protein required for biogenesis of 40S (small) ribosomal subunit; has similarity to the beta subunit of trimeric G-proteins and the splicing factor Prp4p; essential gene
-S000031493	CDS					YLL011W		12	127523	128992	W		2011-02-03	1996-07-31	
-S000003933	ORF	Verified	YLL010C	PSR1	phosphatase	chromosome 12		12	130613	129330	C		2011-02-03	1996-07-31	Plasma membrane associated protein phosphatase; involved in the general stress response; required along with binding partner Whi2p for full activation of STRE-mediated gene expression, possibly through dephosphorylation of Msn2p; PSR1 has a paralog, PSR2, that arose from the whole genome duplication
-S000030481	CDS					YLL010C		12	130613	129330	C		2011-02-03	1996-07-31	
-S000003932	ORF	Verified	YLL009C	COX17	copper metallochaperone COX17	chromosome 12	L000003085	12	131414	131205	C		2011-02-03	1996-07-31	Copper metallochaperone that transfers copper to Sco1p and Cox11p; eventual delivery to cytochrome c oxidase; contains twin cysteine-x9-cysteine motifs; interacts with the MICOS complex, and interaction is promoted by copper ions; human homolog COX17 partially complements yeast null mutant
-S000030695	CDS					YLL009C		12	131414	131205	C		2011-02-03	1996-07-31	
-S000003931	ORF	Verified	YLL008W	DRS1	putative ATP-dependent RNA helicase	chromosome 12	L000000525	12	131729	133987	W		2011-02-03	1996-07-31	Nucleolar DEAD-box protein required for ribosome assembly and function; including synthesis of 60S ribosomal subunits; constituent of 66S pre-ribosomal particles
-S000030652	CDS					YLL008W		12	131729	133987	W		2011-02-03	1996-07-31	
-S000003930	ORF	Verified	YLL007C	LMO1		chromosome 12		12	136299	134302	C		2011-02-03	1996-07-31	Homolog of mammalian ELMO (Engulfment and celL MOtility); upstream component for regulation through the small GTPase Rho5p; may form a complex with Dck1p that acts as a GEF for Rho5p; cytoplasmic protein that relocates to mitochondria under oxidative stress; implicated in mitophagy; not an essential protein
-S000036717	CDS					YLL007C		12	136299	134302	C		2011-02-03	1996-07-31	
-S000028560	ORF	Uncharacterized	YLL006W-A			chromosome 12		12	136345	136521	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031266	CDS					YLL006W-A		12	136345	136521	W		2011-02-03	2003-07-29	
-S000003929	ORF	Verified	YLL006W	MMM1	ERMES complex subunit MMM1|YME6	chromosome 12	L000001124	12	136586	137866	W		2011-02-03	1996-07-31	ER integral membrane protein, ERMES complex subunit; ERMES links the ER to mitochondria and may promote inter-organellar calcium and phospholipid exchange as well as coordinating mitochondrial DNA replication and growth; required for mitophagy; ERMES complex is often co-localized with peroxisomes and with concentrated areas of pyruvate dehydrogenase
-S000036667	CDS					YLL006W		12	136586	137866	W		2011-02-03	1996-07-31	
-S000130181	ARS		ARS1207			chromosome 12		12	138185	139164			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000003928	ORF	Verified	YLL005C	SPO75		chromosome 12	S000007654	12	140546	137940	C		2011-02-03	1996-07-31	Meiosis-specific protein of unknown function; required for spore wall formation during sporulation; dispensable for both nuclear divisions during meiosis
-S000036535	CDS					YLL005C		12	140546	137940	C		2011-02-03	1996-07-31	
-S000003927	ORF	Verified	YLL004W	ORC3	origin recognition complex subunit 3	chromosome 12	L000003074	12	141073	142923	W		2011-02-03	1996-07-31	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing
-S000036499	CDS					YLL004W		12	141073	142923	W		2011-02-03	1996-07-31	
-S000003926	ORF	Verified	YLL003W	SFI1		chromosome 12	L000003991	12	143201	146041	W		2011-02-03	1996-07-31	Centrin (Cdc31p)-binding protein required for SPB duplication; localizes to the half-bridge of the spindle pole body (SPB); required for progression through G(2)-M transition; phosphorylated by Cdc28p-Clb2p and by Cdc5p; dephosphorylated by Cdc14p; has similarity to Xenopus laevis XCAP-C
-S000035597	CDS					YLL003W		12	143201	146041	W		2011-02-03	1996-07-31	
-S000003925	ORF	Verified	YLL002W	RTT109	H3 histone acetyltransferase RTT109|KAT11|REM50|KIM2	chromosome 12	L000003932	12	146291	147601	W		2011-02-03	1996-07-31	Histone acetyltransferase; critical for cell survival in presence of DNA damage during S phase, required for recovery after DSB repair; acetylates H3K56, H3K9; H3K56 acetylation activity required for expression homeostasis, buffering of mRNA synthesis rate against changes in gene dosage during S phase; involved in non-homologous end joining and regulation of Ty1 transposition; prevents hyper-amplification of rDNA; interacts physically with Vps75p
-S000035504	CDS					YLL002W		12	146291	147601	W		2011-02-03	1996-07-31	
-S000003924	ORF	Verified	YLL001W	DNM1	dynamin-related GTPase DNM1	chromosome 12	L000002645	12	147890	150163	W		2011-02-03	1996-07-31	Dynamin-related GTPase involved in mitochondrial organization; required for mitochondrial fission and inheritance; self assembles on the cytoplasmic face of mitochondrial tubules at sites where division will occur; participates in endocytosis and regulates peroxisome fission along with Vps1p; mutants in the human ortholog DNM1L, which mediates mitochondrial fission, peroxisomal division, autophagy, and mitophagy, are associated with slowly progressive infantile encephalopathy
-S000035377	CDS					YLL001W		12	147890	150163	W		2011-02-03	1996-07-31	
-S000006473	centromere		CEN12	CEN12		chromosome 12	L000000305	12	150947	150828	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome XII centromere
-S000077287	centromere_DNA_Element_I					CEN12		12	150947	150938	C		2011-02-03	2004-10-08	
-S000077288	centromere_DNA_Element_II					CEN12		12	150937	150853	C		2011-02-03	2004-10-08	
-S000077289	centromere_DNA_Element_III					CEN12		12	150852	150828	C		2011-02-03	2004-10-08	
-S000114848	ARS		ARS1208	ARS1208	ARSXII-151|CEN12 ARS	chromosome 12		12	150947	151389			2011-02-03	2006-04-13	Autonomously Replicating Sequence
-S000178131	ARS_consensus_sequence					ARS1208		12	151078	151094	W		2014-11-18	2014-11-18	
-S000003991	ORF	Uncharacterized	YLR001C			chromosome 12		12	153977	151389	C		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; predicted to be palmitoylated
-S000031754	CDS					YLR001C		12	153977	151389	C		2011-02-03	1996-07-31	
-S000003992	ORF	Verified	YLR002C	NOC3		chromosome 12		12	156334	154343	C		2011-02-03	1996-07-31	Subunit of a nuclear complex with Noc2p and pre-replicative complexes; the Noc2p-Noc3p complex binds to 66S ribosomal precursors to mediate their maturation and intranuclear transport; binds to chromatin at active replication origins, and is required for pre-RC formation and maintenance during DNA replication licensing
-S000031944	CDS					YLR002C		12	156334	154343	C		2011-02-03	1996-07-31	
-S000118470	ARS		ARS1209		ARSXII-157	chromosome 12		12	156648	156884			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000003993	ORF	Verified	YLR003C	CMS1		chromosome 12		12	157730	156855	C		2011-02-03	1996-07-31	Putative subunit of the 90S preribosome processome complex; overexpression rescues supressor mutant of mcm10; null mutant is viable; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000032071	CDS					YLR003C		12	157730	156855	C		2011-02-03	1996-07-31	
-S000003994	ORF	Verified	YLR004C	THI73		chromosome 12		12	159505	157934	C		2011-02-03	1996-07-31	Putative plasma membrane permease; proposed to be involved in carboxylic acid uptake and repressed by thiamine; substrate of Dbf2p/Mob1p kinase; transcription is altered if mitochondrial dysfunction occurs
-S000034068	CDS					YLR004C		12	159505	157934	C		2011-02-03	1996-07-31	
-S000003995	ORF	Verified	YLR005W	SSL1	TFIIH/NER complex subunit SSL1	chromosome 12	L000002085	12	160049	161434	W		2011-02-03	1996-07-31	Subunit of the core form of RNA polymerase transcription factor TFIIH; has both protein kinase and DNA-dependent ATPase/helicase activities; essential for transcription and nucleotide excision repair; interacts with Tfb4p
-S000034240	CDS					YLR005W		12	160049	161434	W		2011-02-03	1996-07-31	
-S000003996	ORF	Verified	YLR006C	SSK1	mitogen-activated protein kinase kinase kinase SSK1	chromosome 12	L000002084	12	163893	161755	C		2011-02-03	1996-07-31	Cytoplasmic phosphorelay intermediate osmosensor and regulator; part of a two-component signal transducer that mediates osmosensing via a phosphorelay mechanism; required for mitophagy; dephosphorylated form is degraded by the ubiquitin-proteasome system; potential Cdc28p substrate
-S000034274	CDS					YLR006C		12	163893	161755	C		2011-02-03	1996-07-31	
-S000003997	ORF	Verified	YLR007W	NSE1	Smc5-Smc6 complex subunit NSE1	chromosome 12		12	164392	165402	W		2011-02-03	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair
-S000034350	CDS					YLR007W		12	164392	165402	W		2011-02-03	1996-07-31	
-S000003998	ORF	Verified	YLR008C	PAM18	TIM14	chromosome 12		12	166083	165577	C		2011-02-03	1996-07-31	Subunit of the import motor (PAM complex); the PAM complex is a  component of the Translocase of the Inner Mitochondrial membrane (TIM23 complex); essential J-protein cochaperone that stimulates Ssc1p ATPase activity to drive import; inhibited by Pam16p
-S000034382	CDS					YLR008C		12	166083	165577	C		2011-02-03	1996-07-31	
-S000003999	ORF	Verified	YLR009W	RLP24	ATPase-activating ribosome biosynthesis protein	chromosome 12		12	166537	167136	W		2011-02-03	1996-07-31	Essential protein required for ribosomal large subunit biogenesis; associated with pre-60S ribosomal subunits; stimulates the ATPase activity of Afg2p, which is required for release of Rlp24p from the pre-60S particle; has similarity to Rpl24Ap and Rpl24Bp
-S000035399	CDS					YLR009W		12	166537	167136	W		2011-02-03	1996-07-31	
-S000004000	ORF	Verified	YLR010C	TEN1		chromosome 12		12	167802	167320	C		2011-02-03	1996-07-31	Protein that regulates telomeric length; protects telomeric ends in a complex with Cdc13p and Stn1p; similar to human Ten1 which is critical for the telomeric function of the CST (Cdc13p-Stn1p-Ten1p) complex
-S000034009	CDS					YLR010C		12	167802	167320	C		2011-02-03	1996-07-31	
-S000006728	tRNA_gene		tS(AGA)L			chromosome 12	L000003665	12	168025	167944	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000032403	noncoding_exon					tS(AGA)L		12	168025	167944	C		2011-02-03	2000-05-19	
-S000007079	long_terminal_repeat		YLRCsigma1			chromosome 12		12	168380	168043	C		2011-02-03	2000-05-19	Ty3 LTR
-S000004001	ORF	Verified	YLR011W	LOT6	flavin-dependent quinone reductase	chromosome 12		12	169103	169678	W		2011-02-03	1996-07-31	FMN-dependent NAD(P)H:quinone reductase; role in apoptosis-like cell death; may be involved in quinone detoxification; expression elevated at low temperature; sequesters the Cin5p transcription factor in the cytoplasm in complex with the proteasome under reducing conditions
-S000034963	CDS					YLR011W		12	169103	169678	W		2011-02-03	1996-07-31	
-S000004002	ORF	Uncharacterized	YLR012C			chromosome 12		12	170281	169982	C		2011-02-03	2003-09-22|1996-07-31	Putative protein of unknown function; YLR012C is not an essential gene
-S000035029	CDS					YLR012C		12	170281	169982	C		2011-02-03	2003-09-22|1996-07-31	
-S000004003	ORF	Verified	YLR013W	GAT3		chromosome 12	S000007451	12	171339	171764	W		2011-02-03	1996-07-31	Protein containing GATA family zinc finger motifs; involved in spore wall assembly; sequence similarity to GAT4, and the double mutant gat3 gat4 exhibits reduced dityrosine fluorescence relative to the single mutants
-S000035278	CDS					YLR013W		12	171339	171764	W		2011-02-03	1996-07-31	
-S000004004	ORF	Verified	YLR014C	PPR1		chromosome 12	L000001475	12	174982	172268	C	8	2011-02-03	1996-07-31	Zinc finger transcription factor; contains a Zn(2)-Cys(6) binuclear cluster domain, positively regulates transcription of URA1, URA3, URA4, and URA10, which are involved in de novo pyrimidine biosynthesis, in response to pyrimidine starvation; activity may be modulated by interaction with Tup1p
-S000036111	CDS					YLR014C		12	174982	172268	C		2011-02-03	1996-07-31	
-S000004005	ORF	Verified	YLR015W	BRE2	CPS60	chromosome 12		12	175227	176744	W		2011-02-03	1996-07-31	Subunit of COMPASS (Set1C) complex; COMPASS methylates Lys4 of histone H3 and functions in silencing at telomeres; has a C-terminal Sdc1 Dpy-30 Interaction (SDI) domain that mediates binding to Sdc1p; similar to trithorax-group protein ASH2L
-S000036291	CDS					YLR015W		12	175227	176744	W		2011-02-03	1996-07-31	
-S000004006	ORF	Verified	YLR016C	PML1		chromosome 12		12	177416	176802	C		2011-02-03	1996-07-31	Subunit of the RES complex; RES complex is required for nuclear retention of unspliced pre-mRNAs; acts in the same pathway as Pml39p and Mlp1p
-S000036355	CDS					YLR016C		12	177416	176802	C		2011-02-03	1996-07-31	
-S000004007	ORF	Verified	YLR017W	MEU1	S-methyl-5-thioadenosine phosphorylase	chromosome 12	L000004106	12	177608	178621	W		2011-02-03	1996-07-31	Methylthioadenosine phosphorylase (MTAP); catalyzes the initial step in the methionine salvage pathway; affects polyamine biosynthesis through regulation of ornithine decarboxylase (Spe1p) activity; regulates ADH2 gene expression
-S000030114	CDS					YLR017W		12	177608	178621	W		2011-02-03	1996-07-31	
-S000004008	ORF	Verified	YLR018C	POM34		chromosome 12		12	179606	178707	C		2011-02-03	1996-07-31	Subunit of the transmembrane ring of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport, NPC biogenesis and spindle pole body duplication
-S000030160	CDS					YLR018C		12	179606	178707	C		2011-02-03	1996-07-31	
-S000004009	ORF	Verified	YLR019W	PSR2	putative phosphatase	chromosome 12		12	180288	181481	W		2011-02-03	1996-07-31	Plasma membrane phosphatase involved in the general stress response; required with Psr1p and Whi2p for full activation of STRE-mediated gene expression, possibly through dephosphorylation of Msn2p; PSR2 has a paralog, PSR1, that arose from the whole genome duplication
-S000030375	CDS					YLR019W		12	180288	181481	W		2011-02-03	1996-07-31	
-S000004010	ORF	Verified	YLR020C	YEH2	sterol esterase	chromosome 12		12	183405	181789	C		2011-02-03	1996-07-31	Steryl ester hydrolase; catalyzes steryl ester hydrolysis at the plasma membrane; involved in sterol metabolism; YEH2 has a paralog, YEH1, that arose from the whole genome duplication
-S000029961	CDS					YLR020C		12	183405	181789	C		2011-02-03	1996-07-31	
-S000004011	ORF	Verified	YLR021W	IRC25	DMP2|PBA3|POC3	chromosome 12		12	183623	184162	W		2011-02-03	1996-07-31	Component of a heterodimeric Poc4p-Irc25p chaperone; involved in assembly of alpha subunits into the 20S proteasome; may regulate formation of proteasome isoforms with alternative subunits under different conditions; upregulates proteasome assembly in response to the unfolded protein response activated by mistargeting of proteins (UPRam)
-S000031024	CDS					YLR021W		12	183623	184162	W		2011-02-03	1996-07-31	
-S000004012	ORF	Verified	YLR022C	SDO1	guanine nucleotide exchange factor SDO1	chromosome 12	S000029721	12	184926	184174	C		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for Ria1p; essential protein involved in ribosome maturation; with Ria1p, promotes release of Tif6p from 60S ribosomal subunits in the cytoplasm so that they can assemble with 40S subunits to generate mature ribosomes; ortholog of the human protein (SBDS) responsible for autosomal recessive Shwachman-Bodian-Diamond Syndrome; highly conserved across archaea and eukaryotes
-S000031066	CDS					YLR022C		12	184926	184174	C		2011-02-03	1996-07-31	
-S000004013	ORF	Verified	YLR023C	IZH3		chromosome 12		12	187129	185498	C		2011-02-03	1996-07-31	Membrane protein involved in zinc ion homeostasis; member of the four-protein IZH family, expression induced by zinc deficiency; deletion reduces sensitivity to elevated zinc and shortens lag phase, overexpression reduces Zap1p activity
-S000031203	CDS					YLR023C		12	187129	185498	C		2011-02-03	1996-07-31	
-S000004014	ORF	Verified	YLR024C	UBR2	putative ubiquitin-protein ligase UBR2	chromosome 12		12	193281	187663	C		2011-02-03	1996-07-31|2011-02-03	Cytoplasmic ubiquitin-protein ligase (E3); component of the Mub1p-Ubr2p-Rad6p ubiquitin ligase complex required for the ubiquitination and degradation of Rpn4p; mediates formation of the ternary complex
-S000032202	CDS					YLR024C		12	193281	187663	C		2011-02-03	1996-07-31|2011-02-03	
-S000004015	ORF	Verified	YLR025W	SNF7	ESCRT-III subunit protein SNF7|VPL5|RNS4|VPS32|DID1	chromosome 12	L000001950	12	194452	195174	W	11.4	2011-02-03	1996-07-31	One of four subunits of the ESCRT-III complex; involved in the sorting of transmembrane proteins into the multivesicular body (MVB) pathway; recruited from the cytoplasm to endosomal membranes; ESCRT-III stands for endosomal sorting complex required for transport III
-S000032371	CDS					YLR025W		12	194452	195174	W		2011-02-03	1996-07-31	
-S000004016	ORF	Verified	YLR026C	SED5	t-SNARE syntaxin	chromosome 12	L000001861	12	196472	195450	C		2011-02-03	1996-07-31	cis-Golgi t-SNARE syntaxin; required for vesicular transport between the ER and the Golgi complex; binds at least 9 SNARE proteins
-S000032400	CDS					YLR026C		12	196472	195450	C		2011-02-03	1996-07-31	
-S000004017	ORF	Verified	YLR027C	AAT2	aspartate transaminase AAT2|ASP5	chromosome 12	L000000131|L000002677	12	198085	196829	C	17	2011-02-03	2003-09-22|1996-07-31	Cytosolic aspartate aminotransferase involved in nitrogen metabolism; localizes to peroxisomes in oleate-grown cells
-S000032507	CDS					YLR027C		12	198085	196829	C		2011-02-03	2003-09-22|1996-07-31	
-S000007497	snoRNA_gene		snR30	SNR30		chromosome 12	L000001968	12	198784	199389	W		2011-02-03	2000-05-19|2007-05-09	H/ACA box small nucleolar RNA (snoRNA); essential gene required for cleavage of 35S primary rRNA transcript to release the precursor to the 18S rRNA
-S000036751	noncoding_exon					snR30		12	198784	199389	W		2011-02-03	2000-05-19|2007-05-09	
-S000004018	ORF	Verified	YLR028C	ADE16	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE16	chromosome 12	L000003305	12	201315	199540	C		2011-02-03	1997-07-30|1996-07-31	Enzyme of 'de novo' purine biosynthesis; contains both 5-aminoimidazole-4-carboxamide ribonucleotide transformylase and inosine monophosphate cyclohydrolase activities; ADE16 has a paralog, ADE17, that arose from the whole genome duplication; ade16 ade17 mutants require adenine and histidine
-S000034542	CDS					YLR028C		12	201315	199540	C		2011-02-03	1997-07-30|1996-07-31	
-S000004019	ORF	Verified	YLR029C	RPL15A	eL15|ribosomal 60S subunit protein L15A|L15e|rp15R|YL10|L15A|L13A|RPL10A	chromosome 12	L000002705|L000001710	12	202590	201976	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L15A; binds to 5.8 S rRNA; homologous to mammalian ribosomal protein L15, no bacterial homolog; RPL15A has a paralog, RPL15B, that arose from the whole genome duplication
-S000034631	CDS					YLR029C		12	202590	201976	C		2011-02-03	1996-07-31	
-S000004020	ORF	Uncharacterized	YLR030W			chromosome 12		12	203290	204081	W		2011-02-03	1996-07-31	Putative protein of unknown function; S288C contains an in-frame stop codon between ORFs YLR030W and YLR031W
-S000034152	CDS					YLR030W		12	203290	204081	W		2011-02-03	1996-07-31	
-S000004021	ORF	Uncharacterized	YLR031W			chromosome 12		12	204225	204785	W		2011-02-03	1996-07-31	Putative protein of unknown function; S288C contains an in-frame stop codon between ORFs YLR030W and YLR031W; YLR031W has a paralog, YMR124W, that arose from the whole genome duplication
-S000034277	CDS					YLR031W		12	204225	204785	W		2011-02-03	1996-07-31	
-S000004022	ORF	Verified	YLR032W	RAD5	DNA helicase RAD5|SNM2|REV2	chromosome 12	L000001559	12	204991	208500	W	22	2011-02-03	1996-07-31	DNA helicase/Ubiquitin ligase; involved in error-free DNA damage tolerance (DDT), replication fork regression during postreplication repair by template switching, error-prone translesion synthesis; promotes synthesis of free and PCNA-bound polyubiquitin chains by Ubc13p-Mms2p; forms nuclear foci upon DNA replication stress; associates with native telomeres, cooperates with homologous recombination in senescent cells; human homolog HLTF can complement yeast null mutant
-S000034393	CDS					YLR032W		12	204991	208500	W		2011-02-03	1996-07-31	
-S000004023	ORF	Verified	YLR033W	RSC58		chromosome 12		12	208761	210269	W		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; RSC functions in transcriptional regulation and elongation, chromosome stability, and establishing sister chromatid cohesion; involved in telomere maintenance
-S000035450	CDS					YLR033W		12	208761	210269	W		2011-02-03	1996-07-31	
-S000004024	ORF	Verified	YLR034C	SMF3	putative divalent metal ion transporter SMF3	chromosome 12		12	211933	210512	C		2011-02-03	1996-07-31|2011-02-03	Putative divalent metal ion transporter involved in iron homeostasis; transcriptionally regulated by metal ions; member of the Nramp family of metal transport proteins; protein abundance increases in response to DNA replication stress
-S000035485	CDS					YLR034C		12	211933	210512	C		2011-02-03	1996-07-31|2011-02-03	
-S000004025	ORF	Verified	YLR035C	MLH2	mismatch repair protein MLH2	chromosome 12		12	214456	212369	C		2011-02-03	1996-07-31	Protein involved in mismatch repair and meiotic recombination; only certain frameshift intermediates are mismatch repair substrates; forms a complex with Mlh1p
-S000035575	CDS					YLR035C		12	214456	212369	C		2011-02-03	1996-07-31	
-S000006524	tRNA_gene		tA(UGC)L			chromosome 12	L000003664	12	214955	214883	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
-S000034887	noncoding_exon					tA(UGC)L		12	214955	214883	C		2011-02-03	2000-05-19	
-S000007065	long_terminal_repeat		YLRCdelta2			chromosome 12		12	215417	215080	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007225	transposable_element_gene		YLR035C-A		gag-pol fusion protein	chromosome 12		12	218907	215440	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); YLR035C-A is part of a mutant retrotransposon
-S000034784	CDS					YLR035C-A		12	218907	215440	C		2011-02-03	1999-07-17	
-S000007066	long_terminal_repeat		YLRCdelta3			chromosome 12		12	221005	220668	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007083	long_terminal_repeat		YLRWdelta4			chromosome 12		12	221006	221266	W		2011-02-03	2000-05-19	Ty1 LTR
-S000004026	ORF	Uncharacterized	YLR036C			chromosome 12		12	222132	221521	C		2011-02-03	1996-07-31	Putative protein predicted to have transmembrane domains; interacts with HSP90 by yeast two-hybrid analysis; YLR036C is not an essential protein
-S000035633	CDS					YLR036C		12	222132	221521	C		2011-02-03	1996-07-31	
-S000178132	ARS		ARS1210			chromosome 12		12	222220	222676			2014-11-18	2014-11-18	Autonomously replicating sequence
-S000004027	ORF	Verified	YLR037C	PAU23	seripauperin PAU23|DAN2	chromosome 12		12	223059	222685	C		2011-02-03	1996-07-31	Cell wall mannoprotein; has similarity to Tir1p, Tir2p, Tir3p, and Tir4p; member of the seripauperin multigene family encoded mainly in subtelomeric regions; expressed under anaerobic conditions, completely repressed during aerobic growth
-S000036588	CDS					YLR037C		12	223059	222685	C		2011-02-03	1996-07-31	
-S000004028	ORF	Verified	YLR038C	COX12	cytochrome c oxidase subunit VIb	chromosome 12	L000000396	12	225172	224921	C		2011-02-03	1996-07-31	Subunit VIb of cytochrome c oxidase; cytochrome c oxidase is also known as respiratory Complex IV and is the terminal member of the mitochondrial inner membrane electron transport chain; required for assembly of cytochrome c oxidase but not required for activity after assembly; phosphorylated; easily released from the intermembrane space, suggesting a loose association with Complex IV
-S000036657	CDS					YLR038C		12	225172	224921	C		2011-02-03	1996-07-31	
-S000004029	ORF	Verified	YLR039C	RIC1		chromosome 12	L000001638	12	228596	225426	C		2011-02-03	1996-07-31	Protein involved in retrograde transport to the cis-Golgi network; forms heterodimer with Rgp1p that acts as a GTP exchange factor for Ypt6p; involved in transcription of rRNA and ribosomal protein genes
-S000036750	CDS					YLR039C		12	228596	225426	C		2011-02-03	1996-07-31	
-S000004031	ORF	Dubious	YLR041W			chromosome 12		12	229377	229697	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YLR040C
-S000030478	CDS					YLR041W		12	229377	229697	W		2011-02-03	1996-07-31	
-S000004030	ORF	Verified	YLR040C	AFB1		chromosome 12		12	229582	228908	C		2011-02-03	1996-07-31	MATalpha-specific a-factor blocker; contributes to mating efficiency under certain conditions; localizes to the cell wall; predicted to be a GPI-attached protein; upregulated by Mcm1p-Alpha1p transcription factor; partially overlaps the dubious ORF YLR041W
-S000030256	CDS					YLR040C		12	229582	228908	C		2011-02-03	1996-07-31	
-S000004032	ORF	Verified	YLR042C			chromosome 12		12	230451	229966	C		2011-02-03	1996-07-31	Cell wall protein of unknown function; localizes to the cytoplasm; deletion improves xylose fermentation in industrially engineered strains; YLR042C is not an essential gene
-S000030545	CDS					YLR042C		12	230451	229966	C		2011-02-03	1996-07-31	
-S000118471	ARS		ARS1211		ARSXII-231	chromosome 12		12	231179	231421			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178133	ARS_consensus_sequence					ARS1211		12	231250	231266	W		2014-11-18	2014-11-18	
-S000004033	ORF	Verified	YLR043C	TRX1	thioredoxin TRX1|LMA1	chromosome 12	L000002357	12	232013	231702	C	-7	2011-02-03	1996-07-31	Cytoplasmic thioredoxin isoenzyme; part of thioredoxin system which protects cells against oxidative and reductive stress; forms LMA1 complex with Pbi2p; acts as a cofactor for Tsa1p; required for ER-Golgi transport and vacuole inheritance; with Trx2p, facilitates mitochondrial import of small Tims Tim9p, Tim10p, Tim13p by maintaining them in reduced form; abundance increases iunder DNA replication stress; TRX1 has a paralog, TRX2, that arose from the whole genome duplication
-S000031467	CDS					YLR043C		12	232013	231702	C		2011-02-03	1996-07-31	
-S000004034	ORF	Verified	YLR044C	PDC1	indolepyruvate decarboxylase 1	chromosome 12	L000001354	12	234081	232390	C	-7	2011-02-03	1996-07-31	Major of three pyruvate decarboxylase isozymes; key enzyme in alcoholic fermentation; decarboxylates pyruvate to acetaldehyde; involved in amino acid catabolism; subject to glucose-, ethanol-, and autoregulation; activated by phosphorylation in response to glucose levels; N-terminally propionylated in vivo
-S000031581	CDS					YLR044C		12	234081	232390	C		2011-02-03	1996-07-31	
-S000004035	ORF	Verified	YLR045C	STU2		chromosome 12	L000003019	12	237703	235037	C		2011-02-03	1996-07-31	Microtubule-associated protein (MAP) of the XMAP215/Dis1 family; regulates microtubule dynamics during spindle orientation and metaphase chromosome alignment; interacts with spindle pole body component Spc72p
-S000032584	CDS					YLR045C		12	237703	235037	C		2011-02-03	1996-07-31	
-S000004036	ORF	Uncharacterized	YLR046C		RLA1	chromosome 12		12	238813	238001	C		2011-02-03	1996-07-31	Putative membrane protein; member of the fungal lipid-translocating exporter (LTE) family of proteins; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance; YLR046C has a paralog, RTA1, that arose from the whole genome duplication
-S000032679	CDS					YLR046C		12	238813	238001	C		2011-02-03	1996-07-31	
-S000004037	ORF	Verified	YLR047C	FRE8	putative ferric-chelate reductase	chromosome 12		12	241407	239347	C		2011-02-03	1996-07-31	Protein with sequence similarity to iron/copper reductases; involved in iron homeostasis; deletion mutant has iron deficiency/accumulation growth defects; expression increased in the absence of copper-responsive transcription factor Mac1p
-S000032758	CDS					YLR047C		12	241407	239347	C		2011-02-03	1996-07-31	
-S000004038	ORF	Verified	YLR048W	RPS0B	uS2|ribosomal 40S subunit protein S0B|S2|S0B|YST2|NAB1B	chromosome 12	L000002908	12	242232	243349	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; RPS0B has a paralog, RPS0A, that arose from the whole genome duplication; required for maturation of 18S rRNA along with Rps0Ap; deletion of either RPS0 gene reduces growth rate, deletion of both genes is lethal; homologous to human ribosomal protein SA and bacterial S2
-S000032917	CDS					YLR048W		12	242232	242321	W		2011-02-03	1996-07-31	
-S000032918	CDS					YLR048W		12	242681	243349	W		2011-02-03	1996-07-31	
-S000032919	intron					YLR048W		12	242322	242680	W		2011-02-03	1996-07-31	
-S000004039	ORF	Uncharacterized	YLR049C			chromosome 12		12	245172	243886	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000034828	CDS					YLR049C		12	245172	243886	C		2011-02-03	1996-07-31	
-S000004040	ORF	Uncharacterized	YLR050C			chromosome 12		12	246072	245587	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YLR050C is not an essential gene
-S000033086	CDS					YLR050C		12	246072	245587	C		2011-02-03	1996-07-31	
-S000004041	ORF	Verified	YLR051C	FCF2		chromosome 12		12	246977	246324	C		2011-02-03	1996-07-31	Nucleolar protein involved in the early steps of 35S rRNA processing; interacts with Faf1p; member of a transcriptionally co-regulated set of genes called the RRB regulon; essential gene
-S000033845	CDS					YLR051C		12	246977	246324	C		2011-02-03	1996-07-31	
-S000004042	ORF	Verified	YLR052W	IES3		chromosome 12		12	247201	247953	W		2011-02-03	1996-07-31	Subunit of the INO80 chromatin remodeling complex
-S000034056	CDS					YLR052W		12	247201	247953	W		2011-02-03	1996-07-31	
-S000004043	ORF	Uncharacterized	YLR053C			chromosome 12		12	248426	248100	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000034893	CDS					YLR053C		12	248426	248100	C		2011-02-03	1996-07-31	
-S000004044	ORF	Verified	YLR054C	OSW2		chromosome 12		12	250978	248717	C		2011-02-03	2003-09-27|1996-07-31	Protein of unknown function reputedly involved in spore wall assembly
-S000035045	CDS					YLR054C		12	250860	248717	C		2011-02-03	2003-09-27|1996-07-31	
-S000035044	CDS					YLR054C		12	250978	250948	C		2011-02-03	2003-09-27	
-S000035046	intron					YLR054C		12	250947	250861	C		2011-02-03	2003-09-27	
-S000004045	ORF	Verified	YLR055C	SPT8	SAGA complex subunit SPT8	chromosome 12	L000002034	12	253080	251272	C	30	2011-02-03	1996-07-31	Subunit of the SAGA transcriptional regulatory complex; not present in SAGA-like complex SLIK/SALSA; required for SAGA-mediated inhibition at some promoters
-S000035199	CDS					YLR055C		12	253080	251272	C		2011-02-03	1996-07-31	
-S000004046	ORF	Verified	YLR056W	ERG3	C-5 sterol desaturase|PSO6|SYR1	chromosome 12	L000000570|L000004043	12	253861	254958	W		2011-02-03	1996-07-31	C-5 sterol desaturase; glycoprotein that catalyzes the introduction of a C-5(6) double bond into episterol, a precursor in ergosterol biosynthesis; transcriptionally down-regulated when ergosterol is in excess; mutants are viable, but cannot grow on non-fermentable carbon sources; substrate of HRD ubiquitin ligase; mutation is functionally complemented by human SC5D
-S000036224	CDS					YLR056W		12	253861	254958	W		2011-02-03	1996-07-31	
-S000004047	ORF	Verified	YLR057W	MNL2	putative mannosidase MNL2	chromosome 12		12	255306	257855	W		2011-02-03	1996-07-31	Putative mannosidase involved in ER-associated protein degradation; localizes to the endoplasmic reticulum; sequence similarity with seven-hairpin glycosidase (GH47) family members, such as Mns1p and Mnl1p, that hydrolyze 1,2-linked alpha-D-mannose residues; non-essential gene
-S000036328	CDS					YLR057W		12	255306	257855	W		2011-02-03	1996-07-31	
-S000004048	ORF	Verified	YLR058C	SHM2	glycine hydroxymethyltransferase SHM2|SHMT2	chromosome 12	L000001882	12	259401	257992	C		2011-02-03	1996-07-31	Cytosolic serine hydroxymethyltransferase; converts serine to glycine plus 5,10 methylenetetrahydrofolate; major isoform involved in generating precursors for purine, pyrimidine, amino acid, and lipid biosynthesis
-S000036381	CDS					YLR058C		12	259401	257992	C		2011-02-03	1996-07-31	
-S000004049	ORF	Verified	YLR059C	REX2	YNT20	chromosome 12	L000003035	12	260547	259738	C		2011-02-03	1996-07-31	3'-5' RNA exonuclease; involved in 3'-end processing of U4 and U5 snRNAs, 5S and 5.8S rRNAs, and RNase P and RNase MRP RNA; localized to mitochondria and null suppresses escape of mtDNA to nucleus in yme1 yme2 mutants; RNase D exonuclease
-S000036443	CDS					YLR059C		12	260547	259738	C		2011-02-03	1996-07-31	
-S000004050	ORF	Verified	YLR060W	FRS1	phenylalanine--tRNA ligase subunit beta	chromosome 12	L000000629	12	260979	262766	W		2011-02-03	1996-07-31	Beta subunit of cytoplasmic phenylalanyl-tRNA synthetase; forms a tetramer with Frs2p to generate active enzyme; able to hydrolyze mis-aminoacylated tRNA-Phe, which could contribute to translational quality control
-S000030011	CDS					YLR060W		12	260979	262766	W		2011-02-03	1996-07-31	
-S000004051	ORF	Verified	YLR061W	RPL22A	eL22|ribosomal 60S subunit protein L22A|L22e|rp4|l1c|YL31|L22A	chromosome 12	L000004460	12	263194	263948	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L22A; required for translation of long 5' UTR of IME1 mRNA and meiotic entry; required for the oxidative stress response, pseudohyphal and invasive growth; homologous to mammalian ribosomal protein L22, no bacterial homolog; RPL22A has a paralog, RPL22B, that arose from the whole genome duplication
-S000030138	CDS					YLR061W		12	263194	263205	W		2011-02-03	1996-07-31	
-S000030139	CDS					YLR061W		12	263595	263948	W		2011-02-03	1996-07-31	
-S000030140	intron					YLR061W		12	263206	263594	W		2011-02-03	1996-07-31	
-S000004052	ORF	Dubious	YLR062C	BUD28		chromosome 12		12	263954	263577	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 98% of ORF overlaps the verified gene RPL22A; diploid mutant displays a weak budding pattern phenotype in a systematic assay
-S000031086	CDS					YLR062C		12	263954	263577	C		2011-02-03	1996-07-31	
-S000004053	ORF	Verified	YLR063W	BMT6	25S rRNA (uracil2843-N3)-methyltransferase	chromosome 12		12	264157	265254	W		2011-02-03	1996-07-31	Methyltransferase required for m3U2843 methylation of the 25S rRNA; S-adenosylmethionine-dependent; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLR063W is not an essential gene
-S000031280	CDS					YLR063W		12	264157	265254	W		2011-02-03	1996-07-31	
-S000004054	ORF	Verified	YLR064W	PER33		chromosome 12		12	265456	266277	W		2011-02-03	1996-07-31	Protein that localizes to the endoplasmic reticulum; also associates with the nuclear pore complex; deletion extends chronological lifespan; highly conserved across species, orthologous to human TMEM33 and paralogous to Pom33p; protein abundance increases in response to DNA replication stress
-S000031356	CDS					YLR064W		12	265456	266277	W		2011-02-03	1996-07-31	
-S000004055	ORF	Verified	YLR065C	ENV10	SND2	chromosome 12		12	266918	266373	C		2011-02-03	1996-07-31	Protein involved in SRP-independent targeting of substrates to the ER; component of an alternative ER targeting pathway that has partial functional redundancy with the GET pathway; preference for substrates with downstream transmembrane domains; interacts with Snd1p, Pho88p/Snd3p, and Sec61p-translocon subunits; can compensate for loss of SRP; role in the late endosome-vacuole interface; putative role in secretory protein quality control
-S000031430	CDS					YLR065C		12	266918	266373	C		2011-02-03	1996-07-31	
-S000004056	ORF	Verified	YLR066W	SPC3	signal peptidase complex subunit SPC3	chromosome 12	L000003542|S000029502|L000002875	12	267169	267723	W		2011-02-03	1996-07-31	Subunit of signal peptidase complex; complex catalyzes cleavage of N-terminal signal sequences of proteins targeted to the secretory pathway; homologous to mammalian SPC22/23; other members of the complex are Spc1p, Spc2p, and Sec11p
-S000032483	CDS					YLR066W		12	267169	267723	W		2011-02-03	1996-07-31	
-S000004057	ORF	Verified	YLR067C	PET309		chromosome 12	L000001401	12	270710	267813	C		2011-02-03	1996-07-31	Specific translational activator for the COX1 mRNA; binds to the COX1 mRNA; also influences stability of intron-containing COX1 primary transcripts; localizes to the mitochondrial inner membrane; contains 12 pentatricopeptide repeats (PPRs)
-S000032544	CDS					YLR067C		12	270710	267813	C		2011-02-03	1996-07-31	
-S000004058	ORF	Verified	YLR068W	FYV7		chromosome 12		12	271008	271463	W		2011-02-03	1996-07-31	Essential protein required for maturation of 18S rRNA; required for survival upon exposure to K1 killer toxin
-S000032669	CDS					YLR068W		12	271008	271463	W		2011-02-03	1996-07-31	
-S000004059	ORF	Verified	YLR069C	MEF1		chromosome 12	L000001057	12	273915	271630	C		2011-02-03	1996-07-31	Mitochondrial elongation factor involved in translational elongation
-S000033337	CDS					YLR069C		12	273915	271630	C		2011-02-03	1996-07-31	
-S000004060	ORF	Verified	YLR070C	XYL2	D-xylulose reductase XYL2	chromosome 12		12	275211	274141	C		2011-02-03	1996-07-31	Xylitol dehydrogenase; converts xylitol to D-xylulose; expression induced by xylose, even though this pentose sugar is not well utilized by S. cerevisiae; null mutant has cell wall defect
-S000033430	CDS					YLR070C		12	275211	274141	C		2011-02-03	1996-07-31	
-S000004061	ORF	Verified	YLR071C	RGR1	MED14	chromosome 12	L000001629	12	278626	275378	C	70	2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for glucose repression, HO repression, RME1 repression and sporulation
-S000034340	CDS					YLR071C		12	278626	275378	C		2011-02-03	1996-07-31	
-S000004062	ORF	Verified	YLR072W	LAM6	LTC1	chromosome 12		12	278862	280943	W		2011-02-03	1996-07-31	Sterol transporter that transfers sterols between membranes; may regulate and coordinate formation of contact sites between organelles; localizes to ER-mitochondrial contact sites in a Tom70p- and Tom71p-dependent manner; mitochondrial localization requires GRAM domain; also localizes to ER-vacuole contact sites, in a Vac8p-dependent manner; has GRAM and StART-like (VASt) domains; one of six StART-like domain-containing proteins in yeast; conserved across eukaryotes
-S000034470	CDS					YLR072W		12	278862	280943	W		2011-02-03	1996-07-31	
-S000004063	ORF	Verified	YLR073C	RFU1		chromosome 12		12	281621	281019	C		2011-02-03	1996-07-31	Protein that inhibits Doa4p deubiquitinating activity; contributes to ubiquitin homeostasis by regulating the conversion of free ubiquitin chains to ubiquitin monomers by Doa4p; GFP-fusion protein localizes to endosomes
-S000034520	CDS					YLR073C		12	281621	281019	C		2011-02-03	1996-07-31	
-S000004064	ORF	Verified	YLR074C	BUD20		chromosome 12		12	282456	281956	C		2011-02-03	1996-07-31	C2H2-type zinc finger protein required for ribosome assembly; shuttling factor which associates with pre-60S particles in the nucleus, accompanying them to the cytoplasm; cytoplasmic dissociation of Bud20p requires Drg1p; N-terminus harbors a nuclear localization signal (NLS) and a nuclear export signal (NES); cytoplasmic Bud20p is reimported by Kap123-dependent pathway; involved in bud-site selection; diploid mutants display a random budding pattern; similar to human ZNF593
-S000035544	CDS					YLR074C		12	282456	281956	C		2011-02-03	1996-07-31	
-S000004065	ORF	Verified	YLR075W	RPL10	uL16|ribosomal 60S subunit protein L10|L16|L10|QSR1|GRC5	chromosome 12	L000000727	12	282927	283592	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L10; homologous to mammalian ribosomal protein L10 and bacterial L16; responsible for joining the 40S and 60S subunits; regulates translation initiation; similar to members of the QM gene family; protein abundance increases under DNA replication stress; mutations in human homolog implicated in T-cell acute lymphoblastic leukemia and also autism spectrum disorders (ASD); human RPL10 can complement yeast null mutant
-S000035684	CDS					YLR075W		12	282927	283592	W		2011-02-03	1996-07-31	
-S000004066	ORF	Dubious	YLR076C			chromosome 12		12	283607	283185	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the essential gene RPL10 which encodes the ribosomal protein L10
-S000035729	CDS					YLR076C		12	283607	283185	C		2011-02-03	1996-07-31	
-S000004067	ORF	Verified	YLR077W	FMP25	BCA1	chromosome 12		12	283872	285623	W		2011-02-03	1996-07-31	Protein required for assembly of respiratory complex III; mitochondrial inner membrane protein; required for an early step in assembly of respiratory complex III (cytochrome bc1 complex); mRNA is targeted to mitochondria
-S000036693	CDS					YLR077W		12	283872	285623	W		2011-02-03	1996-07-31	
-S000004068	ORF	Verified	YLR078C	BOS1	SEC32	chromosome 12	L000000192	12	286559	285736	C		2011-02-03	1996-07-31	v-SNARE (vesicle specific SNAP receptor); localized to the endoplasmic reticulum membrane and necessary for vesicular transport from the ER to the Golgi; required for efficient nuclear fusion during mating
-S000036710	CDS					YLR078C		12	286467	285736	C		2011-02-03	1996-07-31	
-S000036709	CDS					YLR078C		12	286559	286557	C		2011-02-03	1996-07-31	
-S000036711	intron					YLR078C		12	286556	286468	C		2011-02-03	1996-07-31	
-S000004069	ORF	Verified	YLR079W	SIC1	BYC1|cyclin-dependent protein serine/threonine kinase inhibiting protein SIC1|SDB25	chromosome 12	L000001886|L000001822	12	286820	287674	W		2011-02-03	1996-07-31	Cyclin-dependent kinase inhibitor (CKI); inhibitor of Cdc28-Clb kinase complexes that controls G1/S phase transition, preventing premature S phase and ensuring genomic integrity; phosphorylated by Clb5/6-Cdk1 and Cln1/2-Cdk1 kinase which regulate timing of Sic1p degradation; phosphorylation targets Sic1p for SCF(CDC4)-dependent turnover; functional homolog of mammalian Kip1
-S000036800	CDS					YLR079W		12	286820	287674	W		2011-02-03	1996-07-31	
-S000004070	ORF	Verified	YLR080W	EMP46		chromosome 12		12	287916	289250	W		2011-02-03	1996-07-31	Integral membrane component of ER-derived COPII-coated vesicles; functions in ER to Golgi transport; EMP46 has a paralog, EMP47, that arose from the whole genome duplication
-S000037384	CDS					YLR080W		12	287916	289250	W		2011-02-03	1996-07-31	
-S000118472	ARS		ARS1212		ARSXII-289	chromosome 12		12	289315	289444			2014-11-18	2014-11-18|2006-08-30	Late-firing chromosomal replication origin
-S000178134	ARS_consensus_sequence					ARS1212		12	289422	289406	C		2014-11-18	2014-11-18	
-S000004071	ORF	Verified	YLR081W	GAL2	galactose permease GAL2	chromosome 12	L000000659	12	290212	291936	W	44	2011-02-03	1996-07-31	Galactose permease; required for utilization of galactose; also able to transport glucose
-S000037506	CDS					YLR081W		12	290212	291936	W		2011-02-03	1996-07-31	
-S000004072	ORF	Verified	YLR082C	SRL2		chromosome 12	L000004670	12	293572	292394	C		2011-02-03	1996-07-31	Protein of unknown function; overexpression suppresses the lethality caused by a rad53 null mutation
-S000037548	CDS					YLR082C		12	293572	292394	C		2011-02-03	1996-07-31	
-S000004073	ORF	Verified	YLR083C	EMP70	TMN1|p24a	chromosome 12	L000000550	12	296094	294091	C		2011-02-03	1996-07-31	Protein with a role in cellular adhesion and filamentous growth; also endosome-to-vacuole sorting; similar to Tmn3p; member of Transmembrane Nine family of proteins with 9 transmembrane segments; EMP70 has a paralog, TMN2, that arose from the whole genome duplication
-S000030358	CDS					YLR083C		12	296094	294091	C		2011-02-03	1996-07-31	
-S000004074	ORF	Verified	YLR084C	RAX2		chromosome 12		12	300251	296589	C		2011-02-03	1996-07-31	N-glycosylated protein; involved in the maintenance of bud site selection during bipolar budding; localization requires Rax1p; RAX2 mRNA stability is regulated by Mpt5p
-S000030482	CDS					YLR084C		12	300251	296589	C		2011-02-03	1996-07-31	
-S000004075	ORF	Verified	YLR085C	ARP6		chromosome 12	L000003435	12	301989	300673	C		2011-02-03	1996-07-31	Actin-related protein that binds nucleosomes; a component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A
-S000030596	CDS					YLR085C		12	301989	300673	C		2011-02-03	1996-07-31	
-S000004076	ORF	Verified	YLR086W	SMC4	condensin subunit SMC4	chromosome 12	L000003472	12	302243	306499	W		2011-02-03	1996-07-31	Subunit of the condensin complex; condensin reorganizes chromosomes during both mitosis and meiosis; forms a subcomplex with Smc2p that has ATP-hydrolyzing and DNA-binding activity, but other condensin subunits are required for chromatin binding; required for tRNA gene clustering at the nucleolus; potential Cdc28p substrate
-S000031513	CDS					YLR086W		12	302243	306499	W		2011-02-03	1996-07-31	
-S000004077	ORF	Verified	YLR087C	CSF1		chromosome 12		12	315731	306855	C		2011-02-03	1996-07-31	Protein required for fermentation at low temperature; plays a role in the maturation of secretory proteins; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000031547	CDS					YLR087C		12	315731	306855	C		2011-02-03	1996-07-31	
-S000004078	ORF	Verified	YLR088W	GAA1	GPI-anchor transamidase subunit GAA1|END2	chromosome 12	L000000557	12	316107	317951	W		2011-02-03	1996-07-31	Subunit of the GPI:protein transamidase complex; removes the GPI-anchoring signal and attaches GPI (glycosylphosphatidylinositol) to proteins in the ER; human homolog GPAA1 can complement growth defects of yeast thermosensitive mutant at restrictive temperature
-S000031702	CDS					YLR088W		12	316107	317951	W		2011-02-03	1996-07-31	
-S000004079	ORF	Verified	YLR089C	ALT1	alanine transaminase ALT1	chromosome 12		12	320015	318237	C		2011-02-03	1996-07-31	Alanine transaminase (glutamic pyruvic transaminase); involved in alanine biosynthesis and catabolism; TOR1-independent role in determining chronological lifespan; expression is induced in the presence of alanine; repression is mediated by Nrg1p; ALT1 has a paralog, ALT2, that arose from the whole genome duplication; Alt2p is catalytically inactive
-S000031709	CDS					YLR089C		12	320015	318237	C		2011-02-03	1996-07-31	
-S000004080	ORF	Verified	YLR090W	XDJ1		chromosome 12	L000002487	12	320701	322080	W		2011-02-03	1996-07-31	Chaperone with a role in facilitating mitochondrial protein import; ascomycete-specific member of the DnaJ-like family, closely related to Ydj1p; predicted to be C-terminally prenylated; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000032708	CDS					YLR090W		12	320701	322080	W		2011-02-03	1996-07-31	
-S000004081	ORF	Verified	YLR091W	GEP5	RRG5	chromosome 12		12	322297	323178	W		2011-02-03	1996-07-31	Protein of unknown function; required for mitochondrial genome maintenance; detected in highly purified mitochondria in high-throughput studies; null mutant has decreased levels of cardiolipin and phosphatidylethanolamine
-S000032790	CDS					YLR091W		12	322297	323178	W		2011-02-03	1996-07-31	
-S000004082	ORF	Verified	YLR092W	SUL2	sulfate permease	chromosome 12	L000003473	12	323544	326225	W		2011-02-03	1996-07-31	High affinity sulfate permease; sulfate uptake is mediated by specific sulfate transporters Sul1p and Sul2p, which control the concentration of endogenous activated sulfate intermediates
-S000033523	CDS					YLR092W		12	323544	326225	W		2011-02-03	1996-07-31	
-S000004083	ORF	Verified	YLR093C	NYV1	MAM2	chromosome 12	L000004690	12	327415	326513	C		2011-02-03	2000-07-14|1996-07-31	v-SNARE component of the vacuolar SNARE complex; involved in vesicle fusion; inhibits ATP-dependent Ca(2+) transport activity of Pmc1p in the vacuolar membrane
-S000033559	CDS					YLR093C		12	327258	326513	C		2011-02-03	2000-07-14|1996-07-31	
-S000033558	CDS					YLR093C		12	327415	327400	C		2011-02-03	2000-07-14	
-S000033560	intron					YLR093C		12	327399	327259	C		2011-02-03	2000-07-14	
-S000004084	ORF	Verified	YLR094C	GIS3		chromosome 12	L000004863	12	329238	327730	C		2011-02-03	1996-07-31	Protein of unknown function
-S000033649	CDS					YLR094C		12	329238	327730	C		2011-02-03	1996-07-31	
-S000004085	ORF	Verified	YLR095C	IOC2		chromosome 12		12	332115	329677	C		2011-02-03	1996-07-31	Subunit of the Isw1b complex; exhibits nucleosome-stimulated ATPase activity and acts within coding regions to coordinate transcription elongation with termination and processing; contains a PHD finger motif; other complex members are Isw1p and Ioc4p
-S000033765	CDS					YLR095C		12	332115	329677	C		2011-02-03	1996-07-31	
-S000004086	ORF	Verified	YLR096W	KIN2	serine/threonine protein kinase KIN2	chromosome 12	L000000902	12	332590	336033	W		2011-02-03	1996-07-31	Serine/threonine protein kinase involved in regulation of exocytosis; localizes to the cytoplasmic face of the plasma membrane; KIN2 has a paralog, KIN1, that arose from the whole genome duplication
-S000034747	CDS					YLR096W		12	332590	336033	W		2011-02-03	1996-07-31	
-S000004087	ORF	Verified	YLR097C	HRT3	SCF ubiquitin ligase complex subunit HRT3	chromosome 12		12	337265	336231	C		2011-02-03	1996-07-31	Putative SCF-ubiquitin ligase F-box protein; based on both genetic and physical interactions and sequence similarity; identified in association with Cdc53p, Skp1p and Ubi4 in large and small-scale studies
-S000034800	CDS					YLR097C		12	337265	336231	C		2011-02-03	1996-07-31	
-S000004088	ORF	Verified	YLR098C	CHA4	SIL3|SIL2	chromosome 12	L000002854	12	339473	337527	C		2011-02-03	1996-07-31	DNA binding transcriptional activator; mediates serine/threonine activation of the catabolic L-serine (L-threonine) deaminase (CHA1); Zinc-finger protein with Zn[2]-Cys[6] fungal-type binuclear cluster domain
-S000034932	CDS					YLR098C		12	339473	337527	C		2011-02-03	1996-07-31	
-S000004089	ORF	Verified	YLR099C	ICT1	lysophosphatidic acid acyltransferase ICT1	chromosome 12		12	340928	339744	C		2011-02-03	1996-07-31	Lysophosphatidic acid acyltransferase; responsible for enhanced phospholipid synthesis during organic solvent stress; null displays increased sensitivity to Calcofluor white; highly expressed during organic solvent stress; ICT1 has a paralog, ECM18, that arose from the whole genome duplication; human ABHD5 can complement ict1 null mutant
-S000035852	CDS					YLR099C		12	340928	339744	C		2011-02-03	1996-07-31	
-S000007618	ORF	Verified	YLR099W-A	MIM2		chromosome 12		12	341325	341588	W		2011-02-03	2001-02-26	Mitochondrial protein required for outer membrane protein import; involved in import of the subset of proteins with multiple alpha-helical transmembrane segments, including Ugo1p, Tom20p, and Fzo1p; component of a large protein complex in the outer membrane that includes Mim1p; not essential in W303 strain background
-S000037216	CDS					YLR099W-A		12	341325	341588	W		2011-02-03	2001-02-26	
-S000004090	ORF	Verified	YLR100W	ERG27	3-keto-steroid reductase	chromosome 12		12	341810	342853	W		2011-02-03	1996-07-31	3-keto sterol reductase; catalyzes the last of three steps required to remove two C-4 methyl groups from an intermediate in ergosterol biosynthesis; mutants are sterol auxotrophs; mutation is functionally complemented by human HSD17B7
-S000033168	CDS					YLR100W		12	341810	342853	W		2011-02-03	1996-07-31	
-S000004091	ORF	Dubious	YLR101C			chromosome 12		12	342961	342566	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified, essential ORF ERG27/YLR100W
-S000033199	CDS					YLR101C		12	342961	342566	C		2011-02-03	1996-07-31	
-S000178135	ARS		ARS1212.5			chromosome 12		12	343577	344032			2014-11-18	2014-11-18	Strong autonomously replicating sequence
-S000178136	ARS_consensus_sequence					ARS1212.5		12	343855	343871	W		2014-11-18	2014-11-18	
-S000004092	ORF	Verified	YLR102C	APC9	anaphase promoting complex subunit 9	chromosome 12	L000004321	12	343767	342970	C		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition
-S000033261	CDS					YLR102C		12	343767	342970	C		2011-02-03	1996-07-31	
-S000004093	ORF	Verified	YLR103C	CDC45	DNA replication initiation factor CDC45|SLD4	chromosome 12	L000003380	12	345941	343989	C		2011-02-03	1996-07-31	DNA replication initiation factor; recruited to MCM pre-RC complexes at replication origins; promotes release of MCM from Mcm10p, recruits elongation machinery; binds tightly to ssDNA, which disrupts interaction with the MCM helicase and stalls it during replication stress; mutants in human homolog may cause velocardiofacial and DiGeorge syndromes
-S000033319	CDS					YLR103C		12	345941	343989	C		2011-02-03	1996-07-31	
-S000004094	ORF	Uncharacterized	YLR104W	LCL2		chromosome 12		12	346585	346980	W		2011-02-03	1996-07-31	Putative protein of unknown function; mutant is deficient in cell wall mannosylphosphate and has long chronological lifespan; genetic interactions suggest a role in ER-associated protein degradation (ERAD); SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
-S000034290	CDS					YLR104W		12	346585	346980	W		2011-02-03	1996-07-31	
-S000004095	ORF	Verified	YLR105C	SEN2	tRNA splicing endonuclease subunit SEN2	chromosome 12	L000001863	12	348180	347047	C		2011-02-03	1996-07-31	Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease (Sen complex) is composed of Sen2p, Sen15p, Sen34p, and Sen54p; Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface; Sen2p contains the active site for tRNA 5' splice site cleavage and has similarity to Sen34p and to Archaeal tRNA splicing endonuclease;
-S000034355	CDS					YLR105C		12	348180	347047	C		2011-02-03	1996-07-31	
-S000007313	snoRNA_gene		snR79	SNR79	Z9	chromosome 12	L000004807	12	348510	348427	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position C1007
-S000031838	noncoding_exon					snR79		12	348510	348427	C		2011-02-03	2000-05-19	
-S000004096	ORF	Verified	YLR106C	MDN1	AAA family ATPase midasin|REA1	chromosome 12	S000028419	12	363738	349006	C		2011-02-03	1996-07-31	Huge dynein-related AAA-type ATPase (midasin); forms extended pre-60S particle with the Rix1 complex (Rix1p-Ipi1p-Ipi3p); acts in removal of ribosomal biogenesis factors at successive steps of pre-60S assembly and export from nucleus
-S000035344	CDS					YLR106C		12	363738	349006	C		2011-02-03	1996-07-31	
-S000004097	ORF	Verified	YLR107W	REX3	RNA exonuclease	chromosome 12		12	364116	365330	W		2011-02-03	1996-07-31	RNA exonuclease; required for maturation of the RNA component of RNase MRP; functions redundantly with Rnh70p and Rex2p in processing of U5 snRNA and RNase P RNA; member of RNase D family of exonucleases
-S000035537	CDS					YLR107W		12	364116	365330	W		2011-02-03	1996-07-31	
-S000007067	long_terminal_repeat		YLRCdelta5			chromosome 12		12	366144	365810	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006494	snRNA_gene		snR6	SNR6	U6	chromosome 12	L000001961	12	366235	366346	W		2011-02-03	2000-05-19	U6 spliceosomal RNA (U6 snRNA); mediates catalysis of pre-mRNA splicing by the spliceosome; interacts with U4; homology to U6 snRNA, interacts with snr14
-S000034320	noncoding_exon					snR6		12	366235	366346	W		2011-02-03	2000-05-19	
-S000004098	ORF	Verified	YLR108C			chromosome 12		12	368124	366667	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YLR108C is not an esssential gene; protein abundance increases in response to DNA replication stress; YLR108C has a paralog, YDR132C, that arose from the whole genome duplication
-S000035581	CDS					YLR108C		12	368124	366667	C		2011-02-03	1996-07-31	
-S000004099	ORF	Verified	YLR109W	AHP1	thioredoxin peroxidase AHP1|cTPxIII	chromosome 12	S000007480	12	368781	369311	W		2011-02-03	1996-07-31	Thiol-specific peroxiredoxin; reduces hydroperoxides to protect against oxidative damage; function in vivo requires covalent conjugation to Urm1p
-S000036533	CDS					YLR109W		12	368781	369311	W		2011-02-03	1996-07-31	
-S000004100	ORF	Verified	YLR110C	CCW12		chromosome 12		12	370098	369697	C		2011-02-03	1996-07-31	Cell wall mannoprotein; plays a role in maintenance of newly synthesized areas of cell wall; localizes to periphery of small buds, septum region of larger buds, and shmoo tip; CCW12 has a paralog, YDR134C, that arose from the whole genome duplication
-S000037291	CDS					YLR110C		12	370098	369697	C		2011-02-03	1996-07-31	
-S000004101	ORF	Dubious	YLR111W			chromosome 12		12	370391	370723	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037464	CDS					YLR111W		12	370391	370723	W		2011-02-03	1996-07-31	
-S000004102	ORF	Dubious	YLR112W			chromosome 12		12	370791	371210	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030153	CDS					YLR112W		12	370791	371210	W		2011-02-03	1996-07-31	
-S000004103	ORF	Verified	YLR113W	HOG1	mitogen-activated protein kinase HOG1|SSK3	chromosome 12	L000000797	12	371620	372927	W		2011-02-03	1996-07-31	Mitogen-activated protein kinase involved in osmoregulation; controls global reallocation of RNAPII during osmotic shock; mediates recruitment/activation of RNAPII at Hot1p-dependent promoters; binds calmodulin; stimulates antisense transcription to activate CDC28; defines novel S-phase checkpoint with Mrc1p that prevent replication/transcription conflicts; nuclear form represses pseudohyphal growth; autophosphorylates; protein abundance increases under DNA replication stress
-S000030351	CDS					YLR113W		12	371620	372927	W		2011-02-03	1996-07-31	
-S000118473	ARS		ARS1213		ARSXII-373	chromosome 12		12	373254	373332			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000007095	long_terminal_repeat		YLRWsigma2			chromosome 12		12	373999	374338	W		2011-02-03	2000-05-19	Ty3 LTR
-S000006704	tRNA_gene		tR(ACG)L			chromosome 12	L000003646	12	374355	374427	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000030443	noncoding_exon					tR(ACG)L		12	374355	374427	W		2011-02-03	2000-05-19	
-S000004104	ORF	Verified	YLR114C	AVL9		chromosome 12	S000029049|S000029007	12	377238	374944	C		2011-02-03	1996-07-31	Conserved protein involved in exocytic transport from the Golgi; mutation is synthetically lethal with apl2 vps1 double mutation; member of a protein superfamily with orthologs in diverse organisms; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000030429	CDS					YLR114C		12	377238	374944	C		2011-02-03	1996-07-31	
-S000004105	ORF	Verified	YLR115W	CFT2	cleavage polyadenylation factor subunit CFT2|YDH1	chromosome 12	L000003599	12	377985	380564	W		2011-02-03	1996-07-31	Subunit of the mRNA cleavage and polyadenlylation factor (CPF); required for pre-mRNA cleavage, polyadenylation and poly(A) site recognition, 43% similarity with the mammalian CPSF-100 protein.
-S000031398	CDS					YLR115W		12	377985	380564	W		2011-02-03	1996-07-31	
-S000004106	ORF	Verified	YLR116W	MSL5	mRNA splicing protein MSL5|BBP	chromosome 12	L000004109	12	380822	382252	W		2011-02-03	1996-07-31	Component of commitment complex; which defines first step in splicing pathway; essential protein that interacts with Mud2p and Prp40p, forming a bridge between the intron ends; also involved in nuclear retention of pre-mRNA; relocalizes to the cytosol in response to hypoxia
-S000031525	CDS					YLR116W		12	380822	382252	W		2011-02-03	1996-07-31	
-S000004107	ORF	Verified	YLR117C	CLF1	NTC77|SYF3	chromosome 12	L000004628	12	384534	382471	C		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; homolog of Drosophila crooked neck protein; interacts with U1 snRNP proteins
-S000031606	CDS					YLR117C		12	384534	382471	C		2011-02-03	1996-07-31	
-S000130182	ARS		ARS1214			chromosome 12		12	384534	384725			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000004108	ORF	Verified	YLR118C		palmitoyl-(protein) hydrolase|APT1	chromosome 12		12	385408	384725	C		2011-02-03	1996-07-31	Acyl-protein thioesterase responsible for depalmitoylation of Gpa1p; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and nucleus and is induced in response to the DNA-damaging agent MMS
-S000032586	CDS					YLR118C		12	385408	384725	C		2011-02-03	1996-07-31	
-S000004109	ORF	Verified	YLR119W	SRN2	ESCRT-I subunit protein SRN2|VPL16|VPS37|SRN10	chromosome 12	L000003103	12	385534	386175	W		2011-02-03	1996-07-31	Component of the ESCRT-I complex; ESCRT-I is involved in ubiquitin-dependent sorting of proteins into the endosome; suppressor of rna1-1 mutation; may be involved in RNA export from nucleus
-S000032725	CDS					YLR119W		12	385534	386175	W		2011-02-03	1996-07-31	
-S000004110	ORF	Verified	YLR120C	YPS1	aspartyl protease|YAP3	chromosome 12	L000002491	12	388220	386511	C		2011-02-03	1996-07-31	Aspartic protease; hyperglycosylated member of the yapsin family of proteases, attached to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor; involved in nutrient limitation-induced cleavage of the extracellular inhibitory domain of signaling mucin Msb2p, resulting in activation of the filamentous growth MAPK pathway; involved with other yapsins in the cell wall integrity response; role in KEX2-independent processing of the alpha factor precursor
-S000032796	CDS					YLR120C		12	388220	386511	C		2011-02-03	1996-07-31	
-S000028674	ORF	Dubious	YLR120W-A			chromosome 12		12	388672	388773	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YLR121C
-S000032521	CDS					YLR120W-A		12	388672	388773	W		2011-02-03	2003-07-29	
-S000004111	ORF	Verified	YLR121C	YPS3	aspartyl protease|YPS4	chromosome 12	L000004383	12	390270	388744	C		2011-02-03	1996-07-31	Aspartic protease; member of the yapsin family of proteases involved in cell wall growth and maintenance; attached to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor
-S000032903	CDS					YLR121C		12	390270	388744	C		2011-02-03	1996-07-31	
-S000004112	ORF	Dubious	YLR122C			chromosome 12		12	391331	390954	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR123C
-S000033010	CDS					YLR122C		12	391331	390954	C		2011-02-03	1996-07-31	
-S000004113	ORF	Dubious	YLR123C			chromosome 12		12	391407	391078	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR122C; contains characteristic aminoacyl-tRNA motif
-S000033100	CDS					YLR123C		12	391407	391078	C		2011-02-03	1996-07-31	
-S000004114	ORF	Dubious	YLR124W			chromosome 12		12	391600	391944	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033902	CDS					YLR124W		12	391600	391944	W		2011-02-03	1996-07-31	
-S000004115	ORF	Uncharacterized	YLR125W			chromosome 12		12	393484	393894	W		2011-02-03	1996-07-31	Putative protein of unknown function; mutant has decreased Ty3 transposition; YLR125W is not an essential gene
-S000034058	CDS					YLR125W		12	393484	393894	W		2011-02-03	1996-07-31	
-S000004116	ORF	Verified	YLR126C		putative amidotransferase	chromosome 12		12	395520	394765	C		2011-02-03	1996-07-31	Putative glutamine amidotransferase; has Aft1p-binding motif in the promoter; may be involved in copper and iron homeostasis; YLR126C is not an essential protein; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
-S000034899	CDS					YLR126C		12	395520	394765	C		2011-02-03	1996-07-31	
-S000004117	ORF	Verified	YLR127C	APC2	anaphase promoting complex subunit 2|TID2|RSI1	chromosome 12	L000003970|L000004348	12	398319	395758	C		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; component of the catalytic core of the APC/C; has similarity to cullin Cdc53p
-S000035048	CDS					YLR127C		12	398319	395758	C		2011-02-03	1996-07-31	
-S000004118	ORF	Verified	YLR128W	DCN1	NEDD8 ligase DCN1	chromosome 12		12	398530	399433	W		2011-02-03	1996-07-31	Scaffold-type E3 ligase; required for cullin neddylation and ubiquitin ligase activation; contains a ubiquitin-binding domain (UBA) for ubiquitin and Nedd8 (Rub1p) interaction and a PONY domain involved in cullin binding and neddylation
-S000035287	CDS					YLR128W		12	398530	398532	W		2011-02-03	1996-07-31	
-S000035288	CDS					YLR128W		12	398627	399433	W		2011-02-03	1996-07-31	
-S000035289	intron					YLR128W		12	398533	398626	W		2011-02-03	1996-07-31	
-S000004119	ORF	Verified	YLR129W	DIP2	snoRNA-binding rRNA-processing protein DIP2|UTP12	chromosome 12	L000003088	12	399657	402488	W		2011-02-03	1996-07-31	Nucleolar protein; specifically associated with the U3 snoRNA, part of the large ribonucleoprotein complex known as the small subunit (SSU) processome, required for 18S rRNA biogenesis, part of the active pre-rRNA processing complex
-S000036230	CDS					YLR129W		12	399657	402488	W		2011-02-03	1996-07-31	
-S000004120	ORF	Verified	YLR130C	ZRT2	low-affinity Zn(2+) transporter ZRT2	chromosome 12	L000004167	12	404062	402794	C		2011-02-03	1996-07-31	Low-affinity zinc transporter of the plasma membrane; transcription is induced under low-zinc conditions by the Zap1p transcription factor
-S000037080	CDS					YLR130C		12	404062	402794	C		2011-02-03	1996-07-31	
-S000004121	ORF	Verified	YLR131C	ACE2	DNA-binding transcription factor ACE2	chromosome 12	L000000020	12	406822	404510	C		2011-02-03	1996-07-31	Transcription factor required for septum destruction after cytokinesis; phosphorylation by Cbk1p blocks nuclear exit during M/G1 transition, causing localization to daughter cell nuclei, and also increases Ace2p activity; phosphorylation by Cdc28p and Pho85p prevents nuclear import during cell cycle phases other than cytokinesis; part of RAM network that regulates cellular polarity and morphogenesis; ACE2 has a paralog, SWI5, that arose from the whole genome duplication
-S000037197	CDS					YLR131C		12	406822	404510	C		2011-02-03	1996-07-31	
-S000004122	ORF	Verified	YLR132C	USB1	phosphoric diester hydrolase	chromosome 12		12	408155	407283	C		2011-02-03	1996-07-31	Putative poly(U)-specific 3'-to-5' RNA exonuclease; involved in 3'-end processing of U6 snRNA removing uridines and generating a terminal 2′,3′ cyclic phosphate; essential protein that localizes to the nucleus and mitochondria; overexpression suppresses the respiratory defects of oxa1 and mtf2 mutants; homolog of S.pombe gene, mpn1 and human gene, hUSB1; mutations in hUSB1 are associated with a rare genodermatosis, poikiloderma with neutropenia (OMIM 604173)
-S000037305	CDS					YLR132C		12	408155	407283	C		2011-02-03	1996-07-31	
-S000004123	ORF	Verified	YLR133W	CKI1	bifunctional choline kinase/ethanolamine kinase CKI1	chromosome 12	L000000346	12	408445	410193	W		2011-02-03	1996-07-31	Choline kinase; catalyzes the first step in phosphatidylcholine synthesis via the CDP-choline (Kennedy pathway); exhibits some ethanolamine kinase activity contributing to phosphatidylethanolamine synthesis via the CDP-ethanolamine pathway; CKI1 has a paralog, EKI1, that arose from the whole genome duplication
-S000030014	CDS					YLR133W		12	408445	410193	W		2011-02-03	1996-07-31	
-S000004124	ORF	Verified	YLR134W	PDC5	indolepyruvate decarboxylase 5	chromosome 12	L000001356	12	410723	412414	W		2011-02-03	1996-07-31	Minor isoform of pyruvate decarboxylase; key enzyme in alcoholic fermentation, decarboxylates pyruvate to acetaldehyde, regulation is glucose- and ethanol-dependent, repressed by thiamine, involved in amino acid catabolism
-S000030184	CDS					YLR134W		12	410723	412414	W		2011-02-03	1996-07-31	
-S000118474	ARS		ARS1215		ARSXII-413	chromosome 12		12	412686	412893			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000004125	ORF	Verified	YLR135W	SLX4		chromosome 12		12	413281	415527	W		2011-02-03	1996-07-31	Endonuclease involved in processing DNA; acts during recombination, repair; promotes template switching during break-induced replication (BIR), causing non-reciprocal translocations (NRTs); cleaves branched structures in complex with Slx1p; involved in interstrand cross-link repair, Rad1p/Rad10p-dependent removal of 3'-nonhomologous tails during DSBR via single-strand annealing; relative distribution to nuclear foci increases upon DNA replication stress; FANCP-related factor
-S000031127	CDS					YLR135W		12	413281	415527	W		2011-02-03	1996-07-31	
-S000004126	ORF	Verified	YLR136C	TIS11	CTH2	chromosome 12	L000002895	12	416658	415801	C		2011-02-03	1996-07-31	mRNA-binding protein expressed during iron starvation; binds to a sequence element in the 3'-untranslated regions of specific mRNAs to mediate their degradation; involved in iron homeostasis; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; TIS11 has a paralog, CTH1, that arose from the whole genome duplication
-S000031183	CDS					YLR136C		12	416658	415801	C		2011-02-03	1996-07-31	
-S000004127	ORF	Verified	YLR137W	RKM5	S-adenosylmethionine-dependent methyltransferase	chromosome 12		12	417006	418109	W		2011-02-03	1996-07-31	Protein lysine methyltransferase; monomethylates Lys-46 of the ribosomal large subunit Rpl1a/Rpl1b; member of the seven beta-strand methyltransferase superfamily; orthologs only found among fungal species
-S000031387	CDS					YLR137W		12	417006	418109	W		2011-02-03	1996-07-31	
-S000004128	ORF	Verified	YLR138W	NHA1		chromosome 12	L000004113	12	418437	421394	W		2011-02-03	1996-07-31	Na+/H+ antiporter; involved in sodium and potassium efflux through the plasma membrane; required for alkali cation tolerance at acidic pH
-S000032374	CDS					YLR138W		12	418437	421394	W		2011-02-03	1996-07-31	
-S000004129	ORF	Verified	YLR139C	SLS1		chromosome 12	L000002656	12	423473	421542	C		2011-02-03	1996-07-31	Mitochondrial membrane protein; coordinates expression of mitochondrially-encoded genes; may facilitate delivery of mRNA to membrane-bound translation machinery
-S000032442	CDS					YLR139C		12	423473	421542	C		2011-02-03	1996-07-31	
-S000004130	ORF	Dubious	YLR140W			chromosome 12		12	423474	423800	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps essential RRN5 gene which encodes a member of the UAF transcription factor involved in transcription of rDNA by RNA polymerase I
-S000033242	CDS					YLR140W		12	423474	423800	W		2011-02-03	1996-07-31	
-S000004131	ORF	Verified	YLR141W	RRN5		chromosome 12	L000003261	12	423683	424774	W		2011-02-03	1996-07-31	Protein involved in transcription of rDNA by RNA polymerase I; transcription factor, member of UAF (upstream activation factor) family along with Rrn9p and Rrn10p
-S000033304	CDS					YLR141W		12	423683	424774	W		2011-02-03	1996-07-31	
-S000004132	ORF	Verified	YLR142W	PUT1	proline dehydrogenase	chromosome 12	L000001535	12	425186	426616	W	73	2011-02-03	1996-07-31	Proline oxidase; nuclear-encoded mitochondrial protein involved in utilization of proline as sole nitrogen source; PUT1 transcription is induced by Put3p in the presence of proline and the absence of a preferred nitrogen source
-S000033371	CDS					YLR142W		12	425186	426616	W		2011-02-03	1996-07-31	
-S000006541	tRNA_gene		tD(GUC)L1			chromosome 12	L000003647	12	427132	427203	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000031841	noncoding_exon					tD(GUC)L1		12	427132	427203	W		2011-02-03	2000-05-19	
-S000004133	ORF	Verified	YLR143W	DPH6	diphthine--ammonia ligase	chromosome 12		12	427329	429386	W		2011-02-03	1996-07-31	Diphthamide synthetase; catalyzes the last amidation step of diphthamide biosynthesis using ammonium and ATP; evolutionarily conserved in eukaryotes; dph6 mutants exhibit diphthine accumulation and resistance to sordarin, which is indicative of defects in diphthamide formation on EF2; green fluorescent protein (GFP)-tagged protein localizes to the cytoplasm; DPH6/YLR143W is not an essential gene
-S000034284	CDS					YLR143W		12	427329	429386	W		2011-02-03	1996-07-31	
-S000004134	ORF	Verified	YLR144C	ACF2	PCA1|ENG2	chromosome 12	L000004011	12	432016	429677	C		2011-02-03	1996-07-31	Intracellular beta-1,3-endoglucanase; expression is induced during sporulation; may have a role in cortical actin cytoskeleton assembly; protein abundance increases in response to DNA replication stress
-S000034344	CDS					YLR144C		12	432016	429677	C		2011-02-03	1996-07-31	
-S000004135	ORF	Verified	YLR145W	RMP1		chromosome 12		12	432168	432773	W		2011-02-03	1996-07-31	Subunit of RNase MRP; RNase MRP processes pre-rRNA and has a role in cell cycle-regulated degradation of daughter cell-specific mRNAs; unlike most subunits, not shared between RNase MRP and nuclear RNase P
-S000034472	CDS					YLR145W		12	432168	432773	W		2011-02-03	1996-07-31	
-S000004136	ORF	Verified	YLR146C	SPE4	spermine synthase	chromosome 12	L000004341	12	433725	432823	C		2011-02-03	1996-07-31	Spermine synthase; required for the biosynthesis of spermine and also involved in biosynthesis of pantothenic acid
-S000034521	CDS					YLR146C		12	433725	432823	C		2011-02-03	1996-07-31	
-S000113566	ORF	Uncharacterized	YLR146W-A			chromosome 12		12	433870	434058	W		2011-02-03	2005-11-17	Putative protein of unknown function
-S000113567	CDS					YLR146W-A		12	433870	434058	W		2011-02-03	2005-11-17	
-S000004137	ORF	Verified	YLR147C	SMD3	mRNA splicing protein SMD3|Sm D3|SLT16	chromosome 12	L000001929	12	434463	434158	C		2011-02-03	1996-07-31	Core Sm protein Sm D3; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Sme1p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm D3
-S000035546	CDS					YLR147C		12	434463	434158	C		2011-02-03	1996-07-31	
-S000004138	ORF	Verified	YLR148W	PEP3	tethering complex subunit PEP3|VPT18|VPS18|VAM8	chromosome 12	L000001374|L000002473	12	434641	437397	W	91	2011-02-03	1996-07-31	Component of CORVET membrane tethering complex; vacuolar peripheral membrane protein that promotes vesicular docking/fusion reactions in conjunction with SNARE proteins, required for vacuolar biogenesis
-S000035686	CDS					YLR148W		12	434641	437397	W		2011-02-03	1996-07-31	
-S000004139	ORF	Verified	YLR149C			chromosome 12		12	439823	437631	C		2011-02-03	1996-07-31	Protein of unknown function; overexpression causes a cell cycle delay or arrest; null mutation results in a decrease in plasma membrane electron transport; YLR149C is not an essential gene; protein abundance increases in response to DNA replication stress
-S000035734	CDS					YLR149C		12	439823	437631	C		2011-02-03	1996-07-31	
-S000007619	ORF	Dubious	YLR149C-A			chromosome 12		12	440456	440370	C		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037217	CDS					YLR149C-A		12	440456	440370	C		2011-02-03	2001-02-26	
-S000004140	ORF	Verified	YLR150W	STM1	MPT4	chromosome 12	L000002574	12	440467	441288	W		2011-02-03	1996-07-31	Protein required for optimal translation under nutrient stress; perturbs association of Yef3p with ribosomes; involved in TOR signaling; binds G4 quadruplex and purine motif triplex nucleic acid; helps maintain telomere structure; protein abundance increases in response to DNA replication stress; serves as a ribosome preservation factor both during quiescence and recovery
-S000036485	CDS					YLR150W		12	440467	441288	W		2011-02-03	1996-07-31	
-S000004141	ORF	Verified	YLR151C	PCD1	8-oxo-dGTP diphosphatase	chromosome 12		12	442737	441715	C		2011-02-03	1996-07-31	8-oxo-dGTP diphosphatase; prevents spontaneous mutagenesis via sanitization of oxidized purine nucleoside triphosphates; can also act as peroxisomal pyrophosphatase with specificity for coenzyme A and CoA derivatives, may function to remove potentially toxic oxidized CoA disulfide from peroxisomes to maintain the capacity for beta-oxidation of fatty acids; nudix hydrolase family member; similar E. coli MutT and human, rat and mouse MTH1
-S000036493	CDS					YLR151C		12	442737	441715	C		2011-02-03	1996-07-31	
-S000004142	ORF	Uncharacterized	YLR152C			chromosome 12		12	444688	442958	C		2011-02-03	1996-07-31	Putative protein of unknown function; YLR152C is not an essential gene
-S000036614	CDS					YLR152C		12	444688	442958	C		2011-02-03	1996-07-31	
-S000004143	ORF	Verified	YLR153C	ACS2	acetate--CoA ligase ACS2	chromosome 12	L000003111	12	447575	445524	C		2011-02-03	1996-07-31	Acetyl-coA synthetase isoform; along with Acs1p, acetyl-coA synthetase isoform is the nuclear source of acetyl-coA for histone acetylation; mutants affect global transcription; required for growth on glucose; expressed under anaerobic conditions
-S000036713	CDS					YLR153C		12	447575	445524	C		2011-02-03	1996-07-31	
-S000004144	ORF	Verified	YLR154C	RNH203	Rnh2C	chromosome 12		12	448314	447982	C		2011-02-03	1996-07-31	Ribonuclease H2 subunit; required for RNase H2 activity; role in ribonucleotide excision repair; related to human AGS3 that causes Aicardi-Goutieres syndrome
-S000037436	CDS					YLR154C		12	448314	447982	C		2011-02-03	1996-07-31	
-S000006699	tRNA_gene		tQ(UUG)L			chromosome 12	L000003663	12	448721	448650	C		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000032585	noncoding_exon					tQ(UUG)L		12	448721	448650	C		2011-02-03	2000-05-19	
-S000007084	long_terminal_repeat		YLRWdelta6			chromosome 12		12	448842	449028	W		2011-02-03	2000-05-19	Ty1 LTR
-S000118475	ARS		ARS1216		ARSXII-451	chromosome 12		12	450485	450725			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178137	ARS_consensus_sequence					ARS1216		12	450506	450522	W		2014-11-18	2014-11-18	
-S000029718	rRNA_gene		ETS2-1	ETS2-1	3' ETS	chromosome 12		12	451785	451575	C		2011-02-03	2004-03-04	Non-coding region located adjacent to and downstream of RDN25; transcribed as part of the 35S rRNA precursor transcript; contains the primary rRNA transcription termination site at +93 and a secondary termination site between +211 and +250
-S000036854	external_transcribed_spacer_region					ETS2-1		12	451785	451575	C		2011-02-03	2004-03-04	
-S000028675	ORF	Dubious	YLR154W-A		YLR154W-C	chromosome 12		12	452438	452623	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; encoded within the 25S rRNA gene on the opposite strand
-S000032525	CDS					YLR154W-A		12	452438	452623	W		2011-02-03	2003-07-29	
-S000028563	ORF	Dubious	YLR154W-B			chromosome 12		12	454392	454556	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; encoded within the 25S rRNA gene on the opposite strand
-S000031269	CDS					YLR154W-B		12	454392	454556	W		2011-02-03	2003-07-29	
-S000028422	ORF	Verified	YLR154W-C	TAR1	YLR154W-A	chromosome 12	S000007646	12	454696	455070	W		2011-02-03	2002-06-20	Protein potentially involved in regulation of respiratory metabolism; located in the mitochondria; interacts genetically with RPO41 and physically with Coq5p; encoded within the 25S rRNA gene on the opposite strand
-S000029958	CDS					YLR154W-C		12	454696	455070	W		2011-02-03	2002-06-20	
-S000006484	rRNA_gene		RDN25-1	RDN25-1	26S rRNA|RDN25	chromosome 12		12	455181	451786	C		2011-02-03	2000-05-19	25S ribosomal RNA (25S rRNA); component of the large (60S) ribosomal subunit; encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript; formed by endonucleolytic cleavage at the C2 site of internal transcribed spacer 2 (ITS2)
-S000032318	noncoding_exon					RDN25-1		12	455181	451786	C		2011-02-03	2000-05-19	
-S000029716	rRNA_gene		ITS2-1	ITS2-1	ITS2	chromosome 12		12	455413	455182	C		2011-02-03	2004-03-04	Non-coding region between RDN58 and RDN25; transcribed as part of the 35S rRNA precursor transcript; forms a stem-loop structure that is required for processing of the precursor transcript
-S000036852	internal_transcribed_spacer_region					ITS2-1		12	455413	455182	C		2011-02-03	2004-03-04	
-S000028676	ORF	Dubious	YLR154W-E			chromosome 12		12	455433	455636	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; encoded within the 35S rRNA gene on the opposite strand
-S000032527	CDS					YLR154W-E		12	455433	455636	W		2011-02-03	2003-07-29	
-S000006488	rRNA_gene		RDN58-1	RDN58-1	RDN58	chromosome 12		12	455571	455414	C		2011-02-03	2000-05-19	5.8S ribosomal RNA (5.8S rRNA); component of the large (60S) ribosomal subunit; encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript; 3' end formation involves processing by the exosome complex while 5' end is generated by Kem1p and Rat1p
-S000033911	noncoding_exon					RDN58-1		12	455571	455414	C		2011-02-03	2000-05-19	
-S000028843	ORF	Dubious	YLR154W-F			chromosome 12		12	455883	456023	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; encoded within the 35S rRNA gene on the opposite strand
-S000034528	CDS					YLR154W-F		12	455883	456023	W		2011-02-03	2003-07-29	
-S000029715	rRNA_gene		ITS1-1	ITS1-1	ITS1	chromosome 12		12	455932	455572	C		2011-02-03	2004-03-04	Non-coding region between RDN58 and RDN18; transcribed as part of the 35S rRNA precursor transcript; excision during transcript maturation is coupled with processing of the 3' external transcribed spacer (3'ETS)
-S000036841	internal_transcribed_spacer_region					ITS1-1		12	455932	455572	C		2011-02-03	2004-03-04	
-S000006482	rRNA_gene		RDN18-1	RDN18-1	RDN18	chromosome 12		12	457732	455933	C		2011-02-03	2000-05-19	18S ribosomal RNA (18S rRNA); component of the small (40S) ribosomal subunit; involved in codon recognition by tRNAs or the release factor eRF1 (Sup45p); encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript
-S000033329	noncoding_exon					RDN18-1		12	457732	455933	C		2011-02-03	2000-05-19	
-S000006486	rRNA_gene		RDN37-1	RDN37-1	RDN37	chromosome 12		12	458432	451575	C		2011-02-03	1997-07-30	35S ribosomal RNA (35S rRNA) transcript; encoded by the RDN1 locus; processed into the 25S, 18S and 5.8S rRNAs (represented by the RDN25, RDN18, and RDN58 loci)
-S000032929	external_transcribed_spacer_region					RDN37-1		12	451785	451575	C		2011-02-03	2000-05-19	
-S000032923	external_transcribed_spacer_region					RDN37-1		12	458432	457733	C		2011-02-03	2000-05-19	
-S000032927	internal_transcribed_spacer_region					RDN37-1		12	455413	455182	C		2011-02-03	2000-05-19	
-S000032925	internal_transcribed_spacer_region					RDN37-1		12	455932	455572	C		2011-02-03	2000-05-19	
-S000032928	noncoding_exon					RDN37-1		12	455181	451786	C		2011-02-03	2000-05-19	
-S000032926	noncoding_exon					RDN37-1		12	455571	455414	C		2011-02-03	2000-05-19	
-S000032924	noncoding_exon					RDN37-1		12	457732	455933	C		2011-02-03	2000-05-19	
-S000029717	rRNA_gene		ETS1-1	ETS1-1	5' ETS	chromosome 12		12	458432	457733	C		2011-02-03	2004-03-04	Non-coding region located immediately upstream of RDN18; transcribed as part of the 35S rRNA precursor transcript; contains an essential U3 snoRNA binding site required for maturation of 18S rRNA
-S000036853	external_transcribed_spacer_region					ETS1-1		12	458432	457733	C		2011-02-03	2004-03-04	
-S000120636	ARS		ARS1200-1		ARSXII-459|ARS1216.5|rDNA ARS	chromosome 12		12	458991	459097			2011-02-03	2007-02-06	Chromosomal origin of bidirectional DNA replication; an rDNA ARS is presumed to be present in each tandem rDNA repeat, but fewer than one-third of the rDNA ARSs are actually used as replication origins in a given S phase
-S000120639	ARS_consensus_sequence					ARS1200-1		12	459088	459078	C		2011-02-03	2007-02-06	
-S000029329	rRNA_gene		NTS2-1	NTS2-1		chromosome 12	L000003944	12	459675	458433	C		2011-02-03	2003-12-09	Nontranscribed region of the rDNA repeat; located between RND5 and the 5'ETS; contains RNA polymerase I termination site
-S000032460	non_transcribed_region					NTS2-1		12	459675	458433	C		2011-02-03	2003-12-09	
-S000006479	rRNA_gene		RDN5-1	RDN5-1	MOF9|RDN5	chromosome 12	L000004821|S000029304	12	459676	459796	W		2011-02-03	2000-05-19	5S ribosomal RNA (5S rRNA); only complete sequence of 6 repeated RDN5 alleles; able to support viability when provided as sole form of 5S rRNA; component of the large (60S) ribosomal subunit; localized to the nucleolus via interaction with Rpl5p; may play a role in translational frame fidelity; transcription is mediated by PolIII and activated by TFIIIA and TFIIIE
-S000031406	noncoding_exon					RDN5-1		12	459676	459796	W		2011-02-03	2000-05-19	
-S000029714	rRNA_gene		NTS1-2	NTS1-2	NTS1	chromosome 12		12	460711	459797	C		2011-02-03	2004-03-04	Non-transcribed region of the rDNA repeat between the 3' ETS and RDN5; required for rDNA repeat expansion
-S000036840	non_transcribed_region					NTS1-2		12	460711	459797	C		2011-02-03	2004-03-04	
-S000029713	rRNA_gene		ETS2-2	ETS2-2	3' ETS	chromosome 12		12	460922	460712	C		2011-02-03	2004-03-04	Non-coding region located adjacent to RDN25; transcribed as part of the 35S rRNA precursor transcript; contains the primary rRNA transcription termination site at +93 and a secondary termination site between +211 and +250
-S000036839	external_transcribed_spacer_region					ETS2-2		12	460922	460712	C		2011-02-03	2004-03-04	
-S000028561	ORF	Uncharacterized	YLR154C-G			chromosome 12		12	462671	462522	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; this ORF is contained within RDN25-2 and RDN37-2
-S000031267	CDS					YLR154C-G		12	462671	462522	C		2011-02-03	2003-07-29	
-S000006485	rRNA_gene		RDN25-2	RDN25-2	26S rRNA|RDN25	chromosome 12		12	464318	460923	C		2011-02-03	2000-05-19	25S ribosomal RNA (25S rRNA); component of the large (60S) ribosomal subunit; encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript; formed by endonucleolytic cleavage at the C2 site of internal transcribed spacer 2 (ITS2)
-S000032336	noncoding_exon					RDN25-2		12	464318	460923	C		2011-02-03	2000-05-19	
-S000029712	rRNA_gene		ITS2-2	ITS2-2	ITS2	chromosome 12		12	464550	464319	C		2011-02-03	2004-03-04	Non-coding region between RDN58 and RDN25; transcribed as part of the 35S rRNA precursor transcript; forms a stem-loop structure required for processing of the precursor transcript
-S000036837	internal_transcribed_spacer_region					ITS2-2		12	464550	464319	C		2011-02-03	2004-03-04	
-S000006489	rRNA_gene		RDN58-2	RDN58-2	RDN58	chromosome 12		12	464708	464551	C		2011-02-03	2000-05-19	5.8S ribosomal RNA (5.8S rRNA); component of the large (60S) ribosomal subunit; encoded in the rDNA repeat (RDN1)
-S000033912	noncoding_exon					RDN58-2		12	464708	464551	C		2011-02-03	2000-05-19	
-S000029709	rRNA_gene		ITS1-2	ITS1-2	ITS1	chromosome 12		12	465069	464709	C		2011-02-03	2004-03-04	Non-coding region between RDN58 and RDN18; transcribed as part of the 35S rRNA precursor transcript; excision during transcript maturation is coupled with processing of the 3' external transcribed spacer (3' ETS)
-S000036833	internal_transcribed_spacer_region					ITS1-2		12	465069	464709	C		2011-02-03	2004-03-04	
-S000006483	rRNA_gene		RDN18-2	RDN18-2	RDN18	chromosome 12		12	466869	465070	C		2011-02-03	2000-05-19	18S ribosomal RNA (18S rRNA); component of the small (40S) ribosomal subunit; involved in codon recognition by tRNAs or the release factor eRF1 (Sup45p); encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript
-S000033332	noncoding_exon					RDN18-2		12	466869	465070	C		2011-02-03	2000-05-19	
-S000006487	rRNA_gene		RDN37-2	RDN37-2	RDN37	chromosome 12		12	467569	460712	C		2011-02-03	1997-07-30	35S ribosomal RNA (35S rRNA) transcript; encoded by the RDN1 locus; processed into the 25S, 18S and 5.8S rRNAs (represented by the RDN25, RDN18, and RDN58 loci)
-S000032939	external_transcribed_spacer_region					RDN37-2		12	460922	460712	C		2011-02-03	2000-05-19	
-S000032933	external_transcribed_spacer_region					RDN37-2		12	467569	466870	C		2011-02-03	2000-05-19	
-S000032937	internal_transcribed_spacer_region					RDN37-2		12	464550	464319	C		2011-02-03	2000-05-19	
-S000032935	internal_transcribed_spacer_region					RDN37-2		12	465069	464709	C		2011-02-03	2000-05-19	
-S000032938	noncoding_exon					RDN37-2		12	464318	460923	C		2011-02-03	2000-05-19	
-S000032936	noncoding_exon					RDN37-2		12	464708	464551	C		2011-02-03	2000-05-19	
-S000032934	noncoding_exon					RDN37-2		12	466869	465070	C		2011-02-03	2000-05-19	
-S000029707	rRNA_gene		ETS1-2	ETS1-2	5' ETS	chromosome 12		12	467569	466870	C		2011-02-03	2004-03-04	Non-coding region located immediately upstream of RDN18; transcribed as part of the 35S rRNA precursor transcript; contains an essential U3 snoRNA binding site required for maturation of 18S rRNA
-S000036830	external_transcribed_spacer_region					ETS1-2		12	467569	466870	C		2011-02-03	2004-03-04	
-S000120655	ARS		ARS1200-2		ARSXII-468|rDNA ARS	chromosome 12		12	468128	468234			2011-02-03	2007-02-06	Chromosomal origin of bidirectional DNA replication; an rDNA ARS is presumed to be present in each tandem rDNA repeat, but fewer than one-third of the rDNA ARSs are actually used as replication origins in a given S phase
-S000120656	ARS_consensus_sequence					ARS1200-2		12	468225	468215	C		2011-02-03	2007-02-06	
-S000029706	rRNA_gene		NTS2-2	NTS2-2	NTS2	chromosome 12		12	468812	467570	C		2011-02-03	2004-03-04	Non-transcribed region of the rDNA repeat; located between RDN5 and the 5' ETS
-S000036829	non_transcribed_region					NTS2-2		12	468812	467570	C		2011-02-03	2004-03-04	
-S000006480	rRNA_gene		RDN5-2	RDN5-2	RDN5	chromosome 12		12	468813	468931	W		2011-02-03	1997-07-30	Variant 5S ribosomal rRNA (5S rRNA) gene; located within the RDN1 locus; unable to support cell viability when provided as sole source of 5S rRNA; identical in sequence to variant alleles RDN5-3, RDN5-4, and RDN5-5
-S000031412	noncoding_exon					RDN5-2		12	468813	468931	W		2011-02-03	2000-05-19	
-S000028562	ORF	Uncharacterized	YLR154C-H			chromosome 12		12	468958	468827	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; this ORF partially overlaps RDN5-2; YLR154C-H has a paralog, YLR157C-C, that arose from a segmental duplication
-S000031268	CDS					YLR154C-H		12	468958	468827	C		2011-02-03	2003-07-29	
-S000004145	ORF	Verified	YLR155C	ASP3-1	asparaginase ASP3-1|ASP3	chromosome 12	L000000130	12	470405	469317	C		2011-02-03	1996-07-31	Cell-wall L-asparaginase II involved in asparagine catabolism; expression induced during nitrogen starvation; ORF contains a short non-coding RNA that enhances expression of full-length gene; likely arose in via horizontal gene transfer from the wine yeast Wickerhamomyces anomalus or a close relative; reference strain S288C has four copies of ASP3; ASP3-1 has a paralog, ASP3-3, that arose from a segmental duplication
-S000037563	CDS					YLR155C		12	470405	469317	C		2011-02-03	1996-07-31	
-S000004146	ORF	Uncharacterized	YLR156W			chromosome 12		12	472113	472457	W		2011-02-03	1996-07-31	Putative protein of unknown function; exhibits a two-hybrid interaction with Jsn1p in a large-scale analysis; YLR156W has a paralog, YLR159W, that arose from a segmental duplication
-S000030409	CDS					YLR156W		12	472113	472457	W		2011-02-03	1996-07-31	
-S000006481	rRNA_gene		RDN5-3	RDN5-3	RDN5	chromosome 12		12	472465	472583	W		2011-02-03	1997-07-30	Variant 5S ribosomal RNA (5S rRNA) gene; located at a site distal to the RDN1 locus; unable to support cell viability when provided as sole source of 5S rRNA; identical in sequence to variant alleles RDN5-2, RDN5-4, and RDN5-5
-S000031417	noncoding_exon					RDN5-3		12	472465	472583	W		2011-02-03	2000-05-19	
-S000028564	ORF	Uncharacterized	YLR156C-A			chromosome 12		12	472610	472479	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; partially overlaps RND5-3; YLR156C-A has a paralog, YLR159C-A, that arose from a segmental duplication
-S000031270	CDS					YLR156C-A		12	472610	472479	C		2011-02-03	2003-07-29	
-S000004147	ORF	Verified	YLR157C	ASP3-2	asparaginase ASP3-2|ASP3	chromosome 12		12	474057	472969	C		2011-02-03	1996-07-31	Cell-wall L-asparaginase II involved in asparagine catabolism; expression induced during nitrogen starvation; ORF contains a short non-coding RNA that enhances expression of full-length gene; likely arose in via horizontal gene transfer from the wine yeast Wickerhamomyces anomalus or a close relative; reference strain S288C has four copies of ASP3; ASP3-2 has a paralog, ASP3-4, that arose from a segmental duplication
-S000030487	CDS					YLR157C		12	474057	472969	C		2011-02-03	1996-07-31	
-S000028677	ORF	Uncharacterized	YLR157W-D		YLR157W-A	chromosome 12		12	475764	475976	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; YLR157W-D has a paralog, YLR161W, that arose from a segmental duplication
-S000032531	CDS					YLR157W-D		12	475764	475976	W		2011-02-03	2003-07-29	
-S000007068	long_terminal_repeat		YLRCdelta7			chromosome 12		12	476310	475976	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007374	transposable_element_gene		YLR157C-B		gag-pol fusion protein	chromosome 12		12	481601	476333	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000035905	CDS					YLR157C-B		12	480295	476333	C		2011-02-03	1999-07-17	
-S000035904	CDS					YLR157C-B		12	481601	480297	C		2011-02-03	1999-07-17	
-S000035906	plus_1_translational_frameshift					YLR157C-B		12	480296	480296	C		2011-02-03	1999-07-17	
-S000007373	transposable_element_gene		YLR157C-A		gag protein	chromosome 12		12	481601	480279	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000035900	CDS					YLR157C-A		12	481601	480279	C		2011-02-03	1999-07-17	
-S000028678	ORF	Uncharacterized	YLR157W-E		YLR157W-B|YLR157W-C	chromosome 12		12	481873	482037	W		2011-02-03	2003-07-29	Putative protein of unknown function identified by gene-trapping; microarray-based expression analysis, and genome-wide homology searching; partially overlaps a Ty1 element
-S000032535	CDS					YLR157W-E		12	481873	482037	W		2011-02-03	2003-07-29	
-S000007081	LTR_retrotransposon		YLRCTy1-1		Ty1	chromosome 12		12	481897	475976	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007069	long_terminal_repeat		YLRCdelta8			chromosome 12		12	481897	481563	C		2011-02-03	2000-05-19	Ty1 LTR
-S000029708	rRNA_gene		RDN5-4	RDN5-4	RDN5	chromosome 12		12	482045	482163	W		2011-02-03	2004-03-04	Variant 5S ribosomal rRNA (5S rRNA) gene; located at a site distal to the RDN1 locus; unable to support cell viability when provided as sole source of 5S rRNA; identical in sequence to variant alleles RDN5-2, RDN5-3, and RDN5-5
-S000036831	noncoding_exon					RDN5-4		12	482045	482163	W		2011-02-03	2004-03-04	
-S000028565	ORF	Uncharacterized	YLR157C-C			chromosome 12		12	482190	482059	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; this ORF partially overlaps RDN5-4; YLR157C-C has a paralog, YLR154C-H, that arose from a segmental duplication
-S000031271	CDS					YLR157C-C		12	482190	482059	C		2011-02-03	2003-07-29	
-S000004148	ORF	Verified	YLR158C	ASP3-3	asparaginase ASP3-3|ASP3	chromosome 12		12	483637	482549	C		2011-02-03	1996-07-31	Cell-wall L-asparaginase II involved in asparagine catabolism; expression induced during nitrogen starvation; ORF contains a short non-coding RNA that enhances expression of full-length gene; likely arose in via horizontal gene transfer from the wine yeast Wickerhamomyces anomalus or a close relative; reference strain S288C has four copies of ASP3; ASP3-3 has a paralog, ASP3-1, that arose from a segmental duplication
-S000030598	CDS					YLR158C		12	483637	482549	C		2011-02-03	1996-07-31	
-S000004149	ORF	Uncharacterized	YLR159W			chromosome 12		12	485345	485689	W		2011-02-03	1996-07-31	Putative protein of unknown function; YLR156W, YLR159W, and YLR161W are three identical open reading frames in S288C encoded near the ribosomal DNA region of chromosome 12; YLR159W has a paralog, YLR156W, that arose from a segmental duplication
-S000031528	CDS					YLR159W		12	485345	485689	W		2011-02-03	1996-07-31	
-S000029710	rRNA_gene		RDN5-5	RDN5-5	RDN5	chromosome 12		12	485697	485815	W		2011-02-03	2004-03-04	Variant 5S ribosomal rRNA (5S rRNA) gene; located at a site distal to the RDN1 locus; unable to support cell viability when provided as sole source of 5S rRNA; identical in sequence to variant alleles RDN5-2, RDN5-3, and RDN5-4
-S000036834	noncoding_exon					RDN5-5		12	485697	485815	W		2011-02-03	2004-03-04	
-S000028566	ORF	Uncharacterized	YLR159C-A			chromosome 12		12	485842	485711	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; partially overlaps RND5-5; YLR159C-A has a paralog, YLR156C-A, that arose from a segmental duplication
-S000031272	CDS					YLR159C-A		12	485842	485711	C		2011-02-03	2003-07-29	
-S000004150	ORF	Verified	YLR160C	ASP3-4	asparaginase ASP3-4|ASP3	chromosome 12		12	487289	486201	C		2011-02-03	1996-07-31	Cell-wall L-asparaginase II involved in asparagine catabolism; expression induced during nitrogen starvation; ORF contains a short non-coding RNA that enhances expression of full-length gene; likely arose in via horizontal gene transfer from the wine yeast Wickerhamomyces anomalus or a close relative; reference strain S288C has four copies of ASP3; ASP3-4 has a paralog, ASP3-2, that arose from a segmental duplication
-S000031490	CDS					YLR160C		12	487289	486201	C		2011-02-03	1996-07-31	
-S000004151	ORF	Uncharacterized	YLR161W			chromosome 12		12	488997	489341	W		2011-02-03	1996-07-31	Putative protein of unknown function; YLR156W, YLR159W, and YLR161W are three identical open reading frames in S288C encoded near the ribosomal DNA region of chromosome 12; YLR161W has a paralog, YLR157W-D, that arose from a segmental duplication
-S000031592	CDS					YLR161W		12	488997	489341	W		2011-02-03	1996-07-31	
-S000029711	rRNA_gene		RDN5-6	RDN5-6	RDN5	chromosome 12		12	489349	489469	W		2011-02-03	2004-03-04	Variant 5S ribosomal rRNA (5S rRNA) gene; located at a site distal to the RDN1 locus
-S000036835	noncoding_exon					RDN5-6		12	489349	489469	W		2011-02-03	2004-03-04	
-S000004152	ORF	Verified	YLR162W			chromosome 12		12	489573	489929	W		2011-02-03	1996-07-31	Protein of unknown function; overexpression confers resistance to the antimicrobial peptide MiAMP1 and causes growth arrest, apoptosis, and increased sensitivity to cobalt chloride
-S000032571	CDS					YLR162W		12	489573	489929	W		2011-02-03	1996-07-31	
-S000028567	ORF	Uncharacterized	YLR162W-A	RRT15		chromosome 12		12	490406	490594	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; identified in a screen for mutants with decreased levels of rDNA transcription
-S000031273	CDS					YLR162W-A		12	490406	490594	W		2011-02-03	2003-07-29	
-S000028844	ORF	Dubious	YLR163W-A			chromosome 12		12	492812	492925	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034529	CDS					YLR163W-A		12	492812	492925	W		2011-02-03	2003-07-29	
-S000004153	ORF	Verified	YLR163C	MAS1	MIF1	chromosome 12	L000001026|L000001108	12	493254	491866	C		2011-02-03	1996-07-31	Beta subunit of the mitochondrial processing protease (MPP); essential processing enzyme that cleaves the N-terminal targeting sequences from mitochondrially imported proteins
-S000032649	CDS					YLR163C		12	493254	491866	C		2011-02-03	1996-07-31	
-S000004154	ORF	Verified	YLR164W	SHH4	protein SHH4	chromosome 12		12	493883	494389	W		2011-02-03	1996-07-31	Putative alternate subunit of succinate dehydrogenase (SDH); mitochondrial inner membrane protein; genetic interaction with SDH4 suggests that Shh4p can function as a functional SDH subunit; a fraction copurifies with SDH subunit Sdh3p; expression induced by nitrogen limitation in a GLN3, GAT1-dependent manner; Shh4p has greater similarity to human SDHD (subunit D of SDH, implicated in paraganglioma) than does its paralog Sdh4p
-S000032792	CDS					YLR164W		12	493883	494389	W		2011-02-03	1996-07-31	
-S000004155	ORF	Verified	YLR165C	PUS5	pseudouridine synthase PUS5	chromosome 12		12	495258	494494	C		2011-02-03	1996-07-31	Pseudouridine synthase; catalyzes only the formation of pseudouridine (Psi)-2819 in mitochondrial 21S rRNA; not essential for viability
-S000032861	CDS					YLR165C		12	495258	494494	C		2011-02-03	1996-07-31	
-S000004156	ORF	Verified	YLR166C	SEC10	exocyst subunit SEC10	chromosome 12	L000003428	12	498044	495429	C		2011-02-03	1996-07-31	Essential 100kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion
-S000033562	CDS					YLR166C		12	498044	495429	C		2011-02-03	1996-07-31	
-S000004157	ORF	Verified	YLR167W	RPS31	eS31|ubiquitin-ribosomal 40S subunit protein S31 fusion protein|S31e|UB13|YS24|S37|S31|UBI3|RPS37	chromosome 12	L000001768|L000002413	12	498947	499405	W		2011-02-03	1996-07-31	Fusion protein cleaved to yield ribosomal protein S31 and ubiquitin; ubiquitin may facilitate assembly of the ribosomal protein into ribosomes; interacts genetically with translation factor eIF2B; homologous to mammalian ribosomal protein S27A, no bacterial homolog
-S000033714	CDS					YLR167W		12	498947	499405	W		2011-02-03	1996-07-31	
-S000004158	ORF	Verified	YLR168C	UPS2	GEP1|AIM30|MSF1|MSF1'	chromosome 12		12	500270	499578	C		2011-02-03	1996-07-31	Mitochondrial intermembrane space protein; involved in phospholipid metabolism; forms complex with Mdm35p that transfers phosphatidylserine from outer membrane to inner membrane for phosphatidylethanolamine synthesis; null mutant has defects in mitochondrial morphology; similar to Ups1p, Ups3p and to human PRELI; UPS2 has a paralog, UPS3, that arose from the whole genome duplication
-S000033771	CDS					YLR168C		12	500270	499578	C		2011-02-03	1996-07-31	
-S000004159	ORF	Dubious	YLR169W			chromosome 12		12	500335	500688	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034750	CDS					YLR169W		12	500335	500688	W		2011-02-03	1996-07-31	
-S000004161	ORF	Dubious	YLR171W			chromosome 12		12	500733	501122	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035908	CDS					YLR171W		12	500733	501122	W		2011-02-03	1996-07-31	
-S000004160	ORF	Verified	YLR170C	APS1	YAP19	chromosome 12	L000002493	12	501049	500579	C		2011-02-03	1996-07-31	Small subunit of the clathrin-associated adaptor complex AP-1; AP-1 is involved in protein sorting at the trans-Golgi network; homolog of the sigma subunit of the mammalian clathrin AP-1 complex
-S000035745	CDS					YLR170C		12	501049	500579	C		2011-02-03	1996-07-31	
-S000004162	ORF	Verified	YLR172C	DPH5	diphthine synthase	chromosome 12	L000000523	12	502162	501260	C		2011-02-03	1996-07-31	Methyltransferase required for synthesis of diphthamide; diphthamide is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); not essential for viability; GFP-Dph5p fusion protein localizes to the cytoplasm
-S000035977	CDS					YLR172C		12	502162	501260	C		2011-02-03	1996-07-31	
-S000004163	ORF	Uncharacterized	YLR173W			chromosome 12		12	502421	504247	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000036883	CDS					YLR173W		12	502421	504247	W		2011-02-03	1996-07-31	
-S000004164	ORF	Verified	YLR174W	IDP2	isocitrate dehydrogenase (NADP(+)) IDP2	chromosome 12	L000002737	12	504591	505829	W		2011-02-03	1996-07-31	Cytosolic NADP-specific isocitrate dehydrogenase; catalyzes oxidation of isocitrate to alpha-ketoglutarate; levels are elevated during growth on non-fermentable carbon sources and reduced during growth on glucose; IDP2 has a paralog, IDP3, that arose from the whole genome duplication
-S000036934	CDS					YLR174W		12	504591	505829	W		2011-02-03	1996-07-31	
-S000004165	ORF	Verified	YLR175W	CBF5	pseudouridine synthase CBF5	chromosome 12	L000000223	12	506134	507585	W		2011-02-03	1996-07-31	Pseudouridine synthase catalytic subunit of box H/ACA snoRNPs; acts on large and small rRNAs, on snRNA U2, and on some mRNAs; mutations in human ortholog dyskerin cause the disorder dyskeratosis congenita; small nucleolar ribonucleoprotein particles are also known as snoRNPs
-S000037702	CDS					YLR175W		12	506134	507585	W		2011-02-03	1996-07-31	
-S000004166	ORF	Verified	YLR176C	RFX1	CRT1	chromosome 12	L000004129	12	510232	507797	C		2011-02-03	1996-07-31	Major transcriptional repressor of DNA-damage-regulated genes; recruits repressors Tup1p and Cyc8p to their promoters; involved in DNA damage and replication checkpoint pathway; similar to a family of mammalian DNA binding RFX1-4 proteins
-S000037720	CDS					YLR176C		12	510232	507797	C		2011-02-03	1996-07-31	
-S000004167	ORF	Uncharacterized	YLR177W			chromosome 12		12	511054	512940	W		2011-02-03	1996-07-31	Putative protein of unknown function; phosphorylated by Dbf2p-Mob1p in vitro; some strains contain microsatellite polymophisms at this locus; not an essential gene; YLR177W has a paralog, PSP1, that arose from the whole genome duplication
-S000037859	CDS					YLR177W		12	511054	512940	W		2011-02-03	1996-07-31	
-S000118476	ARS		ARS1217		ARSXII-513	chromosome 12		12	512867	513115			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178138	ARS_consensus_sequence					ARS1217		12	513086	513070	C		2014-11-18	2014-11-18	
-S000004168	ORF	Verified	YLR178C	TFS1	DKA1	chromosome 12	L000002291	12	513821	513162	C	124	2011-02-03	1996-07-31	Inhibitor of carboxypeptidase Y (Prc1p), and Ras GAP (Ira2p); phosphatidylethanolamine-binding protein (PEBP) family member and ortholog of hPEBP1/RKIP, a natural metastasis suppressor; targets to vacuolar membranes during stationary phase; acetylated by NatB N-terminal acetyltransferase; protein abundance increases in response to DNA replication stress
-S000037879	CDS					YLR178C		12	513821	513162	C		2011-02-03	1996-07-31	
-S000004169	ORF	Verified	YLR179C			chromosome 12		12	514713	514108	C		2011-02-03	1996-07-31	Protein of unknown function with similarity to Tfs1p; transcription is activated by paralogous proteins Yrm1p and Yrr1p along with proteins involved in multidrug resistance; GFP-tagged protein localizes to the cytoplasm and nucleus
-S000030817	CDS					YLR179C		12	514713	514108	C		2011-02-03	1996-07-31	
-S000004170	ORF	Verified	YLR180W	SAM1	methionine adenosyltransferase SAM1|ETH10	chromosome 12	L000001798	12	515262	516410	W		2011-02-03	1996-07-31	S-adenosylmethionine synthetase; catalyzes transfer of the adenosyl group of ATP to the sulfur atom of methionine; SAM1 has a paralog, SAM2, that arose from the whole genome duplication
-S000031889	CDS					YLR180W		12	515262	516410	W		2011-02-03	1996-07-31	
-S000004171	ORF	Verified	YLR181C	VTA1		chromosome 12		12	517670	516678	C		2011-02-03	1996-07-31	Multivesicular body (MVB) protein; involved in endosomal protein sorting; regulates Vps4p activity by promoting its oligomerization; has an N-terminal Vps60- and Did2- binding domain, a linker region, and a C-terminal Vps4p binding domain
-S000031945	CDS					YLR181C		12	517670	516678	C		2011-02-03	1996-07-31	
-S000004172	ORF	Verified	YLR182W	SWI6	transcriptional regulator SWI6|SDS11|PSL8	chromosome 12	L000002254	12	517940	520351	W		2011-02-03	1996-07-31	Transcription cofactor; forms complexes with Swi4p and Mbp1p to regulate transcription at the G1/S transition; involved in meiotic gene expression; also binds Stb1p to regulate transcription at START; cell wall stress induces phosphorylation by Mpk1p, which regulates Swi6p localization; required for the unfolded protein response, independently of its known transcriptional coactivators
-S000032961	CDS					YLR182W		12	517940	520351	W		2011-02-03	1996-07-31	
-S000004173	ORF	Verified	YLR183C	TOS4		chromosome 12		12	522012	520543	C		2011-02-03	1996-07-31	Putative transcription factor, contains Forkhead Associated domain; binds chromatin; involved in expression homeostasis, buffering of mRNA synthesis rate against gene dosage changes during S phase; target of SBF transcription factor; expression is periodic and peaks in G1; involved in DNA replication checkpoint response; interacts with Rpd3 and Set3 histone deacetylase complexes; APCC(Cdh1) substrate; relative distribution to nucleus increases upon DNA replication stress
-S000032995	CDS					YLR183C		12	522012	520543	C		2011-02-03	1996-07-31	
-S000004174	ORF	Dubious	YLR184W			chromosome 12		12	522106	522453	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033139	CDS					YLR184W		12	522106	522453	W		2011-02-03	1996-07-31	
-S000004175	ORF	Verified	YLR185W	RPL37A	eL37|ribosomal 60S subunit protein L37A|L37e|YL35|L43|L37A	chromosome 12	L000002884	12	522663	523288	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L37A; required for processing of 27SB pre-rRNA and formation of stable 66S assembly intermediates; homologous to mammalian ribosomal protein L37, no bacterial homolog; RPL37A has a paralog, RPL37B, that arose from the whole genome duplication
-S000033905	CDS					YLR185W		12	522663	522669	W		2011-02-03	1996-07-31	
-S000033906	CDS					YLR185W		12	523029	523288	W		2011-02-03	1996-07-31	
-S000033907	intron					YLR185W		12	522670	523028	W		2011-02-03	1996-07-31	
-S000004176	ORF	Verified	YLR186W	EMG1	18S rRNA pseudouridine methyltransferase|NEP1	chromosome 12		12	523632	524390	W		2011-02-03	1996-07-31	Methyltransferase for rRNA; methylates pseudouridine 18S rRNA residue 1191; member of the SPOUT methyltransferase family; required for maturation of 18S rRNA and for 40S ribosomal subunit production independent of methyltransferase activity; forms homodimers; human ortholog is mutated in Bowen-Conradi syndrome, and equivalent yeast mutation affects Emg1p dimerization and localization but not methyltransferase activity; human EMG1 complements lethality of null and ts mutant
-S000034031	CDS					YLR186W		12	523632	524390	W		2011-02-03	1996-07-31	
-S000004177	ORF	Verified	YLR187W	SKG3		chromosome 12		12	524865	527945	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery, cytoplasm, bud, and bud neck; potential Cdc28p substrate; similar to Skg4p; relocalizes from bud neck to cytoplasm upon DNA replication stress; SKG3 has a paralog, CAF120, that arose from the whole genome duplication
-S000034134	CDS					YLR187W		12	524865	527945	W		2011-02-03	1996-07-31	
-S000004178	ORF	Verified	YLR188W	MDL1	ATP-binding cassette permease MDL1	chromosome 12	L000001049	12	528300	530387	W		2011-02-03	1996-07-31	Mitochondrial inner membrane half-type ABC transporter; mediates export of peptides generated upon proteolysis of mitochondrial proteins; plays a role in the regulation of cellular resistance to oxidative stress
-S000034239	CDS					YLR188W		12	528300	530387	W		2011-02-03	1996-07-31	
-S000004179	ORF	Verified	YLR189C	ATG26	UGT51	chromosome 12	L000004808	12	534393	530797	C		2011-02-03	1996-07-31	UDP-glucose:sterol glucosyltransferase; conserved enzyme involved in synthesis of sterol glucoside membrane lipids; in contrast to ATG26 from P. pastoris, S. cerevisiae ATG26 is not involved in autophagy
-S000035108	CDS					YLR189C		12	534393	530797	C		2011-02-03	1996-07-31	
-S000004180	ORF	Verified	YLR190W	MMR1		chromosome 12		12	535214	536689	W		2011-02-03	1996-07-31	Phosphorylated protein of the mitochondrial outer membrane; localizes only to mitochondria of the bud; interacts with Myo2p to mediate mitochondrial distribution to buds; mRNA is targeted to the bud via the transport system involving She2p
-S000036058	CDS					YLR190W		12	535214	536689	W		2011-02-03	1996-07-31	
-S000004181	ORF	Verified	YLR191W	PEX13	peroxin PEX13|PAS20	chromosome 12	L000003024	12	537272	538432	W		2011-02-03	1996-07-31	Peroxisomal importomer complex component; integral peroxisomal membrane protein required for docking and translocation of peroxisomal matrix proteins; interacts with the PTS1 signal recognition factor Pex5p and the PTS2 signal recognition factor Pex7p; forms a complex with Pex14p and Pex17p; human homolog PEX13 complements yeast null mutant
-S000036199	CDS					YLR191W		12	537272	538432	W		2011-02-03	1996-07-31	
-S000004182	ORF	Verified	YLR192C	HCR1	translation initiation factor eIF3 core subunit j	chromosome 12	S000007439	12	539589	538792	C		2011-02-03	1996-07-31	eIF3j component of translation initiation factor 3 (eIF3); dual function protein involved in translation initiation as a substoichiometric component (eIF3j) of eIF3; required for 20S pre-rRNA processing; required at post-transcriptional step for efficient retrotransposition; absence decreases Ty1 Gag:GFP protein levels; binds eIF3 subunits Rpg1p, Prt1p and 18S rRNA; eIF3 also involved in programmed stop codon read through; human homolog EIF3J can complement yeast hcr1 mutant
-S000036241	CDS					YLR192C		12	539589	538792	C		2011-02-03	1996-07-31	
-S000004183	ORF	Verified	YLR193C	UPS1		chromosome 12		12	540536	540009	C		2011-02-03	1996-07-31	Phosphatidic acid transfer protein; plays a role in phospholipid metabolism by transporting phosphatidic acid from the outer to the inner mitochondrial membrane; localizes to the mitochondrial intermembrane space; null mutant has altered cardiolipin and phosphatidic acid levels; ortholog of human PRELI
-S000031730	CDS					YLR193C		12	540536	540009	C		2011-02-03	1996-07-31	
-S000004184	ORF	Verified	YLR194C	NCW2		chromosome 12		12	541573	540809	C		2011-02-03	1996-07-31	Structural constituent of the cell wall; attached to the plasma membrane by a GPI-anchor; expression is upregulated in response to cell wall stress; null mutant is sensitive to the antifungal agent polyhexamethylene biguanide, resistant to zymolyase treatment and has increased chitin deposition
-S000031877	CDS					YLR194C		12	541573	540809	C		2011-02-03	1996-07-31	
-S000004185	ORF	Verified	YLR195C	NMT1	glycylpeptide N-tetradecanoyltransferase NMT1|CDC72	chromosome 12	L000001259	12	543304	541937	C	142	2011-02-03	1996-07-31	N-myristoyl transferase; catalyzes the cotranslational, covalent attachment of myristic acid to the N-terminal glycine residue of several proteins involved in cellular growth and signal transduction
-S000031996	CDS					YLR195C		12	543304	541937	C		2011-02-03	1996-07-31	
-S000004186	ORF	Verified	YLR196W	PWP1	rRNA-processing protein PWP1	chromosome 12	L000001539	12	543968	545698	W		2011-02-03	1996-07-31	Protein with WD-40 repeats involved in rRNA processing; associates with trans-acting ribosome biogenesis factors; similar to beta-transducin superfamily
-S000037527	CDS					YLR196W		12	543968	545698	W		2011-02-03	1996-07-31	
-S000004187	ORF	Verified	YLR197W	NOP56	snoRNP complex protein NOP56|SIK1	chromosome 12	L000002982	12	546097	547611	W		2011-02-03	1996-07-31	Essential evolutionarily-conserved nucleolar protein; component of the box C/D snoRNP complexes that direct 2'-O-methylation of pre-rRNA during its maturation; overexpression causes spindle orientation defects
-S000037605	CDS					YLR197W		12	546097	547611	W		2011-02-03	1996-07-31	
-S000004188	ORF	Dubious	YLR198C			chromosome 12		12	547645	547286	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene SIK1/YLR197W
-S000037636	CDS					YLR198C		12	547645	547286	C		2011-02-03	1996-07-31	
-S000004189	ORF	Verified	YLR199C	PBA1	POC1	chromosome 12		12	548769	547853	C		2011-02-03	2003-09-27|1996-07-31	Protein involved in 20S proteasome assembly; forms a heterodimer with Add66p that binds to proteasome precursors; interaction with Pba1p-Add66p may affect function of the mature proteasome and its role in maintaining respiratory metabolism; similar to human PAC1 constituent of the PAC1-PAC2 complex involved in proteasome assembly
-S000030462	CDS					YLR199C		12	548677	547853	C		2011-02-03	2003-09-27|1996-07-31	
-S000030461	CDS					YLR199C		12	548769	548764	C		2011-02-03	2003-09-27	
-S000030463	intron					YLR199C		12	548763	548678	C		2011-02-03	2003-09-27	
-S000004190	ORF	Verified	YLR200W	YKE2	tubulin-binding prefolding complex subunit YKE2|PFD6|GIM1	chromosome 12	L000002791	12	549012	549356	W		2011-02-03	1996-07-31	Subunit of the heterohexameric Gim/prefoldin protein complex; involved in the folding of alpha-tubulin, beta-tubulin, and actin; prefoldin complex also localizes to chromatin of actively transcribed genes in the nucleus and facilitates transcriptional elongation
-S000036300	CDS					YLR200W		12	549012	549356	W		2011-02-03	1996-07-31	
-S000004191	ORF	Verified	YLR201C	COQ9	ubiquinone biosynthesis protein COQ9|FMP53	chromosome 12		12	550293	549511	C		2011-02-03	1996-07-31	Protein required for ubiquinone biosynthesis and respiratory growth; localizes to matrix face of mitochondrial inner membrane in a large complex with ubiquinone biosynthetic enzymes; ubiquinone is also known as coenzyme Q; human homolog COQ9 can complement yeast coq9 null mutant
-S000036362	CDS					YLR201C		12	550293	549511	C		2011-02-03	1996-07-31	
-S000004192	ORF	Dubious	YLR202C			chromosome 12		12	550636	550194	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YLR201C; ORF contains a putative intron
-S000037015	CDS					YLR202C		12	550458	550194	C		2011-02-03	1996-07-31	
-S000037014	CDS					YLR202C		12	550636	550575	C		2011-02-03	1996-07-31	
-S000037016	intron					YLR202C		12	550574	550459	C		2011-02-03	1996-07-31	
-S000004193	ORF	Verified	YLR203C	MSS51		chromosome 12	L000001205	12	551960	550650	C	149	2011-02-03	1996-07-31	Specific translational activator for the mitochondrial COX1 mRNA; loosely associated with the matrix face of the mitochondrial inner membrane; localizes to vacuole membrane in response to H2O2; influences both COX1 mRNA translation and Cox1p assembly into cytochrome c oxidase; binds to heme B, which may be a mechanism for sensing oxygen levels in order to regulate cytochrome c oxidase biogenesis
-S000037086	CDS					YLR203C		12	551960	550650	C		2011-02-03	1996-07-31	
-S000004194	ORF	Verified	YLR204W	QRI5	COX24	chromosome 12	L000001551	12	552270	552605	W		2011-02-03	1996-07-31	Mitochondrial inner membrane protein; required for accumulation of spliced COX1 mRNA; may have an additional role in translation of COX1 mRNA
-S000037241	CDS					YLR204W		12	552270	552605	W		2011-02-03	1996-07-31	
-S000004195	ORF	Verified	YLR205C	HMX1		chromosome 12		12	553677	552724	C		2011-02-03	2004-02-05|1996-07-31	ER localized heme oxygenase; involved in heme degradation during iron starvation and in the oxidative stress response; expression is regulated by AFT1 and oxidative stress; relocates to the perinuclear region in the presence of oxidants
-S000037310	CDS					YLR205C		12	553677	552724	C		2011-02-03	2004-02-05|1996-07-31	
-S000004196	ORF	Verified	YLR206W	ENT2	epsin	chromosome 12		12	554578	556419	W		2011-02-03	1996-07-31	Epsin-like protein required for endocytosis and actin patch assembly; functionally redundant with Ent1p; contains clathrin-binding motif at C-terminus; ENT2 has a paralog, ENT1, that arose from the whole genome duplication
-S000030027	CDS					YLR206W		12	554578	556419	W		2011-02-03	1996-07-31	
-S000004197	ORF	Verified	YLR207W	HRD3	ubiquitin ligase complex subunit HRD3	chromosome 12	L000003040	12	556788	559289	W		2011-02-03	1996-07-31	ER membrane protein that plays a central role in ERAD; forms HRD complex with Hrd1p and ER-associated protein degradation (ERAD) determinants that engages in lumen to cytosol communication and coordination of ERAD events
-S000030185	CDS					YLR207W		12	556788	559289	W		2011-02-03	1996-07-31	
-S000004198	ORF	Verified	YLR208W	SEC13	GTPase-activating protein SEC13|ANU3	chromosome 12	L000001838	12	559551	560444	W		2011-02-03	1996-07-31	Structural component of 3 complexes; subunit of the Nup84p nuclear pore subcomplex that contributes to nucleocytoplasmic transport and NPC biogenesis; subunit of the COPII vesicle coat required for ER-to-Golgi transport; subunit of SEACAT, a subcomplex of the coatomer-related, vacuolar-associated SEA complex, that inhibits the TORC1 inhibitory role of SEACIT (Iml1p-Npr2p-Npr3p), a GAP for Gtr1p, thereby resulting in activation of TORC1 signaling; human SEC13 homolog
-S000031129	CDS					YLR208W		12	559551	560444	W		2011-02-03	1996-07-31	
-S000004199	ORF	Verified	YLR209C	PNP1	purine-nucleoside phosphorylase	chromosome 12		12	561732	560797	C		2011-02-03	1996-07-31	Purine nucleoside phosphorylase; specifically metabolizes inosine and guanosine nucleosides; involved in the nicotinamide riboside salvage pathway
-S000031185	CDS					YLR209C		12	561732	560797	C		2011-02-03	1996-07-31	
-S000004200	ORF	Verified	YLR210W	CLB4	B-type cyclin CLB4	chromosome 12	L000000352	12	562008	563390	W		2011-02-03	1996-07-31	B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the G2/M transition; may be involved in DNA replication and spindle assembly; accumulates during S phase and G2, then targeted for ubiquitin-mediated degradation; CLB4 has a paralog, CLB3, that arose from the whole genome duplication
-S000032220	CDS					YLR210W		12	562008	563390	W		2011-02-03	1996-07-31	
-S000004201	ORF	Verified	YLR211C	ATG38		chromosome 12		12	564531	563792	C		2011-02-03	2000-07-14|1996-07-31	Homodimeric subunit of autophagy-specific PtdIns-3-kinase complex I; required for the integrity of the active PtdIns-3-kinase complex I by maintaining an association between Vps15p-Vps34p and Atg14p-Vps30p subcomplexes; localizes to the pre-autophagosomal structure (PAS) in an Atg14p-dependent manner; ATG38 is non-essential but is required for macroautophagy
-S000032247	CDS					YLR211C		12	564454	563792	C		2011-02-03	2000-07-14|1996-07-31	
-S000032246	CDS					YLR211C		12	564531	564514	C		2011-02-03	2000-07-14	
-S000032248	intron					YLR211C		12	564513	564455	C		2011-02-03	2000-07-14	
-S000004202	ORF	Verified	YLR212C	TUB4	gamma-tubulin	chromosome 12	L000002751	12	566281	564860	C		2011-02-03	1996-07-31	Gamma-tubulin; involved in nucleating microtubules from both the cytoplasmic and nuclear faces of the spindle pole body; protein abundance increases in response to DNA replication stress
-S000032353	CDS					YLR212C		12	566281	564860	C		2011-02-03	1996-07-31	
-S000004203	ORF	Verified	YLR213C	CRR1	putative glycosylase	chromosome 12	S000007422	12	567922	566654	C		2011-02-03	1996-07-31	Putative glycoside hydrolase of the spore wall envelope; required for normal spore wall assembly, possibly for cross-linking between the glucan and chitosan layers; expressed during sporulation
-S000033218	CDS					YLR213C		12	567922	566654	C		2011-02-03	1996-07-31	
-S000004204	ORF	Verified	YLR214W	FRE1	ferric/cupric-chelate reductase	chromosome 12	L000000626	12	568567	570627	W		2011-02-03	1996-07-31	Ferric reductase and cupric reductase; reduces siderophore-bound iron and oxidized copper prior to uptake by transporters; expression induced by low copper and iron levels
-S000033306	CDS					YLR214W		12	568567	570627	W		2011-02-03	1996-07-31	
-S000004205	ORF	Verified	YLR215C	CDC123	cell proliferation protein CDC123	chromosome 12		12	571858	570776	C		2011-02-03	1996-07-31	Assembly factor for the eIF2 translation initiation factor complex; regulates translational initiation; conserved residues of this ATP-Grasp protein that bind to ATP-Mg2+ in the pombe ortholog are required for complex assembly in budding yeast; interaction with eIF2 subunit Gcd11p facilitates complex assembly and activity; required for the START transition and timely progression through G2; regulated by nutrient availability; human ortholog complements the yeast mutant
-S000033348	CDS					YLR215C		12	571858	570776	C		2011-02-03	1996-07-31	
-S000004207	ORF	Dubious	YLR217W			chromosome 12		12	572909	573232	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CPR6
-S000034392	CDS					YLR217W		12	572909	573232	W		2011-02-03	1996-07-31	
-S000004206	ORF	Verified	YLR216C	CPR6	peptidylprolyl isomerase CPR6|CYP40	chromosome 12	L000003229	12	573211	572096	C		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; plays a role in determining prion variants; binds to Hsp82p and contributes to chaperone activity; protein abundance increases in response to DNA replication stress
-S000033434	CDS					YLR216C		12	573211	572096	C		2011-02-03	1996-07-31	
-S000004208	ORF	Verified	YLR218C	COA4	CMC3	chromosome 12		12	573918	573466	C		2011-02-03	1996-07-31	Twin Cx(9)C protein involved in cytochrome c oxidase organization; organization includes assembly or stability; localizes to the mitochondrial intermembrane space via the Mia40p-Erv1p system; interacts genetically with CYC1 and with cytochrome c oxidase assembly factors
-S000034416	CDS					YLR218C		12	573918	573466	C		2011-02-03	1996-07-31	
-S000004209	ORF	Verified	YLR219W	MSC3		chromosome 12		12	574151	576337	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery; msc3 mutants are defective in directing meiotic recombination events to homologous chromatids; potential Cdc28p substrate; protein abundance increases in response to DNA replication stress
-S000035498	CDS					YLR219W		12	574151	576337	W		2011-02-03	1996-07-31	
-S000004210	ORF	Verified	YLR220W	CCC1		chromosome 12	L000000234	12	576825	577793	W		2011-02-03	1996-07-31	Vacuolar Fe2+/Mn2+ transporter; suppresses respiratory deficit of yfh1 mutants, which lack the ortholog of mammalian frataxin, by preventing mitochondrial iron accumulation; relative distribution to the vacuole decreases upon DNA replication stress
-S000035447	CDS					YLR220W		12	576825	577793	W		2011-02-03	1996-07-31	
-S000004211	ORF	Verified	YLR221C	RSA3		chromosome 12		12	579024	578362	C		2011-02-03	1996-07-31	Protein with a likely role in ribosomal maturation; required for accumulation of wild-type levels of large (60S) ribosomal subunits; binds to the helicase Dbp6p in pre-60S ribosomal particles in the nucleolus
-S000035470	CDS					YLR221C		12	579024	578362	C		2011-02-03	1996-07-31	
-S000004212	ORF	Verified	YLR222C	UTP13		chromosome 12		12	581771	579318	C		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
-S000035533	CDS					YLR222C		12	581771	579318	C		2011-02-03	1996-07-31	
-S000028568	ORF	Dubious	YLR222C-A			chromosome 12		12	582236	582006	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene IFH1
-S000031274	CDS					YLR222C-A		12	582236	582006	C		2011-02-03	2003-07-29	
-S000004213	ORF	Verified	YLR223C	IFH1		chromosome 12	L000001775	12	585490	582233	C		2011-02-03	1996-07-31	Coactivator, regulates transcription of ribosomal protein (RP) genes; recruited to RP gene promoters during optimal growth conditions via Fhl1p; subunit of CURI, a complex that coordinates RP production and pre-rRNA processing; regulated by acetylation and phosphorylation at different growth states via TORC1 signaling; IFH1 has a paralog, CRF1, that arose from the whole genome duplication
-S000036449	CDS					YLR223C		12	585490	582233	C		2011-02-03	1996-07-31	
-S000004214	ORF	Verified	YLR224W	UCC1		chromosome 12		12	586464	587573	W		2011-02-03	1996-07-31	F-box protein and component of SCF ubiquitin ligase complexes; involved in ubiquitin-dependent protein catabolism; readily monoubiquitinated in vitro by SCF-Ubc4 complexes; SCF-Ucc1 regulates level of Cit2 citrate synthase protein to maintain citrate homeostasis, acts as metabolic switch for glyoxylate cycle; UCC1 transcription is downregulated in cells grown on C2-compounds
-S000036572	CDS					YLR224W		12	586464	587573	W		2011-02-03	1996-07-31	
-S000004215	ORF	Uncharacterized	YLR225C			chromosome 12		12	588918	587695	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; not an essential gene; YLR225C has a paralog, YDR222W, that arose from the whole genome duplication
-S000036615	CDS					YLR225C		12	588918	587695	C		2011-02-03	1996-07-31	
-S000004216	ORF	Verified	YLR226W	BUR2	CST4	chromosome 12	L000002994|L000000205	12	589354	590541	W		2011-02-03	1996-07-31	Cyclin for the Sgv1p (Bur1p) protein kinase; Sgv1p and Bur2p comprise the CDK-cyclin BUR kinase complex which is involved in transcriptional regulation through its phosphorylation of the carboxy-terminal domain (CTD) of the largest subunit of RNA polymerase II (Rpo21p); BUR kinase is also involved in the recruitment of Spt6p to the CTD at the onset of transcription
-S000037389	CDS					YLR226W		12	589354	590541	W		2011-02-03	1996-07-31	
-S000004217	ORF	Verified	YLR227C	ADY4		chromosome 12	S000007652	12	592043	590562	C		2011-02-03	1996-07-31	Structural component of the meiotic outer plaque; outer plaque is a membrane-organizing center that assembles on the cytoplasmic face of the spindle pole body during meiosis II and triggers the formation of the prospore membrane
-S000037438	CDS					YLR227C		12	592043	590562	C		2011-02-03	1996-07-31	
-S000006655	tRNA_gene		tL(UAG)L1			chromosome 12	L000003662	12	592619	592519	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000035002	intron					tL(UAG)L1		12	592581	592563	C		2011-02-03	2000-05-19	
-S000035001	noncoding_exon					tL(UAG)L1		12	592562	592519	C		2011-02-03	2000-05-19	
-S000035000	noncoding_exon					tL(UAG)L1		12	592619	592582	C		2011-02-03	2000-05-19	
-S000007070	long_terminal_repeat		YLRCdelta9			chromosome 12		12	593035	592706	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007085	long_terminal_repeat		YLRWdelta10			chromosome 12		12	593145	593478	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007098	LTR_retrotransposon		YLRWTy1-2		Ty1	chromosome 12		12	593145	599062	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007375	transposable_element_gene		YLR227W-A		gag protein	chromosome 12		12	593438	594760	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000035724	CDS					YLR227W-A		12	593438	594760	W		2011-02-03	1996-07-31	
-S000007376	transposable_element_gene		YLR227W-B		gag-pol fusion protein	chromosome 12		12	593438	598706	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000035730	CDS					YLR227W-B		12	593438	594742	W		2011-02-03	1999-07-17	
-S000035731	CDS					YLR227W-B		12	594744	598706	W		2011-02-03	1999-07-17	
-S000035732	plus_1_translational_frameshift					YLR227W-B		12	594743	594743	W		2011-02-03	1999-07-17	
-S000007086	long_terminal_repeat		YLRWdelta11			chromosome 12		12	598729	599062	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007087	long_terminal_repeat		YLRWdelta12			chromosome 12		12	599268	599544	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007080	long_terminal_repeat		YLRCtau1			chromosome 12		12	599844	599570	C		2011-02-03	2000-05-19	Ty4 LTR
-S000004218	ORF	Verified	YLR228C	ECM22		chromosome 12	L000004375	12	602463	600019	C		2011-02-03	1996-07-31	Sterol regulatory element binding protein; regulates transcription of sterol biosynthetic genes upon sterol depletion, after relocating from intracellular membranes to perinuclear foci; redundant activator of filamentation with UPC2, up-regulating the expression of genes involved in filamentous growth; contains Zn[2]-Cys[6] binuclear cluster; ECM22 has a paralog, UPC2, that arose from the whole genome duplication
-S000037567	CDS					YLR228C		12	602463	600019	C		2011-02-03	1996-07-31	
-S000118477	ARS		ARS1218		ARSXII-603	chromosome 12		12	603024	603132			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178139	ARS_consensus_sequence					ARS1218		12	603110	603094	C		2014-11-18	2014-11-18	
-S000004220	ORF	Dubious	YLR230W			chromosome 12		12	604574	604879	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 5' end of essential CDC42/YLR229C gene which encodes a small Rho-like GTPase essential for establishment and maintenance of cell polarity
-S000030492	CDS					YLR230W		12	604574	604879	W		2011-02-03	1996-07-31	
-S000004219	ORF	Verified	YLR229C	CDC42	Rho family GTPase CDC42	chromosome 12	L000000276	12	604787	604212	C	165	2011-02-03	1996-07-31	Small rho-like GTPase; essential for establishment and maintenance of cell polarity; plays a role late in cell fusion via activation of key cell fusion regulator Fus2p; mutants have defects in the organization of actin and septins; human homolog CDC42 can complement yeast cdc42 mutant
-S000030359	CDS					YLR229C		12	604787	604212	C		2011-02-03	1996-07-31	
-S000006614	tRNA_gene		tI(UAU)L			chromosome 12	L000003661	12	605432	605300	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000035162	intron					tI(UAU)L		12	605395	605336	C		2011-02-03	2000-05-19	
-S000035161	noncoding_exon					tI(UAU)L		12	605335	605300	C		2011-02-03	2000-05-19	
-S000035160	noncoding_exon					tI(UAU)L		12	605432	605396	C		2011-02-03	2000-05-19	
-S000004222	ORF	Dubious	YLR232W			chromosome 12		12	606830	607177	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene BNA5
-S000031460	CDS					YLR232W		12	606830	607177	W		2011-02-03	1996-07-31	
-S000004221	ORF	Verified	YLR231C	BNA5	kynureninase	chromosome 12		12	607119	605758	C		2011-02-03	1996-07-31	Kynureninase; required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
-S000031316	CDS					YLR231C		12	607119	605758	C		2011-02-03	1996-07-31	
-S000004223	ORF	Verified	YLR233C	EST1		chromosome 12	L000000588	12	609524	607425	C		2011-02-03	1996-07-31	TLC1 RNA-associated factor involved in telomere length regulation; recruitment subunit of telomerase; has G-quadruplex promoting activity required for telomere elongation; role in activating telomere-bound Est2p-TLC1-RNA; EST1 has a paralog, EBS1, that arose from the whole genome duplication
-S000031492	CDS					YLR233C		12	609524	607425	C		2011-02-03	1996-07-31	
-S000004224	ORF	Verified	YLR234W	TOP3	DNA topoisomerase 3|EDR1	chromosome 12	L000002321	12	609783	611753	W	163	2011-02-03	1996-07-31	DNA Topoisomerase III; conserved protein that functions in a complex with Sgs1p and Rmi1p to relax single-stranded negatively-supercoiled DNA preferentially; DNA catenation/decatenation activity is stimulated by RPA and Sgs1p-Top3p-Rmi1p; involved in telomere stability and regulation of mitotic recombination
-S000031598	CDS					YLR234W		12	609783	611753	W		2011-02-03	1996-07-31	
-S000004225	ORF	Dubious	YLR235C			chromosome 12		12	611930	611532	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORFs TOP3/YLR234W and YLR236C
-S000031634	CDS					YLR235C		12	611930	611532	C		2011-02-03	1996-07-31	
-S000004226	ORF	Dubious	YLR236C			chromosome 12		12	612117	611794	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YLR235C
-S000032651	CDS					YLR236C		12	612117	611794	C		2011-02-03	1996-07-31	
-S000004227	ORF	Verified	YLR237W	THI7	thiamine transporter THI7|THI10	chromosome 12	L000003514	12	612367	614163	W		2011-02-03	1996-07-31	Plasma membrane transporter responsible for the uptake of thiamine; contributes to uptake of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranoside (acadesine); member of the major facilitator superfamily of transporters; mutation of human ortholog causes thiamine-responsive megaloblastic anemia
-S000032815	CDS					YLR237W		12	612367	614163	W		2011-02-03	1996-07-31	
-S000004228	ORF	Verified	YLR238W	FAR10		chromosome 12		12	614755	616191	W		2011-02-03	1996-07-31	Protein involved in recovery from arrest in response to pheromone; acts in a cell cycle arrest recovery pathway independent from Far1p; interacts with Far3p, Far7p, Far8p, Far9p, and Far11p; potential Cdc28p substrate; FAR10 has a paralog, VPS64, that arose from the whole genome duplication
-S000033527	CDS					YLR238W		12	614755	616191	W		2011-02-03	1996-07-31	
-S000004229	ORF	Verified	YLR239C	LIP2	lipoyl(octanoyl) transferase LIP2	chromosome 12		12	617318	616332	C		2011-02-03	1996-07-31	Lipoyl ligase; involved in the modification of mitochondrial enzymes by the attachment of lipoic acid groups
-S000033564	CDS					YLR239C		12	617318	616332	C		2011-02-03	1996-07-31	
-S000004230	ORF	Verified	YLR240W	VPS34	phosphatidylinositol 3-kinase VPS34|VPS7|STT8|VPT29|VPL7|PEP15|END12	chromosome 12	L000002476	12	617533	620160	W		2011-02-03	1996-07-31	Phosphatidylinositol (PI) 3-kinase that synthesizes PI-3-phosphate; forms membrane-associated signal transduction complex with Vps15p to regulate protein sorting; activated by the GTP-bound form of Gpa1p; a fraction is localized, with Vps15p, to nuclear pores at nucleus-vacuole junctions and may facilitate transcription elongation for genes positioned at the nuclear periphery
-S000034710	CDS					YLR240W		12	617533	620160	W		2011-02-03	1996-07-31	
-S000004231	ORF	Verified	YLR241W	CSC1		chromosome 12		12	620473	622821	W		2011-02-03	1996-07-31	Calcium permeable gated cation channel; may be involved in detoxification; similar to Arabidopsis CSC1
-S000035645	CDS					YLR241W		12	620473	622821	W		2011-02-03	1996-07-31	
-S000130183	ARS		ARS1219			chromosome 12		12	623198	623861			2011-02-03	2009-05-08	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
-S000004232	ORF	Verified	YLR242C	ARV1	sterol homeostasis protein ARV1	chromosome 12	L000003505	12	623883	622918	C		2011-02-03	1996-07-31	Cortical ER protein; implicated in the membrane insertion of tail-anchored C-terminal single transmembrane domain proteins; may function in transport of glycosylphosphatidylinositol intermediates into the ER lumen; required for normal intracellular sterol distribution; human ARV1, required for normal cholesterol and bile acid homeostasis, can complement yeast arv1 null mutant; human variant causing early onset epileptic encephalopathy is unable to rescue the yeast null
-S000035677	CDS					YLR242C		12	623883	622918	C		2011-02-03	1996-07-31	
-S000004233	ORF	Verified	YLR243W	GPN3	putative signal sequence-binding GTPase GPN3	chromosome 12		12	624203	625021	W		2011-02-03	1996-07-31	Putative GTPase with a role in biogenesis of RNA pol II and polIII; may be involved in assembly of RNA polymerases II and III and in their transport into the nucleus; may have a role in sister chromatid cohesion; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; contains a Gly-Pro-Asn motif in the G domain; similar to Npa3p and Gpn2p
-S000035796	CDS					YLR243W		12	624203	625021	W		2011-02-03	1996-07-31	
-S000004234	ORF	Verified	YLR244C	MAP1	methionine aminopeptidase MAP1	chromosome 12	L000001025	12	626331	625168	C		2011-02-03	1996-07-31	Methionine aminopeptidase; catalyzes the cotranslational removal of N-terminal methionine from nascent polypeptides; function is partially redundant with that of Map2p
-S000035829	CDS					YLR244C		12	626331	625168	C		2011-02-03	1996-07-31	
-S000004235	ORF	Verified	YLR245C	CDD1	cytidine deaminase	chromosome 12	L000004644	12	626930	626502	C		2011-02-03	1996-07-31	Cytidine deaminase; catalyzes the modification of cytidine to uridine in vitro but native RNA substrates have not been identified, localizes to both the nucleus and cytoplasm
-S000035981	CDS					YLR245C		12	626930	626502	C		2011-02-03	1996-07-31	
-S000004236	ORF	Verified	YLR246W	ERF2	palmitoyltransferase ERF2	chromosome 12		12	627118	628197	W		2011-02-03	1996-07-31	Subunit of a palmitoyltransferase; this complex adds a palmitoyl lipid moiety to heterolipidated substrates such as Ras1p and Ras2p through a thioester linkage; mutants partially mislocalize Ras2p to the vacuole; palmitoyltransferase is composed of Erf2p and Shr5p
-S000036884	CDS					YLR246W		12	627118	628197	W		2011-02-03	1996-07-31	
-S000006643	tRNA_gene		tL(CAA)L			chromosome 12	L000003648	12	628383	628497	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000033796	intron					tL(CAA)L		12	628421	628453	W		2011-02-03	2000-05-19	
-S000033794	noncoding_exon					tL(CAA)L		12	628383	628420	W		2011-02-03	2000-05-19	
-S000033795	noncoding_exon					tL(CAA)L		12	628454	628497	W		2011-02-03	2000-05-19	
-S000004237	ORF	Verified	YLR247C	IRC20	E3 ubiquitin-protein ligase IRC20	chromosome 12		12	633354	628684	C		2011-02-03	1996-07-31	E3 ubiquitin ligase and putative helicase; involved in synthesis-dependent strand annealing-mediated homologous recombination; ensures precise end-joining along with Srs2p in the Yku70p/Yku80p/Lig4p-dependent nonhomologous end joining (NHEJ) pathway; localizes to both the mitochondrion and the nucleus; contains a Snf2/Swi2 family ATPase/helicase and a RING finger domain; interacts with Cdc48p and Smt3p; null mutant displays increased levels of spontaneous Rad52p foci
-S000036895	CDS					YLR247C		12	633354	628684	C		2011-02-03	1996-07-31	
-S000004238	ORF	Verified	YLR248W	RCK2	serine/threonine protein kinase RCK2|CMK3|CLK1	chromosome 12	L000001593	12	634252	636084	W		2011-02-03	1996-07-31	Protein kinase involved in response to oxidative and osmotic stress; identified as suppressor of S. pombe cell cycle checkpoint mutations; similar to CaM (calmodulin) kinases; RCK2 has a paralog, RCK1, that arose from the whole genome duplication
-S000037704	CDS					YLR248W		12	634252	636084	W		2011-02-03	1996-07-31	
-S000004239	ORF	Verified	YLR249W	YEF3	translation elongation factor EF-3|EF-3|eEF3|TEF3	chromosome 12	L000002505	12	636780	639914	W		2011-02-03	1996-07-31	Translation elongation factor 3; contains two ABC cassettes; binds and hydrolyzes ATP; YEF3 has a paralog, HEF3, that arose from the whole genome duplication
-S000037766	CDS					YLR249W		12	636780	639914	W		2011-02-03	1996-07-31	
-S000004240	ORF	Verified	YLR250W	SSP120		chromosome 12	L000002091	12	640317	641021	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
-S000030689	CDS					YLR250W		12	640317	641021	W		2011-02-03	1996-07-31	
-S000004241	ORF	Verified	YLR251W	SYM1	ethanol metabolism protein	chromosome 12		12	641464	642057	W		2011-02-03	1996-07-31	Protein required for ethanol metabolism; induced by heat shock and localized to the inner mitochondrial membrane; homologous to mammalian peroxisomal membrane protein Mpv17; human homolog MPV17 is implicated in hepatocerebral mtDNA depletion syndromes (MDDS), and complements yeast null mutant
-S000030794	CDS					YLR251W		12	641464	642057	W		2011-02-03	1996-07-31	
-S000004242	ORF	Dubious	YLR252W			chromosome 12		12	641957	642262	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SYM1, a mitochondrial protein involved in ethanol metabolism
-S000030890	CDS					YLR252W		12	641957	642262	W		2011-02-03	1996-07-31	
-S000004243	ORF	Verified	YLR253W	MCP2	MRX13	chromosome 12		12	642627	644336	W		2011-02-03	1996-07-31	Mitochondrial protein of unknown function involved in lipid homeostasis; associates with mitochondrial ribosome; integral membrane protein that localizes to the mitochondrial inner membrane; involved in mitochondrial morphology; non-essential gene which interacts genetically with MDM10, and other members of the ERMES complex; transcription is periodic during the metabolic cycle; homologous to human aarF domain containing kinase, ADCK1
-S000031890	CDS					YLR253W		12	642627	644336	W		2011-02-03	1996-07-31	
-S000004244	ORF	Verified	YLR254C	NDL1		chromosome 12		12	644973	644404	C		2011-02-03	1996-07-31	Homolog of nuclear distribution factor NudE; NUDEL; interacts with Pac1p and regulates dynein targeting to microtubule plus ends
-S000031972	CDS					YLR254C		12	644973	644404	C		2011-02-03	1996-07-31	
-S000004245	ORF	Dubious	YLR255C			chromosome 12		12	645953	645600	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032077	CDS					YLR255C		12	645953	645600	C		2011-02-03	1996-07-31	
-S000004246	ORF	Verified	YLR256W	HAP1	CYP1	chromosome 12	L000002665	12	646415	650923	W		2011-02-03	1996-07-31	Zinc finger transcription factor; involved in the complex regulation of gene expression in response to levels of heme and oxygen; localizes to the mitochondrion as well as to the nucleus; the S288C sequence differs from other strain backgrounds due to a Ty1 insertion in the carboxy terminus
-S000033058	CDS					YLR256W		12	646415	650923	W		2011-02-03	1996-07-31	
-S000007088	long_terminal_repeat		YLRWdelta13			chromosome 12		12	650824	651157	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007099	LTR_retrotransposon		YLRWTy1-3		Ty1	chromosome 12		12	650824	656743	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007377	transposable_element_gene		YLR256W-A		gag protein	chromosome 12		12	651117	652439	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000035661	CDS					YLR256W-A		12	651117	652439	W		2011-02-03	1999-07-17	
-S000007089	long_terminal_repeat		YLRWdelta14			chromosome 12		12	656410	656743	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006517	tRNA_gene		tA(AGC)L			chromosome 12	L000003660	12	657006	656934	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000032303	noncoding_exon					tA(AGC)L		12	657006	656934	C		2011-02-03	2000-05-19	
-S000007096	long_terminal_repeat		YLRWsigma3			chromosome 12		12	657022	657365	W		2011-02-03	2000-05-19	Ty3 LTR
-S000007090	long_terminal_repeat		YLRWdelta15			chromosome 12		12	657449	657767	W		2011-02-03	2000-05-19	Ty1 LTR
-S000004247	ORF	Verified	YLR257W			chromosome 12		12	658826	659791	W		2011-02-03	1996-07-31	Protein of unknown function; protein abundance increases in response to DNA replication stress
-S000033141	CDS					YLR257W		12	658826	659791	W		2011-02-03	1996-07-31	
-S000118478	ARS		ARS1220		ARSXII-660	chromosome 12		12	659884	659935			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178140	ARS_consensus_sequence					ARS1220		12	659892	659908	W		2014-11-18	2014-11-18	
-S000004248	ORF	Verified	YLR258W	GSY2	glycogen (starch) synthase GSY2	chromosome 12	L000000740	12	660716	662833	W		2011-02-03	1996-07-31	Glycogen synthase; expression induced by glucose limitation, nitrogen starvation, heat shock, and stationary phase; activity regulated by cAMP-dependent, Snf1p and Pho85p kinases as well as by the Gac1p-Glc7p phosphatase; GSY2 has a paralog, GSY1, that arose from the whole genome duplication; relocalizes from cytoplasm to plasma membrane upon DNA replication stress
-S000033909	CDS					YLR258W		12	660716	662833	W		2011-02-03	1996-07-31	
-S000004249	ORF	Verified	YLR259C	HSP60	chaperone ATPase HSP60|MNA2|MIF4|CPN60	chromosome 12	L000000819	12	665002	663284	C		2011-02-03	1996-07-31	Tetradecameric mitochondrial chaperonin; required for ATP-dependent folding of precursor polypeptides and complex assembly; prevents aggregation and mediates protein refolding after heat shock; role in mtDNA transmission; phosphorylated
-S000033960	CDS					YLR259C		12	665002	663284	C		2011-02-03	1996-07-31	
-S000004250	ORF	Verified	YLR260W	LCB5	sphinganine kinase LCB5	chromosome 12	L000004329	12	665844	667907	W		2011-02-03	1996-07-31	Minor sphingoid long-chain base kinase; possibly involved in synthesis of long-chain base phosphates, which function as signaling molecules; LCB5 has a paralog, LCB4, that arose from the whole genome duplication
-S000035015	CDS					YLR260W		12	665844	667907	W		2011-02-03	1996-07-31	
-S000004251	ORF	Uncharacterized	YLR261C	VPS63		chromosome 12		12	668563	668237	C		2011-02-03	1996-07-31	Putative protein of unknown function; not conserved in closely related Saccharomyces species; 98% of ORF overlaps the verified gene YPT6; deletion causes a vacuolar protein sorting defect; decreased levels of protein in enolase deficient mutant
-S000035062	CDS					YLR261C		12	668563	668237	C		2011-02-03	1996-07-31	
-S000004252	ORF	Verified	YLR262C	YPT6	Rab family GTPase YPT6	chromosome 12	L000002896|L000002948	12	668891	668244	C		2011-02-03	1996-07-31	Rab family GTPase; required for endosome-to-Golgii, intra-Golgi retrograde, and retrograde Golgi-to-ER transport; temporarily at the Golgi, dissociating into the cytosol on arrival of the late Golgi GTPase Ypt32p; Golgi-localized form is GTP bound, while cytosolic form is GDP-bound; required for delivery of Atg9p to the phagophore assembly site during autophagy under heat stress, with Ypt6p for starvation induced autophagy and for the CVT pathway; homolog of mammalian Rab6
-S000035164	CDS					YLR262C		12	668891	668244	C		2011-02-03	1996-07-31	
-S000007246	ORF	Verified	YLR262C-A	TMA7	RBF7	chromosome 12		12	669662	669468	C		2011-02-03	1999-07-17	Protein of unknown that associates with ribosomes; null mutant exhibits translation defects, altered polyribosome profiles, and resistance to the translation inhibitor anisomcyin; protein abundance increases in response to DNA replication stress
-S000036510	CDS					YLR262C-A		12	669662	669468	C		2011-02-03	1999-07-17	
-S000004253	ORF	Verified	YLR263W	RED1		chromosome 12	L000001608	12	670340	672823	W		2011-02-03	1996-07-31	Protein component of the synaptonemal complex axial elements; involved in chromosome segregation during the first meiotic division; critical for coupling checkpoint signaling to SC formation; promotes interhomolog recombination by phosphorylating Hop1p; also interacts with Mec3p and Ddc1p
-S000036094	CDS					YLR263W		12	670340	672823	W		2011-02-03	1996-07-31	
-S000004254	ORF	Verified	YLR264W	RPS28B	eS28|ribosomal 40S subunit protein S28B|S28e|YS27|S33B|S28B|RPS33B	chromosome 12	L000002744	12	673131	673334	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S28, no bacterial homolog; has an extraribosomal function in autoregulation, in which Rps28Bp binds to a decapping complex via Edc3p, which then binds to RPS28B mRNA leading to its decapping and degradation; RPS28B has a paralog, RPS28A, that arose from the whole genome duplication
-S000036202	CDS					YLR264W		12	673131	673334	W		2011-02-03	1996-07-31	
-S000028808	ORF	Uncharacterized	YLR264C-A			chromosome 12		12	673944	673828	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000033593	CDS					YLR264C-A		12	673944	673828	C		2011-02-03	2003-07-29	
-S000004255	ORF	Verified	YLR265C	NEJ1	LIF2	chromosome 12		12	675455	674427	C		2011-02-03	1996-07-31	Protein involved in regulation of nonhomologous end joining; interacts with DNA ligase IV components Dnl4p and Lif1p; repressed by MAT heterozygosity; regulates cellular distribution of Lif1p
-S000036242	CDS					YLR265C		12	675455	674427	C		2011-02-03	1996-07-31	
-S000004256	ORF	Verified	YLR266C	PDR8		chromosome 12		12	677724	675619	C		2011-02-03	1996-07-31	Transcription factor; targets include ATP-binding cassette (ABC) transporters, major facilitator superfamily transporters, and other genes involved in the pleiotropic drug resistance (PDR) phenomenon; PDR8 has a paralog, YRR1, that arose from the whole genome duplication
-S000031731	CDS					YLR266C		12	677724	675619	C		2011-02-03	1996-07-31	
-S000004257	ORF	Uncharacterized	YLR267W	BOP2		chromosome 12	L000004722	12	678212	679924	W		2011-02-03	1996-07-31	Protein of unknown function
-S000031962	CDS					YLR267W		12	678212	679924	W		2011-02-03	1996-07-31	
-S000004258	ORF	Verified	YLR268W	SEC22	SNAP receptor SEC22|TS26|TSL26|SLY2	chromosome 12	L000001845|S000029606|L000002362	12	680200	680844	W		2011-02-03	1996-07-31	R-SNARE protein; assembles into SNARE complex with Bet1p, Bos1p and Sed5p; cycles between the ER and Golgi complex; involved in anterograde and retrograde transport between the ER and Golgi; synaptobrevin homolog
-S000037429	CDS					YLR268W		12	680200	680844	W		2011-02-03	1996-07-31	
-S000004260	ORF	Verified	YLR270W	DCS1	5'-(N(7)-methyl 5'-triphosphoguanosine)-(mRNA) diphosphatase|DcpS	chromosome 12		12	681186	682238	W		2011-02-03	1996-07-31	Non-essential hydrolase involved in mRNA decapping; activates Xrn1p; may function in a feedback mechanism to regulate deadenylation, contains pyrophosphatase activity and a HIT (histidine triad) motif; acts as inhibitor of neutral trehalase Nth1p; required for growth on glycerol medium; protein abundance increases in response to DNA replication stress; DCS1 has a paralog, DCS2, that arose from the whole genome duplication
-S000037138	CDS					YLR270W		12	681186	682238	W		2011-02-03	1996-07-31	
-S000004259	ORF	Dubious	YLR269C			chromosome 12		12	681216	680866	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037460	CDS					YLR269C		12	681216	680866	C		2011-02-03	1996-07-31	
-S000004261	ORF	Uncharacterized	YLR271W	CMG1		chromosome 12		12	682737	683561	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus and is induced in response to the DNA-damaging agent MMS
-S000037234	CDS					YLR271W		12	682737	683561	W		2011-02-03	1996-07-31	
-S000004262	ORF	Verified	YLR272C	YCS4	condensin subunit YCS4|LOC7	chromosome 12		12	687202	683672	C		2011-02-03	1996-07-31	Subunit of the condensin complex; required for establishment and maintenance of chromosome condensation, chromosome segregation, chromatin binding of condensin, tRNA gene clustering at the nucleolus, and silencing at the mating type locus; required for replication slow zone (RSZ) breakage following Mec1p inactivation
-S000037272	CDS					YLR272C		12	687202	683672	C		2011-02-03	1996-07-31	
-S000006762	tRNA_gene		tV(AAC)L			chromosome 12	L000003659	12	687932	687859	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000032966	noncoding_exon					tV(AAC)L		12	687932	687859	C		2011-02-03	2000-05-19	
-S000007071	long_terminal_repeat		YLRCdelta16			chromosome 12		12	688368	688119	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007091	long_terminal_repeat		YLRWdelta17			chromosome 12		12	688369	688664	W		2011-02-03	2000-05-19	Ty1 LTR
-S000004263	ORF	Verified	YLR273C	PIG1	protein phosphatase regulator PIG1	chromosome 12	L000001436	12	691029	689083	C		2011-02-03	1996-07-31	Putative targeting subunit for type-1 protein phosphatase Glc7p; tethers Glc7p to Gsy2p glycogen synthase; PIG1 has a paralog, GAC1, that arose from the whole genome duplication
-S000037347	CDS					YLR273C		12	691029	689083	C		2011-02-03	1996-07-31	
-S000004264	ORF	Verified	YLR274W	MCM5	MCM DNA helicase complex subunit MCM5|CDC46|BOB1	chromosome 12	L000000279	12	691555	693882	W		2011-02-03	1996-07-31	Component of the Mcm2-7 hexameric helicase complex; MCM complex is important for priming origins of DNA replication in G1 and becomes an active ATP-dependent helicase that promotes DNA melting and elongation when activated by Cdc7p-Dbf4p in S-phase
-S000030019	CDS					YLR274W		12	691555	693882	W		2011-02-03	1996-07-31	
-S000004265	ORF	Verified	YLR275W	SMD2	mRNA splicing protein SMD2|Sm D2	chromosome 12	L000004145	12	694378	694800	W		2011-02-03	1996-07-31	Core Sm protein Sm D2; part of heteroheptameric complex (with Smb1p, Smd1p, Smd3p, Sme1p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm D2
-S000030096	CDS					YLR275W		12	694378	694382	W		2011-02-03	1996-07-31	
-S000030097	CDS					YLR275W		12	694473	694800	W		2011-02-03	1996-07-31	
-S000030098	intron					YLR275W		12	694383	694472	W		2011-02-03	1996-07-31	
-S000004266	ORF	Verified	YLR276C	DBP9	ATP-dependent DNA/RNA helicase	chromosome 12	L000004249	12	696830	695046	C		2011-02-03	1996-07-31	DEAD-box protein required for 27S rRNA processing; exhibits DNA, RNA and DNA/RNA helicase activities; ATPase activity shows preference for DNA over RNA; DNA helicase activity abolished by mutation in RNA-binding domain
-S000030144	CDS					YLR276C		12	696830	695046	C		2011-02-03	1996-07-31	
-S000004267	ORF	Verified	YLR277C	YSH1	cleavage polyadenylation factor subunit YSH1|BRR5	chromosome 12	L000003344	12	699495	697156	C		2011-02-03	1996-07-31	Endoribonuclease; subunit of the mRNA cleavage and polyadenylation specificity complex; required for 3' processing, splicing, and transcriptional termination of mRNAs and snoRNAs; protein abundance increases in response to DNA replication stress; YSH1 has a paralog, SYC1, that arose from the whole genome duplication
-S000030344	CDS					YLR277C		12	699495	697156	C		2011-02-03	1996-07-31	
-S000004268	ORF	Uncharacterized	YLR278C			chromosome 12		12	704024	699999	C		2011-02-03	1996-07-31	Zinc-cluster protein; GFP-fusion protein localizes to the nucleus; mutant shows moderate growth defect on caffeine; has a prion-domain like fragment that increases frequency of [URE3]; YLR278C is not an essential gene
-S000033636	CDS					YLR278C		12	704024	699999	C		2011-02-03	1996-07-31	
-S000004269	ORF	Dubious	YLR279W			chromosome 12		12	704309	704698	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033857	CDS					YLR279W		12	704309	704698	W		2011-02-03	1996-07-31	
-S000004270	ORF	Dubious	YLR280C			chromosome 12		12	704833	704483	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033385	CDS					YLR280C		12	704833	704483	C		2011-02-03	1996-07-31	
-S000004271	ORF	Uncharacterized	YLR281C			chromosome 12		12	704960	704493	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YLR281C is not an essential gene
-S000033456	CDS					YLR281C		12	704960	704493	C		2011-02-03	1996-07-31	
-S000004273	ORF	Uncharacterized	YLR283W			chromosome 12		12	705186	706130	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YLR283W is not an essential gene
-S000034433	CDS					YLR283W		12	705186	706130	W		2011-02-03	1996-07-31	
-S000004272	ORF	Dubious	YLR282C			chromosome 12		12	705412	705071	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion mutation confers an increase in Ty1 transposition
-S000033516	CDS					YLR282C		12	705412	705071	C		2011-02-03	1996-07-31	
-S000004274	ORF	Verified	YLR284C	ECI1	dodecenoyl-CoA isomerase	chromosome 12	L000004206	12	707040	706198	C		2011-02-03	1996-07-31	Peroxisomal delta3,delta2-enoyl-CoA isomerase; hexameric protein that converts 3-hexenoyl-CoA to trans-2-hexenoyl-CoA, essential for the beta-oxidation of unsaturated fatty acids, oleate-induced; ECI1 has a paralog, DCI1, that arose from the whole genome duplication
-S000034471	CDS					YLR284C		12	707040	706198	C		2011-02-03	1996-07-31	
-S000004275	ORF	Verified	YLR285W	NNT1	EFM7|S-adenosylmethionine-dependent methyltransferase	chromosome 12		12	707360	708145	W		2011-02-03	1996-07-31	S-adenosylmethionine-dependent methyltransferase; novel N-terminal protein methyltransferase that trimethylates the N-terminal glycine residue (G2) and also dimethylates lysine (K3) on elongation factor eEF1A (Tef1p/Tef2p); has a role in rDNA silencing and in lifespan determination
-S000034643	CDS					YLR285W		12	707360	708145	W		2011-02-03	1996-07-31	
-S000028569	ORF	Uncharacterized	YLR285C-A			chromosome 12		12	708338	708168	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031275	CDS					YLR285C-A		12	708338	708168	C		2011-02-03	2003-07-29	
-S000028679	ORF	Dubious	YLR286W-A			chromosome 12		12	708562	708696	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene CTS1
-S000032537	CDS					YLR286W-A		12	708562	708696	W		2011-02-03	2003-07-29	
-S000004276	ORF	Verified	YLR286C	CTS1	SCW2	chromosome 12	L000000434|S000029435|L000004563	12	710136	708448	C		2011-02-03	1996-07-31	Endochitinase; required for cell separation after mitosis; transcriptional activation during the G1 phase of the cell cycle is mediated by transcription factor Ace2p
-S000034680	CDS					YLR286C		12	710136	708448	C		2011-02-03	1996-07-31	
-S000004277	ORF	Uncharacterized	YLR287C			chromosome 12		12	712058	710991	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLR287C is not an essential gene
-S000035680	CDS					YLR287C		12	712058	710991	C		2011-02-03	1996-07-31	
-S000004278	ORF	Verified	YLR287C-A	RPS30A	eS30|ribosomal 40S subunit protein S30A|S30e|S30A	chromosome 12	L000003183	12	713158	712537	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S30, no bacterial homolog; RPS30A has a paralog, RPS30B, that arose from the whole genome duplication
-S000030932	CDS					YLR287C-A		12	712725	712537	C		2011-02-03	1996-07-31	
-S000030931	CDS					YLR287C-A		12	713158	713156	C		2011-02-03	1996-07-31	
-S000030933	intron					YLR287C-A		12	713155	712726	C		2011-02-03	1996-07-31	
-S000004279	ORF	Verified	YLR288C	MEC3	PSO9|PIP3	chromosome 12	L000002907	12	714904	713480	C		2011-02-03	1996-07-31	DNA damage and meiotic pachytene checkpoint protein; subunit of a heterotrimeric complex (Rad17p-Mec3p-Ddc1p) that forms a sliding clamp, loaded onto partial duplex DNA by a clamp loader complex; homolog of human and S. pombe Hus1
-S000035804	CDS					YLR288C		12	714904	713480	C		2011-02-03	1996-07-31	
-S000004280	ORF	Verified	YLR289W	GUF1	GTPase GUF1	chromosome 12	L000002749	12	715089	717026	W		2011-02-03	1996-07-31	Mitochondrial matrix GTPase; associates with mitochondrial ribosomes; important for translation under temperature and nutrient stress; may have a role in translational fidelity; similar to bacterial LepA elongation factor
-S000037787	CDS					YLR289W		12	715089	717026	W		2011-02-03	1996-07-31	
-S000004281	ORF	Verified	YLR290C	COQ11	ubiquinone biosynthesis protein COQ11|MRX2	chromosome 12		12	717978	717145	C		2011-02-03	1996-07-31	Putative oxidoreductase, subunit of Coenzyme Q biosynthetic complexes; required for synthesis of wild-type levels of Coenzyme Q (ubiquinone); member of the short-chain dehydrogenase/reductase (SDR) superfamily; orthologous gene in some other fungi is fused to the COQ10 ortholog
-S000036802	CDS					YLR290C		12	717978	717145	C		2011-02-03	1996-07-31	
-S000004282	ORF	Verified	YLR291C	GCD7	translation initiation factor eIF2B subunit beta	chromosome 12	L000000675	12	719462	718317	C		2011-02-03	1996-07-31	Beta subunit of the translation initiation factor eIF2B; the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression; human homolog EIF2B2 can complement yeast mutant, allows growth down-regulation of yeast gene
-S000036871	CDS					YLR291C		12	719462	718317	C		2011-02-03	1996-07-31	
-S000004283	ORF	Verified	YLR292C	SEC72	Sec63 complex subunit SEC72|SIM2|SEC67	chromosome 12	L000001857	12	720370	719789	C		2011-02-03	1996-07-31	Non-essential subunit of Sec63 complex; with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER; other members are Sec63p, Sec62p, and Sec66p
-S000037611	CDS					YLR292C		12	720370	719789	C		2011-02-03	1996-07-31	
-S000130184	ARS		ARS1221			chromosome 12		12	720784	721418			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000004284	ORF	Verified	YLR293C	GSP1	Ran GTPase GSP1|CST17|CNR1	chromosome 12	L000000736	12	721430	720771	C		2011-02-03	1996-07-31	Ran GTPase; GTP binding protein (mammalian Ranp homolog) involved in the maintenance of nuclear organization, RNA processing and transport; regulated by Srm1p, Rna1p, Yrb1p, Yrb2p, Yrp4p, Yrb30p, Cse1p and Kap95p; GSP1 has a paralog, GSP2, that arose from the whole genome duplication
-S000037671	CDS					YLR293C		12	721430	720771	C		2011-02-03	1996-07-31	
-S000004285	ORF	Dubious	YLR294C			chromosome 12		12	722030	721701	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene ATP14
-S000037718	CDS					YLR294C		12	722030	721701	C		2011-02-03	1996-07-31	
-S000004286	ORF	Verified	YLR295C	ATP14	F1F0 ATP synthase subunit h	chromosome 12	L000003379	12	722373	721999	C		2011-02-03	1996-07-31	Subunit h of the F0 sector of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; protein abundance increases in response to DNA replication stress
-S000037778	CDS					YLR295C		12	722373	721999	C		2011-02-03	1996-07-31	
-S000004287	ORF	Dubious	YLR296W			chromosome 12		12	722978	723304	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030715	CDS					YLR296W		12	722978	723304	W		2011-02-03	1996-07-31	
-S000004288	ORF	Verified	YLR297W			chromosome 12		12	724044	724433	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; not an essential gene; induced by treatment with 8-methoxypsoralen and UVA irradiation; relocalizes from nucleus to vacuole upon DNA replication stress; YLR297W has a paralog, YOR186W, that arose from the whole genome duplication
-S000030831	CDS					YLR297W		12	724044	724433	W		2011-02-03	1996-07-31	
-S000004289	ORF	Verified	YLR298C	YHC1	U1C|U1-C	chromosome 12	L000004161	12	725416	724721	C		2011-02-03	1996-07-31	Component of the U1 snRNP complex required for pre-mRNA splicing; putative ortholog of human U1C protein, which is involved in formation of a complex between U1 snRNP and the pre-mRNA 5' splice site
-S000030863	CDS					YLR298C		12	725416	724721	C		2011-02-03	1996-07-31	
-S000004290	ORF	Verified	YLR299W	ECM38	gamma-glutamyltransferase|CIS2	chromosome 12	L000003905	12	726069	728051	W		2011-02-03	1996-07-31	Gamma-glutamyltranspeptidase; major glutathione-degrading enzyme; involved in detoxification of electrophilic xenobiotics; expression induced mainly by nitrogen starvation
-S000031951	CDS					YLR299W		12	726069	728051	W		2011-02-03	1996-07-31	
-S000028680	ORF	Dubious	YLR299C-A			chromosome 12		12	728003	727911	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene ECM38
-S000032551	CDS					YLR299C-A		12	728003	727911	C		2011-02-03	2003-07-29	
-S000004291	ORF	Verified	YLR300W	EXG1	glucan 1,3-beta-glucosidase|SCW6|BGL1	chromosome 12	L000000592|S000029437|L000004567	12	728955	730301	W	206	2011-02-03	1996-07-31	Major exo-1,3-beta-glucanase of the cell wall; involved in cell wall beta-glucan assembly; exists as three differentially glycosylated isoenzymes; EXG1 has a paralog, SPR1, that arose from the whole genome duplication
-S000030080	CDS					YLR300W		12	728955	730301	W		2011-02-03	1996-07-31	
-S000004292	ORF	Verified	YLR301W	HRI1		chromosome 12		12	730825	731559	W		2011-02-03	1996-07-31	Protein of unknown function that interacts with Sec72p and Hrr25p
-S000030226	CDS					YLR301W		12	730825	731559	W		2011-02-03	1996-07-31	
-S000007072	long_terminal_repeat		YLRCdelta18			chromosome 12		12	732000	731668	C		2011-02-03	2000-05-19	Ty2 LTR
-S000006656	tRNA_gene		tL(UAG)L2			chromosome 12	L000003649	12	732090	732190	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000035006	intron					tL(UAG)L2		12	732128	732146	W		2011-02-03	2000-05-19	
-S000035004	noncoding_exon					tL(UAG)L2		12	732090	732127	W		2011-02-03	2000-05-19	
-S000035005	noncoding_exon					tL(UAG)L2		12	732147	732190	W		2011-02-03	2000-05-19	
-S000004294	ORF	Verified	YLR303W	MET17	bifunctional cysteine synthase/O-acetylhomoserine aminocarboxypropyltransferase MET17|MET25|MET15	chromosome 12	L000001091|L000001088	12	732542	733876	W		2011-02-03	1996-07-31	O-acetyl homoserine-O-acetyl serine sulfhydrylase; required for Methionine and cysteine biosynthesis
-S000030497	CDS					YLR303W		12	732542	733876	W		2011-02-03	1996-07-31	
-S000004293	ORF	Dubious	YLR302C			chromosome 12		12	732553	732191	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030295	CDS					YLR302C		12	732553	732191	C		2011-02-03	1996-07-31	
-S000007073	long_terminal_repeat		YLRCdelta19			chromosome 12		12	734671	734501	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006607	tRNA_gene		tI(AAU)L1			chromosome 12	L000003650	12	734802	734875	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000033931	noncoding_exon					tI(AAU)L1		12	734802	734875	W		2011-02-03	2000-05-19	
-S000004295	ORF	Verified	YLR304C	ACO1	aconitate hydratase ACO1|GLU1	chromosome 12	L000000022	12	737548	735212	C		2011-02-03	1996-07-31	Aconitase; required for the tricarboxylic acid (TCA) cycle and also independently required for mitochondrial genome maintenance; component of the mitochondrial nucleoid; mutation leads to glutamate auxotrophy; human homolog ACO2 can complement yeast null mutant
-S000031331	CDS					YLR304C		12	737548	735212	C		2011-02-03	1996-07-31	
-S000004296	ORF	Verified	YLR305C	STT4	1-phosphatidylinositol 4-kinase STT4	chromosome 12	L000002137	12	743863	738161	C		2011-02-03	1996-07-31	Phosphatidylinositol-4-kinase; functions in the Pkc1p protein kinase pathway; required for normal vacuole morphology, cell wall integrity, and actin cytoskeleton organization
-S000031384	CDS					YLR305C		12	743863	738161	C		2011-02-03	1996-07-31	
-S000004297	ORF	Verified	YLR306W	UBC12	NEDD8-conjugating protein UBC12	chromosome 12	L000003386	12	744151	744851	W		2011-02-03	1996-07-31	Enzyme that mediates the conjugation of Rub1p; a ubiquitin-like protein, to other proteins; related to E2 ubiquitin-conjugating enzymes
-S000031518	CDS					YLR306W		12	744151	744153	W		2011-02-03	1996-07-31	
-S000031519	CDS					YLR306W		12	744288	744851	W		2011-02-03	1996-07-31	
-S000031520	intron					YLR306W		12	744154	744287	W		2011-02-03	1996-07-31	
-S000118479	ARS		ARS1223		ARSXII-745	chromosome 12		12	744943	745179			2011-02-03	2006-08-30	Autonomously Replicating Sequence; replication capacity dependent upon Sum1p
-S000178141	ARS_consensus_sequence					ARS1223		12	745116	745100	C		2014-11-18	2014-11-18	
-S000004298	ORF	Verified	YLR307W	CDA1	chitin deacetylase CDA1	chromosome 12	L000003112	12	745620	746525	W		2011-02-03	1996-07-31	Chitin deacetylase; together with Cda2p involved in the biosynthesis ascospore wall component, chitosan; required for proper rigidity of the ascospore wall
-S000031600	CDS					YLR307W		12	745620	746525	W		2011-02-03	1996-07-31	
-S000028525	ORF	Uncharacterized	YLR307C-A			chromosome 12		12	747111	746848	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000030327	CDS					YLR307C-A		12	747111	746848	C		2011-02-03	2003-07-29	
-S000004299	ORF	Verified	YLR308W	CDA2	chitin deacetylase CDA2	chromosome 12	L000003113	12	747937	748875	W		2011-02-03	1996-07-31	Chitin deacetylase; together with Cda1p involved in the biosynthesis ascospore wall component, chitosan; required for proper rigidity of the ascospore wall
-S000032597	CDS					YLR308W		12	747937	748875	W		2011-02-03	1996-07-31	
-S000004300	ORF	Verified	YLR309C	IMH1	SYS3	chromosome 12	L000003981	12	751769	749034	C		2011-02-03	1996-07-31|2011-02-03	Protein involved in vesicular transport; mediates transport between an endosomal compartment and the Golgi, contains a Golgi-localization (GRIP) domain that interacts with activated Arl1p-GTP to localize Imh1p to the Golgi
-S000032653	CDS					YLR309C		12	751769	749034	C		2011-02-03	1996-07-31|2011-02-03	
-S000004301	ORF	Verified	YLR310C	CDC25	Ras family guanine nucleotide exchange factor CDC25|CDC25'|CTN1	chromosome 12	L000000264|L000000263	12	756993	752224	C	213	2011-02-03	1996-07-31	Membrane bound guanine nucleotide exchange factor; also known as a GEF or GDP-release factor; indirectly regulates adenylate cyclase through activation of Ras1p and Ras2p by stimulating the exchange of GDP for GTP; required for progression through G1; thermosensitivity of the cdc25-5 mutant is functionally complemented by human RASGRF1 or by a fragment of human SOS1 comprising the CDC25-related catalytic domain
-S000032496	CDS					YLR310C		12	756993	752224	C		2011-02-03	1996-07-31	
-S000004302	ORF	Dubious	YLR311C			chromosome 12		12	757612	757265	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034499	CDS					YLR311C		12	757612	757265	C		2011-02-03	1996-07-31	
-S000004303	ORF	Verified	YLR312C	ATG39	QNQ1	chromosome 12		12	758833	757637	C		2011-02-03	1996-07-31	Autophagy receptor with a role in degradation of the ER and nucleus; involved specifically in autophagy of perinuclear endoplasmic reticulum in response to nitrogen starvation or rapamycin treatment; localizes to the perinuclear ER
-S000034606	CDS					YLR312C		12	758833	757637	C		2011-02-03	1996-07-31	
-S000004304	ORF	Verified	YLR312W-A	MRPL15	mitochondrial 54S ribosomal protein YmL15|YmL15	chromosome 12	L000002688	12	759480	760241	W		2011-02-03	2001-06-12|1997-07-01|2006-10-03	Mitochondrial ribosomal protein of the large subunit
-S000037404	CDS					YLR312W-A		12	759480	760241	W		2011-02-03	1997-07-01|2006-10-03	
-S000004305	ORF	Verified	YLR313C	SPH1	YLR312C-B	chromosome 12	L000004149	12	762342	760750	C		2011-02-03	2004-02-05|1996-07-31|2011-02-03	Protein involved in shmoo formation and bipolar bud site selection; localizes to sites of polarized growth in a cell cycle dependent- and Spa2p-dependent manner, interacts with MAPKKs Mkk1p, Mkk2p, and Ste7p; SPH1 has a paralog, SPA2, that arose from the whole genome duplication
-S000034673	CDS					YLR313C		12	762342	760750	C		2011-02-03	2004-02-05|1996-07-31|2011-02-03	
-S000004306	ORF	Verified	YLR314C	CDC3	septin CDC3	chromosome 12	L000000243	12	764137	762575	C	215	2004-02-05	1996-07-31|2011-02-03	Component of the septin ring that is required for cytokinesis; septins are GTP-binding proteins that assemble with other septins into rod-like complexes that can associate with other rods to form filament polymers; septin rings at the mother-bud neck act as scaffolds for recruiting factors needed for cell division and as barriers to prevent diffusion of specific proteins between mother and daughter cells
-S000034752	CDS					YLR314C		12	764137	762575	C		2004-02-05	1996-07-31|2011-02-03	
-S000004307	ORF	Verified	YLR315W	NKP2		chromosome 12		12	764808	765269	W		2004-02-05	1996-07-31	Central kinetochore protein and subunit of the Ctf19 complex; mutants have elevated rates of chromosome loss; orthologous to fission yeast kinetochore protein cnl2
-S000035712	CDS					YLR315W		12	764808	765269	W		2004-02-05	1996-07-31	
-S000004309	ORF	Dubious	YLR317W			chromosome 12		12	765655	766089	W		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; may be part of a bicistronic transcript with NKP2/YLR315W; overlaps the verified ORF TAD3/YLR316C
-S000035934	CDS					YLR317W		12	765655	766089	W		2004-02-05	1996-07-31	
-S000004308	ORF	Verified	YLR316C	TAD3		chromosome 12	S000007486	12	766358	765266	C		2004-02-05	2000-07-22|1996-07-31	Subunit of tRNA-specific adenosine-34 deaminase; forms a heterodimer with Tad2p that converts adenosine to inosine at the wobble position of several tRNAs
-S000035749	CDS					YLR316C		12	766073	765266	C		2004-02-05	2000-07-22|1996-07-31	
-S000035748	CDS					YLR316C		12	766181	766130	C		2004-02-05	2000-07-22	
-S000035747	CDS					YLR316C		12	766358	766250	C		2004-02-05	2000-07-22	
-S000035751	intron					YLR316C		12	766129	766074	C		2004-02-05	2000-07-22	
-S000035750	intron					YLR316C		12	766249	766182	C		2004-02-05	2000-07-22	
-S000004310	ORF	Verified	YLR318W	EST2	TERT	chromosome 12	L000003504	12	766542	769196	W		2004-02-05	1996-07-31|2011-02-03	Reverse transcriptase subunit of the telomerase holoenzyme; essential for telomerase core catalytic activity, involved in other aspects of telomerase assembly and function; mutations in human homolog are associated with aplastic anemia
-S000036808	CDS					YLR318W		12	766542	769196	W		2004-02-05	1996-07-31|2011-02-03	
-S000004311	ORF	Verified	YLR319C	BUD6	AIP3	chromosome 12	L000000071|L000002602	12	771684	769318	C	221	2004-02-05	1996-07-31	Actin- and formin-interacting protein; participates in actin cable assembly and organization as a nucleation-promoting factor (NPF) for formins Bni1p and Bnr1p; a triple helical coiled-coil domain in the C-terminal region interacts with Bni1p; involved in polarized cell growth; isolated as bipolar budding mutant; potential Cdc28p substrate
-S000036838	CDS					YLR319C		12	771684	769318	C		2004-02-05	1996-07-31	
-S000004312	ORF	Verified	YLR320W	MMS22	SLM2	chromosome 12		12	771940	776304	W		2004-02-05	1996-07-31	Subunit of E3 ubiquitin ligase complex involved in replication repair; stabilizes protein components of the replication fork, such as the fork-pausing complex and leading strand polymerase, preventing fork collapse and promoting efficient recovery during replication stress; required for accurate meiotic chromosome segregation
-S000036604	CDS					YLR320W		12	771940	776304	W		2004-02-05	1996-07-31	
-S000004314	ORF	Dubious	YLR322W	VPS65		chromosome 12		12	777628	777942	W		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 75% of ORF overlaps the verified gene SFH1; deletion causes a vacuolar protein sorting defect and blocks anaerobic growth
-S000036774	CDS					YLR322W		12	777628	777942	W		2004-02-05	1996-07-31	
-S000004313	ORF	Verified	YLR321C	SFH1		chromosome 12	L000003282	12	777864	776584	C		2004-02-05	1996-07-31	Component of the RSC chromatin remodeling complex; essential gene required for cell cycle progression and maintenance of proper ploidy; phosphorylated in the G1 phase of the cell cycle; Snf5p paralog; hSNF5 tumor suppressor ortholog
-S000036636	CDS					YLR321C		12	777864	776584	C		2004-02-05	1996-07-31	
-S000004315	ORF	Verified	YLR323C	CWC24	U2-type spliceosomal complex subunit CWC24	chromosome 12		12	778952	778173	C		2004-02-05	1996-07-31	General splicing factor; required for stable U2 snRNP binding to primary transcripts; essential for the first step of splicing; component of the pre-catalytic spliceosome complex containing Cef1p; similar to S. pombe Cwf24p
-S000030574	CDS					YLR323C		12	778952	778173	C		2004-02-05	1996-07-31	
-S000004316	ORF	Verified	YLR324W	PEX30	peroxisome biogenesis protein	chromosome 12		12	779215	780786	W		2004-02-05	1996-07-31	ER-resident protein involved in peroxisomal biogenesis; ER-localized protein that associates with peroxisomes; interacts with Pex29p and reticulons Rtn1p and Yop1p to regulate peroxisome biogenesis from the ER; role in peroxisomal-destined vesicular flow from the ER; partially redundant with Pex31p; may function at a step downstream of steps mediated by Pex28p and Pex29p; PEX30 has a paralog, PEX31, that arose from the whole genome duplication
-S000030797	CDS					YLR324W		12	779215	780786	W		2004-02-05	1996-07-31	
-S000004317	ORF	Verified	YLR325C	RPL38	eL38|ribosomal 60S subunit protein L38|L38e|L38	chromosome 12	L000004468	12	781379	781143	C		2004-02-05	1996-07-31	Ribosomal 60S subunit protein L38; homologous to mammalian ribosomal protein L38, no bacterial homolog
-S000030800	CDS					YLR325C		12	781379	781143	C		2004-02-05	1996-07-31	
-S000004318	ORF	Uncharacterized	YLR326W			chromosome 12		12	782174	782896	W		2004-02-05	1996-07-31	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cell periphery; predicted to be palmitoylated
-S000031891	CDS					YLR326W		12	782174	782896	W		2004-02-05	1996-07-31	
-S000004319	ORF	Verified	YLR327C	TMA10	RBF9|SFL2	chromosome 12		12	783387	783127	C		2004-02-05	1996-07-31	Protein of unknown function that associates with ribosomes; protein abundance increases in response to DNA replication stress; TMA10 has a paralog, STF2, that arose from the whole genome duplication
-S000031973	CDS					YLR327C		12	783387	783127	C		2004-02-05	1996-07-31	
-S000006732	tRNA_gene		tX(XXX)L		tS(GCU)L	chromosome 12	L000003651	12	784354	784453	W		2004-02-05	2000-05-19	tRNA of undetermined specificity, predicted by tRNAscan-SE analysis; very similar to serine tRNAs
-S000037471	intron					tX(XXX)L		12	784390	784409	W		2004-02-05	2000-05-19	
-S000037469	noncoding_exon					tX(XXX)L		12	784354	784389	W		2004-02-05	2000-05-19	
-S000037470	noncoding_exon					tX(XXX)L		12	784410	784453	W		2004-02-05	2000-05-19	
-S000004320	ORF	Verified	YLR328W	NMA1	nicotinamide-nucleotide adenylyltransferase NMA1	chromosome 12		12	784913	786118	W		2004-02-05	1996-07-31	Nicotinic acid mononucleotide adenylyltransferase; catalyzes the transfer of the adenylyl moiety of ATP to nicotinamide mononucleotide to form NAD; involved in pathways of NAD biosynthesis, including the de novo, NAD(+) salvage, and nicotinamide riboside salvage pathways; homolog of human NMNAT; NMA1 has a paralog, NMA2, that arose from the whole genome duplication
-S000032965	CDS					YLR328W		12	784913	786118	W		2004-02-05	1996-07-31	
-S000004321	ORF	Verified	YLR329W	REC102		chromosome 12	L000001604	12	786442	787333	W	235	2006-01-09	1996-07-31|2006-01-09	Protein involved in early stages of meiotic recombination; required for chromosome synapsis; forms a complex with Rec104p and Spo11p necessary during the initiation of recombination
-S000113993	CDS					YLR329W		12	786442	786615	W		2006-01-09	2006-01-09	
-S000033059	CDS					YLR329W		12	786713	787333	W		2006-01-09	1996-07-31|2006-01-09	
-S000113994	intron					YLR329W		12	786616	786712	W		2006-01-09	2006-01-09	
-S000004322	ORF	Verified	YLR330W	CHS5	CAL3	chromosome 12	L000000333	12	787664	789679	W		2004-02-05	1996-07-31	Component of the exomer complex; the exomer which also contains Csh6p, Bch1p, Bch2p, and Bud7, is involved in the export of select proteins, such as chitin synthase Chs3p, from the Golgi to the plasma membrane; interacts selectively with the activated, GTP-bound form of Arf1p; Chs5p is the only protein with a BRCT domain that is not localized to the nucleus
-S000032805	CDS					YLR330W		12	787664	789679	W		2004-02-05	1996-07-31	
-S000004324	ORF	Verified	YLR332W	MID2	KAI1	chromosome 12	L000001107|L000000885	12	790676	791806	W		2004-02-05	1996-07-31	O-glycosylated plasma membrane protein; acts as a sensor for cell wall integrity signaling and activates the pathway; interacts with Rom2p, a guanine nucleotide exchange factor for Rho1p, and with cell integrity pathway protein Zeo1p; MID2 has a paralog, MTL1, that arose from the whole genome duplication
-S000034864	CDS					YLR332W		12	790676	791806	W		2004-02-05	1996-07-31	
-S000004323	ORF	Dubious	YLR331C	JIP3		chromosome 12		12	791046	790669	C		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 98% of ORF overlaps the verified gene MID2
-S000032848	CDS					YLR331C		12	791046	790669	C		2004-02-05	1996-07-31	
-S000007097	long_terminal_repeat		YLRWsigma4			chromosome 12		12	793552	793870	W		2004-02-05	2000-05-19	Ty3 LTR
-S000006542	tRNA_gene		tD(GUC)L2			chromosome 12	L000003652	12	793918	793989	W		2004-02-05	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000031888	noncoding_exon					tD(GUC)L2		12	793918	793989	W		2004-02-05	2000-05-19	
-S000118480	ARS		ARS1226		ARSXII-794	chromosome 12		12	794100	794231			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178142	ARS_consensus_sequence					ARS1226		12	794208	794192	C		2014-11-18	2014-11-18	
-S000006452	snoRNA_gene		snR61	SNR61		chromosome 12	L000004530	12	794575	794486	C		2004-02-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A1133
-S000030825	noncoding_exon					snR61		12	794575	794486	C		2004-02-05	2000-05-19	
-S000006446	snoRNA_gene		snR55	SNR55		chromosome 12	L000004524	12	794794	794697	C		2004-02-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); predicted to guide 2'-O-methylation of small subunit (SSU) rRNA at position U1269
-S000030741	noncoding_exon					snR55		12	794794	794697	C		2004-02-05	2000-05-19	
-S000006448	snoRNA_gene		snR57	SNR57		chromosome 12	L000004526	12	795024	794937	C		2004-02-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position G1572
-S000030763	noncoding_exon					snR57		12	795024	794937	C		2004-02-05	2000-05-19	
-S000004325	ORF	Verified	YLR333C	RPS25B	eS25|ribosomal 40S subunit protein S25B|S25e|rp45|YS23|S31B|S25B	chromosome 12	L000001766	12	795899	795573	C		2004-02-05	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S25, no bacterial homolog; RPS25B has a paralog, RPS25A, that arose from the whole genome duplication
-S000034910	CDS					YLR333C		12	795899	795573	C		2004-02-05	1996-07-31	
-S000122107	five_prime_UTR_intron					YLR333C		12	796335	795913	C		2007-04-04	2007-04-04	
-S000007092	long_terminal_repeat		YLRWdelta20			chromosome 12		12	796899	797088	W		2004-02-05	2000-05-19	Ty1 LTR
-S000004326	ORF	Dubious	YLR334C			chromosome 12		12	797078	796698	C		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps a stand-alone long terminal repeat sequence whose presence indicates a retrotransposition event occurred here
-S000035063	CDS					YLR334C		12	797078	796698	C		2004-02-05	1996-07-31	
-S000006559	tRNA_gene		tE(UUC)L			chromosome 12	L000003653	12	797178	797249	W		2004-02-05	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
-S000036008	noncoding_exon					tE(UUC)L		12	797178	797249	W		2004-02-05	2000-05-19	
-S000004327	ORF	Verified	YLR335W	NUP2	nucleoporin NUP2	chromosome 12	L000001289	12	797430	799592	W		2004-02-05	1996-07-31	Nucleoporin involved in nucleocytoplasmic transport; binds to either the nucleoplasmic or cytoplasmic faces of the nuclear pore complex depending on Ran-GTP levels; also has a role in chromatin organization
-S000035216	CDS					YLR335W		12	797430	799592	W		2004-02-05	1996-07-31	
-S000004328	ORF	Verified	YLR336C	SGD1		chromosome 12	L000003498	12	802396	799697	C		2004-02-05	1996-07-31	Essential nuclear protein; required for biogenesis of the small ribosomal subunit; has a possible role in the osmoregulatory glycerol response; putative homolog of human NOM1 which is implicated in acute myeloid leukemia
-S000035257	CDS					YLR336C		12	802396	799697	C		2004-02-05	1996-07-31	
-S000004330	ORF	Dubious	YLR338W	OPI9		chromosome 12		12	804346	805203	W		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF VRP1/YLR337C
-S000031689	CDS					YLR338W		12	804346	805203	W		2004-02-05	1996-07-31	
-S000004329	ORF	Verified	YLR337C	VRP1	YLR337W|MDP2|END5	chromosome 12	L000001055|L000002481	12	805106	802653	C		2004-02-05	1996-07-31	Verprolin, proline-rich actin-associated protein; involved in cytoskeletal organization and cytokinesis; promotes actin nucleation and endocytosis; related to mammalian Wiskott-Aldrich syndrome protein (WASP)-interacting protein (WIP)
-S000036142	CDS					YLR337C		12	805106	802653	C		2004-02-05	1996-07-31	
-S000004332	ORF	Verified	YLR340W	RPP0	uL10|ribosomal protein P0|P0|L10E|A0|RPL10E	chromosome 12	L000002669	12	805887	806825	W		2004-02-05	1996-07-31	Conserved ribosomal protein P0 of the ribosomal stalk; involved in interaction between translational elongation factors and the ribosome; phosphorylated on serine 302; homologous to mammalian ribosomal protein LP0 and bacterial L10
-S000036299	CDS					YLR340W		12	805887	806825	W		2004-02-05	1996-07-31	
-S000004331	ORF	Dubious	YLR339C			chromosome 12		12	806335	805784	C		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the essential gene RPP0
-S000031733	CDS					YLR339C		12	806335	805784	C		2004-02-05	1996-07-31	
-S000004333	ORF	Verified	YLR341W	SPO77		chromosome 12		12	807385	808818	W		2004-02-05	1996-07-31	Meiosis-specific protein of unknown function; required for spore wall formation during sporulation and for timely prospore membrane closure along with SPS1; required with Sps1p for phosphorylation and turnover of Ssp1p; dispensable for both nuclear divisions during meiosis
-S000036414	CDS					YLR341W		12	807385	808818	W		2004-02-05	1996-07-31	
-S000004334	ORF	Verified	YLR342W	FKS1	1,3-beta-D-glucan synthase|PBR1|GSC1|ETG1|CWH53|CND1	chromosome 12	L000000445|L000000732	12	809997	815627	W		2004-02-05	1996-07-31	Catalytic subunit of 1,3-beta-D-glucan synthase; functionally redundant with alternate catalytic subunit Gsc2p; binds to regulatory subunit Rho1p; involved in cell wall synthesis and maintenance; localizes to sites of cell wall remodeling; FKS1 has a paralog, GSC2, that arose from the whole genome duplication
-S000036475	CDS					YLR342W		12	809997	815627	W		2004-02-05	1996-07-31	
-S000028571	ORF	Uncharacterized	YLR342W-A			chromosome 12		12	815810	815983	W		2003-07-29	2003-07-29	Putative protein of unknown function
-S000031299	CDS					YLR342W-A		12	815810	815983	W		2003-07-29	2003-07-29	
-S000004335	ORF	Verified	YLR343W	GAS2	1,3-beta-glucanosyltransferase	chromosome 12		12	816094	817761	W		2004-02-05	1996-07-31	1,3-beta-glucanosyltransferase; involved with Gas4p in spore wall assembly; has similarity to Gas1p
-S000037140	CDS					YLR343W		12	816094	817761	W		2004-02-05	1996-07-31	
-S000007074	long_terminal_repeat		YLRCdelta21			chromosome 12		12	818403	818073	C		2004-02-05	2000-05-19	Ty1 LTR
-S000006706	tRNA_gene		tR(CCG)L	TRR4		chromosome 12	L000003654	12	818609	818680	W		2004-02-05	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; single essential nuclear tRNA gene containing the tDNA-anticodon CCG (presumably CCG in the mature tRNA), decodes CGG codons into arginine, one of 19 nuclear tRNAs for arginine; correct folding and efficient aminoacylation require Lhp1p
-S000037079	noncoding_exon					tR(CCG)L		12	818609	818680	W		2004-02-05	2000-05-19	
-S000004336	ORF	Verified	YLR344W	RPL26A	uL24|ribosomal 60S subunit protein L26A|L24|YL33|L33A|L26A	chromosome 12	L000004461	12	819312	820142	W		2004-02-05	1996-07-31	Ribosomal 60S subunit protein L26A; binds to 5.8S rRNA; non-essential even when paralog is also deleted; deletion has minimal affections on ribosome biosynthesis; homologous to mammalian ribosomal protein L26 and bacterial L24; RPL26A has a paralog, RPL26B, that arose from the whole genome duplication
-S000037238	CDS					YLR344W		12	819312	819330	W		2004-02-05	1996-07-31	
-S000037239	CDS					YLR344W		12	819778	820142	W		2004-02-05	1996-07-31	
-S000037240	intron					YLR344W		12	819331	819777	W		2004-02-05	1996-07-31	
-S000004337	ORF	Uncharacterized	YLR345W		bifunctional fructose-2,6-bisphosphate 2-phosphatase/6-phosphofructo-2-kinase	chromosome 12		12	820511	822040	W		2004-02-05	1996-07-31	Similar to 6-phosphofructo-2-kinase enzymes; mRNA expression is repressed by the Rfx1p-Tup1p-Ssn6p repressor complex; YLR345W is not an essential gene
-S000037321	CDS					YLR345W		12	820511	822040	W		2004-02-05	1996-07-31	
-S000004338	ORF	Verified	YLR346C	CIS1		chromosome 12		12	822592	822287	C		2004-02-05	1996-07-31	Protein of unknown function found in mitochondria; expression is regulated by transcription factors involved in pleiotropic drug resistance, Pdr1p and Yrr1p; not an essential gene; YLR346C has a paralog, YGR035C, that arose from the whole genome duplication
-S000037348	CDS					YLR346C		12	822592	822287	C		2004-02-05	1996-07-31	
-S000028681	ORF	Dubious	YLR347W-A			chromosome 12		12	824789	824929	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified ORF KAP95/YLR347C
-S000032552	CDS					YLR347W-A		12	824789	824929	W		2011-02-03	2003-07-29	
-S000004339	ORF	Verified	YLR347C	KAP95	karyopherin beta|RSL1	chromosome 12	L000002781|L000002885	12	826413	823828	C		2011-02-03	1996-07-31	Karyopherin beta; forms a complex with Srp1p/Kap60p; interacts with nucleoporins to mediate nuclear import of NLS-containing cargo proteins via the nuclear pore complex; regulates PC biosynthesis; GDP-to-GTP exchange factor for Gsp1p
-S000029972	CDS					YLR347C		12	826413	823828	C		2011-02-03	1996-07-31	
-S000004341	ORF	Dubious	YLR349W			chromosome 12		12	827521	828027	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified ORF DIC1/YLR348C
-S000030302	CDS					YLR349W		12	827521	828027	W		2011-02-03	1996-07-31	
-S000004340	ORF	Verified	YLR348C	DIC1		chromosome 12	L000004327	12	827873	826977	C		2011-02-03	1996-07-31	Mitochondrial dicarboxylate carrier; integral membrane protein, catalyzes a dicarboxylate-phosphate exchange across the inner mitochondrial membrane, transports cytoplasmic dicarboxylates into the mitochondrial matrix
-S000030051	CDS					YLR348C		12	827873	826977	C		2011-02-03	1996-07-31	
-S000004342	ORF	Verified	YLR350W	ORM2	sphingolipid homeostasis protein ORM2	chromosome 12		12	828730	829380	W		2011-02-03	1996-07-31	Protein that mediates sphingolipid homeostasis; evolutionarily conserved, required for resistance to agents that induce unfolded protein response; Orm1p and Orm2p together control membrane biogenesis by coordinating lipid homeostasis with protein quality control; protein abundance increases in response to DNA replication stress; ORM2 has a paralog, ORM1, that arose from the whole genome duplication
-S000032574	CDS					YLR350W		12	828730	829380	W		2011-02-03	1996-07-31	
-S000004343	ORF	Verified	YLR351C	NIT3	putative hydrolase	chromosome 12	L000004213	12	830364	829489	C		2011-02-03	1996-07-31	Nit protein; one of two proteins in S. cerevisiae with similarity to the Nit domain of NitFhit from fly and worm and to the mouse and human Nit protein which interacts with the Fhit tumor suppressor; nitrilase superfamily member
-S000032619	CDS					YLR351C		12	830364	829489	C		2011-02-03	1996-07-31	
-S000004344	ORF	Uncharacterized	YLR352W			chromosome 12		12	831116	833539	W		2011-02-03	1996-07-31	Putative protein of unknown function with similarity to F-box proteins; interacts with Skp1p and Cdc53p; YLR352W is not an essential gene
-S000033355	CDS					YLR352W		12	831116	833539	W		2011-02-03	1996-07-31	
-S000004345	ORF	Verified	YLR353W	BUD8		chromosome 12	L000002759	12	834352	836163	W		2011-02-03	1996-07-31	Protein involved in bud-site selection; diploid mutants display a unipolar budding pattern instead of the wild-type bipolar pattern, and bud at the proximal pole; BUD8 has a paralog, BUD9, that arose from the whole genome duplication
-S000033422	CDS					YLR353W		12	834352	836163	W		2011-02-03	1996-07-31	
-S000004346	ORF	Verified	YLR354C	TAL1	sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate transaldolase TAL1	chromosome 12	L000002261	12	837357	836350	C		2011-02-03	1996-07-31	Transaldolase, enzyme in the non-oxidative pentose phosphate pathway; converts sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate to erythrose 4-phosphate and fructose 6-phosphate; TAL1 has a paralog, NQM1, that arose from the whole genome duplication
-S000033457	CDS					YLR354C		12	837357	836350	C		2011-02-03	1996-07-31	
-S000004347	ORF	Verified	YLR355C	ILV5	ketol-acid reductoisomerase	chromosome 12	L000000860	12	839253	838066	C	252	2011-02-03	1996-07-31	Acetohydroxyacid reductoisomerase and mtDNA binding protein; involved in branched-chain amino acid biosynthesis and maintenance of wild-type mitochondrial DNA; found in mitochondrial nucleoids
-S000033517	CDS					YLR355C		12	839253	838066	C		2011-02-03	1996-07-31	
-S000004348	ORF	Verified	YLR356W	ATG33		chromosome 12		12	840321	840914	W		2011-02-03	1996-07-31	Mitochondrial mitophagy-specific protein; required primarily for mitophagy induced at post-log phase; not required for other types of selective autophagy or macroautophagy; conserved within fungi, but not in higher eukaryotes; ATG33 has a paralog, SCM4, that arose from the whole genome duplication
-S000034434	CDS					YLR356W		12	840321	840914	W		2011-02-03	1996-07-31	
-S000004349	ORF	Verified	YLR357W	RSC2		chromosome 12	L000004025	12	841331	844000	W		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; required for expression of mid-late sporulation-specific genes; involved in telomere maintenance; RSC2 has a paralog, RSC1, that arose from the whole genome duplication
-S000034579	CDS					YLR357W		12	841331	844000	W		2011-02-03	1996-07-31	
-S000004350	ORF	Uncharacterized	YLR358C			chromosome 12		12	844050	843487	C		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; partially overlaps ORF RSC2/YLR357W
-S000034588	CDS					YLR358C		12	844050	843487	C		2011-02-03	1996-07-31	
-S000004351	ORF	Verified	YLR359W	ADE13	adenylosuccinase ADE13|BRA8|BRA1	chromosome 12	L000003938	12	844282	845730	W		2011-02-03	1996-07-31	Adenylosuccinate lyase; catalyzes two steps in the 'de novo' purine nucleotide biosynthetic pathway; expression is repressed by adenine and activated by Bas1p and Pho2p; mutations in human ortholog ADSL cause adenylosuccinase deficiency; human ADSL can complement yeast ADE13 null mutant
-S000035650	CDS					YLR359W		12	844282	845730	W		2011-02-03	1996-07-31	
-S000004352	ORF	Verified	YLR360W	VPS38	VPL17	chromosome 12	L000003511	12	846103	847422	W		2011-02-03	1996-07-31	Part of a Vps34p phosphatidylinositol 3-kinase complex; functions in carboxypeptidase Y (CPY) sorting; binds Vps30p and Vps34p to promote production of phosphatidylinositol 3-phosphate (PtdIns3P) which stimulates kinase activity; required for overflow degradation of misfolded proteins when ERAD is saturated
-S000036679	CDS					YLR360W		12	846103	847422	W		2011-02-03	1996-07-31	
-S000004353	ORF	Verified	YLR361C	DCR2	phosphoprotein phosphatase	chromosome 12		12	849124	847388	C		2011-02-03	1996-07-31	Protein phosphatase; involved in downregulation of the unfolded protein response (UPR), at least in part through dephosphorylation of Ire1p; dosage-dependent positive regulator of the G1/S phase transition through control of the timing of START; physically interacts with, dephosphorylates and destabilizes Sic1p; SWAT-GFP and mCherry fusion proteins localize to the vacuole
-S000036700	CDS					YLR361C		12	849124	847388	C		2011-02-03	1996-07-31	
-S000028845	ORF	Uncharacterized	YLR361C-A			chromosome 12		12	849679	849383	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000034530	CDS					YLR361C-A		12	849679	849383	C		2011-02-03	2003-07-29	
-S000004354	ORF	Verified	YLR362W	STE11	mitogen-activated protein kinase kinase kinase STE11	chromosome 12	L000002118	12	849866	852019	W	244	2011-02-03	1999-07-17|1996-07-31	Signal transducing MEK kinase; involved in pheromone response and pseudohyphal/invasive growth pathways where it phosphorylates Ste7p, and the high osmolarity response pathway, via phosphorylation of Pbs2p; regulated by Ste20p and Ste50p; protein abundance increases in response to DNA replication stress
-S000036796	CDS					YLR362W		12	849866	852019	W		2011-02-03	1999-07-17|1996-07-31	
-S000004355	ORF	Verified	YLR363C	NMD4		chromosome 12	L000002938	12	853151	852495	C		2011-02-03	1996-07-31	Protein that may be involved in nonsense-mediated mRNA decay; interacts with Nam7p, relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
-S000036803	CDS					YLR363C		12	853151	852495	C		2011-02-03	1996-07-31	
-S000007620	ORF	Verified	YLR363W-A			chromosome 12		12	853461	853718	W		2011-02-03	2001-02-26	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; relocalizes from nucleus to nucleolus upon DNA replication stress
-S000037218	CDS					YLR363W-A		12	853461	853718	W		2011-02-03	2001-02-26	
-S000004356	ORF	Verified	YLR364W	GRX8	glutathione-disulfide reductase GRX8	chromosome 12		12	854062	854391	W		2011-02-03	1996-07-31	Glutaredoxin that employs a dithiol mechanism of catalysis; monomeric; activity is low and null mutation does not affect sensitivity to oxidative stress; GFP-fusion protein localizes to the cytoplasm; expression strongly induced by arsenic
-S000037591	CDS					YLR364W		12	854062	854391	W		2011-02-03	1996-07-31	
-S000004357	ORF	Dubious	YLR365W			chromosome 12		12	855199	855531	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps dubious gene YLR364C-A; YLR365W is not an essential gene
-S000037651	CDS					YLR365W		12	855199	855531	W		2011-02-03	1996-07-31	
-S000004358	ORF	Dubious	YLR366W			chromosome 12		12	855538	855843	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR364C-A
-S000037710	CDS					YLR366W		12	855538	855843	W		2011-02-03	1996-07-31	
-S000028846	ORF	Dubious	YLR364C-A			chromosome 12		12	855645	855523	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR366W
-S000034531	CDS					YLR364C-A		12	855645	855523	C		2011-02-03	2003-07-29	
-S000004359	ORF	Verified	YLR367W	RPS22B	uS8|ribosomal 40S subunit protein S22B|S8|rp50|YS22|S24B|S22B	chromosome 12	L000003030	12	856442	857317	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S15A and bacterial S8; RPS22B has a paralog, RPS22A, that arose from the whole genome duplication
-S000037773	CDS					YLR367W		12	856442	856574	W		2011-02-03	1996-07-31	
-S000037774	CDS					YLR367W		12	857058	857317	W		2011-02-03	1996-07-31	
-S000122108	five_prime_UTR_intron					YLR367W		12	855878	856434	W		2011-02-03	2007-04-04	
-S000037775	intron					YLR367W		12	856575	857057	W		2011-02-03	1996-07-31	
-S000006504	snoRNA_gene		snR44	SNR44		chromosome 12	L000003411	12	856710	856920	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U1056 and small subunit (SSU) rRNA at position U106
-S000030616	noncoding_exon					snR44		12	856710	856920	W		2011-02-03	2000-05-19	
-S000004360	ORF	Verified	YLR368W	MDM30	SCF ubiquitin ligase complex subunit MDM30|DSG1	chromosome 12		12	857540	859336	W		2011-02-03	1996-07-31	F-box component of an SCF ubiquitin protein ligase complex; associates with and is required for Fzo1p ubiquitination and for mitochondria fusion; stimulates nuclear export of specific mRNAs; promotes ubiquitin-mediated degradation of Gal4p in some strains
-S000030625	CDS					YLR368W		12	857540	859336	W		2011-02-03	1996-07-31	
-S000004361	ORF	Verified	YLR369W	SSQ1	Hsp70 family ATPase SSQ1|SSH1|SSC2	chromosome 12	L000004573	12	859552	861525	W		2011-02-03	1996-07-31	Mitochondrial hsp70-type molecular chaperone; required for assembly of iron/sulfur clusters into proteins at a step after cluster synthesis, and for maturation of Yfh1p, which is a homolog of human frataxin implicated in Friedreich's ataxia
-S000030742	CDS					YLR369W		12	859552	861525	W		2011-02-03	1996-07-31	
-S000004362	ORF	Verified	YLR370C	ARC18		chromosome 12	L000004033	12	862254	861718	C		2011-02-03	1996-07-31	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches
-S000031542	CDS					YLR370C		12	862254	861718	C		2011-02-03	1996-07-31	
-S000004363	ORF	Verified	YLR371W	ROM2	Rho family guanine nucleotide exchange factor ROM2	chromosome 12	L000003182	12	862714	866784	W		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for Rho1p and Rho2p; mutations are synthetically lethal with mutations in rom1, which also encodes a GEF; Rom2p localization to the bud surface is dependent on Ack1p; ROM2 has a paralog, ROM1, that arose from the whole genome duplication
-S000031699	CDS					YLR371W		12	862714	866784	W		2011-02-03	1996-07-31	
-S000004364	ORF	Verified	YLR372W	ELO3	SUR4|fatty acid elongase ELO3|APA1|VBM1|SRE1	chromosome 12	L000002245	12	867354	868391	W		2011-02-03	1996-07-31	Elongase; involved in fatty acid and sphingolipid biosynthesis; synthesizes very long chain 20-26-carbon fatty acids from C18-CoA primers; involved in regulation of sphingolipid biosynthesis; lethality of the elo2 elo3 double null mutation is functionally complemented by human ELOVL1 and weakly complemented by human ELOVL3 or ELOV7
-S000031801	CDS					YLR372W		12	867354	868391	W		2011-02-03	1996-07-31	
-S000004365	ORF	Verified	YLR373C	VID22		chromosome 12		12	871367	868662	C		2011-02-03	1996-07-31	Glycosylated integral membrane protein localized to plasma membrane; plays a role in fructose-1,6-bisphosphatase (FBPase) degradation; involved in FBPase transport from the cytosol to Vid (vacuole import and degradation) vesicles; VID22 has a paralog, ENV11, that arose from the whole genome duplication
-S000031859	CDS					YLR373C		12	871367	868662	C		2011-02-03	1996-07-31	
-S000004367	ORF	Verified	YLR375W	STP3		chromosome 12	L000003371	12	871697	872728	W		2011-02-03	1996-07-31	Zinc-finger protein of unknown function; possibly involved in pre-tRNA splicing and in uptake of branched-chain amino acids; STP3 has a paralog, STP4, that arose from the whole genome duplication
-S000032922	CDS					YLR375W		12	871697	872728	W		2011-02-03	1996-07-31	
-S000004366	ORF	Dubious	YLR374C			chromosome 12		12	871842	871453	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF STP3/YLR375W
-S000032763	CDS					YLR374C		12	871842	871453	C		2011-02-03	1996-07-31	
-S000004368	ORF	Verified	YLR376C	PSY3		chromosome 12		12	873554	872826	C		2011-02-03	1996-07-31	Component of Shu complex (aka PCSS complex); Shu complex also includes Shu1, Csm2, Shu2, and promotes error-free DNA repair; promotes Rad51p filament assembly; Shu complex mediates inhibition of Srs2p function; Psy3p and Csm2p contain similar DNA-binding regions which work together to form a single DNA binding site; deletion of PSY3 results in a mutator phenotype; deletion increases sensitivity to anticancer drugs oxaliplatin and cisplatin but not mitomycin C
-S000032974	CDS					YLR376C		12	873554	872826	C		2011-02-03	1996-07-31	
-S000004369	ORF	Verified	YLR377C	FBP1	fructose 1,6-bisphosphate 1-phosphatase|ACN8	chromosome 12	L000000605	12	874792	873746	C		2011-02-03	1996-07-31	Fructose-1,6-bisphosphatase; key regulatory enzyme in the gluconeogenesis pathway, required for glucose metabolism; undergoes either proteasome-mediated or autophagy-mediated degradation depending on growth conditions; glucose starvation results in redistribution to the periplasm; interacts with Vid30p
-S000033041	CDS					YLR377C		12	874792	873746	C		2011-02-03	1996-07-31	
-S000006633	tRNA_gene		tK(UUU)L			chromosome 12	L000003655	12	875376	875471	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034214	intron					tK(UUU)L		12	875413	875435	W		2011-02-03	2000-05-19	
-S000034212	noncoding_exon					tK(UUU)L		12	875376	875412	W		2011-02-03	2000-05-19	
-S000034213	noncoding_exon					tK(UUU)L		12	875436	875471	W		2011-02-03	2000-05-19	
-S000004371	ORF	Dubious	YLR379W			chromosome 12		12	876922	877296	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the essential ORF SEC61/YLR378C
-S000033877	CDS					YLR379W		12	876922	877296	W		2011-02-03	1996-07-31	
-S000004370	ORF	Verified	YLR378C	SEC61	translocon subunit SEC61	chromosome 12	L000001852	12	877178	875736	C		2011-02-03	1996-07-31	Conserved ER protein translocation channel; essential subunit of Sec61 complex (Sec61p, Sbh1p, and Sss1p); forms channel for SRP-dependent protein import; with Sec63 complex allows SRP-independent protein import into ER; involved in posttranslational soluble protein import into the ER, ERAD of soluble substrates, and misfolded soluble protein export from the ER
-S000033713	CDS					YLR378C		12	877178	875736	C		2011-02-03	1996-07-31	
-S000004372	ORF	Verified	YLR380W	CSR1	SFH2	chromosome 12	S000007449	12	878282	879508	W		2004-02-05	1996-07-31	Phosphatidylinositol transfer protein; has a potential role in regulating lipid and fatty acid metabolism under heme-depleted conditions; interacts specifically with thioredoxin peroxidase; may have a role in oxidative stress resistance; protein abundance increases in response to DNA replication stress
-S000034850	CDS					YLR380W		12	878282	879508	W		2004-02-05	1996-07-31	
-S000004373	ORF	Verified	YLR381W	CTF3	CHL3	chromosome 12	L000000320	12	879723	881924	W		2004-02-05	1996-07-31	Outer kinetochore protein that forms a complex with Mcm16p and Mcm22p; may bind the kinetochore to spindle microtubules; required for the spindle assembly checkpoint; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-I and fission yeast mis6
-S000034982	CDS					YLR381W		12	879723	881924	W		2004-02-05	1996-07-31	
-S000004374	ORF	Verified	YLR382C	NAM2	leucine--tRNA ligase NAM2|LeuRS|MSL1	chromosome 12	L000001229	12	884751	882067	C	325	2004-02-05	1996-07-31	Mitochondrial leucyl-tRNA synthetase; also has direct role in splicing of several mitochondrial group I introns; indirectly required for mitochondrial genome maintenance; human homolog LARS2 can complement yeast null mutant, and is implicated in Perrault syndrome
-S000035844	CDS					YLR382C		12	884751	882067	C		2004-02-05	1996-07-31	
-S000004375	ORF	Verified	YLR383W	SMC6	DNA repair protein SMC6|RHC18	chromosome 12	L000004130	12	885288	888632	W		2004-02-05	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; homologous to S. pombe rad18
-S000036068	CDS					YLR383W		12	885288	888632	W		2004-02-05	1996-07-31	
-S000118987	ARS		ARS1238		ARSXII-889|ARS1227.5	chromosome 12		12	888570	888810			2006-10-02	2006-10-02	Autonomously Replicating Sequence
-S000178143	ARS_consensus_sequence					ARS1238		12	888741	888725	C		2014-11-18	2014-11-18	
-S000004376	ORF	Verified	YLR384C	IKI3	Elongator subunit IKI3|KTI7|TOT1|ELP1	chromosome 12	L000003563	12	892900	888851	C		2004-02-05	1996-07-31	Subunit of Elongator complex; Elongator is required for modification of wobble nucleosides in tRNA; maintains structural integrity of Elongator; homolog of human IKAP, mutations in which cause familial dysautonomia (FD)
-S000036126	CDS					YLR384C		12	892900	888851	C		2004-02-05	1996-07-31	
-S000004377	ORF	Verified	YLR385C	SWC7	AWS1	chromosome 12		12	893390	892992	C		2004-02-05	1996-07-31	Protein of unknown function; component of the Swr1p complex that incorporates Htz1p into chromatin
-S000036905	CDS					YLR385C		12	893390	892992	C		2004-02-05	1996-07-31	
-S000004378	ORF	Verified	YLR386W	VAC14		chromosome 12		12	893628	896270	W		2004-02-05	1996-07-31	Enzyme regulator; involved in synthesis of phosphatidylinositol 3,5-bisphosphate, in control of trafficking of some proteins to the vacuole lumen via the MVB, and in maintenance of vacuole size and acidity; binds negative (Fig4p) and positive (Fab1p) regulators of PtdIns(3,5)P(2) to control endolysosome function; similar to mammalian Vac14p
-S000037006	CDS					YLR386W		12	893628	896270	W		2004-02-05	1996-07-31	
-S000004379	ORF	Verified	YLR387C	REH1		chromosome 12		12	897672	896374	C		2004-02-05	1996-07-31	Cytoplasmic 60S subunit biogenesis factor; associates with pre-60S particles; similar to Rei1p and shares partially redundant function in cytoplasmic 60S subunit maturation; contains dispersed C2H2 zinc finger domains
-S000037044	CDS					YLR387C		12	897672	896374	C		2004-02-05	1996-07-31	
-S000004380	ORF	Verified	YLR388W	RPS29A	uS14|ribosomal 40S subunit protein S29A|S14|YS29|S36A|S29A|YS29A	chromosome 12	L000004482|S000029649|L000002549	12	898651	898821	W		2004-02-05	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S29 and bacterial S14; RPS29A has a paralog, RPS29B, that arose from the whole genome duplication
-S000037830	CDS					YLR388W		12	898651	898821	W		2004-02-05	1996-07-31	
-S000122109	five_prime_UTR_intron					YLR388W		12	898158	898645	W		2007-04-04	2007-04-04	
-S000006500	snoRNA_gene		snR34	SNR34		chromosome 12	L000001972	12	899180	899382	W		2007-05-10	2000-05-19|2007-05-10	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U2826 and U2880
-S000036763	noncoding_exon					snR34		12	899180	899382	W		2007-05-10	2000-05-19|2007-05-10	
-S000004381	ORF	Verified	YLR389C	STE23	metalloendopeptidase	chromosome 12	L000003081	12	902660	899577	C		2004-02-05	2004-02-05|1996-07-31	Metalloprotease; involved in N-terminal processing of pro-a-factor to mature form; expressed in both haploids and diploids; one of two yeast homologs of human insulin-degrading enzyme (hIDE); homolog Axl1p is also involved in processing of pro-a-factor
-S000037885	CDS					YLR389C		12	902660	899577	C		2004-02-05	2004-02-05|1996-07-31	
-S000004382	ORF	Verified	YLR390W	ECM19		chromosome 12	L000003894	12	903066	903404	W		2004-02-05	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000030926	CDS					YLR390W		12	903066	903404	W		2004-02-05	1996-07-31	
-S000006429	ORF	Verified	YLR390W-A	CCW14	ICWP|YLR391W|SSR1|YLR391W-A	chromosome 12	L000004428	12	903724	904440	W		2004-02-05	1997-07-30	Covalently linked cell wall glycoprotein; present in the inner layer of the cell wall
-S000037801	CDS					YLR390W-A		12	903724	904440	W		2004-02-05	1997-07-30	
-S000004384	ORF	Verified	YLR392C	ART10		chromosome 12		12	906305	904749	C		2004-02-05	1996-07-31	Protein of unknown function that contains 2 PY motifs; ubiquinated by Rsp5p; overexpression confers resistance to arsenite; green fluorescent protein (GFP)-fusion protein localizes it to the cytoplasm; non-essential gene
-S000031038	CDS					YLR392C		12	906305	904749	C		2004-02-05	1996-07-31	
-S000004385	ORF	Verified	YLR393W	ATP10		chromosome 12	L000000147	12	907079	907918	W		2004-02-05	1996-07-31	Assembly factor for the F0 sector of mitochondrial F1F0 ATP synthase; mitochondrial inner membrane protein; interacts genetically with ATP6
-S000032047	CDS					YLR393W		12	907079	907918	W		2004-02-05	1996-07-31	
-S000004386	ORF	Verified	YLR394W	CST9	SUMO ligase CST9|ZIP3	chromosome 12	L000002996	12	907950	909398	W		2004-02-05	1996-07-31	SUMO E3 ligase; required for synaptonemal complex formation; localizes to synapsis initiation sites on meiotic chromosomes; associates with centromeres early in meiosis, then with chromosome axes and finally with double-strand break sites that are engaged in repair by crossovers; potential Cdc28p substrate
-S000032126	CDS					YLR394W		12	907950	909398	W		2004-02-05	1996-07-31	
-S000004387	ORF	Verified	YLR395C	COX8	cytochrome c oxidase subunit VIII	chromosome 12	L000000392	12	909965	909729	C		2004-02-05	1996-07-31	Subunit VIII of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain
-S000032155	CDS					YLR395C		12	909965	909729	C		2004-02-05	1996-07-31	
-S000004388	ORF	Verified	YLR396C	VPS33	tethering complex ATP-binding subunit VPS33|VPT33|VPL25|VAM5|SLP1|PEP14|MET27|CLS14	chromosome 12	L000002475	12	912310	910235	C		2004-02-05	1996-07-31	ATP-binding protein that is a subunit of the HOPS and CORVET complexes; essential for protein sorting, vesicle docking, and fusion at the vacuole; binds to SNARE domains
-S000032235	CDS					YLR396C		12	912310	910235	C		2004-02-05	1996-07-31	
-S000004389	ORF	Verified	YLR397C	AFG2	AAA family ATPase AFG2|DRG1	chromosome 12	L000000056	12	914892	912550	C		2004-02-05	1996-07-31	ATPase of the CDC48/PAS1/SEC18 (AAA) family, forms a hexameric complex; is essential for pre-60S maturation and release of several preribosome maturation factors; releases Rlp24p from purified pre-60S particles in vitro; target of the ribosomal biosynthesis inhibitor diazaborine; may be involved in degradation of aberrant mRNAs
-S000032306	CDS					YLR397C		12	914892	912550	C		2004-02-05	1996-07-31	
-S000004390	ORF	Verified	YLR398C	SKI2	SKI complex RNA helicase subunit SKI2	chromosome 12	L000001903	12	919019	915156	C		2004-02-05	1996-07-31	Ski complex component and putative RNA helicase; mediates 3'-5' RNA degradation by the cytoplasmic exosome; null mutants have superkiller phenotype of increased viral dsRNAs and are synthetic lethal with mutations in 5'-3' mRNA decay; mutations in the human ortholog, SKIV2L, causes Syndromic diarrhea/Trichohepatoenteric (SD/THE) syndrome
-S000033167	CDS					YLR398C		12	919019	915156	C		2004-02-05	1996-07-31	
-S000130185	ARS		ARS1228			chromosome 12		12	919800	920994			2009-05-08	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000028682	ORF	Dubious	YLR399W-A			chromosome 12		12	920869	920973	W		2004-02-05	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the characterized ORF BDF1/YLR399C
-S000032553	CDS					YLR399W-A		12	920869	920973	W		2004-02-05	2003-07-29	
-S000004391	ORF	Verified	YLR399C	BDF1	chromatin-binding protein BDF1	chromosome 12	L000000165	12	921596	919536	C		2004-02-05	1996-07-31	Protein involved in transcription initiation; functions at TATA-containing promoters; associates with the basal transcription factor TFIID; contains two bromodomains; corresponds to the C-terminal region of mammalian TAF1; redundant with Bdf2p; BDF1 has a paralog, BDF2, that arose from the whole genome duplication
-S000033234	CDS					YLR399C		12	921596	919536	C		2004-02-05	1996-07-31	
-S000004392	ORF	Dubious	YLR400W			chromosome 12		12	922063	922536	W		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031650	CDS					YLR400W		12	922063	922536	W		2004-02-05	1996-07-31	
-S000004393	ORF	Verified	YLR401C	DUS3	tRNA dihydrouridine synthase DUS3	chromosome 12		12	924448	922442	C		2006-01-09	1996-07-31|2006-01-09	Dihydrouridine synthase; member of a widespread family of conserved proteins including Smm1p, Dus1p, and Dus4p; contains a consensus oleate response element (ORE) in its promoter region; forms nuclear foci upon DNA replication stress
-S000031698	CDS					YLR401C		12	924448	922442	C		2006-01-09	1996-07-31|2006-01-09	
-S000004394	ORF	Dubious	YLR402W			chromosome 12		12	924889	925080	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032705	CDS					YLR402W		12	924889	925080	W		2011-02-03	1996-07-31|2011-02-03	
-S000004395	ORF	Verified	YLR403W	SFP1	zinc-coordinating transcription factor SFP1|[ISP+]|[ISP(+)]	chromosome 12	L000001872	12	925568	927619	W		2011-02-03	1996-07-31	Regulates transcription of ribosomal protein and biogenesis genes; regulates response to nutrients and stress, G2/M transitions during mitotic cell cycle and DNA-damage response, and modulates cell size; regulated by TORC1 and Mrs6p; sequence of zinc finger, ChIP localization data, and protein-binding microarray (PBM) data, and computational analyses suggest it binds DNA directly at highly active RP genes and indirectly through Rap1p at others; can form the [ISP+] prion
-S000032808	CDS					YLR403W		12	925568	927619	W		2011-02-03	1996-07-31	
-S000004396	ORF	Verified	YLR404W	SEI1	seipin|FLD1	chromosome 12		12	928743	929600	W		2011-02-03	1996-07-31	Seipin involved in lipid droplet (LD) assembly; controls lipid particle morphology, number, and size; promotes initiation of LD formation on the ER; ensures that LDs bud from the ER towards the cytosolic side of the membrane; forms a complex with Ldb16p at ER-LD contact sites, stabilizing these sites; null mutants have localized accumulation of phosphatidic acid (PA) marker proteins; BSCL2, human homolog implicated in congenital lipodystrophy, complements yeast null mutant
-S000032908	CDS					YLR404W		12	928743	929600	W		2011-02-03	1996-07-31	
-S000004397	ORF	Verified	YLR405W	DUS4	tRNA dihydrouridine synthase	chromosome 12		12	929789	930892	W		2011-02-03	1996-07-31	Dihydrouridine synthase; member of a widespread family of conserved proteins including Smm1p, Dus1p, and Dus3p
-S000034865	CDS					YLR405W		12	929789	930892	W		2011-02-03	1996-07-31	
-S000130186	ARS		ARS1230			chromosome 12		12	930891	931064			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000004398	ORF	Verified	YLR406C	RPL31B	eL31|ribosomal 60S subunit protein L31B|L31e|YL28|L34B|L31B	chromosome 12	L000004463	12	931755	931065	C		2011-02-03	1999-07-17|1996-07-31	Ribosomal 60S subunit protein L31B; associates with karyopherin Sxm1p; loss of both Rpl31p and Rpl39p confers lethality; homologous to mammalian ribosomal protein L31, no bacterial homolog; RPL31B has a paralog, RPL31A, that arose from the whole genome duplication
-S000034912	CDS					YLR406C		12	931349	931065	C		2011-02-03	1999-07-17|1996-07-31	
-S000034911	CDS					YLR406C		12	931755	931699	C		2011-02-03	1999-07-17|1996-07-31	
-S000034913	intron					YLR406C		12	931698	931350	C		2011-02-03	1999-07-17|1996-07-31	
-S000028683	ORF	Uncharacterized	YLR406C-A			chromosome 12		12	932355	932206	C		2011-02-03	2003-07-29	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
-S000032554	CDS					YLR406C-A		12	932355	932206	C		2011-02-03	2003-07-29	
-S000004399	ORF	Uncharacterized	YLR407W			chromosome 12		12	932967	933653	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; null mutant displays elongated buds and a large fraction of budded cells have only one nucleus
-S000035114	CDS					YLR407W		12	932967	933653	W		2011-02-03	1996-07-31|2011-02-03	
-S000004400	ORF	Verified	YLR408C	BLS1	BLB1	chromosome 12		12	934253	933885	C		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; green fluorescent protein (GFP)-fusion protein localizes to the endosome; YLR408C is not an essential gene
-S000035167	CDS					YLR408C		12	934253	933885	C		2011-02-03	1996-07-31	
-S000004401	ORF	Verified	YLR409C	UTP21	rRNA-processing protein UTP21	chromosome 12		12	937233	934414	C		2011-02-03	1996-07-31	Subunit of U3-containing 90S preribosome and SSU processome complexes; involved in production of 18S rRNA and assembly of small ribosomal subunit; synthetic defect with STI1 Hsp90 cochaperone; human homolog linked to glaucoma; Small Subunit processome is also known as SSU processome
-S000035261	CDS					YLR409C		12	937233	934414	C		2011-02-03	1996-07-31	
-S000004402	ORF	Verified	YLR410W	VIP1	inositol polyphosphate kinase VIP1	chromosome 12	L000004547	12	937541	940981	W		2011-02-03	1996-07-31	Inositol hexakisphosphate and inositol heptakisphosphate kinase; inositol heptakisphosphate (IP7) production is important for phosphate signaling; involved in cortical actin cytoskeleton function, and invasive pseudohyphal growth analogous to S. pombe asp1; inositol hexakisphosphate is also known as IP6
-S000035093	CDS					YLR410W		12	937541	940981	W		2011-02-03	1996-07-31	
-S000007093	long_terminal_repeat		YLRWdelta22			chromosome 12		12	941192	941523	W		2011-02-03	2000-05-19	Ty2 LTR
-S000007100	LTR_retrotransposon		YLRWTy2-1		Ty2	chromosome 12		12	941192	947150	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007379	transposable_element_gene		YLR410W-A		gag protein	chromosome 12		12	941483	942799	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000034166	CDS					YLR410W-A		12	941483	942799	W		2011-02-03	1999-07-17	
-S000007380	transposable_element_gene		YLR410W-B		gag-pol fusion protein	chromosome 12		12	941483	946796	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000034173	CDS					YLR410W-B		12	941483	942775	W		2011-02-03	1999-07-17	
-S000034174	CDS					YLR410W-B		12	942777	946796	W		2011-02-03	1999-07-17	
-S000034175	plus_1_translational_frameshift					YLR410W-B		12	942776	942776	W		2011-02-03	1999-07-17	
-S000007094	long_terminal_repeat		YLRWdelta23			chromosome 12		12	946819	947150	W		2011-02-03	2000-05-19	Ty2 LTR
-S000004403	ORF	Verified	YLR411W	CTR3	high-affinity Cu transporter CTR3	chromosome 12	L000003441	12	947253	947978	W		2011-02-03	1996-07-31	High-affinity copper transporter of the plasma membrane; acts as a trimer; gene is disrupted by a Ty2 transposon insertion in many laboratory strains of S. cerevisiae
-S000035281	CDS					YLR411W		12	947253	947978	W		2011-02-03	1996-07-31	
-S000004404	ORF	Verified	YLR412W	BER1		chromosome 12	S000116954	12	948368	949192	W		2011-02-03	1996-07-31	Protein involved in microtubule-related processes; GFP-fusion protein localizes to the cytoplasm and is induced in response to the DNA-damaging agent MMS; YLR412W is not an essential gene; similar to Arabidopsis SRR1 gene
-S000036189	CDS					YLR412W		12	948368	949192	W		2011-02-03	1996-07-31	
-S000028572	ORF	Uncharacterized	YLR412C-A			chromosome 12		12	950473	950267	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000031300	CDS					YLR412C-A		12	950473	950267	C		2011-02-03	2003-07-29	
-S000004405	ORF	Verified	YLR413W	INA1		chromosome 12		12	951156	953183	W		2011-02-03	1996-07-31	Protein of unknown function; not an essential gene; YLR413W has a paralog, FAT3, that arose from the whole genome duplication
-S000036302	CDS					YLR413W		12	951156	953183	W		2011-02-03	1996-07-31	
-S000004406	ORF	Verified	YLR414C	PUN1		chromosome 12		12	954144	953353	C		2011-02-03	1996-07-31	Plasma membrane protein with a role in cell wall integrity; co-localizes with Sur7p in punctate membrane patches; null mutant displays decreased thermotolerance; transcription induced upon cell wall damage and metal ion stress
-S000036366	CDS					YLR414C		12	954144	953353	C		2011-02-03	1996-07-31	
-S000004407	ORF	Uncharacterized	YLR415C			chromosome 12		12	954597	954259	C		2011-02-03	1996-07-31	Putative protein of unknown function; YLR415C is not an essential gene
-S000036440	CDS					YLR415C		12	954597	954259	C		2011-02-03	1996-07-31	
-S000004408	ORF	Dubious	YLR416C			chromosome 12		12	954889	954491	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037090	CDS					YLR416C		12	954889	954491	C		2011-02-03	1996-07-31	
-S000004409	ORF	Verified	YLR417W	VPS36	ESCRT-II subunit protein VPS36|VPL11|VAC3|GRD12	chromosome 12	L000002958	12	955010	956710	W		2011-02-03	1996-07-31	Component of the ESCRT-II complex; contains the GLUE (GRAM Like Ubiquitin binding in EAP45) domain which is involved in interactions with ESCRT-I and ubiquitin-dependent sorting of proteins into the endosome; plays a role in the formation of mutant huntingtin (Htt) aggregates in yeast
-S000037244	CDS					YLR417W		12	955010	956710	W		2011-02-03	1996-07-31	
-S000004410	ORF	Verified	YLR418C	CDC73		chromosome 12	L000002792	12	958095	956914	C		2011-02-03	1996-07-31	Component of the Paf1p complex; binds to and modulates the activity of RNA polymerases I and II; required for expression of certain genes, modification of some histones, and telomere maintenance; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay; protein abundance increases in response to DNA replication stress; human homolog, parafibromin, is a tumour suppressor linked to breast, renal and gastric cancers
-S000037277	CDS					YLR418C		12	958095	956914	C		2011-02-03	1996-07-31	
-S000004411	ORF	Uncharacterized	YLR419W		putative helicase	chromosome 12		12	958428	962735	W		2011-02-03	1996-07-31	Putative helicase with limited sequence similarity to human Rb protein; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YLR419W is not an essential gene
-S000037392	CDS					YLR419W		12	958428	962735	W		2011-02-03	1996-07-31	
-S000006652	tRNA_gene		tL(UAA)L			chromosome 12	L000003658	12	963055	962972	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000037412	noncoding_exon					tL(UAA)L		12	963055	962972	C		2011-02-03	2000-05-19	
-S000007075	long_terminal_repeat		YLRWdelta24		YLRCdelta24	chromosome 12		12	963230	963545	W		2011-02-03	2000-05-19|2007-04-03	Ty1 LTR
-S000004412	ORF	Verified	YLR420W	URA4	dihydroorotase	chromosome 12	L000002433	12	963785	964879	W	304	2011-02-03	1996-07-31	Dihydroorotase; catalyzes the third enzymatic step in the de novo biosynthesis of pyrimidines, converting carbamoyl-L-aspartate into dihydroorotate
-S000031350	CDS					YLR420W		12	963785	964879	W		2011-02-03	1996-07-31	
-S000004413	ORF	Verified	YLR421C	RPN13	proteasome regulatory particle lid subunit RPN13	chromosome 12		12	965560	965090	C		2011-02-03	1996-07-31	Subunit of the 19S regulatory particle of the 26S proteasome lid; acts as a ubiquitin receptor for the proteasome; null mutants accumulate ubiquitinated Gcn4p and display decreased 26S proteasome stability; protein abundance increases in response to DNA replication stress
-S000031396	CDS					YLR421C		12	965560	965090	C		2011-02-03	1996-07-31	
-S000004414	ORF	Verified	YLR422W	DCK1		chromosome 12		12	965897	971695	W		2011-02-03	1996-07-31	Dock family protein (Dedicator Of CytoKinesis), homolog of human DOCK1; upstream component for regulation through the small GTPase Rho5p; may form a complex with Lmo1p that acts as a GEF for Rho5p; interacts with Ino4p; cytoplasmic protein that relocates to mitochondria under oxidative stress; implicated in mitophagy; not an essential protein; DOCK proteins act as guanine nucleotide exchange factors
-S000032478	CDS					YLR422W		12	965897	971695	W		2011-02-03	1996-07-31	
-S000004415	ORF	Verified	YLR423C	ATG17	protein kinase regulatory subunit ATG17|APG17	chromosome 12		12	973170	971917	C		2011-02-03	1996-07-31	Scaffold protein responsible for phagophore assembly site organization; regulatory subunit of an autophagy-specific complex that includes Atg1p and Atg13p; stimulates Atg1p kinase activity; human ortholog RB1CC1/FIP200 interacts with p53, which inhibits autophagy in human cells
-S000032513	CDS					YLR423C		12	973170	971917	C		2011-02-03	1996-07-31	
-S000004416	ORF	Verified	YLR424W	SPP382	mRNA splicing protein SPP382|NTR1|CCF8	chromosome 12		12	973395	975521	W		2011-02-03	1996-07-31	Essential protein that forms a dimer with Ntr2p; also forms a trimer, with Ntr2p and Prp43p, that is involved in spliceosome disassembly; found also in a multisubunit complex with the splicing factor Clf1p; suppressor of prp38-1 mutation
-S000032667	CDS					YLR424W		12	973395	975521	W		2011-02-03	1996-07-31	
-S000006672	tRNA_gene		tN(GUU)L			chromosome 12	L000003657	12	976056	975983	C		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000030743	noncoding_exon					tN(GUU)L		12	976056	975983	C		2011-02-03	2000-05-19	
-S000007076	long_terminal_repeat		YLRCdelta25			chromosome 12		12	976589	976258	C		2011-02-03	2000-05-19	Ty2 LTR
-S000007082	LTR_retrotransposon		YLRCTy2-2		Ty2	chromosome 12		12	981700	976258	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
-S000007077	long_terminal_repeat		YLRCdelta26			chromosome 12		12	981700	981369	C		2011-02-03	2000-05-19	Ty2 LTR
-S000004417	ORF	Verified	YLR425W	TUS1	Rho family guanine nucleotide exchange factor TUS1|SOP10	chromosome 12	L000004619|L000004622	12	982894	986817	W		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) that modulates Rho1p activity; involved in the cell integrity signaling pathway; interacts with Rgl1p; localization of Tus1p to the bed neck is regulated by Rgl1p; multicopy suppressor of tor2 mutation and ypk1 ypk2 double mutation; potential Cdc28p substrate
-S000033357	CDS					YLR425W		12	982894	986817	W		2011-02-03	1996-07-31	
-S000004418	ORF	Uncharacterized	YLR426W	TDA5		chromosome 12		12	987062	988113	W		2011-02-03	1996-07-31	Putative protein of unknown function; detected in highly purified mitochondria in high-throughput studies; proposed to be involved in resistance to mechlorethamine and streptozotocin; null mutant sensitive to expression of top1-T722A allele
-S000033424	CDS					YLR426W		12	987062	987141	W		2011-02-03	1996-07-31	
-S000033425	CDS					YLR426W		12	987213	988113	W		2011-02-03	1996-07-31	
-S000033426	intron					YLR426W		12	987142	987212	W		2011-02-03	1996-07-31	
-S000004419	ORF	Verified	YLR427W	MAG2		chromosome 12		12	988428	990440	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; induced in response to mycotoxin patulin; ubiquitinated protein similar to the human ring finger motif protein RNF10; predicted to be involved in repair of alkylated DNA due to interaction with MAG1
-S000033509	CDS					YLR427W		12	988428	990440	W		2011-02-03	1996-07-31	
-S000004421	ORF	Verified	YLR429W	CRN1		chromosome 12	L000004279	12	990777	992732	W		2011-02-03	1996-07-31	Coronin; cortical actin cytoskeletal component that associates with the Arp2p/Arp3p complex to regulate its activity; plays a role in regulation of actin patch assembly
-S000034435	CDS					YLR429W		12	990777	992732	W		2011-02-03	1996-07-31	
-S000004420	ORF	Dubious	YLR428C			chromosome 12		12	990961	990617	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CRN1
-S000033519	CDS					YLR428C		12	990961	990617	C		2011-02-03	1996-07-31	
-S000004422	ORF	Verified	YLR430W	SEN1	putative DNA/RNA helicase SEN1|NRD2|CIK3	chromosome 12	L000001862	12	993434	1000129	W		2011-02-03	1996-07-31	ATP-dependent 5' to 3' RNA/DNA and DNA helicase; subunit of the exosome-associated Nrd1p complex that mediates 3' end formation of snRNAs, snoRNAs, CUTs and some mRNAs; helicase-independent role in transcription-coupled repair; coordinates replication with transcription, associating with moving forks and preventing errors that occur when forks encounter transcribed regions; homolog of Senataxin, implicated in Ataxia-Oculomotor Apraxia 2 and a dominant form of juvenile ALS
-S000035580	CDS					YLR430W		12	993434	1000129	W		2011-02-03	1996-07-31	
-S000004423	ORF	Verified	YLR431C	ATG23	CVT23	chromosome 12		12	1001703	1000342	C		2011-02-03	1996-07-31	Peripheral membrane protein required for autophagy and CVT; required for cytoplasm-to-vacuole targeting (Cvt) pathway and efficient macroautophagy; cycles between the phagophore assembly site (PAS) and non-PAS locations; forms a complex with Atg9p and Atg27p
-S000035614	CDS					YLR431C		12	1001703	1000342	C		2011-02-03	1996-07-31	
-S000004424	ORF	Verified	YLR432W	IMD3	IMP dehydrogenase IMD3	chromosome 12		12	1002557	1004128	W		2011-02-03	1996-07-31	Inosine monophosphate dehydrogenase; catalyzes the rate-limiting step in the de novo synthesis of GTP; member of a four-gene family in S. cerevisiae, constitutively expressed; IMD3 has a paralog, IMD4, that arose from the whole genome duplication
-S000035774	CDS					YLR432W		12	1002557	1004128	W		2011-02-03	1996-07-31	
-S000004425	ORF	Verified	YLR433C	CNA1	calcineurin catalytic subunit A|CMP1	chromosome 12	L000000370	12	1006008	1004347	C		2011-02-03	1996-07-31	Calcineurin A; one isoform (the other is Cmp2p) of the catalytic subunit of calcineurin, a Ca++/calmodulin-regulated protein phosphatase which regulates Crz1p (a stress-response transcription factor), the other calcineurin subunit is CNB1; regulates the function of Aly1p alpha-arrestin; CNA1 has a paralog, CMP2, that arose from the whole genome duplication
-S000036640	CDS					YLR433C		12	1006008	1004347	C		2011-02-03	1996-07-31	
-S000004427	ORF	Verified	YLR435W	TSR2		chromosome 12		12	1006378	1006995	W		2011-02-03	2003-09-22|1996-07-31	Protein with a potential role in pre-rRNA processing
-S000036797	CDS					YLR435W		12	1006378	1006995	W		2011-02-03	2003-09-22|1996-07-31	
-S000004426	ORF	Dubious	YLR434C			chromosome 12		12	1006408	1006025	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF TSR2/YLR435W
-S000036704	CDS					YLR434C		12	1006408	1006025	C		2011-02-03	1996-07-31	
-S000118481	ARS		ARS1232		ARSXII-1007	chromosome 12		12	1007186	1007475			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178144	ARS_consensus_sequence					ARS1232		12	1007235	1007251	W		2014-11-18	2014-11-18	
-S000004428	ORF	Verified	YLR436C	ECM30		chromosome 12	L000003900	12	1011245	1007421	C		2011-02-03	1996-07-31	Protein of unknown function; may play a role in cell wall biosynthesis, mutants have abormal relative levels of mannose and glucose and have Gap1p sorting and transport defects; (GFP)-fusion protein localizes to the cytoplasm
-S000036822	CDS					YLR436C		12	1011245	1007421	C		2011-02-03	1996-07-31	
-S000004429	ORF	Verified	YLR437C	DIF1		chromosome 12		12	1012023	1011622	C		2011-02-03	1996-07-31	Protein that regulates nuclear localization of Rnr2p and Rnr4p; phosphorylated by Dun1p in response to DNA damage and degraded; N-terminal half shows similarity to S. pombe Spd1 protein; DIF1 has a paralog, SML1, that arose from the whole genome duplication
-S000036873	CDS					YLR437C		12	1012023	1011622	C		2011-02-03	1996-07-31	
-S000004430	ORF	Verified	YLR438W	CAR2	ornithine-oxo-acid transaminase|cargB	chromosome 12	L000000217	12	1012501	1013775	W	330	2011-02-03	1996-07-31	L-ornithine transaminase (OTAse); catalyzes the second step of arginine degradation, expression is dually-regulated by allophanate induction and a specific arginine induction process; not nitrogen catabolite repression sensitive; protein abundance increases in response to DNA replication stress; human homolog OAT complements yeast null mutant
-S000037652	CDS					YLR438W		12	1012501	1013775	W		2011-02-03	1996-07-31	
-S000028684	ORF	Dubious	YLR437C-A			chromosome 12		12	1012686	1012459	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CAR2/YLR438W
-S000032558	CDS					YLR437C-A		12	1012686	1012459	C		2011-02-03	2003-07-29	
-S000118482	ARS		ARS1233		ARSXII-1014	chromosome 12		12	1013795	1014022			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178145	ARS_consensus_sequence					ARS1233		12	1013861	1013845	C		2014-11-18	2014-11-18	
-S000006434	ORF	Verified	YLR438C-A	LSM3	U4/U6-U5 snRNP complex subunit LSM3|USS2|SMX4	chromosome 12	L000004507	12	1014178	1013909	C		2011-02-03	1999-07-17	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; protein increases in abundance and relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
-S000037756	CDS					YLR438C-A		12	1014178	1013909	C		2011-02-03	1999-07-17	
-S000004431	ORF	Verified	YLR439W	MRPL4	mitochondrial 54S ribosomal protein YmL4|YmL4	chromosome 12	L000002523|L000001160	12	1014491	1015450	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; homolog of prokaryotic L29 ribosomal protein; located at the ribosomal tunnel exit
-S000037711	CDS					YLR439W		12	1014491	1015450	W		2011-02-03	1996-07-31	
-S000004432	ORF	Verified	YLR440C	SEC39	DSL3	chromosome 12		12	1017697	1015568	C		2011-02-03	1996-07-31	Component of the Dsl1p tethering complex; this complex interacts with ER SNAREs Sec20p and Use1p; mediates Sey1p-independent homotypic ER fusion; proposed to be involved in protein secretion; localizes to the ER and nuclear envelope
-S000030454	CDS					YLR440C		12	1017697	1015568	C		2011-02-03	1996-07-31	
-S000004433	ORF	Verified	YLR441C	RPS1A	eS1|ribosomal 40S subunit protein S1A|S1e|rp10A|S1A|RP10A	chromosome 12	L000001664	12	1018908	1018141	C		2011-02-03	1996-07-31	Ribosomal protein 10 (rp10) of the small (40S) subunit; homologous to mammalian ribosomal protein S3A, no bacterial homolog; RPS1A has a paralog, RPS1B, that arose from the whole genome duplication
-S000030594	CDS					YLR441C		12	1018908	1018141	C		2011-02-03	1996-07-31	
-S000004434	ORF	Verified	YLR442C	SIR3	chromatin-silencing protein SIR3|STE8|MAR2|CMT1	chromosome 12	L000001896	12	1022251	1019315	C	337	2011-02-03	1996-07-31	Silencing protein; interacts with Sir2p, Sir4p, and histone H3/H4 tails to establish transcriptionally silent chromatin; required for spreading of silenced chromatin; recruited to chromatin through interaction with Rap1p; C-terminus assumes variant winged helix-turn-helix (wH) fold that mediates homodimerization, which is critical for holo-SIR complex loading; required for telomere hypercluster formation in quiescent yeast cells; has paralog ORC1 from whole genome duplication
-S000030676	CDS					YLR442C		12	1022251	1019315	C		2011-02-03	1996-07-31	
-S000004435	ORF	Verified	YLR443W	ECM7	ZRG15	chromosome 12	L000003882	12	1022625	1023971	W		2011-02-03	1996-07-31	Putative integral membrane protein with a role in calcium uptake; non-essential protein; mutant has cell wall defects and Ca+ uptake deficiencies; transcription is induced under conditions of zinc deficiency
-S000031587	CDS					YLR443W		12	1022625	1023971	W		2011-02-03	1996-07-31	
-S000004436	ORF	Dubious	YLR444C			chromosome 12		12	1023988	1023686	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031628	CDS					YLR444C		12	1023988	1023686	C		2011-02-03	1996-07-31	
-S000118483	ARS		ARS1234		ARSXII-1024	chromosome 12		12	1024026	1024186			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000004437	ORF	Verified	YLR445W	GMC2		chromosome 12		12	1024189	1024837	W		2011-02-03	2004-02-03|1996-07-31	Protein involved in meiotic crossing over; component of the Synaptonemal Complex (SC) along with Ecm11p; required for the efficient loading of the SC transverse filament protein, Zip1p; promotes SUMOylation of Ecm11p; mutants are delayed in meiotic nuclear division and are defective in synaptonemal complex assembly; transcription is regulated by Ume6p and induced in response to alpha factor
-S000031804	CDS					YLR445W		12	1024189	1024572	W		2011-02-03	2004-02-03|1996-07-31	
-S000031805	CDS					YLR445W		12	1024655	1024837	W		2011-02-03	2004-02-03	
-S000031806	intron					YLR445W		12	1024573	1024654	W		2011-02-03	2004-02-03	
-S000004438	ORF	Uncharacterized	YLR446W		hexokinase	chromosome 12		12	1025214	1026515	W		2011-02-03	1996-07-31	Putative hexokinase; transcript is upregulated during sporulation and the unfolded protein response; YLR446W is not an essential gene
-S000031911	CDS					YLR446W		12	1025214	1026515	W		2011-02-03	1996-07-31	
-S000004439	ORF	Verified	YLR447C	VMA6	H(+)-transporting V0 sector ATPase subunit d	chromosome 12	L000002461	12	1027893	1026856	C		2011-02-03	1996-07-31	Subunit d of the V0 integral membrane domain of V-ATPase; part of the electrogenic proton pump found in the endomembrane system; required for V1 domain assembly on the vacuolar membrane; the V0 integral membrane domain of vacuolar H+-ATPase (V-ATPase) has five subunits
-S000032768	CDS					YLR447C		12	1027893	1026856	C		2011-02-03	1996-07-31	
-S000004440	ORF	Verified	YLR448W	RPL6B	eL6|ribosomal 60S subunit protein L6B|L6e|rp18|YL16|L6B|L17B	chromosome 12	L000001714	12	1028854	1029768	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L6B; binds 5.8S rRNA; homologous to mammalian ribosomal protein L6, no bacterial homolog; RPL6B has a paralog, RPL6A, that arose from the whole genome duplication
-S000032930	CDS					YLR448W		12	1028854	1028868	W		2011-02-03	1996-07-31	
-S000032931	CDS					YLR448W		12	1029253	1029768	W		2011-02-03	1996-07-31	
-S000032932	intron					YLR448W		12	1028869	1029252	W		2011-02-03	1996-07-31	
-S000004441	ORF	Verified	YLR449W	FPR4	peptidylprolyl isomerase FPR4	chromosome 12	L000004352	12	1030834	1032012	W		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (PPIase); nuclear proline isomerase; affects expression of multiple genes via its role in nucleosome assembly; catalyzes isomerization of proline residues in histones H3 and H4, which affects lysine methylation of those histones; PPIase domain acts as a transcriptional repressor when tethered to DNA by lexA, and repressor activity is dependent on PPIase activity; contains a nucleoplasmin-like fold and can form pentamers
-S000033009	CDS					YLR449W		12	1030834	1032012	W		2011-02-03	1996-07-31	
-S000004442	ORF	Verified	YLR450W	HMG2	hydroxymethylglutaryl-CoA reductase (NADPH) HMG2	chromosome 12	L000000790	12	1032627	1035764	W	343	2011-02-03	1996-07-31	HMG-CoA reductase; converts HMG-CoA to mevalonate, a rate-limiting step in sterol biosynthesis; one of two isozymes; overproduction induces assembly of peripheral ER membrane arrays and short nuclear-associated membrane stacks; forms foci at nuclear periphery upon DNA replication stress; HMG2 has a paralog, HMG1, that arose from the whole genome duplication; human homolog HMGCR can complement yeast hmg2 mutant
-S000033695	CDS					YLR450W		12	1032627	1035764	W		2011-02-03	1996-07-31	
-S000004443	ORF	Verified	YLR451W	LEU3	leucine-responsive transcriptional regulator LEU3	chromosome 12	L000000944	12	1036093	1038753	W	346	2011-02-03	1996-07-31	Zinc-knuckle transcription factor, repressor and activator; regulates genes involved in branched chain amino acid biosynthesis and ammonia assimilation; acts as a repressor in leucine-replete conditions and as an activator in the presence of alpha-isopropylmalate, an intermediate in leucine biosynthesis that accumulates during leucine starvation
-S000033823	CDS					YLR451W		12	1036093	1038753	W		2011-02-03	1996-07-31	
-S000004444	ORF	Verified	YLR452C	SST2	GTPase-activating protein SST2	chromosome 12	L000002093	12	1041366	1039270	C	344	2011-02-03	1996-07-31	GTPase-activating protein for Gpa1p; regulates desensitization to alpha factor pheromone; also required to prevent receptor-independent signaling of the mating pathway; member of the RGS (regulator of G-protein signaling) family
-S000034630	CDS					YLR452C		12	1041366	1039270	C		2011-02-03	1996-07-31	
-S000004445	ORF	Verified	YLR453C	RIF2		chromosome 12	L000003513	12	1042986	1041799	C		2011-02-03	1996-07-31	Protein that binds to the Rap1p C-terminus; acts synergistically with Rif1p to help control telomere length and establish telomeric silencing; deletion results in telomere elongation; RIF2 has a paralog, ORC4, that arose from the whole genome duplication
-S000034787	CDS					YLR453C		12	1042986	1041799	C		2011-02-03	1996-07-31	
-S000004446	ORF	Uncharacterized	YLR454W	FMP27		chromosome 12		12	1043998	1051884	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000034985	CDS					YLR454W		12	1043998	1051884	W		2011-02-03	1996-07-31	
-S000006608	tRNA_gene		tI(AAU)L2			chromosome 12	L000003656	12	1052144	1052071	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000033933	noncoding_exon					tI(AAU)L2		12	1052144	1052071	C		2011-02-03	2000-05-19	
-S000007078	long_terminal_repeat		YLRCdelta27			chromosome 12		12	1052632	1052303	C		2011-02-03	2000-05-19	Ty1 LTR
-S000004447	ORF	Verified	YLR455W	PDP3		chromosome 12		12	1053629	1054543	W		2011-02-03	1996-07-31	Component of the NuA3b histone acetyltransferase complex; regulates interaction between NuA3b and H3K36me3 at the transcribed regions of genes; contains PWWP domain; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO); protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
-S000035931	CDS					YLR455W		12	1053629	1054543	W		2011-02-03	1996-07-31	
-S000004448	ORF	Uncharacterized	YLR456W		pyridoxal 5'-phosphate synthase	chromosome 12		12	1055070	1055684	W		2011-02-03	1996-07-31	Protein of unknown function; predicted to encode a pyridoxal 5'-phosphate synthase based on sequence similarity but purified protein does not possess this activity, nor does it bind flavin mononucleotide (FMN); null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2; YLR456W has a paralog, YPR172W, that arose from the whole genome duplication
-S000036078	CDS					YLR456W		12	1055070	1055684	W		2011-02-03	1996-07-31	
-S000004450	ORF	Dubious	YLR458W			chromosome 12		12	1056455	1056835	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 5' end of essential NBP1/YLR457C gene required for mitosis
-S000036948	CDS					YLR458W		12	1056455	1056835	W		2011-02-03	1996-07-31	
-S000004449	ORF	Verified	YLR457C	NBP1		chromosome 12	L000001234	12	1056771	1055812	C		2011-02-03	1996-07-31	Spindle pole body (SPB) component; required for the insertion of the duplication plaque into the nuclear membrane during SPB duplication; essential for bipolar spindle formation; component of the Mps2p-Bbp1p complex; NBP1 has a paralog, YPR174C, that arose from the whole genome duplication
-S000036128	CDS					YLR457C		12	1056771	1055812	C		2011-02-03	1996-07-31	
-S000004451	ORF	Verified	YLR459W	GAB1	GPI-anchor transamidase subunit GAB1|CDC91	chromosome 12	L000000290	12	1057334	1058518	W		2011-02-03	1996-07-31	GPI transamidase subunit; involved in attachment of glycosylphosphatidylinositol (GPI) anchors to proteins; may have a role in recognition of the attachment signal or of the lipid portion of GPI
-S000037010	CDS					YLR459W		12	1057334	1058518	W		2011-02-03	1996-07-31	
-S000178146	ARS		ARS1235			chromosome 12		12	1059439	1059923			2014-11-18	2014-11-18	Autonomously replicating sequence
-S000178147	ARS_consensus_sequence					ARS1235		12	1059718	1059702	C		2014-11-18	2014-11-18	
-S000004452	ORF	Uncharacterized	YLR460C			chromosome 12		12	1060887	1059757	C		2011-02-03	1996-07-31	Member of the quinone oxidoreductase family; up-regulated in response to the fungicide mancozeb; possibly up-regulated by iodine
-S000037785	CDS					YLR460C		12	1060887	1059757	C		2011-02-03	1996-07-31	
-S000004453	ORF	Verified	YLR461W	PAU4	seripauperin PAU4	chromosome 12	L000002731	12	1062919	1063281	W		2011-02-03	1996-07-31	Member of the seripauperin multigene family; encoded mainly in subtelomeric regions; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole; active during alcoholic fermentation; regulated by anaerobiosis; negatively regulated by oxygen; repressed by heme
-S000029848	CDS					YLR461W		12	1062919	1063281	W		2011-02-03	1996-07-31	
-S000028982	telomere		TEL12R			chromosome 12		12	1064281	1078177	W	350	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XII; composed of an X element core sequence, X element combinatorial repeats, two distinct regions of telomeric repeats, and two long Y' elements
-S000028984	telomeric_repeat					TEL12R		12	1065031	1065155	W		2011-02-03	2003-09-09	Internal telomeric repeats on the right arm of Chromosome XII
-S000028983	telomeric_repeat					TEL12R		12	1071646	1071653	W		2011-02-03	2003-09-09	Internal telomeric repeats on the right arm of Chromosome XII
-S000028985	X_element					TEL12R		12	1064281	1064747	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028986	X_element_combinatorial_repeat					TEL12R		12	1064748	1065030	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000028988	Y_prime_element					TEL12R		12	1065156	1071645	W		2011-02-03	2003-09-09	Long telomeric Y' element on the right arm of Chromosome XII; more centromere-proximal of two long telomeric Y' elements; contains an ARS consensus sequence, a region of 36-bp repeats, 5 ORFs (YLR466W, YLR462W, YLR464W, YLR463C, YLR465C), and part of ORF YLR466C-B
-S000028987	Y_prime_element					TEL12R		12	1071654	1078177	W		2011-02-03	2003-09-09	Long telomeric Y' element on the right arm of Chromosome XII; more end-proximal of two long telomeric Y' elements; contains an ARS consensus sequence, a region of 36-bp repeats, ORFs YRF1-5/YLR467W and YLR467C-A, and part of ORF YLR466C-B
-S000004454	ORF	Uncharacterized	YLR462W			chromosome 12		12	1065956	1066564	W		2011-02-03	1996-07-31	Putative protein of unknown function with similarity to helicases; YLR462W is within the telomere on the right arm of chromosome XII
-S000030870	CDS					YLR462W		12	1065956	1066564	W		2011-02-03	1996-07-31	
-S000004456	ORF	Uncharacterized	YLR464W			chromosome 12		12	1066572	1067501	W		2011-02-03	1996-07-31	Putative protein of unknown function; intron is predicted but not detected experimentally; YLR464W overlaps the verified gene YRF1-4/YLR466W and two dubious ORFs YLR463C and YLR465C
-S000031004	CDS					YLR464W		12	1066572	1067084	W		2011-02-03	1996-07-31	
-S000031005	CDS					YLR464W		12	1067364	1067501	W		2011-02-03	1996-07-31	
-S000031006	intron					YLR464W		12	1067085	1067363	W		2011-02-03	1996-07-31	
-S000004455	ORF	Dubious	YLR463C			chromosome 12		12	1066816	1066265	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the uncharacterized ORFs YLR462W and YLR464W
-S000030903	CDS					YLR463C		12	1066816	1066265	C		2011-02-03	1996-07-31	
-S000004458	ORF	Verified	YLR466W	YRF1-4	Y' element ATP-dependent helicase protein 1 copy 4|YRF1	chromosome 12		12	1067087	1071235	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
-S000032053	CDS					YLR466W		12	1067087	1071235	W		2011-02-03	1996-07-31	
-S000004457	ORF	Dubious	YLR465C	BSC3		chromosome 12		12	1067353	1067045	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 100% of YLR465C overlaps the uncharacterized ORF YLR464W and 86% of YLR465C overlaps the verified gene YRF1-4
-S000031044	CDS					YLR465C		12	1067353	1067045	C		2011-02-03	1996-07-31	
-S000028685	ORF	Dubious	YLR466C-A			chromosome 12		12	1070869	1070387	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YRF1-4/YLR466W
-S000032560	CDS					YLR466C-A		12	1070869	1070387	C		2011-02-03	2003-07-29	
-S000028686	ORF	Dubious	YLR466C-B			chromosome 12		12	1071710	1071594	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032562	CDS					YLR466C-B		12	1071710	1071594	C		2011-02-03	2003-07-29	
-S000004459	ORF	Verified	YLR467W	YRF1-5	Y' element ATP-dependent helicase protein 1 copy 5|YRF1	chromosome 12		12	1072508	1077898	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
-S000032127	CDS					YLR467W		12	1072508	1077898	W		2011-02-03	1996-07-31	
-S000028687	ORF	Dubious	YLR467C-A			chromosome 12		12	1077532	1077050	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YRF1-4/YLR466W
-S000032565	CDS					YLR467C-A		12	1077532	1077050	C		2011-02-03	2003-07-29	
-S000028690	ORF	Dubious	YML133W-B			chromosome 13		13	827	1309	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized ORF YML133C
-S000032587	CDS					YML133W-B		13	827	1309	W		2003-07-29	2003-07-29	
-S000028689	ORF	Dubious	YML133W-A			chromosome 13		13	1610	2185	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized ORF YML133C
-S000032568	CDS					YML133W-A		13	1610	2185	W		2003-07-29	2003-07-29	
-S000004602	ORF	Uncharacterized	YML133C		Y' element ATP-dependent helicase	chromosome 13		13	4684	461	C		1996-07-31	1996-07-31	Putative Y' element ATP-dependent helicase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YML133C contains an intron
-S000033211	CDS					YML133C		13	3791	461	C		1996-07-31	1996-07-31	
-S000033210	CDS					YML133C		13	4684	3891	C		1996-07-31	1996-07-31	
-S000033212	intron					YML133C		13	3890	3792	C		1996-07-31	1996-07-31	
-S000028918	telomere		TEL13L			chromosome 13		13	6344	1	C	-102	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XIII; composed of an X element core sequence, X element combinatorial repeats, a short region of telomeric repeats, a short Y' element, and a short terminal region of telomeric repeats
-S000028919	telomeric_repeat					TEL13L		13	51	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome XIII
-S000028920	telomeric_repeat					TEL13L		13	5585	5538	C		2003-09-09	2003-09-09	Internal telomeric repeats on the left arm of Chromosome XIII
-S000028921	X_element					TEL13L		13	6344	5875	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XIII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028922	X_element_combinatorial_repeat					TEL13L		13	5874	5586	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XIII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000028923	Y_prime_element					TEL13L		13	5537	52	C		2003-09-09	2003-09-09	Telomeric short Y' element on the left arm of Chromosome XIII; contains an ARS consensus sequence, a region of 36-bp repeats, and three ORFs (YML133C, YML133W-A, YML133W-B)
-S000004601	ORF	Verified	YML132W	COS3		chromosome 13	L000004061	13	7244	8383	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000033185	CDS					YML132W		13	7244	8383	W		1996-07-31	1996-07-31	
-S000004600	ORF	Verified	YML131W			chromosome 13		13	10198	11295	W		2011-02-03	1996-07-31	Protein of unknown function; similar to medium chain dehydrogenase/reductases; expression induced by stresses including osmotic shock, DNA damaging agents, and other chemicals; GFP-fusion protein localizes to the cytoplasm; protein abundance increases in response to DNA replication stress
-S000033094	CDS					YML131W		13	10198	11295	W		2011-02-03	1996-07-31	
-S000004599	ORF	Verified	YML130C	ERO1	ER oxidoreductin	chromosome 13	L000004013	13	13174	11483	C		2011-02-03	1996-07-31	Thiol oxidase required for oxidative protein folding in the ER; essential for maintaining ER redox balance; feedback regulated via reduction and oxidation of regulatory bonds; reduced Pdi1p activates Ero1p by direct reduction of Ero1p regulatory bonds; depletion of thiol substrates and accumulation of oxidized Pdi1p results in inactivation of Ero1p by both Pdi1p-mediated oxidation and autonomous oxidation of Ero1p regulatory bonds; ero1-1 mutation complemented by human ERO1L
-S000032133	CDS					YML130C		13	13174	11483	C		2011-02-03	1996-07-31	
-S000004598	ORF	Verified	YML129C	COX14		chromosome 13	L000000398	13	14753	14541	C		2011-02-03	1996-07-31	Mitochondrial cytochrome c oxidase (complex IV) assembly factor; also involved in translational regulation of Cox1p and prevention of Cox1p aggregation before assembly; associates with complex IV assembly intermediates and complex III/complex IV supercomplexes; located in the mitochondrial membrane
-S000031027	CDS					YML129C		13	14753	14541	C		2011-02-03	1996-07-31	
-S000004597	ORF	Verified	YML128C	MSC1		chromosome 13		13	16676	15135	C		2011-02-03	1996-07-31	Protein of unknown function; mutant is defective in directing meiotic recombination events to homologous chromatids; the authentic, non-tagged protein is detected in highly purified mitochondria and is phosphorylated
-S000030934	CDS					YML128C		13	16676	15135	C		2011-02-03	1996-07-31	
-S000004596	ORF	Verified	YML127W	RSC9		chromosome 13		13	17064	18809	W		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; DNA-binding protein involved in the synthesis of rRNA and in transcriptional repression and activation of genes regulated by the Target of Rapamycin (TOR) pathway
-S000030913	CDS					YML127W		13	17064	18809	W		2011-02-03	1996-07-31	
-S000004595	ORF	Verified	YML126C	ERG13	hydroxymethylglutaryl-CoA synthase|HMGS	chromosome 13	L000004090	13	20535	19060	C		2011-02-03	1996-07-31	3-hydroxy-3-methylglutaryl-CoA (HMG-CoA) synthase; catalyzes the formation of HMG-CoA from acetyl-CoA and acetoacetyl-CoA; involved in the second step in mevalonate biosynthesis
-S000030789	CDS					YML126C		13	20535	19060	C		2011-02-03	1996-07-31	
-S000004594	ORF	Verified	YML125C	PGA3	cytochrome-b5 reductase|NQR1	chromosome 13		13	21699	20761	C		2011-02-03	1996-07-31	Putative cytochrome b5 reductase, localized to the plasma membrane; may be involved in regulation of lifespan; required for maturation of Gas1p and Pho8p, proposed to be involved in protein trafficking; PGA3 has a paralog, AIM33, that arose from the whole genome duplication
-S000037858	CDS					YML125C		13	21699	20761	C		2011-02-03	1996-07-31	
-S000004593	ORF	Verified	YML124C	TUB3	alpha-tubulin TUB3	chromosome 13	L000002389	13	23683	22048	C	-101	2011-02-03	1996-07-31	Alpha-tubulin; associates with beta-tubulin (Tub2p) to form tubulin dimer, which polymerizes to form microtubules; expressed at lower level than Tub1p; TUB3 has a paralog, TUB1, that arose from the whole genome duplication
-S000037763	CDS					YML124C		13	23360	22048	C		2011-02-03	1996-07-31	
-S000037762	CDS					YML124C		13	23683	23659	C		2011-02-03	1996-07-31	
-S000037764	intron					YML124C		13	23658	23361	C		2011-02-03	1996-07-31	
-S000004592	ORF	Verified	YML123C	PHO84	phosphate transporter PHO84|phoT	chromosome 13	L000001430	13	25800	24037	C	-100.5	2011-02-03	1996-07-31	High-affinity inorganic phosphate (Pi) transporter; also low-affinity manganese transporter; regulated by Pho4p and Spt7p; mutation confers resistance to arsenate; exit from the ER during maturation requires Pho86p; cells overexpressing Pho84p accumulate heavy metals but do not develop symptoms of metal toxicity
-S000037701	CDS					YML123C		13	25800	24037	C		2011-02-03	1996-07-31	
-S000004591	ORF	Uncharacterized	YML122C			chromosome 13		13	26418	26038	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YML122C is not an essential gene
-S000036933	CDS					YML122C		13	26418	26038	C		2011-02-03	1996-07-31	
-S000004590	ORF	Verified	YML121W	GTR1	Rag GTPase GTR1	chromosome 13	L000000742	13	26930	27862	W	-99.6	1996-07-31	1996-07-31	Subunit of a TORC1-stimulating GTPase complex; subunit of the heterodimeric Gtr1-Gtr2 GTPase complex that stimulates TORC1 in response to amino acid stimulation; tethered to the vacuolar membrane as part of the EGOC, a complex required for sorting of Gap1p and microautophagy; involved in phosphate transport and telomeric chromatin silencing; activated by the the Iml1p (GAP) subunit of the SEACIT complex; similar to human RagA and RagB
-S000036898	CDS					YML121W		13	26930	27862	W		1996-07-31	1996-07-31	
-S000004589	ORF	Verified	YML120C	NDI1	NADH-ubiquinone reductase (H(+)-translocating) NDI1	chromosome 13	L000001239	13	29807	28266	C		1996-07-31	1996-07-31	NADH:ubiquinone oxidoreductase; transfers electrons from NADH to ubiquinone in respiratory chain but does not pump protons, in contrast to higher eukaryotic multisubunit respiratory complex I; upon apoptotic stress, is activated in mitochondria by N-terminal cleavage, then translocates to cytoplasm to induce apoptosis; homolog of human AIFM2; yeast NDI1 complements several phenotypes of human cell line with mutated MT-ND4, implicated in Leber hereditary optic neuropathy
-S000036805	CDS					YML120C		13	29807	28266	C		1996-07-31	1996-07-31	
-S000004588	ORF	Uncharacterized	YML119W			chromosome 13		13	30611	31684	W		1996-07-31	1996-07-31	Putative protein of unknown function; YML119W is not an essential gene; potential Cdc28p substrate
-S000035884	CDS					YML119W		13	30611	31684	W		1996-07-31	1996-07-31	
-S000118365	ARS		ARS1303		ARSXIII-32	chromosome 13		13	31766	31835			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000004587	ORF	Verified	YML118W	NGL3	3'-5' poly(A) RNA exonuclease	chromosome 13		13	32334	33851	W		1996-07-31	1996-07-31	3'-5' exonuclease specific for poly-A RNAs; has a domain similar to a magnesium-dependent endonuclease motif in mRNA deadenylase Ccr4p; similar to Ngl1p; NGL3 has a paralog, NGL2, that arose from the whole genome duplication
-S000034970	CDS					YML118W		13	32334	33851	W		1996-07-31	1996-07-31	
-S000004585	ORF	Verified	YML117W	NAB6		chromosome 13		13	34243	37647	W		1996-07-31	1996-07-31	Putative RNA-binding protein; associates with mRNAs encoding cell wall proteins in high-throughput studies; deletion mutants display increased sensitivity to some cell wall disrupting agents; expression negatively regulated by cAMP
-S000034816	CDS					YML117W		13	34243	37647	W		1996-07-31	1996-07-31	
-S000004586	ORF	Dubious	YML116W-A		YML117W-A	chromosome 13		13	37472	37774	W		1996-07-31	1996-07-31	Putative protein of unknown function
-S000031380	CDS					YML116W-A		13	37472	37774	W		1996-07-31	1996-07-31	
-S000004584	ORF	Verified	YML116W	ATR1	borate transporter|SNQ1	chromosome 13	L000001956|L000002831	13	38196	39824	W		1996-07-31	1996-07-31	Multidrug efflux pump of the major facilitator superfamily; required for resistance to aminotriazole and 4-nitroquinoline-N-oxide; ATR1 has a paralog, YMR279C, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000034666	CDS					YML116W		13	38196	39824	W		1996-07-31	1996-07-31	
-S000130187	ARS		ARS1304			chromosome 13		13	39824	40187			2009-05-08	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000178150	ARS_consensus_sequence					ARS1304		13	40149	40133	C		2014-11-18	2014-11-18	
-S000004583	ORF	Verified	YML115C	VAN1	LDB13|VRG8|VRG7	chromosome 13	L000002453	13	41794	40187	C	38	1996-07-31	1996-07-31	Component of the mannan polymerase I; complex contains Van1p and Mnn9p and is involved in the first steps of mannan synthesis; mutants are vanadate-resistant
-S000033712	CDS					YML115C		13	41794	40187	C		1996-07-31	1996-07-31	
-S000004582	ORF	Verified	YML114C	TAF8	TafII65|TAF65	chromosome 13		13	43575	42043	C		1996-07-31	1996-07-31	TFIID subunit (65 kDa); involved in RNA polymerase II transcription initiation
-S000033619	CDS					YML114C		13	43575	42043	C		1996-07-31	1996-07-31	
-S000004581	ORF	Verified	YML113W	DAT1		chromosome 13	L000000485	13	44045	44791	W		1996-07-31	1996-07-31	DNA binding protein that recognizes oligo(dA).oligo(dT) tracts; Arg side chain in its N-terminal pentad Gly-Arg-Lys-Pro-Gly repeat is required for DNA-binding; relocalizes to the cytosol in response to hypoxia; not essential for viability
-S000033570	CDS					YML113W		13	44045	44791	W		1996-07-31	1996-07-31	
-S000004580	ORF	Verified	YML112W	CTK3		chromosome 13	L000003012	13	45063	45953	W		1996-07-31	1996-07-31	Gamma subunit of C-terminal domain kinase I; CTDK-I phosphorylates RNA polymerase II subunit Rpo21p to affect transcription and pre-mRNA 3' end processing, and also phosphorylates ribosomal protein Rps2p to increase translational fidelity; protein abundance increases in response to DNA replication stress
-S000032868	CDS					YML112W		13	45063	45953	W		1996-07-31	1996-07-31	
-S000004579	ORF	Verified	YML111W	BUL2	ubiquitin-ubiquitin ligase BUL2	chromosome 13	L000004755	13	46942	49704	W		1996-07-31	1996-07-31	Component of the Rsp5p E3-ubiquitin ligase complex; involved in intracellular amino acid permease sorting, functions in heat shock element mediated gene expression, essential for growth in stress conditions; BUL2 has a paralog, BUL1, that arose from the whole genome duplication
-S000032740	CDS					YML111W		13	46942	49704	W		1996-07-31	1996-07-31	
-S000004578	ORF	Verified	YML110C	COQ5	2-hexaprenyl-6-methoxy-1,4-benzoquinone methyltransferase|DBI56	chromosome 13	L000003398	13	50954	50031	C		1996-07-31	1996-07-31	2-hexaprenyl-6-methoxy-1,4-benzoquinone methyltransferase; involved in ubiquinone (Coenzyme Q) biosynthesis; localizes to the matrix face of the mitochondrial inner membrane in a large complex with other ubiquinone biosynthetic enzymes; respiratory defect of the null mutant is partially complemented by human COQ5
-S000032570	CDS					YML110C		13	50954	50031	C		1996-07-31	1996-07-31	
-S000004577	ORF	Verified	YML109W	ZDS2	CES4	chromosome 13	L000003287	13	51640	54468	W		1996-07-31	1996-07-31	Protein with a role in regulating Swe1p-dependent polarized growth; involved in maintenance of Cdc55p in the cytoplasm where it promotes mitotic entry; interacts with silencing proteins at the telomere; implicated in the mitotic exit network through regulation of Cdc14p localization; ZDS2 has a paralog, ZDS1, that arose from the whole genome duplication
-S000031758	CDS					YML109W		13	51640	54468	W		1996-07-31	1996-07-31	
-S000004576	ORF	Verified	YML108W			chromosome 13		13	54793	55110	W		1996-07-31	1996-07-31	Protein of unknown function; structure defines a new subfamily of the split beta-alpha-beta sandwiches; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YML108W is not an essential gene; relative distribution to the nucleus increases upon DNA replication stress
-S000031668	CDS					YML108W		13	54793	55110	W		1996-07-31	1996-07-31	
-S000004575	ORF	Verified	YML107C	PML39		chromosome 13		13	56269	55265	C		2003-09-22	2003-09-22|1996-07-31	Protein required for nuclear retention of unspliced pre-mRNAs; required along with Mlp1p and Pml1p; anchored to nuclear pore complex via Mlp1p and Mlp2p; found with the subset of nuclear pores farthest from the nucleolus; may interact with ribosomes
-S000031517	CDS					YML107C		13	56269	55265	C		2003-09-22	2003-09-22|1996-07-31	
-S000004574	ORF	Verified	YML106W	URA5	orotate phosphoribosyltransferase URA5|PYR5	chromosome 13	L000002434	13	56773	57453	W		1996-07-31	1996-07-31	Major orotate phosphoribosyltransferase (OPRTase) isozyme; catalyzes the fifth enzymatic step in de novo biosynthesis of pyrimidines, converting orotate into orotidine-5'-phosphate; URA5 has a paralog, URA10, that arose from the whole genome duplication
-S000030709	CDS					YML106W		13	56773	57453	W		1996-07-31	1996-07-31	
-S000004573	ORF	Verified	YML105C	SEC65	RNA-binding signal recognition particle subunit SEC65	chromosome 13	L000001855	13	58687	57866	C		1996-07-31	1996-07-31	Subunit of the signal recognition particle (SRP); involved in protein targeting to the ER; interacts with Srp54p; homolog of mammalian SRP19
-S000030552	CDS					YML105C		13	58687	57866	C		1996-07-31	1996-07-31	
-S000004572	ORF	Verified	YML104C	MDM1		chromosome 13	L000001051	13	62322	58939	C		1996-07-31	1996-07-31	PtdIns-3-P binding protein that tethers the ER to vacuoles at NVJs; anchored in the ER membrane at nucleus-vacuole junctions and binds phosphatidylinositol 3-phosphate (PtdIns-3-P) in the vacuolar membrane via its Phox homology (PX) domain; expressed predominantly in late G1 to early S phase of the cell cycle; mutation affects nuclear and mitochondrial transmission to daughter buds; similar to 4 human genes, one of which (SNX14) is associated with neurological disease
-S000030408	CDS					YML104C		13	62322	58939	C		1996-07-31	1996-07-31	
-S000004571	ORF	Verified	YML103C	NUP188		chromosome 13	L000003099	13	67549	62582	C		1996-07-31	1996-07-31	Subunit of the inner ring of the nuclear pore complex (NPC); contributes to NPC organization and nucleocytoplasmic transport; homologous to human NUP188
-S000037631	CDS					YML103C		13	67549	62582	C		1996-07-31	1996-07-31	
-S000081376	snoRNA_gene		snR85	SNR85		chromosome 13		13	67938	67768	C		2006-01-24	2006-01-24	H/ACA box small nucleolar RNA (snoRNA); predicted to guide pseudouridylation of small subunit (SSU) rRNA at position U1181
-S000114174	noncoding_exon					snR85		13	67938	67768	C		2006-01-24	2006-01-24	
-S000004570	ORF	Verified	YML102W	CAC2		chromosome 13	L000003389	13	68294	69700	W		1996-07-31	1996-07-31	Subunit of chromatin assembly factor I (CAF-1), with Rlf2p and Msi1p; chromatin assembly by CAF-1 is important for multiple processes including silencing at telomeres, mating type loci, and rDNA; maintenance of kinetochore structure, deactivation of the DNA damage checkpoint after DNA repair, chromatin dynamics during transcription; and repression of divergent transcription; relocalizes to the cytosol in response to hypoxia
-S000037576	CDS					YML102W		13	68294	69700	W		1996-07-31	1996-07-31	
-S000004569	ORF	Dubious	YML101C-A		YML102C-A	chromosome 13		13	69726	69409	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032439	CDS					YML101C-A		13	69726	69409	C		1996-07-31	1996-07-31	
-S000004568	ORF	Verified	YML101C	CUE4		chromosome 13		13	70088	69735	C		1996-07-31	1996-07-31	Protein of unknown function; has a CUE domain that binds ubiquitin, which may facilitate intramolecular monoubiquitination; CUE4 has a paralog, CUE1, that arose from the whole genome duplication
-S000037386	CDS					YML101C		13	70088	69735	C		1996-07-31	1996-07-31	
-S000028688	ORF	Uncharacterized	YML100W-A			chromosome 13		13	70138	70311	W		2003-07-29	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032567	CDS					YML100W-A		13	70138	70311	W		2003-07-29	2003-07-29	
-S000004566	ORF	Verified	YML100W	TSL1	trehalose 6-phosphate synthase/phosphatase complex subunit	chromosome 13	L000002361	13	70624	73920	W		1996-07-31	1996-07-31	Large subunit of trehalose 6-phosphate synthase/phosphatase complex; Tps1p-Tps2p complex converts uridine-5'-diphosphoglucose and glucose 6-phosphate to trehalose; contributes to survival to acute lethal heat stress; mutant has aneuploidy tolerance; protein abundance increases in response to DNA replication stress; TSL1 has a paralog, TPS3, that arose from the whole genome duplication
-S000036726	CDS					YML100W		13	70624	73920	W		1996-07-31	1996-07-31	
-S000004567	ORF	Dubious	YML099W-A		YML100W-A	chromosome 13		13	74229	74558	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF ARG81/YML099C
-S000037139	CDS					YML099W-A		13	74229	74558	W		1996-07-31	1996-07-31	
-S000004565	ORF	Verified	YML099C	ARG81	ARGRII|ARGR2	chromosome 13	L000000114|L000000113	13	77040	74398	C	-63	1996-07-31	1996-07-31	Zinc finger transcription factor involved in arginine-responsive genes; Zn(2)-Cys(6) binuclear cluster domain type; involved in the regulation of arginine-responsive genes; acts with Arg80p and Arg82p
-S000032192	CDS					YML099C		13	77040	74398	C		1996-07-31	1996-07-31	
-S000004564	ORF	Verified	YML098W	TAF13	TafII19|TAF19|FUN81	chromosome 13	L000000650	13	77267	77770	W	-63	1996-07-31	1996-07-31	TFIID subunit (19 kDa); involved in RNA polymerase II transcription initiation, similar to histone H4 with atypical histone fold motif of Spt3-like transcription factors
-S000032162	CDS					YML098W		13	77267	77770	W		1996-07-31	1996-07-31	
-S000004563	ORF	Verified	YML097C	VPS9	guanine nucleotide exchange factor VPS9|VPT9|VPL31	chromosome 13	L000002659	13	79690	78335	C		1996-07-31	1996-07-31	Guanine nucleotide exchange factor (GEF) and ubiquitin receptor; involved in vesicle-mediated vacuolar transport, including Golgi-endosome trafficking and sorting through the multivesicular body (MVB); stimulates the intrinsic guanine nucleotide exchange activity of Rab family members (Vps21p/Ypt52p/Ypt53p); partially redundant with GEF MUK1; required for localization of the CORVET complex to endosomes; similar to mammalian ras inhibitors; contains a Ub-interacting CUE domain
-S000031138	CDS					YML097C		13	79690	78335	C		1996-07-31	1996-07-31	
-S000004562	ORF	Uncharacterized	YML096W		putative asparagine synthase	chromosome 13		13	79909	81486	W		1996-07-31	1996-07-31	Putative protein with similarity to asparagine synthetases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YML096W is not an essential gene and partially overlaps the verified gene RAD10
-S000031103	CDS					YML096W		13	79909	81486	W		1996-07-31	1996-07-31	
-S000004560	ORF	Verified	YML095C	RAD10		chromosome 13	L000001563	13	82113	81481	C	48	1996-07-31	1996-07-31	Single-stranded DNA endonuclease (with Rad1p); cleaves single-stranded DNA during nucleotide excision repair and double-strand break repair; subunit of Nucleotide Excision Repair Factor 1 (NEF1); homolog of human ERCC1 protein
-S000030965	CDS					YML095C		13	82113	81481	C		1996-07-31	1996-07-31	
-S000004559	ORF	Verified	YML094W	GIM5	PFD5	chromosome 13	L000004370	13	82275	82849	W		1996-07-31	1996-07-31	Subunit of the heterohexameric cochaperone prefoldin complex; prefoldin binds specifically to cytosolic chaperonin and transfers target proteins to it; prefoldin complex also localizes to chromatin of actively transcribed genes in the nucleus and facilitates transcriptional elongation
-S000030920	CDS					YML094W		13	82275	82290	W		1996-07-31	1996-07-31	
-S000030921	CDS					YML094W		13	82374	82849	W		1996-07-31	1996-07-31	
-S000030922	intron					YML094W		13	82291	82373	W		1996-07-31	1996-07-31	
-S000004561	ORF	Dubious	YML094C-A		YML095C-A	chromosome 13		13	82620	82219	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene GIM5/YML094W; deletion confers sensitivity to GSAO
-S000032030	CDS					YML094C-A		13	82620	82219	C		1996-07-31	1996-07-31	
-S000004558	ORF	Verified	YML093W	UTP14		chromosome 13		13	83090	85789	W		1996-07-31	1996-07-31	Subunit of U3-containing Small Subunit (SSU) processome complex; involved in production of 18S rRNA and assembly of small ribosomal subunit
-S000029918	CDS					YML093W		13	83090	85789	W		1996-07-31	1996-07-31	
-S000004557	ORF	Verified	YML092C	PRE8	proteasome core particle subunit alpha 2	chromosome 13	L000002700	13	86739	85987	C		1996-07-31	1996-07-31	Alpha 2 subunit of the 20S proteasome
-S000037849	CDS					YML092C		13	86739	85987	C		1996-07-31	1996-07-31	
-S000004556	ORF	Verified	YML091C	RPM2	ribonuclease P	chromosome 13	L000001743	13	90731	87123	C		1996-07-31	1996-07-31	Protein subunit of mitochondrial RNase P; has roles in nuclear transcription, cytoplasmic and mitochondrial RNA processing, and mitochondrial translation; distributed to mitochondria, cytoplasmic processing bodies, and the nucleus
-S000036004	CDS					YML091C		13	90731	87123	C		1996-07-31	1996-07-31	
-S000004555	ORF	Dubious	YML090W			chromosome 13		13	90744	91130	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YML089C; exhibits growth defect on a non-fermentable (respiratory) carbon source
-S000035949	CDS					YML090W		13	90744	91130	W		1996-07-31	1996-07-31	
-S000004554	ORF	Dubious	YML089C			chromosome 13		13	91409	91041	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; expression induced by calcium shortage
-S000036274	CDS					YML089C		13	91409	91041	C		1996-07-31	1996-07-31	
-S000077071	ncRNA_gene		ZOD1	ZOD1		chromosome 13		13	91970	92027	W		2014-11-18	2014-11-18	tDNA relic, ancient tDNA for tRNA-Ile; weakly transcribed by RNA polymerase III; located upstream of UFO1; associated with components of the Pol III machinery: Tfc4p, Brf1p, Bdp1, and Rpc34p
-S000178148	noncoding_exon					ZOD1		13	91970	92027	W		2014-11-18	2014-11-18	
-S000004553	ORF	Verified	YML088W	UFO1	SCF ubiquitin ligase complex subunit UFO1	chromosome 13		13	92235	94241	W		1996-07-31	1996-07-31	F-box receptor protein; subunit of the Skp1-Cdc53-F-box receptor (SCF) E3 ubiquitin ligase complex; binds to phosphorylated Ho endonuclease, allowing its ubiquitination by SCF and subsequent degradation
-S000036233	CDS					YML088W		13	92235	94241	W		1996-07-31	1996-07-31	
-S000118366	ARS		ARS1305		ARSXIII-94	chromosome 13		13	94217	94463			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000004552	ORF	Verified	YML087C	AIM33	cytochrome-b5 reductase	chromosome 13		13	95369	94431	C		1996-07-31	1996-07-31	Protein of unknown function, highly conserved across species; homolog of human CYB5R4; null mutant displays reduced frequency of mitochondrial genome loss; AIM33 has a paralog, PGA3, that arose from the whole genome duplication
-S000036086	CDS					YML087C		13	95369	94431	C		1996-07-31	1996-07-31	
-S000004551	ORF	Verified	YML086C	ALO1	D-arabinono-1,4-lactone oxidase	chromosome 13	L000004264	13	97371	95791	C		1996-07-31	1996-07-31	D-Arabinono-1,4-lactone oxidase; catalyzes the final step in biosynthesis of dehydro-D-arabinono-1,4-lactone, which is protective against oxidative stress
-S000036007	CDS					YML086C		13	97371	95791	C		1996-07-31	1996-07-31	
-S000004550	ORF	Verified	YML085C	TUB1	alpha-tubulin TUB1	chromosome 13	L000002387	13	99400	97941	C	-62	1996-07-31	1996-07-31	Alpha-tubulin; associates with beta-tubulin (Tub2p) to form tubulin dimer, which polymerizes to form microtubules; relative distribution to nuclear foci increases upon DNA replication stress; TUB1 has a paralog, TUB3, that arose from the whole genome duplication
-S000035128	CDS					YML085C		13	99259	97941	C		1996-07-31	1996-07-31	
-S000035127	CDS					YML085C		13	99400	99376	C		1996-07-31	1996-07-31	
-S000035129	intron					YML085C		13	99375	99260	C		1996-07-31	1996-07-31	
-S000004549	ORF	Dubious	YML084W			chromosome 13		13	99489	99797	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035047	CDS					YML084W		13	99489	99797	W		1996-07-31	1996-07-31	
-S000004548	ORF	Verified	YML083C			chromosome 13		13	101050	99794	C		1996-07-31	1996-07-31	Protein of unknown function; transcriptionally regulated by Upc2p via an upstream sterol response element; strong increase in transcript abundance during anaerobic growth compared to aerobic growth; cells deleted for YML083C do not exhibit growth defects in anerobic or anaerobic conditions
-S000034849	CDS					YML083C		13	101050	99794	C		1996-07-31	1996-07-31	
-S000004547	ORF	Uncharacterized	YML082W		putative cystathionine gamma-synthase	chromosome 13		13	101862	103811	W		1996-07-31	1996-07-31	Putative protein predicted to have carbon-sulfur lyase activity; transcriptionally regulated by Upc2p via an upstream sterol response element; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and the cytoplasm; not an essential gene; YML082W has a paralog, STR2, that arose from the whole genome duplication
-S000034791	CDS					YML082W		13	101862	103811	W		1996-07-31	1996-07-31	
-S000007247	ORF	Verified	YML081C-A	ATP18	F1F0 ATP synthase subunit i	chromosome 13	L000004548	13	104162	103983	C		1997-07-17	1997-07-17	Subunit of the mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; termed subunit I or subunit j; does not correspond to known ATP synthase subunits in other organisms
-S000032427	CDS					YML081C-A		13	104162	103983	C		1997-07-17	1997-07-17	
-S000004546	ORF	Verified	YML081W	TDA9	AAF1	chromosome 13		13	104777	108532	W		1996-07-31	1996-07-31	Transcription factor that regulates acetate production; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; null mutant is sensitive to expression of the top1-T722A allele; not an essential gene; TDA9 has a paralog, RSF2, that arose from the whole genome duplication
-S000033928	CDS					YML081W		13	104777	108532	W		1996-07-31	1996-07-31	
-S000004545	ORF	Verified	YML080W	DUS1	tRNA dihydrouridine synthase	chromosome 13		13	108806	110077	W		1996-07-31	1996-07-31	Dihydrouridine synthase; member of a widespread family of conserved proteins including Smm1p, Dus3p, and Dus4p; modifies pre-tRNA(Phe) at U17
-S000033787	CDS					YML080W		13	108806	110077	W		1996-07-31	1996-07-31	
-S000004544	ORF	Uncharacterized	YML079W			chromosome 13		13	110247	110852	W		1996-07-31	1996-07-31	Non-essential protein of unknown function; has structural resemblance to plant storage and ligand binding proteins (canavalin, glycinin, auxin binding protein) and to some enzymes (epimerase, germin); localizes to the nucleus and cytoplasm
-S000031763	CDS					YML079W		13	110247	110852	W		1996-07-31	1996-07-31	
-S000004543	ORF	Verified	YML078W	CPR3	peptidylprolyl isomerase CPR3|CYP3	chromosome 13	L000000464|L000000402	13	111002	111550	W		1996-07-31	1996-07-31	Mitochondrial peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; involved in protein refolding after import into mitochondria
-S000031645	CDS					YML078W		13	111002	111550	W		1996-07-31	1996-07-31	
-S000004542	ORF	Verified	YML077W	BET5	TRAPP subunit BET5	chromosome 13	L000004608	13	111865	112344	W		1996-07-31	1996-07-31	Core component of transport protein particle (TRAPP) complexes I-III; TRAPP complexes are related multimeric guanine nucleotide-exchange factors for the GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII); human homology TRAPPC1 complements yeast null mutant
-S000031560	CDS					YML077W		13	111865	112344	W		1996-07-31	1996-07-31	
-S000004541	ORF	Verified	YML076C	WAR1		chromosome 13		13	115347	112513	C		1996-07-31	1996-07-31	Homodimeric Zn2Cys6 zinc finger transcription factor; binds to a weak acid response element to induce transcription of PDR12 and FUN34, encoding an acid transporter and a putative ammonia transporter, respectively
-S000030680	CDS					YML076C		13	115347	112513	C		1996-07-31	1996-07-31	
-S000004540	ORF	Verified	YML075C	HMG1	hydroxymethylglutaryl-CoA reductase (NADPH) HMG1	chromosome 13	L000000789	13	118898	115734	C	-50	1996-07-31	1996-07-31	HMG-CoA reductase; catalyzes conversion of HMG-CoA to mevalonate, which is a rate-limiting step in sterol biosynthesis; one of two isozymes; localizes to nuclear envelope; overproduction induces formation of karmellae; forms foci at nuclear periphery upon DNA replication stress; HMG1 has a paralog, HMG2, that arose from the whole genome duplication; human homolog HMGCR can complement yeast hmg1 mutant
-S000030566	CDS					YML075C		13	118898	115734	C		1996-07-31	1996-07-31	
-S000004539	ORF	Verified	YML074C	FPR3	peptidylprolyl isomerase FPR3|NPI46	chromosome 13	L000001268	13	121324	120089	C		1996-07-31	1996-07-31	Nucleolar peptidyl-prolyl cis-trans isomerase (PPIase); FK506 binding protein; affects expression of multiple genes via its role in nucleosome assembly; phosphorylated by casein kinase II (Cka1p-Cka2p-Ckb1p-Ckb2p) and dephosphorylated by Ptp1p; PPIase domain acts as a transcriptional repressor when tethered to DNA by lexA, and repressor activity is dependent on PPIase activity; FPR3 has a paralog, FPR4, that arose from the whole genome duplication
-S000030502	CDS					YML074C		13	121324	120089	C		1996-07-31	1996-07-31	
-S000004538	ORF	Verified	YML073C	RPL6A	eL6|ribosomal 60S subunit protein L6A|L6e|rp18|YL16|L6A|L17A|YL16A	chromosome 13	L000004165	13	124172	123227	C		1996-07-31	1996-07-31	Ribosomal 60S subunit protein L6A; N-terminally acetylated; binds 5.8S rRNA; homologous to mammalian ribosomal protein L6, no bacterial homolog; RPL6A has a paralog, RPL6B, that arose from the whole genome duplication
-S000037684	CDS					YML073C		13	123742	123227	C		1996-07-31	1996-07-31	
-S000037683	CDS					YML073C		13	124172	124158	C		1996-07-31	1996-07-31	
-S000037685	intron					YML073C		13	124157	123743	C		1996-07-31	1996-07-31	
-S000004537	ORF	Verified	YML072C	TCB3		chromosome 13		13	129367	124730	C		1996-07-31	1996-07-31	Cortical ER protein involved in ER-plasma membrane tethering; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to the plasma membrane (PM) and regulate PM phosphatidylinositol-4-phosphate (PI4P) levels by controlling access of Sac1p phosphatase to its substrate PI4P in the PM; localized to the bud via specific mRNA transport; non-tagged protein detected in a phosphorylated state in mitochondria; C-termini of Tcb1p, Tcb2p and Tcb3p interact
-S000037588	CDS					YML072C		13	129367	124730	C		1996-07-31	1996-07-31	
-S000004536	ORF	Verified	YML071C	COG8	Golgi transport complex subunit COG8|DOR1	chromosome 13		13	131572	129749	C		1996-07-31	1996-07-31	Component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
-S000037526	CDS					YML071C		13	131572	129749	C		1996-07-31	1996-07-31	
-S000006718	tRNA_gene		tR(UCU)M2			chromosome 13	L000003686	13	131896	131825	C		2000-05-19	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000031505	noncoding_exon					tR(UCU)M2		13	131896	131825	C		2000-05-19	2000-05-19	
-S000007101	long_terminal_repeat		YMLCdelta1			chromosome 13		13	132321	131989	C		2000-05-19	2000-05-19	Ty1 LTR
-S000004535	ORF	Verified	YML070W	DAK1	dihydroxyacetone kinase	chromosome 13	L000004203	13	133475	135229	W		1996-07-31	1996-07-31	Dihydroxyacetone kinase; required for detoxification of dihydroxyacetone (DHA); involved in stress adaptation
-S000037490	CDS					YML070W		13	133475	135229	W		1996-07-31	1996-07-31	
-S000004534	ORF	Verified	YML069W	POB3	FACT complex subunit POB3	chromosome 13	L000003326	13	135500	137158	W		1996-07-31	1996-07-31	Subunit of the heterodimeric FACT complex (Spt16p-Pob3p); FACT associates with chromatin via interaction with Nhp6Ap and Nhp6Bp, and reorganizes nucleosomes to facilitate access to DNA by RNA and DNA polymerases; protein abundance increases in response to DNA replication stress
-S000036481	CDS					YML069W		13	135500	137158	W		1996-07-31	1996-07-31	
-S000118367	ARS		ARS1307		ARSXIII-137	chromosome 13		13	137300	137548			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000178151	ARS_consensus_sequence					ARS1307		13	137321	137337	W		2014-11-18	2014-11-18	
-S000004533	ORF	Verified	YML068W	ITT1		chromosome 13		13	137550	138944	W		1996-07-31	1996-07-31	Protein that modulates the efficiency of translation termination; interacts with translation release factors eRF1 (Sup45p) and eRF3 (Sup35p) in vitro, contains a zinc finger domain characteristic of the TRIAD class of proteins
-S000036418	CDS					YML068W		13	137550	138944	W		1996-07-31	1996-07-31	
-S000004532	ORF	Verified	YML067C	ERV41		chromosome 13		13	140214	139063	C		1996-07-31	1996-07-31	Protein localized to COPII-coated vesicles; forms a complex with Erv46p; involved in the membrane fusion stage of transport; has homology to human ERGIC2 (PTX1) protein
-S000035439	CDS					YML067C		13	140090	139063	C		1996-07-31	1996-07-31	
-S000035438	CDS					YML067C		13	140214	140184	C		1996-07-31	1996-07-31	
-S000035440	intron					YML067C		13	140183	140091	C		1996-07-31	1996-07-31	
-S000004531	ORF	Verified	YML066C	SMA2		chromosome 13		13	141533	140424	C		1996-07-31	1996-07-31	Meiosis-specific prospore membrane protein; required to produce bending force necessary for proper assembly of the prospore membrane during sporulation
-S000035365	CDS					YML066C		13	141533	140424	C		1996-07-31	1996-07-31	
-S000004530	ORF	Verified	YML065W	ORC1	origin recognition complex subunit 1	chromosome 13	L000003162	13	142210	144954	W		1996-07-31	1996-07-31	Largest subunit of the origin recognition complex; involved in directing DNA replication by binding to replication origins; also involved in transcriptional silencing; exhibits ATPase activity; ORC1 has a paralog, SIR3, that arose from the whole genome duplication
-S000035334	CDS					YML065W		13	142210	144954	W		1996-07-31	1996-07-31	
-S000004529	ORF	Verified	YML064C	TEM1	Ras family GTPase TEM1	chromosome 13	L000002282	13	145876	145139	C		1996-07-31	1996-07-31	GTP-binding protein of the Ras superfamily; involved in termination of M-phase; controls actomyosin and septin dynamics during cytokinesis
-S000035202	CDS					YML064C		13	145876	145139	C		1996-07-31	1996-07-31	
-S000004528	ORF	Verified	YML063W	RPS1B	eS1|ribosomal 40S subunit protein S1B|S1e|rp10B|S1B|RP10B|PLC2	chromosome 13	L000001665	13	146482	147249	W		1996-07-31	1996-07-31	Ribosomal protein 10 (rp10) of the small (40S) subunit; homologous to mammalian ribosomal protein S3A, no bacterial homolog; RPS1B has a paralog, RPS1A, that arose from the whole genome duplication
-S000035158	CDS					YML063W		13	146482	147249	W		1996-07-31	1996-07-31	
-S000004527	ORF	Verified	YML062C	MFT1	MFT52	chromosome 13	L000001099	13	148683	147505	C		1996-07-31	1996-07-31	Subunit of the THO complex; THO is a nuclear complex comprised of Hpr1p, Mft1p, Rlr1p, and Thp2p, that is involved in transcription elongation and mitotic recombination; involved in telomere maintenance
-S000034129	CDS					YML062C		13	148683	147505	C		1996-07-31	1996-07-31	
-S000004526	ORF	Verified	YML061C	PIF1	DNA helicase PIF1|TST1	chromosome 13	L000001435	13	151532	148953	C		1996-07-31	1996-07-31	DNA helicase, potent G-quadruplex DNA binder/unwinder; possesses strand annealing activity; promotes DNA synthesis during break-induced replication; important for crossover recombination; translation from different start sites produces mitochondrial and nuclear forms; nuclear form is a catalytic inhibitor of telomerase; mitochondrial form involved in DNA repair and recombination; mutations affect Zn, Fe homeostasis; regulated by Rad53p-dependent phosphorylation in rho0 cells
-S000034029	CDS					YML061C		13	151532	148953	C		1996-07-31	1996-07-31	
-S000004525	ORF	Verified	YML060W	OGG1	8-oxoguanine glycosylase OGG1	chromosome 13	L000003339	13	151871	153001	W		1996-07-31	1996-07-31	Nuclear and mitochondrial glycosylase/lyase; specifically excises 7,8-dihydro-8-oxoguanine residues located opposite cytosine or thymine residues in DNA, repairs oxidative damage to mitochondrial DNA, contributes to UVA resistance
-S000033997	CDS					YML060W		13	151871	153001	W		1996-07-31	1996-07-31	
-S000004524	ORF	Verified	YML059C	NTE1	lysophospholipase	chromosome 13		13	158258	153219	C		1996-07-31	1996-07-31	Serine esterase; homolog of human neuropathy target esterase (NTE); Nte1p-mediated phosphatidylcholine turnover influences transcription factor Opi1p localization, affecting transcriptional regulation of phospholipid biosynthesis genes
-S000032143	CDS					YML059C		13	158258	153219	C		1996-07-31	1996-07-31	
-S000007472	ORF	Verified	YML058W-A	HUG1		chromosome 13	L000004561	13	158760	158966	W		1998-11-10	1998-11-10	Ribonucleotide reductase inhibitor; intrinsically disordered protein that binds to and inhibits Rnr2p; involved in the Mec1p-mediated checkpoint pathway; transcription is induced by genotoxic stress and by activation of the Rad53p pathway; protein abundance increases in response to DNA replication stress
-S000030950	CDS					YML058W-A		13	158760	158966	W		1998-11-10	1998-11-10	
-S000178152	ARS		ARS1307.5			chromosome 13		13	158887	159277			2014-11-18	2014-11-18	Autonomously replicating sequence
-S000178153	ARS_consensus_sequence					ARS1307.5		13	159046	159062	W		2014-11-18	2014-11-18	
-S000004523	ORF	Verified	YML058W	SML1	ribonucleotide reductase inhibiting protein SML1	chromosome 13	L000004580	13	159383	159697	W		1996-07-31	1996-07-31	Ribonucleotide reductase inhibitor; involved in regulating dNTP production; regulated by Mec1p and Rad53p during DNA damage and S phase; SML1 has a paralog, DIF1, that arose from the whole genome duplication
-S000032114	CDS					YML058W		13	159383	159697	W		1996-07-31	1996-07-31	
-S000004521	ORF	Verified	YML057W	CMP2	calcineurin catalytic subunit A|CNA2	chromosome 13	L000000368	13	160180	161994	W		1996-07-31	1996-07-31	Calcineurin A; one isoform (the other is Cna1p) of the catalytic subunit of calcineurin, a Ca++/calmodulin-regulated protein phosphatase which regulates Crz1p (a stress-response transcription factor), the other calcineurin subunit is CNB1; regulates the function of Aly1p alpha-arrestin; CMP2 has a paralog, CNA1, that arose from the whole genome duplication
-S000032034	CDS					YML057W		13	160180	161994	W		1996-07-31	1996-07-31	
-S000004522	ORF	Dubious	YML057C-A		YML058C-A	chromosome 13		13	160412	160023	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene CMP2/YML057W
-S000036471	CDS					YML057C-A		13	160412	160023	C		1996-07-31	1996-07-31	
-S000006445	snoRNA_gene		snR54	SNR54		chromosome 13	L000004523	13	163620	163535	C		2000-05-19	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position A974
-S000030738	noncoding_exon					snR54		13	163620	163535	C		2000-05-19	2000-05-19	
-S000004520	ORF	Verified	YML056C	IMD4	IMP dehydrogenase IMD4	chromosome 13		13	164176	162194	C		1996-07-31	1996-07-31	Inosine monophosphate dehydrogenase; catalyzes the rate-limiting step in the de novo synthesis of GTP; member of a four-gene family in S. cerevisiae, constitutively expressed; IMD4 has a paralog, IMD3, that arose from the whole genome duplication
-S000031022	CDS					YML056C		13	163308	162194	C		1996-07-31	1996-07-31	
-S000031021	CDS					YML056C		13	164176	163717	C		1996-07-31	1996-07-31	
-S000031023	intron					YML056C		13	163716	163309	C		1996-07-31	1996-07-31	
-S000004519	ORF	Verified	YML055W	SPC2	signal peptidase complex subunit SPC2|SPY1	chromosome 13	L000002874	13	164790	165326	W		1996-07-31	1996-07-31	Subunit of signal peptidase complex; complex catalyzes cleavage of N-terminal signal sequences of proteins targeted to the secretory pathway; homologous to mammalian SPC25; other members of the complex are Spc1p, Spc1p, and Sec11p
-S000030975	CDS					YML055W		13	164790	165326	W		1996-07-31	1996-07-31	
-S000004518	ORF	Verified	YML054C	CYB2	FCB2	chromosome 13	L000000447	13	167308	165533	C	-30	1996-07-31	1996-07-31	Cytochrome b2 (L-lactate cytochrome-c oxidoreductase); component of the mitochondrial intermembrane space, required for lactate utilization; expression is repressed by glucose and anaerobic conditions
-S000030874	CDS					YML054C		13	167308	165533	C		1996-07-31	1996-07-31	
-S000028573	ORF	Uncharacterized	YML054C-A			chromosome 13		13	167781	167623	C		2003-07-29	2003-07-29	Putative protein of unknown function
-S000031301	CDS					YML054C-A		13	167781	167623	C		2003-07-29	2003-07-29	
-S000007102	long_terminal_repeat		YMLCdelta2			chromosome 13		13	168681	168349	C		2000-05-19	2000-05-19	Ty2 LTR
-S000006783	tRNA_gene		tY(GUA)M1	SUP5		chromosome 13	L000003666|L000002184	13	168795	168883	W	-34	2000-05-19	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000032294	intron					tY(GUA)M1		13	168834	168847	W		2000-05-19	2000-05-19	
-S000032292	noncoding_exon					tY(GUA)M1		13	168795	168833	W		2000-05-19	2000-05-19	
-S000032293	noncoding_exon					tY(GUA)M1		13	168848	168883	W		2000-05-19	2000-05-19	
-S000004517	ORF	Uncharacterized	YML053C			chromosome 13		13	169754	169116	C		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus; overexpression causes a cell cycle delay or arrest; YML053C is not an essential gene
-S000030788	CDS					YML053C		13	169754	169116	C		1996-07-31	1996-07-31	
-S000004516	ORF	Verified	YML052W	SUR7		chromosome 13	L000004152	13	170402	171310	W		1996-07-31	1996-07-31	Plasma membrane protein, component of eisosomes; long-lived protein that remains stable in eisosomes of mother cells while other eisosome proteins, Pil1p and Lsp1p, turn over; may function to anchor the eisosome in place; sporulation and plasma membrane sphingolipid content are altered in mutants; localizes to furrow-like invaginations (MCC patches)
-S000037898	CDS					YML052W		13	170402	171310	W		1996-07-31	1996-07-31	
-S000004515	ORF	Verified	YML051W	GAL80	transcription regulator GAL80	chromosome 13	L000000665	13	171594	172901	W	-33	1996-07-31	1996-07-31	Transcriptional regulator involved in the repression of GAL genes; involved in the repression of GAL genes in the absence of galactose; inhibits transcriptional activation by Gal4p; inhibition relieved by Gal3p or Gal1p binding
-S000037805	CDS					YML051W		13	171594	172901	W		1996-07-31	1996-07-31	
-S000004514	ORF	Verified	YML050W	AIM32		chromosome 13		13	173139	174074	W		1996-07-31	1996-07-31	Protein of unknown function; null mutant is viable and displays elevated frequency of mitochondrial genome loss
-S000037724	CDS					YML050W		13	173139	174074	W		1996-07-31	1996-07-31	
-S000004513	ORF	Verified	YML049C	RSE1	U2 snRNP complex subunit RSE1	chromosome 13	L000004030	13	178305	174220	C		1996-07-31	1996-07-31	Protein involved in pre-mRNA splicing; component of the pre-spliceosome; associates with U2 snRNA; involved in ER to Golgi transport
-S000036229	CDS					YML049C		13	178305	174220	C		1996-07-31	1996-07-31	
-S000004511	ORF	Verified	YML048W	GSF2	ECM6	chromosome 13	L000003209	13	178426	179637	W		1996-07-31	1996-07-31	Endoplasmic reticulum (ER) localized integral membrane protein; may promote secretion of certain hexose transporters, including Gal2p; involved in glucose-dependent repression
-S000036176	CDS					YML048W		13	178426	179637	W		1996-07-31	1996-07-31	
-S000004512	ORF	Dubious	YML047W-A		YML048W-A	chromosome 13		13	179893	180258	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF PRM6/YML047C
-S000031724	CDS					YML047W-A		13	179893	180258	W		1996-07-31	1996-07-31	
-S000004510	ORF	Verified	YML047C	PRM6	pheromone-regulated K(+) transporter PRM6|KCH2	chromosome 13		13	181075	180017	C		1996-07-31	1996-07-31	Potassium transporter that mediates K+ influx; activates high-affinity Ca2+ influx system (HACS) during mating pheromone response; expression up-regulated in response to alpha factor; regulated by Ste12p during mating; localized to sites of polarized growth; member of a fungal-specific gene family; PRM6 has a paralog, KCH1, that arose from the whole genome duplication
-S000035933	CDS					YML047C		13	181075	180017	C		1996-07-31	1996-07-31	
-S000004509	ORF	Verified	YML046W	PRP39		chromosome 13	L000001511	13	181474	183363	W		1996-07-31	1996-07-31	U1 snRNP protein involved in splicing; contains multiple tetriatricopeptide repeats
-S000035883	CDS					YML046W		13	181474	183363	W		1996-07-31	1996-07-31	
-S000118368	ARS		ARS1308		ARSXIII-184	chromosome 13		13	183797	183887			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178154	ARS_consensus_sequence					ARS1308		13	183874	183858	C		2014-11-18	2014-11-18	
-S000006585	tRNA_gene		tG(GCC)M			chromosome 13	L000003685	13	183968	183898	C		2000-05-19	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000029832	noncoding_exon					tG(GCC)M		13	183968	183898	C		2000-05-19	2000-05-19	
-S000007103	long_terminal_repeat		YMLWdelta3			chromosome 13		13	184170	184501	W		2000-05-19	2000-05-19	Ty1 LTR
-S000007107	LTR_retrotransposon		YMLWTy1-1		Ty1	chromosome 13		13	184170	190083	W		2000-05-19	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007381	transposable_element_gene		YML045W-A		gag protein	chromosome 13		13	184461	185783	W		1996-07-31	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000036727	CDS					YML045W-A		13	184461	185783	W		1996-07-31	1996-07-31	
-S000004508	transposable_element_gene		YML045W		gag-pol fusion protein	chromosome 13		13	184461	189729	W		1996-07-31	1999-07-17|1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000034966	CDS					YML045W		13	184461	185765	W		1999-07-17	1999-07-17|1996-07-31	
-S000034967	CDS					YML045W		13	185767	189729	W		1999-07-17	1999-07-17|1996-07-31	
-S000034968	plus_1_translational_frameshift					YML045W		13	185766	185766	W		1999-07-17	1999-07-17|1996-07-31	
-S000007104	long_terminal_repeat		YMLWdelta4			chromosome 13		13	189752	190083	W		2000-05-19	2000-05-19	Ty1 LTR
-S000004507	ORF	Verified	YML043C	RRN11		chromosome 13	L000004133	13	191767	190244	C		1996-07-31	1996-07-31	Component of the core factor (CF) rDNA transcription factor complex; CF is required for transcription of 35S rRNA genes by RNA polymerase I and is composed of Rrn6p, Rrn7p, and Rrn11p
-S000033836	CDS					YML043C		13	191767	190244	C		1996-07-31	1996-07-31	
-S000004506	ORF	Verified	YML042W	CAT2	carnitine O-acetyltransferase CAT2|YCAT	chromosome 13	L000000218	13	192788	194800	W		1996-07-31	1996-07-31	Carnitine acetyl-CoA transferase; present in both mitochondria and peroxisomes; transfers activated acetyl groups to carnitine to form acetylcarnitine which can be shuttled across membranes
-S000033788	CDS					YML042W		13	192788	194800	W		1996-07-31	1996-07-31	
-S000004505	ORF	Verified	YML041C	VPS71	SWC6	chromosome 13		13	195755	194913	C		1996-07-31	1996-07-31	Nucleosome-binding component of the SWR1 complex; SWR1 exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; required for vacuolar protein sorting
-S000033617	CDS					YML041C		13	195755	194913	C		1996-07-31	1996-07-31	
-S000006684	tRNA_gene		tP(UGG)M	SUF7		chromosome 13	L000002155|L000003684	13	196170	196068	C	-32	2000-05-19	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin; can mutate to suppress +1 frameshift mutations in proline codons
-S000036019	intron					tP(UGG)M		13	196134	196104	C		2000-05-19	2000-05-19	
-S000036018	noncoding_exon					tP(UGG)M		13	196103	196068	C		2000-05-19	2000-05-19	
-S000036017	noncoding_exon					tP(UGG)M		13	196170	196135	C		2000-05-19	2000-05-19	
-S000007105	long_terminal_repeat		YMLWdelta5			chromosome 13		13	196332	196668	W		2000-05-19	2000-05-19	Ty1 LTR
-S000007108	LTR_retrotransposon		YMLWTy1-2		Ty1	chromosome 13		13	196332	202234	W		2000-05-19	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000004504	transposable_element_gene		YML040W		gag protein	chromosome 13		13	196628	197950	W		1996-07-31	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000033569	CDS					YML040W		13	196628	197950	W		1996-07-31	1996-07-31	
-S000004503	transposable_element_gene		YML039W		gag-pol fusion protein	chromosome 13	S000029016	13	196628	201896	W		1996-07-31	1999-07-17|1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000032892	CDS					YML039W		13	196628	197932	W		1999-07-17	1999-07-17|1996-07-31	
-S000032893	CDS					YML039W		13	197934	201896	W		1999-07-17	1999-07-17|1996-07-31	
-S000032894	plus_1_translational_frameshift					YML039W		13	197933	197933	W		1999-07-17	1999-07-17|1996-07-31	
-S000007106	long_terminal_repeat		YMLWdelta6			chromosome 13		13	201919	202234	W		2000-05-19	2000-05-19	Ty1 LTR
-S000004502	ORF	Verified	YML038C	YMD8		chromosome 13		13	204103	202775	C		1996-07-31	1996-07-31	Putative nucleotide sugar transporter; has similarity to Vrg4p
-S000032731	CDS					YML038C		13	204103	202775	C		1996-07-31	1996-07-31	
-S000004501	ORF	Uncharacterized	YML037C			chromosome 13		13	205408	204386	C		1996-07-31	1996-07-31	Putative protein of unknown function; has some characteristics of a transcriptional activator; may be a target of Dbf2p-Mob1p kinase; GFP-fusion protein co-localizes with clathrin-coated vesicles; YML037C is not an essential gene
-S000031852	CDS					YML037C		13	205408	204386	C		1996-07-31	1996-07-31	
-S000004500	ORF	Verified	YML036W	CGI121		chromosome 13		13	205642	206293	W		2007-07-10	1996-07-31|2007-07-10	Component of the EKC/KEOPS complex; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription; Cgi121p is dispensable for tRNA modification; other complex members are Bud32p, Kae1p, Pcc1p, and Gon7p
-S000031755	CDS					YML036W		13	205642	206097	W		2007-07-10	1996-07-31|2007-07-10	
-S000123281	CDS					YML036W		13	206204	206293	W		2007-07-10	2007-07-10	
-S000123280	intron					YML036W		13	206098	206203	W		2007-07-10	2007-07-10	
-S000004498	ORF	Verified	YML035C	AMD1	AMP deaminase|AMD3	chromosome 13	L000000082|L000002678	13	208860	206428	C		1996-07-31	1996-07-31	AMP deaminase; tetrameric enzyme that catalyzes the deamination of AMP to form IMP and ammonia; thought to be involved in regulation of intracellular purine (adenine, guanine, and inosine) nucleotide pools
-S000031615	CDS					YML035C		13	208860	206428	C		1996-07-31	1996-07-31	
-S000004497	ORF	Verified	YML034W	SRC1	HEH1|YML033W	chromosome 13	S000004496	13	209525	212155	W		1998-11-10	1998-11-10|1996-07-31	Inner nuclear membrane protein; highly enriched at telomeres and subtelomeric regions; functions in regulation of subtelomeric genes and is linked to TREX (transcription export) factors; SRC1 produces 2 splice variant proteins with different functions; alternative splicing of SRC1 pre-mRNA is promoted by Hub1p; mutant has aneuploidy tolerance; SEC1 has a paralog, HEH2, that arose from the whole genome duplication
-S000031569	CDS					YML034W		13	209525	211444	W		1998-11-10	1998-11-10|1996-07-31	
-S000031570	CDS					YML034W		13	211571	212155	W		1998-11-10	1998-11-10	
-S000031571	intron					YML034W		13	211445	211570	W		1998-11-10	1998-11-10	
-S000004499	ORF	Dubious	YML034C-A		YML035C-A	chromosome 13		13	209826	209428	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SRC1/YML034W
-S000031984	CDS					YML034C-A		13	209826	209428	C		1996-07-31	1996-07-31	
-S000004494	ORF	Verified	YML032C	RAD52	recombinase RAD52	chromosome 13	L000001572	13	213930	212515	C	-18	2003-01-07	2003-01-07|1996-07-31	Protein that stimulates strand exchange; stimulates strand exchange by facilitating Rad51p binding to single-stranded DNA; anneals complementary single-stranded DNA; involved in the repair of double-strand breaks in DNA during vegetative growth and meiosis and UV induced sister chromatid recombination
-S000030550	CDS					YML032C		13	213930	212515	C		2003-01-07	2003-01-07|1996-07-31	
-S000004493	ORF	Verified	YML031W	NDC1		chromosome 13	L000001237	13	214189	216156	W	-18	1996-07-31	1996-07-31	Subunit of the transmembrane ring of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport, NPC biogenesis and spindle pole body duplication; homologous to human NDC1
-S000030507	CDS					YML031W		13	214189	216156	W		1996-07-31	1996-07-31	
-S000028809	ORF	Dubious	YML031C-A		YML032C-A	chromosome 13	S000004495	13	214421	214086	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF NDC1/YML031W
-S000033595	CDS					YML031C-A		13	214421	214086	C		2003-07-29	2003-07-29	
-S000004492	ORF	Verified	YML030W	RCF1	AIM31	chromosome 13		13	216435	216914	W		1996-07-31	1996-07-31	Cytochrome c oxidase subunit; required for assembly of the Complex III-Complex IV supercomplex, and for assembly of Cox13p and Rcf2p into cytochrome c oxidase; similar to Rcf2p, and either Rcf1p or Rcf2p is required for late-stage assembly of the Cox12p and Cox13p subunits and for cytochrome c oxidase activity; required for growth under hypoxic conditions; member of the hypoxia induced gene family; C. elegans and human orthologs are functional in yeast
-S000030362	CDS					YML030W		13	216435	216914	W		1996-07-31	1996-07-31	
-S000004491	ORF	Verified	YML029W	USA1		chromosome 13	L000003225	13	217362	219878	W		1996-07-31	1996-07-31	Scaffold subunit of the Hrd1p ubiquitin ligase; also promotes ligase oligomerization; involved in ER-associated protein degradation (ERAD); interacts with the U1 snRNP-specific protein, Snp1p
-S000037625	CDS					YML029W		13	217362	219878	W		1996-07-31	1996-07-31	
-S000004490	ORF	Verified	YML028W	TSA1	thioredoxin peroxidase TSA1|cTPxI|TPX1|ZRG14	chromosome 13	L000002365	13	220138	220728	W		1996-07-31	1996-07-31	Thioredoxin peroxidase; acts as both ribosome-associated and free cytoplasmic antioxidant; self-associates to form high-molecular weight chaperone complex under oxidative stress; chaperone activity essential for growth in zinc deficiency; required for telomere length maintenance; binds and modulates Cdc19p activity; protein abundance increases, forms cytoplasmic foci during DNA replication stress; TSA1 has a paralog, TSA2, that arose from the whole genome duplication
-S000037561	CDS					YML028W		13	220138	220728	W		1996-07-31	1996-07-31	
-S000004489	ORF	Verified	YML027W	YOX1		chromosome 13	L000002540	13	221406	222563	W		1996-07-31	1996-07-31	Homeobox transcriptional repressor; binds to Mcm1p and to early cell cycle boxes (ECBs) in the promoters of cell cycle-regulated genes expressed in M/G1 phase; expression is cell cycle-regulated; phosphorylated by Cdc28p; relocalizes from nucleus to cytoplasm upon DNA replication stress; YOX1 has a paralog, YHP1, that arose from the whole genome duplication
-S000036828	CDS					YML027W		13	221406	222563	W		1996-07-31	1996-07-31	
-S000004488	ORF	Verified	YML026C	RPS18B	uS13|ribosomal 40S subunit protein S18B|S18B|S13	chromosome 13	L000004481	13	223828	222987	C		1996-07-31	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S18 and bacterial S13; RPS18B has a paralog, RPS18A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000036754	CDS					YML026C		13	223380	222987	C		1996-07-31	1996-07-31	
-S000036753	CDS					YML026C		13	223828	223782	C		1996-07-31	1996-07-31	
-S000036755	intron					YML026C		13	223781	223381	C		1996-07-31	1996-07-31	
-S000004487	ORF	Verified	YML025C	YML6	mitochondrial 54S ribosomal protein YmL6	chromosome 13		13	225365	224406	C		1996-07-31	1996-07-31	Mitochondrial ribosomal protein of the large subunit; has similarity to E. coli L4 ribosomal protein and human mitoribosomal MRP-L4 protein; essential for viability, unlike most other mitoribosomal proteins
-S000036690	CDS					YML025C		13	225239	224406	C		1996-07-31	1996-07-31	
-S000036689	CDS					YML025C		13	225365	225339	C		1996-07-31	1996-07-31	
-S000036691	intron					YML025C		13	225338	225240	C		1996-07-31	1996-07-31	
-S000004486	ORF	Verified	YML024W	RPS17A	eS17|ribosomal 40S subunit protein S17A|S17e|rp51A|S17A|RPL51A|RP51A	chromosome 13	L000001740|L000004479|L000001669	13	225889	226697	W		1996-07-31	1996-07-31	Ribosomal protein 51 (rp51) of the small (40s) subunit; homologous to mammalian ribosomal protein S17, no bacterial homolog; RPS17A has a paralog, RPS17B, that arose from the whole genome duplication
-S000036659	CDS					YML024W		13	225889	225891	W		1996-07-31	1996-07-31	
-S000036660	CDS					YML024W		13	226290	226697	W		1996-07-31	1996-07-31	
-S000036661	intron					YML024W		13	225892	226289	W		1996-07-31	1996-07-31	
-S000004485	ORF	Verified	YML023C	NSE5	Smc5-Smc6 complex subunit NSE5	chromosome 13		13	228664	226994	C		1996-07-31	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair
-S000035667	CDS					YML023C		13	228664	226994	C		1996-07-31	1996-07-31	
-S000004484	ORF	Verified	YML022W	APT1	adenine phosphoribosyltransferase APT1	chromosome 13	L000002641	13	228937	229500	W		1996-07-31	1996-07-31	Adenine phosphoribosyltransferase; catalyzes the formation of AMP from adenine and 5-phosphoribosylpyrophosphate; involved in the salvage pathway of purine nucleotide biosynthesis; APT1 has a paralog, APT2, that arose from the whole genome duplication
-S000035625	CDS					YML022W		13	228937	229500	W		1996-07-31	1996-07-31	
-S000004483	ORF	Verified	YML021C	UNG1	uracil-DNA glycosylase	chromosome 13	L000002428	13	230813	229734	C	-16	1996-07-31	1996-07-31	Uracil-DNA glycosylase; required for repair of uracil in DNA formed by spontaneous cytosine deamination; efficiently excises uracil from single-stranded DNA in vivo; not required for strand-specific mismatch repair; cell-cycle regulated, expressed in late G1; localizes to mitochondria and nucleus
-S000035496	CDS					YML021C		13	230813	229734	C		1996-07-31	1996-07-31	
-S000004482	ORF	Uncharacterized	YML020W			chromosome 13		13	231149	233143	W		1996-07-31	1996-07-31	Putative protein of unknown function
-S000034551	CDS					YML020W		13	231149	233143	W		1996-07-31	1996-07-31	
-S000004481	ORF	Verified	YML019W	OST6	dolichyl-diphosphooligosaccharide--protein glycotransferase	chromosome 13	L000004224	13	233457	234455	W		1996-07-31	1996-07-31	Subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins; similar to and partially functionally redundant with Ost3p
-S000033544	CDS					YML019W		13	233457	234455	W		1996-07-31	1996-07-31	
-S000004480	ORF	Verified	YML018C			chromosome 13		13	235952	234771	C		1996-07-31	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the membrane of the vacuole; physical interaction with Atg27p suggests a possible role in autophagy; YML018C is not an essential gene; relative distribution to the vacuolar membrane decreases upon DNA replication stress; YML018C has a paralog, THI74, that arose from the whole genome duplication
-S000033433	CDS					YML018C		13	235952	234771	C		1996-07-31	1996-07-31	
-S000004479	ORF	Verified	YML017W	PSP2	MRS15	chromosome 13	L000002882	13	236588	238731	W		2004-01-30	2004-01-30|1996-07-31|1999-07-17	Asn rich cytoplasmic protein that contains RGG motifs; high-copy suppressor of group II intron-splicing defects of a mutation in MRS2 and of a conditional mutation in POL1 (DNA polymerase alpha); possible role in mitochondrial mRNA splicing
-S000033400	CDS					YML017W		13	236588	236591	W		2004-01-30	2004-01-30|1999-07-17|1996-07-31	
-S000033401	CDS					YML017W		13	236954	238731	W		2004-01-30	2004-01-30	
-S000033402	intron					YML017W		13	236592	236953	W		2004-01-30	2004-01-30	
-S000004478	ORF	Verified	YML016C	PPZ1	salt homeostasis regulator	chromosome 13	L000001478	13	241536	239458	C		1996-07-31	1996-07-31	Serine/threonine protein phosphatase Z, isoform of Ppz2p; involved in regulation of potassium transport, which affects osmotic stability, cell cycle progression, and halotolerance
-S000032668	CDS					YML016C		13	241536	239458	C		1996-07-31	1996-07-31	
-S000004477	ORF	Verified	YML015C	TAF11	TafII40|TAF40	chromosome 13	L000003461	13	243029	241989	C		1996-07-31	1996-07-31	TFIID subunit (40 kDa); involved in RNA polymerase II transcription initiation, similar to histone H3 with atypical histone fold motif of Spt3-like transcription factors
-S000032578	CDS					YML015C		13	243029	241989	C		1996-07-31	1996-07-31	
-S000004476	ORF	Verified	YML014W	TRM9	tRNA (carboxymethyluridine(34)-5-O)-methyltransferase|KTI1	chromosome 13	S000028426	13	243225	244064	W		1996-07-31	1996-07-31	tRNA methyltransferase; catalyzes modification of wobble bases in tRNA anticodons to 2, 5-methoxycarbonylmethyluridine and 5-methoxycarbonylmethyl-2-thiouridine; may act as part of a complex with Trm112p; deletion mutation increases translational infidelity, including amino acid misincorporation and -1 frameshifting, and also confers resistance to zymocin; null mutant displays activation of stress responses
-S000032547	CDS					YML014W		13	243225	244064	W		1996-07-31	1996-07-31	
-S000004475	ORF	Verified	YML013W	UBX2	SEL1	chromosome 13		13	244149	245903	W		1996-07-31	1996-07-31	Bridging factor involved in ER-associated protein degradation (ERAD); bridges the cytosolic Cdc48p-Npl1p-Ufd1p ATPase complex and the membrane associated Ssm4p and Hrd1p ubiquitin ligase complexes; contains a UBX (ubiquitin regulatory X) domain and a ubiquitin-associated (UBA) domain; redistributes from the ER to lipid droplets during the diauxic shift and stationary phase; required for the maintenance of lipid homeostasis
-S000032448	CDS					YML013W		13	244149	245903	W		1996-07-31	1996-07-31	
-S000004474	ORF	Dubious	YML012C-A		YML013C-A	chromosome 13		13	245914	245537	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SEL1
-S000037094	CDS					YML012C-A		13	245914	245537	C		1996-07-31	1996-07-31	
-S000004473	ORF	Verified	YML012W	ERV25		chromosome 13	L000004076	13	246116	246751	W		1996-07-31	1996-07-31	Member of the p24 family involved in ER to Golgi transport; role in misfolded protein quality control; forms a heterotrimeric complex with Erp1, Erp2p, and Emp24,
-S000031434	CDS					YML012W		13	246116	246751	W		1996-07-31	1996-07-31	
-S000004472	ORF	Verified	YML011C	RAD33		chromosome 13		13	247428	246895	C		1996-07-31	1996-07-31	Protein involved in nucleotide excision repair; green fluorescent protein (GFP)-fusion protein localizes to the nucleus
-S000031265	CDS					YML011C		13	247428	246895	C		1996-07-31	1996-07-31	
-S000004470	ORF	Verified	YML010W	SPT5	transcription elongation factor SPT5	chromosome 13	L000002031	13	247677	250868	W	-5	1996-07-31	1996-07-31	Spt4p/5p (DSIF) transcription elongation factor complex subunit; the Spt4/5 complex binds to ssRNA in a sequence-specific manner, and in concert with RNAP I and II has multiple roles regulating transcriptional elongation, RNA processing, quality control, and transcription-coupled repair; interacts with DNA upstream of RNAPII and the non-template strand of the transcription bubble; Spt5p is the only transcription elongation factor conserved in all domains of life
-S000031213	CDS					YML010W		13	247677	250868	W		1996-07-31	1996-07-31	
-S000004471	ORF	Dubious	YML009W-B		YML010W-A	chromosome 13		13	250435	250911	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion mutation confers an increase in Ty1 transposition
-S000032788	CDS					YML009W-B		13	250435	250911	W		1996-07-31	1996-07-31	
-S000004469	ORF	Dubious	YML009C-A		YML010W-B|YML010C-B	chromosome 13		13	251001	250675	C		1997-07-01	1997-07-01	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORFs SPT5/YML010W and YML009W-B
-S000031473	CDS					YML009C-A		13	251001	250675	C		1997-07-01	1997-07-01	
-S000004468	ORF	Verified	YML009C	MRPL39	mitochondrial 54S ribosomal protein YmL39|YmL39	chromosome 13	L000002695	13	251516	251304	C		1996-07-31	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000037268	CDS					YML009C		13	251516	251304	C		1996-07-31	1996-07-31	
-S000004467	ORF	Verified	YML008C	ERG6	sterol 24-C-methyltransferase|VID1|SED6|LIS1|ISE1	chromosome 13	L000000572|S000029637|L000003110	13	252990	251839	C	2	1996-07-31	1996-07-31	Delta(24)-sterol C-methyltransferase; converts zymosterol to fecosterol in the ergosterol biosynthetic pathway by methylating position C-24; localized to lipid particles, the plasma membrane-associated endoplasmic reticulum, and the mitochondrial outer membrane
-S000037178	CDS					YML008C		13	252990	251839	C		1996-07-31	1996-07-31	
-S000007621	ORF	Uncharacterized	YML007C-A			chromosome 13		13	253272	253162	C		2001-02-26	2001-02-26	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria
-S000037219	CDS					YML007C-A		13	253272	253162	C		2001-02-26	2001-02-26	
-S000004466	ORF	Verified	YML007W	YAP1	PDR4|DNA-binding transcription factor YAP1|SNQ3|PAR1	chromosome 13	L000001364	13	253848	255800	W	-8	1996-07-31	1996-07-31	Basic leucine zipper (bZIP) transcription factor; required for oxidative stress tolerance; activated by H2O2 through the multistep formation of disulfide bonds and transit from the cytoplasm to the nucleus; Yap1p is degraded in the nucleus after the oxidative stress has passed; mediates resistance to cadmium; relative distribution to the nucleus increases upon DNA replication stress; YAP1 has a paralog, CAD1, that arose from the whole genome duplication
-S000037132	CDS					YML007W		13	253848	255800	W		1996-07-31	1996-07-31	
-S000004465	ORF	Verified	YML006C	GIS4		chromosome 13	L000004864	13	258416	256092	C		1996-07-31	1996-07-31	CAAX box containing protein of unknown function; proposed to be involved in the RAS/cAMP signaling pathway
-S000036417	CDS					YML006C		13	258416	256092	C		1996-07-31	1996-07-31	
-S000006729	tRNA_gene		tS(AGA)M			chromosome 13	L000003683	13	259239	259158	C		2000-05-19	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000032411	noncoding_exon					tS(AGA)M		13	259239	259158	C		2000-05-19	2000-05-19	
-S000004464	ORF	Verified	YML005W	TRM12	TYW2	chromosome 13		13	260221	261609	W		1996-07-31	1996-07-31	S-adenosylmethionine-dependent methyltransferase; required for wybutosine formation in phenylalanine-accepting tRNA; member of the seven beta-strand family
-S000036385	CDS					YML005W		13	260221	261609	W		1996-07-31	1996-07-31	
-S000004463	ORF	Verified	YML004C	GLO1	lactoylglutathione lyase GLO1	chromosome 13	L000000712	13	262685	261705	C		1996-07-31	1996-07-31	Monomeric glyoxalase I; catalyzes the detoxification of methylglyoxal (a by-product of glycolysis) via condensation with glutathione to produce S-D-lactoylglutathione; expression regulated by methylglyoxal levels and osmotic stress
-S000036221	CDS					YML004C		13	262685	261705	C		1996-07-31	1996-07-31	
-S000118369	ARS		ARS1309		ARSXIII-263	chromosome 13		13	263063	263296			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000178155	ARS_consensus_sequence					ARS1309		13	263126	263142	W		2014-11-18	2014-11-18	
-S000004462	ORF	Uncharacterized	YML003W			chromosome 13		13	263483	264355	W		1996-07-31	1996-07-31	Putative protein of unknown function
-S000036178	CDS					YML003W		13	263483	264355	W		1996-07-31	1996-07-31	
-S000004461	ORF	Uncharacterized	YML002W			chromosome 13		13	264541	266754	W		1996-07-31	1996-07-31	Putative protein of unknown function; expression induced by heat and by calcium shortage
-S000035235	CDS					YML002W		13	264541	266754	W		1996-07-31	1996-07-31	
-S000004460	ORF	Verified	YML001W	YPT7	Rab family GTPase YPT7|VAM4|AST4	chromosome 13	L000002544	13	267174	267800	W		1996-07-31	1996-07-31	Rab family GTPase; GTP-binding protein of the rab family; required for homotypic fusion event in vacuole inheritance, for endosome-endosome fusion; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs); interacts with the cargo selection/retromer complex for retrograde sorting; similar to mammalian Rab7
-S000035058	CDS					YML001W		13	267174	267800	W		1996-07-31	1996-07-31	
-S000006474	centromere		CEN13	CEN13		chromosome 13	L000000306	13	268031	268149	W	0	2004-10-08	2000-05-19|2004-10-08	Chromosome XIII centromere
-S000077278	centromere_DNA_Element_I					CEN13		13	268031	268040	W		2004-10-05	2004-10-05	
-S000077279	centromere_DNA_Element_II					CEN13		13	268041	268124	W		2004-10-05	2004-10-05	
-S000077280	centromere_DNA_Element_III					CEN13		13	268125	268149	W		2004-10-05	2004-10-05	
-S000004603	ORF	Verified	YMR001C	CDC5	polo kinase CDC5|PKX2|MSD2	chromosome 13	L000000245	13	271136	269019	C	-14	1996-07-31	1996-07-31	Polo-like kinase; controls targeting and activation of Rho1p at cell division site via Rho1p guanine nucleotide exchange factors; regulates Spc72p; also functions in adaptation to DNA damage during meiosis; regulates the shape of the nucleus and expansion of the nuclear envelope during mitosis; similar to Xenopus Plx1 and S. pombe Plo1p; human homologs PLK1, PLK3 can each complement yeast cdc5 thermosensitive mutants
-S000031052	CDS					YMR001C		13	271136	269019	C		1996-07-31	1996-07-31	
-S000028691	ORF	Uncharacterized	YMR001C-A			chromosome 13		13	271577	271347	C		2003-07-29	2003-07-29	Putative protein of unknown function
-S000032590	CDS					YMR001C-A		13	271577	271347	C		2003-07-29	2003-07-29	
-S000004604	ORF	Verified	YMR002W	MIX17	MIC17	chromosome 13		13	272193	272663	W		1996-07-31	1996-07-31	Mitochondrial intermembrane space protein; required for normal oxygen consumption; contains twin cysteine-x9-cysteine motifs; protein abundance increases in response to DNA replication stress
-S000031255	CDS					YMR002W		13	272193	272663	W		1996-07-31	1996-07-31	
-S000004605	ORF	Verified	YMR003W	AIM34		chromosome 13		13	273118	273714	W		1996-07-31	1996-07-31	Protein of unknown function; GFP-fusion protein localizes to the mitochondria; null mutant is viable and displays reduced frequency of mitochondrial genome loss
-S000032255	CDS					YMR003W		13	273118	273714	W		1996-07-31	1996-07-31	
-S000004606	ORF	Verified	YMR004W	MVP1		chromosome 13	L000001221	13	274017	275552	W		1996-07-31	1996-07-31	Protein required for sorting proteins to the vacuole; Mvp1p and Vps1p act in concert to promote membrane traffic to the vacuole; participates in transcription initiation and/or early elongation of specific genes; interacts with "foot domain" of RNA polymerase II; deletion results in abnormal CTD-Ser5 phosphorylation of RNA polymerase II at specific promoter regions; protein abundance increases in response to DNA replication stress
-S000032360	CDS					YMR004W		13	274017	275552	W		1996-07-31	1996-07-31	
-S000004607	ORF	Verified	YMR005W	TAF4	TafII48|MPT1|TSG2|TAF48	chromosome 13	L000001144	13	276045	277211	W		1996-07-31	1996-07-31	TFIID subunit (48 kDa); involved in RNA polymerase II transcription initiation; potential Cdc28p substrate
-S000032443	CDS					YMR005W		13	276045	277211	W		1996-07-31	1996-07-31	
-S000004608	ORF	Verified	YMR006C	PLB2	lysophospholipase	chromosome 13	L000004866	13	279681	277561	C		1996-07-31	1996-07-31	Phospholipase B (lysophospholipase) involved in lipid metabolism; displays transacylase activity in vitro; overproduction confers resistance to lysophosphatidylcholine
-S000032499	CDS					YMR006C		13	279681	277561	C		1996-07-31	1996-07-31	
-S000004609	ORF	Uncharacterized	YMR007W			chromosome 13		13	279960	280340	W		1996-07-31	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR007W is not an essential gene
-S000034599	CDS					YMR007W		13	279960	280340	W		1996-07-31	1996-07-31	
-S000004610	ORF	Verified	YMR008C	PLB1	lysophospholipase	chromosome 13	L000001447	13	282584	280590	C		1996-07-31	1996-07-31	Phospholipase B (lysophospholipase) involved in lipid metabolism; required for efficient acyl chain remodeling of newly synthesized phosphatidylethanolamine-derived phosphatidylcholine; required for deacylation of phosphatidylcholine and phosphatidylethanolamine but not phosphatidylinositol; PLB1 has a paralog, PLB3, that arose from the whole genome duplication
-S000034626	CDS					YMR008C		13	282584	280590	C		1996-07-31	1996-07-31	
-S000004611	ORF	Verified	YMR009W	ADI1	acireductone dioxygenase (Ni2+-requiring)	chromosome 13		13	284102	284641	W		2011-02-03	1996-07-31	Acireductone dioxygenease involved in methionine salvage pathway; transcribed as polycistronic mRNA with YMR010W and regulated post-transcriptionally by RNase III (Rnt1p) cleavage; ADI1 mRNA is induced in heat shock conditions; human ortholog ADI1 can complement yeast adi1 mutant
-S000034714	CDS					YMR009W		13	284102	284641	W		2011-02-03	1996-07-31	
-S000004612	ORF	Verified	YMR010W	ANY1		chromosome 13		13	285100	286317	W		2011-02-03	1996-07-31	Putative protein of unknown function; null allele suppresses the lethality of neo1 and dop1 null alleles, as well as the growth defect of a mon2 null allele, and the cold sensitivity of a drs2 null; proposed function as a phospholipid scramblase that reduces membrane asymmetry; PQ loop family member; localizes to the cytoplasm and endoplasmic reticulum in HTP studies; non-essential gene
-S000034268	CDS					YMR010W		13	285100	286317	W		2011-02-03	1996-07-31	
-S000118370	ARS		ARS1310		ARSXIII-287	chromosome 13		13	286835	286951			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000004613	ORF	Verified	YMR011W	HXT2	hexose transporter HXT2	chromosome 13	L000000836	13	288079	289704	W		2011-02-03	1996-07-31	High-affinity glucose transporter of the major facilitator superfamily; expression is induced by low levels of glucose and repressed by high levels of glucose
-S000034391	CDS					YMR011W		13	288079	289704	W		2011-02-03	1996-07-31	
-S000007117	long_terminal_repeat		YMRCtau1			chromosome 13		13	290224	290049	C		2011-02-03	2000-05-19	Ty4 LTR
-S000006560	tRNA_gene		tE(UUC)M			chromosome 13	L000003667	13	290801	290872	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000036015	noncoding_exon					tE(UUC)M		13	290801	290872	W		2011-02-03	2000-05-19	
-S000004614	ORF	Verified	YMR012W	CLU1	translation initiation factor 3 subunit CLU1|TIF31	chromosome 13	L000003531	13	291134	294967	W		2011-02-03	1996-07-31	Subunit of the eukaryotic translation initiation factor 3 (eIF3); component of unknown function; deletion causes defects in mitochondrial organization but not in growth or translation initiation; can rescue cytokinesis and mitochondrial organization defects of the Dictyostelium cluA- mutant; eIF3 is also involved in programmed stop codon readthrough
-S000035421	CDS					YMR012W		13	291134	294967	W		2011-02-03	1996-07-31	
-S000028847	ORF	Dubious	YMR013C-A			chromosome 13		13	296620	296471	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF SEC59/YML013C
-S000034532	CDS					YMR013C-A		13	296620	296471	C		2011-02-03	2003-07-29	
-S000004615	ORF	Verified	YMR013C	SEC59	dolichol kinase	chromosome 13	L000001851	13	296738	295179	C	3	2011-02-03	1996-07-31	Dolichol kinase; catalyzes the terminal step in dolichyl monophosphate (Dol-P) biosynthesis; required for viability and for normal rates of lipid intermediate synthesis and protein N-glycosylation
-S000035477	CDS					YMR013C		13	296738	295179	C		2011-02-03	1996-07-31	
-S000007312	snoRNA_gene		snR78	SNR78	Z8	chromosome 13	L000004806	13	297278	297364	W		2011-02-03	2000-05-19|2007-05-08	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2421
-S000031835	noncoding_exon					snR78		13	297278	297364	W		2011-02-03	2000-05-19|2007-05-08	
-S000007311	snoRNA_gene		snR77	SNR77	Z7	chromosome 13	L000004805	13	297506	297593	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position U578
-S000031791	noncoding_exon					snR77		13	297506	297593	W		2011-02-03	2000-05-19	
-S000007310	snoRNA_gene		snR76	SNR76	Z6	chromosome 13	L000004804	13	297725	297833	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C2197
-S000031789	noncoding_exon					snR76		13	297725	297833	W		2011-02-03	2000-05-19	
-S000007309	snoRNA_gene		snR75	SNR75	Z5	chromosome 13	L000004803	13	297918	298006	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position G2288
-S000031787	noncoding_exon					snR75		13	297918	298006	W		2011-02-03	2000-05-19	
-S000007308	snoRNA_gene		snR74	SNR74	Z4	chromosome 13	L000004802	13	298138	298225	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position A28
-S000031786	noncoding_exon					snR74		13	298138	298225	W		2011-02-03	2000-05-19	
-S000007307	snoRNA_gene		snR73	SNR73	Z3	chromosome 13	L000004801	13	298307	298412	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C2959
-S000031785	noncoding_exon					snR73		13	298307	298412	W		2011-02-03	2000-05-19	
-S000007622	ORF	Dubious	YMR013W-A			chromosome 13		13	298311	298391	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the characterized snoRNA gene snR73
-S000037220	CDS					YMR013W-A		13	298311	298391	W		2011-02-03	2001-02-26	
-S000007306	snoRNA_gene		snR72	SNR72	Z2	chromosome 13	L000004800	13	298554	298651	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A876
-S000031784	noncoding_exon					snR72		13	298554	298651	W		2011-02-03	2000-05-19	
-S000004616	ORF	Verified	YMR014W	BUD22		chromosome 13		13	298868	300427	W		2011-02-03	1996-07-31	Protein required for rRNA maturation and ribosomal subunit biogenesis; required for 18S rRNA maturation; also required for small ribosomal subunit biogenesis; cosediments with pre-ribosomal particles; mutation decreases efficiency of +1 Ty1 frameshifting and transposition, and affects budding pattern
-S000035607	CDS					YMR014W		13	298868	300427	W		2011-02-03	1996-07-31	
-S000004617	ORF	Verified	YMR015C	ERG5	C-22 sterol desaturase|CYP61	chromosome 13	L000003978	13	302485	300869	C		2011-02-03	1996-07-31	C-22 sterol desaturase; a cytochrome P450 enzyme that catalyzes the formation of the C-22(23) double bond in the sterol side chain in ergosterol biosynthesis; may be a target of azole antifungal drugs
-S000035627	CDS					YMR015C		13	302485	300869	C		2011-02-03	1996-07-31	
-S000004618	ORF	Verified	YMR016C	SOK2		chromosome 13	L000004147	13	305593	303236	C		2011-02-03	1996-07-31	Nuclear protein that negatively regulates pseudohyphal differentiation; plays a regulatory role in the cyclic AMP (cAMP)-dependent protein kinase (PKA) signal transduction pathway; relocalizes to the cytosol in response to hypoxia; SOK2 has a paralog, PHD1, that arose from the whole genome duplication
-S000036571	CDS					YMR016C		13	305593	303236	C		2011-02-03	1996-07-31	
-S000004619	ORF	Verified	YMR017W	SPO20	DBI9	chromosome 13	L000003397	13	307489	308682	W		2011-02-03	1996-07-31	Meiosis-specific subunit of the t-SNARE complex; required for prospore membrane formation during sporulation; similar to but not functionally redundant with Sec9p; binds to phosphatidic acid; SNAP-25 homolog
-S000036703	CDS					YMR017W		13	307489	308682	W		2011-02-03	1996-07-31	
-S000004620	ORF	Uncharacterized	YMR018W	PEX9		chromosome 13		13	310208	311752	W		2011-02-03	1996-07-31	Putative protein of unknown function with similarity to human PEX5Rp; transcription increases during colony development similar to genes involved in peroxisome biogenesis; YMR018W is not an essential gene; PEX5Rp is also known as peroxin protein 5 related protein
-S000030567	CDS					YMR018W		13	310208	311752	W		2011-02-03	1996-07-31	
-S000004621	ORF	Verified	YMR019W	STB4		chromosome 13	L000003367	13	312156	315005	W		2011-02-03	1996-07-31	Putative transcription factor; contains a Zn(II)2Cys6 zinc finger domain characteristic of DNA-binding proteins; computational analysis suggests a role in regulation of expression of genes encoding transporters; binds Sin3p in a two-hybrid assay;
-S000030693	CDS					YMR019W		13	312156	315005	W		2011-02-03	1996-07-31	
-S000004622	ORF	Verified	YMR020W	FMS1	polyamine oxidase	chromosome 13	L000003091	13	315377	316903	W		2011-02-03	1996-07-31	Polyamine oxidase; converts spermine to spermidine, which is required for the essential hypusination modification of translation factor eIF-5A; also involved in pantothenic acid biosynthesis
-S000030473	CDS					YMR020W		13	315377	316903	W		2011-02-03	1996-07-31	
-S000004623	ORF	Verified	YMR021C	MAC1	CUA1	chromosome 13	L000000973|L000001035	13	318418	317165	C		2011-02-03	1996-07-31	Copper-sensing transcription factor; involved in regulation of genes required for high affinity copper transport; required for regulation of yeast copper genes in response to DNA-damaging agents; undergoes changes in redox state in response to changing levels of copper or MMS
-S000030536	CDS					YMR021C		13	318418	317165	C		2011-02-03	1996-07-31	
-S000004624	ORF	Verified	YMR022W	UBC7	E2 ubiquitin-conjugating protein UBC7|DER2|QRI8	chromosome 13	L000001552	13	318680	319177	W		2011-02-03	1996-07-31	Ubiquitin conjugating enzyme; involved in the ER-associated protein degradation (ERAD) pathway and in the inner nuclear membrane-associated degradation (INMAD) pathway; requires Cue1p for recruitment to the ER membrane; proposed to be involved in chromatin assembly
-S000031503	CDS					YMR022W		13	318680	319177	W		2011-02-03	1996-07-31	
-S000004625	ORF	Verified	YMR023C	MSS1	PET53	chromosome 13	L000001201	13	321017	319437	C		2011-02-03	1996-07-31	Mitochondrial protein; forms a heterodimer complex with Mto1p that performs the 5-carboxymethylaminomethyl modification of the wobble uridine base in mitochondrial tRNAs; similar to human GTPBP3
-S000031572	CDS					YMR023C		13	321017	319437	C		2011-02-03	1996-07-31	
-S000006518	tRNA_gene		tA(AGC)M1			chromosome 13	L000003682	13	321219	321147	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000036429	noncoding_exon					tA(AGC)M1		13	321219	321147	C		2011-02-03	2000-05-19	
-S000004626	ORF	Verified	YMR024W	MRPL3	mitochondrial 54S ribosomal protein YmL3|YmL3	chromosome 13	L000002683	13	321875	323047	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; located in close proximity to the polypeptide exit channel of the ribosome; mutations in human homolog MRPL44 cause childhood cardiomyopathy; human MRPL44 deficiency results in inefficient assembly of the mitochondrial ribosome, and in tissue-specific respiratory chain deficiency, manifesting as either Complex I+Complex IV or Complex IV deficiency, depending on a cell type
-S000032636	CDS					YMR024W		13	321875	323047	W		2011-02-03	1996-07-31	
-S000004627	ORF	Verified	YMR025W	CSI1		chromosome 13	S000028416	13	323300	324187	W		2011-02-03	1996-07-31	Subunit of the Cop9 signalosome; which is required for deneddylation, or removal of the ubiquitin-like protein Rub1p from Cdc53p (cullin); involved in adaptation to pheromone signaling; functional equivalent of canonical Csn6 subunit of the COP9 signalosome
-S000032707	CDS					YMR025W		13	323300	324187	W		2011-02-03	1996-07-31	
-S000004628	ORF	Verified	YMR026C	PEX12	ubiquitin-protein ligase peroxin 12|PAS11	chromosome 13	L000004223|L000003964	13	325435	324236	C		2011-02-03	1996-07-31	C3HC4-type RING-finger peroxin and E3 ubiquitin ligase; required for peroxisome biogenesis and peroxisomal matrix protein import; forms translocation subcomplex with Pex2p and Pex10p; mutations in human homolog cause peroxisomal disorder
-S000032743	CDS					YMR026C		13	325435	324236	C		2011-02-03	1996-07-31	
-S000004629	ORF	Verified	YMR027W		putative methyltransferase	chromosome 13	L000004444	13	325877	327289	W		2011-02-03	1996-07-31	A metal-dependent phosphatase, part of the DUF89 protein family; dephosphorylates fructose-1-phosphate; human ortholog, C6orf211 is involved in response to DNA damage; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; YMR027W is not an essential gene
-S000032910	CDS					YMR027W		13	325877	327289	W		2011-02-03	1996-07-31	
-S000004630	ORF	Verified	YMR028W	TAP42		chromosome 13	L000002599	13	327482	328582	W		2011-02-03	1996-07-31	Essential protein involved in the TOR signaling pathway; physically associates with the protein phosphatase 2A and the SIT4 protein phosphatase catalytic subunits
-S000034867	CDS					YMR028W		13	327482	328582	W		2011-02-03	1996-07-31	
-S000004631	ORF	Verified	YMR029C	FAR8		chromosome 13		13	330231	328660	C		2011-02-03	1996-07-31	Protein involved in recovery from arrest in response to pheromone; acts in a cell cycle arrest recovery pathway independent from Far1p; interacts with Far3p, Far7p, Far9p, Far10p, and Far11p
-S000034915	CDS					YMR029C		13	330231	328660	C		2011-02-03	1996-07-31	
-S000004632	ORF	Verified	YMR030W	RSF1		chromosome 13		13	330793	331923	W		2011-02-03	1996-07-31	Protein required for respiratory growth; localized to both the nucleus and mitochondrion; may interact with transcription factors to mediate the transition to respiratory growth and activate transcription of nuclear and mitochondrial genes
-S000033894	CDS					YMR030W		13	330793	331923	W		2011-02-03	1996-07-31	
-S000004634	ORF	Dubious	YMR031W-A			chromosome 13		13	334709	335035	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant displays shortened telomeres; partially overlaps the uncharacterized ORF YMR031C
-S000036523	CDS					YMR031W-A		13	334709	335035	W		2011-02-03	1996-07-31	
-S000004633	ORF	Verified	YMR031C	EIS1		chromosome 13		13	334743	332212	C		2011-02-03	1996-07-31	Component of the eisosome required for proper eisosome assembly; similar to Uso1p; authentic, non-tagged protein is detected in a phosphorylated state in highly purified mitochondria in high-throughput studies; protein increases in abundance and relocalizes from plasma membrane to cytoplasm upon DNA replication stress; EIS1 has a paralog, YKL050C, that arose from the whole genome duplication
-S000033984	CDS					YMR031C		13	334743	332212	C		2011-02-03	1996-07-31	
-S000004635	ORF	Verified	YMR032W	HOF1	formin-binding protein HOF1|CYK2	chromosome 13	L000004406	13	335298	337307	W		2011-02-03	1996-07-31	Protein that regulates actin cytoskeleton organization; required for cytokinesis, actin cable organization, and secretory vesicle trafficking; localized to bud neck; phosphorylated by Dbf2p; regulates actomyosin ring dynamics and septin localization; contains an SH3 domain; N terminus controls cell size and levels of actin cables, while C terminus controls actin cable organization via direct regulation of the formin Bnr1p
-S000034951	CDS					YMR032W		13	335298	337307	W		2011-02-03	1996-07-31	
-S000028574	ORF	Uncharacterized	YMR030W-A			chromosome 13		13	337313	337603	W		2011-02-03	2003-07-29	Putative protein of unknown function; mCherry fusion protein localizes to the cytosol
-S000031303	CDS					YMR030W-A		13	337313	337603	W		2011-02-03	2003-07-29	
-S000004636	ORF	Verified	YMR033W	ARP9	RSC12|SWP59	chromosome 13	L000003438	13	337788	339277	W		2011-02-03	1996-07-31	Component of both the SWI/SNF and RSC chromatin remodeling complexes; actin-related protein involved in transcriptional regulation
-S000035135	CDS					YMR033W		13	337788	337817	W		2011-02-03	1996-07-31	
-S000035136	CDS					YMR033W		13	337904	339277	W		2011-02-03	1996-07-31	
-S000035137	intron					YMR033W		13	337818	337903	W		2011-02-03	1996-07-31	
-S000004637	ORF	Verified	YMR034C	RCH1		chromosome 13		13	340722	339418	C		2011-02-03	1996-07-31	Putative transporter; localizes to the plasma membrane in response to high levels of extracellular calcium; member of the SLC10 carrier family; identified in a transposon mutagenesis screen as a gene involved in azole resistance; YMR034C is not an essential gene
-S000035192	CDS					YMR034C		13	340722	339418	C		2011-02-03	1996-07-31	
-S000004638	ORF	Verified	YMR035W	IMP2	endopeptidase catalytic subunit	chromosome 13	L000002836	13	341142	341675	W		2011-02-03	1996-07-31	Catalytic subunit of mitochondrial inner membrane peptidase complex; required for maturation of mitochondrial proteins of the intermembrane space; complex contains two catalytic subunits (Imp1p and Imp2p that differ in substrate specificity), and Som1p
-S000036191	CDS					YMR035W		13	341142	341675	W		2011-02-03	1996-07-31	
-S000004639	ORF	Verified	YMR036C	MIH1	putative tyrosine protein phosphatase MIH1	chromosome 13	L000001111	13	343520	341856	C		2011-02-03	1996-07-31	Protein tyrosine phosphatase involved in cell cycle control; regulates the phosphorylation state of Cdc28p; homolog of S. pombe cdc25
-S000036273	CDS					YMR036C		13	343520	341856	C		2011-02-03	1996-07-31	
-S000004640	ORF	Verified	YMR037C	MSN2	stress-responsive transcriptional activator MSN2	chromosome 13	L000001198	13	346517	344403	C		2011-02-03	1996-07-31	Stress-responsive transcriptional activator; activated in stochastic pulses of nuclear localization in response to various stress conditions; binds DNA at stress response elements of responsive genes; relative distribution to nucleus increases upon DNA replication stress
-S000036377	CDS					YMR037C		13	346517	344403	C		2011-02-03	1996-07-31	
-S000004641	ORF	Verified	YMR038C	CCS1	copper chaperone CCS1|LYS7|CCS	chromosome 13	L000000968	13	348260	347511	C	30	2011-02-03	1996-07-31	Copper chaperone for superoxide dismutase Sod1p; involved in oxidative stress protection; Met-X-Cys-X2-Cys motif within N-terminus is involved in insertion of copper into Sod1p under conditions of copper deprivation; required for regulation of yeast copper genes in response to DNA-damaging agents; protein abundance increases in response to DNA replication stress; human homolog CCS can complement yeast ccs1 null mutant
-S000036442	CDS					YMR038C		13	348260	347511	C		2011-02-03	1996-07-31	
-S000004642	ORF	Verified	YMR039C	SUB1	chromatin-binding transcription coactivator SUB1|TSP1	chromosome 13	L000003936	13	349522	348644	C		2011-02-03	1996-07-31	Transcriptional regulator; facilitates elongation through factors that modify RNAP II; role in peroxide resistance involving Rad2p; role in nonhomologous end-joining (NHEJ) of ds breaks in plasmid DNA, but not chromosomal DNA; role in the hyperosmotic stress response through polymerase recruitment at RNAP II and RNAP III genes; negatively regulates sporulation; protein abundance increases in response to DNA replication stress; functionally complemented by human SUB1 (PC4)
-S000037092	CDS					YMR039C		13	349522	348644	C		2011-02-03	1996-07-31	
-S000004643	ORF	Verified	YMR040W	YET2		chromosome 13		13	350381	350863	W		2011-02-03	1996-07-31	Protein of unknown function that may interact with ribosomes; based on co-purification experiments; homolog of human BAP31 protein; YET2 has a paralog, YET1, that arose from the whole genome duplication
-S000030127	CDS					YMR040W		13	350381	350863	W		2011-02-03	1996-07-31	
-S000004644	ORF	Verified	YMR041C	ARA2	D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA2	chromosome 13		13	351973	350966	C		2011-02-03	1996-07-31	NAD-dependent arabinose dehydrogenase; involved in biosynthesis of dehydro-D-arabinono-1,4-lactone; similar to plant L-galactose dehydrogenase
-S000030237	CDS					YMR041C		13	351973	350966	C		2011-02-03	1996-07-31	
-S000006568	tRNA_gene		tF(GAA)M			chromosome 13	L000003668	13	352280	352370	W		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000035417	intron					tF(GAA)M		13	352317	352334	W		2011-02-03	2000-05-19	
-S000035415	noncoding_exon					tF(GAA)M		13	352280	352316	W		2011-02-03	2000-05-19	
-S000035416	noncoding_exon					tF(GAA)M		13	352335	352370	W		2011-02-03	2000-05-19	
-S000004645	ORF	Verified	YMR042W	ARG80	ARGRI|ARGR1	chromosome 13	L000000112	13	352603	353136	W	36	2011-02-03	1996-07-31	Transcription factor involved in regulating arginine-responsive genes; acts with Arg81p and Arg82p
-S000031259	CDS					YMR042W		13	352603	353136	W		2011-02-03	1996-07-31	
-S000004646	ORF	Verified	YMR043W	MCM1	transcription factor MCM1|FUN80	chromosome 13	L000001037	13	353871	354731	W	35	2011-02-03	1996-07-31	Transcription factor; involved in cell-type-specific transcription and pheromone response; plays a central role in the formation of both repressor and activator complexes; relocalizes to the cytosol in response to hypoxia
-S000031354	CDS					YMR043W		13	353871	354731	W		2011-02-03	1996-07-31	
-S000004647	ORF	Verified	YMR044W	IOC4		chromosome 13		13	355384	356811	W		2011-02-03	1996-07-31	Member of a complex (Isw1b) with Isw1p and Ioc2p; interacts directly with H3K36me3 nucleosomes through its PWWP domain to recruit the Isw1b complex to open reading frames in a Set2p-dependent manner; Isw1b exhibits nucleosome-stimulated ATPase activity and acts within coding regions to coordinate transcription elongation with termination and processing
-S000032363	CDS					YMR044W		13	355384	356811	W		2011-02-03	1996-07-31	
-S000007109	long_terminal_repeat		YMRCdelta7			chromosome 13		13	357336	357005	C		2011-02-03	2000-05-19	Ty1 LTR
-S000004648	transposable_element_gene		YMR045C		gag-pol fusion protein	chromosome 13		13	362627	357359	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000032431	CDS					YMR045C		13	361321	357359	C		2011-02-03	1999-07-17|1996-07-31	
-S000032430	CDS					YMR045C		13	362627	361323	C		2011-02-03	1999-07-17|1996-07-31	
-S000032432	plus_1_translational_frameshift					YMR045C		13	361322	361322	C		2011-02-03	1999-07-17|1996-07-31	
-S000004649	transposable_element_gene		YMR046C		gag protein	chromosome 13		13	362627	361305	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000032514	CDS					YMR046C		13	362627	361305	C		2011-02-03	1996-07-31	
-S000007248	ORF	Dubious	YMR046W-A			chromosome 13		13	362702	362830	W		2011-02-03	1997-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033646	CDS					YMR046W-A		13	362702	362830	W		2011-02-03	1997-07-17	
-S000007119	LTR_retrotransposon		YMRCTy1-3		Ty1	chromosome 13		13	362918	357005	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007110	long_terminal_repeat		YMRCdelta8			chromosome 13		13	362918	362587	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006599	tRNA_gene		tH(GUG)M			chromosome 13	L000003669	13	363064	363135	W		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
-S000033895	noncoding_exon					tH(GUG)M		13	363064	363135	W		2011-02-03	2000-05-19	
-S000004650	ORF	Verified	YMR047C	NUP116	FG-nucleoporin NUP116|NSP116	chromosome 13	L000001293	13	366705	363364	C		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier; forms a stable association with Nup82p, Gle2p and two other FG-nucleoporins (Nsp1p and Nup159p); NUP116 has a paralog, NUP100, that arose from the whole genome duplication
-S000032621	CDS					YMR047C		13	366705	363364	C		2011-02-03	1996-07-31	
-S000004651	ORF	Verified	YMR048W	CSM3		chromosome 13		13	366981	367934	W		2011-02-03	1996-07-31	Replication fork associated factor; required for stable replication fork pausing; component of the DNA replication checkpoint pathway; required for accurate chromosome segregation during meiosis; forms nuclear foci upon DNA replication stress
-S000033358	CDS					YMR048W		13	366981	367934	W		2011-02-03	1996-07-31	
-S000004652	ORF	Verified	YMR049C	ERB1		chromosome 13		13	370517	368094	C		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; forms a complex with Nop7p and Ytm1p that is required for maturation of the large ribosomal subunit; required for maturation of the 25S and 5.8S ribosomal RNAs; homologous to mammalian Bop1
-S000033387	CDS					YMR049C		13	370517	368094	C		2011-02-03	1996-07-31	
-S000118371	ARS		ARS1312		ARSXIII-371	chromosome 13		13	371001	371105			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178156	ARS_consensus_sequence					ARS1312		13	371019	371035	W		2014-11-18	2014-11-18	
-S000006763	tRNA_gene		tV(AAC)M1			chromosome 13	L000003681	13	372518	372445	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000030017	noncoding_exon					tV(AAC)M1		13	372518	372445	C		2011-02-03	2000-05-19	
-S000007111	long_terminal_repeat		YMRCdelta9			chromosome 13		13	373034	372697	C		2011-02-03	2000-05-19	Ty1 LTR
-S000004653	transposable_element_gene		YMR050C		gag-pol fusion protein	chromosome 13		13	378325	373057	C		2011-02-03	1999-07-17|1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000034328	CDS					YMR050C		13	377019	373057	C		2011-02-03	1999-07-17|1996-07-31	
-S000034327	CDS					YMR050C		13	378325	377021	C		2011-02-03	1999-07-17|1996-07-31	
-S000034329	plus_1_translational_frameshift					YMR050C		13	377020	377020	C		2011-02-03	1999-07-17|1996-07-31	
-S000004654	transposable_element_gene		YMR051C		gag protein	chromosome 13		13	378325	377003	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000034409	CDS					YMR051C		13	378325	377003	C		2011-02-03	1996-07-31	
-S000007120	LTR_retrotransposon		YMRCTy1-4		Ty1	chromosome 13		13	378622	372697	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007112	long_terminal_repeat		YMRCdelta10			chromosome 13		13	378622	378285	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007113	long_terminal_repeat		YMRCdelta11			chromosome 13		13	379061	378727	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007121	long_terminal_repeat		YMRWdelta12			chromosome 13		13	379072	379198	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006775	tRNA_gene		tW(CCA)M			chromosome 13	L000003680	13	379408	379303	C		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
-S000034112	intron					tW(CCA)M		13	379372	379339	C		2011-02-03	2000-05-19	
-S000034111	noncoding_exon					tW(CCA)M		13	379338	379303	C		2011-02-03	2000-05-19	
-S000034110	noncoding_exon					tW(CCA)M		13	379408	379373	C		2011-02-03	2000-05-19	
-S000004656	ORF	Verified	YMR052W	FAR3		chromosome 13	L000002919	13	379586	380200	W		2011-02-03	1996-07-31	Protein of unknown function; involved in recovery from cell cycle arrest in response to pheromone, in a Far1p-independent pathway; interacts with Far7p, Far8p, Far9p, Far10p, and Far11p; localizes to the endoplasmic reticulum; protein abundance increases in response to DNA replication stress
-S000035481	CDS					YMR052W		13	379586	380200	W		2011-02-03	1996-07-31	
-S000004655	ORF	Dubious	YMR052C-A			chromosome 13		13	380434	380069	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036215	CDS					YMR052C-A		13	380434	380069	C		2011-02-03	1996-07-31	
-S000004657	ORF	Verified	YMR053C	STB2		chromosome 13	L000002108	13	382898	380346	C		2011-02-03	1996-07-31	Protein that interacts with Sin3p in a two-hybrid assay; part of a large protein complex with Sin3p and Stb1p; STB2 has a paralog, STB6, that arose from the whole genome duplication
-S000035527	CDS					YMR053C		13	382898	380346	C		2011-02-03	1996-07-31	
-S000004658	ORF	Verified	YMR054W	STV1	H(+)-transporting V0 sector ATPase subunit a	chromosome 13	L000002139	13	383303	385975	W		2011-02-03	1996-07-31	Subunit a of the vacuolar-ATPase V0 domain; one of two isoforms (Stv1p and Vph1p); Stv1p is located in V-ATPase complexes of the Golgi and endosomes while Vph1p is located in V-ATPase complexes of the vacuole
-S000035660	CDS					YMR054W		13	383303	385975	W		2011-02-03	1996-07-31	
-S000004659	ORF	Verified	YMR055C	BUB2	PAC7	chromosome 13	L000000197	13	387021	386101	C		2011-02-03	1996-07-31	Mitotic exit network regulator; forms GTPase-activating Bfa1p-Bub2p complex that binds Tem1p and spindle pole bodies, blocks cell cycle progression before anaphase in response to spindle and kinetochore damage
-S000035699	CDS					YMR055C		13	387021	386101	C		2011-02-03	1996-07-31	
-S000004660	ORF	Verified	YMR056C	AAC1	ADP/ATP carrier protein AAC1	chromosome 13	L000000003	13	388244	387315	C		2011-02-03	1996-07-31	Mitochondrial inner membrane ADP/ATP translocator; exchanges cytosolic ADP for mitochondrially synthesized ATP; phosphorylated; Aac1p is a minor isoform while Pet9p is the major ADP/ATP translocator; relocalizes from mitochondrion to cytoplasm upon DNA replication stress
-S000036642	CDS					YMR056C		13	388244	387315	C		2011-02-03	1996-07-31	
-S000004661	ORF	Dubious	YMR057C			chromosome 13		13	388730	388359	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF AAC1
-S000036707	CDS					YMR057C		13	388730	388359	C		2011-02-03	1996-07-31	
-S000004662	ORF	Verified	YMR058W	FET3	ferroxidase FET3	chromosome 13	L000000610	13	388822	390732	W		2011-02-03	1996-07-31	Ferro-O2-oxidoreductase; multicopper oxidase that oxidizes ferrous (Fe2+) to ferric iron (Fe3+) for subsequent cellular uptake by transmembrane permease Ftr1p; required for high-affinity iron uptake and involved in mediating resistance to copper ion toxicity, belongs to class of integral membrane multicopper oxidases; protein abundance increases in response to DNA replication stress
-S000036798	CDS					YMR058W		13	388822	390732	W		2011-02-03	1996-07-31	
-S000004663	ORF	Verified	YMR059W	SEN15		chromosome 13	L000003972	13	391099	391485	W		2011-02-03	1996-07-31|2006-05-10	Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease (Sen complex) is composed of Sen2p, Sen15p, Sen34p, and Sen54p; Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface
-S000036866	CDS					YMR059W		13	391099	391485	W		2011-02-03	1996-07-31|2006-05-10	
-S000004664	ORF	Verified	YMR060C	SAM37	SAM complex subunit SAM37|TOM37|PET3027|MAS37	chromosome 13	L000002841|L000003251	13	392515	391532	C		2011-02-03	1996-07-31	Component of the Sorting and Assembly Machinery (SAM) complex; the SAM (or TOB) complex is located in the mitochondrial outer membrane; binds precursors of beta-barrel proteins and facilitates their outer membrane insertion; contributes to SAM complex stability
-S000037417	CDS					YMR060C		13	392515	391532	C		2011-02-03	1996-07-31	
-S000004665	ORF	Verified	YMR061W	RNA14	cleavage polyadenylation factor subunit RNA14	chromosome 13	L000001650	13	392755	394788	W		2011-02-03	1996-07-31	Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; bridges interaction between Rna15p and Hrp1p in the CF I complex; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; required for gene looping and maintenance of genome stability; relocalizes to the cytosol in response to hypoxia
-S000037628	CDS					YMR061W		13	392755	394788	W		2011-02-03	1996-07-31	
-S000004666	ORF	Verified	YMR062C	ARG7	glutamate N-acetyltransferase|ECM40	chromosome 13	L000003528	13	396379	395054	C		2011-02-03	1996-07-31	Mitochondrial ornithine acetyltransferase; catalyzes the fifth step in arginine biosynthesis; also possesses acetylglutamate synthase activity, regenerates acetylglutamate while forming ornithine
-S000037657	CDS					YMR062C		13	396379	395054	C		2011-02-03	1996-07-31	
-S000004667	ORF	Verified	YMR063W	RIM9		chromosome 13	L000003427	13	397077	397796	W		2011-02-03	1996-07-31	Plasma membrane protein of unknown function; involved in the proteolytic activation of Rim101p in response to alkaline pH; interacts with Rim21p and Dfg16p to form a pH-sensing complex in the Rim101 pathway and is required to maintain Rim21p levels; has similarity to A. nidulans PalI;
-S000030541	CDS					YMR063W		13	397077	397796	W		2011-02-03	1996-07-31	
-S000004668	ORF	Verified	YMR064W	AEP1	NCA1	chromosome 13	L000000053	13	397903	399459	W		2011-02-03	1996-07-31	Protein required for expression of the mitochondrial OLI1 gene; mitochondrial OLI1 gene encodes subunit 9 of F1-F0 ATP synthase
-S000030637	CDS					YMR064W		13	397903	399459	W		2011-02-03	1996-07-31	
-S000004669	ORF	Verified	YMR065W	KAR5	FIG3	chromosome 13	L000003315	13	399702	401216	W		2011-02-03	1996-07-31	Protein required for nuclear membrane fusion during karyogamy; localizes to the membrane with a soluble portion in the endoplasmic reticulum lumen, may form a complex with Jem1p and Kar2p; similar to zebrafish Brambleberry protein; expression of the gene is regulated by pheromone
-S000031502	CDS					YMR065W		13	399702	401216	W		2011-02-03	1996-07-31	
-S000004670	ORF	Verified	YMR066W	SOV1		chromosome 13	L000004620	13	401541	404237	W		2011-02-03	1996-07-31	Mitochondrial protein of unknown function
-S000031589	CDS					YMR066W		13	401541	404237	W		2011-02-03	1996-07-31	
-S000004671	ORF	Verified	YMR067C	UBX4	CUI1	chromosome 13		13	405573	404323	C		2011-02-03	1996-07-31	UBX domain-containing protein that interacts with Cdc48p; involved in degradation of polyubiquitinated proteins via the ERAD (ER-associated degradation) pathway; modulates the Cdc48p-Nplp-Ufd1p AAA ATPase complex during its role in delivery of misfolded proteins to the proteasome; protein abundance increases in response to DNA replication stress
-S000031655	CDS					YMR067C		13	405573	404323	C		2011-02-03	1996-07-31	
-S000004672	ORF	Verified	YMR068W	AVO2		chromosome 13		13	406304	407584	W		2011-02-03	1996-07-31	Component of a complex containing the Tor2p kinase and other proteins; complex may have a role in regulation of cell growth
-S000031807	CDS					YMR068W		13	406304	407584	W		2011-02-03	1996-07-31	
-S000004673	ORF	Verified	YMR069W	NAT4	NAA40	chromosome 13		13	407709	408566	W		2011-02-03	1996-07-31	N alpha-acetyl-transferase; involved in acetylation of the N-terminal residues of histones H4 and H2A
-S000032728	CDS					YMR069W		13	407709	408566	W		2011-02-03	1996-07-31	
-S000004674	ORF	Verified	YMR070W	MOT3	[MOT3]|[MOT3+]|ROX7	chromosome 13	L000002675	13	409154	410626	W	43	2011-02-03	1996-07-31	Transcriptional repressor, activator; role in cellular adjustment to osmotic stress including modulation of mating efficiency; involved in repression of subset of hypoxic genes by Rox1p, repression of several DAN/TIR genes during aerobic growth, ergosterol biosynthetic genes in response to hyperosmotic stress; contributes to recruitment of Tup1p-Cyc8p general repressor to promoters; relocalizes to cytosol under hypoxia; forms [MOT3+] prion under anaerobic conditions
-S000032777	CDS					YMR070W		13	409154	410626	W		2011-02-03	1996-07-31	
-S000004675	ORF	Verified	YMR071C	TVP18		chromosome 13		13	411265	410762	C		2011-02-03	1996-07-31	Integral membrane protein; localized to late Golgi vesicles along with the v-SNARE Tlg2p; may interact with ribosomes, based on co-purification experiments; may have a role in intracellular sterol transport
-S000032836	CDS					YMR071C		13	411265	410762	C		2011-02-03	1996-07-31	
-S000004676	ORF	Verified	YMR072W	ABF2	DNA-binding protein ABF2|mtTFA|HM|p19	chromosome 13	L000000012	13	411569	412120	W		2011-02-03	1996-07-31	Mitochondrial DNA-binding protein; involved in mitochondrial DNA replication and recombination, member of HMG1 DNA-binding protein family; activity may be regulated by protein kinase A phosphorylation; ABF2 has a paralog, IXR1, that arose from the whole genome duplication; human homolog TFAM can complement yeast abf2 mutant, rescuing the loss-of-mitochondrial DNA phenotype in a yeast abf2 strain
-S000033599	CDS					YMR072W		13	411569	412120	W		2011-02-03	1996-07-31	
-S000004677	ORF	Verified	YMR073C	IRC21		chromosome 13		13	412873	412268	C		2011-02-03	1996-07-31	Protein of unknown function; may be involved in resistance to carboplatin and cisplatin; null mutant displays increase in spontaneous Rad52p foci; contains a lipid-binding domain and binds cardiolipin in a large-scale study
-S000033642	CDS					YMR073C		13	412873	412268	C		2011-02-03	1996-07-31	
-S000004678	ORF	Verified	YMR074C	SDD2		chromosome 13		13	413473	413036	C		2011-02-03	1996-07-31	Protein with homology to human PDCD5; PDCD5 is involved in programmed cell death; N-terminal region forms a conserved triple-helix bundle structure; overproduction suppresses lethality due to expression of the dominant PET9 allele AAC2-A128P; overexpression promotes H2O2-induced apoptosis; YMR074C is not an essential gene; protein abundance increases in response to DNA replication stress
-S000033760	CDS					YMR074C		13	413473	413036	C		2011-02-03	1996-07-31	
-S000004680	ORF	Verified	YMR075W	RCO1		chromosome 13		13	413982	416036	W		2011-02-03	1996-07-31	Essential component of the Rpd3S histone deacetylase complex; interacts with Eaf3p
-S000034738	CDS					YMR075W		13	413982	416036	W		2011-02-03	1996-07-31	
-S000004679	ORF	Dubious	YMR075C-A			chromosome 13		13	416053	415688	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF RCO1/YMR075W
-S000033031	CDS					YMR075C-A		13	416053	415688	C		2011-02-03	1996-07-31	
-S000004681	ORF	Verified	YMR076C	PDS5		chromosome 13	L000003047	13	420029	416196	C		2011-02-03	1996-07-31	Cohesion maintenance factor; involved in sister chromatid condensation and cohesion; colocalizes with cohesin on chromosomes; performs its cohesin maintenance function in pre-anaphase cells by protecting the integrity of the cohesion complex; also required during meiosis; relocalizes to the cytosol in response to hypoxia
-S000034790	CDS					YMR076C		13	420029	416196	C		2011-02-03	1996-07-31	
-S000006764	tRNA_gene		tV(AAC)M2			chromosome 13	L000003679	13	420661	420588	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000030020	noncoding_exon					tV(AAC)M2		13	420661	420588	C		2011-02-03	2000-05-19	
-S000004682	ORF	Verified	YMR077C	VPS20	ESCRT-III subunit protein VPS20|VPL10|VPT20|CHM6	chromosome 13		13	422149	421484	C		2011-02-03	1996-07-31	Myristoylated subunit of the ESCRT-III complex; the endosomal sorting complex required for transport of transmembrane proteins into the multivesicular body pathway to the lysosomal/vacuolar lumen; cytoplasmic protein recruited to endosomal membranes
-S000034931	CDS					YMR077C		13	422149	421484	C		2011-02-03	1996-07-31	
-S000004683	ORF	Verified	YMR078C	CTF18	CHL12	chromosome 13	L000000431|L000000325	13	424728	422503	C		2011-02-03	1996-07-31	Subunit of a complex with Ctf8p; shares some subunits with Replication Factor C and is required for sister chromatid cohesion; may have overlapping functions with Rad24p in the DNA damage replication checkpoint
-S000035849	CDS					YMR078C		13	424728	422503	C		2011-02-03	1996-07-31	
-S000004684	ORF	Verified	YMR079W	SEC14	phosphatidylinositol/phosphatidylcholine transfer protein SEC14|PIT1	chromosome 13	L000001839	13	424989	426059	W		2011-02-03	1996-07-31	Phosphatidylinositol/phosphatidylcholine transfer protein; involved in regulating PtdIns, PtdCho, and ceramide metabolism, products of which regulate intracellular transport and UPR; has a role in localization of lipid raft proteins; functionally homologous to mammalian PITPs; SEC14 has a paralog, YKL091C, that arose from the whole genome duplication
-S000036083	CDS					YMR079W		13	424989	424997	W		2011-02-03	1996-07-31	
-S000036084	CDS					YMR079W		13	425154	426059	W		2011-02-03	1996-07-31	
-S000036085	intron					YMR079W		13	424998	425153	W		2011-02-03	1996-07-31	
-S000004685	ORF	Verified	YMR080C	NAM7	SUT2|ATP-dependent RNA helicase NAM7|SUP113|UPF1|MOF4|IFS2	chromosome 13	L000002429|S000029550|L000002232	13	429627	426712	C	60	2011-02-03	1996-07-31	ATP-dependent RNA helicase of the SFI superfamily; involved in nonsense mediated mRNA decay; required for efficient translation termination at nonsense codons and targeting of NMD substrates to P-bodies; binds to the small ribosomal subunit via an interaction with Rps26; forms cytoplasmic foci upon DNA replication stress
-S000036887	CDS					YMR080C		13	429627	426712	C		2011-02-03	1996-07-31	
-S000004686	ORF	Verified	YMR081C	ISF1	MBR3	chromosome 13	L000001034	13	431095	430079	C		2011-02-03	1996-07-31	Serine-rich, hydrophilic protein; overexpression suppresses growth defects of hap2, hap3, and hap4 mutants; expression is under glucose control; cotranscribed with NAM7 in a cyp1 mutant; ISF1 has a paralog, MBR1, that arose from the whole genome duplication
-S000036954	CDS					YMR081C		13	431095	430079	C		2011-02-03	1996-07-31	
-S000004687	ORF	Uncharacterized	YMR082C			chromosome 13		13	432125	431769	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR082C is not an essential gene
-S000037719	CDS					YMR082C		13	432125	431769	C		2011-02-03	1996-07-31	
-S000004688	ORF	Verified	YMR083W	ADH3	alcohol dehydrogenase ADH3	chromosome 13	L000000043	13	434788	435915	W	45	2011-02-03	1996-07-31	Mitochondrial alcohol dehydrogenase isozyme III; involved in the shuttling of mitochondrial NADH to the cytosol under anaerobic conditions and ethanol production
-S000037845	CDS					YMR083W		13	434788	435915	W		2011-02-03	1996-07-31	
-S000004689	ORF	Uncharacterized	YMR084W		putative glutamine--fructose-6-phosphate transaminase	chromosome 13		13	436628	437416	W		2011-02-03	1996-07-31	Putative protein of unknown function; YMR084W and adjacent ORF YMR085W are merged in related strains, and together are paralogous to glutamine-fructose-6-phosphate amidotransferase GFA1
-S000030786	CDS					YMR084W		13	436628	437416	W		2011-02-03	1996-07-31	
-S000004690	ORF	Uncharacterized	YMR085W			chromosome 13		13	437491	438789	W		2011-02-03	1996-07-31	Putative protein of unknown function; YMR085W and adjacent ORF YMR084W are merged in related strains, and together are paralogous to glutamine-fructose-6-phosphate amidotransferase GFA1
-S000030871	CDS					YMR085W		13	437491	438789	W		2011-02-03	1996-07-31	
-S000004692	ORF	Verified	YMR086W	SEG1		chromosome 13		13	439208	442090	W		2011-02-03	1996-07-31	Component of eisosome required for proper eisosome assembly; precedes Pil1p/Lsp1p during eisosome formation, controls eisosome length and shape; diffusely distributed, forms heterogeneous patches at plasma membrane in small buds, also found in medium and large buds; expression repressed by cAMP; similar to A. gossypii SEG gene and to S. pombe Sle1p, important for generating eisosomes; SEG1 has a paralog, SEG2, that arose from the whole genome duplication
-S000030930	CDS					YMR086W		13	439208	442090	W		2011-02-03	1996-07-31	
-S000004691	ORF	Dubious	YMR086C-A			chromosome 13		13	442364	442026	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037663	CDS					YMR086C-A		13	442364	442026	C		2011-02-03	1996-07-31	
-S000004693	ORF	Verified	YMR087W		putative ADP-ribose 1''-phosphate phosphatase	chromosome 13	S000154613	13	442527	443381	W		2011-02-03	1996-07-31	Putative ADP-ribose-1''-monophosphatase; converts ADP-ribose-1''-monophosphate to ADP-ribose; may have a role in tRNA splicing; contains an A1pp domain
-S000031010	CDS					YMR087W		13	442527	443381	W		2011-02-03	1996-07-31	
-S000004694	ORF	Verified	YMR088C	VBA1		chromosome 13		13	445102	443414	C		2011-02-03	1996-07-31	Permease of basic amino acids in the vacuolar membrane
-S000031056	CDS					YMR088C		13	445102	443414	C		2011-02-03	1996-07-31	
-S000004695	ORF	Verified	YMR089C	YTA12	m-AAA protease subunit YTA12|RCA1	chromosome 13	L000001591|L000002564	13	448086	445609	C		2011-02-03	1996-07-31	Mitochondrial inner membrane m-AAA protease component; mediates degradation of misfolded or unassembled proteins; also required for correct assembly of mitochondrial enzyme complexes; overexpression of human AFG3L2 complements respiratory defect of yeast afg3 yta12 double null mutation, but overexpression of disease-associated AFG3L2 variants does not; expression of both human SPG7 (paraplegin) and AFG3L2 complements yeast yta12 afg3 double mutation
-S000032008	CDS					YMR089C		13	448086	445609	C		2011-02-03	1996-07-31	
-S000004696	ORF	Uncharacterized	YMR090W			chromosome 13		13	449245	449928	W		2011-02-03	1996-07-31	Putative protein of unknown function; similar to DTDP-glucose 4,6-dehydratases; GFP-fusion protein localizes to the cytoplasm; up-regulated in response to the fungicide mancozeb; not essential for viability
-S000033126	CDS					YMR090W		13	449245	449928	W		2011-02-03	1996-07-31	
-S000004697	ORF	Verified	YMR091C	NPL6	RSC7	chromosome 13	L000001272	13	451365	450058	C		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; interacts with Rsc3p, Rsc30p, Ldb7p, and Htl1p to form a module important for a broad range of RSC functions
-S000033161	CDS					YMR091C		13	451365	450058	C		2011-02-03	1996-07-31	
-S000004698	ORF	Verified	YMR092C	AIP1		chromosome 13	L000000069	13	453479	451632	C		2011-02-03	1996-07-31	Actin cortical patch component; interacts with the actin depolymerizing factor cofilin; inhibits elongation of aged ADP-actin filaments decorated with cofilin to maintain a high level of assembly-competent actin species; required to restrict cofilin localization to cortical patches; putative regulator of cytokinesis; contains WD repeats; protein increases in abundance and relocalizes from cytoplasm to plasma membrane upon DNA replication stress
-S000033958	CDS					YMR092C		13	453479	451632	C		2011-02-03	1996-07-31	
-S000004699	ORF	Verified	YMR093W	UTP15	snoRNA-binding rRNA-processing protein UTP15	chromosome 13		13	454015	455556	W		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
-S000034125	CDS					YMR093W		13	454015	455556	W		2011-02-03	1996-07-31	
-S000004700	ORF	Verified	YMR094W	CTF13	CBF3C	chromosome 13	L000000429	13	455825	457261	W		2011-02-03	1996-07-31	Subunit of the CBF3 complex; CBF3 binds to the CDE III element of centromeres, bending the DNA upon binding, and may be involved in sister chromatid cohesion during mitosis
-S000034211	CDS					YMR094W		13	455825	457261	W		2011-02-03	1996-07-31	
-S000004701	ORF	Verified	YMR095C	SNO1	putative pyridoxal 5'-phosphate synthase	chromosome 13	L000003451	13	457959	457285	C		2011-02-03	1996-07-31	Protein of unconfirmed function; involved in pyridoxine metabolism; expression is induced during stationary phase; forms a putative glutamine amidotransferase complex with Snz1p, with Sno1p serving as the glutaminase
-S000035105	CDS					YMR095C		13	457959	457285	C		2011-02-03	1996-07-31	
-S000004702	ORF	Verified	YMR096W	SNZ1	pyridoxine biosynthesis protein SNZ1	chromosome 13	L000002575	13	458408	459301	W		2011-02-03	1996-07-31	Protein involved in vitamin B6 biosynthesis; member of a stationary phase-induced gene family; coregulated with SNO1; interacts with Sno1p and with Yhr198p, perhaps as a multiprotein complex containing other Snz and Sno proteins
-S000035303	CDS					YMR096W		13	458408	459301	W		2011-02-03	1996-07-31	
-S000004703	ORF	Verified	YMR097C	MTG1	putative GTPase MTG1	chromosome 13		13	460527	459424	C		2011-02-03	1996-07-31	Putative GTPase peripheral to the mitochondrial inner membrane; essential for respiratory competence, likely functions in assembly of the large ribosomal subunit, has homologs in plants and animals
-S000035321	CDS					YMR097C		13	460527	459424	C		2011-02-03	1996-07-31	
-S000004704	ORF	Verified	YMR098C	ATP25	LRC4	chromosome 13		13	462609	460771	C		2011-02-03	1996-07-31	Mitochondrial protein required for the stability of Oli1p (Atp9p) mRNA; also required for the Oli1p ring formation; YMR098C is not an essential gene
-S000035398	CDS					YMR098C		13	462609	460771	C		2011-02-03	1996-07-31	
-S000007114	long_terminal_repeat		YMRCdelta13			chromosome 13		13	463461	463128	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006543	tRNA_gene		tD(GUC)M			chromosome 13	L000003670	13	463554	463625	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000030421	noncoding_exon					tD(GUC)M		13	463554	463625	W		2011-02-03	2000-05-19	
-S000004705	ORF	Verified	YMR099C		glucose-6-phosphate 1-epimerase	chromosome 13		13	464827	463934	C		2011-02-03	1996-07-31	Glucose-6-phosphate 1-epimerase (hexose-6-phosphate mutarotase); likely involved in carbohydrate metabolism; GFP-fusion protein localizes to both the nucleus and cytoplasm and is induced in response to the DNA-damaging agent MMS
-S000035458	CDS					YMR099C		13	464827	463934	C		2011-02-03	1996-07-31	
-S000004706	ORF	Verified	YMR100W	MUB1		chromosome 13	L000004359	13	466300	468162	W		2011-02-03	1996-07-31	MYND domain-containing protein; component of the Mub1p-Ubr2p-Rad6p ubiquitin ligase complex, required for ubiquitination and degradation of Rpn4p; interacts with Ubr2p (E3) and indirectly with Rad6p (E2); short-lived protein degraded in a Ubr2p/Rad6p dependent manner; proposed to function as both a partner and substrate of the Ubr2p/Rad6p ubiquitin ligase; similar to the A. nidulans samB gene
-S000032955	CDS					YMR100W		13	466300	468162	W		2011-02-03	1996-07-31	
-S000118372	ARS		ARS1316		ARSXIII-468	chromosome 13		13	468179	468469			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178157	ARS_consensus_sequence					ARS1316		13	468236	468252	W		2014-11-18	2014-11-18	
-S000004707	ORF	Verified	YMR101C	SRT1	ditrans,polycis-polyprenyl diphosphate synthase	chromosome 13	L000004878	13	469476	468445	C		2011-02-03	1996-07-31	Forms the dehydrodolichyl diphosphate syntase (DDS) complex with NUS1; involved in synthesis of long-chain dolichols (19-22 isoprene units; as opposed to Rer2p which synthesizes shorter-chain dolichols); localizes to lipid bodies; transcription is induced during stationary phase
-S000032988	CDS					YMR101C		13	469476	468445	C		2011-02-03	1996-07-31	
-S000004708	ORF	Uncharacterized	YMR102C			chromosome 13		13	472352	469848	C		2011-02-03	1996-07-31	Protein of unknown function; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance; mutant shows increased resistance to azoles; not an essential gene; YMR102C has a paralog, DGR2, that arose from the whole genome duplication
-S000033083	CDS					YMR102C		13	472352	469848	C		2011-02-03	1996-07-31	
-S000004709	ORF	Uncharacterized	YMR103C			chromosome 13		13	473264	472902	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR103C is not an essential gene
-S000033841	CDS					YMR103C		13	473264	472902	C		2011-02-03	1996-07-31	
-S000004710	ORF	Verified	YMR104C	YPK2	putative protein kinase YPK2|YKR2	chromosome 13	L000002542	13	475453	473420	C		2011-02-03	1996-07-31	Protein kinase similar to S/T protein kinase Ypk1p; functionally redundant with YPK1 at the genetic level; participates in a signaling pathway required for optimal cell wall integrity; involved in the TORC-dependent phosphorylation of ribosomal proteins Rps6a/b (S6); human homolog SGK2 can complement a ypk1 ypk2 double mutant
-S000033988	CDS					YMR104C		13	475453	473420	C		2011-02-03	1996-07-31	
-S000004711	ORF	Verified	YMR105C	PGM2	phosphoglucomutase PGM2|GAL5	chromosome 13	L000001413	13	477606	475897	C		2011-02-03	1996-07-31	Phosphoglucomutase; catalyzes the conversion from glucose-1-phosphate to glucose-6-phosphate, which is a key step in hexose metabolism; functions as the acceptor for a Glc-phosphotransferase; protein abundance increases in response to DNA replication stress; PGM2 has a paralog, PGM1, that arose from the whole genome duplication
-S000034889	CDS					YMR105C		13	477606	475897	C		2011-02-03	1996-07-31	
-S000130188	ARS		ARS1317			chromosome 13		13	477606	478301			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000028692	ORF	Uncharacterized	YMR105W-A			chromosome 13		13	478064	478258	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000032592	CDS					YMR105W-A		13	478064	478258	W		2011-02-03	2003-07-29	
-S000004712	ORF	Verified	YMR106C	YKU80	ATP-dependent DNA helicase YKU80|HDF2	chromosome 13	L000004089	13	480190	478301	C		2011-02-03	1996-07-31	Subunit of telomeric Ku complex (Yku70p-Yku80p); involved in telomere length maintenance, structure and telomere position effect; required for localization of telomerase ribonucleoprotein via interaction with TLC1 guide RNA; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair; colocalizes with quiescent cell telomere hyperclusters
-S000035040	CDS					YMR106C		13	480190	478301	C		2011-02-03	1996-07-31	
-S000006627	tRNA_gene		tK(CUU)M			chromosome 13	L000003678	13	480693	480621	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000036046	noncoding_exon					tK(CUU)M		13	480693	480621	C		2011-02-03	2000-05-19	
-S000007115	long_terminal_repeat		YMRCdelta14			chromosome 13		13	481547	481214	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007122	long_terminal_repeat		YMRWdelta15			chromosome 13		13	481571	481808	W		2011-02-03	2000-05-19	Ty1 LTR
-S000004713	ORF	Verified	YMR107W	SPG4		chromosome 13		13	483014	483361	W		2011-02-03	1996-07-31	Protein required for high temperature survival during stationary phase; not required for growth on nonfermentable carbon sources
-S000035284	CDS					YMR107W		13	483014	483361	W		2011-02-03	1996-07-31	
-S000004714	ORF	Verified	YMR108W	ILV2	acetolactate synthase catalytic subunit|THI1|SMR1	chromosome 13	L000002296|L000002515|L000000858	13	484084	486147	W	66	2011-02-03	1996-07-31	Acetolactate synthase; catalyses the first common step in isoleucine and valine biosynthesis and is the target of several classes of inhibitors, localizes to the mitochondria; expression of the gene is under general amino acid control
-S000036218	CDS					YMR108W		13	484084	486147	W		2011-02-03	1996-07-31	
-S000004715	ORF	Verified	YMR109W	MYO5	myosin 5	chromosome 13	L000002935	13	486587	490246	W		2011-02-03	1996-07-31	One of two type I myosin motors; contains proline-rich tail homology 2 (TH2) and SH3 domains; MYO5 deletion has little effect on growth, but myo3 myo5 double deletion causes severe defects in growth and actin cytoskeleton organization; MYO5 has a paralog, MYO3, that arose from the whole genome duplication
-S000036305	CDS					YMR109W		13	486587	490246	W		2011-02-03	1996-07-31	
-S000004716	ORF	Verified	YMR110C	HFD1	hexadecenal dehydrogenase	chromosome 13		13	491992	490394	C		2011-02-03	1996-07-31	Dehydrogenase involved in ubiquinone and sphingolipid metabolism; oxidizes 4-hydroxybenzaldehyde into 4-hydroxybenzoic acid in ubiquinone biosynthesis; converts hexadecenal to hexadecenoic acid in sphingosine 1-phosphate breakdown pathway; located in the mitochondrial outer membrane and also in lipid particles; human homolog ALDH3A2, a fatty aldehyde dehydrogenase (FALDH) mutated in neurocutaneous disorder Sjogren-Larsson syndrome, can complement yeast hfd1 mutant
-S000037194	CDS					YMR110C		13	491992	490394	C		2011-02-03	1996-07-31	
-S000004717	ORF	Verified	YMR111C			chromosome 13		13	493792	492404	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YMR111C is not an essential gene; forms nuclear foci upon DNA replication stress
-S000037278	CDS					YMR111C		13	493792	492404	C		2011-02-03	1996-07-31	
-S000004718	ORF	Verified	YMR112C	MED11		chromosome 13	L000004634	13	494495	494100	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential protein
-S000029941	CDS					YMR112C		13	494495	494100	C		2011-02-03	1996-07-31	
-S000004719	ORF	Verified	YMR113W	FOL3	dihydrofolate synthase	chromosome 13		13	494999	496282	W		2011-02-03	1996-07-31	Dihydrofolate synthetase, involved in folic acid biosynthesis; catalyzes conversion of dihydropteroate to dihydrofolate in folate coenzyme biosynthesis; FOL3 has a paralog, RMA1, that arose from the whole genome duplication
-S000030131	CDS					YMR113W		13	494999	496282	W		2011-02-03	1996-07-31	
-S000004720	ORF	Verified	YMR114C		putative peptide hydrolase	chromosome 13		13	497449	496343	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; YMR114C is not an essential gene
-S000030240	CDS					YMR114C		13	497449	496343	C		2011-02-03	1996-07-31	
-S000004721	ORF	Verified	YMR115W	MGR3	FMP24	chromosome 13		13	497704	499209	W		2011-02-03	1996-07-31	Subunit of the mitochondrial (mt) i-AAA protease supercomplex; i-AAA degrades misfolded mitochondrial proteins; forms a subcomplex with Mgr1p that binds to substrates to facilitate proteolysis; required for growth of cells lacking mtDNA
-S000031261	CDS					YMR115W		13	497704	499209	W		2011-02-03	1996-07-31	
-S000007501	snoRNA_gene		snR24	SNR24	U24	chromosome 13	L000002911	13	500072	499984	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); commonly referred to as U24; guides 2'-O-methylation of large subunit (LSU) rRNA at positions C1437, C1449, and C1450
-S000036664	noncoding_exon					snR24		13	500072	499984	C		2011-02-03	2000-05-19	
-S000004722	ORF	Verified	YMR116C	ASC1	RACK1|guanine nucleotide-binding protein subunit beta|ASU9|NAD1|CPC2	chromosome 13	L000003529|L000000135|S000029045	13	500688	499456	C		2011-02-03	1996-07-31	G-protein beta subunit and guanine dissociation inhibitor for Gpa2p; ortholog of RACK1 that inhibits translation; core component of the small (40S) ribosomal subunit; required to prevent frameshifting at ribosomes stalled at repeated CGA codons; regulates P-body formation induced by replication stress; represses Gcn4p in the absence of amino acid starvation
-S000031294	CDS					YMR116C		13	499878	499456	C		2011-02-03	1996-07-31	
-S000031293	CDS					YMR116C		13	500688	500152	C		2011-02-03	1996-07-31	
-S000031295	intron					YMR116C		13	500151	499879	C		2011-02-03	1996-07-31	
-S000004723	ORF	Verified	YMR117C	SPC24	kinetochore-associated Ndc80 complex subunit SPC24	chromosome 13	L000004694	13	501891	501250	C		2011-02-03	1996-07-31	Component of the kinetochore-associated Ndc80 complex; involved in chromosome segregation, spindle checkpoint activity, and kinetochore clustering; evolutionarily conserved; other members include Ndc80p, Nuf2p, Spc24p, and Spc25p
-S000031427	CDS					YMR117C		13	501891	501250	C		2011-02-03	1996-07-31	
-S000004724	ORF	Uncharacterized	YMR118C	SHH3	protein SHH3	chromosome 13		13	502734	502144	C		2011-02-03	1996-07-31	Putative mitochondrial inner membrane protein of unknown function; although similar to paralogous Sdh3p, Shh3p is not a stoichiometric subunit of either succinate dehydrogenase or of the TIM22 translocase; SHH3 has a paralog, SDH3, that arose from the whole genome duplication
-S000032434	CDS					YMR118C		13	502734	502144	C		2011-02-03	1996-07-31	
-S000007123	long_terminal_repeat		YMRWdelta16			chromosome 13		13	503192	503389	W		2011-02-03	2000-05-19	Ty1 LTR
-S000130189	ARS		ARS1319			chromosome 13		13	503389	503771			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000007128	long_terminal_repeat		YMRWtau2			chromosome 13		13	503771	504141	W		2011-02-03	2000-05-19	Ty4 LTR
-S000007124	long_terminal_repeat		YMRWdelta17			chromosome 13		13	504346	504677	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006644	tRNA_gene		tL(CAA)M			chromosome 13	L000003671	13	504895	505008	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000033800	intron					tL(CAA)M		13	504933	504964	W		2011-02-03	2000-05-19	
-S000033798	noncoding_exon					tL(CAA)M		13	504895	504932	W		2011-02-03	2000-05-19	
-S000033799	noncoding_exon					tL(CAA)M		13	504965	505008	W		2011-02-03	2000-05-19	
-S000004725	ORF	Verified	YMR119W	ASI1	putative ubiquitin-protein ligase ASI1	chromosome 13		13	505333	507207	W		2011-02-03	1996-07-31	Subunit of the inner nuclear membrane Asi ubiquitin ligase complex; the Asi complex targets both misfolded proteins of the inner nuclear membrane-associated degradation (INMAD) pathway and regulators of sterol biosynthesis for ubiquitin-mediated degradation; acts with Asi2p and Asi3p to ensure the fidelity of SPS-sensor signaling by targeting latent unprocessed forms of Stp1p and Stp2p, maintaining the repressed state of gene expression in the absence of inducing amino acids
-S000032577	CDS					YMR119W		13	505333	507207	W		2011-02-03	1996-07-31	
-S000004726	ORF	Dubious	YMR119W-A			chromosome 13		13	506996	507370	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 3' end of ORF ASI1/YMR119W
-S000037793	CDS					YMR119W-A		13	506996	507370	W		2011-02-03	1996-07-31	
-S000004727	ORF	Verified	YMR120C	ADE17	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE17	chromosome 13	L000003306	13	509280	507502	C		2011-02-03	1996-07-31	Enzyme of 'de novo' purine biosynthesis; contains both 5-aminoimidazole-4-carboxamide ribonucleotide transformylase and inosine monophosphate cyclohydrolase activities; ADE17 has a paralog, ADE16, that arose from the whole genome duplication; ade16 ade17 mutants require adenine and histidine
-S000033275	CDS					YMR120C		13	509280	507502	C		2011-02-03	1996-07-31	
-S000004728	ORF	Verified	YMR121C	RPL15B	eL15|ribosomal 60S subunit protein L15B|L15e|rp15R|YL10|L15B|L13B	chromosome 13	L000004456	13	510348	509734	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L15B; binds to 5.8 S rRNA; homologous to mammalian ribosomal protein L15, no bacterial homolog; RPL15B has a paralog, RPL15A, that arose from the whole genome duplication; relocalizes from nucleus to nucleolus upon DNA replication stress
-S000033342	CDS					YMR121C		13	510348	509734	C		2011-02-03	1996-07-31	
-S000004729	ORF	Uncharacterized	YMR122C			chromosome 13		13	511075	510701	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR122C is not an essential gene
-S000033409	CDS					YMR122C		13	511075	510701	C		2011-02-03	1996-07-31	
-S000007524	ORF	Uncharacterized	YMR122W-A			chromosome 13		13	511315	511569	W		2011-02-03	2000-07-14	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and endoplasmic reticulum
-S000037063	CDS					YMR122W-A		13	511315	511569	W		2011-02-03	2000-07-14	
-S000004730	ORF	Verified	YMR123W	PKR1		chromosome 13		13	513593	513961	W		2011-02-03	1996-07-31	V-ATPase assembly factor; functions with other V-ATPase assembly factors in the ER to efficiently assemble the V-ATPase membrane sector (V0); protein abundance increases in response to DNA replication stress
-S000034386	CDS					YMR123W		13	513593	513961	W		2011-02-03	1996-07-31	
-S000004731	ORF	Verified	YMR124W	EPO1		chromosome 13		13	514456	517287	W		2011-02-03	1996-07-31	Protein involved in septin-ER tethering; interacts with ER membrane protein, Scs2p, and Shs1p, a septin ring component, at bud neck to create ER diffusion barrier; GFP-fusion protein localizes to the cell periphery, cytoplasm, bud, and bud neck; interacts with Crm1p in two-hybrid assay; YMR124W has a paralog, YLR031W, that arose from the whole genome duplication
-S000034454	CDS					YMR124W		13	514456	517287	W		2011-02-03	1996-07-31	
-S000004732	ORF	Verified	YMR125W	STO1	SUT1|CBP80|GCR3|CBC1	chromosome 13	L000002131	13	517539	520446	W	87	2011-02-03	1999-11-17|1996-07-31	Large subunit of the nuclear mRNA cap-binding protein complex; interacts with Npl3p to carry nuclear poly(A)+ mRNA to cytoplasm; also involved in nuclear mRNA degradation and telomere maintenance; orthologous to mammalian CBP80
-S000035482	CDS					YMR125W		13	517539	517563	W		2011-02-03	1999-11-17|1996-07-31	
-S000035483	CDS					YMR125W		13	517886	520446	W		2011-02-03	1999-11-17	
-S000035484	intron					YMR125W		13	517564	517885	W		2011-02-03	1999-11-17	
-S000004733	ORF	Uncharacterized	YMR126C	DLT1		chromosome 13		13	521789	520761	C		2011-02-03	1996-07-31	Protein of unknown function; mutant sensitive to 6-azauracil (6AU) and mycophenolic acid (MPA)
-S000035540	CDS					YMR126C		13	521789	520761	C		2011-02-03	1996-07-31	
-S000004734	ORF	Verified	YMR127C	SAS2	KAT8	chromosome 13	L000001802	13	523345	522329	C		2011-02-03	1996-07-31	Histone acetyltransferase (HAT) catalytic subunit of the SAS complex; acetylates free histones and nucleosomes and regulates transcriptional silencing; member of the MYSTacetyltransferase family; other members are Sas4p and Sas5p
-S000035616	CDS					YMR127C		13	523345	522329	C		2011-02-03	1996-07-31	
-S000004735	ORF	Verified	YMR128W	ECM16	ATP-dependent RNA helicase ECM16|DHR1	chromosome 13	L000003891	13	523696	527499	W		2011-02-03	1996-07-31	Essential DEAH-box ATP-dependent RNA helicase specific to U3 snoRNP; predominantly nucleolar in distribution; required for 18S rRNA synthesis
-S000035779	CDS					YMR128W		13	523696	527499	W		2011-02-03	1996-07-31	
-S000004736	ORF	Verified	YMR129W	POM152		chromosome 13	L000001464	13	527804	531817	W		2011-02-03	1996-07-31	Glycoprotein subunit of transmembrane ring of nuclear pore complex; contributes to nucleocytoplasmic transport, nuclear pore complex (NPC) biogenesis and spindle pole body duplication; homologous to human NUP210
-S000036687	CDS					YMR129W		13	527804	531817	W		2011-02-03	1996-07-31	
-S000004737	ORF	Uncharacterized	YMR130W			chromosome 13		13	532119	533027	W		2011-02-03	1996-07-31	Putative protein of unknown function; YMR130W is not an essential gene
-S000036551	CDS					YMR130W		13	532119	533027	W		2011-02-03	1996-07-31	
-S000004738	ORF	Verified	YMR131C	RRB1	ribosome biosynthesis protein RRB1	chromosome 13		13	534698	533163	C		2011-02-03	1996-07-31	Specific chaperone for ribosomal protein Rpl3p; binds to nascent Rpl3p during translation; essential gene
-S000036599	CDS					YMR131C		13	534698	533163	C		2011-02-03	1996-07-31	
-S000004739	ORF	Uncharacterized	YMR132C	JLP2		chromosome 13		13	535570	534944	C		2011-02-03	1996-07-31	Protein of unknown function; contains sequence that closely resembles a J domain (typified by the E. coli DnaJ protein)
-S000036706	CDS					YMR132C		13	535570	534944	C		2011-02-03	1996-07-31	
-S000118373	ARS		ARS1320		ARSXIII-536	chromosome 13		13	535597	535844			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178158	ARS_consensus_sequence					ARS1320		13	535770	535754	C		2014-11-18	2014-11-18	
-S000004740	ORF	Verified	YMR133W	REC114		chromosome 13	L000001607	13	536207	537609	W	91	2011-02-03	1999-07-17|1996-07-31	Protein involved in early stages of meiotic recombination; possibly involved in the coordination of recombination and meiotic division; mutations lead to premature initiation of the first meiotic division
-S000037485	CDS					YMR133W		13	536207	537448	W		2011-02-03	1999-07-17|1996-07-31	
-S000037486	CDS					YMR133W		13	537565	537609	W		2011-02-03	1999-07-17	
-S000037487	intron					YMR133W		13	537449	537564	W		2011-02-03	1999-07-17	
-S000004741	ORF	Verified	YMR134W	ERG29		chromosome 13		13	537838	538551	W		2011-02-03	1996-07-31	Protein of unknown function involved in ergosterol biosynthesis; conditional mutants produce less ergosterol, display impaired oxygen consumption, respiratory growth, mitochondrial iron utilization, and are more sensitive to oxidative stress; mutant bm-8 has a growth defect on iron-limited medium that is complemented by overexpression of Yfh1p; protein localizes to the cytoplasm, ER and nuclear envelope; highly conserved in ascomycetes
-S000037629	CDS					YMR134W		13	537838	538551	W		2011-02-03	1996-07-31	
-S000004743	ORF	Dubious	YMR135W-A			chromosome 13		13	539911	540444	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036832	CDS					YMR135W-A		13	539911	540444	W		2011-02-03	1996-07-31	
-S000004742	ORF	Verified	YMR135C	GID8	glucose-induced degradation complex subunit GID8|DCR1	chromosome 13		13	540056	538689	C		2011-02-03	1996-07-31	Subunit of GID Complex, binds strongly to central component Vid30p; GID Complex is involved in proteasome-dependent catabolite inactivation of fructose-1,6-bisphosphatase; recruits Rmd5p, Fyv10 and Vid28p to GID Complex; contains LisH, CTLH, and CRA domains that mediate binding to Vid30p (LisH) and Rmd5p and Vid28p (CTLH and CRA); dosage-dependent regulator of START
-S000030355	CDS					YMR135C		13	540056	538689	C		2011-02-03	1996-07-31	
-S000004744	ORF	Verified	YMR136W	GAT2		chromosome 13	S000007443	13	541199	542881	W		2011-02-03	1996-07-31	Protein containing GATA family zinc finger motifs; similar to Gln3p and Dal80p; expression repressed by leucine
-S000030544	CDS					YMR136W		13	541199	542881	W		2011-02-03	1996-07-31	
-S000130190	ARS		ARS1321			chromosome 13		13	542881	542978			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000004745	ORF	Verified	YMR137C	PSO2	SNM1	chromosome 13	L000001953	13	544963	542978	C		2011-02-03	1996-07-31	Nuclease required for DNA single- and double-strand break repair; acts at a post-incision step in repair of breaks that result from interstrand cross-links produced by a variety of mono- and bi-functional psoralen derivatives; induced by UV-irradiation; forms nuclear foci upon DNA replication stress
-S000030595	CDS					YMR137C		13	544963	542978	C		2011-02-03	1996-07-31	
-S000004746	ORF	Verified	YMR138W	CIN4	Arf family GTPase CIN4|UGX1|GTP1	chromosome 13	L000000338	13	545155	545730	W	86	2011-02-03	1996-07-31	GTP-binding protein involved in beta-tubulin (Tub2p) folding; isolated as mutant with increased chromosome loss and sensitivity to benomyl; regulated by the GTPase-activating protein, Cin2p, the human retinitis pigmentosa 2 (RP2) homolog
-S000031508	CDS					YMR138W		13	545155	545730	W		2011-02-03	1996-07-31	
-S000004747	ORF	Verified	YMR139W	RIM11	serine/threonine protein kinase RIM11|MDS1|GSK3	chromosome 13	L000001056	13	546125	547237	W		2011-02-03	1996-07-31	Protein kinase; required for signal transduction during entry into meiosis; promotes the formation of the Ime1p-Ume6p complex by phosphorylating Ime1p and Ume6p; shares similarity with mammalian glycogen synthase kinase 3-beta; protein abundance increases in response to DNA replication stress; RIM11 has a paralog, MRK1, that arose from the whole genome duplication
-S000031611	CDS					YMR139W		13	546125	547237	W		2011-02-03	1996-07-31	
-S000004748	ORF	Verified	YMR140W	SIP5		chromosome 13		13	547714	549183	W		2011-02-03	1996-07-31	Protein of unknown function; interacts with both the Reg1p/Glc7p phosphatase and the Snf1p kinase; forms cytoplasmic foci upon DNA replication stress
-S000031580	CDS					YMR140W		13	547714	549183	W		2011-02-03	1996-07-31	
-S000004749	ORF	Uncharacterized	YMR141C			chromosome 13		13	550044	549736	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR141C is not an essential gene
-S000031632	CDS					YMR141C		13	550044	549736	C		2011-02-03	1996-07-31	
-S000028575	ORF	Dubious	YMR141W-A			chromosome 13		13	550911	551135	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene RPL13B/YMR142C
-S000031304	CDS					YMR141W-A		13	550911	551135	W		2011-02-03	2003-07-29	
-S000004750	ORF	Verified	YMR142C	RPL13B	eL13|ribosomal 60S subunit protein L13B|L13e|L13B	chromosome 13	L000004455	13	551207	550206	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L13B; not essential for viability; homologous to mammalian ribosomal protein L13, no bacterial homolog; RPL13B has a paralog, RPL13A, that arose from the whole genome duplication
-S000032639	CDS					YMR142C		13	550801	550206	C		2011-02-03	1996-07-31	
-S000032638	CDS					YMR142C		13	551207	551204	C		2011-02-03	1996-07-31	
-S000032640	intron					YMR142C		13	551203	550802	C		2011-02-03	1996-07-31	
-S000004751	ORF	Verified	YMR143W	RPS16A	uS9|ribosomal 40S subunit protein S16A|S9|rp61R|S16A	chromosome 13	L000004477	13	551928	552903	W		2011-02-03	2000-07-22|1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S16 and bacterial S9; RPS16A has a paralog, RPS16B, that arose from the whole genome duplication
-S000032779	CDS					YMR143W		13	551928	551951	W		2011-02-03	2000-07-22|1996-07-31	
-S000032780	CDS					YMR143W		13	552496	552903	W		2011-02-03	1996-07-31	
-S000032781	intron					YMR143W		13	551952	552495	W		2011-02-03	2000-07-22|1996-07-31	
-S000004752	ORF	Uncharacterized	YMR144W	FDO1		chromosome 13		13	553362	554390	W		2011-02-03	1996-07-31	Protein involved in directionality of mating type switching; acts with Fkh1p to control which donor mating-type locus is inserted into MAT locus during mating type switching; localized to the nucleus; not an essential gene
-S000033505	CDS					YMR144W		13	553362	554390	W		2011-02-03	1996-07-31	
-S000130191	ARS		ARS1322			chromosome 13		13	553422	554331			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000004753	ORF	Verified	YMR145C	NDE1	NADH-ubiquinone reductase (H(+)-translocating) NDE1|NDH1	chromosome 13		13	556475	554793	C		2011-02-03	1996-07-31	Mitochondrial external NADH dehydrogenase; type II NAD(P)H:quinone oxidoreductase that catalyzes the oxidation of cytosolic NADH; Nde1p and Nde2p provide cytosolic NADH to the mitochondrial respiratory chain; NDE1 has a paralog, NDE2, that arose from the whole genome duplication
-S000033554	CDS					YMR145C		13	556475	554793	C		2011-02-03	1996-07-31	
-S000004754	ORF	Verified	YMR146C	TIF34	translation initiation factor eIF3 subunit i	chromosome 13	L000003329	13	558524	557481	C		2011-02-03	1996-07-31	eIF3i subunit of the eukaryotic translation initiation factor 3 (eIF3); subunit of the core complex of eIF3; essential for translation; stimulates rate of ribosomal scanning during translation reinitiation; eIF3 is also involved in programmed stop codon readthrough
-S000033644	CDS					YMR146C		13	558524	557481	C		2011-02-03	1996-07-31	
-S000004755	ORF	Uncharacterized	YMR147W			chromosome 13		13	559199	559870	W		2011-02-03	1996-07-31	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cell periphery
-S000033833	CDS					YMR147W		13	559199	559870	W		2011-02-03	1996-07-31	
-S000004756	ORF	Verified	YMR148W	OSW5		chromosome 13		13	560366	560812	W		2011-02-03	1996-07-31	Protein of unknown function with possible role in spore wall assembly; predicted to contain an N-terminal transmembrane domain; osw5 null mutant spores exhibit increased spore wall permeability and sensitivity to beta-glucanase digestion
-S000034741	CDS					YMR148W		13	560366	560812	W		2011-02-03	1996-07-31	
-S000004757	ORF	Verified	YMR149W	SWP1	dolichyl-diphosphooligosaccharide-protein glycotransferase	chromosome 13	L000002255	13	560996	561856	W		2011-02-03	1996-07-31	Delta subunit of the oligosaccharyl transferase glycoprotein complex; complex is required for N-linked glycosylation of proteins in the endoplasmic reticulum
-S000034875	CDS					YMR149W		13	560996	561856	W		2011-02-03	1996-07-31	
-S000004759	ORF	Dubious	YMR151W	YIM2		chromosome 13	L000002672	13	562506	562943	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 5% of ORF overlaps the verified gene IMP1
-S000036792	CDS					YMR151W		13	562506	562943	W		2011-02-03	1996-07-31	
-S000004758	ORF	Verified	YMR150C	IMP1	endopeptidase catalytic subunit IMP1|PET-TS2858	chromosome 13	L000000864	13	562528	561956	C	92	2011-02-03	1996-07-31	Catalytic subunit of mitochondrial inner membrane peptidase complex; required for maturation of mitochondrial proteins of the intermembrane space; complex contains two catalytic subunits (Imp1p and Imp2p that differ in substrate specificty) and Som1p
-S000035827	CDS					YMR150C		13	562528	561956	C		2011-02-03	1996-07-31	
-S000004760	ORF	Verified	YMR152W	YIM1		chromosome 13	L000002671	13	563096	564193	W		2011-02-03	1996-07-31	Protein of unknown function; null mutant displays sensitivity to DNA damaging agents; may have a role in lipid metabolism, based on localization to lipid droplets; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress
-S000036879	CDS					YMR152W		13	563096	564193	W		2011-02-03	1996-07-31	
-S000004762	ORF	Verified	YMR153W	NUP53	FG-nucleoporin NUP53	chromosome 13		13	564435	565862	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of nuclear pore complex (NPC); also part of the NPC nuclear basket; contributes directly to nucleocytoplasmic transport; involved in regulation of transcription and mitosis; induces membrane tubulation, which may contribute to nuclear pore assembly; NUP53 has a paralog, ASM4, that arose from the whole genome duplication
-S000036930	CDS					YMR153W		13	564435	565862	W		2011-02-03	1996-07-31	
-S000004761	ORF	Dubious	YMR153C-A			chromosome 13		13	565909	565574	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps 3' end of verified gene NUP53/YMR153W
-S000036598	CDS					YMR153C-A		13	565909	565574	C		2011-02-03	1996-07-31	
-S000004763	ORF	Verified	YMR154C	RIM13	CPL1	chromosome 13	L000004172	13	568182	565999	C		2011-02-03	1996-07-31	Calpain-like cysteine protease; involved in proteolytic activation of Rim101p in response to alkaline pH; localizes to punctate structures in alkaline conditions and in vps4 mutant; has similarity to A. nidulans palB
-S000036955	CDS					YMR154C		13	568182	565999	C		2011-02-03	1996-07-31	
-S000004764	ORF	Uncharacterized	YMR155W			chromosome 13		13	568551	570194	W		2011-02-03	1996-07-31	Putative protein of unknown function; identified as interacting with Hsp82p in a high-throughput two-hybrid screen
-S000037749	CDS					YMR155W		13	568551	570194	W		2011-02-03	1996-07-31	
-S000004765	ORF	Verified	YMR156C	TPP1	polynucleotide 3'-phosphatase	chromosome 13		13	571016	570300	C		2011-02-03	1996-07-31	DNA 3'-phosphatase; functions in repair of endogenous damage of double-stranded DNA, activity is specific for removal of 3' phosphates at strand breaks; similar to the l-2-haloacid dehalogenase superfamily; homolog of human polynucleotide kinase/3'-phosphatase
-S000037789	CDS					YMR156C		13	571016	570300	C		2011-02-03	1996-07-31	
-S000004766	ORF	Verified	YMR157C	AIM36	FMP39	chromosome 13		13	572044	571277	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant displays reduced respiratory growth and elevated frequency of mitochondrial genome loss; the authentic, non-tagged protein is detected in purified mitochondria in high-throughput studies
-S000037876	CDS					YMR157C		13	572044	571277	C		2011-02-03	1996-07-31	
-S000004767	ORF	Verified	YMR158W	MRPS8	mitochondrial 37S ribosomal protein MRPS8	chromosome 13		13	572248	572715	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000030873	CDS					YMR158W		13	572248	572715	W		2011-02-03	1996-07-31	
-S000006664	tRNA_gene		tM(CAU)M	EMT4		chromosome 13	L000003677|L000000554	13	572955	572883	C		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
-S000034574	noncoding_exon					tM(CAU)M		13	572955	572883	C		2011-02-03	2000-05-19	
-S000007249	ORF	Uncharacterized	YMR158C-A		YMR158C-B	chromosome 13		13	573331	573194	C		2011-02-03	1997-07-17	Putative protein of unknown function; may contain a lipid attachment site; YMR158C-A is not an essential gene
-S000030986	CDS					YMR158C-A		13	573331	573194	C		2011-02-03	1997-07-17	
-S000007116	long_terminal_repeat		YMRCdelta18			chromosome 13		13	573338	573112	C		2011-02-03	2000-05-19	Ty1 LTR
-S000004768	ORF	Dubious	YMR158W-B		YMR158W-A	chromosome 13		13	574471	574791	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene ATG16/YMR159C
-S000034209	CDS					YMR158W-B		13	574471	574791	W		2011-02-03	1996-07-31	
-S000004769	ORF	Verified	YMR159C	ATG16	APG15|APG16|CVT11|SAP18	chromosome 13	L000004135|L000004762|S000029036|L000004787	13	574928	574476	C		2011-02-03	1996-07-31	Conserved protein involved in autophagy; interacts with Atg12p-Atg5p conjugates to form Atg12p-Atg5p-Atg16p multimers, which binds to membranes and localizes to the pre-autophagosomal structure and are required for autophagy; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
-S000030904	CDS					YMR159C		13	574928	574476	C		2011-02-03	1996-07-31	
-S000004770	ORF	Verified	YMR160W			chromosome 13		13	575066	577516	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the membrane of the vacuole; mutant has enhanced sensitivity to overexpression of mutant huntingtin; YMR160W is not an essential gene; relative distribution within the vacuolar membrane changes upon DNA replication stress
-S000032016	CDS					YMR160W		13	575066	577516	W		2011-02-03	1996-07-31	
-S000004771	ORF	Verified	YMR161W	HLJ1	type I HSP40 co-chaperone HLJ1	chromosome 13	L000002962	13	577718	578392	W		2011-02-03	1996-07-31	Co-chaperone for Hsp40p; anchored in the ER membrane; with its homolog Ydj1p promotes ER-associated protein degradation (ERAD) of integral membrane substrates; similar to E. coli DnaJ
-S000032125	CDS					YMR161W		13	577718	578392	W		2011-02-03	1996-07-31	
-S000004772	ORF	Verified	YMR162C	DNF3	aminophospholipid-translocating P4-type ATPase DNF3	chromosome 13		13	583921	578951	C		2011-02-03	1996-07-31	Trans-golgi network aminophospholipid translocase (flippase); type 4 P-type ATPase; involved in phospholipid translocation, contributing to the maintenance of membrane lipid asymmetry in post-Golgi secretory vesicles; role in protein trafficking between the Golgi and endosomal system; localizes to the trans-Golgi network; localizes to the shmoo tip where it has a redundant role in the cellular response to mating pheromone
-S000032992	CDS					YMR162C		13	583921	578951	C		2011-02-03	1996-07-31	
-S000004773	ORF	Verified	YMR163C	INP2		chromosome 13		13	586388	584271	C		2011-02-03	1996-07-31	Peroxisome-specific receptor important for peroxisome inheritance; co-fractionates with peroxisome membranes and co-localizes with peroxisomes in vivo; physically interacts with the myosin V motor Myo2p; INP2 is not an essential gene
-S000033087	CDS					YMR163C		13	586388	584271	C		2011-02-03	1996-07-31	
-S000006765	tRNA_gene		tV(AAC)M3			chromosome 13	L000003676	13	586709	586636	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000030039	noncoding_exon					tV(AAC)M3		13	586709	586636	C		2011-02-03	2000-05-19	
-S000004774	ORF	Verified	YMR164C	MSS11		chromosome 13	L000003920	13	589550	587274	C		2011-02-03	1996-07-31	Transcription factor; involved in regulation of invasive growth and starch degradation; controls the activation of FLO11 and STA2 in response to nutritional signals; forms a heterodimer with Flo8p that interacts with the Swi/Snf complex during transcriptional activation of FLO1, FLO11, and STA1
-S000033162	CDS					YMR164C		13	589550	587274	C		2011-02-03	1996-07-31	
-S000004775	ORF	Verified	YMR165C	PAH1	phosphatidate phosphatase PAH1|SMP2	chromosome 13	L000001934	13	592628	590040	C		2011-02-03	1996-07-31	Mg2+-dependent phosphatidate (PA) phosphatase; dephosphorylates PA to yield diacylglycerol; regulates phospholipid synthesis, nuclear/ER membrane growth, lipid droplet formation, triacylglycerol synthesis, vacuolar homeostasis and cell wall integrity; phosphorylated by Pho85p/Pho80p, Cdc28p/Cyclin B, PKA, PKC, and CKII, regulating activity, localization, and proteosomal degradation; homolog of mammalian lipins 1 and 2; human homologs LPIN1, LPIN2, LPIN3 complement the null
-S000033959	CDS					YMR165C		13	592628	590040	C		2011-02-03	1996-07-31	
-S000004776	ORF	Verified	YMR166C	MME1		chromosome 13		13	594473	593367	C		2011-02-03	1996-07-31	Transporter of the mitochondrial inner membrane that exports magnesium; involved in mitochondrial Mg2+ homeostasis; has similarity to human mitochondrial ATP-Mg/Pi carriers
-S000034071	CDS					YMR166C		13	594473	593367	C		2011-02-03	1996-07-31	
-S000004777	ORF	Verified	YMR167W	MLH1	mismatch repair ATPase MLH1|PMS2	chromosome 13	L000001121	13	594886	597195	W		2011-02-03	1996-07-31	Protein required for mismatch repair in mitosis and meiosis; also required for crossing over during meiosis; forms a complex with Pms1p and Msh2p-Msh3p during mismatch repair; human homolog is associated with hereditary non-polyposis colon cancer
-S000034230	CDS					YMR167W		13	594886	597195	W		2011-02-03	1996-07-31	
-S000004778	ORF	Verified	YMR168C	CEP3	CSL1|CBF3B|CBF3	chromosome 13	L000000312|L000000222	13	599158	597332	C		2011-02-03	1996-07-31	Essential kinetochore protein; component of the CBF3 complex that binds the CDEIII region of the centromere; contains an N-terminal Zn2Cys6 type zinc finger domain, a C-terminal acidic domain, and a putative coiled coil dimerization domain
-S000035106	CDS					YMR168C		13	599158	597332	C		2011-02-03	1996-07-31	
-S000004779	ORF	Verified	YMR169C	ALD3	aldehyde dehydrogenase (NAD(+)) ALD3	chromosome 13	L000002992	13	600872	599352	C		2011-02-03	1996-07-31	Cytoplasmic aldehyde dehydrogenase; involved in beta-alanine synthesis; uses NAD+ as the preferred coenzyme; very similar to Ald2p; expression is induced by stress and repressed by glucose
-S000035214	CDS					YMR169C		13	600872	599352	C		2011-02-03	1996-07-31	
-S000004780	ORF	Verified	YMR170C	ALD2	aldehyde dehydrogenase (NAD(+)) ALD2	chromosome 13	L000003120|L000002991	13	603082	601562	C		2011-02-03	1996-07-31	Cytoplasmic aldehyde dehydrogenase; involved in ethanol oxidation and beta-alanine biosynthesis; uses NAD+ as the preferred coenzyme; expression is stress induced and glucose repressed; very similar to Ald3p
-S000036140	CDS					YMR170C		13	603082	601562	C		2011-02-03	1996-07-31	
-S000004781	ORF	Verified	YMR171C	EAR1		chromosome 13		13	605520	603868	C		2011-02-03	1996-07-31	Specificity factor required for Rsp5p-dependent ubiquitination; also required for sorting of specific cargo proteins at the multivesicular body; mRNA is targeted to the bud via the mRNA transport system involving She2p
-S000036240	CDS					YMR171C		13	605520	603868	C		2011-02-03	1996-07-31	
-S000004783	ORF	Verified	YMR172W	HOT1		chromosome 13	L000004957	13	605981	608140	W		2011-02-03	1996-07-31	Transcription factor for glycerol biosynthetic genes; required for the transient induction of glycerol biosynthetic genes GPD1 and GPP2 in response to high osmolarity; targets Hog1p to osmostress responsive promoters; has similarity to Msn1p and Gcr1p
-S000031822	CDS					YMR172W		13	605981	608140	W		2011-02-03	1996-07-31	
-S000004782	ORF	Dubious	YMR172C-A			chromosome 13		13	608211	607828	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps 3' end of ORF HOT1/YMR172W
-S000034962	CDS					YMR172C-A		13	608211	607828	C		2011-02-03	1996-07-31	
-S000004784	ORF	Verified	YMR173W	DDR48	DNA damage-responsive protein 48|FSP	chromosome 13	L000000498	13	608689	609981	W		2011-02-03	1996-07-31	DNA damage-responsive protein; expression is increased in response to heat-shock stress or treatments that produce DNA lesions; contains multiple repeats of the amino acid sequence NNNDSYGS; protein abundance increases in response to DNA replication stress
-S000031955	CDS					YMR173W		13	608689	609981	W		2011-02-03	1996-07-31	
-S000004785	ORF	Dubious	YMR173W-A			chromosome 13		13	608897	610081	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene DDR48/YML173W
-S000030427	CDS					YMR173W-A		13	608897	610081	W		2011-02-03	1996-07-31	
-S000004786	ORF	Verified	YMR174C	PAI3	IA3	chromosome 13	L000001332	13	610365	610159	C		2011-02-03	1996-07-31	Cytoplasmic proteinase A (Pep4p) inhibitor; dependent on Pbs2p and Hog1p protein kinases for osmotic induction; intrinsically unstructured, N-terminal half becomes ordered in the active site of proteinase A upon contact
-S000031994	CDS					YMR174C		13	610365	610159	C		2011-02-03	1996-07-31	
-S000004787	ORF	Verified	YMR175W	SIP18		chromosome 13	L000002670	13	611016	611255	W		2011-02-03	1996-07-31	Phospholipid-binding hydrophilin; essential to overcome desiccation-rehydration process; expression is induced by osmotic stress; SIP18 has a paralog, GRE1, that arose from the whole genome duplication
-S000037525	CDS					YMR175W		13	611016	611255	W		2011-02-03	1996-07-31	
-S000118374	ARS		ARS1323		ARSXIII-611	chromosome 13		13	611275	611489			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178159	ARS_consensus_sequence					ARS1323		13	611317	611333	W		2014-11-18	2014-11-18	
-S000028848	ORF	Uncharacterized	YMR175W-A			chromosome 13		13	611314	611508	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000034535	CDS					YMR175W-A		13	611314	611508	W		2011-02-03	2003-07-29	
-S000004788	ORF	Verified	YMR176W	ECM5		chromosome 13	L000003881	13	611740	615975	W		2011-02-03	1996-07-31	Subunit of the Snt2C complex; physically associates with Snt2p and Rpd3p; along with Snt2p, recruits Rpd3p to a small number of promoters; also colocalizes with Snt2p, independently of Rpd3p, to promoters of stress response genes in response to oxidative stress; contains ATP/GTP-binding site motif A; null mutant exhibits increased cellular volume, large drooping buds with elongated necks; relative distribution to the nucleus increases upon DNA replication stress
-S000037587	CDS					YMR176W		13	611740	615975	W		2011-02-03	1996-07-31	
-S000004789	ORF	Verified	YMR177W	MMT1	MFT1	chromosome 13	L000004107	13	616566	618098	W		2011-02-03	1996-07-31	Putative metal transporter involved in mitochondrial iron accumulation; MMT1 has a paralog, MMT2, that arose from the whole genome duplication
-S000037682	CDS					YMR177W		13	616566	618098	W		2011-02-03	1996-07-31	
-S000004790	ORF	Verified	YMR178W			chromosome 13		13	618479	619303	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and nucleus; YMR178W is not an essential gene; protein abundance increases in response to DNA replication stress
-S000030501	CDS					YMR178W		13	618479	619303	W		2011-02-03	1996-07-31	
-S000004791	ORF	Verified	YMR179W	SPT21		chromosome 13	L000002040	13	619858	622134	W		2011-02-03	1996-07-31	Protein with a role in transcriptional silencing; required for normal transcription at several loci including HTA2-HTB2 and HHF2-HHT2, but not required at the other histone loci; functionally related to Spt10p; localizes to nuclear foci that become diffuse upon DNA replication stress
-S000030565	CDS					YMR179W		13	619858	622134	W		2011-02-03	1996-07-31	
-S000004792	ORF	Verified	YMR180C	CTL1	polynucleotide 5'-phosphatase|CTH1	chromosome 13	S000007412	13	623213	622251	C		2011-02-03	1996-07-31	RNA 5'-triphosphatase, localizes to both the nucleus and cytoplasm; CTL1 has a paralog, CET1, that arose from the whole genome duplication
-S000037398	CDS					YMR180C		13	623213	622251	C		2011-02-03	1996-07-31	
-S000004793	ORF	Uncharacterized	YMR181C			chromosome 13		13	624080	623616	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA transcribed as part of a bicistronic transcript with a predicted transcriptional repressor RGM1/YMR182C; mRNA is destroyed by nonsense-mediated decay (NMD); not an essential gene; YMR181C has a paralog, YPL229W, that arose from the whole genome duplication
-S000030034	CDS					YMR181C		13	624080	623616	C		2011-02-03	1996-07-31	
-S000004794	ORF	Verified	YMR182C	RGM1		chromosome 13	L000001627	13	625167	624532	C		2011-02-03	1996-07-31	Putative zinc finger DNA binding transcription factor; contains two N-terminal C2H2 zinc fingers and C-terminal proline rich domain; overproduction impairs cell growth and induces expression of genes involved in monosaccharide catabolism and aldehyde metabolism; regulates expression of of Y' telomeric elements and subtelomeric COS genes; relocalizes to the cytosol in response to hypoxia; RGM1 has a paralog, USV1, that arose from the whole genome duplication
-S000030142	CDS					YMR182C		13	625167	624532	C		2011-02-03	1996-07-31	
-S000028693	ORF	Uncharacterized	YMR182W-A			chromosome 13		13	625811	625897	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000032593	CDS					YMR182W-A		13	625811	625897	W		2011-02-03	2003-07-29	
-S000028468	snoRNA_gene		snR83	SNR83	RUF3	chromosome 13		13	626349	626654	W		2011-02-03	2004-04-01	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of small subunit (SSU) rRNA at positions U1290 and U1415
-S000030105	noncoding_exon					snR83		13	626349	626654	W		2011-02-03	2004-04-01	
-S000004795	ORF	Verified	YMR183C	SSO2	syntaxin	chromosome 13	L000002090	13	627808	626921	C		2011-02-03	1996-07-31	Plasma membrane t-SNARE; involved in fusion of secretory vesicles at the plasma membrane; syntaxin homolog that is functionally redundant with Sso1p; SSO2 has a paralog, SSO1, that arose from the whole genome duplication
-S000030342	CDS					YMR183C		13	627808	626921	C		2011-02-03	1996-07-31	
-S000004796	ORF	Verified	YMR184W	ADD37		chromosome 13		13	628189	628785	W		2011-02-03	1996-07-31	Protein of unknown function; involved in ER-associated protein degradation; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and is induced in response to the DNA-damaging agent MMS; YMR184W is not an essential gene; protein abundance increases in response to DNA replication stress
-S000033702	CDS					YMR184W		13	628189	628785	W		2011-02-03	1996-07-31	
-S000004797	ORF	Verified	YMR185W	RTP1		chromosome 13		13	629025	631970	W		2011-02-03	1996-07-31	Protein required for the nuclear import and biogenesis of RNA pol II; conflicting evidence on whether null mutant is viable with elongated buds, or inviable; interacts with Rpb2, Rpb3, Nup116p, Nup100p and components of the R2TP complex (Rvb1p, Rvb2p, Pih1p); similar to human TMCO7 gene
-S000033842	CDS					YMR185W		13	629025	631970	W		2011-02-03	1996-07-31	
-S000004798	ORF	Verified	YMR186W	HSC82	Hsp90 family chaperone HSC82|HSP90	chromosome 13	L000000813	13	632355	634472	W		2011-02-03	1996-07-31	Cytoplasmic chaperone of the Hsp90 family; plays a role in determining prion variants; redundant in function and nearly identical with Hsp82p, and together they are essential; expressed constitutively at 10-fold higher basal levels than HSP82 and induced 2-3 fold by heat shock; contains two acid-rich unstructured regions that promote the solubility of chaperone-substrate complexes; HSC82 has a paralog, HSP82, that arose from the whole genome duplication
-S000033979	CDS					YMR186W		13	632355	634472	W		2011-02-03	1996-07-31	
-S000118375	ARS		ARS1324		ARSXIII-635	chromosome 13		13	634501	634588			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000004799	ORF	Uncharacterized	YMR187C			chromosome 13		13	635984	634689	C		2011-02-03	1996-07-31	Putative protein of unknown function; YMR187C is not an essential gene
-S000033992	CDS					YMR187C		13	635984	634689	C		2011-02-03	1996-07-31	
-S000004800	ORF	Verified	YMR188C	MRPS17	mitochondrial 37S ribosomal protein MRPS17	chromosome 13		13	637004	636291	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000034878	CDS					YMR188C		13	637004	636291	C		2011-02-03	1996-07-31	
-S000004801	ORF	Verified	YMR189W	GCV2	glycine decarboxylase subunit P|GSD2	chromosome 13	L000000734	13	637500	640604	W		2011-02-03	1996-07-31	P subunit of the mitochondrial glycine decarboxylase complex; glycine decarboxylase is required for the catabolism of glycine to 5,10-methylene-THF; expression is regulated by levels of 5,10-methylene-THF in the cytoplasm
-S000035091	CDS					YMR189W		13	637500	640604	W		2011-02-03	1996-07-31	
-S000004802	ORF	Verified	YMR190C	SGS1	ATP-dependent DNA helicase SGS1	chromosome 13	L000001877	13	645258	640915	C	115.6	2011-02-03	1996-07-31	RecQ family nucleolar DNA helicase; role in genome integrity maintenance, chromosome synapsis, meiotic joint molecule/crossover formation; stimulates activity of Top3p; rapidly lost in response to rapamycin in Rrd1p-dependent manner; forms nuclear foci upon DNA replication stress; yeast SGS1 complements mutations in human homolog BLM implicated in Bloom syndrome; also similar to human WRN implicated in Werner syndrome; human BLM and WRN can each complement yeast null mutant
-S000034467	CDS					YMR190C		13	645258	640915	C		2011-02-03	1996-07-31	
-S000004803	ORF	Verified	YMR191W	SPG5		chromosome 13		13	645656	646777	W		2011-02-03	2003-09-22|1996-07-31	Protein required for proteasome assembly during quiescence; binds to base of the proteasome regulartory particle; required for survival at high temperature during stationary phase; not required for growth on nonfermentable carbon sources
-S000034638	CDS					YMR191W		13	645656	646777	W		2011-02-03	2003-09-22|1996-07-31	
-S000004804	ORF	Verified	YMR192W	GYL1	APP2	chromosome 13		13	647118	649280	W		2011-02-03	1996-07-31	Putative GTPase activating protein (GAP) with a role in exocytosis; stimulates Gyp5p GAP activity on Ypt1p, colocalizes with Gyp5p at sites of polarized growth; interacts with Gyp5p, Rvs161p, and Rvs167p; involved in recruiting Rvs167p to the bud tip during polarized growth; increases in abundance and relocalizes from bud neck to cytoplasm upon DNA replication stress; GYL1 has a paralog, GYP5, that arose from the whole genome duplication
-S000034769	CDS					YMR192W		13	647118	649280	W		2011-02-03	1996-07-31	
-S000118376	ARS		ARS1325		ARSXIII-649	chromosome 13		13	649309	649552			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178160	ARS_consensus_sequence					ARS1325		13	649361	649377	W		2014-11-18	2014-11-18	
-S000004806	ORF	Verified	YMR193W	MRPL24	mitochondrial 54S ribosomal protein YmL24/YmL14|YmL14|YmL24|MRPL14	chromosome 13	L000002690	13	650036	650812	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; two mitochondrial ribosomal proteins, YmL14 and YmL24, have been assigned to the same gene
-S000035736	CDS					YMR193W		13	650036	650812	W		2011-02-03	1996-07-31	
-S000004807	ORF	Verified	YMR194W	RPL36A	eL36|ribosomal 60S subunit protein L36A|L36e|YL39|L39|L36A|RPL39B	chromosome 13	L000004467|L000003236	13	651145	651910	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L36A; N-terminally acetylated; binds to 5.8 S rRNA; homologous to mammalian ribosomal protein L36, no bacterial homolog; RPL36A has a paralog, RPL36B, that arose from the whole genome duplication
-S000035869	CDS					YMR194W		13	651145	651160	W		2011-02-03	1996-07-31	
-S000035870	CDS					YMR194W		13	651624	651910	W		2011-02-03	1996-07-31	
-S000035871	intron					YMR194W		13	651161	651623	W		2011-02-03	1996-07-31	
-S000004805	ORF	Dubious	YMR193C-A			chromosome 13		13	651458	651072	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035259	CDS					YMR193C-A		13	651458	651072	C		2011-02-03	1996-07-31	
-S000007293	snoRNA_gene		snR11	SNR11		chromosome 13	L000004943|L000002848	13	652275	652532	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2416
-S000036590	noncoding_exon					snR11		13	652275	652532	W		2011-02-03	2000-05-19	
-S000028514	ORF	Verified	YMR194C-B	CMC4		chromosome 13		13	652887	652594	C		2011-02-03	2003-07-29	Protein that localizes to the mitochondrial intermembrane space; localizes via the Mia40p-Erv1p system; contains twin cysteine-x(9)-cysteine motifs
-S000030281	CDS					YMR194C-B		13	652775	652594	C		2011-02-03	2003-07-29	
-S000030280	CDS					YMR194C-B		13	652887	652848	C		2011-02-03	2003-07-29	
-S000030282	intron					YMR194C-B		13	652847	652776	C		2011-02-03	2003-07-29	
-S000007250	ORF	Dubious	YMR194C-A			chromosome 13		13	653136	652912	C		2011-02-03	1997-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037816	CDS					YMR194C-A		13	653136	652912	C		2011-02-03	1997-07-17	
-S000004808	ORF	Verified	YMR195W	ICY1		chromosome 13	S000007527	13	654034	654417	W		2011-02-03	1996-07-31	Protein of unknown function; required for viability in rich media of cells lacking mitochondrial DNA; mutants have an invasive growth defect with elongated morphology; induced by amino acid starvation; ICY1 has a paralog, ICY2, that arose from the whole genome duplication
-S000036003	CDS					YMR195W		13	654034	654417	W		2011-02-03	1996-07-31	
-S000004809	ORF	Uncharacterized	YMR196W			chromosome 13		13	655076	658342	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YMR196W is not an essential gene
-S000037847	CDS					YMR196W		13	655076	658342	W		2011-02-03	1996-07-31	
-S000004810	ORF	Verified	YMR197C	VTI1	v-SNARE protein VTI1	chromosome 13	L000003598	13	659198	658545	C		2011-02-03	1996-07-31	Protein involved in cis-Golgi membrane traffic; v-SNARE that interacts with two t-SNARES, Sed5p and Pep12p; required for multiple vacuolar sorting pathways; human homolog VTI1A can complement yeast null mutant
-S000037881	CDS					YMR197C		13	659198	658545	C		2011-02-03	1996-07-31	
-S000004811	ORF	Verified	YMR198W	CIK1		chromosome 13	L000000335	13	659745	661529	W		2011-02-03	1996-07-31	Kinesin-associated protein; required for both karyogamy and mitotic spindle organization, interacts stably and specifically with Kar3p and may function to target this kinesin to a specific cellular role; locus encodes a long and short transcript with differing functions; CIK1 has a paralog, VIK1, that arose from the whole genome duplication
-S000029971	CDS					YMR198W		13	659745	661529	W		2011-02-03	1996-07-31	
-S000004812	ORF	Verified	YMR199W	CLN1	cyclin CLN1	chromosome 13	L000000357	13	662644	664284	W		2011-02-03	1996-07-31	G1 cyclin involved in regulation of the cell cycle; activates Cdc28p kinase to promote the G1 to S phase transition; late G1 specific expression depends on transcription factor complexes, MBF (Swi6p-Mbp1p) and SBF (Swi6p-Swi4p); CLN1 has a paralog, CLN2, that arose from the whole genome duplication; cell cycle arrest phenotype of the cln1 cln2 cln3 triple null mutant is complemented by any of human cyclins CCNA2, CCNB1, CCNC, CCND1, or CCNE1
-S000030961	CDS					YMR199W		13	662644	664284	W		2011-02-03	1996-07-31	
-S000004813	ORF	Verified	YMR200W	ROT1		chromosome 13	L000003404	13	664752	665522	W		2011-02-03	1996-07-31	Molecular chaperone involved in protein folding in ER; mutation causes defects in cell wall synthesis and lysis of autophagic bodies, suppresses tor2 mutations, and is synthetically lethal with kar2-1 and with rot2 mutations; involved in N-linked glycosylation and O-mannosylation; transmembrane helix Ser250 is essential for Rot1p to interact with other membrane components and exert its functional role, avoiding exposure of Ser H-bonding group at lipid-exposed surface
-S000035501	CDS					YMR200W		13	664752	665522	W		2011-02-03	1996-07-31	
-S000004814	ORF	Verified	YMR201C	RAD14		chromosome 13	L000001564	13	667044	665845	C		2011-02-03	1996-07-31	Protein that recognizes and binds damaged DNA during NER; subunit of Nucleotide Excision Repair Factor 1 (NEF1); contains zinc finger motif; homolog of human XPA protein; NER stands for nucleotide excision repair
-S000035530	CDS					YMR201C		13	666933	665845	C		2011-02-03	1996-07-31	
-S000035529	CDS					YMR201C		13	667044	667018	C		2011-02-03	1996-07-31	
-S000035531	intron					YMR201C		13	667017	666934	C		2011-02-03	1996-07-31	
-S000178149	matrix_attachment_site		ETC5	ETC5		chromosome 13		13	667324	667346	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; located within ncRNA RNA170 which lies between divergently transcribed genes RAD14 and ERG2
-S000114171	ncRNA_gene		RNA170	RNA170		chromosome 13	S000077076	13	667456	667288	C		2011-02-03	2006-01-23	RNA polymerase III transcribed RNA of unknown function; conserved in other yeast species
-S000114172	noncoding_exon					RNA170		13	667456	667288	C		2011-02-03	2006-01-23	
-S000004815	ORF	Verified	YMR202W	ERG2	C-8 sterol isomerase ERG2|END11	chromosome 13	L000000569|L000004560	13	667537	668205	W		2011-02-03	1996-07-31	C-8 sterol isomerase; catalyzes isomerization of delta-8 double bond to delta-7 position at an intermediate step in ergosterol biosynthesis; transcriptionally down-regulated when ergosterol is in excess; mutation is functionally complemented by human EBP
-S000036484	CDS					YMR202W		13	667537	668205	W		2011-02-03	1996-07-31	
-S000004816	ORF	Verified	YMR203W	TOM40	MOM38|ISP42	chromosome 13	L000000878	13	668492	669655	W		2011-02-03	1996-07-31	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import steps for all mitochondrially directed proteins; constitutes the core element of the protein conducting pore; pre-Tom40p is phosphorylated by PKA, which impairs its import into mitochondria under non-respiratory conditions
-S000036557	CDS					YMR203W		13	668492	669655	W		2011-02-03	1996-07-31	
-S000004817	ORF	Verified	YMR204C	INP1		chromosome 13		13	671325	670063	C		2011-02-03	1996-07-31	Peripheral membrane protein of peroxisomes; involved in peroxisomal inheritance; recruitment to peroxisomes is mediated by interaction with Pex3p at the peroxisomal membrane
-S000036611	CDS					YMR204C		13	671325	670063	C		2011-02-03	1996-07-31	
-S000004818	ORF	Verified	YMR205C	PFK2	6-phosphofructokinase subunit beta	chromosome 13	L000001405	13	674766	671887	C	132	2011-02-03	1996-07-31	Beta subunit of heterooctameric phosphofructokinase; involved in glycolysis; indispensable for anaerobic growth; activated by fructose-2,6-bisphosphate and AMP; mutation inhibits glucose induction of cell cycle-related genes
-S000036708	CDS					YMR205C		13	674766	671887	C		2011-02-03	1996-07-31	
-S000004819	ORF	Uncharacterized	YMR206W			chromosome 13		13	675896	676837	W		2011-02-03	1996-07-31	Putative protein of unknown function; not an essential gene; YMR206W has a paralog, YNR014W, that arose from the whole genome duplication
-S000037504	CDS					YMR206W		13	675896	676837	W		2011-02-03	1996-07-31	
-S000004820	ORF	Verified	YMR207C	HFA1	acetyl-CoA carboxylase HFA1	chromosome 13	L000000769	13	683564	677193	C		2011-02-03	1996-07-31	Mitochondrial acetyl-coenzyme A carboxylase; catalyzes production of malonyl-CoA in mitochondrial fatty acid biosynthesis; relocalizes from mitochondrion to cytoplasm upon DNA replication stress; genetic and comparative analysis suggests that translation begins at a non-canonical (Ile) start codon at -372 relative to the annotated start codon
-S000037547	CDS					YMR207C		13	683564	677193	C		2011-02-03	1996-07-31	
-S000004821	ORF	Verified	YMR208W	ERG12	mevalonate kinase|RAR1	chromosome 13	L000000578	13	684467	685798	W	176	2011-02-03	1996-07-31	Mevalonate kinase; acts in the biosynthesis of isoprenoids and sterols, including ergosterol, from mevalonate; human MVK functionally complements the lethality of the erg12 null mutation
-S000030406	CDS					YMR208W		13	684467	685798	W		2011-02-03	1996-07-31	
-S000004822	ORF	Uncharacterized	YMR209C			chromosome 13		13	687284	685911	C		2011-02-03	1996-07-31	Putative S-adenosylmethionine-dependent methyltransferase; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; YMR209C is not an essential gene
-S000030480	CDS					YMR209C		13	687284	685911	C		2011-02-03	1996-07-31	
-S000004823	ORF	Verified	YMR210W	MGL2	putative carboxylic ester hydrolase	chromosome 13		13	687516	688865	W		2011-02-03	1996-07-31	Monoacylglycerol lipase; palmitoyl monoacylglycerol is the preferred substrate; role in triacylglycerol catabolism; minor role in medium-chain fatty acid ethyl ester biosynthesis; contains an alpha/beta hydrolase domain and a typical lipase motif; has similarity to acyltransferases, Eeb1p and Eht1p, and human ABHD1
-S000031343	CDS					YMR210W		13	687516	688865	W		2011-02-03	1996-07-31	
-S000004824	ORF	Verified	YMR211W	DML1		chromosome 13		13	689083	690510	W		2011-02-03	1996-07-31	Essential protein involved in mtDNA inheritance; may also function in the partitioning of the mitochondrial organelle or in the segregation of chromosomes, exhibits regions similar to members of a GTPase family
-S000031451	CDS					YMR211W		13	689083	690510	W		2011-02-03	1996-07-31	
-S000004825	ORF	Verified	YMR212C	EFR3		chromosome 13		13	693043	690695	C		2011-02-03	1996-07-31	Protein required for Stt4-containing PI kinase complex localization; required for Stt4-containing phosphoinositide (PI) kinase patch assembly at the plasma membrane; recruited to the plasma membrane via a conserved basic patch near its N-terminus; exhibits synthetic lethal genetic interactions with PHO85; has sequence similarity to the Drosophila rolling blackout (RBO) gene
-S000031486	CDS					YMR212C		13	693043	690695	C		2011-02-03	1996-07-31	
-S000004826	ORF	Verified	YMR213W	CEF1	NTC85	chromosome 13	L000004270	13	693381	695153	W		2011-02-03	1996-07-31	Essential splicing factor; associated with Prp19p and the spliceosome, contains an N-terminal c-Myb DNA binding motif necessary for cell viability but not for Prp19p association, evolutionarily conserved and homologous to S. pombe Cdc5p
-S000031586	CDS					YMR213W		13	693381	695153	W		2011-02-03	1996-07-31	
-S000004827	ORF	Verified	YMR214W	SCJ1		chromosome 13	L000001811	13	695350	696483	W		2011-02-03	2003-09-22|1996-07-31	One of several homologs of bacterial chaperone DnaJ; located in the ER lumen where it cooperates with Kar2p to mediate maturation of proteins
-S000032566	CDS					YMR214W		13	695350	696483	W		2011-02-03	2003-09-22|1996-07-31	
-S000004828	ORF	Verified	YMR215W	GAS3	putative 1,3-beta-glucanosyltransferase	chromosome 13		13	696796	698370	W		2011-02-03	1996-07-31	Putative 1,3-beta-glucanosyltransferase; has similarity go other GAS family members; low abundance, possibly inactive member of the GAS family of GPI-containing proteins; localizes to the cell wall; mRNA induced during sporulation
-S000032695	CDS					YMR215W		13	696796	698370	W		2011-02-03	1996-07-31	
-S000004829	ORF	Verified	YMR216C	SKY1	serine/threonine protein kinase SKY1	chromosome 13	L000003941	13	701039	698811	C		2011-02-03	1996-07-31	SR protein kinase (SRPK); involved in regulating proteins involved in mRNA metabolism and cation homeostasis; similar to human SRPK1
-S000032724	CDS					YMR216C		13	701039	698811	C		2011-02-03	1996-07-31	
-S000004830	ORF	Verified	YMR217W	GUA1	GMP synthase (glutamine-hydrolyzing)	chromosome 13	L000000744	13	701790	703367	W		2011-02-03	1996-07-31	GMP synthase; highly conserved enzyme that catalyzes the second step in the biosynthesis of GMP from inosine 5'-phosphate (IMP); transcription is not subject to regulation by guanine but is negatively regulated by nutrient starvation; reduction-of-function mutation gua1-G388D causes changes in cellular guanine nucleotide pools, defects in general protein synthesis, and impaired translation of GCN4 mRNA
-S000033507	CDS					YMR217W		13	701790	703367	W		2011-02-03	1996-07-31	
-S000004831	ORF	Verified	YMR218C	TRS130	transport protein particle complex II subunit TRS130	chromosome 13	S000007468	13	706887	703579	C		2011-02-03	1996-07-31	Component of transport protein particle (TRAPP) complex II; TRAPPII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating intra-Golgi and endosome-Golgi traffic
-S000033556	CDS					YMR218C		13	706887	703579	C		2011-02-03	1996-07-31	
-S000004832	ORF	Verified	YMR219W	ESC1		chromosome 13	L000004422	13	707133	712109	W		2011-02-03	1996-07-31	Protein involved in telomeric silencing; required for quiescent cell telomere hypercluster localization at nuclear membrane vicinity; interacts with PAD4-domain of Sir4p
-S000033701	CDS					YMR219W		13	707133	712109	W		2011-02-03	1996-07-31	
-S000004833	ORF	Verified	YMR220W	ERG8	phosphomevalonate kinase	chromosome 13	L000000574	13	712316	713671	W		2011-02-03	1996-07-31	Phosphomevalonate kinase; an essential cytosolic enzyme that acts in the biosynthesis of isoprenoids and sterols, including ergosterol, from mevalonate
-S000035642	CDS					YMR220W		13	712316	713671	W		2011-02-03	1996-07-31	
-S000004834	ORF	Uncharacterized	YMR221C	FMP42		chromosome 13		13	715445	713931	C		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; physical interaction with Atg27p suggests a possible role in autophagy
-S000035674	CDS					YMR221C		13	715445	713931	C		2011-02-03	1996-07-31	
-S000004835	ORF	Verified	YMR222C	FSH2	putative serine hydrolase	chromosome 13		13	716309	715638	C		2011-02-03	1996-07-31	Putative serine hydrolase that localizes to the cytoplasm; sequence is similar to S. cerevisiae Fsh1p and Fsh3p and the human candidate tumor suppressor OVCA2
-S000035719	CDS					YMR222C		13	716309	715638	C		2011-02-03	1996-07-31	
-S000004836	ORF	Verified	YMR223W	UBP8	ubiquitin-specific protease UBP8	chromosome 13	L000004587	13	716715	718130	W		2011-02-03	1996-07-31	Ubiquitin-specific protease component of the SAGA acetylation complex; required for SAGA (Spt-Ada-Gcn5-Acetyltransferase)-mediated deubiquitination of histone H2B
-S000035903	CDS					YMR223W		13	716715	718130	W		2011-02-03	1996-07-31	
-S000004837	ORF	Verified	YMR224C	MRE11	MRX complex nuclease subunit|NGS1|XRS4|RAD58	chromosome 13	L000004732|L000001149|L000004275	13	720653	718575	C		2011-02-03	1996-07-31	Nuclease subunit of the MRX complex with Rad50p and Xrs2p; complex functions in repair of DNA double-strand breaks and in telomere stability; Mre11p associates with Ser/Thr-rich ORFs in premeiotic phase; nuclease activity required for MRX function; widely conserved; forms nuclear foci upon DNA replication stress
-S000035950	CDS					YMR224C		13	720653	718575	C		2011-02-03	1996-07-31	
-S000004838	ORF	Verified	YMR225C	MRPL44	mitochondrial 54S ribosomal protein YmL44|YmL44|YMR44	chromosome 13	L000002534	13	721403	720960	C	158	2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; protein abundance increases in response to DNA replication stress
-S000036820	CDS					YMR225C		13	721198	720960	C		2011-02-03	1996-07-31	
-S000036819	CDS					YMR225C		13	721403	721346	C		2011-02-03	1996-07-31	
-S000036821	intron					YMR225C		13	721345	721199	C		2011-02-03	1996-07-31	
-S000004839	ORF	Verified	YMR226C		oxidoreductase|TMA29	chromosome 13		13	722396	721593	C		2011-02-03	1996-07-31	NADP(+)-dependent serine dehydrogenase and carbonyl reductase; acts on serine, L-allo-threonine, and other 3-hydroxy acids; green fluorescent protein fusion protein localizes to the cytoplasm and nucleus; may interact with ribosomes, based on co-purification experiments
-S000036891	CDS					YMR226C		13	722396	721593	C		2011-02-03	1996-07-31	
-S000004840	ORF	Verified	YMR227C	TAF7	TafII67|TAF67	chromosome 13	L000003463	13	724385	722613	C		2011-02-03	1996-07-31	TFIID subunit (67 kDa); involved in RNA polymerase II transcription initiation
-S000036956	CDS					YMR227C		13	724385	722613	C		2011-02-03	1996-07-31	
-S000004841	ORF	Verified	YMR228W	MTF1	RNA polymerase specificity factor	chromosome 13	L000001211	13	724626	725651	W	157.9	2011-02-03	1996-07-31	Mitochondrial RNA polymerase specificity factor; has structural similarity to S-adenosylmethionine-dependent methyltransferases and functional similarity to bacterial sigma-factors; Mtf1p interacts with and stabilizes the Rpo41p-promoter complex, enhancing DNA bending and melting to facilitate pre-initiation open complex formation
-S000037761	CDS					YMR228W		13	724626	725651	W		2011-02-03	1996-07-31	
-S000004842	ORF	Verified	YMR229C	RRP5		chromosome 13	L000003232	13	731123	725934	C		2011-02-03	1996-07-31	RNA binding protein involved in synthesis of 18S and 5.8S rRNAs; component of ribosomal small subunit (SSU) processome and 90S preribosome; required for pre-rRNA packaging and compaction of processome into dense terminal balls; part of Mak21p-Noc2p-Rrp5p module that associates with nascent pre-rRNA during transcription with role in biogenesis of large ribosomal subunit; binds single stranded tracts of U's; relocalizes from nucleolus to nucleus upon DNA replication stress
-S000037792	CDS					YMR229C		13	731123	725934	C		2011-02-03	1996-07-31	
-S000004843	ORF	Verified	YMR230W	RPS10B	eS10|ribosomal 40S subunit protein S10B|S10e|S10B	chromosome 13	L000004476	13	732414	733141	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S10, no bacterial homolog; RPS10B has a paralog, RPS10A, that arose from the whole genome duplication; mutations in the human homolog associated with Diamond-Blackfan anemia
-S000030773	CDS					YMR230W		13	732414	732465	W		2011-02-03	1996-07-31	
-S000030774	CDS					YMR230W		13	732876	733141	W		2011-02-03	1996-07-31	
-S000030775	intron					YMR230W		13	732466	732875	W		2011-02-03	1996-07-31	
-S000028576	ORF	Uncharacterized	YMR230W-A			chromosome 13		13	733268	733456	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000031309	CDS					YMR230W-A		13	733268	733456	W		2011-02-03	2003-07-29	
-S000004844	ORF	Verified	YMR231W	PEP5	tethering complex subunit PEP5|VPT11|VPS11|VPL9|VAM1|END1	chromosome 13	L000001376|L000002957	13	733545	736634	W	152	2011-02-03	1996-07-31	Histone E3 ligase, component of CORVET membrane tethering complex; peripheral vacuolar membrane protein required for protein trafficking and vacuole biogenesis; interacts with Pep7p; involved in ubiquitination and degradation of excess histones
-S000030876	CDS					YMR231W		13	733545	736634	W		2011-02-03	1996-07-31	
-S000004845	ORF	Verified	YMR232W	FUS2		chromosome 13	L000000654	13	736926	738959	W	160	2011-02-03	1996-07-31	Cell fusion regulator; cytoplasmic protein localized to shmoo tip; required for alignment of parental nuclei before nuclear fusion during mating; contains a Dbl-homology domain; binds specifically with activated Cdc42p
-S000031887	CDS					YMR232W		13	736926	738959	W		2011-02-03	1996-07-31	
-S000004846	ORF	Verified	YMR233W	TRI1		chromosome 13		13	739185	739865	W		2011-02-03	1996-07-31	Non-essential sumoylated protein of unknown function; similar to components of human SWI/SNF complex including SMRD3; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm, nucleus and nucleolus; TRI1 has a paralog, UAF30, that arose from the whole genome duplication
-S000032018	CDS					YMR233W		13	739185	739865	W		2011-02-03	1996-07-31	
-S000004847	ORF	Verified	YMR234W	RNH1	RNA-DNA hybrid ribonuclease	chromosome 13	L000001653	13	740266	741312	W	160	2011-02-03	1996-07-31	Ribonuclease H1; able to bind double-stranded RNAs and RNA-DNA hybrids; associates with RNAse polymerase I.
-S000032129	CDS					YMR234W		13	740266	741312	W		2011-02-03	1996-07-31	
-S000004848	ORF	Verified	YMR235C	RNA1	GTPase-activating protein RNA1	chromosome 13	L000001649	13	742735	741512	C	159	2011-02-03	1996-07-31	GTPase activating protein (GAP) for Gsp1p; involved in nuclear transport
-S000032993	CDS					YMR235C		13	742735	741512	C		2011-02-03	1996-07-31	
-S000004849	ORF	Verified	YMR236W	TAF9	chromatin modification protein|TafII17|TAF17	chromosome 13	L000003459	13	742971	743444	W		2011-02-03	1996-07-31	Subunit (17 kDa) of TFIID and SAGA complexes; involved in RNA polymerase II transcription initiation and in chromatin modification, similar to histone H3
-S000033137	CDS					YMR236W		13	742971	743444	W		2011-02-03	1996-07-31	
-S000004850	ORF	Verified	YMR237W	BCH1	exomer complex subunit	chromosome 13		13	743749	745923	W		2011-02-03	1996-07-31	Member of the ChAPs family (Chs5p-Arf1p-binding proteins); members include Bch1p, Bch2p, Bud7p, and Chs6p; ChAPs family proteins form the exomer complex with Chs5p to mediate export of specific cargo proteins from the Golgi to the plasma membrane; interacts selectively with the activated, GTP-bound form of Arf1p; may interact with ribosomes; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress
-S000033208	CDS					YMR237W		13	743749	745923	W		2011-02-03	1996-07-31	
-S000004851	ORF	Verified	YMR238W	DFG5	putative mannan endo-1,6-alpha-mannosidase	chromosome 13	L000004072	13	746353	747729	W		2011-02-03	1996-07-31	Putative mannosidase; essential glycosylphosphatidylinositol (GPI)-anchored membrane protein required for cell wall biogenesis in bud formation, involved in filamentous growth, homologous to Dcw1p
-S000034028	CDS					YMR238W		13	746353	747729	W		2011-02-03	1996-07-31	
-S000006717	tRNA_gene		tR(UCU)M1			chromosome 13	L000003675	13	747963	747892	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000031501	noncoding_exon					tR(UCU)M1		13	747963	747892	C		2011-02-03	2000-05-19	
-S000004852	ORF	Verified	YMR239C	RNT1	ribonuclease III	chromosome 13	L000002844	13	749677	748262	C		2011-02-03	1996-07-31	Nuclear dsRNA-specific ribonuclease (RNase III); involved in rDNA transcription, rRNA processing and U2 snRNA 3' end formation by cleavage of a stem-loop structure at the 3' end of U2 snRNA; involved in polyadenylation-independent transcription termination; involved in the cell wall stress response, regulating the degradation of cell wall integrity and morphogenesis checkpoint genes
-S000034074	CDS					YMR239C		13	749677	748262	C		2011-02-03	1996-07-31	
-S000004853	ORF	Verified	YMR240C	CUS1	U2 snRNP complex subunit CUS1	chromosome 13	L000002833	13	751240	749930	C		2011-02-03	1996-07-31	Protein required for assembly of U2 snRNP into the spliceosome; forms a complex with Hsh49p and Hsh155p
-S000035059	CDS					YMR240C		13	751240	749930	C		2011-02-03	1996-07-31	
-S000004854	ORF	Verified	YMR241W	YHM2		chromosome 13	L000004516	13	751961	752905	W		2011-02-03	1996-07-31	Citrate and oxoglutarate carrier protein; exports citrate from and imports oxoglutarate into the mitochondrion, causing net export of NADPH reducing equivalents; also associates with mt nucleoids and has a role in replication and segregation of the mt genome
-S000035206	CDS					YMR241W		13	751961	752905	W		2011-02-03	1996-07-31	
-S000004855	ORF	Verified	YMR242C	RPL20A	eL20|ribosomal 60S subunit protein L20A|L20e|L20A|L18A|RPL18A2	chromosome 13	L000004458|L000003149	13	754220	753225	C		2011-02-03	2003-09-27|1996-07-31|2007-07-10	Ribosomal 60S subunit protein L20A; homologous to mammalian ribosomal protein L18A, no bacterial homolog; RPL20A has a paralog, RPL20B, that arose from the whole genome duplication
-S000035252	CDS					YMR242C		13	753742	753225	C		2011-02-03	2003-09-27	
-S000035251	CDS					YMR242C		13	754220	754220	C		2011-02-03	2003-09-27|1996-07-31|2007-07-10	
-S000035253	intron					YMR242C		13	754219	753743	C		2011-02-03	2003-09-27|2007-07-10	
-S000028694	ORF	Uncharacterized	YMR242W-A			chromosome 13		13	754297	754386	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000032596	CDS					YMR242W-A		13	754297	754386	W		2011-02-03	2003-07-29	
-S000004856	ORF	Verified	YMR243C	ZRC1	Zn(2+) transporter ZRC1|OSR1	chromosome 13	L000002570	13	756166	754838	C		2011-02-03	1996-07-31	Vacuolar membrane zinc transporter; transports zinc from cytosol to vacuole for storage; also has role in resistance to zinc shock resulting from sudden influx of zinc into cytoplasm; human ortholog SLC30A10 functions as a Mn transporter and mutations in SLC30A10 cause neurotoxic accumulation of Mn in liver and brain; ZRC1 has a paralog, COT1, that arose from the whole genome duplication
-S000036141	CDS					YMR243C		13	756166	754838	C		2011-02-03	1996-07-31	
-S000004858	ORF	Uncharacterized	YMR244W			chromosome 13		13	757250	758317	W		2011-02-03	1996-07-31	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
-S000031680	CDS					YMR244W		13	757250	758317	W		2011-02-03	1996-07-31	
-S000118377	ARS		ARS1327		ARSXIII-758	chromosome 13		13	758224	758471			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178161	ARS_consensus_sequence					ARS1327		13	758417	758401	C		2014-11-18	2014-11-18	
-S000004859	ORF	Dubious	YMR245W			chromosome 13		13	758563	759183	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031825	CDS					YMR245W		13	758563	759183	W		2011-02-03	1996-07-31	
-S000004857	ORF	Verified	YMR244C-A	COA6		chromosome 13		13	758831	758517	C		2011-02-03	1996-07-31	Protein involved in cytochrome c oxidase (Complex IV) assembly; involved in delivery of copper to Complex IV; also required for efficient formation of respiratory supercomplexes comprised of Complexes III and IV; localizes to the mitochondrial intermembrane space; ortholog implicated in cardiac defects in zebrafish and human; transcription is induced in response to the DNA-damaging agent MMS; protein abundance increases in response to DNA replication stress
-S000035790	CDS					YMR244C-A		13	758831	758517	C		2011-02-03	1996-07-31	
-S000004860	ORF	Verified	YMR246W	FAA4	long-chain fatty acid-CoA ligase FAA4	chromosome 13	L000002647	13	759807	761891	W		2011-02-03	1996-07-31	Long chain fatty acyl-CoA synthetase; activates fatty acids with a preference for C12:0-C16:0 chain lengths; role in the competitive import of long-chain fatty acids and sphingoid long-chain bases; role in stationary phase survival; localizes to lipid particles and the plasma membrane; role in sphingolipid-to-glycerolipid metabolism; forms cytoplasmic foci upon replication stress; faa1 faa4 double null complemented by any of human ACSBG1, ACSL1, 3, 4, 5, 6, SLC27A2, or 4
-S000031958	CDS					YMR246W		13	759807	761891	W		2011-02-03	1996-07-31	
-S000119075	snoRNA_gene		snR86	SNR86		chromosome 13		13	763113	762110	C		2011-02-03	2006-10-05	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2314
-S000119077	noncoding_exon					snR86		13	763113	762110	C		2011-02-03	2006-10-05	
-S000004861	ORF	Verified	YMR247C	RKR1	ubiquitin-protein ligase RKR1|LTN1	chromosome 13		13	768039	763351	C		2011-02-03	1996-07-31	RING domain E3 ubiquitin ligase; involved in ubiquitin-mediated degradation of non-stop proteins and translationally stalled ER membrane proteins; component of ribosome-bound RQC (ribosome quality control) complex; degrades products of mRNAs lacking a termination codon regardless of a poly(A) tail; functional connections to chromatin modification; homolog of mouse Listerin, mutations in which reported to cause neurodegeneration
-S000031995	CDS					YMR247C		13	768039	763351	C		2011-02-03	1996-07-31	
-S000006519	tRNA_gene		tA(AGC)M2			chromosome 13	L000003674	13	768441	768369	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000036431	noncoding_exon					tA(AGC)M2		13	768441	768369	C		2011-02-03	2000-05-19	
-S000007125	long_terminal_repeat		YMRWdelta19			chromosome 13		13	768548	768879	W		2011-02-03	2000-05-19	Ty2 LTR
-S000028849	ORF	Uncharacterized	YMR247W-A			chromosome 13		13	769283	769426	W		2011-02-03	2003-07-29	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
-S000034536	CDS					YMR247W-A		13	769283	769426	W		2011-02-03	2003-07-29	
-S000004862	ORF	Verified	YMR250W	GAD1	glutamate decarboxylase GAD1	chromosome 13	S000007509	13	770801	772558	W		2011-02-03	1996-07-31	Glutamate decarboxylase; converts glutamate into gamma-aminobutyric acid (GABA) during glutamate catabolism; involved in response to oxidative stress
-S000037211	CDS					YMR250W		13	770801	772558	W		2011-02-03	1996-07-31	
-S000118378	ARS		ARS1328		ARSXIII-773	chromosome 13		13	772631	772879			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000004863	ORF	Verified	YMR251W	GTO3	omega-class glutathione transferase	chromosome 13		13	772915	774015	W		2011-02-03	1996-07-31	Omega class glutathione transferase; putative cytosolic localization
-S000037313	CDS					YMR251W		13	772915	774015	W		2011-02-03	1996-07-31	
-S000004864	ORF	Verified	YMR251W-A	HOR7		chromosome 13	L000003980	13	774752	774931	W		2011-02-03	1996-07-31	Protein of unknown function; overexpression suppresses Ca2+ sensitivity of mutants lacking inositol phosphorylceramide mannosyltransferases Csg1p and Csh1p; transcription is induced under hyperosmotic stress and repressed by alpha factor; HOR7 has a paralog, DDR2, that arose from the whole genome duplication
-S000035256	CDS					YMR251W-A		13	774752	774931	W		2011-02-03	1996-07-31	
-S000004865	ORF	Uncharacterized	YMR252C			chromosome 13		13	775719	775315	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YMR252C is not an essential gene
-S000037324	CDS					YMR252C		13	775719	775315	C		2011-02-03	1996-07-31	
-S000004866	ORF	Uncharacterized	YMR253C			chromosome 13		13	777190	775946	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; YMR253C is not an essential gene
-S000037399	CDS					YMR253C		13	777190	775946	C		2011-02-03	1996-07-31	
-S000004867	ORF	Dubious	YMR254C			chromosome 13		13	777923	777615	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030036	CDS					YMR254C		13	777923	777615	C		2011-02-03	1996-07-31	
-S000004868	ORF	Verified	YMR255W	GFD1		chromosome 13	L000004632	13	778001	778567	W		2011-02-03	1996-07-31	Coiled-coiled protein of unknown function; identified as a high-copy suppressor of a dbp5 mutation; protein abundance increases in response to DNA replication stress
-S000030249	CDS					YMR255W		13	778001	778567	W		2011-02-03	1996-07-31	
-S000004869	ORF	Verified	YMR256C	COX7	cytochrome c oxidase subunit VII	chromosome 13	L000000391	13	779127	778945	C		2011-02-03	1996-07-31	Subunit VII of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain
-S000030343	CDS					YMR256C		13	779127	778945	C		2011-02-03	1996-07-31	
-S000004870	ORF	Verified	YMR257C	PET111		chromosome 13	L000001393	13	782031	779629	C	177	2011-02-03	1996-07-31	Mitochondrial translational activator specific for the COX2 mRNA; located in the mitochondrial inner membrane
-S000033634	CDS					YMR257C		13	782031	779629	C		2011-02-03	1996-07-31	
-S000004871	ORF	Verified	YMR258C	ROY1		chromosome 13		13	784281	782620	C		2011-02-03	1996-07-31	GTPase inhibitor with similarity to F-box proteins; inhibits Ypt52p GTPase activity by preventing Ypt52p from binding GTP; involved in regulating intracellular trafficking; physically interacts with Skp1p
-S000033770	CDS					YMR258C		13	784281	782620	C		2011-02-03	1996-07-31	
-S000004872	ORF	Verified	YMR259C	TRM732	tRNA methylation protein TRM732	chromosome 13		13	788883	784621	C		2011-02-03	1996-07-31	Protein involved in 2'-O-methylation of C32 of substrate tRNAs; interacts with 2'-O-ribose methyltransferase Trm7p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; non-essential gene; yeast null mutant can be functionally complemented by human THADA, mutations in which have been implicated in epithelial thyroid adenomas, type 2 diabetes, and polycystic ovary syndrome (PCOS)
-S000033886	CDS					YMR259C		13	788883	784621	C		2011-02-03	1996-07-31	
-S000004873	ORF	Verified	YMR260C	TIF11		chromosome 13	L000002306	13	789839	789378	C		2011-02-03	1996-07-31	Translation initiation factor eIF1A; essential protein that forms a complex with Sui1p (eIF1) and the 40S ribosomal subunit and scans for the start codon; C-terminus associates with Fun12p (eIF5B); N terminus interacts with eIF2 and eIF3
-S000033454	CDS					YMR260C		13	789839	789378	C		2011-02-03	1996-07-31	
-S000004874	ORF	Verified	YMR261C	TPS3	trehalose 6-phosphate synthase/phosphatase complex subunit	chromosome 13	L000002718	13	793369	790205	C		2011-02-03	1996-07-31	Regulatory subunit of trehalose-6-phosphate synthase/phosphatase; involved in synthesis of storage carbohydrate trehalose; expression is induced by stress conditions and repressed by the Ras-cAMP pathway; TPS3 has a paralog, TSL1, that arose from the whole genome duplication
-S000033514	CDS					YMR261C		13	793369	790205	C		2011-02-03	1996-07-31	
-S000004875	ORF	Uncharacterized	YMR262W		putative endodeoxyribonuclease	chromosome 13		13	793726	794667	W		2011-02-03	1996-07-31|2011-02-03	Protein of unknown function; interacts weakly with Knr4p; YMR262W is not an essential gene
-S000033607	CDS					YMR262W		13	793726	794667	W		2011-02-03	1996-07-31|2011-02-03	
-S000004876	ORF	Verified	YMR263W	SAP30		chromosome 13		13	794919	795524	W		2011-02-03	1996-07-31	Component of Rpd3L histone deacetylase complex; involved in silencing at telomeres, rDNA, and silent mating-type loci; involved in telomere maintenance
-S000034555	CDS					YMR263W		13	794919	795524	W		2011-02-03	1996-07-31	
-S000004877	ORF	Verified	YMR264W	CUE1	KIS4	chromosome 13	L000003518	13	795805	796416	W		2011-02-03	1996-07-31	Ubiquitin-binding protein; ER membrane protein that recruits and integrates the ubiquitin-conjugating enzyme Ubc7p into ER membrane-bound ubiquitin ligase complexes that function in the ER-associated degradation (ERAD) pathway for misfolded proteins; contains a CUE domain that binds ubiquitin to facilitate intramolecular monoubiquitination and to promote diubiquitin elongation, facilitating polyubiquitin chain formation
-S000034641	CDS					YMR264W		13	795805	796416	W		2011-02-03	1996-07-31	
-S000004878	ORF	Uncharacterized	YMR265C			chromosome 13		13	797925	796540	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000034679	CDS					YMR265C		13	797925	796540	C		2011-02-03	1996-07-31	
-S000004879	ORF	Verified	YMR266W	RSN1		chromosome 13		13	798518	801379	W		2011-02-03	1996-07-31	Membrane protein of unknown function; overexpression suppresses NaCl sensitivity of sro7 mutant cells by restoring sodium pump (Ena1p) localization to the plasma membrane
-S000035756	CDS					YMR266W		13	798518	801379	W		2011-02-03	1996-07-31	
-S000004880	ORF	Verified	YMR267W	PPA2	inorganic diphosphatase PPA2|IPP2	chromosome 13	L000001469	13	801772	802704	W		2011-02-03	1996-07-31	Mitochondrial inorganic pyrophosphatase; required for mitochondrial function and possibly involved in energy generation from inorganic pyrophosphate; human ortholog, PPA2, functionally complements the null mutant; mutations in human PPA2 cause a mitochondrial disease resulting in sudden unexpected cardiac arrest in infants
-S000035874	CDS					YMR267W		13	801772	802704	W		2011-02-03	1996-07-31	
-S000004881	ORF	Verified	YMR268C	PRP24	U6 snRNP complex subunit PRP24	chromosome 13	L000002842	13	804222	802888	C		2011-02-03	1996-07-31	Splicing factor that reanneals snRNPs during spliceosome recycling; reanneals U4 and U6 snRNPs
-S000035917	CDS					YMR268C		13	804222	802888	C		2011-02-03	1996-07-31	
-S000004882	ORF	Verified	YMR269W	TMA23	YMR268W-A	chromosome 13		13	804456	805091	W		2011-02-03	2004-02-27|1996-07-31	Nucleolar protein implicated in ribosome biogenesis; deletion extends chronological lifespan
-S000037848	CDS					YMR269W		13	804456	805091	W		2011-02-03	2004-02-27|1996-07-31	
-S000118379	ARS		ARS1329		ARSXIII-805	chromosome 13		13	805152	805282			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178162	ARS_consensus_sequence					ARS1329		13	805162	805178	W		2014-11-18	2014-11-18	
-S000004883	ORF	Verified	YMR270C	RRN9		chromosome 13	L000003278	13	806423	805326	C		2011-02-03	1996-07-31	Protein involved in promoting high level transcription of rDNA; subunit of UAF (upstream activation factor) for RNA polymerase I
-S000036870	CDS					YMR270C		13	806423	805326	C		2011-02-03	1996-07-31	
-S000004884	ORF	Verified	YMR271C	URA10	orotate phosphoribosyltransferase URA10	chromosome 13	L000002438	13	807548	806865	C		2011-02-03	1996-07-31	Minor orotate phosphoribosyltransferase (OPRTase) isozyme; catalyzes the fifth enzymatic step in the de novo biosynthesis of pyrimidines, converting orotate into orotidine-5'-phosphate; URA10 has a paralog, URA5, that arose from the whole genome duplication
-S000037601	CDS					YMR271C		13	807548	806865	C		2011-02-03	1996-07-31	
-S000006690	tRNA_gene		tQ(CUG)M	CDC65	SUP60|SUP70|DNA33	chromosome 13	L000000287|L000003673	13	808317	808246	C	187	2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; can mutate to cause constitutive pseudohyphal growth in homozygous diploids; required for localization of transcription factor Gln3p to the nucleus in response to nitrogen starvation or rapamycin treatment
-S000036125	noncoding_exon					tQ(CUG)M		13	808317	808246	C		2011-02-03	2000-05-19	
-S000007118	long_terminal_repeat		YMRCtau3			chromosome 13		13	808906	808537	C		2011-02-03	2000-05-19	Ty4 LTR
-S000007126	long_terminal_repeat		YMRWdelta20			chromosome 13		13	809000	809233	W		2011-02-03	2000-05-19	Ty1 LTR
-S000028695	ORF	Dubious	YMR272W-A			chromosome 13		13	810466	810579	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene SCS7/YMR272C
-S000032602	CDS					YMR272W-A		13	810466	810579	W		2011-02-03	2003-07-29	
-S000004885	ORF	Verified	YMR272C	SCS7	fatty acid alpha-hydroxylase|FAH1	chromosome 13	L000004408	13	810777	809623	C		2011-02-03	1996-07-31	Sphingolipid alpha-hydroxylase; functions in the alpha-hydroxylation of sphingolipid-associated very long chain fatty acids, has both cytochrome b5-like and hydroxylase/desaturase domains, not essential for growth
-S000037670	CDS					YMR272C		13	810777	809623	C		2011-02-03	1996-07-31	
-S000028696	ORF	Uncharacterized	YMR272W-B			chromosome 13		13	811089	811196	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
-S000032604	CDS					YMR272W-B		13	811089	811196	W		2011-02-03	2003-07-29	
-S000004886	ORF	Verified	YMR273C	ZDS1	OSS1|NRC1|CKM1|CES1	chromosome 13	L000002813	13	813980	811233	C		2011-02-03	1996-07-31	Protein with a role in regulating Swe1p-dependent polarized growth; involved in maintaining Cdc55p in the cytoplasm where it promotes mitotic entry; involved in mitotic exit through Cdc14p regulation; interacts with silencing proteins at telomeres; has a role in Bcy1p localization; implicated in mRNA nuclear export; ZDS1 has a paralog, ZDS2, that arose from the whole genome duplication
-S000037717	CDS					YMR273C		13	813980	811233	C		2011-02-03	1996-07-31	
-S000004887	ORF	Verified	YMR274C	RCE1	CAAX prenyl protease	chromosome 13	L000004125	13	815311	814364	C		2011-02-03	1996-07-31	Type II CAAX prenyl protease; involved in the proteolysis and maturation of Ras and the a-factor mating pheromone
-S000037777	CDS					YMR274C		13	815311	814364	C		2011-02-03	1996-07-31	
-S000118380	ARS		ARS1330		ARSXIII-815	chromosome 13		13	815342	815567			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178163	ARS_consensus_sequence					ARS1330		13	815391	815407	W		2014-11-18	2014-11-18	
-S000004888	ORF	Verified	YMR275C	BUL1	ubiquitin-ubiquitin ligase BUL1|SMM2|RDS1|DAG1	chromosome 13	L000002733	13	818581	815651	C		2011-02-03	1996-07-31	Ubiquitin-binding component of the Rsp5p E3-ubiquitin ligase complex; disruption causes temperature-sensitive growth, overexpression causes missorting of amino acid permeases; BUL1 has a paralog, BUL2, that arose from the whole genome duplication
-S000030633	CDS					YMR275C		13	818581	815651	C		2011-02-03	1996-07-31	
-S000004889	ORF	Verified	YMR276W	DSK2		chromosome 13	L000002646	13	818827	819948	W		2011-02-03	1996-07-31	Nuclear-enriched ubiquitin-like polyubiquitin-binding protein; required for spindle pole body (SPB) duplication and for transit through the G2/M phase of the cell cycle; involved in proteolysis; interacts with the proteasome; protein abundance increases in response to DNA replication stress
-S000030830	CDS					YMR276W		13	818827	819948	W		2011-02-03	1996-07-31	
-S000004890	ORF	Verified	YMR277W	FCP1	protein serine/threonine phosphatase	chromosome 13	L000003350	13	820256	822454	W		2011-02-03	1996-07-31	Carboxy-terminal domain (CTD) phosphatase; essential for dephosphorylation of the repeated C-terminal domain of the RNA polymerase II large subunit (Rpo21p); relocalizes to the cytosol in response to hypoxia
-S000031799	CDS					YMR277W		13	820256	822454	W		2011-02-03	1996-07-31	
-S000004891	ORF	Verified	YMR278W	PRM15	PGM3|phosphoribomutase PRM15	chromosome 13		13	822763	824631	W		2011-02-03	1996-07-31	Phosphoribomutase; catalyzes interconversion of ribose-1-phosphate and ribose-5-phosphate; has some phosphoglucomutase activity but primary activity in vivo is phosphoribomutase; contributes to ribose recycling in the pentose phosphate pathway; transcription induced in response to stress; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; non-essential
-S000031949	CDS					YMR278W		13	822763	824631	W		2011-02-03	1996-07-31	
-S000004892	ORF	Verified	YMR279C			chromosome 13		13	826351	824729	C		2011-02-03	1996-07-31	Putative boron transporter involved in boron efflux and resistance; overexpression mutant but not null mutant displays boron tolerance phenotype; identified as a heat-induced gene in a high-throughout screen; YMR279C is not an essential gene; YMR279C has a paralog, ATR1, that arose from the whole genome duplication
-S000031988	CDS					YMR279C		13	826351	824729	C		2011-02-03	1996-07-31	
-S000004893	ORF	Verified	YMR280C	CAT8	DNA-binding transcription factor CAT8|MSP8|DIL1	chromosome 13	L000000220	13	831329	827028	C		2011-02-03	1996-07-31	Zinc cluster transcriptional activator; necessary for derepression of a variety of genes under non-fermentative growth conditions, active after diauxic shift, binds carbon source responsive elements; relative distribution to the nucleus increases upon DNA replication stress
-S000032751	CDS					YMR280C		13	831329	827028	C		2011-02-03	1996-07-31	
-S000004894	ORF	Verified	YMR281W	GPI12	N-acetylglucosaminylphosphatidylinositol deacetylase	chromosome 13	L000004952	13	832339	833253	W		2011-02-03	1996-07-31	ER membrane protein involved in the second step of GPI anchor assembly; the second step is the de-N-acetylation of the N-acetylglucosaminylphosphatidylinositol intermediate; functional homolog of human PIG-Lp; GPI stands for glycosylphosphatidylinositol
-S000032913	CDS					YMR281W		13	832339	833253	W		2011-02-03	1996-07-31	
-S000004895	ORF	Verified	YMR282C	AEP2	ATP13	chromosome 13	L000000054	13	835098	833356	C		2011-02-03	1996-07-31	Mitochondrial protein; likely involved in translation of the mitochondrial OLI1 mRNA; exhibits genetic interaction with the OLI1 mRNA 5'-untranslated leader
-S000032972	CDS					YMR282C		13	835098	833356	C		2011-02-03	1996-07-31	
-S000004896	ORF	Verified	YMR283C	RIT1	tRNA A64-2'-O-ribosylphosphate transferase	chromosome 13	L000001645	13	836867	835326	C		2011-02-03	1996-07-31	Initiator methionine 2'-O-ribosyl phosphate transferase; modifies the initiator methionine tRNA at position 64 to distinguish it from elongator methionine tRNA
-S000033039	CDS					YMR283C		13	836867	835326	C		2011-02-03	1996-07-31	
-S000007127	long_terminal_repeat		YMRWdelta21			chromosome 13		13	837450	837764	W		2011-02-03	2000-05-19	Ty1 LTR
-S000130192	ARS		ARS1331			chromosome 13		13	837764	837928			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000006784	tRNA_gene		tY(GUA)M2	SUP8		chromosome 13	L000003672|L000002187	13	837928	838016	W	193	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000032300	intron					tY(GUA)M2		13	837967	837980	W		2011-02-03	2000-05-19	
-S000032298	noncoding_exon					tY(GUA)M2		13	837928	837966	W		2011-02-03	2000-05-19	
-S000032299	noncoding_exon					tY(GUA)M2		13	837981	838016	W		2011-02-03	2000-05-19	
-S000004897	ORF	Verified	YMR284W	YKU70	ATP-dependent DNA helicase YKU70|KU70|NES24|HDF1	chromosome 13	L000000759	13	838187	839995	W		2011-02-03	1996-07-31	Subunit of the telomeric Ku complex (Yku70p-Yku80p); involved in telomere length maintenance, structure and telomere position effect; required for localization of telomerase ribonucleoprotein to nucleus via interaction with the TLC1 guide RNA; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair
-S000033764	CDS					YMR284W		13	838187	839995	W		2011-02-03	1996-07-31	
-S000004898	ORF	Verified	YMR285C	NGL2	RNA exonuclease	chromosome 13		13	841691	840144	C		2011-02-03	1996-07-31	Protein involved in 5.8S rRNA processing; Ccr4p-like RNase required for correct 3'-end formation of 5.8S rRNA at site E; similar to Ngl1p; NGL2 has a paralog, NGL3, that arose from the whole genome duplication
-S000033818	CDS					YMR285C		13	841691	840144	C		2011-02-03	1996-07-31	
-S000004899	ORF	Verified	YMR286W	MRPL33	mitochondrial 54S ribosomal protein YmL33|YmL33	chromosome 13	L000002530|L000001170	13	841942	842202	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000034015	CDS					YMR286W		13	841942	842202	W		2011-02-03	1996-07-31	
-S000004900	ORF	Verified	YMR287C	DSS1	MSU1	chromosome 13	L000001208	13	845345	842436	C		2011-02-03	1996-07-31	3'-5' exoribonuclease; component of the mitochondrial degradosome along with the ATP-dependent RNA helicase Suv3p; the degradosome associates with the ribosome and mediates turnover of aberrant or unprocessed RNAs
-S000034048	CDS					YMR287C		13	845345	842436	C		2011-02-03	1996-07-31	
-S000004901	ORF	Verified	YMR288W	HSH155	U2 snRNP complex subunit HSH155	chromosome 13		13	845571	848486	W		2011-02-03	1996-07-31	U2-snRNP associated splicing factor; forms extensive associations with the branch site-3' splice site-3' exon region upon prespliceosome formation; similarity to the mammalian U2 snRNP-associated splicing factor SAP155
-S000035070	CDS					YMR288W		13	845571	848486	W		2011-02-03	1996-07-31	
-S000004902	ORF	Verified	YMR289W	ABZ2	aminodeoxychorismate lyase ABZ2	chromosome 13		13	848685	849809	W		2011-02-03	1996-07-31	Aminodeoxychorismate lyase (4-amino-4-deoxychorismate lyase); catalyzes the third step in para-aminobenzoic acid biosynthesis; involved in folic acid biosynthesis
-S000035264	CDS					YMR289W		13	848685	849809	W		2011-02-03	1996-07-31	
-S000004904	ORF	Dubious	YMR290W-A			chromosome 13		13	851422	851769	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 5' end of essential HAS1/YMR290C gene which encodes an ATP-dependent RNA helicase
-S000037856	CDS					YMR290W-A		13	851422	851769	W		2011-02-03	1996-07-31|2011-02-03	
-S000004903	ORF	Verified	YMR290C	HAS1	ATP-dependent RNA helicase HAS1	chromosome 13	L000004179	13	851591	850074	C		2011-02-03	1996-07-31	ATP-dependent RNA helicase; involved in the biogenesis of 40S and 60S ribosome subunits; localizes to both the nuclear periphery and nucleolus; highly enriched in nuclear pore complex fractions; constituent of 66S pre-ribosomal particles
-S000036112	CDS					YMR290C		13	851591	850074	C		2011-02-03	1996-07-31	
-S000004905	ORF	Verified	YMR291W	TDA1	protein kinase TDA1	chromosome 13		13	852630	854390	W		2011-02-03	1996-07-31	Protein kinase of unknown cellular role; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; null mutant is sensitive to expression of the top1-T722A allele; not an essential gene; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000036939	CDS					YMR291W		13	852630	854390	W		2011-02-03	1996-07-31	
-S000004906	ORF	Verified	YMR292W	GOT1		chromosome 13	L000004951	13	854795	855293	W		2011-02-03	1996-07-31	Homodimeric protein that is packaged into COPII vesicles; cycles between the ER and Golgi; involved in secretory transport but not directly required for aspects of transport assayed in vitro; may influence membrane composition
-S000037002	CDS					YMR292W		13	854795	854816	W		2011-02-03	1996-07-31	
-S000037003	CDS					YMR292W		13	854899	855293	W		2011-02-03	1996-07-31	
-S000037004	intron					YMR292W		13	854817	854898	W		2011-02-03	1996-07-31	
-S000004907	ORF	Verified	YMR293C	HER2	QRS1|glutamyl-tRNA(Gln) amidotransferase subunit HER2|RRG6|GEP6|LRC6	chromosome 13	S000124020	13	856793	855399	C		2011-02-03	1996-07-31	Subunit of the trimeric GatFAB AmidoTransferase(AdT) complex; involved in the formation of Q-tRNAQ; required for remodeling of ER caused by Hmg2p overexpression; similar to bacterial GatA glutamyl-tRNA amidotransferase
-S000037041	CDS					YMR293C		13	856793	855399	C		2011-02-03	1996-07-31	
-S000004908	ORF	Verified	YMR294W	JNM1	PAC3|INS1	chromosome 13	L000000884	13	856966	858087	W		2011-02-03	1996-07-31	Component of the yeast dynactin complex; consisting of Nip100p, Jnm1p, and Arp1p; required for proper nuclear migration and spindle partitioning during mitotic anaphase B
-S000037827	CDS					YMR294W		13	856966	858087	W		2011-02-03	1996-07-31	
-S000004909	ORF	Dubious	YMR294W-A			chromosome 13		13	858209	858568	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; substantially overlaps YMR295C; deletion causes sensitivity to unfolded protein response-inducing agents
-S000031101	CDS					YMR294W-A		13	858209	858568	W		2011-02-03	1996-07-31	
-S000004910	ORF	Verified	YMR295C		IBI2	chromosome 13		13	858890	858297	C		2011-02-03	1996-07-31	Protein of unknown function that associates with ribosomes; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and bud; not an essential gene; protein abundance increases in response to DNA replication stress; YMR295C has a paralog, YGR273C, that arose from the whole genome duplication
-S000037861	CDS					YMR295C		13	858890	858297	C		2011-02-03	1996-07-31	
-S000004911	ORF	Verified	YMR296C	LCB1	serine C-palmitoyltransferase LCB1|TSC2|END8	chromosome 13	L000000934	13	860891	859215	C		2011-02-03	1996-07-31	Component of serine palmitoyltransferase; responsible along with Lcb2p for the first committed step in sphingolipid synthesis, which is the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine
-S000029901	CDS					YMR296C		13	860891	859215	C		2011-02-03	1996-07-31	
-S000004912	ORF	Verified	YMR297W	PRC1	CPY1|carboxypeptidase C PRC1|CPY|LBC1	chromosome 13	L000001481	13	861922	863520	W	210	2011-02-03	1996-07-31	Vacuolar carboxypeptidase Y (proteinase C, CPY); broad-specificity C-terminal exopeptidase involved in non-specific protein degradation in the vacuole; member of the serine carboxypeptidase family
-S000030979	CDS					YMR297W		13	861922	863520	W		2011-02-03	1996-07-31	
-S000004913	ORF	Verified	YMR298W	LIP1	sphingosine N-acyltransferase subunit LIP1	chromosome 13		13	863819	864271	W		2011-02-03	1996-07-31	Ceramide synthase subunit; single-span ER membrane protein associated with Lag1p and Lac1p and required for ceramide synthase activity, null mutant grows extremely slowly and is defective in ceramide synthesis
-S000031080	CDS					YMR298W		13	863819	864271	W		2011-02-03	1996-07-31	
-S000004914	ORF	Verified	YMR299C	DYN3	dynein light intermediate chain	chromosome 13		13	865350	864412	C		2011-02-03	1996-07-31|2011-02-03	Dynein light intermediate chain (LIC); localizes with dynein, null mutant is defective in nuclear migration
-S000031115	CDS					YMR299C		13	865350	864412	C		2011-02-03	1996-07-31|2011-02-03	
-S000004915	ORF	Verified	YMR300C	ADE4	amidophosphoribosyltransferase	chromosome 13	L000000034	13	867091	865559	C	213	2011-02-03	1996-07-31	Phosphoribosylpyrophosphate amidotransferase (PRPPAT); catalyzes first step of the 'de novo' purine nucleotide biosynthetic pathway; also known as amidophosphoribosyltransferase
-S000036627	CDS					YMR300C		13	867091	865559	C		2011-02-03	1996-07-31	
-S000004916	ORF	Verified	YMR301C	ATM1	ATP-binding cassette Fe/S cluster precursor transporter ATM1	chromosome 13	L000000140	13	869627	867555	C		2011-02-03	1996-07-31	Mitochondrial inner membrane ATP-binding cassette (ABC) transporter; exports mitochondrially synthesized precursors of iron-sulfur (Fe/S) clusters to the cytosol; human homolog ABCB7 can complement yeast null mutant
-S000036724	CDS					YMR301C		13	869627	867555	C		2011-02-03	1996-07-31	
-S000004917	ORF	Verified	YMR302C	YME2	PRP12|RNA12	chromosome 13	L000001503	13	872625	870073	C		2011-02-03	1996-07-31	Integral inner mitochondrial membrane protein; role in maintaining mitochondrial nucleoid structure and number; mutants exhibit an increased rate of mitochondrial DNA escape; shows some sequence similarity to exonucleases
-S000030571	CDS					YMR302C		13	872625	870073	C		2011-02-03	1996-07-31	
-S000004918	ORF	Verified	YMR303C	ADH2	alcohol dehydrogenase ADH2|ADR2	chromosome 13	L000000042|L000000051	13	874337	873291	C	216	2011-02-03	1996-07-31	Glucose-repressible alcohol dehydrogenase II; catalyzes the conversion of ethanol to acetaldehyde; involved in the production of certain carboxylate esters; regulated by ADR1
-S000030697	CDS					YMR303C		13	874337	873291	C		2011-02-03	1996-07-31	
-S000004920	ORF	Verified	YMR304W	UBP15	ubiquitin-specific protease UBP15	chromosome 13	L000004589	13	874987	878679	W		2011-02-03	1996-07-31	Ubiquitin-specific protease involved in protein deubiquitination; forms a complex with AAA peroxins Pex1p and Pex6p; deubiquitinates mono- and polyubiquitinated forms of Pex5p; deubiquitinates Clb5p, counteracting APC activity, and facilitating both Clb5p accumulation and S phase entry; physically interacts with anaphase-promoting complex/cyclosome (APC/C) activator, Cdh1p; catalytic activity regulated by an N-terminal TRAF-like domain and and C-terminal sequences
-S000030883	CDS					YMR304W		13	874987	878679	W		2011-02-03	1996-07-31	
-S000004919	ORF	Dubious	YMR304C-A			chromosome 13		13	879130	878780	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps 3' end of verified ORF SCW10/YMR305C
-S000037462	CDS					YMR304C-A		13	879130	878780	C		2011-02-03	1996-07-31	
-S000004921	ORF	Verified	YMR305C	SCW10	putative family 17 glucosidase	chromosome 13		13	880232	879063	C		2011-02-03	1996-07-31	Cell wall protein with similarity to glucanases; may play a role in conjugation during mating based on mutant phenotype and its regulation by Ste12p; SWC10 has a paralog, SCW4, that arose from the whole genome duplication
-S000031740	CDS					YMR305C		13	880232	879063	C		2011-02-03	1996-07-31	
-S000004923	ORF	Verified	YMR306W	FKS3	putative 1,3-beta-D-glucan synthase	chromosome 13	L000004080	13	881159	886516	W		2011-02-03	1996-07-31	Protein involved in spore wall assembly; has similarity to 1,3-beta-D-glucan synthase catalytic subunits Fks1p and Gsc2p; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000032042	CDS					YMR306W		13	881159	886516	W		2011-02-03	1996-07-31	
-S000004922	ORF	Dubious	YMR306C-A			chromosome 13		13	886572	886183	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps 3' end of ORF FKS3/YMR306W
-S000034582	CDS					YMR306C-A		13	886572	886183	C		2011-02-03	1996-07-31	
-S000004924	ORF	Verified	YMR307W	GAS1	1,3-beta-glucanosyltransferase GAS1|GGP1|CWH52	chromosome 13	L000000669	13	887003	888682	W		2011-02-03	1997-07-17	Beta-1,3-glucanosyltransferase; required for cell wall assembly and also has a role in transcriptional silencing; localizes to cell surface via a glycosylphosphatidylinositol (GPI) anchor; also found at nuclear periphery; genetic interactions with histone H3 lysine acetyltransferases GCN5 and SAS3 indicate previously unsuspected functions for Gas1 in DNA damage response and cell cycle regulation
-S000032131	CDS					YMR307W		13	887003	888682	W		2011-02-03	1997-07-17	
-S000028578	ORF	Dubious	YMR307C-A			chromosome 13		13	887925	887731	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene GAS1/YMR307W
-S000031312	CDS					YMR307C-A		13	887925	887731	C		2011-02-03	2003-07-29	
-S000004925	ORF	Verified	YMR308C	PSE1	KAP121	chromosome 13	L000001519	13	892221	888952	C		2011-02-03	1996-07-31	Karyopherin/importin that interacts with the nuclear pore complex; acts as the nuclear import receptor for specific proteins, including Pdr1p, Yap1p, Ste12p, and Aft1p
-S000032994	CDS					YMR308C		13	892221	888952	C		2011-02-03	1996-07-31	
-S000004926	ORF	Verified	YMR309C	NIP1	translation initiation factor eIF3 core subunit c	chromosome 13	L000001252	13	895426	892988	C		2011-02-03	1996-07-31	eIF3c subunit of the eukaryotic translation initiation factor 3 (eIF3); involved in the assembly of preinitiation complex and start codon selection; eIF3 is also involved in programmed stop codon readthrough
-S000033088	CDS					YMR309C		13	895426	892988	C		2011-02-03	1996-07-31	
-S000004927	ORF	Uncharacterized	YMR310C		putative methyltransferase	chromosome 13		13	896669	895716	C		2011-02-03	1996-07-31	Putative methyltransferase; predicted to be involved in ribosome biogenesis; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; not an essential gene; YMR310C has a paralog, YGR283C, that arose from the whole genome duplication
-S000032818	CDS					YMR310C		13	896669	895716	C		2011-02-03	1996-07-31	
-S000004928	ORF	Verified	YMR311C	GLC8		chromosome 13	L000000707	13	897603	896914	C		2011-02-03	1996-07-31	Regulatory subunit of protein phosphatase 1 (Glc7p); involved in glycogen metabolism and chromosome segregation; proposed to regulate Glc7p activity via conformational alteration; ortholog of the mammalian protein phosphatase inhibitor 2; protein abundance increases in response to DNA replication stress
-S000034823	CDS					YMR311C		13	897603	896914	C		2011-02-03	1996-07-31	
-S000118381	ARS		ARS1332		ARSXIII-898	chromosome 13		13	897935	897985			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178164	ARS_consensus_sequence					ARS1332		13	897977	897961	C		2014-11-18	2014-11-18	
-S000004929	ORF	Verified	YMR312W	ELP6	Elongator subunit ELP6|KTI4|TOT6|HAP3	chromosome 13		13	898405	899226	W		2011-02-03	1996-07-31	Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; required for Elongator structural integrity
-S000035014	CDS					YMR312W		13	898405	899226	W		2011-02-03	1996-07-31	
-S000004930	ORF	Verified	YMR313C	TGL3	bifunctional triglyceride lipase/lysophosphatidylethanolamine acyltransferase	chromosome 13		13	901307	899379	C		2011-02-03	1996-07-31	Bifunctional triacylglycerol lipase and LPE acyltransferase; major lipid particle-localized triacylglycerol (TAG) lipase; catalyzes acylation of lysophosphatidylethanolamine (LPE), a function which is essential for sporulation; protein level and stability of Tgl3p are markedly reduced in the absence of lipid droplets; required with Tgl4p for timely bud formation
-S000035060	CDS					YMR313C		13	901307	899379	C		2011-02-03	1996-07-31	
-S000004931	ORF	Verified	YMR314W	PRE5	proteasome core particle subunit alpha 6	chromosome 13	L000001487	13	901709	902413	W		2011-02-03	1996-07-31	Alpha 6 subunit of the 20S proteasome; protein abundance increases in response to DNA replication stress
-S000035211	CDS					YMR314W		13	901709	902413	W		2011-02-03	1996-07-31	
-S000004932	ORF	Verified	YMR315W			chromosome 13		13	902800	903849	W		2011-02-03	1996-07-31	Protein with NADP(H) oxidoreductase activity; transcription is regulated by Stb5p in response to NADPH depletion induced by diamide; promoter contains a putative Stb5p binding site; protein abundance increases in response to DNA replication stress
-S000036057	CDS					YMR315W		13	902800	903849	W		2011-02-03	1996-07-31	
-S000028697	ORF	Uncharacterized	YMR315W-A			chromosome 13		13	904286	904393	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000032606	CDS					YMR315W-A		13	904286	904393	W		2011-02-03	2003-07-29	
-S000004935	ORF	Verified	YMR316W	DIA1		chromosome 13		13	904825	905835	W		2011-02-03	1996-07-31	Protein of unknown function; involved in invasive and pseudohyphal growth; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
-S000036198	CDS					YMR316W		13	904825	905835	W		2011-02-03	1996-07-31	
-S000004933	ORF	Uncharacterized	YMR316C-A			chromosome 13		13	905973	905662	C		2011-02-03	1996-07-31	Protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; mRNA identified as translated by ribosome profiling data; overlaps the verified gene DIA1/YMR316W
-S000036747	CDS					YMR316C-A		13	905973	905662	C		2011-02-03	1996-07-31	
-S000004936	ORF	Uncharacterized	YMR317W			chromosome 13		13	907364	910786	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; has some similarity to sialidase from Trypanosoma; YMR317W is not an essential gene
-S000031682	CDS					YMR317W		13	907364	910786	W		2011-02-03	1996-07-31|2011-02-03	
-S000004934	ORF	Dubious	YMR316C-B			chromosome 13		13	907629	907321	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps 5' end of ORF YMR317W
-S000036748	CDS					YMR316C-B		13	907629	907321	C		2011-02-03	1996-07-31	
-S000004937	ORF	Verified	YMR318C	ADH6	NADP-dependent alcohol dehydrogenase|ADHVI	chromosome 13		13	912143	911061	C		2011-02-03	1996-07-31	NADPH-dependent medium chain alcohol dehydrogenase; has broad substrate specificity; member of the cinnamyl family of alcohol dehydrogenases; may be involved in fusel alcohol synthesis or in aldehyde tolerance; protein abundance increases in response to DNA replication stress
-S000031726	CDS					YMR318C		13	912143	911061	C		2011-02-03	1996-07-31	
-S000004938	ORF	Verified	YMR319C	FET4		chromosome 13	L000000611	13	914538	912880	C		2011-02-03	1996-07-31	Low-affinity Fe(II) transporter of the plasma membrane
-S000031875	CDS					YMR319C		13	914538	912880	C		2011-02-03	1996-07-31	
-S000004939	ORF	Uncharacterized	YMR320W			chromosome 13		13	916746	917051	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR320W is not an essential gene
-S000036413	CDS					YMR320W		13	916746	917051	W		2011-02-03	1996-07-31	
-S000004940	ORF	Uncharacterized	YMR321C			chromosome 13		13	917896	917579	C		2011-02-03	1996-07-31	Putative protein of unknown function; proposed to be a palmitoylated membrane protein; YMR321C has a paralog, SAM4, that arose from a single-locus duplication
-S000036437	CDS					YMR321C		13	917896	917579	C		2011-02-03	1996-07-31	
-S000130193	ARS		ARS1333			chromosome 13		13	917896	918366			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000004941	ORF	Verified	YMR322C	SNO4	glutathione-independent methylglyoxalase family protein|HSP34	chromosome 13		13	919079	918366	C		2011-02-03	1996-07-31	Possible chaperone and cysteine protease; required for transcriptional reprogramming during the diauxic shift and for survival in stationary phase; similar to bacterial Hsp31 and yeast Hsp31p, Hsp32p, and Hsp33p; DJ-1/ThiJ/PfpI superfamily member; predicted involvement in pyridoxine metabolism; induced by mild heat stress and copper deprivation
-S000037082	CDS					YMR322C		13	919079	918366	C		2011-02-03	1996-07-31	
-S000004942	ORF	Verified	YMR323W	ERR3	phosphopyruvate hydratase ERR3	chromosome 13		13	920088	921401	W		2011-02-03	1996-07-31	Enolase, a phosphopyruvate hydratase; catalyzes the conversion of 2-phosphoglycerate to phosphoenolpyruvate; complements the growth defect of an ENO1 ENO2 double mutant in glucose
-S000037230	CDS					YMR323W		13	920088	921401	W		2011-02-03	1996-07-31	
-S000004943	ORF	Dubious	YMR324C			chromosome 13		13	922444	922202	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcription is AZF1 dependent in glycerol-lactate medium and SLT2 dependent in response to the lipid hydroperoxides
-S000037270	CDS					YMR324C		13	922444	922202	C		2011-02-03	1996-07-31	
-S000004944	ORF	Verified	YMR325W	PAU19	seripauperin PAU19	chromosome 13		13	922641	923015	W		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions
-S000037375	CDS					YMR325W		13	922641	923015	W		2011-02-03	1996-07-31	
-S000130194	ARS		ARS1335			chromosome 13		13	923015	923494			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000028989	telomere		TEL13R			chromosome 13		13	923541	924431	W	219	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XIII; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
-S000028990	telomeric_repeat					TEL13R		13	924307	924431	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome XIII
-S000028991	X_element					TEL13R		13	923541	924005	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XIII; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YMR326C
-S000028992	X_element_combinatorial_repeat					TEL13R		13	924006	924306	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XIII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000004945	ORF	Dubious	YMR326C			chromosome 13		13	923802	923494	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the telomere on the right arm of chromosome 13
-S000037400	CDS					YMR326C		13	923802	923494	C		2011-02-03	1996-07-31	
-S000028704	ORF	Dubious	YNL339W-B			chromosome 14		14	734	1216	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032643	CDS					YNL339W-B		14	734	1216	W		2003-07-29	2003-07-29	
-S000028703	ORF	Dubious	YNL339W-A			chromosome 14		14	1517	2092	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032637	CDS					YNL339W-A		14	1517	2092	W		2003-07-29	2003-07-29	
-S000005283	ORF	Verified	YNL339C	YRF1-6	Y' element ATP-dependent helicase protein 1 copy 6|YRF1	chromosome 14		14	6098	371	C		1996-07-31	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
-S000031358	CDS					YNL339C		14	5931	371	C		1996-07-31	1996-07-31	
-S000031357	CDS					YNL339C		14	6098	6080	C		1996-07-31	1996-07-31	
-S000031359	intron					YNL339C		14	6079	5932	C		1996-07-31	1996-07-31	
-S000005282	ORF	Dubious	YNL338W			chromosome 14		14	6561	6719	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps TEL14L-XC, which is a telomeric X element core sequence on the left arm of chromosome XIV
-S000030505	CDS					YNL338W		14	6561	6719	W		1996-07-31	1996-07-31	
-S000005281	ORF	Dubious	YNL337W			chromosome 14		14	7165	7419	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030361	CDS					YNL337W		14	7165	7419	W		1996-07-31	1996-07-31	
-S000028924	telomere		TEL14L			chromosome 14		14	7428	1	C	-238	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XIV; composed of an X element core sequence, X element combinatorial repeats, a short stretch of telomeric repeats, and a long Y' element
-S000028925	telomeric_repeat					TEL14L		14	6691	6618	C		2003-09-09	2003-09-09	Internal telomeric repeats on the left arm of Chromosome XIV; spans ORF YNL338W
-S000028926	X_element					TEL14L		14	7428	6964	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XIV; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YNL337W
-S000028927	X_element_combinatorial_repeat					TEL14L		14	6963	6692	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XIV; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000028928	Y_prime_element					TEL14L		14	6617	1	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome XIV; contains an ARS consensus sequence, a region of 36-bp repeats, and three ORFs (YRF1-6/YNL339C, YNL339W-A, YNL339W-B)
-S000005280	ORF	Verified	YNL336W	COS1		chromosome 14	L000004060	14	8330	9475	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000030202	CDS					YNL336W		14	8330	9475	W		1996-07-31	1996-07-31	
-S000005279	ORF	Verified	YNL335W	DDI3	cyanamide hydratase	chromosome 14		14	11452	12129	W		1996-07-31	1996-07-31	Cyanamide hydratase that detoxifies cyanamide; member of the HD domain metalloprotein superfamily; expression is induced over 100-fold by cyanamide and by SN2-type DNA alkylating agents such as MMS and DMA; induction decreased in rad6 and rad18 mutants; gene and protein are identical to DDI2 and Ddi2p
-S000037479	CDS					YNL335W		14	11452	12129	W		1996-07-31	1996-07-31	
-S000005278	ORF	Verified	YNL334C	SNO2	putative pyridoxal 5'-phosphate synthase	chromosome 14	L000003452	14	12876	12208	C		1996-07-31	1996-07-31	Protein of unknown function; nearly identical to Sno3p; expression is induced before the diauxic shift and also in the absence of thiamin
-S000037293	CDS					YNL334C		14	12876	12208	C		1996-07-31	1996-07-31	
-S000005277	ORF	Verified	YNL333W	SNZ2	pyridoxine biosynthesis protein SNZ2	chromosome 14	L000002576	14	13267	14163	W		1996-07-31	1996-07-31	Member of a stationary phase-induced gene family; transcription of SNZ2 is induced prior to diauxic shift, and also in the absence of thiamin in a Thi2p-dependent manner; forms a coregulated gene pair with SNO2; interacts with Thi11p
-S000037255	CDS					YNL333W		14	13267	14163	W		1996-07-31	1996-07-31	
-S000005276	ORF	Verified	YNL332W	THI12	4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase	chromosome 14	L000003223	14	14832	15854	W		1996-07-31	1996-07-31	Protein involved in synthesis of the thiamine precursor HMP; member of a subtelomeric gene family including THI5, THI11, THI12, and THI13; hydroxymethylpyrimidine is also known as HMP
-S000036570	CDS					YNL332W		14	14832	15854	W		1996-07-31	1996-07-31	
-S000005275	ORF	Verified	YNL331C	AAD14	putative aryl-alcohol dehydrogenase	chromosome 14	L000004676	14	17248	16118	C		1996-07-31	1996-07-31	Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
-S000036424	CDS					YNL331C		14	17248	16118	C		1996-07-31	1996-07-31	
-S000005274	ORF	Verified	YNL330C	RPD3	histone deacetylase RPD3|MOF6|SDS6|SDI2|REC3	chromosome 14	L000001696|L000001603	14	19302	18001	C	-237	1996-07-31	1996-07-31	Histone deacetylase, component of both the Rpd3S and Rpd3L complexes; regulates transcription, silencing, autophagy and other processes by influencing chromatin remodeling; forms at least two different complexes which have distinct functions and members; Rpd3(L) recruitment to the subtelomeric region is regulated by interaction with the arginine methyltransferase, Hmt1p
-S000036315	CDS					YNL330C		14	19302	18001	C		1996-07-31	1996-07-31	
-S000005273	ORF	Verified	YNL329C	PEX6	AAA family ATPase peroxin 6|PAS8	chromosome 14	L000001341	14	22633	19541	C		1996-07-31	1996-07-31	AAA-peroxin; heterodimerizes with AAA-peroxin Pex1p and participates in the recycling of peroxisomal signal receptor Pex5p from the peroxisomal membrane to the cystosol; mutations in human PEX6 can lead to severe peroxisomal disorders and early death
-S000034361	CDS					YNL329C		14	22633	19541	C		1996-07-31	1996-07-31	
-S000005272	ORF	Verified	YNL328C	MDJ2		chromosome 14	L000004357	14	23274	22834	C		1996-07-31	1996-07-31	Constituent of the mitochondrial import motor; associated with the presequence translocase; function overlaps with that of Pam18p; stimulates the ATPase activity of Ssc1p to drive mitochondrial import; contains a J domain
-S000034238	CDS					YNL328C		14	23274	22834	C		1996-07-31	1996-07-31	
-S000005271	ORF	Verified	YNL327W	EGT2		chromosome 14	L000004074	14	24048	27173	W		2011-02-03	1996-07-31|2011-02-03	Glycosylphosphatidylinositol (GPI)-anchored cell wall endoglucanase; required for proper cell separation after cytokinesis; expression is activated by Swi5p and tightly regulated in a cell cycle-dependent manner
-S000034184	CDS					YNL327W		14	24048	27173	W		2011-02-03	1996-07-31|2011-02-03	
-S000005270	ORF	Verified	YNL326C	PFA3	palmitoyltransferase PFA3	chromosome 14		14	28347	27337	C		2011-02-03	1996-07-31	Palmitoyltransferase for Vac8p; required for vacuolar membrane fusion; contains an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; autoacylates; required for vacuolar integrity under stress conditions
-S000033265	CDS					YNL326C		14	28347	27337	C		2011-02-03	1996-07-31	
-S000118382	ARS		ARS1405		ARSXIV-29	chromosome 14		14	28469	28700			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178165	ARS_consensus_sequence					ARS1405		14	28654	28638	C		2014-11-18	2014-11-18	
-S000005268	ORF	Dubious	YNL324W			chromosome 14		14	31050	31445	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033183	CDS					YNL324W		14	31050	31445	W		2011-02-03	1996-07-31	
-S000005269	ORF	Verified	YNL325C	FIG4	phosphatidylinositol-3,5-bisphosphate 5-phosphatase	chromosome 14	L000003583	14	31378	28739	C		2011-02-03	1996-07-31	Phosphatidylinositol 3,5-bisphosphate (PtdIns[3,5]P) phosphatase; required for efficient mating and response to osmotic shock; physically associates with and regulated by Vac14p; contains a SAC1-like domain; homologous to human FIG4, which is associated with CMT4J, a form of Charcot-Marie-Tooth disorder
-S000033213	CDS					YNL325C		14	31378	28739	C		2011-02-03	1996-07-31	
-S000005267	ORF	Verified	YNL323W	LEM3	ROS3|BRE3	chromosome 14		14	31944	33188	W		2011-02-03	1996-07-31	Membrane protein of the plasma membrane and ER; interacts specifically in vivo with the phospholipid translocase (flippase) Dnf1p; involved in translocation of phospholipids and alkylphosphocholine drugs across the plasma membrane; null mutant requires tryptophan due to mislocalization of tryptophan permease Tat2p
-S000033125	CDS					YNL323W		14	31944	33188	W		2011-02-03	1996-07-31	
-S000005266	ORF	Verified	YNL322C	KRE1		chromosome 14	L000000912	14	34235	33294	C	-235	2011-02-03	1996-07-31	Cell wall glycoprotein involved in beta-glucan assembly; serves as a K1 killer toxin membrane receptor
-S000032211	CDS					YNL322C		14	34235	33294	C		2011-02-03	1996-07-31	
-S000005265	ORF	Verified	YNL321W	VNX1		chromosome 14		14	34696	37422	W		2011-02-03	1996-07-31	Calcium/H+ antiporter localized to the endoplasmic reticulum membrane; member of the calcium exchanger (CAX) family; potential Cdc28p substrate
-S000032167	CDS					YNL321W		14	34696	37422	W		2011-02-03	1996-07-31	
-S000005264	ORF	Uncharacterized	YNL320W			chromosome 14		14	37700	38554	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000032112	CDS					YNL320W		14	37700	38554	W		2011-02-03	1996-07-31	
-S000005263	ORF	Dubious	YNL319W			chromosome 14		14	38642	39082	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene HXT14
-S000031153	CDS					YNL319W		14	38642	39082	W		2011-02-03	1996-07-31	
-S000005262	ORF	Verified	YNL318C	HXT14		chromosome 14	L000002762	14	40329	38707	C		2011-02-03	1996-07-31	Protein with similarity to hexose transporter family members; expression is induced in low glucose and repressed in high glucose; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000030981	CDS					YNL318C		14	40329	38707	C		2011-02-03	1996-07-31	
-S000005261	ORF	Verified	YNL317W	PFS2	cleavage polyadenylation factor subunit PFS2	chromosome 14		14	40619	42016	W		2011-02-03	1996-07-31	Integral subunit of the pre-mRNA CPF complex; the cleavage and polyadenylation factor (CPF) complex plays an essential role in mRNA 3'-end formation by bridging different processing factors and thereby promoting the assembly of the processing complex
-S000030052	CDS					YNL317W		14	40619	42016	W		2011-02-03	1996-07-31	
-S000005260	ORF	Verified	YNL316C	PHA2	prephenate dehydratase PHA2	chromosome 14	L000001414	14	43075	42071	C	-227	2011-02-03	2003-09-22|1996-07-31	Prephenate dehydratase; catalyzes the conversion of prephanate to phenylpyruvate, which is a step in the phenylalanine biosynthesis pathway
-S000029856	CDS					YNL316C		14	43075	42071	C		2011-02-03	2003-09-22|1996-07-31	
-S000005259	ORF	Verified	YNL315C	ATP11		chromosome 14	L000000148	14	44280	43324	C		2011-02-03	1996-07-31	Molecular chaperone; required for the assembly of alpha and beta subunits into the F1 sector of mitochondrial F1F0 ATP synthase; N-terminally propionylated in vivo
-S000037828	CDS					YNL315C		14	44280	43324	C		2011-02-03	1996-07-31	
-S000005258	ORF	Verified	YNL314W	DAL82	DURM	chromosome 14	L000000482	14	44447	45214	W		2011-02-03	1996-07-31	Positive regulator of allophanate inducible genes; binds a dodecanucleotide sequence upstream of all genes that are induced by allophanate; contains an UISALL DNA-binding, a transcriptional activation, and a coiled-coil domain
-S000037152	CDS					YNL314W		14	44447	45214	W		2011-02-03	1996-07-31	
-S000005257	ORF	Verified	YNL313C	EMW1	tetratricopeptide repeat-containing protein EMW1	chromosome 14		14	48022	45308	C		2011-02-03	1996-07-31	Essential conserved protein with a role in cell wall integrity; contains six TPR (tetratricopeptide repeat) domains clustered in the C-terminal region; conditional mutant is suppressed by overexpression of GFA1; protein abundance increases in response to DNA replication stress
-S000037005	CDS					YNL313C		14	48022	45308	C		2011-02-03	1996-07-31	
-S000005256	ORF	Verified	YNL312W	RFA2	RPA32|RPA2|BUF1	chromosome 14	L000000203|L000001621	14	48287	49216	W		2011-02-03	1996-07-31	Subunit of heterotrimeric Replication Protein A (RPA); RPA is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination; RPA protects against inappropriate telomere recombination, and upon telomere uncapping, prevents cell proliferation by a checkpoint-independent pathway; in concert with Sgs1p-Top2p-Rmi1p, stimulates DNA catenation/decatenation activity of Top3p; protein abundance increases in response to DNA replication s
-S000036978	CDS					YNL312W		14	48287	48293	W		2011-02-03	1996-07-31	
-S000036979	CDS					YNL312W		14	48402	49216	W		2011-02-03	1996-07-31	
-S000036980	intron					YNL312W		14	48294	48401	W		2011-02-03	1996-07-31	
-S000005255	ORF	Verified	YNL311C	SKP2	putative SCF ubiquitin ligase complex subunit SKP2	chromosome 14		14	51688	49397	C		2011-02-03	1996-07-31	F-box protein of unknown function; predicted to be part of an SCF ubiquitin protease complex; involved in regulating protein levels of sulfur metabolism enzymes; may interact with ribosomes, based on co-purification experiments
-S000036212	CDS					YNL311C		14	51688	49397	C		2011-02-03	1996-07-31	
-S000005254	ORF	Verified	YNL310C	ZIM17	HEP1|TIM15|FMP28	chromosome 14		14	52431	51907	C		2011-02-03	1996-07-31|2006-05-10	Protein co-chaperone with a zinc finger motif; essential for protein import into mitochondria; may act with Pam18p to facilitate recognition and folding of imported proteins by Ssc1p (mtHSP70) in the mitochondrial matrix; required for the maintenance of Ssc1p solubility and assists in the functional interaction of Ssc1p with substrate proteins
-S000036042	CDS					YNL310C		14	52431	51907	C		2011-02-03	1996-07-31|2006-05-10	
-S000005253	ORF	Verified	YNL309W	STB1		chromosome 14	L000002107	14	52662	53924	W		2011-02-03	2003-09-22|1996-07-31	Protein with role in regulation of MBF-specific transcription at Start; phosphorylated by Cln-Cdc28p kinases in vitro; unphosphorylated form binds Swi6p, which is required for Stb1p function; expression is cell-cycle regulated; STB1 has a paralog, YOL131W, that arose from the whole genome duplication
-S000035181	CDS					YNL309W		14	52662	53924	W		2011-02-03	2003-09-22|1996-07-31	
-S000005252	ORF	Verified	YNL308C	KRI1		chromosome 14	S000007481	14	55897	54122	C		2011-02-03	1996-07-31	Essential nucleolar protein required for 40S ribosome biogenesis; associate with snR30; physically and functionally interacts with Krr1p
-S000034918	CDS					YNL308C		14	55897	54122	C		2011-02-03	1996-07-31	
-S000005251	ORF	Verified	YNL307C	MCK1	serine/threonine/tyrosine protein kinase MCK1|CMS1|YPK1	chromosome 14	L000001036|S000029094|L000000369	14	57573	56446	C		1996-07-31	1996-07-31	Dual-specificity ser/thr and tyrosine protein kinase; roles in chromosome segregation, meiotic entry, genome stability, phosphorylation-dependent protein degradation (Rcn1p and Cdc6p), inhibition of protein kinase A, transcriptional regulation, inhibition of RNA pol III, calcium stress and inhibition of Clb2p-Cdc28p after nuclear division; MCK1 has a paralog, YGK3, that arose from the whole genome duplication
-S000034016	CDS					YNL307C		14	57573	56446	C		1996-07-31	1996-07-31	
-S000005250	ORF	Verified	YNL306W	MRPS18	mitochondrial 37S ribosomal protein YmS18|YmS18	chromosome 14		14	58155	58808	W		1996-07-31	1996-07-31	Mitochondrial ribosomal protein of the small subunit; essential for viability, unlike most other mitoribosomal proteins
-S000033967	CDS					YNL306W		14	58155	58808	W		1996-07-31	1996-07-31	
-S000005249	ORF	Verified	YNL305C	BXI1	YBH3	chromosome 14		14	59791	58898	C		1996-07-31	1996-07-31	Protein involved in apoptosis; variously described as containing a BCL-2 homology (BH3) domain or as a member of the BAX inhibitor family; reported to promote apoptosis under some conditions and to inhibit it in others; localizes to ER and vacuole; may link the unfolded protein response to apoptosis via regulation of calcium-mediated signaling; translocates to mitochondria under apoptosis-inducing conditions in a process involving Mir1p and Cor1p
-S000033769	CDS					YNL305C		14	59791	58898	C		1996-07-31	1996-07-31	
-S000005248	ORF	Verified	YNL304W	YPT11	Rab family GTPase YPT11	chromosome 14		14	60297	61550	W		2005-11-07	1996-07-31|2005-11-07	Rab GTPase; Myo2p-binding protein implicated in mother-to-bud transport of cortical endoplasmic reticulum (ER), late Golgi, and mitochondria during cell division; function is regulated at multiple levels; abundance of active Ypt11p forms is controlled by phosphorylation status and degradation; normally a low-abundance protein whose ER localization is only detected when protein is highly over expressed
-S000033723	CDS					YNL304W		14	60297	61550	W		2005-11-07	1996-07-31|2005-11-07	
-S000005247	ORF	Dubious	YNL303W			chromosome 14		14	61510	61857	W		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033069	CDS					YNL303W		14	61510	61857	W		2005-11-07	1996-07-31	
-S000118383	ARS		ARS1406		ARSXIV-62	chromosome 14		14	61599	61895			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000178166	ARS_consensus_sequence					ARS1406		14	61694	61710	W		2014-11-18	2014-11-18	
-S000005246	ORF	Verified	YNL302C	RPS19B	eS19|ribosomal 40S subunit protein S19B|S19e|rp55B|YS16B|S19B|S16aB|RP55B	chromosome 14	L000002703|L000002725	14	62943	61958	C		2005-11-07	1996-07-31	Protein component of the small (40S) ribosomal subunit; required for assembly and maturation of pre-40 S particles; homologous to mammalian ribosomal protein S19, no bacterial homolog; mutations in human RPS19 are associated with Diamond Blackfan anemia; RPS19B has a paralog, RPS19A, that arose from the whole genome duplication
-S000032915	CDS					YNL302C		14	62372	61958	C		2005-11-07	1996-07-31	
-S000032914	CDS					YNL302C		14	62943	62924	C		2005-11-07	1996-07-31	
-S000032916	intron					YNL302C		14	62923	62373	C		2005-11-07	1996-07-31	
-S000005245	ORF	Verified	YNL301C	RPL18B	eL18|ribosomal 60S subunit protein L18B|L18e|rp28B|L18B|RP28B	chromosome 14	L000002702	14	64562	63570	C		2005-11-07	1996-07-31	Ribosomal 60S subunit protein L18B; homologous to mammalian ribosomal protein L18, no bacterial homolog; RPL18B has a paralog, RPL18A, that arose from the whole genome duplication
-S000032846	CDS					YNL301C		14	64018	63570	C		2005-11-07	1996-07-31	
-S000032845	CDS					YNL301C		14	64562	64451	C		2005-11-07	1996-07-31	
-S000032847	intron					YNL301C		14	64450	64019	C		2005-11-07	1996-07-31	
-S000005244	ORF	Uncharacterized	YNL300W	TOS6		chromosome 14		14	65744	66052	W		2005-11-07	1996-07-31	Glycosylphosphatidylinositol-dependent cell wall protein; expression is periodic and decreases in respone to ergosterol perturbation or upon entry into stationary phase; depletion increases resistance to lactic acid
-S000032776	CDS					YNL300W		14	65744	66052	W		2005-11-07	1996-07-31	
-S000005243	ORF	Verified	YNL299W	TRF5	non-canonical poly(A) polymerase TRF5	chromosome 14	L000003385	14	66517	68445	W		2005-11-07	1996-07-31|2005-11-03	Non-canonical poly(A) polymerase; involved in nuclear RNA degradation as a component of the TRAMP complex; catalyzes polyadenylation of hypomodified tRNAs, and snoRNA and rRNA precursors; overlapping but non-redundant functions with Pap2p
-S000035690	CDS					YNL299W		14	66517	68445	W		2005-11-07	1996-07-31|2005-11-03	
-S000005242	ORF	Verified	YNL298W	CLA4	serine/threonine protein kinase CLA4|ERC10	chromosome 14	L000000564|L000002643	14	68915	71443	W		2005-11-07	1996-07-31	Cdc42p-activated signal transducing kinase; member of the PAK (p21-activated kinase) family, along with Ste20p and Skm1p; involved in septin ring assembly, vacuole inheritance, cytokinesis, sterol uptake regulation; phosphorylates Cdc3p and Cdc10p; CLA4 has a paralog, SKM1, that arose from the whole genome duplication
-S000035601	CDS					YNL298W		14	68915	71443	W		2005-11-07	1996-07-31	
-S000005240	ORF	Dubious	YNL296W			chromosome 14		14	76273	76587	W		2005-11-07	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; deletion adversely affects sporulation; deletion mutant exhibits synthetic phenotype under expression of mutant huntingtin fragment, but gene does not have human ortholog
-S000034476	CDS					YNL296W		14	76273	76587	W		2005-11-07	1996-07-31	
-S000005241	ORF	Verified	YNL297C	MON2	YSL2	chromosome 14		14	76583	71673	C		2005-11-07	1996-07-31	Protein with a role in endocytosis and vacuole integrity; peripheral membrane protein; interacts with and negatively regulates Arl1p; localizes to the endosome; member of the Sec7p family of proteins
-S000034548	CDS					YNL297C		14	76583	71673	C		2005-11-07	1996-07-31	
-S000005239	ORF	Uncharacterized	YNL295W	MRX6		chromosome 14		14	76946	78520	W		2005-11-07	1996-07-31	Protein that associates with mitochondrial ribosome
-S000034395	CDS					YNL295W		14	76946	78520	W		2005-11-07	1996-07-31	
-S000005238	ORF	Verified	YNL294C	RIM21	PAL2	chromosome 14		14	80260	78659	C		2005-11-07	1996-07-31	pH sensor molecule, component of the RIM101 pathway; has a role in cell wall construction and alkaline pH response; is glycosylated and phosphorylated; interacts with Dfg16p and Rim9p to form a pH-sensing complex; localization to the plasma membrane is dependent on Dfg16p and Rim9p; has similarity to A. nidulans PalH
-S000033436	CDS					YNL294C		14	80260	78659	C		2005-11-07	1996-07-31	
-S000005237	ORF	Verified	YNL293W	MSB3	Rab GTPase-activating protein MSB3|GYP3	chromosome 14	L000003918	14	80640	82541	W		2005-11-07	1996-07-31	Rab GTPase-activating protein; regulates endocytosis via inactivation of Vps21p at endosomes and vacuole fusion via inactivation of Ypt7p at vacuoles; also acts on Ypt52p and Sec4p; localizes to plasma membrane, sites of polarized growth; relocalizes from bud neck to cytoplasm upon DNA replication stress; similar to TBC-domain Tre2 oncogene; MSB3 has a paralog, MSB4, that arose from the whole genome duplication; human homolog USP6NL can complement yeast msb3 msb4 double null
-S000033388	CDS					YNL293W		14	80640	82541	W		2005-11-07	1996-07-31	
-S000005236	ORF	Verified	YNL292W	PUS4	pseudouridine synthase PUS4	chromosome 14	L000003347	14	82806	84017	W		2005-11-07	1996-07-31	Pseudouridine synthase; catalyzes only the formation of pseudouridine-55 (Psi55), a highly conserved tRNA modification, in mitochondrial and cytoplasmic tRNAs; also responsible for pseudouracil modification of some mRNAs; PUS4 overexpression leads to translational derepression of GCN4 (Gcd- phenotype)
-S000033311	CDS					YNL292W		14	82806	84017	W		2005-11-07	1996-07-31	
-S000005235	ORF	Verified	YNL291C	MID1		chromosome 14	L000002584	14	85815	84169	C		2005-11-07	1996-07-31	N-glycosylated integral membrane protein of the ER and plasma membrane; functions as a stretch-activated Ca2+-permeable cation channel required for Ca2+ influx stimulated by pheromone; interacts with Cch1p; forms an oligomer
-S000033221	CDS					YNL291C		14	85815	84169	C		2005-11-07	1996-07-31	
-S000005234	ORF	Verified	YNL290W	RFC3	replication factor C subunit 3	chromosome 14	L000001624	14	86218	87240	W		2005-11-07	1996-07-31	Subunit of heteropentameric Replication factor C (RF-C); which is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon; relocalizes to the cytosol in response to hypoxia
-S000032410	CDS					YNL290W		14	86218	87240	W		2005-11-07	1996-07-31	
-S000005233	ORF	Verified	YNL289W	PCL1	HCS26	chromosome 14	L000002783	14	87897	88736	W		2005-11-07	1996-07-31	Cyclin, interacts with cyclin-dependent kinase Pho85p; member of the Pcl1,2-like subfamily, involved in the regulation of polarized growth and morphogenesis and progression through the cell cycle; is ubiquitinated by Dma1p; phosphorylation by Pho85p targets it for degradation; localizes to sites of polarized cell growth
-S000032399	CDS					YNL289W		14	87897	88736	W		2005-11-07	1996-07-31	
-S000007304	snoRNA_gene		snR40	SNR40		chromosome 14	L000003055	14	89210	89306	W		2005-11-07	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U898 and small subunit (SSU) rRNA at position G1271
-S000030610	noncoding_exon					snR40		14	89210	89306	W		2005-11-07	2000-05-19	
-S000118384	ARS		ARS1407		ARSXIV-90	chromosome 14		14	89531	89804			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000178167	ARS_consensus_sequence					ARS1407		14	89755	89739	C		2014-11-18	2014-11-18	
-S000005232	ORF	Verified	YNL288W	CAF40	CCR4-NOT core subunit CAF40	chromosome 14		14	90303	91424	W		2005-11-07	1996-07-31	Component of the CCR4-NOT transcriptional complex; evolutionarily conserved; involved in controlling mRNA initiation, elongation, and degradation; binds Cdc39p
-S000031389	CDS					YNL288W		14	90303	91424	W		2005-11-07	1996-07-31	
-S000005231	ORF	Verified	YNL287W	SEC21	coatomer subunit gamma	chromosome 14	L000001844	14	91994	94801	W		2005-11-07	1996-07-31	Gamma subunit of coatomer; coatomer is a heptameric protein complex that together with Arf1p forms the COPI coat; involved in ER to Golgi transport of selective cargo
-S000031285	CDS					YNL287W		14	91994	94801	W		2005-11-07	1996-07-31	
-S000005230	ORF	Verified	YNL286W	CUS2	U2 snRNP complex subunit CUS2	chromosome 14	L000003273	14	95223	96080	W		2005-11-07	1996-07-31	Putative checkpoint factor in transcription; binds to U2 snRNA and Prp11p; regulates toggling of the U2 snRNA stem II region between different structures; contains two RNA recognition motifs (RRMs)
-S000031155	CDS					YNL286W		14	95223	96080	W		2005-11-07	1996-07-31	
-S000005229	ORF	Dubious	YNL285W			chromosome 14		14	96173	96544	W		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030192	CDS					YNL285W		14	96173	96544	W		2005-11-07	1996-07-31	
-S000130140	ARS		ARS1409			chromosome 14		14	96247	96463			2009-05-06	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000006591	tRNA_gene		tG(UCC)N	SUF6		chromosome 14	L000003700|L000002154	14	96312	96241	C	-192	2005-11-07	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
-S000037566	noncoding_exon					tG(UCC)N		14	96312	96241	C		2005-11-07	2000-05-19	
-S000007140	long_terminal_repeat		YNLWtau1			chromosome 14		14	96451	96609	W		2005-11-07	2000-05-19	Ty4 LTR
-S000007129	long_terminal_repeat		YNLCdelta1			chromosome 14		14	96941	96610	C		2005-11-07	2000-05-19	Ty1 LTR
-S000007387	transposable_element_gene		YNL284C-B		gag-pol fusion protein	chromosome 14	S000029017	14	102232	96964	C		2005-11-07	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000031728	CDS					YNL284C-B		14	100926	96964	C		2005-11-07	1999-07-17	
-S000031727	CDS					YNL284C-B		14	102232	100928	C		2005-11-07	1999-07-17	
-S000031729	plus_1_translational_frameshift					YNL284C-B		14	100927	100927	C		2005-11-07	1999-07-17	
-S000007386	transposable_element_gene		YNL284C-A		gag protein	chromosome 14		14	102232	100910	C		2005-11-07	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000031717	CDS					YNL284C-A		14	102232	100910	C		2005-11-07	1999-07-17	
-S000007134	LTR_retrotransposon		YNLCTy1-1		Ty1	chromosome 14		14	102523	96610	C		2005-11-07	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007130	long_terminal_repeat		YNLCdelta2			chromosome 14		14	102523	102192	C		2005-11-07	2000-05-19	Ty1 LTR
-S000007133	long_terminal_repeat		YNLCsigma1			chromosome 14		14	102700	102632	C		2005-11-07	2000-05-19	Ty3 LTR
-S000006673	tRNA_gene		tN(GUU)N1			chromosome 14	L000003687	14	102716	102789	W		2005-11-07	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000035559	noncoding_exon					tN(GUU)N1		14	102716	102789	W		2005-11-07	2000-05-19	
-S000005228	ORF	Verified	YNL284C	MRPL10	mitochondrial 54S ribosomal protein YmL10/YmL18|YmL10|YmL18|MRPL18	chromosome 14	L000002689|S000029308|L000002685	14	104102	103134	C		2005-11-07	1996-07-31	Mitochondrial ribosomal protein of the large subunit; appears as two protein spots (YmL10 and YmL18) on two-dimensional SDS gels
-S000029964	CDS					YNL284C		14	104102	103134	C		2005-11-07	1996-07-31	
-S000006744	tRNA_gene		tT(AGU)N1			chromosome 14	L000003688	14	104805	104877	W		2005-11-07	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000037414	noncoding_exon					tT(AGU)N1		14	104805	104877	W		2005-11-07	2000-05-19	
-S000005227	ORF	Verified	YNL283C	WSC2	STA3	chromosome 14	L000004217	14	106695	105184	C		2005-11-07	1996-07-31	Sensor-transducer of the stress-activated PKC1-MPK1 signaling pathway; involved in maintenance of cell wall integrity and recovery from heat shock; required for the arrest of secretion response; WSC2 has a paralog, WSC3, that arose from the whole genome duplication
-S000037312	CDS					YNL283C		14	106695	105184	C		2005-11-07	1996-07-31	
-S000005226	ORF	Verified	YNL282W	POP3		chromosome 14	L000004338	14	107687	108274	W		2005-11-07	1996-07-31	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; relocalizes to the cytosol in response to hypoxia
-S000037263	CDS					YNL282W		14	107687	108274	W		2005-11-07	1996-07-31	
-S000005225	ORF	Verified	YNL281W	HCH1		chromosome 14	L000004817	14	108467	108928	W		2005-11-07	1996-07-31	Heat shock protein regulator; binds to Hsp90p and may stimulate ATPase activity; originally identified as a high-copy number suppressor of a HSP90 loss-of-function mutation; role in regulating Hsp90 inhibitor drug sensitivity; GFP-fusion protein localizes to the cytoplasm and nucleus; protein abundance increases in response to DNA replication stress
-S000037163	CDS					YNL281W		14	108467	108928	W		2005-11-07	1996-07-31	
-S000005224	ORF	Verified	YNL280C	ERG24	delta(14)-sterol reductase	chromosome 14	L000000580	14	110411	109095	C		2005-11-07	1996-07-31	C-14 sterol reductase; acts in ergosterol biosynthesis; mutants accumulate the abnormal sterol ignosterol (ergosta-8,14 dienol), and are viable under anaerobic growth conditions but inviable on rich medium under aerobic conditions
-S000037018	CDS					YNL280C		14	110411	109095	C		2005-11-07	1996-07-31	
-S000005223	ORF	Verified	YNL279W	PRM1	pheromone-regulated protein PRM1	chromosome 14		14	110917	112902	W		2005-11-07	1996-07-31	Pheromone-regulated multispanning membrane protein; involved in membrane fusion during mating; predicted to have 5 transmembrane segments and a coiled coil domain; localizes to the shmoo tip; regulated by Ste12p
-S000035312	CDS					YNL279W		14	110917	112902	W		2005-11-07	1996-07-31	
-S000005222	ORF	Verified	YNL278W	CAF120		chromosome 14		14	113271	116453	W		2005-11-07	1996-07-31	Part of the CCR4-NOT transcriptional regulatory complex; involved in controlling mRNA initiation, elongation, and degradation; contains a PH-like domain; CAF120 has a paralog, SKG3, that arose from the whole genome duplication
-S000035145	CDS					YNL278W		14	113271	116453	W		2005-11-07	1996-07-31	
-S000028852	ORF	Uncharacterized	YNL277W-A			chromosome 14		14	116679	116867	W		2005-11-07	2003-07-29	Putative protein of unknown function
-S000034565	CDS					YNL277W-A		14	116679	116867	W		2005-11-07	2003-07-29	
-S000005221	ORF	Verified	YNL277W	MET2	homoserine O-acetyltransferase	chromosome 14	L000001077	14	117349	118809	W	-187	2005-11-07	1996-07-31	L-homoserine-O-acetyltransferase; catalyzes the conversion of homoserine to O-acetyl homoserine which is the first step of the methionine biosynthetic pathway
-S000034987	CDS					YNL277W		14	117349	118809	W		2005-11-07	1996-07-31	
-S000005220	ORF	Dubious	YNL276C			chromosome 14		14	118826	118431	C		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene MET2/YNL277W
-S000033996	CDS					YNL276C		14	118826	118431	C		2005-11-07	1996-07-31	
-S000005219	ORF	Verified	YNL275W	BOR1		chromosome 14		14	119268	120998	W		2005-11-07	1996-07-31	Boron efflux transporter of the plasma membrane; binds HCO3-, I-, Br-, NO3- and Cl-; has similarity to the characterized boron efflux transporter A. thaliana BOR1
-S000033936	CDS					YNL275W		14	119268	120998	W		2005-11-07	1996-07-31	
-S000005218	ORF	Verified	YNL274C	GOR1	glyoxylate reductase	chromosome 14		14	122170	121118	C		2005-11-07	1996-07-31	Glyoxylate reductase; null mutation results in increased biomass after diauxic shift; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress
-S000033106	CDS					YNL274C		14	122170	121118	C		2005-11-07	1996-07-31	
-S000005217	ORF	Verified	YNL273W	TOF1		chromosome 14	L000004244	14	122883	126599	W		2005-11-07	1996-07-31	Subunit of a replication-pausing checkpoint complex; Tof1p-Mrc1p-Csm3p acts at the stalled replication fork to promote sister chromatid cohesion after DNA damage, facilitating gap repair of damaged DNA; interacts with the MCM helicase; relocalizes to the cytosol in response to hypoxia
-S000033053	CDS					YNL273W		14	122883	126599	W		2005-11-07	1996-07-31	
-S000130141	ARS		ARS1410			chromosome 14		14	126599	126805			2009-05-06	2009-05-06	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
-S000005216	ORF	Verified	YNL272C	SEC2	guanine nucleotide exchange factor SEC2	chromosome 14	L000001828	14	129084	126805	C	-176	2005-11-07	1996-07-31	Guanyl-nucleotide exchange factor for the small G-protein Sec4p; essential for post-Golgi vesicle transport and for autophagy; associates with the exocyst, via exocyst subunit Sec15p, on secretory vesicles
-S000032904	CDS					YNL272C		14	129084	126805	C		2005-11-07	1996-07-31	
-S000005215	ORF	Verified	YNL271C	BNI1	formin BNI1|SHE5|PPF3	chromosome 14	L000000190	14	135383	129522	C		2011-02-03	1996-07-31|2011-02-03	Formin; polarisome component; nucleates the formation of linear actin filaments, involved in cell processes such as budding and mitotic spindle orientation which require the formation of polarized actin cables; recruited to the division site in a Glc7p/Ref2p dependent manner following release of Bnr1p; functionally redundant with BNR1
-S000032829	CDS					YNL271C		14	135383	129522	C		2011-02-03	1996-07-31|2011-02-03	
-S000005214	ORF	Verified	YNL270C	ALP1	arginine permease ALP1|APL1	chromosome 14	L000000080	14	137661	135940	C		2011-02-03	1996-07-31	Arginine transporter; expression is normally very low and it is unclear what conditions would induce significant expression; ALP1 has a paralog, CAN1, that arose from the whole genome duplication
-S000031915	CDS					YNL270C		14	137661	135940	C		2011-02-03	1996-07-31	
-S000005213	ORF	Verified	YNL269W	BSC4		chromosome 14		14	137699	138094	W		2011-02-03	1996-07-31	Protein of unknown function; protein-coding gene that evolved de novo via a series of point mutations in noncoding sequence; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; readthrough is increased upon depletion of Sup35p; may be involved in DNA repair pathway during stationary phase and contribute to robustness of cells when shifted to a nutrient-poor environment
-S000032644	CDS					YNL269W		14	137699	138094	W		2011-02-03	1996-07-31	
-S000005212	ORF	Verified	YNL268W	LYP1	lysine permease	chromosome 14	L000000963	14	138550	140385	W		2011-02-03	1996-07-31	Lysine permease; one of three amino acid permeases (Alp1p, Can1p, Lyp1p) responsible for uptake of cationic amino acids
-S000031660	CDS					YNL268W		14	138550	140385	W		2011-02-03	1996-07-31	
-S000005211	ORF	Verified	YNL267W	PIK1	1-phosphatidylinositol 4-kinase|PIK120|PIK41	chromosome 14	L000001439|L000001438	14	140878	144078	W		2011-02-03	1996-07-31	Phosphatidylinositol 4-kinase; catalyzes first step in the biosynthesis of phosphatidylinositol-4,5-biphosphate; may control cytokinesis through the actin cytoskeleton; may control nonselective autophagy and mitophagy through trafficking of Atg9p
-S000031530	CDS					YNL267W		14	140878	144078	W		2011-02-03	1996-07-31	
-S000005210	ORF	Dubious	YNL266W			chromosome 14		14	144245	144664	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF IST1/YNL265C
-S000031404	CDS					YNL266W		14	144245	144664	W		2011-02-03	1996-07-31	
-S000005209	ORF	Verified	YNL265C	IST1		chromosome 14		14	145281	144280	C		2011-02-03	1996-07-31	Protein with positive role in the multivesicular body sorting pathway; functions and forms a complex with Did2p; recruitment to endosomes is mediated by the Vps2p-Vps24p subcomplex of ESCRT-III; also interacts with Vps4p
-S000030432	CDS					YNL265C		14	145149	144280	C		2011-02-03	1996-07-31	
-S000030431	CDS					YNL265C		14	145281	145255	C		2011-02-03	1996-07-31	
-S000030433	intron					YNL265C		14	145254	145150	C		2011-02-03	1996-07-31	
-S000005208	ORF	Verified	YNL264C	PDR17	phosphatidylinositol transporter|SFH4|ISS1	chromosome 14	L000004780	14	146615	145563	C		2011-02-03	1996-07-31	Phosphatidylinositol transfer protein (PITP); downregulates Plb1p-mediated turnover of phosphatidylcholine; forms a complex with Psd2p which appears essential for maintenance of vacuolar PE levels; found in the cytosol and microsomes; homologous to Pdr16p; deletion affects phospholipid composition
-S000030276	CDS					YNL264C		14	146615	145563	C		2011-02-03	1996-07-31	
-S000005207	ORF	Verified	YNL263C	YIF1		chromosome 14	L000004141|L000003364	14	147840	146896	C		2011-02-03	1996-07-31	Integral membrane protein; required for the fusion of ER-derived COPII transport vesicles with the Golgi; interacts with Yip1p and Yos1p; localizes to the Golgi, the ER, and COPII vesicles; homolog of human YIPF3
-S000037532	CDS					YNL263C		14	147840	146896	C		2011-02-03	1996-07-31	
-S000005206	ORF	Verified	YNL262W	POL2	DNA polymerase epsilon catalytic subunit|DUN2	chromosome 14	L000001461	14	148212	154880	W	-170	2011-02-03	1996-07-31	Catalytic subunit of DNA polymerase (II) epsilon; a chromosomal DNA replication polymerase that exhibits processivity and proofreading exonuclease activity; participates in leading-strand synthesis during DNA replication; also involved in DNA synthesis during DNA repair; interacts extensively with Mrc1p
-S000037477	CDS					YNL262W		14	148212	154880	W		2011-02-03	1996-07-31	
-S000005205	ORF	Verified	YNL261W	ORC5	origin recognition complex subunit 5	chromosome 14	L000002814	14	155100	156539	W		2011-02-03	1996-07-31	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing
-S000037358	CDS					YNL261W		14	155100	156539	W		2011-02-03	1996-07-31	
-S000005204	ORF	Verified	YNL260C	LTO1	ribosome biosynthesis protein LTO1	chromosome 14		14	157455	156859	C		2011-02-03	1996-07-31	Essential protein that forms a complex with Rli1p and Yae1p; ortholog of human ORAOV1, which is overexpressed in solid tumors; inviability of null mutant under standard conditions is complemented by overexpression of ORAOV1; essential for growth under standard (aerobic) conditions but not under anaerobic conditions; may have a role in protection of ribosomal assembly and function from damage due to reactive oxygen species
-S000036594	CDS					YNL260C		14	157455	156859	C		2011-02-03	1996-07-31	
-S000005203	ORF	Verified	YNL259C	ATX1	copper metallochaperone ATX1	chromosome 14	L000000155	14	157865	157644	C		2011-02-03	1996-07-31	Cytosolic copper metallochaperone; transports copper to the secretory vesicle copper transporter Ccc2p for eventual insertion into Fet3p, which is a multicopper oxidase required for high-affinity iron uptake; human homolog ATOX1 can complement yeast atx1 mutant; overexpression of human ATOX1 suppresses lysine auxotrophy of the yeast sod1 null mutant, as does overexpression of yeast ATX1
-S000035583	CDS					YNL259C		14	157865	157644	C		2011-02-03	1996-07-31	
-S000005202	ORF	Verified	YNL258C	DSL1	RNS1	chromosome 14	L000004950	14	160373	158109	C		2011-02-03	1996-07-31	Peripheral membrane protein needed for Golgi-to-ER retrograde traffic; mediates Sey1p-independent homotypic ER fusion; forms Dsl1 tethering complex with Sec39p and Tip20p that forms a stable complex with ER SNAREs Sec20p, Ufe1p and Use1p and is functionally conserved from yeast to mammalian cells; component of the ER target site that interacts with coatomer; interacts with different subunits of COPI vesicle coat; interacts with Cin5p; homolog of fly and human ZW10 gene
-S000035489	CDS					YNL258C		14	160373	158109	C		2011-02-03	1996-07-31	
-S000005201	ORF	Verified	YNL257C	SIP3	LAM3	chromosome 14	L000001892	14	164320	160631	C		2011-02-03	1996-07-31	Putative sterol transfer protein; has a probable role in retrograde transport of sterols from the plasma membrane to the ER; co-localizes to puncta in the cortical ER with Ysp2p; contains GRAM, StART-like (VASt) and two PH-like domains; one of 6 StART-like domain-containing proteins in yeast that may be involved in sterol transfer between intracellular membranes; conserved across eukaryotes; previously identified as a transcription cofactor that interacts with DNA-bound Snf1p
-S000035355	CDS					YNL257C		14	164320	160631	C		2011-02-03	1996-07-31	
-S000005200	ORF	Verified	YNL256W	FOL1	trifunctional dihydropteroate synthetase/dihydrohydroxymethylpterin pyrophosphokinase/dihydroneopterin aldolase FOL1	chromosome 14	L000000620	14	164623	167097	W	-170	2011-02-03	2003-09-22|1996-07-31	Multifunctional enzyme of the folic acid biosynthesis pathway; has dihydropteroate synthetase, dihydro-6-hydroxymethylpterin pyrophosphokinase, and dihydroneopterin aldolase activities
-S000034407	CDS					YNL256W		14	164623	167097	W		2011-02-03	2003-09-22|1996-07-31	
-S000005199	ORF	Verified	YNL255C	GIS2	mRNA-binding translational activator GIS2	chromosome 14	L000004862	14	167790	167329	C		2011-02-03	1996-07-31	Translational activator for mRNAs with internal ribosome entry sites; associates with polysomes and binds to a specific subset of mRNAs; localizes to RNA processing bodies (P bodies) and to stress granules; may have a role in translation regulation under stress conditions; ortholog of human ZNF9/CNBP, a gene involved in myotonic dystrophy type 2
-S000034231	CDS					YNL255C		14	167790	167329	C		2011-02-03	1996-07-31	
-S000005198	ORF	Verified	YNL254C	RTC4		chromosome 14		14	169248	168043	C		2011-02-03	1996-07-31	Protein of unknown function; null mutation suppresses cdc13-1 temperature sensitivity; (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
-S000034113	CDS					YNL254C		14	169248	168043	C		2011-02-03	1996-07-31	
-S000077373	ARS		ARS1411		ARSXIV-170	chromosome 14		14	169675	169753			2014-11-18	2014-11-18|2004-10-18|2006-09-07	ARS activated in late S phase
-S000178168	ARS_consensus_sequence					ARS1411		14	169748	169732	C		2014-11-18	2014-11-18	
-S000005197	ORF	Verified	YNL253W	TEX1		chromosome 14		14	170018	171286	W		2011-02-03	1996-07-31	Protein involved in mRNA export; component of the transcription export (TREX) complex
-S000033293	CDS					YNL253W		14	170018	171286	W		2011-02-03	1996-07-31	
-S000005196	ORF	Verified	YNL252C	MRPL17	mitochondrial 54S ribosomal protein YmL17/YmL30|YmL17|YmL30|MRPL30	chromosome 14	L000001703|L000002266|L000002692	14	172286	171441	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000033203	CDS					YNL252C		14	172286	171441	C		2011-02-03	1996-07-31	
-S000005195	ORF	Verified	YNL251C	NRD1	Nrd1 complex RNA-binding subunit	chromosome 14	L000002862	14	174315	172588	C		2011-02-03	1996-07-31	RNA-binding subunit of Nrd1 complex; complex interacts with exosome to mediate 3'-end formation of some mRNAs, snRNAs, snoRNAs, and CUTs; interacts with CTD of RNA pol II large subunit Rpo21p at phosphorylated Ser5 to direct transcription termination of non-polyadenylated transcripts; H3K4 trimethylation of transcribed regions by Set1p enhances recruitment of Nrd1p to those sites; role in regulation of mitochondrial abundance and cell size
-S000033151	CDS					YNL251C		14	174315	172588	C		2011-02-03	1996-07-31	
-S000005194	ORF	Verified	YNL250W	RAD50	MRX complex DNA-binding subunit	chromosome 14	L000001570	14	175410	179348	W	-170	2011-02-03	1996-07-31	Subunit of MRX complex with Mre11p and Xrs2p; complex is involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining; forms nuclear foci upon DNA replication stress
-S000033124	CDS					YNL250W		14	175410	179348	W		2011-02-03	1996-07-31	
-S000005193	ORF	Verified	YNL249C	MPA43		chromosome 14	L000003096	14	181022	179394	C		2011-02-03	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000032322	CDS					YNL249C		14	181022	179394	C		2011-02-03	1996-07-31	
-S000005192	ORF	Verified	YNL248C	RPA49	DNA-directed RNA polymerase I subunit RPA49|A49	chromosome 14	L000001673	14	182608	181361	C		2011-02-03	1996-07-31	RNA polymerase I subunit A49; essential for nucleolar assembly and for high polymerase loading rate; required for nucleolar localization of Rpa34p
-S000032212	CDS					YNL248C		14	182608	181361	C		2011-02-03	1996-07-31	
-S000005191	ORF	Verified	YNL247W		cysteine--tRNA ligase	chromosome 14		14	182875	185178	W		2011-02-03	1996-07-31	Cysteinyl-tRNA synthetase; may interact with ribosomes, based on co-purification experiments; human gene CARS allows growth of the yeast haploid null mutant after sporulation of a heterozygous diploid
-S000031279	CDS					YNL247W		14	182875	185178	W		2011-02-03	1996-07-31	
-S000005190	ORF	Verified	YNL246W	VPS75		chromosome 14		14	185460	186349	W		2011-02-03	1996-07-31	NAP family histone chaperone; binds to histones and Rtt109p, stimulating histone acetyltransferase activity; possesses nucleosome assembly activity in vitro; proposed role in vacuolar protein sorting and in double-strand break repair; protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
-S000031149	CDS					YNL246W		14	185460	185491	W		2011-02-03	1996-07-31	
-S000031150	CDS					YNL246W		14	185587	186349	W		2011-02-03	1996-07-31	
-S000031151	intron					YNL246W		14	185492	185586	W		2011-02-03	1996-07-31	
-S000005189	ORF	Verified	YNL245C	CWC25	U2-type spliceosomal complex subunit CWC25	chromosome 14		14	186885	186346	C		2011-02-03	1996-07-31	Splicing factor required for the first step of pre-mRNA splicing; binding to the spliceosome requires Prp2p and Yju2p; heat-stable protein; has similarity to S. pombe Cwf25p
-S000030978	CDS					YNL245C		14	186885	186346	C		2011-02-03	1996-07-31	
-S000005188	ORF	Verified	YNL244C	SUI1	translation initiation factor eIF1|RFR1|MOF2	chromosome 14	L000002177	14	187496	187170	C	-171	2011-02-03	1996-07-31	Translation initiation factor eIF1; component of a complex involved in recognition of the initiator codon; modulates translation accuracy at the initiation phase
-S000029973	CDS					YNL244C		14	187496	187170	C		2011-02-03	1996-07-31	
-S000005187	ORF	Verified	YNL243W	SLA2	MOP2|END4	chromosome 14	L000001913|L000002421	14	188051	190957	W		2011-02-03	1996-07-31|2011-02-03	Adaptor protein that links actin to clathrin and endocytosis; involved in membrane cytoskeleton assembly and cell polarization; present in the actin cortical patch of the emerging bud tip; dimer in vivo
-S000029929	CDS					YNL243W		14	188051	190957	W		2011-02-03	1996-07-31|2011-02-03	
-S000005186	ORF	Verified	YNL242W	ATG2	APG2|AUT8|SPO72	chromosome 14	L000004782	14	191324	196102	W		2011-02-03	1996-07-31	Peripheral membrane protein required for autophagic vesicle formation; also required for vesicle formation during pexophagy and the cytoplasm-to-vaucole targeting (Cvt) pathway; involved in Atg9p cycling between the phagophore assembly site and mitochondria; contains an APT1 domain that binds phosphatidylinositol-3-phosphate; essential for cell cycle progression from G2/M to G1 under nitrogen starvation; forms cytoplasmic foci upon DNA replication stress
-S000037889	CDS					YNL242W		14	191324	196102	W		2011-02-03	1996-07-31	
-S000077374	ARS		ARS1412		ARSXIV-196	chromosome 14		14	196134	196232			2014-11-18	2014-11-18|2004-10-18|2006-09-07	ARS activated in late S phase
-S000005185	ORF	Verified	YNL241C	ZWF1	glucose-6-phosphate dehydrogenase|POS10|MET19	chromosome 14	L000002572	14	197943	196426	C	-153	2011-02-03	1996-07-31	Glucose-6-phosphate dehydrogenase (G6PD); catalyzes the first step of the pentose phosphate pathway; involved in adapting to oxidative stress; protein abundance increases in response to DNA replication stress; homolog of human G6PD which is deficient in patients with hemolytic anemia; human G6PD can complement yeast zwf1 null mutant
-S000037074	CDS					YNL241C		14	197943	196426	C		2011-02-03	1996-07-31	
-S000005184	ORF	Verified	YNL240C	NAR1		chromosome 14		14	199977	198502	C		2011-02-03	1996-07-31	Subunit of the cytosolic iron-sulfur (FeS) protein assembly machinery; required for maturation of cytosolic and nuclear FeS proteins and for normal resistance to oxidative stress; deficiency results in shortened lifespan and sensitivity to paraquat; homologous to human Narf
-S000037001	CDS					YNL240C		14	199977	198502	C		2011-02-03	1996-07-31	
-S000005183	ORF	Verified	YNL239W	LAP3	bleomycin hydrolase|YCP1|GAL6|BLH1	chromosome 14	L000002502|L000000929	14	200569	201933	W	-152	2011-02-03	2003-01-07|1996-07-31	Cysteine aminopeptidase with homocysteine-thiolactonase activity; protects cells against homocysteine toxicity; has bleomycin hydrolase activity in vitro; transcription is regulated by galactose via Gal4p; orthologous to human BLMH
-S000036318	CDS					YNL239W		14	200569	201933	W		2011-02-03	2003-01-07|1996-07-31	
-S000005182	ORF	Verified	YNL238W	KEX2	kexin KEX2|yscF|SRB1|VMA45|QDS1	chromosome 14	L000000896	14	202428	204872	W	-147	2011-02-03	1996-07-31	Kexin, a subtilisin-like protease (proprotein convertase); a calcium-dependent serine protease involved in the activation of proproteins of the secretory pathway
-S000036210	CDS					YNL238W		14	202428	204872	W		2011-02-03	1996-07-31	
-S000005181	ORF	Verified	YNL237W	YTP1		chromosome 14	L000003036	14	205188	206567	W		2011-02-03	1996-07-31	Probable type-III integral membrane protein of unknown function; has regions of similarity to mitochondrial electron transport proteins
-S000036063	CDS					YNL237W		14	205188	206567	W		2011-02-03	1996-07-31	
-S000005180	ORF	Verified	YNL236W	SIN4	SSX3|MED16|RYE1|TSF3|SSN4|SSF5|SDI3|GAL22|BEL2	chromosome 14	L000001888|S000029516|L000002099	14	206930	209854	W	-145	2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; contributes to both postive and negative transcriptional regulation; dispensible for basal transcription
-S000035179	CDS					YNL236W		14	206930	209854	W		2011-02-03	1996-07-31	
-S000005179	ORF	Dubious	YNL235C			chromosome 14		14	209979	209548	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SIN4/YNL236W, a subunit of the mediator complex
-S000034886	CDS					YNL235C		14	209979	209548	C		2011-02-03	1996-07-31	
-S000005178	ORF	Verified	YNL234W			chromosome 14		14	210233	211513	W		2011-02-03	1996-07-31	Protein of unknown function with similarity to globins; has a functional heme-binding domain; mutant has aneuploidy tolerance; transcription induced by stress conditions; may be involved in glucose signaling or metabolism; regulated by Rgt1
-S000034841	CDS					YNL234W		14	210233	211513	W		2011-02-03	1996-07-31	
-S000005177	ORF	Verified	YNL233W	BNI4		chromosome 14	L000003517	14	211922	214600	W		2011-02-03	1996-07-31	Targeting subunit for Glc7p protein phosphatase; localized to the bud neck, required for localization of chitin synthase III to the bud neck via interaction with the chitin synthase III regulatory subunit Skt5p; phosphorylation by Slt2p and Kss1p involved in regulating Bni4p in septum assembly
-S000033930	CDS					YNL233W		14	211922	214600	W		2011-02-03	1996-07-31	
-S000005176	ORF	Verified	YNL232W	CSL4	exosome non-catalytic core subunit CSL4|SKI4	chromosome 14	L000001905|L000004677	14	214923	215801	W		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain an S1 RNA binding domain; human homolog EXOSC1 partially complements yeast csl4 null mutant, and can complement inviability of strain in which expression of CSL4 is repressed
-S000033848	CDS					YNL232W		14	214923	215801	W		2011-02-03	1996-07-31	
-S000005175	ORF	Verified	YNL231C	PDR16	phosphatidylinositol transporter|SFH3	chromosome 14	L000004779	14	217042	215987	C		2011-02-03	1996-07-31	Phosphatidylinositol transfer protein (PITP); controlled by the multiple drug resistance regulator Pdr1p; localizes to lipid particles and microsomes; controls levels of various lipids, may regulate lipid synthesis; homologous to Pdr17p; protein abundance increases in response to DNA replication stress
-S000033675	CDS					YNL231C		14	217042	215987	C		2011-02-03	1996-07-31	
-S000005174	ORF	Verified	YNL230C	ELA1	elongin A	chromosome 14	L000004956	14	218662	217523	C		2011-02-03	1996-07-31	Elongin A; F-box protein that forms a heterodimer with Elc1p and is required for ubiquitin-dependent degradation of the RNA Polymerase II subunit Rpo21p; subunit of the Elongin-Cullin-Socs (ECS) ligase complex
-S000033008	CDS					YNL230C		14	218662	217523	C		2011-02-03	1996-07-31	
-S000005173	ORF	Verified	YNL229C	URE2	[URE3]	chromosome 14	L000002439	14	220201	219137	C	-142	2011-02-03	1996-07-31	Nitrogen catabolite repression transcriptional regulator; inhibits GLN3 transcription in good nitrogen source; role in sequestering Gln3p and Gat1p to the cytoplasm; has glutathione peroxidase activity and can mutate to acquire GST activity; self-assembly under limited nitrogen conditions creates [URE3] prion and releases catabolite repression
-S000034177	CDS					YNL229C		14	220201	219137	C		2011-02-03	1996-07-31	
-S000005172	ORF	Dubious	YNL228W			chromosome 14		14	220645	221421	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF YNL227C/JJJ1
-S000034107	CDS					YNL228W		14	220645	221421	W		2011-02-03	1996-07-31	
-S000005170	ORF	Dubious	YNL226W			chromosome 14		14	222239	222649	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene JJJ1/YNL227C
-S000032023	CDS					YNL226W		14	222239	222649	W		2011-02-03	1996-07-31	
-S000005171	ORF	Verified	YNL227C	JJJ1		chromosome 14		14	222431	220659	C		2011-02-03	1996-07-31	Co-chaperone that stimulates the ATPase activity of Ssa1p; required for a late step of ribosome biogenesis; associated with the cytosolic large ribosomal subunit; contains a J-domain; mutation causes defects in fluid-phase endocytosis
-S000032103	CDS					YNL227C		14	222431	220659	C		2011-02-03	1996-07-31	
-S000005169	ORF	Verified	YNL225C	CNM67		chromosome 14	L000004012	14	224469	222724	C		2011-02-03	1996-07-31	Component of the spindle pole body outer plaque; required for spindle orientation and mitotic nuclear migration; CNM67 has a paralog, ADY3, that arose from the whole genome duplication
-S000031798	CDS					YNL225C		14	224469	222724	C		2011-02-03	1996-07-31	
-S000005168	ORF	Verified	YNL224C	SQS1	PFA1	chromosome 14		14	227099	224796	C		2011-02-03	1996-07-31	Protein that stimulates the ATPase and helicase activities of Prp43p; acts with Prp43p to stimulate 18s rRNA maturation by Nob1p; overexpression antagonizes the suppression of splicing defects by spp382 mutants; component of pre-ribosomal particles; relocalizes from nucleus to nucleolus upon DNA replication stress
-S000030829	CDS					YNL224C		14	227099	224796	C		2011-02-03	1996-07-31	
-S000005167	ORF	Verified	YNL223W	ATG4	cysteine protease ATG4|AUT2|APG4	chromosome 14	L000004606|L000004784	14	227370	228854	W		2011-02-03	2003-09-22|1996-07-31	Conserved cysteine protease required for autophagy; cleaves Atg8p to a form required for autophagosome and Cvt vesicle generation
-S000030783	CDS					YNL223W		14	227370	228854	W		2011-02-03	2003-09-22|1996-07-31	
-S000005166	ORF	Verified	YNL222W	SSU72	RNA polymerase II subunit A C-terminal domain phosphatase	chromosome 14	L000003154	14	229094	229714	W		2011-02-03	1996-07-31	Phosphatase and transcription/RNA-processing factor; associates with TFIIB and cleavage/polyadenylation factor Pta1p; exhibits phosphatase activity on serine-5 and serine-7 of the RNA polymerase II C-terminal domain; affects start site selection and transcriptional read through in vivo
-S000030662	CDS					YNL222W		14	229094	229714	W		2011-02-03	1996-07-31	
-S000007295	snRNA_gene		snR19	SNR19	U1	chromosome 14	L000001967	14	230672	230105	C		2011-02-03	2004-04-02	U1 spliceosomal RNA (U1 snRNA); snRNA U1 homolog
-S000036596	noncoding_exon					snR19		14	230672	230105	C		2011-02-03	2004-04-02	
-S000005165	ORF	Verified	YNL221C	POP1	ribonuclease P/MRP protein subunit POP1	chromosome 14	L000002587	14	233695	231068	C		2011-02-03	1996-07-31	Subunit of RNase MRP, nuclear RNase P and telomerase complexes; RNase MRP cleaves pre-rRNA, nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs, while telomerase replenishes telomeric DNA; binds to the RPR1 RNA subunit in RNase P
-S000037760	CDS					YNL221C		14	233695	231068	C		2011-02-03	1996-07-31	
-S000005164	ORF	Verified	YNL220W	ADE12	adenylosuccinate synthase|BRA9	chromosome 14	L000000039	14	234413	235714	W	-151	2011-02-03	1996-07-31	Adenylosuccinate synthase; catalyzes the first step in synthesis of adenosine monophosphate from inosine 5'monophosphate during purine nucleotide biosynthesis; exhibits binding to single-stranded autonomously replicating (ARS) core sequence
-S000037738	CDS					YNL220W		14	234413	235714	W		2011-02-03	1996-07-31	
-S000005163	ORF	Verified	YNL219C	ALG9	dolichyl-P-Man:Man(6)GlcNAc(2)-PP-dolichol alpha-1,2-mannosyltransferase	chromosome 14	L000003394	14	237663	235996	C		2011-02-03	1996-07-31	Mannosyltransferase, involved in N-linked glycosylation; catalyzes the transfer of both the seventh mannose residue on B-arm and ninth mannose residue on the C-arm from Dol-P-Man to lipid-linked oligosaccharides; human homolog ALG9 can complement yeast null mutant; mutation of human homolog causes type 1 congenital disorders of glycosylation
-S000029975	CDS					YNL219C		14	237663	235996	C		2011-02-03	1996-07-31	
-S000005162	ORF	Verified	YNL218W	MGS1	ssDNA-dependent ATPase MGS1	chromosome 14		14	238238	240001	W		2011-02-03	1996-07-31	Protein with DNA-dependent ATPase and ssDNA annealing activities; involved in maintenance of genome; interacts functionally with DNA polymerase delta; homolog of human Werner helicase interacting protein (WHIP); forms nuclear foci upon DNA replication stress
-S000029915	CDS					YNL218W		14	238238	240001	W		2011-02-03	1996-07-31	
-S000005161	ORF	Uncharacterized	YNL217W		putative serine/threonine-protein phosphatase	chromosome 14		14	240331	241311	W		2011-02-03	1996-07-31	Putative protein of unknown function; weak sequence similarity to bis (5'-nucleotidyl)-tetraphosphatases; (GFP)-fusion protein localizes to the vacuole; null mutant is highly sensitive to azaserine and resistant to sodium-O-vandate
-S000037905	CDS					YNL217W		14	240331	241311	W		2011-02-03	1996-07-31	
-S000005160	ORF	Verified	YNL216W	RAP1	DNA-binding transcription factor RAP1|TUF1|TBA1|GRF1	chromosome 14	L000001581	14	241689	244172	W	-148	2011-02-03	1996-07-31	Essential DNA-binding transcription regulator that binds many loci; involved in transcription activation, repression, chromatin silencing, telomere length maintenance; relocalizes to cytosol under hypoxia; conserved protein with N-terminal BRCT domain, central region with homology to Myb DNA binding domain, and C-terminal Rap1-specific protein-interaction domain (RCT domain); recruits Sir complex to telomeric DNA; present in quiescent cell telomere hyperclusters
-S000037812	CDS					YNL216W		14	241689	244172	W		2011-02-03	1996-07-31	
-S000005159	ORF	Verified	YNL215W	IES2		chromosome 14		14	244468	245430	W		2011-02-03	1996-07-31	Protein that associates with the INO80 chromatin remodeling complex; associates with the INO80 complex under low-salt conditions; essential for growth under anaerobic conditions; protein abundance increases in response to DNA replication stress
-S000035947	CDS					YNL215W		14	244468	245430	W		2011-02-03	1996-07-31	
-S000005158	ORF	Verified	YNL214W	PEX17	PAS9	chromosome 14	L000003963	14	245617	246216	W		2011-02-03	1996-07-31	Membrane peroxin of the peroxisomal importomer complex; complex facilitates the import of peroxisomal matrix proteins; required for peroxisome biogenesis
-S000035811	CDS					YNL214W		14	245617	246216	W		2011-02-03	1996-07-31	
-S000005157	ORF	Verified	YNL213C	RRG9		chromosome 14		14	247104	246460	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant lacks mitochondrial DNA and cannot grow on glycerol; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000034770	CDS					YNL213C		14	247104	246460	C		2011-02-03	1996-07-31	
-S000005156	ORF	Verified	YNL212W	VID27		chromosome 14		14	247461	249809	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; possibly involved in vacuolar protein degradation; not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase); null mutants exhibit normal growth; contains two PH-like domains
-S000034713	CDS					YNL212W		14	247461	249809	W		2011-02-03	1996-07-31	
-S000005155	ORF	Uncharacterized	YNL211C	MRX7		chromosome 14		14	250315	250055	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YNL211C is not an essential gene
-S000034553	CDS					YNL211C		14	250315	250055	C		2011-02-03	1996-07-31	
-S000077375	ARS		ARS1413			chromosome 14		14	250315	250931			2011-02-03	2004-10-18	Strong origin of replication activated in late S phase
-S000005154	ORF	Verified	YNL210W	MER1		chromosome 14	L000001074	14	250931	251743	W	-138	2011-02-03	1996-07-31	mRNA-binding protein required for meiosis-specific mRNA splicing; required for chromosome pairing and meiotic recombination; Mer1p regulon embraces four essential meiotic pre-mRNAs: REC107, HFM1, AMA1 and SPO22
-S000034504	CDS					YNL210W		14	250931	251743	W		2011-02-03	1996-07-31	
-S000005153	ORF	Verified	YNL209W	SSB2	Hsp70 family ATPase SSB2|YG103	chromosome 14	L000002715	14	252059	253900	W		2011-02-03	1996-07-31	Cytoplasmic ATPase that is a ribosome-associated molecular chaperone; functions with J-protein partner Zuo1p; may be involved in the folding of newly-synthesized polypeptide chains; member of the HSP70 family; SSB2 has a paralog, SSB1, that arose from the whole genome duplication
-S000035043	CDS					YNL209W		14	252059	253900	W		2011-02-03	1996-07-31	
-S000005152	ORF	Verified	YNL208W			chromosome 14		14	254418	255017	W		2011-02-03	2004-02-19|1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; authentic, non-tagged protein is detected in purified mitochondria in high-throughput studies; potential orthologs found in other fungi
-S000034895	CDS					YNL208W		14	254418	255017	W		2011-02-03	2004-02-19|1996-07-31	
-S000005151	ORF	Verified	YNL207W	RIO2	protein kinase RIO2	chromosome 14		14	255353	256630	W		2011-02-03	1996-07-31	Essential serine kinase involved in the processing of 20S pre-rRNA; involved in the processing of the 20S pre-rRNA into mature 18S rRNA; has similarity to Rio1p
-S000034789	CDS					YNL207W		14	255353	256630	W		2011-02-03	1996-07-31	
-S000005150	ORF	Verified	YNL206C	RTT106		chromosome 14		14	258155	256788	C		2011-02-03	1996-07-31	Histone chaperone; involved in regulation of chromatin structure in both transcribed and silenced chromosomal regions; affects transcriptional elongation; has a role in regulation of Ty1 transposition; interacts physically and functionally with Chromatin Assembly Factor-1 (CAF-1)
-S000033853	CDS					YNL206C		14	258155	256788	C		2011-02-03	1996-07-31	
-S000005149	ORF	Dubious	YNL205C			chromosome 14		14	258577	258155	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033703	CDS					YNL205C		14	258577	258155	C		2011-02-03	1996-07-31	
-S000005148	ORF	Verified	YNL204C	SPS18	SPX18	chromosome 14	L000002042	14	259277	258375	C		2011-02-03	1996-07-31	Protein of unknown function, contains a putative zinc-binding domain; expressed during sporulation; SPS18 has a paralog, GCS1, that arose from the whole genome duplication
-S000030383	CDS					YNL204C		14	259277	258375	C		2011-02-03	1996-07-31	
-S000005146	ORF	Verified	YNL202W	SPS19	SPX19	chromosome 14	L000002043	14	259578	260456	W		2011-02-03	1996-07-31|2006-05-10	Peroxisomal 2,4-dienoyl-CoA reductase; auxiliary enzyme of fatty acid beta-oxidation; homodimeric enzyme required for growth and sporulation on petroselineate medium; expression induced during late sporulation and in the presence of oleate
-S000030188	CDS					YNL202W		14	259578	260456	W		2011-02-03	1996-07-31|2006-05-10	
-S000005147	ORF	Dubious	YNL203C			chromosome 14		14	260050	259439	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030248	CDS					YNL203C		14	260050	259439	C		2011-02-03	1996-07-31	
-S000005145	ORF	Verified	YNL201C	PSY2		chromosome 14		14	263203	260627	C		2011-02-03	1996-07-31	Subunit of protein phosphatase PP4 complex; Pph3p and Psy2p form the active complex, Psy4p may provide additional substrate specificity; regulates recovery from the DNA damage checkpoint, the gene conversion- and single-strand annealing-mediated pathways of meiotic double-strand break repair and efficient Non-Homologous End-Joining (NHEJ) pathway; Pph3p and Psy2p localize to foci on meiotic chromosomes; putative homolog of mammalian R3
-S000030016	CDS					YNL201C		14	263203	260627	C		2011-02-03	1996-07-31	
-S000005144	ORF	Verified	YNL200C	NNR1	NADHX epimerase	chromosome 14		14	264453	263713	C		2011-02-03	1996-07-31	NADHX epimerase; catalyzes isomerization of (R)- and (S)-NADHX; homologous to AIBP in mammals and the N- terminal domain of YjeF in E.coli; enzyme is widespread in eukaryotes, prokaryotes and archaea; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000037373	CDS					YNL200C		14	264453	263713	C		2011-02-03	1996-07-31	
-S000005143	ORF	Verified	YNL199C	GCR2		chromosome 14	L000000691	14	266530	264926	C		2011-02-03	1996-07-31	Transcriptional activator of genes involved in glycolysis; interacts and functions with the DNA-binding protein Gcr1p
-S000032854	CDS					YNL199C		14	266530	264926	C		2011-02-03	1996-07-31	
-S000005142	ORF	Dubious	YNL198C			chromosome 14		14	266816	266514	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032762	CDS					YNL198C		14	266816	266514	C		2011-02-03	1996-07-31	
-S000005141	ORF	Verified	YNL197C	WHI3	mRNA-binding protein WHI3	chromosome 14	L000002486	14	269593	267608	C		2011-02-03	1996-07-31	RNA binding protein that sequesters CLN3 mRNA in cytoplasmic foci; regulates genes involved in the cell cycle, sister chromatid cohesion, and stress response; acts as a cytoplasmic retention factor for Cdc28p and associated cyclins; regulates cell fate and dose-dependently regulates the critical cell size required for passage through Start; Tpk1p (PKA) mediated phosphorylation (S568) inhibits Whi3p function, decreasing its interaction with CLN3 mRNA; regulates ploidy
-S000032683	CDS					YNL197C		14	269593	267608	C		2011-02-03	1996-07-31	
-S000005140	ORF	Verified	YNL196C	SLZ1		chromosome 14	L000004192	14	271171	270275	C		2011-02-03	1996-07-31	Sporulation-specific protein with a leucine zipper motif; subunit of the MIS complex which controls mRNA methylation during during the induction of sporulation
-S000032589	CDS					YNL196C		14	271171	270275	C		2011-02-03	1996-07-31	
-S000005139	ORF	Uncharacterized	YNL195C			chromosome 14		14	272308	271523	C		2011-02-03	2004-02-18|1996-07-31	Protein of unknown function; shares a promoter with YNL194C; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YNL195C has a paralog, HBT1, that arose from the whole genome duplication
-S000031608	CDS					YNL195C		14	272308	271523	C		2011-02-03	2004-02-18|1996-07-31	
-S000005138	ORF	Verified	YNL194C			chromosome 14		14	273615	272710	C		2011-02-03	1996-07-31	Integral membrane protein; required for sporulation and plasma membrane sphingolipid content; similar to SUR7; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; GFP-fusion protein is more abundant at MCCs (membrane compartment occupied by Can1) in the presence of glycerol and oleate; YNL194C has a paralog, FMP45, that arose from the whole genome duplication
-S000031471	CDS					YNL194C		14	273615	272710	C		2011-02-03	1996-07-31	
-S000005137	ORF	Uncharacterized	YNL193W			chromosome 14		14	274368	276044	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; exhibits a two-hybrid interaction with Yhr151cp in a large-scale analysis
-S000031402	CDS					YNL193W		14	274368	276044	W		2011-02-03	1996-07-31|2011-02-03	
-S000005136	ORF	Verified	YNL192W	CHS1	chitin synthase CHS1|USA4	chromosome 14	L000000329	14	276502	279897	W		2011-02-03	1996-07-31|2011-02-03	Chitin synthase I; requires activation from zymogenic form in order to catalyze the transfer of N-acetylglucosamine (GlcNAc) to chitin; required for repairing the chitin septum during cytokinesis; transcription activated by mating factor
-S000030484	CDS					YNL192W		14	276502	279897	W		2011-02-03	1996-07-31|2011-02-03	
-S000077376	ARS		ARS1414		ARSXIV-280	chromosome 14		14	279982	280071			2014-11-18	2014-11-18|2004-10-18|2006-09-07	ARS activated in mid-S phase
-S000178169	ARS_consensus_sequence					ARS1414		14	280063	280047	C		2014-11-18	2014-11-18	
-S000005135	ORF	Verified	YNL191W	DUG3	glutamine amidotransferase subunit DUG3	chromosome 14		14	280432	281505	W		2011-02-03	1996-07-31	Component of glutamine amidotransferase (GATase II); forms a complex with Dug2p to degrade glutathione (GSH) and other peptides containing a gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p)
-S000030357	CDS					YNL191W		14	280432	281505	W		2011-02-03	1996-07-31	
-S000005134	ORF	Verified	YNL190W			chromosome 14		14	282395	283009	W		2011-02-03	1996-07-31	Hydrophilin essential in desiccation-rehydration process; cell wall protein; contains a putative GPI-attachment site
-S000030164	CDS					YNL190W		14	282395	283009	W		2011-02-03	1996-07-31	
-S000005133	ORF	Verified	YNL189W	SRP1	karyopherin alpha|SCM1|KAP60	chromosome 14	L000002755|L000002780	14	284260	285888	W		2011-02-03	1996-07-31	Karyopherin alpha homolog; forms a dimer with karyopherin beta Kap95p to mediate import of nuclear proteins, binds the nuclear localization signal of the substrate during import; involved in cotranslational protein degradation; binds ribosome-bound nascent polypeptides; Srp1p and Sts1p couple proteasomes to nascent polypeptides emerging from the ribosome for cotranslational degradation
-S000036720	CDS					YNL189W		14	284260	285888	W		2011-02-03	1996-07-31	
-S000005132	ORF	Verified	YNL188W	KAR1		chromosome 14	L000000886	14	286308	287609	W	-208	2011-02-03	1996-07-31	Protein involved in karyogamy and spindle pole body duplication; involved in karyogamy during mating; involved in spindle pole body duplication during mitosis; localizes to the half-bridge of the spindle pole body; interacts with Spc72p during karyogamy; also interacts with Cdc31p; essential gene
-S000036621	CDS					YNL188W		14	286308	287609	W		2011-02-03	1996-07-31	
-S000005131	ORF	Verified	YNL187W	SWT21		chromosome 14		14	287994	289067	W		2011-02-03	1996-07-31	Protein involved in mRNA splicing; contains a consensus nuclear export signal (NES) sequence similar to the consensus sequence recognized by Crm1p; interacts genetically with Prp40p and Tgs1p; contains WD40 repeats
-S000036547	CDS					YNL187W		14	287994	289067	W		2011-02-03	1996-07-31	
-S000005130	ORF	Verified	YNL186W	UBP10	ubiquitin-specific protease UBP10|DOT4	chromosome 14	L000004391|L000004588	14	289498	291876	W		2011-02-03	1996-07-31|2011-02-03	Ubiquitin-specific protease, deubiquitinates Ub-protein moieties; interacts with proteins that function in rRNA production and ribosome biogenesis via its intrinsically disordered regions; stabilizes Rpa190p by deubiquitination; controls PCNA deubiquitylation; may regulate silencing by acting on Sir4p; involved in posttranscriptionally regulating Gap1p, possibly other transporters; localized to the nucleolus; null mutant phenotypes are functionally complemented by human USP36
-S000035619	CDS					YNL186W		14	289498	291876	W		2011-02-03	1996-07-31|2011-02-03	
-S000005129	ORF	Verified	YNL185C	MRPL19	mitochondrial 54S ribosomal protein YmL19|YmL19	chromosome 14		14	292669	292193	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000035486	CDS					YNL185C		14	292669	292193	C		2011-02-03	1996-07-31	
-S000005128	ORF	Uncharacterized	YNL184C			chromosome 14		14	292883	292557	C		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels
-S000035350	CDS					YNL184C		14	292883	292557	C		2011-02-03	1996-07-31	
-S000005127	ORF	Verified	YNL183C	NPR1	serine/threonine protein kinase NPR1	chromosome 14	L000001273	14	295509	293137	C		2011-02-03	1996-07-31	Protein kinase; stabilizes several plasma membrane amino acid transporters by antagonizing their ubiquitin-mediated degradation; phosphorylates Aly2p; negatively regulates Ldb19p-mediated endocytosis through phosphorylation of Ldb19p, which prevents its association with the plasma membrane; Npr1p activity is negatively regulated via phosphorylation by the TOR complex; NPR1 has a paralog, PRR2, that arose from the whole genome duplication
-S000034359	CDS					YNL183C		14	295509	293137	C		2011-02-03	1996-07-31	
-S000005126	ORF	Verified	YNL182C	IPI3	chromatin-binding/pre-rRNA-processing protein IPI3	chromosome 14		14	297627	295960	C		2011-02-03	1996-07-31	Component of the Rix1 complex and pre-replicative complexes (pre-RCs); required for processing of ITS2 sequences from 35S pre-rRNA; component of the pre-60S ribosomal particle with the dynein-related AAA-type ATPase Mdn1p; required for pre-RC formation and maintenance during DNA replication licensing; highly conserved protein which contains several WD40 motifs; IPI3 is an essential gene; other members include Rix1p, Ipi1p, and Ipi3p
-S000034229	CDS					YNL182C		14	297627	295960	C		2011-02-03	1996-07-31	
-S000005125	ORF	Uncharacterized	YNL181W	PBR1	putative oxidoreductase	chromosome 14		14	298335	299558	W		2011-02-03	1996-07-31|2011-02-03	Putative oxidoreductase; required for cell viability
-S000034164	CDS					YNL181W		14	298335	299558	W		2011-02-03	1996-07-31|2011-02-03	
-S000005124	ORF	Verified	YNL180C	RHO5	Rho family GTPase RHO5|YNS0	chromosome 14	L000004798	14	300649	299654	C		2011-02-03	1998-11-10|1996-07-31	Non-essential small GTPase of the Rho/Rac family of Ras-like proteins; RAC1 ortholog; regulated by phosphorylation and ubiquitination; likely involved in protein kinase C (Pkc1p)-dependent signal transduction pathway that controls cell integrity
-S000033264	CDS					YNL180C		14	300649	299654	C		2011-02-03	1998-11-10|1996-07-31	
-S000005123	ORF	Dubious	YNL179C		SRF6	chromosome 14		14	301103	300666	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; deletion in cyr1 mutant results in loss of stress resistance
-S000034571	CDS					YNL179C		14	301103	300666	C		2011-02-03	1996-07-31	
-S000005122	ORF	Verified	YNL178W	RPS3	uS3|ribosomal 40S subunit protein S3|rp13|YS3|S3|SUF14	chromosome 14	L000002161|L000001749	14	302680	303402	W	-125	2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; has apurinic/apyrimidinic (AP) endonuclease activity; essential for viability; nascent Rps3p is bound by specific chaperone Yar1p during translation; homologous to mammalian ribosomal protein S3 and bacterial S3
-S000034489	CDS					YNL178W		14	302680	303402	W		2011-02-03	1996-07-31	
-S000005121	ORF	Verified	YNL177C	MRPL22	mitochondrial 54S ribosomal protein YmL22|YmL22	chromosome 14		14	304615	303686	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial ribosomal protein of the large subunit
-S000032401	CDS					YNL177C		14	304615	303686	C		2011-02-03	1996-07-31|2011-02-03	
-S000005120	ORF	Verified	YNL176C	TDA7		chromosome 14		14	306980	305070	C		2011-02-03	1996-07-31|2011-02-03	Cell cycle-regulated gene of unknown function; promoter bound by Fkh2p; null mutant is sensitive to expression of the top1-T722A allele; TDA7 has a paralog, YDL211C, that arose from the whole genome duplication
-S000032321	CDS					YNL176C		14	306980	305070	C		2011-02-03	1996-07-31|2011-02-03	
-S000005118	ORF	Dubious	YNL174W			chromosome 14		14	308074	308646	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene NOP13/YNL175C
-S000031277	CDS					YNL174W		14	308074	308646	W		2011-02-03	1996-07-31	
-S000005119	ORF	Verified	YNL175C	NOP13		chromosome 14		14	308612	307401	C		2011-02-03	1996-07-31|2011-02-03	Nucleolar protein found in preribosomal complexes; contains an RNA recognition motif (RRM); relative distribution to the nucleolus increases upon DNA replication stress
-S000032207	CDS					YNL175C		14	308612	307401	C		2011-02-03	1996-07-31|2011-02-03	
-S000005117	ORF	Verified	YNL173C	MDG1		chromosome 14	L000001044	14	310057	308957	C		2011-02-03	1996-07-31	Plasma membrane protein; involved in G-protein mediated pheromone signaling pathway; overproduction suppresses bem1 mutations; MDG1 has a paralog, CRP1, that arose from the whole genome duplication
-S000031079	CDS					YNL173C		14	310057	308957	C		2011-02-03	1996-07-31	
-S000005116	ORF	Verified	YNL172W	APC1	anaphase promoting complex subunit 1	chromosome 14	L000004053	14	310636	315882	W		2011-02-03	1996-07-31|2011-02-03	Largest subunit of the Anaphase-Promoting Complex/Cyclosome; APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; component of the platform domain of the APC/C, based on structural analysis; localizes to nuclear foci that become diffuse upon DNA replication stress
-S000031033	CDS					YNL172W		14	310636	315882	W		2011-02-03	1996-07-31|2011-02-03	
-S000005114	ORF	Dubious	YNL170W			chromosome 14		14	315978	316373	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000029916	CDS					YNL170W		14	315978	316373	W		2011-02-03	1996-07-31	
-S000005115	ORF	Dubious	YNL171C			chromosome 14		14	315997	315629	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000029970	CDS					YNL171C		14	315997	315629	C		2011-02-03	1996-07-31	
-S000005113	ORF	Verified	YNL169C	PSD1	phosphatidylserine decarboxylase 1	chromosome 14	L000001518	14	317671	316169	C		2011-02-03	1996-07-31	Phosphatidylserine decarboxylase of the mitochondrial inner membrane; converts phosphatidylserine to phosphatidylethanolamine; regulates mitochondrial fusion and morphology by affecting lipid mixing in the mitochondrial membrane and by influencing the ratio of long to short forms of Mgm1p; partly exposed to the mitochondrial intermembrane space; autocatalytically processed
-S000030171	CDS					YNL169C		14	317671	316169	C		2011-02-03	1996-07-31	
-S000005112	ORF	Uncharacterized	YNL168C	FMP41		chromosome 14		14	318809	318030	C		2011-02-03	1996-07-31	Putative protein of unknown function; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000036435	CDS					YNL168C		14	318809	318030	C		2011-02-03	1996-07-31	
-S000005111	ORF	Verified	YNL167C	SKO1	ACR1	chromosome 14	L000001909	14	321359	319416	C	-110	2011-02-03	1996-07-31	Basic leucine zipper transcription factor of the ATF/CREB family; forms a complex with Tup1p and Cyc8p to both activate and repress transcription; cytosolic and nuclear protein involved in osmotic and oxidative stress responses
-S000036358	CDS					YNL167C		14	321359	319416	C		2011-02-03	1996-07-31	
-S000118385	ARS		ARS1415		ARSXIV-322	chromosome 14		14	321921	322213			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178170	ARS_consensus_sequence					ARS1415		14	322000	322016	W		2014-11-18	2014-11-18	
-S000005110	ORF	Verified	YNL166C	BNI5		chromosome 14		14	323565	322219	C		2011-02-03	1996-07-31	Linker protein responsible for recruitment of myosin to the bud neck; interacts with the C-terminal extensions of septins Cdc11p and Shs1p and binds Myo1p to promote cytokinesis
-S000036259	CDS					YNL166C		14	323565	322219	C		2011-02-03	1996-07-31	
-S000005109	ORF	Uncharacterized	YNL165W			chromosome 14		14	323832	325052	W		2011-02-03	1996-07-31	Putative protein of unknown function; YNL165W is not an essential gene
-S000036209	CDS					YNL165W		14	323832	325052	W		2011-02-03	1996-07-31	
-S000130142	ARS		ARS1416			chromosome 14		14	325054	325267			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000005108	ORF	Verified	YNL164C	IBD2		chromosome 14		14	326320	325265	C		2011-02-03	1996-07-31	Component of the BUB2-dependent spindle checkpoint pathway; interacts with Bfa1p and functions upstream of Bub2p and Bfa1p
-S000035227	CDS					YNL164C		14	326320	325265	C		2011-02-03	1996-07-31	
-S000005107	ORF	Verified	YNL163C	RIA1	GTPase RIA1|EFL1	chromosome 14		14	330073	326741	C		2011-02-03	1996-07-31	Cytoplasmic GTPase/eEF2-like factor involved in ribosomal biogenesis; with Sdo1p, a guanine nucleotide exchange factor (GEF), promotes release of Tif6p from 60S ribosomal subunits in the cytoplasm so that they can assemble with 40S subunits to generate mature ribosomes; required for quality control check of newly made large ribosomal subunits before they are released into the pool of translating ribosomes
-S000035069	CDS					YNL163C		14	330073	326741	C		2011-02-03	1996-07-31	
-S000007624	ORF	Uncharacterized	YNL162W-A			chromosome 14		14	330329	330547	W		2011-02-03	2001-02-26	Putative protein of unknown function; identified by homology
-S000037222	CDS					YNL162W-A		14	330329	330547	W		2011-02-03	2001-02-26	
-S000005106	ORF	Verified	YNL162W	RPL42A	eL42|ribosomal 60S subunit protein L42A|L44e|YL27|L42A|L41A	chromosome 14	L000001731	14	331322	332154	W		2011-02-03	1999-11-17|1996-07-31	Ribosomal 60S subunit protein L42A; homologous to mammalian ribosomal protein L36A, no bacterial homolog; RPL42A has a paralog, RPL42B, that arose from the whole genome duplication
-S000034972	CDS					YNL162W		14	331322	331325	W		2011-02-03	1996-07-31	
-S000034973	CDS					YNL162W		14	331838	332154	W		2011-02-03	1999-11-17|1996-07-31	
-S000034974	intron					YNL162W		14	331326	331837	W		2011-02-03	1999-11-17|1996-07-31	
-S000005105	ORF	Verified	YNL161W	CBK1	serine/threonine protein kinase CBK1	chromosome 14	L000004609	14	332597	334867	W		2011-02-03	1996-07-31	Serine/threonine protein kinase of the the RAM signaling network; Ndr/LATS family member; binds regulatory subunit Mob2p; involved in regulation of cellular morphogenesis, polarized growth, and septum destruction; phosphorylation by Cbk1p regulates localization and activity of Ace2p transcription factor and Ssd1p translational repressor; Cbk1p activity is regulated by both phosphorylation and specific localization; relocalizes to cytoplasm upon DNA replication stress
-S000034836	CDS					YNL161W		14	332597	334867	W		2011-02-03	1996-07-31	
-S000005104	ORF	Verified	YNL160W	YGP1		chromosome 14	L000002509	14	336545	337609	W		2011-02-03	1996-07-31	Cell wall-related secretory glycoprotein; induced by nutrient deprivation-associated growth arrest and upon entry into stationary phase; may be involved in adaptation prior to stationary phase entry; YGP1 has a paralog, SPS100, that arose from the whole genome duplication
-S000033927	CDS					YNL160W		14	336545	337609	W		2011-02-03	1996-07-31	
-S000005103	ORF	Verified	YNL159C	ASI2		chromosome 14		14	339347	338478	C		2011-02-03	1996-07-31	Subunit of the inner nuclear membrane Asi ubiquitin ligase complex; the Asi complex targets both misfolded proteins of the inner nuclear membrane-associated degradation (INMAD) pathway and inner for ubiquitin-mediated degradation; acts with Asi1p and Asi3p to ensure the fidelity of SPS-sensor signaling by targeting latent unprocessed forms of Stp1p and Stp2p, maintaining the repressed state of gene expression in the absence of inducing amino acids
-S000035302	CDS					YNL159C		14	339347	338478	C		2011-02-03	1996-07-31	
-S000005102	ORF	Verified	YNL158W	PGA1		chromosome 14		14	339612	340208	W		2011-02-03	1996-07-31	Essential component of GPI-mannosyltransferase II; complex is responsible for second mannose addition to GPI precursors as a partner of Gpi18p; required for maturation of Gas1p and Pho8p; has synthetic genetic interactions with secretory pathway genes
-S000034371	CDS					YNL158W		14	339612	340208	W		2011-02-03	1996-07-31	
-S000005101	ORF	Verified	YNL157W	IGO1	phosphatase regulator	chromosome 14		14	340352	340858	W		2011-02-03	1996-07-31	Protein required for initiation of G0 program; prevents degradation of nutrient-regulated mRNAs via the 5'-3' mRNA decay pathway; phosphorylated by Rim15p; GFP protein localizes to the cytoplasm and nucleus; IGO1 has a paralog, IGO2, that arose from the whole genome duplication
-S000034306	CDS					YNL157W		14	340352	340858	W		2011-02-03	1996-07-31	
-S000005100	ORF	Verified	YNL156C	NSG2		chromosome 14		14	341968	341069	C		2011-02-03	1996-07-31	Protein involved in regulation of sterol biosynthesis; specifically stabilizes Hmg2p, one of two HMG-CoA isoenzymes that catalyze the rate-limiting step in sterol biosynthesis; homolog of mammalian INSIG proteins; NSG2 has a paralog, NSG1, that arose from the whole genome duplication
-S000034171	CDS					YNL156C		14	341968	341069	C		2011-02-03	1996-07-31	
-S000005099	ORF	Verified	YNL155W	CUZ1		chromosome 14		14	342516	343340	W		2011-02-03	1996-07-31	Protein with a role in the ubiquitin-proteasome pathway; interacts with ubiquitinated protein, Cdc48p and the proteasomal regulatory particle; may protect cells from trivalent metalloid induced proteotoxicity; contains a PACE promoter element and is co-regulated with proteasome subunit genes; AN1-type zinc finger protein, with DHHC and ubiquitin-like domains (UBL); ortholog of ZFAND1, a human gene linked to cancer; protein abundance increases under DNA replication stress
-S000034106	CDS					YNL155W		14	342516	343340	W		2011-02-03	1996-07-31	
-S000005098	ORF	Verified	YNL154C	YCK2	serine/threonine protein kinase YCK2	chromosome 14	L000002501	14	345276	343636	C		2011-02-03	1996-07-31	Palmitoylated plasma membrane-bound casein kinase I (CK1) isoform; shares redundant functions with Yck1p in morphogenesis, proper septin assembly, endocytic trafficking, and glucose sensing; stabilized by Sod1p binding in the presence of glucose and oxygen, causing glucose repression of respiratory metabolism; involved in the phosphorylation and regulation of glucose sensor Rgt2p; YCK2 has a paralog, YCK1, that arose from the whole genome duplication
-S000032102	CDS					YNL154C		14	345276	343636	C		2011-02-03	1996-07-31	
-S000005097	ORF	Verified	YNL153C	GIM3	tubulin-binding prefolding complex subunit GIM3|PFD4	chromosome 14	L000004369	14	346058	345669	C		2011-02-03	1996-07-31	Subunit of the heterohexameric cochaperone prefoldin complex; prefoldin binds specifically to cytosolic chaperonin and transfers target proteins to it; prefoldin complex also localizes to chromatin of actively transcribed genes in the nucleus and facilitates transcriptional elongation
-S000031948	CDS					YNL153C		14	346058	345669	C		2011-02-03	1996-07-31	
-S000005096	ORF	Verified	YNL152W	INN1		chromosome 14		14	346313	347542	W		2011-02-03	1996-07-31	Essential protein that associates with contractile actomyosin ring; required for ingression of the plasma membrane into the bud neck during cytokinesis; C2 domain, a membrane targeting module, is required for function; activates chitin synthase activity of Chs2p during cytokinesis
-S000031853	CDS					YNL152W		14	346313	347542	W		2011-02-03	1996-07-31	
-S000005095	ORF	Verified	YNL151C	RPC31	DNA-directed RNA polymerase III subunit C31|C31|RPC8|ACP2	chromosome 14	L000001688	14	348521	347766	C	-237	2011-02-03	1996-07-31	RNA polymerase III subunit C31
-S000030811	CDS					YNL151C		14	348521	347766	C		2011-02-03	1996-07-31	
-S000005094	ORF	Dubious	YNL150W			chromosome 14		14	349251	349658	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; extensive overlap with PGA2/YNL149C, an uncharacterized gene with a proposed role in protein trafficking
-S000030782	CDS					YNL150W		14	349251	349658	W		2011-02-03	1996-07-31	
-S000005093	ORF	Verified	YNL149C	PGA2		chromosome 14		14	349756	349367	C		2011-02-03	1996-07-31	Essential protein required for maturation of Gas1p and Pho8p; involved in protein trafficking; GFP-fusion protein localizes to the ER and YFP-fusion protein to the nuclear envelope-ER network; null mutants have a cell separation defect
-S000031137	CDS					YNL149C		14	349756	349367	C		2011-02-03	1996-07-31	
-S000005092	ORF	Verified	YNL148C	ALF1		chromosome 14	L000003527	14	350671	349907	C		2011-02-03	1996-07-31	Alpha-tubulin folding protein; similar to mammalian cofactor B; Alf1p-GFP localizes to cytoplasmic microtubules; required for the folding of alpha-tubulin and may play an additional role in microtubule maintenance
-S000031037	CDS					YNL148C		14	350671	349907	C		2011-02-03	1996-07-31	
-S000005091	ORF	Verified	YNL147W	LSM7	Sm-like protein LSM7	chromosome 14	L000004686	14	350940	351383	W		2011-02-03	1996-07-31|2007-09-06	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress
-S000031001	CDS					YNL147W		14	350940	350957	W		2011-02-03	1996-07-31	
-S000031002	CDS					YNL147W		14	351054	351383	W		2011-02-03	1996-07-31|2007-09-06	
-S000031003	intron					YNL147W		14	350958	351053	W		2011-02-03	1996-07-31|2007-09-06	
-S000028851	ORF	Uncharacterized	YNL146C-A			chromosome 14		14	351580	351386	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000034564	CDS					YNL146C-A		14	351580	351386	C		2011-02-03	2003-07-29	
-S000005090	ORF	Uncharacterized	YNL146W			chromosome 14		14	351715	352017	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YNL146W is not an essential gene
-S000030919	CDS					YNL146W		14	351715	352017	W		2011-02-03	1996-07-31	
-S000005089	ORF	Verified	YNL145W	MFA2	mating pheromone a	chromosome 14	L000001097	14	352414	352530	W	-107.4	2011-02-03	1996-07-31	Mating pheromone a-factor; made by a cells; interacts with alpha cells to induce cell cycle arrest and other responses leading to mating; biogenesis involves C-terminal modification, N-terminal proteolysis, and export; also encoded by MFA1
-S000029912	CDS					YNL145W		14	352414	352530	W		2011-02-03	1996-07-31	
-S000028702	ORF	Dubious	YNL144W-A			chromosome 14		14	353061	353144	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YNL144C
-S000032635	CDS					YNL144W-A		14	353061	353144	W		2011-02-03	2003-07-29	
-S000005088	ORF	Uncharacterized	YNL144C			chromosome 14		14	355042	352820	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-tagged protein is detected in highly purified mitochondria in high-throughput studies; contains a PH domain and binds phosphatidylinositols and phosphatidylethanolamine in a large-scale study; YNL144C has a paralog, YHR131C, that arose from the whole genome duplication
-S000037844	CDS					YNL144C		14	355042	352820	C		2011-02-03	1996-07-31	
-S000005087	ORF	Uncharacterized	YNL143C			chromosome 14		14	357186	356794	C		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels
-S000036002	CDS					YNL143C		14	357186	356794	C		2011-02-03	1996-07-31	
-S000005086	ORF	Verified	YNL142W	MEP2	ammonium permease MEP2	chromosome 14	L000002583	14	357453	358952	W		2011-02-03	1996-07-31	Ammonium permease involved in regulation of pseudohyphal growth; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation
-S000035924	CDS					YNL142W		14	357453	358952	W		2011-02-03	1996-07-31	
-S000005085	ORF	Verified	YNL141W	AAH1	adenine deaminase	chromosome 14	L000004289	14	359596	360639	W		2011-02-03	1996-07-31	Adenine deaminase (adenine aminohydrolase); converts adenine to hypoxanthine; involved in purine salvage; transcriptionally regulated by nutrient levels and growth phase; Aah1p degraded upon entry into quiescence via SCF and the proteasome
-S000035807	CDS					YNL141W		14	359596	360639	W		2011-02-03	1996-07-31	
-S000005084	ORF	Uncharacterized	YNL140C			chromosome 14		14	361486	360917	C		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; partially overlaps THO2/YNL139C
-S000034768	CDS					YNL140C		14	361486	360917	C		2011-02-03	1996-07-31	
-S000005083	ORF	Verified	YNL139C	THO2	RLR1|LDB5|ZRG13	chromosome 14	L000002589	14	365717	360924	C		2011-02-03	1996-07-31	Subunit of the THO complex; THO is required for efficient transcription elongation and involved in transcriptional elongation-associated recombination; required for LacZ RNA expression from certain plasmids
-S000036082	CDS					YNL139C		14	365717	360924	C		2011-02-03	1996-07-31	
-S000028509	ORF	Verified	YNL138W-A	YSF3	U2 snRNP complex subunit YSF3|RCP10	chromosome 14		14	366033	366412	W		2011-02-03	2003-07-29	Component of the SF3b subcomplex of the U2 snRNP; essential protein required for splicing and for assembly of SF3b
-S000030223	CDS					YNL138W-A		14	366033	366035	W		2011-02-03	2003-07-29	
-S000030224	CDS					YNL138W-A		14	366158	366412	W		2011-02-03	2003-07-29	
-S000030225	intron					YNL138W-A		14	366036	366157	W		2011-02-03	2003-07-29	
-S000005082	ORF	Verified	YNL138W	SRV2	adenylate cyclase-binding protein|CAP	chromosome 14	L000002068	14	366741	368321	W	-101	2011-02-03	1996-07-31	CAP (cyclase-associated protein); N-terminus binds adenylate cyclase and facilitates activation by RAS; N-terminus forms novel hexameric star-shaped shuriken structures that directly catalyze cofilin-mediated severing of actin filaments; C-terminus binds and recycles cofilin bound, ADP-actin monomers, facilitating regulation of actin dynamics and cell morphogenesis; N- and C-termini can function as physically separate proteins; mCAP1 is the mouse homolog
-S000036041	CDS					YNL138W		14	366741	368321	W		2011-02-03	1996-07-31	
-S000005081	ORF	Verified	YNL137C	NAM9	mitochondrial 37S ribosomal protein NAM9|MNA6	chromosome 14	L000001231	14	370055	368595	C		2011-02-03	1996-07-31	Mitochondrial ribosomal component of the small subunit
-S000035090	CDS					YNL137C		14	370055	368595	C		2011-02-03	1996-07-31	
-S000005080	ORF	Verified	YNL136W	EAF7		chromosome 14		14	370368	371645	W		2011-02-03	1996-07-31	Subunit of the NuA4 histone acetyltransferase complex; NuA4 acetylates the N-terminal tails of histones H4 and H2A
-S000035041	CDS					YNL136W		14	370368	371645	W		2011-02-03	1996-07-31	
-S000005079	ORF	Verified	YNL135C	FPR1	peptidylprolyl isomerase FPR1|RBP1|FKB1	chromosome 14	L000000623	14	372226	371882	C	-105	2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (PPIase); binds to the drugs FK506 and rapamycin; also binds to the nonhistone chromatin binding protein Hmo1p and may regulate its assembly or function; N-terminally propionylated in vivo; mutation is functionally complemented by human FKBP1A
-S000034848	CDS					YNL135C		14	372226	371882	C		2011-02-03	1996-07-31	
-S000005078	ORF	Verified	YNL134C			chromosome 14		14	373581	372451	C		2011-02-03	1996-07-31	NADH-dependent aldehyde reductase, involved in detoxification of furfural; expression is up-regulated in the presence of furfural and 5-hydroxymethylfurfural, which are compounds generated during lignocellulosic biomass pre-treatment; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and nucleus; protein abundance increases in response to DNA replication stress
-S000033976	CDS					YNL134C		14	373581	372451	C		2011-02-03	1996-07-31	
-S000005077	ORF	Verified	YNL133C	FYV6		chromosome 14		14	374692	374171	C		2011-02-03	1996-07-31	Protein of unknown function; required for survival upon exposure to K1 killer toxin; proposed to regulate double-strand break repair via non-homologous end-joining
-S000033840	CDS					YNL133C		14	374692	374171	C		2011-02-03	1996-07-31	
-S000006569	tRNA_gene		tF(GAA)N			chromosome 14	L000003689	14	374869	374959	W		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000035429	intron					tF(GAA)N		14	374906	374923	W		2011-02-03	2000-05-19	
-S000035427	noncoding_exon					tF(GAA)N		14	374869	374905	W		2011-02-03	2000-05-19	
-S000035428	noncoding_exon					tF(GAA)N		14	374924	374959	W		2011-02-03	2000-05-19	
-S000005076	ORF	Verified	YNL132W	KRE33	ribosome biosynthesis protein KRE33|RRA1	chromosome 14		14	375321	378491	W		2011-02-03	1996-07-31	Protein required for biogenesis of the small ribosomal subunit; heterozygous mutant shows haploinsufficiency in K1 killer toxin resistance; essential gene; NAT10, the human homolog, implicated in several types of cancer and premature aging.
-S000033781	CDS					YNL132W		14	375321	378491	W		2011-02-03	1996-07-31	
-S000005075	ORF	Verified	YNL131W	TOM22	MOM22|MAS22|MAS17	chromosome 14	L000002582	14	378767	379225	W		2011-02-03	1996-07-31	Component of the TOM (Translocase of Outer Membrane) complex; responsible for initial import of mitochondrially directed proteins; mediates interaction between TOM and TIM complexes and acts as a receptor for precursor proteins
-S000033651	CDS					YNL131W		14	378767	379225	W		2011-02-03	1996-07-31	
-S000005074	ORF	Verified	YNL130C	CPT1	diacylglycerol cholinephosphotransferase	chromosome 14	L000000404	14	380831	379558	C		2011-02-03	2004-02-03|1996-07-31	Cholinephosphotransferase; required for phosphatidylcholine biosynthesis and for inositol-dependent regulation of EPT1 transcription; CPT1 has a paralog, EPT1, that arose from the whole genome duplication
-S000030245	CDS					YNL130C		14	380689	379558	C		2011-02-03	1996-07-31	
-S000030243	CDS					YNL130C		14	380831	380782	C		2011-02-03	2004-02-03|1996-07-31	
-S000030246	intron					YNL130C		14	380781	380690	C		2011-02-03	2004-02-03|1996-07-31	
-S000028579	ORF	Uncharacterized	YNL130C-A	DGR1		chromosome 14		14	381391	381245	C		2011-02-03	2003-07-29	Protein of unknown function; dgr1 null mutant is resistant to 2-deoxy-D-glucose
-S000031313	CDS					YNL130C-A		14	381391	381245	C		2011-02-03	2003-07-29	
-S000005073	ORF	Verified	YNL129W	NRK1	ribosylnicotinamide kinase	chromosome 14	S000029011|S000029327	14	381480	382202	W		2011-02-03	1996-07-31	Nicotinamide riboside kinase; catalyzes the phosphorylation of nicotinamide riboside and nicotinic acid riboside in salvage pathways for NAD+ biosynthesis
-S000031557	CDS					YNL129W		14	381480	382202	W		2011-02-03	1996-07-31	
-S000005072	ORF	Verified	YNL128W	TEP1	putative phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase	chromosome 14	L000003922	14	382359	383663	W		2011-02-03	1996-07-31|2011-02-03	PTEN homolog with no demonstrated inositol lipid phosphatase activity; plays a role in normal sporulation; homolog of human tumor suppressor gene PTEN/MMAC1/TEP1 and fission yeast ptn1
-S000030721	CDS					YNL128W		14	382359	383663	W		2011-02-03	1996-07-31|2011-02-03	
-S000005071	ORF	Verified	YNL127W	FAR11		chromosome 14		14	383987	386848	W		2011-02-03	1996-07-31	Protein involved in recovery from cell cycle arrest; acts in response to pheromone; also involved in regulation of intra-S DNA damage checkpoint and autophagy; is essential for dephosphorylation of Atg13p; interacts with Far3p, Far7p, Far8p, Far9p, Far10p and with the phosphatases Pph21p, Pph22p and Pph3p; has similarity to the N- and C-termini of N. crassa HAM-2; similar to human Fam40A and Fam40B
-S000030640	CDS					YNL127W		14	383987	386848	W		2011-02-03	1996-07-31	
-S000005070	ORF	Verified	YNL126W	SPC98		chromosome 14	L000003430	14	387227	389767	W		2011-02-03	1996-07-31	Component of the microtubule-nucleating Tub4p (gamma-tubulin) complex; interacts with Spc110p at the spindle pole body (SPB) inner plaque and with Spc72p at the SPB outer plaque
-S000030533	CDS					YNL126W		14	387227	389767	W		2011-02-03	1996-07-31	
-S000005069	ORF	Verified	YNL125C	ESBP6	MCH3	chromosome 14	L000004077	14	392167	390146	C		2011-02-03	1996-07-31	Protein with similarity to monocarboxylate permeases; appears not to be involved in transport of monocarboxylates such as lactate, pyruvate or acetate across the plasma membrane
-S000037681	CDS					YNL125C		14	392167	390146	C		2011-02-03	1996-07-31	
-S000005068	ORF	Verified	YNL124W	NAF1	RNA-binding snoRNP assembly protein	chromosome 14		14	392892	394370	W		2011-02-03	1996-07-31	RNA-binding protein required for the assembly of box H/ACA snoRNPs; thus required for pre-rRNA processing; forms a complex with Shq1p and interacts with H/ACA snoRNP components Nhp2p and Cbf5p; similar to Gar1p
-S000037659	CDS					YNL124W		14	392892	394370	W		2011-02-03	1996-07-31	
-S000005067	ORF	Verified	YNL123W	NMA111	YNM3	chromosome 14		14	394685	397678	W		2011-02-03	1996-07-31	Serine protease and general molecular chaperone; involved in response to heat stress and promotion of apoptosis; may contribute to lipid homeostasis; sequence similarity to the mammalian Omi/HtrA2 family of serine proteases
-S000037577	CDS					YNL123W		14	394685	397678	W		2011-02-03	1996-07-31	
-S000005066	ORF	Verified	YNL122C			chromosome 14		14	398370	398023	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; homologous to bacterial L35 and human MRPL35 ribosomal proteins
-S000037427	CDS					YNL122C		14	398370	398023	C		2011-02-03	1996-07-31	
-S000005065	ORF	Verified	YNL121C	TOM70	protein channel TOM70|OMP1|MOM72|MAS70	chromosome 14	L000001030|L000003141	14	400537	398684	C		2011-02-03	1996-07-31	Component of the TOM (translocase of outer membrane) complex; involved in the recognition and initial import steps for all mitochondrially directed proteins; acts as a receptor for incoming precursor proteins; TOM70 has a paralog, TOM71, that arose from the whole genome duplication
-S000031934	CDS					YNL121C		14	400537	398684	C		2011-02-03	1996-07-31	
-S000005063	ORF	Verified	YNL119W	NCS2	TUC2	chromosome 14		14	401040	402521	W		2011-02-03	1996-07-31	Protein required for uridine thiolation of Lys(UUU) and Glu(UUC) tRNAs; required for the thiolation of uridine at the wobble position of Lys(UUU) and Glu(UUC) tRNAs; has a role in urmylation and in invasive and pseudohyphal growth; inhibits replication of Brome mosaic virus in S. cerevisiae
-S000036308	CDS					YNL119W		14	401040	402521	W		2011-02-03	1996-07-31	
-S000005064	ORF	Dubious	YNL120C			chromosome 14		14	401518	401033	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion enhances replication of Brome mosaic virus in S. cerevisiae, but likely due to effects on the overlapping gene
-S000031820	CDS					YNL120C		14	401518	401033	C		2011-02-03	1996-07-31	
-S000005062	ORF	Verified	YNL118C	DCP2	decapping enzyme complex catalytic subunit|PSU1	chromosome 14	L000002866	14	405564	402652	C		2011-02-03	1996-07-31	Catalytic subunit of Dcp1p-Dcp2p decapping enzyme complex; removes 5' cap structure from mRNAs prior to their degradation; also enters nucleus and positively regulates transcription initiation; nudix hydrolase family member; forms cytoplasmic foci upon DNA replication stress; human homolog DCP2 complements yeast dcp2 thermosensitive mutant
-S000035360	CDS					YNL118C		14	405564	402652	C		2011-02-03	1996-07-31	
-S000005061	ORF	Verified	YNL117W	MLS1	malate synthase MLS1	chromosome 14	L000001123	14	406358	408022	W		2011-02-03	1996-07-31	Malate synthase, enzyme of the glyoxylate cycle; involved in utilization of non-fermentable carbon sources; expression is subject to carbon catabolite repression; localizes in peroxisomes during growth on oleic acid, otherwise cytosolic; can accept butyryl-CoA as acyl-CoA donor in addition to traditional substrate acetyl-CoA
-S000035332	CDS					YNL117W		14	406358	408022	W		2011-02-03	1996-07-31	
-S000005060	ORF	Verified	YNL116W	DMA2	ubiquitin-conjugating protein DMA2|CHF2	chromosome 14	S000029720	14	408341	409909	W		2011-02-03	1996-07-31	Ubiquitin-protein ligase (E3); controls septin dynamics and spindle position checkpoint (SPOC) with ligase Dma1p by regulating recruitment of Elm1p to bud neck; regulates levels of eIF2 subunit Gcd11p, as well as abundance, localization, and ubiquitination of Cdk inhibitory kinase Swe1p; ortholog of human RNF8, similar to human Chfr; contains FHA and RING finger domains; DMA2 has a paralog, DMA1, that arose from the whole genome duplication
-S000035249	CDS					YNL116W		14	408341	409909	W		2011-02-03	1996-07-31	
-S000005059	ORF	Uncharacterized	YNL115C			chromosome 14		14	412053	410119	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YNL115C is not an essential gene
-S000034227	CDS					YNL115C		14	412053	410119	C		2011-02-03	1996-07-31	
-S000118386	ARS		ARS1417		ARSXIV-412	chromosome 14		14	412267	412496			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000005057	ORF	Verified	YNL113W	RPC19	DNA-directed RNA polymerase core subunit RPC19|AC19	chromosome 14	L000001687	14	412771	413199	W		2011-02-03	1996-07-31	RNA polymerase subunit AC19; common to RNA polymerases I and III
-S000034093	CDS					YNL113W		14	412771	413199	W		2011-02-03	1996-07-31	
-S000005058	ORF	Dubious	YNL114C			chromosome 14		14	413055	412684	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF RPC19/YNL113W, an RNA polymerase subunit
-S000034126	CDS					YNL114C		14	413055	412684	C		2011-02-03	1996-07-31	
-S000005056	ORF	Verified	YNL112W	DBP2	DEAD-box ATP-dependent RNA helicase DBP2	chromosome 14	L000000493	14	413639	416281	W		2011-02-03	1996-07-31	ATP-dependent RNA helicase of the DEAD-box protein family; has strong preference for dsRNA; interacts with YRA1; required for assembly of Yra1p, Nab2p and Mex67p onto mRNA and formation of nuclear mRNP; involved in mRNA decay and rRNA processing; may be involved in suppression of transcription from cryptic initiation sites
-S000033962	CDS					YNL112W		14	413639	414911	W		2011-02-03	1996-07-31	
-S000033963	CDS					YNL112W		14	415914	416281	W		2011-02-03	1996-07-31	
-S000033964	intron					YNL112W		14	414912	415913	W		2011-02-03	1996-07-31	
-S000005055	ORF	Verified	YNL111C	CYB5		chromosome 14	L000002498	14	417302	416940	C		2011-02-03	1996-07-31	Cytochrome b5; involved in the sterol and lipid biosynthesis pathways; acts as an electron donor to support sterol C5-6 desaturation
-S000033131	CDS					YNL111C		14	417302	416940	C		2011-02-03	1996-07-31	
-S000005054	ORF	Verified	YNL110C	NOP15	rRNA-binding ribosome biosynthesis protein NOP15	chromosome 14		14	418488	417826	C		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; involved in 60S ribosomal subunit biogenesis; localizes to both nucleolus and cytoplasm
-S000033055	CDS					YNL110C		14	418488	417826	C		2011-02-03	1996-07-31	
-S000005053	ORF	Dubious	YNL109W			chromosome 14		14	418964	419509	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YNL108C
-S000032014	CDS					YNL109W		14	418964	419509	W		2011-02-03	1996-07-31	
-S000005052	ORF	Verified	YNL108C		HUF	chromosome 14		14	419826	419014	C		2011-02-03	1996-07-31	Protein phosphatase; similar to prokaryotic phosphotransfer enzymes; null mutant shows alterations in glucose metabolism; GFP-fusion protein localizes to the cytoplasm and nucleus; YNL108C has a paralog, TFC7, that arose from the whole genome duplication
-S000031012	CDS					YNL108C		14	419826	419014	C		2011-02-03	1996-07-31	
-S000005051	ORF	Verified	YNL107W	YAF9		chromosome 14	S000007495	14	420098	420778	W		2011-02-03	1996-07-31	Subunit of NuA4 histone H4 acetyltransferase and SWR1 complexes; may function to antagonize silencing near telomeres; interacts directly with Swc4p; has homology to human leukemogenic protein AF9; contains a YEATS domain
-S000030966	CDS					YNL107W		14	420098	420778	W		2011-02-03	1996-07-31	
-S000005049	ORF	Dubious	YNL105W	RRT16		chromosome 14		14	424155	424583	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene INP52; identified in a screen for mutants with decreased levels of rDNA transcription
-S000030822	CDS					YNL105W		14	424155	424583	W		2011-02-03	1996-07-31	
-S000005050	ORF	Verified	YNL106C	INP52	phosphatidylinositol-3-/phosphoinositide 5-phosphatase INP52|SJL2	chromosome 14	L000003985	14	424495	420944	C		2011-02-03	1996-07-31	Polyphosphatidylinositol phosphatase; dephosphorylates a number of phosphatidylinositol phosphates (PtdInsPs, PIPs) to PI; involved in endocytosis; hyperosmotic stress causes translocation to actin patches; synaptojanin-like protein with a Sac1 domain; INP52 has a paralog, INP53, that arose from the whole genome duplication
-S000030872	CDS					YNL106C		14	424495	420944	C		2011-02-03	1996-07-31	
-S000028701	ORF	Dubious	YNL103W-A			chromosome 14		14	426719	426808	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene MET4/YNL104C
-S000032634	CDS					YNL103W-A		14	426719	426808	W		2011-02-03	2003-07-29	
-S000005048	ORF	Verified	YNL104C	LEU4	2-isopropylmalate synthase LEU4	chromosome 14	L000000945	14	426754	424895	C	-76	2011-02-03	1996-07-31	Alpha-isopropylmalate synthase (2-isopropylmalate synthase); the main isozyme responsible for the first step in the leucine biosynthesis pathway; LEU4 has a paralog, LEU9, that arose from the whole genome duplication
-S000037846	CDS					YNL104C		14	426754	424895	C		2011-02-03	1996-07-31	
-S000005047	ORF	Verified	YNL103W	MET4		chromosome 14	L000001079	14	427735	429753	W	-76	2011-02-03	1996-07-31|2006-11-09	Leucine-zipper transcriptional activator; responsible for regulation of sulfur amino acid pathway; requires different combinations of auxiliary factors Cbf1p, Met28p, Met31p and Met32p; feedforward loop exists in the regulation of genes controlled by Met4p and Met32p; can be ubiquitinated by ubiquitin ligase SCF-Met30p, is either degraded or maintained in an inactive state; regulates degradation of its own DNA-binding cofactors by targeting them to SCF-Met30p
-S000037804	CDS					YNL103W		14	427735	429753	W		2011-02-03	1996-07-31|2006-11-09	
-S000005046	ORF	Verified	YNL102W	POL1	DNA-directed DNA polymerase alpha catalytic subunit POL1|HPR3|CRT5|CDC17	chromosome 14	L000000257	14	430087	434493	W	-74	2011-02-03	1996-07-31	Catalytic subunit of the DNA polymerase I alpha-primase complex; required for the initiation of DNA replication during mitotic DNA synthesis and premeiotic DNA synthesis
-S000037722	CDS					YNL102W		14	430087	434493	W		2011-02-03	1996-07-31	
-S000005045	ORF	Verified	YNL101W	AVT4		chromosome 14		14	434999	437140	W		2011-02-03	1996-07-31	Vacuolar transporter; exports large neutral amino acids from the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs)
-S000036962	CDS					YNL101W		14	434999	437140	W		2011-02-03	1996-07-31	
-S000005044	ORF	Verified	YNL100W	MIC27	AIM37|MCS27	chromosome 14		14	437613	438317	W		2011-02-03	1996-07-31	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; forms a subcomplex with Mic10p and Mic12p whose assembly and stability requires cardiolipin
-S000036897	CDS					YNL100W		14	437613	438317	W		2011-02-03	1996-07-31	
-S000005043	ORF	Verified	YNL099C	OCA1	putative tyrosine protein phosphatase OCA1	chromosome 14		14	439283	438567	C		2011-02-03	1996-07-31	Putative protein tyrosine phosphatase; required for cell cycle arrest in response to oxidative damage of DNA
-S000031337	CDS					YNL099C		14	439283	438567	C		2011-02-03	1996-07-31	
-S000005042	ORF	Verified	YNL098C	RAS2	Ras family GTPase RAS2|TSL7|GLC5|CYR3|CTN5	chromosome 14	L000001583	14	440570	439602	C	-71.5	2011-02-03	1996-07-31	GTP-binding protein; regulates nitrogen starvation response, sporulation, and filamentous growth; farnesylation and palmitoylation required for activity and localization to plasma membrane; homolog of mammalian Ras proto-oncogenes; RAS2 has a paralog, RAS1, that arose from the whole genome duplication
-S000030460	CDS					YNL098C		14	440570	439602	C		2011-02-03	1996-07-31	
-S000028699	ORF	Uncharacterized	YNL097C-B		YNL097C-A	chromosome 14		14	440919	440797	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000032611	CDS					YNL097C-B		14	440919	440797	C		2011-02-03	2003-07-29	
-S000028700	ORF	Dubious	YNL097W-A			chromosome 14		14	441431	441586	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene PHO23/YNL097C
-S000032629	CDS					YNL097W-A		14	441431	441586	W		2011-02-03	2003-07-29	
-S000005041	ORF	Verified	YNL097C	PHO23		chromosome 14	L000004300	14	442358	441366	C		2011-02-03	1996-07-31	Component of the Rpd3L histone deacetylase complex; involved in transcriptional regulation of PHO5; affects termination of snoRNAs and cryptic unstable transcripts (CUTs); C-terminus shares significant sequence identity with the human candidate tumor suppressor p33-ING1 and its isoform ING3
-S000030326	CDS					YNL097C		14	442358	441366	C		2011-02-03	1996-07-31	
-S000006645	tRNA_gene		tL(CAA)N			chromosome 14	L000003690	14	443006	443119	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000033817	intron					tL(CAA)N		14	443044	443075	W		2011-02-03	2000-05-19	
-S000033815	noncoding_exon					tL(CAA)N		14	443006	443043	W		2011-02-03	2000-05-19	
-S000033816	noncoding_exon					tL(CAA)N		14	443076	443119	W		2011-02-03	2000-05-19	
-S000005040	ORF	Verified	YNL096C	RPS7B	eS7|ribosomal 40S subunit protein S7B|S7e|rp30|S7B	chromosome 14	L000004473	14	444315	443398	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; interacts with Kti11p; deletion causes hypersensitivity to zymocin; homologous to mammalian ribosomal protein S7, no bacterial homolog; RPS7B has a paralog, RPS7A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000030167	CDS					YNL096C		14	443826	443398	C		2011-02-03	1996-07-31	
-S000030166	CDS					YNL096C		14	444315	444172	C		2011-02-03	1996-07-31	
-S000030168	intron					YNL096C		14	444171	443827	C		2011-02-03	1996-07-31	
-S000005039	ORF	Uncharacterized	YNL095C			chromosome 14		14	446840	444912	C		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to contain a transmembrane domain; not an essential gene; YNL095C has a paralog, ECM3, that arose from the whole genome duplication
-S000036433	CDS					YNL095C		14	446840	444912	C		2011-02-03	1996-07-31	
-S000005038	ORF	Verified	YNL094W	APP1	phosphatidate phosphatase APP1	chromosome 14		14	447611	449374	W		2011-02-03	1996-07-31	Phosphatidate phosphatase, converts phosphatidate to diacylglycerol; App1p, Pah1p, Dpp1p, and Lpp1p are responsible for all the phosphatidate phosphatase activity; component of cortical actin patches; interacts with components of endocytic pathway
-S000036404	CDS					YNL094W		14	447611	449374	W		2011-02-03	1996-07-31	
-S000118387	ARS		ARS1419		ARSXIV-450	chromosome 14		14	449429	449588			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178171	ARS_consensus_sequence					ARS1419		14	449534	449518	C		2014-11-18	2014-11-18	
-S000005037	ORF	Verified	YNL093W	YPT53	Rab family GTPase YPT53	chromosome 14	L000002547	14	449868	450530	W		2011-02-03	1996-07-31	Stress-induced Rab family GTPase; required for vacuolar protein sorting and endocytosis; involved in ionic stress tolerance; similar to Vps21p and Ypt52p; functional homolog of Vps21p; mammalian Rab5 homolog; YPT53 has a paralog, VPS21, that arose from the whole genome duplication
-S000036317	CDS					YNL093W		14	449868	450530	W		2011-02-03	1996-07-31	
-S000005036	ORF	Verified	YNL092W		S-adenosylmethionine-dependent methyltransferase	chromosome 14		14	450871	452073	W		2011-02-03	1996-07-31	S-adenosylmethionine-dependent protein methyltransferase; capable of automethylation; member of the seven beta-strand family; YNL092W is not an essential gene
-S000036208	CDS					YNL092W		14	450871	452073	W		2011-02-03	1996-07-31	
-S000005035	ORF	Verified	YNL091W	NST1		chromosome 14		14	452408	456130	W		2011-02-03	1996-07-31	Protein of unknown function; mediates sensitivity to salt stress; interacts physically with the splicing factor Msl1p and also displays genetic interaction with MSL1
-S000036061	CDS					YNL091W		14	452408	456130	W		2011-02-03	1996-07-31	
-S000005034	ORF	Verified	YNL090W	RHO2	Rho family GTPase RHO2	chromosome 14	L000001631	14	456565	457143	W		2011-02-03	1996-07-31	Non-essential small GTPase of the Rho/Rac family of Ras-like proteins; involved in the establishment of cell polarity and in microtubule assembly
-S000035133	CDS					YNL090W		14	456565	457143	W		2011-02-03	1996-07-31	
-S000005033	ORF	Dubious	YNL089C			chromosome 14		14	457169	456693	C		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; almost completely overlaps YNL090W/RHO2 which encodes a small GTPase of the Rho/Rac subfamily of Ras-like proteins
-S000035490	CDS					YNL089C		14	457169	456693	C		2011-02-03	1996-07-31	
-S000005032	ORF	Verified	YNL088W	TOP2	DNA topoisomerase 2|TRF3|TOR3	chromosome 14	L000002320	14	457704	461990	W	-70	2011-02-03	1996-07-31	Topoisomerase II; relieves torsional strain in DNA by cleaving and re-sealing phosphodiester backbone of both positively and negatively supercoiled DNA; cleaves complementary strands; localizes to axial cores in meiosis; required for replication slow zone (RSZ) breakage following Mec1p inactivation; human homolog TOP2A implicated in cancers, and can complement yeast null mutant
-S000035464	CDS					YNL088W		14	457704	461990	W		2011-02-03	1996-07-31	
-S000005031	ORF	Verified	YNL087W	TCB2	tricalbin	chromosome 14		14	462411	465947	W		2011-02-03	1996-07-31	ER protein involved in ER-plasma membrane tethering; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to plasma membrane (PM) and regulate PM phosphatidylinositol-4-phosphate (PI4P) levels by controlling access of Sac1p phosphatase to its substrate PI4P in the PM; contains 3 calcium and lipid binding domains; mRNA is targeted to bud; TCB2 has a paralog, TCB1, that arose from the whole genome duplication
-S000035400	CDS					YNL087W		14	462411	465947	W		2011-02-03	1996-07-31	
-S000005030	ORF	Verified	YNL086W	SNN1	BLS1	chromosome 14		14	466334	466642	W		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; interacts with Msb3p; green fluorescent protein (GFP)-fusion protein localizes to endosomes
-S000035333	CDS					YNL086W		14	466334	466642	W		2011-02-03	1996-07-31	
-S000005029	ORF	Verified	YNL085W	MKT1		chromosome 14	L000001120	14	467131	469623	W	-69	2011-02-03	1996-07-31	Protein similar to nucleases that forms a complex with Pbp1p; complex may mediate posttranscriptional regulation of HO; involved in propagation of M2 dsRNA satellite of L-A virus; allelic variation affects mitochondrial genome stability, drug resistance, and more; forms cytoplasmic foci upon DNA replication stress; localization to P-bodies under ethanol stress differs between strains
-S000034367	CDS					YNL085W		14	467131	469623	W		2011-02-03	1996-07-31	
-S000005028	ORF	Verified	YNL084C	END3		chromosome 14	L000000558	14	471102	470053	C		2011-02-03	1996-07-31	EH domain-containing protein involved in endocytosis; actin cytoskeletal organization and cell wall morphogenesis; forms a complex with Sla1p and Pan1p
-S000034279	CDS					YNL084C		14	471102	470053	C		2011-02-03	1996-07-31	
-S000005027	ORF	Verified	YNL083W	SAL1	Ca(2+)-binding ATP:ADP antiporter SAL1	chromosome 14		14	471377	472861	W		2011-02-03	2004-02-18|2010-01-05|1996-07-31	ADP/ATP transporter; member of the Ca2+-binding subfamily of mitochondrial carriers, with two EF-hand motifs; transport activity of either Sal1p or Pet9p is critical for viability; polymorphic in different S. cerevisiae strains
-S000034242	CDS					YNL083W		14	471377	472861	W		2011-02-03	2004-02-18|2010-01-05|1996-07-31	
-S000005026	ORF	Verified	YNL082W	PMS1	ATP-binding mismatch repair protein	chromosome 14	L000001457	14	473391	476012	W	-66	2011-02-03	2004-04-21|1996-07-31	ATP-binding protein required for mismatch repair; required for both mitosis and meiosis; functions as a heterodimer with Mlh1p; binds double- and single-stranded DNA via its N-terminal domain, similar to E. coli MutL
-S000034101	CDS					YNL082W		14	473391	476012	W		2011-02-03	2004-04-21|1996-07-31	
-S000005025	ORF	Verified	YNL081C	SWS2	putative mitochondrial 37S ribosomal protein SWS2	chromosome 14		14	476619	476188	C		2011-02-03	1996-07-31	Putative mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S13 ribosomal protein; participates in controlling sporulation efficiency; localizes to vacuole in response to H2O2
-S000032072	CDS					YNL081C		14	476619	476188	C		2011-02-03	1996-07-31	
-S000005024	ORF	Verified	YNL080C	EOS1		chromosome 14		14	478032	476932	C		2011-02-03	1996-07-31	Protein involved in N-glycosylation; deletion mutation confers sensitivity to exidative stress and shows synthetic lethality with mutations in the spindle checkpoint genes BUB3 and MAD1; YNL080C is not an essential gene
-S000031947	CDS					YNL080C		14	478032	476932	C		2011-02-03	1996-07-31	
-S000005023	ORF	Verified	YNL079C	TPM1	tropomyosin TPM1	chromosome 14	L000002328	14	479165	478566	C		2011-02-03	1996-07-31	Major isoform of tropomyosin; binds to and stabilizes actin cables and filaments, which direct polarized cell growth and the distribution of several organelles; acetylated by the NatB complex and acetylated form binds actin most efficiently; TPM1 has a paralog, TPM2, that arose from the whole genome duplication
-S000032271	CDS					YNL079C		14	479165	478566	C		2011-02-03	1996-07-31	
-S000005022	ORF	Verified	YNL078W	NIS1	JIP1	chromosome 14		14	479768	480991	W		2011-02-03	1996-07-31	Protein localized in the bud neck at G2/M phase; physically interacts with septins; possibly involved in a mitotic signaling network
-S000032241	CDS					YNL078W		14	479768	480991	W		2011-02-03	1996-07-31	
-S000005021	ORF	Verified	YNL077W	APJ1		chromosome 14		14	481391	482977	W		2011-02-03	1996-07-31	Chaperone with a role in SUMO-mediated protein degradation; member of the DnaJ-like family; conserved across eukaryotes; overexpression interferes with propagation of the [Psi+] prion; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; forms nuclear foci upon DNA replication stress
-S000032158	CDS					YNL077W		14	481391	482977	W		2011-02-03	1996-07-31	
-S000005020	ORF	Verified	YNL076W	MKS1	LYS80	chromosome 14	L000001119	14	483556	485310	W		2011-02-03	1996-07-31	Pleiotropic negative transcriptional regulator; involved in Ras-CAMP and lysine biosynthetic pathways and nitrogen regulation; involved in retrograde (RTG) mitochondria-to-nucleus signaling
-S000031187	CDS					YNL076W		14	483556	485310	W		2011-02-03	1996-07-31	
-S000005019	ORF	Verified	YNL075W	IMP4	snoRNA-binding rRNA-processing protein IMP4	chromosome 14	S000007424	14	485607	486479	W		2011-02-03	1996-07-31	Component of the SSU processome; SSU processome is required for pre-18S rRNA processing; interacts with Mpp10p; member of a superfamily of proteins that contain a sigma(70)-like motif and associate with RNAs
-S000031099	CDS					YNL075W		14	485607	486479	W		2011-02-03	1996-07-31	
-S000005018	ORF	Verified	YNL074C	MLF3	YMK1	chromosome 14	L000004166	14	488124	486766	C		2011-02-03	1996-07-31	Serine-rich protein of unknown function; predicted to be palmitoylated; overproduction suppresses growth inhibition caused by exposure to immunosuppressant leflunomide; MLF3 has a paralog, VHS2, that arose from the whole genome duplication
-S000030955	CDS					YNL074C		14	488124	486766	C		2011-02-03	1996-07-31	
-S000005017	ORF	Verified	YNL073W	MSK1	lysine--tRNA ligase MSK1	chromosome 14	L000001195	14	488386	490116	W		2011-02-03	1996-07-31	Mitochondrial lysine-tRNA synthetase; required for import of both aminoacylated and deacylated forms of tRNA(Lys) into mitochondria and for aminoacylation of mitochondrially encoded tRNA(Lys)
-S000030916	CDS					YNL073W		14	488386	490116	W		2011-02-03	1996-07-31	
-S000005016	ORF	Verified	YNL072W	RNH201	ribonuclease H2 catalytic subunit RNH201|Rnh2A|RNH35	chromosome 14	L000004047	14	490317	491240	W		2011-02-03	1996-07-31	Ribonuclease H2 catalytic subunit; removes RNA primers during Okazaki fragment synthesis and errant ribonucleotides misincorporated during DNA replication; role in ribonucleotide excision repair; homolog of RNAse HI; related to human AGS4 which causes Aicardi-Goutieres syndrome
-S000029909	CDS					YNL072W		14	490317	491240	W		2011-02-03	1996-07-31	
-S000005015	ORF	Verified	YNL071W	LAT1	dihydrolipoyllysine-residue acetyltransferase|PDA2|ODP2	chromosome 14	L000000932|L000003242	14	491523	492971	W		2011-02-03	1996-07-31	Dihydrolipoamide acetyltransferase component (E2) of the PDC; the pyruvate dehydrogenase complex (PDC) catalyzes the oxidative decarboxylation of pyruvate to acetyl-CoA
-S000037903	CDS					YNL071W		14	491523	492971	W		2011-02-03	1996-07-31	
-S000005014	ORF	Verified	YNL070W	TOM7	YOK22|MOM7	chromosome 14	L000003250	14	493366	493548	W		2011-02-03	1996-07-31	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import steps for all mitochondrially directed proteins; promotes assembly and stability of the TOM complex
-S000037807	CDS					YNL070W		14	493366	493548	W		2011-02-03	1996-07-31	
-S000005013	ORF	Verified	YNL069C	RPL16B	uL13|ribosomal 60S subunit protein L16B|L13|rp23|YL15|L21B|L16B|RP23	chromosome 14	L000003244	14	495001	493956	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L16B; N-terminally acetylated, binds 5.8 S rRNA; transcriptionally regulated by Rap1p; homologous to mammalian ribosomal protein L13A and bacterial L13; RPL16B has a paralog, RPL16A, that arose from the whole genome duplication
-S000036374	CDS					YNL069C		14	494524	493956	C		2011-02-03	1996-07-31	
-S000036373	CDS					YNL069C		14	495001	494974	C		2011-02-03	1996-07-31	
-S000036375	intron					YNL069C		14	494973	494525	C		2011-02-03	1996-07-31	
-S000005012	ORF	Verified	YNL068C	FKH2	forkhead family transcription factor FKH2	chromosome 14	L000002608	14	498289	495701	C		2011-02-03	1996-07-31	Forkhead family transcription factor; rate-limiting activator of replication origins; evolutionarily conserved regulator of lifespan; binds multiple chromosomal elements with distinct specificities, cell cycle dynamics; positively regulates transcriptional elongation; facilitates clustering, activation of early-firing replication origins; negative role in chromatin silencing at HML and HMR; major role in expression of G2/M phase genes; relocalizes to cytosol under hypoxia
-S000036272	CDS					YNL068C		14	498289	495701	C		2011-02-03	1996-07-31	
-S000007623	ORF	Dubious	YNL067W-A		YNL067W-B	chromosome 14		14	498538	498684	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037221	CDS					YNL067W-A		14	498538	498684	W		2011-02-03	2001-02-26	
-S000118388	ARS		ARS1420		ARSXIV-499	chromosome 14		14	498970	499154			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178172	ARS_consensus_sequence					ARS1420		14	499037	499053	W		2014-11-18	2014-11-18	
-S000028810	ORF	Uncharacterized	YNL067W-B		YNL067W-A	chromosome 14		14	499417	499557	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000033610	CDS					YNL067W-B		14	499417	499557	W		2011-02-03	2003-07-29	
-S000005011	ORF	Verified	YNL067W	RPL9B	uS4|uL6|ribosomal 60S subunit protein L9B|L6|rp24|YL11|L9B|L8B	chromosome 14	L000003165	14	499681	500256	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L9B; homologous to mammalian ribosomal protein L9 and bacterial L6; RPL9B has a paralog, RPL9A, that arose from a single-locus duplication
-S000036228	CDS					YNL067W		14	499681	500256	W		2011-02-03	1996-07-31	
-S000005010	ORF	Verified	YNL066W	SUN4	putative glucosidase SUN4|SCW3	chromosome 14	L000004564|L000004151	14	501515	502777	W		2011-02-03	1996-07-31	Cell wall protein related to glucanases; possibly involved in cell wall septation; member of the SUN family; SUN4 has a paralog, SIM1, that arose from the whole genome duplication
-S000036134	CDS					YNL066W		14	501515	502777	W		2011-02-03	1996-07-31	
-S000122110	five_prime_UTR_intron					YNL066W		14	501157	501502	W		2011-02-03	2007-04-04	
-S000005009	ORF	Verified	YNL065W	AQR1		chromosome 14		14	503724	505484	W		2011-02-03	1996-07-31	Plasma membrane transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; confers resistance to short-chain monocarboxylic acids and quinidine; involved in the excretion of excess amino acids; AQR1 has a paralog, QDR1, that arose from the whole genome duplication; relocalizes from plasma membrane to cytoplasm upon DNA replication stress
-S000036037	CDS					YNL065W		14	503724	505484	W		2011-02-03	1996-07-31	
-S000005008	ORF	Verified	YNL064C	YDJ1	MAB3|type I HSP40 co-chaperone YDJ1|HSP40|MAS5	chromosome 14	L000002503|L000003567|S000029274	14	507097	505868	C		2011-02-03	1996-07-31	Type I HSP40 co-chaperone; involved in regulation of HSP90 and HSP70 functions; acts as an adaptor that helps Rsp5p recognize cytosolic misfolded proteins for ubiquitination after heat shock; critical for determining cell size at Start as a function of growth rate; involved in protein translocation across membranes; member of the DnaJ family; chimeric protein in which human p58IPK J domain replaces yeast Ydj1p J domain can complement yeast ydj1 mutant
-S000035088	CDS					YNL064C		14	507097	505868	C		2011-02-03	1996-07-31	
-S000005007	ORF	Verified	YNL063W	MTQ1	S-adenosylmethionine-dependent methyltransferase	chromosome 14		14	507758	508702	W		2011-02-03	1996-07-31	S-adenosylmethionine-dependent methyltransferase; methylates translational release factor Mrf1p; similar to E.coli PrmC; is not an essential gene
-S000035039	CDS					YNL063W		14	507758	508702	W		2011-02-03	1996-07-31	
-S000005006	ORF	Verified	YNL062C	GCD10	tRNA 1-methyladenosine methyltransferase subunit GCD10|TRM6	chromosome 14	L000000676	14	510212	508776	C		2011-02-03	1996-07-31	Subunit of tRNA (1-methyladenosine) methyltransferase with Gcd14p; required for the modification of the adenine at position 58 in tRNAs, especially tRNAi-Met; first identified as a negative regulator of GCN4 expression
-S000034822	CDS					YNL062C		14	510212	508776	C		2011-02-03	1996-07-31	
-S000005005	ORF	Verified	YNL061W	NOP2	rRNA (cytosine-C5-)-methyltransferase NOP2|YNA1	chromosome 14	L000002535	14	510540	512396	W		2011-02-03	1996-07-31	rRNA m5C methyltransferase; methylates cytosine at position 2870 of 25S rRNA; has an essential function independent of rRNA methylation; contains seven beta-strand methyltransferase motif; essential for processing and maturation of 27S pre-rRNA and large ribosomal subunit biogenesis; localized to the nucleolus; constituent of 66S pre-ribosomal particles; rRNA methylation defect and lethality are functionally complemented by human NOP2, a gene upregulated in cancer
-S000034786	CDS					YNL061W		14	510540	512396	W		2011-02-03	1996-07-31	
-S000005004	ORF	Verified	YNL059C	ARP5		chromosome 14	L000003434	14	514935	512668	C		2011-02-03	1997-01-28	Nuclear actin-related protein involved in chromatin remodeling; component of chromatin-remodeling enzyme complexes; promotes nucleosome shifts in the 3 prime direction
-S000031814	CDS					YNL059C		14	514935	512668	C		2011-02-03	1997-01-28	
-S000005002	ORF	Dubious	YNL057W			chromosome 14		14	516403	516735	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031644	CDS					YNL057W		14	516403	516735	W		2011-02-03	1997-01-28	
-S000005003	ORF	Uncharacterized	YNL058C			chromosome 14		14	516713	515763	C		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to vacuole; not an essential gene; YNL058C has a paralog, PRM5, that arose from the whole genome duplication
-S000031675	CDS					YNL058C		14	516713	515763	C		2011-02-03	1997-01-28	
-S000005001	ORF	Verified	YNL056W	OCA2		chromosome 14		14	517249	517842	W		2011-02-03	1997-01-28	Protein of unknown function; similar to predicted tyrosine phosphatases Oca1p and Siw14p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YNL056W is not an essential gene
-S000031555	CDS					YNL056W		14	517249	517842	W		2011-02-03	1997-01-28	
-S000005000	ORF	Verified	YNL055C	POR1	porin POR1|VDAC|YVDAC1|OMP2	chromosome 14	L000001302	14	518845	517994	C		2011-02-03	1997-01-28	Mitochondrial porin (voltage-dependent anion channel); outer membrane protein required for maintenance of mitochondrial osmotic stability and mitochondrial membrane permeability; couples the glutathione pools of the intermembrane space (IMS) and the cytosol; interacts with Om45 and Om14 in the outer membrane; phosphorylated; protein abundance increases in response to DNA replication stress
-S000030679	CDS					YNL055C		14	518845	517994	C		2011-02-03	1997-01-28	
-S000007136	long_terminal_repeat		YNLWdelta3			chromosome 14		14	519163	519496	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007142	LTR_retrotransposon		YNLWTy1-2		Ty1	chromosome 14		14	519163	525062	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000006544	tRNA_gene		tD(GUC)N			chromosome 14	L000003699	14	519169	519099	C		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000030423	noncoding_exon					tD(GUC)N		14	519169	519099	C		2011-02-03	2000-05-19	
-S000007384	transposable_element_gene		YNL054W-A		gag protein	chromosome 14		14	519456	520778	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000033062	CDS					YNL054W-A		14	519456	520778	W		2011-02-03	1999-07-17	
-S000007385	transposable_element_gene		YNL054W-B		gag-pol fusion protein	chromosome 14		14	519456	524706	W		2011-02-03	1999-07-17	TyB Gag-Pol protein; proteolytically processed to make the Gag, reverse transcriptase (RT), protease (PR), and integrase (IN) proteins that are required for retrotransposition
-S000033063	CDS					YNL054W-B		14	519456	520760	W		2011-02-03	1999-07-17	
-S000033064	CDS					YNL054W-B		14	520762	524706	W		2011-02-03	1999-07-17	
-S000033065	plus_1_translational_frameshift					YNL054W-B		14	520761	520761	W		2011-02-03	1999-07-17	
-S000007137	long_terminal_repeat		YNLWdelta4			chromosome 14		14	524729	525062	W		2011-02-03	2000-05-19	Ty1 LTR
-S000004999	ORF	Verified	YNL054W	VAC7		chromosome 14	L000004051	14	526086	529583	W		2011-02-03	1997-01-28	Integral vacuolar membrane protein; involved in vacuole inheritance and morphology; activates Fab1p kinase activity under basal conditions and also after hyperosmotic shock
-S000030639	CDS					YNL054W		14	526086	529583	W		2011-02-03	1997-01-28	
-S000004998	ORF	Verified	YNL053W	MSG5	tyrosine/serine/threonine protein phosphatase MSG5	chromosome 14	L000001188	14	529942	531411	W		2011-02-03	1997-01-28	Dual-specificity protein phosphatase; exists in 2 isoforms; required for maintenance of a low level of signaling through the cell integrity pathway, adaptive response to pheromone; regulates and is regulated by Slt2p; dephosphorylates Fus3p; MSG5 has a paralog, SDP1, that arose from the whole genome duplication
-S000030532	CDS					YNL053W		14	529942	531411	W		2011-02-03	1997-01-28	
-S000004997	ORF	Verified	YNL052W	COX5A	cytochrome c oxidase subunit Va	chromosome 14	L000000388|L000000387	14	531725	532186	W		2011-02-03	1997-01-28	Subunit Va of cytochrome c oxidase; cytochrome c oxidase is the terminal member of the mitochondrial inner membrane electron transport chain; Cox5Ap is predominantly expressed during aerobic growth while its isoform Vb (Cox5Bp) is expressed during anaerobic growth; COX5A has a paralog, COX5B, that arose from the whole genome duplication
-S000030467	CDS					YNL052W		14	531725	532186	W		2011-02-03	1997-01-28	
-S000004996	ORF	Verified	YNL051W	COG5	Golgi transport complex subunit COG5|COD4|API4	chromosome 14		14	532659	533870	W		2011-02-03	1997-01-28	Component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
-S000037658	CDS					YNL051W		14	532659	533870	W		2011-02-03	1997-01-28	
-S000004995	ORF	Uncharacterized	YNL050C			chromosome 14		14	534982	534079	C		2011-02-03	1997-01-28	Putative protein of unknown function; YNL050c is not an essential gene
-S000037523	CDS					YNL050C		14	534874	534079	C		2011-02-03	1997-01-28	
-S000037522	CDS					YNL050C		14	534982	534966	C		2011-02-03	1997-01-28	
-S000037524	intron					YNL050C		14	534965	534875	C		2011-02-03	1997-01-28	
-S000004994	ORF	Verified	YNL049C	SFB2	COPII subunit SFB2|ISS1	chromosome 14	L000004658	14	537911	535281	C		2011-02-03	1997-01-28	Component of the Sec23p-Sfb2p heterodimer of the COPII vesicle coat; required for cargo selection during vesicle formation in ER to Golgi transport; homologous to Sfb3p; SFB2 has a paralog, SEC24, that arose from the whole genome duplication
-S000036531	CDS					YNL049C		14	537911	535281	C		2011-02-03	1997-01-28	
-S000004993	ORF	Verified	YNL048W	ALG11	alpha-1,2-mannosyltransferase ALG11	chromosome 14	L000003378	14	538173	539819	W		2011-02-03	1997-01-28	Alpha-1,2-mannosyltransferase; catalyzes sequential addition of the two terminal alpha 1,2-mannose residues to the Man5GlcNAc2-PP-dolichol intermediate during asparagine-linked glycosylation in the ER
-S000036480	CDS					YNL048W		14	538173	539819	W		2011-02-03	1997-01-28	
-S000004992	ORF	Verified	YNL047C	SLM2	phosphatidylinositol 4,5-bisphosphate-binding protein|LIT1	chromosome 14		14	541881	539911	C		2011-02-03	1997-01-28	Phosphoinositide PI4,5P(2) binding protein, forms a complex with Slm1p; acts downstream of Mss4p in a pathway regulating actin cytoskeleton organization in response to stress; TORC2 complex substrate and effector; SLM2 has a paralog, SLM1, that arose from the whole genome duplication
-S000036346	CDS					YNL047C		14	541881	539911	C		2011-02-03	1997-01-28	
-S000004991	ORF	Uncharacterized	YNL046W			chromosome 14		14	542304	542822	W		2011-02-03	1997-01-28	Putative protein of unknown function; expression depends on Swi5p; GFP-fusion protein localizes to the endoplasmic reticulum; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
-S000036307	CDS					YNL046W		14	542304	542822	W		2011-02-03	1997-01-28	
-S000004990	ORF	Verified	YNL045W	LAP2	bifunctional aminopeptidase/epoxide hydrolase	chromosome 14		14	542963	544978	W		2011-02-03	1997-01-28	Leucyl aminopeptidase yscIV with epoxide hydrolase activity; metalloenzyme containing one zinc atom; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; also known as leukotriene A4 hydrolase
-S000035413	CDS					YNL045W		14	542963	544978	W		2011-02-03	1997-01-28	
-S000004989	ORF	Verified	YNL044W	YIP3		chromosome 14	L000003269	14	545268	545877	W		2011-02-03	1999-11-17|1997-01-28	Protein localized to COPII vesicles; proposed to be involved in ER to Golgi transport; interacts with members of the Rab GTPase family and Yip1p; also interacts with Rtn1p
-S000035328	CDS					YNL044W		14	545268	545291	W		2011-02-03	1999-11-17	
-S000035329	CDS					YNL044W		14	545371	545877	W		2011-02-03	1999-11-17|1997-01-28	
-S000035330	intron					YNL044W		14	545292	545370	W		2011-02-03	1999-11-17	
-S000004988	ORF	Dubious	YNL043C			chromosome 14		14	545909	545589	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YIP3/YNL044W
-S000035201	CDS					YNL043C		14	545909	545589	C		2011-02-03	1997-01-28	
-S000118389	ARS		ARS1421		ARSXIV-546	chromosome 14		14	546072	546170			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178173	ARS_consensus_sequence					ARS1421		14	546146	546130	C		2014-11-18	2014-11-18	
-S000007138	long_terminal_repeat		YNLWsigma2			chromosome 14		14	546423	546714	W		2011-02-03	2000-05-19	Ty3 LTR
-S000007139	long_terminal_repeat		YNLWsigma3			chromosome 14		14	546738	547077	W		2011-02-03	2000-05-19	Ty3 LTR
-S000006685	tRNA_gene		tP(UGG)N1			chromosome 14	L000003691	14	547094	547196	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
-S000030970	intron					tP(UGG)N1		14	547130	547160	W		2011-02-03	2000-05-19	
-S000030968	noncoding_exon					tP(UGG)N1		14	547094	547129	W		2011-02-03	2000-05-19	
-S000030969	noncoding_exon					tP(UGG)N1		14	547161	547196	W		2011-02-03	2000-05-19	
-S000028850	ORF	Uncharacterized	YNL042W-B			chromosome 14		14	547113	547370	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000034563	CDS					YNL042W-B		14	547113	547370	W		2011-02-03	2003-07-29	
-S000004987	ORF	Verified	YNL042W	BOP3		chromosome 14	L000004723	14	548100	549290	W		2011-02-03	1997-01-28	Protein of unknown function; potential Cdc28p substrate; overproduction confers resistance to methylmercury
-S000035157	CDS					YNL042W		14	548100	549290	W		2011-02-03	1997-01-28	
-S000004986	ORF	Verified	YNL041C	COG6	Golgi transport complex subunit COG6|SEC37|COD2	chromosome 14		14	551987	549468	C		2011-02-03	1997-01-28	Component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
-S000034122	CDS					YNL041C		14	551987	549468	C		2011-02-03	1997-01-28	
-S000004985	ORF	Verified	YNL040W		putative alanine--tRNA ligase	chromosome 14		14	553380	554750	W		2011-02-03	1997-01-28	Protein of unknown function; has strong similarity to alanyl-tRNA synthases from Eubacteria; null mutant displays decreased translation rate and increased readthrough of premature stop codons; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YNL040W is not an essential gene
-S000034091	CDS					YNL040W		14	553380	554750	W		2011-02-03	1997-01-28	
-S000004984	ORF	Verified	YNL039W	BDP1	transcription factor TFIIIB subunit BDP1|TFC7|TFIIIB90|TFC5	chromosome 14	L000003032	14	555048	556832	W		2011-02-03	1997-01-28	Essential subunit of RNA polymerase III transcription factor (TFIIIB); TFIIIB is involved in transcription of genes encoding tRNAs, 5S rRNA, U6 snRNA, and other small RNAs
-S000032264	CDS					YNL039W		14	555048	556832	W		2011-02-03	1997-01-28	
-S000004983	ORF	Verified	YNL038W	GPI15	phosphatidylinositol N-acetylglucosaminyltransferase GPI15	chromosome 14		14	557020	557783	W		2011-02-03	2003-09-27|1997-01-28	Protein involved in the synthesis of GlcNAc-PI; GlcNAc-PI is the first intermediate in the synthesis of glycosylphosphatidylinositol (GPI) anchors; homologous to the human PIG-H protein; GlcNAc-PI stands for N-acetylglucosaminyl phosphatidylinositol
-S000032181	CDS					YNL038W		14	557020	557610	W		2011-02-03	2003-09-27|1997-01-28	
-S000032182	CDS					YNL038W		14	557685	557783	W		2011-02-03	2003-09-27	
-S000032183	intron					YNL038W		14	557611	557684	W		2011-02-03	2003-09-27	
-S000004982	ORF	Verified	YNL037C	IDH1	isocitrate dehydrogenase (NAD(+)) IDH1	chromosome 14	L000000849	14	559002	557920	C		2011-02-03	1997-01-28	Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase; complex catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle
-S000032073	CDS					YNL037C		14	559002	557920	C		2011-02-03	1997-01-28	
-S000004981	ORF	Verified	YNL036W	NCE103	carbonate dehydratase NCE103|NCE3	chromosome 14	L000003213	14	559814	560479	W		2011-02-03	1997-01-28	Carbonic anhydrase; metalloenzyme that catalyzes CO2 hydration to bicarbonate, which is an important metabolic substrate, and protons; not expressed under conditions of high CO2, such as inside a growing colony, but transcription is induced in response to low CO2 levels, such as on the colony surface in ambient air; poorly transcribed under aerobic conditions and at an undetectable level under anaerobic conditions; abundance increases in response to DNA replication stress
-S000032012	CDS					YNL036W		14	559814	560479	W		2011-02-03	1997-01-28	
-S000006745	tRNA_gene		tT(AGU)N2			chromosome 14	L000003698	14	560765	560693	C		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000037431	noncoding_exon					tT(AGU)N2		14	560765	560693	C		2011-02-03	2000-05-19	
-S000118390	ARS		ARS1422		ARSXIV-561	chromosome 14		14	561111	561388			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178174	ARS_consensus_sequence					ARS1422		14	561327	561311	C		2014-11-18	2014-11-18	
-S000007141	long_terminal_repeat		YNLWtau2			chromosome 14		14	561607	561977	W		2011-02-03	2000-05-19	Ty4 LTR
-S000007131	long_terminal_repeat		YNLCdelta5			chromosome 14		14	562364	562033	C		2011-02-03	2000-05-19	Ty2 LTR
-S000007135	LTR_retrotransposon		YNLCTy2-1		Ty2	chromosome 14		14	567660	562364	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
-S000007132	long_terminal_repeat		YNLCdelta6			chromosome 14		14	567992	567660	C		2011-02-03	2000-05-19	Ty2 LTR
-S000006686	tRNA_gene		tP(UGG)N2			chromosome 14	L000003692	14	568115	568217	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
-S000030974	intron					tP(UGG)N2		14	568151	568181	W		2011-02-03	2000-05-19	
-S000030972	noncoding_exon					tP(UGG)N2		14	568115	568150	W		2011-02-03	2000-05-19	
-S000030973	noncoding_exon					tP(UGG)N2		14	568182	568217	W		2011-02-03	2000-05-19	
-S000130143	ARS		ARS1423			chromosome 14		14	568219	568524			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000004980	ORF	Verified	YNL035C			chromosome 14		14	569691	568522	C		2011-02-03	1997-01-28	Nuclear protein of unknown function; relocalizes to the cytosol in response to hypoxia; contains WD-40 domains; not an essential gene; protein abundance increases in response to DNA replication stress
-S000031007	CDS					YNL035C		14	569691	568522	C		2011-02-03	1997-01-28	
-S000006609	tRNA_gene		tI(AAU)N1			chromosome 14	L000003697	14	569940	569867	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000034901	noncoding_exon					tI(AAU)N1		14	569940	569867	C		2011-02-03	2000-05-19	
-S000004979	ORF	Uncharacterized	YNL034W			chromosome 14		14	570477	572315	W		2011-02-03	1997-01-28	Putative protein of unknown function; not an essential gene; YNL034W has a paralog, YNL018C, that arose from a segmental duplication
-S000030964	CDS					YNL034W		14	570477	572315	W		2011-02-03	1997-01-28	
-S000004978	ORF	Uncharacterized	YNL033W			chromosome 14		14	572999	573853	W		2011-02-03	1997-01-28	Putative protein of unknown function; YNL033W has a paralog, YNL019C, that arose from a segmental duplication
-S000030908	CDS					YNL033W		14	572999	573853	W		2011-02-03	1997-01-28	
-S000004977	ORF	Verified	YNL032W	SIW14	putative tyrosine protein phosphatase SIW14|OCA3	chromosome 14	L000004216	14	574506	575351	W		2011-02-03	1997-01-28	Tyrosine phosphatase involved in actin organization and endocytosis; localized to the cytoplasm
-S000030820	CDS					YNL032W		14	574506	575351	W		2011-02-03	1997-01-28	
-S000004976	ORF	Verified	YNL031C	HHT2	histone H3	chromosome 14	L000000773	14	576050	575640	C		2011-02-03	1997-01-28	Histone H3; core histone protein required for chromatin assembly, part of heterochromatin-mediated telomeric and HM silencing; one of two identical histone H3 proteins (see HHT1); regulated by acetylation, methylation, and phosphorylation; H3K14 acetylation plays an important role in the unfolding of strongly positioned nucleosomes during repair of UV damage
-S000037842	CDS					YNL031C		14	576050	575640	C		2011-02-03	1997-01-28	
-S000004975	ORF	Verified	YNL030W	HHF2	histone H4	chromosome 14	L000000771	14	576727	577038	W		2011-02-03	1997-01-28	Histone H4; core histone protein required for chromatin assembly and chromosome function; one of two identical histone proteins (see also HHF1); contributes to telomeric silencing; N-terminal domain involved in maintaining genomic integrity
-S000037800	CDS					YNL030W		14	576727	577038	W		2011-02-03	1997-01-28	
-S000004973	ORF	Dubious	YNL028W			chromosome 14		14	578679	578996	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036923	CDS					YNL028W		14	578679	578996	W		2011-02-03	1997-01-28	
-S000004974	ORF	Verified	YNL029C	KTR5	putative mannosyltransferase	chromosome 14	L000004099	14	578773	577205	C		2011-02-03	1997-01-28	Putative mannosyltransferase involved in protein glycosylation; member of the KRE2/MNT1 mannosyltransferase family; KTR5 has a paralog, KTR7, that arose from the whole genome duplication
-S000036950	CDS					YNL029C		14	578773	577205	C		2011-02-03	1997-01-28	
-S000004972	ORF	Verified	YNL027W	CRZ1	DNA-binding transcription factor CRZ1|TCN1|HAL8	chromosome 14	L000004202	14	579580	581616	W		2011-02-03	1997-01-28	Transcription factor, activates transcription of stress response genes; nuclear localization is positively regulated by calcineurin-mediated dephosphorylation; rapidly localizes to the nucleus under blue light stress; can be activated in stochastic pulses of nuclear localization in response to calcium
-S000036172	CDS					YNL027W		14	579580	581616	W		2011-02-03	1997-01-28	
-S000004971	ORF	Verified	YNL026W	SAM50	SAM complex subunit SAM50|TOB55|OMP85	chromosome 14		14	581920	583374	W		2011-02-03	1997-01-28	Component of the Sorting and Assembly Machinery (SAM) complex; the SAM (or TOB) complex is located in the mitochondrial outer membrane; the complex binds precursors of beta-barrel proteins and facilitates their outer membrane insertion; homologous to bacterial Omp85
-S000035990	CDS					YNL026W		14	581920	583374	W		2011-02-03	1997-01-28	
-S000004970	ORF	Verified	YNL025C	SSN8	cyclin-dependent protein serine/threonine kinase regulator SSN8|CNC1|CycC|RYE2|UME3|SRB11|NUT9|GIG3	chromosome 14	L000002796	14	585291	584320	C		2011-02-03	1997-01-28	Cyclin-like component of the RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; forms a kinase-cyclin pair in the RNAPII holoenzyme with Ssn3p; required for both entry into and execution of the meiotic program; involved in glucose repression and telomere maintenance; cyclin homolog 35% identical to human cyclin C
-S000034989	CDS					YNL025C		14	585291	584320	C		2011-02-03	1997-01-28	
-S000007436	snoRNA_gene		NME1	NME1	RRP2	chromosome 14	L000001258	14	585587	585926	W		2011-02-03	2000-05-19	RNA component of RNase MRP; RNase MRP cleaves pre-rRNA and has a role in cell cycle-regulated degradation of daughter cell-specific mRNAs; human ortholog is implicated in cartilage-hair hypoplasia (CHH)
-S000032302	noncoding_exon					NME1		14	585587	585926	W		2011-02-03	2000-05-19	
-S000006457	snoRNA_gene		snR66	SNR66		chromosome 14	L000004535	14	586090	586175	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2417
-S000030852	noncoding_exon					snR66		14	586090	586175	W		2011-02-03	2000-05-19	
-S000028698	ORF	Verified	YNL024C-A	KSH1		chromosome 14		14	586820	586602	C		2011-02-03	2003-07-29	Essential protein suggested to function early in the secretory pathway; inviability is suppressed by overexpression of Golgi protein Tvp23p; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and cytosol respectively; ortholog of human Kish
-S000032608	CDS					YNL024C-A		14	586820	586602	C		2011-02-03	2003-07-29	
-S000004969	ORF	Uncharacterized	YNL024C	EFM6	putative protein-lysine N-methyltransferase	chromosome 14		14	587847	587107	C		2011-02-03	1997-01-28	Putative S-adenosylmethionine-dependent lysine methyltransferase; responsible for modifying Lys-390 in translational elongation factor EF-1 alpha (eEF1A); has seven beta-strand methyltransferase motif; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000034856	CDS					YNL024C		14	587847	587107	C		2011-02-03	1997-01-28	
-S000004968	ORF	Verified	YNL023C	FAP1		chromosome 14	L000004577	14	591160	588263	C		2011-02-03	1997-01-28	Protein that binds to Fpr1p; confers rapamycin resistance by competing with rapamycin for Fpr1p binding; accumulates in the nucleus upon treatment of cells with rapamycin; has similarity to D. melanogaster shuttle craft and human NFX1
-S000034736	CDS					YNL023C		14	591160	588263	C		2011-02-03	1997-01-28	
-S000004967	ORF	Verified	YNL022C	RCM1	rRNA (cytosine-C5-)-methyltransferase RCM1	chromosome 14		14	592899	591427	C		2011-02-03	1997-01-28	rRNA m5C methyltransferase; methylates cytosine at position 2278 of 25S rRNA while Nop2p methylates cytosine at position 2870; contains seven beta-strand methyltransferase motif; localized to the nucleolus; interacts with Trm112p; homolog of NSUN5A, a human gene which is deleted in Williams-Beuren Syndrome
-S000033831	CDS					YNL022C		14	592899	591427	C		2011-02-03	1997-01-28	
-S000004966	ORF	Verified	YNL021W	HDA1	histone deacetylase HDA1	chromosome 14	L000004088	14	593227	595347	W		2011-02-03	1997-01-28	Putative catalytic subunit of a class II histone deacetylase complex; role in azole resistance via Hsp90p, and in the heat shock response; Hda1p interacts with the Hda2p-Hda3p subcomplex to form an active tetramer; deletion increases histone H2B, H3 and H4 acetylation; other members of the HDA1 histone deacetylase complex are Hda2p and Hda3p
-S000033782	CDS					YNL021W		14	593227	595347	W		2011-02-03	1997-01-28	
-S000004965	ORF	Verified	YNL020C	ARK1	serine/threonine protein kinase ARK1	chromosome 14	L000004430	14	597539	595623	C		2011-02-03	1997-01-28	Serine/threonine protein kinase; involved in regulation of the cortical actin cytoskeleton; involved in control of endocytosis; ARK1 has a paralog, PRK1, that arose from the whole genome duplication
-S000033598	CDS					YNL020C		14	597539	595623	C		2011-02-03	1997-01-28	
-S000004964	ORF	Uncharacterized	YNL019C			chromosome 14		14	599230	598376	C		2011-02-03	1997-01-28	Putative protein of unknown function; expression induced during heat stress; YNL019C has a paralog, YNL033W, that arose from a segmental duplication
-S000032941	CDS					YNL019C		14	599230	598376	C		2011-02-03	1997-01-28	
-S000004963	ORF	Uncharacterized	YNL018C			chromosome 14		14	601774	599936	C		2011-02-03	1997-01-28	Putative protein of unknown function; YNL018C has a paralog, YNL034W, that arose from a segmental duplication
-S000032852	CDS					YNL018C		14	601774	599936	C		2011-02-03	1997-01-28	
-S000006610	tRNA_gene		tI(AAU)N2			chromosome 14	L000003693	14	602312	602385	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000034903	noncoding_exon					tI(AAU)N2		14	602312	602385	W		2011-02-03	2000-05-19	
-S000004962	ORF	Dubious	YNL017C			chromosome 14		14	602476	602138	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the tRNA ORF tI(AAU)N2
-S000031913	CDS					YNL017C		14	602476	602138	C		2011-02-03	1997-01-28	
-S000004961	ORF	Verified	YNL016W	PUB1	RNP1	chromosome 14	L000001529	14	602907	604268	W		2011-02-03	1997-01-28	Poly (A)+ RNA-binding protein; abundant mRNP-component protein that binds mRNA and is required for stability of many mRNAs; component of glucose deprivation induced stress granules, involved in P-body-dependent granule assembly; implicated in regulation of translation; carries Q/N-rich domain at C- terminus, identified as candidate prion; human homolog Tia1 is critical for normal synaptic plasticity; protein abundance increases in response to DNA replication stress
-S000031862	CDS					YNL016W		14	602907	604268	W		2011-02-03	1997-01-28	
-S000004960	ORF	Verified	YNL015W	PBI2	IB2|I2B|LMA1	chromosome 14	L000001344	14	605384	605611	W		2011-02-03	1997-01-28	Cytosolic inhibitor of vacuolar proteinase B (PRB1); required for efficient vacuole inheritance; with thioredoxin forms protein complex LMA1, which assists in priming SNARE molecules and promotes vacuole fusion; protein abundance increases in response to DNA replication stress
-S000031753	CDS					YNL015W		14	605384	605611	W		2011-02-03	1997-01-28	
-S000004959	ORF	Verified	YNL014W	HEF3	translation elongation factor EF-3|ZRG7	chromosome 14		14	606319	609453	W		2011-02-03	1997-01-28	Translational elongation factor EF-3; member of the ABC superfamily; stimulates EF-1 alpha-dependent binding of aminoacyl-tRNA by the ribosome; normally expressed in zinc deficient cells; HEF3 has a paralog, YEF3, that arose from the whole genome duplication
-S000031664	CDS					YNL014W		14	606319	609453	W		2011-02-03	1997-01-28	
-S000004958	ORF	Dubious	YNL013C			chromosome 14		14	609510	609133	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF HEF3/YNL014W
-S000031500	CDS					YNL013C		14	609510	609133	C		2011-02-03	1997-01-28	
-S000118391	ARS		ARS1424		ARSXIV-610	chromosome 14		14	609520	609607			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178175	ARS_consensus_sequence					ARS1424		14	609532	609548	W		2014-11-18	2014-11-18	
-S000004957	ORF	Verified	YNL012W	SPO1	putative carboxylic ester hydrolase	chromosome 14	L000001999	14	609686	611665	W	-1	2011-02-03	2000-07-14|1997-01-28	Meiosis-specific prospore protein; required for meiotic spindle pole body duplication and separation; required to produce bending force necessary for proper prospore membrane assembly during sporulation; has similarity to phospholipase B
-S000030704	CDS					YNL012W		14	609686	609790	W		2011-02-03	2000-07-14	
-S000030705	CDS					YNL012W		14	609875	611665	W		2011-02-03	2000-07-14|1997-01-28	
-S000030706	intron					YNL012W		14	609791	609874	W		2011-02-03	2000-07-14	
-S000004956	ORF	Uncharacterized	YNL011C			chromosome 14		14	613170	611836	C		2011-02-03	1997-01-28	Putative protein of unknown function; YNL011C is not an essential gene
-S000030538	CDS					YNL011C		14	613170	611836	C		2011-02-03	1997-01-28	
-S000004955	ORF	Uncharacterized	YNL010W		putative phosphoric monoester hydrolase	chromosome 14		14	613635	614360	W		2011-02-03	1997-01-28	Putative protein of unknown function; similar to phosphoserine phosphatases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; homozygous diploid mutant shows an increase in glycogen accumulation
-S000030490	CDS					YNL010W		14	613635	614360	W		2011-02-03	1997-01-28	
-S000004954	ORF	Verified	YNL009W	IDP3	isocitrate dehydrogenase (NADP(+)) IDP3	chromosome 14	L000003946	14	614821	616083	W		2011-02-03	1997-01-28	Peroxisomal NADP-dependent isocitrate dehydrogenase; catalyzes oxidation of isocitrate to alpha-ketoglutarate with the formation of NADP(H+), required for growth on unsaturated fatty acids; IDP3 has a paralog, IDP2, that arose from the whole genome duplication
-S000037693	CDS					YNL009W		14	614821	616083	W		2011-02-03	1997-01-28	
-S000130144	ARS		ARS1425			chromosome 14		14	616311	617125			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000004953	ORF	Verified	YNL008C	ASI3	putative ubiquitin-protein ligase ASI3	chromosome 14		14	618241	616211	C		2011-02-03	1997-01-28|2011-02-03	Subunit of the inner nuclear membrane Asi ubiquitin ligase complex; Asi complex targets both misfolded proteins of the inner nuclear membrane-associated degradation (INMAD) pathway and regulators of sterol biosynthesis for ubiquitin-mediated degradation; acts with Asi1p and Asi2p to ensure the fidelity of SPS-sensor signaling by targeting latent unprocessed forms of Stp1p and Stp2p, maintaining the repressed state of gene expression in the absence of inducing amino acids
-S000037593	CDS					YNL008C		14	618241	616211	C		2011-02-03	1997-01-28|2011-02-03	
-S000004952	ORF	Verified	YNL007C	SIS1	type II HSP40 co-chaperone SIS1	chromosome 14	L000001898	14	619565	618507	C	3	2011-02-03	1997-01-28	Type II HSP40 co-chaperone that interacts with the HSP70 protein Ssa1p; shuttles between cytosol and nucleus; mediates delivery of misfolded proteins into the nucleus for degradation; involved in proteasomal degradation of misfolded cytosolic proteins; protein abundance increases in response to DNA replication stress; polyQ aggregates sequester Sis1p and interfere with clearance of misfolded proteins; similar to bacterial DnaJ proteins and mammalian DnaJB1
-S000036851	CDS					YNL007C		14	619565	618507	C		2011-02-03	1997-01-28	
-S000004951	ORF	Verified	YNL006W	LST8	TOR complex subunit LST8	chromosome 14	L000004356	14	620067	620978	W		2011-02-03	1997-01-28	Protein required for the transport of Gap1p; required for the transport of amino acid permease Gap1p from the Golgi to the cell surface; component of the TOR signaling pathway; associates with both Tor1p and Tor2p; contains a WD-repeat
-S000036826	CDS					YNL006W		14	620067	620978	W		2011-02-03	1997-01-28	
-S000004950	ORF	Verified	YNL005C	MRP7	mitochondrial 54S ribosomal protein YmL2|YmL2|MRPL2	chromosome 14	L000002682|S000029309|L000001155|L000003239	14	622428	621313	C		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit
-S000036741	CDS					YNL005C		14	622428	621313	C		2011-02-03	1997-01-28	
-S000004949	ORF	Verified	YNL004W	HRB1	mRNA-binding protein|TOM34	chromosome 14	L000002318	14	622915	624621	W		2011-02-03	1997-01-28|2007-07-09	Poly(A+) RNA-binding protein; key surveillance factor for the selective export of spliced mRNAs from the nucleus to the cytoplasm; preference for intron-containing genes; similar to Npl3p; HRB1 has a paralog, GBP2, that arose from the whole genome duplication
-S000036718	CDS					YNL004W		14	622915	622944	W		2011-02-03	1997-01-28|2007-07-09	
-S000123273	CDS					YNL004W		14	623287	624621	W		2011-02-03	2007-07-09	
-S000123272	intron					YNL004W		14	622945	623286	W		2011-02-03	2007-07-09	
-S000004948	ORF	Verified	YNL003C	PET8	SAM5	chromosome 14	L000001385	14	625829	624975	C	3	2011-02-03	1997-01-28	S-adenosylmethionine transporter of the mitochondrial inner membrane; member of the mitochondrial carrier family; required for biotin biosynthesis and respiratory growth
-S000035777	CDS					YNL003C		14	625829	624975	C		2011-02-03	1997-01-28	
-S000004947	ORF	Verified	YNL002C	RLP7	RPL7	chromosome 14	L000001647	14	627142	626174	C		2011-02-03	1997-01-28	Nucleolar protein similar to large ribosomal subunit L7 proteins; constituent of 66S pre-ribosomal particles; plays an essential role in processing of precursors to the large ribosomal subunit RNAs; binds junction of ITS2 and ITS2-proximal stem between the 3' end of 5.8S rRNA and the 5' end of 25S rRNA
-S000035659	CDS					YNL002C		14	627142	626174	C		2011-02-03	1997-01-28	
-S000004946	ORF	Verified	YNL001W	DOM34	ribosome dissociation factor DOM34	chromosome 14	L000000517	14	627456	628616	W		2011-02-03	1997-01-28	Protein that facilitates ribosomal subunit dissociation; Dom34-Hbs1 complex and Rli1p have roles in dissociating inactive ribosomes to facilitate translation restart, particularly ribosomes stalled in 3' UTRs; required for RNA cleavage in no-go decay, but reports conflict on endonuclease activity; Pelota ortholog; protein abundance increases in response to DNA replication stress; DOM34 has a paralog, YCL001W-B, that arose from the whole genome duplication
-S000035621	CDS					YNL001W		14	627456	628616	W		2011-02-03	1997-01-28	
-S000006475	centromere		CEN14	CEN14		chromosome 14	L000000307	14	628758	628875	W	0	2011-02-03	2000-05-19|2004-10-08	Chromosome XIV centromere
-S000077302	centromere_DNA_Element_I					CEN14		14	628758	628767	W		2011-02-03	2004-10-08	
-S000077303	centromere_DNA_Element_II					CEN14		14	628768	628850	W		2011-02-03	2004-10-08	
-S000077304	centromere_DNA_Element_III					CEN14		14	628851	628875	W		2011-02-03	2004-10-08	
-S000005284	ORF	Verified	YNR001C	CIT1	citrate (Si)-synthase CIT1|LYS6|CS1	chromosome 14	L000000341	14	631061	629622	C		2011-02-03	1997-01-28	Citrate synthase; catalyzes the condensation of acetyl coenzyme A and oxaloacetate to form citrate; the rate-limiting enzyme of the TCA cycle; nuclear encoded mitochondrial protein; CIT1 has a paralog, CIT2, that arose from the whole genome duplication
-S000031441	CDS					YNR001C		14	631061	629622	C		2011-02-03	1997-01-28	
-S000007625	ORF	Dubious	YNR001W-A			chromosome 14		14	631263	631481	W		2011-02-03	2001-02-26	Dubious open reading frame unlikely to encode a functional protein; identified by homology
-S000037252	CDS					YNR001W-A		14	631263	631481	W		2011-02-03	2001-02-26	
-S000006679	tRNA_gene		tP(AGG)N	SUF10		chromosome 14	L000002158|L000003696	14	631917	631846	C	-3	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in proline codons
-S000033281	noncoding_exon					tP(AGG)N		14	631917	631846	C		2011-02-03	2000-05-19	
-S000007143	long_terminal_repeat		YNRCdelta7			chromosome 14		14	632114	631998	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007146	long_terminal_repeat		YNRCtau3			chromosome 14		14	632489	632119	C		2011-02-03	2000-05-19	Ty4 LTR
-S000006674	tRNA_gene		tN(GUU)N2			chromosome 14	L000003694	14	632599	632672	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000035574	noncoding_exon					tN(GUU)N2		14	632599	632672	W		2011-02-03	2000-05-19	
-S000005285	ORF	Verified	YNR002C	ATO2	putative ammonium permease ATO2|FUN34	chromosome 14	L000000647	14	633856	633008	C		2011-02-03	1997-01-28	Putative transmembrane protein involved in export of ammonia; ammonia is a starvation signal that promotes cell death in aging colonies; phosphorylated in mitochondria; member of the TC 9.B.33 YaaH family; homolog of Y. lipolytica Gpr1p; ATO2 has a paralog, ADY2, that arose from the whole genome duplication
-S000031565	CDS					YNR002C		14	633856	633008	C		2011-02-03	1997-01-28	
-S000028705	ORF	Dubious	YNR003W-A			chromosome 14		14	634420	634518	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene RPC34/YNR003C
-S000032645	CDS					YNR003W-A		14	634420	634518	W		2011-02-03	2003-07-29	
-S000005286	ORF	Verified	YNR003C	RPC34	DNA-directed RNA polymerase III subunit C34|C34	chromosome 14	L000001689	14	635297	634344	C	3	2011-02-03	1997-01-28	RNA polymerase III subunit C34; interacts with TFIIIB70 and is a key determinant in pol III recruitment by the preinitiation complex
-S000031697	CDS					YNR003C		14	635297	634344	C		2011-02-03	1997-01-28	
-S000118392	ARS		ARS1426		ARSXIV-636	chromosome 14		14	635664	635904			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178176	ARS_consensus_sequence					ARS1426		14	635831	635815	C		2014-11-18	2014-11-18	
-S000005287	ORF	Verified	YNR004W	SWM2		chromosome 14		14	635943	636383	W		2011-02-03	1997-01-28	Protein with a role in snRNA and snoRNA cap trimethylation; interacts with Tgs1p and shows similar phenotypes; required for trimethylation of the caps of spliceosomal snRNAs and the U3 snoRNA, and for efficient 3' end processing of U3 snoRNA; may act as a specificity factor for Tgs1p
-S000032703	CDS					YNR004W		14	635943	636383	W		2011-02-03	1997-01-28	
-S000005289	ORF	Verified	YNR006W	VPS27	ESCRT-0 subunit protein VPS27|DID7|VPT27|VPL23|SSV17|GRD11	chromosome 14	L000002790	14	636986	638854	W		2011-02-03	1997-01-28	Endosomal protein that forms a complex with Hse1p; required for recycling Golgi proteins, forming lumenal membranes and sorting ubiquitinated proteins destined for degradation; has Ubiquitin Interaction Motifs which bind ubiquitin (Ubi4p)
-S000032897	CDS					YNR006W		14	636986	638854	W		2011-02-03	1997-01-28	
-S000005288	ORF	Dubious	YNR005C			chromosome 14		14	637335	636931	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032733	CDS					YNR005C		14	637335	636931	C		2011-02-03	1997-01-28	
-S000005290	ORF	Verified	YNR007C	ATG3	AUT1|APG3	chromosome 14	L000004056|L000004783	14	640114	639182	C		2011-02-03	1997-01-28	E2-like enzyme; involved in autophagy and cytoplasm-to-vacuole targeting (Cvt) pathway; plays a role in formation of Atg8p-phosphatidylethanolamine conjugates, which are involved in membrane dynamics during autophagy and Cvt; interaction with Atg8p regulated by acetylation by NuA4 histone acetyltransferase Esa1p while attenuation of Atg3 acetylation is mediated by histone deacetylase Rpd3p; Atg12p-Atg5p conjugate enhances E2 activity of Atg3p by rearranging its catalytic site
-S000034825	CDS					YNR007C		14	640114	639182	C		2011-02-03	1997-01-28	
-S000005291	ORF	Verified	YNR008W	LRO1	phospholipid:diacylglycerol acyltransferase	chromosome 14	S000007453	14	640396	642381	W		2011-02-03	1997-01-28	Acyltransferase that catalyzes diacylglycerol esterification; one of several acyltransferases that contribute to triglyceride synthesis; Lro1p and Dga1p can O-acylate ceramides; putative homolog of human lecithin cholesterol acyltransferase
-S000035018	CDS					YNR008W		14	640396	642381	W		2011-02-03	1997-01-28	
-S000005292	ORF	Verified	YNR009W	NRM1		chromosome 14	S000080164	14	642690	643439	W		2011-02-03	1997-01-28	Transcriptional co-repressor of MBF-regulated gene expression; Nrm1p associates stably with promoters via MCB binding factor (MBF) to repress transcription upon exit from G1 phase
-S000035110	CDS					YNR009W		14	642690	643439	W		2011-02-03	1997-01-28	
-S000005293	ORF	Verified	YNR010W	CSE2	MED9	chromosome 14	L000000426	14	643744	644193	W		2011-02-03	1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; component of the Middle domain of mediator; required for regulation of RNA polymerase II activity; relocalizes to the cytosol in response to hypoxia
-S000034052	CDS					YNR010W		14	643744	644193	W		2011-02-03	1997-01-28	
-S000005294	ORF	Verified	YNR011C	PRP2	DEAH-box RNA-dependent ATPase PRP2|RNA2	chromosome 14	L000001495	14	646950	644320	C	8	2011-02-03	1997-01-28	RNA-dependent DExD/H-box ATPase; required for activation of spliceosome before first transesterification step in RNA splicing; implicated in rearranging and proofreading snRNA structure in catalytic activation of spliceosome; ortholog of human protein DHX16
-S000034087	CDS					YNR011C		14	646950	644320	C		2011-02-03	1997-01-28	
-S000005295	ORF	Verified	YNR012W	URK1	uridine kinase URK1	chromosome 14	L000002440	14	647432	648937	W		2011-02-03	1997-01-28	Uridine/cytidine kinase; component of the pyrimidine ribonucleotide salvage pathway that converts uridine into UMP and cytidine into CMP; involved in the pyrimidine deoxyribonucleotide salvage pathway, converting deoxycytidine into dCMP
-S000035092	CDS					YNR012W		14	647432	648937	W		2011-02-03	1997-01-28	
-S000005296	ORF	Verified	YNR013C	PHO91		chromosome 14		14	651712	649028	C		2011-02-03	1997-01-28	Low-affinity vacuolar phosphate transporter; exports phosphate from the vacuolar lumen to the cytosol; regulates phosphate and polyphosphate metabolism; acts upstream of Pho81p in regulation of the PHO pathway; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs); deletion of pho84, pho87, pho89, pho90, and pho91 causes synthetic lethality; transcription independent of Pi and Pho4p activity; overexpression results in vigorous growth
-S000035190	CDS					YNR013C		14	651712	649028	C		2011-02-03	1997-01-28	
-S000005297	ORF	Uncharacterized	YNR014W			chromosome 14		14	652465	653103	W		2011-02-03	1997-01-28	Putative protein of unknown function; expression is cell-cycle regulated, Azf1p-dependent, and heat-inducible; YNR014W has a paralog, YMR206W, that arose from the whole genome duplication
-S000036187	CDS					YNR014W		14	652465	653103	W		2011-02-03	1997-01-28	
-S000005298	ORF	Verified	YNR015W	SMM1	DUS2	chromosome 14	L000003407	14	653387	654541	W		2011-02-03	1997-01-28	Dihydrouridine synthase; member of a family of dihydrouridine synthases including Dus1p, Smm1p, Dus3p, and Dus4p; modifies uridine residues at position 20 of cytoplasmic tRNAs
-S000036301	CDS					YNR015W		14	653387	654541	W		2011-02-03	1997-01-28	
-S000005299	ORF	Verified	YNR016C	ACC1	acetyl-CoA carboxylase ACC1|MTR7|FAS3|ABP2	chromosome 14	L000000017|L000000014|L000000603	14	661374	654673	C		2011-02-03	1997-01-28	Acetyl-CoA carboxylase, biotin containing enzyme; catalyzes carboxylation of cytosolic acetyl-CoA to form malonyl-CoA and regulates histone acetylation by regulating the availablity of acetyl-CoA; required for de novo biosynthesis of long-chain fatty acids; ACC1 has a paralog, HFA1, that arose from the whole genome duplication
-S000036342	CDS					YNR016C		14	661374	654673	C		2011-02-03	1997-01-28	
-S000005300	ORF	Verified	YNR017W	TIM23	protein transporter TIM23|MAS6|MPI3|MIM23	chromosome 14	L000001140|L000001028	14	662913	663581	W		2011-02-03	1997-01-28	Essential component of the TIM23 complex; involved in protein import into mitochondrial matrix and inner membrane; with Tim17p, contributes to architecture and function of the import channel; TIM23 complex is short for the translocase of the inner mitochondrial membrane
-S000036476	CDS					YNR017W		14	662913	663581	W		2011-02-03	1997-01-28	
-S000005301	ORF	Verified	YNR018W	RCF2	AIM38	chromosome 14		14	664270	664944	W		2011-02-03	1997-01-28	Cytochrome c oxidase subunit; has a role in assembly of respiratory supercomplexes; similar to Rcf1p, and either Rcf1p or Rcf2p is required for late-stage assembly of the Cox12p and Cox13p subunits and for cytochrome c oxidase activity; associates with the cytochrome c oxidase - cytochrome bc1 supercomplex; null mutant accumulates reactive oxygen species; member of the conserved hypoxia induced gene family; C. elegans homolog is functional in yeast
-S000037162	CDS					YNR018W		14	664270	664944	W		2011-02-03	1997-01-28	
-S000005302	ORF	Verified	YNR019W	ARE2	sterol acyltransferase|SAT1	chromosome 14	L000003220|L000002769	14	665339	667267	W		2011-02-03	1997-01-28	Acyl-CoA:sterol acyltransferase; endoplasmic reticulum enzyme that contributes the major sterol esterification activity in the presence of oxygen; ARE2 has a paralog, ARE1, that arose from the whole genome duplication
-S000037242	CDS					YNR019W		14	665339	667267	W		2011-02-03	1997-01-28	
-S000005303	ORF	Verified	YNR020C	ATP23	putative metalloprotease	chromosome 14		14	668222	667410	C		2011-02-03	1997-01-28	Putative metalloprotease of the mitochondrial inner membrane; required for processing of Atp6p; has an additional role in assembly of the F0 sector of the F1F0 ATP synthase complex; substrate of the Mia40p-Erv1p disulfide relay system, and folding is assisted by Mia40p
-S000030232	CDS					YNR020C		14	668222	667410	C		2011-02-03	1997-01-28	
-S000005304	ORF	Uncharacterized	YNR021W			chromosome 14		14	668377	669591	W		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YNR021W is not an essential gene
-S000031253	CDS					YNR021W		14	668377	669591	W		2011-02-03	1997-01-28	
-S000005305	ORF	Verified	YNR022C	MRPL50	mitochondrial 54S ribosomal protein MRPL50	chromosome 14		14	670193	669774	C		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; not essential for mitochondrial translation
-S000031291	CDS					YNR022C		14	670193	669774	C		2011-02-03	1997-01-28	
-S000005306	ORF	Verified	YNR023W	SNF12	SWP73	chromosome 14	L000003408	14	670418	672118	W		2011-02-03	1997-01-28	73 kDa subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; relocates to the cytosol under hypoxic conditions; deletion mutants are temperature-sensitive; SNF12 has a paralog, RSC6, that arose from the whole genome duplication
-S000032359	CDS					YNR023W		14	670418	672118	W		2011-02-03	1997-01-28	
-S000005307	ORF	Verified	YNR024W	MPP6		chromosome 14		14	672409	672969	W		2011-02-03	1997-01-28	Nuclear exosome-associated RNA binding protein; involved in surveillance of pre-rRNAs and pre-mRNAs, and the degradation of cryptic non-coding RNAs (ncRNA); copurifies with ribosomes; relocalizes to the cytosol in response to hypoxia
-S000032477	CDS					YNR024W		14	672409	672969	W		2011-02-03	1997-01-28	
-S000005308	ORF	Dubious	YNR025C			chromosome 14		14	673061	672702	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion reduces expression of PIS1 gene encoding phosphatidylinositol synthase
-S000032509	CDS					YNR025C		14	673061	672702	C		2011-02-03	1997-01-28	
-S000005309	ORF	Verified	YNR026C	SEC12	Sar family guanine nucleotide exchange factor SEC12|SED2	chromosome 14	L000001837	14	674689	673274	C		2011-02-03	1997-01-28	Guanine nucleotide exchange factor (GEF); activates Sar1p by catalyzing the exchange of GDP for GTP; required for the initiation of COPII vesicle formation in ER to Golgi transport; glycosylated integral membrane protein of the ER; SEC12 has a paralog, SED4, that arose from the whole genome duplication
-S000032620	CDS					YNR026C		14	674689	673274	C		2011-02-03	1997-01-28	
-S000005310	ORF	Verified	YNR027W	BUD17	putative pyridoxal kinase BUD17	chromosome 14		14	674923	675876	W		2011-02-03	1997-01-28	Putative pyridoxal kinase; a key enzyme in vitamin B6 metabolism; involved in bud-site selection; diploid mutants display a random rather than a bipolar budding pattern; similarity to yeast BUD16 and human pyridoxal kinase (PDXK)
-S000033356	CDS					YNR027W		14	674923	675876	W		2011-02-03	1997-01-28	
-S000005311	ORF	Verified	YNR028W	CPR8	peptidylprolyl isomerase family protein CPR8	chromosome 14	L000004349	14	676177	677103	W		2011-02-03	1997-01-28	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; potential role in the secretory pathway; CPR8 has a paralog, CPR4, that arose from the whole genome duplication
-S000033423	CDS					YNR028W		14	676177	677103	W		2011-02-03	1997-01-28	
-S000005312	ORF	Uncharacterized	YNR029C			chromosome 14		14	678488	677199	C		2011-02-03	1997-01-28	Putative protein of unknown function; deletion confers reduced fitness in saline
-S000033458	CDS					YNR029C		14	678488	677199	C		2011-02-03	1997-01-28	
-S000005313	ORF	Verified	YNR030W	ALG12	dolichyl-P-Man:Man(7)GlcNAc(2)-PP-dolichol alpha-1,6-mannosyltransferase|ECM39	chromosome 14	L000003906	14	678799	680454	W		2011-02-03	1997-01-28	Alpha-1,6-mannosyltransferase localized to the ER; responsible for addition of alpha-1,6 mannose to dolichol-linked Man7GlcNAc2; acts in the dolichol pathway for N-glycosylation; human homolog ALG12 complements yeast null mutant
-S000034448	CDS					YNR030W		14	678799	680454	W		2011-02-03	1997-01-28	
-S000005314	ORF	Verified	YNR031C	SSK2	mitogen-activated protein kinase kinase kinase SSK2	chromosome 14	L000002826	14	685433	680694	C		2011-02-03	1997-01-28	MAP kinase kinase kinase of HOG1 mitogen-activated signaling pathway; interacts with Ssk1p, leading to autophosphorylation and activation of Ssk2p which phosphorylates Pbs2p; also mediates actin cytoskeleton recovery from osmotic stress; a HOG-independent function of Ssk2p mediates the calcium-sensitive phenotype of the ptp2 msg5 double disruptant; SSK2 has a paralog, SSK22, that arose from the whole genome duplication
-S000034513	CDS					YNR031C		14	685433	680694	C		2011-02-03	1997-01-28	
-S000005315	ORF	Verified	YNR032W	PPG1	putative serine/threonine-protein kinase PPG1	chromosome 14	L000001470	14	686010	687116	W		2011-02-03	1997-01-28	Putative serine/threonine protein phosphatase; putative phosphatase of the type 2A-like phosphatase family, required for glycogen accumulation; interacts with Tap42p, which binds to and regulates other protein phosphatases
-S000035579	CDS					YNR032W		14	686010	687116	W		2011-02-03	1997-01-28	
-S000007251	ORF	Verified	YNR032C-A	HUB1	ubiquitin-like protein HUB1	chromosome 14		14	687464	687243	C		2011-02-03	1999-07-17	Ubiquitin-like protein modifier; promotes alternative splicing of SRC1 pre-mRNA; binds non-covalently to the HIND domain of Snu66, may function in modification of Sph1p and Hbt1p, functionally complemented by the human or S. pombe ortholog; mechanism of Hub1p adduct formation not yet clear
-S000030977	CDS					YNR032C-A		14	687464	687243	C		2011-02-03	1999-07-17	
-S000005316	ORF	Verified	YNR033W	ABZ1	4-amino-4-deoxychorismate synthase	chromosome 14	L000000015	14	687635	689998	W		2011-02-03	1997-01-28	Para-aminobenzoate (PABA) synthase; has similarity to Escherichia coli PABA synthase components PabA and PabB; required for the synthesis of para-aminobenzoic acid, an important intermediate for folate and ubiquinone Q biosynthesis; protein abundance increases in response to DNA replication stress
-S000035655	CDS					YNR033W		14	687635	689998	W		2011-02-03	1997-01-28	
-S000005317	ORF	Verified	YNR034W	SOL1		chromosome 14	L000003102	14	690321	691286	W		2011-02-03	1997-01-28	Protein with a possible role in tRNA export; shows similarity to 6-phosphogluconolactonase non-catalytic domains but does not exhibit this enzymatic activity; homologous to Sol3p and Sol4p; SOL1 has a paralog, SOL2, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000035772	CDS					YNR034W		14	690321	691286	W		2011-02-03	1997-01-28	
-S000118393	ARS		ARS1427		ARSXIV-692	chromosome 14		14	691486	691730			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178177	ARS_consensus_sequence					ARS1427		14	691678	691662	C		2014-11-18	2014-11-18	
-S000007525	ORF	Verified	YNR034W-A	EGO4		chromosome 14		14	692561	692857	W		2011-02-03	2000-07-14	Protein of unknown function; expression is regulated by Msn2p/Msn4p; YNR034W-A has a paralog, YCR075W-A, that arose from the whole genome duplication
-S000037062	CDS					YNR034W-A		14	692561	692857	W		2011-02-03	2000-07-14	
-S000005318	ORF	Verified	YNR035C	ARC35	END9	chromosome 14	L000004558|L000004035	14	694047	693019	C		2011-02-03	1997-01-28	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches; required for cortical localization of calmodulin
-S000036635	CDS					YNR035C		14	694047	693019	C		2011-02-03	1997-01-28	
-S000005319	ORF	Verified	YNR036C	MRPS12	putative mitochondrial 37S ribosomal protein MRPS12	chromosome 14		14	694822	694361	C		2011-02-03	1997-01-28	Mitochondrial protein; may interact with ribosomes based on co-purification experiments; similar to E. coli and human mitochondrial S12 ribosomal proteins
-S000036702	CDS					YNR036C		14	694822	694361	C		2011-02-03	1997-01-28	
-S000005320	ORF	Verified	YNR037C	RSM19	mitochondrial 37S ribosomal protein RSM19	chromosome 14		14	695327	695052	C		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S19 ribosomal protein
-S000036762	CDS					YNR037C		14	695327	695052	C		2011-02-03	1997-01-28	
-S000005321	ORF	Verified	YNR038W	DBP6	putative ATP-dependent RNA helicase DBP6	chromosome 14	L000003940	14	695595	697484	W		2011-02-03	1997-01-28	Essential protein involved in ribosome biogenesis; putative ATP-dependent RNA helicase of the DEAD-box protein family; human homolog DDX51 complements yeast dbp6 mutant
-S000036850	CDS					YNR038W		14	695595	697484	W		2011-02-03	1997-01-28	
-S000005322	ORF	Verified	YNR039C	ZRG17	Zn(2+) transporter ZRG17	chromosome 14	S000007519	14	699431	697614	C		2011-02-03	1997-01-28	Endoplasmic reticulum zinc transporter; part of a heterodimeric transporter with Msc2p that transfers zinc from the cytosol to the ER lumen; member of the cation diffusion facilitator family of efflux pumps; zinc-regulated directly through Zap1p; transcription induced under conditions of zinc deficiency
-S000036872	CDS					YNR039C		14	699431	697614	C		2011-02-03	1997-01-28	
-S000005323	ORF	Uncharacterized	YNR040W			chromosome 14		14	699690	700460	W		2011-02-03	1997-01-28	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000037624	CDS					YNR040W		14	699690	700460	W		2011-02-03	1997-01-28	
-S000005325	ORF	Dubious	YNR042W			chromosome 14		14	701238	701666	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene COQ2
-S000030522	CDS					YNR042W		14	701238	701666	W		2011-02-03	1997-01-28	
-S000005324	ORF	Verified	YNR041C	COQ2	4-hydroxybenzoate octaprenyltransferase	chromosome 14	L000000379	14	701659	700541	C		2011-02-03	1997-01-28	Para hydroxybenzoate polyprenyl transferase; catalyzes the second step in ubiquinone (coenzyme Q) biosynthesis; human COQ2, mutations in which are implicated in an increased risk of mutiple-system atrophy, can complement a yeast coq2 null mutant
-S000037655	CDS					YNR041C		14	701659	700541	C		2011-02-03	1997-01-28	
-S000005326	ORF	Verified	YNR043W	MVD1	diphosphomevalonate decarboxylase MVD1|ERG19	chromosome 14	L000003136	14	701895	703085	W		2011-02-03	1997-01-28	Mevalonate pyrophosphate decarboxylase; essential enzyme involved in the biosynthesis of isoprenoids and sterols, including ergosterol; acts as a homodimer
-S000030635	CDS					YNR043W		14	701895	703085	W		2011-02-03	1997-01-28	
-S000005327	ORF	Verified	YNR044W	AGA1		chromosome 14	L000000061	14	703699	705876	W	42	2011-02-03	1997-01-28	Anchorage subunit of a-agglutinin of a-cells; highly O-glycosylated protein with N-terminal secretion signal and C-terminal signal for addition of GPI anchor to cell wall, linked to adhesion subunit Aga2p via two disulfide bonds; AGA1 has a paralog, FIG2, that arose from the whole genome duplication
-S000031496	CDS					YNR044W		14	703699	705876	W		2011-02-03	1997-01-28	
-S000005328	ORF	Verified	YNR045W	PET494		chromosome 14	L000001402	14	706139	707608	W	42	2011-02-03	1997-01-28	Mitochondrial translational activator specific for the COX3 mRNA; acts together with Pet54p and Pet122p; located in the mitochondrial inner membrane
-S000031585	CDS					YNR045W		14	706139	707608	W		2011-02-03	1997-01-28	
-S000005329	ORF	Verified	YNR046W	TRM112	RNA methylation protein TRM112	chromosome 14	S000079653	14	707788	708195	W		2011-02-03	1997-01-28	Protein involved in methylation of tRNA, rRNA, and translation factors; also involved in ribosome biogenesis; subunit of tRNA methyltransferase (MTase) complexes in combination with Trm9p and Trm11p; N7-methylates G1575 of 18S rRNA as complex with Bud23p; subunit of complex with Mtq2p that methylates Sup45p (eRF1) in the ternary complex eRF1-eRF3-GTP; relative distribution to the nucleus increases upon DNA replication stress; functional homolog of human TRMT112
-S000031700	CDS					YNR046W		14	707788	708195	W		2011-02-03	1997-01-28	
-S000005330	ORF	Verified	YNR047W	FPK1	serine/threonine protein kinase FPK1	chromosome 14		14	708523	711204	W		2011-02-03	1997-01-28	Ser/Thr protein kinase; phosphorylates several aminophospholipid translocase family members, regulating phospholipid translocation and membrane asymmetry; phosphorylates and inhibits upstream inhibitory kinase, Ypk1p; localizes to the cytoplasm, early endosome/TGN compartments and thplasma membrane; localizes to the shmoo tip where it has a redundant role in the cellular response to mating pheromone; FPK1 has a paralog, KIN82, that arose from the whole genome duplication
-S000031803	CDS					YNR047W		14	708523	711204	W		2011-02-03	1997-01-28	
-S000005331	ORF	Verified	YNR048W		putative aminophospholipid translocase regulatory protein|CRF1	chromosome 14		14	711630	712811	W		2011-02-03	1997-01-28	Potential noncatalytic subunit for phospholipid translocase Dnf3p; YNR048W has a paralog, CDC50, that arose from the whole genome duplication
-S000031910	CDS					YNR048W		14	711630	712811	W		2011-02-03	1997-01-28	
-S000005332	ORF	Verified	YNR049C	MSO1		chromosome 14	L000003070	14	713655	713023	C		2011-02-03	1997-01-28	Lipid-interacting protein in SNARE complex assembly machinery; acts at late step in secretion; interacts with membranes through two distinct binding sites; shows genetic and physical interactions with Sec1p; required for prospore membrane formation during sporulation; N-terminus closely associates with plasma membrane, C-terminus colocalizes with Sec4p on intracellular membranes; relocalizes from bud neck to nucleus upon DNA replication stress
-S000032764	CDS					YNR049C		14	713655	713023	C		2011-02-03	1997-01-28	
-S000005333	ORF	Verified	YNR050C	LYS9	saccharopine dehydrogenase (NADP+, L-glutamate-forming)|LYS13	chromosome 14	L000000969	14	715388	714048	C	44	2011-02-03	1997-01-28	Saccharopine dehydrogenase (NADP+, L-glutamate-forming); catalyzes the formation of saccharopine from alpha-aminoadipate 6-semialdehyde, the seventh step in lysine biosynthesis pathway; exhibits genetic and physical interactions with TRM112
-S000032832	CDS					YNR050C		14	715388	714048	C		2011-02-03	1997-01-28	
-S000007460	snoRNA_gene		snR49	SNR49		chromosome 14		14	716120	716284	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U990 and small subunit (SSU) rRNA at positions U120, U211, and U302
-S000030653	noncoding_exon					snR49		14	716120	716284	W		2011-02-03	2000-05-19	
-S000005334	ORF	Verified	YNR051C	BRE5		chromosome 14		14	718327	716780	C		2011-02-03	1997-01-28	Ubiquitin protease cofactor; forms deubiquitination complex with Ubp3p that coregulates anterograde and retrograde transport between the endoplasmic reticulum and Golgi compartments; null is sensitive to brefeldin A
-S000033539	CDS					YNR051C		14	718327	716780	C		2011-02-03	1997-01-28	
-S000005335	ORF	Verified	YNR052C	POP2	CCR4-NOT core DEDD family RNase subunit POP2|CAF1	chromosome 14	L000001465	14	720647	719346	C		2011-02-03	1997-01-28	RNase of the DEDD superfamily; subunit of the Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation
-S000033632	CDS					YNR052C		14	720647	719346	C		2011-02-03	1997-01-28	
-S000029463	snoRNA_gene		snR191	SNR191		chromosome 14	S000028465	14	722211	721938	C		2011-02-03	2003-12-09	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U2258 and U2260; encoded within the intron of NOG2/YNR053C
-S000034351	noncoding_exon					snR191		14	722211	721938	C		2011-02-03	2003-12-09	
-S000005336	ORF	Verified	YNR053C	NOG2	putative GTPase NOG2|NUG2	chromosome 14		14	723112	721120	C		2011-02-03	1997-01-28|2011-02-03	Putative GTPase; associates with pre-60S ribosomal subunits in the nucleolus and is required for their nuclear export and maturation; recruited by ribosomal proteins L17, L35, and L37 to assembling ribosomes after 27SB pre-rRNA is generated, immediately preceding removal of ITS2
-S000033758	CDS					YNR053C		14	721770	721120	C		2011-02-03	1997-01-28	
-S000033757	CDS					YNR053C		14	723112	722303	C		2011-02-03	1997-01-28	
-S000033759	intron					YNR053C		14	722302	721771	C		2011-02-03	1997-01-28|2011-02-03	
-S000005337	ORF	Verified	YNR054C	ESF2	RNA-binding ATPase activator ESF2|ABT1	chromosome 14		14	724306	723356	C		2011-02-03	1997-01-28	Essential nucleolar protein involved in pre-18S rRNA processing; binds to RNA and stimulates ATPase activity of Dbp8; involved in assembly of the small subunit (SSU) processome
-S000034628	CDS					YNR054C		14	724306	723356	C		2011-02-03	1997-01-28	
-S000006653	tRNA_gene		tL(UAA)N			chromosome 14	L000003695	14	726217	726134	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000037416	noncoding_exon					tL(UAA)N		14	726217	726134	C		2011-02-03	2000-05-19	
-S000007147	long_terminal_repeat		YNRWsigma4			chromosome 14		14	726234	726574	W		2011-02-03	2000-05-19	Ty3 LTR
-S000007144	long_terminal_repeat		YNRCdelta8			chromosome 14		14	726945	726614	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007145	long_terminal_repeat		YNRCdelta9			chromosome 14		14	727661	727363	C		2011-02-03	2000-05-19	Ty1 LTR
-S000005338	ORF	Verified	YNR055C	HOL1		chromosome 14	L000000798	14	730186	728426	C	48	2011-02-03	1997-01-28	Putative transporter in the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; mutations in membrane-spanning domains permit cation and histidinol uptake
-S000034785	CDS					YNR055C		14	730186	728426	C		2011-02-03	1997-01-28	
-S000005339	ORF	Verified	YNR056C	BIO5		chromosome 14	L000003530	14	733303	731618	C		2011-02-03	1997-01-28	Putative transmembrane protein involved in the biotin biosynthesis; responsible for uptake of 7-keto 8-aminopelargonic acid; BIO5 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis
-S000034927	CDS					YNR056C		14	733303	731618	C		2011-02-03	1997-01-28	
-S000005340	ORF	Verified	YNR057C	BIO4	dethiobiotin synthase	chromosome 14	L000003307	14	734069	733356	C		2011-02-03	1997-01-28	Dethiobiotin synthetase; catalyzes the third step in the biotin biosynthesis pathway; BIO4 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis; BIO3 and BIO4 were acquired by horizontal gene transfer (HGT) from bacteria; expression appears to be repressed at low iron levels
-S000035846	CDS					YNR057C		14	734069	733356	C		2011-02-03	1997-01-28	
-S000005341	ORF	Verified	YNR058W	BIO3	adenosylmethionine-8-amino-7-oxononanoate transaminase	chromosome 14	L000003176	14	734291	735733	W		2011-02-03	1997-01-28	7,8-diamino-pelargonic acid aminotransferase (DAPA); catalyzes the second step in the biotin biosynthesis pathway; BIO3 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis; BIO3 and BIO4 were acquired by horizontal gene transfer (HGT) from bacteria
-S000036073	CDS					YNR058W		14	734291	735733	W		2011-02-03	1997-01-28	
-S000005342	ORF	Verified	YNR059W	MNT4	putative alpha-1,3-mannosyltransferase	chromosome 14		14	736803	738545	W		2011-02-03	1997-01-28	Putative alpha-1,3-mannosyltransferase; not required for protein O-glycosylation; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000036222	CDS					YNR059W		14	736803	738545	W		2011-02-03	1997-01-28	
-S000005343	ORF	Verified	YNR060W	FRE4	ferric-chelate reductase	chromosome 14	L000003556	14	739951	742110	W		2011-02-03	1997-01-28	Ferric reductase; reduces a specific subset of siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels
-S000036976	CDS					YNR060W		14	739951	742110	W		2011-02-03	1997-01-28	
-S000005344	ORF	Verified	YNR061C			chromosome 14		14	743540	742881	C		2011-02-03	1997-01-28	Protein of unknown function; relocalizes from vacuole to cytoplasm upon DNA replication stress
-S000037708	CDS					YNR061C		14	743540	742881	C		2011-02-03	1997-01-28	
-S000005345	ORF	Uncharacterized	YNR062C			chromosome 14		14	745343	744360	C		2011-02-03	1997-01-28	Putative membrane protein of unknown function
-S000037784	CDS					YNR062C		14	745343	744360	C		2011-02-03	1997-01-28	
-S000005346	ORF	Uncharacterized	YNR063W			chromosome 14		14	746943	748766	W		2011-02-03	1997-01-28	Putative zinc-cluster protein of unknown function
-S000029847	CDS					YNR063W		14	746943	748766	W		2011-02-03	1997-01-28	
-S000005347	ORF	Verified	YNR064C		epoxide hydrolase	chromosome 14		14	750008	749136	C		2011-02-03	1997-01-28	Epoxide hydrolase; member of the alpha/beta hydrolase fold family; may have a role in detoxification of epoxides
-S000030815	CDS					YNR064C		14	750008	749136	C		2011-02-03	1997-01-28	
-S000005348	ORF	Uncharacterized	YNR065C		YSN1	chromosome 14		14	753700	750350	C		2011-02-03	1997-01-28	Protein of unknown function; protein-protein interactions suggest a possible role in actin patch formation; YNR065C is not an essential gene
-S000030902	CDS					YNR065C		14	753700	750350	C		2011-02-03	1997-01-28	
-S000005349	ORF	Uncharacterized	YNR066C			chromosome 14		14	755035	753725	C		2011-02-03	1997-01-28	Putative membrane-localized protein of unknown function
-S000030952	CDS					YNR066C		14	755035	753725	C		2011-02-03	1997-01-28	
-S000005350	ORF	Verified	YNR067C	DSE4	endo-1,3(4)-beta-glucanase|ENG1	chromosome 14		14	759099	755746	C		2011-02-03	1997-01-28	Daughter cell-specific secreted protein with similarity to glucanases; degrades cell wall from the daughter side causing daughter to separate from mother
-S000031043	CDS					YNR067C		14	759099	755746	C		2011-02-03	1997-01-28	
-S000005351	ORF	Uncharacterized	YNR068C		BUL3	chromosome 14		14	760885	760067	C		2011-02-03	1997-01-28	Putative protein of unknown function; exhibits homology to C-terminal end of Bul1p; expressed as a readthrough product of BSC5, the readthrough locus being termed BUL3; the BUL3 readthrough product is involved in ubiquitin-mediated sorting of plasma membrane proteins and interacts with WW domains of Rsp5p in vitro, but in a functionally different way than the non-readthrough form
-S000032003	CDS					YNR068C		14	760885	760067	C		2011-02-03	1997-01-28	
-S000005352	ORF	Verified	YNR069C	BSC5	BUL3	chromosome 14		14	762592	761123	C		2011-02-03	1997-01-28	Protein of unknown function; shows homology with N-terminal end of Bul1p; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; readthrough expression includes YNR068C and the locus for this readthrough is termed BUL3; Bul3p is involved in ubiquitin-mediated sorting of plasma membrane proteins; readthrough and shortened forms of Bul3p interact with Rsp5p differently in vitro
-S000032095	CDS					YNR069C		14	762592	761123	C		2011-02-03	1997-01-28	
-S000005353	ORF	Verified	YNR070W	PDR18	ATP-binding cassette multidrug transporter PDR18	chromosome 14		14	765375	769376	W		2011-02-03	1997-01-28|2011-02-03	Putative transporter of the ATP-binding cassette (ABC) family; role in plasma membrane sterol incorporation; implicated in pleiotropic drug resistance; provides resistance to ethanol stress and contributes to a decreased intracellular accumulation of ethanol; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000033201	CDS					YNR070W		14	765375	769376	W		2011-02-03	1997-01-28|2011-02-03	
-S000005354	ORF	Uncharacterized	YNR071C		aldose 1-epimerase superfamily protein	chromosome 14		14	771468	770440	C		2011-02-03	1997-01-28	Putative aldose 1-epimerase
-S000033956	CDS					YNR071C		14	771468	770440	C		2011-02-03	1997-01-28	
-S000005355	ORF	Verified	YNR072W	HXT17	HLT4|hexose transporter HXT17	chromosome 14	L000003265	14	772657	774351	W		2011-02-03	1997-01-28	Putative transmembrane polyol transporter; supports growth on and uptake of mannitol and sorbitol with moderate affinity when overexpressed in a strain deleted for hexose family members; minor hexose transport activity when overexpressed in a similar strain; induced by raffinose and galactose at pH 7.7 versus pH 4.7, repressed by high levels of glucose; HXT17 has a paralog, HXT13, that arose from a segmental duplication
-S000034105	CDS					YNR072W		14	772657	774351	W		2011-02-03	1997-01-28	
-S000005356	ORF	Verified	YNR073C	MAN2	putative mannitol dehydrogenase	chromosome 14		14	776300	774792	C		2011-02-03	1997-01-28	Mannitol dehydrogenase; MAN2 has a paralog, DSF1, that arose from a segmental duplication
-S000034161	CDS					YNR073C		14	776300	774792	C		2011-02-03	1997-01-28	
-S000005357	ORF	Verified	YNR074C	AIF1	CPD1	chromosome 14		14	778738	777602	C		2011-02-03	1997-01-28	Mitochondrial cell death effector; translocates to the nucleus in response to apoptotic stimuli, homolog of mammalian Apoptosis-Inducing Factor, putative reductase
-S000035101	CDS					YNR074C		14	778738	777602	C		2011-02-03	1997-01-28	
-S000005358	ORF	Verified	YNR075W	COS10		chromosome 14	L000004068	14	779916	781040	W		2011-02-03	1997-01-28	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000035300	CDS					YNR075W		14	779916	781040	W		2011-02-03	1997-01-28	
-S000028706	ORF	Uncharacterized	YNR075C-A			chromosome 14		14	781603	781511	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032648	CDS					YNR075C-A		14	781603	781511	C		2011-02-03	2003-07-29	
-S000005359	ORF	Verified	YNR076W	PAU6	seripauperin PAU6	chromosome 14	L000002880	14	781918	782280	W		2011-02-03	1997-01-28	Member of the seripauperin multigene family; encoded mainly in subtelomeric regions; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole; active during alcoholic fermentation; regulated by anaerobiosis; negatively regulated by oxygen; repressed by heme; identical to Pau18p
-S000035359	CDS					YNR076W		14	781918	782280	W		2011-02-03	1997-01-28	
-S000028993	telomere		TEL14R			chromosome 14		14	783278	784333	W	54	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XIV; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
-S000028994	telomeric_repeat					TEL14R		14	784038	784333	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome XIV
-S000028995	X_element					TEL14R		14	783278	783740	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XIV; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YNR077C
-S000028996	X_element_combinatorial_repeat					TEL14R		14	783741	784037	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XIV; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000005360	ORF	Uncharacterized	YNR077C			chromosome 14		14	783541	783287	C		2011-02-03	1997-01-28	Protein of unknown function, abundance changes with carbon source
-S000035391	CDS					YNR077C		14	783541	783287	C		2011-02-03	1997-01-28	
-S000028709	ORF	Uncharacterized	YOL166W-A			chromosome 15		15	585	740	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032654	CDS					YOL166W-A		15	585	740	W		2003-07-29	2003-07-29	
-S000028929	telomere		TEL15L			chromosome 15		15	847	1	C	-132	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XV; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
-S000028930	telomeric_repeat					TEL15L		15	117	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome XV
-S000028931	X_element					TEL15L		15	847	389	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XV; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YOL166W-A
-S000028932	X_element_combinatorial_repeat					TEL15L		15	388	118	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XV; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000005526	ORF	Dubious	YOL166C			chromosome 15		15	1338	1000	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036497	CDS					YOL166C		15	1338	1000	C		1996-07-31	1996-07-31	
-S000005525	ORF	Verified	YOL165C	AAD15	putative aryl-alcohol dehydrogenase	chromosome 15	L000004640	15	2078	1647	C		1996-07-31	1996-07-31	Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role; AAD15 has a paralog, AAD3, that arose from a segmental duplication; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
-S000035578	CDS					YOL165C		15	2078	1647	C		1996-07-31	1996-07-31	
-S000007148	long_terminal_repeat		YOLCdelta1			chromosome 15		15	3223	2894	C		2000-05-19	2000-05-19	Ty1 LTR
-S000007160	long_terminal_repeat		YOLWtau1			chromosome 15		15	3809	3986	W		2000-05-19	2000-05-19	Ty4 LTR
-S000028580	ORF	Uncharacterized	YOL164W-A			chromosome 15		15	4130	4312	W		2003-07-29	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031327	CDS					YOL164W-A		15	4130	4312	W		2003-07-29	2003-07-29	
-S000005524	ORF	Verified	YOL164W	BDS1	sulfuric ester hydrolase	chromosome 15		15	6175	8115	W		1996-07-31	1996-07-31	Bacterially-derived sulfatase; required for use of alkyl- and aryl-sulfates as sulfur sources
-S000035536	CDS					YOL164W		15	6175	8115	W		1996-07-31	1996-07-31	
-S000005523	ORF	Uncharacterized	YOL163W			chromosome 15		15	9597	10106	W		2011-02-03	1996-07-31	Putative protein of unknown function; member of the Dal5p subfamily of the major facilitator family
-S000035451	CDS					YOL163W		15	9597	10106	W		2011-02-03	1996-07-31	
-S000005522	ORF	Uncharacterized	YOL162W			chromosome 15		15	10119	10766	W		2011-02-03	1996-07-31	Putative protein of unknown function; member of the Dal5p subfamily of the major facilitator family
-S000034399	CDS					YOL162W		15	10119	10766	W		2011-02-03	1996-07-31	
-S000005521	ORF	Verified	YOL161C	PAU20	seripauperin PAU20	chromosome 15		15	11911	11549	C		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole; expression induced by low temperature and also by anaerobic conditions; induced during alcoholic fermentation
-S000034226	CDS					YOL161C		15	11911	11549	C		2011-02-03	1996-07-31	
-S000005520	ORF	Dubious	YOL160W			chromosome 15		15	14313	14654	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034155	CDS					YOL160W		15	14313	14654	W		2011-02-03	1996-07-31	
-S000007627	ORF	Verified	YOL159C-A			chromosome 15		15	15505	15233	C		2011-02-03	2001-02-26	Protein of unknown function; overexpression affects endocytic protein trafficking; identified by sequence comparison with hemiascomycetous yeast species
-S000037257	CDS					YOL159C-A		15	15505	15233	C		2011-02-03	2001-02-26	
-S000005519	ORF	Verified	YOL159C	CSS3		chromosome 15		15	17796	17281	C		2011-02-03	1996-07-31	Protein of unknown function, secreted when constitutively expressed; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cell periphery, SWAT-GFP fusion also localizes to the extracellular region, and mCherry fusion also localizes to the vacuole; deletion mutants are viable and have elevated levels of Ty1 retrotransposition and Ty1 cDNA
-S000034633	CDS					YOL159C		15	17796	17281	C		2011-02-03	1996-07-31	
-S000007149	long_terminal_repeat		YOLCdelta2			chromosome 15		15	18561	18302	C		2011-02-03	2000-05-19	Ty1 LTR
-S000005518	ORF	Verified	YOL158C	ENB1	ARN4	chromosome 15		15	21311	19491	C		2011-02-03	1996-07-31	Endosomal ferric enterobactin transporter; expressed under conditions of iron deprivation; member of the major facilitator superfamily; expression is regulated by Rcs1p and affected by chloroquine treatment
-S000034544	CDS					YOL158C		15	21311	19491	C		2011-02-03	1996-07-31	
-S000005517	ORF	Verified	YOL157C	IMA2	oligo-1,6-glucosidase IMA2	chromosome 15		15	24294	22525	C		2011-02-03	1996-07-31	Isomaltase (alpha-1,6-glucosidase/alpha-methylglucosidase); preferred specificity for isomaltose, alpha-methylglucoside, and palatinose, but also exhibits alpha-1,2 glucosidase activity on sucrose and kojibiose, and can cleave the 1,3-alpha linkage of nigerose and turanose and the alpha-1,5 linkage of leucrose in vitro; not required for isomaltose utilization, but Ima2p overexpression allows the ima1 null mutant to grow on isomaltose
-S000034426	CDS					YOL157C		15	24294	22525	C		2011-02-03	1996-07-31	
-S000005516	ORF	Verified	YOL156W	HXT11	hexose transporter HXT11|LGT3	chromosome 15	L000000947	15	25273	26976	W		2011-02-03	1996-07-31	Hexose transporter; capable of transporting a broad range of substrates including: glucose, fructose, mannose and galactose; polyol transporter that supports the growth on and uptake of xylitol with low affinity when overexpressed in a strain deleted for hexose family members; nearly identical in sequence to Hxt9p; has similarity to major facilitator superfamily (MFS) transporters; involved in pleiotropic drug resistance
-S000032470	CDS					YOL156W		15	25273	26976	W		2011-02-03	1996-07-31	
-S000028855	ORF	Uncharacterized	YOL155W-A			chromosome 15		15	27084	27218	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034568	CDS					YOL155W-A		15	27084	27218	W		2011-02-03	2003-07-29	
-S000005515	ORF	Verified	YOL155C	HPF1	mannoprotein	chromosome 15		15	31606	28703	C		2011-02-03	1996-07-31	Haze-protective mannoprotein; reduces the particle size of aggregated proteins in white wines
-S000032305	CDS					YOL155C		15	31606	28703	C		2011-02-03	1996-07-31	
-S000005514	ORF	Verified	YOL154W	ZPS1		chromosome 15		15	34658	35407	W		2011-02-03	1996-07-31	Putative GPI-anchored protein; transcription is induced under low-zinc conditions, as mediated by the Zap1p transcription factor, and at alkaline pH
-S000032261	CDS					YOL154W		15	34658	35407	W		2011-02-03	1996-07-31	
-S000118995	ARS		ARS1531		ARSXV-36|ARS1506.5	chromosome 15		15	35669	35904			2011-02-03	2006-10-02|2011-02-03	Autonomously Replicating Sequence
-S000178178	ARS_consensus_sequence					ARS1531		15	35713	35729	W		2014-11-18	2014-11-18	
-S000005513	blocked_reading_frame		YOL153C			chromosome 15		15	38567	36822	C		2011-02-03	1996-07-31	Blocked reading frame, contains two in-frame stops in translation; this ORF is conserved, without the stops, in Saccharomyces paradoxus, S. mikatae, and S. bayanus; RNA sequencing data indicate the presence of a transcription unit at this reading frame
-S000031205	CDS					YOL153C		15	38567	36822	C		2011-02-03	1996-07-31	
-S000005512	ORF	Verified	YOL152W	FRE7	putative ferric-chelate reductase	chromosome 15	L000003559	15	40748	42610	W		2011-02-03	1996-07-31|2006-01-05	Putative ferric reductase with similarity to Fre2p; expression induced by low copper levels
-S000031126	CDS					YOL152W		15	40748	42610	W		2011-02-03	1996-07-31|2006-01-05	
-S000005511	ORF	Verified	YOL151W	GRE2	methylglyoxal reductase (NADPH-dependent) GRE2	chromosome 15	L000004177	15	43694	44722	W		2011-02-03	1996-07-31	3-methylbutanal reductase and NADPH-dependent methylglyoxal reductase; stress induced (osmotic, ionic, oxidative, heat shock and heavy metals); regulated by the HOG pathway; restores resistance to glycolaldehyde by coupling reduction of glycolaldehyde to ethylene glycol and oxidation of NADPH to NADP+; protein abundance increases in response to DNA replication stress; methylglyoxal reductase (NADPH-dependent) is also known as D-lactaldehyde dehydrogenase
-S000031026	CDS					YOL151W		15	43694	44722	W		2011-02-03	1996-07-31	
-S000005510	ORF	Dubious	YOL150C			chromosome 15		15	44784	44473	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000029963	CDS					YOL150C		15	44784	44473	C		2011-02-03	1996-07-31	
-S000005509	ORF	Verified	YOL149W	DCP1	MRT2	chromosome 15	L000002960|L000003045|S000029311	15	44938	45633	W		2011-02-03	1996-07-31	Subunit of the Dcp1p-Dcp2p decapping enzyme complex; decapping complex removes the 5' cap structure from mRNAs prior to their degradation; enhances the activity of catalytic subunit Dcp2p; regulated by DEAD box protein Dhh1p; forms cytoplasmic foci upon DNA replication stress
-S000030376	CDS					YOL149W		15	44938	45633	W		2011-02-03	1996-07-31	
-S000005508	ORF	Verified	YOL148C	SPT20	ADA5	chromosome 15	L000002593	15	47574	45760	C		2011-02-03	1996-07-31	Subunit of the SAGA transcriptional regulatory complex; involved in maintaining the integrity of the complex; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay
-S000030163	CDS					YOL148C		15	47574	45760	C		2011-02-03	1996-07-31	
-S000005507	ORF	Verified	YOL147C	PEX11	PMP27|PMP24	chromosome 15	L000002650|L000004117	15	48643	47933	C		2011-02-03	1996-07-31	Peroxisomal protein required for medium-chain fatty acid oxidation; also required for peroxisome proliferation, possibly by inducing membrane curvature; localization regulated by phosphorylation; transcription regulated by Adr1p and Pip2p-Oaf1p
-S000036432	CDS					YOL147C		15	48643	47933	C		2011-02-03	1996-07-31	
-S000005506	ORF	Verified	YOL146W	PSF3	DNA replication protein PSF3	chromosome 15		15	48864	49448	W		2011-02-03	2003-09-22|1996-07-31	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p); complex is localized to DNA replication origins and implicated in assembly of the DNA replication machinery
-S000036403	CDS					YOL146W		15	48864	49448	W		2011-02-03	2003-09-22|1996-07-31	
-S000005505	ORF	Verified	YOL145C	CTR9	CDP1	chromosome 15	L000003477	15	52788	49555	C		2011-02-03	1996-07-31|2011-02-03	Component of the Paf1p complex involved in transcription elongation; binds to and modulates the activity of RNA polymerases I and II; required for expression of a subset of genes, including cyclin genes; involved in SER3 repression by helping to maintain SRG1 transcription-dependent nucleosome occupancy; contains TPR repeats
-S000036252	CDS					YOL145C		15	52788	49555	C		2011-02-03	1996-07-31|2011-02-03	
-S000005504	ORF	Verified	YOL144W	NOP8		chromosome 15	L000004849	15	53098	54552	W		2011-02-03	1996-07-31	Nucleolar protein required for 60S ribosomal subunit biogenesis
-S000036206	CDS					YOL144W		15	53098	54552	W		2011-02-03	1996-07-31	
-S000005503	ORF	Verified	YOL143C	RIB4	lumazine synthase RIB4	chromosome 15	L000003027	15	55104	54595	C		2011-02-03	1996-07-31	Lumazine synthase (DMRL synthase); catalyzes synthesis of immediate precursor to riboflavin; DMRL synthase stands for 6,7-dimethyl-8-ribityllumazine synthase
-S000035226	CDS					YOL143C		15	55104	54595	C		2011-02-03	1996-07-31	
-S000005502	ORF	Verified	YOL142W	RRP40	exosome non-catalytic core subunit RRP40|MTR14	chromosome 15	L000004799	15	55558	56280	W		2011-02-03	1996-07-31|2011-02-03	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain both S1 and KH RNA binding domains; has similarity to human hRrp40p (EXOSC3)
-S000035132	CDS					YOL142W		15	55558	56280	W		2011-02-03	1996-07-31|2011-02-03	
-S000005501	ORF	Verified	YOL141W	PPM2	tRNA methyltransferase PPM2|TYW4	chromosome 15		15	56452	58539	W		2011-02-03	1996-07-31|2011-02-03	AdoMet-dependent tRNA methyltransferase; also involved in methoxycarbonylation; required for the synthesis of wybutosine (yW), a modified guanosine found at the 3'-position adjacent to the anticodon of phe-tRNA; similarity to Ppm1p
-S000034965	CDS					YOL141W		15	56452	58539	W		2011-02-03	1996-07-31|2011-02-03	
-S000077073	matrix_attachment_site		ETC2	ETC2		chromosome 15		15	58541	58563	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; remains predominantly localized to the nuclear periphery throughout cell cycle; located between PPM2 and ARG8
-S000005500	ORF	Verified	YOL140W	ARG8	acetylornithine transaminase	chromosome 15	L000000111	15	58759	60030	W	-130	2006-01-05	1996-07-31	Acetylornithine aminotransferase; catalyzes the fourth step in the biosynthesis of the arginine precursor ornithine
-S000034835	CDS					YOL140W		15	58759	60030	W		2006-01-05	1996-07-31	
-S000005499	ORF	Verified	YOL139C	CDC33	translation initiation factor eIF4E|eIF4E|TIF45	chromosome 15	L000000270	15	61024	60383	C		2006-01-05	1996-07-31	mRNA cap binding protein and translation initiation factor eIF4E; the eIF4E-cap complex is responsible for mediating cap-dependent mRNA translation via interactions with translation initiation factor eIF4G (Tif4631p or Tif4632p); protein abundance increases in response to DNA replication stress; mutants are defective for adhesion and pseudohyphal growth; human homolog EIF4E can complement yeast cdc33 null mutant
-S000035358	CDS					YOL139C		15	61024	60383	C		2006-01-05	1996-07-31	
-S000005498	ORF	Verified	YOL138C	RTC1	SEA2	chromosome 15		15	65350	61325	C		2006-01-05	1996-07-31|2011-02-03	Subunit of SEACAT, a subcomplex of the SEA complex; Rtc1p, along with Mtc5p and Sea4p, redundantly inhibit the TORC1 inhibitory role of the Iml1p/SEACIT (Iml1p-Npr2p-Npr3p) subcomplex, a GAP for GTPase Gtr1p (EGOC subunit) in response to amino acid limitation, thereby resulting in activation of TORC1 signaling; SEA is a coatomer-related complex that associates dynamically with the vacuole; has N-terminal WD-40 repeats and a C-terminal RING motif; null suppresses cdc13-1
-S000035295	CDS					YOL138C		15	65350	61325	C		2006-01-05	1996-07-31|2011-02-03	
-S000005497	ORF	Verified	YOL137W	BSC6		chromosome 15		15	65621	67114	W		2006-01-05	1996-07-31	Protein of unknown function with 8 putative transmembrane segments; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression
-S000034363	CDS					YOL137W		15	65621	67114	W		2006-01-05	1996-07-31	
-S000005496	ORF	Verified	YOL136C	PFK27	6-phosphofructo-2-kinase|PFK-2	chromosome 15	L000003077	15	68754	67561	C		2006-01-05	1996-07-31	6-phosphofructo-2-kinase; catalyzes synthesis of fructose-2,6-bisphosphate; inhibited by phosphoenolpyruvate and sn-glycerol 3-phosphate, expression induced by glucose and sucrose, transcriptional regulation involves protein kinase A
-S000034276	CDS					YOL136C		15	68754	67561	C		2006-01-05	1996-07-31	
-S000005495	ORF	Verified	YOL135C	MED7	mediator complex subunit MED7	chromosome 15	L000003916	15	70044	69376	C		2006-01-05	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
-S000034163	CDS					YOL135C		15	70044	69376	C		2006-01-05	1996-07-31	
-S000005493	ORF	Verified	YOL133W	HRT1	SCF ubiquitin ligase complex subunit HRT1|HRT2|ROC1|RBX1	chromosome 15	L000004443	15	70325	70690	W		2006-01-05	1996-07-31	RING-H2 domain core subunit of multiple ubiquitin ligase complexes; subunit of Skp1-Cullin-F-box (SCF) that tethers the Cdc34p (E2) and Cdc53p (cullin) SCF subunits, and is required for degradation of Gic2p, Far1p, Sic1p and Cln2p; subunit of the Rtt101p-Mms1p-Mms22p ubiquitin ligase that stabilizes replication forks after DNA lesions; subunit of the Cul3p-Elc1p-Ela1p ubiquitin ligase involved in Rpb1p degradation as part of transcription-coupled repair
-S000032132	CDS					YOL133W		15	70325	70690	W		2006-01-05	1996-07-31	
-S000005494	ORF	Dubious	YOL134C			chromosome 15		15	70545	70156	C		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps HRT1, a verified gene that encodes an SCF ubiquitin ligase subunit
-S000034069	CDS					YOL134C		15	70545	70156	C		2006-01-05	1996-07-31	
-S000005492	ORF	Verified	YOL132W	GAS4	1,3-beta-glucanosyltransferase	chromosome 15		15	71300	72715	W		2006-01-05	1996-07-31	1,3-beta-glucanosyltransferase; involved with Gas2p in spore wall assembly; has similarity to Gas1p; localizes to the cell wall
-S000032019	CDS					YOL132W		15	71300	72715	W		2006-01-05	1996-07-31	
-S000118484	ARS		ARS1507		ARSXV-73	chromosome 15		15	72683	72753			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178179	ARS_consensus_sequence					ARS1507		15	72687	72703	W		2014-11-18	2014-11-18	
-S000005491	ORF	Uncharacterized	YOL131W			chromosome 15		15	73031	73357	W		2006-01-05	1996-07-31	Putative protein of unknown function; YOL131W has a paralog, STB1, that arose from the whole genome duplication
-S000031851	CDS					YOL131W		15	73031	73357	W		2006-01-05	1996-07-31	
-S000005490	ORF	Verified	YOL130W	ALR1	Mg(2+) transporter ALR1|SWC3	chromosome 15	L000002887	15	74400	76979	W		2006-01-05	1996-07-31	Plasma membrane Mg(2+) transporter; expression and turnover are regulated by Mg(2+) concentration; overexpression confers increased tolerance to Al(3+) and Ga(3+) ions; magnesium transport defect of the null mutant is functionally complemented by either of the human genes MAGT1 and TUSC3 that are not orthologous to ALR1
-S000030868	CDS					YOL130W		15	74400	76979	W		2006-01-05	1996-07-31	
-S000005489	ORF	Verified	YOL129W	VPS68		chromosome 15		15	77560	78114	W		2006-01-05	1996-07-31	Vacuolar membrane protein of unknown function; involved in vacuolar protein sorting; also detected in the mitochondria
-S000032156	CDS					YOL129W		15	77560	78114	W		2006-01-05	1996-07-31	
-S000005488	ORF	Verified	YOL128C	YGK3	serine/threonine protein kinase YGK3	chromosome 15		15	79479	78352	C		2006-01-05	1996-07-31	Protein kinase related to mammalian GSK-3 glycogen synthase kinases; GSK-3 homologs (Mck1p, Rim11p, Mrk1p, Ygk3p) are involved in control of Msn2p-dependent transcription of stress responsive genes and in protein degradation; YGK3 has a paralog, MCK1, that arose from the whole genome duplication
-S000031135	CDS					YOL128C		15	79479	78352	C		2006-01-05	1996-07-31	
-S000005487	ORF	Verified	YOL127W	RPL25	uL23|ribosomal 60S subunit protein L25|L23|rpl6L|YL25|L25	chromosome 15	L000001722	15	80348	81190	W		2006-01-05	1996-07-31	Ribosomal 60S subunit protein L25; primary rRNA-binding ribosomal protein component of large ribosomal subunit; binds to 25S rRNA via a conserved C-terminal motif; homologous to mammalian ribosomal protein L23A and bacterial L23
-S000031095	CDS					YOL127W		15	80348	80360	W		2006-01-05	1996-07-31	
-S000031096	CDS					YOL127W		15	80775	81190	W		2006-01-05	1996-07-31	
-S000031097	intron					YOL127W		15	80361	80774	W		2006-01-05	1996-07-31	
-S000005486	ORF	Verified	YOL126C	MDH2	malate dehydrogenase MDH2	chromosome 15	L000001046	15	82920	81787	C		2006-10-06	1996-07-31|2006-10-06	Cytoplasmic malate dehydrogenase; one of three isozymes that catalyze interconversion of malate and oxaloacetate; involved in the glyoxylate cycle and gluconeogenesis during growth on two-carbon compounds; interacts with Pck1p and Fbp1
-S000030943	CDS					YOL126C		15	82920	81787	C		2006-10-06	1996-07-31|2006-10-06	
-S000005485	ORF	Verified	YOL125W	TRM13	tRNA:m4X modification enzyme	chromosome 15		15	83834	85264	W		2006-01-05	1996-07-31|2011-02-03	2'-O-methyltransferase; responsible for modification of tRNA at position 4; C-terminal domain has similarity to Rossmann-fold (RFM) superfamily of RNA methyltransferases
-S000030912	CDS					YOL125W		15	83834	85264	W		2006-01-05	1996-07-31|2011-02-03	
-S000118485	ARS		ARS1508		ARSXV-85	chromosome 15		15	85270	85361			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178180	ARS_consensus_sequence					ARS1508		15	85360	85344	C		2014-11-18	2014-11-18	
-S000005484	ORF	Verified	YOL124C	TRM11	tRNA (guanine-N2-)-methyltransferase	chromosome 15	S000029604|S000028498	15	86757	85456	C		2006-01-05	1996-07-31	Catalytic subunit of adoMet-dependent tRNA methyltransferase complex; required for the methylation of the guanosine nucleotide at position 10 (m2G10) in tRNAs; contains a THUMP domain and a methyltransferase domain; another complex member is Trm112p
-S000029846	CDS					YOL124C		15	86757	85456	C		2006-01-05	1996-07-31	
-S000005483	ORF	Verified	YOL123W	HRP1	NAB5|NAB4	chromosome 15	L000003337|L000003022|L000003015	15	87844	89448	W		2006-01-05	1996-07-31	Subunit of cleavage factor I; cleavage factor I is a five-subunit complex required for the cleavage and polyadenylation of pre-mRNA 3' ends; RRM-containing heteronuclear RNA binding protein and hnRNPA/B family member that binds to poly (A) signal sequences; required for genome stability
-S000037901	CDS					YOL123W		15	87844	89448	W		2006-01-05	1996-07-31	
-S000005482	ORF	Verified	YOL122C	SMF1	divalent metal ion transporter SMF1|SBS1	chromosome 15	L000001931	15	91419	89692	C		2006-01-05	1996-07-31	Divalent metal ion transporter; broad specificity for di-valent and tri-valent metals; post-translationally regulated by levels of metal ions; member of the Nramp family of metal transport proteins
-S000036001	CDS					YOL122C		15	91419	89692	C		2006-01-05	1996-07-31	
-S000005481	ORF	Verified	YOL121C	RPS19A	eS19|ribosomal 40S subunit protein S19A|S19e|rp55a|YS16A|S19A|S16aA	chromosome 15	L000003299	15	92850	92026	C		2006-01-05	1996-07-31	Protein component of the small (40S) ribosomal subunit; required for assembly and maturation of pre-40 S particles; homologous to mammalian ribosomal protein S19, no bacterial homolog; mutations in human RPS19 are associated with Diamond Blackfan anemia; RPS19A has a paralog, RPS19B, that arose from the whole genome duplication
-S000035838	CDS					YOL121C		15	92440	92026	C		2006-01-05	1996-07-31	
-S000035837	CDS					YOL121C		15	92850	92831	C		2006-01-05	1996-07-31	
-S000035839	intron					YOL121C		15	92830	92441	C		2006-01-05	1996-07-31	
-S000005480	ORF	Verified	YOL120C	RPL18A	eL18|ribosomal 60S subunit protein L18A|L18e|rp28A|L18A|RP28A	chromosome 15	L000001668	15	94402	93395	C		2006-01-05	1996-07-31	Ribosomal 60S subunit protein L18A; intron of RPL18A pre-mRNA forms stem-loop structures that are a target for Rnt1p cleavage leading to degradation; homologous to mammalian ribosomal protein L18, no bacterial homolog; RPL18A has a paralog, RPL18B, that arose from the whole genome duplication
-S000035727	CDS					YOL120C		15	93843	93395	C		2006-01-05	1996-07-31	
-S000035726	CDS					YOL120C		15	94402	94291	C		2006-01-05	1996-07-31	
-S000035728	intron					YOL120C		15	94290	93844	C		2006-01-05	1996-07-31	
-S000005479	ORF	Verified	YOL119C	MCH4		chromosome 15		15	96361	94856	C		2006-01-05	1996-07-31	Protein with similarity to mammalian monocarboxylate permeases; monocarboxylate permeases are involved in transport of monocarboxylic acids across the plasma membrane but mutant is not deficient in monocarboxylate transport
-S000036182	CDS					YOL119C		15	96361	94856	C		2006-01-05	1996-07-31	
-S000005478	ORF	Dubious	YOL118C			chromosome 15		15	96916	96608	C		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036070	CDS					YOL118C		15	96916	96608	C		2006-01-05	1996-07-31	
-S000005477	ORF	Verified	YOL117W	RRI2	CSN10	chromosome 15	S000007579	15	97551	99488	W		2006-01-05	1996-07-31	Subunit of the COP9 signalosome (CSN) complex; this complex cleaves the ubiquitin-like protein Nedd8 from SCF ubiquitin ligases; plays a role in the mating pheromone response
-S000036034	CDS					YOL117W		15	97551	99488	W		2006-01-05	1996-07-31	
-S000005476	ORF	Verified	YOL116W	MSN1	PHD2|MSS10|HRB382|FUP1	chromosome 15	L000001197	15	99809	100957	W		2006-01-05	1996-07-31	Transcriptional activator; involved in regulation of invertase and glucoamylase expression, invasive growth and pseudohyphal differentiation, iron uptake, chromium accumulation, and response to osmotic stress; localizes to the nucleus; relative distribution to the nucleus increases upon DNA replication stress
-S000035148	CDS					YOL116W		15	99809	100957	W		2006-01-05	1996-07-31	
-S000005475	ORF	Verified	YOL115W	PAP2	non-canonical poly(A) polymerase PAP2|TRF4	chromosome 15	L000002953	15	101475	103229	W		2006-01-05	1996-07-31	Non-canonical poly(A) polymerase; involved in nuclear RNA degradation as a component of TRAMP; catalyzes polyadenylation of hypomodified tRNAs, and snoRNA and rRNA precursors; required for mRNA surveillance and maintenance of genome integrity, serving as a link between RNA and DNA metabolism; overlapping but non-redundant functions with Trf5p; relocalizes to cytosol in response to hypoxia
-S000035037	CDS					YOL115W		15	101475	103229	W		2006-01-05	1996-07-31	
-S000005474	ORF	Verified	YOL114C	PTH4		chromosome 15		15	103925	103317	C		2006-01-05	1996-07-31	Protein similar to the human peptidyl-tRNA hydrolase gene ICT1; associates with mitochondrial large subunit; may function in translation termination; YOL114C is not an essential gene
-S000034821	CDS					YOL114C		15	103925	103317	C		2006-01-05	1996-07-31	
-S000005473	ORF	Verified	YOL113W	SKM1	putative serine/threonine protein kinase SKM1	chromosome 15	L000004142	15	104326	106293	W		2006-01-05	1996-07-31	Member of the PAK family of serine/threonine protein kinases; similar to Ste20p; involved in down-regulation of sterol uptake; proposed to be a downstream effector of Cdc42p during polarized growth; SKM1 has a paralog, CLA4, that arose from the whole genome duplication
-S000034781	CDS					YOL113W		15	104326	106293	W		2006-01-05	1996-07-31	
-S000005472	ORF	Verified	YOL112W	MSB4	Rab GTPase-activating protein MSB4	chromosome 15	L000003919	15	106710	108188	W		2006-01-05	1996-07-31	GTPase-activating protein of the Ras superfamily; acts primarily on Sec4p, localizes to the bud site and bud tip; msb3 msb4 double mutation causes defects in secretion and actin organization; similar to the TBC-domain Tre2 oncogene; MSB4 has a paralog, MSB3, that arose from the whole genome duplication; human homolog USP6NL can complement yeast msb3 msb4 double null mutant
-S000033897	CDS					YOL112W		15	106710	108188	W		2006-01-05	1996-07-31	
-S000005471	ORF	Verified	YOL111C	MDY2	GET5|TMA24	chromosome 15		15	108896	108258	C		2006-01-05	1996-07-31	Protein involved in inserting tail-anchored proteins into ER membranes; forms a complex with Get4p; required for efficient mating; involved in shmoo formation and nuclear migration in the pre-zygote; associates with ribosomes
-S000033697	CDS					YOL111C		15	108896	108258	C		2006-01-05	1996-07-31	
-S000005470	ORF	Verified	YOL110W	SHR5	ERF4	chromosome 15	L000002592	15	109176	109889	W		2006-01-05	1996-07-31	Palmitoyltransferase subunit; this complex adds a palmitoyl lipid moiety to heterolipidated substrates such as Ras1p and Ras2p through a thioester linkage; palmitoylation is required for Ras2p membrane localization; Palmitoyltransferase is composed of Shr5p and Erf2
-S000033648	CDS					YOL110W		15	109176	109889	W		2006-01-05	1996-07-31	
-S000005469	ORF	Verified	YOL109W	ZEO1		chromosome 15	L000003927	15	110297	110638	W		2006-01-05	1996-07-31	Peripheral membrane protein of the plasma membrane; interacts with Mid2p; regulates the cell integrity pathway mediated by Pkc1p and Slt2p; the authentic protein is detected in a phosphorylated state in highly purified mitochondria
-S000031643	CDS					YOL109W		15	110297	110638	W		2006-01-05	1996-07-31	
-S000006592	tRNA_gene		tG(UCC)O	SUF1		chromosome 15	L000002149|L000003720	15	111033	110962	C	-110	2006-01-05	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
-S000037569	noncoding_exon					tG(UCC)O		15	111033	110962	C		2006-01-05	2000-05-19	
-S000005468	ORF	Verified	YOL108C	INO4		chromosome 15	L000000869	15	111886	111431	C		2006-01-05	1996-07-31	Transcription factor involved in phospholipid synthesis; required for derepression of inositol-choline-regulated genes involved in phospholipid synthesis; forms a complex, with Ino2p, that binds the inositol-choline-responsive element through a basic helix-loop-helix domain
-S000030752	CDS					YOL108C		15	111886	111431	C		2006-01-05	1996-07-31	
-S000005467	ORF	Uncharacterized	YOL107W			chromosome 15		15	112102	113130	W		2006-01-05	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and colocalizes in a punctate pattern with the early golgi/COPI vesicles; YOL107W is not an essential protein
-S000030688	CDS					YOL107W		15	112102	113130	W		2006-01-05	1996-07-31	
-S000005466	ORF	Dubious	YOL106W			chromosome 15		15	113226	113579	W		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030608	CDS					YOL106W		15	113226	113579	W		2006-01-05	1996-07-31	
-S000007150	long_terminal_repeat		YOLCdelta3			chromosome 15		15	113626	113294	C		2006-01-05	2000-05-19	Ty1 LTR
-S000006746	tRNA_gene		tT(AGU)O1			chromosome 15	L000003701	15	113802	113874	W		2006-01-05	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000037533	noncoding_exon					tT(AGU)O1		15	113802	113874	W		2006-01-05	2000-05-19	
-S000118486	ARS		ARS1509		ARSXV-114	chromosome 15		15	113885	113983			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178181	ARS_consensus_sequence					ARS1509		15	113894	113910	W		2014-11-18	2014-11-18	
-S000005465	ORF	Verified	YOL105C	WSC3		chromosome 15	L000004218	15	115808	114138	C		2006-01-05	1996-07-31	Sensor-transducer of the stress-activated PKC1-MPK1 signaling pathway; involved in maintenance of cell wall integrity; involved in response to heat shock and other stressors; regulates 1,3-beta-glucan synthesis; WSC3 has a paralog, WSC2, that arose from the whole genome duplication
-S000030500	CDS					YOL105C		15	115808	114138	C		2006-01-05	1996-07-31	
-S000005464	ORF	Verified	YOL104C	NDJ1	TAM1	chromosome 15	L000003266|L000003597	15	117454	116396	C		2006-01-05	1996-07-31	Protein that regulates meiotic SPB cohesion and telomere clustering; localizes to both spindle pole bodies (SPBs) and telomeres; required for bouquet formation, effective homolog pairing, ordered cross-over distribution, sister chromatid cohesion at meiotic telomeres, chromosomal segregation and telomere-led rapid prophase movement
-S000037679	CDS					YOL104C		15	117454	116396	C		2006-01-05	1996-07-31	
-S000007154	long_terminal_repeat		YOLWdelta4			chromosome 15		15	117703	118040	W		2006-01-05	2000-05-19	Ty1 LTR
-S000007161	LTR_retrotransposon		YOLWTy1-1		Ty1	chromosome 15		15	117703	123628	W		2006-01-05	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007349	transposable_element_gene		YOL103W-A		gag protein	chromosome 15		15	118000	119322	W		2006-01-05	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000030410	CDS					YOL103W-A		15	118000	119322	W		2006-01-05	1999-07-17	
-S000007350	transposable_element_gene		YOL103W-B		gag-pol fusion protein	chromosome 15	S000029018	15	118000	123268	W		2006-01-05	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000030418	CDS					YOL103W-B		15	118000	119304	W		2006-01-05	1999-07-17	
-S000030419	CDS					YOL103W-B		15	119306	123268	W		2006-01-05	1999-07-17	
-S000030420	plus_1_translational_frameshift					YOL103W-B		15	119305	119305	W		2006-01-05	1999-07-17	
-S000007155	long_terminal_repeat		YOLWdelta5			chromosome 15		15	123291	123628	W		2006-01-05	2000-05-19	Ty1 LTR
-S000005463	ORF	Verified	YOL103W	ITR2	myo-inositol transporter ITR2|HRB612	chromosome 15	L000000880	15	124001	125830	W		2006-01-05	2003-09-22|1996-07-31	Myo-inositol transporter; member of the sugar transporter superfamily; expressed constitutively; ITR2 has a paralog, ITR1, that arose from the whole genome duplication
-S000037640	CDS					YOL103W		15	124001	125830	W		2006-01-05	2003-09-22|1996-07-31	
-S000005462	ORF	Verified	YOL102C	TPT1	tRNA 2'-phosphotransferase	chromosome 15	L000003433	15	126689	125997	C		2006-01-05	1996-07-31	tRNA 2'-phosphotransferase that catalyzes final step in tRNA splicing: the transfer of the 2'-PO(4) from the splice junction to NAD(+) to form ADP-ribose 1''-2''cyclic phosphate and nicotinamide
-S000037519	CDS					YOL102C		15	126689	125997	C		2006-01-05	1996-07-31	
-S000005461	ORF	Verified	YOL101C	IZH4		chromosome 15		15	127920	126982	C		2006-01-05	1996-07-31	Membrane protein involved in zinc ion homeostasis; member of the four-protein IZH family; expression induced by fatty acids and altered zinc levels; deletion reduces sensitivity to excess zinc; possible role in sterol metabolism; protein increases in abundance and relocalizes from nucleus to ER upon DNA replication stress; IZH4 has a paralog, IZH1, that arose from the whole genome duplication
-S000037425	CDS					YOL101C		15	127920	126982	C		2006-01-05	1996-07-31	
-S000005460	ORF	Verified	YOL100W	PKH2	serine/threonine protein kinase PKH2	chromosome 15	L000004617	15	129237	132482	W		2006-01-05	1996-07-31	Serine/threonine protein kinase; involved in sphingolipid-mediated signaling pathway that controls endocytosis; activates Ypk1p and Ykr2p, components of signaling cascade required for maintenance of cell wall integrity; contains a PH-like domain; redundant with Pkh1p; PKH2 has a paralog, PKH1, that arose from the whole genome duplication
-S000032002	CDS					YOL100W		15	129237	132482	W		2006-01-05	1996-07-31	
-S000005459	ORF	Dubious	YOL099C			chromosome 15		15	132508	132017	C		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene PKH2/YOL100W; may interact with ribosomes
-S000030816	CDS					YOL099C		15	132508	132017	C		2006-01-05	1996-07-31	
-S000005458	ORF	Verified	YOL098C	SDD3		chromosome 15		15	135838	132725	C		2006-01-05	1996-07-31	Putative metalloprotease; overproduction suppresses lethality due to expression of the dominant PET9 allele AAC2-A128P
-S000030730	CDS					YOL098C		15	135838	132725	C		2006-01-05	1996-07-31	
-S000006449	snoRNA_gene		snR58	SNR58		chromosome 15	L000004527	15	136183	136088	C		2006-01-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C663
-S000030765	noncoding_exon					snR58		15	136183	136088	C		2006-01-05	2000-05-19	
-S000028854	ORF	Uncharacterized	YOL097W-A			chromosome 15		15	136220	136405	W		2006-01-05	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034567	CDS					YOL097W-A		15	136220	136405	W		2006-01-05	2003-07-29	
-S000005457	ORF	Verified	YOL097C	WRS1	tryptophan--tRNA ligase WRS1|HRE342	chromosome 15	L000003253	15	137825	136527	C		2006-01-05	1996-07-31	Cytoplasmic tryptophanyl-tRNA synthetase; aminoacylates tryptophanyl-tRNA; human homolog WARS can complement yeast null mutant
-S000030577	CDS					YOL097C		15	137825	136527	C		2006-01-05	1996-07-31	
-S000005456	ORF	Verified	YOL096C	COQ3	hexaprenyldihydroxybenzoate methyltransferase	chromosome 15	L000000380	15	139045	138107	C		2006-01-05	2003-09-22|1996-07-31	O-methyltransferase; catalyzes two different O-methylation steps in ubiquinone (Coenzyme Q) biosynthesis; component of a mitochondrial ubiquinone-synthesizing complex; phosphoprotein
-S000036749	CDS					YOL096C		15	139045	138107	C		2006-01-05	2003-09-22|1996-07-31	
-S000005455	ORF	Verified	YOL095C	HMI1	ATP-dependent 3'-5' DNA helicase	chromosome 15	L000004614	15	141347	139227	C		2006-01-05	1996-07-31	Mitochondrial inner membrane localized ATP-dependent DNA helicase; required for the maintenance of the mitochondrial genome; not required for mitochondrial transcription; has homology to E. coli helicase uvrD
-S000036656	CDS					YOL095C		15	141347	139227	C		2006-01-05	1996-07-31	
-S000005454	ORF	Verified	YOL094C	RFC4	replication factor C subunit 4	chromosome 15	L000001625	15	142555	141584	C		2006-01-05	1996-07-31	Subunit of heteropentameric Replication factor C (RF-C); which is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon; relocalizes to the cytosol in response to hypoxia
-S000036576	CDS					YOL094C		15	142555	141584	C		2006-01-05	1996-07-31	
-S000005453	ORF	Verified	YOL093W	TRM10	tRNA (guanine(9)-N(1))-methyltransferase	chromosome 15		15	142815	143696	W		2006-01-05	1996-07-31	tRNA methyltransferase; methylates the N-1 position of guanine at position 9 in tRNAs; protein abundance increases in response to DNA replication stress; member of the SPOUT (SpoU-TrmD) methyltransferase family; human ortholog TRMT10A plays a role in the pathogenesis of microcephaly and early onset diabetes; an 18-mer originates from the TRM10 locus; genetic analysis shows the 18-mer is the translation regulator
-S000036530	CDS					YOL093W		15	142815	143696	W		2006-01-05	1996-07-31	
-S000005452	ORF	Verified	YOL092W	YPQ1	cationic amino acid transporter	chromosome 15		15	144204	145130	W		2006-01-05	1996-07-31	Putative vacuolar membrane transporter for cationic amino acids; likely contributes to amino acid homeostasis by exporting cationic amino acids from the vacuole; member of the PQ-loop family, with seven transmembrane domains; similar to mammalian PQLC2 vacuolar transporter; YPQ1 has a paralog, RTC2, that arose from the whole genome duplication
-S000035613	CDS					YOL092W		15	144204	145130	W		2006-01-05	1996-07-31	
-S000005451	ORF	Verified	YOL091W	SPO21	MPC70	chromosome 15	L000004853	15	145334	147163	W		2006-01-05	1996-07-31	Component of the meiotic outer plaque of the spindle pole body; involved in modifying the meiotic outer plaque that is required prior to prospore membrane formation; SPO21 has a paralog, YSW1, that arose from the whole genome duplication
-S000035535	CDS					YOL091W		15	145334	147163	W		2006-01-05	1996-07-31	
-S000005450	ORF	Verified	YOL090W	MSH2	mismatch repair ATPase MSH2|PMS5	chromosome 15	L000001190	15	147382	150276	W	-83.8	2006-01-05	1996-07-31	Protein that binds to DNA mismatches; forms heterodimers with Msh3p and Msh6p that bind to DNA mismatches to initiate the mismatch repair process; contains a Walker ATP-binding motif required for repair activity and involved in interstrand cross-link repair; Msh2p-Msh6p binds to and hydrolyzes ATP
-S000035449	CDS					YOL090W		15	147382	150276	W		2006-01-05	1996-07-31	
-S000005449	ORF	Verified	YOL089C	HAL9		chromosome 15	L000004704	15	153490	150398	C		2006-01-05	1996-07-31	Putative transcription factor containing a zinc finger; overexpression increases salt tolerance through increased expression of the ENA1 (Na+/Li+ extrusion pump) gene while gene disruption decreases both salt tolerance and ENA1 expression; HAL9 has a paralog, TBS1, that arose from the whole genome duplication
-S000035681	CDS					YOL089C		15	153490	150398	C		2006-01-05	1996-07-31	
-S000005448	ORF	Verified	YOL088C	MPD2	protein disulfide isomerase MPD2	chromosome 15	L000004182	15	154745	153912	C		2006-01-05	1996-07-31	Member of the protein disulfide isomerase (PDI) family; exhibits chaperone activity; overexpression suppresses the lethality of a pdi1 deletion but does not complement all Pdi1p functions; undergoes oxidation by Ero1p
-S000034755	CDS					YOL088C		15	154745	153912	C		2006-01-05	1996-07-31	
-S000005447	ORF	Verified	YOL087C	DUF1		chromosome 15		15	158637	155287	C		2006-01-05	1996-07-31	Ubiquitin-binding protein of unknown function; contains one WD40 repeat in a beta-propeller fold; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; homolog of human WDR48/UAF1, which is involved in regulating the Fanconi anemia pathway; deletion mutant is sensitive to various chemicals including phenanthroline, sanguinarine, and nordihydroguaiaretic acid
-S000034693	CDS					YOL087C		15	158637	155287	C		2006-01-05	1996-07-31	
-S000007626	ORF	Verified	YOL086W-A	MHF1		chromosome 15		15	159173	159445	W		2006-01-05	2001-02-26	Component of the heterotetrameric MHF histone-fold complex; in humans the MHF complex interacts with both DNA and Mph1p ortholog FANCM, a Fanconi anemia complementation group protein, to stabilize and remodel blocked replication forks and repair damaged DNA; mhf1 srs2 double mutants are MMS hypersensitive; ortholog of human centromere constitutive-associated network (CCAN) subunit CENP-S, also known as MHF1
-S000037254	CDS					YOL086W-A		15	159173	159445	W		2006-01-05	2001-02-26	
-S000005446	ORF	Verified	YOL086C	ADH1	alcohol dehydrogenase ADH1|ADC1	chromosome 15	L000000041	15	160594	159548	C	-86	2006-01-05	1996-07-31	Alcohol dehydrogenase; fermentative isozyme active as homo- or heterotetramers; required for the reduction of acetaldehyde to ethanol, the last step in the glycolytic pathway; ADH1 has a paralog, ADH5, that arose from the whole genome duplication
-S000034629	CDS					YOL086C		15	160594	159548	C		2006-01-05	1996-07-31	
-S000028708	ORF	Dubious	YOL085W-A			chromosome 15		15	161579	161791	W		2006-01-05	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YOL085C
-S000032652	CDS					YOL085W-A		15	161579	161791	W		2006-01-05	2003-07-29	
-S000005445	ORF	Uncharacterized	YOL085C			chromosome 15		15	162014	161673	C		2006-01-05	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YOL085C is not an essential gene; partially overlaps dubious ORF YOL085W-A
-S000034541	CDS					YOL085C		15	162014	161673	C		2006-01-05	1996-07-31	
-S000005444	ORF	Verified	YOL084W	PHM7		chromosome 15		15	162356	165331	W		2006-01-05	1996-07-31	Protein of unknown function; expression is regulated by phosphate levels; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and vacuole; protein abundance increases in response to DNA replication stress
-S000034487	CDS					YOL084W		15	162356	165331	W		2006-01-05	1996-07-31	
-S000005443	ORF	Verified	YOL083W	ATG34	ATG19-B	chromosome 15		15	165714	166952	W		2006-01-05	1996-07-31	Receptor protein involved in selective autophagy during starvation; specifically involved in the transport of cargo protein alpha-mannosidase (Ams1p); Atg19p paralog
-S000032467	CDS					YOL083W		15	165714	166952	W		2006-01-05	1996-07-31	
-S000028853	ORF	Dubious	YOL083C-A			chromosome 15		15	166601	166461	C		2006-01-05	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by expression profiling and mass spectrometry
-S000034566	CDS					YOL083C-A		15	166601	166461	C		2006-01-05	2003-07-29	
-S000118487	ARS		ARS1510		ARSXV-167	chromosome 15		15	166976	167221			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000178182	ARS_consensus_sequence					ARS1510		15	167002	167018	W		2014-11-18	2014-11-18	
-S000005442	ORF	Verified	YOL082W	ATG19	CVT19	chromosome 15		15	168727	169974	W		2006-01-05	1996-07-31	Receptor protein for the cytoplasm-to-vacuole targeting (Cvt) pathway; delivers cargo proteins aminopeptidase I (Ape1p) and alpha-mannosidase (Ams1p) to the phagophore assembly site for packaging into Cvt vesicles; interaction with Atg19p during the Cvt pathway requires phosphorylation by Hrr25p
-S000032367	CDS					YOL082W		15	168727	169974	W		2006-01-05	1996-07-31	
-S000005441	ORF	Verified	YOL081W	IRA2	Ras GTPase activating protein IRA2|GLC4|CCS1	chromosome 15	L000000874	15	171070	180309	W	-72	2006-01-05	1996-07-31	GTPase-activating protein; negatively regulates RAS by converting it from the GTP- to the GDP-bound inactive form, required for reducing cAMP levels under nutrient limiting conditions; IRA2 has a paralog, IRA1, that arose from the whole genome duplication; defects in human homolog NF1 are associated with neurofibromatosis
-S000032260	CDS					YOL081W		15	171070	180309	W		2006-01-05	1996-07-31	
-S000005439	ORF	Dubious	YOL079W			chromosome 15		15	181057	181455	W		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031476	CDS					YOL079W		15	181057	181455	W		2006-01-05	1996-07-31	
-S000005440	ORF	Verified	YOL080C	REX4	putative 3'-5' exonuclease	chromosome 15		15	181427	180558	C		2006-01-05	1996-07-31	Putative RNA exonuclease; possibly involved in pre-rRNA processing and ribosome assembly
-S000031202	CDS					YOL080C		15	181427	180558	C		2006-01-05	1996-07-31	
-S000005438	ORF	Verified	YOL078W	AVO1		chromosome 15		15	181682	185212	W		2006-01-05	1996-07-31	Component of a membrane-bound complex containing the Tor2p kinase; contains Tor2p kinase and other proteins; may have a role in regulation of cell growth
-S000031371	CDS					YOL078W		15	181682	185212	W		2006-01-05	1996-07-31	
-S000007339	ORF	Verified	YOL077W-A	ATP19	F1F0 ATP synthase subunit k	chromosome 15		15	185438	185644	W		2006-01-05	1999-07-17	Subunit k of the mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; associated only with the dimeric form of ATP synthase
-S000031206	CDS					YOL077W-A		15	185438	185644	W		2006-01-05	1999-07-17	
-S000005437	ORF	Verified	YOL077C	BRX1		chromosome 15		15	186723	185848	C		2006-01-05	1996-07-31|2011-02-03	Nucleolar protein; constituent of 66S pre-ribosomal particles; depletion leads to defects in rRNA processing and a block in the assembly of large ribosomal subunits; possesses a sigma(70)-like RNA-binding motif
-S000030456	CDS					YOL077C		15	186723	185848	C		2006-01-05	1996-07-31|2011-02-03	
-S000005436	ORF	Verified	YOL076W	MDM20	NAA25|DEC1	chromosome 15	L000002975	15	187024	189414	W		2006-01-05	1996-07-31	Non-catalytic subunit of the NatB N-terminal acetyltransferase; NatB catalyzes N-acetylation of proteins with specific N-terminal sequences; involved in mitochondrial inheritance and actin assembly
-S000030374	CDS					YOL076W		15	187024	189414	W		2006-01-05	1996-07-31	
-S000005435	ORF	Verified	YOL075C			chromosome 15		15	193542	189658	C		2006-01-05	1999-07-17|1996-07-31|2011-02-03	Putative ABC transporter
-S000030157	CDS					YOL075C		15	193542	189658	C		2006-01-05	1999-07-17|1996-07-31|2011-02-03	
-S000005434	ORF	Verified	YOL073C	DSC2		chromosome 15		15	194800	193832	C		2006-01-05	1996-07-31	Multi-transmembrane subunit of the DSC ubiquitin ligase complex; similar in sequence to rhomboid pseudoproteases Der1p and UBAC2 that function in ERAD; ortholog of fission yeast dsc2
-S000036354	CDS					YOL073C		15	194800	193832	C		2006-01-05	1996-07-31	
-S000005433	ORF	Verified	YOL072W	THP1	BUD29	chromosome 15		15	194970	196337	W		2006-01-05	1996-07-31	Nuclear pore-associated protein; component of TREX-2 complex (Sac3p-Thp1p-Sus1p-Cdc31p) involved in transcription elongation and mRNA export from the nucleus; involved in post-transcriptional tethering of active genes to the nuclear periphery and to non-nascent mRNP; contains a PAM domain implicated in protein-protein binding
-S000036289	CDS					YOL072W		15	194970	196337	W		2006-01-05	1996-07-31	
-S000005432	ORF	Verified	YOL071W	SDH5	EMI5|succinate dehydrogenase assembly factor SDH5	chromosome 15		15	196507	196995	W		2006-01-05	1996-07-31	Protein required for flavinylation of Sdh1p; binds to Sdh1p and promotes FAD cofactor attachment, which is necessary for succinate dehydrogenase (SDH) complex assembly and activity; mutations in human ortholog PGL2 are associated with neuroendocrine tumors (paraganglioma)
-S000036205	CDS					YOL071W		15	196507	196995	W		2006-01-05	1996-07-31	
-S000005431	ORF	Verified	YOL070C	NBA1		chromosome 15		15	198725	197220	C		2006-01-05	1996-07-31	Protein of unknown function; localizes to the bud neck and cytoplasm; interacts with Nap1p; may interact with ribosomes, based on co-purification experiments; potential Cdc28p substrate
-S000035224	CDS					YOL070C		15	198725	197220	C		2006-01-05	1996-07-31	
-S000005430	ORF	Verified	YOL069W	NUF2	kinetochore-associated Ndc80 complex subunit NUF2	chromosome 15	L000001286	15	198942	200297	W		2006-01-05	1996-07-31	Component of the kinetochore-associated Ndc80 complex; involved in chromosome segregation, spindle checkpoint activity, and kinetochore clustering; evolutionarily conserved; other members include Ndc80p, Nuf2p, Spc24p, and Spc25p
-S000035586	CDS					YOL069W		15	198942	200297	W		2006-01-05	1996-07-31	
-S000005429	ORF	Verified	YOL068C	HST1	histone deacetylase HST1	chromosome 15	L000000826	15	201879	200368	C		2006-01-05	1996-07-31	NAD(+)-dependent histone deacetylase; essential subunit of the Sum1p/Rfm1p/Hst1p complex required for ORC-dependent silencing and meiotic repression; non-essential subunit of the Set3C deacetylase complex; involved in telomere maintenance; HST1 has a paralog, SIR2, that arose from the whole genome duplication
-S000035472	CDS					YOL068C		15	201879	200368	C		2006-01-05	1996-07-31	
-S000005428	ORF	Verified	YOL067C	RTG1		chromosome 15	L000001783	15	202518	201985	C		2006-01-05	1996-07-31	Transcription factor (bHLH) involved in interorganelle communication; contributes to communication between mitochondria, peroxisomes, and nucleus; target of Hog1p; activated in stochastic pulses of nuclear localization
-S000035434	CDS					YOL067C		15	202518	201985	C		2006-01-05	1996-07-31	
-S000005427	ORF	Verified	YOL066C	RIB2	bifunctional DRAP deaminase/tRNA pseudouridine synthase RIB2|PUS8	chromosome 15	L000003026	15	204471	202696	C		2006-01-05	1996-07-31	Bifunctional DRAP deaminase tRNA:pseudouridine synthase; the deaminase catalyzes the third step in riboflavin biosynthesis and the synthase catalyzes formation of pseudouridine at position 32 in cytoplasmic tRNAs; RIB2 has a paralog, PUS9, that arose from the whole genome duplication
-S000035357	CDS					YOL066C		15	204471	202696	C		2006-01-05	1996-07-31	
-S000005426	ORF	Verified	YOL065C	INP54	phosphoinositide 5-phosphatase INP54	chromosome 15	L000004299	15	205885	204731	C		2006-01-05	1996-07-31	Phosphatidylinositol 4,5-bisphosphate 5-phosphatase; role in secretion; localizes to the endoplasmic reticulum via the C-terminal tail; lacks the Sac1 domain and proline-rich region found in the other 3 INP proteins
-S000034381	CDS					YOL065C		15	205885	204731	C		2006-01-05	1996-07-31	
-S000005425	ORF	Verified	YOL064C	MET22	3'(2'),5'-bisphosphate nucleotidase|HAL2	chromosome 15	L000001090	15	207176	206103	C		2006-01-05	1996-07-31	Bisphosphate-3'-nucleotidase; involved in salt tolerance and methionine biogenesis; dephosphorylates 3'-phosphoadenosine-5'-phosphate and 3'-phosphoadenosine-5'-phosphosulfate, intermediates of the sulfate assimilation pathway; human homolog BPNT1 complements yeast null mutant
-S000034318	CDS					YOL064C		15	207176	206103	C		2006-01-05	1996-07-31	
-S000005424	ORF	Verified	YOL063C	CRT10	HUS1	chromosome 15		15	210265	207392	C		2006-01-05	1996-07-31	Protein involved in transcriptional regulation of RNR2 and RNR3; expression of the gene is induced by DNA damage and null mutations confer increased resistance to hydroxyurea; N-terminal region has a leucine repeat and a WD40 repeat
-S000034270	CDS					YOL063C		15	210265	207392	C		2006-01-05	1996-07-31	
-S000005423	ORF	Verified	YOL062C	APM4	AMP1	chromosome 15	L000003288	15	211995	210520	C		2006-01-05	1996-07-31	Cargo-binding mu subunit of AP-2; AP-2 is a heterotetrameric endocytic cargo-binding adaptor that facilitates uptake of membrane proteins during clathrin-mediated endocytosis; Apm4p is required for AP-2 function and localization, and binds cell wall stress receptor Mid2p; AP-2 is required for cell polarity responses to pheromone, nutritional status and cell wall damage in S. cerevisiae, and for hyphal growth in C. albicans; AP-2 complex is conserved in mammals
-S000034160	CDS					YOL062C		15	211995	210520	C		2006-01-05	1996-07-31	
-S000005422	ORF	Verified	YOL061W	PRS5	ribose phosphate diphosphokinase subunit PRS5	chromosome 15	L000004120	15	212244	213734	W		2006-01-05	1996-07-31	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase; synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes; forms cytoplasmic foci upon DNA replication stress
-S000034100	CDS					YOL061W		15	212244	213734	W		2006-01-05	1996-07-31	
-S000005421	ORF	Verified	YOL060C	MAM3		chromosome 15		15	216137	214017	C		2006-01-05	1996-07-31	Protein required for normal mitochondrial morphology; has similarity to hemolysins
-S000032070	CDS					YOL060C		15	216137	214017	C		2006-01-05	1996-07-31	
-S000005420	ORF	Verified	YOL059W	GPD2	glycerol-3-phosphate dehydrogenase (NAD(+)) GPD2|GPD3	chromosome 15	L000000723|L000003160	15	217126	218448	W		2006-01-05	1996-07-31	NAD-dependent glycerol 3-phosphate dehydrogenase; expression is controlled by an oxygen-independent signaling pathway required to regulate metabolism under anoxic conditions; located in cytosol and mitochondria; constitutively active but is inactivated via phosphorylation by energy-stress responsive kinase SNF1; GPD2 has a paralog, GPD1, that arose from the whole genome duplication
-S000032438	CDS					YOL059W		15	217126	218448	W		2006-01-05	1996-07-31	
-S000005419	ORF	Verified	YOL058W	ARG1	argininosuccinate synthase|ARG10	chromosome 15	L000000107	15	219211	220473	W	-56	2011-02-03	1996-07-31|2011-02-03	Arginosuccinate synthetase; catalyzes the formation of L-argininosuccinate from citrulline and L-aspartate in the arginine biosynthesis pathway; potential Cdc28p substrate
-S000032317	CDS					YOL058W		15	219211	220473	W		2011-02-03	1996-07-31|2011-02-03	
-S000005418	ORF	Verified	YOL057W		dipeptidyl-peptidase III	chromosome 15		15	220767	222902	W		2011-02-03	1996-07-31	Dipeptidyl-peptidase III; cleaves dipeptides from the amino terminus of target proteins; highly active on synthetic substrate Arg-Arg-2-naphthylamide; mammalian ortholog may be a biomarker for some cancers
-S000032234	CDS					YOL057W		15	220767	222902	W		2011-02-03	1996-07-31	
-S000005417	ORF	Verified	YOL056W	GPM3	phosphoglycerate mutase family protein GPM3	chromosome 15	L000002980	15	223268	224179	W		2011-02-03	1996-07-31	Homolog of Gpm1p phosphoglycerate mutase; converts 3-phosphoglycerate to 2-phosphoglycerate in glycolysis; may be non-functional; GPM3 has a paralog, GPM2, that arose from the whole genome duplication
-S000032154	CDS					YOL056W		15	223268	224179	W		2011-02-03	1996-07-31	
-S000005416	ORF	Verified	YOL055C	THI20	trifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase/thiaminase	chromosome 15		15	226075	224420	C		2011-02-03	1996-07-31	Trifunctional enzyme of thiamine biosynthesis, degradation and salvage; has hydroxymethylpyrimidine (HMP) kinase, HMP-phosphate (HMP-P) kinase and thiaminase activities; member of a gene family with THI21 and THI22; HMP and HMP-P kinase activity redundant with Thi21p
-S000031133	CDS					YOL055C		15	226075	224420	C		2011-02-03	1996-07-31	
-S000006586	tRNA_gene		tG(GCC)O1			chromosome 15	L000003719	15	226681	226611	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000031599	noncoding_exon					tG(GCC)O1		15	226681	226611	C		2011-02-03	2000-05-19	
-S000007158	long_terminal_repeat		YOLWsigma1			chromosome 15		15	226696	227037	W		2011-02-03	2000-05-19	Ty3 LTR
-S000007156	long_terminal_repeat		YOLWdelta6			chromosome 15		15	227096	227293	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007151	long_terminal_repeat		YOLCdelta7			chromosome 15		15	228178	227851	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006675	tRNA_gene		tN(GUU)O1			chromosome 15	L000003702	15	228331	228404	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000035637	noncoding_exon					tN(GUU)O1		15	228331	228404	W		2011-02-03	2000-05-19	
-S000005415	ORF	Verified	YOL054W	PSH1	ubiquitin-protein ligase PSH1	chromosome 15		15	228614	229834	W		2011-02-03	1996-07-31	E3 ubiquitin ligase targeting centromere-binding protein Cse4p; mediates polyubiquitination and degradation of histone H3 variant Cse4p, preventing its mislocalization to euchromatin independent of Slx5p; ubiquitination of Cse4p may be antagonized by Scm3p
-S000031092	CDS					YOL054W		15	228614	229834	W		2011-02-03	1996-07-31	
-S000005414	ORF	Verified	YOL053W	AIM39		chromosome 15		15	230085	231272	W		2011-02-03	1996-07-31	Protein of unknown function; null mutant displays elevated frequency of mitochondrial genome loss
-S000030999	CDS					YOL053W		15	230085	231272	W		2011-02-03	1996-07-31	
-S000005413	ORF	Verified	YOL052C-A	DDR2	YOL053C-A|DDRA2	chromosome 15	L000003478	15	231755	231570	C		2011-02-03	1996-07-31	Multi-stress response protein; expression is activated by a variety of xenobiotic agents and environmental or physiological stresses; DDR2 has a paralog, HOR7, that arose from the whole genome duplication
-S000035236	CDS					YOL052C-A		15	231755	231570	C		2011-02-03	1996-07-31	
-S000005412	ORF	Verified	YOL052C	SPE2	adenosylmethionine decarboxylase SPE2	chromosome 15	L000001994	15	233636	232446	C	-58	2011-02-03	1996-07-31	S-adenosylmethionine decarboxylase; required for the biosynthesis of spermidine and spermine; cells lacking Spe2p require spermine or spermidine for growth in the presence of oxygen but not when grown anaerobically
-S000029956	CDS					YOL052C		15	233636	232446	C		2011-02-03	1996-07-31	
-S000081375	snoRNA_gene		snR81	SNR81		chromosome 15		15	234346	234546	W		2011-02-03	2006-01-24	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U1052, constitutive pseudouridylation of U2 snRNA (LSR1) at position 42, and stress-induced U2 pseudouridylation at position 93
-S000114173	noncoding_exon					snR81		15	234346	234546	W		2011-02-03	2006-01-24	
-S000005411	ORF	Verified	YOL051W	GAL11	MED15|ABE1|SPT13|SDS4|RAR3	chromosome 15	L000000664	15	234940	238185	W	-53	2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; affects transcription by acting as target of activators and repressors; forms part of the tail domain of mediator
-S000029897	CDS					YOL051W		15	234940	238185	W		2011-02-03	1996-07-31	
-S000005410	ORF	Dubious	YOL050C			chromosome 15		15	238202	237882	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps verified gene GAL11; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
-S000037840	CDS					YOL050C		15	238202	237882	C		2011-02-03	1996-07-31	
-S000005409	ORF	Verified	YOL049W	GSH2	glutathione synthase	chromosome 15	L000003548	15	238619	240094	W		2011-02-03	1996-07-31	Glutathione synthetase; catalyzes the ATP-dependent synthesis of glutathione (GSH) from gamma-glutamylcysteine and glycine; induced by oxidative stress and heat shock
-S000037056	CDS					YOL049W		15	238619	240094	W		2011-02-03	1996-07-31	
-S000005408	ORF	Verified	YOL048C	RRT8		chromosome 15		15	241310	240204	C		2011-02-03	2003-09-27|1996-07-31	Protein involved in spore wall assembly; shares similarity with Lds1p and Lds2p and a strain mutant for all 3 genes exhibits reduced dityrosine fluorescence relative to the single mutants; identified in a screen for mutants with increased levels of rDNA transcription; green fluorescent protein (GFP)-fusion protein localizes to lipid particles; protein abundance increases in response to DNA replication stress
-S000036368	CDS					YOL048C		15	240947	240204	C		2011-02-03	2003-09-27	
-S000036367	CDS					YOL048C		15	241310	241026	C		2011-02-03	2003-09-27|1996-07-31	
-S000036369	intron					YOL048C		15	241025	240948	C		2011-02-03	2003-09-27	
-S000005407	ORF	Verified	YOL047C	LDS2		chromosome 15		15	242747	241614	C		2011-02-03	2000-07-14|1996-07-31	Protein Involved in spore wall assembly; localizes to lipid droplets found on or outside of the prospore membrane; shares similarity with Lds1p and Rrt8p, and a strain mutant for all 3 genes exhibits reduced dityrosine fluorescence relative to the single mutants; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
-S000036270	CDS					YOL047C		15	242441	241614	C		2011-02-03	2000-07-14|1996-07-31	
-S000036269	CDS					YOL047C		15	242747	242505	C		2011-02-03	2000-07-14|1996-07-31	
-S000036271	intron					YOL047C		15	242504	242442	C		2011-02-03	2000-07-14|1996-07-31	
-S000005405	ORF	Verified	YOL045W	PSK2	serine/threonine protein kinase PSK2	chromosome 15		15	243497	246802	W		2011-02-03	1996-07-31	PAS-domain containing serine/threonine protein kinase; regulates sugar flux and translation in response to an unknown metabolite by phosphorylating Ugp1p and Gsy2p (sugar flux) and Caf20p, Tif11p and Sro9p (translation); PSK2 has a paralog, PSK1, that arose from the whole genome duplication
-S000036127	CDS					YOL045W		15	243497	246802	W		2011-02-03	1996-07-31	
-S000005406	ORF	Dubious	YOL046C			chromosome 15		15	244140	243466	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified gene PSK2/YOL045W
-S000036179	CDS					YOL046C		15	244140	243466	C		2011-02-03	1996-07-31	
-S000005404	ORF	Verified	YOL044W	PEX15	PAS21	chromosome 15	L000003971	15	247150	248301	W		2011-02-03	1996-07-31	Tail-anchored type II integral peroxisomal membrane protein; required for peroxisome biogenesis; cells lacking Pex15p mislocalize peroxisomal matrix proteins to cytosol; overexpression results in impaired peroxisome assembly
-S000036032	CDS					YOL044W		15	247150	248301	W		2011-02-03	1996-07-31	
-S000005403	ORF	Verified	YOL043C	NTG2	bifunctional N-glycosylase/AP lyase NTG2|SCR2	chromosome 15	L000004115	15	249534	248392	C		2011-02-03	1996-07-31	DNA N-glycosylase and apurinic/apyrimidinic (AP) lyase; involved in base excision repair, localizes to the nucleus; sumoylated; NTG2 has a paralog, NTG1, that arose from the whole genome duplication
-S000035085	CDS					YOL043C		15	249534	248392	C		2011-02-03	1996-07-31	
-S000005402	ORF	Verified	YOL042W	NGL1	RNA exonuclease	chromosome 15		15	249825	250916	W		2011-02-03	1996-07-31	Putative endonuclease; has a domain similar to a magnesium-dependent endonuclease motif in mRNA deadenylase Ccr4p; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000035032	CDS					YOL042W		15	249825	250916	W		2011-02-03	1996-07-31	
-S000005401	ORF	Verified	YOL041C	NOP12		chromosome 15	S000007491	15	252646	251267	C		2011-02-03	1996-07-31	Nucleolar protein involved in pre-25S rRNA processing; also involved in biogenesis of large 60S ribosomal subunit; contains an RNA recognition motif (RRM); binds to Ebp2; similar to Nop13p and Nsr1p
-S000034818	CDS					YOL041C		15	252646	251267	C		2011-02-03	1996-07-31	
-S000005400	ORF	Verified	YOL040C	RPS15	uS19|ribosomal 40S subunit protein S15|S19|rp52|S21|S15|RPS21	chromosome 15	L000002709|L000001759	15	253577	253149	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S15 and bacterial S19
-S000033943	CDS					YOL040C		15	253577	253149	C		2011-02-03	1996-07-31	
-S000005399	ORF	Verified	YOL039W	RPP2A	P2A|ribosomal protein P2A|RPLA2|RPL44	chromosome 15	L000001733|L000001735|L000002820	15	254297	254617	W		2011-02-03	1996-07-31	Ribosomal protein P2 alpha; a component of the ribosomal stalk, which is involved in the interaction between translational elongation factors and the ribosome; free (non-ribosomal) P2 stimulates the phosphorylation of the eIF2 alpha subunit (Sui2p) by Gcn2p; regulates the accumulation of P1 (Rpp1Ap and Rpp1Bp) in the cytoplasm
-S000032787	CDS					YOL039W		15	254297	254617	W		2011-02-03	1996-07-31	
-S000028812	ORF	Uncharacterized	YOL038C-A			chromosome 15		15	255021	254926	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by SAGE analysis
-S000033612	CDS					YOL038C-A		15	255021	254926	C		2011-02-03	2003-07-29	
-S000005398	ORF	Verified	YOL038W	PRE6	proteasome core particle subunit alpha 4	chromosome 15	L000001488	15	255337	256101	W		2011-02-03	1996-07-31	Alpha 4 subunit of the 20S proteasome; may replace alpha 3 subunit (Pre9p) under stress conditions to create a more active proteasomal isoform; GFP-fusion protein relocates from cytosol to the mitochondrial surface upon oxidative stress
-S000031873	CDS					YOL038W		15	255337	256101	W		2011-02-03	1996-07-31	
-S000005396	ORF	Uncharacterized	YOL036W			chromosome 15		15	256745	259030	W		2011-02-03	1996-07-31	Protein of unknown function; potential Cdc28p substrate; YOL036W has a paralog, YIR016W, that arose from the whole genome duplication
-S000031637	CDS					YOL036W		15	256745	259030	W		2011-02-03	1996-07-31	
-S000005397	ORF	Dubious	YOL037C			chromosome 15		15	257019	256666	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOL036W
-S000031673	CDS					YOL037C		15	257019	256666	C		2011-02-03	1996-07-31	
-S000005395	ORF	Dubious	YOL035C			chromosome 15		15	259105	258803	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030751	CDS					YOL035C		15	259105	258803	C		2011-02-03	1996-07-31	
-S000006441	snoRNA_gene		snR50	SNR50		chromosome 15	L000004519	15	259489	259578	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position G867
-S000030731	noncoding_exon					snR50		15	259489	259578	W		2011-02-03	2000-05-19	
-S000005394	ORF	Verified	YOL034W	SMC5	DNA repair ATPase SMC5	chromosome 15		15	259923	263204	W		2011-02-03	1996-07-31	Subunit of the SMC5-SMC6 complex; the SMC5-SMC6 complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; binds single-stranded DNA and has ATPase activity; supports nucleolar function; S. pombe homolog forms a heterodimer with S. pombe Rad18p that is involved in DNA repair
-S000030687	CDS					YOL034W		15	259923	263204	W		2011-02-03	1996-07-31	
-S000005393	ORF	Verified	YOL033W	MSE1	glutamate--tRNA ligase MSE1	chromosome 15	L000002617	15	263475	265085	W		2011-02-03	1996-07-31	Mitochondrial glutamyl-tRNA synthetase; predicted to be palmitoylated
-S000030607	CDS					YOL033W		15	263475	265085	W		2011-02-03	1996-07-31	
-S000005392	ORF	Verified	YOL032W	OPI10		chromosome 15		15	265429	266169	W		2011-02-03	1996-07-31	Protein with a possible role in phospholipid biosynthesis; null mutant displays an inositol-excreting phenotype that is suppressed by exogenous choline; protein abundance increases in response to DNA replication stress
-S000030531	CDS					YOL032W		15	265429	266169	W		2011-02-03	1996-07-31	
-S000005391	ORF	Verified	YOL031C	SIL1	SLS1	chromosome 15		15	267529	266264	C		2011-02-03	1996-07-31	Nucleotide exchange factor for the ER lumenal Hsp70 chaperone Kar2p; required for protein translocation into the endoplasmic reticulum (ER); homolog of Yarrowia lipolytica SLS1; GrpE-like protein
-S000037678	CDS					YOL031C		15	267529	266264	C		2011-02-03	1996-07-31	
-S000005390	ORF	Verified	YOL030W	GAS5	1,3-beta-glucanosyltransferase	chromosome 15		15	268187	269641	W		2011-02-03	1996-07-31	1,3-beta-glucanosyltransferase; has similarity to Gas1p; localizes to the cell wall
-S000037638	CDS					YOL030W		15	268187	269641	W		2011-02-03	1996-07-31	
-S000005389	ORF	Uncharacterized	YOL029C			chromosome 15		15	270420	269815	C		2011-02-03	1996-07-31	Putative protein of unknown function; identified as interacting with Hsc82p and Hsp82p in high-throughput two-hybrid screens
-S000036601	CDS					YOL029C		15	270420	269815	C		2011-02-03	1996-07-31	
-S000005388	ORF	Verified	YOL028C	YAP7		chromosome 15	L000004347	15	271370	270633	C		2011-02-03	1996-07-31	Putative basic leucine zipper (bZIP) transcription factor; YAP7 has a paralog, YAP5, that arose from the whole genome duplication
-S000036521	CDS					YOL028C		15	271370	270633	C		2011-02-03	1996-07-31	
-S000005387	ORF	Verified	YOL027C	MDM38	ribosome-binding protein MDM38|MKH1	chromosome 15		15	273724	272003	C		2011-02-03	1996-07-31	Mitochondrial protein; forms a complex with Mba1p to facilitate recruitment of mRNA-specific translational activators to ribosomes; roles in protein export and K+/H+ exchange; human ortholog Letm1 implicated in Wolf-Hirschhorn syndrome
-S000036426	CDS					YOL027C		15	273724	272003	C		2011-02-03	1996-07-31	
-S000005386	ORF	Verified	YOL026C	MIM1	TOM13	chromosome 15		15	274353	274012	C		2011-02-03	1996-07-31	Mitochondrial protein required for outer membrane protein import; cooperates with Tom70p to import the subset of proteins with multiple alpha-helical transmembrane segments, including Ugo1p, Tom20p, and others; present in a complex with Mim2p in the outer membrane that may create a local environment to facilitate membrane insertion of substrate proteins; also has a role in assembly of Tom20p into the TOM complex
-S000036344	CDS					YOL026C		15	274353	274012	C		2011-02-03	1996-07-31	
-S000006733	tRNA_gene		tS(GCU)O			chromosome 15	L000003703	15	274673	274773	W		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000037500	intron					tS(GCU)O		15	274710	274728	W		2011-02-03	2000-05-19	
-S000037498	noncoding_exon					tS(GCU)O		15	274673	274709	W		2011-02-03	2000-05-19	
-S000037499	noncoding_exon					tS(GCU)O		15	274729	274773	W		2011-02-03	2000-05-19	
-S000005385	ORF	Verified	YOL025W	LAG2	ECM36	chromosome 15	L000003402	15	274957	276939	W		2011-02-03	1996-07-31|1997-07-27	Protein that negatively regulates the SCF E3-ubiquitin ligase; regulates by interacting with and preventing neddyation of the cullin subunit, Cdc53p; longevity determinant that is preferentially expressed in young cells; similar to mammalian Cand1
-S000035469	CDS					YOL025W		15	274957	276939	W		2011-02-03	1997-07-27|1996-07-31	
-S000005384	ORF	Uncharacterized	YOL024W			chromosome 15		15	277086	277604	W		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to have thiol-disulfide oxidoreductase active site; YOL024W has a paralog, IGD1, that arose from the whole genome duplication
-S000035404	CDS					YOL024W		15	277086	277604	W		2011-02-03	1996-07-31	
-S000118488	ARS		ARS1511		ARSXV-278	chromosome 15		15	277530	277778			2011-02-03	2006-08-30	Autonomously Replicating Sequence; replication capacity dependent upon Sum1p
-S000178183	ARS_consensus_sequence					ARS1511		15	277733	277717	C		2014-11-18	2014-11-18	
-S000005383	ORF	Verified	YOL023W	IFM1	translation initiation factor 2	chromosome 15	L000000854	15	278056	280086	W		2011-02-03	1996-07-31	Mitochondrial translation initiation factor 2
-S000035326	CDS					YOL023W		15	278056	280086	W		2011-02-03	1996-07-31	
-S000005382	ORF	Verified	YOL022C	TSR4		chromosome 15		15	281498	280272	C		2011-02-03	1996-07-31|2011-02-03	Cytoplasmic protein required for correct processing of 20S pre-rRNA; protein required for processing of the 20S pre-rRNA at site D to generate mature 18S rRNA; essential gene in S288C background but not in CEN.PK2
-S000035200	CDS					YOL022C		15	281498	280272	C		2011-02-03	1996-07-31|2011-02-03	
-S000006587	tRNA_gene		tG(GCC)O2	SUF17		chromosome 15	L000002164|L000003704	15	282164	282234	W	-53	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
-S000031601	noncoding_exon					tG(GCC)O2		15	282164	282234	W		2011-02-03	2000-05-19	
-S000005381	ORF	Verified	YOL021C	DIS3	exosome catalytic subunit DIS3|MTR17|RRP44	chromosome 15	L000003486	15	285426	282421	C		2011-02-03	1996-07-31	Exosome core complex catalytic subunit; has both endonuclease and 3'-5' exonuclease activity; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; role in degradation of tRNAs; similar to E. coli RNase R and to human DIS3, which partially complements dis3-81 heat sensitivity; mutations in Dis3p analogous to human mutations implicated in multiple myeloma impair exosome function; protein abundance increases under to DNA replication stress
-S000034208	CDS					YOL021C		15	285426	282421	C		2011-02-03	1996-07-31	
-S000005380	ORF	Verified	YOL020W	TAT2	aromatic amino acid transmembrane transporter TAT2|TAP2|SCM2|SAB2|LTG3	chromosome 15	L000002263|L000000956|L000001813	15	286172	287950	W		2011-02-03	1996-07-31	High affinity tryptophan and tyrosine permease; overexpression confers FK506 and FTY720 resistance
-S000034169	CDS					YOL020W		15	286172	287950	W		2011-02-03	1996-07-31	
-S000006785	tRNA_gene		tY(GUA)O	SUP3		chromosome 15	L000003705|L000002182	15	288192	288280	W	-16	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000034708	intron					tY(GUA)O		15	288231	288244	W		2011-02-03	2000-05-19	
-S000034706	noncoding_exon					tY(GUA)O		15	288192	288230	W		2011-02-03	2000-05-19	
-S000034707	noncoding_exon					tY(GUA)O		15	288245	288280	W		2011-02-03	2000-05-19	
-S000028707	ORF	Uncharacterized	YOL019W-A			chromosome 15		15	288420	288572	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032650	CDS					YOL019W-A		15	288420	288572	W		2011-02-03	2003-07-29	
-S000005379	ORF	Uncharacterized	YOL019W		TOS7	chromosome 15		15	288898	290553	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and vacuole; YOL019W has a paralog, DCV1, that arose from the whole genome duplication
-S000033133	CDS					YOL019W		15	288898	290553	W		2011-02-03	1996-07-31	
-S000005378	ORF	Verified	YOL018C	TLG2		chromosome 15	L000004228	15	292074	290881	C		2011-02-03	1996-07-31	Syntaxin-like t-SNARE; forms a complex with Tlg1p and Vti1p and mediates fusion of endosome-derived vesicles with the late Golgi; required along with VPS45 for an early step of the constitutive CVT pathway; interactions with Vps45 prevents Tlg2p degradation, and facilitates t-SNARE complex formation; homologous to mammalian SNARE protein syntaxin 16 (Sx16)
-S000032218	CDS					YOL018C		15	292074	290881	C		2011-02-03	1996-07-31	
-S000005377	ORF	Verified	YOL017W	ESC8		chromosome 15		15	292529	294673	W		2011-02-03	1996-07-31	Protein involved in telomeric and mating-type locus silencing; interacts with Sir2p and also interacts with Gal11p, which is a component of the RNA pol II mediator complex; ESC8 has a paralog, IOC3, that arose from the whole genome duplication
-S000032174	CDS					YOL017W		15	292529	294673	W		2011-02-03	1996-07-31	
-S000005376	ORF	Verified	YOL016C	CMK2	calmodulin-dependent protein kinase CMK2	chromosome 15	L000000367	15	296120	294777	C		2011-02-03	1996-07-31	Calmodulin-dependent protein kinase; may play a role in stress response, many CA++/calmodulan dependent phosphorylation substrates demonstrated in vitro, amino acid sequence similar to mammalian Cam Kinase II; CMK2 has a paralog, CMK1, that arose from the whole genome duplication
-S000032049	CDS					YOL016C		15	296120	294777	C		2011-02-03	1996-07-31	
-S000005375	ORF	Verified	YOL015W	IRC10		chromosome 15		15	297078	298838	W		2011-02-03	1996-07-31	Protein of unknown function; subunit of the leading edge protein (LEP) complex (Ssp1-Ady3-Don1-Irc10) that forms a ring-like structure at the leading edge of the prospore membrane during meiosis II; null mutant displays increased levels of spontaneous Rad52p foci
-S000032011	CDS					YOL015W		15	297078	298838	W		2011-02-03	1996-07-31	
-S000005374	ORF	Uncharacterized	YOL014W			chromosome 15		15	299693	300067	W		2011-02-03	1996-07-31	Putative protein of unknown function; mCherry fusion protein localizes to the cytosol and nucleus
-S000031065	CDS					YOL014W		15	299693	300067	W		2011-02-03	1996-07-31	
-S000007252	ORF	Dubious	YOL013W-B		YOL013W-A	chromosome 15		15	300690	300980	W		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the long terminal repeat (LTR) of a Ty1 element
-S000033838	CDS					YOL013W-B		15	300690	300980	W		2011-02-03	1999-07-17	
-S000007152	long_terminal_repeat		YOLCdelta8			chromosome 15		15	301021	300683	C		2011-02-03	2000-05-19	Ty1 LTR
-S000028811	ORF	Uncharacterized	YOL013W-A		YOL013W-B	chromosome 15		15	301047	301238	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by SAGE
-S000033611	CDS					YOL013W-A		15	301047	301238	W		2011-02-03	2003-07-29	
-S000006687	tRNA_gene		tP(UGG)O1			chromosome 15	L000003706	15	301097	301198	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
-S000031042	intron					tP(UGG)O1		15	301133	301162	W		2011-02-03	2000-05-19	
-S000031040	noncoding_exon					tP(UGG)O1		15	301097	301132	W		2011-02-03	2000-05-19	
-S000031041	noncoding_exon					tP(UGG)O1		15	301163	301198	W		2011-02-03	2000-05-19	
-S000005373	ORF	Verified	YOL013C	HRD1	E3 ubiquitin-protein ligase HRD1|DER3	chromosome 15	L000002963	15	303035	301380	C		2011-02-03	1996-07-31	Ubiquitin-protein ligase involved in ER-associated degradation (ERAD) of misfolded proteins; upon autoubiquitination triggers retrotranslocation of misfolded proteins to cytosol for degradation; genetically linked to the unfolded protein response (UPR); regulated through association with Hrd3p; contains an H2 ring finger; likely plays a general role in targeting proteins that persistently associate with and potentially obstruct the ER-localized translocon
-S000030928	CDS					YOL013C		15	303035	301380	C		2011-02-03	1996-07-31	
-S000005372	ORF	Verified	YOL012C	HTZ1	histone H2AZ|H2AZ|H2A.F/Z|HTA3	chromosome 15	L000003930|L000004094	15	303983	303579	C		2011-02-03	1996-07-31	Histone variant H2AZ; exchanged for histone H2A in nucleosomes by the SWR1 complex; involved in transcriptional regulation through prevention of the spread of silent heterochromatin; Htz1p-containing nucleosomes facilitate RNA Pol II passage by affecting correct assembly and modification status of RNA Pol II elongation complexes and by favoring efficient nucleosome remodeling
-S000030851	CDS					YOL012C		15	303983	303579	C		2011-02-03	1996-07-31	
-S000005371	ORF	Verified	YOL011W	PLB3	lysophospholipase	chromosome 15	S000007426	15	305349	307409	W		2011-02-03	1996-07-31	Phospholipase B (lysophospholipase) involved in lipid metabolism; hydrolyzes phosphatidylinositol and phosphatidylserine and displays transacylase activity in vitro; PLB3 has a paralog, PLB1, that arose from the whole genome duplication
-S000030818	CDS					YOL011W		15	305349	307409	W		2011-02-03	1996-07-31	
-S000005370	ORF	Verified	YOL010W	RCL1	rRNA-processing endoribonuclease	chromosome 15		15	307938	309041	W		2011-02-03	1996-07-31	Endonuclease that cleaves pre-rRNA at site A2 for 18S rRNA biogenesis; subunit of U3-containing 90S preribosome processome complex involved in small ribosomal subunit assembly; stimulates Bms1p GTPase and U3 binding activity; similar to RNA cyclase-like proteins but no cyclase activity detected
-S000037888	CDS					YOL010W		15	307938	309041	W		2011-02-03	1996-07-31	
-S000130135	ARS		ARS1512		ARSXV-309	chromosome 15		15	309359	309925			2011-02-03	2009-05-05	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
-S000005369	ORF	Verified	YOL009C	MDM12	ERMES complex subunit MDM12	chromosome 15	L000002933	15	310139	309324	C		2011-02-03	1996-07-31	Mitochondrial outer membrane protein, ERMES complex subunit; required for transmission of mitochondria to daughter cells; required for mitophagy; may influence import and assembly of outer membrane beta-barrel proteins; ERMES complex is often co-localized with peroxisomes and with concentrated areas of pyruvate dehydrogenase
-S000037008	CDS					YOL009C		15	310139	309324	C		2011-02-03	1996-07-31	
-S000005368	ORF	Verified	YOL008W	COQ10	ubiquinone-binding protein COQ10	chromosome 15		15	310312	310935	W		2011-02-03	1996-07-31	Coenzyme Q (ubiquinone) binding protein; functions in the delivery of Q6 to its proper location for electron transport during respiration; START domain protein with homologs in bacteria and eukaryotes; respiratory growth defect of the null mutant is functionally complemented by human COQ10A
-S000036984	CDS					YOL008W		15	310312	310935	W		2011-02-03	1996-07-31	
-S000005367	ORF	Verified	YOL007C	CSI2		chromosome 15	L000004387	15	312367	311342	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)- fusion protein localizes to the mother side of the bud neck and the vacuole; YOL007C is not an essential gene
-S000036219	CDS					YOL007C		15	312367	311342	C		2011-02-03	1996-07-31	
-S000005366	ORF	Verified	YOL006C	TOP1	DNA topoisomerase 1|MAK17|MAK1	chromosome 15	L000002319	15	315387	313078	C	3	2011-02-03	1996-07-31	Topoisomerase I; nuclear enzyme that relieves torsional strain in DNA by cleaving and re-sealing the phosphodiester backbone; relaxes both positively and negatively supercoiled DNA; functions in replication, transcription, and recombination; role in processing ribonucleoside monophosphates in genomic DNA into irreversible single-strand breaks; enzymatic activity and interaction with Nsr1p are negatively regulated by polyphosphorylation
-S000036071	CDS					YOL006C		15	315387	313078	C		2011-02-03	1996-07-31	
-S000005365	ORF	Verified	YOL005C	RPB11	DNA-directed RNA polymerase II core subunit RPB11|B12.5	chromosome 15	L000001685	15	316175	315813	C		2011-02-03	1996-07-31	RNA polymerase II subunit B12.5; part of central core; similar to Rpc19p and bacterial alpha subunit
-S000035928	CDS					YOL005C		15	316175	315813	C		2011-02-03	1996-07-31	
-S000005364	ORF	Verified	YOL004W	SIN3	transcriptional regulator SIN3|UME4|SDS16|SDI1|RPD1|GAM2|CPE1	chromosome 15	L000001695	15	316938	321548	W	1	2011-02-03	1996-07-31	Component of both the Rpd3S and Rpd3L histone deacetylase complexes; involved in transcriptional repression and activation of diverse processes, including mating-type switching and meiosis; involved in the maintenance of chromosomal integrity
-S000035863	CDS					YOL004W		15	316938	321548	W		2011-02-03	1996-07-31	
-S000005363	ORF	Verified	YOL003C	PFA4	palmitoyltransferase PFA4	chromosome 15		15	322994	321858	C		2011-02-03	1996-07-31	Palmitoyltransferase with autoacylation activity; required for palmitoylation of amino acid permeases containing a C-terminal Phe-Trp-Cys site; required for modification of Chs3p; member of the DHHC family of putative palmitoyltransferases
-S000034853	CDS					YOL003C		15	322994	321858	C		2011-02-03	1996-07-31	
-S000005362	ORF	Verified	YOL002C	IZH2	PAQR-type receptor|PHO36	chromosome 15		15	324364	323411	C		2011-02-03	2003-01-09|1996-07-31	Plasma membrane receptor for plant antifungal osmotin; involved in zinc ion homeostasis, apoptosis; negatively regulates ZRT1 and other functionally divergent genes through CCCTC promoter motif (IzRE); modulates FET3 activity in iron-independent manner; affects gene expression by influencing balance of competition between Msn2p/Msn4p and Nrg1p/Nrg2p for binding to IzRE; transcription regulated by Zap1p, zinc, fatty acid levels; homolog of mammalian adiponectin receptor
-S000034704	CDS					YOL002C		15	324364	323411	C		2011-02-03	2003-01-09|1996-07-31	
-S000005361	ORF	Verified	YOL001W	PHO80	phoR|VAC5|TUP7|AGS3	chromosome 15	L000001426	15	325249	326130	W	-1	2011-02-03	1996-07-31	Cyclin; interacts with cyclin-dependent kinase Pho85p; regulates the response to nutrient levels and environmental conditions, including the response to phosphate limitation and stress-dependent calcium signaling
-S000034656	CDS					YOL001W		15	325249	326130	W		2011-02-03	1996-07-31	
-S000006476	centromere		CEN15	CEN15		chromosome 15	L000000308	15	326702	326584	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome XV centromere
-S000077290	centromere_DNA_Element_I					CEN15		15	326702	326693	C		2011-02-03	2004-10-08	
-S000077291	centromere_DNA_Element_II					CEN15		15	326692	326609	C		2011-02-03	2004-10-08	
-S000077292	centromere_DNA_Element_III					CEN15		15	326608	326584	C		2011-02-03	2004-10-08	
-S000005527	ORF	Verified	YOR001W	RRP6	exosome nuclease subunit RRP6	chromosome 15	L000003540	15	326832	329033	W		2011-02-03	1996-07-31	Nuclear exosome exonuclease component; has 3'-5' exonuclease activity that is regulated by Lrp1p; involved in RNA processing, maturation, surveillance, degradation, tethering, and export; role in sn/snoRNAs precursor degradation; forms a stable heterodimer with Lrp1p; has similarity to E. coli RNase D and to human PM-Sc1 100 (EXOSC10); mutant displays reduced transcription elongation in the G-less-based
-S000031325	CDS					YOR001W		15	326832	329033	W		2011-02-03	1996-07-31	
-S000005528	ORF	Verified	YOR002W	ALG6	dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol alpha-1,3-glucosyltransferase	chromosome 15	L000003977	15	329417	331051	W		2011-02-03	1996-07-31	Alpha 1,3 glucosyltransferase; involved in transfer of oligosaccharides from dolichyl pyrophosphate to asparagine residues of proteins during N-linked protein glycosylation; C998T transition in human ortholog ALG6 causes carbohydrate-deficient glycoprotein syndrome type-Ic; wild-type human ortholog ALG6 can partially complement yeast alg6 mutant
-S000032338	CDS					YOR002W		15	329417	331051	W		2011-02-03	1996-07-31	
-S000005529	ORF	Verified	YOR003W	YSP3	putative subtilisin-like protease YSP3	chromosome 15	L000002552	15	331455	332891	W		2011-02-03	1996-07-31	Putative precursor of the subtilisin-like protease III; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; YSP3 has a paralog, PRB1, that arose from the whole genome duplication
-S000032469	CDS					YOR003W		15	331455	332891	W		2011-02-03	1996-07-31	
-S000005530	ORF	Verified	YOR004W	UTP23	rRNA-binding ribosome biosynthesis protein UTP23	chromosome 15		15	333592	334356	W		2011-02-03	1996-07-31	Component of the small subunit processome; involved in 40S ribosomal subunit biogenesis; interacts with snR30 and is required for dissociation of snR30 from large pre-ribosomal particles; has homology to PINc domain protein Fcf1p, although the PINc domain of Utp23p is not required for function; essential protein
-S000032573	CDS					YOR004W		15	333592	334356	W		2011-02-03	1996-07-31	
-S000005531	ORF	Verified	YOR005C	DNL4	DNA ligase (ATP) DNL4|LIG4	chromosome 15	L000003479	15	337343	334509	C		2011-02-03	1996-07-31	DNA ligase required for nonhomologous end-joining (NHEJ); forms stable heterodimer with required cofactor Lif1p, interacts with Nej1p; involved in meiosis, not essential for vegetative growth; mutations in human ortholog lead to ligase IV syndrome and Dubowitz syndrome
-S000032618	CDS					YOR005C		15	337343	334509	C		2011-02-03	1996-07-31	
-S000118489	ARS		ARS1513		ARSXV-337	chromosome 15		15	337424	337491			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000005532	ORF	Verified	YOR006C	TSR3		chromosome 15		15	338621	337680	C		2011-02-03	1996-07-31	Protein required for 20S pre-rRNA processing; involved in processing of the 20S pre-rRNA at site D to generate mature 18S rRNA; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus; relative distribution to the nucleus increases upon DNA replication stress
-S000033336	CDS					YOR006C		15	338621	337680	C		2011-02-03	1996-07-31	
-S000005533	ORF	Verified	YOR007C	SGT2		chromosome 15	L000004506	15	339978	338938	C		2011-02-03	1996-07-31	Glutamine-rich cytoplasmic cochaperone; serves as a scaffold bringing together Get4, Get5p, and other TRC complex members that are required to mediate posttranslational insertion of tail-anchored proteins into the ER membrane; interacts with the prion domain of Sup35p; amyloid sensor; plays a role in targeting chaperones to prion aggregates; similar to human cochaperone SGT; forms cytoplasmic foci upon DNA replication stress
-S000033384	CDS					YOR007C		15	339978	338938	C		2011-02-03	1996-07-31	
-S000006705	tRNA_gene		tR(ACG)O			chromosome 15	L000003718	15	340371	340299	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000030451	noncoding_exon					tR(ACG)O		15	340371	340299	C		2011-02-03	2000-05-19	
-S000007153	long_terminal_repeat		YORCdelta9		YOLCdelta9	chromosome 15		15	340898	340598	C		2011-02-03	2000-05-19	Ty1 LTR
-S000005534	ORF	Verified	YOR008C	SLG1	WSC1|HCS77	chromosome 15	L000003080	15	342414	341278	C		2011-02-03	1996-07-31	Sensor-transducer of the stress-activated PKC1-MPK1 kinase pathway; involved in maintenance of cell wall integrity; required for mitophagy; involved in organization of the actin cytoskeleton; secretory pathway Wsc1p is required for the arrest of secretion response
-S000033455	CDS					YOR008C		15	342414	341278	C		2011-02-03	1996-07-31	
-S000006431	ORF	Uncharacterized	YOR008C-A			chromosome 15	L000003931	15	343081	342857	C		2011-02-03	1999-07-17	Putative protein of unknown function; includes a potential transmembrane domain; deletion results in slightly lengthened telomeres; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000034860	CDS					YOR008C-A		15	343081	342857	C		2011-02-03	1999-07-17	
-S000007628	ORF	Dubious	YOR008W-B			chromosome 15		15	343929	344030	W		2006-01-05	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037258	CDS					YOR008W-B		15	343929	344030	W		2006-01-05	2001-02-26	
-S000005535	ORF	Verified	YOR009W	TIR4		chromosome 15		15	344335	345798	W		2006-01-05	1996-07-31	Cell wall mannoprotein; expressed under anaerobic conditions and required for anaerobic growth; transcription is also induced by cold shock; member of the Srp1p/Tip1p family of serine-alanine-rich proteins
-S000033574	CDS					YOR009W		15	344335	345798	W		2006-01-05	1996-07-31	
-S000005536	ORF	Verified	YOR010C	TIR2	putative GPI-anchored mannoprotein|SRP2	chromosome 15	L000002312	15	346950	346195	C		2006-01-05	1996-07-31	Putative cell wall mannoprotein; member of the Srp1p/Tip1p family of serine-alanine-rich proteins; transcription is induced by cold shock and anaerobiosis; TIR2 has a paralog, TIR3, that arose from the whole genome duplication
-S000034479	CDS					YOR010C		15	346950	346195	C		2006-01-05	1996-07-31	
-S000005537	ORF	Verified	YOR011W	AUS1	ATP-binding cassette sterol transporter AUS1	chromosome 15		15	349679	353863	W		2006-01-05	1996-07-31	Plasma membrane sterol transporter of the ATP-binding cassette family; required, along with Pdr11p, for uptake of exogenous sterols and their incorporation into the plasma membrane; activity is stimulated by phosphatidylserine; sterol uptake is required for anaerobic growth because sterol biosynthesis requires oxygen; AUS1 has a paralog, PDR11, that arose from the whole genome duplication
-S000035557	CDS					YOR011W		15	349679	353863	W		2006-01-05	1996-07-31	
-S000006747	tRNA_gene		tT(AGU)O2			chromosome 15	L000003717	15	354113	354041	C		2006-01-05	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000037535	noncoding_exon					tT(AGU)O2		15	354113	354041	C		2006-01-05	2000-05-19	
-S000007159	long_terminal_repeat		YORWsigma2		YOLWsigma2	chromosome 15		15	354128	354466	W		2006-01-05	2000-05-19	Ty3 LTR
-S000007157	long_terminal_repeat		YORWdelta10		YOLWdelta10	chromosome 15		15	354681	354958	W		2006-01-05	2000-05-19	Ty1 LTR
-S000028581	ORF	Uncharacterized	YOR011W-A			chromosome 15		15	355652	355858	W		2006-01-05	2003-07-29	Putative protein of unknown function
-S000031328	CDS					YOR011W-A		15	355652	355858	W		2006-01-05	2003-07-29	
-S000005538	ORF	Uncharacterized	YOR012W			chromosome 15		15	356543	356956	W		2006-01-05	1996-07-31	Putative protein of unknown function
-S000035636	CDS					YOR012W		15	356543	356956	W		2006-01-05	1996-07-31	
-S000005539	ORF	Dubious	YOR013W	IRC11		chromosome 15		15	356751	357221	W		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YOR012C; null mutant displays increased levels of spontaneous Rad52 foci
-S000035766	CDS					YOR013W		15	356751	357221	W		2006-01-05	1996-07-31	
-S000005540	ORF	Verified	YOR014W	RTS1	protein phosphatase 2A regulatory subunit RTS1|SCS1	chromosome 15	L000001786	15	357674	359947	W		2006-01-05	1996-07-31	B-type regulatory subunit of protein phosphatase 2A (PP2A); Rts1p and Cdc55p are alternative regulatory subunits for PP2A catalytic subunits, Pph21p and Pph22p; PP2A-Rts1p protects cohesin when recruited by Sgo1p to the pericentromere; highly enriched at centromeres in the absence of Cdc55p; required for maintenance of septin ring organization during cytokinesis, for ring disassembly in G1 and for dephosphorylation of septin, Shs1p; homolog of the mammalian B' subunit of PP2A
-S000036675	CDS					YOR014W		15	357674	359947	W		2006-01-05	1996-07-31	
-S000005541	ORF	Uncharacterized	YOR015W			chromosome 15		15	359993	360352	W		2006-01-05	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YOR015W is not an essential gene
-S000036735	CDS					YOR015W		15	359993	360352	W		2006-01-05	1996-07-31	
-S000005542	ORF	Verified	YOR016C	ERP4		chromosome 15	L000004681	15	361084	360461	C		2006-01-05	1996-07-31	Member of the p24 family involved in ER to Golgi transport; similar to Emp24p and Erv25p; ERP4 has a paralog, ERP2, that arose from the whole genome duplication
-S000036758	CDS					YOR016C		15	361084	360461	C		2006-01-05	1996-07-31	
-S000005543	ORF	Verified	YOR017W	PET127		chromosome 15	L000001399	15	361412	363814	W	5.5	2006-01-05	1996-07-31	Protein with a role in 5'-end processing of mitochondrial RNAs; located in the mitochondrial membrane
-S000036848	CDS					YOR017W		15	361412	363814	W		2006-01-05	1996-07-31	
-S000005544	ORF	Verified	YOR018W	ROD1	ART4	chromosome 15	L000003079	15	364369	366882	W		2006-01-05	1996-07-31	Alpha-arrestin involved in ubiquitin-dependent endocytosis; activating dephosphorylation relays glucose signaling to transporter endocytosis; calcineurin dephosphorylation is required for Rsp5p-dependent internalization of agonist-occupied Ste2p, as part of signal desensitization; recruits Rsp5p to Ste2p via its 2 PPXY motifs; protein abundance increases in response to DNA replication stress; ROD1 has a paralog, ROG3, that arose from the whole genome duplication
-S000037590	CDS					YOR018W		15	364369	366882	W		2006-01-05	1996-07-31	
-S000005545	ORF	Verified	YOR019W			chromosome 15		15	368127	370319	W		2006-01-05	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; YOR019W has a paralog, JIP4, that arose from the whole genome duplication
-S000037647	CDS					YOR019W		15	368127	370319	W		2006-01-05	1996-07-31	
-S000005546	ORF	Verified	YOR020C	HSP10	CPN10	chromosome 15	L000000815	15	370844	370524	C		2006-01-05	1996-07-31	Mitochondrial matrix co-chaperonin; inhibits the ATPase activity of Hsp60p, a mitochondrial chaperonin; involved in protein folding and sorting in the mitochondria; 10 kD heat shock protein with similarity to E. coli groES
-S000037650	CDS					YOR020C		15	370844	370524	C		2006-01-05	1996-07-31	
-S000028526	ORF	Uncharacterized	YOR020W-A			chromosome 15		15	371685	371957	W		2006-01-05	2003-07-29	Putative protein of unknown function; conserved in A. gossypii; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000030330	CDS					YOR020W-A		15	371685	371957	W		2006-01-05	2003-07-29	
-S000005547	ORF	Verified	YOR021C	SFM1	protein-arginine N-methyltransferase SFM1	chromosome 15		15	373439	372798	C		2006-01-05	1996-07-31	SPOUT methyltransferase; catalyzes omega-monomethylation of Rps3p on Arg-146; not an essential gene; predicted to be involved in rRNA processing and ribosome biogenesis and in biopolymer catabolism
-S000030445	CDS					YOR021C		15	373439	372798	C		2006-01-05	1996-07-31	
-S000005548	ORF	Verified	YOR022C	DDL1	putative carboxylic ester hydrolase	chromosome 15		15	375857	373710	C		2006-01-05	1996-07-31	DDHD domain-containing phospholipase A1; mitochondrial matrix enzyme with sn-1-specific activity, hydrolyzing cardiolipin, PE, PC, PG and PA; implicated in remodeling of mitochondrial phospholipids; antagonistically regulated by Aft1p and Aft2p; in humans, mutations in DDHD1 and DDHD2 genes cause specific types of hereditary spastic paraplegia, while DDL1-defective yeast share similar phenotypes such as mitochondrial dysfunction and defects in lipid metabolism
-S000030587	CDS					YOR022C		15	375857	373710	C		2006-01-05	1996-07-31	
-S000005549	ORF	Verified	YOR023C	AHC1		chromosome 15		15	377712	376012	C		2006-01-05	1996-07-31	Subunit of the Ada histone acetyltransferase complex; required for structural integrity of the complex; Ahc2p and Ahc1p are unique to the ADA complex and not shared with the related SAGA and SLIK complexes; Ahc2p may tether Ahc1p to the complex
-S000030673	CDS					YOR023C		15	377712	376012	C		2006-01-05	1996-07-31	
-S000005550	ORF	Dubious	YOR024W		IRC12	chromosome 15		15	377847	378170	W		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031578	CDS					YOR024W		15	377847	378170	W		2006-01-05	1996-07-31	
-S000005551	ORF	Verified	YOR025W	HST3	NAD-dependent histone deacetylase HST3	chromosome 15	L000003042	15	378219	379562	W		2006-01-05	1996-07-31	Member of the Sir2 family of NAD(+)-dependent protein deacetylases; involved along with Hst4p in telomeric silencing, cell cycle progression, radiation resistance, genomic stability and short-chain fatty acid metabolism
-S000031696	CDS					YOR025W		15	378219	379562	W		2006-01-05	1996-07-31	
-S000005552	ORF	Verified	YOR026W	BUB3	PAC9	chromosome 15	L000000198	15	379781	380806	W		2006-01-05	1996-07-31	Kinetochore checkpoint WD40 repeat protein; localizes to kinetochores during prophase and metaphase, delays anaphase in the presence of unattached kinetochores; forms complexes with Mad1p-Bub1p and with Cdc20p, binds Mad2p and Mad3p; functions at kinetochore to activate APC/C-Cdc20p for normal mitotic progression
-S000031797	CDS					YOR026W		15	379781	380806	W		2006-01-05	1996-07-31	
-S000005553	ORF	Verified	YOR027W	STI1	Hsp90 cochaperone STI1	chromosome 15	L000002129	15	381053	382822	W		2006-01-05	1996-07-31	Hsp90 cochaperone; regulates spatial organization of amyloid-like proteins in the cytosol, thereby buffering the proteotoxicity caused by amyloid-like proteins; interacts with the Ssa group of the cytosolic Hsp70 chaperones and activates Ssa1p ATPase activity; interacts with Hsp90 chaperones and inhibits their ATPase activity; homolog of mammalian Hop
-S000031906	CDS					YOR027W		15	381053	382822	W		2006-01-05	1996-07-31	
-S000005554	ORF	Verified	YOR028C	CIN5	YAP4|HAL6	chromosome 15	L000000339|L000004263	15	384420	383533	C		2006-01-05	1996-07-31	Basic leucine zipper (bZIP) transcription factor of the yAP-1 family; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; mediates pleiotropic drug resistance and salt tolerance; nuclearly localized under oxidative stress and sequestered in the cytoplasm by Lot6p under reducing conditions; CIN5 has a paralog, YAP6, that arose from the whole genome duplication
-S000032760	CDS					YOR028C		15	384420	383533	C		2006-01-05	1996-07-31	
-S000005555	ORF	Uncharacterized	YOR029W			chromosome 15		15	384600	384935	W		2006-01-05	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YOR029W is not an essential gene
-S000032920	CDS					YOR029W		15	384600	384935	W		2006-01-05	1996-07-31	
-S000005556	ORF	Verified	YOR030W	DFG16	ZRG12|ECM41	chromosome 15	L000003877	15	386825	388684	W		2006-01-05	1996-07-31	Probable multiple transmembrane protein; involved in diploid invasive and pseudohyphal growth upon nitrogen starvation; is glycosylated and phosphorylated; interacts with Rim21p and Rim9p in the plasma membrane to form a pH-sensing complex in the Rim101 pathway and is required to maintain Rim21p levels; required for accumulation of processed Rim101p
-S000033591	CDS					YOR030W		15	386825	388684	W		2006-01-05	1996-07-31	
-S000005557	blocked_reading_frame		YOR031W	CRS5	metallothionein CRS5	chromosome 15	L000000421	15	389213	389422	W		2006-01-05	1996-07-31	Copper-binding metallothionein; required for wild-type copper resistance
-S000033679	CDS					YOR031W		15	389213	389422	W		2006-01-05	1996-07-31	
-S000005558	ORF	Verified	YOR032C	HMS1		chromosome 15	L000004441	15	391075	389771	C		2006-01-05	1996-07-31	bHLH protein with similarity to myc-family transcription factors; overexpression confers hyperfilamentous growth and suppresses the pseudohyphal filamentation defect of a diploid mep1 mep2 homozygous null mutant
-S000033735	CDS					YOR032C		15	391075	389771	C		2006-01-05	1996-07-31	
-S000028710	ORF	Uncharacterized	YOR032W-A			chromosome 15		15	392176	392376	W		2006-01-05	2003-07-29	Protein of unknown function; SWAT-GFP and seamless-GFP fusion proteins localize to the endoplasmic reticulum; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032675	CDS					YOR032W-A		15	392176	392376	W		2006-01-05	2003-07-29	
-S000005559	ORF	Verified	YOR033C	EXO1	Rad2 family nuclease EXO1|DHS1	chromosome 15	L000000505|L000003929	15	394524	392416	C		2006-01-05	1996-07-31	5'-3' exonuclease and flap-endonuclease; involved in recombination, double-strand break repair, MMS2 error-free branch of the post replication (PRR) pathway and DNA mismatch repair; role in telomere maintenance; member of the Rad2p nuclease family, with conserved N and I nuclease domains; relative distribution to the nucleus increases upon DNA replication stress; EXO1 has a paralog, DIN7, that arose from the whole genome duplication
-S000034621	CDS					YOR033C		15	394524	392416	C		2006-01-05	1996-07-31	
-S000005560	ORF	Verified	YOR034C	AKR2	putative palmitoyltransferase AKR2	chromosome 15	L000004052	15	397086	394837	C		2006-01-05	1996-07-31	Ankyrin repeat-containing protein; member of a family of putative palmitoyltransferases containing an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; possibly involved in constitutive endocytosis of Ste3p; AKR2 has a paralog, AKR1, that arose from the whole genome duplication
-S000034777	CDS					YOR034C		15	397086	394837	C		2006-01-05	1996-07-31	
-S000028856	ORF	Uncharacterized	YOR034C-A			chromosome 15		15	397668	397426	C		2006-01-05	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034569	CDS					YOR034C-A		15	397668	397426	C		2006-01-05	2003-07-29	
-S000005561	ORF	Verified	YOR035C	SHE4	DIM1	chromosome 15	L000004572	15	400104	397735	C		2006-01-05	1996-07-31	Protein containing a UCS (UNC-45/CRO1/SHE4) domain; binds to myosin motor domains to regulate myosin function; involved in endocytosis, polarization of the actin cytoskeleton, and asymmetric mRNA localization
-S000034897	CDS					YOR035C		15	400104	397735	C		2006-01-05	1996-07-31	
-S000005562	ORF	Verified	YOR036W	PEP12	SNAP receptor PEP12|VPT13|VPS6|VPL6	chromosome 15	L000001379	15	400348	401214	W	-5	2006-01-05	1996-07-31	Target membrane receptor (t-SNARE); for vesicular intermediates traveling between the Golgi apparatus and the vacuole; controls entry of biosynthetic, endocytic, and retrograde traffic into the prevacuolar compartment; syntaxin
-S000035899	CDS					YOR036W		15	400348	401214	W		2006-01-05	1996-07-31	
-S000005563	ORF	Verified	YOR037W	CYC2	oxidoreductase	chromosome 15	L000000449	15	401555	402655	W	12	2006-01-05	2003-09-22|1996-07-31	Mitochondrial peripheral inner membrane protein; contains a FAD cofactor in a domain exposed in the intermembrane space; exhibits redox activity in vitro; likely participates in ligation of heme to acytochromes c and c1 (Cyc1p and Cyt1p)
-S000036064	CDS					YOR037W		15	401555	402655	W		2006-01-05	2003-09-22|1996-07-31	
-S000005564	ORF	Verified	YOR038C	HIR2	SPT1	chromosome 15	L000000777	15	405388	402761	C		2006-01-05	1996-07-31	Subunit of HIR nucleosome assembly complex; involved in regulation of histone gene transcription; recruits Swi-Snf complexes to histone gene promoters; promotes heterochromatic gene silencing with Asf1p; relocalizes to the cytosol in response to hypoxia
-S000036118	CDS					YOR038C		15	405388	402761	C		2006-01-05	1996-07-31	
-S000005565	ORF	Verified	YOR039W	CKB2	casein kinase 2 regulatory subunit CKB2	chromosome 15	L000000345	15	405768	406544	W		2006-01-05	1996-07-31	Beta' regulatory subunit of casein kinase 2 (CK2); a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerase
-S000036946	CDS					YOR039W		15	405768	406544	W		2006-01-05	1996-07-31	
-S000005566	ORF	Verified	YOR040W	GLO4	hydroxyacylglutathione hydrolase GLO4	chromosome 15	L000003489	15	407064	407921	W		2006-01-05	1996-07-31	Mitochondrial glyoxalase II; catalyzes the hydrolysis of S-D-lactoylglutathione into glutathione and D-lactate; GLO4 has a paralog, GLO2, that arose from the whole genome duplication
-S000037742	CDS					YOR040W		15	407064	407921	W		2006-01-05	1996-07-31	
-S000007292	snoRNA_gene		snR9	SNR9		chromosome 15	L000001964	15	408134	407948	C		2006-01-05	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2340 and U2345
-S000034330	noncoding_exon					snR9		15	408134	407948	C		2006-01-05	2000-05-19	
-S000005568	ORF	Verified	YOR042W	CUE5	ubiquitin-binding protein CUE5	chromosome 15		15	408425	409660	W		2006-01-05	1996-07-31	Ubiquitin-binding protein; functions as ubiquitin-Atg8p adaptor in ubiquitin-dependent autophagy; serves as proteaphagy receptor for inactivated 26S proteasomes; contains CUE domain that binds ubiquitin, which may facilitate intramolecular monoubiquitination; CUE5 has a paralog, DON1, that arose from the whole genome duplication; human TOLLIP is a functional CUE-domain homolog, can complement yeast null mutant, rescuing hypersensitivity of cue5 null mutant cells to Htt-96Q
-S000029840	CDS					YOR042W		15	408425	409660	W		2006-01-05	1996-07-31	
-S000005567	ORF	Dubious	YOR041C		SRF5	chromosome 15		15	408789	408358	C		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 85% of ORF overlaps the uncharacterized gene CUE5; deletion in cyr1 mutant results in loss of stress resistance
-S000037769	CDS					YOR041C		15	408789	408358	C		2006-01-05	1996-07-31	
-S000006453	snoRNA_gene		snR62	SNR62		chromosome 15	L000004531	15	409864	409765	C		2006-01-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U1888
-S000030839	noncoding_exon					snR62		15	409864	409765	C		2006-01-05	2000-05-19	
-S000005569	ORF	Verified	YOR043W	WHI2		chromosome 15	L000002485	15	410870	412330	W	9	2006-01-05	1996-07-31	Protein required for full activation of the general stress response; required with binding partner Psr1p, possibly through Msn2p dephosphorylation; regulates growth during the diauxic shift; negative regulator of G1 cyclin expression; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cell periphery
-S000030841	CDS					YOR043W		15	410870	412330	W		2006-01-05	1996-07-31	
-S000005570	ORF	Verified	YOR044W	IRC23		chromosome 15		15	413007	413480	W		2006-01-05	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion localizes to the ER; null mutant displays increased levels of spontaneous Rad52p foci; IRC23 has a paralog, BSC2, that arose from the whole genome duplication
-S000030924	CDS					YOR044W		15	413007	413480	W		2006-01-05	1996-07-31	
-S000005571	ORF	Verified	YOR045W	TOM6	MOM8B|ISP6	chromosome 15	L000000877	15	413852	414037	W		2006-01-05	1996-07-31	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import steps for all mitochondrially directed proteins; promotes assembly and stability of the TOM complex
-S000030996	CDS					YOR045W		15	413852	414037	W		2006-01-05	1996-07-31	
-S000005572	ORF	Verified	YOR046C	DBP5	ATP-dependent RNA helicase DBP5|RAT8	chromosome 15	L000003292	15	415907	414459	C		2011-02-03	1996-07-31	Cytoplasmic ATP-dependent RNA helicase of the DEAD-box family; involved in mRNA export from the nucleus, remodeling messenger ribonucleoprotein particles (mRNPs), with ATPase activity stimulated by Gle1p, IP6 and Nup159p; involved in translation termination along with Sup45p (eRF1); role in the cellular response to heat stress
-S000031032	CDS					YOR046C		15	415907	414459	C		2011-02-03	1996-07-31	
-S000005573	ORF	Verified	YOR047C	STD1	SFS3|MSN3	chromosome 15	L000002111	15	417681	416347	C		2011-02-03	1996-07-31	Protein involved in control of glucose-regulated gene expression; interacts with kinase Snf1p, glucose sensors Snf3p and Rgt2p, TATA-binding Spt15p; regulator of transcription factor Rgt1p; interactions with Pma1p appear to propagate [GAR+]; STD1 has a paralog, MTH1, that arose from the whole genome duplication
-S000032001	CDS					YOR047C		15	417681	416347	C		2011-02-03	1996-07-31	
-S000005574	ORF	Verified	YOR048C	RAT1	ssRNA exonuclease RAT1|XRN2|TAP1|HKE1	chromosome 15	L000001584	15	421650	418630	C	17.1	2011-02-03	1996-07-31	Nuclear 5' to 3' single-stranded RNA exonuclease; involved in RNA metabolism, including rRNA and snoRNA processing, as well as poly (A+) dependent and independent mRNA transcription termination; required for cotranscriptional pre-rRNA cleavage; displaces Cdk1p from elongating transcripts, especially as RNAPII reaches the poly(A) site, negatively regulates phosphorylation of the CTD of RNAPII, and inhibits RNAPII transcriptional elongation
-S000032091	CDS					YOR048C		15	421650	418630	C		2011-02-03	1996-07-31	
-S000005575	ORF	Verified	YOR049C	RSB1	phospholipid-translocating ATPase RSB1	chromosome 15		15	423732	422668	C		2011-02-03	1996-07-31	Putative sphingoid long-chain base (LCB) efflux transporter; integral membrane transporter that localizes to the plasma membrane and may transport long chain bases (LCBs) from the cytoplasmic side toward the extracytoplasmic side of the membrane; role in glycerophospholipid translocation; suppressor of the sphingoid LCB sensitivity of an LCB-lyase mutation
-S000032150	CDS					YOR049C		15	423732	422668	C		2011-02-03	1996-07-31	
-S000005576	ORF	Dubious	YOR050C		YOR29-01	chromosome 15		15	424617	424270	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant is viable
-S000033916	CDS					YOR050C		15	424617	424270	C		2011-02-03	1996-07-31	
-S000005577	ORF	Verified	YOR051C	ETT1	NRO1|YOR29-02	chromosome 15		15	426084	424846	C		2011-02-03	1996-07-31	Nuclear protein that inhibits replication of Brome mosaic virus; S. cerevisiae is a model system for studying replication of positive-strand RNA viruses in their natural hosts; deletion increases stop codon readthrough
-S000034062	CDS					YOR051C		15	426084	424846	C		2011-02-03	1996-07-31	
-S000005578	ORF	Verified	YOR052C	TMC1	YOR29-03	chromosome 15		15	427224	426772	C		2011-02-03	1996-07-31	AN1-type zinc finger protein, effector of proteotoxic stress response; stress-inducible transcriptional target of Rpn4p; induced by nitrogen limitation, weak acid, misfolded proteins; short-lived protein, degraded by proteasome; may protect cells from trivalent metalloid induced proteotoxicity; contains PACE promoter element; ortholog of human AIRAP, which stimulates proteasome activity in response to arsenic; protein abundance increases under DNA replication stress
-S000034154	CDS					YOR052C		15	427224	426772	C		2011-02-03	1996-07-31	
-S000005579	ORF	Dubious	YOR053W		YOR29-04	chromosome 15		15	427817	428158	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene VHS3/YOR054C
-S000035170	CDS					YOR053W		15	427817	428158	W		2011-02-03	1996-07-31	
-S000005581	ORF	Dubious	YOR055W		YOR29-06	chromosome 15		15	429478	429912	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035354	CDS					YOR055W		15	429478	429912	W		2011-02-03	1996-07-31	
-S000005580	ORF	Verified	YOR054C	VHS3	phosphopantothenoylcysteine decarboxylase complex subunit VHS3|YOR29-05	chromosome 15		15	429857	427833	C		2011-02-03	1996-07-31	Negative regulatory subunit of protein phosphatase 1 Ppz1p; involved in coenzyme A biosynthesis; subunit of the phosphopantothenoylcysteine decarboxylase (PPCDC; Cab3p, Sis2p, Vhs3p) complex and the CoA-Synthesizing Protein Complex (CoA-SPC: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p)
-S000035210	CDS					YOR054C		15	429857	427833	C		2011-02-03	1996-07-31	
-S000005582	ORF	Verified	YOR056C	NOB1	rRNA-binding endoribonuclease|YOR29-07	chromosome 15		15	431626	430247	C		2011-02-03	1996-07-31	Protein involved in proteasomal and 40S ribosomal subunit biogenesis; required for cleavage of the 20S pre-rRNA to generate the mature 18S rRNA; cleavage is activated by Fun12p, a GTPase and translation initiation factor; relocalizes from nucleus to nucleolus upon DNA replication stress
-S000035381	CDS					YOR056C		15	431626	430247	C		2011-02-03	1996-07-31	
-S000005583	ORF	Verified	YOR057W	SGT1	co-chaperone SGT1|YOR29-08	chromosome 15	L000003443|L000004087	15	432186	433373	W		2011-02-03	1996-07-31	Cochaperone protein; regulates activity of adenylyl cyclase Cyr1p; involved in kinetochore complex assembly; associates with the SCF (Skp1p/Cdc53p/F box protein) ubiquitin ligase complex; acts as a linker between Skp1p and HSP90 complexes; protein abundance increases in response to DNA replication stress
-S000036316	CDS					YOR057W		15	432186	433373	W		2011-02-03	1996-07-31	
-S000005584	ORF	Verified	YOR058C	ASE1	YOR29-09	chromosome 15	L000000125	15	436345	433688	C		2011-02-03	1996-07-31	Mitotic spindle midzone-localized microtubule bundling protein; microtubule-associated protein (MAP) family member; required for spindle elongation and stabilization; undergoes cell cycle-regulated degradation by anaphase promoting complex; potential Cdc28p substrate; relative distribution to microtubules decreases upon DNA replication stress
-S000036352	CDS					YOR058C		15	436345	433688	C		2011-02-03	1996-07-31	
-S000007162	long_terminal_repeat		YORCdelta11			chromosome 15		15	438483	438175	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006634	tRNA_gene		tK(UUU)O			chromosome 15	L000003707	15	438643	438738	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034218	intron					tK(UUU)O		15	438680	438702	W		2011-02-03	2000-05-19	
-S000034216	noncoding_exon					tK(UUU)O		15	438643	438679	W		2011-02-03	2000-05-19	
-S000034217	noncoding_exon					tK(UUU)O		15	438703	438738	W		2011-02-03	2000-05-19	
-S000005585	ORF	Verified	YOR059C	LPL1	putative hydrolase|YOR29-10	chromosome 15		15	440258	438906	C		2011-02-03	1996-07-31	Phospholipase; contains lipase specific GXSXG motif; maintains lipid droplet (LD) morphology; induced by transcription factor Rpn4p; protein abundance increases in response to DNA replication stress
-S000036452	CDS					YOR059C		15	440258	438906	C		2011-02-03	1996-07-31	
-S000005586	ORF	Verified	YOR060C	SLD7	YOR29-11	chromosome 15		15	441163	440390	C		2011-02-03	1996-07-31	Protein with a role in chromosomal DNA replication; interacts with Sld3p and reduces its affinity for Cdc45p; deletion mutant has aberrant mitochondria
-S000037458	CDS					YOR060C		15	441163	440390	C		2011-02-03	1996-07-31	
-S000005587	ORF	Verified	YOR061W	CKA2	casein kinase 2 catalytic subunit CKA2|YOR29-12	chromosome 15	L000000344	15	441534	442553	W		2011-02-03	1996-07-31	Alpha' catalytic subunit of casein kinase 2 (CK2); CK2 is a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerases; protein abundance increases in response to DNA replication stress; regulates Fkh1p-mediated donor preference during mating-type switching
-S000037585	CDS					YOR061W		15	441534	442553	W		2011-02-03	1996-07-31	
-S000005588	ORF	Uncharacterized	YOR062C		YOR29-13	chromosome 15		15	443531	442725	C		2011-02-03	1996-07-31	Protein of unknown function; similar to Reg1p; expression regulated by glucose and Rgt1p; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; YOR062C has a paralog, YKR075C, that arose from the whole genome duplication
-S000037610	CDS					YOR062C		15	443531	442725	C		2011-02-03	1996-07-31	
-S000005589	ORF	Verified	YOR063W	RPL3	uL3|ribosomal 60S subunit protein L3|rp1|YL1|L3|YOR29-14|TCM1|MAK8	chromosome 15		15	444686	445849	W	22	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L3; homologous to mammalian ribosomal protein L3 and bacterial L3; plays an important role in function of eIF5B in stimulating 3' end processing of 18S rRNA in context of 80S ribosomes that have not yet engaged in translation; involved in replication and maintenance of killer double stranded RNA virus
-S000030496	CDS					YOR063W		15	444686	445849	W		2011-02-03	1996-07-31	
-S000005590	ORF	Verified	YOR064C	YNG1	YOR29-15	chromosome 15	S000007517	15	446738	446079	C		2011-02-03	1996-07-31	Subunit of the NuA3 histone acetyltransferase complex; this complex acetylates histone H3; contains PHD finger domain that interacts with methylated histone H3; shares significant sequence identity with the human candidate tumor suppressor p33-ING1 in C-terminal region
-S000030526	CDS					YOR064C		15	446738	446079	C		2011-02-03	1996-07-31	
-S000005591	ORF	Verified	YOR065W	CYT1	ubiquinol--cytochrome-c reductase catalytic subunit CYT1|YOR29-16|CTC1	chromosome 15	L000000472	15	447439	448368	W		2011-02-03	1996-07-31	Cytochrome c1; component of the mitochondrial respiratory chain; expression is regulated by the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex
-S000030648	CDS					YOR065W		15	447439	448368	W		2011-02-03	1996-07-31	
-S000005592	ORF	Verified	YOR066W	MSA1	YOR29-17	chromosome 15		15	449436	451325	W		2011-02-03	1996-07-31	Activator of G1-specific transcription factors MBF and SBF; involved in regulation of the timing of G1-specific gene transcription and cell cycle initiation; localization is cell-cycle dependent and regulated by Cdc28p phosphorylation; MSA1 has a paralog, MSA2, that arose from the whole genome duplication
-S000030728	CDS					YOR066W		15	449436	451325	W		2011-02-03	1996-07-31	
-S000005593	ORF	Verified	YOR067C	ALG8	dolichyl-P-Glc:Glc1Man(9)GlcNAc(2)-PP-dolichol alpha-1,3-glucosyltransferase|YOR29-18	chromosome 15	L000000079	15	453462	451729	C		2011-02-03	1996-07-31	Glucosyl transferase; involved in N-linked glycosylation; adds glucose to the dolichol-linked oligosaccharide precursor prior to transfer to protein during lipid-linked oligosaccharide biosynthesis; similar to Alg6p; human homolog ALG8 can complement yeast null mutant
-S000030756	CDS					YOR067C		15	453462	451729	C		2011-02-03	1996-07-31	
-S000005595	ORF	Verified	YOR069W	VPS5	sorting nexin 1|YOR29-20|VPT5|PEP10|GRD2	chromosome 15	L000002920	15	453768	455795	W		2011-02-03	2004-04-21|1996-07-31	Nexin-1 homolog; required for localizing membrane proteins from a prevacuolar/late endosomal compartment back to late Golgi; structural component of retromer membrane coat complex; forms a retromer subcomplex with Vps17p; required for recruiting the retromer complex to the endosome membranes; VPS5 has a paralog, YKR078W, that arose from the whole genome duplication
-S000031779	CDS					YOR069W		15	453768	455795	W		2011-02-03	2004-04-21|1996-07-31	
-S000005594	ORF	Verified	YOR068C	VAM10	YOR29-19	chromosome 15		15	454213	453869	C		2011-02-03	1996-07-31	Protein involved in vacuole morphogenesis; acts at an early step of homotypic vacuole fusion that is required for vacuole tethering
-S000031602	CDS					YOR068C		15	454213	453869	C		2011-02-03	1996-07-31	
-S000005596	ORF	Verified	YOR070C	GYP1	YOR29-21	chromosome 15	L000004377	15	457820	455907	C		2011-02-03	1996-07-31	Cis-golgi GTPase-activating protein (GAP) for yeast Rabs; the Rab family members are Ypt1p (in vivo) and for Ypt1p, Sec4p, Ypt7p, and Ypt51p (in vitro); involved in vesicle docking and fusion
-S000033733	CDS					YOR070C		15	457820	455907	C		2011-02-03	1996-07-31	
-S000005597	ORF	Verified	YOR071C	NRT1	nicotinamide riboside transporter|THI71|YOR29-22	chromosome 15		15	461276	459480	C		2011-02-03	1996-07-31	High-affinity nicotinamide riboside transporter; also transports thiamine with low affinity; major transporter for 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranoside (acadesine) uptake; shares sequence similarity with Thi7p and Thi72p; proposed to be involved in 5-fluorocytosine sensitivity
-S000033867	CDS					YOR071C		15	461276	459480	C		2011-02-03	1996-07-31	
-S000005598	ORF	Dubious	YOR072W		YOR29-23	chromosome 15		15	461502	461816	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious gene YOR072W-A; diploid deletion strains are methotrexate, paraquat and wortmannin sensitive
-S000034814	CDS					YOR072W		15	461502	461816	W		2011-02-03	1996-07-31	
-S000028582	ORF	Dubious	YOR072W-A			chromosome 15		15	461791	462039	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOR072W; originally identified by fungal homology and RT-PCR
-S000031329	CDS					YOR072W-A		15	461791	462039	W		2011-02-03	2003-07-29	
-S000006688	tRNA_gene		tP(UGG)O2	SUF11		chromosome 15	L000002159|L000003708	15	464450	464551	W	30	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin; can mutate to suppress +1 frameshift mutations in proline codons
-S000031047	intron					tP(UGG)O2		15	464486	464515	W		2011-02-03	2000-05-19	
-S000031045	noncoding_exon					tP(UGG)O2		15	464450	464485	W		2011-02-03	2000-05-19	
-S000031046	noncoding_exon					tP(UGG)O2		15	464516	464551	W		2011-02-03	2000-05-19	
-S000028516	ORF	Uncharacterized	YOR072W-B			chromosome 15		15	464469	464630	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000030289	CDS					YOR072W-B		15	464469	464630	W		2011-02-03	2003-07-29	
-S000005599	ORF	Verified	YOR073W	SGO1	YOR29-24	chromosome 15		15	464771	466543	W		2011-02-03	1996-07-31	Component of the spindle checkpoint; involved in sensing lack of tension on mitotic chromosomes; protects centromeric Rec8p at meiosis I; required for accurate chromosomal segregation at meiosis II and for mitotic chromosome stability; recruits condensin to the pericentric region of chromosomes during meiosis; dissociates from pericentromeres when sister kinetochores are under tension
-S000034945	CDS					YOR073W		15	464771	466543	W		2011-02-03	1996-07-31	
-S000028583	ORF	Dubious	YOR073W-A			chromosome 15		15	467390	467623	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially/completely overlaps the verified ORF CDC21/YOR074C; identified by RT-PCR
-S000031330	CDS					YOR073W-A		15	467390	467623	W		2011-02-03	2003-07-29	
-S000005600	ORF	Verified	YOR074C	CDC21	thymidylate synthase|YOR29-25|TMP1|CRT9	chromosome 15	L000000260	15	467589	466675	C	32	2011-02-03	1996-07-31|2005-12-01	Thymidylate synthase; required for de novo biosynthesis of pyrimidine deoxyribonucleotides; expression is induced at G1/S; human homolog TYMSOS can complement yeast cdc21 temperature-sensitive mutant at restrictive temperature
-S000034991	CDS					YOR074C		15	467589	466675	C		2011-02-03	1996-07-31|2005-12-01	
-S000005601	ORF	Verified	YOR075W	UFE1	YOR29-26	chromosome 15	L000002637	15	468212	469252	W		2011-02-03	1996-07-31	t-SNARE protein required for retrograde vesicular traffic; involved in Sey1p-independent homotypic ER fusion; required for efficient nuclear fusion during mating; forms a complex with the SNAREs Sec22p, Sec20p and Use1p to mediate fusion of Golgi-derived vesicles at the ER
-S000035197	CDS					YOR075W		15	468212	469252	W		2011-02-03	1996-07-31	
-S000005602	ORF	Verified	YOR076C	SKI7	YOR29-27	chromosome 15		15	471620	469377	C		2011-02-03	1996-07-31	GTP-binding protein that couples the Ski complex and exosome; putative pseudo-translational GTPase involved in 3'-to-5' mRNA decay pathway; interacts with both the cytoplasmic exosome and the Ski complex; eRF3-like domain targets nonstop mRNA for degradation; null mutants have a superkiller phenotype; SKI7 has a paralog, HBS1, that arose from the whole genome duplication
-S000036014	CDS					YOR076C		15	471620	469377	C		2011-02-03	1996-07-31	
-S000005603	ORF	Verified	YOR077W	RTS2	YOR29-28	chromosome 15	L000001787	15	471899	472597	W		2011-02-03	1996-07-31	Basic zinc-finger protein; similar to human and mouse Kin17 proteins which are chromatin-associated proteins involved in UV response and DNA replication
-S000036174	CDS					YOR077W		15	471899	472597	W		2011-02-03	1996-07-31	
-S000005604	ORF	Verified	YOR078W	BUD21	YOR29-29|UTP16	chromosome 15		15	472725	473369	W		2011-02-03	1996-07-31	Component of small ribosomal subunit (SSU) processosome; this complex contains U3 snoRNA; required at post-transcriptional step for efficient retrotransposition; absence results in decreased Ty1 Gag:GFP protein levels; originally isolated as bud-site selection mutant that displays a random budding pattern
-S000036267	CDS					YOR078W		15	472725	473369	W		2011-02-03	1996-07-31	
-S000005605	ORF	Verified	YOR079C	ATX2	Mn(2+) transporter ATX2|YOR29-30	chromosome 15	L000003290	15	474416	473475	C		2011-02-03	1996-07-31	Golgi membrane protein involved in manganese homeostasis; overproduction suppresses the sod1 (copper, zinc superoxide dismutase) null mutation
-S000036294	CDS					YOR079C		15	474416	473475	C		2011-02-03	1996-07-31	
-S000005606	ORF	Verified	YOR080W	DIA2	DNA-binding SCF ubiquitin ligase subunit DIA2|YOR29-31	chromosome 15		15	474594	476792	W		2011-02-03	1996-07-31|2010-01-05	Origin-binding F-box protein; forms SCF ubiquitin ligase complex with Skp1p and Cdc53p; functions in ubiquitination of silent chromatin structural protein Sir4p; required to target Cdc6p for destruction during G1 phase; required for deactivation of Rad53 checkpoint kinase, completion of DNA replication during recovery from DNA damage, assembly of RSC complex, RSC-mediated transcription regulation, and nucleosome positioning; involved in invasive and pseudohyphal growth
-S000035995	CDS					YOR080W		15	474594	476792	W		2011-02-03	1996-07-31|2010-01-05	
-S000005607	ORF	Verified	YOR081C	TGL5	STC2	chromosome 15		15	479188	476939	C		2011-02-03	1996-07-31	Bifunctional triacylglycerol lipase and LPA acyltransferase; lipid particle-localized triacylglycerol (TAG) lipase involved in triacylglycerol mobilization; catalyzes acylation of lysophosphatidic acid (LPA); potential Cdc28p substrate; TGL5 has a paralog, TGL4, that arose from the whole genome duplication
-S000037799	CDS					YOR081C		15	479188	476939	C		2011-02-03	1996-07-31	
-S000005609	ORF	Verified	YOR083W	WHI5	transcriptional repressor WHI5	chromosome 15		15	479533	480420	W		2011-02-03	1996-07-31	Repressor of G1 transcription; binds to SCB binding factor (SBF) at SCB target promoters in early G1; dilution of Whi5p concentration during cell growth determines cell size; phosphorylation of Whi5p by the CDK, Cln3p/Cdc28p relieves repression and promoter binding by Whi5, and contributes to both the determination of critical cell size at START and cell fate; periodically expressed in G1
-S000029953	CDS					YOR083W		15	479533	480420	W		2011-02-03	1996-07-31	
-S000005608	ORF	Dubious	YOR082C			chromosome 15		15	479637	479296	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YOR083W
-S000037872	CDS					YOR082C		15	479637	479296	C		2011-02-03	1996-07-31	
-S000005610	ORF	Verified	YOR084W	LPX1	triglyceride lipase	chromosome 15		15	480587	481750	W		2011-02-03	1996-07-31	Peroxisomal matrix-localized lipase; required for normal peroxisome morphology; contains a peroxisomal targeting signal type 1 (PTS1) and a lipase motif; peroxisomal import requires the PTS1 receptor, Pex5p and self-interaction; transcriptionally activated by Yrm1p along with genes involved in multidrug resistance; oleic acid inducible
-S000030939	CDS					YOR084W		15	480587	481750	W		2011-02-03	1996-07-31	
-S000005611	ORF	Verified	YOR085W	OST3	dolichyl-diphosphooligosaccharide--protein glycotransferase OST3	chromosome 15	L000002943	15	482033	483085	W		2011-02-03	1996-07-31	Gamma subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins; Ost3p is important for N-glycosylation of a subset of proteins
-S000031015	CDS					YOR085W		15	482033	483085	W		2011-02-03	1996-07-31	
-S000005612	ORF	Verified	YOR086C	TCB1	tricalbin	chromosome 15		15	486779	483219	C		2011-02-03	1996-07-31	Lipid-binding ER protein involved in ER-plasma membrane tethering; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to plasma membrane and regulate PI4P levels by controlling access of Sac1p phosphatase to its substrate PI4P in PM; contains 3 calcium and lipid binding domains; non-tagged protein also localizes to mitochondria; C-termini of Tcb1p, Tcb2p and Tcb3p interact; TCB1 has a paralog, TCB2, that arose from the whole genome duplication
-S000031064	CDS					YOR086C		15	486779	483219	C		2011-02-03	1996-07-31	
-S000006676	tRNA_gene		tN(GUU)O2			chromosome 15	L000003709	15	487439	487512	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000035653	noncoding_exon					tN(GUU)O2		15	487439	487512	W		2011-02-03	2000-05-19	
-S000005613	ORF	Verified	YOR087W	YVC1	TRPY1|YOR088W	chromosome 15		15	487707	489734	W		2011-02-03	2003-01-09|1996-07-31	Vacuolar cation channel; mediates release of Ca(2+) from the vacuole in response to hyperosmotic shock
-S000031212	CDS					YOR087W		15	487707	489734	W		2011-02-03	2003-01-09|1996-07-31	
-S000007554	ARS		ARS1501		ARS1514|ARS245	chromosome 15		15	489683	489942			2014-11-18	2000-10-17|2014-11-18	Autonomously Replicating Sequence
-S000178184	ARS_consensus_sequence					ARS1501		15	489891	489907	W		2014-11-18	2014-11-18	
-S000005615	ORF	Verified	YOR089C	VPS21	Rab family GTPase VPS21|YPT51|YPT21|VPT12|VPS12	chromosome 15	L000002474	15	490828	490196	C		2011-02-03	1996-07-31	Endosomal Rab family GTPase; required for endocytic transport and sorting of vacuolar hydrolases; required for endosomal localization of the CORVET complex; required with YPT52 for MVB biogenesis and sorting; involved in autophagy and ionic stress tolerance; geranylgeranylation required for membrane association; protein abundance increases in response to DNA replication stress; mammalian Rab5 homolog; VPS21 has a paralog, YPT53, that arose from the whole genome duplication
-S000032213	CDS					YOR089C		15	490828	490196	C		2011-02-03	1996-07-31	
-S000005616	ORF	Verified	YOR090C	PTC5	type 2C protein phosphatase PTC5|PPP1	chromosome 15		15	492841	491123	C		2011-02-03	1996-07-31	Mitochondrial type 2C protein phosphatase (PP2C); involved in regulation of pyruvate dehydrogenase activity by dephosphorylating the serine 133 of the Pda1p subunit; localizes to the intermembrane space and is imported via the presequence pathway and processed by the inner membrane protease (Imp1p-Imp2p); acts in concert with kinases Pkp1p and Pkp2p and phosphatase Ptc6p
-S000031844	CDS					YOR090C		15	492841	491123	C		2011-02-03	1996-07-31	
-S000005617	ORF	Verified	YOR091W	TMA46	RBF46	chromosome 15		15	493433	494470	W		2011-02-03	1996-07-31|2005-12-01	Protein of unknown function that associates with translating ribosomes; interacts with GTPase Rbg1p
-S000032061	CDS					YOR091W		15	493433	494470	W		2011-02-03	1996-07-31|2005-12-01	
-S000005618	ORF	Verified	YOR092W	ECM3	putative ATPase ECM3|YOR3165W	chromosome 15	L000003879	15	495127	496968	W		2011-02-03	1996-07-31	Non-essential protein of unknown function; involved in signal transduction and the genotoxic response; induced rapidly in response to treatment with 8-methoxypsoralen and UVA irradiation; relocalizes from ER to cytoplasm upon DNA replication stress; ECM3 has a paralog, YNL095C, that arose from the whole genome duplication
-S000032141	CDS					YOR092W		15	495127	496968	W		2011-02-03	1996-07-31	
-S000005619	ORF	Uncharacterized	YOR093C	CMR2		chromosome 15		15	502452	497506	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion causes sensitivity to unfolded protein response-inducing agents
-S000034073	CDS					YOR093C		15	502452	497506	C		2011-02-03	1996-07-31	
-S000005620	ORF	Verified	YOR094W	ARF3	Arf family GTPase ARF3|ARL2	chromosome 15	L000000106	15	502795	503346	W		2011-02-03	1996-07-31	Glucose-repressible ADP-ribosylation factor; GTPase of Ras superfamily involved in regulating cell polarity and invasive growth; localizes to dynamic spots at plasma membrane and modulates PtdIns(4,5)P2 levels to facilitate endocytosis; required for localization of endocytic protein Lsb5p to correct cortical site in cells; also has mRNA binding activity; homolog of mammalian Arf6
-S000034255	CDS					YOR094W		15	502795	503346	W		2011-02-03	1996-07-31	
-S000005621	ORF	Verified	YOR095C	RKI1	ribose-5-phosphate isomerase RKI1	chromosome 15	L000003519	15	504328	503552	C		2011-02-03	1996-07-31	Ribose-5-phosphate ketol-isomerase; catalyzes the interconversion of ribose 5-phosphate and ribulose 5-phosphate in the pentose phosphate pathway; participates in pyridoxine biosynthesis
-S000034285	CDS					YOR095C		15	504328	503552	C		2011-02-03	1996-07-31	
-S000005622	ORF	Verified	YOR096W	RPS7A	eS7|ribosomal 40S subunit protein S7A|S7e|rp30|S7A|RPS30	chromosome 15	L000003300	15	505794	506767	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; interacts with Kti11p; deletion causes hypersensitivity to zymocin; homologous to mammalian ribosomal protein S7, no bacterial homolog; RPS7A has a paralog, RPS7B, that arose from the whole genome duplication
-S000034377	CDS					YOR096W		15	505794	505937	W		2011-02-03	1996-07-31	
-S000034378	CDS					YOR096W		15	506339	506767	W		2011-02-03	1996-07-31	
-S000034379	intron					YOR096W		15	505938	506338	W		2011-02-03	1996-07-31	
-S000005623	ORF	Uncharacterized	YOR097C			chromosome 15		15	507505	506978	C		2011-02-03	1996-07-31	Putative protein of unknown function; identified as interacting with Hsp82p in a high-throughput two-hybrid screen; YOR097C is not an essential gene
-S000035307	CDS					YOR097C		15	507505	506978	C		2011-02-03	1996-07-31	
-S000005624	ORF	Verified	YOR098C	NUP1	FG-nucleoporin NUP1	chromosome 15	L000001288	15	511178	507948	C		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of thenuclear pore complex (NPC) permeability barrier; possible karyopherin release factor that accelerates release of karyopherin-cargo complexes after transport across NPC; both NUP1 and NUP60 are homologous to human NUP153
-S000035367	CDS					YOR098C		15	511178	507948	C		2011-02-03	1996-07-31	
-S000005625	ORF	Verified	YOR099W	KTR1	alpha-1,2-mannosyltransferase KTR1	chromosome 15	L000000924	15	511825	513006	W	54	2011-02-03	1996-07-31	Alpha-1,2-mannosyltransferase; involved in O- and N-linked protein glycosylation; type II membrane protein; member of the KRE2/MNT1 mannosyltransferase family; relocalizes from vacuole to cytoplasm upon DNA replication stress
-S000035471	CDS					YOR099W		15	511825	513006	W		2011-02-03	1996-07-31	
-S000005626	ORF	Verified	YOR100C	CRC1	carnitine:acyl carnitine antiporter	chromosome 15	S000007462	15	514278	513295	C		2011-02-03	1996-07-31	Mitochondrial inner membrane carnitine transporter; required for carnitine-dependent transport of acetyl-CoA from peroxisomes to mitochondria during fatty acid beta-oxidation; human homolog SLC25A20 complements yeast null mutant
-S000032610	CDS					YOR100C		15	514278	513295	C		2011-02-03	1996-07-31	
-S000005627	ORF	Verified	YOR101W	RAS1	Ras family GTPase RAS1	chromosome 15	L000001582	15	515244	516173	W	53	2011-02-03	1996-07-31	GTPase involved in G-protein signaling in adenylate cyclase activation; plays a role in cell proliferation; localized to the plasma membrane; homolog of mammalian RAS proto-oncogenes; relative distribution to the nucleus increases upon DNA replication stress; RAS1 has a paralog, RAS2, that arose from the whole genome duplication
-S000032754	CDS					YOR101W		15	515244	516173	W		2011-02-03	1996-07-31	
-S000005628	ORF	Dubious	YOR102W			chromosome 15		15	516423	516773	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; extensively overlaps essential OST2 gene encoding a subunit of the ER lumen oligosaccharyltransferase complex
-S000033499	CDS					YOR102W		15	516423	516773	W		2011-02-03	1996-07-31	
-S000005629	ORF	Verified	YOR103C	OST2	dolichyl-diphosphooligosaccharide-protein glycotransferase	chromosome 15	L000002942	15	516841	516449	C		2011-02-03	2003-09-22|1996-07-31	Epsilon subunit of the oligosaccharyltransferase complex; located in the ER lumen; catalyzes asparagine-linked glycosylation of newly synthesized proteins
-S000033537	CDS					YOR103C		15	516841	516449	C		2011-02-03	2003-09-22|1996-07-31	
-S000005630	ORF	Verified	YOR104W	PIN2		chromosome 15		15	517642	518490	W		2011-02-03	1996-07-31	Exomer-dependent cargo protein; induces appearance of [PIN+] prion when overproduced; prion-like domain serves as a retention signal in the trans-Golgi network; predicted to be palmitoylated
-S000033687	CDS					YOR104W		15	517642	518490	W		2011-02-03	1996-07-31	
-S000005631	ORF	Uncharacterized	YOR105W			chromosome 15		15	518195	518521	W		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels
-S000033820	CDS					YOR105W		15	518195	518521	W		2011-02-03	1996-07-31	
-S000005632	ORF	Verified	YOR106W	VAM3	SNAP receptor VAM3|PTH1	chromosome 15	L000003267|L000003302	15	519121	519972	W		2011-02-03	1996-07-31	Syntaxin-like vacuolar t-SNARE; functions with Vam7p in vacuolar protein trafficking; mediates docking/fusion of late transport intermediates with the vacuole; has an acidic di-leucine sorting signal and C-terminal transmembrane region
-S000034700	CDS					YOR106W		15	519121	519972	W		2011-02-03	1996-07-31	
-S000005633	ORF	Verified	YOR107W	RGS2	GTPase-activating protein RGS2	chromosome 15		15	521353	522282	W		2011-02-03	1996-07-31	Negative regulator of glucose-induced cAMP signaling; directly activates the GTPase activity of the heterotrimeric G protein alpha subunit Gpa2p
-S000034847	CDS					YOR107W		15	521353	522282	W		2011-02-03	1996-07-31	
-S000005634	ORF	Verified	YOR108W	LEU9	2-isopropylmalate synthase LEU9	chromosome 15		15	523027	524841	W		2011-02-03	1996-07-31	Alpha-isopropylmalate synthase II (2-isopropylmalate synthase); catalyzes the first step in the leucine biosynthesis pathway; the minor isozyme, responsible for the residual alpha-IPMS activity detected in a leu4 null mutant; LEU9 has a paralog, LEU4, that arose from the whole genome duplication
-S000034978	CDS					YOR108W		15	523027	524841	W		2011-02-03	1996-07-31	
-S000028711	ORF	Dubious	YOR108C-A			chromosome 15		15	524814	524605	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032677	CDS					YOR108C-A		15	524814	524605	C		2011-02-03	2003-07-29	
-S000005635	ORF	Verified	YOR109W	INP53	phosphatidylinositol-3-/phosphoinositide 5-phosphatase INP53|SOP2|SJL3	chromosome 15	L000003984	15	525278	528601	W		2011-02-03	1996-07-31	Polyphosphatidylinositol phosphatase; dephosphorylates multiple phosphatidylinositol phosphates; involved in trans Golgi network-to-early endosome pathway; hyperosmotic stress causes translocation to actin patches; contains Sac1 and 5-ptase domains; INP53 has a paralog, INP52, that arose from the whole genome duplication
-S000035927	CDS					YOR109W		15	525278	528601	W		2011-02-03	1996-07-31	
-S000005636	ORF	Verified	YOR110W	TFC7	transcription factor TFIIIC subunit TFC7|tau 55	chromosome 15		15	528941	530248	W		2011-02-03	1996-07-31	RNA pol III transcription initiation factor complex (TFIIIC) subunit; part of the TauA globular domain of TFIIIC that binds DNA at the BoxA promoter sites of tRNA and similar genes; TFC7 has a paralog, YNL108C, that arose from the whole genome duplication
-S000036863	CDS					YOR110W		15	528941	530248	W		2011-02-03	1996-07-31	
-S000005637	ORF	Uncharacterized	YOR111W			chromosome 15		15	530429	531127	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000036919	CDS					YOR111W		15	530429	531127	W		2011-02-03	1996-07-31	
-S000005638	ORF	Verified	YOR112W	CEX1		chromosome 15		15	531508	533793	W		2011-02-03	1996-07-31	Component of nuclear aminoacylation-dependent tRNA export pathway; cytoplasmic; interacts with nuclear pore component Nup116p; copurifies with tRNA export receptors Los1p and Msn5p, as well as eIF-1a; required for activation of RAN GTPase Gsp1p and dissociation of receptor-tRNA-Gsp1p export complex; recruits Rna1p from cytoplasm to NPC, facilitates Rna1p activation of Gsp1p GTPase activity by enabling Rna1p to gain access to Gsp1p-GTP bound to export receptor tRNA complex
-S000036975	CDS					YOR112W		15	531508	533793	W		2011-02-03	1996-07-31	
-S000005639	ORF	Verified	YOR113W	AZF1		chromosome 15	L000000158	15	534075	536819	W		2011-02-03	1996-07-31	Zinc-finger transcription factor; involved in diauxic shift; in the presence of glucose, activates transcription of genes involved in growth and carbon metabolism; in nonfermentable carbon sources, activates transcription of genes involved in maintenance of cell wall integrity; relocalizes to the cytosol in response to hypoxia
-S000037745	CDS					YOR113W		15	534075	536819	W		2011-02-03	1996-07-31	
-S000005640	ORF	Uncharacterized	YOR114W			chromosome 15		15	537570	538454	W		2011-02-03	1996-07-31	Putative protein of unknown function; null mutant is viable
-S000037834	CDS					YOR114W		15	537570	538454	W		2011-02-03	1996-07-31	
-S000005641	ORF	Verified	YOR115C	TRS33		chromosome 15	S000007434	15	539465	538659	C		2011-02-03	1996-07-31	Core component of TRAPP complexes I, II and IV; transport protein particle (TRAPP) complexes are related multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII, and IV); proposed subunit of a novel complex, TRAPPIV, that may function redundantly with TRAPPIII as a GEF that activates Ypt1 during autophagy
-S000037875	CDS					YOR115C		15	539465	538659	C		2011-02-03	1996-07-31	
-S000005642	ORF	Verified	YOR116C	RPO31	DNA-directed RNA polymerase III core subunit RPO31|C160|RPC160|RPC1	chromosome 15	L000001746|L000001694	15	544145	539763	C	59	2011-02-03	1996-07-31	RNA polymerase III largest subunit C160; part of core enzyme; similar to bacterial beta-prime subunit and to RPA190 and RPO21
-S000030813	CDS					YOR116C		15	544145	539763	C		2011-02-03	1996-07-31	
-S000005643	ORF	Verified	YOR117W	RPT5	proteasome regulatory particle base subunit RPT5|YTA1	chromosome 15	L000002555	15	545029	546333	W		2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; recruited to the GAL1-10 promoter region upon induction of transcription; similar to human TBP1
-S000030925	CDS					YOR117W		15	545029	546333	W		2011-02-03	1996-07-31	
-S000005644	ORF	Verified	YOR118W	RTC5		chromosome 15		15	546857	548560	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; null mutation suppresses cdc13-1 temperature sensitivity
-S000030998	CDS					YOR118W		15	546857	548560	W		2011-02-03	1996-07-31	
-S000005645	ORF	Verified	YOR119C	RIO1	protein kinase RIO1|RRP10	chromosome 15	L000003989	15	550246	548792	C		2011-02-03	1996-07-31	Serine kinase involved in cell cycle regulation and rDNA integrity; associated with late pre-40S particles via its conserved C-terminal domain and participates in late 40S biogenesis; association with pre-40S particles regulated by its catalytic ATPase site and likely occurs after the release of Rio2p from these particles; involved in cell cycle progression and processing of the 20S pre-rRNA into mature 18S rRNA; phosphorylates Rpa43p in anaphase to remove Pol I from rDNA
-S000031034	CDS					YOR119C		15	550246	548792	C		2011-02-03	1996-07-31	
-S000005646	ORF	Verified	YOR120W	GCY1	glycerol 2-dehydrogenase (NADP(+)) GCY1|GCY	chromosome 15	L000000694	15	551114	552052	W		2011-02-03	1996-07-31	Glycerol dehydrogenase; involved in an alternative pathway for glycerol catabolism used under microaerobic conditions; also has mRNA binding activity; member of the aldo-keto reductase (AKR) family; human homolog AKR1B1 can complement yeast null mutant; protein abundance increases in response to DNA replication stress; GCY1 has a paralog, YPR1, that arose from the whole genome duplication
-S000033029	CDS					YOR120W		15	551114	552052	W		2011-02-03	1996-07-31	
-S000005647	ORF	Dubious	YOR121C			chromosome 15		15	552103	551798	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene GCY1/YOR120W
-S000033061	CDS					YOR121C		15	552103	551798	C		2011-02-03	1996-07-31	
-S000005648	ORF	Verified	YOR122C	PFY1	profilin|CLS5|PRF1	chromosome 15	L000001407	15	552887	552298	C	64	2011-02-03	1996-07-31	Profilin; binds actin, phosphatidylinositol 4,5-bisphosphate, and polyproline regions; involved in cytoskeleton organization; required for normal timing of actin polymerization in response to thermal stress; protein abundance increases in response to DNA replication stress; highly conserved protein; human PFN1 (profilin 1) complements temperature sensitive pfy1 mutants, PFN1 mutations are a rare cause of ALS
-S000033159	CDS					YOR122C		15	552665	552298	C		2011-02-03	1996-07-31	
-S000033158	CDS					YOR122C		15	552887	552875	C		2011-02-03	1996-07-31	
-S000033160	intron					YOR122C		15	552874	552666	C		2011-02-03	1996-07-31	
-S000005649	ORF	Verified	YOR123C	LEO1		chromosome 15	L000000936	15	554570	553176	C		2011-02-03	1996-07-31	Component of the Paf1 complex; which associates with RNA polymerase II and is involved in histone methylation; plays a role in regulating Ty1 transposition; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay
-S000033954	CDS					YOR123C		15	554570	553176	C		2011-02-03	1996-07-31	
-S000005650	ORF	Verified	YOR124C	UBP2	ubiquitin-specific protease UBP2	chromosome 15	L000002416	15	558642	554824	C		2011-02-03	1996-07-31	Ubiquitin-specific protease; removes ubiquitin from ubiquitinated proteins; controls K63 homeostasis during oxidative stress; deubiquitinates Rsp5p and is required for MVB sorting of membrane proteins; can cleave polyubiquitin and has isopeptidase activity
-S000034064	CDS					YOR124C		15	558642	554824	C		2011-02-03	1996-07-31	
-S000005651	ORF	Verified	YOR125C	CAT5	putative monooxygenase CAT5|COQ7	chromosome 15	L000000219	15	559731	559030	C		2011-02-03	2003-09-22|1996-07-31	Protein required for ubiquinone (Coenzyme Q) biosynthesis; localizes to the matrix face of the mitochondrial inner membrane in a large complex with ubiquinone biosynthetic enzymes; required for gluconeogenic gene activation
-S000034156	CDS					YOR125C		15	559731	559030	C		2011-02-03	2003-09-22|1996-07-31	
-S000005652	ORF	Verified	YOR126C	IAH1	isoamyl acetate-hydrolyzing esterase	chromosome 15	L000003383	15	560677	559961	C		2011-02-03	1996-07-31	Isoamyl acetate-hydrolyzing esterase; required in balance with alcohol acetyltransferase to maintain optimal amounts of isoamyl acetate, which is particularly important in sake brewing
-S000035099	CDS					YOR126C		15	560677	559961	C		2011-02-03	1996-07-31	
-S000005653	ORF	Verified	YOR127W	RGA1	THE1|DBM1	chromosome 15	L000002626	15	561170	564193	W		2011-02-03	1996-07-31	GTPase-activating protein for polarity-establishment protein Cdc42p; implicated in control of septin organization, pheromone response, and haploid invasive growth; relocalizes from bud neck to cytoplasm upon DNA replication stress; RGA1 has a paralog, RGA2, that arose from the whole genome duplication
-S000035296	CDS					YOR127W		15	561170	564193	W		2011-02-03	1996-07-31	
-S000005654	ORF	Verified	YOR128C	ADE2	phosphoribosylaminoimidazole carboxylase ADE2	chromosome 15	L000000032	15	566191	564476	C	64	2011-02-03	1996-07-31	Phosphoribosylaminoimidazole carboxylase; catalyzes a step in the 'de novo' purine nucleotide biosynthetic pathway; red pigment accumulates in mutant cells deprived of adenine
-S000035306	CDS					YOR128C		15	566191	564476	C		2011-02-03	1996-07-31	
-S000114843	ARS		ARS1516	ARS1516	ARSXV-567|ADE2 ARS	chromosome 15		15	566410	566643			2011-02-03	2006-04-12|2006-09-08	Autonomously Replicating Sequence
-S000005655	ORF	Verified	YOR129C	AFI1		chromosome 15		15	569558	566877	C		2011-02-03	1996-07-31	Arf3p polarization-specific docking factor; required for the polarized distribution of the ADP-ribosylation factor, Arf3p; participates in polarity development and maintenance of a normal haploid budding pattern; interacts with Cnm7p
-S000035385	CDS					YOR129C		15	569558	566877	C		2011-02-03	1996-07-31	
-S000005656	ORF	Verified	YOR130C	ORT1	ARG11	chromosome 15	L000003289	15	570807	569929	C		2011-02-03	1996-07-31|2011-02-03	Ornithine transporter of the mitochondrial inner membrane; exports ornithine from mitochondria as part of arginine biosynthesis; functionally complemented by human ortholog, SLC25A15, which is associated with hyperammonaemia-hyperornithinaemia-homocitrullinuria (HHH) syndrome, but HHH-associated variants fail to complement
-S000031722	CDS					YOR130C		15	570807	569929	C		2011-02-03	1996-07-31|2011-02-03	
-S000006545	tRNA_gene		tD(GUC)O			chromosome 15	L000003710	15	571958	572029	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000030425	noncoding_exon					tD(GUC)O		15	571958	572029	W		2011-02-03	2000-05-19	
-S000005657	ORF	Verified	YOR131C		putative haloacid dehalogenase-like hydrolase	chromosome 15		15	572838	572182	C		2011-02-03	1996-07-31	Putative haloacid dehalogenase-like hydrolase; non-essential gene; overexpression causes a cell cycle delay or arrest; protein abundance increases in response to DNA replication stress
-S000031872	CDS					YOR131C		15	572838	572182	C		2011-02-03	1996-07-31	
-S000005658	ORF	Verified	YOR132W	VPS17	retromer subunit VPS17|VPT3|PEP21	chromosome 15	L000002472|S000029642|L000002479	15	573175	574830	W		2011-02-03	1996-07-31	Subunit of the membrane-associated retromer complex; essential for endosome-to-Golgi retrograde protein transport; peripheral membrane protein that assembles onto the membrane with Vps5p to promote vesicle formation; required for recruiting the retromer complex to the endosome membranes
-S000037422	CDS					YOR132W		15	573175	574830	W		2011-02-03	1996-07-31	
-S000005659	ORF	Verified	YOR133W	EFT1	elongation factor 2	chromosome 15	L000000543	15	575098	577626	W		2011-02-03	1996-07-31	Elongation factor 2 (EF-2), also encoded by EFT2; catalyzes ribosomal translocation during protein synthesis; contains diphthamide, the unique posttranslationally modified histidine residue specifically ADP-ribosylated by diphtheria toxin; EFT1 has a paralog, EFT2, that arose from the whole genome duplication
-S000037496	CDS					YOR133W		15	575098	577626	W		2011-02-03	1996-07-31	
-S000005660	ORF	Verified	YOR134W	BAG7		chromosome 15	L000003395	15	578564	579793	W		2011-02-03	1996-07-31	Rho GTPase activating protein (RhoGAP); stimulates the intrinsic GTPase activity of Rho1p, which plays a bud growth by regulating actin cytoskeleton organization and cell wall biosynthesis, resulting in the downregulation of Rho1p; structurally and functionally related to Sac7p; BAG7 has a paralog, SAC7, that arose from the whole genome duplication
-S000037586	CDS					YOR134W		15	578564	579793	W		2011-02-03	1996-07-31	
-S000005662	ORF	Verified	YOR136W	IDH2	isocitrate dehydrogenase (NAD(+)) IDH2	chromosome 15	L000000850	15	580250	581359	W		2011-02-03	1996-07-31	Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase; complex catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle; phosphorylated
-S000030498	CDS					YOR136W		15	580250	581359	W		2011-02-03	1996-07-31	
-S000005661	ORF	Dubious	YOR135C	IRC14		chromosome 15		15	580500	580159	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YOR136W; null mutant displays increased levels of spontaneous Rad52 foci
-S000037633	CDS					YOR135C		15	580500	580159	C		2011-02-03	1996-07-31	
-S000005663	ORF	Verified	YOR137C	SIA1		chromosome 15		15	583681	581813	C		2011-02-03	1996-07-31	Protein of unassigned function; involved in activation of the Pma1p plasma membrane H+-ATPase by glucose; contains peptide signal for membrane localization
-S000030527	CDS					YOR137C		15	583681	581813	C		2011-02-03	1996-07-31	
-S000005664	ORF	Verified	YOR138C	RUP1		chromosome 15		15	586324	584309	C		2011-02-03	1996-07-31	Protein that regulates ubiquitination of Rsp5p; has a WW domain consensus motif of PPPSY (residues 131-135) that mediates binding of Rsp5p to Ubp2p; contains an UBA domain; relative distribution to the nucleus increases upon DNA replication stress
-S000030602	CDS					YOR138C		15	586324	584309	C		2011-02-03	1996-07-31	
-S000005666	ORF	Verified	YOR140W	SFL1		chromosome 15	L000001869	15	586981	589281	W		2011-02-03	1996-07-31|2011-02-03	Transcriptional repressor and activator; involved in repression of flocculation-related genes, and activation of stress responsive genes; has direct role in INO1 transcriptional memory; negatively regulated by cAMP-dependent protein kinase A subunit Tpk2p; premature stop codon (C1430T, Q477-stop) in SK1 background is linked to the aggressively invasive phenotype of SK1 relative to BY4741 (S288C)
-S000030239	CDS					YOR140W		15	586981	589281	W		2011-02-03	1996-07-31|2011-02-03	
-S000005665	ORF	Dubious	YOR139C			chromosome 15		15	587342	586950	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SFL1/YOR140W
-S000030683	CDS					YOR139C		15	587342	586950	C		2011-02-03	1996-07-31	
-S000005667	ORF	Verified	YOR141C	ARP8		chromosome 15	L000003437	15	592587	589942	C		2011-02-03	1996-07-31	Nuclear actin-related protein involved in chromatin remodeling; component of chromatin-remodeling enzyme complexes; has mRNA binding activity
-S000030308	CDS					YOR141C		15	592587	589942	C		2011-02-03	1996-07-31	
-S000005668	ORF	Verified	YOR142W	LSC1	succinate--CoA ligase (GDP-forming) subunit alpha	chromosome 15	L000004591	15	593057	594046	W		2011-02-03	1996-07-31	Alpha subunit of succinyl-CoA ligase; succinyl-CoA ligase is a mitochondrial enzyme of the TCA cycle that catalyzes the nucleotide-dependent conversion of succinyl-CoA to succinate; phosphorylated
-S000033682	CDS					YOR142W		15	593057	594046	W		2011-02-03	1996-07-31	
-S000006573	tRNA_gene		tG(CCC)O	SUF5		chromosome 15	L000002153|L000003716	15	594425	594354	C	76	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
-S000032361	noncoding_exon					tG(CCC)O		15	594425	594354	C		2011-02-03	2000-05-19	
-S000007169	long_terminal_repeat		YORWdelta12			chromosome 15		15	594512	594819	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007170	long_terminal_repeat		YORWdelta13			chromosome 15		15	594820	595151	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007182	LTR_retrotransposon		YORWTy1-2		Ty1	chromosome 15		15	594820	600733	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007351	transposable_element_gene		YOR142W-A		gag protein	chromosome 15		15	595112	596434	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000036110	CDS					YOR142W-A		15	595112	596434	W		2011-02-03	1999-07-17	
-S000007352	transposable_element_gene		YOR142W-B		gag-pol fusion protein	chromosome 15		15	595112	600380	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000036113	CDS					YOR142W-B		15	595112	596416	W		2011-02-03	1999-07-17	
-S000036114	CDS					YOR142W-B		15	596418	600380	W		2011-02-03	1999-07-17	
-S000036115	plus_1_translational_frameshift					YOR142W-B		15	596417	596417	W		2011-02-03	1999-07-17	
-S000007171	long_terminal_repeat		YORWdelta14			chromosome 15		15	600402	600733	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007643	ARS		ARS1502		ARS1517	chromosome 15		15	600886	600960			2011-02-03	2001-03-06	Autonomously Replicating Sequence
-S000005669	ORF	Verified	YOR143C	THI80	thiamine diphosphokinase	chromosome 15	L000002297	15	602342	601383	C		2011-02-03	1996-07-31	Thiamine pyrophosphokinase; phosphorylates thiamine to produce the coenzyme thiamine pyrophosphate (thiamine diphosphate)
-S000033738	CDS					YOR143C		15	602342	601383	C		2011-02-03	1996-07-31	
-S000005670	ORF	Verified	YOR144C	ELG1	RTT110	chromosome 15	S000007438	15	605092	602717	C		2011-02-03	1996-07-31	Subunit of an alternative replication factor C complex; important for DNA replication and genome integrity; suppresses spontaneous DNA damage; involved in homologous recombination-mediated repair and telomere homeostasis; required for PCNA (Pol30p) unloading during DNA replication
-S000033871	CDS					YOR144C		15	605092	602717	C		2011-02-03	1996-07-31	
-S000005672	ORF	Dubious	YOR146W			chromosome 15		15	605873	606178	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene PNO1/YOR145C
-S000034948	CDS					YOR146W		15	605873	606178	W		2011-02-03	1996-07-31	
-S000005671	ORF	Verified	YOR145C	PNO1	RRP20|DIM2	chromosome 15		15	606171	605347	C		2011-02-03	1996-07-31	Essential nucleolar protein required for pre-18S rRNA processing; interacts with Dim1p, an 18S rRNA dimethyltransferase, and also with Nob1p, which is involved in proteasome biogenesis; contains a KH domain
-S000033985	CDS					YOR145C		15	606171	605347	C		2011-02-03	1996-07-31	
-S000005673	ORF	Verified	YOR147W	MDM32		chromosome 15		15	606607	608475	W		2011-02-03	1996-07-31|2005-11-30	Mitochondrial inner membrane protein with similarity to Mdm31p; required for normal mitochondrial morphology and inheritance; interacts genetically with MMM1, MDM10, MDM12, and MDM34; variation between SK1 and S288C at residues 182 and 262 impacts invasive growth and mitochondrial network structure
-S000035083	CDS					YOR147W		15	606607	608475	W		2011-02-03	1996-07-31|2005-11-30	
-S000005674	ORF	Verified	YOR148C	SPP2		chromosome 15	L000002631	15	609197	608640	C		2011-02-03	1996-07-31	Essential protein that promotes the first step of splicing; required for the final stages of spliceosome maturation and activation; interacts with Prp2p, which may release Spp2p from the spliceosome following the first cleavage reaction; stimulates Prp2p ATPase activity
-S000035131	CDS					YOR148C		15	609197	608640	C		2011-02-03	1996-07-31	
-S000005675	ORF	Verified	YOR149C	SMP3	glycosylphosphatidylinositol-alpha 1,2 mannosyltransferase|SAP2|LAS2	chromosome 15	L000001935	15	611388	609838	C		2011-02-03	1996-07-31|2011-02-03	Alpha 1,2-mannosyltransferase; involved in glycosyl phosphatidyl inositol (GPI) biosynthesis; required for addition of the fourth, side branching mannose to the GPI core structure
-S000036016	CDS					YOR149C		15	611388	609838	C		2011-02-03	1996-07-31|2011-02-03	
-S000005676	ORF	Verified	YOR150W	MRPL23	mitochondrial 54S ribosomal protein YmL23|YmL23	chromosome 15		15	611999	612490	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; localizes to vacuole in response to H2O2
-S000034760	CDS					YOR150W		15	611999	612490	W		2011-02-03	1996-07-31	
-S000130136	ARS		ARS1518		ARSXV-618	chromosome 15		15	616670	617517			2011-02-03	2009-05-05	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000005677	ORF	Verified	YOR151C	RPB2	DNA-directed RNA polymerase II core subunit RPB2|B150|SOH2|SIT2|RPO22|RPB150	chromosome 15	L000001588|L000001676	15	616671	612997	C	80	2011-02-03	1996-07-31	RNA polymerase II second largest subunit B150; part of central core; similar to bacterial beta subunit
-S000035654	CDS					YOR151C		15	616671	612997	C		2011-02-03	1996-07-31	
-S000005678	ORF	Verified	YOR152C	ATG40		chromosome 15		15	618288	617518	C		2011-02-03	1996-07-31	Autophagy receptor with a role in endoplasmic reticulum degradation; involved specifically in autophagy of cortical and cytoplasmic ER in response to nitrogen starvation or rapamycin treatment; localizes to the cortical and cytoplasmic ER; similar to human FAM134B, which is also involved in ER autophagy and is associated with sensory neuropathy
-S000035770	CDS					YOR152C		15	618288	617518	C		2011-02-03	1996-07-31	
-S000005679	ORF	Verified	YOR153W	PDR5	ATP-binding cassette multidrug transporter PDR5|STS1|YDR1|LEM1	chromosome 15	L000001365|L000002136|L000002504	15	619840	624375	W	85	2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; multidrug transporter actively regulated by Pdr1p; also involved in steroid transport, cation resistance, and cellular detoxification during exponential growth; PDR5 has a paralog, PDR15, that arose from the whole genome duplication
-S000035997	CDS					YOR153W		15	619840	624375	W		2011-02-03	1996-07-31	
-S000005680	ORF	Verified	YOR154W	SLP1		chromosome 15		15	624729	626492	W		2011-02-03	1996-07-31	Glycosylated integral ER membrane protein of unknown function; forms an ER-membrane associated protein complex with Emp65p; member of the SUN-like family of proteins; genetic interactions suggest a role in folding of ER membrane proteins; required for nuclear envelope localization of Mps3p
-S000037835	CDS					YOR154W		15	624729	626492	W		2011-02-03	1996-07-31	
-S000005681	ORF	Verified	YOR155C	ISN1	IMP 5'-nucleotidase	chromosome 15		15	627980	626628	C		2011-02-03	1996-07-31	Inosine 5'-monophosphate (IMP)-specific 5'-nucleotidase; catalyzes the breakdown of IMP to inosine; responsible for production of nicotinamide riboside and nicotinic acid riboside; expression positively regulated by nicotinic acid and glucose availability; does not show similarity to known 5'-nucleotidases from other organisms
-S000037874	CDS					YOR155C		15	627980	626628	C		2011-02-03	1996-07-31	
-S000005682	ORF	Verified	YOR156C	NFI1	SUMO ligase NFI1|SIZ2	chromosome 15	L000002966	15	630540	628360	C		2011-02-03	1996-07-31	SUMO E3 ligase; catalyzes sumoylation of Yku70p/80p and Sir4p promoting telomere anchoring to the nuclear envelope and regulating telomerase activity; DNA-bound form catalyzes a DNA-damaged triggered sumoylation wave resulting in multisite modification of several DNA repair proteins, enhancing interactions between these proteins and accelerating repair; sumoylates Cse4p, a prerequisite for STUbL-mediated Ub-dependent degradation; role in telomere length maintenance
-S000029894	CDS					YOR156C		15	630540	628360	C		2011-02-03	1996-07-31	
-S000005683	ORF	Verified	YOR157C	PUP1	proteasome core particle subunit beta 2	chromosome 15	L000001530	15	631751	630966	C	84.6	2011-02-03	1996-07-31	Beta 2 subunit of the 20S proteasome; endopeptidase with trypsin-like activity that cleaves after basic residues; synthesized as a proprotein before being proteolytically processed for assembly into 20S particle; human homolog is subunit Z
-S000029992	CDS					YOR157C		15	631751	630966	C		2011-02-03	1996-07-31	
-S000005684	ORF	Verified	YOR158W	PET123	mitochondrial 37S ribosomal protein PET123	chromosome 15	L000001398	15	632164	633120	W	84.2	2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; PET123 exhibits genetic interactions with PET122, which encodes a COX3 mRNA-specific translational activator
-S000031031	CDS					YOR158W		15	632164	633120	W		2011-02-03	1996-07-31	
-S000005685	ORF	Verified	YOR159C	SME1	mRNA splicing protein SME1|Sm E|SmE	chromosome 15	L000004252	15	633566	633282	C		2011-02-03	1996-07-31	Core Sm protein Sm E; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Smd3p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm E
-S000031069	CDS					YOR159C		15	633566	633282	C		2011-02-03	1996-07-31	
-S000005686	ORF	Verified	YOR160W	MTR10	KAP111	chromosome 15	L000003296	15	633839	636757	W		2011-02-03	1996-07-31	Nuclear import receptor; mediates the nuclear localization of proteins involved in mRNA-nucleus export; promotes dissociation of mRNAs from the nucleus-cytoplasm mRNA shuttling protein Npl3p; required for retrograde import of mature tRNAs; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress
-S000030698	CDS					YOR160W		15	633839	636757	W		2011-02-03	1996-07-31	
-S000028713	ORF	Dubious	YOR161W-A			chromosome 15		15	637574	637654	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032680	CDS					YOR161W-A		15	637574	637654	W		2011-02-03	2003-07-29	
-S000028714	ORF	Dubious	YOR161W-B			chromosome 15		15	637975	638235	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032682	CDS					YOR161W-B		15	637975	638235	W		2011-02-03	2003-07-29	
-S000005687	ORF	Verified	YOR161C	PNS1		chromosome 15		15	638558	636939	C		2011-02-03	1996-07-31	Protein of unknown function; has similarity to Torpedo californica tCTL1p, which is postulated to be a choline transporter, neither null mutation nor overexpression affects choline transport
-S000030748	CDS					YOR161C		15	638558	636939	C		2011-02-03	1996-07-31	
-S000028712	ORF	Uncharacterized	YOR161C-C			chromosome 15		15	639267	639121	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032678	CDS					YOR161C-C		15	639267	639121	C		2011-02-03	2003-07-29	
-S000005688	ORF	Verified	YOR162C	YRR1	PDR2	chromosome 15	L000004200|S000029349|L000001362	15	641992	639560	C	89	2011-02-03	1996-07-31	Zn2-Cys6 zinc-finger transcription factor; activates genes involved in multidrug resistance; paralog of Yrm1p, acting on an overlapping set of target genes; YRR1 has a paralog, PDR8, that arose from the whole genome duplication
-S000030856	CDS					YOR162C		15	641992	639560	C		2011-02-03	1996-07-31	
-S000005689	ORF	Verified	YOR163W	DDP1	polyphosphatase DDP1	chromosome 15	S000007498	15	642741	643307	W		2011-02-03	1996-07-31	Polyphosphate phosphatase; hydrolyzes diphosphorylated inositol polyphosphates and diadenosine polyphosphates; high specificity for diadenosine hexa- and pentaphosphates; contains endopolyphosphatase activity with a high affinity for polyphosphates, an activity also observed for its human DIPP homologs; possesses mRNA decapping activity; nudix hydrolase family member; protein abundance increases in response to DNA replication stress
-S000031902	CDS					YOR163W		15	642741	643307	W		2011-02-03	1996-07-31	
-S000005690	ORF	Verified	YOR164C	GET4	ENV8	chromosome 15		15	644332	643394	C		2011-02-03	1996-07-31	Protein involved in inserting tail-anchored proteins into ER membranes; forms a complex with Mdy2p; highly conserved across species and homologous to human gene C7orf20
-S000031981	CDS					YOR164C		15	644332	643394	C		2011-02-03	1996-07-31	
-S000005691	ORF	Verified	YOR165W	SEY1	dynamin-like GTPase SEY1	chromosome 15		15	644566	646896	W		2011-02-03	1996-07-31	Dynamin-like GTPase that mediates homotypic ER fusion; has a role in ER morphology; interacts physically and genetically with Yop1p and Rtn1p; functional ortholog of the human atlastin ATL1, defects in which cause a form of the human disease hereditary spastic paraplegia; homolog of Arabidopsis RHD3
-S000034063	CDS					YOR165W		15	644566	646896	W		2011-02-03	1996-07-31	
-S000005692	ORF	Verified	YOR166C	SWT1	mRNA-processing endoribonuclease	chromosome 15		15	648502	647126	C		2011-02-03	1996-07-31	RNA endoribonuclease involved in perinuclear mRNP quality control; involved in perinuclear mRNP quality control via the turnover of aberrant, unprocessed pre-mRNAs; interacts with subunits of THO/TREX, TREX-2, and RNA polymerase II; contains a PIN (PilT N terminus) domain
-S000034075	CDS					YOR166C		15	648502	647126	C		2011-02-03	1996-07-31	
-S000005693	ORF	Verified	YOR167C	RPS28A	eS28|ribosomal 40S subunit protein S28A|S28e|YS27|S33A|S28A|RPS33A	chromosome 15	L000001767	15	649007	648804	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; has an extraribosomal function in regulation of RPS28B, in which Rps28Ap binds to a decapping complex via Edc3p, which then binds to RPS28B mRNA leading to its decapping and degradation; homologous to mammalian ribosomal protein S28, no bacterial homolog; RPS28A has a paralog, RPS28B, that arose from the whole genome duplication
-S000034207	CDS					YOR167C		15	649007	648804	C		2011-02-03	1996-07-31	
-S000005694	ORF	Verified	YOR168W	GLN4	glutamine--tRNA ligase	chromosome 15	L000000711	15	649303	651732	W	88	2011-02-03	1996-07-31	Glutamine tRNA synthetase; monomeric class I tRNA synthetase that catalyzes the specific glutaminylation of tRNA(Gln); N-terminal domain proposed to be involved in enzyme-tRNA interactions
-S000034317	CDS					YOR168W		15	649303	651732	W		2011-02-03	1996-07-31	
-S000005695	ORF	Dubious	YOR169C			chromosome 15		15	651840	651376	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene GLN4/YOR168W
-S000034343	CDS					YOR169C		15	651840	651376	C		2011-02-03	1996-07-31	
-S000005696	ORF	Dubious	YOR170W			chromosome 15		15	651858	652163	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene LCB4
-S000033855	CDS					YOR170W		15	651858	652163	W		2011-02-03	1996-07-31	
-S000005697	ORF	Verified	YOR171C	LCB4	sphinganine kinase LCB4	chromosome 15	L000004328	15	653884	652010	C		2011-02-03	1996-07-31	Sphingoid long-chain base kinase; responsible for synthesis of long-chain base phosphates, which function as signaling molecules, regulates synthesis of ceramide from exogenous long-chain bases, localizes to the Golgi and late endosomes; LCB4 has a paralog, LCB5, that arose from the whole genome duplication
-S000033881	CDS					YOR171C		15	653884	652010	C		2011-02-03	1996-07-31	
-S000005698	ORF	Verified	YOR172W	YRM1		chromosome 15		15	654210	656570	W		2011-02-03	1996-07-31	Zinc finger transcription factor involved in multidrug resistance; Zn(2)-Cys(6) zinc finger transcription factor; activates genes involved in multidrug resistance; paralog of Yrr1p, acting on an overlapping set of target genes
-S000034873	CDS					YOR172W		15	654210	656570	W		2011-02-03	1996-07-31	
-S000118490	ARS		ARS1519		ARSXV-657	chromosome 15		15	656701	656772			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000005699	ORF	Verified	YOR173W	DCS2	5'-(N(7)-methyl 5'-triphosphoguanosine)-(mRNA) diphosphatase	chromosome 15		15	657264	658325	W		2011-02-03	1996-07-31|2006-10-05	m(7)GpppX pyrophosphatase regulator; non-essential, stress induced regulatory protein; modulates m7G-oligoribonucleotide metabolism; inhibits Dcs1p; regulated by Msn2p, Msn4p, and the Ras-cAMP-cAPK signaling pathway; mutant has increased aneuploidy tolerance; DCS2 has a paralog, DCS1, that arose from the whole genome duplication
-S000035026	CDS					YOR173W		15	657264	658325	W		2011-02-03	1996-07-31|2006-10-05	
-S000005700	ORF	Verified	YOR174W	MED4		chromosome 15	L000003915	15	658747	659601	W		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
-S000035222	CDS					YOR174W		15	658747	659601	W		2011-02-03	1996-07-31	
-S000005701	ORF	Verified	YOR175C	ALE1	lysophospholipid acyltransferase|LCA1|LPT1|SLC4	chromosome 15		15	661674	659815	C		2011-02-03	1996-07-31	Broad-specificity lysophospholipid acyltransferase; part of MBOAT family of membrane-bound O-acyltransferases; key component of Lands cycle; may have role in fatty acid exchange at sn-2 position of mature glycerophospholipids
-S000035274	CDS					YOR175C		15	661674	659815	C		2011-02-03	1996-07-31	
-S000005702	ORF	Verified	YOR176W	HEM15	ferrochelatase HEM15	chromosome 15	L000000766	15	662401	663582	W		2011-02-03	1996-07-31	Ferrochelatase; a mitochondrial inner membrane protein, catalyzes insertion of ferrous iron into protoporphyrin IX, the eighth and final step in the heme biosynthetic pathway; human homolog FECH can complement yeast mutant and allow growth of haploid null after sporulation of a heterozygous diploid
-S000036250	CDS					YOR176W		15	662401	663582	W		2011-02-03	1996-07-31	
-S000006766	tRNA_gene		tV(AAC)O			chromosome 15	L000003715	15	663885	663812	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000032969	noncoding_exon					tV(AAC)O		15	663885	663812	C		2011-02-03	2000-05-19	
-S000007163	long_terminal_repeat		YORCdelta15			chromosome 15		15	664324	664003	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007172	long_terminal_repeat		YORWdelta16			chromosome 15		15	664325	664469	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007173	long_terminal_repeat		YORWdelta17			chromosome 15		15	664813	665145	W		2011-02-03	2000-05-19	Ty2 LTR
-S000005703	ORF	Verified	YOR177C	MPC54		chromosome 15		15	667179	665785	C		2011-02-03	1996-07-31	Component of the meiotic outer plaque; a membrane-organizing center which is assembled on the cytoplasmic face of the spindle pole body during meiosis II and triggers the formation of the prospore membrane; potential Cdc28p substrate
-S000036281	CDS					YOR177C		15	667179	665785	C		2011-02-03	1996-07-31	
-S000005704	ORF	Verified	YOR178C	GAC1	protein phosphatase regulator GAC1	chromosome 15	L000000657	15	670241	667860	C	113	2011-02-03	1996-07-31	Regulatory subunit for Glc7p type-1 protein phosphatase (PP1); tethers Glc7p to Gsy2p glycogen synthase, binds Hsf1p heat shock transcription factor, required for induction of some HSF-regulated genes under heat shock; GAC1 has a paralog, PIG1, that arose from the whole genome duplication
-S000036360	CDS					YOR178C		15	670241	667860	C		2011-02-03	1996-07-31	
-S000005705	ORF	Verified	YOR179C	SYC1	cleavage polyadenylation factor subunit SYC1	chromosome 15		15	672411	671845	C		2011-02-03	1996-07-31	Subunit of the APT subcomplex of cleavage and polyadenylation factor; may have a role in 3' end formation of both polyadenylated and non-polyadenylated RNAs; SYC1 has a paralog, YSH1, that arose from the whole genome duplication
-S000030078	CDS					YOR179C		15	672411	671845	C		2011-02-03	1996-07-31	
-S000005706	ORF	Verified	YOR180C	DCI1	putative dodecenoyl-CoA isomerase DCI1|ECI2	chromosome 15	L000004175	15	675167	674352	C		2011-02-03	1996-07-31	Peroxisomal protein; identification as a delta(3,5)-delta(2,4)-dienoyl-CoA isomerase involved in fatty acid metabolism is disputed; DCI1 has a paralog, ECI1, that arose from the whole genome duplication
-S000037854	CDS					YOR180C		15	675167	674352	C		2011-02-03	1996-07-31	
-S000005707	ORF	Verified	YOR181W	LAS17	actin-binding protein LAS17|BEE1	chromosome 15	L000003068|L000003581	15	675939	677840	W		2011-02-03	1996-07-31	Actin assembly factor; C-terminal WCA domain activates Arp2/3 complex-mediated nucleation of branched actin filaments, polyproline domain nucleates actin filaments independent of Arp2/3; mutants are defective in endocytosis, bud site selection, cytokinesis; human homolog WAS (Wiskott-Aldrich Syndrome) implicated in severe immunodeficiency; human WAS complements yeast null mutant, but only in presence of WIPF1, which mediates localization of WAS to cortical patches
-S000029943	CDS					YOR181W		15	675939	677840	W		2011-02-03	1996-07-31	
-S000005708	ORF	Verified	YOR182C	RPS30B	eS30|ribosomal 40S subunit protein S30B|S30e|S30B	chromosome 15	L000003497	15	678793	678191	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S30, no bacterial homolog; RPS30B has a paralog, RPS30A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000030004	CDS					YOR182C		15	678379	678191	C		2011-02-03	1996-07-31	
-S000030003	CDS					YOR182C		15	678793	678791	C		2011-02-03	1996-07-31	
-S000030005	intron					YOR182C		15	678790	678380	C		2011-02-03	1996-07-31	
-S000005709	ORF	Uncharacterized	YOR183W	FYV12		chromosome 15		15	678872	679261	W		2011-02-03	1996-07-31	Protein of unknown function; required for survival upon exposure to K1 killer toxin
-S000031055	CDS					YOR183W		15	678872	679261	W		2011-02-03	1996-07-31	
-S000005710	ORF	Verified	YOR184W	SER1	O-phospho-L-serine:2-oxoglutarate transaminase|ADE9	chromosome 15	L000001865	15	679357	680544	W	98.2	2011-02-03	1996-07-31	3-phosphoserine aminotransferase; catalyzes the formation of phosphoserine from 3-phosphohydroxypyruvate, required for serine and glycine biosynthesis; regulated by the general control of amino acid biosynthesis mediated by Gcn4p; protein abundance increases in response to DNA replication stress
-S000031176	CDS					YOR184W		15	679357	680544	W		2011-02-03	1996-07-31	
-S000007300	snoRNA_gene		snR36	SNR36		chromosome 15	L000001974	15	680866	680685	C		2011-02-03	2000-05-19|2007-05-10	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of small subunit (SSU) rRNA at position U1187
-S000036766	noncoding_exon					snR36		15	680866	680685	C		2011-02-03	2000-05-19|2007-05-10	
-S000005711	ORF	Verified	YOR185C	GSP2	Ran GTPase GSP2|CNR2	chromosome 15	L000000737	15	682106	681444	C	98.6	2011-02-03	1996-07-31	GTP binding protein (mammalian Ranp homolog); involved in the maintenance of nuclear organization, RNA processing and transport; interacts with Kap121p, Kap123p and Pdr6p (karyophilin betas); not required for viability; protein abundance increases in response to DNA replication stress; GSP2 has a paralog, GSP1, that arose from the whole genome duplication
-S000031246	CDS					YOR185C		15	682106	681444	C		2011-02-03	1996-07-31	
-S000005712	ORF	Uncharacterized	YOR186W			chromosome 15		15	683111	683545	W		2011-02-03	1996-07-31	Putative protein of unknown function; proper regulation of expression during heat stress is sphingolipid-dependent; mCherry fusion protein localizes to the vacuole; YOR186W has a paralog, YLR297W, that arose from the whole genome duplication
-S000032297	CDS					YOR186W		15	683111	683545	W		2011-02-03	1996-07-31	
-S000028715	ORF	Dubious	YOR186C-A			chromosome 15		15	683538	683329	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032684	CDS					YOR186C-A		15	683538	683329	C		2011-02-03	2003-07-29	
-S000005713	ORF	Verified	YOR187W	TUF1	translation elongation factor Tu|tufM	chromosome 15	L000002390	15	684030	685343	W		2011-02-03	1996-07-31	Mitochondrial translation elongation factor Tu (EF-Tu); involved in fundamental pathway of mtDNA homeostasis; comprises both GTPase and guanine nucleotide exchange factor activities, while these activities are found in separate proteins in S. pombe and humans; rare mutations in human mitochondrial elongation factor Tu (EFTu) associated with severe lactic acidosis, rapidly progressive fatal encephalopathy, severe infantile macrocystic leukodystrophy with micropolygyria
-S000032398	CDS					YOR187W		15	684030	685343	W		2011-02-03	1996-07-31	
-S000005714	ORF	Verified	YOR188W	MSB1		chromosome 15	L000001184	15	685767	689180	W	103	2011-02-03	1996-07-31	Protein of unknown function; may be involved in positive regulation of 1,3-beta-glucan synthesis and the Pkc1p-MAPK pathway; multicopy suppressor of temperature-sensitive mutations in CDC24 and CDC42, and of mutations in BEM4; potential Cdc28p substrate; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000032501	CDS					YOR188W		15	685767	689180	W		2011-02-03	1996-07-31	
-S000005715	ORF	Verified	YOR189W	IES4		chromosome 15		15	689624	689974	W		2011-02-03	1996-07-31	Component of the INO80 chromatiin remodeling complex; target of the Mec1p/Tel1p DNA damage signaling pathway; proposed to link chromatin remodeling to replication checkpoint responses
-S000034540	CDS					YOR189W		15	689624	689974	W		2011-02-03	1996-07-31	
-S000005716	ORF	Verified	YOR190W	SPR1	glucan 1,3-beta-glucosidase|SSG1	chromosome 15	L000002020|L000002083	15	690695	692032	W		2011-02-03	1996-07-31	Sporulation-specific exo-1,3-beta-glucanase; contributes to ascospore thermoresistance; SPR1 has a paralog, EXG1, that arose from the whole genome duplication
-S000033255	CDS					YOR190W		15	690695	692032	W		2011-02-03	1996-07-31	
-S000005717	ORF	Verified	YOR191W	ULS1	translocase ULS1|RIS1|TID4|DIS1	chromosome 15	L000004381	15	692475	697334	W		2011-02-03	1996-07-31	Swi2/Snf2-related translocase, SUMO-Targeted Ubiquitin Ligase (STUbL); required for maintenance of NHEJ inhibition at telomeres; functions at telomeres to translocate and ubiquitinylate poly-sumoylated Rap1p for proteosomal degradation; plays role in antagonizing silencing during mating-type switching; only known STUbL with a translocase activity; contains RING finger domain; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000033303	CDS					YOR191W		15	692475	697334	W		2011-02-03	1996-07-31	
-S000005718	ORF	Verified	YOR192C	THI72	thiamine transporter	chromosome 15		15	700567	698768	C		2011-02-03	1996-07-31	Transporter of thiamine or related compound; contributes to uptake of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranoside (acadesine); shares sequence similarity with Thi7p
-S000034124	CDS					YOR192C		15	700567	698768	C		2011-02-03	1996-07-31	
-S000007164	long_terminal_repeat		YORCdelta18			chromosome 15		15	703582	703429	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007174	long_terminal_repeat		YORWdelta19			chromosome 15		15	703612	703762	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007180	long_terminal_repeat		YORWtau2			chromosome 15		15	703772	704062	W		2011-02-03	2000-05-19	Ty4 LTR
-S000028857	ORF	Uncharacterized	YOR192C-C			chromosome 15		15	704224	703988	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034570	CDS					YOR192C-C		15	704224	703988	C		2011-02-03	2003-07-29	
-S000007165	long_terminal_repeat		YORCdelta20			chromosome 15		15	704395	704063	C		2011-02-03	2000-05-19	Ty2 LTR
-S000007354	transposable_element_gene		YOR192C-B		gag-pol fusion protein	chromosome 15	S000029019	15	709732	704419	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000034414	CDS					YOR192C-B		15	708438	704419	C		2011-02-03	1999-07-17	
-S000034413	CDS					YOR192C-B		15	709732	708440	C		2011-02-03	1999-07-17	
-S000034415	plus_1_translational_frameshift					YOR192C-B		15	708439	708439	C		2011-02-03	1999-07-17	
-S000007353	transposable_element_gene		YOR192C-A		gag protein	chromosome 15		15	709732	708416	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000034406	CDS					YOR192C-A		15	709732	708416	C		2011-02-03	1999-07-17	
-S000007168	LTR_retrotransposon		YORCTy2-1		Ty2	chromosome 15		15	710023	704063	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007166	long_terminal_repeat		YORCdelta21			chromosome 15		15	710023	709691	C		2011-02-03	2000-05-19	Ty2 LTR
-S000007181	long_terminal_repeat		YORWtau3			chromosome 15		15	710024	710107	W		2011-02-03	2000-05-19	Ty4 LTR
-S000006665	tRNA_gene		tM(CAU)O1	IMT1		chromosome 15	L000003711	15	710201	710272	W		2011-02-03	2000-05-19	Methionine initiator tRNA (tRNA-Met); predicted by tRNAscan-SE analysis; one of four initiator methionine tRNAs in yeast that are functional for translation
-S000032163	noncoding_exon					tM(CAU)O1		15	710201	710272	W		2011-02-03	2000-05-19	
-S000005719	ORF	Verified	YOR193W	PEX27		chromosome 15		15	710446	711576	W		2011-02-03	1996-07-31	Peripheral peroxisomal membrane protein; involved in controlling peroxisome size and number, interacts with Pex25p; PEX27 has a paralog, PEX25, that arose from the whole genome duplication
-S000034339	CDS					YOR193W		15	710446	711576	W		2011-02-03	1996-07-31	
-S000005720	ORF	Verified	YOR194C	TOA1	transcription initiation factor IIA large subunit	chromosome 15	L000002316	15	712543	711683	C		2011-02-03	1996-07-31	TFIIA large subunit; involved in transcriptional activation, acts as antirepressor or as coactivator; required, along with Toa2p, for ribosomal protein gene transcription in vivo; homologous to largest and second largest subunits of human and Drosophila TFIIA
-S000034366	CDS					YOR194C		15	712543	711683	C		2011-02-03	1996-07-31	
-S000005721	ORF	Verified	YOR195W	SLK19		chromosome 15	L000004340	15	712866	715331	W		2011-02-03	1996-07-31	Kinetochore-associated protein; required for chromosome segregation and kinetochore clustering; required for normal segregation of chromosomes in meiosis and mitosis; component of the FEAR regulatory network, which promotes Cdc14p release from the nucleolus during anaphase; potential Cdc28p substrate
-S000035480	CDS					YOR195W		15	712866	715331	W		2011-02-03	1996-07-31	
-S000005722	ORF	Verified	YOR196C	LIP5	putative lipoate synthase	chromosome 15	L000002613	15	716837	715593	C		2011-02-03	1996-07-31	Protein involved in biosynthesis of the coenzyme lipoic acid; has similarity to E. coli lipoic acid synthase
-S000035507	CDS					YOR196C		15	716837	715593	C		2011-02-03	1996-07-31	
-S000005723	ORF	Verified	YOR197W	MCA1	Ca(2+)-dependent cysteine protease MCA1|YCA1	chromosome 15		15	717086	718384	W		2011-02-03	1996-07-31|2006-05-11	Ca2+-dependent cysteine protease; may cleave specific substrates during the stress response; regulates apoptosis upon H2O2 treatment; required for clearance of insoluble protein aggregates during normal growth; implicated in cell cycle dynamics and lifespan extension; undergoes autocatalytic processing; similar to mammalian metacaspases, but exists as a monomer due to an extra pair of anti-parallel beta-strands that block potential dimerization
-S000035631	CDS					YOR197W		15	717086	718384	W		2011-02-03	1996-07-31|2006-05-11	
-S000005724	ORF	Verified	YOR198C	BFR1		chromosome 15	L000000174	15	720065	718653	C		2011-02-03	1996-07-31	Component of mRNP complexes associated with polyribosomes; involved in localization of mRNAs to P bodies; implicated in secretion and nuclear segregation; multicopy suppressor of BFA (Brefeldin A) sensitivity
-S000036502	CDS					YOR198C		15	720065	718653	C		2011-02-03	1996-07-31	
-S000005725	ORF	Dubious	YOR199W			chromosome 15		15	720181	720510	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036654	CDS					YOR199W		15	720181	720510	W		2011-02-03	1996-07-31	
-S000005726	ORF	Dubious	YOR200W			chromosome 15		15	720417	720815	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MRM1/YOR201c
-S000036053	CDS					YOR200W		15	720417	720815	W		2011-02-03	1996-07-31	
-S000005727	ORF	Verified	YOR201C	MRM1	PET56	chromosome 15	L000001392	15	721708	720470	C	112	2011-02-03	1996-07-31	Ribose methyltransferase; modifies a functionally critical, conserved nucleotide in mitochondrial 21S rRNA
-S000036099	CDS					YOR201C		15	721708	720470	C		2011-02-03	1996-07-31	
-S000005728	ORF	Verified	YOR202W	HIS3	imidazoleglycerol-phosphate dehydratase HIS3|HIS8|HIS10	chromosome 15	L000000780|S000029212|L000000785	15	721946	722608	W	112	2011-02-03	1996-07-31	Imidazoleglycerol-phosphate dehydratase; catalyzes the sixth step in histidine biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts; transcription is regulated by general amino acid control via Gcn4p
-S000029880	CDS					YOR202W		15	721946	722608	W		2011-02-03	1996-07-31	
-S000005729	ORF	Dubious	YOR203W			chromosome 15		15	722565	722918	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 5' end of essential DED1 gene required for translation initiation
-S000031781	CDS					YOR203W		15	722565	722918	W		2011-02-03	1996-07-31	
-S000005730	ORF	Verified	YOR204W	DED1	DEAD-box ATP-dependent RNA helicase DED1|SPP81	chromosome 15	L000000500	15	722911	724725	W	114	2011-02-03	1996-07-31	ATP-dependent DEAD (Asp-Glu-Ala-Asp)-box RNA helicase; required for translation initiation of all yeast mRNAs; binds to mRNA cap-associated factors, and binding stimulates Ded1p RNA-dependent ATPase activity; mutation in human homolog DBY is associated with male infertility; human homolog DDX3X complements ded1 null mutation; DED1 has a paralog, DBP1, that arose from the whole genome duplication
-S000031924	CDS					YOR204W		15	722911	724725	W		2011-02-03	1996-07-31	
-S000005731	ORF	Verified	YOR205C	GEP3	MTG3|AIM40|LRC5|FMP38	chromosome 15		15	727234	725564	C		2011-02-03	1996-07-31	Protein required for mitochondrial ribosome small subunit biogenesis; null mutant is defective in respiration and in maturation of 15S rRNA; protein is localized to the mitochondrial inner membrane; null mutant interacts synthetically with prohibitin (Phb1p)
-S000031991	CDS					YOR205C		15	727234	725564	C		2011-02-03	1996-07-31	
-S000005732	ORF	Verified	YOR206W	NOC2	mRNA-binding ribosome synthesis protein NOC2	chromosome 15		15	727512	729644	W		2011-02-03	1996-07-31	Protein involved in ribosome biogenesis; forms a nucleolar complex with Mak21p that binds to 90S and 66S pre-ribosomes; forms a nuclear complex with Noc3p that binds to 66S pre-ribosomes; both complexes mediate intranuclear transport of ribosomal precursors; acts as part of a Mak21p-Noc2p-Rrp5p module that associates with nascent pre-rRNA during transcription and has a role in bigenesis of the large ribosomal subunit
-S000037497	CDS					YOR206W		15	727512	729644	W		2011-02-03	1996-07-31	
-S000118491	ARS		ARS1521		ARSXV-730	chromosome 15		15	729740	729969			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178185	ARS_consensus_sequence					ARS1521		15	729795	729811	W		2014-11-18	2014-11-18	
-S000005733	ORF	Verified	YOR207C	RET1	DNA-directed RNA polymerase III core subunit RET1|C128|RPC128|RPC2|PDS2	chromosome 15	L000001614	15	733457	730008	C	117	2011-02-03	1996-07-31	Second-largest subunit of RNA polymerase III; RNA polymerase III is responsible for the transcription of tRNA and 5S RNA genes, and other low molecular weight RNAs
-S000037554	CDS					YOR207C		15	733457	730008	C		2011-02-03	1996-07-31	
-S000005734	ORF	Verified	YOR208W	PTP2	tyrosine protein phosphatase PTP2	chromosome 15	L000001526	15	733925	736177	W		2011-02-03	1996-07-31	Nuclear phosphotyrosine-specific phosphatase involved in osmosensing; involved in the inactivation of mitogen-activated protein kinase (MAPK) during osmolarity sensing; dephosporylates Hog1p MAPK and regulates its localization; with Msg5p co-regulates the calcium signaling pathway
-S000037667	CDS					YOR208W		15	733925	736177	W		2011-02-03	1996-07-31	
-S000005735	ORF	Verified	YOR209C	NPT1	nicotinate phosphoribosyltransferase	chromosome 15	L000001275	15	737726	736437	C		2011-02-03	1996-07-31	Nicotinate phosphoribosyltransferase; acts in the salvage pathway of NAD+ biosynthesis; required for silencing at rDNA and telomeres and has a role in silencing at mating-type loci; localized to the nucleus
-S000030426	CDS					YOR209C		15	737726	736437	C		2011-02-03	1996-07-31	
-S000005736	ORF	Verified	YOR210W	RPB10	DNA-directed RNA polymerase core subunit RPB10|ABC10-beta	chromosome 15	L000001684	15	738320	738532	W		2011-02-03	1996-07-31	RNA polymerase subunit ABC10-beta; common to RNA polymerases I, II, and III
-S000037369	CDS					YOR210W		15	738320	738532	W		2011-02-03	1996-07-31	
-S000005737	ORF	Verified	YOR211C	MGM1	dynamin-related GTPase MGM1|MNA1	chromosome 15	L000001103	15	741569	738924	C	123	2011-02-03	1996-07-31|2006-10-03	Mitochondrial GTPase, present in complex with Ugo1p and Fzo1p; required for mitochondrial morphology, fusion, and genome maintenance; promotes membrane bending; exists as long and short form with different distributions; ratio of long to short forms is regulated by Psd1p; homolog of human OPA1 involved in autosomal dominant optic atrophy
-S000037397	CDS					YOR211C		15	741569	738924	C		2011-02-03	1996-07-31|2006-10-03	
-S000005738	ORF	Verified	YOR212W	STE4	G protein subunit beta|HMD2	chromosome 15	L000002114	15	742910	744181	W	124	2011-02-03	1996-07-31	G protein beta subunit; forms a dimer with Ste18p to activate mating signaling pathway, forms heterotrimer with Gpa1p and Ste18p to dampen signaling; pheromone-induced phosphorylation plays critical role in chemotropism; may recruit Rho1p to polarized growth site during mating; contains WD40 repeats
-S000030085	CDS					YOR212W		15	742910	744181	W		2011-02-03	1996-07-31	
-S000005739	ORF	Verified	YOR213C	SAS5		chromosome 15	L000004215	15	745281	744535	C		2011-02-03	1996-07-31	Subunit of the SAS complex (Sas2p, Sas4p, Sas5p); acetylates free histones and nucleosomes and regulates transcriptional silencing; stimulates Sas2p HAT activity
-S000030141	CDS					YOR213C		15	745281	744535	C		2011-02-03	1996-07-31	
-S000005740	ORF	Verified	YOR214C	SPR2		chromosome 15	S000029500|L000002021	15	746303	745593	C		2011-02-03	1996-07-31	Putative spore wall protein; expression increases during sporulation; not an essential gene; YOR214C has a paralog, SPO19, that arose from the whole genome duplication
-S000030340	CDS					YOR214C		15	746303	745593	C		2011-02-03	1996-07-31	
-S000005741	ORF	Verified	YOR215C	AIM41		chromosome 15		15	747282	746725	C		2011-02-03	1996-07-31	Protein of unknown function; the authentic protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays reduced frequency of mitochondrial genome loss
-S000033625	CDS					YOR215C		15	747282	746725	C		2011-02-03	1996-07-31	
-S000005742	ORF	Verified	YOR216C	RUD3	GRP1	chromosome 15	L000004185	15	748979	747525	C		2011-02-03	1996-07-31	Golgi matrix protein; involved in the structural organization of the cis-Golgi; interacts genetically with COG3 and USO1
-S000033741	CDS					YOR216C		15	748979	747525	C		2011-02-03	1996-07-31	
-S000005743	ORF	Verified	YOR217W	RFC1	replication factor C subunit 1|CDC44	chromosome 15	L000000278	15	749301	751886	W		2011-02-03	1996-07-31	Subunit of heteropentameric Replication factor C (RF-C); RF-C is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon
-S000033941	CDS					YOR217W		15	749301	751886	W		2011-02-03	1996-07-31	
-S000005744	ORF	Dubious	YOR218C			chromosome 15		15	751895	751476	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene RFC1/YOR217W
-S000033989	CDS					YOR218C		15	751895	751476	C		2011-02-03	1996-07-31	
-S000005745	ORF	Verified	YOR219C	STE13	YCI1	chromosome 15	L000002120	15	755009	752214	C	129	2011-02-03	1996-07-31	Dipeptidyl aminopeptidase; Golgi integral membrane protein that cleaves on the carboxyl side of repeating -X-Ala- sequences, required for maturation of alpha factor, transcription is induced by a-factor
-S000034857	CDS					YOR219C		15	755009	752214	C		2011-02-03	1996-07-31	
-S000005746	ORF	Verified	YOR220W	RCN2	WSP1	chromosome 15		15	755328	756125	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; phosphorylated in response to alpha factor; protein abundance increases in response to DNA replication stress
-S000033604	CDS					YOR220W		15	755328	756125	W		2011-02-03	1996-07-31	
-S000005747	ORF	Verified	YOR221C	MCT1	[acyl-carrier-protein] S-malonyltransferase	chromosome 15		15	757558	756476	C		2011-02-03	1996-07-31|2005-12-01	Predicted malonyl-CoA:ACP transferase; putative component of a type-II mitochondrial fatty acid synthase that produces intermediates for phospholipid remodeling
-S000034462	CDS					YOR221C		15	757558	756476	C		2011-02-03	1996-07-31|2005-12-01	
-S000005748	ORF	Verified	YOR222W	ODC2	mitochondrial 2-oxodicarboxylate carrier	chromosome 15		15	758330	759253	W		2011-02-03	1996-07-31	Mitochondrial inner membrane transporter; 2-oxodicarboxylate transporter, exports 2-oxoadipate and 2-oxoglutarate from the mitochondrial matrix to the cytosol for use in lysine and glutamate biosynthesis and in lysine catabolism; ODC2 has a paralog, ODC1, that arose from the whole genome duplication
-S000034614	CDS					YOR222W		15	758330	759253	W		2011-02-03	1996-07-31	
-S000007299	snoRNA_gene		snR35	SNR35		chromosome 15	L000001973	15	759529	759326	C		2011-02-03	2000-05-19|2007-05-10	H/ACA box small nucleolar RNA (snoRNA); predicted to guide pseudouridylation of small subunit (SSU) rRNA at position 1191
-S000036764	noncoding_exon					snR35		15	759529	759326	C		2011-02-03	2000-05-19|2007-05-10	
-S000005749	ORF	Verified	YOR223W	DSC3		chromosome 15		15	759782	760660	W		2011-02-03	1996-07-31	Subunit of the DSC ubiquitin ligase complex; protein of unknown function that localizes to the ER and vacuole lumen; overexpression affects endocytic protein trafficking; ortholog of fission yeast dsc3
-S000034765	CDS					YOR223W		15	759782	760660	W		2011-02-03	1996-07-31	
-S000005750	ORF	Verified	YOR224C	RPB8	DNA-directed RNA polymerase core subunit RPB8|ABC14.5	chromosome 15	L000001682	15	761265	760825	C		2011-02-03	1996-07-31	RNA polymerase subunit ABC14.5; common to RNA polymerases I, II, and III
-S000035658	CDS					YOR224C		15	761265	760825	C		2011-02-03	1996-07-31	
-S000005751	ORF	Dubious	YOR225W			chromosome 15		15	761392	761721	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035836	CDS					YOR225W		15	761392	761721	W		2011-02-03	1996-07-31	
-S000005752	ORF	Verified	YOR226C	ISU2	putative iron-binding protein ISU2|NUA2	chromosome 15	L000004770	15	762084	761614	C		2011-02-03	1996-07-31	Mitochondrial protein required for iron-sulfur protein synthesis; performs scaffolding function during Fe/S cluster assembly; involved in Fe-S cluster assembly for both mitochondrial and cytosolic proteins; protein abundance increases under DNA replication stress; ISU2 has a paralog, ISU1, that arose from the whole genome duplication; isu1 isu2 double mutant is inviable; human homolog ISCU implicated in mitochondrial myopathy, can complement isu1 isu2 double mutant
-S000035907	CDS					YOR226C		15	762084	761614	C		2011-02-03	1996-07-31	
-S000005753	ORF	Verified	YOR227W	HER1		chromosome 15	S000124018	15	762825	766565	W		2011-02-03	1996-07-31	Protein of unknown function; required for proliferation or remodeling of the ER that is caused by overexpression of Hmg2p; may interact with ribosomes, based on co-purification experiments; HER1 has a paralog, GIP3, that arose from the whole genome duplication
-S000037838	CDS					YOR227W		15	762825	766565	W		2011-02-03	1996-07-31	
-S000118492	ARS		ARS1523		ARSXV-767	chromosome 15		15	766605	766788			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000005754	ORF	Verified	YOR228C	MCP1		chromosome 15		15	767777	766869	C		2011-02-03	1996-07-31	Mitochondrial protein of unknown function involved in lipid homeostasis; integral membrane protein that localizes to the mitochondrial outer membrane; involved in mitochondrial morphology; interacts genetically with MDM10, and other members of the ERMES complex; contains five predicted transmembrane domains
-S000037878	CDS					YOR228C		15	767777	766869	C		2011-02-03	1996-07-31	
-S000077078	matrix_attachment_site		ETC7	ETC7		chromosome 15		15	768106	768128	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; located between divergently transcribed genes MCP1 and WTM2
-S000005755	ORF	Verified	YOR229W	WTM2	transcriptional modulator	chromosome 15	L000003516	15	768409	769812	W		2011-02-03	1996-07-31	Transcriptional modulator; involved in regulation of meiosis, silencing, and expression of RNR genes; involved in response to replication stress; contains WD repeats; relocalizes to the cytosol in response to hypoxia; WTM2 has a paralog, UME1, that arose from the whole genome duplication
-S000029954	CDS					YOR229W		15	768409	769812	W		2011-02-03	1996-07-31	
-S000005756	ORF	Verified	YOR230W	WTM1	transcriptional modulator	chromosome 15	L000003515	15	770800	772113	W		2011-02-03	1996-07-31	Transcriptional modulator; involved in regulation of meiosis, silencing, and expression of RNR genes; required for nuclear localization of the ribonucleotide reductase small subunit Rnr2p and Rnr4p; contains WD repeats
-S000037695	CDS					YOR230W		15	770800	772113	W		2011-02-03	1996-07-31	
-S000005757	ORF	Verified	YOR231W	MKK1	mitogen-activated protein kinase kinase MKK1|SSP32	chromosome 15	L000001117	15	772601	774127	W		2011-02-03	1996-07-31	MAPKK involved in the protein kinase C signaling pathway; involved in control of cell integrity; upon activation by Bck1p phosphorylates downstream target, Slt2p; functionally redundant with Mkk2p; MKK1 has a paralog, MKK2, that arose from the whole genome duplication
-S000037755	CDS					YOR231W		15	772601	774127	W		2011-02-03	1996-07-31	
-S000028716	ORF	Dubious	YOR231C-A			chromosome 15		15	773363	773163	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032687	CDS					YOR231C-A		15	773363	773163	C		2011-02-03	2003-07-29	
-S000005758	ORF	Verified	YOR232W	MGE1	GRPE|YGE1	chromosome 15	L000000729|L000002638|L000001101	15	774573	775259	W		2011-02-03	1996-07-31	Mitochondrial matrix cochaperone; nucleotide release factor for Ssc1p in protein translocation and folding; also acts as cochaperone for Ssq1p in folding of Fe-S cluster proteins; acts as oxidative sensor to regulate mitochondrial Ssc1p; in presence of oxidative stress, dimeric Mge1p becomes a monomer and unable to regulate Ssc1p function; homolog of E. coli GrpE and human Mge1 (GRPEL1), which also responds to oxidative stress
-S000030589	CDS					YOR232W		15	774573	775259	W		2011-02-03	1996-07-31	
-S000005759	ORF	Verified	YOR233W	KIN4	putative serine/threonine protein kinase KIN4|KIN3|KIN31	chromosome 15	L000000904	15	775846	778248	W		2011-02-03	1996-07-31	Serine/threonine protein kinase; inhibits the mitotic exit network (MEN) when the spindle position checkpoint is activated; localized asymmetrically to mother cell cortex, spindle pole body and bud neck; KIN4 has a paralog, FRK1, that arose from the whole genome duplication
-S000030703	CDS					YOR233W		15	775846	778248	W		2011-02-03	1996-07-31	
-S000005760	ORF	Verified	YOR234C	RPL33B	eL33|ribosomal 60S subunit protein L33B|L33e|rp47|Yl37|L37B|L33B|RPL37B	chromosome 15	L000001729	15	779405	778555	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L33B; rpl33b null mutant exhibits normal growth while rpl33a rpl33b double null mutant is inviable; homologous to mammalian ribosomal protein L35A, no bacterial homolog; RPL33B has a paralog, RPL33A, that arose from the whole genome duplication
-S000030771	CDS					YOR234C		15	778859	778555	C		2011-02-03	1996-07-31	
-S000030770	CDS					YOR234C		15	779405	779387	C		2011-02-03	1996-07-31	
-S000030772	intron					YOR234C		15	779386	778860	C		2011-02-03	1996-07-31	
-S000005761	ORF	Dubious	YOR235W	IRC13		chromosome 15		15	779870	780184	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant displays increased levels of spontaneous Rad52 foci
-S000031752	CDS					YOR235W		15	779870	780184	W		2011-02-03	1996-07-31	
-S000007294	snoRNA_gene		snR17a	SNR17A	U3	chromosome 15	L000001966	15	780107	780596	W	136	2011-02-03	2000-05-19	Small nucleolar RNA (snoRNA) U3; part of Small ribosomal SubUnit (SSU) processosome; SNR17B also encodes snoRNA U3
-S000030175	intron					snR17a		15	780121	780277	W		2011-02-03	2000-05-19	
-S000030173	noncoding_exon					snR17a		15	780107	780120	W		2011-02-03	2000-05-19	
-S000030174	noncoding_exon					snR17a		15	780278	780596	W		2011-02-03	2000-05-19	
-S000005762	ORF	Verified	YOR236W	DFR1	dihydrofolate reductase	chromosome 15	L000000503	15	780906	781541	W	135	2011-02-03	1996-07-31	Dihydrofolate reductase involved in tetrahydrofolate biosynthesis; required for respiratory metabolism; mutation is functionally complemented by human DHFR
-S000031908	CDS					YOR236W		15	780906	781541	W		2011-02-03	1996-07-31	
-S000005763	ORF	Verified	YOR237W	HES1	oxysterol-binding protein related protein HES1|OSH5	chromosome 15	L000000767	15	781994	783298	W		2011-02-03	1996-07-31	Protein implicated in the regulation of ergosterol biosynthesis; one of a seven member gene family with a common essential function and non-essential unique functions; similar to human oxysterol binding protein (OSBP); SWAT-GFP and mCherry fusion proteins localize to the bud neck and vacuolar membrane; HES1 has a paralog, KES1, that arose from the whole genome duplication
-S000032069	CDS					YOR237W		15	781994	783298	W		2011-02-03	1996-07-31	
-S000118493	ARS		ARS1524		ARSXV-783	chromosome 15		15	783345	783563			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178186	ARS_consensus_sequence					ARS1524		15	783386	783402	W		2014-11-18	2014-11-18	
-S000005764	ORF	Uncharacterized	YOR238W			chromosome 15		15	783677	784588	W		2011-02-03	2003-09-22|1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000034067	CDS					YOR238W		15	783677	784588	W		2011-02-03	2003-09-22|1996-07-31	
-S000005765	ORF	Verified	YOR239W	ABP140	TRM140|YOR240W	chromosome 15		15	784857	786744	W		2011-02-03	2000-08-14|1996-07-31	AdoMet-dependent tRNA methyltransferase and actin binding protein; C-terminal domain is responsible for 3-methylcytidine modification of residue 32 of the tRNA anticodon loop of tRNA-Thr and tRNA-Ser and contains an S-adenosylmethionine (AdoMet) binding motif; N-terminal actin binding sequence interacts with actin filaments and localizes to actin patches and cables; N- and C-terminal domains are encoded in separate ORFs that are translated into one protein via a +1 frameshift
-S000034147	CDS					YOR239W		15	784857	785687	W		2011-02-03	2000-08-14|1996-07-31	
-S000034148	CDS					YOR239W		15	785689	786744	W		2011-02-03	2000-08-14	
-S000034149	plus_1_translational_frameshift					YOR239W		15	785688	785688	W		2011-02-03	2000-08-14	
-S000005767	ORF	Verified	YOR241W	MET7	tetrahydrofolate synthase|MET23	chromosome 15	L000001082	15	786995	788641	W	136	2011-02-03	1996-07-31	Folylpolyglutamate synthetase; catalyzes extension of the glutamate chains of the folate coenzymes, required for methionine synthesis and for maintenance of mitochondrial DNA; protein abundance increases in response to DNA replication stress
-S000033075	CDS					YOR241W		15	786995	788641	W		2011-02-03	1996-07-31	
-S000005768	ORF	Verified	YOR242C	SSP2		chromosome 15	L000004585	15	789857	788742	C		2011-02-03	1996-07-31	Sporulation specific protein that localizes to the spore wall; required for sporulation at a point after meiosis II and during spore wall formation; expression controlled by a tightly regulated middle-meiotic promoter that is activated by Ndt80p; translation of SSP2 mRNA is delayed, such that the mRNA is present as nuclear divisions are taking place but is not engaged by ribosomes until relatively late in meiotic development
-S000033690	CDS					YOR242C		15	789857	788742	C		2011-02-03	1996-07-31	
-S000005769	ORF	Verified	YOR243C	PUS7	pseudouridine synthase PUS7	chromosome 15		15	792241	790211	C		2011-02-03	1996-07-31	Pseudouridine synthase; catalyzes pseudouridylation at positions 35 and 56 in U2 snRNA, position 50 in 5S rRNA, position 13 in cytoplasmic tRNAs, and position 35 in pre-tRNA(Tyr); also pseudouridylates some mRNAs; relocates from nucleus to cytoplasm during heat shock and differentially modifies some mRNAs during heat shock; conserved in archaea, vertebrates, and some bacteria
-S000033806	CDS					YOR243C		15	792241	790211	C		2011-02-03	1996-07-31	
-S000005770	ORF	Verified	YOR244W	ESA1	NuA4 histone acetyltransferase complex catalytic subunit ESA1|KAT5|TAS1	chromosome 15	L000003952	15	792531	793868	W		2011-02-03	1996-07-31	Catalytic subunit of the histone acetyltransferase complex (NuA4); acetylates four conserved internal lysines of histone H4 N-terminal tail and can acetylate histone H2A; master regulator of cellular acetylation balance; required for cell cycle progression and transcriptional silencing at the rDNA locus and regulation of autophagy; human ortholog TIP60/KAT5 is implicated in cancer and other diseases, functionally complements lethality of the esa1 null mutation
-S000033978	CDS					YOR244W		15	792531	793868	W		2011-02-03	1996-07-31	
-S000005771	ORF	Verified	YOR245C	DGA1	diacylglycerol O-acyltransferase	chromosome 15		15	795332	794076	C		2011-02-03	1996-07-31	Diacylglycerol acyltransferase; catalyzes the terminal step of triacylglycerol (TAG) formation, acylates diacylglycerol using acyl-CoA as an acyl donor; Lro1p and Dga1p can O-acylate ceramides; localized to lipid particles
-S000034041	CDS					YOR245C		15	795332	794076	C		2011-02-03	1996-07-31	
-S000005772	ORF	Verified	YOR246C	ENV9		chromosome 15		15	796793	795801	C		2011-02-03	1996-07-31	Protein proposed to be involved in vacuolar functions; mutant shows defect in CPY processing and defects in vacuolar morphology; has similarity to oxidoreductases, found in lipid particles; required for replication of Brome mosaic virus in S. cerevisiae, a model system for studying replication of positive-strand RNA viruses in their natural hosts
-S000034930	CDS					YOR246C		15	796793	795801	C		2011-02-03	1996-07-31	
-S000005773	ORF	Verified	YOR247W	SRL1		chromosome 15	L000004669	15	797676	798308	W		2011-02-03	1996-07-31	Mannoprotein that exhibits a tight association with the cell wall; required for cell wall stability in the absence of GPI-anchored mannoproteins; has a high serine-threonine content; expression is induced in cell wall mutants; SRL1 has a paralog, SVS1, that arose from the whole genome duplication
-S000035223	CDS					YOR247W		15	797676	798308	W		2011-02-03	1996-07-31	
-S000005774	ORF	Dubious	YOR248W		TOS11	chromosome 15		15	798013	798315	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036109	CDS					YOR248W		15	798013	798315	W		2011-02-03	1996-07-31	
-S000005775	ORF	Verified	YOR249C	APC5	anaphase promoting complex subunit 5|RMC1	chromosome 15	L000004320	15	800731	798674	C		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; component of the platform domain of the APC/C, based on structural analysis; relative distribution to nuclear foci decreases upon DNA replication stress
-S000036169	CDS					YOR249C		15	800731	798674	C		2011-02-03	1996-07-31	
-S000005776	ORF	Verified	YOR250C	CLP1	cleavage polyadenylation factor subunit CLP1	chromosome 15	L000004201	15	802307	800970	C		2011-02-03	1996-07-31	Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; involved in both the endonucleolyitc cleavage and polyadenylation steps of mRNA 3'-end maturation and in gene looping which affects reinitiation of transcription
-S000036960	CDS					YOR250C		15	802307	800970	C		2011-02-03	1996-07-31	
-S000005777	ORF	Verified	YOR251C	TUM1	thiosulfate sulfurtransferase	chromosome 15		15	803464	802550	C		2011-02-03	1996-07-31	Rhodanese domain sulfur transferase; accepts persulfite from Nfs1p and transfers it to Uba4p in the pathway for 2-thiolation of the wobble uridine base of tRNAs; also stimulates sulfur transfer by Nfs1p; may be mitochondrially localized
-S000037035	CDS					YOR251C		15	803464	802550	C		2011-02-03	1996-07-31	
-S000005778	ORF	Verified	YOR252W	TMA16	RBF17	chromosome 15		15	803667	804203	W		2011-02-03	1996-07-31|2006-01-05	Protein of unknown function that associates with ribosomes
-S000037174	CDS					YOR252W		15	803667	804203	W		2011-02-03	1996-07-31|2006-01-05	
-S000005779	ORF	Verified	YOR253W	NAT5	peptide alpha-N-acetyltransferase subunit NAT5|NAA50|ROG2|ARD2	chromosome 15		15	804377	804907	W		2011-02-03	1996-07-31	Subunit of protein N-terminal acetyltransferase NatA; NatA is comprised of Nat1p, Ard1p, and Nat5p; N-terminally acetylates many proteins, which influences multiple processes such as the cell cycle, heat-shock resistance, mating, sporulation, and telomeric silencing
-S000029833	CDS					YOR253W		15	804377	804907	W		2011-02-03	1996-07-31	
-S000005780	ORF	Verified	YOR254C	SEC63	protein-transporting protein SEC63|PTL1	chromosome 15	L000001854|L000001269	15	807023	805032	C		2011-02-03	1996-07-31	Essential subunit of Sec63 complex; with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER; other members are Sec62p, Sec66p, and Sec72p
-S000029878	CDS					YOR254C		15	807023	805032	C		2011-02-03	1996-07-31	
-S000005781	ORF	Verified	YOR255W	OSW1		chromosome 15		15	807271	808107	W		2011-02-03	1996-07-31	Protein involved in sporulation; required for the construction of the outer spore wall layers; required for proper localization of Spo14p
-S000030954	CDS					YOR255W		15	807271	808107	W		2011-02-03	1996-07-31	
-S000005782	ORF	Verified	YOR256C	TRE2	putative zinc metalloprotease	chromosome 15		15	810683	808254	C		2006-01-05	1996-07-31|2011-02-03	Transferrin receptor-like protein; functions with Tre1p to regulate ubiquitination and vacuolar degradation of the metal transporter Smf1p; inviability of null mutant in systematic studies is due to proximity to CDC31; TRE2 has a paralog, TRE1, that arose from the whole genome duplication
-S000030990	CDS					YOR256C		15	810683	808254	C		2006-01-05	1996-07-31|2011-02-03	
-S000005783	ORF	Verified	YOR257W	CDC31	centrin|DSK1	chromosome 15	L000000269	15	811008	811493	W	147	2006-01-05	1996-07-31	Calcium-binding component of the spindle pole body (SPB) half-bridge; required for SPB duplication in mitosis and meiosis II; homolog of mammalian centrin; binds multiubiquitinated proteins and is involved in proteasomal protein degradation
-S000031201	CDS					YOR257W		15	811008	811493	W		2006-01-05	1996-07-31	
-S000005784	ORF	Verified	YOR258W	HNT3	DNA 5'-adenosine monophosphate hydrolase	chromosome 15		15	811671	812324	W		2006-01-05	1996-07-31	DNA 5' AMP hydrolase involved in DNA repair; member of the histidine triad (HIT) superfamily of nucleotide-binding proteins; homolog of Aprataxin, a Hint related protein that is mutated in individuals with ataxia with oculomotor apraxia; relative distribution to nuclear foci decreases upon DNA replication stress
-S000032199	CDS					YOR258W		15	811671	812324	W		2006-01-05	1996-07-31	
-S000005785	ORF	Verified	YOR259C	RPT4	proteasome regulatory particle base subunit RPT4|SUG2|PCS1|CRL13	chromosome 15	L000003423|L000003107|L000000413	15	813708	812395	C	143	2006-01-05	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in degradation of ubiquitinated substrates; contributes preferentially to ERAD; required for spindle pole body duplication; mainly nuclear localization
-S000032229	CDS					YOR259C		15	813708	812395	C		2006-01-05	1996-07-31	
-S000005786	ORF	Verified	YOR260W	GCD1	translation initiation factor eIF2B subunit gamma|TRA3	chromosome 15	L000000670	15	813984	815720	W	143	2006-01-05	1996-07-31	Gamma subunit of the translation initiation factor eIF2B; the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression
-S000032270	CDS					YOR260W		15	813984	815720	W		2006-01-05	1996-07-31	
-S000005787	ORF	Verified	YOR261C	RPN8	proteasome regulatory particle lid subunit RPN8	chromosome 15	L000004308	15	816931	815915	C		2006-01-05	1996-07-31	Essential non-ATPase regulatory subunit of the 26S proteasome; has similarity to the human p40 proteasomal subunit and to another S. cerevisiae regulatory subunit, Rpn11p
-S000032281	CDS					YOR261C		15	816931	815915	C		2006-01-05	1996-07-31	
-S000005788	ORF	Verified	YOR262W	GPN2	putative GTPase GPN2	chromosome 15		15	817292	818335	W		2011-02-03	1996-07-31	Putative GTPase with a role in biogenesis of RNA pol II and polIII; may be involved in assembly of RNA polymerases II and III and in their transport into the nucleus; contains a Gly-Pro-Asn motif in the G domain; similar to Npa3p and Gpn3p; highly conserved across species and homologous to human gene GPN2/ATPBD1B; required for establishment of sister chromatid cohesion
-S000033195	CDS					YOR262W		15	817292	818335	W		2011-02-03	1996-07-31	
-S000005790	ORF	Verified	YOR264W	DSE3		chromosome 15		15	818866	820158	W		2011-02-03	1996-07-31	Daughter cell-specific protein, may help establish daughter fate; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000033310	CDS					YOR264W		15	818866	820158	W		2011-02-03	1996-07-31	
-S000005789	ORF	Dubious	YOR263C			chromosome 15		15	819164	818757	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF DES3/YOR264W
-S000033220	CDS					YOR263C		15	819164	818757	C		2011-02-03	1996-07-31	
-S000005791	ORF	Verified	YOR265W	RBL2		chromosome 15	L000002910	15	820454	820774	W		2011-02-03	1996-07-31	Protein involved in microtubule morphogenesis; required for protection from excess free beta-tubulin; proposed to be involved the folding of beta-tubulin; similar to mouse beta-tubulin cofactor A; protein abundance increases in response to DNA replication stress
-S000034224	CDS					YOR265W		15	820454	820774	W		2011-02-03	1996-07-31	
-S000005792	ORF	Verified	YOR266W	PNT1		chromosome 15	L000001460	15	821023	822294	W		2011-02-03	1996-07-31	Mitochondrial integral inner membrane protein; involved in membrane insertion of C-terminus of Cox2p, interacts genetically and physically with Cox18p; deletion mutant sensitive to the anti-Pneumocystis carinii drug pentamidine
-S000034354	CDS					YOR266W		15	821023	822294	W		2011-02-03	1996-07-31	
-S000005793	ORF	Verified	YOR267C	HRK1	putative serine/threonine protein kinase HRK1	chromosome 15		15	824867	822588	C		2011-02-03	1996-07-31	Protein kinase; implicated in activation of the plasma membrane H(+)-ATPase Pma1p in response to glucose metabolism; plays a role in ion homeostasis; protein abundance increases in response to DNA replication stress
-S000034383	CDS					YOR267C		15	824867	822588	C		2011-02-03	1996-07-31	
-S000005794	ORF	Uncharacterized	YOR268C			chromosome 15		15	825932	825534	C		2011-02-03	1996-07-31	Putative protein of unknown function; sporulation is abnormal in homozygous diploid; SWAT-GFP fusion protein localizes to the nucleus; YOR268C is not an essential gene
-S000035396	CDS					YOR268C		15	825932	825534	C		2011-02-03	1996-07-31	
-S000005795	ORF	Verified	YOR269W	PAC1		chromosome 15	L000001328	15	826385	827869	W		2011-02-03	1996-07-31	Involved in nuclear migration, part of the dynein/dynactin pathway; targets dynein to microtubule tips, which is necessary for sliding of microtubules along bud cortex; serves at interface between dynein's ATPase site and its microtubule binding stalk, causing individual dynein motors to remain attached to microtubules for long periods; synthetic lethal with bni1; homolog of human LIS1, mutations in which cause the severe brain disorder lissencephaly
-S000035573	CDS					YOR269W		15	826385	827869	W		2011-02-03	1996-07-31	
-S000005796	ORF	Verified	YOR270C	VPH1	H(+)-transporting V0 sector ATPase subunit a	chromosome 15	L000002467	15	830574	828052	C		2011-02-03	1996-07-31	Subunit a of vacuolar-ATPase V0 domain; one of two isoforms (Vph1p and Stv1p); Vph1p is located in V-ATPase complexes of the vacuole while Stv1p is located in V-ATPase complexes of the Golgi and endosomes; relative distribution to the vacuolar membrane decreases upon DNA replication stress; human homolog ATP6V0A4 implicated in renal tubular acidosis, can complement yeast null mutant
-S000036537	CDS					YOR270C		15	830574	828052	C		2011-02-03	1996-07-31	
-S000005797	ORF	Uncharacterized	YOR271C	FSF1		chromosome 15		15	832042	831059	C		2011-02-03	1996-07-31	Putative protein; predicted to be an alpha-isopropylmalate carrier; belongs to the sideroblastic-associated protein family; non-tagged protein is detected in purified mitochondria; likely to play a role in iron homeostasis
-S000036610	CDS					YOR271C		15	832042	831059	C		2011-02-03	1996-07-31	
-S000006497	snoRNA_gene		snR8	SNR8		chromosome 15	L000001963	15	832332	832521	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U960 and U986
-S000034324	noncoding_exon					snR8		15	832332	832521	W		2011-02-03	2000-05-19	
-S000005798	ORF	Verified	YOR272W	YTM1	CST14	chromosome 15	L000003547|L000002998|S000029121	15	832813	834195	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; forms a complex with Nop7p and Erb1p that is required for maturation of the large ribosomal subunit; has seven C-terminal WD repeats
-S000037380	CDS					YOR272W		15	832813	834195	W		2011-02-03	1996-07-31	
-S000005799	ORF	Verified	YOR273C	TPO4		chromosome 15		15	836431	834452	C		2011-02-03	1996-07-31	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; recognizes spermine, putrescine, and spermidine; localizes to the plasma membrane
-S000037433	CDS					YOR273C		15	836431	834452	C		2011-02-03	1996-07-31	
-S000005800	ORF	Verified	YOR274W	MOD5	tRNA dimethylallyltransferase|[MOD+]	chromosome 15	L000001131	15	837674	838960	W		2011-02-03	1996-07-31	Delta 2-isopentenyl pyrophosphate:tRNA isopentenyl transferase; required for biosynthesis of isopentenyladenosine in mitochondrial and cytoplasmic tRNAs; also has a role in tRNA gene-mediated silencing; gene encodes two isozymic forms; converts to a prion form, prion conversion contributes to azole antifungal resistance by upregulating ergosterol biosynthesis; homolog of human TRIT1, a mutation in which is associated with severe combined respiratory chain defects
-S000030255	CDS					YOR274W		15	837674	838960	W		2011-02-03	1996-07-31	
-S000005801	ORF	Verified	YOR275C	RIM20		chromosome 15		15	841069	839084	C		2011-02-03	1996-07-31	Protein involved in proteolytic activation of Rim101p; part of response to alkaline pH; PalA/AIP1/Alix family member; interaction with the ESCRT-III subunit Snf7p suggests a relationship between pH response and multivesicular body formation
-S000030312	CDS					YOR275C		15	841069	839084	C		2011-02-03	1996-07-31	
-S000005802	ORF	Verified	YOR276W	CAF20	p20|CAP20|CAF2	chromosome 15	L000000208|L000003291	15	841333	841818	W		2011-02-03	1996-07-31	Phosphoprotein of the mRNA cap-binding complex; involved in translational control; repressor of cap-dependent translation initiation; competes with eIF4G for binding to eIF4E
-S000030543	CDS					YOR276W		15	841333	841818	W		2011-02-03	1996-07-31	
-S000005803	ORF	Dubious	YOR277C			chromosome 15		15	841823	841515	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified gene CAF20
-S000031370	CDS					YOR277C		15	841823	841515	C		2011-02-03	1996-07-31	
-S000007296	snoRNA_gene		snR31	SNR31		chromosome 15	L000001969	15	842182	841958	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of small subunit (SSU) rRNA at position U999
-S000036752	noncoding_exon					snR31		15	842182	841958	C		2011-02-03	2000-05-19	
-S000007291	snoRNA_gene		snR5	SNR5		chromosome 15	L000001960	15	842403	842606	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U1004 and U1124
-S000034319	noncoding_exon					snR5		15	842403	842606	W		2011-02-03	2000-05-19	
-S000005804	ORF	Verified	YOR278W	HEM4	uroporphyrinogen-III synthase HEM4|SLU2	chromosome 15	L000002903	15	842817	843644	W		2011-02-03	1996-07-31	Uroporphyrinogen III synthase; catalyzes the conversion of hydroxymethylbilane to uroporphyrinogen III, the fourth step in heme biosynthesis; deficiency in the human homolog can result in the disease congenital erythropoietic porphyria
-S000031577	CDS					YOR278W		15	842817	843644	W		2011-02-03	1996-07-31	
-S000005805	ORF	Verified	YOR279C	RFM1		chromosome 15		15	844630	843698	C		2011-02-03	1996-07-31	Component of the Sum1p-Rfm1p-Hst1p complex; Rfm1p tethers the Hst1p histone deacetylase to the DNA-binding protein Sum1p; complex is involved in transcriptional repression of middle sporulation genes and in initiation of DNA replication
-S000031617	CDS					YOR279C		15	844630	843698	C		2011-02-03	1996-07-31	
-S000005806	ORF	Verified	YOR280C	FSH3	putative serine hydrolase	chromosome 15		15	845792	844992	C		2011-02-03	1996-07-31	Putative serine hydrolase; likely target of Cyc8p-Tup1p-Rfx1p transcriptional regulation; sequence is similar to S. cerevisiae Fsh1p and Fsh2p and the human candidate tumor suppressor OVCA2
-S000031815	CDS					YOR280C		15	845792	844992	C		2011-02-03	1996-07-31	
-S000005808	ORF	Dubious	YOR282W			chromosome 15		15	847000	847320	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps essential, verified gene PLP2/YOR281C
-S000032900	CDS					YOR282W		15	847000	847320	W		2011-02-03	1996-07-31	
-S000005807	ORF	Verified	YOR281C	PLP2		chromosome 15		15	847129	846269	C		2011-02-03	1996-07-31	Protein that interacts with the CCT complex to stimulate actin folding; has similarity to phosducins; null mutant lethality is complemented by mouse phosducin-like protein MgcPhLP; CCT is short for chaperonin containing TCP-1; essential gene
-S000031925	CDS					YOR281C		15	847129	846269	C		2011-02-03	1996-07-31	
-S000005809	ORF	Verified	YOR283W		phosphoglycerate mutase	chromosome 15		15	847453	848145	W		2011-02-03	1996-07-31	Phosphatase with a broad substrate specificity; has some similarity to GPM1/YKL152C, a phosphoglycerate mutase; YOR283W is not an essential gene
-S000032989	CDS					YOR283W		15	847453	848145	W		2011-02-03	1996-07-31	
-S000005810	ORF	Verified	YOR284W	HUA2		chromosome 15		15	848478	849209	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; computational analysis of large-scale protein-protein interaction data suggests a possible role in actin patch assembly
-S000033085	CDS					YOR284W		15	848478	849209	W		2011-02-03	1996-07-31	
-S000005811	ORF	Verified	YOR285W	RDL1	thiosulfate sulfurtransferase RDL1	chromosome 15		15	849635	850054	W		2011-02-03	1996-07-31	Thiosulfate sulfurtransferase; contains a rhodanese-like domain; localized to the mitochondrial outer membrane; protein abundance increases in response to DNA replication stress; similar to the human TSTD gene
-S000033844	CDS					YOR285W		15	849635	850054	W		2011-02-03	1996-07-31	
-S000005812	ORF	Verified	YOR286W	RDL2	thiosulfate sulfurtransferase RDL2|AIM42|FMP31	chromosome 15		15	850280	850729	W		2011-02-03	1996-07-31	Protein with rhodanese activity; contains a rhodanese-like domain similar to Rdl1p, Uba4p, Tum1p, and Ych1p; overexpression causes a cell cycle delay; null mutant displays elevated frequency of mitochondrial genome loss
-S000033993	CDS					YOR286W		15	850280	850729	W		2011-02-03	1996-07-31	
-S000005813	ORF	Verified	YOR287C	RRP36	rRNA-processing protein RRP36	chromosome 15		15	851839	850937	C		2011-02-03	1996-07-31	Component of 90S preribosomes; involved in early cleavages of the 35S pre-rRNA and in production of the 40S ribosomal subunit
-S000034025	CDS					YOR287C		15	851839	850937	C		2011-02-03	1996-07-31	
-S000005814	ORF	Verified	YOR288C	MPD1	protein disulfide isomerase MPD1	chromosome 15	L000003038	15	853077	852121	C		2011-02-03	1996-07-31	Member of the protein disulfide isomerase (PDI) family; interacts with and inhibits the chaperone activity of Cne1p; MPD1 overexpression in a pdi1 null mutant suppresses defects in Pdi1p functions such as carboxypeptidase Y maturation
-S000034906	CDS					YOR288C		15	853077	852121	C		2011-02-03	1996-07-31	
-S000005815	ORF	Uncharacterized	YOR289W			chromosome 15		15	853357	854112	W		2011-02-03	1996-07-31	Putative protein of unknown function; transcription induced by the unfolded protein response; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
-S000035198	CDS					YOR289W		15	853357	854112	W		2011-02-03	1996-07-31	
-S000006525	tRNA_gene		tA(UGC)O			chromosome 15	L000003714	15	854259	854187	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
-S000034894	noncoding_exon					tA(UGC)O		15	854259	854187	C		2011-02-03	2000-05-19	
-S000007178	long_terminal_repeat		YORWsigma3			chromosome 15		15	854275	854614	W		2011-02-03	2000-05-19	Ty3 LTR
-S000005816	ORF	Verified	YOR290C	SNF2	SWI/SNF catalytic subunit SNF2|TYE3|SWI2|HAF1|GAM1	chromosome 15	L000001945	15	860258	855147	C		2011-02-03	1996-07-31	Catalytic subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; contains DNA-stimulated ATPase activity; functions interdependently in transcriptional activation with Snf5p and Snf6p
-S000036380	CDS					YOR290C		15	860258	855147	C		2011-02-03	1996-07-31	
-S000005817	ORF	Verified	YOR291W	YPK9	putative acid anhydride hydrolase	chromosome 15		15	861175	865593	W		2011-02-03	1996-07-31	Vacuolar protein with a possible role in sequestering heavy metals; has similarity to the type V P-type ATPase Spf1p; homolog of human ATP13A2 (PARK9), mutations in which are associated with Parkinson disease and Kufor-Rakeb syndrome
-S000037072	CDS					YOR291W		15	861175	865593	W		2011-02-03	1996-07-31	
-S000005818	ORF	Uncharacterized	YOR292C			chromosome 15		15	866582	865653	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; YOR292C is not an essential gene
-S000037114	CDS					YOR292C		15	866582	865653	C		2011-02-03	1996-07-31	
-S000005819	ORF	Verified	YOR293W	RPS10A	eS10|ribosomal 40S subunit protein S10A|S10e|S10A	chromosome 15	L000004475	15	867098	867852	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S10, no bacterial homolog; RPS10A has a paralog, RPS10B, that arose from the whole genome duplication; mutations in the human homolog associated with Diamond-Blackfan anemia
-S000037299	CDS					YOR293W		15	867098	867149	W		2011-02-03	1996-07-31	
-S000037300	CDS					YOR293W		15	867587	867852	W		2011-02-03	1996-07-31	
-S000037301	intron					YOR293W		15	867150	867586	W		2011-02-03	1996-07-31	
-S000028858	ORF	Uncharacterized	YOR293C-A			chromosome 15		15	868147	867998	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034572	CDS					YOR293C-A		15	868147	867998	C		2011-02-03	2003-07-29	
-S000005820	ORF	Verified	YOR294W	RRS1		chromosome 15		15	868340	868951	W		2011-02-03	1996-07-31	Essential protein that binds ribosomal protein L11; required for nuclear export of the 60S pre-ribosomal subunit during ribosome biogenesis; localizes to the nucleolus and in foci along nuclear periphery; cooperates with Ebp2p and Mps3p to mediate telomere clustering by binding Sir4p, but is not involved in telomere tethering; mouse homolog shows altered expression in Huntington's disease model mice
-S000029945	CDS					YOR294W		15	868340	868951	W		2011-02-03	1996-07-31	
-S000005821	ORF	Verified	YOR295W	UAF30		chromosome 15		15	869208	869894	W		2011-02-03	1996-07-31	Subunit of UAF (upstream activation factor) complex; UAF is an RNA polymerase I specific transcription stimulatory factor composed of Uaf30p, Rrn5p, Rrn9p, Rrn10p, histones H3 and H4; targeting factor for the UAF that facilitates activation of many rDNA genes; deletion decreases cellular growth rate; UAF30 has a paralog, TRI1, that arose from the whole genome duplication
-S000030055	CDS					YOR295W		15	869208	869894	W		2011-02-03	1996-07-31	
-S000005822	ORF	Uncharacterized	YOR296W			chromosome 15		15	870202	874071	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; expressed during copper starvation; YOR296W is not an essential gene
-S000031083	CDS					YOR296W		15	870202	874071	W		2011-02-03	1996-07-31	
-S000118494	ARS		ARS1526		ARSXV-874	chromosome 15		15	874251	874412			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000005823	ORF	Verified	YOR297C	TIM18		chromosome 15	S000007448	15	875321	874743	C		2011-02-03	1996-07-31|2011-02-03	Component of the mitochondrial TIM22 complex; involved in insertion of polytopic proteins into the inner membrane; may mediate assembly or stability of the complex
-S000031114	CDS					YOR297C		15	875321	874743	C		2011-02-03	1996-07-31|2011-02-03	
-S000005824	ORF	Verified	YOR298W	MUM3		chromosome 15		15	875599	877038	W		2011-02-03	1996-07-31	Protein of unknown function involved in outer spore wall organization; has similarity to the tafazzins superfamily of acyltransferases
-S000031297	CDS					YOR298W		15	875599	877038	W		2011-02-03	1996-07-31	
-S000007253	ORF	Verified	YOR298C-A	MBF1	SUF13	chromosome 15	L000002160|L000004688	15	877685	877230	C	165	2011-02-03	2004-02-12|1999-07-17	Transcriptional coactivator; bridges the DNA-binding region of Gcn4p and TATA-binding protein Spt15p; suppressor of frameshift mutations; protein abundance increases in response to DNA replication stress
-S000030828	CDS					YOR298C-A		15	877685	877230	C		2011-02-03	2004-02-12|1999-07-17	
-S000005825	ORF	Verified	YOR299W	BUD7	exomer complex subunit	chromosome 15	L000003554	15	878435	880675	W		2011-02-03	1996-07-31	Member of the ChAPs family (Chs5p-Arf1p-binding proteins); members include Bch1p, Bch2p, Bud7p, and Chs6p; ChAPs family proteins form the exomer complex with Chs5p to mediate export of specific cargo proteins, including Chs3p, from the Golgi to the plasma membrane; BUD7 has a paralog, BCH1, that arose from the whole genome duplication
-S000031429	CDS					YOR299W		15	878435	880675	W		2011-02-03	1996-07-31	
-S000005826	ORF	Dubious	YOR300W		HUF1	chromosome 15		15	880575	880883	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps with verified gene BUD7/YOR299W; mutation affects bipolar budding and bud site selection, though phenotype could be due to the mutation's effects on BUD7
-S000036845	CDS					YOR300W		15	880575	880883	W		2011-02-03	1996-07-31	
-S000005827	ORF	Verified	YOR301W	RAX1		chromosome 15		15	880965	882272	W		2011-02-03	1996-07-31	Protein involved in bud site selection during bipolar budding; localization requires Rax2p; has similarity to members of the insulin-related peptide superfamily
-S000037565	CDS					YOR301W		15	880965	882272	W		2011-02-03	1996-07-31	
-S000005828	ORF	Verified	YOR302W			chromosome 15		15	882765	882842	W		2011-02-03	1996-07-31	CPA1 uORF; Arginine attenuator peptide, regulates translation of the CPA1 mRNA
-S000037642	CDS					YOR302W		15	882765	882842	W		2011-02-03	1996-07-31	
-S000005829	ORF	Verified	YOR303W	CPA1	carbamoyl-phosphate synthase (glutamine-hydrolyzing) CPA1	chromosome 15	L000000399	15	882899	884134	W	161	2011-02-03	1996-07-31	Small subunit of carbamoyl phosphate synthetase; carbamoyl phosphate synthetase catalyzes a step in the synthesis of citrulline, an arginine precursor; translationally regulated by an attenuator peptide encoded by YOR302W within the CPA1 mRNA 5'-leader
-S000037697	CDS					YOR303W		15	882899	884134	W		2011-02-03	1996-07-31	
-S000005831	ORF	Verified	YOR304W	ISW2	DNA translocase	chromosome 15	L000004448	15	884514	887876	W		2011-02-03	1996-07-31	ATP-dependent DNA translocase involved in chromatin remodeling; ATPase component that, with Itc1p, forms a complex required for repression of a-specific genes, INO1, and early meiotic genes during mitotic growth; the Isw2 complex exhibits basal levels of chromatin binding throughout the genome as well as target-specific chromatin interactions; targeted by Ume6p- and Sua7p-dependent DNA looping to many loci genome-wide
-S000037758	CDS					YOR304W		15	884514	887876	W		2011-02-03	1996-07-31	
-S000005830	ORF	Verified	YOR304C-A	BIL1	EDO1	chromosome 15		15	888750	888520	C		2011-02-03	1997-07-01|1996-07-31	Protein that binds Bud6p and has a role in actin cable assembly; involved in the Bnr1p-dependent pathway of cable assembly; localizes to bud tip and bud neck
-S000032659	CDS					YOR304C-A		15	888750	888520	C		2011-02-03	1997-07-01|1996-07-31	
-S000005832	ORF	Verified	YOR305W	RRG7		chromosome 15		15	889022	889750	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO); YOR305W is not an essential gene
-S000030593	CDS					YOR305W		15	889022	889750	W		2011-02-03	1996-07-31	
-S000005833	ORF	Verified	YOR306C	MCH5		chromosome 15		15	891432	889867	C		2011-02-03	1996-07-31|2011-02-03	Plasma membrane riboflavin transporter; facilitates the uptake of vitamin B2; required for FAD-dependent processes; sequence similarity to mammalian monocarboxylate permeases, however mutants are not deficient in monocarboxylate transport
-S000030631	CDS					YOR306C		15	891432	889867	C		2011-02-03	1996-07-31|2011-02-03	
-S000005834	ORF	Verified	YOR307C	SLY41		chromosome 15	L000001925	15	894092	892731	C		2011-02-03	1996-07-31	Protein involved in ER-to-Golgi transport
-S000030776	CDS					YOR307C		15	894092	892731	C		2011-02-03	1996-07-31	
-S000005835	ORF	Verified	YOR308C	SNU66	U4/U6-U5 snRNP complex subunit SNU66	chromosome 15		15	896387	894624	C		2011-02-03	1996-07-31	Component of the U4/U6.U5 snRNP complex; involved in pre-mRNA splicing via spliceosome; also required for pre-5S rRNA processing and may act in concert with Rnh70p; has homology to human SART-1
-S000030861	CDS					YOR308C		15	896387	894624	C		2011-02-03	1996-07-31	
-S000005836	ORF	Dubious	YOR309C			chromosome 15		15	897078	896698	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene NOP58
-S000031849	CDS					YOR309C		15	897078	896698	C		2011-02-03	1996-07-31	
-S000005837	ORF	Verified	YOR310C	NOP58	RNA-processing protein NOP58|NOP5	chromosome 15	L000004000	15	898360	896825	C		2011-02-03	1996-07-31	Protein involved in producing mature rRNAs and snoRNAs; involved in pre-rRNA processing, 18S rRNA synthesis, and snoRNA synthesis; component of the small subunit processome complex, which is required for processing of pre-18S rRNA
-S000031855	CDS					YOR310C		15	898360	896825	C		2011-02-03	1996-07-31	
-S000005838	ORF	Verified	YOR311C	DGK1	diacylglycerol kinase|HSD1	chromosome 15		15	899928	899056	C		2011-02-03	1996-07-31	Diacylglycerol kinase; localized to the endoplasmic reticulum (ER); overproduction induces enlargement of ER-like membrane structures and suppresses a temperature-sensitive sly1 mutation; contains a CTP transferase domain
-S000032742	CDS					YOR311C		15	899928	899056	C		2011-02-03	1996-07-31	
-S000005839	ORF	Verified	YOR312C	RPL20B	eL20|ribosomal 60S subunit protein L20B|L20e|L20B|L18B|RPL18A1	chromosome 15	L000003148	15	901194	900250	C		2011-02-03	1996-07-31|2007-07-10	Ribosomal 60S subunit protein L20B; homologous to mammalian ribosomal protein L18A, no bacterial homolog; RPL20B has a paralog, RPL20A, that arose from the whole genome duplication
-S000032858	CDS					YOR312C		15	900767	900250	C		2011-02-03	1996-07-31	
-S000032857	CDS					YOR312C		15	901194	901194	C		2011-02-03	1996-07-31|2007-07-10	
-S000032859	intron					YOR312C		15	901193	900768	C		2011-02-03	1996-07-31|2007-07-10	
-S000005840	ORF	Verified	YOR313C	SPS4		chromosome 15	L000002026	15	902874	901858	C		2011-02-03	1996-07-31	Protein whose expression is induced during sporulation; not required for sporulation; heterologous expression in E. coli induces the SOS response that senses DNA damage
-S000032971	CDS					YOR313C		15	902874	901858	C		2011-02-03	1996-07-31	
-S000005841	ORF	Dubious	YOR314W			chromosome 15		15	903043	903372	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033076	CDS					YOR314W		15	903043	903372	W		2011-02-03	1996-07-31	
-S000007629	ORF	Dubious	YOR314W-A			chromosome 15		15	904458	904568	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037260	CDS					YOR314W-A		15	904458	904568	W		2011-02-03	2001-02-26	
-S000005842	ORF	Verified	YOR315W	SFG1		chromosome 15		15	904760	905800	W		2011-02-03	1996-07-31	Nuclear protein putative transcription factor; required for growth of superficial pseudohyphae (which do not invade the agar substrate) but not for invasive pseudohyphal growth; may act together with Phd1p; potential Cdc28p substrate
-S000033756	CDS					YOR315W		15	904760	905800	W		2011-02-03	1996-07-31	
-S000005843	ORF	Verified	YOR316C	COT1	metal cation transporter COT1	chromosome 15	L000000382	15	907555	906236	C		2011-02-03	1996-07-31	Vacuolar transporter that mediates zinc transport into the vacuole; overexpression confers resistance to cobalt and rhodium; protein abundance increases in response to DNA replication stress; COT1 has a paralog, ZRC1, that arose from the whole genome duplication
-S000033807	CDS					YOR316C		15	907555	906236	C		2011-02-03	1996-07-31	
-S000028584	ORF	Uncharacterized	YOR316C-A			chromosome 15		15	907935	907726	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031332	CDS					YOR316C-A		15	907935	907726	C		2011-02-03	2003-07-29	
-S000118495	ARS		ARS1528		ARSXV-908	chromosome 15		15	908296	908544			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178187	ARS_consensus_sequence					ARS1528		15	908306	908322	W		2014-11-18	2014-11-18	
-S000005844	ORF	Verified	YOR317W	FAA1	long-chain fatty acid-CoA ligase FAA1	chromosome 15	L000000594	15	909343	911445	W		2011-02-03	1996-07-31	Long chain fatty acyl-CoA synthetase; activates fatty acids with a preference for C12:0-C16:0 chain lengths; role in the competitive import of long-chain fatty acids and sphingoid long-chain bases; accounts for most acyl-CoA synthetase activity; localizes to lipid particles and the plasma membrane; role in sphingolipid-to-glycerolipid metabolism; forms ER foci upon replication stress; faa1 faa4 double null complemented by any of human ACSBG1, ACSL1, 3, 4, 5, 6, SLC27A2, or 4
-S000034010	CDS					YOR317W		15	909343	911445	W		2011-02-03	1996-07-31	
-S000005845	ORF	Dubious	YOR318C			chromosome 15		15	912436	911784	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcript is predicted to be spliced but there is no evidence that it is spliced in vivo
-S000034044	CDS					YOR318C		15	912085	911784	C		2011-02-03	1996-07-31	
-S000034043	CDS					YOR318C		15	912436	912433	C		2011-02-03	1996-07-31	
-S000034045	intron					YOR318C		15	912432	912086	C		2011-02-03	1996-07-31	
-S000005846	ORF	Verified	YOR319W	HSH49	U2 snRNP complex subunit HSH49	chromosome 15	L000003014	15	912822	913463	W		2011-02-03	1996-07-31	U2-snRNP associated splicing factor; similar to the mammalian splicing factor SAP49; proposed to function as a U2-snRNP assembly factor along with Hsh155p and binding partner Cus1p; contains two RNA recognition motifs (RRM)
-S000035030	CDS					YOR319W		15	912822	913463	W		2011-02-03	1996-07-31	
-S000005847	ORF	Verified	YOR320C	GNT1	glucose N-acetyltransferase	chromosome 15		15	915094	913619	C		2011-02-03	1996-07-31	N-acetylglucosaminyltransferase; capable of modification of N-linked glycans in the Golgi apparatus
-S000035936	CDS					YOR320C		15	915094	913619	C		2011-02-03	1996-07-31	
-S000005848	ORF	Verified	YOR321W	PMT3	dolichyl-phosphate-mannose-protein mannosyltransferase PMT3	chromosome 15	L000002622	15	916030	918291	W		2011-02-03	1996-07-31	Protein O-mannosyltransferase; transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues; acts in a complex with Pmt5p, can instead interact with Pmt1p in some conditions; antifungal drug target; PMT3 has a paralog, PMT2, that arose from the whole genome duplication
-S000036207	CDS					YOR321W		15	916030	918291	W		2011-02-03	1996-07-31	
-S000005849	ORF	Verified	YOR322C	LDB19	ART1	chromosome 15		15	921062	918606	C		2011-02-03	1996-07-31	Alpha-arrestin involved in ubiquitin-dependent endocytosis; regulates endocytosis of plasma membrane proteins by recruiting the ubiquitin ligase Rsp5p to its targets; involved in the basal internalization and turnover of alpha-factor receptor Ste2p; recruits ubiquitin ligase Rsp5p to Ste2p via its 2 PPXY motifs; inhibited by Npr1p-mediated phosphorylation, which affects translocation between the cytosol and the plasma membrane
-S000036901	CDS					YOR322C		15	921062	918606	C		2011-02-03	1996-07-31	
-S000005850	ORF	Verified	YOR323C	PRO2	glutamate-5-semialdehyde dehydrogenase	chromosome 15	L000001492	15	922905	921535	C	175	2011-02-03	1996-07-31	Gamma-glutamyl phosphate reductase; catalyzes the second step in proline biosynthesis
-S000036961	CDS					YOR323C		15	922905	921535	C		2011-02-03	1996-07-31	
-S000005852	ORF	Dubious	YOR325W			chromosome 15		15	924577	925050	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF FRT1
-S000037825	CDS					YOR325W		15	924577	925050	W		2011-02-03	1996-07-31	
-S000005851	ORF	Verified	YOR324C	FRT1	HPH1	chromosome 15		15	925040	923232	C		2011-02-03	1996-07-31	Tail-anchored ER membrane protein of unknown function; substrate of the phosphatase calcineurin; interacts with homolog Frt2p; promotes cell growth in stress conditions, possibly via a role in posttranslational translocation; FRT1 has a paralog, FRT2, that arose from the whole genome duplication
-S000037039	CDS					YOR324C		15	925040	923232	C		2011-02-03	1996-07-31	
-S000005853	ORF	Verified	YOR326W	MYO2	myosin 2|CDC66	chromosome 15	L000001223	15	925721	930445	W	174	2011-02-03	1996-07-31	Type V myosin motor involved in actin-based transport of cargos; required for the polarized delivery of secretory vesicles, the vacuole, late Golgi elements, peroxisomes, and the mitotic spindle; MYO2 has a paralog, MYO4, that arose from the whole genome duplication
-S000029839	CDS					YOR326W		15	925721	930445	W		2011-02-03	1996-07-31	
-S000005854	ORF	Verified	YOR327C	SNC2	SNAP receptor SNC2	chromosome 15	L000001943	15	931081	930734	C		2011-02-03	1996-07-31	Vesicle membrane receptor protein (v-SNARE); involved in the fusion between Golgi-derived secretory vesicles with the plasma membrane; Snc2p levels regulated by Vps45p; member of the synaptobrevin/VAMP family of R-type v-SNARE proteins; SNC2 has a paralog, SNC1, that arose from the whole genome duplication
-S000029884	CDS					YOR327C		15	931081	930734	C		2011-02-03	1996-07-31	
-S000005855	ORF	Verified	YOR328W	PDR10	ATP-binding cassette multidrug transporter PDR10	chromosome 15	L000002865	15	931803	936497	W		2011-02-03	1996-07-31	ATP-binding cassette (ABC) transporter; multidrug transporter involved in the pleiotropic drug resistance network; regulated by Pdr1p and Pdr3p
-S000030958	CDS					YOR328W		15	931803	936497	W		2011-02-03	1996-07-31	
-S000028585	ORF	Dubious	YOR329W-A			chromosome 15		15	939348	939557	W		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by fungal homology and RT-PCR
-S000031335	CDS					YOR329W-A		15	939348	939557	W		2011-02-03	2003-07-29	
-S000005856	ORF	Verified	YOR329C	SCD5	SCD7|FTB1	chromosome 15	L000001805|S000029433|L000001807	15	939349	936731	C		2011-02-03	1996-07-31	Protein required for normal actin organization and endocytosis; targeting subunit for protein phosphatase type 1; undergoes Crm1p-dependent nuclear-cytoplasmic shuttling; multicopy suppressor of clathrin deficiency
-S000030995	CDS					YOR329C		15	939349	936731	C		2011-02-03	1996-07-31	
-S000005857	ORF	Verified	YOR330C	MIP1	DNA-directed DNA polymerase gamma MIP1	chromosome 15	L000001113	15	943385	939621	C	181	2011-02-03	1996-07-31|2005-11-30	Mitochondrial DNA polymerase gamma; single subunit of mitochondrial DNA polymerase in yeast, in contrast to metazoan complex of catalytic and accessory subunits; polymorphic in yeast, petites occur more frequently in some lab strains; human ortholog POLG complements yeast mip1 mutant; mutations in human POLG associated with Alpers-Huttenlocher syndrome (AHS), progressive external ophthalmoplegia (PEO), parkinsonism, other mitochondrial diseases
-S000031997	CDS					YOR330C		15	943385	939621	C		2011-02-03	1996-07-31|2005-11-30	
-S000005859	ORF	Verified	YOR332W	VMA4	H(+)-transporting V1 sector ATPase subunit E	chromosome 15	L000002459	15	943656	944357	W		2011-02-03	1996-07-31	Subunit E of the V1 domain of the vacuolar H+-ATPase (V-ATPase); V-ATPase is an electrogenic proton pump found throughout the endomembrane system; V1 domain has eight subunits; required for the V1 domain to assemble onto the vacuolar membrane; protein abundance increases in response to DNA replication stress
-S000032201	CDS					YOR332W		15	943656	944357	W		2011-02-03	1996-07-31	
-S000005858	ORF	Dubious	YOR331C			chromosome 15		15	944122	943565	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene VMA4/YOR332W
-S000032076	CDS					YOR331C		15	944122	943565	C		2011-02-03	1996-07-31	
-S000005861	ORF	Verified	YOR334W	MRS2		chromosome 15	L000001178	15	944596	946008	W		2011-02-03	1996-07-31	Mitochondrial inner membrane Mg(2+) channel; required for maintenance of intramitochondrial Mg(2+) concentrations at the correct level to support splicing of group II introns; similar to bacterial CorA
-S000033146	CDS					YOR334W		15	944596	946008	W		2011-02-03	1996-07-31	
-S000005860	ORF	Dubious	YOR333C		SWF5	chromosome 15		15	944957	944541	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 5' end of MRS2 gene required for respiratory growth
-S000032222	CDS					YOR333C		15	944957	944541	C		2011-02-03	1996-07-31	
-S000028717	ORF	Dubious	YOR335W-A			chromosome 15		15	946568	946648	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene ALA1/YOR335C
-S000032688	CDS					YOR335W-A		15	946568	946648	W		2011-02-03	2003-07-29	
-S000005862	ORF	Verified	YOR335C	ALA1	alanine--tRNA ligase|CDC64	chromosome 15	L000000286|L000002757	15	949109	946233	C	188	2011-02-03	1996-07-31	Cytoplasmic and mitochondrial alanyl-tRNA synthetase; required for protein synthesis; point mutation (cdc64-1 allele) causes cell cycle arrest at G1; lethality of null mutation is functionally complemented by human homolog AARS; mutations in human homolog AARS are associated with autoimmune disease polymyositis/dermatomyositis
-S000033157	CDS					YOR335C		15	949109	946233	C		2011-02-03	1996-07-31	
-S000005863	ORF	Verified	YOR336W	KRE5		chromosome 15	L000000914	15	949773	953870	W		2011-02-03	1996-07-31	Protein required for beta-1,6 glucan biosynthesis; mutations result in aberrant morphology and severe growth defects
-S000033259	CDS					YOR336W		15	949773	953870	W		2011-02-03	1996-07-31	
-S000005864	ORF	Verified	YOR337W	TEA1		chromosome 15	L000003020	15	954344	956623	W	193	2011-02-03	1996-07-31	Ty1 enhancer activator involved in Ty enhancer-mediated transcription; required for full levels of Ty enhancer-mediated transcription; C6 zinc cluster DNA-binding protein
-S000033317	CDS					YOR337W		15	954344	956623	W		2011-02-03	1996-07-31	
-S000005865	ORF	Uncharacterized	YOR338W			chromosome 15		15	956898	957989	W		2011-02-03	1996-07-31	Putative protein of unknown function; YOR338W transcription is regulated by Azf1p and its transcript is a specific target of the G protein effector Scp160p; identified as being required for sporulation in a high-throughput mutant screen; YOR338W has a paralog, FUN19, that arose from the whole genome duplication
-S000034225	CDS					YOR338W		15	956898	957989	W		2011-02-03	1996-07-31	
-S000005866	ORF	Verified	YOR339C	UBC11	putative E2 ubiquitin-protein ligase UBC11	chromosome 15	L000004673	15	958832	958362	C		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme; most similar in sequence to Xenopus ubiquitin-conjugating enzyme E2-C, but not a true functional homolog of this E2; unlike E2-C, not required for the degradation of mitotic cyclin Clb2
-S000034261	CDS					YOR339C		15	958832	958362	C		2011-02-03	1996-07-31	
-S000005867	ORF	Verified	YOR340C	RPA43	DNA-directed RNA polymerase I subunit RPA43|A43	chromosome 15	L000003029	15	960182	959202	C		2011-02-03	1996-07-31	RNA polymerase I subunit A43
-S000035445	CDS					YOR340C		15	960182	959202	C		2011-02-03	1996-07-31	
-S000005868	ORF	Verified	YOR341W	RPA190	DNA-directed RNA polymerase I core subunit RPA190|A190|RRN1	chromosome 15	L000001675	15	960987	965981	W	192	2011-02-03	1996-07-31	RNA polymerase I largest subunit A190
-S000036421	CDS					YOR341W		15	960987	965981	W		2011-02-03	1996-07-31	
-S000005869	ORF	Verified	YOR342C			chromosome 15		15	967625	966666	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus; relocalizes from nucleus to cytoplasm upon DNA replication stress; YOR342C has a paralog, YAL037W, that arose from the whole genome duplication
-S000036448	CDS					YOR342C		15	967625	966666	C		2011-02-03	1996-07-31	
-S000005870	ORF	Dubious	YOR343C			chromosome 15		15	968474	968148	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036546	CDS					YOR343C		15	968474	968148	C		2011-02-03	1996-07-31	
-S000007179	long_terminal_repeat		YORWsigma4			chromosome 15		15	968991	969301	W		2011-02-03	2000-05-19	Ty3 LTR
-S000007175	long_terminal_repeat		YORWdelta22			chromosome 15		15	969293	969431	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007176	long_terminal_repeat		YORWdelta23			chromosome 15		15	970286	970617	W		2011-02-03	2000-05-19	Ty2 LTR
-S000007183	LTR_retrotransposon		YORWTy2-2		Ty2	chromosome 15		15	970286	976244	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007355	transposable_element_gene		YOR343W-A		gag protein|YOR343C-A	chromosome 15		15	970578	971894	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000036395	CDS					YOR343W-A		15	970578	971894	W		2011-02-03	1999-07-17	
-S000007356	transposable_element_gene		YOR343W-B		gag-pol fusion protein|YOR343C-B	chromosome 15		15	970578	975891	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000036396	CDS					YOR343W-B		15	970578	971871	W		2011-02-03	1999-07-17	
-S000036397	CDS					YOR343W-B		15	971873	975891	W		2011-02-03	1999-07-17	
-S000036398	plus_1_translational_frameshift					YOR343W-B		15	971872	971872	W		2011-02-03	1999-07-17	
-S000007177	long_terminal_repeat		YORWdelta24			chromosome 15		15	975913	976244	W		2011-02-03	2000-05-19	Ty2 LTR
-S000006666	tRNA_gene		tM(CAU)O2	EMT2		chromosome 15	L000000552|L000003712	15	976421	976493	W		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
-S000032168	noncoding_exon					tM(CAU)O2		15	976421	976493	W		2011-02-03	2000-05-19	
-S000005871	ORF	Verified	YOR344C	TYE7	SGC1	chromosome 15	L000002401	15	978069	977194	C	199	2011-02-03	1996-07-31	Serine-rich protein that contains a bHLH DNA binding motif; binds E-boxes of glycolytic genes and contributes to their activation; may function as a transcriptional activator in Ty1-mediated gene expression; bHLH stands for basic-helix-loop-helix
-S000036612	CDS					YOR344C		15	978069	977194	C		2011-02-03	1996-07-31	
-S000007167	long_terminal_repeat		YORCdelta25			chromosome 15		15	980590	980259	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006689	tRNA_gene		tP(UGG)O3			chromosome 15	L000003713	15	980683	980787	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
-S000031061	intron					tP(UGG)O3		15	980719	980751	W		2011-02-03	2000-05-19	
-S000031059	noncoding_exon					tP(UGG)O3		15	980683	980718	W		2011-02-03	2000-05-19	
-S000031060	noncoding_exon					tP(UGG)O3		15	980752	980787	W		2011-02-03	2000-05-19	
-S000118496	ARS		ARS1529		ARSXV-982	chromosome 15		15	981462	981697			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000005873	ORF	Verified	YOR346W	REV1	deoxycytidyl transferase	chromosome 15	L000001615	15	981828	984785	W		2011-02-03	1996-07-31	Deoxycytidyl transferase; involved in repair of abasic sites and adducted guanines in damaged DNA by translesion synthesis (TLS); forms a complex with the subunits of DNA polymerase zeta, Rev3p and Rev7p; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000037530	CDS					YOR346W		15	981828	984785	W		2011-02-03	1996-07-31	
-S000005872	ORF	Dubious	YOR345C			chromosome 15		15	982162	981812	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene REV1; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
-S000037325	CDS					YOR345C		15	982162	981812	C		2011-02-03	1996-07-31	
-S000005874	ORF	Verified	YOR347C	PYK2	pyruvate kinase PYK2	chromosome 15	L000004122	15	986462	984942	C		2011-02-03	1996-07-31	Pyruvate kinase; appears to be modulated by phosphorylation; transcription repressed by glucose, and Pyk2p may be active under low glycolytic flux; PYK2 has a paralog, CDC19, that arose from the whole genome duplication
-S000037542	CDS					YOR347C		15	986462	984942	C		2011-02-03	1996-07-31	
-S000005875	ORF	Verified	YOR348C	PUT4	proline permease PUT4	chromosome 15	L000001538	15	988782	986899	C		2011-02-03	1996-07-31	Proline permease; required for high-affinity transport of proline; also transports the toxic proline analog azetidine-2-carboxylate (AzC); PUT4 transcription is repressed in ammonia-grown cells
-S000030314	CDS					YOR348C		15	988782	986899	C		2011-02-03	1996-07-31	
-S000005876	ORF	Verified	YOR349W	CIN1		chromosome 15	L000000336	15	989789	992833	W	215	2011-02-03	1996-07-31	Tubulin folding factor D involved in beta-tubulin (Tub2p) folding; isolated as mutant with increased chromosome loss and sensitivity to benomyl
-S000030549	CDS					YOR349W		15	989789	992833	W		2011-02-03	1996-07-31	
-S000005877	ORF	Verified	YOR350C	MNE1		chromosome 15	L000003295	15	994855	992864	C		2011-02-03	1996-07-31	Protein involved in splicing Group I aI5-beta intron from COX1 mRNA; mitochondrial matrix protein
-S000030755	CDS					YOR350C		15	994855	992864	C		2011-02-03	1996-07-31	
-S000005878	ORF	Verified	YOR351C	MEK1	serine/threonine protein kinase MEK1|MRE4	chromosome 15	L000001062|L000001148	15	996511	995018	C	175	2011-02-03	1996-07-31	Meiosis-specific serine/threonine protein kinase; functions in meiotic checkpoint, promotes recombination between homologous chromosomes by suppressing double strand break repair between sister chromatids; stabilizes Hop1-Thr318 phosphorylation to promote interhomolog recombination and checkpoint responses during meiosis
-S000031597	CDS					YOR351C		15	996511	995018	C		2011-02-03	1996-07-31	
-S000005879	ORF	Verified	YOR352W	TFB6	TFIIH complex subunit TFB6	chromosome 15		15	997213	998244	W		2011-02-03	1996-07-31	Subunit of TFIIH complex; facilities dissociation of the Ssl2p helices from TFIIH; expression levels regulated by Arg5,6p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
-S000031766	CDS					YOR352W		15	997213	998244	W		2011-02-03	1996-07-31	
-S000005880	ORF	Verified	YOR353C	SOG2		chromosome 15		15	1000828	998453	C		2011-02-03	1996-07-31	Key component of the RAM signaling network; required for proper cell morphogenesis and cell separation after mitosis
-S000031817	CDS					YOR353C		15	1000828	998453	C		2011-02-03	1996-07-31	
-S000005881	ORF	Verified	YOR354C	MSC6		chromosome 15		15	1003225	1001147	C		2011-02-03	1996-07-31	Multicopy suppressor of HER2 involved in mitochondrial translation; mutant is defective in directing meiotic recombination events to homologous chromatids
-S000031931	CDS					YOR354C		15	1003225	1001147	C		2011-02-03	1996-07-31	
-S000005882	ORF	Verified	YOR355W	GDS1		chromosome 15	L000002580	15	1005137	1006705	W		2011-02-03	1996-07-31	Protein of unknown function; required for growth on glycerol as a carbon source; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000032902	CDS					YOR355W		15	1005137	1006705	W		2011-02-03	1996-07-31	
-S000005883	ORF	Verified	YOR356W	CIR2	putative electron-transferring-flavoprotein dehydrogenase	chromosome 15		15	1007221	1009116	W		2011-02-03	1996-07-31	Putative ortholog of human ETF-dH; found in a large supramolecular complex with other mitochondrial dehydrogenases; may have a role in oxidative stress response; ETF-dH is also known as electron transfer flavoprotein dehydrogenase
-S000032990	CDS					YOR356W		15	1007221	1009116	W		2011-02-03	1996-07-31	
-S000005884	ORF	Verified	YOR357C	SNX3	GRD19	chromosome 15	L000002931	15	1009712	1009224	C		2011-02-03	1996-07-31	Sorting nexin for late-Golgi enzymes; required to maintain late-Golgi resident enzymes in their proper location by recycling molecules from the prevacuolar compartment; contains a PX domain and sequence similarity to human Snx3p
-S000033017	CDS					YOR357C		15	1009712	1009224	C		2011-02-03	1996-07-31	
-S000005885	ORF	Verified	YOR358W	HAP5		chromosome 15	L000003021	15	1010161	1010889	W		2011-02-03	1996-07-31	Subunit of the Hap2p/3p/4p/5p CCAAT-binding complex; complex is heme-activated and glucose repressed; complex is a transcriptional activator and global regulator of respiratory gene expression; required for assembly and DNA binding activity of the complex
-S000033859	CDS					YOR358W		15	1010161	1010889	W		2011-02-03	1996-07-31	
-S000005886	ORF	Verified	YOR359W	VTS1		chromosome 15		15	1011189	1012760	W		2011-02-03	1996-07-31	Flap-structured DNA-binding and RNA-binding protein; stimulates deadenylation-dependent mRNA degradation mediated by the CCR4-NOT deadenylase complex; member of the Smaug (Smg) family of post-transcriptional regulators which bind RNA through a conserved sterile alpha motif (SAM) domain that interacts with Smg recognition element (SREs) containing transcripts; stimulates Dna2p endonuclease activity
-S000033994	CDS					YOR359W		15	1011189	1012760	W		2011-02-03	1996-07-31	
-S000005887	ORF	Verified	YOR360C	PDE2	3',5'-cyclic-nucleotide phosphodiesterase PDE2|SRA5	chromosome 15	L000002046	15	1014821	1013241	C	220	2011-02-03	1996-07-31	High-affinity cyclic AMP phosphodiesterase; component of the cAMP-dependent protein kinase signaling system, protects the cell from extracellular cAMP, contains readthrough motif surrounding termination codon
-S000036087	CDS					YOR360C		15	1014821	1013241	C		2011-02-03	1996-07-31	
-S000005888	ORF	Verified	YOR361C	PRT1	translation initiation factor eIF3 core subunit b|DNA26|CDC63	chromosome 15	L000001515	15	1017652	1015361	C	221	2011-02-03	1996-07-31	eIF3b subunit of the eukaryotic translation initiation factor 3 (eIF3); subunit of the core complex of eIF3; essential for translation; part of a subcomplex (Prt1p-Rpg1p-Nip1p) that stimulates binding of mRNA and tRNA(i)Met to ribosomes; eIF3 is also involved in programmed stop codon readthrough
-S000036186	CDS					YOR361C		15	1017652	1015361	C		2011-02-03	1996-07-31	
-S000005889	ORF	Verified	YOR362C	PRE10	proteasome core particle subunit alpha 7	chromosome 15	L000003146	15	1018746	1017880	C		2011-02-03	1996-07-31	Alpha 7 subunit of the 20S proteasome; protein abundance increases in response to DNA replication stress
-S000036287	CDS					YOR362C		15	1018746	1017880	C		2011-02-03	1996-07-31	
-S000005890	ORF	Verified	YOR363C	PIP2	oleate-activated transcription factor PIP2|OAF2	chromosome 15	L000003144	15	1023212	1020222	C		2011-02-03	1996-07-31	Autoregulatory, oleate-activated transcription factor; subunit of a heterodimeric complex with Oaf1p, which binds to oleate-response elements (ORE) in the promoter of genes involved in beta-oxidation of fatty acids, peroxisome organization and biogenesis, activating transcription in the presence of oleate; PIP2 has a paralog, OAF1, that arose from the whole genome duplication
-S000036382	CDS					YOR363C		15	1023212	1020222	C		2011-02-03	1996-07-31	
-S000005891	ORF	Dubious	YOR364W			chromosome 15		15	1023371	1023739	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOR365C
-S000037077	CDS					YOR364W		15	1023371	1023739	W		2011-02-03	1996-07-31	
-S000005893	ORF	Dubious	YOR366W			chromosome 15		15	1025256	1025609	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOR365C
-S000037303	CDS					YOR366W		15	1025256	1025609	W		2011-02-03	1996-07-31	
-S000005892	ORF	Uncharacterized	YOR365C		putative flavin adenine dinucleotide transporter	chromosome 15		15	1025572	1023461	C		2011-02-03	1996-07-31	Putative protein of unknown function; not an essential protein; YOR365C has a paralog, FLC2, that arose from the whole genome duplication
-S000037119	CDS					YOR365C		15	1025572	1023461	C		2011-02-03	1996-07-31	
-S000005894	ORF	Verified	YOR367W	SCP1		chromosome 15	L000004232	15	1026007	1026609	W		2011-02-03	1996-07-31	Component of yeast cortical actin cytoskeleton; binds and cross links actin filaments; originally identified by its homology to calponin (contains a calponin-like repeat) but the Scp1p domain structure is more similar to transgelin
-S000029952	CDS					YOR367W		15	1026007	1026609	W		2011-02-03	1996-07-31	
-S000005895	ORF	Verified	YOR368W	RAD17		chromosome 15	L000001566	15	1026843	1028048	W	214	2011-02-03	1996-07-31	Checkpoint protein; involved in the activation of the DNA damage and meiotic pachytene checkpoints; with Mec3p and Ddc1p, forms a clamp that is loaded onto partial duplex DNA; homolog of human and S. pombe Rad1 and U. maydis Rec1 proteins
-S000030058	CDS					YOR368W		15	1026843	1028048	W		2011-02-03	1996-07-31	
-S000005896	ORF	Verified	YOR369C	RPS12	eS12|ribosomal 40S subunit protein S12|S12e|S12	chromosome 15	L000002785	15	1028625	1028194	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S12, no bacterial homolog
-S000030088	CDS					YOR369C		15	1028625	1028194	C		2011-02-03	1996-07-31	
-S000005897	ORF	Verified	YOR370C	MRS6	GTPase-activating protein MRS6|MSI4	chromosome 15	L000001182|L000001194	15	1030994	1029183	C		2011-02-03	1996-07-31	Rab escort protein; forms a complex with the Ras-like small GTPase Ypt1p that is required for the prenylation of Ypt1p by protein geranylgeranyltransferase type II (Bet2p-Bet4p); sequence similarity to mammalian choroideraemia gene; relative distribution to the nucleus increases upon DNA replication stress
-S000031162	CDS					YOR370C		15	1030994	1029183	C		2011-02-03	1996-07-31	
-S000005898	ORF	Verified	YOR371C	GPB1	KRH2	chromosome 15		15	1034182	1031489	C		2011-02-03	1996-07-31	Multistep regulator of cAMP-PKA signaling; inhibits PKA downstream of Gpa2p and Cyr1p, thereby increasing cAMP dependency; promotes ubiquitin-dependent proteolysis of Ira2p; regulated by G-alpha protein Gpa2p; GPB1 has a paralog, GPB2, that arose from the whole genome duplication
-S000031222	CDS					YOR371C		15	1034182	1031489	C		2011-02-03	1996-07-31	
-S000005899	ORF	Verified	YOR372C	NDD1		chromosome 15		15	1036471	1034807	C		2011-02-03	1996-07-31	Transcriptional activator essential for nuclear division; localized to the nucleus; essential component of the mechanism that activates the expression of a set of late-S-phase-specific genes; turnover is tightly regulated during cell cycle and in response to DNA damage
-S000032194	CDS					YOR372C		15	1036471	1034807	C		2011-02-03	1996-07-31	
-S000005900	ORF	Verified	YOR373W	NUD1		chromosome 15	L000002752	15	1036834	1039389	W		2011-02-03	1996-07-31	Component of the spindle pole body outer plaque; acts through the mitotic exit network to specify asymmetric spindle pole body inheritance
-S000032346	CDS					YOR373W		15	1036834	1039389	W		2011-02-03	1996-07-31	
-S000005901	ORF	Verified	YOR374W	ALD4	aldehyde dehydrogenase (NADP(+)) ALD4|ALDH2|ALD7	chromosome 15	L000004220	15	1039840	1041399	W		2011-02-03	1996-07-31	Mitochondrial aldehyde dehydrogenase; required for growth on ethanol and conversion of acetaldehyde to acetate; phosphorylated; activity is K+ dependent; utilizes NADP+ or NAD+ equally as coenzymes; expression is glucose repressed; can substitute for cytosolic NADP-dependent aldehyde dehydrogenase when directed to the cytosol; human homolog ALDH2 can complement yeast ald4 mutant
-S000033216	CDS					YOR374W		15	1039840	1041399	W		2011-02-03	1996-07-31	
-S000005902	ORF	Verified	YOR375C	GDH1	glutamate dehydrogenase (NADP(+)) GDH1|DHE4|GDHA|GDH-A|URE1	chromosome 15	L000000696	15	1043042	1041678	C		2011-02-03	1996-07-31	NADP(+)-dependent glutamate dehydrogenase; synthesizes glutamate from ammonia and alpha-ketoglutarate; rate of alpha-ketoglutarate utilization differs from Gdh3p; expression regulated by nitrogen and carbon sources; GDH1 has a paralog, GDH3, that arose from the whole genome duplication
-S000033231	CDS					YOR375C		15	1043042	1041678	C		2011-02-03	1996-07-31	
-S000005903	ORF	Uncharacterized	YOR376W			chromosome 15		15	1043191	1043559	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YOR376W is not an essential gene
-S000033346	CDS					YOR376W		15	1043191	1043559	W		2011-02-03	1996-07-31	
-S000028586	ORF	Uncharacterized	YOR376W-A			chromosome 15		15	1045196	1045351	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031336	CDS					YOR376W-A		15	1045196	1045351	W		2011-02-03	2003-07-29	
-S000005904	ORF	Verified	YOR377W	ATF1	alcohol O-acetyltransferase	chromosome 15	L000000138	15	1046226	1047803	W		2011-02-03	1996-07-31	Alcohol acetyltransferase; responsible for the major part of volatile acetate ester production during fermentation; main enzyme involved in terpenyl acetate synthesis; potential roles in lipid and sterol metabolism
-S000033432	CDS					YOR377W		15	1046226	1047803	W		2011-02-03	1996-07-31	
-S000005905	ORF	Verified	YOR378W	AMF1		chromosome 15		15	1049511	1051058	W		2011-02-03	1996-07-31	Low affinity NH4+ transporter; member of the DHA2 family of drug:H+ anti porters; putative paralog of ATR1; but not required for boron tolerance; non-essential gene
-S000034342	CDS					YOR378W		15	1049511	1051058	W		2011-02-03	1996-07-31	
-S000005906	ORF	Dubious	YOR379C			chromosome 15		15	1051064	1050726	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOR378W
-S000034365	CDS					YOR379C		15	1051064	1050726	C		2011-02-03	1996-07-31	
-S000005907	ORF	Verified	YOR380W	RDR1		chromosome 15		15	1051290	1052930	W		2011-02-03	1996-07-31	Transcriptional repressor involved in regulating multidrug resistance; negatively regulates expression of the PDR5 gene; member of the Gal4p family of zinc cluster proteins
-S000035338	CDS					YOR380W		15	1051290	1052930	W		2011-02-03	1996-07-31	
-S000005908	ORF	Verified	YOR381W	FRE3	ferric-chelate reductase	chromosome 15	L000003555	15	1055545	1057680	W		2011-02-03	1996-07-31	Ferric reductase; reduces siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels
-S000035406	CDS					YOR381W		15	1055545	1057680	W		2011-02-03	1996-07-31	
-S000028587	ORF	Uncharacterized	YOR381W-A			chromosome 15		15	1058423	1058590	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031338	CDS					YOR381W-A		15	1058423	1058590	W		2011-02-03	2003-07-29	
-S000005909	ORF	Verified	YOR382W	FIT2		chromosome 15		15	1059531	1059992	W		2011-02-03	1996-07-31	Mannoprotein that is incorporated into the cell wall; incorporated via a glycosylphosphatidylinositol (GPI) anchor; involved in the retention of siderophore-iron in the cell wall 
-S000035468	CDS					YOR382W		15	1059531	1059992	W		2011-02-03	1996-07-31	
-S000005910	ORF	Verified	YOR383C	FIT3		chromosome 15		15	1061055	1060441	C		2011-02-03	1996-07-31	Mannoprotein that is incorporated into the cell wall; incorporated via a glycosylphosphatidylinositol (GPI) anchor; involved in the retention of siderophore-iron in the cell wall 
-S000035495	CDS					YOR383C		15	1061055	1060441	C		2011-02-03	1996-07-31	
-S000005911	ORF	Verified	YOR384W	FRE5	putative ferric-chelate reductase	chromosome 15	L000003557	15	1061564	1063648	W		2011-02-03	1996-07-31	Putative ferric reductase with similarity to Fre2p; expression induced by low iron levels; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000035594	CDS					YOR384W		15	1061564	1063648	W		2011-02-03	1996-07-31	
-S000005912	ORF	Uncharacterized	YOR385W			chromosome 15		15	1065043	1065915	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YOR385W is not an essential gene
-S000036492	CDS					YOR385W		15	1065043	1065915	W		2011-02-03	1996-07-31	
-S000005913	ORF	Verified	YOR386W	PHR1	deoxyribodipyrimidine photo-lyase PHR1	chromosome 15	L000001432	15	1066839	1068536	W	205	2011-02-03	1996-07-31	DNA photolyase involved in photoreactivation; repairs pyrimidine dimers in the presence of visible light; induced by DNA damage; regulated by transcriptional repressor Rph1p
-S000036613	CDS					YOR386W		15	1066839	1068536	W		2011-02-03	1996-07-31	
-S000005914	ORF	Uncharacterized	YOR387C			chromosome 15		15	1070241	1069621	C		2011-02-03	1996-07-31	Putative protein of unknown function; regulated by the metal-responsive Aft1p transcription factor; highly inducible in zinc-depleted conditions; localizes to the soluble fraction; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; YOR387C has a paralog, VEL1, that arose from a single-locus duplication
-S000036646	CDS					YOR387C		15	1070241	1069621	C		2011-02-03	1996-07-31	
-S000005915	ORF	Verified	YOR388C	FDH1	formate dehydrogenase (NAD+)	chromosome 15	L000004078	15	1072923	1071793	C		2011-02-03	1996-07-31	NAD(+)-dependent formate dehydrogenase; may protect cells from exogenous formate
-S000036744	CDS					YOR388C		15	1072923	1071793	C		2011-02-03	1996-07-31	
-S000005916	ORF	Uncharacterized	YOR389W			chromosome 15		15	1074213	1076087	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression regulated by copper levels
-S000037549	CDS					YOR389W		15	1074213	1076087	W		2011-02-03	1996-07-31	
-S000005917	ORF	Verified	YOR390W	FEX1	fluoride transporter	chromosome 15		15	1076784	1077911	W		2011-02-03	1996-07-31	Protein involved in fluoride export; nearly identical to FEX2, and deletion of both proteins results in a large increase in fluoride sensitivity compared with the single mutant; contains two FEX domains connected by a linker; part of a widespread family of conserved fluoride export proteins
-S000030291	CDS					YOR390W		15	1076784	1077911	W		2011-02-03	1996-07-31	
-S000005918	ORF	Verified	YOR391C	HSP33	glutathione-independent methylglyoxalase family protein	chromosome 15		15	1079258	1078545	C		2011-02-03	1996-07-31	Possible chaperone and cysteine protease; required for transcriptional reprogramming during the diauxic shift and for survival in stationary phase; similar to E. coli Hsp31 and S. cerevisiae Hsp31p, Hsp32p, and Sno4p; member of the DJ-1/ThiJ/PfpI superfamily, which includes human DJ-1 involved in Parkinson's disease and cancer
-S000030329	CDS					YOR391C		15	1079258	1078545	C		2011-02-03	1996-07-31	
-S000005919	ORF	Dubious	YOR392W			chromosome 15		15	1079282	1079725	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; gene expression induced by heat
-S000031315	CDS					YOR392W		15	1079282	1079725	W		2011-02-03	1996-07-31	
-S000005920	ORF	Verified	YOR393W	ERR1	phosphopyruvate hydratase ERR1	chromosome 15	L000002735	15	1080276	1081589	W		2011-02-03	1996-07-31	Putative phosphopyruvate hydratase
-S000031378	CDS					YOR393W		15	1080276	1081589	W		2011-02-03	1996-07-31	
-S000005921	ORF	Verified	YOR394W	PAU21	seripauperin PAU21	chromosome 15		15	1082718	1083212	W		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cytosol; identical to Pau22p; encodes two proteins that are translated from 2 different start codons
-S000031488	CDS					YOR394W		15	1082718	1083212	W		2011-02-03	1996-07-31	
-S000028997	telomere		TEL15R			chromosome 15		15	1083922	1091291	W	229	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XV; composed of an X element core sequence, X element combinatorial repeats, a long Y' element, and a very short terminal stretch of telomeric repeats
-S000028998	telomeric_repeat					TEL15R		15	1091274	1091291	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome XV
-S000028999	X_element					TEL15R		15	1083922	1084367	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XV; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YOR394C-A
-S000029000	X_element_combinatorial_repeat					TEL15R		15	1084368	1084620	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XV; contains repeats of the D, C, and B types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000029001	Y_prime_element					TEL15R		15	1084621	1091273	W		2011-02-03	2003-09-09	Telomeric long Y' element on the right arm of Chromosome XV; contains an ARS consensus sequence, a region of 36-bp repeats, and ORFs YOR396W and YOR396C-A
-S000028718	ORF	Uncharacterized	YOR394C-A			chromosome 15		15	1084369	1084202	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032689	CDS					YOR394C-A		15	1084369	1084202	C		2011-02-03	2003-07-29	
-S000007526	ORF	Uncharacterized	YOR396W	YRF1-8	Y' element ATP-dependent helicase protein 1 copy 8	chromosome 15		15	1085473	1090863	W		2011-02-03	2000-07-14|2007-02-07	One of several telomeric Y' element-encoded DNA helicases; known as Y'-Help1 (Y'-HELicase Protein 1)
-S000037061	CDS					YOR396W		15	1085473	1090863	W		2011-02-03	2000-07-14|2007-02-07	
-S000028719	ORF	Dubious	YOR396C-A			chromosome 15		15	1090497	1090015	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032691	CDS					YOR396C-A		15	1090497	1090015	C		2011-02-03	2003-07-29	
-S000028724	ORF	Dubious	YPL283W-B			chromosome 16		16	643	1125	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032709	CDS					YPL283W-B		16	643	1125	W		2003-07-29	2003-07-29	
-S000028723	ORF	Dubious	YPL283W-A			chromosome 16		16	1426	2001	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032706	CDS					YPL283W-A		16	1426	2001	W		2003-07-29	2003-07-29	
-S000006204	ORF	Verified	YPL283C	YRF1-7	Y' element ATP-dependent helicase protein 1 copy 7|YRF1	chromosome 16		16	6007	280	C		1996-07-31	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
-S000036889	CDS					YPL283C		16	5840	280	C		1996-07-31	1996-07-31	
-S000036888	CDS					YPL283C		16	6007	5989	C		1996-07-31	1996-07-31	
-S000036890	intron					YPL283C		16	5988	5841	C		1996-07-31	1996-07-31	
-S000028933	telomere		TEL16L			chromosome 16		16	7223	1	C	-169	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XVI; annotated components include an X element core sequence, X element combinatorial repeats, and a long Y' element; TEL16L does have telomeric repeats (TEL16L-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
-S000028934	X_element					TEL16L		16	7223	6778	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XVI; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028935	X_element_combinatorial_repeat					TEL16L		16	6777	6525	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XVI; contains repeats of the D, C and B types; formerly called SubTelomeric Repeats
-S000028936	Y_prime_element					TEL16L		16	6524	1	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome XVI; contains an ARS consensus sequence, a region of 36-bp repeats, and ORFs YRF1-7/YPL283C, YPL283W-A, YPL283W-B
-S000006203	ORF	Verified	YPL282C	PAU22	seripauperin PAU22	chromosome 16		16	8427	7933	C		1996-07-31	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole; identical to Pau21p; encodes two proteins that are translated from two different start codons
-S000036818	CDS					YPL282C		16	8427	7933	C		1996-07-31	1996-07-31	
-S000006202	ORF	Verified	YPL281C	ERR2	phosphopyruvate hydratase ERR2	chromosome 16	L000004075	16	10870	9557	C		1996-07-31	1996-07-31	Enolase, a phosphopyruvate hydratase; catalyzes the conversion of 2-phosphoglycerate to phosphoenolpyruvate; complements the growth defect of an ENO1 ENO2 double mutant
-S000035948	CDS					YPL281C		16	10870	9557	C		1996-07-31	1996-07-31	
-S000006201	ORF	Verified	YPL280W	HSP32	glutathione-independent methylglyoxalase family protein	chromosome 16		16	11887	12600	W		1996-07-31	1996-07-31	Possible chaperone and cysteine protease; required for transcriptional reprogramming during the diauxic shift and for survival in stationary phase; similar to E. coli Hsp31 and S. cerevisiae Hsp31p, Hsp33p, and Sno4p; member of the DJ-1/ThiJ/PfpI superfamily, which includes human DJ-1 involved in Parkinson's disease and cancer
-S000035901	CDS					YPL280W		16	11887	12600	W		1996-07-31	1996-07-31	
-S000006200	ORF	Verified	YPL279C	FEX2	fluoride transporter	chromosome 16		16	14355	13228	C		1996-07-31	1996-07-31	Protein involved in fluoride export; nearly identical to FEX1, and deletion of both proteins results in a large increase in fluoride sensitivity compared with the single mutant; contains two FEX domains connected by a linker; part of a widespread family of conserved fluoride export proteins
-S000034797	CDS					YPL279C		16	14355	13228	C		1996-07-31	1996-07-31	
-S000006199	ORF	Uncharacterized	YPL278C			chromosome 16		16	15355	15053	C		1996-07-31	1996-07-31	Putative protein of unknown function; gene expression regulated by copper levels
-S000034632	CDS					YPL278C		16	15355	15053	C		1996-07-31	1996-07-31	
-S000006198	ORF	Uncharacterized	YPL277C			chromosome 16		16	16868	15405	C		1996-07-31	1996-07-31	Putative protein of unknown function; localized to the membranes; gene expression regulated by copper levels
-S000033762	CDS					YPL277C		16	16868	15405	C		1996-07-31	1996-07-31	
-S000006197	pseudogene		YPL276W		FDH2	chromosome 16		16	17948	18385	W		1996-07-31	1996-07-31	NAD(+)-dependent formate dehydrogenase; may protect cells from exogenous formate; YPL275W and YPL276W comprise a continuous open reading frame in some S. cerevisiae strains but not in the genomic reference strain S288C
-S000033699	CDS					YPL276W		16	17948	18385	W		1996-07-31	1996-07-31	
-S000006196	pseudogene		YPL275W	FDH2		chromosome 16		16	18369	19079	W		1996-07-31	1996-07-31	NAD(+)-dependent formate dehydrogenase; may protect cells from exogenous formate; YPL275W and YPL276W comprise a continuous open reading frame in some S. cerevisiae strains but not in the genomic reference strain S288C
-S000033615	CDS					YPL275W		16	18369	19079	W		1996-07-31	1996-07-31	
-S000130195	ARS		ARS1603			chromosome 16		16	18370	19069			2009-05-08	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000006195	ORF	Verified	YPL274W	SAM3	bifunctional polyamine/amino acid permease SAM3	chromosome 16	L000004875	16	22938	24701	W		1996-07-31	1996-07-31	High-affinity S-adenosylmethionine permease; required for utilization of S-adenosylmethionine as a sulfur source; has similarity to S-methylmethionine permease Mmp1p
-S000033506	CDS					YPL274W		16	22938	24701	W		1996-07-31	1996-07-31	
-S000006194	ORF	Verified	YPL273W	SAM4	S-adenosylmethionine-homocysteine S-methyltransferase SAM4	chromosome 16		16	25087	26064	W		1996-07-31	1996-07-31	S-adenosylmethionine-homocysteine methyltransferase; functions along with Mht1p in the conversion of S-adenosylmethionine (AdoMet) to methionine to control the methionine/AdoMet ratio; SAM4 has a paralog, YMR321C, that arose from a single-locus duplication
-S000032785	CDS					YPL273W		16	25087	26064	W		1996-07-31	1996-07-31	
-S000006193	ORF	Uncharacterized	YPL272C	PBI1		chromosome 16		16	28164	26611	C		1996-07-31	1996-07-31	Putative protein of unknown function; gene expression induced in response to ketoconazole; YPL272C is not an essential gene
-S000032642	CDS					YPL272C		16	28164	26611	C		1996-07-31	1996-07-31	
-S000006192	ORF	Verified	YPL271W	ATP15	F1F0 ATP synthase subunit epsilon|ATPEPSILON	chromosome 16	L000000151|L000000152	16	30079	30267	W		1996-07-31	1996-07-31	Epsilon subunit of the F1 sector of mitochondrial F1F0 ATP synthase; which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; F1 translationally regulates ATP6 and ATP8 expression to achieve a balanced output of ATP synthase genes encoded in nucleus and mitochondria; phosphorylated
-S000032564	CDS					YPL271W		16	30079	30267	W		1996-07-31	1996-07-31	
-S000006191	ORF	Verified	YPL270W	MDL2	ATP-binding cassette permease MDL2	chromosome 16	L000001050	16	30482	32803	W		2003-09-22	2003-09-22|1996-07-31	Mitochondrial inner membrane half-type ABC transporter; required for respiratory growth at high temperature; localizes to vacuole membrane in response to H2O2; similar to human TAP1 and TAP2 implicated in bare lymphocyte syndrome and Wegener-like granulomatosis
-S000031583	CDS					YPL270W		16	30482	32803	W		2003-09-22	2003-09-22|1996-07-31	
-S000006190	ORF	Verified	YPL269W	KAR9		chromosome 16	L000002932	16	33013	34947	W		1996-07-31	1996-07-31	Spindle positioning factor; orients astral microtubules, connecting them to actin cables at the cortex with Bim1p and Myo2, resulting in proper spindle positioning; targeted for StuBL-dependent degradation at kinetochores by Slx5p-Slx8p, ensuring chromosome transmission fidelity and correct spindle positioning; role in karyogamy; localizes to the shmoo tip, the growing bud-tip, the nucleus, the kinetochore, the spindle and microtubules; homolog of adenomatous polyposis coli
-S000031613	CDS					YPL269W		16	33013	34947	W		1996-07-31	1996-07-31	
-S000006189	ORF	Verified	YPL268W	PLC1	phosphatidylinositol phospholipase C	chromosome 16	L000001448	16	35236	37845	W	-167.2	1996-07-31	1996-07-31	Phospholipase C; hydrolyzes phosphatidylinositol 4,5-biphosphate (PIP2) to generate the signaling molecules inositol 1,4,5-triphosphate (IP3) and 1,2-diacylglycerol (DAG); involved in regulating many cellular processes; Plc1p and inositol polyphosphates are required for acetyl-CoA homeostasis which regulates global histone acetylation
-S000031510	CDS					YPL268W		16	35236	37845	W		1996-07-31	1996-07-31	
-S000006188	ORF	Verified	YPL267W	ACM1		chromosome 16		16	38169	38798	W		1996-07-31	1996-07-31	Pseudosubstrate inhibitor of the APC/C; suppresses APC/C [Cdh1]-mediated proteolysis of mitotic cyclins; associates with Cdh1p, Bmh1p and Bmh2p; cell cycle regulated protein; the anaphase-promoting complex/cyclosome is also known as APC/C
-S000030663	CDS					YPL267W		16	38169	38798	W		1996-07-31	1996-07-31	
-S000006187	ORF	Verified	YPL266W	DIM1	putative dimethyladenosine transferase|CDH1	chromosome 16	L000002579	16	39121	40077	W		1996-07-31	1996-07-31	Essential 18S rRNA dimethylase (dimethyladenosine transferase); responsible for conserved m6(2)Am6(2)A dimethylation in 3'-terminal loop of 18S rRNA, part of 90S and 40S pre-particles in nucleolus, involved in pre-ribosomal RNA processing; human homolog DIMT1 complements yeast dim1 mutant
-S000030548	CDS					YPL266W		16	39121	40077	W		1996-07-31	1996-07-31	
-S000006186	ORF	Verified	YPL265W	DIP5		chromosome 16	L000003178	16	41043	42869	W		1996-07-31	1996-07-31	Dicarboxylic amino acid permease; mediates high-affinity and high-capacity transport of L-glutamate and L-aspartate; also a transporter for Gln, Asn, Ser, Ala, and Gly; relocalizes from plasma membrane to vacuole upon DNA replication stress
-S000030403	CDS					YPL265W		16	41043	42869	W		1996-07-31	1996-07-31	
-S000118411	ARS		ARS1604		ARSXVI-43	chromosome 16		16	42977	43212			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000178190	ARS_consensus_sequence					ARS1604		16	43163	43147	C		2014-11-18	2014-11-18	
-S000006185	ORF	Uncharacterized	YPL264C			chromosome 16		16	44344	43283	C		1996-07-31	1996-07-31	Putative membrane protein of unknown function; physically interacts with Hsp82p; YPL264C is not an essential gene
-S000037545	CDS					YPL264C		16	44344	43283	C		1996-07-31	1996-07-31	
-S000006184	ORF	Verified	YPL263C	KEL3		chromosome 16		16	46506	44551	C		1996-07-31	1996-07-31	Cytoplasmic protein of unknown function
-S000037435	CDS					YPL263C		16	46506	44551	C		1996-07-31	1996-07-31	
-S000006183	ORF	Verified	YPL262W	FUM1	fumarase FUM1	chromosome 16	L000000632	16	47336	48802	W		1996-07-31	1996-07-31	Fumarase; converts fumaric acid to L-malic acid in the TCA cycle; cytosolic and mitochondrial distribution determined by the N-terminal targeting sequence, protein conformation, and status of glyoxylate shunt; phosphorylated in mitochondria
-S000037382	CDS					YPL262W		16	47336	48802	W		1996-07-31	1996-07-31	
-S000006181	ORF	Verified	YPL260W	CUB1		chromosome 16		16	49303	50958	W		1996-07-31	1996-07-31	Conserved fungal gene linked to DNA repair and proteasome function; putative substrate of cAMP-dependent protein kinase (PKA); green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YPL260W is not an essential gene; protein abundance increases in response to DNA replication stress
-S000036555	CDS					YPL260W		16	49303	50958	W		1996-07-31	1996-07-31	
-S000006182	ORF	Uncharacterized	YPL261C			chromosome 16		16	49304	48996	C		1996-07-31	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YPL261C is not an essential gene; partially overlaps verified ORF YPL260W
-S000036608	CDS					YPL261C		16	49304	48996	C		1996-07-31	1996-07-31	
-S000006180	ORF	Verified	YPL259C	APM1	YAP54	chromosome 16	L000002494	16	52671	51244	C		1996-07-31	1996-07-31	Mu1-like medium subunit of the AP-1 complex; binds clathrin; involved in clathrin-dependent Golgi protein sorting; the AP-1 complex is the clathrin-associated protein complex
-S000036655	CDS					YPL259C		16	52671	51244	C		1996-07-31	1996-07-31	
-S000006179	ORF	Verified	YPL258C	THI21	bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase	chromosome 16		16	55153	53498	C		1996-07-31	1996-07-31	Hydroxymethylpyrimidine (HMP) and HMP-phosphate kinase; involved in thiamine biosynthesis; member of a gene family with THI20 and THI22; functionally redundant with Thi20p
-S000035722	CDS					YPL258C		16	55153	53498	C		1996-07-31	1996-07-31	
-S000007184	long_terminal_repeat		YPLCdelta1			chromosome 16		16	55858	55657	C		2000-05-19	2000-05-19	Ty1 LTR
-S000006776	tRNA_gene		tW(CCA)P			chromosome 16	L000003737	16	56274	56169	C		2000-05-19	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
-S000034120	intron					tW(CCA)P		16	56238	56205	C		2000-05-19	2000-05-19	
-S000034119	noncoding_exon					tW(CCA)P		16	56204	56169	C		2000-05-19	2000-05-19	
-S000034118	noncoding_exon					tW(CCA)P		16	56274	56239	C		2000-05-19	2000-05-19	
-S000007198	long_terminal_repeat		YPLWsigma1			chromosome 16		16	56290	56358	W		2000-05-19	2000-05-19	Ty3 LTR
-S000007189	long_terminal_repeat		YPLWdelta2			chromosome 16		16	56409	56451	W		2000-05-19	2000-05-19	Ty1 LTR
-S000007190	long_terminal_repeat		YPLWdelta3			chromosome 16		16	56452	56788	W		2000-05-19	2000-05-19	Ty1 LTR
-S000007199	LTR_retrotransposon		YPLWTy1-1		Ty1	chromosome 16		16	56452	62375	W		2000-05-19	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007357	transposable_element_gene		YPL257W-A		gag protein	chromosome 16		16	56748	58070	W		1996-07-31	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000033164	CDS					YPL257W-A		16	56748	58070	W		1996-07-31	1996-07-31	
-S000007358	transposable_element_gene		YPL257W-B		gag-pol fusion protein	chromosome 16		16	56748	62016	W		1997-07-17	1997-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000033173	CDS					YPL257W-B		16	56748	58052	W		1997-07-17	1997-07-17	
-S000033174	CDS					YPL257W-B		16	58054	62016	W		1997-07-17	1997-07-17	
-S000033175	plus_1_translational_frameshift					YPL257W-B		16	58053	58053	W		1997-07-17	1997-07-17	
-S000007191	long_terminal_repeat		YPLWdelta4			chromosome 16		16	62039	62375	W		2000-05-19	2000-05-19	Ty1 LTR
-S000007192	long_terminal_repeat		YPLWdelta5			chromosome 16		16	62389	62720	W		2000-05-19	2000-05-19	Ty2 LTR
-S000007193	long_terminal_repeat		YPLWdelta6			chromosome 16		16	62724	63006	W		2000-05-19	2000-05-19	Ty1 LTR
-S000006178	ORF	Uncharacterized	YPL257W			chromosome 16		16	63279	63860	W		1996-07-31	1996-07-31	Putative protein of unknown function; homozygous diploid deletion strain exhibits low budding index; physically interacts with Hsp82p; YPL257W is not an essential gene
-S000035666	CDS					YPL257W		16	63279	63860	W		1996-07-31	1996-07-31	
-S000006177	ORF	Verified	YPL256C	CLN2	cyclin CLN2	chromosome 16	L000000358	16	66614	64977	C		1996-07-31	1996-07-31	G1 cyclin involved in regulation of the cell cycle; activates Cdc28p kinase to promote the G1 to S phase transition; late G1 specific expression depends on transcription factor complexes, MBF (Swi6p-Mbp1p) and SBF (Swi6p-Swi4p); CLN2 has a paralog, CLN1, that arose from the whole genome duplication; cell cycle arrest phenotype of the cln1 cln2 cln3 triple null mutant is complemented by any of human cyclins CCNA2, CCNB1, CCNC, CCND1, or CCNE1
-S000035542	CDS					YPL256C		16	66614	64977	C		1996-07-31	1996-07-31	
-S000006176	ORF	Verified	YPL255W	BBP1		chromosome 16	L000003060	16	67725	68882	W		1996-07-31	1996-07-31	Protein required for the spindle pole body (SPB) duplication; localizes at the cytoplasmic side of the central plaque periphery of the SPB; forms a complex with a nuclear envelope protein Mps2p and SPB components Spc29p and Kar1p; required for mitotic functions of Cdc5p
-S000035492	CDS					YPL255W		16	67725	68882	W		1996-07-31	1996-07-31	
-S000006175	ORF	Verified	YPL254W	HFI1	GAN1|SRM12|SUP110|ADA1	chromosome 16	L000003094	16	69485	70951	W		1996-07-31	1996-07-31	Adaptor protein required for structural integrity of the SAGA complex; a histone acetyltransferase-coactivator complex that is involved in global regulation of gene expression through acetylation and transcription functions
-S000034469	CDS					YPL254W		16	69485	70951	W		1996-07-31	1996-07-31	
-S000006174	ORF	Verified	YPL253C	VIK1		chromosome 16	L000004276	16	73006	71063	C		1996-07-31	1996-07-31	Protein that forms a kinesin-14 heterodimeric motor with Kar3p; localizes Kar3p at mitotic spindle poles; has a structure similar to a kinesin motor domain but lacks an ATP-binding site and is catalytically inactive; binds microtubules; required for sister chromatid cohesion; VIK1 has a paralog, CIK1, that arose from the whole genome duplication
-S000034335	CDS					YPL253C		16	73006	71063	C		1996-07-31	1996-07-31	
-S000118412	ARS		ARS1605		ARSXVI-73	chromosome 16		16	73032	73227			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000006172	ORF	Dubious	YPL251W			chromosome 16		16	73625	73927	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps 5' end of the verified, essential gene YAH1/YPL252C
-S000033368	CDS					YPL251W		16	73625	73927	W		1996-07-31	1996-07-31	
-S000006173	ORF	Verified	YPL252C	YAH1	adrenodoxin	chromosome 16	L000004699	16	73881	73363	C		1996-07-31	1996-07-31	Ferredoxin of the mitochondrial matrix; required for formation of cellular iron-sulfur proteins; involved in heme A biosynthesis; human homolog FDX1L can complement yeast by allowing growth during down-regulation of yeast YAH1
-S000033428	CDS					YPL252C		16	73881	73363	C		1996-07-31	1996-07-31	
-S000006171	ORF	Verified	YPL250C	ATG41	ICY2	chromosome 16	S000007528	16	74719	74309	C		1996-07-31	1996-07-31	Protein of unknown function; required for selective and nonselective autophagy, and mitophagy; regulates the rate of autophagosome formation; interacts with Atg9p, and has a similar peri-mitochondrial localization; elevated Gcn4p-dependent expression under autophagy-inducing conditions; mobilized into polysomes upon a shift from a fermentable to nonfermentable carbon source; potential Cdc28p substrate; ATG41 has a paralog, ICY1, that arose from the whole genome duplication
-S000033279	CDS					YPL250C		16	74719	74309	C		1996-07-31	1996-07-31	
-S000028589	ORF	Dubious	YPL250W-A			chromosome 16		16	75702	75989	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified ORF RPL36B/YPL249C-A; identified by fungal homology and RT-PCR
-S000031342	CDS					YPL250W-A		16	75702	75989	W		2003-07-29	2003-07-29	
-S000006438	ORF	Verified	YPL249C-A	RPL36B	eL36|ribosomal 60S subunit protein L36B|L36e|YL39|L39|L36B	chromosome 16	L000004515	16	76239	75699	C		1999-07-17	1999-07-17	Ribosomal 60S subunit protein L36B; binds to 5.8 S rRNA; homologous to mammalian ribosomal protein L36, no bacterial homolog; RPL36B has a paralog, RPL36A, that arose from the whole genome duplication
-S000032350	CDS					YPL249C-A		16	75985	75699	C		1997-07-17	1997-07-17	
-S000032349	CDS					YPL249C-A		16	76239	76224	C		1999-07-17	1999-07-17	
-S000032351	intron					YPL249C-A		16	76223	75986	C		1997-07-17	1997-07-17	
-S000006170	ORF	Verified	YPL249C	GYP5		chromosome 16		16	79353	76669	C		1996-07-31	1996-07-31	GTPase-activating protein (GAP) for yeast Rab family members; involved in ER to Golgi trafficking; exhibits GAP activity toward Ypt1p that is stimulated by Gyl1p, also acts on Sec4p; interacts with Gyl1p, Rvs161p and Rvs167p; involved in recruiting Rvs167p to the bud tip during polarized growth; relocalizes from bud neck to cytoplasm upon DNA replication stress; GYP5 has a paralog, GYL1, that arose from the whole genome duplication
-S000032543	CDS					YPL249C		16	79353	76669	C		1996-07-31	1996-07-31	
-S000006169	ORF	Verified	YPL248C	GAL4	galactose-responsive transcription factor GAL4|GAL81	chromosome 16	L000000661	16	82356	79711	C	-143	1996-07-31	1996-07-31	DNA-binding transcription factor required for activating GAL genes; responds to galactose; repressed by Gal80p and activated by Gal3p
-S000032436	CDS					YPL248C		16	82356	79711	C		1996-07-31	1996-07-31	
-S000006168	ORF	Uncharacterized	YPL247C			chromosome 16		16	84196	82625	C		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; similar to the petunia WD repeat protein an11; overexpression causes a cell cycle delay or arrest
-S000031428	CDS					YPL247C		16	84196	82625	C		1996-07-31	1996-07-31	
-S000006167	ORF	Verified	YPL246C	RBD2	putative rhomboid protease RBD2	chromosome 16		16	85297	84509	C		1996-07-31	1996-07-31	Possible rhomboid protease; has similarity to eukaryotic rhomboid proteases including Pcp1p
-S000031296	CDS					YPL246C		16	85297	84509	C		1996-07-31	1996-07-31	
-S000006166	ORF	Uncharacterized	YPL245W			chromosome 16		16	85586	86950	W		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the nucleus and the cytoplasm
-S000031264	CDS					YPL245W		16	85586	86950	W		1996-07-31	1996-07-31	
-S000006165	ORF	Verified	YPL244C	HUT1		chromosome 16		16	88033	87014	C		1996-07-31	1996-07-31	Protein with a role in UDP-galactose transport to the Golgi lumen; has similarity to human UDP-galactose transporter UGTrel1, exhibits a genetic interaction with S. cerevisiae ERO1
-S000031081	CDS					YPL244C		16	88033	87014	C		1996-07-31	1996-07-31	
-S000006164	ORF	Verified	YPL243W	SRP68	signal recognition particle subunit SRP68	chromosome 16	L000002065	16	88517	90316	W		1996-07-31	1996-07-31	Core component of the signal recognition particle (SRP) complex; SRP complex functions in targeting nascent secretory proteins to the endoplasmic reticulum (ER) membrane; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress
-S000030136	CDS					YPL243W		16	88517	90316	W		1996-07-31	1996-07-31	
-S000006163	ORF	Verified	YPL242C	IQG1	CYK1	chromosome 16	L000004180	16	95109	90622	C		1996-07-31	1996-07-31	Essential protein required for determination of budding pattern; promotes localization of axial markers Bud4p and Cdc12p and functionally interacts with Sec3p, localizes to the contractile ring during anaphase, member of the IQGAP family; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000029942	CDS					YPL242C		16	95109	90622	C		1996-07-31	1996-07-31	
-S000006162	ORF	Verified	YPL241C	CIN2	GTPase-activating protein CIN2	chromosome 16	L000000337	16	96258	95372	C	-143	1996-07-31	1996-07-31	GTPase-activating protein (GAP) for Cin4p; tubulin folding factor C involved in beta-tubulin (Tub2p) folding; mutants display increased chromosome loss and benomyl sensitivity; human homolog RP2 complements yeast null mutant
-S000037281	CDS					YPL241C		16	96153	95372	C		1996-07-31	1996-07-31	
-S000037280	CDS					YPL241C		16	96258	96234	C		1996-07-31	1996-07-31	
-S000037282	intron					YPL241C		16	96233	96154	C		1996-07-31	1996-07-31	
-S000006161	ORF	Verified	YPL240C	HSP82	Hsp90 family chaperone HSP82|HSP90	chromosome 16	L000000822	16	98625	96496	C	-137	1996-07-31	1996-07-31	Hsp90 chaperone; redundant in function with Hsc82p; required for pheromone signaling, negative regulation of Hsf1p; docks with Tom70p for mitochondrial preprotein delivery; promotes telomerase DNA binding, nucleotide addition; protein abundance increases in response to DNA replication stress; contains two acid-rich unstructured regions that promote solubility of chaperone-substrate complexes; HSP82 has a paralog, HSC82, that arose from the whole genome duplication
-S000037196	CDS					YPL240C		16	98625	96496	C		1996-07-31	1996-07-31	
-S000006160	ORF	Verified	YPL239W	YAR1		chromosome 16	L000002496	16	99484	100086	W		1996-07-31	1996-07-31	Ankyrin-repeat containing, nucleocytoplasmic shuttling chaperone; prevents aggregation of Rps3p in the cytoplasm, associates with nascent Rps3p during its translation in the cytoplasm and delivers it to the 90S in the nucleus; required for 40S ribosomal subunit export, biogenesis and adaptation to osmotic and oxidative stress; expression repressed by heat shock
-S000036306	CDS					YPL239W		16	99484	100086	W		1996-07-31	1996-07-31	
-S000006158	ORF	Verified	YPL237W	SUI3	translation initiation factor eIF2 subunit beta	chromosome 16	L000002179	16	100496	101353	W		1996-07-31	1996-07-31	Beta subunit of the translation initiation factor eIF2; involved in the identification of the start codon; proposed to be involved in mRNA binding
-S000035286	CDS					YPL237W		16	100496	101353	W		1996-07-31	1996-07-31	
-S000006159	ORF	Dubious	YPL238C			chromosome 16		16	100863	100474	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps 5' end of the verified essential gene SUI3/YPL237W
-S000036133	CDS					YPL238C		16	100863	100474	C		1996-07-31	1996-07-31	
-S000006157	ORF	Verified	YPL236C	ENV7	putative serine/threonine protein kinase ENV7	chromosome 16		16	102702	101608	C		1996-07-31	1996-07-31	Vacuolar membrane protein kinase; negatively regulates membrane fusion; associates with vacuolar membrane through palmitoylation of one or more cysteines in consensus sequence; vacuolar membrane association is essential to its kinase activity; mutant shows defect in CPY processing; ortholog of human serine/threonine kinase 16 (STK16)
-S000035042	CDS					YPL236C		16	102702	101608	C		1996-07-31	1996-07-31	
-S000006156	ORF	Verified	YPL235W	RVB2	RuvB family ATP-dependent DNA helicase reptin|TIP48|TIH2|TIP49B	chromosome 16	S000007484	16	103232	104647	W		1996-07-31	1996-07-31	ATP-dependent DNA helicase, also known as reptin; member of the AAA+ and RuvB protein families, similar to Rvb1p; conserved component of multiple complexes including the INO80 complex, the Swr1 complex, and the R2TP complex (Rvb1-Rvb2-Tah1-Pih1); involved in multiple processes such as chromatin remodeling, box C/D snoRNP assembly, and RNA polymerase II assembly
-S000034953	CDS					YPL235W		16	103232	104647	W		1996-07-31	1996-07-31	
-S000006155	ORF	Verified	YPL234C	VMA11	H(+)-transporting V0 sector ATPase subunit c'|TFP3|CLS9	chromosome 16	L000002290|L000002464	16	105440	104946	C		1996-07-31	1996-07-31	Vacuolar ATPase V0 domain subunit c'; involved in proton transport activity; hydrophobic integral membrane protein (proteolipid) containing four transmembrane segments; N and C termini are in the vacuolar lumen
-S000033991	CDS					YPL234C		16	105440	104946	C		1996-07-31	1996-07-31	
-S000006154	ORF	Verified	YPL233W	NSL1	MIND complex subunit NSL1	chromosome 16	L000004652	16	106172	106822	W		1996-07-31	1996-07-31	Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; required for accurate chromosome segregation; complex consists of Mtw1p Including Nnf1p-Nsl1p-Dsn1p (MIND)
-S000033898	CDS					YPL233W		16	106172	106822	W		1996-07-31	1996-07-31	
-S000006153	ORF	Verified	YPL232W	SSO1	syntaxin	chromosome 16	L000002089	16	107275	108147	W		1996-07-31	1996-07-31	Plasma membrane t-SNARE; involved in fusion of secretory vesicles at the plasma membrane and in vesicle fusion during sporulation; forms a complex with Sec9p that binds v-SNARE Snc2p; syntaxin homolog; functionally redundant with Sso2p; SSO1 has a paralog, SSO2, that arose from the whole genome duplication
-S000033777	CDS					YPL232W		16	107275	108147	W		1996-07-31	1996-07-31	
-S000006152	ORF	Verified	YPL231W	FAS2	trifunctional fatty acid synthase subunit FAS2	chromosome 16	L000000602	16	108652	114315	W	-125	1996-07-31	1996-07-31	Alpha subunit of fatty acid synthetase; complex catalyzes the synthesis of long-chain saturated fatty acids; contains the acyl-carrier protein domain and beta-ketoacyl reductase, beta-ketoacyl synthase and self-pantetheinylation activities
-S000033048	CDS					YPL231W		16	108652	114315	W		1996-07-31	1996-07-31	
-S000006151	ORF	Verified	YPL230W	USV1	NSF1	chromosome 16	L000004623	16	115312	116487	W		1996-07-31	1996-07-31	Putative transcription factor containing a C2H2 zinc finger; mutation affects transcriptional regulation of genes involved in growth on non-fermentable carbon sources, response to salt stress and cell wall biosynthesis; USV1 has a paralog, RGM1, that arose from the whole genome duplication
-S000032959	CDS					YPL230W		16	115312	116487	W		1996-07-31	1996-07-31	
-S000122111	five_prime_UTR_intron					YPL230W		16	115219	115293	W		2007-04-04	2007-04-04	
-S000118413	ARS		ARS1607		ARSXVI-117	chromosome 16		16	116566	116680			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178191	ARS_consensus_sequence					ARS1607		16	116593	116609	W		2014-11-18	2014-11-18	
-S000006150	ORF	Uncharacterized	YPL229W			chromosome 16		16	117067	117687	W		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; not an essential gene; YPL229W has a paralog, YMR181C, that arose from the whole genome duplication
-S000032811	CDS					YPL229W		16	117067	117687	W		1996-07-31	1996-07-31	
-S000006149	ORF	Verified	YPL228W	CET1	polynucleotide 5'-phosphatase|CES5	chromosome 16	L000004278	16	118382	120031	W		1996-07-31	1996-07-31	RNA 5'-triphosphatase involved in mRNA 5' capping; subunit of mRNA capping enzyme, which is a heterotetramer composed of a Cet1p homodimer and two molecules of guanylyltransferase Ceg1p; Cet1p also has a role in regulation of RNAPII pausing at promoter-proximal sites; interaction between Cet1p and Ceg1p is required for Ceg1p nuclear import; mammalian enzyme is single bifunctional polypeptide; human homolog RNGTT can complement yeast cet1 null mutant
-S000032710	CDS					YPL228W		16	118382	120031	W		1996-07-31	1996-07-31	
-S000006148	ORF	Verified	YPL227C	ALG5	dolichyl-phosphate beta-glucosyltransferase	chromosome 16	L000000077	16	121167	120163	C		1996-07-31	1996-07-31	UDP-glucose:dolichyl-phosphate glucosyltransferase; involved in asparagine-linked glycosylation in the endoplasmic reticulum; human ortholog ALG5 can partially complement yeast alg5 mutant
-S000032583	CDS					YPL227C		16	121167	120163	C		1996-07-31	1996-07-31	
-S000006147	ORF	Verified	YPL226W	NEW1		chromosome 16	S000007490	16	121767	125357	W		1996-07-31	1996-07-31	ATP binding cassette protein; cosediments with polysomes and is required for biogenesis of the small ribosomal subunit; Asn/Gln-rich rich region supports [NU+] prion formation and susceptibility to [PSI+] prion induction
-S000031654	CDS					YPL226W		16	121767	125357	W		1996-07-31	1996-07-31	
-S000006146	ORF	Verified	YPL225W			chromosome 16		16	126006	126446	W		1996-07-31	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; protein abundance increases in response to DNA replication stress
-S000031511	CDS					YPL225W		16	126006	126446	W		1996-07-31	1996-07-31	
-S000006145	ORF	Verified	YPL224C	MMT2	MFT2	chromosome 16	L000004108	16	128088	126634	C		2011-02-03	1996-07-31|2011-02-03	Putative metal transporter involved in mitochondrial iron accumulation; MMT2 has a paralog, MMT1, that arose from the whole genome duplication
-S000030540	CDS					YPL224C		16	128088	126634	C		2011-02-03	1996-07-31|2011-02-03	
-S000006144	ORF	Verified	YPL223C	GRE1		chromosome 16	L000004176	16	129138	128632	C		2011-02-03	1996-07-31	Hydrophilin essential in desiccation-rehydration process; stress induced (osmotic, ionic, oxidative, heat shock and heavy metals); regulated by the HOG pathway; GRE1 has a paralog, SIP18, that arose from the whole genome duplication
-S000030402	CDS					YPL223C		16	129138	128632	C		2011-02-03	1996-07-31	
-S000006143	ORF	Uncharacterized	YPL222W	FMP40		chromosome 16		16	130162	132228	W		2011-02-03	1996-07-31	Putative protein of unknown function; proposed to be involved in responding to environmental stresses; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000030350	CDS					YPL222W		16	130162	132228	W		2011-02-03	1996-07-31	
-S000028722	ORF	Dubious	YPL222C-A			chromosome 16		16	132115	131870	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032704	CDS					YPL222C-A		16	132115	131870	C		2011-02-03	2003-07-29	
-S000006142	ORF	Verified	YPL221W	FLC1	flavin adenine dinucleotide transporter|BOP1|HUF1	chromosome 16	L000004721	16	133043	135424	W		2011-02-03	1996-07-31	Flavin adenine dinucleotide transporter; required for uptake of FAD into endoplasmic reticulum; involved in cell wall maintenance; FLC1 has a paralog, FLC3, that arose from the whole genome duplication
-S000030150	CDS					YPL221W		16	133043	135424	W		2011-02-03	1996-07-31	
-S000006141	ORF	Verified	YPL220W	RPL1A	uL1|PUB2|ribosomal 60S subunit protein L1A|L1|L1A|SSM1	chromosome 16	L000002657	16	135790	136443	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L1A; N-terminally acetylated; homologous to mammalian ribosomal protein L10A and bacterial L1; RPL1A has a paralog, RPL1B, that arose from the whole genome duplication; rpl1a rpl1b double null mutation is lethal
-S000037448	CDS					YPL220W		16	135790	136443	W		2011-02-03	1996-07-31	
-S000006140	ORF	Verified	YPL219W	PCL8		chromosome 16	L000004040	16	136750	138228	W		2011-02-03	1996-07-31	Cyclin; interacts with Pho85p cyclin-dependent kinase (Cdk) to phosphorylate and regulate glycogen synthase, also activates Pho85p for Glc8p phosphorylation; PCL8 has a paralog, PCL10, that arose from the whole genome duplication
-S000036617	CDS					YPL219W		16	136750	138228	W		2011-02-03	1996-07-31	
-S000006139	ORF	Verified	YPL218W	SAR1	Arf family GTPase SAR1	chromosome 16	L000001801	16	138698	139409	W		2011-02-03	1996-07-31	ARF family GTPase; component of the COPII vesicle coat; required for transport vesicle formation during ER to Golgi protein transport; lowers membrane rigidity aiding vesicle formation; localizes to ER-mitochondrial contact sites where it enhances membrane curvature, thereby reducing contact size via its N-terminal amphipathic helix; regulates mitochondrial fission and fusion dynamics
-S000036527	CDS					YPL218W		16	138698	138725	W		2011-02-03	1996-07-31	
-S000036528	CDS					YPL218W		16	138865	139409	W		2011-02-03	1996-07-31	
-S000036529	intron					YPL218W		16	138726	138864	W		2011-02-03	1996-07-31	
-S000006138	ORF	Verified	YPL217C	BMS1	GTPase BMS1	chromosome 16		16	143171	139620	C		2011-02-03	1996-07-31	GTPase required for ribosomal subunit synthesis and rRNA processing; required for synthesis of 40S ribosomal subunits and for processing the 35S pre-rRNA at sites A0, A1, and A2; interacts with Rcl1p, which stimulates its GTPase and U3 snoRNA binding activities; has similarity to Tsr1p
-S000035571	CDS					YPL217C		16	143171	139620	C		2011-02-03	1996-07-31	
-S000006137	ORF	Uncharacterized	YPL216W			chromosome 16		16	143821	147129	W		2011-02-03	1996-07-31	Putative protein of unknown function; not an essential gene; YPL216W has a paralog, ITC1, that arose from the whole genome duplication
-S000035522	CDS					YPL216W		16	143821	147129	W		2011-02-03	1996-07-31	
-S000006136	ORF	Verified	YPL215W	CBP3		chromosome 16	L000000226	16	147416	148423	W		2011-02-03	1996-07-31	Mitochondrial protein required for assembly of cytochrome bc1 complex; forms a complex with Cbp6p that binds to mt ribosomes near the polypeptide tunnel exit and promotes efficient translation of the COB mRNA; Cbp3p-Cbp6p complex also interacts with newly synthesized cytochrome b (Cobp) and Cbp4p to promote assembly of Cobp into the cytochrome bc1 complex; Cbp3p-Cbp6p complex is sequestered if assembly of Complex III is blocked, downregulating COB mRNA translation
-S000035433	CDS					YPL215W		16	147416	148423	W		2011-02-03	1996-07-31	
-S000006135	ORF	Verified	YPL214C	THI6	bifunctional hydroxyethylthiazole kinase/thiamine-phosphate diphosphorylase	chromosome 16	L000002634	16	150191	148569	C		2011-02-03	1996-07-31	Thiamine-phosphate diphosphorylase and hydroxyethylthiazole kinase; required for thiamine biosynthesis; GFP-fusion protein localizes to the cytoplasm in a punctate pattern
-S000034353	CDS					YPL214C		16	150191	148569	C		2011-02-03	1996-07-31	
-S000006134	ORF	Verified	YPL213W	LEA1	U2 snRNP complex subunit LEA1	chromosome 16		16	150614	151330	W		2011-02-03	1996-07-31	Component of U2 snRNP complex; disruption causes reduced U2 snRNP levels; physically interacts with Msl1p; putative homolog of human U2A' snRNP protein
-S000034273	CDS					YPL213W		16	150614	151330	W		2011-02-03	1996-07-31	
-S000006133	ORF	Verified	YPL212C	PUS1	pseudouridine synthase PUS1	chromosome 16	L000003360	16	153149	151515	C		2011-02-03	1996-07-31	tRNA:pseudouridine synthase; introduces pseudouridines at positions 26-28, 34-36, 65, and 67 of tRNA; also acts on U2 snRNA; also pseudouridylates some mRNAs, and pseudouridylation level varies with growth phase; nuclear protein that appears to be involved in tRNA export; PUS1 has a paralog, PUS2, that arose from the whole genome duplication
-S000033309	CDS					YPL212C		16	153149	151515	C		2011-02-03	1996-07-31	
-S000006132	ORF	Verified	YPL211W	NIP7	ribosome biosynthesis protein NIP7	chromosome 16	L000004183	16	153495	154040	W		2011-02-03	1996-07-31	Nucleolar protein required for 60S ribosome subunit biogenesis; constituent of 66S pre-ribosomal particles; physically interacts with Nop8p and the exosome subunit Rrp43p
-S000033280	CDS					YPL211W		16	153495	154040	W		2011-02-03	1996-07-31	
-S000006131	ORF	Verified	YPL210C	SRP72	signal recognition particle subunit SRP72	chromosome 16	L000002066	16	156212	154290	C		2011-02-03	2003-09-22|1996-07-31	Core component of the signal recognition particle (SRP); the SRP is a ribonucleoprotein (RNP) complex that functions in targeting nascent secretory proteins to the endoplasmic reticulum (ER) membrane
-S000033194	CDS					YPL210C		16	156212	154290	C		2011-02-03	2003-09-22|1996-07-31	
-S000006130	ORF	Verified	YPL209C	IPL1	aurora kinase|PAC15	chromosome 16	L000000871	16	157593	156490	C	-116	2011-02-03	1996-07-31	Aurora kinase of chromosomal passenger complex; mediates release of mono-oriented kinetochores from microtubules in meiosis I, and kinetochore release from SPB clusters at meiotic exit; helps maintain condensed chromosomes during anaphase; required for SPB cohesion and prevention of multipolar spindle formation; promotes telomerase release at G2/M; Iocalizes to nuclear foci that diffuse upon DNA replication stress; required for inhibition of karyopherin Pse1p upon SAC arrest
-S000032505	CDS					YPL209C		16	157593	156490	C		2011-02-03	1996-07-31	
-S000006129	ORF	Verified	YPL208W	RKM1	protein-lysine N-methyltransferase	chromosome 16		16	157842	159593	W		2011-02-03	1996-07-31	SET-domain lysine-N-methyltransferase; catalyzes the formation of dimethyllysine residues on the large ribosomal subunit proteins L23 (Rpl23Ap and Rpl23Bp) and monomethyllysine residues on L18 (Rps18Ap and Rps18Bp)
-S000032466	CDS					YPL208W		16	157842	159593	W		2011-02-03	1996-07-31	
-S000006128	ORF	Verified	YPL207W	TYW1	putative tRNA 4-demethylwyosine synthase	chromosome 16		16	159909	162341	W		2011-02-03	1996-07-31	Iron-sulfer protein required for synthesis of Wybutosine modified tRNA; Wybutosine is a modified guanosine found at the 3'-position adjacent to the anticodon of phenylalanine tRNA which supports reading frame maintenance by stabilizing codon-anticodon interactions; induction by Yap5p in response to iron provides protection from high iron toxicity; overexpression results in increased cellular iron
-S000032365	CDS					YPL207W		16	159909	162341	W		2011-02-03	1996-07-31	
-S000130196	ARS		ARS1608			chromosome 16		16	162341	162632			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000006127	ORF	Verified	YPL206C	PGC1	phosphatidylglycerol phospholipase	chromosome 16		16	163597	162632	C		2011-02-03	1996-07-31	Phosphatidylglycerol phospholipase C; regulates phosphatidylglycerol (PG) accumulation via a phospholipase C-type degradation mechanism; PG levels affect mitochondrial function; contains glycerophosphodiester phosphodiesterase motifs
-S000032198	CDS					YPL206C		16	163597	162632	C		2011-02-03	1996-07-31	
-S000006126	ORF	Dubious	YPL205C			chromosome 16		16	164266	163922	C		2011-02-03	1996-07-31	Hypothetical protein; deletion of locus affects telomere length
-S000031200	CDS					YPL205C		16	164266	163922	C		2011-02-03	1996-07-31	
-S000006125	ORF	Verified	YPL204W	HRR25	serine/threonine protein kinase HRR25|KTI14	chromosome 16	L000000810	16	164276	165760	W		2011-02-03	1996-07-31	Conserved casein kinase; regulates diverse events including: vesicular traffic, DNA repair, the CVT pathway, monopolar attachment of sister kinetochores at meiosis I, and ribosomal subunit biogenesis; monopolin subunit; binds the RNAPII CTD; phosphorylates COPII coat subunits; interacts with Sit4p phosphatase; antagonizes calcineurin signaling, reducing nuclear accumulation of Crz1p; phosphorylates Dsn1p, the kinetochore receptor for monopolin; homolog of mammalian CK1delta
-S000031120	CDS					YPL204W		16	164276	165760	W		2011-02-03	1996-07-31	
-S000006124	ORF	Verified	YPL203W	TPK2	cAMP-dependent protein kinase catalytic subunit TPK2|PKA3|YKR1|PKA2	chromosome 16	L000001445	16	166256	167398	W	-120	2011-02-03	1996-07-31	cAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; partially redundant with Tpk1p and Tpk3p; localizes to P-bodies during stationary phase; relocalizes to the cytosol in response to hypoxia
-S000031020	CDS					YPL203W		16	166256	167398	W		2011-02-03	1996-07-31	
-S000006123	ORF	Verified	YPL202C	AFT2		chromosome 16		16	169338	168088	C		2011-02-03	1996-07-31	Iron-regulated transcriptional activator; activates genes involved in intracellular iron use and required for iron homeostasis and resistance to oxidative stress; AFT2 has a paralog, AFT1, that arose from the whole genome duplication
-S000029960	CDS					YPL202C		16	169338	168088	C		2011-02-03	1996-07-31	
-S000006122	ORF	Verified	YPL201C	YIG1		chromosome 16		16	171155	169770	C		2011-02-03	1996-07-31	Protein that interacts with glycerol 3-phosphatase; plays a role in anaerobic glycerol production; localizes to the nucleus and cytosol
-S000029831	CDS					YPL201C		16	171155	169770	C		2011-02-03	1996-07-31	
-S000006121	ORF	Verified	YPL200W	CSM4		chromosome 16		16	171484	171954	W		2011-02-03	1996-07-31	Protein required for accurate chromosome segregation during meiosis; involved in meiotic telomere clustering (bouquet formation) and telomere-led rapid prophase movements; functions with meiosis-specific telomere-binding protein Ndj1p; CSM4 has a paralog, MPS2, that arose from the whole genome duplication
-S000037884	CDS					YPL200W		16	171484	171954	W		2011-02-03	1996-07-31	
-S000006120	ORF	Uncharacterized	YPL199C			chromosome 16		16	172755	172033	C		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to be palmitoylated
-S000031860	CDS					YPL199C		16	172755	172033	C		2011-02-03	1996-07-31	
-S000006119	ORF	Verified	YPL198W	RPL7B	uL30|ribosomal 60S subunit protein L7B|YL8|L7B|L6B|L30|rp11	chromosome 16	L000003304	16	173152	174702	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L7B; required for processing of 27SA3 pre-rRNA to 27SB pre-rRNA during assembly of large ribosomal subunit; depletion leads to a turnover of pre-rRNA; contains a conserved C-terminal Nucleic acid Binding Domain (NDB2); binds to Domain II of 25S and 5.8S rRNAs; homologous to mammalian ribosomal protein L7 and bacterial L30; RPL7B has a paralog, RPL7A, that arose from the whole genome duplication
-S000031808	CDS					YPL198W		16	173152	173162	W		2011-02-03	1996-07-31	
-S000031809	CDS					YPL198W		16	173572	173665	W		2011-02-03	1996-07-31	
-S000031810	CDS					YPL198W		16	174073	174702	W		2011-02-03	1996-07-31	
-S000031811	intron					YPL198W		16	173163	173571	W		2011-02-03	1996-07-31	
-S000031812	intron					YPL198W		16	173666	174072	W		2011-02-03	1996-07-31	
-S000006450	snoRNA_gene		snR59	SNR59		chromosome 16	L000004528	16	173827	173904	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A807
-S000030766	noncoding_exon					snR59		16	173827	173904	W		2011-02-03	2000-05-19	
-S000006118	ORF	Dubious	YPL197C			chromosome 16		16	174756	174343	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the ribosomal gene RPL7B
-S000031658	CDS					YPL197C		16	174756	174343	C		2011-02-03	1996-07-31	
-S000006117	ORF	Verified	YPL196W	OXR1		chromosome 16		16	175043	175864	W		2011-02-03	1996-07-31	Protein of unknown function required for oxidative damage resistance; required for normal levels of resistance to oxidative damage; null mutants are sensitive to hydrogen peroxide; member of a conserved family of proteins found in eukaryotes
-S000031609	CDS					YPL196W		16	175043	175864	W		2011-02-03	1996-07-31	
-S000006116	ORF	Verified	YPL195W	APL5	YKS4	chromosome 16	L000003037	16	176223	179021	W		2011-02-03	1996-07-31	Delta adaptin-like subunit of the clathrin associated protein complex; functions in transport of alkaline phosphatase to the vacuole via the alternate pathway; suppressor of loss of casein kinase 1 function; the clathrin associated protein complex is also known as AP-3
-S000031504	CDS					YPL195W		16	176223	179021	W		2011-02-03	1996-07-31	
-S000006115	ORF	Verified	YPL194W	DDC1		chromosome 16	L000004256	16	179277	181115	W		2011-02-03	1996-07-31	DNA damage checkpoint protein; part of a PCNA-like complex required for DNA damage response, required for pachytene checkpoint to inhibit cell cycle in response to unrepaired recombination intermediates; potential Cdc28p substrate; forms nuclear foci upon DNA replication stress
-S000030638	CDS					YPL194W		16	179277	181115	W		2011-02-03	1996-07-31	
-S000006114	ORF	Verified	YPL193W	RSA1		chromosome 16	L000004919	16	181403	182548	W		2011-02-03	1996-07-31	Protein involved in the assembly of 60S ribosomal subunits; functionally interacts with Dbp6p; functions in a late nucleoplasmic step of the assembly
-S000030542	CDS					YPL193W		16	181403	182548	W		2011-02-03	1996-07-31	
-S000006113	ORF	Verified	YPL192C	PRM3	pheromone-regulated protein PRM3	chromosome 16		16	183056	182655	C		2011-02-03	1996-07-31	Protein required for nuclear envelope fusion during karyogamy; pheromone-regulated; peripheral protein of the nuclear membrane; interacts with Kar5p at the spindle pole body
-S000030353	CDS					YPL192C		16	183056	182655	C		2011-02-03	1996-07-31	
-S000006112	ORF	Verified	YPL191C			chromosome 16		16	184679	183597	C		2011-02-03	1996-07-31	Protein of unknown function; diploid deletion strain exhibits high budding index; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YPL191C has a paralog, YGL082W, that arose from the whole genome duplication
-S000037541	CDS					YPL191C		16	184679	183597	C		2011-02-03	1996-07-31	
-S000006111	ORF	Verified	YPL190C	NAB3	HMD1	chromosome 16	L000001228	16	187725	185317	C		2011-02-03	1996-07-31	RNA-binding protein, subunit of Nrd1 complex (Nrd1p-Nab3p-Sen1p); complex interacts with exosome to mediate 3'-end formation of some mRNAs, snRNAs, snoRNAs, and CUTs; required for termination of non-poly(A) transcripts and efficient splicing; Nrd1-Nab3 pathway appears to have a role in rapid suppression of some genes when cells are shifted to poor growth conditions, indicating role for Nrd1-Nab3 in regulating cellular response to nutrient availability
-S000037419	CDS					YPL190C		16	187725	185317	C		2011-02-03	1996-07-31	
-S000028527	ORF	Verified	YPL189C-A	COA2		chromosome 16		16	188513	188307	C		2011-02-03	2003-07-29	Cytochrome oxidase assembly factor; null mutation results in respiratory deficiency with specific loss of cytochrome oxidase activity; functions downstream of assembly factors Mss51p and Coa1p and interacts with assembly factor Shy1p
-S000030331	CDS					YPL189C-A		16	188513	188307	C		2011-02-03	2003-07-29	
-S000006110	ORF	Verified	YPL189W	GUP2	putative O-acyltransferase	chromosome 16		16	189154	190983	W		2011-02-03	1996-07-31	Probable membrane protein; possible role in proton symport of glycerol; member of the MBOAT family of putative membrane-bound O-acyltransferases; homolog of the mammalian Hedgehog pathway modulator HHAT; GUP2 has a paralog, GUP1, that arose from the whole genome duplication
-S000036867	CDS					YPL189W		16	189154	190983	W		2011-02-03	1996-07-31	
-S000006109	ORF	Verified	YPL188W	POS5	NADH kinase	chromosome 16	L000002651	16	191406	192650	W		2011-02-03	1996-07-31	Mitochondrial NADH kinase; phosphorylates NADH; also phosphorylates NAD(+) with lower specificity; required for the response to oxidative stress
-S000036799	CDS					YPL188W		16	191406	192650	W		2011-02-03	1996-07-31	
-S000006108	ORF	Verified	YPL187W	MF(ALPHA)1		chromosome 16	L000001094	16	193648	194145	W	-115	2011-02-03	1996-07-31	Mating pheromone alpha-factor, made by alpha cells; interacts with mating type a cells to induce cell cycle arrest and other responses leading to mating; also encoded by MF(ALPHA)2, although MF(ALPHA)1 produces most alpha-factor; binds copper(II) ions
-S000036743	CDS					YPL187W		16	193648	194145	W		2011-02-03	1996-07-31	
-S000006106	ORF	Dubious	YPL185W			chromosome 16		16	195253	195648	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene UIP4/YPL186C
-S000035778	CDS					YPL185W		16	195253	195648	W		2011-02-03	1996-07-31	
-S000006107	ORF	Verified	YPL186C	UIP4		chromosome 16		16	195426	194512	C		2011-02-03	1996-07-31	Protein that interacts with Ulp1p; a Ubl (ubiquitin-like protein)-specific protease for Smt3p protein conjugates; detected in a phosphorylated state in the mitochondrial outer membrane; also detected in ER and nuclear envelope
-S000036644	CDS					YPL186C		16	195426	194512	C		2011-02-03	1996-07-31	
-S000006105	ORF	Verified	YPL184C	MRN1	PTR69	chromosome 16		16	197788	195950	C		2011-02-03	1996-07-31	RNA-binding protein that may be involved in translational regulation; binds specific categories of mRNAs, including those that contain upstream open reading frames (uORFs) and internal ribosome entry sites (IRES); interacts genetically with chromatin remodelers and splicing factors, linking chromatin state, splicing and as a result mRNA maturation
-S000035615	CDS					YPL184C		16	197788	195950	C		2011-02-03	1996-07-31	
-S000007224	ORF	Verified	YPL183W-A	RTC6	putative mitochondrial 54S ribosomal protein RTC6|TAE4|GON5	chromosome 16		16	199095	199376	W		2011-02-03	1999-07-17	Protein involved in translation; mutants have defects in biogenesis of nuclear ribosomes; sequence similar to prokaryotic ribosomal protein L36, may be a mitochondrial ribosomal protein; protein abundance increases in response to DNA replication stress
-S000035617	CDS					YPL183W-A		16	199095	199376	W		2011-02-03	1999-07-17	
-S000006104	ORF	Verified	YPL183C	RTT10	TRM734|ERE2	chromosome 16		16	202536	199495	C		2011-02-03	1996-07-31	WD40 domain-containing protein involved in endosomal recycling; forms a complex with Rrt2p that functions in the retromer-mediated pathway for recycling internalized cell-surface proteins; interacts with Trm7p for 2'-O-methylation of N34 of substrate tRNAs; has a role in regulation of Ty1 transposition; human ortholog is WDR6
-S000035538	CDS					YPL183C		16	202536	199495	C		2011-02-03	1996-07-31	
-S000006102	ORF	Verified	YPL181W	CTI6	RXT1	chromosome 16		16	203421	204941	W		2011-02-03	1996-07-31	Component of the Rpd3L histone deacetylase complex; relieves transcriptional repression by binding to the Cyc8p-Tup1p corepressor and recruiting the SAGA complex to the repressed promoter; contains a PHD finger domain
-S000034453	CDS					YPL181W		16	203421	204941	W		2011-02-03	1996-07-31	
-S000006103	ORF	Dubious	YPL182C			chromosome 16		16	203689	203306	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CTI6/YPL181W
-S000034519	CDS					YPL182C		16	203689	203306	C		2011-02-03	1996-07-31	
-S000006101	ORF	Verified	YPL180W	TCO89		chromosome 16		16	205248	207647	W		2011-02-03	1996-07-31	Subunit of TORC1 (Tor1p or Tor2p-Kog1p-Lst8p-Tco89p); regulates global H3K56ac; TORC1 complex regulates growth in response to nutrient availability; cooperates with Ssd1p in the maintenance of cellular integrity; deletion strains are hypersensitive to rapamycin
-S000034375	CDS					YPL180W		16	205248	207647	W		2011-02-03	1996-07-31	
-S000006100	ORF	Verified	YPL179W	PPQ1	SAL6	chromosome 16	L000001797|L000001474	16	208157	209806	W		2011-02-03	1996-07-31	Protein phosphatase that regulates the mating response; negatively regulates the MAP kinase signaling cascade during mating; member of the serine/threonine phosphatase PP1 family
-S000033429	CDS					YPL179W		16	208157	209806	W		2011-02-03	1996-07-31	
-S000006561	tRNA_gene		tE(UUC)P			chromosome 16	L000003736	16	210263	210192	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
-S000036031	noncoding_exon					tE(UUC)P		16	210263	210192	C		2011-02-03	2000-05-19	
-S000007194	long_terminal_repeat		YPLWdelta7			chromosome 16		16	210451	210771	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007195	long_terminal_repeat		YPLWdelta8			chromosome 16		16	211577	211898	W		2011-02-03	2000-05-19	Ty2 LTR
-S000006099	ORF	Verified	YPL178W	CBC2	CBP20|SAE1|MUD13	chromosome 16	L000002891|L000004111	16	212158	212784	W		2011-02-03	1996-07-31	Small subunit of the heterodimeric cap binding complex with Sto1p; interacts with Npl3p, possibly to package mRNA for export from the nucleus; may have a role in telomere maintenance; contains an RNA-binding motif
-S000033362	CDS					YPL178W		16	212158	212784	W		2011-02-03	1996-07-31	
-S000006098	ORF	Verified	YPL177C	CUP9		chromosome 16	L000000442	16	213962	213042	C		2011-02-03	1996-07-31	Homeodomain-containing transcriptional repressor; regulates expression of PTR2, which encodes a major peptide transporter; imported peptides activate ubiquitin-dependent proteolysis, resulting in degradation of Cup9p and de-repression of PTR2 transcription; CUP9 has a paralog, TOS8, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000032622	CDS					YPL177C		16	213962	213042	C		2011-02-03	1996-07-31	
-S000006097	ORF	Verified	YPL176C	TRE1		chromosome 16		16	218363	216012	C		2011-02-03	1996-07-31	Transferrin receptor-like protein; plasma membrane protein that binds Bsd2p and regulates ubiquitination and vacuolar degradation of the metal transporter Smf1p; functionally redundant with Tre2p; TRE1 has a paralog, TRE2, that arose from the whole genome duplication
-S000032515	CDS					YPL176C		16	218363	216012	C		2011-02-03	1996-07-31	
-S000006096	ORF	Verified	YPL175W	SPT14	phosphatidylinositol N-acetylglucosaminyltransferase SPT14|GPI3|CWH6	chromosome 16	L000002036	16	218630	220088	W	-113	2011-02-03	2000-07-14|1996-07-31	UDP-glycosyltransferase subunit of the GPI-GnT complex; UDP-GlcNAc-binding and catalytic subunit of the enzyme that mediates the first step in glycosylphosphatidylinositol (GPI) biosynthesis, mutations cause defects in transcription and in biogenesis of cell wall proteins
-S000032480	CDS					YPL175W		16	218630	218646	W		2011-02-03	2000-07-14|1996-07-31	
-S000032481	CDS					YPL175W		16	218747	220088	W		2011-02-03	2000-07-14|1996-07-31	
-S000032482	intron					YPL175W		16	218647	218746	W		2011-02-03	2000-07-14|1996-07-31	
-S000130197	ARS		ARS1611			chromosome 16		16	220088	220167			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000006095	ORF	Verified	YPL174C	NIP100	PAC13	chromosome 16	L000001254	16	222773	220167	C		2011-02-03	1996-07-31	Large subunit of the dynactin complex; dynactin is involved in partitioning the mitotic spindle between mother and daughter cells; putative ortholog of mammalian p150(glued)
-S000031426	CDS					YPL174C		16	222773	220167	C		2011-02-03	1996-07-31	
-S000006094	ORF	Verified	YPL173W	MRPL40	mitochondrial 54S ribosomal protein YmL40|YmL40	chromosome 16	L000002696	16	223143	224036	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000031355	CDS					YPL173W		16	223143	224036	W		2011-02-03	1996-07-31	
-S000006093	ORF	Verified	YPL172C	COX10	protoheme IX farnesyltransferase	chromosome 16	L000000394	16	225741	224353	C		2011-02-03	1996-07-31	Heme A:farnesyltransferase; catalyzes first step in conversion of protoheme to heme A prosthetic group required for cytochrome c oxidase activity; human ortholog COX10 can complement yeast cox10 null mutant; human ortholog COX10 is associated with mitochondrial disorders
-S000031181	CDS					YPL172C		16	225741	224353	C		2011-02-03	1996-07-31	
-S000006092	ORF	Verified	YPL171C	OYE3	NADPH dehydrogenase|ZRG6	chromosome 16	L000001326	16	227371	226169	C		2011-02-03	1996-07-31	Conserved NADPH oxidoreductase containing flavin mononucleotide (FMN); homologous to Oye2p with different ligand binding and catalytic properties; has potential roles in oxidative stress response and programmed cell death
-S000030238	CDS					YPL171C		16	227371	226169	C		2011-02-03	1996-07-31	
-S000006091	ORF	Verified	YPL170W	DAP1		chromosome 16		16	228314	228772	W		2011-02-03	1996-07-31	Heme-binding protein; involved in regulation of cytochrome P450 protein Erg11p; damage response protein, related to mammalian membrane progesterone receptors; mutations lead to defects in telomeres, mitochondria, and sterol synthesis
-S000030129	CDS					YPL170W		16	228314	228772	W		2011-02-03	1996-07-31	
-S000006090	ORF	Verified	YPL169C	MEX67		chromosome 16	L000004314	16	230838	229039	C		2011-02-03	1996-07-31	Poly(A)RNA binding protein involved in nuclear mRNA export; component of the nuclear pore; ortholog of human TAP
-S000037096	CDS					YPL169C		16	230838	229039	C		2011-02-03	1996-07-31	
-S000006089	ORF	Uncharacterized	YPL168W	MRX4		chromosome 16		16	231217	232509	W		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; expression may be cell cycle-regulated
-S000036477	CDS					YPL168W		16	231217	232509	W		2011-02-03	1996-07-31	
-S000006088	ORF	Verified	YPL167C	REV3	PSO1	chromosome 16	L000001616	16	237107	232593	C	-102	2011-02-03	1996-07-31	Catalytic subunit of DNA polymerase zeta; involved in translesion synthesis during post-replication repair; required for mutagenesis induced by DNA damage; involved in double-strand break repair; forms a complex with Rev7p, Pol31p and Pol32p
-S000036379	CDS					YPL167C		16	237107	232593	C		2011-02-03	1996-07-31	
-S000006087	ORF	Verified	YPL166W	ATG29		chromosome 16		16	237338	237979	W		2011-02-03	1996-07-31	Autophagy-specific protein; required for recruiting other ATG proteins to the pre-autophagosomal structure (PAS); interacts with Atg17p and localizas to the PAS in a manner interdependent with Atg17p and Cis1p; not conserved; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
-S000036304	CDS					YPL166W		16	237338	237979	W		2011-02-03	1996-07-31	
-S000006086	ORF	Verified	YPL165C	SET6		chromosome 16		16	239077	237956	C		2011-02-03	1996-07-31	SET domain protein of unknown function; deletion heterozygote is sensitive to compounds that target ergosterol biosynthesis, may be involved in compound availability
-S000036129	CDS					YPL165C		16	239077	237956	C		2011-02-03	1996-07-31	
-S000006085	ORF	Verified	YPL164C	MLH3	mismatch repair protein MLH3	chromosome 16		16	241497	239350	C		2011-02-03	1996-07-31	Protein involved in DNA mismatch repair and meiotic recombination; involved in crossing-over during meiotic recombination; forms a complex with Mlh1p; mammalian homolog is implicated mammalian microsatellite instability
-S000035196	CDS					YPL164C		16	241497	239350	C		2011-02-03	1996-07-31	
-S000006084	ORF	Verified	YPL163C	SVS1		chromosome 16	L000002750	16	242700	241918	C		2011-02-03	1996-07-31	Cell wall and vacuolar protein; required for wild-type resistance to vanadate; SVS1 has a paralog, SRL1, that arose from the whole genome duplication
-S000035038	CDS					YPL163C		16	242700	241918	C		2011-02-03	1996-07-31	
-S000006083	ORF	Uncharacterized	YPL162C			chromosome 16		16	244027	243206	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the membrane of vacuole with cell cycle-correlated morphology
-S000034090	CDS					YPL162C		16	244027	243206	C		2011-02-03	1996-07-31	
-S000006082	ORF	Verified	YPL161C	BEM4	ROM7	chromosome 16	L000000170	16	246220	244319	C		2011-02-03	1996-07-31	Protein involved in establishment of cell polarity and bud emergence; interacts with the Rho1p small GTP-binding protein and with the Rho-type GTPase Cdc42p; involved in maintenance of proper telomere length
-S000033986	CDS					YPL161C		16	246220	244319	C		2011-02-03	1996-07-31	
-S000006081	ORF	Verified	YPL160W	CDC60	leucine--tRNA ligase CDC60|LeuRS	chromosome 16	L000000283	16	246990	250262	W	-65	2011-02-03	1996-07-31	Cytosolic leucyl tRNA synthetase; ligates leucine to the appropriate tRNA; human homolog LARS can complement yeast temperature-sensitive mutant at restrictive temperature
-S000033896	CDS					YPL160W		16	246990	250262	W		2011-02-03	1996-07-31	
-S000006080	ORF	Verified	YPL159C	PET20		chromosome 16		16	251668	250907	C		2011-02-03	1996-07-31	Mitochondrial protein; required for respiratory growth under some conditions and for stability of the mitochondrial genome
-S000034917	CDS					YPL159C		16	251668	250907	C		2011-02-03	1996-07-31	
-S000006079	ORF	Verified	YPL158C	AIM44	GPS1	chromosome 16		16	254310	252034	C		2011-02-03	1996-07-31	Protein that regulates Cdc42p and Rho1p; functions in the late steps of cytokinesis and cell separation; sustains Rho1p at the cell division site after actomyosin ring contraction; inhibits the activation of Cdc42-Cla4 at the cell division site to prevent budding inside the old bud neck; transcription is regulated by Swi5p; null mutant displays elevated frequency of mitochondrial genome loss; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000034827	CDS					YPL158C		16	254310	252034	C		2011-02-03	1996-07-31	
-S000006078	ORF	Verified	YPL157W	TGS1	RNA methyltransferase	chromosome 16		16	254814	255761	W		2011-02-03	1996-07-31	Trimethyl guanosine synthase, conserved nucleolar methyl transferase; converts the m(7)G cap structure of snRNAs, snoRNAs, and telomerase TLC1 RNA to m(2,2,7)G; also required for nucleolar assembly and splicing of meiotic pre-mRNAs; interacts with Swm2p, which may confer substrate specificity on Tgs1p
-S000032912	CDS					YPL157W		16	254814	255761	W		2011-02-03	1996-07-31	
-S000006077	ORF	Verified	YPL156C	PRM4	pheromone-regulated protein PRM4	chromosome 16		16	256767	255913	C		2011-02-03	1996-07-31	Pheromone-regulated protein proposed to be involved in mating; predicted to have 1 transmembrane segment; transcriptionally regulated by Ste12p during mating and by Cat8p during the diauxic shift
-S000032757	CDS					YPL156C		16	256767	255913	C		2011-02-03	1996-07-31	
-S000006076	ORF	Verified	YPL155C	KIP2		chromosome 16	L000000908	16	259336	257216	C		2011-02-03	1996-07-31	Kinesin-related motor protein involved in mitotic spindle positioning; stabilizes microtubules by targeting Bik1p to the plus end; functions as a microtubule polymerase and catastrophe inhibitor in vitro; Kip2p levels are controlled during the cell cycle
-S000032676	CDS					YPL155C		16	259336	257216	C		2011-02-03	1996-07-31	
-S000006075	ORF	Verified	YPL154C	PEP4	proteinase A|yscA|PRA1|PHO9	chromosome 16	L000001375	16	260931	259714	C	-95	2011-02-03	1996-07-31	Vacuolar aspartyl protease (proteinase A); required for posttranslational precursor maturation of vacuolar proteinases; important for protein turnover after oxidative damage; plays a protective role in acetic acid induced apoptosis; synthesized as a zymogen, self-activates
-S000031707	CDS					YPL154C		16	260931	259714	C		2011-02-03	1996-07-31	
-S000130198	ARS		ARS1612			chromosome 16		16	260931	261727			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000006074	ORF	Verified	YPL153C	RAD53	serine/threonine/tyrosine protein kinase RAD53|SPK1|MEC2|LSD1	chromosome 16	L000001573	16	264192	261727	C	-109	2011-02-03	1996-07-31	DNA damage response protein kinase; required for cell-cycle arrest, regulation of copper genes in response to DNA damage; phosphorylates nuclear pores to counteract gene gating, preventing aberrant transitions at forks approaching transcribed genes; activates downstream kinase Dun1p; differentially senses mtDNA depletion, mitochondrial ROS; relocalizes to cytosol under hypoxia; human homolog CHEK2 implicated in breast cancer can complement yeast null mutant
-S000031574	CDS					YPL153C		16	264192	261727	C		2011-02-03	1996-07-31	
-S000028721	ORF	Uncharacterized	YPL152W-A			chromosome 16		16	264602	264700	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032702	CDS					YPL152W-A		16	264602	264700	W		2011-02-03	2003-07-29	
-S000006073	ORF	Verified	YPL152W	RRD2	peptidylprolyl isomerase RRD2|YPA2	chromosome 16	L000004484	16	265028	266104	W		2011-02-03	1996-07-31	Peptidyl-prolyl cis/trans-isomerase; also activates the phosphotyrosyl phosphatase activity of protein phosphatase 2A (PP2A); regulates G1 phase progression, the osmoresponse, microtubule dynamics; subunit of the Tap42p-Pph21p-Rrd2p complex; protein abundance increases in response to DNA replication stress
-S000031507	CDS					YPL152W		16	265028	266104	W		2011-02-03	1996-07-31	
-S000006072	ORF	Verified	YPL151C	PRP46	mRNA splicing protein PRP46|NTC50	chromosome 16		16	267535	266180	C		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs
-S000030537	CDS					YPL151C		16	267535	266180	C		2011-02-03	1996-07-31	
-S000006071	ORF	Uncharacterized	YPL150W		non-specific serine/threonine protein kinase	chromosome 16		16	268188	270893	W		2011-02-03	1996-07-31	Protein kinase of unknown cellular role; binds phosphatidylinositols and cardiolipin in a large-scale study
-S000030474	CDS					YPL150W		16	268188	270893	W		2011-02-03	1996-07-31	
-S000006070	ORF	Verified	YPL149W	ATG5	APG5	chromosome 16	L000003303	16	271310	272194	W		2011-02-03	1996-07-31	Conserved protein involved in autophagy and the Cvt pathway; undergoes conjugation with Atg12p to form a complex involved in Atg8p lipidation; Atg5p-Atg12p conjugate enhances E2 activity of Atg3 by rearranging its catalytic site, also forms a complex with Atg16p; the Atg5-Atg12/Atg16 complex binds to membranes and is essential for autophagosome formation; also involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner
-S000030694	CDS					YPL149W		16	271310	272194	W		2011-02-03	1996-07-31	
-S000006069	ORF	Verified	YPL148C	PPT2	holo-[acyl-carrier-protein] synthase	chromosome 16	L000004400	16	272815	272294	C		2011-02-03	2003-09-22|1996-07-31	Phosphopantetheine:protein transferase (PPTase); activates mitochondrial acyl carrier protein (Acp1p) by phosphopantetheinylation
-S000036734	CDS					YPL148C		16	272815	272294	C		2011-02-03	2003-09-22|1996-07-31	
-S000006068	ORF	Verified	YPL147W	PXA1	ATP-binding cassette long-chain fatty acid transporter PXA1|SSH2|PAT2|PAL1|LPI1	chromosome 16	L000001541	16	273255	275867	W		2011-02-03	1996-07-31	Subunit of heterodimeric peroxisomal ABC transport complex, with Pxa2p; required for import of long-chain fatty acids into peroxisomes; similar to human adrenoleukodystrophy transporters ABCD1and ABCD2, and ALD-related proteins; mutations in ABCD1 cause X-linked adrenoleukodystrophy (X-ALD), a peroxisomal disorder; human ABCD1 and ABCD2 can each partially complement yeast pxa1 pxa2 double null mutant
-S000036715	CDS					YPL147W		16	273255	275867	W		2011-02-03	1996-07-31	
-S000006067	ORF	Verified	YPL146C	NOP53	RRP16	chromosome 16		16	277529	276162	C		2011-02-03	1996-07-31	Nucleolar protein; involved in biogenesis of the 60S subunit of the ribosome; interacts with rRNA processing factors Cbf5p and Nop2p and with the nucleolar proteins Nop17p and Nip7p; null mutant is viable but growth is severely impaired
-S000036573	CDS					YPL146C		16	277529	276162	C		2011-02-03	1996-07-31	
-S000006066	ORF	Verified	YPL145C	KES1	oxysterol-binding protein KES1|BSR3|OSH4|LPI3	chromosome 16	L000000894	16	279699	278395	C		2011-02-03	1996-07-31	One of seven members of the yeast oxysterol binding protein family; involved in negative regulation of Sec14p-dependent Golgi complex secretory functions, peripheral membrane protein that localizes to the Golgi complex; KES1 has a paralog, HES1, that arose from the whole genome duplication
-S000035629	CDS					YPL145C		16	279699	278395	C		2011-02-03	1996-07-31	
-S000006065	ORF	Verified	YPL144W	POC4	DMP1|PBA4	chromosome 16		16	280480	280926	W		2011-02-03	1996-07-31	Component of a heterodimeric Poc4p-Irc25p chaperone; involved in assembly of alpha subunits into the 20S proteasome; may regulate formation of proteasome isoforms with alternative subunits under different conditions; upregulates proteasome assembly in response to the unfolded protein response activated by mistargeting of proteins (UPRam)
-S000035609	CDS					YPL144W		16	280480	280926	W		2011-02-03	1996-07-31	
-S000007441	snoRNA_gene		snR17b	SNR17B	U3	chromosome 16	L000004247	16	281517	281056	C		2011-02-03	2000-05-19	Small nucleolar RNA (snoRNA) U3; part of small (ribosomal) subunit (SSU) processosome; SNR17A also encodes snoRNA U3
-S000030181	intron					snR17b		16	281503	281374	C		2011-02-03	2000-05-19	
-S000030180	noncoding_exon					snR17b		16	281373	281056	C		2011-02-03	2000-05-19	
-S000030179	noncoding_exon					snR17b		16	281517	281504	C		2011-02-03	2000-05-19	
-S000006064	ORF	Verified	YPL143W	RPL33A	eL33|ribosomal 60S subunit protein L33A|L33e|rp47|l37A|YL37|L33A|RPL37A	chromosome 16	L000001728	16	282122	282970	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L33A; N-terminally acetylated; rpl33a null mutant exhibits slow growth while rpl33a rpl33b double null mutant is inviable; homologous to mammalian ribosomal protein L35A, no bacterial homolog; RPL33A has a paralog, RPL33B, that arose from the whole genome duplication
-S000035517	CDS					YPL143W		16	282122	282140	W		2011-02-03	1996-07-31	
-S000035518	CDS					YPL143W		16	282666	282970	W		2011-02-03	1996-07-31	
-S000035519	intron					YPL143W		16	282141	282665	W		2011-02-03	1996-07-31	
-S000006063	ORF	Dubious	YPL142C			chromosome 16		16	283003	282686	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF RPL33A/YPL143W, a component of the large (60S) ribosomal subunit
-S000035342	CDS					YPL142C		16	283003	282686	C		2011-02-03	1996-07-31	
-S000006062	ORF	Verified	YPL141C	FRK1	protein kinase FRK1	chromosome 16		16	286061	283464	C		2011-02-03	1996-07-31	Protein kinase of unknown cellular role; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; interacts with rRNA transcription and ribosome biogenesis factors and the long chain fatty acyl-CoA synthetase Faa3p; FRK1 has a paralog, KIN4, that arose from the whole genome duplication
-S000034336	CDS					YPL141C		16	286061	283464	C		2011-02-03	1996-07-31	
-S000006061	ORF	Verified	YPL140C	MKK2	putative mitogen-activated protein kinase kinase MKK2|SSP33|LPI6	chromosome 16	L000001118	16	289034	287514	C		2011-02-03	1996-07-31	MAPKK involved in the protein kinase C signaling pathway; involved in control of cell integrity; upon activation by Bck1p phosphorylates downstream target, Slt2p; functionally redundant with Mkk1p; MKK2 has a paralog, MKK1, that arose from the whole genome duplication
-S000034223	CDS					YPL140C		16	289034	287514	C		2011-02-03	1996-07-31	
-S000118414	ARS		ARS1614		ARSXVI-290	chromosome 16		16	289485	289705			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178192	ARS_consensus_sequence					ARS1614		16	289530	289546	W		2014-11-18	2014-11-18	
-S000006060	ORF	Verified	YPL139C	UME1	WTM3	chromosome 16	L000003500	16	291051	289669	C		2011-02-03	1996-07-31	Component of both the Rpd3S and Rpd3L histone deacetylase complexes; negative regulator of meiosis; required for repression of a subset of meiotic genes during vegetative growth, binding of histone deacetylase Rpd3p required for activity, contains a NEE box and a WD repeat motif; homologous with Wtm1p; UME1 has a paralog, WTM2, that arose from the whole genome duplication
-S000034691	CDS					YPL139C		16	291051	289669	C		2011-02-03	1996-07-31	
-S000006059	ORF	Verified	YPL138C	SPP1	SAF41|CPS40	chromosome 16		16	292427	291366	C		2011-02-03	1996-07-31	Subunit of COMPASS (Set1C); a complex which methylates histone H3 on lysine 4 and is required in telomeric transcriptional silencing; promotes meiotic DSB formation by interacting with H3K4me3 and Rec107p, a protein required for Spo11p-catalyzed DSB formation located on chromosome axes; interacts with Orc2p; PHD finger domain protein similar to human CGBP, an unmethylated CpG binding protein; relocalizes to cytosol in response to hypoxia
-S000034627	CDS					YPL138C		16	292427	291366	C		2011-02-03	1996-07-31	
-S000006057	ORF	Dubious	YPL136W			chromosome 16		16	296286	296654	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene GIP3/YPL137C
-S000034466	CDS					YPL136W		16	296286	296654	W		2011-02-03	1996-07-31	
-S000006058	ORF	Verified	YPL137C	GIP3	protein phosphatase regulator GIP3	chromosome 16		16	296647	292817	C		2011-02-03	1996-07-31	Cytoplasmic protein that regulates protein phosphatase 1 Glc7p; overexpression relocalizes Glc7p from the nucleus and prevents chromosome segregation; may interact with ribosomes, based on co-purification experiments; GIP3 has a paralog, HER1, that arose from the whole genome duplication
-S000034539	CDS					YPL137C		16	296647	292817	C		2011-02-03	1996-07-31	
-S000006056	ORF	Verified	YPL135W	ISU1	iron-binding protein ISU1|NUA1	chromosome 16	L000004769	16	297553	298050	W		2011-02-03	1996-07-31	Conserved protein of the mitochondrial matrix; performs a scaffolding function during assembly of iron-sulfur clusters, interacts physically and functionally with yeast frataxin (Yfh1p); ISU1 has a paralog, ISU2, that arose from the whole genome duplication; isu1 isu2 double mutant is inviable; human homolog ISCU implicated in mitochondrial myopathy, can complement isu1 isu2 double mutant
-S000032464	CDS					YPL135W		16	297553	298050	W		2011-02-03	1996-07-31	
-S000028720	ORF	Dubious	YPL135C-A			chromosome 16		16	297851	297678	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032700	CDS					YPL135C-A		16	297851	297678	C		2011-02-03	2003-07-29	
-S000006055	ORF	Verified	YPL134C	ODC1	mitochondrial 2-oxodicarboxylate carrier	chromosome 16	S000007520	16	299503	298571	C		2011-02-03	1996-07-31	Mitochondrial inner membrane transporter; 2-oxodicarboxylate transporter, exports 2-oxoadipate and 2-oxoglutarate from the mitochondrial matrix to the cytosol for lysine and glutamate biosynthesis and lysine catabolism; suppresses, in multicopy, an fmc1 null mutation; ODC1 has a paralog, ODC2, that arose from the whole genome duplication
-S000032295	CDS					YPL134C		16	299503	298571	C		2011-02-03	1996-07-31	
-S000006054	ORF	Verified	YPL133C	RDS2		chromosome 16		16	301228	299888	C		2011-02-03	1996-07-31	Transcription factor involved in regulating gluconeogenesis; also involved in the regulation of glyoxylate cycle genes; member of the zinc cluster family of proteins; confers resistance to ketoconazole
-S000032197	CDS					YPL133C		16	301228	299888	C		2011-02-03	1996-07-31	
-S000006053	ORF	Verified	YPL132W	COX11	PSO7|LPI13	chromosome 16	L000000395|L000004044	16	301716	302618	W		2011-02-03	1996-07-31	Protein required for delivery of copper to Cox1p; mitochondrial inner membrane protein; association with mitochondrial ribosomes suggests that copper delivery may occur during translation of Cox1p
-S000031257	CDS					YPL132W		16	301716	302618	W		2011-02-03	1996-07-31	
-S000006052	ORF	Verified	YPL131W	RPL5	uL18|ribosomal 60S subunit protein L5|L18|YL3|L5|L1a|RPL1|LPI14	chromosome 16	L000001699	16	303121	304014	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L5; nascent Rpl5p is bound by specific chaperone Syo1p during translation; homologous to mammalian ribosomal protein L5 and bacterial L18; binds 5S rRNA and is required for 60S subunit assembly
-S000031118	CDS					YPL131W		16	303121	304014	W		2011-02-03	1996-07-31	
-S000006051	ORF	Verified	YPL130W	SPO19		chromosome 16		16	304387	305058	W		2011-02-03	1996-07-31	Meiosis-specific prospore protein; required to produce bending force necessary for proper assembly of the prospore membrane during sporulation; identified as a weak high-copy suppressor of the spo1-1 ts mutation; SPO19 has a paralog, YOR214C, that arose from the whole genome duplication
-S000031018	CDS					YPL130W		16	304387	305058	W		2011-02-03	1996-07-31	
-S000006050	ORF	Verified	YPL129W	TAF14	TATA-binding protein-associated factor TAF14|TafII30|ANC1|TFG3|TAF30|SWP29	chromosome 16	L000000086	16	305298	306137	W		2011-02-03	1996-07-31	Subunit of TFIID, TFIIF, INO80, SWI/SNF, and NuA3 complexes; involved in RNA polymerase II transcription initiation and in chromatin modification; contains a YEATS domain
-S000031306	CDS					YPL129W		16	305298	305306	W		2011-02-03	1996-07-31	
-S000031307	CDS					YPL129W		16	305412	306137	W		2011-02-03	1996-07-31	
-S000031308	intron					YPL129W		16	305307	305411	W		2011-02-03	1996-07-31	
-S000006049	ORF	Verified	YPL128C	TBF1	LPI16	chromosome 16	L000002264	16	308221	306533	C	-81.5	2011-02-03	1996-07-31	Telobox-containing general regulatory factor; binds TTAGGG repeats within subtelomeric anti-silencing regions (STARs), blocking silent chromatin propagation; binds majority of snoRNA gene promoters, required for full snoRNA expression; caps DSB flanked by long T2AG3 repeats and blocks checkpoint activation
-S000030320	CDS					YPL128C		16	308221	306533	C		2011-02-03	1996-07-31	
-S000006048	ORF	Verified	YPL127C	HHO1	histone H1	chromosome 16	L000003354	16	309604	308828	C		2011-02-03	1996-07-31	Histone H1, linker histone with roles in meiosis and sporulation; decreasing levels early in sporulation may promote meiosis, and increasing levels during sporulation facilitate compaction of spore chromatin; binds to promoters and within genes in mature spores; may be recruited by Ume6p to promoter regions, contributing to transcriptional repression outside of meiosis; suppresses DNA repair involving homologous recombination
-S000030125	CDS					YPL127C		16	309604	308828	C		2011-02-03	1996-07-31	
-S000006047	ORF	Verified	YPL126W	NAN1	UTP17	chromosome 16		16	310210	312900	W		2011-02-03	1996-07-31	U3 snoRNP protein; component of the small (ribosomal) subunit (SSU) processosome containing U3 snoRNA; required for the biogenesis of18S rRNA
-S000030112	CDS					YPL126W		16	310210	312900	W		2011-02-03	1996-07-31	
-S000006046	ORF	Verified	YPL125W	KAP120	LPH2	chromosome 16		16	313388	316486	W		2011-02-03	1996-07-31	Karyopherin responsible for the nuclear import of Rpf1p; Rpf1p is a ribosome maturation factor
-S000036402	CDS					YPL125W		16	313388	316486	W		2011-02-03	1996-07-31	
-S000006045	ORF	Verified	YPL124W	SPC29	NIP29|LPH3	chromosome 16	L000001253	16	316755	317516	W		2011-02-03	1996-07-31	Inner plaque spindle pole body (SPB) component; links the central plaque component Spc42p to the inner plaque component Spc110p; required for SPB duplication
-S000036286	CDS					YPL124W		16	316755	317516	W		2011-02-03	1996-07-31	
-S000006044	ORF	Verified	YPL123C	RNY1	ribonuclease T2	chromosome 16		16	318945	317641	C		2011-02-03	1996-07-31	Vacuolar RNase of the T(2) family; relocalizes to the cytosol where it cleaves tRNAs upon oxidative or stationary phase stress; required for tRNA-specific translational pausing suring oxidative stress; promotes apoptosis under stress conditions and this function is independent of Rny1p catalytic activity
-S000036104	CDS					YPL123C		16	318945	317641	C		2011-02-03	1996-07-31	
-S000006043	ORF	Verified	YPL122C	TFB2	TFIIH/NER complex subunit TFB2	chromosome 16	L000003495	16	320767	319226	C		2011-02-03	1996-07-31	Subunit of TFIIH and nucleotide excision repair factor 3 complexes; involved in transcription initiation, required for nucleotide excision repair, similar to 52 kDa subunit of human TFIIH
-S000035221	CDS					YPL122C		16	320767	319226	C		2011-02-03	1996-07-31	
-S000006042	ORF	Verified	YPL121C	MEI5	LPH6	chromosome 16	L000001061	16	321630	320962	C		2011-02-03	1996-07-31	Meiosis-specific protein involved in meiotic recombination; involved in DMC1-dependent meiotic recombination; forms heterodimer with Sae3p; proposed to be an assembly factor for Dmc1p
-S000035025	CDS					YPL121C		16	321630	320962	C		2011-02-03	1996-07-31	
-S000006041	ORF	Verified	YPL120W	VPS30	beclin 1|ATG6|VPT30|APG6	chromosome 16	L000003545	16	322071	323744	W		2011-02-03	1996-07-31	Subunit of phosphatidylinositol (PtdIns) 3-kinase complexes I and II; Complex I is essential in autophagy, Complex II is required for vacuolar protein sorting; required for overflow degradation of misfolded proteins when ERAD is saturated; C-terminus has novel globular fold essential for autophagy through the targeting of the PI3-kinase complex I to the pre-autophagosomal structure; ortholog of higher eukaryote gene Beclin 1; human BECN1 can complement yeast null mutant
-S000034961	CDS					YPL120W		16	322071	323744	W		2011-02-03	1996-07-31	
-S000028859	ORF	Uncharacterized	YPL119C-A			chromosome 16		16	324287	324024	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034573	CDS					YPL119C-A		16	324287	324024	C		2011-02-03	2003-07-29	
-S000006040	ORF	Verified	YPL119C	DBP1	putative DEAD-box ATP-dependent RNA helicase DBP1|LPH8	chromosome 16	L000000492	16	326264	324411	C		2011-02-03	1996-07-31	Putative ATP-dependent RNA helicase of the DEAD-box protein family; mutants show reduced stability of the 40S ribosomal subunit scanning through 5' untranslated regions of mRNAs; protein abundance increases in response to DNA replication stress; DBP1 has a paralog, DED1, that arose from the whole genome duplication
-S000035431	CDS					YPL119C		16	326264	324411	C		2011-02-03	1996-07-31	
-S000006039	ORF	Verified	YPL118W	MRP51	mitochondrial 37S ribosomal protein MRP51	chromosome 16	L000003325	16	326628	327662	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; MRP51 exhibits genetic interactions with mutations in the COX2 and COX3 mRNA 5'-untranslated leader sequences
-S000035395	CDS					YPL118W		16	326628	327662	W		2011-02-03	1996-07-31	
-S000006038	ORF	Verified	YPL117C	IDI1	isopentenyl-diphosphate delta-isomerase IDI1|LPH10|BOT2	chromosome 16	L000000851	16	328730	327864	C	-69.8	2011-02-03	1996-07-31	Isopentenyl diphosphate:dimethylallyl diphosphate isomerase; catalyzes an essential activation step in the isoprenoid biosynthetic pathway; required for viability; isopentenyl diphosphate:dimethylallyl diphosphate isomerase is also known as IPP isomerase
-S000034380	CDS					YPL117C		16	328730	327864	C		2011-02-03	1996-07-31	
-S000006037	ORF	Verified	YPL116W	HOS3	histone deacetylase	chromosome 16	L000004093	16	329606	331699	W		2011-02-03	1996-07-31	Trichostatin A-insensitive homodimeric histone deacetylase (HDAC); specificity in vitro for histones H3, H4, H2A, and H2B; similar to Hda1p, Rpd3p, Hos1p, and Hos2p; deletion results in increased histone acetylation at rDNA repeats
-S000034349	CDS					YPL116W		16	329606	331699	W		2011-02-03	1996-07-31	
-S000130199	ARS		ARS1617			chromosome 16		16	331699	332100			2011-02-03	2009-05-08	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
-S000006036	ORF	Verified	YPL115C	BEM3		chromosome 16	L000000169	16	335486	332100	C		2011-02-03	1996-07-31	Rho GTPase activating protein (RhoGAP); involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly
-S000034256	CDS					YPL115C		16	335486	332100	C		2011-02-03	1996-07-31	
-S000006035	ORF	Dubious	YPL114W			chromosome 16		16	335948	336367	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; largely overlaps ORF YPL113C; diploid deletion in BY4743 strain background exhibits high budding index
-S000034237	CDS					YPL114W		16	335948	336367	W		2011-02-03	1996-07-31	
-S000006034	ORF	Verified	YPL113C		glyoxylate reductase	chromosome 16		16	337143	335953	C		2011-02-03	1996-07-31	Glyoxylate reductase; acts on glyoxylate and hydroxypyruvate substrates; YPL113C is not an essential gene
-S000032142	CDS					YPL113C		16	337143	335953	C		2011-02-03	1996-07-31	
-S000006033	ORF	Verified	YPL112C	PEX25		chromosome 16		16	338620	337436	C		2011-02-03	1996-07-31	Peripheral peroxisomal membrane peroxin; required for the regulation of peroxisome size and maintenance, recruits GTPase Rho1p to peroxisomes, induced by oleate, interacts with Pex27p; PEX25 has a paralog, PEX27, that arose from the whole genome duplication
-S000032062	CDS					YPL112C		16	338620	337436	C		2011-02-03	1996-07-31	
-S000006667	tRNA_gene		tM(CAU)P	IMT2		chromosome 16	L000003735	16	338919	338848	C		2011-02-03	2000-05-19	Methionine initiator tRNA (tRNA-Met); predicted by tRNAscan-SE analysis; one of four initiator methionine tRNAs in yeast that are functional for translation
-S000034575	noncoding_exon					tM(CAU)P		16	338919	338848	C		2011-02-03	2000-05-19	
-S000006032	ORF	Verified	YPL111W	CAR1	arginase|cargA|LPH15	chromosome 16	L000000216	16	339944	340945	W	-75	2011-02-03	1996-07-31	Arginase, catabolizes arginine to ornithine and urea; expression responds to both induction by arginine and nitrogen catabolite repression; disruption decreases production of carcinogen ethyl carbamate during wine fermentation and also enhances freeze tolerance
-S000031989	CDS					YPL111W		16	339944	340945	W		2011-02-03	1996-07-31	
-S000006031	ORF	Verified	YPL110C	GDE1	glycerophosphocholine phosphodiesterase	chromosome 16		16	344739	341068	C		2011-02-03	1996-07-31	Glycerophosphocholine (GroPCho) phosphodiesterase; hydrolyzes GroPCho to choline and glycerolphosphate, for use as a phosphate source and as a precursor for phosphocholine synthesis; may interact with ribosomes
-S000031745	CDS					YPL110C		16	344739	341068	C		2011-02-03	1996-07-31	
-S000006030	ORF	Uncharacterized	YPL109C			chromosome 16		16	347389	345264	C		2011-02-03	2004-07-21|1996-07-31|2003-09-27	UbiB family protein; contains transmembrane domain and mitochondrial targeting sequence; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000032179	CDS					YPL109C		16	345444	345264	C		2011-02-03	2003-09-27	
-S000032178	CDS					YPL109C		16	347389	345597	C		2011-02-03	2004-07-21|1996-07-31|2003-09-27	
-S000032180	intron					YPL109C		16	345596	345445	C		2011-02-03	2003-09-27	
-S000006029	ORF	Uncharacterized	YPL108W			chromosome 16		16	348446	348952	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; non-essential gene that is induced in a GDH1 deleted strain with altered redox metabolism; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
-S000032152	CDS					YPL108W		16	348446	348952	W		2011-02-03	1996-07-31	
-S000006028	ORF	Uncharacterized	YPL107W			chromosome 16		16	349119	349865	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YPL107W is not an essential gene
-S000031186	CDS					YPL107W		16	349119	349865	W		2011-02-03	1996-07-31	
-S000006027	ORF	Verified	YPL106C	SSE1	adenyl-nucleotide exchange factor SSE1|MSI3|LPG3	chromosome 16	L000002078	16	352275	350194	C		2011-02-03	1996-07-31	ATPase component of heat shock protein Hsp90 chaperone complex; serves as nucleotide exchange factor to load ATP onto the SSA class of cytosolic Hsp70s; plays a role in prion propagation and determining prion variants; binds unfolded proteins; member of Hsp110 subclass of HSP70 proteins; deletion results in spindle elongation in S phase; SSE1 has a paralog, SSE2, that arose from the whole genome duplication
-S000031029	CDS					YPL106C		16	352275	350194	C		2011-02-03	1996-07-31	
-S000006026	ORF	Verified	YPL105C	SYH1	MYR1	chromosome 16		16	355412	352863	C		2011-02-03	1996-07-31	Protein of unknown function that influences nuclear pore distribution; co-purifies with ribosomes; contains a GYF domain, which bind proline-rich sequences; deletion extends chronological lifespan; SYH1 has a paralog, SMY2, that arose from the whole genome duplication
-S000030941	CDS					YPL105C		16	355412	352863	C		2011-02-03	1996-07-31	
-S000006025	ORF	Verified	YPL104W	MSD1	aspartate--tRNA ligase MSD1|LPG5	chromosome 16	L000001186	16	355700	357676	W		2011-02-03	1996-07-31	Mitochondrial aspartyl-tRNA synthetase; required for acylation of aspartyl-tRNA; yeast and bacterial aspartyl-, asparaginyl-, and lysyl-tRNA synthetases contain regions with high sequence similarity, suggesting a common ancestral gene
-S000030906	CDS					YPL104W		16	355700	357676	W		2011-02-03	1996-07-31	
-S000006024	ORF	Verified	YPL103C	FMP30	N-acetylphosphatidylethanolamine-hydrolyzing phospholipase D	chromosome 16		16	359406	358000	C		2011-02-03	1996-07-31	Protein with a role in maintaining mitochondrial morphology; also involved in maintaining normal cardiolipin levels; mitochondrial inner membrane protein; proposed to be involved in N-acylethanolamine metabolism; related to mammalian N-acylPE-specific phospholipase D
-S000029844	CDS					YPL103C		16	359406	358000	C		2011-02-03	1996-07-31	
-S000006022	ORF	Verified	YPL101W	ELP4	Elongator subunit ELP4|KTI9|TOT7|HAP1	chromosome 16		16	360209	361579	W		2011-02-03	1996-07-31	Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; required for Elongator structural integrity; null mutation is functionally complemented by human ELP4
-S000037803	CDS					YPL101W		16	360209	361579	W		2011-02-03	1996-07-31	
-S000006023	ORF	Dubious	YPL102C			chromosome 16		16	360305	360003	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; deletion mutation enhances replication of Brome mosaic virus in S. cerevisiae, but this is likely due to effects on the overlapping gene ELP4
-S000037833	CDS					YPL102C		16	360305	360003	C		2011-02-03	1996-07-31	
-S000006021	ORF	Verified	YPL100W	ATG21	HSV1|MAI1	chromosome 16		16	361872	363362	W		2011-02-03	1996-07-31	Phosphoinositide binding protein; required for vesicle formation in the cytoplasm-to-vacuole targeting (Cvt) pathway; binds both phosphatidylinositol (3,5)-bisphosphate and phosphatidylinositol 3-phosphate; WD-40 repeat protein
-S000035919	CDS					YPL100W		16	361872	363362	W		2011-02-03	1996-07-31	
-S000006020	ORF	Verified	YPL099C	INA17	AIM43|FMP14	chromosome 16		16	364068	363520	C		2011-02-03	1996-07-31	F1F0 ATPase synthase peripheral stalk assembly factor; subunit of the matrix-exposed inner mitochondrial membrane localized INA complex (Ina22p-Ina17p) involved in assembly of the F1F0 peripheral stalk; co-purifies with Ina22p and ATP synthase subunits; null mutant displays elevated frequency of mitochondrial genome loss and has a respiratory growth defect
-S000037350	CDS					YPL099C		16	364068	363520	C		2011-02-03	1996-07-31	
-S000006019	ORF	Verified	YPL098C	MGR2		chromosome 16		16	364727	364386	C		2011-02-03	1996-07-31	Subunit of the TIM23 translocase complex; acts to couple Tim21p with the core Tim23 translocase; provides quality control for insertion of membrane proteins by regulating their release into the inner membrane by the TIM23 complex; absolutely required for mitochondrial import of presequence-containing proteins at elevated temperature; required for viability of cells lacking the mitochondrial genome (petite-negative phenotype)
-S000037279	CDS					YPL098C		16	364727	364386	C		2011-02-03	1996-07-31	
-S000006018	ORF	Verified	YPL097W	MSY1	tyrosine--tRNA ligase MSY1	chromosome 16	L000002838	16	364952	366430	W		2011-02-03	1996-07-31	Mitochondrial tyrosyl-tRNA synthetase
-S000037246	CDS					YPL097W		16	364952	366430	W		2011-02-03	1996-07-31	
-S000028423	ORF	Verified	YPL096C-A	ERI1	RIN1	chromosome 16	S000028417	16	366735	366529	C		2011-02-03	2002-06-20	Endoplasmic reticulum membrane protein that binds and inhibits Ras2p; binds to and inhibits GTP-bound Ras2p at the endoplasmic reticulum (ER); component of the GPI-GnT complex which catalyzes the first step in GPI-anchor biosynthesis; probable homolog of mammalian PIG-Y protein
-S000029959	CDS					YPL096C-A		16	366735	366529	C		2011-02-03	2002-06-20	
-S000006017	ORF	Verified	YPL096W	PNG1	peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase	chromosome 16		16	366927	368018	W		2011-02-03	1996-07-31	Conserved peptide N-glycanase; deglycosylating enzyme that cleaves N-glycans that are attached to misfolded ERAD substrate glycoproteins prior to proteasome-dependent degradation; localizes to the cytoplasm and nucleus; activity is enhanced by interaction with Rad23p; human ortholog NGLY1 is associated with a syndrome characterized by developmental delays, epilepsy, absence of tears and liver disease
-S000037168	CDS					YPL096W		16	366927	368018	W		2011-02-03	1996-07-31	
-S000006016	ORF	Verified	YPL095C	EEB1	medium-chain fatty acid ethyl ester synthase/esterase	chromosome 16		16	369441	368071	C		2011-02-03	1996-07-31	Acyl-coenzymeA:ethanol O-acyltransferase; responsible for the major part of medium-chain fatty acid ethyl ester biosynthesis during fermentation; possesses short-chain esterase activity; may be involved in lipid metabolism and detoxification; EEB1 has a paralog, EHT1, that arose from the whole genome duplication
-S000036441	CDS					YPL095C		16	369441	368071	C		2011-02-03	1996-07-31	
-S000006015	ORF	Verified	YPL094C	SEC62	Sec63 complex subunit SEC62|LPG14	chromosome 16	L000001853	16	370663	369839	C		2011-02-03	2004-01-09|1996-07-31	Essential subunit of Sec63 complex; with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER; cotranslationally N-acetylated by NatA; other members are Sec63p, Sec66p, and Sec72p
-S000036372	CDS					YPL094C		16	370663	369839	C		2011-02-03	2004-01-09|1996-07-31	
-S000006014	ORF	Verified	YPL093W	NOG1	putative GTPase NOG1	chromosome 16		16	370978	372921	W		2011-02-03	1996-07-31	Putative GTPase; associates with free 60S ribosomal subunits in the nucleolus and is required for 60S ribosomal subunit biogenesis; constituent of 66S pre-ribosomal particles; member of the ODN family of nucleolar G-proteins
-S000036303	CDS					YPL093W		16	370978	372921	W		2011-02-03	1996-07-31	
-S000006013	ORF	Verified	YPL092W	SSU1	LPG16	chromosome 16	L000002094	16	373793	375169	W		2011-02-03	1996-07-31	Plasma membrane sulfite pump involved in sulfite metabolism; required for efficient sulfite efflux; major facilitator superfamily protein
-S000036190	CDS					YPL092W		16	373793	375169	W		2011-02-03	1996-07-31	
-S000006012	ORF	Verified	YPL091W	GLR1	glutathione-disulfide reductase GLR1|LPG17	chromosome 16	L000000714	16	375502	376953	W		2011-02-03	1996-07-31	Cytosolic and mitochondrial glutathione oxidoreductase; converts oxidized glutathione to reduced glutathione; cytosolic Glr1p is the main determinant of the glutathione redox state of the mitochondrial intermembrane space; mitochondrial Glr1p has a role in resistance to hyperoxia; protein abundance increases in response to DNA replication stress
-S000035283	CDS					YPL091W		16	375502	376953	W		2011-02-03	1996-07-31	
-S000006011	ORF	Verified	YPL090C	RPS6A	eS6|ribosomal 40S subunit protein S6A|S6e|rp9|YS4|S6A|S10A	chromosome 16	L000004472	16	378395	377291	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S6, no bacterial homolog; phosphorylated on S233 by Ypk3p in a TORC1-dependent manner, and on S232 in a TORC1/2-dependent manner by Ypk1/2/3p; RPS6A has a paralog, RPS6B, that arose from the whole genome duplication
-S000035035	CDS					YPL090C		16	377995	377291	C		2011-02-03	1996-07-31	
-S000035034	CDS					YPL090C		16	378395	378390	C		2011-02-03	1996-07-31	
-S000035036	intron					YPL090C		16	378389	377996	C		2011-02-03	1996-07-31	
-S000006010	ORF	Verified	YPL089C	RLM1		chromosome 16	L000003028	16	381150	379120	C		2011-02-03	1996-07-31	MADS-box transcription factor; component of the protein kinase C-mediated MAP kinase pathway involved in the maintenance of cell integrity; phosphorylated and activated by the MAP-kinase Slt2p; RLM1 has a paralog, SMP1, that arose from the whole genome duplication
-S000035262	CDS					YPL089C		16	381150	379120	C		2011-02-03	1996-07-31	
-S000006009	ORF	Uncharacterized	YPL088W		aldo-keto reductase superfamily protein	chromosome 16		16	381965	382993	W		2011-02-03	1996-07-31	Putative aryl alcohol dehydrogenase; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance
-S000035218	CDS					YPL088W		16	381965	382993	W		2011-02-03	1996-07-31	
-S000006008	ORF	Verified	YPL087W	YDC1	alkaline dihydroceramidase	chromosome 16		16	383455	384408	W		2011-02-03	1996-07-31	Alkaline dihydroceramidase, involved in sphingolipid metabolism; preferentially hydrolyzes dihydroceramide to a free fatty acid and dihydrosphingosine; has a minor reverse activity; YDC1 has a paralog, YPC1, that arose from the whole genome duplication
-S000035115	CDS					YPL087W		16	383455	384408	W		2011-02-03	1996-07-31	
-S000118415	ARS		ARS1618		ARSXVI-385	chromosome 16		16	384542	384789			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178193	ARS_consensus_sequence					ARS1618		16	384592	384608	W		2014-11-18	2014-11-18	
-S000006007	ORF	Verified	YPL086C	ELP3	Elongator subunit ELP3|KAT9|KTI8|TOT3|HPA1	chromosome 16	L000004378	16	386446	384773	C		2011-02-03	1996-07-31	Subunit of Elongator complex; Elongator is required for modification of wobble nucleosides in tRNA; exhibits histone acetyltransferase activity that is directed to histones H3 and H4; disruption confers resistance to K. lactis zymotoxin; human homolog ELP3 can partially complement yeast elp3 null mutant
-S000034914	CDS					YPL086C		16	386446	384773	C		2011-02-03	1996-07-31	
-S000006006	ORF	Verified	YPL085W	SEC16	LPF1	chromosome 16	L000003051	16	387067	393654	W		2011-02-03	1996-07-31	COPII vesicle coat protein required for ER transport vesicle budding; essential factor in endoplasmic reticulum exit site (ERES) formation, as well as in COPII-mediated ER-to-Golgi traffic; bound to periphery of ER membranes and may act to stabilize initial COPII complexes; interacts with Sec23p, Sec24p and Sec31p
-S000034866	CDS					YPL085W		16	387067	393654	W		2011-02-03	1996-07-31	
-S000006005	ORF	Verified	YPL084W	BRO1	NPI3|ASI6|VPS31|LPF2	chromosome 16	L000003061	16	394038	396572	W		2011-02-03	1996-07-31	Cytoplasmic class E vacuolar protein sorting (VPS) factor; coordinates deubiquitination in the multivesicular body (MVB) pathway by recruiting Doa4p to endosomes
-S000032909	CDS					YPL084W		16	394038	396572	W		2011-02-03	1996-07-31	
-S000006004	ORF	Verified	YPL083C	SEN54	tRNA splicing endonuclease subunit SEN54	chromosome 16	L000003974	16	398105	396702	C		2011-02-03	1996-07-31	Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease (Sen complex) is composed of Sen2p, Sen15p, Sen34p, and Sen54p; Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface
-S000032739	CDS					YPL083C		16	398105	396702	C		2011-02-03	1996-07-31	
-S000006003	ORF	Verified	YPL082C	MOT1	DNA-binding ATPase|END10|BTAF1|LPF4|BUR3	chromosome 16	L000001136|L000004559|S000029158	16	404083	398480	C		2011-02-03	1996-07-31	Essential protein involved in regulation of transcription; removes Spt15p (TBP) from DNA via its C-terminal ATPase activity; may have a role in ensuring that soluble TBP is available to bind TATA-less promoters; forms a complex with TBP that binds TATA DNA with high affinity but with altered specificity; the Mot1p-Spt15p-DNA ternary complex contains unbent DNA; coregulates transcription with Spt16p through assembly of preinitiation complex and organization of nucleosomes
-S000032674	CDS					YPL082C		16	404083	398480	C		2011-02-03	1996-07-31	
-S000006002	ORF	Verified	YPL081W	RPS9A	uS4|ribosomal 40S subunit protein S9A|rp21|YS11|S9A|S4|S13	chromosome 16	L000004474	16	404950	406044	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S9 and bacterial S4; RPS9A has a paralog, RPS9B, that arose from the whole genome duplication
-S000032631	CDS					YPL081W		16	404950	404956	W		2011-02-03	1996-07-31	
-S000032632	CDS					YPL081W		16	405458	406044	W		2011-02-03	1996-07-31	
-S000032633	intron					YPL081W		16	404957	405457	W		2011-02-03	1996-07-31	
-S000006001	ORF	Dubious	YPL080C			chromosome 16		16	406498	406172	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031568	CDS					YPL080C		16	406498	406172	C		2011-02-03	1996-07-31	
-S000006000	ORF	Verified	YPL079W	RPL21B	eL21|ribosomal 60S subunit protein L21B|L21e|L21B	chromosome 16	L000004459	16	406636	407539	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L21B; homologous to mammalian ribosomal protein L21, no bacterial homolog; RPL21B has a paralog, RPL21A, that arose from the whole genome duplication
-S000031935	CDS					YPL079W		16	406636	406646	W		2011-02-03	1996-07-31	
-S000031936	CDS					YPL079W		16	407068	407539	W		2011-02-03	1996-07-31	
-S000031937	intron					YPL079W		16	406647	407067	W		2011-02-03	1996-07-31	
-S000005999	ORF	Verified	YPL078C	ATP4	F1F0 ATP synthase subunit 4|LPF7	chromosome 16	L000000144	16	408744	408010	C		2011-02-03	1996-07-31	Subunit b of the stator stalk of mitochondrial F1F0 ATP synthase; ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; contributes to the oligomerization of the complex, which in turn determines the shape of inner membrane cristae; phosphorylated
-S000030814	CDS					YPL078C		16	408744	408010	C		2011-02-03	1996-07-31	
-S000005998	ORF	Uncharacterized	YPL077C			chromosome 16		16	410090	409368	C		2011-02-03	1996-07-31	Putative protein of unknown function; regulates PIS1 expression; mutant displays spore wall assembly defect in ether sensitivity screen; YPL077C is not an essential gene; YPL077C has a paralog, YBR197C, that arose from the whole genome duplication
-S000030729	CDS					YPL077C		16	410090	409368	C		2011-02-03	1996-07-31	
-S000005997	ORF	Verified	YPL076W	GPI2	phosphatidylinositol N-acetylglucosaminyltransferase|GCR4	chromosome 16	L000002807	16	410443	411285	W		2011-02-03	1996-07-31	Protein involved in the synthesis of GlcNAc-PI; GlcNAc-PI is the first intermediate in the synthesis of glycosylphosphatidylinositol (GPI) anchors; homologous to the human PIG-C protein; GlcNAc-PI stands for N-acetylglucosaminyl phosphatidylinositol
-S000030692	CDS					YPL076W		16	410443	411285	W		2011-02-03	1996-07-31	
-S000005996	ORF	Verified	YPL075W	GCR1	transcription regulator GCR1|SIT3|LPF10	chromosome 16	L000000690|S000029447|L000001900	16	412254	415362	W		2011-02-03	1997-10-20|1996-07-31	Transcriptional activator of genes involved in glycolysis; DNA-binding protein that interacts and functions with the transcriptional activator Gcr2p
-S000036778	CDS					YPL075W		16	412254	412261	W		2011-02-03	1997-10-20|1996-07-31	
-S000036779	CDS					YPL075W		16	413013	415362	W		2011-02-03	1997-10-20	
-S000036780	intron					YPL075W		16	412262	413012	W		2011-02-03	1997-10-20	
-S000005995	ORF	Verified	YPL074W	YTA6	putative AAA family ATPase YTA6	chromosome 16	L000002560	16	415763	418027	W		2011-02-03	1996-07-31	Putative ATPase of the CDC48/PAS1/SEC18 (AAA) family; localized to the cortex of mother cells but not to daughter cells; relocalizes from cytoplasm to plasma membrane foci upon DNA replication stress
-S000036699	CDS					YPL074W		16	415763	418027	W		2011-02-03	1996-07-31	
-S000118416	ARS		ARS1619		ARSXVI-418	chromosome 16		16	418138	418364			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178194	ARS_consensus_sequence					ARS1619		16	418178	418194	W		2014-11-18	2014-11-18	
-S000005993	ORF	Verified	YPL072W	UBP16	putative ubiquitin-specific protease UBP16	chromosome 16	L000004590	16	418512	420011	W		2011-02-03	1996-07-31	Deubiquitinating enzyme anchored to the outer mitochondrial membrane; probably not important for general mitochondrial functioning, but may perform a more specialized function at mitochondria
-S000036526	CDS					YPL072W		16	418512	420011	W		2011-02-03	1996-07-31	
-S000005994	ORF	Dubious	YPL073C			chromosome 16		16	418984	418499	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with verified gene UBP16/YPL072W; may interact with ribosome based on co-purification experiments
-S000036568	CDS					YPL073C		16	418984	418499	C		2011-02-03	1996-07-31	
-S000005992	ORF	Uncharacterized	YPL071C			chromosome 16		16	420518	420048	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
-S000035569	CDS					YPL071C		16	420518	420048	C		2011-02-03	1996-07-31	
-S000005991	ORF	Verified	YPL070W	MUK1	guanine nucleotide exchange factor MUK1	chromosome 16		16	420948	422786	W		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF); involved in vesicle-mediated vacuolar transport, including Golgi-endosome trafficking and sorting through the multivesicular body (MVB); specifically stimulates the intrinsic guanine nucleotide exchange activity of Rab family members (Vps21p/Ypt52p/Ypt53p); partially redundant with GEF VPS9; required for localization of the CORVET complex to endosomes; contains a VPS9 domain
-S000035514	CDS					YPL070W		16	420948	422786	W		2011-02-03	1996-07-31	
-S000130200	ARS		ARS1620			chromosome 16		16	422786	422885			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000005990	ORF	Verified	YPL069C	BTS1	farnesyltranstransferase	chromosome 16	L000003062	16	423892	422885	C		2011-02-03	1996-07-31	Geranylgeranyl diphosphate synthase (GGPS); increases the intracellular pool of geranylgeranyl diphosphate, suppressor of bet2 mutation that causes defective geranylgeranylation of small GTP-binding proteins that mediate vesicular traffic
-S000035752	CDS					YPL069C		16	423892	422885	C		2011-02-03	1996-07-31	
-S000005989	ORF	Uncharacterized	YPL068C			chromosome 16		16	425096	424215	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and is induced in response to the DNA-damaging agent MMS
-S000035679	CDS					YPL068C		16	425096	424215	C		2011-02-03	1996-07-31	
-S000005988	ORF	Uncharacterized	YPL067C			chromosome 16		16	425847	425251	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YPL067C is not an essential gene
-S000034754	CDS					YPL067C		16	425847	425251	C		2011-02-03	1996-07-31	
-S000005987	ORF	Verified	YPL066W	RGL1		chromosome 16		16	426233	427672	W		2011-02-03	1996-07-31	Regulator of Rho1p signaling, cofactor of Tus1p; required for the localization of Tus1p during all phases of cytokinesis; green fluorescent protein (GFP)-fusion protein localizes to the bud neck and cytoplasm; null mutant is viable and exhibits growth defect on a non-fermentable (respiratory) carbon source
-S000034712	CDS					YPL066W		16	426233	427672	W		2011-02-03	1996-07-31	
-S000005986	ORF	Verified	YPL065W	VPS28	ESCRT-I subunit protein VPS28|VPL13|VPT28	chromosome 16	L000003228	16	427927	428655	W		2011-02-03	1996-07-31	Component of the ESCRT-I complex; complex is involved in ubiquitin-dependent sorting of proteins into the endosome; conserved C-terminal domain interacts with ESCRT-III subunit Vps20p; other members include Stp22p, Srn2p, Vps28p, and Mvb12p
-S000034662	CDS					YPL065W		16	427927	428655	W		2011-02-03	1996-07-31	
-S000005985	ORF	Verified	YPL064C	CWC27	putative peptidylprolyl isomerase CWC27	chromosome 16		16	429616	428711	C		2011-02-03	1996-07-31	Component of a complex containing Cef1p; putatively involved in pre-mRNA splicing; has similarity to S. pombe Cwf27p; protein abundance increases in response to DNA replication stress
-S000034538	CDS					YPL064C		16	429616	428711	C		2011-02-03	1996-07-31	
-S000005984	ORF	Verified	YPL063W	TIM50	protein translocase subunit TIM50	chromosome 16		16	429939	431369	W		2011-02-03	1996-07-31	Essential component of the TIM23 complex; acts as receptor for the translocase of the inner mitochondrial membrane (TIM23) complex guiding incoming precursors from the TOM complex; may control the gating of the Tim23p-Tim17p channel
-S000034464	CDS					YPL063W		16	429939	431369	W		2011-02-03	1996-07-31	
-S000005983	ORF	Dubious	YPL062W			chromosome 16		16	431895	432299	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YPL062W is not an essential gene; homozygous diploid mutant shows a decrease in glycogen accumulation
-S000032441	CDS					YPL062W		16	431895	432299	W		2011-02-03	1996-07-31	
-S000005982	ORF	Verified	YPL061W	ALD6	aldehyde dehydrogenase (NADP(+)) ALD6|ALD1	chromosome 16	L000003206	16	432588	434090	W		2011-02-03	1996-07-31	Cytosolic aldehyde dehydrogenase; activated by Mg2+ and utilizes NADP+ as the preferred coenzyme; required for conversion of acetaldehyde to acetate; constitutively expressed; locates to the mitochondrial outer surface upon oxidative stress
-S000032358	CDS					YPL061W		16	432588	434090	W		2011-02-03	1996-07-31	
-S000005981	ORF	Verified	YPL060W	MFM1	LPE10	chromosome 16		16	434523	435764	W		2011-02-03	1996-07-31	Mitochondrial inner membrane magnesium transporter; involved in maintenance of mitochondrial magnesium concentrations and membrane potential; indirectly affects splicing of group II introns; functionally and structurally related to Mrs2p
-S000032240	CDS					YPL060W		16	434523	435764	W		2011-02-03	1996-07-31	
-S000006528	tRNA_gene		tC(GCA)P1			chromosome 16	L000003734	16	435964	435893	C		2011-02-03	2000-05-19	Cysteine tRNA (tRNA-Cys), predicted by tRNAscan-SE analysis
-S000037832	noncoding_exon					tC(GCA)P1		16	435964	435893	C		2011-02-03	2000-05-19	
-S000007196	long_terminal_repeat		YPLWdelta9			chromosome 16		16	436068	436249	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007185	long_terminal_repeat		YPLCdelta10			chromosome 16		16	436587	436250	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007197	long_terminal_repeat		YPLWdelta11			chromosome 16		16	436594	436731	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007186	long_terminal_repeat		YPLCtau1			chromosome 16		16	437260	436890	C		2011-02-03	2000-05-19	Ty4 LTR
-S000007388	transposable_element_gene		YPL060C-A			chromosome 16		16	442742	437333	C		2015-01-13	1999-07-17|2014-11-18|2015-01-13	TyA Gag protein; the main structural constituent of virus-like particles (VLPs); Gag processing produces capsid proteins
-S000178189	CDS					YPL060C-A		16	439427	437333	C		2015-01-13	2014-11-18|2015-01-13	
-S000036843	CDS					YPL060C-A		16	442742	439429	C		2015-01-13	1999-07-17|2015-01-13	
-S000178188	plus_1_translational_frameshift					YPL060C-A		16	439428	439428	C		2015-01-13	2014-11-18|2015-01-13	
-S000007188	LTR_retrotransposon		YPLCTy4-1		Ty4	chromosome 16		16	443112	436890	C		2011-02-03	2000-05-19	Ty4 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007187	long_terminal_repeat		YPLCtau2			chromosome 16		16	443112	442742	C		2011-02-03	2000-05-19	Ty4 LTR
-S000005980	ORF	Verified	YPL059W	GRX5	monothiol glutaredoxin GRX5	chromosome 16	S000007446	16	444579	445031	W		2011-02-03	1996-07-31	Glutathione-dependent oxidoreductase; mitochondrial matrix protein involved at an early step in the biogenesis of iron-sulfur centers along with Bol1p; hydroperoxide and superoxide-radical responsive; monothiol glutaredoxin subfamily member along with Grx3p and Grx4p
-S000031521	CDS					YPL059W		16	444579	445031	W		2011-02-03	1996-07-31	
-S000005979	ORF	Verified	YPL058C	PDR12	ATP-binding cassette multidrug transporter PDR12	chromosome 16	L000003205	16	450377	445842	C		2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; weak-acid-inducible multidrug transporter required for weak organic acid resistance; induced by sorbate and benzoate and regulated by War1p; mutants exhibit sorbate hypersensitivity
-S000031386	CDS					YPL058C		16	450377	445842	C		2011-02-03	1996-07-31	
-S000005978	ORF	Verified	YPL057C	SUR1	mannosylinositol phosphorylceramide synthase catalytic subunit SUR1|LPE15|CSG1|BCL21	chromosome 16	L000002243	16	453057	451909	C		2011-02-03	1996-07-31	Mannosylinositol phosphorylceramide (MIPC) synthase catalytic subunit; forms a complex with regulatory subunit Csg2p; function in sphingolipid biosynthesis is overlapping with that of Csh1p; SUR1 has a paralog, CSH1, that arose from the whole genome duplication
-S000031334	CDS					YPL057C		16	453057	451909	C		2011-02-03	1996-07-31	
-S000005977	ORF	Uncharacterized	YPL056C	LCL1		chromosome 16		16	453735	453430	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant is fluconazole resistant and has long chronological lifespan
-S000030453	CDS					YPL056C		16	453735	453430	C		2011-02-03	1996-07-31	
-S000005976	ORF	Verified	YPL055C	LGE1		chromosome 16		16	454990	453992	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant forms abnormally large cells, and homozygous diploid null mutant displays delayed premeiotic DNA synthesis and reduced efficiency of meiotic nuclear division
-S000030299	CDS					YPL055C		16	454990	453992	C		2011-02-03	1996-07-31	
-S000005975	ORF	Verified	YPL054W	LEE1		chromosome 16	L000002859	16	455759	456664	W		2011-02-03	1996-07-31	Zinc-finger protein of unknown function
-S000030275	CDS					YPL054W		16	455759	456664	W		2011-02-03	1996-07-31	
-S000119038	ARS		ARS1633		ARSXVI-457|ARS1620.5	chromosome 16		16	456563	456810			2011-02-03	2006-10-04	Autonomously Replicating Sequence
-S000005974	ORF	Verified	YPL053C	KTR6	putative mannosyltransferase|MNN6	chromosome 16	L000003131	16	458458	457118	C		2011-02-03	1996-07-31	Probable mannosylphosphate transferase; involved in the synthesis of core oligosaccharides in protein glycosylation pathway; member of the KRE2/MNT1 mannosyltransferase family; KTR6 has a paralog, KRE2, that arose from the whole genome duplication
-S000036430	CDS					YPL053C		16	458458	457118	C		2011-02-03	1996-07-31	
-S000005973	ORF	Verified	YPL052W	OAZ1	YPL052W-A	chromosome 16		16	458799	459678	W		2011-02-03	1996-07-31|2005-12-14	Regulator of ornithine decarboxylase Spe1p; antizyme that binds to Spe1p to stimulate ubiquitin-independent degradation by the proteasome; binding of polyamines to nascent Oaz1p during translation stimulates +1 ribosomal frameshifting, allowing translation of full-length Oaz1p
-S000036401	CDS					YPL052W		16	458799	459005	W		2011-02-03	1996-07-31|2005-12-14	
-S000113788	CDS					YPL052W		16	459007	459678	W		2011-02-03	2005-12-14	
-S000113787	plus_1_translational_frameshift					YPL052W		16	459006	459006	W		2011-02-03	2005-12-14	
-S000005972	ORF	Verified	YPL051W	ARL3	Arf family GTPase ARL3	chromosome 16	L000004809	16	459963	460559	W		2011-02-03	1996-07-31	ARF-like small GTPase of the RAS superfamily; required for recruitment of Arl1p, a GTPase that regulates membrane traffic, to the Golgi apparatus; NatC-catalyzed N-terminal acetylation regulates Golgi membrane association mediated by interaction with membrane receptor, Sys1p; similar to ADP-ribosylation factor and orthologous to mammalian ARFRP1
-S000036285	CDS					YPL051W		16	459963	460559	W		2011-02-03	1996-07-31	
-S000005971	ORF	Verified	YPL050C	MNN9	mannosyltransferase complex subunit MNN9	chromosome 16	L000001129	16	461966	460779	C		2011-02-03	1996-07-31	Subunit of Golgi mannosyltransferase complex; this complex mediates elongation of the polysaccharide mannan backbone; forms a separate complex with Van1p that is also involved in backbone elongation; this complex also contains Anp1p, Mnn10p, Mnn11p, and Hoc1p
-S000036103	CDS					YPL050C		16	461966	460779	C		2011-02-03	1996-07-31	
-S000005970	ORF	Verified	YPL049C	DIG1	RST1	chromosome 16	L000003122	16	463839	462481	C		2011-02-03	1996-07-31	MAP kinase-responsive inhibitor of the Ste12p transcription factor; involved in the regulation of mating-specific genes and the invasive growth pathway; related regulators Dig1p and Dig2p bind to Ste12p; DIG1 has a paralog, DIG2, that arose from the whole genome duplication
-S000036451	CDS					YPL049C		16	463839	462481	C		2011-02-03	1996-07-31	
-S000005969	ORF	Verified	YPL048W	CAM1	translation elongation factor EF1B gamma|CPBP|TEF3	chromosome 16	L000000212|L000002279	16	464401	465648	W	-27.3	2011-02-03	1996-07-31	One of two isoforms of the gamma subunit of eEF1B; stimulates the release of GDP from eEF1A (Tef1p/Tef2p) post association with the ribosomal complex with eEF1Balpha subunit; nuclear protein required for transcription of MXR1; binds the MXR1 promoter in the presence of other nuclear factors; binds calcium and phospholipids
-S000035577	CDS					YPL048W		16	464401	465648	W		2011-02-03	1996-07-31	
-S000005968	ORF	Verified	YPL047W	SGF11	SAGA histone acetyltransferase complex subunit SGF11	chromosome 16		16	465962	466261	W		2011-02-03	1996-07-31	Integral subunit of SAGA histone acetyltransferase complex; regulates transcription of a subset of SAGA-regulated genes, required for the Ubp8p association with SAGA and for H2B deubiquitylation
-S000035515	CDS					YPL047W		16	465962	466261	W		2011-02-03	1996-07-31	
-S000005967	ORF	Verified	YPL046C	ELC1	elongin C	chromosome 16	L000004351	16	466943	466644	C		2011-02-03	1996-07-31	Elongin C, conserved among eukaryotes; forms a complex with Cul3p that polyubiquitylates monoubiquitylated RNA polymerase II to trigger its proteolysis; plays a role in global genomic repair
-S000035426	CDS					YPL046C		16	466943	466644	C		2011-02-03	1996-07-31	
-S000005966	ORF	Verified	YPL045W	VPS16	tethering complex subunit VPS16|CVT15|VPT16|VAM9|SVL6	chromosome 16	L000002471|L000003119|L000004766|S000029128	16	467260	469656	W		2011-02-03	1996-07-31	Subunit of the HOPS and the CORVET complexes; part of the Class C Vps complex essential for membrane docking and fusion at Golgi-to-endosome and endosome-to-vacuole protein transport stages
-S000035390	CDS					YPL045W		16	467260	469656	W		2011-02-03	1996-07-31	
-S000005964	ORF	Verified	YPL043W	NOP4	mRNA-binding ribosome biosynthesis protein NOP4|NOP77	chromosome 16	L000001262|L000001263	16	469939	471996	W		2011-02-03	1996-07-31	Nucleolar protein; essential for processing and maturation of 27S pre-rRNA and large ribosomal subunit biogenesis; constituent of 66S pre-ribosomal particles; contains four RNA recognition motifs (RRMs)
-S000034348	CDS					YPL043W		16	469939	471996	W		2011-02-03	1996-07-31	
-S000005965	ORF	Dubious	YPL044C			chromosome 16		16	470474	469926	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene NOP4/YPL043W
-S000034376	CDS					YPL044C		16	470474	469926	C		2011-02-03	1996-07-31	
-S000005963	ORF	Verified	YPL042C	SSN3	cyclin-dependent serine/threonine protein kinase SSN3|URR1|SSX7|CDK8|RYE5|UME5|SRB10|NUT7|GIG2	chromosome 16	L000002795|S000029631|L000002443|S000029520|L000002103	16	474707	473040	C		2011-02-03	1996-07-31	Cyclin-dependent protein kinase; component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression
-S000034254	CDS					YPL042C		16	474707	473040	C		2011-02-03	1996-07-31	
-S000005962	ORF	Uncharacterized	YPL041C	MRX11		chromosome 16		16	475741	475118	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; SWAT-GFP and mCherry fusion proteins localize to the mitochondria; involved in maintenance of telomere length
-S000034145	CDS					YPL041C		16	475741	475118	C		2011-02-03	1996-07-31	
-S000005961	ORF	Verified	YPL040C	ISM1	isoleucine--tRNA ligase ISM1	chromosome 16	L000002648	16	479001	475993	C		2011-02-03	1996-07-31	Mitochondrial isoleucyl-tRNA synthetase; null mutant is deficient in respiratory growth; human homolog IARS2 implicated in mitochondrial diseases, can partially complement yeast null mutant
-S000032140	CDS					YPL040C		16	479001	475993	C		2011-02-03	1996-07-31	
-S000005960	ORF	Uncharacterized	YPL039W			chromosome 16		16	479225	480175	W		2011-02-03	1996-07-31	Putative protein of unknown function; YPL039W is not an essential gene
-S000033263	CDS					YPL039W		16	479225	480175	W		2011-02-03	1996-07-31	
-S000028588	ORF	Uncharacterized	YPL038W-A			chromosome 16		16	480182	480373	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031340	CDS					YPL038W-A		16	480182	480373	W		2011-02-03	2003-07-29	
-S000005959	ORF	Verified	YPL038W	MET31		chromosome 16	L000003469	16	480535	481068	W		2011-02-03	1996-07-31	Zinc-finger DNA-binding transcription factor; targets strong transcriptional activator Met4p to promoters of sulfur metabolic genes; involved in transcriptional regulation of the methionine biosynthetic genes; feedforward loop controlling expression of MET32 and the lack of such a loop for MET31 may account for the differential actions of Met31p and Met32p; MET31 has a paralog, MET32, that arose from the whole genome duplication
-S000032414	CDS					YPL038W		16	480535	481068	W		2011-02-03	1996-07-31	
-S000005958	ORF	Verified	YPL037C	EGD1		chromosome 16	L000000545	16	481901	481428	C		2011-02-03	1996-07-31	Subunit beta1 of the nascent polypeptide-associated complex (NAC); involved in protein targeting, associated with cytoplasmic ribosomes; enhances DNA binding of the Gal4p activator; homolog of human BTF3b; EGD1 has a paralog, BTT1, that arose from the whole genome duplication
-S000032253	CDS					YPL037C		16	481901	481428	C		2011-02-03	1996-07-31	
-S000005957	ORF	Verified	YPL036W	PMA2	H(+)-exporting P2-type ATPase PMA2	chromosome 16	L000001450	16	482843	485686	W		2011-02-03	1996-07-31	Plasma membrane H+-ATPase; isoform of Pma1p, involved in pumping protons out of the cell; regulator of cytoplasmic pH and plasma membrane potential
-S000032226	CDS					YPL036W		16	482843	485686	W		2011-02-03	1996-07-31	
-S000005955	ORF	Uncharacterized	YPL034W			chromosome 16		16	486712	487209	W		2011-02-03	1996-07-31	Putative protein of unknown function; YPL034W is not essential gene
-S000031184	CDS					YPL034W		16	486712	487209	W		2011-02-03	1996-07-31	
-S000005956	ORF	Dubious	YPL035C			chromosome 16		16	486911	486564	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YPL034W; YPL035C is not an essential gene
-S000031189	CDS					YPL035C		16	486911	486564	C		2011-02-03	1996-07-31	
-S000005954	ORF	Verified	YPL033C	SRL4		chromosome 16		16	488207	487362	C		2011-02-03	1996-07-31	Protein of unknown function; involved in regulation of dNTP production; null mutant suppresses the lethality of lcd1 and rad53 mutations; expression is induced by Kar4p
-S000031014	CDS					YPL033C		16	488207	487362	C		2011-02-03	1996-07-31	
-S000005953	ORF	Verified	YPL032C	SVL3		chromosome 16	L000004235	16	491364	488887	C		2011-02-03	1996-07-31	Protein of unknown function; mutant phenotype suggests a potential role in vacuolar function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery, cytoplasm, bud, and bud neck; relocalizes from bud neck to cytoplasm upon DNA replication stress; SVL3 has a paralog, PAM1, that arose from the whole genome duplication
-S000030938	CDS					YPL032C		16	491364	488887	C		2011-02-03	1996-07-31	
-S000005952	ORF	Verified	YPL031C	PHO85	cyclin-dependent serine/threonine-protein kinase PHO85|phoU|LDB15	chromosome 16	L000001431	16	493037	492018	C	-34	2011-02-03	1996-07-31	Cyclin-dependent kinase; has ten cyclin partners; involved in regulating the cellular response to nutrient levels and environmental conditions and progression through the cell cycle; human lissencephaly-associated homolog CDK5 functionally complements null mutation
-S000029949	CDS					YPL031C		16	492918	492018	C		2011-02-03	1996-07-31	
-S000029948	CDS					YPL031C		16	493037	493021	C		2011-02-03	1996-07-31	
-S000029950	intron					YPL031C		16	493020	492919	C		2011-02-03	1996-07-31	
-S000005951	ORF	Verified	YPL030W	TRM44	tRNA (uracil) methyltransferase	chromosome 16		16	493543	495246	W		2011-02-03	1996-07-31	tRNA(Ser) Um(44) 2'-O-methyltransferase; involved in maintaining levels of the tRNA-Ser species tS(CGA) and tS(UGA); conserved among metazoans and fungi but there does not appear to be a homolog in plants; TRM44 is a non-essential gene
-S000029895	CDS					YPL030W		16	493543	495246	W		2011-02-03	1996-07-31	
-S000005950	ORF	Verified	YPL029W	SUV3	ATP-dependent RNA helicase SUV3|LPB2	chromosome 16	L000002247	16	495506	497719	W		2011-02-03	1996-07-31	ATP-dependent RNA helicase; component of the mitochondrial degradosome along with the RNase Dss1p; the degradosome associates with the ribosome and mediates RNA turnover; also required during splicing of the COX1 AI5_beta intron; expression of a processed form of human homolog SUPV3L1 carrying an N-terminal deletion of 46 amino acids rescues yeast suv3 null mutant
-S000037169	CDS					YPL029W		16	495506	497719	W		2011-02-03	1996-07-31	
-S000005949	ORF	Verified	YPL028W	ERG10	acetyl-CoA C-acetyltransferase|TSM0115|LPB3	chromosome 16	L000000576	16	498096	499292	W	-22	2011-02-03	1996-07-31	Acetyl-CoA C-acetyltransferase (acetoacetyl-CoA thiolase); cytosolic enzyme that transfers an acetyl group from one acetyl-CoA molecule to another, forming acetoacetyl-CoA; involved in the first step in mevalonate biosynthesis; human ACAT1 functionally complements the growth defect caused by repression of ERG10 expression
-S000037054	CDS					YPL028W		16	498096	499292	W		2011-02-03	1996-07-31	
-S000005948	ORF	Verified	YPL027W	SMA1		chromosome 16		16	499665	500402	W		2011-02-03	1996-07-31	Protein of unknown function involved in prospore membrane assembly; involved in the assembly of the prospore membrane during sporulation; interacts with Spo14p
-S000036999	CDS					YPL027W		16	499665	500402	W		2011-02-03	1996-07-31	
-S000005947	ORF	Verified	YPL026C	SKS1	putative serine/threonine protein kinase SKS1|SHA3	chromosome 16	L000004139|L000002824	16	502183	500675	C		2011-02-03	1996-07-31	Putative serine/threonine protein kinase; involved in the adaptation to low concentrations of glucose independent of the SNF3 regulated pathway; SKS1 has a paralog, VHS1, that arose from the whole genome duplication
-S000036265	CDS					YPL026C		16	502183	500675	C		2011-02-03	1996-07-31	
-S000005946	ORF	Dubious	YPL025C			chromosome 16		16	503030	502473	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036171	CDS					YPL025C		16	503030	502473	C		2011-02-03	1996-07-31	
-S000005945	ORF	Verified	YPL024W	RMI1	NCE4	chromosome 16	L000004399	16	503517	504242	W		2011-02-03	1996-07-31	Subunit of the RecQ (Sgs1p) - Topo III (Top3p) complex; stimulates superhelical relaxing, DNA catenation/decatenation and ssDNA binding activities of Top3p; involved in response to DNA damage; functions in S phase-mediated cohesion establishment via a pathway involving the Ctf18-RFC complex and Mrc1p; stimulates Top3p DNA catenation/decatenation activity; null mutants display increased rates of recombination and delayed S phase
-S000036120	CDS					YPL024W		16	503517	504242	W		2011-02-03	1996-07-31	
-S000005944	ORF	Verified	YPL023C	MET12	methylenetetrahydrofolate reductase (NAD(P)H) MET12	chromosome 16	L000003571	16	506312	504339	C		2011-02-03	1996-07-31	Protein with MTHFR activity in vitro; null mutant has no phenotype and is prototrophic for methionine; MET13 encodes major isozyme of methylenetetrahydrofolate reductase (MTHFR)
-S000035195	CDS					YPL023C		16	506312	504339	C		2011-02-03	1996-07-31	
-S000005943	ORF	Verified	YPL022W	RAD1	RAD12|ssDNA endodeoxyribonuclease RAD1|LPB9	chromosome 16	L000001555	16	506697	509999	W	-18	2011-02-03	1996-07-31	Single-stranded DNA endonuclease (with Rad10p); cleaves single-stranded DNA during nucleotide excision repair and double-strand break repair; subunit of Nucleotide Excision Repair Factor 1 (NEF1); homolog of human XPF protein
-S000035144	CDS					YPL022W		16	506697	509999	W		2011-02-03	1996-07-31	
-S000005942	ORF	Verified	YPL021W	ECM23	SRD2	chromosome 16	L000003366	16	511101	511664	W		2011-02-03	1996-07-31	Non-essential protein of unconfirmed function; affects pre-rRNA processing, may act as a negative regulator of the transcription of genes involved in pseudohyphal growth; homologous to Srd1p
-S000035028	CDS					YPL021W		16	511101	511664	W		2011-02-03	1996-07-31	
-S000118417	ARS		ARS1621		ARSXVI-512	chromosome 16		16	511636	511793			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178195	ARS_consensus_sequence					ARS1621		16	511704	511720	W		2014-11-18	2014-11-18	
-S000005941	ORF	Verified	YPL020C	ULP1	SUMO protease ULP1|NIB1	chromosome 16	S000029323|L000001249	16	514178	512313	C		2011-02-03	1996-07-31	Protease that specifically cleaves Smt3p protein conjugates; required for cell cycle progression; associates with nucleoporins and may interact with septin rings during telophase; sequestered to the nucleolus under stress conditions
-S000034812	CDS					YPL020C		16	514178	512313	C		2011-02-03	1996-07-31	
-S000005940	ORF	Verified	YPL019C	VTC3	vacuolar transporter chaperone|PHM2	chromosome 16	S000007512	16	517018	514511	C		2011-02-03	1996-07-31	Regulatory subunit of the vacuolar transporter chaperone (VTC) complex; involved in membrane trafficking, vacuolar polyphosphate accumulation, microautophagy and non-autophagic vacuolar fusion; VTC3 has a paralog, VTC2, that arose from the whole genome duplication
-S000032833	CDS					YPL019C		16	517018	514511	C		2011-02-03	1996-07-31	
-S000005939	ORF	Verified	YPL018W	CTF19	MCM18	chromosome 16	L000003420	16	517651	518760	W		2011-02-03	1996-07-31	Outer kinetochore protein, needed for accurate chromosome segregation; component of kinetochore sub-complex COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) that functions as platform for kinetochore assembly; required for spindle assembly checkpoint; minimizes potentially deleterious centromere-proximal crossovers by preventing meiotic DNA break formation proximal to centromere; homolog of human centromere constitutive-associated network (CCAN) subunit CENP-P and fission yeast fta2
-S000031967	CDS					YPL018W		16	517651	518760	W		2011-02-03	1996-07-31	
-S000005938	ORF	Verified	YPL017C	IRC15		chromosome 16		16	520233	518734	C		2011-02-03	1996-07-31	Microtubule associated protein; regulates microtubule dynamics; required for accurate meiotic chromosome segregation; null mutant displays large budded cells due to delayed mitotic progression, increased levels of spontaneous Rad52 foci; IRC15 has a paralog, LPD1, that arose from the whole genome duplication
-S000031777	CDS					YPL017C		16	520233	518734	C		2011-02-03	1996-07-31	
-S000005937	ORF	Verified	YPL016W	SWI1	[SWI(+)]|[SWI+]|LPA1|GAM3|ADR6	chromosome 16	L000000052|L000002250	16	521014	524958	W		2011-02-03	1996-07-31|2011-02-03	Subunit of the SWI/SNF chromatin remodeling complex; regulates transcription by remodeling chromatin; required for transcription of many genes, including ADH1, ADH2, GAL1, HO, INO1 and SUC2; self-assembles to form [SWI+] prion and to alter expression pattern; human homolog ARID1A is a candidate tumor suppressor gene in breast cancer
-S000031725	CDS					YPL016W		16	521014	524958	W		2011-02-03	1996-07-31|2011-02-03	
-S000005936	ORF	Verified	YPL015C	HST2	histone deacetylase HST2	chromosome 16	L000003041	16	526883	525810	C		2011-02-03	1996-07-31	Cytoplasmic NAD(+)-dependent protein deacetylase; deacetylation targets are primarily cytoplasmic proteins; member of the silencing information regulator 2 (Sir2) family of NAD(+)-dependent protein deacetylases; modulates nucleolar (rDNA) and telomeric silencing; possesses NAD(+)-dependent histone deacetylase activity in vitro; contains a nuclear export signal (NES); function regulated by its nuclear export
-S000031593	CDS					YPL015C		16	526883	525810	C		2011-02-03	1996-07-31	
-S000005935	ORF	Verified	YPL014W	CIP1		chromosome 16		16	527547	528692	W		2011-02-03	1996-07-31	Cyclin-dependent kinase inhibitor; interacts with and inhibits the Cdc28p/Cln2p, G1/S phase cyclin-dependent kinase complex but not S-phase, or M-phase complexes; overexpression blocks cells in G1 phase and stabilizes the Cdc28p inhibitor Sic1p, while disruption accelerates the G1/S phase transition; phosphorylated during S phase in a Cdc28p-dependent manner; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus
-S000031551	CDS					YPL014W		16	527547	528692	W		2011-02-03	1996-07-31	
-S000005934	ORF	Verified	YPL013C	MRPS16	mitochondrial 37S ribosomal protein MRPS16	chromosome 16		16	529350	528985	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000030647	CDS					YPL013C		16	529350	528985	C		2011-02-03	1996-07-31	
-S000005933	ORF	Verified	YPL012W	RRP12	mRNA-binding protein RRP12	chromosome 16		16	529723	533409	W		2011-02-03	1996-07-31	Protein required for export of the ribosomal subunits; associates with the RNA components of the pre-ribosomes; has a role in nuclear import in association with Pse1p; also plays a role in the cell cycle and the DNA damage response; contains HEAT-repeats
-S000030606	CDS					YPL012W		16	529723	533409	W		2011-02-03	1996-07-31	
-S000005932	ORF	Verified	YPL011C	TAF3	TafII47|TAF47	chromosome 16	L000004154	16	534703	533642	C		2011-02-03	1996-07-31	TFIID subunit (47 kDa); involved in promoter binding and RNA polymerase II transcription initiation
-S000030495	CDS					YPL011C		16	534703	533642	C		2011-02-03	1996-07-31	
-S000005931	ORF	Verified	YPL010W	RET3	coatomer subunit zeta	chromosome 16	L000004128	16	535018	535587	W		2011-02-03	1996-07-31	Zeta subunit of the coatomer complex (COPI); COPI coats Golgi-derived transport vesicles; involved in retrograde transport between Golgi and ER
-S000030459	CDS					YPL010W		16	535018	535587	W		2011-02-03	1996-07-31	
-S000005930	ORF	Verified	YPL009C	RQC2	TAE2	chromosome 16		16	538936	535820	C		2011-02-03	1996-07-31	Component of RQC, which mediates nascent chain degradation; RQC (ribosome quality control complex) is a ribosome-bound complex required for degradation of polypeptides arising from stalled translation; recruits alanine- and threonine-charged tRNA to the A site and directs the elongation of nascent chains independently of mRNA or 40S subunits; monitors translation stress and signals this to Hsf1p
-S000037295	CDS					YPL009C		16	538936	535820	C		2011-02-03	1996-07-31	
-S000005929	ORF	Verified	YPL008W	CHL1	MCM12|LPA9|CTF1	chromosome 16	L000000318	16	539385	541970	W	-6	2011-02-03	1996-07-31	Probable DNA helicase; involved in sister-chromatid cohesion and genome integrity and interstrand cross-link repair; interacts with ECO1 and CTF18; mutants are defective in silencing, rDNA recombination, aging and the heat shock response; FANCJ-like helicase family member; mutations in the human homolog, DDX11/ChLR1, cause Warsaw breakage syndrome
-S000037256	CDS					YPL008W		16	539385	541970	W		2011-02-03	1996-07-31	
-S000005928	ORF	Verified	YPL007C	TFC8	transcription factor TFIIIC subunit TFC8|tau 60	chromosome 16		16	543848	542082	C		2011-02-03	1996-07-31	Subunit of RNA polymerase III transcription initiation factor complex; one of six subunits of RNA polymerase III transcription initiation factor complex (TFIIIC); part of TFIIIC TauB domain that binds BoxB promoter sites of tRNA and other genes; linker between TauB and TauA domains; human homolog is TFIIIC-90
-S000036517	CDS					YPL007C		16	543848	542082	C		2011-02-03	1996-07-31	
-S000005927	ORF	Verified	YPL006W	NCR1	sphingolipid transporter 	chromosome 16	L000003596	16	544631	548143	W		2011-02-03	1996-07-31	Vacuolar membrane protein; transits through the biosynthetic vacuolar protein sorting pathway, involved in sphingolipid metabolism; cells lacking Ncr1p exhibit high levels of long chain bases (LCB), similar to the accumulation of high amounts of lipids observed in patients with Neimann-Pick C, a disease caused by loss-of-function mutations in NPC1, the functional ortholog of Ncr1p
-S000036461	CDS					YPL006W		16	544631	548143	W		2011-02-03	1996-07-31	
-S000005926	ORF	Verified	YPL005W	AEP3		chromosome 16		16	548486	550306	W		2011-02-03	1996-07-31	Peripheral mitochondrial inner membrane protein; may facilitate use of unformylated tRNA-Met in mitochondrial translation initiation; stabilizes the bicistronic AAP1-ATP6 mRNA
-S000036393	CDS					YPL005W		16	548486	550306	W		2011-02-03	1996-07-31	
-S000005925	ORF	Verified	YPL004C	LSP1	lipid-binding protein LSP1	chromosome 16		16	551657	550632	C		2011-02-03	1996-07-31	Eisosome core component; eisosomes are large immobile patch structures at the cell cortex associated with endocytosis; phosphorylated on Thr233 upon Pkc1p hyperactivation in a Slt2p MAPK-dependent fashion; null mutants show activation of Pkc1p/Ypk1p stress resistance pathways; member of the BAR domain family
-S000035436	CDS					YPL004C		16	551657	550632	C		2011-02-03	1996-07-31	
-S000005924	ORF	Verified	YPL003W	ULA1	ENR2	chromosome 16	L000004374	16	552020	553408	W		2011-02-03	1996-07-31	Protein that activates Rub1p (NEDD8) before neddylation; acts together with Uba3p; may play a role in protein degradation
-S000035402	CDS					YPL003W		16	552020	553408	W		2011-02-03	1996-07-31	
-S000005923	ORF	Verified	YPL002C	SNF8	ESCRT-II subunit protein SNF8|VPL14|VPS22	chromosome 16	L000001951	16	554328	553627	C		2011-02-03	1996-07-31	Component of the ESCRT-II complex; ESCRT-II is involved in ubiquitin-dependent sorting of proteins into the endosome; appears to be functionally related to SNF7; involved in glucose derepression
-S000035294	CDS					YPL002C		16	554328	553627	C		2011-02-03	1996-07-31	
-S000005922	ORF	Verified	YPL001W	HAT1	histone acetyltransferase catalytic subunit HAT1|KAT1	chromosome 16	L000003002	16	554605	555729	W		2011-02-03	1996-07-31	Catalytic subunit of the Hat1p-Hat2p histone acetyltransferase complex; uses the cofactor acetyl coenzyme A to acetylate free nuclear and cytoplasmic histone H4; involved in telomeric silencing and DNA double-strand break repair
-S000035246	CDS					YPL001W		16	554605	555729	W		2011-02-03	1996-07-31	
-S000006477	centromere		CEN16	CEN16		chromosome 16	L000000309	16	555957	556073	W	0	2011-02-03	2000-05-19|2006-05-09	Chromosome XVI centromere
-S000077281	centromere_DNA_Element_I					CEN16		16	555957	555966	W		2011-02-03	2004-10-05	
-S000077282	centromere_DNA_Element_II					CEN16		16	555967	556048	W		2011-02-03	2004-10-05	
-S000077283	centromere_DNA_Element_III					CEN16		16	556049	556073	W		2011-02-03	2004-10-05	
-S000006205	ORF	Verified	YPR001W	CIT3	citrate (Si)-synthase CIT3	chromosome 16	L000002855	16	556377	557837	W		2011-02-03	1996-07-31	Dual specificity mitochondrial citrate and methylcitrate synthase; catalyzes the condensation of acetyl-CoA and oxaloacetate to form citrate and that of propionyl-CoA and oxaloacetate to form 2-methylcitrate
-S000030627	CDS					YPR001W		16	556377	557837	W		2011-02-03	1996-07-31	
-S000006206	ORF	Verified	YPR002W	PDH1	putative 2-methylcitrate dehydratase	chromosome 16		16	558385	559935	W		2011-02-03	1996-07-31	Putative 2-methylcitrate dehydratase; mitochondrial protein that participates in respiration; induced by diauxic shift; homologous to E. coli PrpD, may take part in the conversion of 2-methylcitrate to 2-methylisocitrate
-S000030711	CDS					YPR002W		16	558385	559935	W		2011-02-03	1996-07-31	
-S000006570	tRNA_gene		tF(GAA)P1			chromosome 16	L000003733	16	560289	560198	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000035230	intron					tF(GAA)P1		16	560252	560234	C		2011-02-03	2000-05-19	
-S000035229	noncoding_exon					tF(GAA)P1		16	560233	560198	C		2011-02-03	2000-05-19	
-S000035228	noncoding_exon					tF(GAA)P1		16	560289	560253	C		2011-02-03	2000-05-19	
-S000007210	long_terminal_repeat		YPRWdelta12			chromosome 16		16	560481	560812	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007254	ORF	Dubious	YPR002C-A			chromosome 16		16	560766	560569	C		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the Ty1 long terminal repeat, YPRWdelta12
-S000031182	CDS					YPR002C-A		16	560766	560569	C		2011-02-03	1999-07-17	
-S000006207	ORF	Uncharacterized	YPR003C			chromosome 16		16	563768	561504	C		2011-02-03	1996-07-31	Putative sulfate permease; physically interacts with Hsp82p; green fluorescent protein (GFP)-fusion protein localizes to the ER; YPR003C is not an essential gene
-S000031534	CDS					YPR003C		16	563768	561504	C		2011-02-03	1996-07-31	
-S000118418	ARS		ARS1622		ARSXVI-564	chromosome 16		16	563852	563967			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178196	ARS_consensus_sequence					ARS1622		16	563877	563893	W		2014-11-18	2014-11-18	
-S000006208	ORF	Verified	YPR004C	AIM45		chromosome 16		16	565041	564007	C		2011-02-03	1996-07-31	Putative ortholog of mammalian ETF-alpha; interacts with frataxin, Yfh1p; null mutant displays elevated frequency of mitochondrial genome loss; may have a role in oxidative stress response; ETF-alpha is an electron transfer flavoprotein complex subunit
-S000031622	CDS					YPR004C		16	565041	564007	C		2011-02-03	1996-07-31	
-S000119040	ARS		ARS1634		ARSXVI-565|ARS1622.5	chromosome 16		16	565052	565294			2011-02-03	2006-10-04	Autonomously Replicating Sequence
-S000006209	ORF	Verified	YPR005C	HAL1		chromosome 16	L000000750	16	566671	565787	C		2011-02-03	1996-07-31	Cytoplasmic protein involved in halotolerance; decreases intracellular Na+ (via Ena1p) and increases intracellular K+ by decreasing efflux; expression repressed by Ssn6p-Tup1p and Sko1p and induced by NaCl, KCl, and sorbitol through Gcn4p
-S000031706	CDS					YPR005C		16	566671	565787	C		2011-02-03	1996-07-31	
-S000006210	ORF	Verified	YPR006C	ICL2	methylisocitrate lyase ICL2	chromosome 16	L000004095	16	568996	567269	C		2011-02-03	1996-07-31	2-methylisocitrate lyase of the mitochondrial matrix; functions in the methylcitrate cycle to catalyze the conversion of 2-methylisocitrate to succinate and pyruvate; ICL2 transcription is repressed by glucose and induced by ethanol
-S000031857	CDS					YPR006C		16	568996	567269	C		2011-02-03	1996-07-31	
-S000006211	ORF	Verified	YPR007C	REC8	SPO69	chromosome 16	L000004667	16	571378	569336	C		2011-02-03	1996-07-31	Meiosis-specific component of the sister chromatid cohesion complex; alpha-kleisin family member that maintains cohesion between sister chromatids during meiosis I; maintains cohesion between centromeres of sister chromatids until meiosis II; independent of its role in sister chromatid cohesion, Rec8p promotes allelic collisions and prevents nonspecific chromosome interactions; homolog of S. pombe Rec8p
-S000032749	CDS					YPR007C		16	571378	569336	C		2011-02-03	1996-07-31	
-S000007200	long_terminal_repeat		YPRCdelta13			chromosome 16		16	572173	571845	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006588	tRNA_gene		tG(GCC)P1			chromosome 16	L000003721	16	572269	572339	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000031679	noncoding_exon					tG(GCC)P1		16	572269	572339	W		2011-02-03	2000-05-19	
-S000006212	ORF	Verified	YPR008W	HAA1		chromosome 16		16	573018	575102	W		2011-02-03	1996-07-31	Transcriptional activator involved in adaptation to weak acid stress; activates transcription of TPO2, YRO2, and other genes encoding membrane stress proteins; HAA1 has a paralog, CUP2, that arose from the whole genome duplication; relocalizes from cytoplasm to nucleus upon DNA replication stress
-S000032911	CDS					YPR008W		16	573018	575102	W		2011-02-03	1996-07-31	
-S000006213	ORF	Verified	YPR009W	SUT2		chromosome 16		16	576552	577358	W		2011-02-03	1996-07-31	Zn2Cys6 family transcription factor; positively regulates sterol uptake under anaerobic conditions with SUT1; represses filamentation-inducing genes during non-starvation conditions; positively regulates mating along with SUT1 by repressing the expression of genes (PRR2, NCE102 and RHO5) which function as mating inhibitors; multicopy suppressor of mutations that cause low activity of the cAMP/PKA pathway; SUT2 has a paralog, SUT1, that arose from the whole genome duplication
-S000033007	CDS					YPR009W		16	576552	577358	W		2011-02-03	1996-07-31	
-S000006214	ORF	Verified	YPR010C	RPA135	DNA-directed RNA polymerase I core subunit RPA135|A135|SRP3|RRN2|RPA2	chromosome 16	L000001674	16	581196	577585	C		2011-02-03	1996-07-31	RNA polymerase I second largest subunit A135
-S000033628	CDS					YPR010C		16	581196	577585	C		2011-02-03	1996-07-31	
-S000006628	tRNA_gene		tK(CUU)P			chromosome 16	L000003722	16	582062	582134	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000036081	noncoding_exon					tK(CUU)P		16	582062	582134	W		2011-02-03	2000-05-19	
-S000122558	ORF	Uncharacterized	YPR010C-A			chromosome 16		16	582734	582373	C		2011-02-03	2007-05-09	Putative protein of unknown function; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cytosol; conserved among Saccharomyces sensu stricto species
-S000122561	CDS					YPR010C-A		16	582558	582373	C		2011-02-03	2007-05-09	
-S000122559	CDS					YPR010C-A		16	582734	582702	C		2011-02-03	2007-05-09	
-S000122560	intron					YPR010C-A		16	582701	582559	C		2011-02-03	2007-05-09	
-S000006215	ORF	Verified	YPR011C			chromosome 16		16	584042	583062	C		2011-02-03	1996-07-31	Mitochondrial transporter; major substrates are adenosine 5'-phosphosulfate (APS) and 3'-phospho-adenosine 5'-phosphosulfate (PAPS); member of the mitochondrial carrier family; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000033732	CDS					YPR011C		16	584042	583062	C		2011-02-03	1996-07-31	
-S000006216	ORF	Dubious	YPR012W			chromosome 16		16	584309	584563	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YPR012W is not an essential gene
-S000034684	CDS					YPR012W		16	584309	584563	W		2011-02-03	1996-07-31	
-S000006217	ORF	Uncharacterized	YPR013C	CMR3		chromosome 16		16	585585	584632	C		2011-02-03	1996-07-31	Putative zinc finger protein; YPR013C is not an essential gene
-S000034773	CDS					YPR013C		16	585585	584632	C		2011-02-03	1996-07-31	
-S000006218	ORF	Dubious	YPR014C			chromosome 16		16	587518	587189	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YPR014C is not an essential gene
-S000034892	CDS					YPR014C		16	587518	587189	C		2011-02-03	1996-07-31	
-S000006219	ORF	Uncharacterized	YPR015C			chromosome 16		16	591026	590283	C		2011-02-03	1996-07-31	Putative zinc finger transcription factor; binds DNA in sequence-specific manner; overexpression causes a cell cycle delay or arrest
-S000035843	CDS					YPR015C		16	591026	590283	C		2011-02-03	1996-07-31	
-S000006220	ORF	Verified	YPR016C	TIF6	translation initiation factor 6|CDC95	chromosome 16	L000004376	16	593069	592332	C		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; has similarity to human translation initiation factor 6 (eIF6); may be involved in the biogenesis and or stability of 60S ribosomal subunits
-S000035939	CDS					YPR016C		16	593069	592332	C		2011-02-03	1996-07-31	
-S000007630	ORF	Dubious	YPR016W-A			chromosome 16		16	593096	593356	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037261	CDS					YPR016W-A		16	593096	593356	W		2011-02-03	2001-02-26	
-S000006221	ORF	Verified	YPR017C	DSS4	guanine nucleotide exchange factor DSS4	chromosome 16	L000000529	16	593917	593486	C		2011-02-03	1996-07-31	Guanine nucleotide dissociation stimulator for Sec4p; functions in the post-Golgi secretory pathway; binds zinc, found both on membranes and in the cytosol
-S000036108	CDS					YPR017C		16	593917	593486	C		2011-02-03	1996-07-31	
-S000006222	ORF	Verified	YPR018W	RLF2	CAC1	chromosome 16	L000003990	16	594476	596296	W		2011-02-03	1996-07-31	Largest subunit (p90) of the Chromatin Assembly Complex (CAF-1); chromatin assembly by CAF-1 is important for multiple processes including silencing at telomeres, mating type loci, and rDNA; maintenance of kinetochore structure; deactivation of the DNA damage checkpoint after DNA repair; chromatin dynamics during transcription; and repression of divergent noncoding transcription
-S000036938	CDS					YPR018W		16	594476	596296	W		2011-02-03	1996-07-31	
-S000006223	ORF	Verified	YPR019W	MCM4	MCM DNA helicase complex subunit MCM4|CDC54|HCD21	chromosome 16	L000002761	16	596750	599551	W		2011-02-03	1996-07-31	Essential helicase component of heterohexameric MCM2-7 complexes; MCM2-7 complexes bind pre-replication complexes on DNA and melt DNA prior to replication; forms an Mcm4p-6p-7p subcomplex; shows nuclear accumulation in G1; homolog of S. pombe Cdc21p
-S000036996	CDS					YPR019W		16	596750	599551	W		2011-02-03	1996-07-31	
-S000006224	ORF	Verified	YPR020W	ATP20	F1F0 ATP synthase subunit g	chromosome 16	L000004738	16	599870	600217	W		2011-02-03	1996-07-31	Subunit g of the mitochondrial F1F0 ATP synthase; reversibly phosphorylated on two residues; unphosphorylated form is required for dimerization of the ATP synthase complex, which in turn determines oligomerization of the complex and the shape of inner membrane cristae
-S000037811	CDS					YPR020W		16	599870	600217	W		2011-02-03	1996-07-31	
-S000006225	ORF	Verified	YPR021C	AGC1	amino acid transporter AGC1	chromosome 16		16	603357	600649	C		2011-02-03	1996-07-31	Mitochondrial amino acid transporter; acts both as a glutamate uniporter and as an aspartate-glutamate exchanger; involved in nitrogen metabolism and nitrogen compound biosynthesis; human homolog SLC25A13 complements yeast null mutant
-S000037867	CDS					YPR021C		16	603357	600649	C		2011-02-03	1996-07-31	
-S000006226	ORF	Verified	YPR022C	SDD4		chromosome 16		16	607312	603911	C		2011-02-03	1996-07-31	Putative transcription factor, as suggested by computational analysis; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus and is induced in response to the DNA-damaging agent MMS; overproduction of a truncation allele suppresses lethality due to expression of the dominant PET9 allele AAC2-A128P
-S000030796	CDS					YPR022C		16	607312	603911	C		2011-02-03	1996-07-31	
-S000006227	ORF	Verified	YPR023C	EAF3		chromosome 16		16	610031	608826	C		2011-02-03	1996-07-31	Component of the Rpd3S histone deacetylase complex; Esa1p-associated factor, nonessential component of the NuA4 acetyltransferase complex, homologous to Drosophila dosage compensation protein MSL3; plays a role in regulating Ty1 transposition
-S000030882	CDS					YPR023C		16	610031	608826	C		2011-02-03	1996-07-31	
-S000006228	ORF	Verified	YPR024W	YME1	i-AAA protease YME1|YTA11|OSD1	chromosome 16	L000002522	16	610481	612724	W		2011-02-03	1996-07-31	Catalytic subunit of i-AAA protease complex; complex is located in mitochondrial inner membrane; responsible for degradation of unfolded or misfolded mitochondrial gene products; serves as nonconventional translocation motor to pull PNPase into intermembrane space; also has role in intermembrane space protein folding; mutation causes elevated rate of mitochondrial turnover; human homolog YME1L1 can complement yeast null mutant
-S000030985	CDS					YPR024W		16	610481	612724	W		2011-02-03	1996-07-31	
-S000006229	ORF	Verified	YPR025C	CCL1	TFIIH complex kinase subunit CCL1	chromosome 16	L000000237	16	614558	613377	C		2011-02-03	1996-07-31	Cyclin associated with protein kinase Kin28p; Kin28p is the TFIIH-associated carboxy-terminal domain (CTD) kinase involved in transcription initiation at RNA polymerase II promoters; human homolog CCNH allows growth of yeast ccl1 temperature-sensitive mutant at restrictive temperature
-S000031028	CDS					YPR025C		16	614558	613377	C		2011-02-03	1996-07-31	
-S000006230	ORF	Verified	YPR026W	ATH1	alpha,alpha-trehalase ATH1	chromosome 16	L000003059	16	615379	619014	W		2011-02-03	1996-07-31	Acid trehalase required for utilization of extracellular trehalose; involved in intracellular trehalose degradation during growth recovery after saline stress
-S000032041	CDS					YPR026W		16	615379	619014	W		2011-02-03	1996-07-31	
-S000006231	ORF	Uncharacterized	YPR027C			chromosome 16		16	621258	620425	C		2011-02-03	1996-07-31	Putative protein of unknown function; SWAT-GFP and seamless-GFP fusion proteins localize to the endoplasmic reticulum, while the mCherry fusion protein localizes to the vacuole
-S000032081	CDS					YPR027C		16	621258	620425	C		2011-02-03	1996-07-31	
-S000006571	tRNA_gene		tF(GAA)P2			chromosome 16	L000003732	16	622631	622540	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000035233	intron					tF(GAA)P2		16	622594	622576	C		2011-02-03	2000-05-19	
-S000035232	noncoding_exon					tF(GAA)P2		16	622575	622540	C		2011-02-03	2000-05-19	
-S000035231	noncoding_exon					tF(GAA)P2		16	622631	622595	C		2011-02-03	2000-05-19	
-S000006232	ORF	Verified	YPR028W	YOP1	YIP2	chromosome 16	L000004674	16	623527	624202	W		2011-02-03	1996-07-31	Reticulon-interacting protein; ER integral membrane protein involved in the generation of tubular ER morphology; promotes membrane curvature; forms tubules in vitro; regulates the ER asymmetry-induced inheritance block during ER stress; role in ER-derived peroxisomal biogenesis; interacts with Yip1p to mediate membrane traffic and with Sey1p to maintain ER morphology; facilitates lipid exchange between the ER and mitochondria; forms ER foci upon DNA replication stress
-S000032203	CDS					YPR028W		16	623527	623577	W		2011-02-03	1996-07-31	
-S000032204	CDS					YPR028W		16	623711	624202	W		2011-02-03	1996-07-31	
-S000032205	intron					YPR028W		16	623578	623710	W		2011-02-03	1996-07-31	
-S000006233	ORF	Verified	YPR029C	APL4		chromosome 16	L000004054	16	626967	624469	C		2011-02-03	1996-07-31	Gamma-adaptin; large subunit of the clathrin-associated protein (AP-1) complex; binds clathrin; involved in vesicle mediated transport
-S000032228	CDS					YPR029C		16	626967	624469	C		2011-02-03	1996-07-31	
-S000006234	ORF	Verified	YPR030W	CSR2	ART8|MRG19	chromosome 16	S000007450	16	627880	631245	W		2011-02-03	1996-07-31	Nuclear ubiquitin protein ligase binding protein; may regulate utilization of nonfermentable carbon sources and endocytosis of plasma membrane proteins; overproduction suppresses chs5 spa2 lethality at high temp; ubiquitinated by Rsp5p, deubiquitinated by Ubp2p; CSR2 has a paralog, ECM21, that arose from the whole genome duplication
-S000034095	CDS					YPR030W		16	627880	631245	W		2011-02-03	1996-07-31	
-S000006235	ORF	Verified	YPR031W	NTO1		chromosome 16		16	631515	633761	W		2011-02-03	1996-07-31	Subunit of the NuA3 histone acetyltransferase complex; this complex acetylates histone H3; contains PHD finger domain that interacts with methylated histone H3
-S000034190	CDS					YPR031W		16	631515	633761	W		2011-02-03	1996-07-31	
-S000118419	ARS		ARS1623		ARSXVI-634	chromosome 16		16	633874	634122			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178197	ARS_consensus_sequence					ARS1623		16	633921	633937	W		2014-11-18	2014-11-18	
-S000006236	ORF	Verified	YPR032W	SRO7	Rab GTPase-binding protein SRO7|SOP1|SNI1	chromosome 16	L000003105|L000004193	16	634123	637224	W		2011-02-03	1996-07-31	Effector of Rab GTPase Sec4p; forms a complex with Sec4p and t-SNARE Sec9p; involved in exocytosis and docking and fusion of post-Golgi vesicles with plasma membrane; regulates cell proliferation and colony development via the Rho1-Tor1 pathway; homolog of Drosophila lgl tumor suppressor; SRO7 has a paralog, SRO77, that arose from the whole genome duplication
-S000035166	CDS					YPR032W		16	634123	637224	W		2011-02-03	1996-07-31	
-S000006237	ORF	Verified	YPR033C	HTS1	TS4572|histidine--tRNA ligase|TSM4572	chromosome 16	L000000832|S000029607|L000002364	16	639019	637379	C	26	2011-02-03	1996-07-31	Cytoplasmic and mitochondrial histidine tRNA synthetase; efficient mitochondrial localization requires both a presequence and an amino-terminal sequence; mutations in human ortholog HARS2 are associated with Perrault syndrome
-S000035204	CDS					YPR033C		16	639019	637379	C		2011-02-03	1996-07-31	
-S000006238	ORF	Verified	YPR034W	ARP7	RSC11|SWP61	chromosome 16	L000003436	16	639525	640958	W		2011-02-03	1996-07-31	Component of both the SWI/SNF and RSC chromatin remodeling complexes; actin-related protein involved in transcriptional regulation
-S000035348	CDS					YPR034W		16	639525	640958	W		2011-02-03	1996-07-31	
-S000006239	ORF	Verified	YPR035W	GLN1	glutamate--ammonia ligase	chromosome 16	L000000709	16	642208	643320	W	29	2011-02-03	1996-07-31|2011-02-03	Glutamine synthetase (GS); synthesizes glutamine from glutamate and ammonia; with Glt1p, forms the secondary pathway for glutamate biosynthesis from ammonia; expression regulated by nitrogen source and by amino acid limitation; forms filaments of back-to-back stacks of cylindrical homo-decamers at low pH, leading to enzymatic inactivation and storage during states of advanced cellular starvation; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
-S000035425	CDS					YPR035W		16	642208	643320	W		2011-02-03	1996-07-31|2011-02-03	
-S000006240	ORF	Verified	YPR036W	VMA13	H(+)-transporting V1 sector ATPase subunit H|CLS11	chromosome 16	L000002465	16	643836	645272	W		2011-02-03	1996-07-31	Subunit H of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; serves as an activator or a structural stabilizer of the V-ATPase; the V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase) has eight subunits
-S000036312	CDS					YPR036W		16	643836	645272	W		2011-02-03	1996-07-31	
-S000028425	ORF	Verified	YPR036W-A	SPO24		chromosome 16		16	645950	646153	W		2011-02-03	2002-07-25	Small (67 amino acids) protein involved in sporulation; localizes to the prospore membrane; phosphorylated during meiosis; a longer, 5'-extended mRNA is also transcribed beginning in mid-meiosis, regulated by two MSEs (middle sporulation elements), and includes an uORF of 15 codons in its 5'-UTR; evidence transcription is regulated by Pdr1p
-S000029999	CDS					YPR036W-A		16	645950	646153	W		2011-02-03	2002-07-25	
-S000006242	ORF	Dubious	YPR038W	IRC16		chromosome 16		16	646836	647195	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene YPR037C; null mutant displays increased levels of spontaneous Rad52p foci
-S000036501	CDS					YPR038W		16	646836	647195	W		2011-02-03	1996-07-31	
-S000006243	ORF	Dubious	YPR039W			chromosome 16		16	647012	647347	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified non essential genes ERV2/YPR037C and TIP41/YPR040W
-S000036592	CDS					YPR039W		16	647012	647347	W		2011-02-03	1996-07-31	
-S000006241	ORF	Verified	YPR037C	ERV2	flavin-linked sulfhydryl oxidase	chromosome 16		16	647038	646448	C		2011-02-03	1996-07-31	Flavin-linked sulfhydryl oxidase localized to the ER lumen; involved in disulfide bond formation within the endoplasmic reticulum (ER)
-S000036350	CDS					YPR037C		16	647038	646448	C		2011-02-03	1996-07-31	
-S000006244	ORF	Verified	YPR040W	TIP41		chromosome 16		16	647305	648375	W		2011-02-03	1996-07-31	Protein that interacts with Tap42p, which regulates PP2A; component of the TOR (target of rapamycin) signaling pathway; protein abundance increases in response to DNA replication stress
-S000037582	CDS					YPR040W		16	647305	648375	W		2011-02-03	1996-07-31	
-S000006245	ORF	Verified	YPR041W	TIF5	translation initiation factor eIF5|SUI5	chromosome 16	L000002305	16	648704	649921	W		2011-02-03	1996-07-31	Translation initiation factor eIF5; functions both as a GTPase-activating protein to mediate hydrolysis of ribosome-bound GTP and as a GDP dissociation inhibitor to prevent recycling of eIF2
-S000037662	CDS					YPR041W		16	648704	649921	W		2011-02-03	1996-07-31	
-S000006246	ORF	Verified	YPR042C	PUF2		chromosome 16		16	653662	650435	C		2011-02-03	1996-07-31	PUF family mRNA-binding protein; Pumilio homology domain confers RNA binding activity; preferentially binds mRNAs encoding membrane-associated proteins; binding site composed of two UAAU tetranucleotides, separated by a 3-nt linker; PUF2 has a paralog, JSN1, that arose from the whole genome duplication
-S000037689	CDS					YPR042C		16	653662	650435	C		2011-02-03	1996-07-31	
-S000006247	ORF	Verified	YPR043W	RPL43A	eL43|ribosomal 60S subunit protein L43A|L43e|L43A	chromosome 16	L000004469	16	654166	654847	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L43A; null mutation confers a dominant lethal phenotype; homologous to mammalian ribosomal protein L37A, no bacterial homolog; RPL43A has a paralog, RPL43B, that arose from the whole genome duplication
-S000030558	CDS					YPR043W		16	654166	654167	W		2011-02-03	1996-07-31	
-S000030559	CDS					YPR043W		16	654571	654847	W		2011-02-03	1996-07-31	
-S000030560	intron					YPR043W		16	654168	654570	W		2011-02-03	1996-07-31	
-S000006248	ORF	Dubious	YPR044C	OPI11		chromosome 16		16	654877	654524	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; largely overlaps verified gene RPL43A/YPR043W; deletion confers sensitivity to GSAO
-S000030601	CDS					YPR044C		16	654877	654524	C		2011-02-03	1996-07-31	
-S000006249	ORF	Verified	YPR045C	THP3	MNI2	chromosome 16		16	656552	655140	C		2011-02-03	1996-07-31	Protein that may have a role in transcription elongation; forms a complex with Csn12p that is recruited to transcribed genes; possibly involved in splicing based on pre-mRNA accumulation defect for many intron-containing genes
-S000030682	CDS					YPR045C		16	656552	655140	C		2011-02-03	1996-07-31	
-S000006250	ORF	Verified	YPR046W	MCM16		chromosome 16	L000003997	16	656799	657344	W		2011-02-03	1996-07-31	Component of the Ctf19 complex and the COMA subcomplex; involved in kinetochore-microtubule mediated chromosome segregation; binds to centromere DNA; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-H and fission yeast fta3
-S000031562	CDS					YPR046W		16	656799	657344	W		2011-02-03	1996-07-31	
-S000006251	ORF	Verified	YPR047W	MSF1	phenylalanine--tRNA ligase	chromosome 16	L000001187	16	657529	658938	W		2011-02-03	2003-09-22|1996-07-31	Mitochondrial phenylalanyl-tRNA synthetase; active as a monomer, unlike the cytoplasmic subunit which is active as a dimer complexed to a beta subunit dimer; similar to the alpha subunit of E. coli phenylalanyl-tRNA synthetase
-S000031671	CDS					YPR047W		16	657529	658938	W		2011-02-03	2003-09-22|1996-07-31	
-S000006252	ORF	Verified	YPR048W	TAH18	NAPDH-dependent diflavin reductase	chromosome 16	L000004734	16	659182	661053	W		2011-02-03	1996-07-31	Conserved NAPDH-dependent diflavin reductase; component of an early step in the cytosolic Fe-S protein assembly (CIA) machinery; transfers electrons from NADPH to the Fe-S cluster of Dre2p; plays a pro-death role under oxidative stress; Tah18p-dependent nitric oxide synthesis confers high-temperature stress tolerance; possible target for development of antifungal drugs
-S000031770	CDS					YPR048W		16	659182	661053	W		2011-02-03	1996-07-31	
-S000006253	ORF	Verified	YPR049C	ATG11	autophagy protein ATG11|CVT3|CVT9	chromosome 16	L000004760|L000004756|S000029130	16	664673	661137	C		2011-02-03	1996-07-31	Adapter protein for pexophagy and the Cvt targeting pathway; directs receptor-bound cargo to the phagophore assembly site (PAS) for packaging into vesicles; required for recruiting other proteins to the PAS; recruits Dnm1p to facilitate fission of mitochondria that are destined for removal by mitophagy
-S000031821	CDS					YPR049C		16	664673	661137	C		2011-02-03	1996-07-31	
-S000006255	ORF	Verified	YPR051W	MAK3	peptide alpha-N-acetyltransferase MAK3|NAA30	chromosome 16	L000000977	16	664960	665490	W	34	2011-02-03	1996-07-31	Catalytic subunit of the NatC type N-terminal acetyltransferase (NAT); involved in subcellular targeting of select N-terminally acetylated substrates to the Golgi apparatus (Arl3p and Grh1p) and the inner nuclear membrane (Trm1p); required for replication of dsRNA virus; human NatC ortholog, Naa60, functionally complements the null, requiring either auxiliary subunit Mak10p or co-expression of human ortholog, Naa35; Naa60, the human NatF gene, also complements the null allele
-S000034802	CDS					YPR051W		16	664960	665490	W		2011-02-03	1996-07-31	
-S000006254	ORF	Dubious	YPR050C			chromosome 16		16	665366	664953	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps verified ORF MAK3/YPR051W
-S000033860	CDS					YPR050C		16	665366	664953	C		2011-02-03	1996-07-31	
-S000006256	ORF	Verified	YPR052C	NHP6A	high-mobility group nucleosome-binding protein	chromosome 16	L000001244|L000001245	16	665974	665693	C		2011-02-03	1996-07-31	High-mobility group (HMG) protein; binds to and remodels nucleosomes; involved in recruiting FACT and other chromatin remodelling complexes to chromosomes; functionally redundant with Nhp6Bp; required for transcriptional initiation fidelity of some tRNA genes; homologous to mammalian HMGB1 and HMGB2; NHP6A has a paralog, NHP6B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000034851	CDS					YPR052C		16	665974	665693	C		2011-02-03	1996-07-31	
-S000006257	ORF	Uncharacterized	YPR053C			chromosome 16		16	666243	665788	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YPR053C is not an essential gene; partially overlaps verified ORF NHP6A/YPR052C
-S000034981	CDS					YPR053C		16	666243	665788	C		2011-02-03	1996-07-31	
-S000006258	ORF	Verified	YPR054W	SMK1	mitogen-activated protein kinase SMK1	chromosome 16	L000001933	16	666280	667446	W		2011-02-03	1996-07-31	Middle sporulation-specific mitogen-activated protein kinase (MAPK); required for production of the outer spore wall layers; negatively regulates activity of the glucan synthase subunit Gsc2p
-S000035191	CDS					YPR054W		16	666280	667446	W		2011-02-03	1996-07-31	
-S000006259	ORF	Verified	YPR055W	SEC8	exocyst subunit SEC8	chromosome 16	L000001834	16	667676	670873	W		2011-02-03	1996-07-31	Essential 121 kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion; involved in ER and Golgi inheritance in small buds; relocalizes away from bud neck upon DNA replication stress
-S000036048	CDS					YPR055W		16	667676	670873	W		2011-02-03	1996-07-31	
-S000006260	ORF	Verified	YPR056W	TFB4	TFIIH/NER complex subunit TFB4	chromosome 16	L000004156	16	671126	672142	W		2011-02-03	1996-07-31	Subunit of TFIIH complex; involved in transcription initiation, similar to 34 kDa subunit of human TFIIH; interacts with Ssl1p
-S000036167	CDS					YPR056W		16	671126	672142	W		2011-02-03	1996-07-31	
-S000006261	ORF	Verified	YPR057W	BRR1		chromosome 16	L000004059	16	672471	673496	W		2011-02-03	1996-07-31	snRNP protein component of spliceosomal snRNPs; required for pre-mRNA splicing and snRNP biogenesis; in null mutant newly-synthesized snRNAs are destabilized and 3'-end processing is slowed
-S000036258	CDS					YPR057W		16	672471	673496	W		2011-02-03	1996-07-31	
-S000006262	ORF	Verified	YPR058W	YMC1	organic acid transporter	chromosome 16	L000002520	16	673751	674674	W	39.7	2011-02-03	1996-07-31	Secondary mitochondrial inner membrane glycine transporter; required with HEM25 for the transport of glycine into mitochondria for the initiation of heme biosynthesis; proposed role in oleate metabolism and glutamate biosynthesis; member of the mitochondrial carrier (MCF) family; localizes to the vacuole in response to H2O2; YMC1 has a paralog, YMC2, that arose from the whole genome duplication
-S000036364	CDS					YPR058W		16	673751	674674	W		2011-02-03	1996-07-31	
-S000006263	ORF	Dubious	YPR059C			chromosome 16		16	674700	674314	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YMC1/YPR058W
-S000036983	CDS					YPR059C		16	674700	674314	C		2011-02-03	1996-07-31	
-S000006264	ORF	Verified	YPR060C	ARO7	chorismate mutase ARO7|TYR7|OSM2|HGS1	chromosome 16	L000000120	16	675631	674861	C	39.4	2011-02-03	1996-07-31	Chorismate mutase; catalyzes the conversion of chorismate to prephenate to initiate the tyrosine/phenylalanine-specific branch of aromatic amino acid biosynthesis
-S000037791	CDS					YPR060C		16	675631	674861	C		2011-02-03	1996-07-31	
-S000006265	ORF	Verified	YPR061C	JID1		chromosome 16		16	676882	675977	C		2011-02-03	1996-07-31	Probable Hsp40p co-chaperone; has a DnaJ-like domain and appears to be involved in ER-associated degradation of misfolded proteins containing a tightly folded cytoplasmic domain; inhibits replication of Brome mosaic virus in S. cerevisiae
-S000037866	CDS					YPR061C		16	676882	675977	C		2011-02-03	1996-07-31	
-S000006266	ORF	Verified	YPR062W	FCY1	cytosine deaminase|yCD	chromosome 16	L000003485	16	677165	677641	W		2011-02-03	1996-07-31	Cytosine deaminase; zinc metalloenzyme that catalyzes the hydrolytic deamination of cytosine to uracil; of biomedical interest because it also catalyzes the deamination of 5-fluorocytosine (5FC) to form anticancer drug 5-fluorouracil (5FU)
-S000029927	CDS					YPR062W		16	677165	677641	W		2011-02-03	1996-07-31	
-S000006267	ORF	Uncharacterized	YPR063C			chromosome 16		16	678320	677812	C		2011-02-03	1996-07-31	ER-localized protein of unknown function
-S000029984	CDS					YPR063C		16	678193	677812	C		2011-02-03	1996-07-31	
-S000029983	CDS					YPR063C		16	678320	678280	C		2011-02-03	1996-07-31	
-S000029985	intron					YPR063C		16	678279	678194	C		2011-02-03	1996-07-31	
-S000006268	ORF	Uncharacterized	YPR064W			chromosome 16		16	678951	679370	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YPR064W is not an essential gene
-S000031009	CDS					YPR064W		16	678951	679370	W		2011-02-03	1996-07-31	
-S000006269	ORF	Verified	YPR065W	ROX1	REO1	chromosome 16	L000001661	16	679693	680799	W		2011-02-03	1996-07-31	Heme-dependent repressor of hypoxic genes; mediates aerobic transcriptional repression of hypoxia induced genes such as COX5b and CYC7; repressor function regulated through decreased promoter occupancy in response to oxidative stress; contains an HMG domain that is responsible for DNA bending activity; involved in the hyperosmotic stress resistance
-S000031123	CDS					YPR065W		16	679693	680799	W		2011-02-03	1996-07-31	
-S000006270	ORF	Verified	YPR066W	UBA3	NEDD8-activating protein UBA3	chromosome 16	L000004373	16	681213	682112	W		2011-02-03	1996-07-31	Protein that activates Rub1p (NEDD8) before neddylation; acts together with Ula1p; may play a role in protein degradation; GFP-fusion protein localizes to the cytoplasm in a punctate pattern 
-S000031188	CDS					YPR066W		16	681213	682112	W		2011-02-03	1996-07-31	
-S000006271	ORF	Verified	YPR067W	ISA2		chromosome 16	L000004955	16	682220	682777	W		2011-02-03	1996-07-31	Protein required for maturation of mitochondrial [4Fe-4S] proteins; functions in a complex with Isa1p and possibly Iba57p; localizes to the mitochondrial intermembrane space, overexpression of ISA2 suppresses grx5 mutations
-S000032172	CDS					YPR067W		16	682220	682777	W		2011-02-03	1996-07-31	
-S000006272	ORF	Verified	YPR068C	HOS1	histone deacetylase|CST3	chromosome 16	L000004091|S000029124|L000002993	16	684353	682941	C		2011-02-03	1996-07-31	Class I histone deacetylase (HDAC) family member; deacetylates Smc3p on lysine residues at anaphase onset; has sequence similarity to Hda1p, Rpd3p, Hos2p, and Hos3p; interacts with the Tup1p-Ssn6p corepressor complex
-S000032210	CDS					YPR068C		16	684353	682941	C		2011-02-03	1996-07-31	
-S000118420	ARS		ARS1624		ARSXVI-684	chromosome 16		16	684389	684637			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178198	ARS_consensus_sequence					ARS1624		16	684405	684421	W		2014-11-18	2014-11-18	
-S000006273	ORF	Verified	YPR069C	SPE3	spermidine synthase	chromosome 16	L000003328	16	685437	684556	C		2011-02-03	1996-07-31	Spermidine synthase; involved in biosynthesis of spermidine and also in biosynthesis of pantothenic acid; spermidine is required for growth of wild-type cells
-S000032285	CDS					YPR069C		16	685437	684556	C		2011-02-03	1996-07-31	
-S000006274	ORF	Verified	YPR070W	MED1		chromosome 16		16	685898	687598	W		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
-S000032028	CDS					YPR070W		16	685898	687598	W		2011-02-03	1996-07-31	
-S000006275	ORF	Uncharacterized	YPR071W			chromosome 16		16	688172	688807	W		2011-02-03	1996-07-31	Putative membrane protein; YPR071W is not an essential gene; YPR071W has a paralog, YIL029C, that arose from a single-locus duplication
-S000032138	CDS					YPR071W		16	688172	688807	W		2011-02-03	1996-07-31	
-S000006736	tRNA_gene		tS(UGA)P	SUP16	SUQ5	chromosome 16	L000003723|S000029556|L000002242|L000002190	16	689565	689646	W	48	2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000034846	noncoding_exon					tS(UGA)P		16	689565	689646	W		2011-02-03	2000-05-19	
-S000006276	ORF	Verified	YPR072W	NOT5	CCR4-NOT core subunit NOT5	chromosome 16	L000004651	16	690107	691789	W		2011-02-03	1996-07-31	Component of the CCR4-NOT core complex, involved in mRNA decapping; involved intranscription initiation and elongation and in mRNA degradation; conserved lysine in human homolog of Not5p and Not3p is mutated in cancers
-S000034137	CDS					YPR072W		16	690107	691789	W		2011-02-03	1996-07-31	
-S000006277	ORF	Verified	YPR073C	LTP1	tyrosine protein phosphatase LTP1	chromosome 16	L000000957	16	692418	691933	C		2011-02-03	1996-07-31	Protein phosphotyrosine phosphatase of unknown cellular role; activated by adenine
-S000034196	CDS					YPR073C		16	692418	691933	C		2011-02-03	1996-07-31	
-S000006278	ORF	Verified	YPR074C	TKL1	transketolase TKL1	chromosome 16	L000002313	16	694838	692796	C		2011-02-03	1996-07-31	Transketolase; catalyzes conversion of xylulose-5-phosphate and ribose-5-phosphate to sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate in the pentose phosphate pathway; needed for synthesis of aromatic amino acids; TKL1 has a paralog, TKL2, that arose from the whole genome duplication
-S000034281	CDS					YPR074C		16	694838	692796	C		2011-02-03	1996-07-31	
-S000007631	ORF	Dubious	YPR074W-A			chromosome 16		16	695018	695188	W		2011-02-03	2001-02-26	Hypothetical protein identified by homology
-S000037262	CDS					YPR074W-A		16	695018	695188	W		2011-02-03	2001-02-26	
-S000118421	ARS		ARS1625		ARSXVI-696	chromosome 16		16	695461	695574			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178199	ARS_consensus_sequence					ARS1625		16	695465	695481	W		2014-11-18	2014-11-18	
-S000006280	ORF	Dubious	YPR076W			chromosome 16		16	696476	696850	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035349	CDS					YPR076W		16	696476	696850	W		2011-02-03	1996-07-31	
-S000006279	ORF	Verified	YPR075C	OPY2		chromosome 16	L000004017	16	696819	695737	C		2011-02-03	1996-07-31	Integral membrane protein that acts as a membrane anchor for Ste50p; involved in the signaling branch of the high-osmolarity glycerol (HOG) pathway and as a regulator of the filamentous growth pathway; overproduction blocks cell cycle arrest in the presence of mating pheromone; relocalizes from vacuole to plasma membrane upon DNA replication stress
-S000034338	CDS					YPR075C		16	696819	695737	C		2011-02-03	1996-07-31	
-S000006281	ORF	Dubious	YPR077C			chromosome 16		16	697502	697131	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; expression increased by deletion of NAP1
-S000035364	CDS					YPR077C		16	697502	697131	C		2011-02-03	1996-07-31	
-S000006282	ORF	Uncharacterized	YPR078C			chromosome 16		16	698265	697147	C		2011-02-03	1996-07-31	Putative protein of unknown function; possible role in DNA metabolism and/or in genome stability; expression is heat-inducible
-S000035444	CDS					YPR078C		16	698265	697147	C		2011-02-03	1996-07-31	
-S000006283	ORF	Verified	YPR079W	MRL1		chromosome 16		16	698869	700014	W		2011-02-03	1996-07-31	Membrane protein; has similarity to mammalian mannose-6-phosphate receptors; possibly functions as a sorting receptor in the delivery of vacuolar hydrolases; protein abundance increases in response to DNA replication stress
-S000035534	CDS					YPR079W		16	698869	700014	W		2011-02-03	1996-07-31	
-S000006284	ORF	Verified	YPR080W	TEF1	translation elongation factor EF-1 alpha|eEF1A|EF-1 alpha	chromosome 16	L000002277	16	700594	701970	W	46	2011-02-03	1996-07-31	Translational elongation factor EF-1 alpha; in the GTP-bound active form, binds to and delivers aminoacylated tRNA to the A-site of ribosomes for elongation of nascent polypeptides; associates with vacuolar Rho1p GTPase; may also have a role in tRNA re-export from the nucleus; TEF1 has a paralog, TEF2, that arose from the whole genome duplication
-S000035186	CDS					YPR080W		16	700594	701970	W		2011-02-03	1996-07-31	
-S000006285	ORF	Verified	YPR081C	GRS2	putative glycine--tRNA ligase	chromosome 16		16	703970	702114	C		2011-02-03	1996-07-31	Glycine-tRNA synthetase, not expressed under normal growth conditions; expression is induced under heat, oxidative, pH, or ethanol stress conditions; more stable than the major glycine-tRNA synthetase Grs1p at 37 deg C; GRS2 has a paralog, GRS1, that arose from the whole genome duplication
-S000035269	CDS					YPR081C		16	703970	702114	C		2011-02-03	1996-07-31	
-S000006286	ORF	Verified	YPR082C	DIB1	U4/U6-U5 snRNP complex subunit DIB1|SNU16	chromosome 16	L000004542	16	704656	704225	C		2011-02-03	1996-07-31	17-kDa component of the U4/U6aU5 tri-snRNP; plays an essential role in pre-mRNA splicing; human ortholog TXNL4A (the human U5-specific 15-kDa protein) complements yeast dib1 null mutant
-S000036157	CDS					YPR082C		16	704656	704225	C		2011-02-03	1996-07-31	
-S000006287	ORF	Verified	YPR083W	MDM36		chromosome 16		16	704854	706593	W		2011-02-03	1996-07-31	Mitochondrial protein; required for normal mitochondrial morphology and inheritance; component of the mitochondria-ER-cortex-ancor (MECA); interacts with Num1p to link the ER and mitochondria at the cell cortex; proposed involvement in the formation of Dnm1p and Num1p-containing cortical anchor complexes that promote mitochondrial fission
-S000036324	CDS					YPR083W		16	704854	706593	W		2011-02-03	1996-07-31	
-S000006288	ORF	Uncharacterized	YPR084W			chromosome 16		16	706972	708342	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000036408	CDS					YPR084W		16	706972	708342	W		2011-02-03	1996-07-31	
-S000006289	ORF	Verified	YPR085C	ASA1		chromosome 16		16	709828	708497	C		2011-02-03	2003-09-22|1996-07-31	Subunit of the ASTRA complex, involved in chromatin remodeling; telomere length regulator involved in the stability or biogenesis of PIKKs such as TORC1
-S000030072	CDS					YPR085C		16	709828	708497	C		2011-02-03	2003-09-22|1996-07-31	
-S000006290	ORF	Verified	YPR086W	SUA7	transcription factor TFIIB|TFIIB|SOH4	chromosome 16	L000002141	16	710101	711138	W		2011-02-03	1996-07-31	Transcription factor TFIIB; a general transcription factor required for transcription initiation and start site selection by RNA polymerase II
-S000030297	CDS					YPR086W		16	710101	711138	W		2011-02-03	1996-07-31	
-S000006291	ORF	Dubious	YPR087W	VPS69		chromosome 16		16	711354	711674	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 85% of ORF overlaps the verified gene SRP54; deletion causes a vacuolar protein sorting defect
-S000030448	CDS					YPR087W		16	711354	711674	W		2011-02-03	1996-07-31	
-S000006292	ORF	Verified	YPR088C	SRP54	RNA-binding signal recognition particle subunit SRP54|SRH1	chromosome 16	L000002064	16	713028	711403	C		2011-02-03	1996-07-31	Signal recognition particle (SRP) subunit (homolog of mammalian SRP54); contains the signal sequence-binding activity of SRP, interacts with the SRP RNA, and mediates binding of SRP to signal receptor; contains GTPase domain
-S000030479	CDS					YPR088C		16	713028	711403	C		2011-02-03	1996-07-31	
-S000006293	ORF	Uncharacterized	YPR089W		YPR090W	chromosome 16		16	713275	715941	W		2011-02-03	2003-09-29|1996-07-31	Protein of unknown function; exhibits genetic interaction with ERG11 and protein-protein interaction with Hsp82p
-S000031385	CDS					YPR089W		16	713275	715941	W		2011-02-03	2003-09-29|1996-07-31	
-S000006296	ORF	Dubious	YPR092W			chromosome 16		16	718379	718684	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032289	CDS					YPR092W		16	718379	718684	W		2011-02-03	1996-07-31	
-S000006295	ORF	Verified	YPR091C	NVJ2		chromosome 16		16	718468	716156	C		2011-02-03	1996-07-31	Lipid-binding ER protein, enriched at nucleus-vacuolar junctions (NVJ); may be involved in sterol metabolism or signaling at the NVJ; contains a synaptotagmin-like-mitochondrial-lipid binding protein (SMP) domain; binds phosphatidylinositols and other lipids in a large-scale study; may interact with ribosomes, based on co-purification experiments
-S000031211	CDS					YPR091C		16	718468	716156	C		2011-02-03	1996-07-31	
-S000006442	snoRNA_gene		snR51	SNR51		chromosome 16	L000004520	16	718806	718700	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2729 and small subunit (SSU) rRNA at position A100
-S000030732	noncoding_exon					snR51		16	718806	718700	C		2011-02-03	2000-05-19	
-S000006461	snoRNA_gene		snR70	SNR70		chromosome 16	L000004539	16	719050	718887	C		2011-02-03	2000-05-19|2007-05-09	C/D box small nucleolar RNA (snoRNA); predicted to guide 2'-O-methylation of small subunit (SSU) rRNA at position C1639
-S000031744	noncoding_exon					snR70		16	719050	718887	C		2011-02-03	2000-05-19|2007-05-09	
-S000007305	snoRNA_gene		snR41	SNR41		chromosome 16	L000003056	16	719242	719148	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at positions A541 and G1126
-S000030612	noncoding_exon					snR41		16	719242	719148	C		2011-02-03	2000-05-19	
-S000006297	ORF	Verified	YPR093C	ASR1	ubiquitin-protein ligase ASR1	chromosome 16		16	720424	719558	C		2011-02-03	2003-09-22|1996-07-31	Ubiquitin ligase that modifies and regulates RNA Pol II; involved in a putative alcohol-responsive signaling pathway; accumulates in the nucleus under alcohol stress; has a role in organization of septins and the actin cytoskeleton; contains a Ring/PHD finger domain similar to the mammalian rA9 protein
-S000032333	CDS					YPR093C		16	720424	719558	C		2011-02-03	2003-09-22|1996-07-31	
-S000006298	ORF	Verified	YPR094W	RDS3	U2 snRNP complex subunit RDS3	chromosome 16		16	720637	720960	W		2011-02-03	1996-07-31	Component of the SF3b subcomplex of the U2 snRNP; zinc cluster protein involved in pre-mRNA splicing and cycloheximide resistance
-S000032497	CDS					YPR094W		16	720637	720960	W		2011-02-03	1996-07-31	
-S000006299	ORF	Verified	YPR095C	SYT1	Arf family guanine nucleotide exchange factor SYT1	chromosome 16	L000004575	16	724717	721037	C		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for Arf proteins; promotes activation of Arl1p, which recruits Imh1p to the Golgi; involved in vesicular transport; member of the Sec7-domain family; contains a PH domain
-S000034455	CDS					YPR095C		16	724717	721037	C		2011-02-03	1996-07-31	
-S000006300	ORF	Verified	YPR096C			chromosome 16		16	725144	724842	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments
-S000034576	CDS					YPR096C		16	725144	724842	C		2011-02-03	1996-07-31	
-S000006301	ORF	Verified	YPR097W			chromosome 16		16	725394	728615	W		2011-02-03	1996-07-31|2011-02-03	Protein that contains a PX domain and binds phosphoinositides; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; PX stands for Phox homology
-S000034675	CDS					YPR097W		16	725394	728615	W		2011-02-03	1996-07-31|2011-02-03	
-S000006302	ORF	Verified	YPR098C			chromosome 16		16	729528	728947	C		2011-02-03	2003-09-27|1996-07-31	Protein of unknown function; localized to the mitochondrial outer membrane
-S000034698	CDS					YPR098C		16	729385	728947	C		2011-02-03	2003-09-27	
-S000034697	CDS					YPR098C		16	729528	729482	C		2011-02-03	2003-09-27|1996-07-31	
-S000034699	intron					YPR098C		16	729481	729386	C		2011-02-03	2003-09-27	
-S000006304	ORF	Verified	YPR100W	MRPL51	mitochondrial 54S ribosomal protein MRPL51	chromosome 16		16	729791	730213	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000033115	CDS					YPR100W		16	729791	730213	W		2011-02-03	1996-07-31	
-S000006303	ORF	Dubious	YPR099C			chromosome 16		16	730113	729757	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene MRPL51/YPR100W
-S000035639	CDS					YPR099C		16	730113	729757	C		2011-02-03	1996-07-31	
-S000006305	ORF	Verified	YPR101W	SNT309	NTC25	chromosome 16	L000004269	16	730492	731019	W		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; interacts physically and genetically with Prp19p
-S000033189	CDS					YPR101W		16	730492	731019	W		2011-02-03	1996-07-31	
-S000006306	ORF	Verified	YPR102C	RPL11A	uL5|ribosomal 60S subunit protein L11A|rp39A|YL22|L5|L16B|L11A	chromosome 16	L000004453	16	731748	731224	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L11A; expressed at twice the level of Rpl11Bp; involved in ribosomal assembly; depletion causes degradation of 60S proteins and RNA; homologous to mammalian ribosomal protein L11 and bacterial L5; RPL11A has a paralog, RPL11B, that arose from the whole genome duplication
-S000033914	CDS					YPR102C		16	731748	731224	C		2011-02-03	1996-07-31	
-S000006307	ORF	Verified	YPR103W	PRE2	proteasome core particle subunit beta 5|SRR2|PRG1|DOA3	chromosome 16	L000001484	16	732349	733212	W		2011-02-03	1996-07-31	Beta 5 subunit of the 20S proteasome; responsible for the chymotryptic activity of the proteasome
-S000034099	CDS					YPR103W		16	732349	733212	W		2011-02-03	1996-07-31	
-S000006308	ORF	Verified	YPR104C	FHL1	SPP42	chromosome 16	L000000612	16	736433	733623	C		2011-02-03	1996-07-31	Regulator of ribosomal protein (RP) transcription; has forkhead associated domain that binds phosphorylated proteins; recruits coactivator Ifh1p or corepressor Crf1p to RP gene promoters; also has forkhead DNA-binding domain though in vitro DNA binding assays give inconsistent results; computational analyses suggest it binds DNA directly at highly active RP genes and indirectly through Rap1p motifs at others; suppresses RNA pol III and splicing factor prp4 mutants
-S000034142	CDS					YPR104C		16	736433	733623	C		2011-02-03	1996-07-31	
-S000006309	ORF	Verified	YPR105C	COG4	Golgi transport complex subunit COG4|SGF1|SEC38|COD1	chromosome 16	S000007660	16	739569	736984	C		2011-02-03	1996-07-31	Essential component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
-S000035097	CDS					YPR105C		16	739569	736984	C		2011-02-03	1996-07-31	
-S000006310	ORF	Verified	YPR106W	ISR1	putative protein kinase ISR1	chromosome 16	L000004210	16	740061	741392	W		2011-02-03	1996-07-31	Predicted protein kinase; overexpression causes sensitivity to staurosporine, which is a potent inhibitor of protein kinase C
-S000035292	CDS					YPR106W		16	740061	741392	W		2011-02-03	1996-07-31	
-S000006311	ORF	Verified	YPR107C	YTH1	cleavage polyadenylation factor RNA-binding subunit YTH1	chromosome 16	L000003546	16	742064	741438	C		2011-02-03	1996-07-31	Essential RNA-binding component of cleavage and polyadenylation factor; contains five zinc fingers; required for pre-mRNA 3'-end processing and polyadenylation; relocalizes to the cytosol in response to hypoxia
-S000035304	CDS					YPR107C		16	742064	741438	C		2011-02-03	1996-07-31	
-S000006312	ORF	Verified	YPR108W	RPN7	proteasome regulatory particle lid subunit RPN7	chromosome 16	L000004307	16	742454	743743	W		2011-02-03	1996-07-31	Essential non-ATPase regulatory subunit of the 26S proteasome; similar to another S. cerevisiae regulatory subunit, Rpn5p, as well as to mammalian proteasome subunits
-S000035430	CDS					YPR108W		16	742454	743743	W		2011-02-03	1996-07-31	
-S000028590	ORF	Uncharacterized	YPR108W-A			chromosome 16		16	744175	744387	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031362	CDS					YPR108W-A		16	744175	744387	W		2011-02-03	2003-07-29	
-S000006752	tRNA_gene		tT(UGU)P			chromosome 16	L000003724	16	744284	744355	W		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000036277	noncoding_exon					tT(UGU)P		16	744284	744355	W		2011-02-03	2000-05-19	
-S000006313	ORF	Uncharacterized	YPR109W			chromosome 16		16	744689	745573	W		2011-02-03	1996-07-31	Predicted membrane protein; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; diploid deletion strain has high budding index
-S000036314	CDS					YPR109W		16	744689	745573	W		2011-02-03	1996-07-31	
-S000006314	ORF	Verified	YPR110C	RPC40	DNA-directed RNA polymerase core subunit RPC40|RPC5	chromosome 16	L000001690|L000002890	16	746835	745828	C	72	2011-02-03	1996-07-31	RNA polymerase subunit AC40; common to RNA polymerase I and III; predominant determinant targeting Ty1 integration upstream of Pol III-transcribed genes
-S000031868	CDS					YPR110C		16	746835	745828	C		2011-02-03	1996-07-31	
-S000006315	ORF	Verified	YPR111W	DBF20	serine/threonine-protein kinase DBF20	chromosome 16	L000000490	16	747306	749000	W	66	2011-02-03	1999-07-17|1996-07-31	Ser/Thr kinase involved in late nuclear division; one of the mitotic exit network (MEN) proteins; necessary for the execution of cytokinesis; also plays a role in regulating the stability of SWI5 and CLB2 mRNAs; DBF20 has a paralog, DBF2, that arose from the whole genome duplication
-S000032040	CDS					YPR111W		16	747306	749000	W		2011-02-03	1999-07-17|1996-07-31	
-S000118422	ARS		ARS1626		ARSXVI-749	chromosome 16		16	749099	749345			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178200	ARS_consensus_sequence					ARS1626		16	749117	749133	W		2014-11-18	2014-11-18	
-S000006316	ORF	Verified	YPR112C	MRD1	RNA-binding ribosome biosynthesis protein MRD1	chromosome 16	S000007482	16	751919	749256	C		2011-02-03	1996-07-31	Essential conserved small ribosomal subunit (40s) synthesis factor; component of the 90S preribosome; required for production of 18S rRNA and small ribosomal subunit; contains five consensus RNA-binding domains and binds to the pre-rRNA at two sites within the 18S region
-S000037455	CDS					YPR112C		16	751919	749256	C		2011-02-03	1996-07-31	
-S000006317	ORF	Verified	YPR113W	PIS1	CDP-diacylglycerol--inositol 3-phosphatidyltransferase	chromosome 16	L000001444	16	752257	752919	W		2011-02-03	1996-07-31	Phosphatidylinositol synthase; required for biosynthesis of phosphatidylinositol, which is a precursor for polyphosphoinositides, sphingolipids, and glycolipid anchors for some of the plasma membrane proteins
-S000037583	CDS					YPR113W		16	752257	752919	W		2011-02-03	1996-07-31	
-S000006318	ORF	Uncharacterized	YPR114W			chromosome 16		16	753301	754248	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000037664	CDS					YPR114W		16	753301	754248	W		2011-02-03	1996-07-31	
-S000006319	ORF	Verified	YPR115W	RGC1	GCA1	chromosome 16		16	754877	758128	W		2011-02-03	1996-07-31	Putative regulator of the Fps1p glycerol channel; multiply phosphorylated by Hog1p under osmotic stress; contains a pleckstrin homology domain; forms homodimers and heterodimerizes with paralog Ask10p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000030470	CDS					YPR115W		16	754877	758128	W		2011-02-03	1996-07-31	
-S000006320	ORF	Verified	YPR116W	RRG8		chromosome 16		16	758648	759481	W		2011-02-03	1996-07-31	Protein of unknown function; required for mitochondrial genome maintenance; null mutation results in a decrease in plasma membrane electron transport
-S000030562	CDS					YPR116W		16	758648	759481	W		2011-02-03	1996-07-31	
-S000006321	ORF	Uncharacterized	YPR117W		BSH1	chromosome 16		16	760025	767494	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000030644	CDS					YPR117W		16	760025	767494	W		2011-02-03	1996-07-31	
-S000006322	ORF	Verified	YPR118W	MRI1	S-methyl-5-thioribose-1-phosphate isomerase MRI1	chromosome 16		16	767752	768987	W		2011-02-03	1996-07-31	5'-methylthioribose-1-phosphate isomerase; catalyzes the isomerization of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate in the methionine salvage pathway
-S000030727	CDS					YPR118W		16	767752	768987	W		2011-02-03	1996-07-31	
-S000006635	tRNA_gene		tK(UUU)P			chromosome 16	L000003731	16	769302	769207	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034222	intron					tK(UUU)P		16	769265	769243	C		2011-02-03	2000-05-19	
-S000034221	noncoding_exon					tK(UUU)P		16	769242	769207	C		2011-02-03	2000-05-19	
-S000034220	noncoding_exon					tK(UUU)P		16	769302	769266	C		2011-02-03	2000-05-19	
-S000007216	long_terminal_repeat		YPRWsigma2			chromosome 16		16	769319	769659	W		2011-02-03	2000-05-19	Ty3 LTR
-S000006323	ORF	Verified	YPR119W	CLB2	B-type cyclin CLB2	chromosome 16	L000000350	16	771653	773128	W		2011-02-03	1996-07-31	B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the transition from G2 to M phase; accumulates during G2 and M, then targeted via a destruction box motif for ubiquitin-mediated degradation by the proteasome; CLB2 has a paralog, CLB1, that arose from the whole genome duplication
-S000031564	CDS					YPR119W		16	771653	773128	W		2011-02-03	1996-07-31	
-S000006324	ORF	Verified	YPR120C	CLB5	B-type cyclin CLB5	chromosome 16	L000000353	16	775182	773875	C		2011-02-03	1996-07-31	B-type cyclin involved in DNA replication during S phase; activates Cdc28p to promote initiation of DNA synthesis; functions in formation of mitotic spindles along with Clb3p and Clb4p; most abundant during late G1 phase; CLB5 has a paralog, CLB6, that arose from the whole genome duplication
-S000030306	CDS					YPR120C		16	775182	773875	C		2011-02-03	1996-07-31	
-S000006529	tRNA_gene		tC(GCA)P2			chromosome 16	L000003730	16	775836	775765	C		2011-02-03	2000-05-19	Cysteine tRNA (tRNA-Cys), predicted by tRNAscan-SE analysis
-S000037837	noncoding_exon					tC(GCA)P2		16	775836	775765	C		2011-02-03	2000-05-19	
-S000007211	long_terminal_repeat		YPRWdelta14			chromosome 16		16	776093	776413	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007201	long_terminal_repeat		YPRCdelta15			chromosome 16		16	776796	776667	C		2011-02-03	2000-05-19	Ty1 LTR
-S000119041	ARS		ARS1635		ARSXVI-777|ARS1626.5	chromosome 16		16	776926	777156			2011-02-03	2006-10-04	Autonomously Replicating Sequence
-S000119042	ARS_consensus_sequence					ARS1635		16	777098	777084	C		2011-02-03	2006-10-04	
-S000007212	long_terminal_repeat		YPRWdelta16			chromosome 16		16	777832	778154	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006325	ORF	Verified	YPR121W	THI22	putative phosphomethylpyrimidine kinase	chromosome 16		16	778583	780301	W		2011-02-03	1996-07-31|2011-02-03	Protein with similarity to hydroxymethylpyrimidine phosphate kinases; member of a gene family with THI20 and THI21; not required for thiamine biosynthesis; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000033668	CDS					YPR121W		16	778583	780301	W		2011-02-03	1996-07-31|2011-02-03	
-S000006326	ORF	Verified	YPR122W	AXL1	STE22|FUS5	chromosome 16	L000002601	16	782045	785671	W		2011-02-03	1996-07-31	Haploid specific endoprotease of a-factor mating pheromone; performs one of two N-terminal cleavages during maturation of a-factor mating pheromone; required for axial budding pattern of haploid cells
-S000033830	CDS					YPR122W		16	782045	785671	W		2011-02-03	1996-07-31	
-S000006328	ORF	Verified	YPR124W	CTR1	high-affinity Cu transporter CTR1	chromosome 16	L000003063	16	786208	787428	W		2011-02-03	1996-07-31	High-affinity copper transporter of plasma membrane; mediates nearly all copper uptake under low copper conditions; transcriptionally induced at low copper levels and degraded at high copper levels; protein increases in abundance and relocalizes from nucleus to plasma membrane upon DNA replication stress; human homolog SLC31A1 can complement a yeast ctr1 ctr3 double deletion
-S000034806	CDS					YPR124W		16	786208	787428	W		2011-02-03	1996-07-31	
-S000006327	ORF	Dubious	YPR123C			chromosome 16		16	786575	786141	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially/completely overlaps the verified ORF CTR
-S000033865	CDS					YPR123C		16	786575	786141	C		2011-02-03	1996-07-31	
-S000006329	ORF	Verified	YPR125W	YLH47	MRS7	chromosome 16		16	787961	789325	W		2011-02-03	1996-07-31	Mitochondrial inner membrane protein; exposed to the mitochondrial matrix; associates with mitochondrial ribosomes; NOT required for respiratory growth; homolog of human Letm1, a protein implicated in Wolf-Hirschhorn syndrome
-S000034935	CDS					YPR125W		16	787961	789325	W		2011-02-03	1996-07-31	
-S000006330	ORF	Dubious	YPR126C			chromosome 16		16	789385	789077	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034988	CDS					YPR126C		16	789385	789077	C		2011-02-03	1996-07-31	
-S000006331	ORF	Verified	YPR127W		pyridoxine 4-dehydrogenase	chromosome 16		16	790083	791120	W		2011-02-03	1996-07-31	Putative pyridoxine 4-dehydrogenase; differentially expressed during alcoholic fermentation; expression activated by transcription factor YRM1/YOR172W; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
-S000035194	CDS					YPR127W		16	790083	791120	W		2011-02-03	1996-07-31	
-S000006332	ORF	Verified	YPR128C	ANT1		chromosome 16		16	792204	791218	C		2011-02-03	1996-07-31	Peroxisomal adenine nucleotide transporter; involved in beta-oxidation of medium-chain fatty acid; required for peroxisome proliferation
-S000036009	CDS					YPR128C		16	792204	791218	C		2011-02-03	1996-07-31	
-S000006333	ORF	Verified	YPR129W	SCD6	LSM13	chromosome 16	L000001806	16	792687	793736	W		2011-02-03	1996-07-31	Repressor of translation initiation; binds eIF4G through its RGG domain and inhibits recruitment of the preinitiation complex; also contains an Lsm domain; may have a role in RNA processing; overproduction suppresses null mutation in clathrin heavy chain gene CHC1; forms cytoplasmic foci upon DNA replication stress
-S000036168	CDS					YPR129W		16	792687	793736	W		2011-02-03	1996-07-31	
-S000006334	ORF	Dubious	YPR130C			chromosome 16		16	793781	793374	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035652	CDS					YPR130C		16	793781	793374	C		2011-02-03	1996-07-31	
-S000006335	ORF	Verified	YPR131C	NAT3	peptide alpha-N-acetyltransferase complex B subunit NAT3|RAD56|NAA20	chromosome 16	S000007464|S000029405|L000001576	16	794498	793911	C	84.8	2011-02-03	2003-05-23|1996-07-31	Catalytic subunit of the NatB N-terminal acetyltransferase; NatB catalyzes acetylation of the amino-terminal methionine residues of all proteins beginning with Met-Asp or Met-Glu and of some proteins beginning with Met-Asn or Met-Met
-S000035762	CDS					YPR131C		16	794498	793911	C		2011-02-03	2003-05-23|1996-07-31	
-S000006336	ORF	Verified	YPR132W	RPS23B	uS12|ribosomal 40S subunit protein S23B|rp37|YS14|S28B|S23B|S12	chromosome 16	L000001765	16	794965	795767	W		2011-02-03	1996-07-31	Ribosomal protein 28 (rp28) of the small (40S) ribosomal subunit; required for translational accuracy; homologous to mammalian ribosomal protein S23 and bacterial S12; RPS23B has a paralog, RPS23A, that arose from the whole genome duplication; deletion of both RPS23A and RPS23B is lethal
-S000035959	CDS					YPR132W		16	794965	795029	W		2011-02-03	1996-07-31	
-S000035960	CDS					YPR132W		16	795395	795767	W		2011-02-03	1996-07-31	
-S000035961	intron					YPR132W		16	795030	795394	W		2011-02-03	1996-07-31	
-S000006337	ORF	Verified	YPR133C	SPN1	IWS1	chromosome 16		16	797210	795978	C		2011-02-03	1996-07-31	Protein involved in RNA polymerase II transcription; is constitutively recruited to the CYC1 promoter and is required for recruitment of chromatin remodeling factors for the expression of CYC1 gene; interacts genetically or physically with RNAP II, TBP, TFIIS, and chromatin remodelling factors; central domain highly conserved throughout eukaryotes; mutations confer an Spt- phenotype
-S000037797	CDS					YPR133C		16	797210	795978	C		2011-02-03	1996-07-31	
-S000006433	ORF	Verified	YPR133W-A	TOM5	MOM8A	chromosome 16	L000003249	16	797557	797709	W		2011-02-03	1999-07-17	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import of all mitochondrially directed proteins; involved in transfer of precursors from the Tom70p and Tom20p receptors to the Tom40p pore
-S000036542	CDS					YPR133W-A		16	797557	797709	W		2011-02-03	1999-07-17	
-S000006338	ORF	Verified	YPR134W	MSS18		chromosome 16	L000001204	16	798051	798857	W		2011-02-03	1996-07-31	Nuclear encoded protein needed for splicing of mitochondrial intron; required for efficient splicing of mitochondrial COX1 aI5beta intron; mss18 mutations block cleavage of 5' exon - intron junction; phenotype of intronless strain suggests additional functions
-S000029836	CDS					YPR134W		16	798051	798857	W		2011-02-03	1996-07-31	
-S000006339	ORF	Verified	YPR135W	CTF4	chromatin-binding protein CTF4|POB1|CHL15	chromosome 16	L000000326	16	799234	802017	W	103	2011-02-03	1996-07-31	Chromatin-associated protein; required for sister chromatid cohesion; interacts with DNA polymerase alpha (Pol1p) and may link DNA synthesis to sister chromatid cohesion
-S000029940	CDS					YPR135W		16	799234	802017	W		2011-02-03	1996-07-31	
-S000006341	ORF	Verified	YPR137W	RRP9		chromosome 16	S000007466	16	802359	804080	W		2011-02-03	1996-07-31	Protein involved in pre-rRNA processing; associated with U3 snRNP; component of small ribosomal subunit (SSU) processosome; ortholog of the human U3-55k protein
-S000031011	CDS					YPR137W		16	802359	804080	W		2011-02-03	1996-07-31	
-S000006340	ORF	Dubious	YPR136C			chromosome 16		16	802837	802325	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF RRP9
-S000029987	CDS					YPR136C		16	802837	802325	C		2011-02-03	1996-07-31	
-S000007213	long_terminal_repeat		YPRWdelta17			chromosome 16		16	804511	804638	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007202	long_terminal_repeat		YPRCdelta18			chromosome 16		16	804978	804645	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007360	transposable_element_gene		YPR137C-B		gag-pol fusion protein	chromosome 16	S000029020	16	810269	805001	C		2011-02-03	1997-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000034188	CDS					YPR137C-B		16	808963	805001	C		2011-02-03	1997-07-17	
-S000034187	CDS					YPR137C-B		16	810269	808965	C		2011-02-03	1997-07-17	
-S000034189	plus_1_translational_frameshift					YPR137C-B		16	808964	808964	C		2011-02-03	1997-07-17	
-S000007359	transposable_element_gene		YPR137C-A		gag protein	chromosome 16		16	810269	808947	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000034186	CDS					YPR137C-A		16	810269	808947	C		2011-02-03	1996-07-31	
-S000007208	LTR_retrotransposon		YPRCTy1-2		Ty1	chromosome 16		16	810562	804645	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007203	long_terminal_repeat		YPRCdelta19			chromosome 16		16	810562	810229	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006677	tRNA_gene		tN(GUU)P			chromosome 16	L000003725	16	810676	810749	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000030747	noncoding_exon					tN(GUU)P		16	810676	810749	W		2011-02-03	2000-05-19	
-S000006342	ORF	Verified	YPR138C	MEP3	ammonium permease MEP3	chromosome 16	L000004105	16	812453	810984	C		2011-02-03	1996-07-31	Ammonium permease of high capacity and low affinity; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation ammonia permease; MEP3 has a paralog, MEP1, that arose from the whole genome duplication
-S000031048	CDS					YPR138C		16	812453	810984	C		2011-02-03	1996-07-31	
-S000006343	ORF	Verified	YPR139C	LOA1	lysophosphatidic acid acyltransferase LOA1|VPS66	chromosome 16		16	814058	813156	C		2011-02-03	1996-07-31	Lysophosphatidic acid acyltransferase; involved in triacelglyceride homeostasis and lipid droplet formation; localized to lipid droplets and the ER; specificity for oleoyl-CoA
-S000031180	CDS					YPR139C		16	814058	813156	C		2011-02-03	1996-07-31	
-S000006344	ORF	Verified	YPR140W	TAZ1	lysophosphatidylcholine acyltransferase	chromosome 16		16	814391	815536	W		2011-02-03	1996-07-31	Lyso-phosphatidylcholine acyltransferase; required for normal phospholipid content of mitochondrial membranes; major determinant of the final acyl chain composition of the mitochondrial-specific phospholipid cardiolipin; mutations in human ortholog tafazzin (TAZ) cause Barth syndrome, a rare X-linked disease characterized by skeletal and cardiomyopathy and bouts of cyclic neutropenia; a specific splice variant of human TAZ can complement yeast null mutant
-S000030806	CDS					YPR140W		16	814391	815536	W		2011-02-03	1996-07-31	
-S000006345	ORF	Verified	YPR141C	KAR3	OSR11	chromosome 16	L000000888	16	817923	815734	C	94.4	2011-02-03	1996-07-31	Minus-end-directed microtubule motor; functions in mitosis and meiosis, localizes to the spindle pole body and localization is dependent on functional Cik1p, required for nuclear fusion during mating; potential Cdc28p substrate
-S000030832	CDS					YPR141C		16	817923	815734	C		2011-02-03	1996-07-31	
-S000006347	ORF	Verified	YPR143W	RRP15		chromosome 16		16	818323	819075	W		2011-02-03	1996-07-31	Nucleolar protein; constituent of pre-60S ribosomal particles; required for proper processing of the 27S pre-rRNA at the A3 and B1 sites to yield mature 5.8S and 25S rRNAs
-S000032060	CDS					YPR143W		16	818323	819075	W		2011-02-03	1996-07-31	
-S000006346	ORF	Dubious	YPR142C			chromosome 16		16	818693	818130	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RRP15, which is required for ribosomal RNA processing
-S000031843	CDS					YPR142C		16	818693	818130	C		2011-02-03	1996-07-31	
-S000118423	ARS		ARS1627		ARSXVI-819	chromosome 16		16	819160	819399			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178201	ARS_consensus_sequence					ARS1627		16	819340	819324	C		2014-11-18	2014-11-18	
-S000006611	tRNA_gene		tI(AAU)P1			chromosome 16	L000003726	16	819529	819602	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000035185	noncoding_exon					tI(AAU)P1		16	819529	819602	W		2011-02-03	2000-05-19	
-S000006348	ORF	Verified	YPR144C	NOC4	ribosome biosynthesis protein NOC4|UTP19	chromosome 16		16	821423	819765	C		2011-02-03	1996-07-31	Nucleolar protein; forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits; relocalizes to the cytosol in response to hypoxia
-S000032106	CDS					YPR144C		16	821423	819765	C		2011-02-03	1996-07-31	
-S000006505	snoRNA_gene		snR45	SNR45		chromosome 16	L000003412	16	821732	821903	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA) but not shown to be active; no target site is predicted within the ribosomal RNAs
-S000030617	noncoding_exon					snR45		16	821732	821903	W		2011-02-03	2000-05-19	
-S000006349	ORF	Verified	YPR145W	ASN1	asparagine synthase (glutamine-hydrolyzing) 1	chromosome 16	L000002732	16	822620	824338	W		2011-02-03	1996-07-31	Asparagine synthetase; catalyzes the synthesis of L-asparagine from L-aspartate in the asparagine biosynthetic pathway; ASN1 has a paralog, ASN2, that arose from the whole genome duplication
-S000034141	CDS					YPR145W		16	822620	824338	W		2011-02-03	1996-07-31	
-S000113589	ORF	Uncharacterized	YPR145C-A			chromosome 16		16	824926	824690	C		2011-02-03	2005-11-21	Putative protein of unknown function
-S000113590	CDS					YPR145C-A		16	824926	824690	C		2011-02-03	2005-11-21	
-S000006350	ORF	Dubious	YPR146C			chromosome 16		16	825676	825347	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034200	CDS					YPR146C		16	825676	825347	C		2011-02-03	1996-07-31	
-S000006351	ORF	Verified	YPR147C			chromosome 16		16	826559	825645	C		2011-02-03	1996-07-31	Protein of unknown function; may have a role in lipid metabolism, based on localization to lipid droplets; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and is induced in response to the DNA-damaging agent MMS
-S000034283	CDS					YPR147C		16	826559	825645	C		2011-02-03	1996-07-31	
-S000006352	ORF	Verified	YPR148C			chromosome 16		16	828140	826833	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
-S000034341	CDS					YPR148C		16	828140	826833	C		2011-02-03	1996-07-31	
-S000006353	ORF	Verified	YPR149W	NCE102	NCE2	chromosome 16	L000003098	16	829918	830439	W		2011-02-03	1996-07-31	Protein of unknown function; contains transmembrane domains; involved in secretion of proteins that lack classical secretory signal sequences; component of the detergent-insoluble glycolipid-enriched complexes (DIGs); NCE102 has a paralog, FHN1, that arose from the whole genome duplication
-S000035352	CDS					YPR149W		16	829918	830439	W		2011-02-03	1996-07-31	
-S000006354	ORF	Dubious	YPR150W			chromosome 16		16	830999	831520	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SUE1/YPR151C
-S000033972	CDS					YPR150W		16	830999	831520	W		2011-02-03	1996-07-31	
-S000006355	ORF	Verified	YPR151C	SUE1		chromosome 16		16	831675	831055	C		2011-02-03	1996-07-31	Protein required for degradation of unstable forms of cytochrome c; located in the mitochondria
-S000034039	CDS					YPR151C		16	831675	831055	C		2011-02-03	1996-07-31	
-S000006356	ORF	Verified	YPR152C	URN1		chromosome 16		16	833458	832061	C		2011-02-03	1996-07-31	Protein of unknown function containing WW and FF domains; overexpression causes accumulation of cells in G1 phase
-S000034921	CDS					YPR152C		16	833458	832061	C		2011-02-03	1996-07-31	
-S000006357	ORF	Verified	YPR153W	MAY24		chromosome 16		16	833689	834245	W		2011-02-03	1996-07-31|2007-07-10	Protein of unknown function
-S000035217	CDS					YPR153W		16	833689	833693	W		2011-02-03	1996-07-31|2007-07-10	
-S000123277	CDS					YPR153W		16	833828	834245	W		2011-02-03	2007-07-10	
-S000123276	intron					YPR153W		16	833694	833827	W		2011-02-03	2007-07-10	
-S000006358	ORF	Verified	YPR154W	PIN3	LSB2	chromosome 16		16	834565	835212	W		2011-02-03	1996-07-31	Negative regulator of actin nucleation-promoting factor activity; interacts with Las17p, a homolog of human Wiskott-Aldrich Syndrome protein (WASP), via an N-terminal SH3 domain, and along with LSB1 cooperatively inhibits the nucleation of actin filaments; short-lived protein whose levels increase in response to thermal stress; induces the formation of the [PIN+] and [RNQ+] prions when overproduced; PIN3 has a paralog, LSB1, that arose from the whole genome duplication
-S000036101	CDS					YPR154W		16	834565	835212	W		2011-02-03	1996-07-31	
-S000006359	ORF	Verified	YPR155C	NCA2		chromosome 16	L000003161	16	837413	835563	C		2011-02-03	1996-07-31	Protein that regulates expression of Fo-F1 ATP synthase subunits; involved in the regulation of mitochondrial expression of subunits 6 (Atp6p) and 8 (Atp8p) of the Fo-F1 ATP synthase; functions with Nca3p
-S000036159	CDS					YPR155C		16	837413	835563	C		2011-02-03	1996-07-31	
-S000006360	ORF	Verified	YPR156C	TPO3	spermine transporter	chromosome 16		16	839777	837909	C		2011-02-03	1996-07-31	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; specific for spermine; localizes to the plasma membrane; TPO3 has a paralog, TPO2, that arose from the whole genome duplication
-S000036260	CDS					YPR156C		16	839777	837909	C		2011-02-03	1996-07-31	
-S000006361	ORF	Uncharacterized	YPR157W	TDA6		chromosome 16		16	841266	842669	W		2011-02-03	1996-07-31	Putative protein of unknown function; induced by treatment with 8-methoxypsoralen and UVA irradiation; null mutant is sensitive to expression of the top1-T722A allele; SWAT-GFP and mCherry fusion proteins localize to the cell periphery and vacuole; TDA6 has a paralog, VPS62, that arose from the whole genome duplication
-S000036428	CDS					YPR157W		16	841266	842669	W		2011-02-03	1996-07-31	
-S000118424	ARS		ARS1628		ARSXVI-843	chromosome 16		16	842653	842900			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178202	ARS_consensus_sequence					ARS1628		16	842708	842724	W		2014-11-18	2014-11-18	
-S000006362	ORF	Verified	YPR158W	CUR1		chromosome 16		16	843262	844020	W		2011-02-03	1996-07-31	Sorting factor, central regulator of spatial protein quality control; physically and functionally interacts with chaperones to promote sorting and deposition of misfolded proteins into cytosolic compartments; involved in destabilization of [URE3] prions; CUR1 has a paralog, BTN2, that arose from the whole genome duplication
-S000030121	CDS					YPR158W		16	843262	844020	W		2011-02-03	1996-07-31	
-S000007214	long_terminal_repeat		YPRWdelta20			chromosome 16		16	844412	844749	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007220	LTR_retrotransposon		YPRWTy1-3		Ty1	chromosome 16		16	844412	850340	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007363	transposable_element_gene		YPR158W-A		gag protein	chromosome 16		16	844709	846031	W		2011-02-03	1999-07-17|1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000037619	CDS					YPR158W-A		16	844709	846031	W		2011-02-03	1999-07-17	
-S000007364	transposable_element_gene		YPR158W-B		gag-pol fusion protein	chromosome 16		16	844709	849980	W		2011-02-03	1997-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000037621	CDS					YPR158W-B		16	844709	846013	W		2011-02-03	1997-07-17	
-S000037622	CDS					YPR158W-B		16	846015	849980	W		2011-02-03	1997-07-17	
-S000037623	plus_1_translational_frameshift					YPR158W-B		16	846014	846014	W		2011-02-03	1997-07-17	
-S000007215	long_terminal_repeat		YPRWdelta21			chromosome 16		16	850003	850340	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007204	long_terminal_repeat		YPRCdelta22			chromosome 16		16	850512	850357	C		2011-02-03	2000-05-19	Ty1 LTR
-S000130201	ARS		ARS1629			chromosome 16		16	850512	850629			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000007205	long_terminal_repeat		YPRCdelta23			chromosome 16		16	850966	850629	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007362	transposable_element_gene		YPR158C-D		gag-pol fusion protein	chromosome 16	S000029021	16	856257	850989	C		2011-02-03	1997-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000035820	CDS					YPR158C-D		16	854951	850989	C		2011-02-03	1997-07-17	
-S000035819	CDS					YPR158C-D		16	856257	854953	C		2011-02-03	1997-07-17	
-S000035821	plus_1_translational_frameshift					YPR158C-D		16	854952	854952	C		2011-02-03	1997-07-17	
-S000007361	transposable_element_gene		YPR158C-C		gag protein	chromosome 16		16	856257	854935	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000035816	CDS					YPR158C-C		16	856257	854935	C		2011-02-03	1999-07-17	
-S000007217	long_terminal_repeat		YPRWsigma3			chromosome 16		16	856545	856885	W		2011-02-03	2000-05-19	Ty3 LTR
-S000007209	LTR_retrotransposon		YPRCTy1-4		Ty1	chromosome 16		16	856554	850629	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007206	long_terminal_repeat		YPRCdelta24			chromosome 16		16	856554	856217	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006520	tRNA_gene		tA(AGC)P			chromosome 16	L000003727	16	856902	856974	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000032310	noncoding_exon					tA(AGC)P		16	856902	856974	W		2011-02-03	2000-05-19	
-S000006363	ORF	Verified	YPR159W	KRE6	beta-glucan synthesis-associated protein KRE6|CWH48	chromosome 16	L000000915	16	857583	859745	W	95.9	2011-02-03	1996-07-31	Type II integral membrane protein; required for beta-1,6 glucan biosynthesis; putative beta-glucan synthase; localizes to ER, plasma membrane, sites of polarized growth and secretory vesicles; functionally redundant with Skn1p; KRE6 has a paralog, SKN1, that arose from the whole genome duplication
-S000030298	CDS					YPR159W		16	857583	859745	W		2011-02-03	1996-07-31	
-S000006589	tRNA_gene		tG(GCC)P2			chromosome 16	L000003728	16	860379	860449	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000031683	noncoding_exon					tG(GCC)P2		16	860379	860449	W		2011-02-03	2000-05-19	
-S000028725	ORF	Uncharacterized	YPR159C-A			chromosome 16		16	860415	860314	C		2011-02-03	2003-07-29	Protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cytosol; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032712	CDS					YPR159C-A		16	860415	860314	C		2011-02-03	2003-07-29	
-S000006364	ORF	Verified	YPR160W	GPH1	glycogen phosphorylase	chromosome 16	L000000724	16	861306	864014	W		2011-02-03	1996-07-31	Glycogen phosphorylase required for the mobilization of glycogen; non-essential; regulated by cyclic AMP-mediated phosphorylation; phosphorylation by Cdc28p may coordinately regulate carbohydrate metabolism and the cell cycle; expression is regulated by stress-response elements and by the HOG MAP kinase pathway
-S000029939	CDS					YPR160W		16	861306	864014	W		2011-02-03	1996-07-31	
-S000028860	ORF	Dubious	YPR160W-A			chromosome 16		16	861934	862014	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by expression profiling and mass spectrometry
-S000034591	CDS					YPR160W-A		16	861934	862014	W		2011-02-03	2003-07-29	
-S000028726	ORF	Dubious	YPR160C-A			chromosome 16		16	862861	862577	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032715	CDS					YPR160C-A		16	862861	862577	C		2011-02-03	2003-07-29	
-S000006365	ORF	Verified	YPR161C	SGV1	cyclin-dependent serine/threonine protein kinase SGV1|BUR1	chromosome 16	L000001878	16	866422	864449	C		2011-02-03	1996-07-31	Cyclin (Bur2p)-dependent protein kinase; part of the BUR kinase complex which functions in transcriptional regulation; phosphorylates the carboxy-terminal domain (CTD) of Rpo21p and the C-terminal repeat domain of Spt5p; recruits Spt6p to the CTD at the onset of transcription; regulated by Cak1p; similar to metazoan CDK9 proteins
-S000030002	CDS					YPR161C		16	866422	864449	C		2011-02-03	1996-07-31	
-S000006366	ORF	Verified	YPR162C	ORC4	origin recognition complex subunit 4	chromosome 16	L000003075	16	868304	866715	C		2011-02-03	1996-07-31	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; ORC4 has a paralog, RIF2, that arose from the whole genome duplication
-S000030984	CDS					YPR162C		16	868304	866715	C		2011-02-03	1996-07-31	
-S000006367	ORF	Verified	YPR163C	TIF3	eIF4B|STM1|RBL3	chromosome 16	L000002304	16	869955	868645	C		2011-02-03	1996-07-31	Translation initiation factor eIF-4B; contains an RNA recognition motif and binds to single-stranded RNA; has RNA annealing activity; interacts with Rps20p at the head of the 40S ribosomal subunit and alters the structure of the mRNA entry channel
-S000031085	CDS					YPR163C		16	869955	868645	C		2011-02-03	1996-07-31	
-S000006368	ORF	Verified	YPR164W	MMS1	SLM6|RTT108	chromosome 16	L000003933	16	870703	874926	W		2011-02-03	1996-07-31	Subunit of E3 ubiquitin ligase complex involved in replication repair; stabilizes protein components of the replication fork such as the fork-pausing complex and leading strand polymerase, preventing fork collapse and promoting efficient recovery during replication stress; regulates Ty1 transposition; involved with Rtt101p in nonfunctional rRNA decay
-S000032195	CDS					YPR164W		16	870703	874926	W		2011-02-03	1996-07-31	
-S000006369	ORF	Verified	YPR165W	RHO1	Rho family GTPase RHO1	chromosome 16	L000001630	16	875368	875997	W		2011-02-03	1996-07-31	GTP-binding protein of the rho subfamily of Ras-like proteins; involved in establishment of cell polarity; regulates protein kinase C (Pkc1p) and the cell wall synthesizing enzyme 1,3-beta-glucan synthase (Fks1p and Gsc2p)
-S000032291	CDS					YPR165W		16	875368	875997	W		2011-02-03	1996-07-31	
-S000006370	ORF	Verified	YPR166C	MRP2	mitochondrial 37S ribosomal protein MRP2	chromosome 16	L000001153	16	876629	876282	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000032335	CDS					YPR166C		16	876629	876282	C		2011-02-03	1996-07-31	
-S000006371	ORF	Verified	YPR167C	MET16	phosphoadenylyl-sulfate reductase (thioredoxin)	chromosome 16	L000001087	16	877632	876847	C		2011-02-03	1996-07-31	3'-phosphoadenylsulfate reductase; reduces 3'-phosphoadenylyl sulfate to adenosine-3',5'-bisphosphate and free sulfite using reduced thioredoxin as cosubstrate, involved in sulfate assimilation and methionine metabolism
-S000032426	CDS					YPR167C		16	877632	876847	C		2011-02-03	1996-07-31	
-S000006372	ORF	Verified	YPR168W	NUT2	mediator complex subunit NUT2|MED10	chromosome 16	L000003447|L000004593	16	878076	878549	W		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for transcriptional activation and has a role in basal transcription; protein abundance increases in response to DNA replication stress
-S000034534	CDS					YPR168W		16	878076	878549	W		2011-02-03	1996-07-31	
-S000006373	ORF	Verified	YPR169W	JIP5		chromosome 16		16	878690	880168	W		2011-02-03	1996-07-31|2005-12-01	Protein required for biogenesis of the large ribosomal subunit; required for biogenesis of the large ribosomal subunit; interacts with proteins involved in RNA processing, ribosome biogenesis, ubiquitination and demethylation; similar to WDR55, a human WD repeat protein; essential gene
-S000034622	CDS					YPR169W		16	878690	880168	W		2011-02-03	1996-07-31|2005-12-01	
-S000006612	tRNA_gene		tI(AAU)P2			chromosome 16	L000003729	16	880369	880296	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000035187	noncoding_exon					tI(AAU)P2		16	880369	880296	C		2011-02-03	2000-05-19	
-S000007218	long_terminal_repeat		YPRWsigma4			chromosome 16		16	880386	880726	W		2011-02-03	2000-05-19	Ty3 LTR
-S000118425	ARS		ARS1630		ARSXVI-881	chromosome 16		16	880861	881108			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178203	ARS_consensus_sequence					ARS1630		16	880905	880921	W		2014-11-18	2014-11-18	
-S000007207	long_terminal_repeat		YPRCtau3			chromosome 16		16	881830	881487	C		2011-02-03	2000-05-19	Ty4 LTR
-S000028591	ORF	Dubious	YPR169W-A			chromosome 16		16	883239	883457	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps two other dubious ORFs: YPR170C and YPR170W-B
-S000031363	CDS					YPR169W-A		16	883239	883457	W		2011-02-03	2003-07-29	
-S000028515	ORF	Uncharacterized	YPR170W-B			chromosome 16		16	883239	883595	W		2011-02-03	2003-07-29	Putative protein of unknown function; conserved in fungi; SWAT-GFP fusion protein localizes to the vacuole membrane; partially overlaps the dubious genes YPR169W-A, YPR170W-A and YRP170C
-S000030284	CDS					YPR170W-B		16	883239	883387	W		2011-02-03	2003-07-29	
-S000030285	CDS					YPR170W-B		16	883487	883595	W		2011-02-03	2003-07-29	
-S000030286	intron					YPR170W-B		16	883388	883486	W		2011-02-03	2003-07-29	
-S000006374	ORF	Dubious	YPR170C			chromosome 16		16	883318	882983	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORFs YPR169W-A and YPR170W-B
-S000033271	CDS					YPR170C		16	883318	882983	C		2011-02-03	1996-07-31	
-S000028861	ORF	Dubious	YPR170W-A			chromosome 16		16	883378	883563	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by expression profiling and mass spectrometry
-S000034592	CDS					YPR170W-A		16	883378	883563	W		2011-02-03	2003-07-29	
-S000006375	ORF	Verified	YPR171W	BSP1		chromosome 16		16	883828	885558	W		2011-02-03	1996-07-31	Adapter that links synaptojanins to the cortical actin cytoskeleton; the synaptojanins are Inp52p and Inp53p 
-S000034199	CDS					YPR171W		16	883828	885558	W		2011-02-03	1996-07-31	
-S000006376	ORF	Uncharacterized	YPR172W		pyridoxal 5'-phosphate synthase	chromosome 16		16	885796	886398	W		2011-02-03	1996-07-31	Protein of unknown function; predicted to encode a pyridoxal 5'-phosphate synthase based on sequence similarity but purified protein does not possess this activity, nor does it bind flavin mononucleotide (FMN); transcriptionally activated by Yrm1p along with genes involved in multidrug resistance; YPR172W has a paralog, YLR456W, that arose from the whole genome duplication
-S000034326	CDS					YPR172W		16	885796	886398	W		2011-02-03	1996-07-31	
-S000006377	ORF	Verified	YPR173C	VPS4	AAA family ATPase VPS4|DID6|VPT10|VPL4|GRD13|END13|CSC1	chromosome 16	L000002956	16	887837	886524	C		2011-02-03	1996-07-31	AAA-ATPase involved in multivesicular body (MVB) protein sorting; ATP-bound Vps4p localizes to endosomes and catalyzes ESCRT-III disassembly and membrane release; ATPase activity is activated by Vta1p; regulates cellular sterol metabolism
-S000034362	CDS					YPR173C		16	887837	886524	C		2011-02-03	1996-07-31	
-S000006378	ORF	Verified	YPR174C			chromosome 16		16	888708	888043	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nuclear periphery; potential Cdc28p substrate; binds phosphatidylinositols and phosphatidylethanolamine in a large-scale study; relative distribution to foci at the nuclear periphery increases upon DNA replication stress; YPR174C has a paralog, NBP1, that arose from the whole genome duplication
-S000035379	CDS					YPR174C		16	888708	888043	C		2011-02-03	1996-07-31	
-S000006379	ORF	Verified	YPR175W	DPB2	DNA polymerase epsilon noncatalytic subunit	chromosome 16	L000000519	16	888974	891043	W		2011-02-03	2003-09-22|1996-07-31	Second largest subunit of DNA polymerase II (DNA polymerase epsilon); required for maintenance of fidelity of chromosomal replication; essential motif in C-terminus is required for formation of the four-subunit Pol epsilon; expression peaks at the G1/S phase boundary; Cdc28p substrate
-S000035567	CDS					YPR175W		16	888974	891043	W		2011-02-03	2003-09-22|1996-07-31	
-S000006380	ORF	Verified	YPR176C	BET2	Rab geranylgeranyltransferase BET2	chromosome 16	L000000172	16	892078	891101	C		2011-02-03	1996-07-31	Beta subunit of Type II geranylgeranyltransferase; required for vesicular transport between the endoplasmic reticulum and the Golgi; provides a membrane attachment moiety to Rab-like proteins Ypt1p and Sec4p; human homolog RABGGTB can complement yeast BET2 mutant
-S000035598	CDS					YPR176C		16	892078	891101	C		2011-02-03	1996-07-31	
-S000006382	ORF	Verified	YPR178W	PRP4	U4/U6-U5 snRNP complex subunit PRP4|RNA4	chromosome 16	L000001497	16	892332	893729	W		2011-02-03	1996-07-31	Splicing factor; component of the U4/U6-U5 snRNP complex
-S000036653	CDS					YPR178W		16	892332	893729	W		2011-02-03	1996-07-31	
-S000006381	ORF	Dubious	YPR177C			chromosome 16		16	892684	892313	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the 5' end of the essential PRP4 gene encoding a component of the U4/U6-U5 snRNP complex
-S000036500	CDS					YPR177C		16	892684	892313	C		2011-02-03	1996-07-31	
-S000006383	ORF	Verified	YPR179C	HDA3	PLO1	chromosome 16		16	895764	893797	C		2011-02-03	1996-07-31	Subunit of the HDA1 histone deacetylase complex; possibly tetrameric trichostatin A-sensitive class II histone deacetylase complex contains Hda1p homodimer and an Hda2p-Hda3p heterodimer; required for the activity of the complex; relocalizes to the cytosol in response to hypoxia; similar to Hda2p
-S000036672	CDS					YPR179C		16	895764	893797	C		2011-02-03	1996-07-31	
-S000006384	ORF	Verified	YPR180W	AOS1	E1 ubiquitin-activating protein AOS1|RHC31	chromosome 16	L000004031	16	895961	897004	W		2011-02-03	1996-07-31	Subunit of heterodimeric nuclear SUMO activating enzyme E1 with Uba2p; activates Smt3p (SUMO) before its conjugation to proteins (sumoylation), which may play a role in protein targeting; essential for viability; relocalizes to the cytosol in response to hypoxia
-S000030253	CDS					YPR180W		16	895961	897004	W		2011-02-03	1996-07-31	
-S000006385	ORF	Verified	YPR181C	SEC23	GTPase-activating protein SEC23	chromosome 16	L000001846|S000028412	16	899667	897361	C		2011-02-03	1996-07-31	GTPase-activating protein, stimulates the GTPase activity of Sar1p; component of the Sec23p-Sec24p heterodimer of the COPII vesicle coat, involved in ER to Golgi transport; substrate of Ubp3/Bre5 complex; ubiquitylated by Ub-ligase Rsp5p; proteasome-mediated degradation of Sec23p is regulated by Cdc48p
-S000030311	CDS					YPR181C		16	899667	897361	C		2011-02-03	1996-07-31	
-S000006386	ORF	Verified	YPR182W	SMX3	mRNA splicing protein SMX3|Sm F|SmF	chromosome 16	L000002786	16	900194	900454	W		2011-02-03	1996-07-31	Core Sm protein Sm F; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Smd3p, Sme1p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm F
-S000030535	CDS					YPR182W		16	900194	900454	W		2011-02-03	1996-07-31	
-S000006387	ORF	Verified	YPR183W	DPM1	dolichyl-phosphate beta-D-mannosyltransferase|SED3	chromosome 16	L000000524	16	900755	901558	W		2011-02-03	1996-07-31	Dolichol phosphate mannose (Dol-P-Man) synthase of ER membrane; catalyzes formation of Dol-P-Man from Dol-P and GDP-Man; required for biosynthesis of glycosyl phosphatidylinositol (GPI) membrane anchor, as well as O-mannosylation and protein N- and O-linked glycosylation; human homolog DPM1 can complement yeast mutant strains
-S000031445	CDS					YPR183W		16	900755	901558	W		2011-02-03	1996-07-31	
-S000006388	ORF	Verified	YPR184W	GDB1	bifunctional 4-alpha-glucanotransferase/amylo-alpha-1,6-glucosidase	chromosome 16		16	902044	906654	W		2011-02-03	1996-07-31	Glycogen debranching enzyme; contains glucanotranferase and alpha-1,6-amyloglucosidase activities; required for glycogen degradation; phosphorylated in mitochondria; activity is inhibited by Igd1p; protein abundance increases in response to DNA replication stress
-S000031566	CDS					YPR184W		16	902044	906654	W		2011-02-03	1996-07-31	
-S000006389	ORF	Verified	YPR185W	ATG13	serine/threonine protein kinase regulatory subunit ATG13|APG13	chromosome 16	L000003956	16	907218	909434	W		2011-02-03	1996-07-31	Regulatory subunit of the Atg1p signaling complex; stimulates Atg1p kinase activity; required for vesicle formation during autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; contains a HORMA domain required for autophagy and for recruitment of the phosphatidylinositol 3-kinase complex subunit Atg14p to the pre-autophagosomal structure
-S000031704	CDS					YPR185W		16	907218	909434	W		2011-02-03	1996-07-31	
-S000006390	ORF	Verified	YPR186C	PZF1	TFC2	chromosome 16	L000002286|L000001544	16	911022	909733	C		2011-02-03	1996-07-31	Transcription factor IIIA (TFIIIA); essential DNA binding protein required for transcription of 5S rRNA by RNA polymerase III; not involved in transcription of other RNAP III genes; nine conserved zinc fingers; may also bind 5S rRNA
-S000032601	CDS					YPR186C		16	911022	909733	C		2011-02-03	1996-07-31	
-S000006391	ORF	Verified	YPR187W	RPO26	DNA-directed RNA polymerase core subunit RPO26|ABC23|RPB6	chromosome 16	L000001745	16	911257	911800	W		2011-02-03	1996-07-31	RNA polymerase subunit ABC23; common to RNA polymerases I, II, and III; part of central core; similar to bacterial omega subunit
-S000032734	CDS					YPR187W		16	911257	911276	W		2011-02-03	1996-07-31	
-S000032735	CDS					YPR187W		16	911353	911800	W		2011-02-03	1996-07-31	
-S000032736	intron					YPR187W		16	911277	911352	W		2011-02-03	1996-07-31	
-S000006392	ORF	Verified	YPR188C	MLC2		chromosome 16	S000007532	16	912479	911988	C		2011-02-03	1996-07-31	Regulatory light chain for the type II myosin Myo1p; binds to an IQ motif of Myo1p, localization to the bud neck depends on Myo1p; involved in the disassembly of the Myo1p ring
-S000032770	CDS					YPR188C		16	912479	911988	C		2011-02-03	1996-07-31	
-S000006393	ORF	Verified	YPR189W	SKI3	SKI complex subunit tetratricopeptide repeat protein SKI3|SKI5	chromosome 16	L000001904	16	912664	916962	W		2011-02-03	1996-07-31	Ski complex component and TPR protein; mediates 3'-5' RNA degradation by the cytoplasmic exosome; null mutants have superkiller phenotype of increased viral dsRNAs and are synthetic lethal with mutations in 5'-3' mRNA decay; mutations in the human ortholog, TTC37, causes Syndromic diarrhea/Trichohepatoenteric (SD/THE) syndrome
-S000034826	CDS					YPR189W		16	912664	916962	W		2011-02-03	1996-07-31	
-S000006394	ORF	Verified	YPR190C	RPC82	DNA-directed RNA polymerase III subunit C82|RPC80|RPC3	chromosome 16	L000001693|S000029422|L000001692	16	919041	917077	C		2011-02-03	1996-07-31	RNA polymerase III subunit C82
-S000033015	CDS					YPR190C		16	919041	917077	C		2011-02-03	1996-07-31	
-S000006395	ORF	Verified	YPR191W	QCR2	ubiquinol--cytochrome-c reductase subunit 2|UCR2|COR2	chromosome 16	L000001545	16	919381	920487	W		2011-02-03	1996-07-31	Subunit 2 of ubiquinol cytochrome-c reductase (Complex III); Complex III is a component of the mitochondrial inner membrane electron transport chain; phosphorylated; transcription is regulated by Hap1p, Hap2p/Hap3p, and heme
-S000033835	CDS					YPR191W		16	919381	920487	W		2011-02-03	1996-07-31	
-S000006396	ORF	Verified	YPR192W	AQY1		chromosome 16	L000004720	16	921860	922777	W		2011-02-03	1996-07-31	Spore-specific water channel; mediates the transport of water across cell membranes, developmentally controlled; may play a role in spore maturation, probably by allowing water outflow, may be involved in freeze tolerance
-S000033980	CDS					YPR192W		16	921860	922777	W		2011-02-03	1996-07-31	
-S000006397	ORF	Verified	YPR193C	HPA2	histone acetyltransferase|KAT10	chromosome 16	L000004379	16	923379	922909	C		2011-02-03	1996-07-31	Tetrameric histone acetyltransferase; has similarity to Gcn5p, Hat1p, Elp3p, and Hpa3p; acetylates histones H3 and H4 in vitro and exhibits autoacetylation activity; also acetylates polyamines
-S000034022	CDS					YPR193C		16	923379	922909	C		2011-02-03	1996-07-31	
-S000006398	ORF	Verified	YPR194C	OPT2		chromosome 16		16	926937	924304	C		2011-02-03	1996-07-31	Oligopeptide transporter; localized to peroxisomes and affects glutathione redox homeostasis; also localizes to the plasma membrane (PM) and to the late Golgi, and has a role in maintenance of lipid asymmetry between the inner and outer leaflets of the PM; member of the OPT family, with potential orthologs in S. pombe and C. albicans; also plays a role in formation of mature vacuoles and in polarized cell growth
-S000034902	CDS					YPR194C		16	926937	924304	C		2011-02-03	1996-07-31	
-S000006399	ORF	Dubious	YPR195C			chromosome 16		16	928294	927965	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035080	CDS					YPR195C		16	928294	927965	C		2011-02-03	1996-07-31	
-S000006400	ORF	Uncharacterized	YPR196W		putative maltose-responsive transcription factor	chromosome 16		16	931376	932788	W		2011-02-03	1996-07-31	Putative maltose-responsive transcription factor
-S000036124	CDS					YPR196W		16	931376	932788	W		2011-02-03	1996-07-31	
-S000118426	ARS		ARS1631		ARSXVI-933	chromosome 16		16	932983	933229			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178204	ARS_consensus_sequence					ARS1631		16	933165	933149	C		2014-11-18	2014-11-18	
-S000007219	long_terminal_repeat		YPRWtau4			chromosome 16		16	933071	933404	W		2011-02-03	2000-05-19	Ty4 LTR
-S000006402	ORF	Verified	YPR198W	SGE1	NOR1	chromosome 16	L000001876	16	934034	935665	W	84.8	2011-02-03	1996-07-31	Plasma membrane multidrug transporter; member of the major facilitator superfamily; acts as an extrusion permease; partial multicopy suppressor of gal11 mutations
-S000036370	CDS					YPR198W		16	934034	935665	W		2011-02-03	1996-07-31	
-S000006401	ORF	Dubious	YPR197C			chromosome 16		16	934461	933898	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SGE1/YPR198W
-S000036181	CDS					YPR197C		16	934461	933898	C		2011-02-03	1996-07-31	
-S000006403	ORF	Verified	YPR199C	ARR1	ACR1|YAP8	chromosome 16	L000004292	16	939032	938148	C		2011-02-03	1996-07-31	Transcriptional activator of the basic leucine zipper (bZIP) family; required for transcription of genes involved in resistance to arsenic compounds; directly binds trivalent arsenic (As(III)) as does K. lactis ortholog, KIYAP8
-S000036409	CDS					YPR199C		16	939032	938148	C		2011-02-03	1996-07-31	
-S000006404	ORF	Verified	YPR200C	ARR2	ACR2	chromosome 16	L000004293|L000004290	16	939671	939279	C		2011-02-03	1996-07-31	Arsenate reductase required for arsenate resistance; converts arsenate to arsenite which can then be exported from cells by Arr3p
-S000034447	CDS					YPR200C		16	939671	939279	C		2011-02-03	1996-07-31	
-S000006405	ORF	Verified	YPR201W	ARR3	ACR3	chromosome 16	L000004323	16	939922	941136	W		2011-02-03	1996-07-31	Plasma membrane metalloid/H+ antiporter; member of bile/arsenite/riboflavin transporter (BART) superfamily; transports arsenite and antimonite; required for resistance to arsenic compounds; transcription is activated by Arr1p in the presence of arsenite
-S000034611	CDS					YPR201W		16	939922	941136	W		2011-02-03	1996-07-31	
-S000130202	ARS		ARS1632			chromosome 16		16	942084	943032			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000029002	telomere		TEL16R			chromosome 16		16	942396	948010	W	106	2011-02-03	2003-09-09|2011-02-03	Telomeric region on the right arm of Chromosome XVI; annotated components include an X element core sequence and a short Y' element; TEL16R does have telomeric repeats (TEL16R-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
-S000029003	X_element					TEL16R		16	942396	942771	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XVI; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000029004	Y_prime_element					TEL16R		16	942810	948010	W		2011-02-03	2003-09-09|2011-02-03	Telomeric short Y' element on the right arm of Chromosome XVI; contains an ARS consensus sequence, a region of 36-bp repeats, and four ORFs YPR202W, YPR203W, YPR204W, and YPR204C-A
-S000006406	ORF	Uncharacterized	YPR202W			chromosome 16		16	943032	943896	W		2011-02-03	1996-07-31	Putative protein of unknown function; similar to telomere-encoded helicases; down-regulated at low calcium levels; YPR202W is not an essential gene; transcript is predicted to be spliced but there is no evidence that it is spliced in vivo
-S000034726	CDS					YPR202W		16	943032	943050	W		2011-02-03	1996-07-31	
-S000034727	CDS					YPR202W		16	943199	943896	W		2011-02-03	1996-07-31	
-S000034728	intron					YPR202W		16	943051	943198	W		2011-02-03	1996-07-31	
-S000006407	ORF	Uncharacterized	YPR203W			chromosome 16		16	943880	944188	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000035720	CDS					YPR203W		16	943880	944188	W		2011-02-03	1996-07-31	
-S000006408	ORF	Verified	YPR204W		Y' -Help1|Y' element ATP-dependent helicase	chromosome 16		16	944603	947701	W		2011-02-03	1996-07-31	DNA helicase encoded within the telomeric Y' element; Y' -helicase protein 1
-S000035834	CDS					YPR204W		16	944603	947701	W		2011-02-03	1996-07-31	
-S000028727	ORF	Dubious	YPR204C-A			chromosome 16		16	947338	946856	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032717	CDS					YPR204C-A		16	947338	946856	C		2011-02-03	2003-07-29	
-S000007328	tRNA_gene		tP(UGG)Q			chromosome 17	L000004903	17	731	802	W		2000-05-19	2000-05-19	Mitochondrial proline tRNA (tRNA-Pro)
-S000036040	noncoding_exon					tP(UGG)Q		17	731	802	W		2000-05-19	2000-05-19	
-S000007257	ORF	Dubious	Q0010		ORF6	chromosome 17	L000004921	17	3952	4338	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF Q0017
-S000036184	CDS					Q0010		17	3952	4338	W		2000-05-19	2000-05-19	
-S000007258	ORF	Dubious	Q0017		ORF7	chromosome 17	L000004922	17	4254	4415	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF Q0010
-S000036188	CDS					Q0017		17	4254	4415	W		2000-05-19	2000-05-19	
-S000029667	origin_of_replication		ORI1	ORI1		chromosome 17	L000001308	17	4312	4012	C		2014-11-18	2014-11-18	Mitochondrial origin of replication
-S000007287	rRNA_gene		Q0020	15S_RRNA	14s rRNA|15S_RRNA_2	chromosome 17	L000004882	17	6546	8194	W		2000-05-19	2000-05-19	Ribosomal RNA of the small mitochondrial ribosomal subunit; MSU1 allele suppresses ochre stop mutations in mitochondrial protein-coding genes
-S000037488	noncoding_exon					Q0020		17	6546	8194	W		2000-05-19	2000-05-19	
-S000007337	tRNA_gene		tW(UCA)Q			chromosome 17	L000004912	17	9374	9447	W		2000-05-19	2000-05-19	Mitochondrial tRNA, annotated as tryptophanyl tRNA (tRNA-Trp); predicted by tRNAscan-SE analysis to have specificity for selenocysteine
-S000031464	noncoding_exon					tW(UCA)Q		17	9374	9447	W		2000-05-19	2000-05-19	
-S000007259	ORF	Dubious	Q0032		ORF8	chromosome 17	L000004923	17	11667	11957	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036376	CDS					Q0032		17	11667	11957	W		2000-05-19	2000-05-19	
-S000029331	origin_of_replication		ORI8	ORI8		chromosome 17	L000003958	17	12780	12510	C		2014-11-18	2014-11-18	Mitochondrial origin of replication
-S000007261	ORF	Verified	Q0050	AI1	intron-encoded reverse transcriptase aI1	chromosome 17	L000000066|L000004925	17	13818	16322	W		2000-05-19	2000-05-19	Reverse transcriptase required for splicing of the COX1 pre-mRNA; encoded by a mobile group II intron within the mitochondrial COX1 gene
-S000037112	CDS					Q0050		17	13818	16322	W		2000-05-19	2000-05-19	
-S000007262	ORF	Verified	Q0055	AI2	intron-encoded reverse transcriptase aI2	chromosome 17	L000004926|L000000067	17	13818	18830	W		2000-05-19	2000-05-19	Reverse transcriptase required for splicing of the COX1 pre-mRNA; encoded by a mobile group II intron within the mitochondrial COX1 gene
-S000037125	CDS					Q0055		17	13818	13986	W		2000-05-19	2000-05-19	
-S000037126	CDS					Q0055		17	16435	18830	W		2000-05-19	2000-05-19	
-S000037127	intron					Q0055		17	13987	16434	W		2000-05-19	2000-05-19	
-S000007263	ORF	Verified	Q0060	AI3	intron-encoded DNA endonuclease aI3|I-SceIII	chromosome 17	L000004927|L000000068	17	13818	19996	W		2000-05-19	2000-05-19|2006-01-12	Endonuclease I-SceIII; encoded by a mobile group I intron within the mitochondrial COX1 gene
-S000037203	CDS					Q0060		17	13818	13986	W		2000-05-19	2000-05-19	
-S000114045	CDS					Q0060		17	16435	16470	W		2006-01-12	2006-01-12	
-S000037204	CDS					Q0060		17	18954	19996	W		2000-05-19	2000-05-19	
-S000037205	intron					Q0060		17	13987	16434	W		2006-01-12	2000-05-19|2006-01-12	
-S000114046	intron					Q0060		17	16471	18953	W		2006-01-12	2006-01-12	
-S000007264	ORF	Verified	Q0065	AI4	intron-encoded DNA endonuclease aI4|I-SceII	chromosome 17	L000004928|L000004885	17	13818	21935	W		2000-05-19	2000-05-19|2006-01-12	Endonuclease I-SceII; encoded by a mobile group I intron within the mitochondrial COX1 gene; intron is normally spliced by the BI4p maturase but AI4p can mutate to acquire the same maturase activity
-S000037224	CDS					Q0065		17	13818	13986	W		2000-05-19	2000-05-19	
-S000114047	CDS					Q0065		17	16435	16470	W		2006-01-12	2006-01-12	
-S000037225	CDS					Q0065		17	18954	18991	W		2000-05-19	2000-05-19	
-S000037226	CDS					Q0065		17	20508	21935	W		2000-05-19	2000-05-19	
-S000037227	intron					Q0065		17	13987	16434	W		2006-01-12	2000-05-19|2006-01-12	
-S000114048	intron					Q0065		17	16471	18953	W		2006-01-12	2006-01-12	
-S000037228	intron					Q0065		17	18992	20507	W		2000-05-19	2000-05-19	
-S000007265	ORF	Verified	Q0070	AI5_ALPHA	intron-encoded DNA endonuclease aI5 alpha	chromosome 17	L000004929|L000004886	17	13818	23167	W		2000-05-19	2000-05-19	Endonuclease I-SceIV; involved in intron mobility; encoded by a mobile group I intron within the mitochondrial COX1 gene
-S000029861	CDS					Q0070		17	13818	13986	W		2000-05-19	2000-05-19	
-S000029862	CDS					Q0070		17	16435	16470	W		2000-05-19	2000-05-19	
-S000029863	CDS					Q0070		17	18954	18991	W		2000-05-19	2000-05-19	
-S000029864	CDS					Q0070		17	20508	20984	W		2000-05-19	2000-05-19	
-S000029865	CDS					Q0070		17	21995	23167	W		2000-05-19	2000-05-19	
-S000029866	intron					Q0070		17	13987	16434	W		2000-05-19	2000-05-19	
-S000029867	intron					Q0070		17	16471	18953	W		2000-05-19	2000-05-19	
-S000029868	intron					Q0070		17	18992	20507	W		2000-05-19	2000-05-19	
-S000029869	intron					Q0070		17	20985	21994	W		2000-05-19	2000-05-19	
-S000007260	ORF	Verified	Q0045	COX1	cytochrome c oxidase subunit 1|OXI3	chromosome 17	L000004924|L000000383|L000001321	17	13818	26701	W		2000-05-19	2000-05-19	Subunit I of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain; one of three mitochondrially-encoded subunits
-S000037020	CDS					Q0045		17	13818	13986	W		2000-05-19	2000-05-19	
-S000037021	CDS					Q0045		17	16435	16470	W		2000-05-19	2000-05-19	
-S000037022	CDS					Q0045		17	18954	18991	W		2000-05-19	2000-05-19	
-S000037023	CDS					Q0045		17	20508	20984	W		2000-05-19	2000-05-19	
-S000037024	CDS					Q0045		17	21995	22246	W		2000-05-19	2000-05-19	
-S000037025	CDS					Q0045		17	23612	23746	W		2000-05-19	2000-05-19	
-S000037026	CDS					Q0045		17	25318	25342	W		2000-05-19	2000-05-19	
-S000037027	CDS					Q0045		17	26229	26701	W		2000-05-19	2000-05-19	
-S000037028	intron					Q0045		17	13987	16434	W		2000-05-19	2000-05-19	
-S000037029	intron					Q0045		17	16471	18953	W		2000-05-19	2000-05-19	
-S000037030	intron					Q0045		17	18992	20507	W		2000-05-19	2000-05-19	
-S000037031	intron					Q0045		17	20985	21994	W		2000-05-19	2000-05-19	
-S000037032	intron					Q0045		17	22247	23611	W		2000-05-19	2000-05-19	
-S000037033	intron					Q0045		17	23747	25317	W		2000-05-19	2000-05-19	
-S000037034	intron					Q0045		17	25343	26228	W		2000-05-19	2000-05-19	
-S000007266	ORF	Uncharacterized	Q0075	AI5_BETA	intron-encoded DNA endonuclease aI5 beta	chromosome 17	L000004887|L000004930	17	24156	25255	W		2000-05-19	2000-05-19	Protein of unknown function; encoded within an intron of the mitochondrial COX1 gene; translational initiation codon is predicted to be ATA rather than ATG
-S000029881	CDS					Q0075		17	24156	24870	W		2000-05-19	2000-05-19	
-S000029882	CDS					Q0075		17	24906	25255	W		2000-05-19	2000-05-19	
-S000029883	intron					Q0075		17	24871	24905	W		2000-05-19	2000-05-19	
-S000007267	ORF	Verified	Q0080	ATP8	F1F0 ATP synthase subunit 8|AAP1	chromosome 17	L000004931|L000002723|L000002797	17	27666	27812	W		2000-05-19	2000-05-19	Subunit 8 of the F0 sector of mitochondrial F1F0 ATP synthase; encoded on the mitochondrial genome; ATP8 and ATP6 mRNAs are not translated in the absence of the F1 sector of ATPase
-S000029967	CDS					Q0080		17	27666	27812	W		2000-05-19	2000-05-19	
-S000007268	ORF	Verified	Q0085	ATP6	F1F0 ATP synthase subunit a|PHO1|OLI4|OLI2	chromosome 17	L000004932|L000001300|L000002722|L000001418|L000001299	17	28487	29266	W		2000-05-19	2000-05-19	Subunit a of the F0 sector of mitochondrial F1F0 ATP synthase; mitochondrially encoded; translation is specifically activated by Atp22p; ATP6 and ATP8 mRNAs are not translated in the absence of the F1 sector of ATPase; mutations in human ortholog MT-ATP6 are associated with neurodegenerative disorders such as Neurogenic Ataxia and Retinitis Pigmentosa (NARP), Leigh syndrome (LS), Charcot-Marie-Tooth (CMT), and ataxia telangiectasia
-S000029982	CDS					Q0085		17	28487	29266	W		2000-05-19	2000-05-19	
-S000029673	origin_of_replication		ORI7	ORI7		chromosome 17	L000001314	17	30220	30594	W		2014-11-18	2014-11-18	Mitochondrial origin of replication
-S000007269	ORF	Dubious	Q0092		ORF5	chromosome 17	L000004933	17	30874	31014	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030082	CDS					Q0092		17	30874	31014	W		2000-05-19	2000-05-19	
-S000029668	origin_of_replication		ORI2	ORI2		chromosome 17	L000001309	17	32231	32501	W		2014-11-18	2014-11-18	Mitochondrial origin of replication
-S000007318	tRNA_gene		tE(UUC)Q			chromosome 17	L000004893	17	35373	35444	W		2000-05-19	2000-05-19	Mitochondrial glutamate tRNA (tRNA-Glu); predicted by tRNAscan-SE analysis
-S000036036	noncoding_exon					tE(UUC)Q		17	35373	35444	W		2000-05-19	2000-05-19	
-S000007271	ORF	Verified	Q0110	BI2	cytochrome b mRNA maturase bI2	chromosome 17	L000004935|L000004888	17	36540	38579	W		2000-05-19	2000-05-19	Mitochondrial mRNA maturase with a role in splicing; encoded by both exon and intron sequences of partially processed COB mRNA
-S000031214	CDS					Q0110		17	36540	36954	W		2000-05-19	2000-05-19	
-S000031215	CDS					Q0110		17	37723	38579	W		2000-05-19	2000-05-19	
-S000031216	intron					Q0110		17	36955	37722	W		2000-05-19	2000-05-19	
-S000007272	ORF	Verified	Q0115	BI3	cytochrome b mRNA maturase bI3	chromosome 17	L000004936|L000000176	17	36540	40265	W		2000-05-19	2000-05-19	Mitochondrial mRNA maturase; forms a complex with Mrs1p to mediate splicing of the bI3 intron of the COB gene; encoded by both exon and intron sequences of partially processed COB mRNA
-S000031224	CDS					Q0115		17	36540	36954	W		2000-05-19	2000-05-19	
-S000031225	CDS					Q0115		17	37723	37736	W		2000-05-19	2000-05-19	
-S000031226	CDS					Q0115		17	39141	40265	W		2000-05-19	2000-05-19	
-S000031227	intron					Q0115		17	36955	37722	W		2000-05-19	2000-05-19	
-S000031228	intron					Q0115		17	37737	39140	W		2000-05-19	2000-05-19	
-S000007273	ORF	Verified	Q0120	BI4	intron-encoded RNA maturase bI4	chromosome 17	L000000177|L000004937	17	36540	42251	W		2000-05-19	2000-05-19	Mitochondrial mRNA maturase; forms a complex with Nam2p to mediate splicing of the bI4 intron of the COB gene; encoded by both exon and intron sequences of partially processed COB mRNA
-S000032184	CDS					Q0120		17	36540	36954	W		2000-05-19	2000-05-19	
-S000032185	CDS					Q0120		17	37723	37736	W		2000-05-19	2000-05-19	
-S000032186	CDS					Q0120		17	39141	39217	W		2000-05-19	2000-05-19	
-S000032187	CDS					Q0120		17	40841	42251	W		2000-05-19	2000-05-19	
-S000032188	intron					Q0120		17	36955	37722	W		2000-05-19	2000-05-19	
-S000032189	intron					Q0120		17	37737	39140	W		2000-05-19	2000-05-19	
-S000032190	intron					Q0120		17	39218	40840	W		2000-05-19	2000-05-19	
-S000007270	ORF	Verified	Q0105	COB	cytochrome b|CYTB|COB1	chromosome 17	L000004934|L000000376	17	36540	43647	W		2000-05-19	2000-05-19	Cytochrome b; mitochondrially encoded subunit of the ubiquinol-cytochrome c reductase complex which includes Cobp, Rip1p, Cyt1p, Cor1p, Qcr2p, Qcr6p, Qcr7p, Qcr8p, Qcr9p, and Qcr10p
-S000031165	CDS					Q0105		17	36540	36954	W		2000-05-19	2000-05-19	
-S000031166	CDS					Q0105		17	37723	37736	W		2000-05-19	2000-05-19	
-S000031167	CDS					Q0105		17	39141	39217	W		2000-05-19	2000-05-19	
-S000031168	CDS					Q0105		17	40841	41090	W		2000-05-19	2000-05-19	
-S000031169	CDS					Q0105		17	42508	42558	W		2000-05-19	2000-05-19	
-S000031170	CDS					Q0105		17	43297	43647	W		2000-05-19	2000-05-19	
-S000031171	intron					Q0105		17	36955	37722	W		2000-05-19	2000-05-19	
-S000031172	intron					Q0105		17	37737	39140	W		2000-05-19	2000-05-19	
-S000031173	intron					Q0105		17	39218	40840	W		2000-05-19	2000-05-19	
-S000031174	intron					Q0105		17	41091	42507	W		2000-05-19	2000-05-19	
-S000031175	intron					Q0105		17	42559	43296	W		2000-05-19	2000-05-19	
-S000029672	origin_of_replication		ORI6	ORI6		chromosome 17	L000001313	17	45227	47927	W		2014-11-18	2014-11-18	Mitochondrial origin of replication
-S000007274	ORF	Verified	Q0130	OLI1	F0 ATP synthase subunit c|OLI3|ATP9	chromosome 17	L000004938|L000001298|L000002724	17	46723	46953	W		2000-05-19	2000-05-19	F0-ATP synthase subunit c (ATPase-associated proteolipid); encoded on the mitochondrial genome; mutation confers oligomycin resistance; expression is specifically dependent on the nuclear genes AEP1 and AEP2
-S000032266	CDS					Q0130		17	46723	46953	W		2000-05-19	2000-05-19	
-S000007333	tRNA_gene		tS(UGA)Q2			chromosome 17	L000004908	17	48201	48290	W		2000-05-19	2000-05-19	Mitochondrial serine tRNA (tRNA-Ser); predicted by tRNAscan-SE analysis
-S000031361	noncoding_exon					tS(UGA)Q2		17	48201	48290	W		2000-05-19	2000-05-19	
-S000007275	ORF	Verified	Q0140	VAR1	mitochondrial 37S ribosomal protein VAR1|VARI	chromosome 17	L000004939|L000002456|L000002455	17	48901	50097	W		2000-05-19	2000-05-19	Mitochondrial ribosomal protein of the small subunit; mitochondrially-encoded; polymorphic in different strains due to variation in number of AAT (asparagine) codons; translated near the mitochondrial inner membrane; may have a role in loss of mitochondrial DNA under stress conditions
-S000032355	CDS					Q0140		17	48901	50097	W		2000-05-19	2000-05-19	
-S000007276	ORF	Dubious	Q0142		ORF9	chromosome 17	L000004940	17	51052	51228	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps dubious open reading frame Q0143
-S000032370	CDS					Q0142		17	51052	51228	W		2000-05-19	2000-05-19	
-S000007277	ORF	Dubious	Q0143		ORF10	chromosome 17	L000004941	17	51277	51429	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032373	CDS					Q0143		17	51277	51429	W		2000-05-19	2000-05-19	
-S000007278	ORF	Dubious	Q0144			chromosome 17	L000004942	17	54109	54438	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032378	CDS					Q0144		17	54109	54438	W		2000-05-19	2000-05-19	
-S000029669	origin_of_replication		ORI3	ORI3		chromosome 17	L000001310	17	54840	54567	C		2014-11-18	2014-11-18	Mitochondrial origin of replication
-S000029670	origin_of_replication		ORI4	ORI4		chromosome 17	L000001311	17	56832	56567	C		2014-11-18	2014-11-18	Mitochondrial origin of replication
-S000007288	rRNA_gene		Q0158	21S_RRNA	21S_rRNA_4|21S_rRNA_3	chromosome 17	L000004883	17	58009	62447	W		2000-05-19	2000-05-19	Mitochondrial 21S rRNA; intron encodes the I-SceI DNA endonuclease
-S000034078	intron					Q0158		17	60725	61867	W		2000-05-19	2000-05-19	
-S000034076	noncoding_exon					Q0158		17	58009	60724	W		2000-05-19	2000-05-19	
-S000034077	noncoding_exon					Q0158		17	61868	62447	W		2000-05-19	2000-05-19	
-S000007279	ORF	Verified	Q0160	SCEI	intron-encoded endonuclease I-SceI|I-SceIV|OMEGA	chromosome 17	L000004889|L000001858	17	61022	61729	W		2000-05-19	2000-05-19	I-SceI DNA endonuclease; encoded by the mitochondrial group I intron of the 21S_rRNA gene; mediates gene conversion that propagates the intron into intron-less copies of the 21S_rRNA gene
-S000033285	CDS					Q0160		17	61022	61729	W		2000-05-19	2000-05-19	
-S000007334	tRNA_gene		tT(UGU)Q1			chromosome 17	L000004909	17	63862	63937	W		2000-05-19	2000-05-19	Mitochondrial threonine tRNA (tRNA-Thr); predicted by tRNAscan-SE analysis
-S000033404	noncoding_exon					tT(UGU)Q1		17	63862	63937	W		2000-05-19	2000-05-19	
-S000007316	tRNA_gene		tC(GCA)Q			chromosome 17	L000004891	17	64415	64490	W		2000-05-19	2000-05-19	Mitochondrial cysteine tRNA (tRNA-Cys)
-S000035255	noncoding_exon					tC(GCA)Q		17	64415	64490	W		2000-05-19	2000-05-19	
-S000007321	tRNA_gene		tH(GUG)Q			chromosome 17	L000004896	17	64596	64670	W		2000-05-19	2000-05-19	Mitochondrial histidine tRNA (tRNA-His); predicted by tRNAscan-SE analysis
-S000033926	noncoding_exon					tH(GUG)Q		17	64596	64670	W		2000-05-19	2000-05-19	
-S000007280	ORF	Dubious	Q0182		ORF11	chromosome 17	L000004944	17	65770	66174	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034264	CDS					Q0182		17	65770	66174	W		2000-05-19	2000-05-19	
-S000007324	tRNA_gene		tL(UAA)Q			chromosome 17	L000004899	17	66095	66179	W		2000-05-19	2000-05-19	Mitochondrial leucine tRNA (tRNA-Leu); predicted by tRNAscan-SE analysis; required for mitochondrial translation and indirectly for maintenance of the mitochondrial genome; mutations in the orthologous human gene cause the neurological disease MELAS
-S000037434	noncoding_exon					tL(UAA)Q		17	66095	66179	W		2000-05-19	2000-05-19	
-S000007329	tRNA_gene		tQ(UUG)Q			chromosome 17	L000004904	17	66210	66285	W		2000-05-19	2000-05-19	Mitochondrial glutamine tRNA (tRNA-Gln); predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000032591	noncoding_exon					tQ(UUG)Q		17	66210	66285	W		2000-05-19	2000-05-19	
-S000007323	tRNA_gene		tK(UUU)Q			chromosome 17	L000004898	17	67061	67134	W		2000-05-19	2000-05-19	Mitochondrial lysine tRNA (tRNA-Lys); predicted by tRNAscan-SE analysis; modification of wobble base U34 is decreased at elevated temperatures, decreasing ability to decode AAG codons; this function is performed at high temperature by imported cytoplasmic tRNA-Lys with CUU anticodon
-S000034232	noncoding_exon					tK(UUU)Q		17	67061	67134	W		2000-05-19	2000-05-19	
-S000007331	tRNA_gene		tR(UCU)Q1			chromosome 17	L000004906	17	67309	67381	W		2000-05-19	2000-05-19	Mitochondrial arginine tRNA (tRNA-Arg); predicted by tRNAscan-SE analysis
-S000032809	noncoding_exon					tR(UCU)Q1		17	67309	67381	W		2000-05-19	2000-05-19	
-S000007320	tRNA_gene		tG(UCC)Q			chromosome 17	L000004895	17	67468	67542	W		2000-05-19	2000-05-19	Mitochondrial glycine tRNA (tRNA-Gly); predicted by tRNAscan-SE analysis
-S000037571	noncoding_exon					tG(UCC)Q		17	67468	67542	W		2000-05-19	2000-05-19	
-S000007317	tRNA_gene		tD(GUC)Q			chromosome 17	L000004892	17	68322	68396	W		2000-05-19	2000-05-19	Mitochondrial aspartate tRNA (tRNA-Asp); predicted by tRNAscan-SE analysis
-S000030428	noncoding_exon					tD(GUC)Q		17	68322	68396	W		2000-05-19	2000-05-19	
-S000007332	tRNA_gene		tS(GCU)Q1			chromosome 17	L000004907	17	69203	69288	W		2000-05-19	2000-05-19	Mitochondrial serine tRNA (tRNA-Ser); predicted by tRNAscan-SE analysis
-S000030614	noncoding_exon					tS(GCU)Q1		17	69203	69288	W		2000-05-19	2000-05-19	
-S000007330	tRNA_gene		tR(ACG)Q2			chromosome 17	L000004905	17	69289	69362	W		2000-05-19	2000-05-19	Mitochondrial arginine tRNA (tRNA-Arg); predicted by tRNAscan-SE analysis
-S000034929	noncoding_exon					tR(ACG)Q2		17	69289	69362	W		2000-05-19	2000-05-19	
-S000007315	tRNA_gene		tA(UGC)Q			chromosome 17	L000004890	17	69846	69921	W		2000-05-19	2000-05-19	Mitochondrial alanine tRNA (tRNA-Ala); predicted by tRNAscan-SE analysis
-S000034925	noncoding_exon					tA(UGC)Q		17	69846	69921	W		2000-05-19	2000-05-19	
-S000007322	tRNA_gene		tI(GAU)Q			chromosome 17	L000004897	17	70162	70237	W		2000-05-19	2000-05-19	Mitochondrial isoleucine tRNA (tRNA-Ile); predicted by tRNAscan-SE analysis; mutations in human ortholog are linked to conditions such as progressive encephalopathy, metabolic syndrome, and hypomagnesaemia
-S000036091	noncoding_exon					tI(GAU)Q		17	70162	70237	W		2000-05-19	2000-05-19	
-S000007338	tRNA_gene		tY(GUA)Q			chromosome 17	L000004913	17	70824	70907	W		2000-05-19	2000-05-19	Mitochondrial tyrosine tRNA (tRNA-Tyr)
-S000034742	noncoding_exon					tY(GUA)Q		17	70824	70907	W		2000-05-19	2000-05-19	
-S000007327	tRNA_gene		tN(GUU)Q			chromosome 17	L000004902	17	71433	71503	W		2000-05-19	2000-05-19	Mitochondrial asparagine tRNA (tRNA-Asn); predicted by tRNAscan-SE analysis
-S000030750	noncoding_exon					tN(GUU)Q		17	71433	71503	W		2000-05-19	2000-05-19	
-S000007325	tRNA_gene		tM(CAU)Q1			chromosome 17	L000004900	17	72630	72705	W		2000-05-19	2000-05-19	Mitochondrial methionine tRNA (tRNA-Met); predicted by tRNAscan-SE analysis
-S000032341	noncoding_exon					tM(CAU)Q1		17	72630	72705	W		2000-05-19	2000-05-19	
-S000007281	ORF	Verified	Q0250	COX2	cytochrome c oxidase subunit 2|OXII|OXI1	chromosome 17	L000004945|L000000384|L000001322|L000003004	17	73758	74513	W		2000-05-19	2000-05-19	Subunit II of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain; one of three mitochondrially-encoded subunits
-S000036455	CDS					Q0250		17	73758	74513	W		2000-05-19	2000-05-19	
-S000007282	ORF	Uncharacterized	Q0255		maturase-like protein|RF1|ORF1	chromosome 17	L000004946	17	74495	75984	W		2000-05-19	2000-05-19	Maturase-like protein
-S000036463	CDS					Q0255		17	74495	75622	W		2000-05-19	2000-05-19	
-S000036464	CDS					Q0255		17	75663	75872	W		2000-05-19	2000-05-19	
-S000036465	CDS					Q0255		17	75904	75984	W		2000-05-19	2000-05-19	
-S000036466	intron					Q0255		17	75623	75662	W		2000-05-19	2000-05-19	
-S000036467	intron					Q0255		17	75873	75903	W		2000-05-19	2000-05-19	
-S000007319	tRNA_gene		tF(GAA)Q			chromosome 17	L000004894	17	77431	77505	W		2000-05-19	2000-05-19	Mitochondrial phenylalanine tRNA (tRNA-Phe); predicted by tRNAscan-SE analysis
-S000035453	noncoding_exon					tF(GAA)Q		17	77431	77505	W		2000-05-19	2000-05-19	
-S000007335	tRNA_gene		tT(UAG)Q2		tT(XXX)Q2	chromosome 17	L000004910	17	78162	78089	C		2000-05-19	2000-05-19	Mitochondrial threonine tRNA (tRNA-Thr); decodes CUA codons as threonine rather than leucine; has an unusual enlarged 8-nt anticodon loop; may be evolutionarily derived from mitochondrial tRNA-His; conserved in some genera of budding yeasts
-S000032409	noncoding_exon					tT(UAG)Q2		17	78162	78089	C		2000-05-19	2000-05-19	
-S000007336	tRNA_gene		tV(UAC)Q			chromosome 17	L000004911	17	78533	78608	W		2000-05-19	2000-05-19	Mitochondrial valine tRNA (tRNA-Val); predicted by tRNAscan-SE analysis
-S000036325	noncoding_exon					tV(UAC)Q		17	78533	78608	W		2000-05-19	2000-05-19	
-S000007283	ORF	Verified	Q0275	COX3	cytochrome c oxidase subunit 3|OXI2	chromosome 17	L000004947|L000000385|L000001320	17	79213	80022	W		2000-05-19	2000-05-19	Subunit III of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain; one of three mitochondrially-encoded subunits
-S000036648	CDS					Q0275		17	79213	80022	W		2000-05-19	2000-05-19	
-S000029671	origin_of_replication		ORI5	ORI5		chromosome 17	L000001312	17	82329	82600	W		2014-11-18	2014-11-18	Mitochondrial origin of replication
-S000007326	tRNA_gene		tM(CAU)Q2			chromosome 17	L000004901	17	85035	85112	W		2000-05-19	2000-05-19	Mitochondrial formylated methionine tRNA (tRNA-fMet); predicted by tRNAscan-SE analysis
-S000032348	noncoding_exon					tM(CAU)Q2		17	85035	85112	W		2000-05-19	2000-05-19	
-S000029023	ncRNA_gene		Q0285	RPM1		chromosome 17	L000004810	17	85295	85777	W		2003-12-02	2003-12-02	RNA component of mitochondrial RNase P; mitochondrial RNase P also contains the protein subunit Rpm2p; RNase P removes 5' extensions from mitochondrial tRNA precursors; RPM1 is conserved in bacteria, fungi, and protozoa
-S000035976	noncoding_exon					Q0285		17	85295	85777	W		2003-12-02	2003-12-02	
-S000007284	ORF	Dubious	Q0297		ORF12	chromosome 17	L000004948	17	85554	85709	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene RPM1
-S000037483	CDS					Q0297		17	85554	85709	W		2000-05-19	2000-05-19	
-S000029683	gene_group		MAL3	MAL3		chromosome 2	L000001002	2				144			Multigene complex, polymeric locus for maltose fermentation; encodes the MAL33 trans-acting MAL-activator, MAL31 maltose permease, and MAL32 maltase
-S000178039	ARS		ARS200			chromosome 2		2	40	202			2014-11-18	2014-11-18	Autonomously replicating sequence
-S000028599	ORF	Dubious	YBL113W-A			chromosome 2		2	646	1128	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031383	CDS					YBL113W-A		2	646	1128	W		2003-07-29	2003-07-29	
-S000002153	ORF	Uncharacterized	YBL113C			chromosome 2		2	2658	280	C		1996-07-31	1996-07-31	Helicase-like protein encoded within the telomeric Y' element
-S000036166	CDS					YBL113C		2	2658	280	C		1996-07-31	1996-07-31	
-S000002152	ORF	Uncharacterized	YBL112C			chromosome 2		2	2899	2582	C		1996-07-31	1996-07-31	Putative protein of unknown function; YBL112C is contained within TEL02L
-S000035974	CDS					YBL112C		2	2899	2582	C		1996-07-31	1996-07-31	
-S000002151	ORF	Verified	YBL111C			chromosome 2		2	5009	2907	C		1996-07-31	1996-07-31	Helicase-like protein encoded within the telomeric Y' element; relocalizes from mitochondrion to cytoplasm upon DNA replication stress
-S000035858	CDS					YBL111C		2	4116	2907	C		1996-07-31	1996-07-31	
-S000035857	CDS					YBL111C		2	5009	4216	C		1996-07-31	1996-07-31	
-S000035859	intron					YBL111C		2	4215	4117	C		1996-07-31	1996-07-31	
-S000002150	ORF	Dubious	YBL109W			chromosome 2		2	5790	6125	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034042	CDS					YBL109W		2	5790	6125	W		1996-07-31	1996-07-31	
-S000178040	ARS		ARS201			chromosome 2		2	6498	6620			2014-11-18	2014-11-18	Autonomously replicating sequence
-S000028867	telomere		TEL02L			chromosome 2		2	6608	1	C	-80	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome II; annotated components include an X element core sequence, X element combinatorial repeats, and a short Y' element; TEL02L does have telomeric repeats (TEL02L-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
-S000028868	X_element					TEL02L		2	6608	6139	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome II; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028869	X_element_combinatorial_repeat					TEL02L		2	6138	5849	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr II; contains repeats of the D, C, B and A types, Tbf1p binding sites, and ORF YBL109W; formerly called SubTelomeric Repeats
-S000028870	Y_prime_element					TEL02L		2	5848	1	C		2003-09-09	2003-09-09	Telomeric short Y' element on the left arm of Chromosome II; contains an ARS consensus sequence, a region of 36-bp repeats, and four ORFs (YBL111C, YBL112C, YBL113C, YBL113W-A)
-S000007592	ORF	Verified	YBL108C-A	PAU9	seripauperin PAU9	chromosome 2		2	7733	7605	C		2001-02-26	2001-02-26	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000037104	CDS					YBL108C-A		2	7733	7605	C		2001-02-26	2001-02-26	
-S000000204	ORF	Dubious	YBL108W			chromosome 2		2	8177	8482	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033883	CDS					YBL108W		2	8177	8482	W		1996-07-31	1996-07-31	
-S000006798	long_terminal_repeat		YBLWdelta1			chromosome 2		2	8848	9092	W		2000-05-19	2000-05-19	Ty1 LTR
-S000006799	long_terminal_repeat		YBLWdelta2			chromosome 2		2	9093	9424	W		2000-05-19	2000-05-19	Ty2 LTR
-S000007229	ORF	Dubious	YBL107W-A			chromosome 2		2	9268	9372	W		1999-07-17	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the Ty2 LTR YBLWdelta2; YBL107W-A has a paralog, YER138W-A, that arose from a single-locus duplication
-S000036010	CDS					YBL107W-A		2	9268	9372	W		1999-07-17	1999-07-17	
-S000006800	long_terminal_repeat		YBLWdelta3			chromosome 2		2	9425	9518	W		2000-05-19	2000-05-19	Ty1 LTR
-S000006647	tRNA_gene		tL(UAA)B1			chromosome 2	L000003738	2	9583	9666	W		2000-05-19	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000035755	noncoding_exon					tL(UAA)B1		2	9583	9666	W		2000-05-19	2000-05-19	
-S000000203	ORF	Verified	YBL107C	MIX23	MIC23	chromosome 2		2	10551	9961	C		1996-07-31	1996-07-31	Mitochondrial intermembrane space protein of unknown function; imported via the MIA import machinery; contains an unusual twin cysteine motif (CX13C CX14C)
-S000033751	CDS					YBL107C		2	10551	9961	C		1996-07-31	1996-07-31	
-S000000202	ORF	Verified	YBL106C	SRO77	putative Rab GTPase-binding protein SRO77|SNI2|SOP2	chromosome 2	L000004194	2	13879	10847	C		1996-07-31	1996-07-31|2011-02-03	Protein with roles in exocytosis and cation homeostasis; functions in docking and fusion of post-Golgi vesicles with plasma membrane; regulates cell proliferation and colony development via the Rho1-Tor1 pathway; interacts with SNARE protein Sec9p; homolog of Drosophila lethal giant larvae tumor suppressor; SRO77 has a paralog, SRO7, that arose from the whole genome duplication
-S000033072	CDS					YBL106C		2	13879	10847	C		1996-07-31	1996-07-31|2011-02-03	
-S000000201	ORF	Verified	YBL105C	PKC1	protein kinase C|CLY7|CLY5|STT1|HPO2|CLY15	chromosome 2	L000001446|L000000362|S000029091	2	17696	14241	C	-79	1996-07-31	1996-07-31|2011-02-03	Protein serine/threonine kinase; essential for cell wall remodeling during growth; localized to sites of polarized growth and the mother-daughter bud neck; homolog of the alpha, beta, and gamma isoforms of mammalian protein kinase C (PKC)
-S000032980	CDS					YBL105C		2	17696	14241	C		1996-07-31	1996-07-31|2011-02-03	
-S000000200	ORF	Verified	YBL104C	SEA4	YBL103C-A	chromosome 2		2	21293	18177	C		2004-01-26	2004-01-26|1996-07-31	Subunit of SEACAT, a subcomplex of the SEA complex; Sea4p, along with Rtc1p and Mtc5p, redundantly inhibit the TORC1 inhibitory role of the Iml1p/SEACIT (Iml1p-Npr2p-Npr3p) subcomplex, a GAP for GTPase Gtr1p (EGOC subunit) in response to amino acid limitation, thereby resulting in activation of TORC1 signaling; SEA is a coatomer-related complex that associates dynamically with the vacuole; contains an N-terminal beta-propeller fold and a C-terminal RING motif
-S000032891	CDS					YBL104C		2	21293	18177	C		2004-01-26	2004-01-26|1996-07-31	
-S000000199	ORF	Verified	YBL103C	RTG3		chromosome 2	L000003152	2	23536	22076	C		2011-02-03	1997-07-27|1997-01-28	bHLH/Zip transcription factor for retrograde (RTG) and TOR pathways; forms a complex with another bHLH/Zip protein, Rtg1p, to activate the pathways; target of Hog1p
-S000032786	CDS					YBL103C		2	23536	22076	C		2011-02-03	1997-07-27|1997-01-28	
-S000000198	ORF	Verified	YBL102W	SFT2		chromosome 2	L000002950	2	24098	24745	W		2004-01-26	1997-01-28	Tetra-spanning membrane protein found mostly in the late Golgi; non-essential; can suppress some sed5 alleles; may be part of the transport machinery, but precise function is unknown; similar to mammalian syntaxin 5
-S000032738	CDS					YBL102W		2	24098	24745	W		2004-01-26	1997-01-28	
-S000000197	ORF	Verified	YBL101C	ECM21	ART2	chromosome 2	L000003896	2	28299	24946	C		2004-01-26	1998-09-13|1997-01-28	Protein involved in regulating endocytosis of plasma membrane proteins; identified as a substrate for ubiquitination by Rsp5p and deubiquitination by Ubp2p; promoter contains several Gcn4p binding elements; ECM21 has a paralog, CSR2, that arose from the whole genome duplication
-S000031747	CDS					YBL101C		2	28299	24946	C		2004-01-26	1998-09-13|1997-01-28	
-S000028598	ORF	Uncharacterized	YBL100W-C		YBL101W-C	chromosome 2		2	28427	28546	W		2004-01-26	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031381	CDS					YBL100W-C		2	28427	28546	W		2004-01-26	2003-07-29	
-S000118996	ARS		ARS230		ARSII-29|ARS201.5	chromosome 2		2	28942	29160			2011-02-03	2006-10-02	Autonomously Replicating Sequence
-S000006801	long_terminal_repeat		YBLWdelta4			chromosome 2		2	29644	29975	W		2011-02-03	2000-05-19	Ty2 LTR
-S000006809	LTR_retrotransposon		YBLWTy2-1		Ty2	chromosome 2		2	29644	35602	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000002148	transposable_element_gene		YBL100W-A		gag protein|TY2A_B|YBL101W-A	chromosome 2		2	29935	31251	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000032385	CDS					YBL100W-A		2	29935	31251	W		2011-02-03	1997-01-28	
-S000002149	transposable_element_gene		YBL100W-B		gag-pol fusion protein|TY2B_B|YBL101W-B	chromosome 2		2	29935	35248	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000032404	CDS					YBL100W-B		2	29935	31227	W		2011-02-03	1997-01-28	
-S000032405	CDS					YBL100W-B		2	31229	35248	W		2011-02-03	1997-01-28	
-S000032406	plus_1_translational_frameshift					YBL100W-B		2	31228	31228	W		2011-02-03	1997-01-28	
-S000006802	long_terminal_repeat		YBLWdelta5			chromosome 2		2	35271	35602	W		2011-02-03	2000-05-19	Ty2 LTR
-S000006803	long_terminal_repeat		YBLWdelta6			chromosome 2		2	35604	35796	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006807	long_terminal_repeat		YBLCtau1		YBLWtau1	chromosome 2		2	36221	35851	C		2011-02-03	2000-05-19|2007-04-05	Ty4 LTR
-S000006562	tRNA_gene		tF(GAA)B			chromosome 2	L000003739	2	36398	36488	W		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000035371	intron					tF(GAA)B		2	36435	36452	W		2011-02-03	2000-05-19	
-S000035369	noncoding_exon					tF(GAA)B		2	36398	36434	W		2011-02-03	2000-05-19	
-S000035370	noncoding_exon					tF(GAA)B		2	36453	36488	W		2011-02-03	2000-05-19	
-S000000195	ORF	Verified	YBL099W	ATP1	F1F0 ATP synthase subunit alpha	chromosome 2	L000000141	2	37053	38690	W		2011-02-03	1997-01-28|2011-02-03	Alpha subunit of the F1 sector of mitochondrial F1F0 ATP synthase; which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; F1 translationally regulates ATP6 and ATP8 expression to achieve a balanced output of ATP synthase genes encoded in nucleus and mitochondria; phosphorylated; N-terminally propionylated in vivo
-S000034558	CDS					YBL099W		2	37053	38690	W		2011-02-03	1997-01-28|2011-02-03	
-S000000196	ORF	Dubious	YBL100C			chromosome 2		2	37303	36989	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the 5' end of ATP1
-S000031662	CDS					YBL100C		2	37303	36989	C		2011-02-03	1997-01-28	
-S000000194	ORF	Verified	YBL098W	BNA4	kynurenine 3-monooxygenase	chromosome 2		2	39145	40527	W		2011-02-03	1997-01-28	Kynurenine 3-monooxygenase; required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p; putative therapeutic target for Huntington disease
-S000034424	CDS					YBL098W		2	39145	40527	W		2011-02-03	1997-01-28	
-S000000193	ORF	Verified	YBL097W	BRN1	condensin subunit BRN1	chromosome 2	L000004324	2	40831	43095	W		2011-02-03	2004-01-29|1997-01-28|2011-02-03	Subunit of the condensin complex; required for chromosome condensation and for clustering of tRNA genes at the nucleolus; may influence multiple aspects of chromosome transmission
-S000034364	CDS					YBL097W		2	40831	43095	W		2011-02-03	2004-01-29|1997-01-28|2011-02-03	
-S000000191	ORF	Uncharacterized	YBL095W	MRX3		chromosome 2		2	43277	44089	W		2011-02-03	1997-01-28	Protein that associates with mitochondrial ribosome; likely functions in cristae junction formation; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000033361	CDS					YBL095W		2	43277	44089	W		2011-02-03	1997-01-28	
-S000000192	ORF	Dubious	YBL096C			chromosome 2		2	43482	43174	C		2011-02-03	1997-01-28	Non-essential protein of unknown function
-S000033392	CDS					YBL096C		2	43482	43174	C		2011-02-03	1997-01-28	
-S000000190	ORF	Dubious	YBL094C			chromosome 2		2	44097	43765	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized ORF YBL095W
-S000033262	CDS					YBL094C		2	44097	43765	C		2011-02-03	1997-01-28	
-S000000189	ORF	Verified	YBL093C	ROX3	SSX2|MED19|SSN7|NUT3	chromosome 2	L000001662|S000029515|L000002098	2	44918	44256	C		2011-02-03	1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme
-S000032413	CDS					YBL093C		2	44918	44256	C		2011-02-03	1997-01-28	
-S000000188	ORF	Verified	YBL092W	RPL32	eL32|ribosomal 60S subunit protein L32|L32e|L32	chromosome 2	L000004464	2	45978	46370	W		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L32; overexpression disrupts telomeric silencing; homologous to mammalian ribosomal protein L32, no bacterial homolog
-S000032377	CDS					YBL092W		2	45978	46370	W		2011-02-03	1997-01-28	
-S000122091	five_prime_UTR_intron					YBL092W		2	45645	45977	W		2011-02-03	2007-04-04	
-S000007228	ORF	Verified	YBL091C-A	SCS22	phospholipid metabolism-regulating protein SCS22	chromosome 2		2	47180	46565	C		2011-02-03	2004-01-07|1999-07-17	Protein involved in regulation of phospholipid metabolism; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect the ER and plasma membrane (PM); regulates PM PI4P levels by controlling access of the Sac1p phosphatase to its substrate, PI4P; human VAP homolog; similar to D. melanogaster inturned protein; SWAT-GFP and mCherry fusion proteins localize to the cytosol; SCS22 has a paralog, SCS2, that arose from the whole genome duplication
-S000037851	CDS					YBL091C-A		2	47058	46565	C		2011-02-03	2004-01-07|1999-07-17	
-S000037850	CDS					YBL091C-A		2	47180	47147	C		2011-02-03	2004-01-07	
-S000037852	intron					YBL091C-A		2	47146	47059	C		2011-02-03	2004-01-07	
-S000000187	ORF	Verified	YBL091C	MAP2	methionine aminopeptidase	chromosome 2	L000003044	2	48628	47363	C		2011-02-03	1997-07-27|1997-01-28|2011-02-03	Methionine aminopeptidase; catalyzes the cotranslational removal of N-terminal methionine from nascent polypeptides; function is partially redundant with that of Map1p
-S000032224	CDS					YBL091C		2	48628	47363	C		2011-02-03	1997-07-27|1997-01-28|2011-02-03	
-S000000186	ORF	Verified	YBL090W	MRP21	mitochondrial 37S ribosomal protein MRP21|MRP50	chromosome 2	L000003275	2	48825	49358	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the small subunit; MRP21 exhibits genetic interactions with mutations in the COX2 and COX3 mRNA 5'-untranslated leader sequences
-S000032193	CDS					YBL090W		2	48825	49358	W		2011-02-03	1997-01-28	
-S000000185	ORF	Verified	YBL089W	AVT5	amino acid transporter	chromosome 2		2	49574	50953	W		2011-02-03	2003-09-22|1997-01-28	Putative transporter; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters; AVT5 has a paralog, AVT6, that arose from the whole genome duplication
-S000031223	CDS					YBL089W		2	49574	50953	W		2011-02-03	2003-09-22|1997-01-28	
-S000000184	ORF	Verified	YBL088C	TEL1	DNA-binding protein kinase TEL1	chromosome 2	L000002281	2	59382	51019	C	-60	2011-02-03	1997-01-28|2011-02-03	Protein kinase primarily involved in telomere length regulation; contributes to cell cycle checkpoint control in response to DNA damage; acts with Red1p and Mec1p to promote interhomolog recombination by phosphorylation of Hop1; functionally redundant with Mec1p; regulates P-body formation induced by replication stress; homolog of human ataxia-telangiectasia mutated (ATM) gene
-S000030193	CDS					YBL088C		2	59382	51019	C		2011-02-03	1997-01-28|2011-02-03	
-S000000183	ORF	Verified	YBL087C	RPL23A	uL14|ribosomal 60S subunit protein L23A|L14|YL32|L23A|L17aA	chromosome 2	L000001716	2	60739	59822	C		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L23A; homologous to mammalian ribosomal protein L23 and bacterial L14; RPL23A has a paralog, RPL23B, that arose from the whole genome duplication
-S000030032	CDS					YBL087C		2	60193	59822	C		2011-02-03	1997-01-28	
-S000030031	CDS					YBL087C		2	60739	60698	C		2011-02-03	1997-01-28	
-S000030033	intron					YBL087C		2	60697	60194	C		2011-02-03	1997-01-28	
-S000000182	ORF	Uncharacterized	YBL086C			chromosome 2		2	62602	61202	C		2011-02-03	1997-01-28	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery
-S000029917	CDS					YBL086C		2	62602	61202	C		2011-02-03	1997-01-28	
-S000118344	ARS		ARS202		ARSII-63	chromosome 2		2	63259	63381			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000000181	ORF	Verified	YBL085W	BOI1	BOB1|GIN7	chromosome 2	L000000191|L000000703	2	63876	66818	W		2011-02-03	1997-01-28	Protein implicated in polar growth; functionally redundant with Boi2p; interacts with bud-emergence protein Bem1p; contains an SH3 (src homology 3) domain and a PH (pleckstrin homology) domain; relocalizes from bud neck to cytoplasm upon DNA replication stress; BOI1 has a paralog, BOI2, that arose from the whole genome duplication
-S000029876	CDS					YBL085W		2	63876	66818	W		2011-02-03	1997-01-28	
-S000000180	ORF	Verified	YBL084C	CDC27	anaphase promoting complex subunit CDC27|SNB1|APC3	chromosome 2	L000000266	2	69445	67169	C	-58	2011-02-03	1997-01-28|2011-02-03	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition
-S000037167	CDS					YBL084C		2	69445	67169	C		2011-02-03	1997-01-28|2011-02-03	
-S000000179	ORF	Dubious	YBL083C			chromosome 2		2	70138	69713	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps verified ORF ALG3
-S000037052	CDS					YBL083C		2	70138	69713	C		2011-02-03	1997-01-28	
-S000000178	ORF	Verified	YBL082C	ALG3	dolichyl-P-Man:Man(5)GlcNAc(2)-PP-dolichol alpha-1,3-mannosyltransferase|RHK1	chromosome 2	L000002668	2	71127	69751	C		2011-02-03	1997-01-28	Dolichol-P-Man dependent alpha(1-3) mannosyltransferase; involved in synthesis of dolichol-linked oligosaccharide donor for N-linked glycosylation of proteins; G353A missense mutation in human ortholog ALG3 implicated in carbohydrate deficient glycoprotein syndrome type IV, which is characterized by microcephaly, severe epilepsy, minimal psychomotor development, partial deficiency of sialic acids in serum glycoproteins; wild-type human ALG3 can complement yeast alg3 mutant
-S000036997	CDS					YBL082C		2	71127	69751	C		2011-02-03	1997-01-28	
-S000000177	ORF	Uncharacterized	YBL081W			chromosome 2		2	71866	72972	W		2011-02-03	1997-01-28	Non-essential protein of unknown function; null mutation results in a decrease in plasma membrane electron transport
-S000036378	CDS					YBL081W		2	71866	72972	W		2011-02-03	1997-01-28	
-S000000176	ORF	Verified	YBL080C	PET112	glutamyl-tRNA(Gln) amidotransferase subunit PET112	chromosome 2	L000001394	2	74695	73070	C		2011-02-03	1997-01-28|2011-02-03	Subunit of the trimeric GatFAB AmidoTransferase(AdT) complex; involved in the formation of Q-tRNAQ; mutation is functionally complemented by the bacterial GatB ortholog
-S000036223	CDS					YBL080C		2	74695	73070	C		2011-02-03	1997-01-28|2011-02-03	
-S000000175	ORF	Verified	YBL079W	NUP170	NLE3	chromosome 2	L000001256|L000003140	2	75259	79767	W		2011-02-03	1997-01-28	Subunit of inner ring of nuclear pore complex (NPC); contributes to NPC assembly and nucleocytoplasmic transport; interacts with genomic regions that contain ribosomal protein and subtelomeric genes, where it functions in nucleosome positioning and as a repressor of transcription; both Nup170p and NUP157p are similar to human Nup155p; NUP170 has a paralog, NUP157, that arose from the whole genome duplication
-S000034905	CDS					YBL079W		2	75259	79767	W		2011-02-03	1997-01-28	
-S000000174	ORF	Verified	YBL078C	ATG8	ubiquitin-like protein ATG8|AUT7|CVT5|APG8	chromosome 2	L000004607|L000004604	2	80731	80378	C		2011-02-03	1997-01-28	Component of autophagosomes and Cvt vesicles; regulator of Atg1p, targets it to autophagosomes; binds the Atg1p-Atg13p complex, triggering its vacuolar degradation; unique ubiquitin-like protein whose conjugation target is lipid phosphatidylethanolamine (PE); Atg8p-PE is anchored to membranes, is involved in phagophore expansion, and may mediate membrane fusion during autophagosome formation; deconjugation of Atg8p-PE is required for efficient autophagosome biogenesis
-S000033940	CDS					YBL078C		2	80731	80378	C		2011-02-03	1997-01-28	
-S000000173	ORF	Dubious	YBL077W			chromosome 2		2	80897	81328	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene ILS1/YBL076C
-S000033872	CDS					YBL077W		2	80897	81328	W		2011-02-03	1997-01-28	
-S000000172	ORF	Verified	YBL076C	ILS1	isoleucine--tRNA ligase ILS1	chromosome 2	L000000856	2	84261	81043	C	-43	2011-02-03	1997-01-28	Cytoplasmic isoleucine-tRNA synthetase; target of the G1-specific inhibitor reveromycin A
-S000033054	CDS					YBL076C		2	84261	81043	C		2011-02-03	1997-01-28	
-S000000171	ORF	Verified	YBL075C	SSA3	Hsp70 family ATPase SSA3|YG106	chromosome 2	L000002071|L000000820	2	86448	84499	C		2011-02-03	1997-01-28	ATPase involved in protein folding and the response to stress; plays a role in SRP-dependent cotranslational protein-membrane targeting and translocation; member of the heat shock protein 70 (HSP70) family; localized to the cytoplasm; SSA3 has a paralog, SSA4, that arose from the whole genome duplication
-S000032985	CDS					YBL075C		2	86448	84499	C		2011-02-03	1997-01-28	
-S000000169	ORF	Dubious	YBL073W			chromosome 2		2	87646	87957	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the essential gene AAR2/YBL074C
-S000032838	CDS					YBL073W		2	87646	87957	W		2011-02-03	1997-01-28	
-S000000170	ORF	Verified	YBL074C	AAR2	U5 snRNP complex subunit AAR2	chromosome 2	L000000008	2	87789	86722	C		2011-02-03	1997-01-28	Component of the U5 snRNP complex; required for splicing of U3 precursors; originally described as a splicing factor specifically required for splicing pre-mRNA of the MATa1 cistron
-S000032869	CDS					YBL074C		2	87789	86722	C		2011-02-03	1997-01-28	
-S000006447	snoRNA_gene		snR56	SNR56		chromosome 2	L000004525	2	88190	88277	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position G1428
-S000030761	noncoding_exon					snR56		2	88190	88277	W		2011-02-03	2000-05-19	
-S000000168	ORF	Verified	YBL072C	RPS8A	eS8|ribosomal 40S subunit protein S8A|S8e|rp19|YS9|S8A|S14A	chromosome 2	L000001752|L000001753	2	89125	88523	C		2011-02-03	1997-01-28	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S8, no bacterial homolog; RPS8A has a paralog, RPS8B, that arose from the whole genome duplication
-S000031871	CDS					YBL072C		2	89125	88523	C		2011-02-03	1997-01-28	
-S000122090	five_prime_UTR_intron					YBL072C		2	89440	89133	C		2011-02-03	2007-04-04|2011-02-03	
-S000028597	ORF	Uncharacterized	YBL071C-B			chromosome 2		2	89556	89458	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031379	CDS					YBL071C-B		2	89556	89458	C		2011-02-03	2003-07-29	
-S000007587	ORF	Verified	YBL071W-A	KTI11	DPH3	chromosome 2		2	89978	90226	W		2011-02-03	2001-01-30	Zn-ribbon protein that co-purifies with Dph1 and Dph2; in a complex required for synthesis of diphthamide on translation factor eEF2 and with Elongator subunits Iki3p, Elp2p, and Elp3p; involved in modification of wobble nucleosides in tRNAs; forms a stable heterodimer with Ats1p
-S000037098	CDS					YBL071W-A		2	89978	90226	W		2011-02-03	2001-01-30	
-S000000167	ORF	Uncharacterized	YBL071C			chromosome 2		2	90531	90223	C		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YBL071C is not an essential gene
-S000031723	CDS					YBL071C		2	90531	90223	C		2011-02-03	1997-01-28	
-S000000165	ORF	Verified	YBL069W	AST1		chromosome 2	L000000133	2	90741	92030	W		2011-02-03	2001-05-29|1997-01-28	Lipid raft associated protein; interacts with the plasma membrane ATPase Pma1p and has a role in its targeting to the plasma membrane by influencing its incorporation into lipid rafts; sometimes classified in the medium-chain dehydrogenase/reductases (MDRs) superfamily; AST1 has a paralog, AST2, that arose from the whole genome duplication
-S000031495	CDS					YBL069W		2	90741	92030	W		2011-02-03	2001-05-29|1997-01-28	
-S000000166	ORF	Dubious	YBL070C			chromosome 2		2	90925	90605	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031635	CDS					YBL070C		2	90925	90605	C		2011-02-03	1997-01-28	
-S000028530	ORF	Dubious	YBL068W-A			chromosome 2		2	91794	92030	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by fungal homology and RT-PCR
-S000031139	CDS					YBL068W-A		2	91794	92030	W		2011-02-03	2003-07-29	
-S000000164	ORF	Verified	YBL068W	PRS4	ribose phosphate diphosphokinase subunit PRS4	chromosome 2	L000001513	2	92414	93394	W		2011-02-03	2003-09-22|1997-01-28|2011-02-03	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase, synthesizes PRPP; which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes; PRS4 has a paralog, PRS2, that arose from the whole genome duplication; a missense mutation in the conserved residue R196 of its human homolog PRPS1 is pathogenic
-S000031367	CDS					YBL068W		2	92414	93394	W		2011-02-03	2003-09-22|1997-01-28|2011-02-03	
-S000178041	ARS		ARS203			chromosome 2		2	93435	93519			2014-11-18	2014-11-18	Autonomously replicating sequence
-S000000163	ORF	Verified	YBL067C	UBP13	ubiquitin-specific protease UBP13	chromosome 2	L000003172	2	95882	93639	C		2011-02-03	2004-07-16|1997-01-28|1999-04-26|2011-02-03	Ubiquitin-specific protease that cleaves Ub-protein fusions; UBP13 has a paralog, UBP9, that arose from the whole genome duplication
-S000030367	CDS					YBL067C		2	95882	93639	C		2011-02-03	2004-07-16|1997-01-28|1999-04-26|2011-02-03	
-S000000161	ORF	Dubious	YBL065W			chromosome 2		2	99963	100307	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF SEF1/YBL066C; YBL065W is a non-essential gene
-S000037539	CDS					YBL065W		2	99963	100307	W		2011-02-03	1997-01-28	
-S000000162	ORF	Verified	YBL066C	SEF1		chromosome 2	L000003318	2	100115	96669	C		2011-02-03	2004-07-16|1999-04-26|1997-01-28	Putative transcription factor; has homolog in Kluyveromyces lactis
-S000030204	CDS					YBL066C		2	100115	96669	C		2011-02-03	2004-07-16|1997-01-28|1999-04-26	
-S000000160	ORF	Verified	YBL064C	PRX1	thioredoxin peroxidase PRX1	chromosome 2		2	101156	100371	C		2011-02-03	1997-01-28	Mitochondrial peroxiredoxin with thioredoxin peroxidase activity; has a role in reduction of hydroperoxides; reactivation requires Trr2p and glutathione; induced during respiratory growth and oxidative stress; phosphorylated; protein abundance increases in response to DNA replication stress
-S000037361	CDS					YBL064C		2	101156	100371	C		2011-02-03	1997-01-28	
-S000000159	ORF	Verified	YBL063W	KIP1	CIN9	chromosome 2	L000000907	2	101886	105221	W		2011-02-03	1997-01-28	Kinesin-related motor protein; required for mitotic spindle assembly, chromosome segregation, and 2 micron plasmid partitioning; functionally redundant with Cin8p for chromosomal but not plasmid functions
-S000037298	CDS					YBL063W		2	101886	105221	W		2011-02-03	1997-01-28	
-S000000158	ORF	Dubious	YBL062W			chromosome 2		2	105308	105688	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036607	CDS					YBL062W		2	105308	105688	W		2011-02-03	1997-01-28	
-S000000157	ORF	Verified	YBL061C	SKT5	CSD4|CHS4|CAL2	chromosome 2	L000001911|L000000332	2	107406	105316	C		2011-02-03	1997-01-28	Activator of Chs3p (chitin synthase III) during vegetative growth; recruits Chs3p to the bud neck via interaction with Bni4p; SKT5 has a paralog, SHC1, that arose from the whole genome duplication
-S000036460	CDS					YBL061C		2	107406	105316	C		2011-02-03	1997-01-28	
-S000000156	ORF	Verified	YBL060W	YEL1	Arf family guanine nucleotide exchange factor YEL1	chromosome 2		2	107932	109995	W		2011-02-03	1997-01-28	Guanine nucleotide exchange factor specific for Arf3p; localized to the bud neck and tip; required for localization of Arf3p to the bud neck and tip
-S000036446	CDS					YBL060W		2	107932	109995	W		2011-02-03	1997-01-28	
-S000007488	ORF	Verified	YBL059C-A	CMC2		chromosome 2		2	110539	110125	C		2011-02-03	2000-12-01	Protein involved in respiratory chain complex assembly or maintenance; protein of the mitochondrial intermembrane space; contains twin Cx9C motifs that can form coiled coil-helix-coiled-coil helix fold
-S000032274	CDS					YBL059C-A		2	110420	110125	C		2011-02-03	2000-12-01	
-S000032273	CDS					YBL059C-A		2	110539	110506	C		2011-02-03	2000-12-01	
-S000032275	intron					YBL059C-A		2	110505	110421	C		2011-02-03	2000-12-01	
-S000000155	ORF	Uncharacterized	YBL059W			chromosome 2		2	110594	111244	W		2011-02-03	1997-01-28	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YBL059W has a paralog, YER093C-A, that arose from the whole genome duplication
-S000035392	CDS					YBL059W		2	110594	110879	W		2011-02-03	1997-01-28	
-S000035393	CDS					YBL059W		2	110949	111244	W		2011-02-03	1997-01-28	
-S000035394	intron					YBL059W		2	110880	110948	W		2011-02-03	1997-01-28	
-S000000154	ORF	Verified	YBL058W	SHP1	protein phosphatase regulator SHP1|UBX1	chromosome 2	L000002746	2	111437	112708	W		2011-02-03	1997-01-28	UBX domain-containing substrate adaptor for Cdc48p; ubiquitin regulatory X domain-containing protein that acts as a substrate recruiting cofactor for Cdc48p; positively regulates Glc7p PPase activity to promote growth and mitotic progression in complex with Cdc48p; ubiquitinated protein interactor involved in ER-associated degradation (ERAD); regulated by nuclear Ub-dependent degradation (INMAD pathway) independent of the Asi and Doa10 complexes; homolog of human p47 (NSFL1C)
-S000034369	CDS					YBL058W		2	111437	112708	W		2011-02-03	1997-01-28	
-S000000153	ORF	Verified	YBL057C	PTH2	aminoacyl-tRNA hydrolase	chromosome 2		2	113427	112801	C		2011-02-03	1997-01-28|2011-02-03	One of two mitochondrially-localized peptidyl-tRNA hydrolases; negatively regulates the ubiquitin-proteasome pathway via interactions with ubiquitin-like ubiquitin-associated proteins; dispensable for cell growth; see also PTH1
-S000034185	CDS					YBL057C		2	113427	112801	C		2011-02-03	1997-01-28|2011-02-03	
-S000000152	ORF	Verified	YBL056W	PTC3	type 2C protein phosphatase PTC3	chromosome 2	L000003426	2	113762	115168	W		2011-02-03	1997-01-28|2011-02-03	Type 2C protein phosphatase (PP2C); dephosphorylates Hog1p (see also Ptc2p) to limit maximal kinase activity induced by osmotic stress; dephosphorylates T169 phosphorylated Cdc28p (see also Ptc2p); role in DNA damage checkpoint inactivation; PTC3 has a paralog, PTC2, that arose from the whole genome duplication
-S000034127	CDS					YBL056W		2	113762	115168	W		2011-02-03	1997-01-28|2011-02-03	
-S000000151	ORF	Verified	YBL055C		3'-5'-exodeoxyribonuclease|Tat-D	chromosome 2		2	116829	115573	C		2011-02-03	1997-01-28	3'-->5' exonuclease and endonuclease with a possible role in apoptosis; has similarity to mammalian and C. elegans apoptotic nucleases
-S000033245	CDS					YBL055C		2	116829	115573	C		2011-02-03	1997-01-28	
-S000000150	ORF	Verified	YBL054W	TOD6	PBF1	chromosome 2		2	117589	119166	W		2011-02-03	1997-01-28	PAC motif binding protein involved in rRNA and ribosome biogenesis; subunit of the RPD3L histone deacetylase complex; Myb-like HTH transcription factor; hypophosphorylated by rapamycin treatment in a Sch9p-dependent manner; activated in stochastic pulses of nuclear localization
-S000033217	CDS					YBL054W		2	117589	119166	W		2011-02-03	1997-01-28	
-S000000149	ORF	Dubious	YBL053W			chromosome 2		2	119335	119709	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033156	CDS					YBL053W		2	119335	119709	W		2011-02-03	1997-01-28	
-S000000148	ORF	Verified	YBL052C	SAS3	KAT6	chromosome 2	L000003280	2	121874	119379	C		2011-02-03	1997-01-28	Histone acetyltransferase catalytic subunit of NuA3 complex; acetylates histone H3, involved in transcriptional silencing; homolog of the mammalian MOZ proto-oncogene; mutant has aneuploidy tolerance; sas3gcn5 double mutation is lethal
-S000032250	CDS					YBL052C		2	121874	119379	C		2011-02-03	1997-01-28	
-S000000147	ORF	Verified	YBL051C	PIN4	MDT1	chromosome 2		2	124759	122753	C		2011-02-03	1997-01-28	Protein involved in G2/M phase progression and response to DNA damage; interacts with Rad53p; contains an RNA recognition motif, a nuclear localization signal, and several SQ/TQ cluster domains; hyperphosphorylated in response to DNA damage
-S000032171	CDS					YBL051C		2	124759	122753	C		2011-02-03	1997-01-28	
-S000000146	ORF	Verified	YBL050W	SEC17	RNS3	chromosome 2	L000001841	2	125125	126119	W		2011-02-03	1997-01-28	Alpha-SNAP cochaperone; SNARE-complex adaptor for Sec18 (NSF) during the disassembly of postfusion cis-SNARE complexes; stimulates the ATPase activity of Sec18p; peripheral membrane protein required for vesicular transport between ER and Golgi, the 'priming' step in homotypic vacuole fusion, and autophagy; similar to mammalian alpha-SNAP
-S000032144	CDS					YBL050W		2	125125	125154	W		2011-02-03	1997-01-28	
-S000032145	CDS					YBL050W		2	125271	126119	W		2011-02-03	1997-01-28	
-S000032146	intron					YBL050W		2	125155	125270	W		2011-02-03	1997-01-28	
-S000000145	ORF	Verified	YBL049W	MOH1		chromosome 2		2	126828	127244	W		2011-02-03	1997-01-28	Protein of unknown function, essential for stationary phase survival; not required for growth on nonfermentable carbon sources; possibly linked with vacuolar transport
-S000031247	CDS					YBL049W		2	126828	127244	W		2011-02-03	1997-01-28	
-S000000144	ORF	Dubious	YBL048W	RRT1		chromosome 2		2	127299	127610	W		2011-02-03	1997-01-28	Protein of unknown function; identified in a screen for mutants with increased levels of rDNA transcription; dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data
-S000031090	CDS					YBL048W		2	127299	127610	W		2011-02-03	1997-01-28	
-S000000143	ORF	Verified	YBL047C	EDE1	BUD15	chromosome 2		2	132040	127895	C		2011-02-03	1997-01-28	Scaffold protein involved in the formation of early endocytic sites; putative regulator of cytokinesis; homo-oligomerization is required for localization to and organization of endocytic sites; has a network of interactions with other endocytic proteins; binds membranes in a ubiquitin-dependent manner; may also bind ubiquitinated membrane-associated proteins; interacts with Cmk2 and functions upstream of CMK2 in regulating non-apoptotic cell death; homolog of mammalian Eps15
-S000030056	CDS					YBL047C		2	132040	127895	C		2011-02-03	1997-01-28	
-S000000142	ORF	Verified	YBL046W	PSY4	HSM6	chromosome 2		2	132424	133749	W		2011-02-03	1997-01-28	Regulatory subunit of protein phosphatase PP4; presence of Psy4p in the PP4 complex (along with catalytic subunit Pph3p and Psy2p) is required for dephosphorylation of the histone variant H2AX, but not for dephosphorylation of Rad53p, during recovery from the DNA damage checkpoint; localization is cell-cycle dependent and regulated by Cdc28p phosphorylation; required for cisplatin resistance; homolog of mammalian R2
-S000030008	CDS					YBL046W		2	132424	133749	W		2011-02-03	1997-01-28	
-S000000141	ORF	Verified	YBL045C	COR1	ubiquinol--cytochrome-c reductase subunit COR1|QCR1	chromosome 2	L000000381	2	135516	134143	C		2011-02-03	1997-01-28	Core subunit of the ubiquinol-cytochrome c reductase complex; the ubiquinol-cytochrome c reductase complex (bc1 complex) is a component of the mitochondrial inner membrane electron transport chain
-S000037896	CDS					YBL045C		2	135516	134143	C		2011-02-03	1997-01-28	
-S000000140	ORF	Uncharacterized	YBL044W			chromosome 2		2	135998	136366	W		2011-02-03	1997-01-28	Putative protein of unknown function; YBL044W is not an essential protein
-S000037855	CDS					YBL044W		2	135998	136366	W		2011-02-03	1997-01-28	
-S000000139	ORF	Verified	YBL043W	ECM13		chromosome 2	L000003888	2	136688	137461	W		2011-02-03	1997-01-28	Non-essential protein of unknown function; induced by treatment with 8-methoxypsoralen and UVA irradiation; ECM13 has a paralog, YJR115W, that arose from the whole genome duplication
-S000037081	CDS					YBL043W		2	136688	137461	W		2011-02-03	1997-01-28	
-S000000138	ORF	Verified	YBL042C	FUI1	uridine permease	chromosome 2	L000004437	2	140260	138341	C		2011-02-03	1997-01-28	High affinity uridine permease, localizes to the plasma membrane; also mediates low but significant transport of the cytotoxic nucleoside analog 5-fluorouridine; not involved in uracil transport; relative distribution to the vacuole increases upon DNA replication stress
-S000036981	CDS					YBL042C		2	140260	138341	C		2011-02-03	1997-01-28	
-S000000137	ORF	Verified	YBL041W	PRE7	proteasome core particle subunit beta 6|PRS3	chromosome 2	L000002699	2	141247	141972	W		2011-02-03	1997-01-28	Beta 6 subunit of the 20S proteasome
-S000036959	CDS					YBL041W		2	141247	141972	W		2011-02-03	1997-01-28	
-S000000136	ORF	Verified	YBL040C	ERD2		chromosome 2	L000000567	2	142868	142112	C		2011-02-03	1997-01-28	HDEL receptor; an integral membrane protein that binds to the HDEL motif in proteins destined for retention in the endoplasmic reticulum; has a role in maintenance of normal levels of ER-resident proteins
-S000036161	CDS					YBL040C		2	142749	142112	C		2011-02-03	1997-01-28	
-S000036160	CDS					YBL040C		2	142868	142847	C		2011-02-03	1997-01-28	
-S000036162	intron					YBL040C		2	142846	142750	C		2011-02-03	1997-01-28	
-S000028517	ORF	Uncharacterized	YBL039W-B		YBL039W-A	chromosome 2		2	143393	143572	W		2011-02-03	2003-07-29	Putative protein of unknown function; mCherry fusion protein localizes to the vacuole
-S000030292	CDS					YBL039W-B		2	143393	143572	W		2011-02-03	2003-07-29	
-S000178042	ARS		ARS206			chromosome 2		2	143658	143745			2014-11-18	2014-11-18	Autonomously replicating sequence
-S000028814	ORF	Dubious	YBL039C-A			chromosome 2		2	145031	144948	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF URA7; identified by expression profiling and mass spectrometry
-S000033616	CDS					YBL039C-A		2	145031	144948	C		2011-02-03	2003-07-29	
-S000000135	ORF	Verified	YBL039C	URA7	CTP synthase URA7	chromosome 2	L000002436	2	145728	143989	C		2011-02-03	1997-01-28	Major CTP synthase isozyme (see also URA8); catalyzes the ATP-dependent transfer of the amide nitrogen from glutamine to UTP, forming CTP, the final step in de novo biosynthesis of pyrimidines; involved in phospholipid biosynthesis; capable of forming cytoplasmic filaments termed cytoophidium, especially during conditions of glucose depletion; URA7 has a paralog, URA8, that arose from the whole genome duplication
-S000035182	CDS					YBL039C		2	145728	143989	C		2011-02-03	1997-01-28	
-S000000134	ORF	Verified	YBL038W	MRPL16	RML16|mitochondrial 54S ribosomal protein YmL47|YmL47	chromosome 2	L000001165	2	146187	146885	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; homologous to bacterial L16 ribosomal protein; synthetic lethality with hac1 mutation suggests a possible role in synthesis of precursors for protein glycosylation
-S000035077	CDS					YBL038W		2	146187	146885	W		2011-02-03	1997-01-28	
-S000000133	ORF	Verified	YBL037W	APL3		chromosome 2	L000003322	2	147209	150286	W		2011-02-03	1997-01-28	Alpha-adaptin; large subunit of the clathrin associated protein complex (AP-2); involved in vesicle mediated transport
-S000034928	CDS					YBL037W		2	147209	150286	W		2011-02-03	1997-01-28	
-S000000132	ORF	Verified	YBL036C			chromosome 2		2	151220	150447	C		2011-02-03	1997-01-28	Putative non-specific single-domain racemase; based on structural similarity; binds pyridoxal 5'-phosphate; expression of GFP-fusion protein induced in response to the DNA-damaging agent MMS
-S000033968	CDS					YBL036C		2	151220	150447	C		2011-02-03	1997-01-28	
-S000000131	ORF	Verified	YBL035C	POL12	DNA-directed DNA polymerase alpha subunit POL12	chromosome 2	L000002698	2	153610	151493	C		2011-02-03	1997-01-28	B subunit of DNA polymerase alpha-primase complex; required for initiation of DNA replication during mitotic and premeiotic DNA synthesis; also functions in telomere capping and length regulation
-S000033851	CDS					YBL035C		2	153610	151493	C		2011-02-03	1997-01-28	
-S000000130	ORF	Verified	YBL034C	STU1		chromosome 2	L000002138	2	158389	153848	C		2011-02-03	1997-01-28	Component of the mitotic spindle; binds to interpolar microtubules via its association with beta-tubulin (Tub2p); required for interpolar microtubules to provide an outward force on the spindle poles
-S000033728	CDS					YBL034C		2	158389	153848	C		2011-02-03	1997-01-28	
-S000000129	ORF	Verified	YBL033C	RIB1	GTP cyclohydrolase II	chromosome 2	L000001634	2	159693	158656	C		2011-02-03	1999-04-22|1997-01-28	GTP cyclohydrolase II; catalyzes the first step of the riboflavin biosynthesis pathway
-S000033070	CDS					YBL033C		2	159693	158656	C		2011-02-03	1999-04-22|1997-01-28	
-S000000128	ORF	Verified	YBL032W	HEK2	KHD1	chromosome 2		2	160184	161329	W		2011-02-03	1997-01-28	RNA binding protein involved in asymmetric localization of ASH1 mRNA; represses translation of ASH1 mRNA, an effect reversed by Yck1p-dependent phosphoryation; regulates telomere position effect and length; similarity to hnRNP-K
-S000033035	CDS					YBL032W		2	160184	161329	W		2011-02-03	1997-01-28	
-S000000127	ORF	Verified	YBL031W	SHE1		chromosome 2	L000002867	2	161699	162715	W		2011-02-03	1997-01-28	Mitotic spindle protein; interacts with components of the Dam1 (DASH) complex, its effector Sli15p, and microtubule-associated protein Bim1p; also localizes to nuclear microtubules and to the bud neck in a ring-shaped structure; inhibits dynein function
-S000032946	CDS					YBL031W		2	161699	162715	W		2011-02-03	1997-01-28	
-S000000126	ORF	Verified	YBL030C	PET9	ADP/ATP carrier protein PET9|OP1|ANC2|AAC2	chromosome 2	L000000004|L000001386|L000004346	2	163997	163041	C	-20	2011-02-03	1997-01-28	Major ADP/ATP carrier of the mitochondrial inner membrane; exchanges cytosolic ADP for mitochondrially synthesized ATP; also imports heme and ATP; required for viability in many lab strains that carry a sal1 mutation; PET9 has a paralog, AAC3, that arose from the whole genome duplication; human homolog SLC25A4 implicated in progressive external ophthalmoplegia can complement yeast null mutant
-S000032782	CDS					YBL030C		2	163997	163041	C		2011-02-03	1997-01-28	
-S000007591	ORF	Verified	YBL029C-A			chromosome 2	S000029022	2	164772	164488	C		2011-02-03	2001-02-26	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery; protein abundance increases in response to DNA replication stress; has potential orthologs in Saccharomyces species and in Yarrowia lipolytica
-S000037103	CDS					YBL029C-A		2	164772	164488	C		2011-02-03	2001-02-26	
-S000000125	ORF	Uncharacterized	YBL029W			chromosome 2		2	166134	167264	W		2011-02-03	1997-01-28	Non-essential protein of unknown function
-S000032107	CDS					YBL029W		2	166134	167264	W		2011-02-03	1997-01-28	
-S000000124	ORF	Verified	YBL028C			chromosome 2		2	167838	167518	C		2011-02-03	1997-01-28	Protein of unknown function that may interact with ribosomes; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus; predicted to be involved in ribosome biogenesis
-S000031894	CDS					YBL028C		2	167838	167518	C		2011-02-03	1997-01-28	
-S000000123	ORF	Verified	YBL027W	RPL19B	eL19|ribosomal 60S subunit protein L19B|L19e|rpl5L|YL14|L23B|L19B	chromosome 2	L000001719|L000001718	2	168423	169376	W		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L19B; rpl19a and rpl19b single null mutations result in slow growth, while the double null mutation is lethal; homologous to mammalian ribosomal protein L19, no bacterial homolog; RPL19B has a paralog, RPL19A, that arose from the whole genome duplication
-S000031846	CDS					YBL027W		2	168423	168424	W		2011-02-03	1997-01-28	
-S000031847	CDS					YBL027W		2	168809	169376	W		2011-02-03	1997-01-28	
-S000031848	intron					YBL027W		2	168425	168808	W		2011-02-03	1997-01-28	
-S000118345	ARS		ARS207		ARSII-170	chromosome 2		2	170173	170279			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178043	ARS_consensus_sequence					ARS207		2	170223	170207	C		2014-11-18	2014-11-18	
-S000000122	ORF	Verified	YBL026W	LSM2	Sm-like protein LSM2|SNP3|SMX5	chromosome 2	L000003168	2	170623	171038	W		2011-02-03	1997-01-28	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
-S000030858	CDS					YBL026W		2	170623	170676	W		2011-02-03	1997-01-28	
-S000030859	CDS					YBL026W		2	170805	171038	W		2011-02-03	1997-01-28	
-S000030860	intron					YBL026W		2	170677	170804	W		2011-02-03	1997-01-28	
-S000000121	ORF	Verified	YBL025W	RRN10		chromosome 2	L000003279	2	171481	171918	W		2011-02-03	1997-01-28	Protein involved in promoting high level transcription of rDNA; subunit of UAF (upstream activation factor) for RNA polymerase I
-S000030749	CDS					YBL025W		2	171481	171918	W		2011-02-03	1997-01-28	
-S000000120	ORF	Verified	YBL024W	NCL1	tRNA (cytosine-C5-)-methyltransferase|TRM4	chromosome 2		2	172534	174588	W		2011-02-03	1997-01-28	S-adenosyl-L-methionine-dependent tRNA: m5C-methyltransferase; methylates cytosine to m5C at several positions in tRNAs and intron-containing pre-tRNAs; increases proportion of tRNALeu(CAA) with m5C at wobble position in response to hydrogen peroxide, causing selective translation of mRNA from genes enriched in TTG codon; loss of NCL1 confers hypersensitivity to oxidative stress; similar to Nop2p and human proliferation associated nucleolar protein p120
-S000030630	CDS					YBL024W		2	172534	174588	W		2011-02-03	1997-01-28	
-S000000119	ORF	Verified	YBL023C	MCM2	MCM DNA helicase complex subunit MCM2	chromosome 2	L000001038	2	177526	174920	C	-31	2011-02-03	1997-01-28	Protein involved in DNA replication; component of the Mcm2-7 hexameric helicase complex that binds chromatin as a part of the pre-replicative complex; relative distribution to the nucleus increases upon DNA replication stress
-S000037739	CDS					YBL023C		2	177526	174920	C		2011-02-03	1997-01-28	
-S000000118	ORF	Verified	YBL022C	PIM1	ATP-dependent Lon protease PIM1|LON1	chromosome 2	L000000949|L000001440	2	181275	177874	C		2011-02-03	1997-01-28	ATP-dependent Lon protease; involved in degradation of misfolded proteins in mitochondria; required for biogenesis and maintenance of mitochondria
-S000037690	CDS					YBL022C		2	181275	177874	C		2011-02-03	1997-01-28	
-S000000117	ORF	Verified	YBL021C	HAP3		chromosome 2	L000000753	2	182094	181660	C		2011-02-03	1997-01-28	Subunit of the Hap2p/3p/4p/5p CCAAT-binding complex; complex is heme-activated and glucose-repressed; complex is a transcriptional activator and global regulator of respiratory gene expression; contains sequences contributing to both complex assembly and DNA binding
-S000037614	CDS					YBL021C		2	182094	181660	C		2011-02-03	1997-01-28	
-S000000116	ORF	Verified	YBL020W	RFT1	glycolipid translocation protein	chromosome 2	L000001626	2	182401	184125	W		2011-02-03	1997-01-28	Membrane protein required for translocation of Man5GlcNac2-PP-Dol; required for translocation of Man5GlcNac2-PP-Dol from the cytoplasmic side to the lumenal side of the ER membrane but is not the flippase; mutation is suppressed by expression of human p53 protein; essential gene
-S000037598	CDS					YBL020W		2	182401	184125	W		2011-02-03	1997-01-28	
-S000000115	ORF	Verified	YBL019W	APN2	DNA-(apurinic or apyrimidinic site) lyase APN2|ETH1	chromosome 2	L000004434	2	184353	185915	W		2011-02-03	1997-01-28	Class II abasic (AP) endonuclease involved in repair of DNA damage; homolog of human HAP1 and E. coli exoIII
-S000037877	CDS					YBL019W		2	184353	185915	W		2011-02-03	1997-01-28	
-S000000114	ORF	Verified	YBL018C	POP8	ribonuclease P	chromosome 2	L000004304	2	186474	185998	C		2011-02-03	1997-01-28	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; relocalizes to the cytosol in response to hypoxia
-S000035953	CDS					YBL018C		2	186352	185998	C		2011-02-03	1997-01-28	
-S000035952	CDS					YBL018C		2	186474	186428	C		2011-02-03	1997-01-28	
-S000035954	intron					YBL018C		2	186427	186353	C		2011-02-03	1997-01-28	
-S000000113	ORF	Verified	YBL017C	PEP1	type I sorting receptor|VPT1|VPS10	chromosome 2	L000001373	2	191583	186844	C	-8	2011-02-03	1997-01-28	Type I transmembrane sorting receptor for multiple vacuolar hydrolases; cycles between the late-Golgi and prevacuolar endosome-like compartments
-S000035832	CDS					YBL017C		2	191583	186844	C		2011-02-03	1997-01-28	
-S000000112	ORF	Verified	YBL016W	FUS3	mitogen-activated serine/threonine-protein kinase FUS3|DAC2	chromosome 2	L000000655	2	192451	193512	W	-5	2011-02-03	1997-01-28	Mitogen-activated serine/threonine protein kinase involved in mating; phosphoactivated by Ste7p; substrates include Ste12p, Far1p, Bni1p, Sst2p; inhibits invasive growth during mating by phosphorylating Tec1p, promoting its; inhibits recruitment of Ste5p, Cdc42p-mediated asymmetry and mating morphogenesis
-S000035775	CDS					YBL016W		2	192451	193512	W		2011-02-03	1997-01-28	
-S000000111	ORF	Verified	YBL015W	ACH1	acetyl-CoA hydrolase	chromosome 2	L000000021	2	194122	195702	W		2011-02-03	1997-01-28	Protein with CoA transferase activity; particularly for CoASH transfer from succinyl-CoA to acetate; has minor acetyl-CoA-hydrolase activity; phosphorylated; required for acetate utilization and for diploid pseudohyphal growth
-S000035656	CDS					YBL015W		2	194122	195702	W		2011-02-03	1997-01-28	
-S000006796	long_terminal_repeat		YBLCdelta7			chromosome 2		2	197320	197016	C		2011-02-03	2000-05-19|2007-04-05	Ty1 LTR
-S000006600	tRNA_gene		tI(AAU)B			chromosome 2	L000003740	2	197494	197567	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000030373	noncoding_exon					tI(AAU)B		2	197494	197567	W		2011-02-03	2000-05-19	
-S000006574	tRNA_gene		tG(GCC)B			chromosome 2	L000003750	2	197699	197629	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000037887	noncoding_exon					tG(GCC)B		2	197699	197629	C		2011-02-03	2000-05-19	
-S000006797	long_terminal_repeat		YBLWsigma1		YBLCsigma1	chromosome 2		2	197714	198054	W		2011-02-03	2000-05-19	Ty3 LTR
-S000118997	ARS		ARS231		ARSII-198|ARS207.5	chromosome 2		2	198313	198473			2014-11-18	2014-11-18|2006-10-02	Autonomously Replicating Sequence
-S000178044	ARS_consensus_sequence					ARS231		2	198385	198369	C		2014-11-18	2014-11-18	
-S000000110	ORF	Verified	YBL014C	RRN6		chromosome 2	L000001772	2	201748	199064	C		2011-02-03	1997-01-28|2011-02-03	Component of the core factor (CF) rDNA transcription factor complex; CF is required for transcription of 35S rRNA genes by RNA polymerase I and is composed of Rrn6p, Rrn7p, and Rrn11p
-S000034605	CDS					YBL014C		2	201748	199064	C		2011-02-03	1997-01-28|2011-02-03	
-S000000109	ORF	Verified	YBL013W	FMT1	methionyl-tRNA formyltransferase	chromosome 2		2	202056	203261	W		2011-02-03	2004-01-29|1997-01-28	Methionyl-tRNA formyltransferase; catalyzes the formylation of initiator Met-tRNA in mitochondria; potential Cdc28p substrate
-S000034585	CDS					YBL013W		2	202056	203261	W		2011-02-03	2004-01-29|1997-01-28	
-S000000107	ORF	Verified	YBL011W	SCT1	bifunctional glycerol-3-phosphate/glycerone-phosphate O-acyltransferase SCT1|GAT2	chromosome 2	L000001820	2	203538	205817	W		2011-02-03	1997-01-28	Glycerol 3-phosphate/dihydroxyacetone phosphate sn-1 acyltransferase; dual substrate-specific acyltransferase of the glycerolipid biosynthesis pathway; prefers 16-carbon fatty acids; similar to Gpt2p; gene is constitutively transcribed
-S000033576	CDS					YBL011W		2	203538	205817	W		2011-02-03	1997-01-28	
-S000000108	ORF	Dubious	YBL012C			chromosome 2		2	203807	203406	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033578	CDS					YBL012C		2	203807	203406	C		2011-02-03	1997-01-28	
-S000000106	ORF	Uncharacterized	YBL010C			chromosome 2		2	206949	206107	C		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein colocalizes with clathrin-coated vesicles
-S000033474	CDS					YBL010C		2	206949	206107	C		2011-02-03	1997-01-28	
-S000000105	ORF	Verified	YBL009W	ALK2	protein kinase ALK2	chromosome 2		2	207194	209224	W		2011-02-03	1997-01-28	Protein kinase; along with its paralog, ALK1, required for proper spindle positioning and nuclear segregation following mitotic arrest, proper organization of cell polarity factors in mitosis, proper localization of formins and polarity factors, and survival in cells that activate spindle assembly checkpoint; phosphorylated in response to DNA damage; ALK2 has a paralog, ALK1, that arose from the whole genome duplication; similar to mammalian haspins
-S000033987	CDS					YBL009W		2	207194	209224	W		2011-02-03	1997-01-28	
-S000028529	ORF	Uncharacterized	YBL008W-A			chromosome 2		2	209409	209648	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000030335	CDS					YBL008W-A		2	209409	209648	W		2011-02-03	2003-07-29	
-S000000104	ORF	Verified	YBL008W	HIR1		chromosome 2	L000000776	2	209653	212175	W		2011-02-03	1997-01-28|2011-02-03	Subunit of the HIR complex; HIR is a nucleosome assembly complex involved in regulation of histone gene transcription; contributes to nucleosome formation, heterochromatic gene silencing, and formation of functional kinetochores
-S000033882	CDS					YBL008W		2	209653	212175	W		2011-02-03	1997-01-28|2011-02-03	
-S000000103	ORF	Verified	YBL007C	SLA1	cytoskeletal protein-binding protein SLA1	chromosome 2	L000001912	2	216366	212632	C		2011-02-03	1997-01-28	Cytoskeletal protein binding protein; required for assembly of the cortical actin cytoskeleton; interacts with proteins regulating actin dynamics and proteins required for endocytosis; found in the nucleus and cell cortex; has 3 SH3 domains
-S000033661	CDS					YBL007C		2	216366	212632	C		2011-02-03	1997-01-28	
-S000028596	ORF	Dubious	YBL006W-A			chromosome 2		2	216711	216860	W		2011-02-03	2004-01-29|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene LDB7/YBL006C
-S000031377	CDS					YBL006W-A		2	216711	216860	W		2011-02-03	2004-01-29|2003-07-29	
-S000000102	ORF	Verified	YBL006C	LDB7	RSC14	chromosome 2		2	217129	216587	C		2011-02-03	2004-01-29|1997-01-28	Component of the RSC chromatin remodeling complex; interacts with Rsc3p, Rsc30p, Npl6p, and Htl1p to form a module important for a broad range of RSC functions
-S000030377	CDS					YBL006C		2	217129	216587	C		2011-02-03	2004-01-29|1997-01-28	
-S000000101	ORF	Verified	YBL005W	PDR3	drug-responsive transcription factor PDR3|TPE2|AMY2	chromosome 2	L000002985|L000001363	2	217470	220400	W	-10	2011-02-03	1997-01-28	Transcriptional activator of the pleiotropic drug resistance network; regulates expression of ATP-binding cassette (ABC) transporters through binding to cis-acting PDRE sites (PDR responsive elements); has a role in response to drugs and organic solvents; post-translationally up-regulated in cells lacking functional mitochondrial genome; involved in diauxic shift; relative distribution to nucleus increases upon DNA replication stress; APCC(Cdh1) substrate
-S000030309	CDS					YBL005W		2	217470	220400	W		2011-02-03	1997-01-28	
-S000006804	long_terminal_repeat		YBLWdelta8			chromosome 2		2	220895	221036	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006805	long_terminal_repeat		YBLWdelta9			chromosome 2		2	221037	221370	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006808	LTR_retrotransposon		YBLWTy1-1		Ty1	chromosome 2		2	221037	226952	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000002146	transposable_element_gene		YBL005W-A		gag protein	chromosome 2		2	221330	222652	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000032539	CDS					YBL005W-A		2	221330	222652	W		2011-02-03	1997-01-28	
-S000002147	transposable_element_gene		YBL005W-B		gag-pol fusion protein	chromosome 2		2	221330	226598	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000032555	CDS					YBL005W-B		2	221330	222634	W		2011-02-03	1997-01-28	
-S000032556	CDS					YBL005W-B		2	222636	226598	W		2011-02-03	1997-01-28	
-S000032557	plus_1_translational_frameshift					YBL005W-B		2	222635	222635	W		2011-02-03	1997-01-28	
-S000006806	long_terminal_repeat		YBLWdelta10			chromosome 2		2	226621	226952	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006720	tRNA_gene		tS(AGA)B			chromosome 2	L000003741	2	227075	227156	W		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000032344	noncoding_exon					tS(AGA)B		2	227075	227156	W		2011-02-03	2000-05-19	
-S000000100	ORF	Verified	YBL004W	UTP20		chromosome 2		2	227636	235117	W		2011-02-03	2001-05-29|1997-01-28	Component of the small-subunit (SSU) processome; SSU processome is involved in the biogenesis of the 18S rRNA
-S000030137	CDS					YBL004W		2	227636	235117	W		2011-02-03	2001-05-29|1997-01-28	
-S000000099	ORF	Verified	YBL003C	HTA2	histone H2A|H2A2	chromosome 2	L000000749|L000000828	2	235792	235394	C	.2	2011-02-03	1997-01-28	Histone H2A; core histone protein required for chromatin assembly and chromosome function; one of two nearly identical (see also HTA1) subtypes; DNA damage-dependent phosphorylation by Mec1p facilitates DNA repair; acetylated by Nat4p
-S000029974	CDS					YBL003C		2	235792	235394	C		2011-02-03	1997-01-28	
-S000000098	ORF	Verified	YBL002W	HTB2	histone H2B	chromosome 2	L000000830	2	236492	236887	W	.2	2011-02-03	1997-01-28	Histone H2B; core histone protein required for chromatin assembly and chromosome function; nearly identical to HTB1; Rad6p-Bre1p-Lge1p mediated ubiquitination regulates reassembly after DNA replication, transcriptional activation, meiotic DSB formation and H3 methylation
-S000037396	CDS					YBL002W		2	236492	236887	W		2011-02-03	1997-01-28	
-S000000097	ORF	Verified	YBL001C	ECM15		chromosome 2	L000003890	2	237467	237153	C		2011-02-03	1997-01-28	Non-essential protein of unknown function; likely exists as tetramer, may be regulated by the binding of small-molecule ligands (possibly sulfate ions), may have a role in yeast cell-wall biogenesis
-S000037284	CDS					YBL001C		2	237467	237153	C		2011-02-03	1997-01-28	
-S000118346	ARS		ARS208		ARSII-238	chromosome 2		2	237787	237900			2014-11-18	2014-11-18|2006-08-30|2011-02-03	Autonomously Replicating Sequence
-S000178045	ARS_consensus_sequence					ARS208		2	237835	237819	C		2014-11-18	2014-11-18	
-S000006464	centromere		CEN2	CEN2		chromosome 2	L000000295	2	238207	238323	W	0	2011-02-03	2000-05-19	Chromosome II centromere
-S000077260	centromere_DNA_Element_I					CEN2		2	238207	238216	W		2011-02-03	2004-10-04	
-S000077261	centromere_DNA_Element_II					CEN2		2	238217	238298	W		2011-02-03	2004-10-04	
-S000077262	centromere_DNA_Element_III					CEN2		2	238299	238323	W		2011-02-03	2004-10-04	
-S000000205	ORF	Verified	YBR001C	NTH2	alpha,alpha-trehalase NTH2	chromosome 2	L000001281	2	241283	238941	C		2011-02-03	1997-01-28	Putative neutral trehalase, required for thermotolerance; may mediate resistance to other cellular stresses; NTH2 has a paralog, NTH1, that arose from the whole genome duplication
-S000034705	CDS					YBR001C		2	241283	238941	C		2011-02-03	1997-01-28	
-S000000206	ORF	Verified	YBR002C	RER2	ditrans,polycis-polyprenyl diphosphate synthase	chromosome 2	L000004874	2	242568	241708	C		2011-02-03	1997-01-28	Forms the dehydrodolichyl diphosphate syntase (DDS) complex with NUS1; major enzyme of polyprenol synthesis in both the endoplasmic reticulum (ER) and in lipid droplets; participates in ER protein sorting; human ortholog DHDDS functionally complements the heat sensitive growth defect of a ts allele, and is associated with retinitis pigmentosa
-S000035641	CDS					YBR002C		2	242568	241708	C		2011-02-03	1997-01-28	
-S000000207	ORF	Verified	YBR003W	COQ1	trans-hexaprenyltranstransferase	chromosome 2	L000000378	2	242809	244230	W		2011-02-03	1997-01-28	Hexaprenyl pyrophosphate synthetase; catalyzes the first step in ubiquinone (coenzyme Q) biosynthesis
-S000035753	CDS					YBR003W		2	242809	244230	W		2011-02-03	1997-01-28	
-S000000208	ORF	Verified	YBR004C	GPI18	GPI-anchor transamidase GPI18|FMP44	chromosome 2		2	245667	244366	C		2011-02-03	1997-01-28|2011-02-03	Functional ortholog of human PIG-V; PIG-V is a mannosyltransferase that transfers the second mannose in glycosylphosphatidylinositol biosynthesis; the authentic, non-tagged protein was localized to mitochondria
-S000035794	CDS					YBR004C		2	245667	244366	C		2011-02-03	1997-01-28|2011-02-03	
-S000000209	ORF	Verified	YBR005W	RCR1	SSH6	chromosome 2		2	245906	246547	W		2011-02-03	1997-01-28	Protein of the ER membrane involved in cell wall chitin deposition; may function in the endosomal-vacuolar trafficking pathway, helping determine whether plasma membrane proteins are degraded or routed to the plasma membrane; RCR1 has a paralog, RCR2, that arose from the whole genome duplication
-S000035989	CDS					YBR005W		2	245906	246547	W		2011-02-03	1997-01-28	
-S000000210	ORF	Verified	YBR006W	UGA2	succinate-semialdehyde dehydrogenase (NAD(P)(+))|UGA5	chromosome 2	S000007516	2	247010	248503	W		2011-02-03	1999-04-26|1997-01-28	Succinate semialdehyde dehydrogenase; involved in the utilization of gamma-aminobutyrate (GABA) as a nitrogen source; part of the 4-aminobutyrate and glutamate degradation pathways; localized to the cytoplasm
-S000036842	CDS					YBR006W		2	247010	248503	W		2011-02-03	1999-04-26|1997-01-28	
-S000000211	ORF	Verified	YBR007C	DSF2		chromosome 2		2	251016	248806	C		2011-02-03	1997-01-28|2011-02-03	Deletion suppressor of mpt5 mutation; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000036880	CDS					YBR007C		2	251016	248806	C		2011-02-03	1997-01-28|2011-02-03	
-S000000212	ORF	Verified	YBR008C	FLR1		chromosome 2	L000003532	2	254209	252563	C		2011-02-03	1997-01-28	Plasma membrane transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; involved in efflux of fluconazole, diazaborine, benomyl, methotrexate, and other drugs; expression induced in cells treated with the mycotoxin patulin; relocalizes from nucleus to plasma membrane upon DNA replication stress
-S000036932	CDS					YBR008C		2	254209	252563	C		2011-02-03	1997-01-28	
-S000114517	ARS		ARS209	ARS209		chromosome 2		2	254998	255083			2014-11-18	2014-11-18|2006-03-02|2011-02-03	Autonomously Replicating Sequence; originally referred to as H4 ARS
-S000178046	ARS_consensus_sequence					ARS209		2	255041	255025	C		2014-11-18	2014-11-18	
-S000000213	ORF	Verified	YBR009C	HHF1	histone H4	chromosome 2	L000000770	2	255684	255373	C		2011-02-03	1997-01-28	Histone H4; core histone protein required for chromatin assembly and chromosome function; one of two identical histone proteins (see also HHF2); contributes to telomeric silencing; N-terminal domain involved in maintaining genomic integrity
-S000037700	CDS					YBR009C		2	255684	255373	C		2011-02-03	1997-01-28	
-S000000214	ORF	Verified	YBR010W	HHT1	histone H3|SIN2|BUR5	chromosome 2	L000000772	2	256331	256741	W		2011-02-03	1997-01-28	Histone H3; core histone protein required for chromatin assembly, part of heterochromatin-mediated telomeric and HM silencing; one of two identical histone H3 proteins (see HHT2); regulated by acetylation, methylation, and phosphorylation; H3K14 acetylation plays an important role in the unfolding of strongly positioned nucleosomes during repair of UV damage
-S000030575	CDS					YBR010W		2	256331	256741	W		2011-02-03	1997-01-28	
-S000000215	ORF	Verified	YBR011C	IPP1	inorganic diphosphatase IPP1|PPA1	chromosome 2	L000000872	2	257975	257112	C		2011-02-03	1997-01-28	Cytoplasmic inorganic pyrophosphatase (PPase); homodimer that catalyzes the rapid exchange of oxygens from Pi with water, highly expressed and essential for viability, active-site residues show identity to those from E. coli PPase
-S000030655	CDS					YBR011C		2	257975	257112	C		2011-02-03	1997-01-28	
-S000006810	long_terminal_repeat		YBRCdelta11			chromosome 2		2	258976	258670	C		2011-02-03	2000-05-19|2007-04-05	Ty1 LTR
-S000000216	ORF	Dubious	YBR012C			chromosome 2		2	259566	259147	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; expression induced by iron-regulated transcriptional activator Aft2p
-S000030768	CDS					YBR012C		2	259566	259147	C		2011-02-03	1997-01-28	
-S000006815	long_terminal_repeat		YBRWdelta12			chromosome 2		2	259578	259909	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006821	LTR_retrotransposon		YBRWTy1-2		Ty1	chromosome 2		2	259578	265494	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000002154	transposable_element_gene		YBR012W-A		gag protein	chromosome 2		2	259869	261191	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000031588	CDS					YBR012W-A		2	259869	261191	W		2011-02-03	1997-01-28	
-S000002155	transposable_element_gene		YBR012W-B		gag-pol fusion protein	chromosome 2		2	259869	265140	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000031594	CDS					YBR012W-B		2	259869	261173	W		2011-02-03	1997-01-28	
-S000031595	CDS					YBR012W-B		2	261175	265140	W		2011-02-03	1997-01-28	
-S000031596	plus_1_translational_frameshift					YBR012W-B		2	261174	261174	W		2011-02-03	1997-01-28	
-S000006816	long_terminal_repeat		YBRWdelta13			chromosome 2		2	265163	265494	W		2011-02-03	2000-05-19	Ty1 LTR
-S000000217	ORF	Uncharacterized	YBR013C			chromosome 2		2	265881	265492	C		2011-02-03	1997-01-28	Putative protein of unknown function; haploid deletion mutant exhibits synthetic phenotype with alpha-synuclein; SWAT-GFP fusion protein localizes to the endoplasmic reticulum while mCherry fusion protein localizes to both the endoplasmic reticulum and vacuole
-S000030875	CDS					YBR013C		2	265881	265492	C		2011-02-03	1997-01-28	
-S000006811	long_terminal_repeat		YBRCdelta14			chromosome 2		2	266256	266178	C		2007-04-05	2000-05-19|2007-04-05	Ty1 LTR
-S000006737	tRNA_gene		tT(AGU)B			chromosome 2	L000003742	2	266378	266450	W		2004-07-16	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000032147	noncoding_exon					tT(AGU)B		2	266378	266450	W		2004-07-16	2000-05-19	
-S000000218	ORF	Verified	YBR014C	GRX7	glutathione-disulfide reductase GRX7	chromosome 2		2	267336	266725	C		2004-07-16	1997-01-28	Cis-golgi localized monothiol glutaredoxin; more similar in activity to dithiol than other monothiol glutaredoxins; involved in the oxidative stress response; does not bind metal ions; GRX7 has a paralog, GRX6, that arose from the whole genome duplication
-S000031840	CDS					YBR014C		2	267336	266725	C		2004-07-16	1997-01-28	
-S000000219	ORF	Verified	YBR015C	MNN2	alpha-1,2-mannosyltransferase MNN2|LDB8|CRV4|TTP1	chromosome 2	L000002385	2	269503	267710	C		2004-07-16	1997-01-28	Alpha-1,2-mannosyltransferase; responsible for addition of the first alpha-1,2-linked mannose to form the branches on the mannan backbone of oligosaccharides, localizes to an early Golgi compartment
-S000032017	CDS					YBR015C		2	269503	267710	C		2004-07-16	1997-01-28	
-S000000220	ORF	Verified	YBR016W			chromosome 2		2	270247	270633	W		2004-07-16	1997-01-28	Tail-anchored plasma membrane protein with a conserved CYSTM module; predicted to be palmitoylated; has similarity to hydrophilins, which are involved in the adaptive response to hyperosmotic conditions; YBR016W has a paralog, YDL012C, that arose from the whole genome duplication
-S000032998	CDS					YBR016W		2	270247	270633	W		2004-07-16	1997-01-28	
-S000000221	ORF	Verified	YBR017C	KAP104		chromosome 2	L000003444	2	273703	270947	C		2004-07-16	1997-01-28	Transportin or cytosolic karyopherin beta 2; functions in the rg-nuclear localization signal-mediated nuclear import/reimport of mRNA-binding proteins Nab2p and Hrp1p; regulates asymmetric protein synthesis in daughter cells during mitosis
-S000033056	CDS					YBR017C		2	273703	270947	C		2004-07-16	1997-01-28	
-S000000222	ORF	Verified	YBR018C	GAL7	UDP-glucose:hexose-1-phosphate uridylyltransferase	chromosome 2	L000000662	2	275527	274427	C	7	2004-07-16	1997-01-28	Galactose-1-phosphate uridyl transferase; synthesizes glucose-1-phosphate and UDP-galactose from UDP-D-glucose and alpha-D-galactose-1-phosphate in the second step of galactose catabolism; human homolog UGP2 can complement yeast null mutant
-S000033134	CDS					YBR018C		2	275527	274427	C		2004-07-16	1997-01-28	
-S000000223	ORF	Verified	YBR019C	GAL10	bifunctional UDP-glucose 4-epimerase/aldose 1-epimerase	chromosome 2	L000000663	2	278352	276253	C	7	2004-07-16	1997-01-28	UDP-glucose-4-epimerase; catalyzes interconversion of UDP-galactose and UDP-D-glucose in galactose metabolism; also catalyzes conversion of alpha-D-glucose or alpha-D-galactose to their beta-anomers; human homolog GALE implicated in galactosemia, can complement yeast null mutant
-S000033206	CDS					YBR019C		2	278352	276253	C		2004-07-16	1997-01-28	
-S000000224	ORF	Verified	YBR020W	GAL1	galactokinase	chromosome 2	L000000658	2	279021	280607	W	7	2004-07-16	1997-01-28	Galactokinase; phosphorylates alpha-D-galactose to alpha-D-galactose-1-phosphate in the first step of galactose catabolism; expression regulated by Gal4p; human homolog GALK2 complements yeast null mutant; GAL1 has a paralog, GAL3, that arose from the whole genome duplication
-S000034916	CDS					YBR020W		2	279021	280607	W		2004-07-16	1997-01-28	
-S000000225	ORF	Verified	YBR021W	FUR4	uracil permease	chromosome 2	L000000652	2	281443	283344	W	8	2004-07-16	1997-01-28	Plasma membrane localized uracil permease; expression is tightly regulated by uracil levels and environmental cues; conformational alterations induced by unfolding or substrate binding result in Rsp5p-mediated ubiquitination and degradation
-S000035064	CDS					YBR021W		2	281443	283344	W		2004-07-16	1997-01-28	
-S000000226	ORF	Verified	YBR022W	POA1	ADP-ribose 1''-phosphate phosphatase	chromosome 2		2	283738	284271	W		2004-07-16	1997-01-28	Phosphatase that is highly specific for ADP-ribose 1''-phosphate; a tRNA splicing metabolite; may have a role in regulation of tRNA splicing
-S000035171	CDS					YBR022W		2	283738	284271	W		2004-07-16	1997-01-28	
-S000000227	ORF	Verified	YBR023C	CHS3	chitin synthase CHS3|KTI2|DIT101|CSD2|CAL1	chromosome 2	L000000331	2	287925	284428	C	9	2004-07-16	1997-01-28	Chitin synthase III; catalyzes the transfer of N-acetylglucosamine (GlcNAc) to chitin; required for synthesis of the majority of cell wall chitin, the chitin ring during bud emergence, and spore wall chitosan; contains overlapping di-leucine and di-acidic signals that mediate, respectively, intracellular trafficking by AP-1 and trafficking to plasma membrane by exomer complex; requires AP-3 complex for its intracellular retention
-S000035205	CDS					YBR023C		2	287925	284428	C		2004-07-16	1997-01-28	
-S000000228	ORF	Verified	YBR024W	SCO2	putative thioredoxin peroxidase SCO2	chromosome 2	L000001816	2	289445	290350	W		2004-07-16	1997-01-28	Protein anchored to mitochondrial inner membrane; may have a redundant function with Sco1p in delivery of copper to cytochrome c oxidase; interacts with Cox2p; SCO2 has a paralog, SCO1, that arose from the whole genome duplication
-S000036144	CDS					YBR024W		2	289445	290350	W		2004-07-16	1997-01-28	
-S000000229	ORF	Verified	YBR025C	OLA1	Obg-like ATPase	chromosome 2		2	291865	290681	C		2004-07-16	1997-01-28	P-loop ATPase with similarity to human OLA1 and bacterial YchF; identified as specifically interacting with the proteasome; null mutant displays increased translation rate and increased readthrough of premature stop codons; protein abundance increases in response to hydrogen peroxide and to DNA replication stress
-S000036196	CDS					YBR025C		2	291865	290681	C		2004-07-16	1997-01-28	
-S000000230	ORF	Verified	YBR026C	ETR1	MRF1'|MRF1	chromosome 2	L000002810	2	294019	292877	C		2004-07-16	1997-01-28	2-enoyl thioester reductase; member of the medium chain dehydrogenase/reductase family; localized to mitochondria, where it has a probable role in fatty acid synthesis; human MECR functionally complements the respiratory growth defect of the null mutant
-S000031678	CDS					YBR026C		2	294019	292877	C		2004-07-16	1997-01-28	
-S000000231	ORF	Uncharacterized	YBR027C			chromosome 2		2	294356	294024	C		2004-07-16	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YBR027C is not an essential gene
-S000031824	CDS					YBR027C		2	294356	294024	C		2004-07-16	1997-01-28	
-S000000232	ORF	Verified	YBR028C	YPK3	putative protein kinase YPK3	chromosome 2		2	296002	294425	C		2004-07-16	1997-01-28	AGC kinase; phosphorylated by cAMP-dependent protein kinase (PKA) in a TORC1-dependent manner; directly phosphorylated by TORC1; phosphorylates ribosomal protein Rps6a/b (S6), in a TORC-dependent manner; undergoes autophosphorylation
-S000031957	CDS					YBR028C		2	296002	294425	C		2004-07-16	1997-01-28	
-S000000233	ORF	Verified	YBR029C	CDS1	phosphatidate cytidylyltransferase|CDG1	chromosome 2	L000002673	2	297742	296369	C		2004-07-16	1997-01-28	Phosphatidate cytidylyltransferase (CDP-diglyceride synthetase); an enzyme that catalyzes that conversion of CTP + phosphate into diphosphate + CDP-diaclglyerol, a critical step in the synthesis of all major yeast phospholipids; human homolog CDS1 can complement yeast cds1 null mutant
-S000037428	CDS					YBR029C		2	297742	296369	C		2004-07-16	1997-01-28	
-S000000234	ORF	Verified	YBR030W	RKM3	protein-lysine N-methyltransferase	chromosome 2		2	298292	299950	W		2004-07-16	1997-01-28	Ribosomal lysine methyltransferase; specific for monomethylation of Rpl42ap and Rpl42bp (lysine 40); nuclear SET domain containing protein; relocalizes to the cytosol in response to hypoxia
-S000037095	CDS					YBR030W		2	298292	299950	W		2004-07-16	1997-01-28	
-S000000235	ORF	Verified	YBR031W	RPL4A	uL4|ribosomal 60S subunit protein L4A|L4|rp2|YL2|L4A|L2A	chromosome 2	L000001701	2	300166	301254	W		2004-07-16	1997-01-28	Ribosomal 60S subunit protein L4A; N-terminally acetylated; homologous to mammalian ribosomal protein L4 and bacterial L4; RPL4A has a paralog, RPL4B, that arose from the whole genome duplication
-S000037181	CDS					YBR031W		2	300166	301254	W		2004-07-16	1997-01-28	
-S000000236	ORF	Uncharacterized	YBR032W			chromosome 2		2	301519	301821	W		2004-07-16	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YBR032W is not an essential gene
-S000037283	CDS					YBR032W		2	301519	301821	W		2004-07-16	1997-01-28	
-S000000237	ORF	Uncharacterized	YBR033W	EDS1		chromosome 2		2	301944	304703	W		2004-07-16	1997-01-28	Putative zinc cluster protein, predicted to be a transcription factor; not an essential gene; EDS1 has a paralog, RGT1, that arose from the whole genome duplication
-S000037351	CDS					YBR033W		2	301944	304703	W		2004-07-16	1997-01-28	
-S000000238	ORF	Verified	YBR034C	HMT1	protein-arginine omega-N  methyltransferase HMT1|RMT1|ODP1|HCP1	chromosome 2	L000002808|L000001296	2	305976	304930	C		2004-07-16	1997-01-28	Nuclear SAM-dependent mono- and asymmetric methyltransferase; modifies hnRNPs, including Npl3p and Hrp1p, affecting their activity and nuclear export; methylates U1 snRNP protein Snp1p, ribosomal protein Rps2p, and histones H3 and H4; interacts genetically with genes encoding components of Rpd3(L) and this interaction is important for Rpd3 recruitment to the subtelomeric region
-S000037372	CDS					YBR034C		2	305976	304930	C		2004-07-16	1997-01-28	
-S000000239	ORF	Verified	YBR035C	PDX3	pyridoxamine-phosphate oxidase PDX3	chromosome 2	L000001371	2	306955	306269	C		2004-07-16	1997-01-28	Pyridoxine (pyridoxamine) phosphate oxidase; has homologs in E. coli and Myxococcus xanthus; transcription is under the general control of nitrogen metabolism
-S000030013	CDS					YBR035C		2	306955	306269	C		2004-07-16	1997-01-28	
-S000087162	snoRNA_gene		snR161	SNR161		chromosome 2		2	307345	307185	C		2005-11-10	2005-11-10	H/ACA small nucleolar RNA (snoRNA); guides pseudouridylation of small subunit (SSU) rRNA at positions U632 and U766
-S000087163	noncoding_exon					snR161		2	307345	307185	C		2005-11-10	2005-11-10	
-S000006657	telomerase_RNA_gene		TLC1	TLC1	TER1	chromosome 2	L000002315	2	307587	308887	W		2004-07-16	2000-05-19	RNA template component of telomerase; flexible scaffold that tethers telomerase holoenzyme protein subunits to the complex; contains template sequence that Est2p uses to add irregular repeats of TG(1-3) residues onto a DNA end; promoter regulated by the cell cycle dependent transcriptional activators Swi4p/Swi6p and Mbp1p/Swi6p
-S000033066	noncoding_exon					TLC1		2	307587	308887	W		2004-07-16	2000-05-19	
-S000000240	ORF	Verified	YBR036C	CSG2	mannosylinositol phosphorylceramide synthase regulatory subunit|CLS2	chromosome 2	L000002979|L000000427	2	310313	309081	C		2004-07-16	1997-01-28	Endoplasmic reticulum membrane protein; required for mannosylation of inositolphosphorylceramide and for growth at high calcium concentrations; protein abundance increases in response to DNA replication stress
-S000030091	CDS					YBR036C		2	310313	309081	C		2004-07-16	1997-01-28	
-S000000241	ORF	Verified	YBR037C	SCO1	Cu-binding protein SCO1|PET161	chromosome 2	L000001815	2	311452	310565	C		2011-02-03	1997-01-28	Copper-binding protein of mitochondrial inner membrane; required for cytochrome c oxidase activity and respiration; may function to deliver copper to cytochrome c oxidase; similar to thioredoxins; SCO1 has a paralog, SCO2, that arose from the whole genome duplication
-S000030247	CDS					YBR037C		2	311452	310565	C		2011-02-03	1997-01-28	
-S000000242	ORF	Verified	YBR038W	CHS2	chitin synthase CHS2	chromosome 2	L000000330	2	311898	314789	W		2011-02-03	1997-01-28	Chitin synthase II; catalyzes transfer of N-acetylglucosamine (GlcNAc) to chitin upon activation of zymogenic form; required for chitin synthesis in the primary septum during cytokinesis; localization regulated by Cdk1p during mitosis; phosphorylation by Dbf2p kinase regulates its dynamics and chitin synthesis during cytokinesis
-S000033656	CDS					YBR038W		2	311898	314789	W		2011-02-03	1997-01-28	
-S000000243	ORF	Verified	YBR039W	ATP3	F1F0 ATP synthase subunit gamma	chromosome 2	L000000143	2	315575	316510	W		2004-07-16	1997-01-28	Gamma subunit of the F1 sector of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis
-S000033784	CDS					YBR039W		2	315575	316510	W		2004-07-16	1997-01-28	
-S000000244	ORF	Verified	YBR040W	FIG1		chromosome 2	L000003311	2	316968	317864	W		2004-07-16	1997-01-28	Integral membrane protein required for efficient mating; may participate in or regulate the low affinity Ca2+ influx system, which affects intracellular signaling and cell-cell fusion during mating
-S000033389	CDS					YBR040W		2	316968	317864	W		2004-07-16	1997-01-28	
-S000000245	ORF	Verified	YBR041W	FAT1	long-chain fatty acid transporter FAT1	chromosome 2	L000003201	2	318266	320275	W		2004-07-16	2004-01-21|1997-01-28	Very long chain fatty acyl-CoA synthetase and fatty acid transporter; activates imported fatty acids with a preference for very long lengths (C20-C26); has a separate function in the transport of long chain fatty acids
-S000033461	CDS					YBR041W		2	318266	320275	W		2004-07-16	2004-01-21|1997-01-28	
-S000000246	ORF	Verified	YBR042C	CST26	putative acyltransferase|PSI1	chromosome 2		2	321609	320416	C		2004-07-16	1997-01-28	Acyltransferase; enzyme mainly responsible for the introduction of saturated very long chain fatty acids into neo-synthesized molecules of phosphatidylinositol; required for incorporation of stearic acid into phosphatidylinositol; affects chromosome stability when overexpressed; CST26 has a paralog, YDR018C, that arose from the whole genome duplication
-S000033482	CDS					YBR042C		2	321609	320416	C		2004-07-16	1997-01-28	
-S000000247	ORF	Verified	YBR043C	QDR3	AQR2	chromosome 2		2	323945	321876	C		2004-07-16	1997-01-28|2011-02-03	Multidrug transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; has a role in polyamine homeostasis; involved in spore wall asembly; sequence similarity to DTR1 and QDR1, and the triple mutant dtr1 qdr1 qdr3 exhibits reduced dityrosine fluorescence relative to the single mutants; expression is upregulated under polyamine stress; required for resistance to quinidine, barban, cisplatin, and bleomycin
-S000033571	CDS					YBR043C		2	323945	321876	C		2004-07-16	1997-01-28|2011-02-03	
-S000000248	ORF	Verified	YBR044C	TCM62		chromosome 2		2	326059	324341	C		2011-02-03	1997-01-28|2011-02-03	Protein involved in assembly of the succinate dehydrogenase complex; mitochondrial; putative chaperone
-S000033606	CDS					YBR044C		2	326059	324341	C		2011-02-03	1997-01-28|2011-02-03	
-S000118347	ARS		ARS211		ARSII-326	chromosome 2		2	326140	326375			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178047	ARS_consensus_sequence					ARS211		2	326153	326169	W		2014-11-18	2014-11-18	
-S000006769	tRNA_gene		tV(UAC)B			chromosome 2	L000003749	2	326865	326792	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000036275	noncoding_exon					tV(UAC)B		2	326865	326792	C		2011-02-03	2000-05-19	
-S000006817	long_terminal_repeat		YBRWdelta15			chromosome 2		2	327069	327394	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006818	long_terminal_repeat		YBRWdelta16			chromosome 2		2	327390	327704	W		2011-02-03	2000-05-19	Ty1 LTR
-S000000249	ORF	Verified	YBR045C	GIP1	protein phosphatase regulator GIP1	chromosome 2	L000003092	2	330092	328173	C		2011-02-03	1997-01-28|2011-02-03	Meiosis-specific regulatory subunit of the Glc7p protein phosphatase; regulates spore wall formation and septin organization, required for expression of some late meiotic genes and for normal localization of Glc7p
-S000034552	CDS					YBR045C		2	330092	328173	C		2011-02-03	1997-01-28|2011-02-03	
-S000000250	ORF	Verified	YBR046C	ZTA1	NADPH:quinone reductase	chromosome 2	L000004168	2	331511	330507	C		2011-02-03	1997-01-28	NADPH-dependent quinone reductase; GFP-tagged protein localizes to the cytoplasm and nucleus; has similarity to E. coli quinone oxidoreductase and to human zeta-crystallin
-S000034640	CDS					YBR046C		2	331511	330507	C		2011-02-03	1997-01-28	
-S000000251	ORF	Uncharacterized	YBR047W	FMP23		chromosome 2		2	331833	332360	W		2011-02-03	1997-01-28	Putative protein of unknown function; proposed to be involved in iron or copper homeostasis; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000035689	CDS					YBR047W		2	331833	332360	W		2011-02-03	1997-01-28	
-S000000252	ORF	Verified	YBR048W	RPS11B	uS17|ribosomal 40S subunit protein S11B|S17|rp41B|YS12|S18B|S11B	chromosome 2	L000001758	2	332831	333812	W		2011-02-03	1997-01-28	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S11 and bacterial S17; RPS11B has a paralog, RPS11A, that arose from the whole genome duplication
-S000035808	CDS					YBR048W		2	332831	332875	W		2011-02-03	1997-01-28	
-S000035809	CDS					YBR048W		2	333387	333812	W		2011-02-03	1997-01-28	
-S000035810	intron					YBR048W		2	332876	333386	W		2011-02-03	1997-01-28	
-S000000253	ORF	Verified	YBR049C	REB1	DNA-binding protein REB1|GRF2	chromosome 2	L000001601	2	336818	334386	C		2011-02-03	1997-01-28	RNA polymerase I enhancer binding protein; DNA binding protein that binds to genes transcribed by both RNA polymerase I and RNA polymerase II; required for termination of RNA polymerase I transcription; Reb1p bound to DNA acts to block RNA polymerase II readthrough transcription
-S000035873	CDS					YBR049C		2	336818	334386	C		2011-02-03	1997-01-28	
-S000000255	ORF	Dubious	YBR051W			chromosome 2		2	337988	338338	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the REG2/YBR050C regulatory subunit of the Glc7p type-1 protein phosphatase
-S000036875	CDS					YBR051W		2	337988	338338	W		2011-02-03	1997-01-28	
-S000000254	ORF	Verified	YBR050C	REG2	protein phosphatase regulator REG2	chromosome 2	L000004126	2	338199	337183	C		2011-02-03	1997-01-28	Regulatory subunit of the Glc7p type-1 protein phosphatase; involved with Reg1p, Glc7p, and Snf1p in regulation of glucose-repressible genes, also involved in glucose-induced proteolysis of maltose permease; REG2 has a paralog, REG1, that arose from the whole genome duplication
-S000036783	CDS					YBR050C		2	338199	337183	C		2011-02-03	1997-01-28	
-S000000256	ORF	Verified	YBR052C	RFS1	flavodoxin-like fold family protein	chromosome 2		2	339352	338720	C		2011-02-03	1997-01-28	Protein of unknown function; member of a flavodoxin-like fold protein family that includes Pst2p and Ycp4p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; RFS1 has a paralog, PST2, that arose from the whole genome duplication
-S000037575	CDS					YBR052C		2	339352	338720	C		2011-02-03	1997-01-28	
-S000000257	ORF	Uncharacterized	YBR053C			chromosome 2		2	340751	339675	C		2011-02-03	1997-01-28	Putative protein of unknown function; induced by cell wall perturbation
-S000037643	CDS					YBR053C		2	340751	339675	C		2011-02-03	1997-01-28	
-S000000258	ORF	Verified	YBR054W	YRO2		chromosome 2	L000002548	2	343101	344135	W		2011-02-03	1997-01-28	Protein with a putative role in response to acid stress; null mutant is sensitive to acetic acid; transcription is regulated by Haa1p and induced in the presence of acetic acid; protein observed in plasma membrane foci in the presence of acetic acid; the authentic, non-tagged protein is detected in a phosphorylated state in highly purified mitochondria in high-throughput studies
-S000037737	CDS					YBR054W		2	343101	344135	W		2011-02-03	1997-01-28	
-S000000259	ORF	Verified	YBR055C	PRP6	U4/U6-U5 snRNP complex subunit PRP6|TSM7269|RNA6	chromosome 2	L000001499	2	347301	344602	C	33	2011-02-03	1997-01-28	Splicing factor; component of the U4/U6-U5 snRNP complex
-S000037759	CDS					YBR055C		2	347301	344602	C		2011-02-03	1997-01-28	
-S000006648	tRNA_gene		tL(UAA)B2			chromosome 2	L000003743	2	347603	347686	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000035757	noncoding_exon					tL(UAA)B2		2	347603	347686	W		2011-02-03	2000-05-19	
-S000000260	ORF	Verified	YBR056W		17-beta-hydroxysteroid dehydrogenase-like protein	chromosome 2		2	347879	349384	W		2011-02-03	1997-01-28	Putative glycoside hydrolase of the mitochondrial intermembrane space
-S000030661	CDS					YBR056W		2	347879	349384	W		2011-02-03	1997-01-28	
-S000006819	long_terminal_repeat		YBRWdelta17			chromosome 2		2	350459	350751	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006691	tRNA_gene		tQ(UUG)B			chromosome 2	L000003744	2	350827	350898	W		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000031659	noncoding_exon					tQ(UUG)B		2	350827	350898	W		2011-02-03	2000-05-19	
-S000028736	ORF	Uncharacterized	YBR056W-A			chromosome 2		2	351255	351455	W		2011-02-03	2003-07-29	Protein of unknown function; mRNA identified as translated by ribosome profiling data; partially overlaps dubious ORF YBR056C-B; YBR056W-A has a paralog, YDR034W-B, that arose from the whole genome duplication
-S000033380	CDS					YBR056W-A		2	351255	351455	W		2011-02-03	2003-07-29	
-S000087087	ORF	Dubious	YBR056C-B			chromosome 2		2	351451	351293	C		2011-02-03	2005-11-08	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the dubious ORF YBR056W-A
-S000087088	CDS					YBR056C-B		2	351451	351293	C		2011-02-03	2005-11-08	
-S000000261	ORF	Verified	YBR057C	MUM2	SPOT8	chromosome 2	L000003595|L000002013	2	353293	352193	C	31	2011-02-03	1997-01-28	Protein essential for meiotic DNA replication and sporulation; cytoplasmic protein; subunit of the MIS complex which controls mRNA methylation during during the induction of sporulation; also interacts with Orc2p, which is a component of the origin recognition complex
-S000030712	CDS					YBR057C		2	353293	352193	C		2011-02-03	1997-01-28	
-S000000262	ORF	Verified	YBR058C	UBP14	ubiquitin-specific protease UBP14|GID6	chromosome 2	L000003173	2	356017	353672	C		2011-02-03	2003-09-22|1997-01-28	Ubiquitin-specific protease; specifically disassembles unanchored ubiquitin chains; involved in fructose-1,6-bisphosphatase (Fbp1p) degradation; similar to human isopeptidase T
-S000030826	CDS					YBR058C		2	356017	353672	C		2011-02-03	2003-09-22|1997-01-28	
-S000007521	ORF	Verified	YBR058C-A	TSC3		chromosome 2		2	356566	356324	C		2011-02-03	2000-06-19	Protein that stimulates the activity of serine palmitoyltransferase;  involved in sphingolipid biosynthesis; Lcb1p and Lcb2p are the two components of serine palmitoyltransferase
-S000036279	CDS					YBR058C-A		2	356566	356324	C		2011-02-03	2000-06-19	
-S000000263	ORF	Verified	YBR059C	AKL1	serine/threonine protein kinase AKL1	chromosome 2	S000007479	2	360187	356861	C		2011-02-03	1997-01-28	Ser-Thr protein kinase; member (with Ark1p and Prk1p) of the Ark kinase family; involved in endocytosis and actin cytoskeleton organization
-S000031795	CDS					YBR059C		2	360187	356861	C		2011-02-03	1997-01-28	
-S000000264	ORF	Verified	YBR060C	ORC2	origin recognition complex subunit 2|SIR5|RRR1	chromosome 2	L000001776	2	362514	360652	C		2011-02-03	1997-01-28	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; interacts with Spp1p and with trimethylated histone H3; phosphorylated by Cdc28p
-S000031761	CDS					YBR060C		2	362514	360652	C		2011-02-03	1997-01-28	
-S000000265	ORF	Verified	YBR061C	TRM7	tRNA methyltransferase TRM7	chromosome 2		2	365719	364787	C		2011-02-03	1997-01-28	2'-O-ribose methyltransferase; methylates the 2'-O-ribose of tRNA-Phe, tRNA-Trp, and tRNA-Leu at positions C32 and N34 of tRNA anticodon loop; crucial biological role likely modification of tRNA-Phe; interacts with Trm732p and Rtt10p in 2'-O-methylation of C32 and N34 substrate tRNAs, respectively; yeast null mutant can be functionally complemented by human FTSJ1, mutations in which have been implicated in nonsyndromic X-linked intellectual disability (NSXLID)
-S000031905	CDS					YBR061C		2	365719	364787	C		2011-02-03	1997-01-28	
-S000000266	ORF	Uncharacterized	YBR062C			chromosome 2		2	366600	365976	C		2011-02-03	2004-07-16|1997-01-28	Protein of unknown function that interacts with Msb2p; may play a role in activation of the filamentous growth pathway
-S000032827	CDS					YBR062C		2	366502	365976	C		2011-02-03	2004-07-16|1997-01-28	
-S000032826	CDS					YBR062C		2	366600	366585	C		2011-02-03	2004-07-16	
-S000032828	intron					YBR062C		2	366584	366503	C		2011-02-03	2004-07-16	
-S000000268	ORF	Dubious	YBR064W			chromosome 2		2	367763	368191	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YBR063C
-S000033067	CDS					YBR064W		2	367763	368191	W		2011-02-03	1997-01-28	
-S000000267	ORF	Uncharacterized	YBR063C			chromosome 2		2	368184	366970	C		2011-02-03	1997-01-28	Putative protein of unknown function; YBR063C is not an essential gene
-S000032899	CDS					YBR063C		2	368184	366970	C		2011-02-03	1997-01-28	
-S000000269	ORF	Verified	YBR065C	ECM2	SLT11	chromosome 2	L000003878	2	369678	368584	C		2011-02-03	1997-01-28	Pre-mRNA splicing factor; facilitates the cooperative formation of U2/U6 helix II in association with stem II in the spliceosome, function may be regulated by Slu7p
-S000033674	CDS					YBR065C		2	369678	368584	C		2011-02-03	1997-01-28	
-S000000270	ORF	Verified	YBR066C	NRG2		chromosome 2	L000004599	2	370699	370037	C		2011-02-03	1997-01-28	Transcriptional repressor; mediates glucose repression and negatively regulates filamentous growth; activated in stochastic pulses of nuclear localization in response to low glucose
-S000033763	CDS					YBR066C		2	370699	370037	C		2011-02-03	1997-01-28	
-S000000271	ORF	Verified	YBR067C	TIP1	putative lipase	chromosome 2	L000002311	2	372735	372103	C		2011-02-03	1997-01-28	Major cell wall mannoprotein with possible lipase activity; transcription is induced by heat- and cold-shock; member of the Srp1p/Tip1p family of serine-alanine-rich proteins
-S000033875	CDS					YBR067C		2	372735	372103	C		2011-02-03	1997-01-28	
-S000000272	ORF	Verified	YBR068C	BAP2	branched-chain amino acid permease BAP2	chromosome 2	L000003157	2	375690	373861	C		2011-02-03	1997-01-28|2011-02-03	High-affinity leucine permease; functions as a branched-chain amino acid permease involved in uptake of leucine, isoleucine and valine; contains 12 predicted transmembrane domains; BAP2 has a paralog, BAP3, that arose from the whole genome duplication
-S000034014	CDS					YBR068C		2	375690	373861	C		2011-02-03	1997-01-28|2011-02-03	
-S000000273	ORF	Verified	YBR069C	TAT1	amino acid transporter TAT1|VAP1|TAP1	chromosome 2	L000002454|L000002262	2	378433	376574	C		2011-02-03	1997-01-28	Amino acid transporter for valine, leucine, isoleucine, and tyrosine; low-affinity tryptophan and histidine transporter; overexpression confers FK506 and FTY720 resistance; protein abundance increases in response to DNA replication stress
-S000034884	CDS					YBR069C		2	378433	376574	C		2011-02-03	1997-01-28	
-S000130151	ARS		ARS212		ARSII-379	chromosome 2		2	379221	379912			2011-02-03	2009-05-07	Autonomously Replicating Sequence
-S000000274	ORF	Verified	YBR070C	ALG14	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase anchoring subunit ALG14	chromosome 2		2	379934	379221	C		2011-02-03	1997-01-28	Component of UDP-GlcNAc transferase; required for second step of dolichyl-linked oligosaccharide synthesis; anchors catalytic subunit Alg13p to ER membrane; similar to bacterial and human glycosyltransferases; both human homologs ALG13 and ALG14 are required to complement yeast alg14 mutant
-S000035895	CDS					YBR070C		2	379934	379221	C		2011-02-03	1997-01-28	
-S000000275	ORF	Verified	YBR071W			chromosome 2		2	380411	381046	W		2011-02-03	1997-01-28	Protein of unknown function found in the cytoplasm and bud neck; mRNA expression may be regulated by the cell cycle and/or cell wall stress; overexpression of YBR071W affects endocytic protein trafficking
-S000036135	CDS					YBR071W		2	380411	381046	W		2011-02-03	1997-01-28	
-S000000276	ORF	Verified	YBR072W	HSP26	chaperone protein HSP26	chromosome 2	L000000817	2	382030	382674	W		2011-02-03	1997-01-28	Small heat shock protein (sHSP) with chaperone activity; forms hollow, sphere-shaped oligomers that suppress unfolded proteins aggregation; long-lived protein that is preferentially retained in mother cells and forms cytoplasmic foci; oligomer activation requires heat-induced conformational change; also has mRNA binding activity
-S000036920	CDS					YBR072W		2	382030	382674	W		2011-02-03	1997-01-28	
-S000028532	ORF	Uncharacterized	YBR072C-A			chromosome 2		2	383021	382860	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031141	CDS					YBR072C-A		2	383021	382860	C		2011-02-03	2003-07-29	
-S000000277	ORF	Verified	YBR073W	RDH54	DNA-dependent ATPase RDH54|TID1	chromosome 2	L000002988|L000003224	2	383112	385988	W		2011-02-03	2003-09-22|1997-01-28|2009-05-07|2011-02-03	DNA-dependent ATPase; DNA recombination/repair translocase, supercoils DNA and promotes DNA strand opening; stimulates strand exchange by modifying dsDNA topology; involved in recombinational repair of DNA double-strand breaks (DSBs) during mitosis and meiosis; phosphorylated in Mec1p-, Rad53p-dependent way in response to one DSB; contributes to remodelling of nucleosomes; proposed to be involved in crossover interference; interacts with Dmc1p; stimulates Dmc1p and Rad51p
-S000036971	CDS					YBR073W		2	383112	385988	W		2011-02-03	2003-09-22|1997-01-28|2009-05-07|2011-02-03	
-S000000278	ORF	Verified	YBR074W	PFF1	YBR075W	chromosome 2		2	386286	389216	W		2011-02-03	2003-09-29|1997-01-28|2011-02-03	Multi-spanning vacuolar membrane protease; glycosylated transmembrane protein bearing homology to the M28 family of metalloproteases; has a lumenal-facing protease domain; proposed role in vacuole physiology
-S000037055	CDS					YBR074W		2	386286	389216	W		2011-02-03	2003-09-29|1997-01-28|2011-02-03	
-S000130152	ARS		ARS213		ARSII-390	chromosome 2		2	389212	390371			2011-02-03	2009-05-07|2011-02-03	Autonomously Replicating Sequence
-S000000280	ORF	Verified	YBR076W	ECM8		chromosome 2	L000003883	2	390227	391291	W		2011-02-03	1997-01-28|2011-02-03	Non-essential protein of unknown function
-S000037886	CDS					YBR076W		2	390227	391291	W		2011-02-03	1997-01-28|2011-02-03	
-S000028533	ORF	Dubious	YBR076C-A			chromosome 2		2	391617	391351	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene ECM8; identified by fungal homology and RT-PCR
-S000031142	CDS					YBR076C-A		2	391617	391351	C		2011-02-03	2003-07-29	
-S000000281	ORF	Verified	YBR077C	SLM4	GSE1|NIR1|EGO3	chromosome 2		2	392293	391805	C		2011-02-03	1997-01-28	Component of the EGO and GSE complexes; essential for integrity and function of EGO; EGO is involved in the regulation of microautophagy and GSE is required for proper sorting of amino acid permease Gap1p; gene exhibits synthetic genetic interaction with MSS4
-S000029854	CDS					YBR077C		2	392293	391805	C		2011-02-03	1997-01-28	
-S000000282	ORF	Verified	YBR078W	ECM33		chromosome 2	L000003902	2	393123	394742	W		2011-02-03	1997-01-28|2011-02-03	GPI-anchored protein of unknown function; possible role in apical bud growth; GPI-anchoring on the plasma membrane crucial to function; phosphorylated in mitochondria; similar to Sps2p; ECM33 has a paralog, PST1, that arose from the whole genome duplication
-S000030046	CDS					YBR078W		2	393123	393180	W		2011-02-03	1997-01-28	
-S000030047	CDS					YBR078W		2	393511	394742	W		2011-02-03	1997-01-28|2011-02-03	
-S000030048	intron					YBR078W		2	393181	393510	W		2011-02-03	1997-01-28	
-S000000283	ORF	Verified	YBR079C	RPG1	translation initiation factor eIF3 core subunit a|TIF32	chromosome 2	L000004268	2	398277	395383	C		2011-02-03	1997-01-28	eIF3a subunit of the eukaryotic translation initiation factor 3 (eIF3); subunit of the core complex of eIF3; essential for translation; part of a Prt1p-Rpg1p-Nip1p subcomplex that stimulates binding of mRNA and tRNA(i)Met to ribosomes; involved in translation reinitiation; eIF3 is also involved in programmed stop codon readthrough
-S000030963	CDS					YBR079C		2	398277	395383	C		2011-02-03	1997-01-28	
-S000000284	ORF	Verified	YBR080C	SEC18	AAA family ATPase SEC18|ANU4	chromosome 2	L000001842	2	400890	398614	C	48	2011-02-03	1997-01-28	AAA ATPase and SNARE disassembly chaperone; required for vesicular transport between ER and Golgi, the 'priming' step in homotypic vacuole fusion, autophagy, and protein secretion; releases Sec17p from SNAP complexes; has similarity to mammalian N-ethylmaleimide-sensitive factor (NSF)
-S000031072	CDS					YBR080C		2	400890	398614	C		2011-02-03	1997-01-28	
-S000000285	ORF	Verified	YBR081C	SPT7	SAGA histone acetyltransferase complex subunit SPT7|GIT2	chromosome 2	L000002033	2	405251	401253	C	46	2011-02-03	1997-01-28	Subunit of the SAGA transcriptional regulatory complex; involved in proper assembly of the complex; also present as a C-terminally truncated form in the SLIK/SALSA transcriptional regulatory complex
-S000032039	CDS					YBR081C		2	405251	401253	C		2011-02-03	1997-01-28	
-S000006708	tRNA_gene		tR(UCU)B			chromosome 2	L000003745	2	405878	405949	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA); decodes AGA codons into arginine; one of 19 nuclear tRNAs for arginine; part of dicistronic transcript with tD(GUC)B
-S000037831	noncoding_exon					tR(UCU)B		2	405878	405949	W		2011-02-03	2000-05-19	
-S000006530	tRNA_gene		tD(GUC)B			chromosome 2	L000003746	2	405960	406031	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000037666	noncoding_exon					tD(GUC)B		2	405960	406031	W		2011-02-03	2000-05-19	
-S000000286	ORF	Verified	YBR082C	UBC4	E2 ubiquitin-conjugating protein UBC4	chromosome 2	L000002407	2	407169	406628	C		2011-02-03	1997-01-28	Ubiquitin-conjugating enzyme (E2); key E2 partner with Ubc1p for the anaphase-promoting complex (APC); mediates degradation of abnormal or excess proteins, including calmodulin and histone H3; regulates levels of DNA Polymerase-{alpha} to promote efficient and accurate DNA replication; interacts with many SCF ubiquitin protein ligases; component of the cellular stress response; UBC4 has a paralog, UBC5, that arose from the whole genome duplication
-S000032123	CDS					YBR082C		2	407027	406628	C		2011-02-03	1997-01-28	
-S000032122	CDS					YBR082C		2	407169	407123	C		2011-02-03	1997-01-28	
-S000032124	intron					YBR082C		2	407122	407028	C		2011-02-03	1997-01-28	
-S000118348	ARS		ARS214		ARSII-408	chromosome 2		2	407953	408068			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178048	ARS_consensus_sequence					ARS214		2	408004	407988	C		2014-11-18	2014-11-18	
-S000000287	ORF	Verified	YBR083W	TEC1	ROC1	chromosome 2	L000002276|L000001658	2	409169	410629	W		2011-02-03	1997-01-28	Transcription factor targeting filamentation genes and Ty1 expression; Ste12p activation of most filamentation gene promoters depends on Tec1p and Tec1p transcriptional activity is dependent on its association with Ste12p; binds to TCS elements upstream of filamentation genes, which are regulated by Tec1p/Ste12p/Dig1p complex; competes with Dig2p for binding to Ste12p/Dig1p; positive regulator of chronological life span; TEA/ATTS DNA-binding domain family member
-S000032249	CDS					YBR083W		2	409169	410629	W		2011-02-03	1997-01-28	
-S000000288	ORF	Verified	YBR084W	MIS1	trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase MIS1	chromosome 2	L000001115	2	411054	413981	W		2011-02-03	1997-01-28	Mitochondrial C1-tetrahydrofolate synthase; involved in interconversion between different oxidation states of tetrahydrofolate (THF); provides activities of formyl-THF synthetase, methenyl-THF cyclohydrolase, and methylene-THF dehydrogenase
-S000033123	CDS					YBR084W		2	411054	413981	W		2011-02-03	1997-01-28	
-S000002156	ORF	Verified	YBR084C-A	RPL19A	eL19|ribosomal 60S subunit protein L19A|L19e|rpl5L|YL14|L23A|L19A	chromosome 2	L000001720	2	415261	414186	C		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L19A; rpl19a and rpl19b single null mutations result in slow growth, while the double null mutation is lethal; homologous to mammalian ribosomal protein L19, no bacterial homolog; RPL19A has a paralog, RPL19B, that arose from the whole genome duplication
-S000033730	CDS					YBR084C-A		2	414753	414186	C		2011-02-03	1997-01-28	
-S000033729	CDS					YBR084C-A		2	415261	415260	C		2011-02-03	1997-01-28	
-S000033731	intron					YBR084C-A		2	415259	414754	C		2011-02-03	1997-01-28	
-S000000289	ORF	Verified	YBR085W	AAC3	ADP/ATP carrier protein AAC3|ANC3	chromosome 2	L000000005	2	415983	416906	W		2011-02-03	1997-01-28	Mitochondrial inner membrane ADP/ATP translocator; exchanges cytosolic ADP for mitochondrially synthesized ATP; expressed under anaerobic conditions; similar to Aac1p; has roles in maintenance of viability and in respiration; AAC3 has a paralog, PET9, that arose from the whole genome duplication
-S000033180	CDS					YBR085W		2	415983	416906	W		2011-02-03	1997-01-28	
-S000118349	ARS		ARS215		ARSII-418	chromosome 2		2	417784	418079			2011-02-03	2006-08-30	Autonomously Replicating Sequence; replication origin of very weak function
-S000007522	ORF	Verified	YBR085C-A			chromosome 2		2	419164	418907	C		2011-02-03	2000-07-14	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus; protein abundance increases in response to DNA replication stress
-S000037060	CDS					YBR085C-A		2	419164	418907	C		2011-02-03	2000-07-14	
-S000000290	ORF	Verified	YBR086C	IST2		chromosome 2		2	423041	420201	C		2011-02-03	2003-01-03|1997-01-28	Cortical ER protein involved in ER-plasma membrane tethering; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to the plasma membrane (PM) and regulate PM phosphatidylinositol-4-phosphate (PI4P) levels by controlling access of Sac1p phosphatase to its substrate PI4P in the PM; localizes to the mother cell in small-budded cells and to the bud in medium- and large-budded cells; mRNA is transported to the bud tip by an actomyosin-driven process
-S000033202	CDS					YBR086C		2	423041	420201	C		2011-02-03	2003-01-03|1997-01-28	
-S000000291	ORF	Verified	YBR087W	RFC5	replication factor C subunit 5	chromosome 2	L000002843	2	423765	424829	W		2011-02-03	1997-01-28	Subunit of heteropentameric Replication factor C (RF-C); RF-C is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon
-S000033291	CDS					YBR087W		2	423765	424829	W		2011-02-03	1997-01-28	
-S000000293	ORF	Dubious	YBR089W			chromosome 2		2	425183	425782	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified gene POL30
-S000034297	CDS					YBR089W		2	425183	425782	W		2011-02-03	1997-01-28	
-S000000292	ORF	Verified	YBR088C	POL30	proliferating cell nuclear antigen|PCNA	chromosome 2	L000001463	2	425766	424990	C		2011-02-03	1997-01-28	Proliferating cell nuclear antigen (PCNA); functions as the sliding replication clamp for DNA polymerase delta; may function as a docking site for other proteins required for mitotic and meiotic chromosomal DNA replication and for DNA repair; PCNA ubiquitination at K164 plays a crucial role during Okazaki fragment processing
-S000033330	CDS					YBR088C		2	425766	424990	C		2011-02-03	1997-01-28	
-S000002157	ORF	Verified	YBR089C-A	NHP6B	high-mobility group nucleosome-binding protein|YBR090C-A	chromosome 2	L000001246	2	426489	426190	C		2011-02-03	1997-01-28|2011-02-03	High-mobility group (HMG) protein; binds to and remodels nucleosomes; involved in recruiting FACT and other chromatin remodelling complexes to the chromosomes; functionally redundant with Nhp6Ap; required for transcriptional initiation fidelity of some tRNA genes; homologous to mammalian HMGB1 and HMGB2; NHP6B has a paralog, NHP6A, that arose from the whole genome duplication
-S000031885	CDS					YBR089C-A		2	426489	426190	C		2011-02-03	1997-01-28|2011-02-03	
-S000122092	five_prime_UTR_intron					YBR089C-A		2	426873	426517	C		2011-02-03	2007-04-04	
-S000000294	ORF	Uncharacterized	YBR090C			chromosome 2		2	427058	426333	C		2011-02-03	1997-01-28|2011-02-03	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
-S000035423	CDS					YBR090C		2	426516	426333	C		2011-02-03	1997-01-28|2011-02-03	
-S000035422	CDS					YBR090C		2	427058	426874	C		2011-02-03	1997-01-28	
-S000035424	intron					YBR090C		2	426873	426517	C		2011-02-03	1997-01-28	
-S000000295	ORF	Verified	YBR091C	TIM12	MRS5	chromosome 2	L000001181	2	427484	427155	C		2011-02-03	1997-01-28	Essential protein of the inner mitochondrial membrane; peripherally localized; component of the TIM22 complex, which is a twin-pore translocase that mediates insertion of numerous multispanning inner membrane proteins
-S000036311	CDS					YBR091C		2	427484	427155	C		2011-02-03	1997-01-28	
-S000000296	ORF	Verified	YBR092C	PHO3	acid phosphatase PHO3|phoC	chromosome 2	L000001419	2	429101	427698	C	47	2011-02-03	1997-01-28	Constitutively expressed acid phosphatase similar to Pho5p; brought to the cell surface by transport vesicles; hydrolyzes thiamin phosphates in the periplasmic space, increasing cellular thiamin uptake; expression is repressed by thiamin
-S000036423	CDS					YBR092C		2	429101	427698	C		2011-02-03	1997-01-28	
-S000000297	ORF	Verified	YBR093C	PHO5	acid phosphatase PHO5|phoE	chromosome 2	L000001421	2	430951	429548	C	47	2011-02-03	1997-01-28	Repressible acid phosphatase; 1 of 3 repressible acid phosphatases that also mediates extracellular nucleotide-derived phosphate hydrolysis; secretory pathway derived cell surface glycoprotein; induced by phosphate starvation and coordinately regulated by PHO4 and PHO2
-S000036491	CDS					YBR093C		2	430951	429548	C		2011-02-03	1997-01-28	
-S000000298	ORF	Verified	YBR094W	PBY1	putative tubulin tyrosine ligase	chromosome 2		2	432036	434297	W		2011-02-03	1997-01-28|2011-02-03	Putative tubulin tyrosine ligase associated with P-bodies; may have a role in mRNA metabolism; yeast knockout collection strain identified as a pby1 null mutant is actually wild-type for PBY1 and deleted for mms4
-S000037253	CDS					YBR094W		2	432036	434297	W		2011-02-03	1997-01-28|2011-02-03	
-S000000299	ORF	Verified	YBR095C	RXT2	RAF60	chromosome 2		2	435698	434406	C		2011-02-03	2003-09-22|1997-01-28	Component of the histone deacetylase Rpd3L complex; possibly involved in cell fusion and invasive growth; relocalizes to the cytosol in response to hypoxia
-S000037292	CDS					YBR095C		2	435698	434406	C		2011-02-03	2003-09-22|1997-01-28	
-S000000300	ORF	Uncharacterized	YBR096W			chromosome 2		2	436021	436713	W		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the ER
-S000037475	CDS					YBR096W		2	436021	436713	W		2011-02-03	1997-01-28	
-S000000301	ORF	Verified	YBR097W	VPS15	ubiquitin-binding serine/threonine protein kinase VPS15|VPT15|VPS40|VPL19|VAC4|GRD8	chromosome 2	L000002470|L000002924|S000029641|L000002480	2	436951	441315	W		2011-02-03	1997-01-28|2011-02-03	Serine/threonine protein kinase involved in vacuolar protein sorting; functions as a membrane-associated complex with Vps34p; active form recruits Vps34p to the Golgi membrane; interacts with the GDP-bound form of Gpa1p; myristoylated; a fraction is localized, with Vps34p, to nuclear pores at nucleus-vacuole junctions and may facilitate transcription elongation for genes positioned at the nuclear periphery
-S000030201	CDS					YBR097W		2	436951	441315	W		2011-02-03	1997-01-28|2011-02-03	
-S000000302	ORF	Verified	YBR098W	MMS4	YBR100W|SLX2	chromosome 2		2	441515	443590	W		2011-02-03	2003-01-03|1997-01-28	Subunit of structure-specific Mms4p-Mus81p endonuclease; cleaves branched DNA; involved in recombination, DNA repair, and joint molecule formation/resolution during meiotic recombination; phosphorylation of the non-catalytic subunit Mms4p by Cdc28p and Cdc5p during mitotic cell cycle activates the function of Mms4p-Mus81p
-S000030360	CDS					YBR098W		2	441515	443590	W		2011-02-03	2003-01-03|1997-01-28	
-S000000303	ORF	Dubious	YBR099C			chromosome 2		2	443307	442924	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene MMS4
-S000030430	CDS					YBR099C		2	443307	442924	C		2011-02-03	1997-01-28	
-S000000305	ORF	Verified	YBR101C	FES1		chromosome 2		2	444693	443821	C		2011-02-03	1997-01-28	Hsp70 (Ssa1p) nucleotide exchange factor; required for the release of misfolded proteins from the Hsp70 system to the Ub-proteasome machinery for destruction; cytosolic homolog of Sil1p, which is the nucleotide exchange factor for BiP (Kar2p) in the endoplasmic reticulum; protein abundance increases in response to DNA replication stress
-S000036293	CDS					YBR101C		2	444693	443821	C		2011-02-03	1997-01-28	
-S000000306	ORF	Verified	YBR102C	EXO84	exocyst subunit EXO84|USA3	chromosome 2	S000007470|L000003227	2	447323	445062	C		2011-02-03	1997-01-28	Exocyst subunit with dual roles in exocytosis and spliceosome assembly; subunit of the the exocyst complex which mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane (PM) prior to SNARE-mediated fusion; required for exocyst assembly and targeting the complex to specific sites on the bud tip PM; associates the U1 snRNP; role in pre-mRNA splicing and prespliceosome formation; possible Cdc28 substrate
-S000036412	CDS					YBR102C		2	447323	445062	C		2011-02-03	1997-01-28	
-S000000307	ORF	Verified	YBR103W	SIF2	EMB1	chromosome 2		2	447709	449316	W		2011-02-03	1997-01-28	WD40 repeat-containing subunit of Set3C histone deacetylase complex; complex represses early/middle sporulation genes; antagonizes telomeric silencing; binds specifically to the Sir4p N-terminus
-S000037118	CDS					YBR103W		2	447709	449316	W		2011-02-03	1997-01-28	
-S000007593	ORF	Dubious	YBR103C-A			chromosome 2		2	449463	449320	C		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by homology to related yeast
-S000037105	CDS					YBR103C-A		2	449463	449320	C		2011-02-03	2001-02-26	
-S000000308	ORF	Verified	YBR104W	YMC2	organic acid transporter	chromosome 2	L000002521	2	449667	450656	W		2011-02-03	1997-01-28	Putative mitochondrial inner membrane transporter; proposed role in oleate metabolism and glutamate biosynthesis; member of the mitochondrial carrier (MCF) family; YMC2 has a paralog, YMC1, that arose from the whole genome duplication
-S000037195	CDS					YBR104W		2	449667	450656	W		2011-02-03	1997-01-28	
-S000000309	ORF	Verified	YBR105C	VID24	glucose-induced degradation complex subunit VID24|GID4	chromosome 2	L000004624	2	451969	450881	C		2011-02-03	1997-01-28	GID Complex regulatory subunit; binds GID Complex in response to glucose through interactions with complex member Vid28p; regulates fructose-1,6-bisphosphatase (FBPase) targeting to the vacuole; promotes proteasome-dependent catabolite degradation of FBPase; peripheral membrane protein located at Vid (vacuole import and degradation) vesicles
-S000037212	CDS					YBR105C		2	451969	450881	C		2011-02-03	1997-01-28	
-S000000310	ORF	Verified	YBR106W	PHO88	SND3	chromosome 2	L000003995	2	452658	453224	W		2011-02-03	1997-01-28	Protein involved in SRP-independent targeting of substrates to the ER; component of an alternative ER targeting pathway that has partial functional redundancy with the GET pathway; preference for substrates with downstream transmembrane domains; interacts with Snd1p, Env10p/Snd2p, and Sec61p-translocon subunits; can compensate for loss of SRP; role in phosphate transport, interacting with pho88, and in the maturation of secretory proteins
-S000037352	CDS					YBR106W		2	452658	453224	W		2011-02-03	1997-01-28	
-S000000311	ORF	Verified	YBR107C	IML3	MCM19	chromosome 2	L000004778	2	454530	453793	C		2011-02-03	1997-01-28	Outer kinetochore protein and component of the Ctf19 complex; involved in the establishment of pericentromeric cohesion during mitosis; prevents non-disjunction of sister chromatids during meiosis II; forms a stable complex with Chl4p; required for localization of Sgo1p to pericentric sites during meiosis I; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-L and fission yeast fta1
-S000037374	CDS					YBR107C		2	454530	453793	C		2011-02-03	1997-01-28	
-S000000312	ORF	Verified	YBR108W	AIM3		chromosome 2		2	454822	457665	W		2011-02-03	2004-07-09|1997-01-28|2011-02-03	Protein that inhibits barbed-end actin filament elongation; interacts with Rvs167p; null mutant is viable and displays elevated frequency of mitochondrial genome loss
-S000030057	CDS					YBR108W		2	454822	457665	W		2011-02-03	2004-07-09|1997-01-28|2011-02-03	
-S000000313	ORF	Verified	YBR109C	CMD1	calmodulin|CaM	chromosome 2	L000000365	2	458362	457919	C	53	2011-02-03	1997-01-28	Calmodulin; Ca2+ binding protein that regulates Ca2+ independent processes (mitosis, bud growth, actin organization, endocytosis, etc.) and Ca2+ dependent processes (stress-activated pathways), targets include Nuf1p, Myo2p and calcineurin; binds to the Hog1p MAPK in response to hyperosmotic stress; potentiates membrane tubulation and constriction mediated by the Rvs161p-Rvs167p complex; human CALM1 or CALM2 functionally complement repression induced inviability
-S000030094	CDS					YBR109C		2	458362	457919	C		2011-02-03	1997-01-28	
-S000028737	ORF	Dubious	YBR109W-A			chromosome 2		2	458608	458832	W		2011-02-03	2003-07-29	Putative protein of unknown function; questionable ORF from MIPS
-S000033381	CDS					YBR109W-A		2	458608	458832	W		2011-02-03	2003-07-29	
-S000000314	ORF	Verified	YBR110W	ALG1	chitobiosyldiphosphodolichol beta-1,4 mannosyltransferase	chromosome 2	L000000076	2	458872	460221	W	54	2011-02-03	1997-01-28	Mannosyltransferase; involved in asparagine-linked glycosylation in the endoplasmic reticulum (ER); essential for viability; human homolog ALG1 complements yeast null mutant
-S000032542	CDS					YBR110W		2	458872	460221	W		2011-02-03	1997-01-28	
-S000000315	ORF	Verified	YBR111C	YSA1	ADP-ribose diphosphatase|RMA2	chromosome 2	L000002551	2	461873	461178	C		2011-02-03	1997-01-28	Nudix hydrolase family member with ADP-ribose pyrophosphatase activity; shown to metabolize O-acetyl-ADP-ribose to AMP and acetylated ribose 5'-phosphate
-S000032550	CDS					YBR111C		2	461873	461178	C		2011-02-03	1997-01-28	
-S000028510	ORF	Verified	YBR111W-A	SUS1		chromosome 2		2	462139	462579	W		2011-02-03	2003-12-17|2003-07-29	Component of both the SAGA histone acetylase and TREX-2 complexes; interacts with RNA polymerase II; involved in mRNA export coupled transcription activation and elongation; involved in post-transcriptional tethering of active genes to the nuclear periphery and to non-nascent mRNP
-S000030260	CDS					YBR111W-A		2	462139	462209	W		2011-02-03	2003-12-17|2003-07-29	
-S000030261	CDS					YBR111W-A		2	462290	462429	W		2011-02-03	2003-12-17|2003-07-29	
-S000030263	CDS					YBR111W-A		2	462500	462579	W		2011-02-03	2003-12-17	
-S000030262	intron					YBR111W-A		2	462210	462289	W		2011-02-03	2003-12-17|2003-07-29	
-S000030264	intron					YBR111W-A		2	462430	462499	W		2011-02-03	2003-12-17	
-S000000317	ORF	Dubious	YBR113W			chromosome 2		2	465566	466048	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CYC8
-S000033391	CDS					YBR113W		2	465566	466048	W		2011-02-03	1997-01-28	
-S000000316	ORF	Verified	YBR112C	CYC8	transcription regulator CYC8|[OCT]|[OCT1+]|SSN6|CRT8	chromosome 2	L000000452	2	465770	462870	C	56	2011-02-03	1997-01-28	General transcriptional co-repressor; acts together with Tup1p; also acts as part of a transcriptional co-activator complex that recruits the SWI/SNF and SAGA complexes to promoters; can form the prion [OCT+]
-S000032660	CDS					YBR112C		2	465770	462870	C		2011-02-03	1997-01-28	
-S000000318	ORF	Verified	YBR114W	RAD16	DNA repair protein RAD16|PSO5	chromosome 2	L000004121|L000001565	2	467248	469620	W	58	2011-02-03	1997-01-28	Nucleotide excision repair (NER) protein; binds damaged DNA during NER; binds DNA in an ATP-dependent manner (with Rad7p) during NER; required for NER of non-transcribed chromatin; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex
-S000033462	CDS					YBR114W		2	467248	469620	W		2011-02-03	1997-01-28	
-S000000319	ORF	Verified	YBR115C	LYS2	L-aminoadipate-semialdehyde dehydrogenase	chromosome 2	L000000965	2	473926	469748	C	59	2011-02-03	1997-01-28	Alpha aminoadipate reductase; catalyzes the reduction of alpha-aminoadipate to alpha-aminoadipate 6-semialdehyde, which is the fifth step in biosynthesis of lysine; activation requires posttranslational phosphopantetheinylation by Lys5p
-S000033483	CDS					YBR115C		2	473926	469748	C		2011-02-03	1997-01-28	
-S000000320	ORF	Dubious	YBR116C			chromosome 2		2	474726	474199	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene TKL2
-S000033572	CDS					YBR116C		2	474726	474199	C		2011-02-03	1997-01-28	
-S000000321	ORF	Verified	YBR117C	TKL2	transketolase TKL2	chromosome 2	L000002314	2	476437	474392	C		2011-02-03	1997-01-28	Transketolase; catalyzes conversion of xylulose-5-phosphate and ribose-5-phosphate to sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate in the pentose phosphate pathway; needed for synthesis of aromatic amino acids; TKL2 has a paralog, TKL1, that arose from the whole genome duplication
-S000033608	CDS					YBR117C		2	476437	474392	C		2011-02-03	1997-01-28	
-S000000322	ORF	Verified	YBR118W	TEF2	translation elongation factor EF-1 alpha|eEF1A|EF-1 alpha	chromosome 2	L000002278	2	477671	479047	W	61	2011-02-03	1997-01-28	Translational elongation factor EF-1 alpha; in the GTP-bound active form, binds to and delivers aminoacylated tRNA to the A-site of ribosomes for elongation of nascent polypeptides; associates with vacuolar Rho1p GTPase; TEF2-RFP levels increase during replicative aging; may also have a role in tRNA re-export from the nucleus; TEF2 has a paralog, TEF1, that arose from the whole genome duplication
-S000034590	CDS					YBR118W		2	477671	479047	W		2011-02-03	1997-01-28	
-S000000323	ORF	Verified	YBR119W	MUD1	U1A|U1-A	chromosome 2	L000001217	2	479338	480323	W		2011-02-03	1997-01-28	U1 snRNP A protein; homolog of human U1-A; involved in nuclear mRNA splicing
-S000034715	CDS					YBR119W		2	479338	479345	W		2011-02-03	1997-01-28	
-S000034716	CDS					YBR119W		2	479435	480323	W		2011-02-03	1997-01-28	
-S000034717	intron					YBR119W		2	479346	479434	W		2011-02-03	1997-01-28	
-S000000324	ORF	Verified	YBR120C	CBP6		chromosome 2	L000000228	2	480923	480435	C		2011-02-03	1997-01-28	Mitochondrial protein required for translation of the COB mRNA; forms a complex with Cbp3p that binds to mt ribosomes near the polypeptide tunnel exit and promotes efficient translation of the COB mRNA; Cbp3p-Cbp6p complex also interacts with newly synthesized cytochrome b (Cobp) and Cbp4p to promote assembly of Cobp into the cytochrome bc1 complex; Cbp3p-Cbp6p complex is sequestered if assembly of Complex III is blocked, downregulating COB mRNA translation
-S000035739	CDS					YBR120C		2	480923	480435	C		2011-02-03	1997-01-28	
-S000028815	ORF	Dubious	YBR121C-A			chromosome 2		2	482484	482326	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely contained within the verified gene GRS1; identified by expression profiling and mass spectrometry
-S000033618	CDS					YBR121C-A		2	482484	482326	C		2011-02-03	2003-07-29	
-S000000325	ORF	Verified	YBR121C	GRS1	glycine--tRNA ligase	chromosome 2	L000000738|L000000731	2	483367	481364	C		2011-02-03	1997-01-28|2011-02-03	Cytoplasmic and mitochondrial glycyl-tRNA synthase; ligates glycine to the cognate anticodon-bearing tRNA; transcription termination factor that may interact with the 3'-end of pre-mRNA to promote 3'-end formation; GRS1 has a paralog, GRS2, that arose from the whole genome duplication; human homolog GARS implicated in Charcot-Marie-Tooth disease, can complement yeast null mutant
-S000036674	CDS					YBR121C		2	483367	481364	C		2011-02-03	1997-01-28|2011-02-03	
-S000000326	ORF	Verified	YBR122C	MRPL36	mitochondrial 54S ribosomal protein YmL36|YmL36	chromosome 2	L000002531|L000001171	2	484503	483970	C		2011-02-03	2003-09-22|1997-01-28	Mitochondrial ribosomal protein of the large subunit; overproduction suppresses mutations in the COX2 leader peptide-encoding region
-S000036725	CDS					YBR122C		2	484503	483970	C		2011-02-03	2003-09-22|1997-01-28	
-S000000328	ORF	Dubious	YBR124W			chromosome 2		2	486507	486866	W		2011-02-03	1997-01-28	Putative protein of unknown function
-S000037559	CDS					YBR124W		2	486507	486866	W		2011-02-03	1997-01-28	
-S000000327	ORF	Verified	YBR123C	TFC1	transcription factor TFIIIC subunit TFC1|tau 95	chromosome 2	L000002285	2	486691	484742	C		2011-02-03	1997-01-28	Subunit of RNA polymerase III transcription initiation factor complex; one of six subunits of the RNA polymerase III transcription initiation factor complex (TFIIIC); part of the TauA globular domain of TFIIIC that binds DNA at the BoxA promoter sites of tRNA and similar genes; human homolog is TFIIIC-63
-S000036794	CDS					YBR123C		2	486691	484742	C		2011-02-03	1997-01-28	
-S000118350	ARS		ARS216		ARSII-487	chromosome 2		2	486707	486954			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178049	ARS_consensus_sequence					ARS216		2	486859	486843	C		2014-11-18	2014-11-18	
-S000000329	ORF	Verified	YBR125C	PTC4	type 2C protein phosphatase PTC4|GCT1	chromosome 2		2	488380	487199	C		2011-02-03	1997-01-28	Cytoplasmic type 2C protein phosphatase (PP2C); identified as a high-copy number suppressor of cnb1 mpk1 synthetic lethality; overexpression decreases high-osmolarity induced Hog1p phosphorylation and kinase activity
-S000037589	CDS					YBR125C		2	488380	487199	C		2011-02-03	1997-01-28	
-S000000330	ORF	Verified	YBR126C	TPS1	alpha,alpha-trehalose-phosphate synthase (UDP-forming) TPS1|TSS1|GLC6|GGS1|FDP1|CIF1|BYP1	chromosome 2	L000002330	2	490392	488905	C	41	2011-02-03	1997-01-28	Synthase subunit of trehalose-6-P synthase/phosphatase complex; synthesizes the storage carbohydrate trehalose, which is critically important for survival of long-term desiccation; also found in a monomeric form; expression is induced by the stress response and repressed by the Ras-cAMP pathway; protein abundance increases in response to DNA replication stress and in response to prolonged exposure to boric acid
-S000037645	CDS					YBR126C		2	490392	488905	C		2011-02-03	1997-01-28	
-S000028600	ORF	Verified	YBR126W-A	MEO1		chromosome 2		2	490850	491056	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray analysis, and genome-wide homology searches; mRNA identified as translated by ribosome profiling data; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; partially overlaps the dubious ORF YBR126W-B
-S000031400	CDS					YBR126W-A		2	490850	491056	W		2011-02-03	2003-07-29	
-S000028738	ORF	Dubious	YBR126W-B			chromosome 2		2	490927	491070	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YBR126W-A; identified by SAGE
-S000033382	CDS					YBR126W-B		2	490927	491070	W		2011-02-03	2003-07-29	
-S000000331	ORF	Verified	YBR127C	VMA2	H(+)-transporting V1 sector ATPase subunit B|ATPSV|VAT2	chromosome 2	L000002458	2	492822	491269	C		2011-02-03	1997-01-28	Subunit B of V1 peripheral membrane domain of vacuolar H+-ATPase; electrogenic proton pump found throughout the endomembrane system; contains nucleotide binding sites; also detected in the cytoplasm; protein abundance increases in response to DNA replication stress; human homolog ATP6V1B1, implicated in autosomal-recessive distal renal tubular acidosis (RTA) with sensorineural deafness, complements yeast null mutant
-S000037698	CDS					YBR127C		2	492822	491269	C		2011-02-03	1997-01-28	
-S000000332	ORF	Verified	YBR128C	ATG14	APG14|CVT12	chromosome 2	L000004763|L000004641	2	494115	493081	C		2011-02-03	1997-01-28	Autophagy-specific subunit of phosphatidylinositol 3-kinase complex I; Atg14p targets complex I to the phagophore assembly site (PAS); required for localizing additional ATG proteins to the PAS; required for overflow degradation of misfolded proteins when ERAD is saturated; homolog of human Barkor; other members are Vps34, Vps15, and Vps30p
-S000037772	CDS					YBR128C		2	494115	493081	C		2011-02-03	1997-01-28	
-S000000333	ORF	Verified	YBR129C	OPY1		chromosome 2	L000004016	2	495339	494353	C		2011-02-03	1997-01-28	Protein of unknown function; overproduction blocks cell cycle arrest in the presence of mating pheromone; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000030622	CDS					YBR129C		2	495339	494353	C		2011-02-03	1997-01-28	
-S000000334	ORF	Verified	YBR130C	SHE3		chromosome 2	L000004189|L000002868	2	496869	495592	C		2011-02-03	1997-01-28	Protein adaptor between Myo4p and the She2p-mRNA complex; part of the mRNA localization machinery that restricts accumulation of certain proteins to the bud; also required for cortical ER inheritance
-S000030714	CDS					YBR130C		2	496869	495592	C		2011-02-03	1997-01-28	
-S000000335	ORF	Verified	YBR131W	CCZ1	CVT16	chromosome 2	L000004556|L000004776|S000029129	2	497163	499277	W		2011-02-03	1997-01-28	Subunit of a heterodimeric guanine nucleotide exchange factor (GEF); subunit of the Mon1-Ccz1 GEF complex, which stimulates nucleotide exchange and activation of Ypt7p, a Rab family GTPase involved in membrane tethering and fusion events at the late endosome and vacuole; GEF activity is stimulated by membrane association and anionic phospholipids; involved in localizing Ypt7p to the vacuolar membrane; required for macroautophagy, the CVT pathway and mitophagy
-S000031661	CDS					YBR131W		2	497163	499277	W		2011-02-03	1997-01-28	
-S000028601	ORF	Dubious	YBR131C-A			chromosome 2		2	497739	497650	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YBR131W; identified by gene-trapping, microarray analysis, and genome-wide homology searches
-S000031403	CDS					YBR131C-A		2	497739	497650	C		2011-02-03	2003-07-29	
-S000000336	ORF	Verified	YBR132C	AGP2		chromosome 2	L000003947	2	501442	499652	C		2011-02-03	1997-01-28	Plasma membrane regulator of polyamine and carnitine transport; has similarity to transporters but lacks transport activity; may act as a sensor that transduces environmental signals; has a positive or negative regulatory effect on transcription of many transporter genes
-S000031670	CDS					YBR132C		2	501442	499652	C		2011-02-03	1997-01-28	
-S000000338	ORF	Dubious	YBR134W			chromosome 2		2	504243	504644	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032775	CDS					YBR134W		2	504243	504644	W		2011-02-03	1997-01-28	
-S000000337	ORF	Verified	YBR133C	HSL7	protein arginine N-methyltransferase	chromosome 2	L000003130	2	504287	501804	C		2011-02-03	1997-01-28	Protein arginine N-methyltransferase; exhibits septin and Hsl1p-dependent localization to the bud neck in budded cells and periodic Hsl1p-dependent phosphorylation; required with Hsl1p, and Elm1p for the mother-bud neck recruitment, phosphorylation, and degradation of Swe1p; interacts directly with Swe1p; relocalizes away from bud neck upon DNA replication stress; human homolog PRMT5 can complement yeast hsl7 mutant
-S000031794	CDS					YBR133C		2	504287	501804	C		2011-02-03	1997-01-28	
-S000000339	ORF	Verified	YBR135W	CKS1	cyclin-dependent protein kinase regulatory subunit CKS1	chromosome 2	L000000347	2	504854	505306	W	73	2011-02-03	1997-01-28	Cyclin-dependent protein kinase regulatory subunit and adaptor; interacts with Cdc28p (aka Cdk1p); required for G1/S and G2/M phase transitions and budding; mediates phosphorylation and degradation of Sic1p; modulates proteolysis of M-phase targets through interactions with the proteasome; role in transcriptional regulation, recruiting proteasomal subunits to target gene promoters; human homologs CKS1B and CKS2 can each complement yeast cks1 null mutant
-S000032889	CDS					YBR135W		2	504854	505306	W		2011-02-03	1997-01-28	
-S000000340	ORF	Verified	YBR136W	MEC1	protein kinase MEC1|RAD31|SAD3|ESR1	chromosome 2	L000000586|S000029404|S000007656	2	505668	512774	W		2011-02-03	1997-01-28	Genome integrity checkpoint protein and PI kinase superfamily member; Mec1p and Dun1p function in same pathway to regulate dNTP pools and telomere length; signal transducer required for cell cycle arrest and transcriptional responses to damaged or unreplicated DNA; facilitates replication fork progression and regulates P-body formation under replication stress; promotes interhomolog recombination by phosphorylating Hop1p; associates with shortened, dysfunctional telomeres
-S000032977	CDS					YBR136W		2	505668	512774	W		2011-02-03	1997-01-28	
-S000000341	ORF	Verified	YBR137W			chromosome 2		2	513044	513583	W		2011-02-03	1997-01-28|2011-02-03	Protein with a role in ER delivery of tail-anchored membrane proteins; interacts with Sgt2p; binds to the TRC complex, which inserts proteins into the ER membrane; interacts with Msn5p karyopherin; YBR137W is not an essential gene
-S000033068	CDS					YBR137W		2	513044	513583	W		2011-02-03	1997-01-28|2011-02-03	
-S000000342	ORF	Uncharacterized	YBR138C		HDR1	chromosome 2	L000003401	2	515336	513762	C		2011-02-03	1997-01-28|2011-02-03	Cytoplasmic protein of unknown function; APCC(Cdh1) substrate; potentially phosphorylated by Cdc28p; YBR138C is not an essential gene
-S000033676	CDS					YBR138C		2	515336	513762	C		2011-02-03	1997-01-28|2011-02-03	
-S000000343	ORF	Verified	YBR139W		carboxypeptidase C	chromosome 2		2	515664	517190	W		2011-02-03	1997-01-28	Putative serine type carboxypeptidase; role in phytochelatin synthesis; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; expression induced by nitrogen limitation in a GLN3, GAT1-independent manner
-S000033849	CDS					YBR139W		2	515664	517190	W		2011-02-03	1997-01-28	
-S000178050	ARS		ARS217			chromosome 2		2	517185	517386			2014-11-18	2014-11-18	Autonomously replicating sequence
-S000178051	ARS_consensus_sequence					ARS217		2	517263	517247	C		2014-11-18	2014-11-18	
-S000000344	ORF	Verified	YBR140C	IRA1	GTPase-activating protein IRA1|PPD1|GLC1	chromosome 2	L000000704|L000000873	2	526628	517350	C	78	2011-02-03	1997-01-28	GTPase-activating protein; negatively regulates RAS by converting it from GTP- to the GDP-bound inactive form, required for reducing cAMP levels under nutrient limiting conditions, mediates membrane association of adenylate cyclase; mutations cause catalase T deficiency, defective glycogen synthesis and defective trehalose accumulation; IRA1 has a paralog, IRA2, that arose from the whole genome duplication; defects in human homolog NF1 are associated with neurofibromatosis
-S000034687	CDS					YBR140C		2	526628	517350	C		2011-02-03	1997-01-28	
-S000028602	ORF	Dubious	YBR141W-A			chromosome 2		2	527167	527262	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the uncharacterized ORF YBR141C; identified by gene-trapping, microarray analysis, and genome-wide homology searching
-S000031405	CDS					YBR141W-A		2	527167	527262	W		2011-02-03	2003-07-29	
-S000000345	ORF	Verified	YBR141C	BMT2	25S rRNA (adenine2142-N1)-methyltransferase	chromosome 2		2	528038	527025	C		2011-02-03	1997-01-28|2011-02-03	Nucleolar S-adenosylmethionine-dependent rRNA methyltransferase; methylates adenine (m1A) of the large subunit (LSU) rRNA at position 2142; belongs to Rossmann fold superfamily; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus; YBR141C is not an essential gene
-S000034839	CDS					YBR141C		2	528038	527025	C		2011-02-03	1997-01-28|2011-02-03	
-S000000346	ORF	Verified	YBR142W	MAK5	putative ATP-dependent RNA helicase	chromosome 2	L000000979	2	528317	530638	W	80	2011-02-03	1997-01-28	Essential nucleolar protein; putative DEAD-box RNA helicase required for maintenance of M1 dsRNA virus; involved in biogenesis of large (60S) ribosomal subunits
-S000035850	CDS					YBR142W		2	528317	530638	W		2011-02-03	1997-01-28	
-S000000347	ORF	Verified	YBR143C	SUP45	translation termination factor eRF1|eRF1|SUP47|SUP1|SAL4	chromosome 2	L000002258|L000002206|S000029305|L000001134	2	532182	530869	C	81	2011-02-03	1997-01-28	Polypeptide release factor (eRF1) in translation termination; mutant form acts as a recessive omnipotent suppressor; methylated by Mtq2p-Trm112p in ternary complex eRF1-eRF3-GTP; mutation of methylation site confers resistance to zymocin; has a role in cytokinesis through interaction with Mlc1p
-S000035896	CDS					YBR143C		2	532182	530869	C		2011-02-03	1997-01-28	
-S000000348	ORF	Dubious	YBR144C			chromosome 2		2	533549	533235	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YBR144C is not an essential gene
-S000036039	CDS					YBR144C		2	533549	533235	C		2011-02-03	1997-01-28	
-S000000349	ORF	Verified	YBR145W	ADH5	alcohol dehydrogenase ADH5	chromosome 2	L000000045	2	533762	534817	W		2011-02-03	1997-01-28	Alcohol dehydrogenase isoenzyme V; involved in ethanol production; ADH5 has a paralog, ADH1, that arose from the whole genome duplication
-S000036921	CDS					YBR145W		2	533762	534817	W		2011-02-03	1997-01-28	
-S000000350	ORF	Verified	YBR146W	MRPS9	mitochondrial 37S ribosomal protein MRPS9	chromosome 2	L000001175	2	535260	536096	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the small subunit
-S000036972	CDS					YBR146W		2	535260	536096	W		2011-02-03	1997-01-28	
-S000000351	ORF	Verified	YBR147W	RTC2	cationic amino acid transporter|YPQ3|RRT11	chromosome 2		2	536575	537465	W		2011-02-03	1997-01-28	Putative vacuolar membrane transporter for cationic amino acids; likely contributes to amino acid homeostasis by exporting cationic amino acids from the vacuole; positive regulation by Lys14p suggests that lysine may be the primary substrate; member of the PQ-loop family, with seven transmembrane domains; similar to mammalian PQLC2 vacuolar transporter; RTC2 has a paralog, YPQ1, that arose from the whole genome duplication
-S000037067	CDS					YBR147W		2	536575	537465	W		2011-02-03	1997-01-28	
-S000000352	ORF	Verified	YBR148W	YSW1		chromosome 2	L000002553	2	537876	539705	W		2011-02-03	1997-01-28	Protein required for normal prospore membrane formation; interacts with Gip1p, which is the meiosis-specific regulatory subunit of the Glc7p protein phosphatase; expressed specifically in spores and localizes to the prospore membrane; YSW1 has a paralog, SPO21, that arose from the whole genome duplication
-S000037151	CDS					YBR148W		2	537876	539705	W		2011-02-03	1997-01-28	
-S000000353	ORF	Verified	YBR149W	ARA1	D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1	chromosome 2	L000004642	2	539987	541021	W		2011-02-03	1997-01-28	NADP+ dependent arabinose dehydrogenase; involved in carbohydrate metabolism; purified as homodimer; naturally occurs with a N-terminus degradation product
-S000037890	CDS					YBR149W		2	539987	541021	W		2011-02-03	1997-01-28	
-S000000354	ORF	Verified	YBR150C	TBS1		chromosome 2		2	544493	541209	C		2011-02-03	1997-01-28	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; TBS1 has a paralog, HAL9, that arose from the whole genome duplication
-S000030836	CDS					YBR150C		2	544493	541209	C		2011-02-03	1997-01-28	
-S000000355	ORF	Verified	YBR151W	APD1		chromosome 2		2	545028	545978	W		2011-02-03	1997-01-28	Protein of unknown function; required for normal localization of actin patches and for normal tolerance of sodium ions and hydrogen peroxide; localizes to both cytoplasm and nucleus
-S000030957	CDS					YBR151W		2	545028	545978	W		2011-02-03	1997-01-28	
-S000000356	ORF	Verified	YBR152W	SPP381	U4/U6-U5 snRNP complex subunit SPP381	chromosome 2	L000004711	2	546376	547251	W		2011-02-03	1997-01-28	mRNA splicing factor, component of U4/U6.U5 tri-snRNP; interacts genetically and physically with Prp38p; relocalizes to the cytosol in response to hypoxia
-S000031058	CDS					YBR152W		2	546376	547251	W		2011-02-03	1997-01-28	
-S000000357	ORF	Verified	YBR153W	RIB7	2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate reductase	chromosome 2	L000001637	2	547460	548194	W		2011-02-03	1997-01-28	Diaminohydroxyphoshoribosylaminopyrimidine deaminase; catalyzes the second step of the riboflavin biosynthesis pathway
-S000032010	CDS					YBR153W		2	547460	548194	W		2011-02-03	1997-01-28	
-S000000358	ORF	Verified	YBR154C	RPB5	DNA-directed RNA polymerase core subunit RPB5|ABC27	chromosome 2	L000001590|L000001679	2	549009	548362	C		2011-02-03	1997-01-28	RNA polymerase subunit ABC27; common to RNA polymerases I, II, and III; contacts DNA and affects transactivation
-S000032044	CDS					YBR154C		2	549009	548362	C		2011-02-03	1997-01-28	
-S000077079	matrix_attachment_site		ETC8	ETC8		chromosome 2		2	549229	549251	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; located between divergently transcribed genes RPB5 and CNS1
-S000000359	ORF	Verified	YBR155W	CNS1	HSP70/90 family co-chaperone CNS1	chromosome 2	L000004495	2	549771	550928	W		2011-02-03	1997-01-28	TPR-containing co-chaperone; binds both Hsp82p (Hsp90) and Ssa1p (Hsp70); stimulates ATPase activity of Ssa1p; ts mutants reduce Hsp82p function, overexpression suppresses phenotypes of HSP82 ts allele and cpr7 deletion; human homolog TTC4 complements yeast cns1 mutant
-S000032166	CDS					YBR155W		2	549771	550928	W		2011-02-03	1997-01-28	
-S000000360	ORF	Verified	YBR156C	SLI15		chromosome 2	L000003320	2	553200	551104	C		2011-02-03	1997-01-28	Subunit of the conserved chromosomal passenger complex (CPC); complex regulates kinetochore-microtubule attachments, activation of the spindle tension checkpoint, and mitotic spindle disassembly; other complex members are Ipl1p, Bir1p, and Nbl1p
-S000032209	CDS					YBR156C		2	553200	551104	C		2011-02-03	1997-01-28	
-S000000361	ORF	Verified	YBR157C	ICS2		chromosome 2		2	554310	553543	C		2011-02-03	2004-01-21|1997-01-28	Protein of unknown function; null mutation does not confer any obvious defects in growth, spore germination, viability, or carbohydrate utilization
-S000032276	CDS					YBR157C		2	554310	553543	C		2011-02-03	2004-01-21|1997-01-28	
-S000000362	ORF	Verified	YBR158W	AMN1	CST13|ICS4	chromosome 2	L000002997	2	556549	558198	W		2011-02-03	1997-01-28	Protein required for daughter cell separation; multiple mitotic checkpoints, and chromosome stability; contains 12 degenerate leucine-rich repeat motifs; expression is induced by the Mitotic Exit Network (MEN)
-S000033182	CDS					YBR158W		2	556549	558198	W		2011-02-03	1997-01-28	
-S000000363	ORF	Verified	YBR159W	IFA38	ketoreductase	chromosome 2		2	558685	559728	W		2011-02-03	1997-01-28	Microsomal beta-keto-reductase; contains oleate response element (ORE) sequence in the promoter region; mutants exhibit reduced VLCFA synthesis, accumulate high levels of dihydrosphingosine, phytosphingosine and medium-chain ceramides
-S000033243	CDS					YBR159W		2	558685	559728	W		2011-02-03	1997-01-28	
-S000000364	ORF	Verified	YBR160W	CDC28	cyclin-dependent serine/threonine-protein kinase CDC28|SRM5|HSL5|CDK1	chromosome 2	L000000267	2	560078	560974	W	90	2011-02-03	1997-01-28	Cyclin-dependent kinase (CDK) catalytic subunit; master regulator of mitotic and meiotic cell cycles; alternately associates with G1, S, G2/M phase cyclins, which provide substrate specificity; regulates metabolism, basal transcription, chromosome dynamics, growth and morphogenesis; transcript induction in osmostress involves antisense RNA; human homologs CDK1, CDK2, CDK3 can complement yeast conditional cdc28 mutants; human CDK1, CDK2 can complement yeast cdc28 null mutant
-S000035243	CDS					YBR160W		2	560078	560974	W		2011-02-03	1997-01-28	
-S000000365	ORF	Verified	YBR161W	CSH1	mannosylinositol phosphorylceramide synthase catalytic subunit CSH1	chromosome 2		2	561634	562764	W		2011-02-03	1997-01-28	Mannosylinositol phosphorylceramide (MIPC) synthase catalytic subunit; forms a complex with regulatory subunit Csg2p; function in sphingolipid biosynthesis is overlapping with that of Sur1p; CSH1 has a paralog, SUR1, that arose from the whole genome duplication
-S000035322	CDS					YBR161W		2	561634	562764	W		2011-02-03	1997-01-28	
-S000000366	ORF	Verified	YBR162C	TOS1		chromosome 2		2	564570	563203	C		2011-02-03	1997-01-28	Covalently-bound cell wall protein of unknown function; identified as a cell cycle regulated SBF target gene; deletion mutants are highly resistant to treatment with beta-1,3-glucanase; has sequence similarity to YJL171C
-S000035351	CDS					YBR162C		2	564570	563203	C		2011-02-03	1997-01-28	
-S000002158	ORF	Verified	YBR162W-A	YSY6		chromosome 2	L000002554	2	565231	565428	W		2011-02-03	1997-01-28	Protein of unknown function; expression suppresses a secretory pathway mutation in E. coli; has similarity to the mammalian RAMP4 protein involved in secretion
-S000032375	CDS					YBR162W-A		2	565231	565428	W		2011-02-03	1997-01-28	
-S000000367	ORF	Verified	YBR163W	EXO5	DEM1	chromosome 2		2	565723	567480	W		2011-02-03	1997-01-28	Mitochondrial 5'-3' exonuclease and sliding exonuclease; required for mitochondrial genome maintenance; distantly related to the RecB nuclease domain of bacterial RecBCD recombinases; may be regulated by the transcription factor Ace2
-S000035461	CDS					YBR163W		2	565723	567480	W		2011-02-03	1997-01-28	
-S000000368	ORF	Verified	YBR164C	ARL1	Arf family GTPase ARL1|DLP2	chromosome 2	L000002832	2	568426	567875	C		2011-02-03	1997-01-28	Soluble GTPase with a role in regulation of membrane traffic; regulates potassium influx; role in membrane organization at trans-Golgi network; required for delivery of Atg9p to the phagophore assembly site during autophagy under high temperature stress; required with Ypt6p for starvation-induced autophagy; required for the CVT pathway under non-starvation conditions; G protein of the Ras superfamily, similar to ADP-ribosylation factor
-S000036313	CDS					YBR164C		2	568426	567875	C		2011-02-03	1997-01-28	
-S000000369	ORF	Verified	YBR165W	UBS1		chromosome 2	L000003544	2	568852	569685	W		2011-02-03	1997-01-28	Ubiquitin-conjugating enzyme suppressor that regulates Cdc34p; functions as a general positive regulator of Cdc34p activity; nuclear protein that may represent a link between nucleocytoplasmic transport and ubiquitin ligase activity
-S000036458	CDS					YBR165W		2	568852	569685	W		2011-02-03	1997-01-28	
-S000000370	ORF	Verified	YBR166C	TYR1	prephenate dehydrogenase (NADP(+))	chromosome 2	L000002359|L000002402	2	571200	569842	C	97	2011-02-03	1997-01-28	Prephenate dehydrogenase involved in tyrosine biosynthesis; expression is dependent on phenylalanine levels
-S000036504	CDS					YBR166C		2	571200	569842	C		2011-02-03	1997-01-28	
-S000000371	ORF	Verified	YBR167C	POP7	ribonuclease P/MRP protein subunit POP7|RPP2	chromosome 2	L000004303|L000004505	2	571890	571468	C		2011-02-03	1997-01-28	Subunit of RNase MRP, nuclear RNase P and telomerase; forms a soluble heterodimer with Pop6p that binds P3 domain of RNase MRP and RNase P RNAs; RNase MRP cleaves pre-rRNA, nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs, while telomerase replenishes telomeric DNA
-S000036597	CDS					YBR167C		2	571890	571468	C		2011-02-03	1997-01-28	
-S000000372	ORF	Verified	YBR168W	PEX32		chromosome 2		2	572371	573612	W		2011-02-03	1997-01-28	Peroxisomal integral membrane protein; involved in negative regulation of peroxisome size; partially functionally redundant with Pex31p; genetic interactions suggest action at a step downstream of steps mediated by Pex28p and Pex29p
-S000037359	CDS					YBR168W		2	572371	573612	W		2011-02-03	1997-01-28	
-S000000373	ORF	Verified	YBR169C	SSE2	adenyl-nucleotide exchange factor SSE2	chromosome 2	L000002079	2	575996	573915	C		2011-02-03	1997-01-28	Member of Hsp110 subclass of the heat shock protein 70 (HSP70) family; serves as nucleotide exchange factor to load ATP onto the SSA class of cytosolic Hsp70s; may be involved in protein folding; localized to the cytoplasm; SSE2 has a paralog, SSE1, that arose from the whole genome duplication
-S000037401	CDS					YBR169C		2	575996	573915	C		2011-02-03	1997-01-28	
-S000000374	ORF	Verified	YBR170C	NPL4	HRD4	chromosome 2	L000001271	2	578086	576344	C		2011-02-03	1997-01-28	Substrate-recruiting cofactor of the Cdc48p-Npl4p-Ufd1p segregase; assists Cdc48p in the dislocation of misfolded, polyubiquitinated ERAD substrates that are subsequently delivered to the proteasome for degradation; also involved in the regulated destruction of resident ER membrane proteins, such as HMG-CoA reductase (Hmg1/2p) and cytoplasmic proteins (Fbp1p); role in mobilizing membrane bound transcription factors by regulated ubiquitin/proteasome-dependent processing (RUP)
-S000030469	CDS					YBR170C		2	578086	576344	C		2011-02-03	1997-01-28	
-S000000375	ORF	Verified	YBR171W	SEC66	KAR7|Sec63 complex subunit SEC66|SEC71|HSS1	chromosome 2	L000001856	2	578364	578984	W		2011-02-03	1997-01-28	Non-essential subunit of Sec63 complex; with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER; other members are Sec63p, Sec62p, and Sec72p
-S000030603	CDS					YBR171W		2	578364	578984	W		2011-02-03	1997-01-28	
-S000000376	ORF	Verified	YBR172C	SMY2		chromosome 2	L000001941	2	581372	579150	C		2011-02-03	2003-09-22|1997-01-28	GYF domain protein; involved in COPII vesicle formation; interacts with the Sec23p/Sec24p subcomplex; overexpression suppresses the temperature sensitivity of a myo2 mutant; similar to S. pombe Mpd2; SMY2 has a paralog, SYH1, that arose from the whole genome duplication
-S000030643	CDS					YBR172C		2	581372	579150	C		2011-02-03	2003-09-22|1997-01-28	
-S000000377	ORF	Verified	YBR173C	UMP1	RNS2	chromosome 2	L000004429	2	582172	581726	C		2011-02-03	1997-01-28	Chaperone required for correct maturation of the 20S proteasome; short-lived chaperone; may inhibit premature dimerization of proteasome half-mers; degraded by proteasome upon completion of its assembly
-S000030726	CDS					YBR173C		2	582172	581726	C		2011-02-03	1997-01-28	
-S000000379	ORF	Verified	YBR175W	SWD3	SAF35|CPS30	chromosome 2		2	582408	583355	W		2011-02-03	1997-01-28	Essential subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3 on lysine 4 and is required in transcriptional silencing near telomeres; WD40 beta propeller superfamily member and ortholog of mammalian WDR5
-S000031715	CDS					YBR175W		2	582408	583355	W		2011-02-03	1997-01-28	
-S000000378	ORF	Dubious	YBR174C			chromosome 2		2	582652	582338	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YBR175W; null mutant is viable and sporulation defective
-S000031563	CDS					YBR174C		2	582652	582338	C		2011-02-03	1997-01-28	
-S000000380	ORF	Verified	YBR176W	ECM31	3-methyl-2-oxobutanoate hydroxymethyltransferase	chromosome 2	L000003901	2	583720	584658	W		2011-02-03	1997-01-28	Ketopantoate hydroxymethyltransferase; required for pantothenic acid biosynthesis, converts 2-oxoisovalerate into 2-dehydropantoate
-S000031869	CDS					YBR176W		2	583720	584658	W		2011-02-03	1997-01-28	
-S000000382	ORF	Dubious	YBR178W			chromosome 2		2	586071	586445	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR177C
-S000032865	CDS					YBR178W		2	586071	586445	W		2011-02-03	1997-01-28	
-S000000381	ORF	Verified	YBR177C	EHT1	medium-chain fatty acid ethyl ester synthase/esterase	chromosome 2		2	586162	584807	C		2011-02-03	1997-01-28	Acyl-coenzymeA:ethanol O-acyltransferase; plays a minor role in medium-chain fatty acid ethyl ester biosynthesis; possesses short-chain esterase activity; localizes to lipid particles and the mitochondrial outer membrane; EHT1 has a paralog, EEB1, that arose from the whole genome duplication
-S000031916	CDS					YBR177C		2	586162	584807	C		2011-02-03	1997-01-28	
-S000000383	ORF	Verified	YBR179C	FZO1	mitofusin	chromosome 2	L000004083	2	589114	586547	C		2011-02-03	1997-01-28	Mitofusin; integral membrane protein involved in mitochondrial outer membrane tethering and fusion; role in mitochondrial genome maintenance; efficient tethering and degradation of Fzo1p requires an intact N-terminal GTPase domain; targeted for destruction by the ubiquitin ligase SCF-Mdm30p and the cytosolic ubiquitin-proteasome system
-S000032906	CDS					YBR179C		2	589114	586547	C		2011-02-03	1997-01-28	
-S000000384	ORF	Verified	YBR180W	DTR1		chromosome 2		2	589741	591459	W		2011-02-03	1997-01-28	Putative dityrosine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; required for spore wall synthesis; sequence similarity to QDR1 and QDR3, and the triple mutant dtr1 qdr1 qdr3 exhibits reduced dityrosine fluorescence relative to the single mutants; expressed during sporulation
-S000035007	CDS					YBR180W		2	589741	591459	W		2011-02-03	1997-01-28	
-S000000385	ORF	Verified	YBR181C	RPS6B	eS6|ribosomal 40S subunit protein S6B|S6e|RPS102|RPS101|LPG18	chromosome 2	L000002721	2	592774	591712	C		2011-02-03	1997-01-28	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S6, no bacterial homolog; phosphorylated on S233 by Ypk3p in a TORC1-dependent manner, and on S232 in a TORC1/2-dependent manner by Ypk1/2/3p; RPS6B has a paralog, RPS6A, that arose from the whole genome duplication
-S000035075	CDS					YBR181C		2	592416	591712	C		2011-02-03	1997-01-28	
-S000035074	CDS					YBR181C		2	592774	592769	C		2011-02-03	1997-01-28	
-S000035076	intron					YBR181C		2	592768	592417	C		2011-02-03	1997-01-28	
-S000000386	ORF	Verified	YBR182C	SMP1		chromosome 2	L000004146	2	594864	593506	C		2011-02-03	1997-01-28	MADS-box transcription factor involved in osmotic stress response; SMP1 has a paralog, RLM1, that arose from the whole genome duplication
-S000035193	CDS					YBR182C		2	594864	593506	C		2011-02-03	1997-01-28	
-S000028603	ORF	Uncharacterized	YBR182C-A			chromosome 2		2	595555	595361	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031408	CDS					YBR182C-A		2	595555	595361	C		2011-02-03	2003-07-29	
-S000000387	ORF	Verified	YBR183W	YPC1	phytoceramidase	chromosome 2		2	596115	597065	W		2011-02-03	1997-01-28	Alkaline ceramidase; also has reverse (CoA-independent) ceramide synthase activity; catalyzes both breakdown and synthesis of phytoceramide; overexpression confers fumonisin B1 resistance; YPC1 has a paralog, YDC1, that arose from the whole genome duplication
-S000036119	CDS					YBR183W		2	596115	597065	W		2011-02-03	1997-01-28	
-S000000388	ORF	Uncharacterized	YBR184W			chromosome 2		2	597363	598934	W		2011-02-03	1997-01-28	Putative protein of unknown function; YBR184W is not an essential gene
-S000036220	CDS					YBR184W		2	597363	598934	W		2011-02-03	1997-01-28	
-S000000389	ORF	Verified	YBR185C	MBA1		chromosome 2	L000002809	2	599959	599123	C		2011-02-03	1997-01-28	Membrane-associated mitochondrial ribosome receptor; forms a complex with Mdm38p that may facilitate recruitment of mRNA-specific translational activators to ribosomes; possible role in protein export from the matrix to inner membrane
-S000036261	CDS					YBR185C		2	599959	599123	C		2011-02-03	1997-01-28	
-S000000390	ORF	Verified	YBR186W	PCH2		chromosome 2	L000004274	2	600553	602360	W		2011-02-03	2000-07-14|1997-01-28	Hexameric ring ATPase that remodels chromosome axis protein Hop1p; nucleolar component of the pachytene checkpoint, which prevents chromosome segregation when recombination and chromosome synapsis are defective; also represses meiotic interhomolog recombination in rDNA; required for meiotic double-stranded break formation
-S000036993	CDS					YBR186W		2	600553	602103	W		2011-02-03	2000-07-14|1997-01-28	
-S000036994	CDS					YBR186W		2	602217	602360	W		2011-02-03	2000-07-14	
-S000036995	intron					YBR186W		2	602104	602216	W		2011-02-03	2000-07-14	
-S000000391	ORF	Verified	YBR187W	GDT1	putative ribosome biosynthesis protein GDT1	chromosome 2		2	602634	603476	W		2011-02-03	1997-01-28	Calcium transporter localized to the cis- and medial-Golgi apparatus; required for protein glycosylation; GFP-fusion protein localizes to the vacuole; TMEM165, a human gene which causes Congenital Disorders of Glycosylation is orthologous and functionally complements the null allele; expression pattern and physical interactions suggest a possible role in ribosome biogenesis; expression reduced in a gcr1 null mutant
-S000037050	CDS					YBR187W		2	602634	603476	W		2011-02-03	1997-01-28	
-S000000392	ORF	Verified	YBR188C	NTC20		chromosome 2	L000004267	2	604107	603685	C		2011-02-03	1997-01-28	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs
-S000037089	CDS					YBR188C		2	604107	603685	C		2011-02-03	1997-01-28	
-S000000393	ORF	Verified	YBR189W	RPS9B	ribosomal 40S subunit protein S9B|rp21|YS11|S9B|S4|S13|SUP46|RPS13A	chromosome 2	L000002207|S000029306|L000001135	2	604508	605508	W	106	2011-02-03	1997-01-28	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S9 and bacterial S4; RPS9B has a paralog, RPS9A, that arose from the whole genome duplication
-S000037264	CDS					YBR189W		2	604508	604514	W		2011-02-03	1997-01-28	
-S000037265	CDS					YBR189W		2	604928	605508	W		2011-02-03	1997-01-28	
-S000037266	intron					YBR189W		2	604515	604927	W		2011-02-03	1997-01-28	
-S000000394	ORF	Dubious	YBR190W			chromosome 2		2	605966	606277	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ribosomal protein gene RPL21A/YBR191W
-S000029997	CDS					YBR190W		2	605966	606277	W		2011-02-03	1997-01-28	
-S000000395	ORF	Verified	YBR191W	RPL21A	eL21|ribosomal 60S subunit protein L21A|L21e|L21A|URP1	chromosome 2	L000002441	2	606270	607140	W		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L21A; homologous to mammalian ribosomal protein L21, no bacterial homolog; RPL21A has a paralog, RPL21B, that arose from the whole genome duplication
-S000030992	CDS					YBR191W		2	606270	606280	W		2011-02-03	1997-01-28	
-S000030993	CDS					YBR191W		2	606669	607140	W		2011-02-03	1997-01-28	
-S000030994	intron					YBR191W		2	606281	606668	W		2011-02-03	1997-01-28	
-S000007594	ORF	Dubious	YBR191W-A			chromosome 2		2	607149	607223	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037106	CDS					YBR191W-A		2	607149	607223	W		2011-02-03	2001-02-26	
-S000000396	ORF	Verified	YBR192W	RIM2	PYT1	chromosome 2	L000001641	2	607652	608785	W		2011-02-03	1997-01-28	Mitochondrial pyrimidine nucleotide transporter; imports pyrimidine nucleoside triphosphates and exports pyrimidine nucleoside monophosphates; member of the mitochondrial carrier family
-S000031077	CDS					YBR192W		2	607652	608785	W		2011-02-03	1997-01-28	
-S000000397	ORF	Verified	YBR193C	MED8		chromosome 2	L000003917	2	609753	609082	C		2011-02-03	1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
-S000031128	CDS					YBR193C		2	609753	609082	C		2011-02-03	1997-01-28	
-S000000398	ORF	Verified	YBR194W	AIM4	SOY1	chromosome 2		2	610038	610409	W		2011-02-03	1997-01-28	Protein proposed to be associated with the nuclear pore complex; null mutant is viable, displays elevated frequency of mitochondrial genome loss and is sensitive to freeze-thaw stress
-S000032148	CDS					YBR194W		2	610038	610409	W		2011-02-03	1997-01-28	
-S000000399	ORF	Verified	YBR195C	MSI1	CAC3	chromosome 2	L000001193	2	611882	610614	C	89	2011-02-03	1997-01-28	Subunit of chromatin assembly factor I (CAF-1); chromatin assembly by CAF-1 affects multiple processes including silencing at telomeres, mating type loci, and rDNA; maintenance of kinetochore structure; deactivation of DNA damage checkpoint after DNA repair; chromatin dynamics during transcription; and repression of divergent noncoding transcription; Msi1p localizes to nucleus and cytoplasm and independently regulates the RAS/cAMP pathway via sequestration of Npr1p kinase
-S000032175	CDS					YBR195C		2	611882	610614	C		2011-02-03	1997-01-28	
-S000000400	ORF	Verified	YBR196C	PGI1	glucose-6-phosphate isomerase|CDC30	chromosome 2	L000001410|L000001409	2	613900	612236	C	89	2011-02-03	1997-01-28	Glycolytic enzyme phosphoglucose isomerase; catalyzes the interconversion of glucose-6-phosphate and fructose-6-phosphate; required for cell cycle progression and completion of the gluconeogenic events of sporulation
-S000032251	CDS					YBR196C		2	613900	612236	C		2011-02-03	1997-01-28	
-S000028534	ORF	Uncharacterized	YBR196C-A			chromosome 2		2	614173	614024	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031143	CDS					YBR196C-A		2	614173	614024	C		2011-02-03	2003-07-29	
-S000028816	ORF	Uncharacterized	YBR196C-B			chromosome 2		2	614630	614526	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000033621	CDS					YBR196C-B		2	614630	614526	C		2011-02-03	2003-07-29	
-S000000401	ORF	Verified	YBR197C			chromosome 2		2	615856	615203	C		2011-02-03	1997-01-28	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YBR197C is not an essential gene; relative distribution to the nucleus increases upon DNA replication stress; YBR197C has a paralog, YPL077C, that arose from the whole genome duplication
-S000032354	CDS					YBR197C		2	615856	615203	C		2011-02-03	1997-01-28	
-S000000402	ORF	Verified	YBR198C	TAF5	chromatin modification protein|TafII90|TAF90	chromosome 2	L000004155	2	618523	616127	C		2011-02-03	1997-01-28	Subunit (90 kDa) of TFIID and SAGA complexes; involved in RNA polymerase II transcription initiation and in chromatin modification
-S000033223	CDS					YBR198C		2	618523	616127	C		2011-02-03	1997-01-28	
-S000000403	ORF	Verified	YBR199W	KTR4	putative mannosyltransferase	chromosome 2	L000000927	2	618909	620303	W		2011-02-03	1997-01-28	Glycosyltransferase involved in protein glycosylation; transfers GDP-mannose to methyl-alpha-mannoside in vitro; member of the KRE2/MNT1 mannosyltransferase family of type II membrane proteins with a short cytoplasmic N-terminus, a membrane-spanning region and a highly conserved catalytic lumenal domain
-S000033316	CDS					YBR199W		2	618909	620303	W		2011-02-03	1997-01-28	
-S000000404	ORF	Verified	YBR200W	BEM1	phosphatidylinositol-3-phosphate-binding protein BEM1|SRO1	chromosome 2	L000000167	2	620872	622527	W	102	2011-02-03	1997-01-28	Protein containing SH3-domains; involved in establishing cell polarity and morphogenesis; functions as a scaffold protein for complexes that include Cdc24p, Ste5p, Ste20p, and Rsr1p
-S000030486	CDS					YBR200W		2	620872	622527	W		2011-02-03	1997-01-28	
-S000118351	ARS		ARS220		ARSII-623	chromosome 2		2	622671	622939			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000028535	ORF	Uncharacterized	YBR200W-A			chromosome 2		2	622983	623147	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031144	CDS					YBR200W-A		2	622983	623147	W		2011-02-03	2003-07-29	
-S000000405	ORF	Verified	YBR201W	DER1	derlin	chromosome 2	L000002800	2	623576	624211	W		2011-02-03	1999-04-26|1997-01-28	ER membrane protein that promotes export of misfolded polypeptides; required for ER-associated protein degradation of misfolded or unassembled proteins; initiates export of aberrant polypeptides from ER lumen by threading them into ER membrane and routing them to Hrd1p for ubiquitination; function normally requires N-terminal acetylation by NatB; N- and C- termini protrude into cytoplasm; similar to Dfm1p; homolog of mammalian derlin-1
-S000030597	CDS					YBR201W		2	623576	624211	W		2011-02-03	1999-04-26|1997-01-28	
-S000087085	ORF	Uncharacterized	YBR201C-A			chromosome 2		2	624696	624493	C		2011-02-03	2005-11-08	Putative protein of unknown function
-S000087086	CDS					YBR201C-A		2	624696	624493	C		2011-02-03	2005-11-08	
-S000000406	ORF	Verified	YBR202W	MCM7	mini-chromosome maintenance complex protein 7|CDC47	chromosome 2	L000002760	2	625772	628309	W		2011-02-03	1997-01-28|2011-02-03	Component of the Mcm2-7 hexameric helicase complex; MCM2-7 primes origins of DNA replication in G1 and becomes an active ATP-dependent helicase that promotes DNA melting and elongation in S-phase; forms an Mcm4p-6p-7p subcomplex
-S000030677	CDS					YBR202W		2	625772	628309	W		2011-02-03	1997-01-28|2011-02-03	
-S000000407	ORF	Verified	YBR203W	COS111		chromosome 2		2	629168	631942	W		2011-02-03	1997-01-28|2011-02-03	Protein required for antifungal drug ciclopirox olamine resistance; not related to the subtelomerically-encoded COS family; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000031550	CDS					YBR203W		2	629168	631942	W		2011-02-03	1997-01-28|2011-02-03	
-S000130153	ARS		ARS221		ARSII-632	chromosome 2		2	631939	632251			2011-02-03	2009-05-07|2011-02-03	Autonomously Replicating Sequence
-S000178052	ARS_consensus_sequence					ARS221		2	632005	632021	W		2014-11-18	2014-11-18	
-S000000408	ORF	Verified	YBR204C	LDH1	triacylglycerol lipase	chromosome 2		2	633381	632254	C		2011-02-03	1997-01-28|2011-02-03	Serine hydrolase; exhibits active esterase plus weak triacylglycerol lipase activities; proposed role in lipid homeostasis, regulating phospholipid and non-polar lipid levels and required for mobilization of LD-stored lipids; localizes to the lipid droplet (LD) surface; contains a classical serine containing catalytic triad (GxSxG motif)
-S000031575	CDS					YBR204C		2	633381	632254	C		2011-02-03	1997-01-28|2011-02-03	
-S000000409	ORF	Verified	YBR205W	KTR3	mannosyltransferase KTR3	chromosome 2	L000000926	2	633622	634836	W		2011-02-03	1997-01-28	Putative alpha-1,2-mannosyltransferase; involved in O- and N-linked protein glycosylation; member of the KRE2/MNT1 mannosyltransferase family; Svp26p mediates uptake of Ktr3p into COPII vesicles; relocalizes from nucleus to vacuole upon DNA replication stress
-S000031710	CDS					YBR205W		2	633622	634836	W		2011-02-03	1997-01-28	
-S000000410	ORF	Dubious	YBR206W			chromosome 2		2	634601	634924	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene KTR3
-S000031861	CDS					YBR206W		2	634601	634924	W		2011-02-03	1997-01-28	
-S000000411	ORF	Verified	YBR207W	FTH1		chromosome 2	L000003065	2	635146	636543	W		2011-02-03	1997-01-28|2011-02-03	Putative high affinity iron transporter; involved in transport of intravacuolar stores of iron; forms complex with Fet5p; expression is regulated by iron; proposed to play indirect role in endocytosis; protein abundance increases in response to DNA replication stress
-S000032783	CDS					YBR207W		2	635146	636543	W		2011-02-03	1997-01-28|2011-02-03	
-S000000412	ORF	Verified	YBR208C	DUR1,2	bifunctional urea carboxylase/allophanate hydrolase|DUR80	chromosome 2	L000000532|L000000533|L000000536	2	642210	636703	C	112	2011-02-03	1997-01-28	Urea amidolyase; contains both urea carboxylase and allophanate hydrolase activities, degrades urea to CO2 and NH3; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation; protein abundance increases in response to DNA replication stress
-S000032849	CDS					YBR208C		2	642210	636703	C		2011-02-03	1997-01-28	
-S000000413	ORF	Dubious	YBR209W			chromosome 2		2	642583	642900	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YBR209W is not an essential gene
-S000032978	CDS					YBR209W		2	642583	642900	W		2011-02-03	1997-01-28	
-S000006526	tRNA_gene		tC(GCA)B			chromosome 2	L000003748	2	643078	643007	C		2011-02-03	2000-05-19	Cysteine tRNA (tRNA-Cys), predicted by tRNAscan-SE analysis
-S000035208	noncoding_exon					tC(GCA)B		2	643078	643007	C		2011-02-03	2000-05-19	
-S000006820	long_terminal_repeat		YBRCtau2		YBRWtau2	chromosome 2		2	643858	643488	C		2011-02-03	2000-05-19|2007-04-05	Ty4 LTR
-S000006812	long_terminal_repeat		YBRWdelta18		YBRCdelta18	chromosome 2		2	643859	644002	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006813	long_terminal_repeat		YBRCdelta19			chromosome 2		2	644603	644362	C		2011-02-03	2000-05-19|2007-04-05	Ty1 LTR
-S000006548	tRNA_gene		tE(UUC)B			chromosome 2	L000003747	2	645167	645238	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000035972	noncoding_exon					tE(UUC)B		2	645167	645238	W		2011-02-03	2000-05-19	
-S000000414	ORF	Verified	YBR210W	ERV15		chromosome 2		2	645550	645978	W		2011-02-03	1997-01-28	Protein involved in export of proteins from the endoplasmic reticulum; ERV15 has a paralog, ERV14, that arose from the whole genome duplication
-S000033653	CDS					YBR210W		2	645550	645978	W		2011-02-03	1997-01-28	
-S000000415	ORF	Verified	YBR211C	AME1	ARP100	chromosome 2	L000004725	2	647132	646158	C		2011-02-03	1997-01-28	Essential kinetochore protein associated with microtubules and SPBs; component of the kinetochore sub-complex COMA (Ctf19p, Okp1p, Mcm21p, Ame1p); involved in spindle checkpoint maintenance; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-U and fission yeast Mis17; relative distribution to the nucleus increases upon DNA replication stress
-S000033678	CDS					YBR211C		2	647132	646158	C		2011-02-03	1997-01-28	
-S000000416	ORF	Verified	YBR212W	NGR1	RBP1	chromosome 2	L000001242	2	647886	649904	W		2011-02-03	1997-01-28	RNA binding protein that negatively regulates growth rate; interacts with the 3' UTR of the mitochondrial porin (POR1) mRNA and enhances its degradation; overexpression impairs mitochondrial function; interacts with Dhh1p to mediate POR1 mRNA decay; expressed in stationary phase
-S000034651	CDS					YBR212W		2	647886	649904	W		2011-02-03	1997-01-28	
-S000000417	ORF	Verified	YBR213W	MET8	bifunctional precorrin-2 dehydrogenase/sirohydrochlorin ferrochelatase MET8	chromosome 2	L000001083	2	650368	651192	W	119	2011-02-03	1997-01-28	Bifunctional dehydrogenase and ferrochelatase; involved in the biosynthesis of siroheme, a prosthetic group used by sulfite reductase; required for sulfate assimilation and methionine biosynthesis
-S000034801	CDS					YBR213W		2	650368	651192	W		2011-02-03	1997-01-28	
-S000000418	ORF	Verified	YBR214W	SDS24		chromosome 2	L000004811	2	651415	652998	W		2011-02-03	1997-01-28	Protein involved in cell separation during budding; one of two S. cerevisiae homologs (Sds23p and Sds24p) of the S. pombe Sds23 protein, which is implicated in APC/cyclosome regulation; may play an indirect role in fluid-phase endocytosis; protein abundance increases in response to DNA replication stress; SDS24 has a paralog, SDS23, that arose from the whole genome duplication
-S000034936	CDS					YBR214W		2	651415	652998	W		2011-02-03	1997-01-28	
-S000000419	ORF	Verified	YBR215W	HPC2		chromosome 2	L000000804	2	653356	655317	W		2011-02-03	1997-01-28|2007-07-09	Subunit of the HIR complex; HIR is a nucleosome assembly complex involved in regulation of histone gene transcription; mutants display synthetic defects with subunits of FACT, a complex that allows passage of RNA Pol II through nucleosomes
-S000035856	CDS					YBR215W		2	653356	653368	W		2011-02-03	1997-01-28|2007-07-09	
-S000123275	CDS					YBR215W		2	653453	655317	W		2011-02-03	2007-07-09	
-S000123274	intron					YBR215W		2	653369	653452	W		2011-02-03	2007-07-09	
-S000000420	ORF	Verified	YBR216C	YBP1		chromosome 2		2	657600	655576	C		2011-02-03	1997-01-28	Protein involved in cellular response to oxidative stress; required for oxidation of specific cysteine residues of transcription factor Yap1p, resulting in nuclear localization of Yap1p in response to stress; YBP1 has a paralog, YBP2, that arose from the whole genome duplication
-S000035897	CDS					YBR216C		2	657600	655576	C		2011-02-03	1997-01-28	
-S000000421	ORF	Verified	YBR217W	ATG12	APG12	chromosome 2	L000004702	2	657832	658392	W		2011-02-03	1997-01-28	Ubiquitin-like modifier involved in autophagy and the Cvt pathway; conserved; conjugated to Atg5p to form a complex involved in Atg8p lipidation; Atg5p-Atg12p conjugate enhances E2 activity of Atg3p by rearranging its catalytic site, also forms a complex with Atg16p; the Atg5-Atg12/Atg16 complex binds to membranes and is essential for autophagosome formation
-S000036158	CDS					YBR217W		2	657832	658392	W		2011-02-03	1997-01-28	
-S000000422	ORF	Verified	YBR218C	PYC2	pyruvate carboxylase 2	chromosome 2	L000001543	2	662249	658707	C		2011-02-03	1997-01-28	Pyruvate carboxylase isoform; cytoplasmic enzyme that converts pyruvate to oxaloacetate; differentially regulated than isoform Pyc1p; mutations in the human homolog are associated with lactic acidosis; PYC2 has a paralog, PYC1, that arose from the whole genome duplication
-S000036216	CDS					YBR218C		2	662249	658707	C		2011-02-03	1997-01-28	
-S000000423	ORF	Uncharacterized	YBR219C			chromosome 2		2	663303	662499	C		2011-02-03	1997-01-28	Putative protein of unknown function; YBR219C is not an essential gene
-S000036941	CDS					YBR219C		2	662581	662499	C		2011-02-03	1997-01-28	
-S000036940	CDS					YBR219C		2	663303	663003	C		2011-02-03	1997-01-28	
-S000036942	intron					YBR219C		2	663002	662582	C		2011-02-03	1997-01-28	
-S000000424	ORF	Uncharacterized	YBR220C			chromosome 2		2	664677	662995	C		2011-02-03	1997-01-28	Putative protein of unknown function; YBR220C is not an essential gene
-S000037728	CDS					YBR220C		2	664677	662995	C		2011-02-03	1997-01-28	
-S000000425	ORF	Verified	YBR221C	PDB1	pyruvate dehydrogenase (acetyl-transferring) subunit E1 beta	chromosome 2	L000001353	2	666253	665153	C		2011-02-03	1997-01-28	E1 beta subunit of the pyruvate dehydrogenase (PDH) complex; PDH is an evolutionarily conserved multi-protein complex found in mitochondria
-S000037817	CDS					YBR221C		2	666253	665153	C		2011-02-03	1997-01-28	
-S000028817	ORF	Uncharacterized	YBR221W-A			chromosome 2		2	666538	666642	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000033623	CDS					YBR221W-A		2	666538	666642	W		2011-02-03	2003-07-29	
-S000000426	ORF	Verified	YBR222C	PCS60	FAT2	chromosome 2	L000003238	2	668351	666720	C		2011-02-03	1997-01-28	Oxalyl-CoA synthetase; capable of catalyzing conversion of oxalate to oxalyl-CoA; catalyzes first step in pathway of oxalate degradation that functions to protect yeast from inhibitory effects of oxalate; peroxisomal protein that binds mRNA; localizes to both peroxisomal peripheral membrane and matrix, expression is highly inducible by oleic acid; similar to E. coli long chain acyl-CoA synthetase
-S000029826	CDS					YBR222C		2	668351	666720	C		2011-02-03	1997-01-28	
-S000028604	ORF	Dubious	YBR223W-A			chromosome 2		2	668721	668840	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps YBR223C; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031411	CDS					YBR223W-A		2	668721	668840	W		2011-02-03	2003-07-29	
-S000000428	ORF	Dubious	YBR224W			chromosome 2		2	670125	670640	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene TDP1
-S000030960	CDS					YBR224W		2	670125	670640	W		2011-02-03	1997-01-28	
-S000000427	ORF	Verified	YBR223C	TDP1	tyrosyl-DNA phosphodiesterase 1	chromosome 2	S000007461	2	670297	668663	C		2011-02-03	1997-01-28	Tyrosyl-DNA phosphodiesterase I; hydrolyzes 3' and 5'-phosphotyrosyl bonds; involved in the repair of DNA lesions created by topo I and topo II; mutations in the human homolog, TDP1, result in the a neurodegenerative disease, spinocerebellar ataxia with axonal neuropathy (SCAN1); yeast cells and human rhabdomyosarcoma lines that overexpress TDP1 both exhibit elevated dosage chromosomal instability (dCIN)
-S000030837	CDS					YBR223C		2	670297	668663	C		2011-02-03	1997-01-28	
-S000000429	ORF	Uncharacterized	YBR225W			chromosome 2		2	670627	673329	W		2011-02-03	1997-01-28	Putative protein of unknown function; non-essential gene identified in a screen for mutants affected in mannosylphophorylation of cell wall components
-S000031063	CDS					YBR225W		2	670627	673329	W		2011-02-03	1997-01-28	
-S000000430	ORF	Dubious	YBR226C			chromosome 2		2	673565	673155	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YBR225W
-S000031074	CDS					YBR226C		2	673565	673155	C		2011-02-03	1997-01-28	
-S000000431	ORF	Verified	YBR227C	MCX1		chromosome 2		2	675134	673572	C		2011-02-03	1997-01-28	Non-proteolytic ATPase of the AAA family; stimulates incorporation of the pyridoxal phosphate cofactor into Hem1p (5-aminolevulinic acid synthase); localized to the mitochondrial matrix; ortholog of vertebrate CLPX, which promotes erythropoiesis
-S000032046	CDS					YBR227C		2	675134	673572	C		2011-02-03	1997-01-28	
-S000000432	ORF	Verified	YBR228W	SLX1	endonuclease	chromosome 2		2	675313	676227	W		2011-02-03	1997-01-28	Endonuclease involved in DNA recombination and repair; subunit of a complex, with Slx4p, that hydrolyzes 5' branches from duplex DNA in response to stalled or converging replication forks; function overlaps with that of Sgs1p-Top3p
-S000032169	CDS					YBR228W		2	675313	676227	W		2011-02-03	1997-01-28	
-S000000433	ORF	Verified	YBR229C	ROT2	glucan 1,3-alpha-glucosidase ROT2|GLS2	chromosome 2	L000003405	2	679221	676357	C		2011-02-03	1997-01-28	Glucosidase II catalytic subunit; required to trim the final glucose in N-linked glycans; required for normal cell wall synthesis; mutations in rot2 suppress tor2 mutations, and are synthetically lethal with rot1 mutations
-S000032215	CDS					YBR229C		2	679221	676357	C		2011-02-03	1997-01-28	
-S000000434	ORF	Verified	YBR230C	OM14		chromosome 2		2	680050	679549	C		2011-02-03	1997-01-28	Mitochondrial outer membrane receptor for cytosolic ribosomes; integral protein of the outer membrane that interacts with the nascent chain-associated complex (NAC) bound to ribosomes, contributing to co-translational mitochondrial import; interacts with porin (Por1p) and Om45p; abundance is decreased in cells grown in glucose relative to other carbon sources
-S000034001	CDS					YBR230C		2	679942	679549	C		2011-02-03	1997-01-28	
-S000034000	CDS					YBR230C		2	680050	680040	C		2011-02-03	1997-01-28	
-S000034002	intron					YBR230C		2	680039	679943	C		2011-02-03	1997-01-28	
-S000029722	ORF	Uncharacterized	YBR230W-A			chromosome 2		2	680362	680562	W		2011-02-03	2004-04-01	Putative protein of unknown function; YBR230W-A has a paralog, COQ8, that arose from the whole genome duplication
-S000036857	CDS					YBR230W-A		2	680362	680562	W		2011-02-03	2004-04-01	
-S000006478	snRNA_gene		LSR1	LSR1	U2|snR20	chromosome 2	L000000954	2	681862	680688	C		2011-02-03	2000-05-19|2006-10-04	U2 spliceosomal RNA (U2 snRNA), component of the spliceosome; pairs with the branchpoint sequence; functionally equivalent to mammalian U2 snRNA; stress-induced pseudouridylations at positions 56 and 93 may contribute to regulation of splicing
-S000030971	noncoding_exon					LSR1		2	681862	680688	C		2011-02-03	2000-05-19|2006-10-04	
-S000000435	ORF	Verified	YBR231C	SWC5	AOR1	chromosome 2	L000004001	2	683090	682179	C		2011-02-03	1997-01-28	Component of the SWR1 complex; complex exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
-S000034102	CDS					YBR231C		2	683090	682179	C		2011-02-03	1997-01-28	
-S000000437	ORF	Verified	YBR233W	PBP2	HEK1	chromosome 2	L000004512	2	683428	684669	W		2011-02-03	1997-01-28	RNA binding protein; has similarity to mammalian heterogeneous nuclear RNP K protein, involved in the regulation of telomere position effect and telomere length; relative distribution to the nucleus increases upon DNA replication stress
-S000035244	CDS					YBR233W		2	683428	684669	W		2011-02-03	1997-01-28	
-S000000436	ORF	Dubious	YBR232C			chromosome 2		2	683732	683373	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034194	CDS					YBR232C		2	683732	683373	C		2011-02-03	1997-01-28	
-S000007595	ORF	Verified	YBR233W-A	DAD3		chromosome 2		2	684977	685261	W		2011-02-03	2001-02-26	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
-S000037141	CDS					YBR233W-A		2	684977	685261	W		2011-02-03	2001-02-26	
-S000000438	ORF	Verified	YBR234C	ARC40		chromosome 2	L000004788	2	686592	685438	C		2011-02-03	1997-01-28	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches
-S000035293	CDS					YBR234C		2	686592	685438	C		2011-02-03	1997-01-28	
-S000000439	ORF	Verified	YBR235W	VHC1		chromosome 2		2	686901	690263	W		2011-02-03	1997-01-28	Vacuolar membrane cation-chloride cotransporter (CCC); likely mediates K+ and Cl- cotransport into the vacuole; has a role in potassium homeostasis and salt tolerance; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs); similar to mammalian electroneutral Na(+)-(K+)-C1- cotransporter family
-S000035401	CDS					YBR235W		2	686901	690263	W		2011-02-03	1997-01-28	
-S000000440	ORF	Verified	YBR236C	ABD1	mRNA (guanine-N7)-methyltransferase	chromosome 2	L000000011	2	691693	690383	C		2011-02-03	1997-01-28	Methyltransferase; catalyzes the transfer of a methyl group from S-adenosylmethionine to the GpppN terminus of capped mRNA; nuclear protein that relocalizes to the cytosol in response to hypoxia
-S000035435	CDS					YBR236C		2	691693	690383	C		2011-02-03	1997-01-28	
-S000000441	ORF	Verified	YBR237W	PRP5	DEAD-box RNA helicase PRP5|RNA5	chromosome 2	L000001498	2	691969	694518	W	138	2011-02-03	1997-01-28	RNA helicase in the DEAD-box family; necessary for prespliceosome formation, bridges U1 and U2 snRNPs and enables stable U2 snRNP association with intron RNA
-S000036392	CDS					YBR237W		2	691969	694518	W		2011-02-03	1997-01-28	
-S000000442	ORF	Verified	YBR238C			chromosome 2		2	697302	695107	C		2011-02-03	1997-01-28	Mitochondrial membrane protein; not required for respiratory growth but causes a synthetic respiratory defect in combination with rmd9 mutations; transcriptionally up-regulated by TOR; deletion increases life span; YBR238C has a paralog, RMD9, that arose from the whole genome duplication
-S000036425	CDS					YBR238C		2	697302	695107	C		2011-02-03	1997-01-28	
-S000000443	ORF	Verified	YBR239C	ERT1		chromosome 2		2	699943	698354	C		2011-02-03	1997-01-28	Transcriptional regulator; involved in regulation of gluconeogenesis and fermentable carbon utilization; GFP-fusion protein localizes to cytoplasm, nucleus; null mutation affects periodicity of transcriptional and metabolic oscillation; plays role in restricting Ty1 transposition; member of the zinc cluster family of proteins, similar to Rds2p
-S000036512	CDS					YBR239C		2	699943	698354	C		2011-02-03	1997-01-28	
-S000000444	ORF	Verified	YBR240C	THI2	phoF|PHO6	chromosome 2	L000003526	2	701842	700490	C		2011-02-03	1997-01-28	Transcriptional activator of thiamine biosynthetic genes; interacts with regulatory factor Thi3p to control expression of thiamine biosynthetic genes with respect to thiamine availability; acts together with Pdc2p to respond to thiaminediphosphate demand, possibly as related to carbon source availability; zinc finger protein of the Zn(II)2Cys6 type
-S000037494	CDS					YBR240C		2	701842	700490	C		2011-02-03	1997-01-28	
-S000000445	ORF	Uncharacterized	YBR241C			chromosome 2		2	704055	702589	C		2011-02-03	1997-01-28	Putative transporter, member of the sugar porter family; green fluorescent protein (GFP)-fusion protein localizes to the vacuolar membrane; YBR241C is not an essential gene; YBR241C has a paralog, VPS73, that arose from the whole genome duplication
-S000037584	CDS					YBR241C		2	704055	702589	C		2011-02-03	1997-01-28	
-S000118352	ARS		ARS222		ARSII-704	chromosome 2		2	704296	704566			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000000446	ORF	Uncharacterized	YBR242W			chromosome 2	L000004757	2	704670	705386	W		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YBR242W is not an essential gene; YBR242W has a paralog, YGL101W, that arose from the whole genome duplication
-S000030457	CDS					YBR242W		2	704670	705386	W		2011-02-03	1997-01-28	
-S000000447	ORF	Verified	YBR243C	ALG7	UDP-N-acetylglucosamine--dolichyl-phosphate N-acetylglucosaminephosphotransferase|TUR1	chromosome 2	L000000078	2	706793	705447	C		2011-02-03	1997-01-28	UDP-N-acetyl-glucosamine-1-P transferase; transfers Glc-Nac-P from UDP-GlcNac to Dol-P in the ER in the first step of the dolichol pathway of protein asparagine-linked glycosylation; inhibited by tunicamycin; human homolog DPAGT1 can complement yeast ALG7 mutant
-S000030493	CDS					YBR243C		2	706793	705447	C		2011-02-03	1997-01-28	
-S000000448	ORF	Verified	YBR244W	GPX2	glutathione peroxidase GPX2|AMI1	chromosome 2		2	707528	708016	W		2011-02-03	1997-01-28	Phospholipid hydroperoxide glutathione peroxidase; protects cells from phospholipid hydroperoxides and nonphospholipid peroxides during oxidative stress; induced by glucose starvation; protein abundance increases in response to DNA replication stress
-S000030605	CDS					YBR244W		2	707528	708016	W		2011-02-03	1997-01-28	
-S000000449	ORF	Verified	YBR245C	ISW1	chromatin-remodeling ATPase ISW1|SGN2	chromosome 2	L000004447	2	711539	708150	C		2011-02-03	1997-01-28	ATPase subunit of imitation-switch (ISWI) class chromatin remodelers; with Ioc3p forms Isw1a complex involved in repression of transcription initiation; with Ioc2p and Ioc4p forms Isw1b complex involved in regulation of transcription elongation; Isw1b recruited to ORFs by H3K36 methylation and acts with Chd1p to prevent trans-histone exchange over coding regions; Isw1p import into nucleus depends on C-terminal bipartite nuclear targeting signal KRIR X19 KKAK
-S000030646	CDS					YBR245C		2	711539	708150	C		2011-02-03	1997-01-28	
-S000000450	ORF	Verified	YBR246W	RRT2	DPH7|diphthamide synthase|ERE1	chromosome 2		2	711591	712754	W		2011-02-03	1997-01-28	Methylesterase performing penultimate step of diphthamide biosynthesis; hydrolyzes methylated diphthine to produce diphthine and allows Dph6-catalyzed amidation reaction to occur; deletion leads to resistance to sordarin and accumulation of methylatediphthine; WD40 domain-containing protein; involved in endosomal recycling; forms complex with Rtt10p that functions in retromer-mediated pathway for recycling internalized cell-surface proteins
-S000030760	CDS					YBR246W		2	711591	712754	W		2011-02-03	1997-01-28	
-S000000451	ORF	Verified	YBR247C	ENP1	snoRNA-binding rRNA-processing protein ENP1|MEG1	chromosome 2	L000003200|L000001059	2	714455	713004	C		2011-02-03	1997-01-28	Protein associated with U3 and U14 snoRNAs; required for pre-rRNA processing and 40S ribosomal subunit synthesis; localized in the nucleus and concentrated in the nucleolus; human BYSL functionally complements the heat sensitivity of an enp1 ts mutant
-S000031591	CDS					YBR247C		2	714455	713004	C		2011-02-03	1997-01-28	
-S000000452	ORF	Verified	YBR248C	HIS7	imidazoleglycerol-phosphate synthase	chromosome 2	L000000784	2	716465	714807	C	146	2011-02-03	1997-01-28	Imidazole glycerol phosphate synthase; glutamine amidotransferase:cyclase that catalyzes the fifth step of histidine biosynthesis and also produces 5-aminoimidazole-4-carboxamide ribotide (AICAR), a purine precursor
-S000031672	CDS					YBR248C		2	716465	714807	C		2011-02-03	1997-01-28	
-S000000453	ORF	Verified	YBR249C	ARO4	3-deoxy-7-phosphoheptulonate synthase ARO4	chromosome 2	L000000119	2	717994	716882	C		2011-02-03	1997-01-28	3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) synthase; catalyzes the first step in aromatic amino acid biosynthesis and is feedback-inhibited by tyrosine or high concentrations of phenylalanine or tryptophan; relative distribution to the nucleus increases upon DNA replication stress
-S000031774	CDS					YBR249C		2	717994	716882	C		2011-02-03	1997-01-28	
-S000000454	ORF	Verified	YBR250W	SPO23		chromosome 2		2	719033	720604	W		2011-02-03	1997-01-28	Protein of unknown function; associates with meiosis-specific protein Spo1p
-S000033891	CDS					YBR250W		2	719033	720604	W		2011-02-03	1997-01-28	
-S000000455	ORF	Verified	YBR251W	MRPS5	mitochondrial 37S ribosomal protein MRPS5	chromosome 2	L000001174	2	721390	722313	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the small subunit
-S000034780	CDS					YBR251W		2	721390	722313	W		2011-02-03	1997-01-28	
-S000000456	ORF	Verified	YBR252W	DUT1	bifunctional dITP/dUTP diphosphatase	chromosome 2	L000000537	2	722611	723054	W		2011-02-03	1997-01-28	Deoxyuridine triphosphate diphosphatase (dUTPase); catalyzes hydrolysis of dUTP to dUMP and PPi, thereby preventing incorporation of uracil into DNA during replication; critical for the maintenance of genetic stability; also has diphosphatase activity on deoxyinosine triphosphate; human homolog DUT allows growth of yeast haploid dut1 null mutant after sporulation of heterozygous diploid
-S000034888	CDS					YBR252W		2	722611	723054	W		2011-02-03	1997-01-28	
-S000000457	ORF	Verified	YBR253W	SRB6	MED22	chromosome 2	L000002053	2	723270	723635	W		2011-02-03	1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
-S000035009	CDS					YBR253W		2	723270	723635	W		2011-02-03	1997-01-28	
-S000000458	ORF	Verified	YBR254C	TRS20	TRAPP subunit TRS20	chromosome 2	S000007431	2	724263	723736	C		2011-02-03	1997-01-28	Core component of transport protein particle (TRAPP) complexes I-III; TRAPPs are multimeric guanine nucleotide-exchange factors for GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII); mutation leads to defects in endocytic recycling, block in sporulation/meiosis; mutations in human homolog TRAPPC2 cause spondyloepiphyseal dysplasia tarda, TRAPPC2 can complement yeast null mutant
-S000035081	CDS					YBR254C		2	724263	723736	C		2011-02-03	1997-01-28	
-S000000459	ORF	Verified	YBR255W	MTC4		chromosome 2		2	724456	726540	W		2011-02-03	1997-01-28	Protein of unknown function; required for normal growth rate at 15 degrees C; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; mtc4 is synthetically sick with cdc13-1
-S000036028	CDS					YBR255W		2	724456	726540	W		2011-02-03	1997-01-28	
-S000007649	ORF	Uncharacterized	YBR255C-A	RCF3		chromosome 2		2	727074	726618	C		2011-02-03	2003-12-17|2001-06-26	Putative protein of unknown function; may interact with respiratory chain complexes III (ubiquinol-cytochrome c reductase) or IV (cytochrome c oxidase); identified by sequence comparison with hemiascomycetous yeast species
-S000037335	CDS					YBR255C-A		2	726917	726618	C		2011-02-03	2003-12-17|2001-06-26	
-S000037334	CDS					YBR255C-A		2	727074	727012	C		2011-02-03	2003-12-17|2001-06-26	
-S000037336	intron					YBR255C-A		2	727011	726918	C		2011-02-03	2003-12-17|2001-06-26	
-S000000460	ORF	Verified	YBR256C	RIB5	riboflavin synthase	chromosome 2	L000001636	2	728102	727386	C	150	2011-02-03	1997-01-28	Riboflavin synthase; catalyzes the last step of the riboflavin biosynthesis pathway
-S000036049	CDS					YBR256C		2	728102	727386	C		2011-02-03	1997-01-28	
-S000000461	ORF	Verified	YBR257W	POP4	RNase P/RNase MRP complex subunit	chromosome 2	L000003537	2	728885	729724	W		2011-02-03	1997-01-28	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; binds to the RPR1 RNA subunit in RNase P
-S000036225	CDS					YBR257W		2	728885	729724	W		2011-02-03	1997-01-28	
-S000000462	ORF	Verified	YBR258C	SHG1	CPS15	chromosome 2		2	730162	729734	C		2011-02-03	1997-01-28	Subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3 on lysine 4 and is required in transcriptional silencing near telomeres
-S000036263	CDS					YBR258C		2	730162	729734	C		2011-02-03	1997-01-28	
-S000000463	ORF	Verified	YBR259W			chromosome 2		2	730387	732453	W		2011-02-03	1997-01-28	Protein of unknown function; YBR259W is not an essential gene; forms cytoplasmic foci upon DNA replication stress
-S000036998	CDS					YBR259W		2	730387	732453	W		2011-02-03	1997-01-28	
-S000000464	ORF	Verified	YBR260C	RGD1		chromosome 2		2	734639	732639	C		2011-02-03	1997-01-28	GTPase-activating protein (RhoGAP) for Rho3p and Rho4p; possibly involved in control of actin cytoskeleton organization
-S000035993	CDS					YBR260C		2	734639	732639	C		2011-02-03	1997-01-28	
-S000000465	ORF	Verified	YBR261C	TAE1	N-terminal protein methyltransferase|NTM1	chromosome 2		2	735530	734832	C		2011-02-03	1997-01-28	AdoMet-dependent proline methyltransferase; catalyzes the dimethylation of ribosomal proteins Rpl12 and Rps25 at N-terminal proline residues; has a role in protein synthesis; fusion protein localizes to the cytoplasm
-S000037822	CDS					YBR261C		2	735530	734832	C		2011-02-03	1997-01-28	
-S000000466	ORF	Verified	YBR262C	MIC12	AIM5|MCS12|FMP51	chromosome 2		2	736040	735720	C		2011-02-03	1997-01-28	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; forms a subcomplex with Mic10p and Mic27p whose assembly and stability requires cardiolipin
-S000029843	CDS					YBR262C		2	736040	735720	C		2011-02-03	1997-01-28	
-S000000467	ORF	Verified	YBR263W	SHM1	glycine hydroxymethyltransferase SHM1|TMP3|SHMT1	chromosome 2	L000001883	2	736264	737736	W		2011-02-03	2003-09-22|1997-01-28	Mitochondrial serine hydroxymethyltransferase; converts serine to glycine plus 5,10 methylenetetrahydrofolate; involved in generating precursors for purine, pyrimidine, amino acid, and lipid biosynthesis; reverse reaction generates serine
-S000030905	CDS					YBR263W		2	736264	737736	W		2011-02-03	2003-09-22|1997-01-28	
-S000000468	ORF	Verified	YBR264C	YPT10	Rab family GTPase YPT10	chromosome 2		2	738369	737770	C		2011-02-03	2003-09-22|1997-01-28	Rab family GTP-binding protein; contains the PEST signal sequence specific for proteolytic enzymes; may be involved in vesicular transport; overexpression leads to accumulation of Golgi-like cisternae with budding vesicles
-S000030937	CDS					YBR264C		2	738369	737770	C		2011-02-03	2003-09-22|1997-01-28	
-S000000469	ORF	Verified	YBR265W	TSC10	3-dehydrosphinganine reductase	chromosome 2		2	738582	739544	W		2011-02-03	1997-01-28|2011-02-03	3-ketosphinganine reductase; catalyzes the second step in phytosphingosine synthesis; essential for growth in the absence of exogenous dihydrosphingosine or phytosphingosine; localized to lipid droplets; member of short chain dehydrogenase/reductase protein family
-S000031091	CDS					YBR265W		2	738582	739544	W		2011-02-03	1997-01-28|2011-02-03	
-S000000471	ORF	Verified	YBR267W	REI1		chromosome 2		2	739841	741022	W		2011-02-03	1999-04-26|1997-01-28|2011-02-03	Cytoplasmic pre-60S factor; required for the correct recycling of shuttling factors Alb1, Arx1 and Tif6 at the end of the ribosomal large subunit biogenesis; involved in bud growth in the mitotic signaling network
-S000032151	CDS					YBR267W		2	739841	741022	W		2011-02-03	1999-04-26|1997-01-28|2011-02-03	
-S000000470	ORF	Dubious	YBR266C	SLM6		chromosome 2		2	740388	739936	C		2011-02-03	1999-04-26|1997-01-28|2011-02-03	Protein with a potential role in actin cytoskeleton organization; gene exhibits synthetic genetic interaction with MSS4 encoding phosphatidylinositol 4-phosphate kinase
-S000031132	CDS					YBR266C		2	740388	739936	C		2011-02-03	1999-04-26|1997-01-28|2011-02-03	
-S000000472	ORF	Verified	YBR268W	MRPL37	mitochondrial 54S ribosomal protein YmL37|YmL37	chromosome 2	L000001172	2	741299	741616	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit
-S000032225	CDS					YBR268W		2	741299	741616	W		2011-02-03	1997-01-28	
-S000118353	ARS		ARS224		ARSII-742	chromosome 2		2	741681	741797			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178053	ARS_consensus_sequence					ARS224		2	741742	741726	C		2014-11-18	2014-11-18	
-S000000473	ORF	Verified	YBR269C	SDH8	FMP21	chromosome 2		2	742576	742160	C		2011-02-03	2004-01-09|1997-01-28	Protein required for assembly of succinate dehydrogenase; interacts with flavinylated Sdh1p and may function as a chaperone for free Sdh1p, protecting its FAD cofactor from redox reactions before assembly of the complex; soluble protein of the mitochondrial matrix; respiratory defect of null mutant is functionally complemented by Drosophila and human orthologs
-S000032252	CDS					YBR269C		2	742576	742160	C		2011-02-03	2004-01-09|1997-01-28	
-S000000474	ORF	Verified	YBR270C	BIT2		chromosome 2		2	744398	742761	C		2011-02-03	1997-01-28|2011-02-03	Subunit of TORC2 membrane-associated complex; involved in regulation of actin cytoskeletal dynamics during polarized growth and cell wall integrity; interacts with Slm1p and Slm2p, homologous PH domain-containing TORC2 substrates; BIT2 has a paralog, BIT61, that arose from the whole genome duplication
-S000031901	CDS					YBR270C		2	744398	742761	C		2011-02-03	1997-01-28|2011-02-03	
-S000000475	ORF	Verified	YBR271W	EFM2	S-adenosylmethionine-dependent methyltransferase	chromosome 2		2	744852	746111	W		2011-02-03	1997-01-28	S-adenosylmethionine-dependent methyltransferase; seven-beta-strand lysine methyltransferase which dimethylates translation elongation factor EF2 (Eft1p and Eft2p) at lysine 613 and methylates EF3 (Yef3p) at lysine 187; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; involved in regulation of translational termination; predicted involvement in ribosome biogenesis
-S000032109	CDS					YBR271W		2	744852	746111	W		2011-02-03	1997-01-28	
-S000000476	ORF	Verified	YBR272C	HSM3		chromosome 2	L000004729	2	747803	746361	C		2011-02-03	1997-01-28	Evolutionarily conserved 19S regulatory particle assembly-chaperone; involved in the assembly of the base subcomplex of the 19S proteasomal regulatory particle (RP); involved in DNA mismatch repair during slow growth; weak similarity to Msh1p; structural study suggests Hsm3p is a scaffold protein for Rpt1p-Rpt2p complex formation; ortholog of human 19S subunit S5b
-S000032139	CDS					YBR272C		2	747803	746361	C		2011-02-03	1997-01-28	
-S000000477	ORF	Verified	YBR273C	UBX7	CUI3	chromosome 2		2	749371	748061	C		2011-02-03	1997-01-28	UBX (ubiquitin regulatory X) domain-containing protein; interacts with Cdc48p; UBX7 has a paralog, UBX6, that arose from the whole genome duplication
-S000034143	CDS					YBR273C		2	749371	748061	C		2011-02-03	1997-01-28	
-S000000478	ORF	Verified	YBR274W	CHK1	serine/threonine protein kinase CHK1	chromosome 2	L000004861	2	749594	751177	W		2011-02-03	1997-01-28	Serine/threonine kinase and DNA damage checkpoint effector; mediates cell cycle arrest via phosphorylation of Pds1p; phosphorylated by checkpoint signal transducer Mec1p; homolog of S. pombe and mammalian Chk1 checkpoint kinase
-S000034288	CDS					YBR274W		2	749594	751177	W		2011-02-03	1997-01-28	
-S000000479	ORF	Verified	YBR275C	RIF1	DNA-binding protein RIF1	chromosome 2	L000001639	2	757106	751356	C		2011-02-03	1997-01-28|2011-02-03	Protein that binds to the Rap1p C-terminus; acts synergistically with Rif2p to help control telomere length and establish telomeric silencing; involved in control of DNA replication; contributes to resection of DNA double strand breaks (DSBs); deletion results in telomere elongation
-S000034316	CDS					YBR275C		2	757106	751356	C		2011-02-03	1997-01-28|2011-02-03	
-S000118354	ARS		ARS225		ARSII-757	chromosome 2		2	757437	757667			2011-02-03	2006-08-30	Autonomously Replicating Sequence; replication origin of very weak function
-S000000480	ORF	Verified	YBR276C	PPS1	tyrosine/serine/threonine protein phosphatase PPS1	chromosome 2	L000003522	2	760043	757620	C		2011-02-03	1997-01-28	Protein phosphatase; has specificity for serine, threonine, and tyrosine residues; has a role in the DNA synthesis phase of the cell cycle
-S000034373	CDS					YBR276C		2	760043	757620	C		2011-02-03	1997-01-28	
-S000000482	ORF	Verified	YBR278W	DPB3	DNA polymerase epsilon noncatalytic subunit	chromosome 2	L000000520	2	760294	760899	W		2011-02-03	1997-01-28	Third-largest subunit of DNA polymerase II (DNA polymerase epsilon); required to maintain fidelity of chromosomal replication and also for inheritance of telomeric silencing; stabilizes the interaction of Pol epsilon with primer-template DNA, positively affecting the processivity of the polymerase and exonuclease activities of Pol epsilon; mRNA abundance peaks at the G1/S boundary of the cell cycle; DPB3 has a paralog, DLS1, that arose from the whole genome duplication
-S000035459	CDS					YBR278W		2	760294	760899	W		2011-02-03	1997-01-28	
-S000000481	ORF	Dubious	YBR277C			chromosome 2		2	760616	760215	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR278W
-S000035356	CDS					YBR277C		2	760616	760215	C		2011-02-03	1997-01-28	
-S000000483	ORF	Verified	YBR279W	PAF1		chromosome 2	L000002621	2	761257	762594	W		2011-02-03	1997-01-28	Component of the Paf1p complex involved in transcription elongation; binds to and modulates the activity of RNA polymerases I and II; required for expression of a subset of genes, including cell cycle-regulated genes; involved in SER3 repression by helping to maintain SRG1 transcription-dependent nucleosome occupancy; homolog of human PD2/hPAF1
-S000035503	CDS					YBR279W		2	761257	762594	W		2011-02-03	1997-01-28	
-S000000484	ORF	Verified	YBR280C	SAF1	SCF ubiquitin ligase complex subunit SAF1	chromosome 2		2	764697	762784	C		2011-02-03	2003-09-22|1997-01-28	F-Box protein involved in proteasome-dependent degradation of Aah1p; involved in proteasome-dependent degradation of Aah1p during entry of cells into quiescence; interacts with Skp1
-S000035024	CDS					YBR280C		2	764697	762784	C		2011-02-03	2003-09-22|1997-01-28	
-S000000485	ORF	Verified	YBR281C	DUG2	glutamine amidotransferase subunit DUG2	chromosome 2		2	767606	764970	C		2011-02-03	1997-01-28	Component of glutamine amidotransferase (GATase II); forms a complex with Dug3p to degrade glutathione (GSH) and other peptides containing a gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p)
-S000035219	CDS					YBR281C		2	767606	764970	C		2011-02-03	1997-01-28	
-S000000486	ORF	Verified	YBR282W	MRPL27	mitochondrial 54S ribosomal protein YmL27|YmL27	chromosome 2	L000002528|L000001167	2	768240	768680	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; homolog of human Bcl-2 interacting protein BMRP
-S000036203	CDS					YBR282W		2	768240	768680	W		2011-02-03	1997-01-28	
-S000000487	ORF	Verified	YBR283C	SSH1		chromosome 2	L000003994	2	770415	768943	C		2011-02-03	1997-01-28	Subunit of the Ssh1 translocon complex; Sec61p homolog involved in co-translational pathway of protein translocation; not essential
-S000036248	CDS					YBR283C		2	770415	768943	C		2011-02-03	1997-01-28	
-S000000488	ORF	Uncharacterized	YBR284W		metallo-dependent hydrolase superfamily protein	chromosome 2		2	771239	773632	W		2011-02-03	1997-01-28	Putative metallo-dependent hydrolase superfamily protein; similar to AMP deaminases but lacks key catalytic residues and does not rescue purine nucleotide metabolic defect of quadruple aah1 ade8 amd1 his1 mutant; null mutant exhibits longer telomeres, altered Ty mobility, decreased resistance to rapamycin and wortmannin; induced in response to hydrostatic pressure; not an essential gene; YBR284W has a paralog, YJL070C, that arose from the whole genome duplication
-S000036400	CDS					YBR284W		2	771239	773632	W		2011-02-03	1997-01-28	
-S000000489	ORF	Uncharacterized	YBR285W			chromosome 2		2	773922	774356	W		2011-02-03	1997-01-28|2011-02-03	Putative protein of unknown function; YBR285W is not an essential gene
-S000030111	CDS					YBR285W		2	773922	774356	W		2011-02-03	1997-01-28|2011-02-03	
-S000000490	ORF	Verified	YBR286W	APE3	APY1	chromosome 2	L000000093	2	774700	776313	W		2011-02-03	1997-01-28|2005-11-07	Vacuolar aminopeptidase Y; processed to mature form by Prb1p
-S000030229	CDS					YBR286W		2	774700	776313	W		2011-02-03	1997-01-28|2005-11-07	
-S000000491	ORF	Uncharacterized	YBR287W		ZSP1	chromosome 2		2	776571	777854	W		2011-02-03	1997-01-28	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the ER; YBR287W is not an essential gene
-S000030366	CDS					YBR287W		2	776571	777854	W		2011-02-03	1997-01-28	
-S000000492	ORF	Verified	YBR288C	APM3	YKS6	chromosome 2	L000002758	2	779463	778012	C		2011-02-03	1997-01-28|2011-02-03	Mu3-like subunit of the clathrin associated protein complex (AP-3); functions in transport of alkaline phosphatase to the vacuole via the alternate pathway
-S000030452	CDS					YBR288C		2	779463	778012	C		2011-02-03	1997-01-28|2011-02-03	
-S000000493	ORF	Verified	YBR289W	SNF5	TYE4|SWI10|HAF4	chromosome 2	L000001948	2	779667	782384	W		2011-02-03	1997-01-28|2011-02-03	Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; functions interdependently in transcriptional activation with Snf2p and Snf6p; relocates to the cytosol under hypoxic conditions
-S000031369	CDS					YBR289W		2	779667	782384	W		2011-02-03	1997-01-28|2011-02-03	
-S000000494	ORF	Verified	YBR290W	BSD2		chromosome 2	L000000194	2	782591	783556	W		2011-02-03	1997-01-28	Heavy metal ion homeostasis protein; facilitates trafficking of Smf1p and Smf2p metal transporters to vacuole where they are degraded; acts as an adaptor protein with Rsp5p in the regulated endocytosis of Smf1p and is itself ubiquitylated by Rsp5p; controls metal ion transport, prevents metal hyperaccumulation, functions in copper detoxification
-S000031117	CDS					YBR290W		2	782591	783556	W		2011-02-03	1997-01-28	
-S000000495	ORF	Verified	YBR291C	CTP1		chromosome 2	L000003310	2	784572	783673	C		2011-02-03	1997-01-28	Mitochondrial inner membrane citrate transporter; member of the mitochondrial carrier family
-S000031161	CDS					YBR291C		2	784572	783673	C		2011-02-03	1997-01-28	
-S000000496	ORF	Dubious	YBR292C			chromosome 2		2	785073	784702	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YBR292C is not an essential gene
-S000032196	CDS					YBR292C		2	785073	784702	C		2011-02-03	1997-01-28	
-S000000497	ORF	Verified	YBR293W	VBA2		chromosome 2		2	787006	788430	W		2011-02-03	1997-01-28	Permease of basic amino acids in the vacuolar membrane
-S000032357	CDS					YBR293W		2	787006	788430	W		2011-02-03	1997-01-28	
-S000000498	ORF	Verified	YBR294W	SUL1	sulfate permease|SFP2	chromosome 2	L000002180	2	789235	791814	W		2011-02-03	1999-04-26|1997-01-28	High affinity sulfate permease of the SulP anion transporter family; sulfate uptake is mediated by specific sulfate transporters Sul1p and Sul2p, which control the concentration of endogenous activated sulfate intermediates
-S000032440	CDS					YBR294W		2	789235	791814	W		2011-02-03	1999-04-26|1997-01-28	
-S000118355	ARS		ARS228		ARSII-792	chromosome 2		2	792218	792310			2014-11-18	2014-11-18|2006-08-30|2011-02-03	Autonomously Replicating Sequence
-S000000499	ORF	Verified	YBR295W	PCA1	cation-transporting P-type ATPase PCA1|PAY2|CAD2	chromosome 2	L000001347|L000000207	2	792849	796499	W	161	2011-02-03	1997-01-28|2011-02-03	Cadmium transporting P-type ATPase; may also have a role in copper and iron homeostasis; stabilized by Cd binding, which prevents ubiquitination; S288C and other lab strains contain a G970R mutation which eliminates Cd transport function
-S000034460	CDS					YBR295W		2	792849	796499	W		2011-02-03	1997-01-28|2011-02-03	
-S000000500	ORF	Verified	YBR296C	PHO89	ITN1	chromosome 2		2	798522	796798	C		2011-02-03	1997-01-28	Plasma membrane Na+/Pi cotransporter; active in early growth phase; similar to phosphate transporters of Neurospora crassa; transcription regulated by inorganic phosphate concentrations and Pho4p; mutations in related human transporter genes hPit1 and hPit2 are associated with hyperphosphatemia-induced calcification of vascular tissue and familial idiopathic basal ganglia calcification
-S000034537	CDS					YBR296C		2	798522	796798	C		2011-02-03	1997-01-28	
-S000028605	ORF	Uncharacterized	YBR296C-A			chromosome 2		2	800242	800123	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031414	CDS					YBR296C-A		2	800242	800123	C		2011-02-03	2003-07-29	
-S000000501	ORF	Verified	YBR297W	MAL33	transcription factor MAL33|MALR|MAL3R	chromosome 2	L000001016	2	800523	801929	W		2011-02-03	1997-01-28	MAL-activator protein; part of complex locus MAL3; nonfunctional in genomic reference strain S288C
-S000034658	CDS					YBR297W		2	800523	801929	W		2011-02-03	1997-01-28	
-S000000502	ORF	Verified	YBR298C	MAL31	maltose permease|MALT|MAL3T	chromosome 2	L000001014	2	804475	802631	C		2011-02-03	1997-01-28	Maltose permease; high-affinity maltose transporter (alpha-glucoside transporter); encoded in the MAL3 complex locus; member of the 12 transmembrane domain superfamily of sugar transporters; functional in genomic reference strain S288C
-S000034677	CDS					YBR298C		2	804475	802631	C		2011-02-03	1997-01-28	
-S000028606	ORF	Uncharacterized	YBR298C-A			chromosome 2		2	805256	805035	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031416	CDS					YBR298C-A		2	805256	805035	C		2011-02-03	2003-07-29	
-S000000503	ORF	Verified	YBR299W	MAL32	alpha-glucosidase MAL32|MALS|MAL3S	chromosome 2	L000001015	2	805351	807105	W		2011-02-03	1997-01-28	Maltase (alpha-D-glucosidase); inducible protein involved in maltose catabolism; encoded in the MAL3 complex locus; functional in genomic reference strain S288C; hydrolyzes the disaccharides maltose, turanose, maltotriose, and sucrose
-S000035668	CDS					YBR299W		2	805351	807105	W		2011-02-03	1997-01-28	
-S000000505	ORF	Verified	YBR301W	PAU24	seripauperin PAU24|DAN3	chromosome 2		2	809057	809419	W		2011-02-03	1997-01-28	Cell wall mannoprotein; has similarity to Tir1p, Tir2p, Tir3p, and Tir4p; member of the seripauperin multigene family encoded mainly in subtelomeric regions; expressed under anaerobic conditions, completely repressed during aerobic growth
-S000033172	CDS					YBR301W		2	809057	809419	W		2011-02-03	1997-01-28	
-S000000504	ORF	Dubious	YBR300C			chromosome 2		2	809097	808600	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR301W; YBR300C is not an essential gene
-S000033026	CDS					YBR300C		2	809097	808600	C		2011-02-03	1997-01-28	
-S000000506	ORF	Verified	YBR302C	COS2		chromosome 2	L000004716	2	811479	810340	C		2011-02-03	1997-01-28	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000033196	CDS					YBR302C		2	811479	810340	C		2011-02-03	1997-01-28	
-S000028940	telomere		TEL02R			chromosome 2		2	812379	813184	W	166	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome II; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
-S000028941	telomeric_repeat					TEL02R		2	813138	813184	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome II
-S000028942	X_element					TEL02R		2	812379	812848	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome II; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028943	X_element_combinatorial_repeat					TEL02R		2	812849	813137	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr II; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000029654	ORF	Verified	R0010W	FLP1		2-micron	L000000619	2-micron	252	1523	W		2006-10-06	2004-02-11	Site-specific recombinase encoded on the 2-micron plasmid; required for 2-micron plasmid propagation as part of a plasmid amplification system that compensates for any copy number decreases caused by missegregation events
-S000119086	CDS					R0010W		2-micron	252	1523	W		2006-10-06	2004-02-11	
-S000029675	ORF	Verified	R0020C	REP1		2-micron	L000001611	2-micron	3008	1887	C		2006-10-06	2004-02-11	Master regulator that regulates transcript levels of the FLP1 gene; acts in concert with Rep2p to regulate transcript levels of the FLP1 gene that promotes plasmid copy amplification and 2-micron plasmid-inheritance; also autoregulates levels of its own transcript; both Rep1p and Rep2p are sumoylated which is important for function
-S000119087	CDS					R0020C		2-micron	3008	1887	C		2006-10-06	2004-02-11	
-S000029674	ORF	Verified	R0030W	RAF1		2-micron	S000007507	2-micron	3271	3816	W		2006-10-06	2004-02-11	Anti-repressor that increases 2 micron plasmid copy number; increases 2 micron plasmid copy number by relieving repression of the FLP1 site-specific recombinase caused by the Rep1-Rep2p trascription regulator; also itself repressed by the Rep1p-Rep2p complex
-S000119088	CDS					R0030W		2-micron	3271	3816	W		2006-10-06	2004-02-11	
-S000029676	ORF	Verified	R0040C	REP2		2-micron	L000001612	2-micron	6198	5308	C		2006-10-06	2004-02-11	Master regulator that regulates transcript levels of the FLP1 gene; acts in concert with Rep1p to regulate transcript levels of the FLP1 gene that promotes plasmid copy amplification and 2-micron plasmid-inheritance; also autoregulates levels of its own transcript; required for Rep1p stability; both Rep1p and Rep2p are sumoylated which is important for function
-S000119089	CDS					R0040C		2-micron	6198	5308	C		2006-10-06	2004-02-11	
-S000028476	ARS		ARS300	ARS300		chromosome 3		3	989	1068			2014-11-18	2003-03-31|2014-11-18	Autonomously Replicating Sequence
-S000030118	ARS_consensus_sequence					ARS300		3	1060	1050	C		2003-03-31	2003-03-31	
-S000028871	telomere		TEL03L			chromosome 3		3	1098	1	C	-50	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome III; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
-S000028872	telomeric_repeat					TEL03L		3	360	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome III
-S000028873	X_element					TEL03L		3	1098	640	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome III; contains an ARS consensus sequence and an Abf1p binding site
-S000028874	X_element_combinatorial_repeat					TEL03L		3	639	361	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr III; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000006828	long_terminal_repeat		YCLWomega1			chromosome 3		3	1179	1429	W		2000-09-13	2000-05-19	Ty5 LTR
-S000006831	LTR_retrotransposon		YCLWTy5-1		Ty5	chromosome 3		3	1179	4322	W		2000-09-13	2000-05-19	Ty5 element, LTR retrotransposon of the Copia (Pseudoviridae) group; this is the only near-full length Ty5 retrotransposon in S288C and it is non-functional
-S000000581	ORF	Dubious	YCL076W			chromosome 3		3	1392	2135	W		2000-09-13	2000-09-13|1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034360	CDS					YCL076W		3	1392	2135	W		2000-09-13	2000-09-13|1997-01-28	
-S000000580	pseudogene		YCL075W			chromosome 3		3	2126	2566	W		2000-09-13	1997-01-28	Pseudogene: encodes fragment of Ty Pol protein
-S000033443	CDS					YCL075W		3	2126	2566	W		2000-09-13	1997-01-28	
-S000000579	pseudogene		YCL074W			chromosome 3		3	2824	3750	W		2000-09-13	2000-09-13|1997-01-28	Pseudogene: encodes fragment of Ty Pol protein
-S000033352	CDS					YCL074W		3	2824	3750	W		2000-09-13	2000-09-13|1997-01-28	
-S000006829	long_terminal_repeat		YCLWomega2			chromosome 3		3	4073	4322	W		2000-09-13	2000-05-19	Ty5 LTR
-S000000575	ORF	Verified	YCL073C	GEX1	glutathione exchanger	chromosome 3		3	8326	6479	C		2000-09-13	2000-09-13|1997-01-28	Proton:glutathione antiporter; localized to the vacuolar and plasma membranes; imports glutathione from the vacuole and exports it through the plasma membrane; has a role in resistance to oxidative stress and modulation of the PKA pathway; GEX1 has a paralog, GEX2, that arose from a segmental duplication
-S000033250	CDS					YCL073C		3	8326	6479	C		2000-09-13	2000-09-13|1997-01-28	
-S000000574	ORF	Verified	YCL069W	VBA3	basic amino acid transporter	chromosome 3		3	9706	11082	W		2000-09-13	1997-01-28	Permease of basic amino acids in the vacuolar membrane; VBA3 has a paralog, VBA5, that arose from a segmental duplication
-S000031320	CDS					YCL069W		3	9706	11082	W		2000-09-13	1997-01-28	
-S000028477	ARS		ARS301	ARS301	HML-E ARS	chromosome 3		3	11146	11401			2003-03-31	2003-03-31	Inactive replication origin linked to the silent mating type locus HML; functions as a transcriptional silencer
-S000030120	ARS_consensus_sequence					ARS301		3	11257	11267	W		2003-03-31	2003-03-31	
-S000029214	silent_mating_type_cassette_array	silenced_gene	HML	HML		chromosome 3	L000000791	3	11146	14849	W	-49	2007-12-10	2007-12-10	Mating type cassette - left; unexpressed complete copy of the mating-type genes, silenced by the Sir2 histone deacetylase and its associated SIR1, SIR3 and SIR4 proteins; mating-type switching involves replacement of the Ya or Yalpha sequences present at the MAT locus with either the a or alpha genes located at one of the HM loci in a process stimulated by the HO endonuclease; sequence replacement occurs by gene conversion, leaving the donor unaltered
-S000124942	W_region					HML		3	11509	12238	W		2007-12-10	2007-12-10	
-S000124943	X_region					HML		3	12239	12943	W		2007-12-10	2007-12-10	
-S000124944	Y_region					HML		3	12944	13690	W		2007-12-10	2007-12-10	
-S000124945	Z1_region					HML		3	13691	13929	W		2007-12-10	2007-12-10	
-S000124946	Z2_region					HML		3	13930	14017	W		2007-12-10	2007-12-10	
-S000000573	ORF	Uncharacterized	YCL068C			chromosome 3		3	12285	11503	C		2000-09-13	2000-09-13|1997-01-28	Putative protein of unknown function
-S000031134	CDS					YCL068C		3	12285	11503	C		2000-09-13	2000-09-13|1997-01-28	
-S000000572	ORF	Verified|silenced_gene	YCL067C	HMLALPHA2	homeodomain mating type protein alpha2|ALPHA2	chromosome 3		3	13018	12386	C		2000-09-13	1997-01-28	Silenced copy of ALPHA2 at HML; homeobox-domain protein that associates with Mcm1p in haploid cells to repress a-specific gene expression and interacts with a1p in diploid cells to repress haploid-specific gene expression
-S000030191	CDS					YCL067C		3	13018	12386	C		2000-09-13	1997-01-28	
-S000000571	ORF	Verified|silenced_gene	YCL066W	HMLALPHA1	transcriptional co-activator mating type protein alpha|ALPHA1	chromosome 3		3	13282	13809	W		2000-09-13	1997-01-28	Silenced copy of ALPHA1 at HML; ALPHA1 encodes a transcriptional coactivator involved in the regulation of mating-type alpha-specific gene expression
-S000030081	CDS					YCL066W		3	13282	13809	W		2000-09-13	1997-01-28	
-S000000570	ORF	Dubious	YCL065W			chromosome 3		3	13751	14119	W		2000-09-13	2000-09-13|1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps HMLALPHA1
-S000029969	CDS					YCL065W		3	13751	14119	W		2000-09-13	2000-09-13|1997-01-28	
-S000028478	ARS		ARS302	ARS302	HML-I ARS	chromosome 3		3	14575	14849			2003-03-31	2003-03-31	Inactive replication origin linked to the silent mating type locus HML; functions as a transcriptional silencer
-S000030152	ARS_consensus_sequence					ARS302		3	14701	14711	W		2003-03-31	2003-03-31	
-S000028479	ARS		ARS303	ARS303		chromosome 3		3	14871	15213			2003-03-31	2003-03-31	Autonomously Replicating Sequence on Chromosome III; inactive as replication origin at native locus near HML
-S000030154	ARS_consensus_sequence					ARS303		3	15196	15186	C		2003-03-31	2003-03-31	
-S000028480	ARS		ARS320	ARS320		chromosome 3		3	15214	16274			2003-03-31	2003-03-31	Autonomously Replicating Sequence on Chromosome III; inactive as replication origin at native locus near HML
-S000030156	ARS_consensus_sequence					ARS320		3	15298	15308	W		2003-03-31	2003-03-31	
-S000000569	ORF	Verified	YCL064C	CHA1	L-serine/L-threonine ammonia-lyase CHA1	chromosome 3	L000000316	3	16880	15798	C	-46	2000-09-13	2000-09-13|1997-01-28	Catabolic L-serine (L-threonine) deaminase; catalyzes the degradation of both L-serine and L-threonine; required to use serine or threonine as the sole nitrogen source, transcriptionally induced by serine and threonine
-S000037243	CDS					YCL064C		3	16880	15798	C		2000-09-13	2000-09-13|1997-01-28	
-S000000568	ORF	Verified	YCL063W	VAC17	YCL062W	chromosome 3		3	17290	18561	W		2000-09-13	2000-09-13|1997-01-28	Phosphoprotein involved in vacuole inheritance; degraded in late M phase of the cell cycle; acts as a vacuole-specific receptor for myosin Myo2p; involved in regulation of asymmetric inheritance of aggregated/misfolded proteins and age reset
-S000037206	CDS					YCL063W		3	17290	18561	W		2000-09-13	2000-09-13|1997-01-28	
-S000000566	ORF	Verified	YCL061C	MRC1	chromatin-modulating protein MRC1|YCL060C	chromosome 3		3	22106	18816	C		2000-09-13	2000-09-13|1997-01-28	S-phase checkpoint protein required for DNA replication; couples DNA helicase and polymerase; interacts with and stabilizes Pol2p at stalled replication forks during stress, where it forms a pausing complex with Tof1p and is phosphorylated by Mec1p; defines a novel S-phase checkpoint with Hog1p that coordinates DNA replication and transcription upon osmostress; protects uncapped telomeres; Dia2p-dependent degradation mediates checkpoint recovery; mammalian claspin homolog
-S000036990	CDS					YCL061C		3	22106	18816	C		2000-09-13	2000-09-13|1997-01-28	
-S000000564	ORF	Verified	YCL059C	KRR1	ribosome biosynthesis protein KRR1	chromosome 3	L000004098	3	23379	22429	C		2000-09-13	1997-01-28	Nucleolar protein required for rRNA synthesis and ribosomal assembly; required for the synthesis of 18S rRNA and for the assembly of 40S ribosomal subunit; essential gene
-S000034984	CDS					YCL059C		3	23379	22429	C		2000-09-13	1997-01-28	
-S000028518	ORF	Verified	YCL058W-A	ADF1		chromosome 3		3	23584	23925	W		2006-01-11	2003-07-29|2006-01-11	Transcriptional repressor encoded by the FYV5 antisense strand; negatively regulates transcription of FYV5 by binding to the promoter on the sense strand
-S000030294	CDS					YCL058W-A		3	23584	23925	W		2006-01-11	2003-07-29|2006-01-11	
-S000000563	ORF	Verified	YCL058C	FYV5	MDF1	chromosome 3		3	23981	23523	C		2000-09-13	1997-01-28	Protein involved in regulation of the mating pathway; binds with Matalpha2p to promoters of haploid-specific genes; required for survival upon exposure to K1 killer toxin; involved in ion homeostasis
-S000034080	CDS					YCL058C		3	23981	23523	C		2000-09-13	1997-01-28	
-S000007547	ORF	Verified	YCL057C-A	MIC10	MOS1|MCS10|MIO10	chromosome 3		3	24325	24032	C		2000-09-14	2000-09-14	Conserved component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; forms a subcomplex with Mic12p and Mic27p whose assembly and stability requires cardiolipin; homo-oligomers cause membrane bending; ortholog of human MINOS1
-S000037065	CDS					YCL057C-A		3	24325	24032	C		2000-09-14	2000-09-14	
-S000000562	ORF	Verified	YCL057W	PRD1	metalloendopeptidase	chromosome 3	L000003155	3	24768	26906	W		2000-09-13	1997-01-28	Zinc metalloendopeptidase; found in the cytoplasm and intermembrane space of mitochondria; with Cym1p, involved in degradation of mitochondrial proteins and of presequence peptides cleaved from imported proteins; protein abundance increases in response to DNA replication stress
-S000034023	CDS					YCL057W		3	24768	26906	W		2000-09-13	1997-01-28	
-S000000561	ORF	Verified	YCL056C	PEX34		chromosome 3		3	27359	26925	C		2000-09-13	1997-01-28	Protein that regulates peroxisome populations; peroxisomal integral membrane protein; interacts with Pex11p, Pex25p, and Pex27p to control both constitutive peroxisome division and peroxisome morphology and abundance during peroxisome proliferation
-S000033789	CDS					YCL056C		3	27359	26925	C		2000-09-13	1997-01-28	
-S000000560	ORF	Verified	YCL055W	KAR4		chromosome 3	L000003481	3	27929	28936	W		2000-09-13	1997-01-28	Transcription factor required for response to pheromones; also required during meiosis; exists in two forms, a slower-migrating form more abundant during vegetative growth and a faster-migrating form induced by pheromone
-S000033110	CDS					YCL055W		3	27929	28936	W		2000-09-13	1997-01-28	
-S000028481	ARS		ARS304	ARS304		chromosome 3		3	30200	30657			2003-03-31	2003-03-31	Autonomously Replicating Sequence on Chromosome III
-S000030159	ARS_consensus_sequence					ARS304		3	30439	30429	C		2003-03-31	2003-03-31	
-S000178054	ORF	Uncharacterized	YCL054W-A	RDT1		chromosome 3		3	30910	30996	W		2014-11-18	2014-11-18	Short open reading frame, shows evidence of translation; may be new protein-coding gene that originated de novo from noncoding sequence; same allele found in at least 33 other S. cerevisiae strains; at least 3 strains have a second allele with three nucleotide substitutions leading to two amino acid differences
-S000178055	CDS					YCL054W-A		3	30910	30996	W		2014-11-18	2014-11-18	
-S000000559	ORF	Verified	YCL054W	SPB1	27S pre-rRNA (guanosine2922-2'-O)-methyltransferase	chromosome 3	L000001990	3	31449	33974	W		2000-09-13	1999-07-17|1997-01-28	AdoMet-dependent methyltransferase; involved in rRNA processing and 60S ribosomal subunit maturation; methylates G2922 in the tRNA docking site of the large subunit rRNA and in the absence of snR52, U2921; suppressor of PAB1 mutants
-S000033016	CDS					YCL054W		3	31449	33974	W		2000-09-13	1999-07-17|1997-01-28	
-S000000557	ORF	Verified	YCL052C	PBN1		chromosome 3	L000003219	3	35393	34143	C		2000-09-13	1997-01-28	Component of glycosylphosphatidylinositol-mannosyltransferase I; essential component; required for the autocatalytic post-translational processing of the protease B precursor Prb1p; localizes to ER in lumenal orientation; homolog of mammalian PIG-X
-S000031965	CDS					YCL052C		3	35393	34143	C		2000-09-13	1997-01-28	
-S000000556	ORF	Verified	YCL051W	LRE1		chromosome 3	L000003355	3	35865	37616	W		2000-09-13	2000-09-13|1997-01-28	Protein involved in control of cell wall structure and stress response; direct inhibitor of the nuclear Dbf2 related (NDR) kinase Cbk1p-Mob2p; overproduction confers resistance to cell-wall degrading enzymes; exhibits genetic interactions with genes involved in the cell wall integrity pathway; LRE1 has a paralog, HLR1, that arose from the whole genome duplication
-S000031923	CDS					YCL051W		3	35865	37616	W		2000-09-13	2000-09-13|1997-01-28	
-S000000555	ORF	Verified	YCL050C	APA1	bifunctional AP-4-A phosphorylase/ADP sulfurylase|DTP1	chromosome 3	L000000090	3	38801	37836	C	-33	2000-09-13	2000-09-13|1997-01-28	AP4A phosphorylase; bifunctional diadenosine 5',5'''-P1,P4-tetraphosphate phosphorylase and ADP sulfurylase involved in catabolism of bis(5'-nucleosidyl) tetraphosphates; catalyzes phosphorolysis of dinucleoside oligophosphates, cleaving substrates' alpha/beta-anhydride bond and introducing Pi into the beta-position of the corresponding NDP formed; protein abundance increases under DNA replication stress; APA1 has a paralog, APA2, that arose from the whole genome duplication
-S000031713	CDS					YCL050C		3	38801	37836	C		2000-09-13	2000-09-13|1997-01-28	
-S000028482	ARS		ARS305	ARS305		chromosome 3		3	39508	39595			2014-11-18	2003-03-31|2014-11-18	Efficient early-firing replication origin on Chromosome III
-S000030162	ARS_consensus_sequence					ARS305		3	39589	39579	C		2003-03-31	2003-03-31	
-S000000554	ORF	Uncharacterized	YCL049C			chromosome 3		3	40724	39786	C		2000-09-13	2000-09-13|1997-01-28	Protein of unknown function; localizes to membrane fraction; YCL049C is not an essential gene
-S000031529	CDS					YCL049C		3	40724	39786	C		2000-09-13	2000-09-13|1997-01-28	
-S000087203	ORF	Uncharacterized	YCL048W-A			chromosome 3		3	41488	41727	W		2005-11-14	2005-11-14	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cell periphery and vacuole; YCL048W-A has a paralog, YDR524C-B, that arose from the whole genome duplication
-S000087204	CDS					YCL048W-A		3	41488	41727	W		2005-11-14	2005-11-14	
-S000000553	ORF	Verified	YCL048W	SPS22		chromosome 3		3	42165	43556	W		2000-09-13	1997-01-28	Protein of unknown function; SPS22 has a paralog, SPS2, that arose from the whole genome duplication; redundant with Sps2p for the organization of the beta-glucan layer of the spore wall
-S000031494	CDS					YCL048W		3	42165	43556	W		2000-09-13	1997-01-28	
-S000000552	ORF	Verified	YCL047C	POF1	nicotinamide-nucleotide adenylyltransferase	chromosome 3		3	44437	43661	C		2000-09-13	1997-01-28	Nicotinamide mononucleotide-specific adenylyltransferase (NMNAT); catalyzes the conversion of nicotinamide mononucleotide (NMN) to nicotinamide adenine dinucleotide (NAD+); role in the nicotinamide riboside (NR) salvage pathway of NAD+ biosynthesis; involved in NR and NAD+ homeostasis; ATPase involved in protein quality control and filamentation pathways; interacts physically with Kss1p and suppresses the filamentation defect of a kss1 deletion
-S000030504	CDS					YCL047C		3	44437	43661	C		2000-09-13	1997-01-28	
-S000000551	ORF	Dubious	YCL046W			chromosome 3		3	46640	46963	W		2000-09-13	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YCL045C
-S000030444	CDS					YCL046W		3	46640	46963	W		2000-09-13	1997-01-28	
-S000000550	ORF	Verified	YCL045C	EMC1		chromosome 3		3	46905	44623	C		2000-09-13	1997-01-28	Member of conserved endoplasmic reticulum membrane complex; involved in efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; interacts with Gal80p; homologous to worm H17B01.4/EMC-1, fly CG2943, and human KIAA0090
-S000030200	CDS					YCL045C		3	46905	44623	C		2000-09-13	1997-01-28	
-S000000549	ORF	Verified	YCL044C	MGR1		chromosome 3		3	48364	47111	C		2000-09-13	1997-01-28	Subunit of the mitochondrial (mt) i-AAA protease supercomplex; i-AAA degrades misfolded mitochondrial proteins; forms a subcomplex with Mgr3p that binds to substrates to facilitate proteolysis; required for growth of cells lacking mtDNA
-S000037468	CDS					YCL044C		3	48364	47111	C		2000-09-13	1997-01-28	
-S000000548	ORF	Verified	YCL043C	PDI1	protein disulfide isomerase PDI1|TRG1|MFP1	chromosome 3	L000001360	3	50221	48653	C		2000-09-13	1997-01-28	Protein disulfide isomerase; multifunctional oxidoreductase of the ER lumen, essential for disulfide bond formation in secretory and cell-surface proteins, processing of non-native disulfide bonds; Ero1p activator; complexes with exomannosidase, Mnl1p to facilitate the recognition of misfolded glycoproteins and the trimming of glycan Man8GlcNAc2 to Man7GlcNAc2 on substrates, thereby accelerating ERAD; PDI1 has a paralog, EUG1, that arose from the whole genome duplication
-S000037357	CDS					YCL043C		3	50221	48653	C		2000-09-13	1997-01-28	
-S000000547	ORF	Uncharacterized	YCL042W			chromosome 3		3	50584	50943	W		2000-09-13	2000-09-13|1997-01-28	Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm
-S000037297	CDS					YCL042W		3	50584	50943	W		2000-09-13	2000-09-13|1997-01-28	
-S000000546	ORF	Dubious	YCL041C			chromosome 3		3	50627	50133	C		2000-09-13	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps both the verified gene PDI1/YCL043C and the uncharacterized gene YCL042W
-S000036569	CDS					YCL041C		3	50627	50133	C		2000-09-13	1997-01-28	
-S000000545	ORF	Verified	YCL040W	GLK1	glucokinase|HOR3	chromosome 3	L000000708	3	50838	52340	W	-47	2000-09-13	1997-01-28	Glucokinase; catalyzes the phosphorylation of glucose at C6 in the first irreversible step of glucose metabolism; one of three glucose phosphorylating enzymes; expression regulated by non-fermentable carbon sources; GLK1 has a paralog, EMI2, that arose from the whole genome duplication
-S000036534	CDS					YCL040W		3	50838	52340	W		2000-09-13	1997-01-28	
-S000000544	ORF	Verified	YCL039W	GID7	glucose-induced degradation complex subunit GID7|MOH2	chromosome 3		3	52645	54882	W		2000-09-13	1999-07-17|1997-01-28	Subunit of GID Complex that binds directly to central component Vid30p; GID complex is involved in proteasome-dependent catabolite inactivation of fructose-1,6-bisphosphatase; Gid7p contains six WD40 repeats; computational analysis suggests that Gid7p and Moh1p have similar functions
-S000035505	CDS					YCL039W		3	52645	54882	W		2000-09-13	1999-07-17|1997-01-28	
-S000000543	ORF	Verified	YCL038C	ATG22	AUT4	chromosome 3	L000004750	3	56527	54941	C		2000-09-13	1997-01-28	Vacuolar integral membrane protein required for efflux of amino acids; required for efflux of amino acids during autophagic body breakdown in the vacuole; null mutation causes a gradual loss of viability during starvation
-S000034405	CDS					YCL038C		3	56527	54941	C		2000-09-13	1997-01-28	
-S000000542	ORF	Verified	YCL037C	SRO9		chromosome 3	L000003106	3	58678	57374	C		2003-09-22	2003-09-22|1997-01-28	Cytoplasmic RNA-binding protein; shuttles between nucleus and cytoplasm and is exported from the nucleus in an mRNA export-dependent manner; associates with translating ribosomes; involved in heme regulation of Hap1p as a component of the HMC complex, also involved in the organization of actin filaments; contains a La motif; SRO9 has a paralog, SLF1, that arose from the whole genome duplication
-S000034295	CDS					YCL037C		3	58678	57374	C		2003-09-22	2003-09-22|1997-01-28	
-S000000541	ORF	Verified	YCL036W	GFD2	YCD6	chromosome 3	L000004631	3	59026	60726	W		2000-09-13	1997-01-28	Protein of unknown function; identified as a high-copy suppressor of a dbp5 mutation; GFD2 has a paralog, YDR514C, that arose from the whole genome duplication
-S000034257	CDS					YCL036W		3	59026	60726	W		2000-09-13	1997-01-28	
-S000000540	ORF	Verified	YCL035C	GRX1	dithiol glutaredoxin GRX1	chromosome 3		3	61173	60841	C		2000-09-13	1997-01-28	Glutathione-dependent disulfide oxidoreductase; hydroperoxide and superoxide-radical responsive, heat-stable, with active site cysteine pair; protects cells from oxidative damage; GRX1 has a paralog, GRX2, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000033290	CDS					YCL035C		3	61173	60841	C		2000-09-13	1997-01-28	
-S000000539	ORF	Verified	YCL034W	LSB5		chromosome 3		3	61658	62722	W		2000-09-13	2000-09-13|1997-01-28	Protein involved in membrane-trafficking events at plasma membrane; interacts with actin regulators Sla1p and Las17p, ubiquitin, Arf3p to couple actin dynamics to membrane trafficking processes; similar structure to GGA family of proteins with N-terminal VHS domain and GAT domain; binds Las17p, which is homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly, actin polymerization; may mediate disassembly of Pan1 complex from endocytic coat
-S000033272	CDS					YCL034W		3	61658	62722	W		2000-09-13	2000-09-13|1997-01-28	
-S000000538	ORF	Verified	YCL033C	MXR2	MSRB	chromosome 3		3	63282	62776	C		2000-09-13	1997-01-28	Methionine-R-sulfoxide reductase; involved in the response to oxidative stress; protects iron-sulfur clusters from oxidative inactivation along with MXR1; involved in the regulation of lifespan
-S000033176	CDS					YCL033C		3	63282	62776	C		2000-09-13	1997-01-28	
-S000000537	ORF	Verified	YCL032W	STE50		chromosome 3	L000002125	3	63441	64481	W	-22	2000-09-13	1997-01-28	Adaptor protein for various signaling pathways; involved in mating response, invasive/filamentous growth, osmotolerance; acts as an adaptor that links G protein-associated Cdc42p-Ste20p complex to the effector Ste11p to modulate signal transduction
-S000033154	CDS					YCL032W		3	63441	64481	W		2000-09-13	1997-01-28	
-S000000536	ORF	Verified	YCL031C	RRP7		chromosome 3	L000004251	3	65568	64675	C		2000-09-13	1997-01-28	Essential protein involved in rRNA processing and ribosome biogenesis; protein abundance increases in response to DNA replication stress
-S000032244	CDS					YCL031C		3	65568	64675	C		2000-09-13	1997-01-28	
-S000000535	ORF	Verified	YCL030C	HIS4	trifunctional histidinol dehydrogenase/phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP diphosphatase	chromosome 3	L000000781	3	68333	65934	C	-22	2000-09-13	2000-09-13|1997-01-28	Multifunctional enzyme containing phosphoribosyl-ATP pyrophosphatase; phosphoribosyl-AMP cyclohydrolase, and histidinol dehydrogenase activities; catalyzes the second, third, ninth and tenth steps in histidine biosynthesis
-S000032161	CDS					YCL030C		3	68333	65934	C		2000-09-13	2000-09-13|1997-01-28	
-S000000534	ORF	Verified	YCL029C	BIK1	PAC14|ARM5	chromosome 3	L000000178	3	69921	68599	C	-21	2000-09-13	2000-09-13|1997-01-28	Microtubule-associated protein; component of the interface between microtubules and kinetochore, involved in sister chromatid separation; essential in polyploid cells but not in haploid or diploid cells; ortholog of mammalian CLIP-170
-S000031278	CDS					YCL029C		3	69921	68599	C		2000-09-13	2000-09-13|1997-01-28	
-S000000533	ORF	Verified	YCL028W	RNQ1	prion domain-containing protein RNQ1|[PIN(+)]	chromosome 3	S000007471	3	70150	71367	W		2000-09-13	2000-09-13|1997-01-28	[PIN(+)] prion; an infectious protein conformation that is generally an ordered protein aggregate
-S000031217	CDS					YCL028W		3	70150	71367	W		2000-09-13	2000-09-13|1997-01-28	
-S000000532	ORF	Verified	YCL027W	FUS1		chromosome 3	L000000653	3	71803	73341	W	-21	2000-09-13	2000-09-13|1997-01-28	Membrane protein localized to the shmoo tip; required for cell fusion; expression regulated by mating pheromone; proposed to coordinate signaling, fusion, and polarization events required for fusion; potential Cdc28p substrate
-S000031087	CDS					YCL027W		3	71803	73341	W		2000-09-13	2000-09-13|1997-01-28	
-S000007548	ORF	Verified	YCL026C-B	HBN1	putative nitroreductase|YCL027C-A	chromosome 3		3	73986	73405	C		2000-09-14	2000-09-14	Protein of unknown function; similar to bacterial nitroreductases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; protein becomes insoluble upon intracellular iron depletion; protein abundance increases in response to DNA replication stress
-S000037064	CDS					YCL026C-B		3	73986	73405	C		2000-09-14	2000-09-14	
-S000028483	ARS		ARS306	ARS306		chromosome 3		3	74458	74677			2003-03-31	2003-03-31	Early-firing autonomously replicating sequence on Chromosome III
-S000030165	ARS_consensus_sequence					ARS306		3	74521	74531	W		2003-03-31	2003-03-31	
-S000000589	ORF	Verified	YCL026C-A	FRM2	type II nitroreductase|YCLX08C	chromosome 3	L000004082	3	75285	74704	C		2000-09-13	2000-09-13|1997-01-28	Type II nitroreductase, using NADH as reductant; mutants are defective in fatty acid mediated repression of genes involved in fatty acid biosynthesis indicative of a role in lipid signaling; involved in the oxidative stress response; transcription induction by cadmium and selenite indicates a possible role in the metal stress response; expression induced in cells treated with the mycotoxin patulin
-S000032741	CDS					YCL026C-A		3	75285	74704	C		2000-09-13	2000-09-13|1997-01-28	
-S000000530	ORF	Verified	YCL025C	AGP1	amino acid transporter AGP1|YCC5	chromosome 3	L000003271	3	77919	76018	C		2006-01-12	2000-09-13|1997-01-28|2006-01-12	Low-affinity amino acid permease with broad substrate range; involved in uptake of asparagine, glutamine, and other amino acids; expression regulated by SPS plasma membrane amino acid sensor system (Ssy1p-Ptr3p-Ssy5p); AGP1 has a paralog, GNP1, that arose from the whole genome duplication
-S000029928	CDS					YCL025C		3	77919	76018	C		2006-01-12	2000-09-13|1997-01-28|2006-01-12	
-S000000529	ORF	Verified	YCL024W	KCC4	serine/threonine protein kinase	chromosome 3		3	79162	82275	W		2006-01-12	2000-09-13|1997-01-28	Protein kinase of the bud neck involved in the septin checkpoint; associates with septin proteins, negatively regulates Swe1p by phosphorylation, shows structural homology to bud neck kinases Gin4p and Hsl1p; KCC4 has a paralog, GIN4, that arose from the whole genome duplication
-S000029873	CDS					YCL024W		3	79162	82275	W		2006-01-12	2000-09-13|1997-01-28	
-S000000528	ORF	Dubious	YCL023C			chromosome 3		3	79296	78949	C		2006-01-12	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF KCC4
-S000037128	CDS					YCL023C		3	79296	78949	C		2006-01-12	1997-01-28	
-S000000527	ORF	Dubious	YCL022C			chromosome 3		3	82085	81570	C		2006-01-12	2000-09-13|1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene KCC4/YCL024W
-S000037053	CDS					YCL022C		3	82085	81570	C		2006-01-12	2000-09-13|1997-01-28	
-S000006549	tRNA_gene		tE(UUC)C			chromosome 3	L000003760	3	82533	82462	C		2006-01-12	2000-05-19	Glutamine tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000035973	noncoding_exon					tE(UUC)C		3	82533	82462	C		2006-01-12	2000-05-19	
-S000126593	long_terminal_repeat		YCLWdelta15			chromosome 3		3	82700	83036	W		2008-06-04	2008-06-04	Ty1 LTR
-S000006822	long_terminal_repeat		YCLCdelta1			chromosome 3		3	83194	83055	C		2007-04-02	2000-05-19|2007-04-02	Ty1 LTR
-S000007549	ORF	Uncharacterized	YCL021W-A			chromosome 3		3	83620	83997	W		2006-01-12	2000-09-14	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the vacuole
-S000037066	CDS					YCL021W-A		3	83620	83997	W		2006-01-12	2000-09-14	
-S000006823	long_terminal_repeat		YCLWdelta2a			chromosome 3		3	84069	84294	W		2006-01-12	2000-05-19	Ty1 LTR
-S000006825	long_terminal_repeat		YCLWdelta3			chromosome 3		3	84295	84626	W		2006-01-12	2000-05-19	Ty1 LTR
-S000006824	long_terminal_repeat		YCLWdelta2b			chromosome 3		3	84630	84718	W		2006-01-12	2000-05-19	Ty1 LTR
-S000006826	long_terminal_repeat		YCLWdelta4			chromosome 3		3	84811	85142	W		2006-01-12	2000-05-19	Ty2 LTR
-S000006830	LTR_retrotransposon		YCLWTy2-1		Ty2	chromosome 3		3	84811	90769	W		2006-01-12	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000000525	transposable_element_gene		YCL020W		gag protein	chromosome 3		3	85102	86418	W		2006-01-12	2000-09-13|1997-01-28	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000036953	CDS					YCL020W		3	85102	86418	W		2006-01-12	2000-09-13|1997-01-28	
-S000000524	transposable_element_gene		YCL019W		gag-pol fusion protein	chromosome 3		3	85102	90415	W		2006-01-12	2000-12-01|1997-01-28	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000036163	CDS					YCL019W		3	85102	86391	W		2006-01-12	2000-12-01	
-S000036164	CDS					YCL019W		3	86393	90415	W		2006-01-12	2000-12-01|1997-01-28	
-S000036165	plus_1_translational_frameshift					YCL019W		3	86392	86392	W		2006-01-12	2000-12-01	
-S000006827	long_terminal_repeat		YCLWdelta5			chromosome 3		3	90438	90769	W		2006-01-12	2000-05-19	Ty2 LTR
-S000006637	tRNA_gene		tL(CAA)C	SUP53		chromosome 3	L000002210|L000003751	3	90859	90972	W	-10	2006-01-12	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; can mutate to suppress amber nonsense mutations
-S000033768	intron					tL(CAA)C		3	90897	90928	W		2006-01-12	2000-05-19	
-S000033766	noncoding_exon					tL(CAA)C		3	90859	90896	W		2006-01-12	2000-05-19	
-S000033767	noncoding_exon					tL(CAA)C		3	90929	90972	W		2006-01-12	2000-05-19	
-S000000523	ORF	Verified	YCL018W	LEU2	3-isopropylmalate dehydrogenase	chromosome 3	L000000943	3	91324	92418	W	-5	2006-01-12	2000-09-13|1997-01-28	Beta-isopropylmalate dehydrogenase (IMDH); catalyzes the third step in the leucine biosynthesis pathway; can additionally catalyze the conversion of beta-ethylmalate into alpha-ketovalerate
-S000035270	CDS					YCL018W		3	91324	92418	W		2006-01-12	2000-09-13|1997-01-28	
-S000000522	ORF	Verified	YCL017C	NFS1	SPL1	chromosome 3	L000001240	3	94270	92777	C		2006-01-12	2000-09-13|1997-01-28	Cysteine desulfurase; involved in iron-sulfur cluster (Fe/S) biogenesis and in thio-modification of mitochondrial and cytoplasmic tRNAs; essential protein located predominantly in mitochondria
-S000034976	CDS					YCL017C		3	94270	92777	C		2006-01-12	2000-09-13|1997-01-28	
-S000000521	ORF	Verified	YCL016C	DCC1		chromosome 3		3	95763	94621	C		2006-01-12	2000-09-13|1997-01-28	Subunit of a complex with Ctf8p and Ctf18p; shares some components with Replication Factor C; required for sister chromatid cohesion and telomere length maintenance
-S000034840	CDS					YCL016C		3	95763	94621	C		2006-01-12	2000-09-13|1997-01-28	
-S000000520	ORF	Verified	YCL014W	BUD3	YCL012W	chromosome 3	L000000200	3	96281	101191	W	-9	2006-01-12	2000-09-13|1997-01-28	Guanine nucleotide exchange factor (GEF) for Cdc42p; activates Cdc42p in early G1, accounting for the first stage of biphasic activation, with Cdc24p accounting for the second stage in late G1; involved in the Cdc42p-mediated assembly of the axial landmark that dictates the site for the next round of budding, resulting in the axial budding pattern observed in haploids; localizes with septins to the bud neck contractile ring in mitosis
-S000033879	CDS					YCL014W		3	96281	101191	W		2006-01-12	2000-09-13|1997-01-28	
-S000029705	ORF	Verified	YCL012C		YCL011C-A	chromosome 3		3	101788	101317	C		2006-01-12	2004-02-20|2011-02-03	Protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; orthologs are present in S. bayanus, S. paradoxus and Ashbya gossypii; YCL012C is not an essential gene
-S000036814	CDS					YCL012C		3	101633	101317	C		2006-01-12	2004-02-20	
-S000036813	CDS					YCL012C		3	101788	101701	C		2006-01-12	2004-02-20	
-S000036815	intron					YCL012C		3	101700	101634	C		2006-01-12	2004-02-20|2011-02-03	
-S000000517	ORF	Verified	YCL011C	GBP2	single-stranded telomeric DNA-binding/mRNA-binding protein|RLF6	chromosome 3	L000002609|L000003049	3	103358	102075	C		2006-01-12	1997-01-28	Poly(A+) RNA-binding protein; key surveillance factor for the selective export of spliced mRNAs from the nucleus to the cytoplasm; preference for intron-containing genes; similar to Npl3p; also binds single-stranded telomeric repeat sequence in vitro; relocalizes to the cytosol in response to hypoxia; GBP2 has a paralog, HRB1, that arose from the whole genome duplication
-S000032976	CDS					YCL011C		3	103358	102075	C		2006-01-12	1997-01-28	
-S000000516	ORF	Verified	YCL010C	SGF29		chromosome 3		3	104350	103571	C		2006-01-12	1999-07-17|1997-01-28	Component of the HAT/Core module of the SAGA, SLIK, and ADA complexes; HAT/Core module also contains Gcn5p, Ngg1p, and Ada2p; binds methylated histone H3K4; involved in transcriptional regulation through SAGA and TBP recruitment to target promoters and H3 acetylation
-S000032887	CDS					YCL010C		3	104350	103571	C		2006-01-12	1999-07-17|1997-01-28	
-S000000515	ORF	Verified	YCL009C	ILV6	acetolactate synthase regulatory subunit	chromosome 3	L000004096	3	105548	104619	C		2006-01-12	1999-07-17|1997-01-28	Regulatory subunit of acetolactate synthase; acetolactate synthase catalyzes the first step of branched-chain amino acid biosynthesis; enhances activity of the Ilv2p catalytic subunit, localizes to mitochondria
-S000032134	CDS					YCL009C		3	105548	104619	C		2006-01-12	1999-07-17|1997-01-28	
-S000000514	ORF	Verified	YCL008C	STP22	ubiquitin-binding ESCRT-I subunit protein STP22|AGS1|VPL15|VPS23	chromosome 3	L000003975|S000029031|L000000064	3	106853	105696	C		2006-01-12	2004-02-18|2000-09-13|1997-01-28	Component of the ESCRT-I complex; ESCRT-I is involved in ubiquitin-dependent sorting of proteins into the endosome; prevents polyubiquitination of the arrestin-related protein Rim8p, thereby directing its monoubiquitination by Rsp5p; homologous to the mouse and human Tsg101 tumor susceptibility gene; mutants exhibit a Class E Vps phenotype;
-S000032022	CDS					YCL008C		3	106853	105696	C		2006-01-12	2004-02-18|1997-01-28|2000-09-13	
-S000028508	ORF	Verified	YCL005W-A	VMA9	H(+)-transporting V0 sector ATPase subunit e|LDB10|CWH36	chromosome 3		3	107023	107417	W		2006-01-12	2003-07-29	Vacuolar H+ ATPase subunit e of the V-ATPase V0 subcomplex; essential for vacuolar acidification; interacts with the V-ATPase assembly factor Vma21p in the ER; involved in V0 biogenesis
-S000030218	CDS					YCL005W-A		3	107023	107033	W		2006-01-12	2003-07-29	
-S000030219	CDS					YCL005W-A		3	107111	107191	W		2006-01-12	2003-07-29	
-S000030220	CDS					YCL005W-A		3	107288	107417	W		2006-01-12	2003-07-29	
-S000030221	intron					YCL005W-A		3	107034	107110	W		2006-01-12	2003-07-29	
-S000030222	intron					YCL005W-A		3	107192	107287	W		2006-01-12	2003-07-29	
-S000000513	ORF	Dubious	YCL007C		CWH36	chromosome 3	L000002918	3	107366	106974	C		2006-01-12	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps verified ORF YCL005W-A; mutations in YCL007C were thought to confer sensitivity to calcofluor white, but this phenotype was later shown to be due to the defect in YCL005W-A
-S000031856	CDS					YCL007C		3	107366	106974	C		2006-01-12	1997-01-28	
-S000006503	snoRNA_gene		snR43	SNR43		chromosome 3	L000003410	3	107712	107504	C		2006-01-12	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U966 and of 5.8S rRNA at position 73
-S000030615	noncoding_exon					snR43		3	107712	107504	C		2006-01-12	2000-05-19	
-S000000511	ORF	Verified	YCL005W	LDB16		chromosome 3		3	108021	108791	W		2006-01-12	2000-09-13|1997-01-28	Protein involved in lipid droplet (LD) assembly; forms a complex with Sei1p at ER-LD contact sites, stabilizing contact sites; ensures that LDs bud from the ER towards the cytosolic side of the membrane; null mutants have decreased net negative cell surface charge and localized accumulation of phosphatidic acid (PA) marker proteins; GFP-fusion protein expression is induced in response to MMS; null mutant can be complemented by the human seipin, BSCL2
-S000030833	CDS					YCL005W		3	108021	108791	W		2006-01-12	2000-09-13|1997-01-28	
-S000028484	ARS		ARS307	ARS307		chromosome 3		3	108727	109060			2014-11-18	2003-03-31|2014-11-18	Autonomously Replicating Sequence on Chromosome III
-S000030169	ARS_consensus_sequence					ARS307		3	108970	108960	C		2006-01-12	2003-03-31	
-S000000510	ORF	Verified	YCL004W	PGS1	CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase|YCL003W|PEL1	chromosome 3	L000001372	3	109105	110670	W		2006-01-12	2000-02-10|1997-01-28	Phosphatidylglycerolphosphate synthase; catalyzes the synthesis of phosphatidylglycerolphosphate from CDP-diacylglycerol and sn-glycerol 3-phosphate in the first committed and rate-limiting step of cardiolipin biosynthesis
-S000030745	CDS					YCL004W		3	109105	110670	W		2006-01-12	2000-02-10|1997-01-28	
-S000000508	ORF	Uncharacterized	YCL002C			chromosome 3		3	111675	110808	C		2011-02-03	2003-09-27|1997-01-28|2000-09-13|2011-02-03	Putative protein of unknown function; YCL002C is not an essential gene
-S000037735	CDS					YCL002C		3	111557	110808	C		2011-02-03	2003-09-27|1997-01-28|2000-09-13|2011-02-03	
-S000037734	CDS					YCL002C		3	111675	111634	C		2011-02-03	2003-09-27	
-S000037736	intron					YCL002C		3	111633	111558	C		2011-02-03	2003-09-27	
-S000000507	ORF	Verified	YCL001W	RER1	protein retrieval receptor	chromosome 3	L000001613	3	111916	112482	W		2011-02-03	1999-07-17|1997-01-28	Protein involved in retention of membrane proteins; including Sec12p, in the ER; localized to Golgi; functions as a retrieval receptor in returning membrane proteins to the ER
-S000037714	CDS					YCL001W		3	111916	112482	W		2011-02-03	1999-07-17|1997-01-28	
-S000007221	ORF	Uncharacterized	YCL001W-A			chromosome 3		3	113080	113541	W		2011-02-03	1999-07-17	Putative protein of unknown function; YCL001W-A gene has similarity to DOM34 and is present in a region duplicated between chromosomes XIV and III
-S000034577	CDS					YCL001W-A		3	113080	113541	W		2011-02-03	1999-07-17	
-S000007596	ORF	Uncharacterized	YCL001W-B			chromosome 3		3	113770	114024	W		2011-02-03	2001-02-26	Putative protein of unknown function; present in a region duplicated between chromosomes XIV and III; YCL001W-B has a paralog, DOM34, that arose from the whole genome duplication
-S000037142	CDS					YCL001W-B		3	113770	114024	W		2011-02-03	2001-02-26	
-S000028485	ARS		ARS308	ARS308		chromosome 3		3	114321	114939			2011-02-03	2003-03-31	Autonomously Replicating Sequence on Chromosome III
-S000006465	centromere		CEN3	CEN3		chromosome 3	L000000296	3	114385	114501	W	0	2011-02-03	2000-05-19	Chromosome III centromere
-S000077263	centromere_DNA_Element_I					CEN3		3	114385	114394	W		2011-02-03	2004-10-04	
-S000077264	centromere_DNA_Element_II					CEN3		3	114395	114476	W		2011-02-03	2004-10-04	
-S000077265	centromere_DNA_Element_III					CEN3		3	114477	114501	W		2011-02-03	2004-10-04	
-S000000594	ORF	Uncharacterized	YCR001W			chromosome 3		3	115685	115999	W		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YCR001W is not an essential gene
-S000035168	CDS					YCR001W		3	115685	115999	W		2011-02-03	1997-01-28	
-S000000595	ORF	Verified	YCR002C	CDC10	septin CDC10	chromosome 3	L000000250	3	118348	117380	C	-.75	2011-02-03	1997-01-28	Component of the septin ring, required for cytokinesis; septins are GTP-binding proteins that assemble into rod-like hetero-oligomers that can associate to form filaments; septin rings at the mother-bud neck act as scaffolds for recruiting cell division factors and as barriers to prevent diffusion of specific proteins between mother and daughter cells; N-terminus interacts with phosphatidylinositol-4,5-bisphosphate; protein abundance increases under DNA damage stress
-S000035178	CDS					YCR002C		3	118348	117380	C		2011-02-03	1997-01-28	
-S000000596	ORF	Verified	YCR003W	MRPL32	mitochondrial 54S ribosomal protein YmL32|YmL32	chromosome 3	L000001169	3	118620	119171	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; protein abundance increases in response to DNA replication stress
-S000036143	CDS					YCR003W		3	118620	119171	W		2011-02-03	1997-01-28	
-S000000597	ORF	Verified	YCR004C	YCP4	flavodoxin-like fold family protein	chromosome 3	L000004160	3	120318	119575	C		2011-02-03	1997-01-28	Protein of unknown function; has sequence and structural similarity to flavodoxins; predicted to be palmitoylated; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000036195	CDS					YCR004C		3	120318	119575	C		2011-02-03	1997-01-28	
-S000000598	ORF	Verified	YCR005C	CIT2	citrate (Si)-synthase CIT2	chromosome 3	L000000342	3	122328	120946	C		2011-02-03	2000-09-13|1997-01-28	Citrate synthase, peroxisomal isozyme involved in glyoxylate cycle; catalyzes condensation of acetyl coenzyme A and oxaloacetate to form citrate; expression is controlled by Rtg1p and Rtg2p transcription factors; SCF-Ucc1 regulates level of Cit2p to maintain citrate homeostasis; oxaloacetate-dependent positive feedback loop inhibits Cit2p ubiquitination; CIT2 has a paralog, CIT1, that arose from the whole genome duplication
-S000031674	CDS					YCR005C		3	122328	120946	C		2011-02-03	2000-09-13|1997-01-28	
-S000000599	ORF	Uncharacterized	YCR006C			chromosome 3		3	123003	122530	C		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YCR006C is not an essential gene
-S000031816	CDS					YCR006C		3	123003	122530	C		2011-02-03	1997-01-28	
-S000006678	tRNA_gene		tP(AGG)C	SUF2		chromosome 3	L000002150|L000003759	3	123648	123577	C	2	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in proline codons
-S000033260	noncoding_exon					tP(AGG)C		3	123648	123577	C		2011-02-03	2000-05-19	
-S000006832	long_terminal_repeat		YCRCdelta6			chromosome 3		3	124465	124134	C		2011-02-03	2000-05-19|2007-04-02	Ty1 LTR
-S000000600	ORF	Uncharacterized	YCR007C		DUP240 family protein	chromosome 3		3	126730	126011	C		2011-02-03	1997-01-28	Putative integral membrane protein; member of DUP240 gene family; SWAT-GFP and mCherry fusion proteins localize to the cell periphery and vacuole; YCR007C is not an essential gene
-S000031932	CDS					YCR007C		3	126730	126011	C		2011-02-03	1997-01-28	
-S000006668	tRNA_gene		tN(GUU)C			chromosome 3	L000003752	3	127716	127789	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000030674	noncoding_exon					tN(GUU)C		3	127716	127789	W		2011-02-03	2000-05-19	
-S000000601	ORF	Verified	YCR008W	SAT4	serine/threonine protein kinase SAT4|HAL4	chromosome 3	L000004136	3	128470	130281	W		2011-02-03	1997-01-28	Ser/Thr protein kinase involved in salt tolerance; funtions in regulation of Trk1p-Trk2p potassium transporter; overexpression affects the Fe-S and lipoamide containing proteins in the mitochondrion; required for lipoylation of Lat1p, Kgd2p and Gcv3p; partially redundant with Hal5p; has similarity to Npr1p; localizes to the cytoplasm and mitochondrion
-S000037489	CDS					YCR008W		3	128470	130281	W		2011-02-03	1997-01-28	
-S000000602	ORF	Verified	YCR009C	RVS161	amphiphysin-like protein RVS161|SPE161|FUS7|END6	chromosome 3	L000001788	3	131542	130745	C	1	2011-02-03	1997-01-28	Amphiphysin-like lipid raft protein; N-BAR domain protein that interacts with Rvs167p and regulates polarization of the actin cytoskeleton, endocytosis, cell polarity, cell fusion and viability following starvation or osmotic stress
-S000037521	CDS					YCR009C		3	131542	130745	C		2011-02-03	1997-01-28	
-S000028486	ARS		ARS309	ARS309		chromosome 3		3	132043	132120			2014-11-18	2003-03-31|2014-11-18	Autonomously Replicating Sequence on Chromosome III
-S000030172	ARS_consensus_sequence					ARS309		3	132046	132056	W		2011-02-03	2003-03-31	
-S000000603	ORF	Verified	YCR010C	ADY2	ATO1	chromosome 3		3	133124	132273	C		2011-02-03	1997-01-28	Acetate transporter required for normal sporulation; phosphorylated in mitochondria; ADY2 has a paralog, ATO2, that arose from the whole genome duplication
-S000037136	CDS					YCR010C		3	133124	132273	C		2011-02-03	1997-01-28	
-S000000604	ORF	Verified	YCR011C	ADP1	putative ATP-dependent permease ADP1	chromosome 3	L000000049	3	136873	133724	C	1	2011-02-03	2000-09-13|1997-01-28	Putative ATP-dependent permease of the ABC transporter family
-S000037210	CDS					YCR011C		3	136873	133724	C		2011-02-03	2000-09-13|1997-01-28	
-S000000605	ORF	Verified	YCR012W	PGK1	phosphoglycerate kinase	chromosome 3	L000001411	3	137746	138996	W	2	2011-02-03	2000-09-13|1997-01-28	3-phosphoglycerate kinase; catalyzes transfer of high-energy phosphoryl groups from the acyl phosphate of 1,3-bisphosphoglycerate to ADP to produce ATP; key enzyme in glycolysis and gluconeogenesis
-S000037349	CDS					YCR012W		3	137746	138996	W		2011-02-03	2000-09-13|1997-01-28	
-S000000606	ORF	Dubious	YCR013C			chromosome 3		3	139049	138402	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcription of both YCR013C and the overlapping essential gene PGK1 is reduced in a gcr1 null mutant
-S000037371	CDS					YCR013C		3	139049	138402	C		2011-02-03	1997-01-28	
-S000000607	ORF	Verified	YCR014C	POL4	DNA-directed DNA polymerase IV|POLX	chromosome 3	L000001462	3	140933	139185	C		2011-02-03	2000-09-13|1997-01-28	DNA polymerase IV; undergoes pair-wise interactions with Dnl4p-Lif1p and Rad27p to mediate repair of DNA double-strand breaks by non-homologous end joining (NHEJ); homologous to mammalian DNA polymerase beta
-S000029998	CDS					YCR014C		3	140933	139185	C		2011-02-03	2000-09-13|1997-01-28	
-S000000608	ORF	Verified	YCR015C	CTO1		chromosome 3		3	142170	141217	C		2011-02-03	2000-09-13|1997-01-28	Protein required for cold tolerance; involved in phosphate uptake; YCR015C is not an essential gene
-S000030089	CDS					YCR015C		3	142170	141217	C		2011-02-03	2000-09-13|1997-01-28	
-S000007298	snoRNA_gene		snR33	SNR33		chromosome 3	L000001971	3	142546	142364	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U1042
-S000036761	noncoding_exon					snR33		3	142546	142364	C		2011-02-03	2000-05-19	
-S000006575	tRNA_gene		tG(GCC)C	SUF16		chromosome 3	L000002163|L000003758	3	142771	142701	C	3	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis;can mutate to suppress +1 frameshift mutations in glycine codons
-S000037891	noncoding_exon					tG(GCC)C		3	142771	142701	C		2011-02-03	2000-05-19	
-S000006833	long_terminal_repeat		YCRCdelta7			chromosome 3		3	143080	142758	C		2011-02-03	2000-05-19|2007-04-02	Ty1 LTR
-S000000609	ORF	Uncharacterized	YCR016W			chromosome 3		3	143634	144506	W		2011-02-03	2000-09-13|1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus and nucleus; predicted to be involved in ribosome biogenesis
-S000030347	CDS					YCR016W		3	143634	144506	W		2011-02-03	2000-09-13|1997-01-28	
-S000000610	ORF	Verified	YCR017C	CWH43		chromosome 3		3	147634	144773	C		2011-02-03	2000-09-13|1997-01-28	GPI lipid remodelase; responsible for introducing ceramides into GPI anchors having a C26:0 fatty acid in sn-2 of the glycerol moiety; can also use lyso-GPI protein anchors and various base resistant lipids as substrates; contains 14-16 transmembrane segments and several putative glycosylation and phosphorylation sites; null mutation is synthetically lethal with pkc1 deletion
-S000030381	CDS					YCR017C		3	147634	144773	C		2011-02-03	2000-09-13|1997-01-28	
-S000000611	ORF	Verified	YCR018C	SRD1		chromosome 3	L000002054	3	148903	148238	C	9	2011-02-03	2000-09-13|1997-01-28	Protein involved in the processing of pre-rRNA to mature rRNA; contains a C2/C2 zinc finger motif; srd1 mutation suppresses defects caused by the rrp1-1 mutation
-S000033700	CDS					YCR018C		3	148903	148238	C		2011-02-03	2000-09-13|1997-01-28	
-S000006835	long_terminal_repeat		YCRWdelta8			chromosome 3		3	149482	149809	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006658	tRNA_gene		tM(CAU)C			chromosome 3	L000003753	3	149920	149991	W		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), predicted by tRNAscan-SE analysis
-S000034498	noncoding_exon					tM(CAU)C		3	149920	149991	W		2011-02-03	2000-05-19	
-S000006836	long_terminal_repeat		YCRWdelta9			chromosome 3		3	150220	150551	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007429	long_terminal_repeat		YCRCtau1			chromosome 3		3	151055	150695	C		2011-02-03	2000-05-19|2008-03-05	Ty4 LTR
-S000006615	tRNA_gene		tK(CUU)C			chromosome 3	L000003757	3	151356	151284	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000035985	noncoding_exon					tK(CUU)C		3	151356	151284	C		2011-02-03	2000-05-19	
-S000006837	long_terminal_repeat		YCRWdelta10			chromosome 3		3	151521	151851	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007230	ORF	Dubious	YCR018C-A			chromosome 3		3	151862	151608	C		2011-02-03	1999-07-17	Putative protein of unknown function; encoded opposite a Ty1 LTR
-S000036351	CDS					YCR018C-A		3	151862	151608	C		2011-02-03	1999-07-17	
-S000000612	ORF	Verified	YCR019W	MAK32		chromosome 3	L000000999	3	152837	153928	W		2011-02-03	1997-01-28	Protein necessary for stability of L-A dsRNA-containing particles
-S000033899	CDS					YCR019W		3	152837	153928	W		2011-02-03	1997-01-28	
-S000000613	ORF	Verified	YCR020C	PET18	HIT2	chromosome 3	L000001390	3	154659	154012	C	17	2011-02-03	1997-01-28	Protein of unknown function; has weak similarity to proteins involved in thiamin metabolism; expression is induced in the absence of thiamin
-S000033420	CDS					YCR020C		3	154659	154012	C		2011-02-03	1997-01-28	
-S000000614	ORF	Verified	YCR020C-A	MAK31	NAA38|SMX1|LSM9	chromosome 3	L000000998	3	155096	154830	C		2011-02-03	1997-01-28	Non-catalytic subunit of N-terminal acetyltransferase of the NatC type; required for replication of dsRNA virus; member of the Sm protein family
-S000031333	CDS					YCR020C-A		3	155096	154830	C		2011-02-03	1997-01-28	
-S000006439	ORF	Verified	YCR020W-B	HTL1		chromosome 3	L000004545	3	155320	155556	W		2011-02-03	1999-07-17	Component of the RSC chromatin remodeling complex; RSC functions in transcriptional regulation and elongation, chromosome stability, and establishing sister chromatid cohesion; involved in telomere maintenance
-S000033349	CDS					YCR020W-B		3	155320	155556	W		2011-02-03	1999-07-17	
-S000000615	ORF	Verified	YCR021C	HSP30	YRO1	chromosome 3	L000000818	3	157107	156109	C		2011-02-03	1997-01-28	Negative regulator of the H(+)-ATPase Pma1p; stress-responsive protein; hydrophobic plasma membrane localized; induced by heat shock, ethanol treatment, weak organic acid, glucose limitation, and entry into stationary phase
-S000033481	CDS					YCR021C		3	157107	156109	C		2011-02-03	1997-01-28	
-S000000616	ORF	Uncharacterized	YCR022C			chromosome 3		3	157765	157421	C		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YCR022C is not an essential gene
-S000033548	CDS					YCR022C		3	157765	157421	C		2011-02-03	1997-01-28	
-S000000617	ORF	Verified	YCR023C			chromosome 3		3	160373	158538	C		2011-02-03	2000-09-13|1997-01-28	Vacuolar membrane protein of unknown function; member of the multidrug resistance family; YCR023C is not an essential gene
-S000033605	CDS					YCR023C		3	160373	158538	C		2011-02-03	2000-09-13|1997-01-28	
-S000000618	ORF	Verified	YCR024C	SLM5	asparagine--tRNA ligase SLM5	chromosome 3		3	162222	160744	C		2011-02-03	2000-09-13|1997-01-28	Mitochondrial asparaginyl-tRNA synthetase
-S000034549	CDS					YCR024C		3	162222	160744	C		2011-02-03	2000-09-13|1997-01-28	
-S000028818	ORF	Uncharacterized	YCR024C-B			chromosome 3		3	162865	162599	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000033627	CDS					YCR024C-B		3	162865	162599	C		2011-02-03	2003-07-29	
-S000000619	ORF	Verified	YCR024C-A	PMP1	proteolipid ATPase	chromosome 3	L000001453	3	163067	162945	C		2011-02-03	1997-01-28	Regulatory subunit for the plasma membrane H(+)-ATPase Pma1p; small single-membrane span proteolipid; forms unique helix and positively charged cytoplasmic domain that is able to specifically segregate phosphatidylserines; PMP1 has a paralog, PMP2, that arose from the whole genome duplication
-S000030035	CDS					YCR024C-A		3	163067	162945	C		2011-02-03	1997-01-28	
-S000000620	ORF	Dubious	YCR025C			chromosome 3		3	163856	163446	C		2011-02-03	2000-09-13|1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YCR025C is not an essential gene
-S000034636	CDS					YCR025C		3	163856	163446	C		2011-02-03	2000-09-13|1997-01-28	
-S000000621	ORF	Verified	YCR026C	NPP1	nucleotide diphosphatase/phosphodiesterase NPP1	chromosome 3		3	166339	164111	C		2011-02-03	2000-09-13|1997-01-28	Nucleotide pyrophosphatase/phosphodiesterase; mediates extracellular nucleotide phosphate hydrolysis along with Npp2p and Pho5p; activity and expression enhanced during conditions of phosphate starvation; involved in spore wall assembly; NPP1 has a paralog, NPP2, that arose from the whole genome duplication, and an npp1 npp2 double mutant exhibits reduced dityrosine fluorescence relative to the single mutants
-S000034766	CDS					YCR026C		3	166339	164111	C		2011-02-03	2000-09-13|1997-01-28	
-S000028487	ARS		ARS310	ARS310		chromosome 3		3	166503	167348			2011-02-03	2003-03-31	Compound autonomously replicating sequence on Chromosome III
-S000030176	ARS_consensus_sequence					ARS310		3	166663	166673	W		2011-02-03	2003-03-31	
-S000030177	ARS_consensus_sequence					ARS310		3	166710	166700	C		2011-02-03	2003-03-31	
-S000030178	ARS_consensus_sequence					ARS310		3	166766	166756	C		2011-02-03	2003-03-31	
-S000000622	ORF	Verified	YCR027C	RHB1	putative GTPase RHB1|RSG1	chromosome 3	S000007419	3	167999	167370	C		2011-02-03	2000-09-13|1997-01-28	Putative Rheb-related GTPase; involved in regulating canavanine resistance and arginine uptake; member of the Ras superfamily of G-proteins
-S000035733	CDS					YCR027C		3	167999	167370	C		2011-02-03	2000-09-13|1997-01-28	
-S000006692	tRNA_gene		tQ(UUG)C			chromosome 3	L000003756	3	168372	168301	C		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000031663	noncoding_exon					tQ(UUG)C		3	168372	168301	C		2011-02-03	2000-05-19	
-S000006838	long_terminal_repeat		YCRWdelta11			chromosome 3		3	169573	169888	W		2011-02-03	2000-05-19	Ty1 LTR
-S000000623	ORF	Verified	YCR028C	FEN2		chromosome 3	L000004079	3	172424	170886	C		2011-02-03	2000-09-13|1997-01-28	Plasma membrane H+-pantothenate symporter; confers sensitivity to the antifungal agent fenpropimorph; relocalizes from vacuole to cytoplasm upon DNA replication stress
-S000035840	CDS					YCR028C		3	172424	170886	C		2011-02-03	2000-09-13|1997-01-28	
-S000007222	ORF	Verified	YCR028C-A	RIM1		chromosome 3	L000001640	3	173440	172950	C		2011-02-03	2000-09-13|1999-07-17	ssDNA-binding protein essential for mitochondrial genome maintenance; involved in mitochondrial DNA replication; stimulates utilization by Mip1p DNA polymerase of RNA primers synthesized by Rpo41p
-S000030988	CDS					YCR028C-A		3	173115	172950	C		2011-02-03	2000-09-13|1999-07-17	
-S000030987	CDS					YCR028C-A		3	173440	173199	C		2011-02-03	2000-09-13|1999-07-17	
-S000030989	intron					YCR028C-A		3	173198	173116	C		2011-02-03	2000-09-13|1999-07-17	
-S000000626	ORF	Verified	YCR030C	SYP1	YCR029C-A	chromosome 3		3	176438	173826	C		2011-02-03	2000-09-13|1997-01-28|1999-07-17	Negative regulator of WASP-Arp23 complex; involved in endocytic site formation; directly inhibits Las17p stimulation of Arp23 complex-mediated actin assembly in vitro; may regulate assembly and disassembly of the septin ring; colocalizes and interacts with septin subunits; potential role in actin cytoskeletal organization
-S000036846	CDS					YCR030C		3	176438	173826	C		2011-02-03	2000-09-13|1999-07-17|1997-01-28	
-S000006456	snoRNA_gene		snR65	SNR65		chromosome 3	L000004534	3	177183	177282	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2347
-S000030850	noncoding_exon					snR65		3	177183	177282	W		2011-02-03	2000-05-19	
-S000000627	ORF	Verified	YCR031C	RPS14A	uS11|ribosomal 40S subunit protein S14A|S11|rp59A|S14A|RPL59|CRY1	chromosome 3	L000000423	3	178220	177500	C	26	2011-02-03	2000-09-13|1997-01-28	Protein component of the small (40S) ribosomal subunit; required for ribosome assembly and 20S pre-rRNA processing; mutations confer cryptopleurine resistance; homologous to mammalian ribosomal protein S14 and bacterial S11; RPS14A has a paralog, RPS14B, that arose from the whole genome duplication
-S000037573	CDS					YCR031C		3	177906	177500	C		2011-02-03	2000-09-13|1997-01-28	
-S000037572	CDS					YCR031C		3	178220	178214	C		2011-02-03	2000-09-13|1997-01-28	
-S000037574	intron					YCR031C		3	178213	177907	C		2011-02-03	2000-09-13|1997-01-28	
-S000007314	snoRNA_gene		snR189	SNR189		chromosome 3	L000001976	3	178798	178610	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2735 and small subunit (SSU) rRNA at position U466
-S000030325	noncoding_exon					snR189		3	178798	178610	C		2011-02-03	2000-05-19	
-S000000628	ORF	Verified	YCR032W	BPH1		chromosome 3	L000003507	3	179520	186023	W		2011-02-03	2000-09-13|1997-01-28	Protein homologous to Chediak-Higashi syndrome and Beige proteins; both of which are implicated in disease syndromes in human and mouse, respectively, due to defective lysosomal trafficking; mutant phenotype and genetic interactions suggest a role in protein sorting
-S000037675	CDS					YCR032W		3	179520	186023	W		2011-02-03	2000-09-13|1997-01-28	
-S000000629	ORF	Verified	YCR033W	SNT1		chromosome 3		3	186489	190169	W		2011-02-03	2000-09-13|1997-01-28	Subunit of the Set3C deacetylase complex; interacts directly with the Set3C subunit, Sif2p; putative DNA-binding protein; mutant has increased aneuploidy tolerance; relocalizes to the cytosol in response to hypoxia
-S000037732	CDS					YCR033W		3	186489	190169	W		2011-02-03	2000-09-13|1997-01-28	
-S000000630	ORF	Verified	YCR034W	ELO2	fatty acid elongase ELO2|FEN1|VBM2|GNS1	chromosome 3	L000003126|L000000608	3	190592	191635	W	24	2011-02-03	1997-01-28	Fatty acid elongase, involved in sphingolipid biosynthesis; acts on fatty acids of up to 24 carbons in length; mutations have regulatory effects on 1,3-beta-glucan synthase, vacuolar ATPase, and the secretory pathway; ELO2 has a paralog, ELO1, that arose from the whole genome duplication; lethality of the elo2 elo3 double null mutation is functionally complemented by human ELOVL1 and weakly complemented by human ELOVL3 or ELOV7
-S000037781	CDS					YCR034W		3	190592	191635	W		2011-02-03	1997-01-28	
-S000000631	ORF	Verified	YCR035C	RRP43	exosome non-catalytic core subunit RRP43	chromosome 3	L000003552	3	193018	191834	C		2011-02-03	2000-09-13|1997-01-28	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp43p (OIP2, EXOSC8); protein abundance increases in response to DNA replication stress
-S000030620	CDS					YCR035C		3	193018	191834	C		2011-02-03	2000-09-13|1997-01-28	
-S000000632	ORF	Verified	YCR036W	RBK1	putative ribokinase	chromosome 3	L000001587	3	193297	194298	W	29	2011-02-03	2000-09-13|1997-01-28	Putative ribokinase
-S000030780	CDS					YCR036W		3	193297	194298	W		2011-02-03	2000-09-13|1997-01-28	
-S000028488	ARS		ARS313	ARS313	ARSIII-194	chromosome 3		3	194308	194367			2014-11-18	2003-03-31|2014-11-18|2006-09-06	Autonomously Replicating Sequence on Chromosome III
-S000000633	ORF	Verified	YCR037C	PHO87	SPX domain-containing inorganic phosphate transporter	chromosome 3	L000002740	3	197185	194414	C		2011-02-03	2000-09-13|1997-01-28	Low-affinity inorganic phosphate (Pi) transporter; acts upstream of Pho81p in regulation of the PHO pathway; expression is independent of Pi concentration and Pho4p activity; contains 12 membrane-spanning segments; PHO87 has a paralog, PHO90, that arose from the whole genome duplication
-S000030810	CDS					YCR037C		3	197185	194414	C		2011-02-03	2000-09-13|1997-01-28	
-S000028489	ARS		ARS314	ARS314	ARSIII-198	chromosome 3		3	197460	197598			2014-11-18	2003-03-31|2014-11-18|2006-09-06	Autonomously Replicating Sequence on Chromosome III; active in <10% of cell cycles
-S000178056	ARS_consensus_sequence					ARS314		3	197552	197536	C		2014-11-18	2014-11-18	
-S000029699	mating_type_region		MATALPHA	MATALPHA	MAT	chromosome 3	L000001031	3	198671	201177	W	30	2011-02-03	2007-12-10	Mating type locus; note that the systematic sequence in SGD contains MATalpha sequences
-S000124947	W_region					MATALPHA		3	198671	199400	W		2011-02-03	2007-12-10	
-S000124948	X_region					MATALPHA		3	199401	200103	W		2011-02-03	2007-12-10	
-S000124949	Y_region					MATALPHA		3	200104	200850	W		2011-02-03	2007-12-10	
-S000124950	Z1_region					MATALPHA		3	200851	201089	W		2011-02-03	2007-12-10	
-S000124951	Z2_region					MATALPHA		3	201090	201177	W		2011-02-03	2007-12-10	
-S000007597	ORF	Dubious	YCR038W-A			chromosome 3		3	199293	199418	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene BUD5/YCR038C; identified by homology with hemiascomycetous yeast species
-S000037143	CDS					YCR038W-A		3	199293	199418	W		2011-02-03	2001-02-26	
-S000000634	ORF	Verified	YCR038C	BUD5	Ras family guanine nucleotide exchange factor BUD5	chromosome 3	L000000202	3	199549	197621	C	30	2011-02-03	2000-09-13|1997-01-28	GTP/GDP exchange factor for Rsr1p (Bud1p); required for both axial and bipolar budding patterns; mutants exhibit random budding in all cell types
-S000031792	CDS					YCR038C		3	199549	197621	C		2011-02-03	2000-09-13|1997-01-28	
-S000000635	ORF	Verified	YCR039C	MATALPHA2	homeodomain mating type protein alpha2|ALPHA2	chromosome 3	L000002973	3	200178	199546	C		2011-02-03	1997-01-28	Homeobox-domain protein; with Mcm1p, represses a-specific genes in haploids; acts with A1p to repress transcription of haploid-specific genes in diploids; one of two genes encoded by the MATalpha mating type cassette
-S000031946	CDS					YCR039C		3	200178	199546	C		2011-02-03	1997-01-28	
-S000000636	ORF	Verified	YCR040W	MATALPHA1	transcriptional co-activator mating type protein alpha|ALPHA1	chromosome 3	L000002972	3	200442	200969	W		2011-02-03	1997-01-28	Transcriptional co-activator that regulates mating-type-specific genes; targets the transcription factor Mcm1p to the promoters of alpha-specific genes; one of two genes encoded by the MATalpha mating type cassette
-S000032771	CDS					YCR040W		3	200442	200969	W		2011-02-03	1997-01-28	
-S000000637	ORF	Verified	YCR041W			chromosome 3		3	200911	201243	W		2011-02-03	1997-01-28	Protein of unknown function; overexpression suppresses the high-frequency loss of mini-chromosomes, probably by increasing the rate of proper chromosome segregation; translated gene product of YCR041W, but not its transcript, is responsible for suppression; suppression ability of YCR041W is completely dependent on silencing protein Sir4p
-S000032864	CDS					YCR041W		3	200911	201243	W		2011-02-03	1997-01-28	
-S000000638	ORF	Verified	YCR042C	TAF2	TafII150|TSM1|TAF150	chromosome 3	L000002367	3	205397	201174	C	31	2011-02-03	1997-01-28	TFIID subunit (150 kDa); involved in RNA polymerase II transcription initiation
-S000032896	CDS					YCR042C		3	205397	201174	C		2011-02-03	1997-01-28	
-S000000639	ORF	Uncharacterized	YCR043C			chromosome 3		3	206644	206261	C		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the Golgi apparatus; YCR043C is not an essential gene
-S000033005	CDS					YCR043C		3	206644	206261	C		2011-02-03	1997-01-28	
-S000000640	ORF	Verified	YCR044C	PER1	COS16	chromosome 3		3	207950	206877	C		2011-02-03	1997-01-28	Protein of the endoplasmic reticulum; required for GPI-phospholipase A2 activity that remodels the GPI anchor as a prerequisite for association of GPI-anchored proteins with lipid rafts; functionally complemented by human ortholog PERLD1
-S000033673	CDS					YCR044C		3	207950	206877	C		2011-02-03	1997-01-28	
-S000028607	ORF	Dubious	YCR045W-A			chromosome 3		3	208751	209101	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with YCR045C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
-S000031418	CDS					YCR045W-A		3	208751	209101	W		2011-02-03	2003-07-29	
-S000000641	ORF	Verified	YCR045C	RRT12	OSW3	chromosome 3		3	209610	208135	C		2011-02-03	1997-01-28	Probable subtilisin-family protease; role in formation of the dityrosine layer of spore walls; localizes to the spore wall and also the nuclear envelope and ER region in mature spores
-S000033761	CDS					YCR045C		3	209610	208135	C		2011-02-03	1997-01-28	
-S000000642	ORF	Verified	YCR046C	IMG1	mitochondrial 54S ribosomal protein IMG1	chromosome 3	L000004445	3	210423	209914	C		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; required for respiration and for maintenance of the mitochondrial genome
-S000033858	CDS					YCR046C		3	210423	209914	C		2011-02-03	1997-01-28	
-S000028608	ORF	Dubious	YCR047W-A			chromosome 3		3	211301	211507	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with YCR047C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
-S000031420	CDS					YCR047W-A		3	211301	211507	W		2011-02-03	2003-07-29	
-S000000643	ORF	Verified	YCR047C	BUD23	18S rRNA (guanine1575-N7)-methyltransferase	chromosome 3		3	211545	210718	C		2011-02-03	1997-01-28	Methyltransferase that methylates residue G1575 of 18S rRNA; required for rRNA processing and nuclear export of 40S ribosomal subunits independently of methylation activity; diploid mutant displays random budding pattern; functional homolog of human WBSCR22
-S000034011	CDS					YCR047C		3	211545	210718	C		2011-02-03	1997-01-28	
-S000000644	ORF	Verified	YCR048W	ARE1	sterol acyltransferase|SAT2	chromosome 3	L000003221|L000002768	3	211929	213761	W		2011-02-03	1997-01-28	Acyl-CoA:sterol acyltransferase; endoplasmic reticulum enzyme that contributes the major sterol esterification activity in the absence of oxygen; ARE1 has a paralog, ARE2, that arose from the whole genome duplication
-S000034969	CDS					YCR048W		3	211929	213761	W		2011-02-03	1997-01-28	
-S000000645	ORF	Dubious	YCR049C			chromosome 3		3	212317	211871	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035033	CDS					YCR049C		3	212317	211871	C		2011-02-03	1997-01-28	
-S000000646	ORF	Uncharacterized	YCR050C			chromosome 3		3	213772	213464	C		2011-02-03	1997-01-28	Non-essential protein of unknown function; deletion mutant is synthetically sick or lethal with alpha-synuclein
-S000036029	CDS					YCR050C		3	213772	213464	C		2011-02-03	1997-01-28	
-S000000647	ORF	Uncharacterized	YCR051W			chromosome 3		3	214071	214739	W		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; contains ankyrin (Ank) repeats; YCR051W is not an essential gene
-S000036913	CDS					YCR051W		3	214071	214739	W		2011-02-03	1997-01-28	
-S000000648	ORF	Verified	YCR052W	RSC6		chromosome 3	L000003151	3	214994	216445	W		2011-02-03	1997-01-28	Component of the RSC chromatin remodeling complex; essential for mitotic growth; RSC6 has a paralog, SNF12, that arose from the whole genome duplication
-S000036966	CDS					YCR052W		3	214994	216445	W		2011-02-03	1997-01-28	
-S000000649	ORF	Verified	YCR053W	THR4	threonine synthase THR4	chromosome 3	L000002300	3	216697	218241	W	51	2011-02-03	1997-01-28	Threonine synthase; conserved protein that catalyzes formation of threonine from O-phosphohomoserine; expression is regulated by the GCN4-mediated general amino acid control pathway
-S000037048	CDS					YCR053W		3	216697	218241	W		2011-02-03	1997-01-28	
-S000000650	ORF	Verified	YCR054C	CTR86		chromosome 3	L000004071	3	220067	218376	C		2011-02-03	1997-01-28	Essential protein of unknown function; with orthologs in Ashbya gossypii and Candida albicans; similar to human ATXN10, mutations in which cause spinocerebellar ataxia type 10; codon usage corresponds to that observed for yeast genes expressed at low levels; relative distribution to the nucleus increases upon DNA replication stress
-S000037070	CDS					YCR054C		3	220067	218376	C		2011-02-03	1997-01-28	
-S000000653	ORF	Verified	YCR057C	PWP2	snoRNA-binding rRNA-processing protein PWP2|UTP1|YCR058C|YCR055C	chromosome 3	L000001540	3	223228	220457	C		2011-02-03	2000-09-13|1997-01-28	Conserved 90S pre-ribosomal component; essential for proper endonucleolytic cleavage of the 35 S rRNA precursor at A0, A1, and A2 sites; contains eight WD-repeats; PWP2 deletion leads to defects in cell cycle and bud morphogenesis
-S000029966	CDS					YCR057C		3	223228	220457	C		2011-02-03	2000-09-13|1997-01-28	
-S000000655	ORF	Verified	YCR059C	YIH1		chromosome 3		3	224230	223454	C		2011-02-03	1997-01-28	Negative regulator of eIF2 kinase Gcn2p; competes with Gcn2p for binding to Gcn1p; may contribute to regulation of translation in response to starvation via regulation of Gcn2p; binds to monomeric actin and to ribosomes and polyribosomes; ortholog of mammalian IMPACT
-S000031068	CDS					YCR059C		3	224230	223454	C		2011-02-03	1997-01-28	
-S000000656	ORF	Verified	YCR060W	TAH1		chromosome 3		3	224399	224734	W		2011-02-03	1997-01-28	Component of conserved R2TP complex (Rvb1-Rvb2-Tah1-Pih1); R2TP complex interacts with Hsp90 (Hsp82p and Hsc82p) to mediate assembly of large protein complexes such as box C/D snoRNPs and RNA polymerase II; contains a single TPR domain with at least two TPR motifs; plays a role in determining prion variants
-S000032111	CDS					YCR060W		3	224399	224734	W		2011-02-03	1997-01-28	
-S000028490	ARS		ARS315	ARS315	ARSIII-225	chromosome 3		3	224816	225061			2011-02-03	2003-03-31|2006-09-06	Highly-active autonomously replicating sequence; initiates replication in ~90% of cell cycles
-S000178057	ARS_consensus_sequence					ARS315		3	224853	224869	W		2014-11-18	2014-11-18	
-S000000657	ORF	Uncharacterized	YCR061W		YCR062W	chromosome 3		3	225563	227458	W		2011-02-03	2000-09-14|1997-01-28	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; induced by treatment with 8-methoxypsoralen and UVA irradiation
-S000032157	CDS					YCR061W		3	225563	227458	W		2011-02-03	2000-09-14|1997-01-28	
-S000006730	tRNA_gene		tS(CGA)C	SUP61		chromosome 3	L000002215|L000003754	3	227942	228042	W	68	2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis; i6A37 modification is catalyzed by Mod5p; can mutate to suppress amber or ochre nonsense mutations; suppressor mutant alleles are recessive lethal and can only be maintained when an additional wild-type copy of the gene is present, because SUP61 encodes the only tRNA species that can decode UCG codons
-S000029830	intron					tS(CGA)C		3	227979	227997	W		2011-02-03	2000-05-19	
-S000029828	noncoding_exon					tS(CGA)C		3	227942	227978	W		2011-02-03	2000-05-19	
-S000029829	noncoding_exon					tS(CGA)C		3	227998	228042	W		2011-02-03	2000-05-19	
-S000000659	ORF	Verified	YCR063W	BUD31	U2 snRNP complex subunit BUD31|CWC14	chromosome 3		3	228318	228791	W		2011-02-03	1997-01-28	Component of the SF3b subcomplex of the U2 snRNP; increases efficiency of first and second step pre-mRNA splicing; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern; facilitates passage through G1/S Start, but is not required for G2/M transition or exit from mitosis
-S000033121	CDS					YCR063W		3	228318	228791	W		2011-02-03	1997-01-28	
-S000000660	ORF	Dubious	YCR064C			chromosome 3		3	228505	228095	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene BUD31
-S000033148	CDS					YCR064C		3	228505	228095	C		2011-02-03	1997-01-28	
-S000000661	ORF	Verified	YCR065W	HCM1		chromosome 3	L000000757	3	229310	231004	W		2011-02-03	2000-09-13|1997-01-28	Forkhead transcription factor; drives S-phase activation of genes involved in chromosome segregation, spindle dynamics, budding; also activates genes involved in respiration, use of alternative energy sources (like proline), NAD synthesis, oxidative stress resistance; key factor in early adaptation to nutrient deficiency and diauxic shift; suppressor of calmodulin mutants with specific SPB assembly defects; ortholog of C. elegans lifespan regulator PHA-4
-S000033238	CDS					YCR065W		3	229310	231004	W		2011-02-03	2000-09-13|1997-01-28	
-S000000662	ORF	Verified	YCR066W	RAD18	E3 ubiquitin-protein ligase RAD18	chromosome 3	L000001567	3	231500	232963	W	67	2011-02-03	1997-01-28	E3 ubiquitin ligase; forms heterodimer with Rad6p to monoubiquitinate PCNA-K164; heterodimer binds single-stranded DNA and has single-stranded DNA dependent ATPase activity; required for postreplication repair; SUMO-targeted ubiquitin ligase (STUbl) that contains a SUMO-interacting motif (SIM) which stimulates its ubiquitin ligase activity towards the sumoylated form of PCNA
-S000033283	CDS					YCR066W		3	231500	232963	W		2011-02-03	1997-01-28	
-S000000663	ORF	Verified	YCR067C	SED4		chromosome 3	L000001860	3	236322	233125	C		2011-02-03	1997-01-28	Integral ER membrane protein that stimulates Sar1p GTPase activity; involved in COPII vesicle budding through disassociation of coat proteins from membranes onto liposomes; binds Sec16p; SED4 has a paralog, SEC12, that arose from the whole genome duplication
-S000033324	CDS					YCR067C		3	236322	233125	C		2011-02-03	1997-01-28	
-S000000664	ORF	Verified	YCR068W	ATG15	triglyceride lipase ATG15|CVT17|AUT5	chromosome 3	L000004767|L000004751	3	237214	238776	W		2011-02-03	2000-09-13|1997-01-28	Phospholipase; preferentially hydrolyses phosphatidylserine, with minor activity against cardiolipin and phosphatidylethanolamine; required for lysis of autophagic and CVT bodies; targeted to intravacuolar vesicles during autophagy via the multivesicular body (MVB) pathway; required for the maintenance of lipid droplet quantity after the diauxic shift; regulates lipolysis; expression regulated by Yap1p during autophagy
-S000034292	CDS					YCR068W		3	237214	238776	W		2011-02-03	2000-09-13|1997-01-28	
-S000000665	ORF	Verified	YCR069W	CPR4	peptidylprolyl isomerase family protein CPR4|SCC3|YCR070W|CYP4	chromosome 3	L000001804	3	239055	240011	W		2011-02-03	1997-01-28	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; has a potential role in the secretory pathway; CPR4 has a paralog, CPR8, that arose from the whole genome duplication
-S000034404	CDS					YCR069W		3	239055	240011	W		2011-02-03	1997-01-28	
-S000000667	ORF	Verified	YCR071C	IMG2	mitochondrial 54S ribosomal protein IMG2	chromosome 3	L000004446	3	240543	240103	C		2011-02-03	2000-09-13|1997-01-28	Mitochondrial ribosomal protein of the large subunit; conserved in metazoa, with similarity to human mitochondrial ribosomal protein MRPL49
-S000036422	CDS					YCR071C		3	240543	240103	C		2011-02-03	2000-09-13|1997-01-28	
-S000000668	ORF	Verified	YCR072C	RSA4		chromosome 3		3	242352	240805	C		2011-02-03	2000-09-13|1997-01-28	WD-repeat protein involved in ribosome biogenesis; may interact with ribosomes; required for maturation and efficient intra-nuclear transport or pre-60S ribosomal subunits, localizes to the nucleolus
-S000036487	CDS					YCR072C		3	242352	240805	C		2011-02-03	2000-09-13|1997-01-28	
-S000000669	ORF	Verified	YCR073C	SSK22	mitogen-activated protein kinase kinase kinase SSK22	chromosome 3	L000002827	3	246583	242588	C		2011-02-03	2000-09-13|1997-01-28	MAP kinase kinase kinase of HOG1 mitogen-activated signaling pathway; functionally redundant with Ssk2p; interacts with and is activated by Ssk1p; phosphorylates Pbs2p; SSK22 has a paralog, SSK2, that arose from the whole genome duplication
-S000036585	CDS					YCR073C		3	246583	242588	C		2011-02-03	2000-09-13|1997-01-28	
-S000000718	ORF	Verified	YCR073W-A	SOL2	YCRX13W	chromosome 3	L000003116	3	246963	247910	W		2011-02-03	2000-09-13|1997-01-28	Protein with a possible role in tRNA export; shows similarity to 6-phosphogluconolactonase non-catalytic domains but does not exhibit this enzymatic activity; homologous to Sol3p and Sol4p; SOL2 has a paralog, SOL1, that arose from the whole genome duplication
-S000032484	CDS					YCR073W-A		3	246963	247910	W		2011-02-03	2000-09-13|1997-01-28	
-S000000671	ORF	Verified	YCR075C	ERS1	cystinosin-like protein ERS1	chromosome 3	L000000582	3	248815	248033	C		2011-02-03	1997-01-28	Protein involved in cystine transport; localizes to the vacuole, plasma membrane and endosome; similarity to human cystinosin, a H(+)-driven transporter involved in L-cystine export from lysosomes and implicated in the disease cystinosis; contains seven transmembrane domains; mutation is functionally complemented by human CTNS
-S000037388	CDS					YCR075C		3	248815	248033	C		2011-02-03	1997-01-28	
-S000028519	ORF	Verified	YCR075W-A	EGO2		chromosome 3		3	248975	249202	W		2011-02-03	2003-07-29	Component of the EGO and GSE complexes; identified by homology to Ashbya gossypii; YCR075W-A has a paralog, YNR034W-A, that arose from the whole genome duplication
-S000030296	CDS					YCR075W-A		3	248975	249202	W		2011-02-03	2003-07-29	
-S000000672	ORF	Verified	YCR076C	FUB1		chromosome 3		3	250045	249293	C		2011-02-03	1997-01-28	Proteasome-binding protein; interacts physically with multiple subunits of the 20S proteasome and genetically with genes encoding 20S core particle and 19S regulatory particle subunits; exhibits boundary activity which blocks the propagation of heterochromatic silencing; contains a PI31 proteasome regulator domain and sequence similarity with human PSMF1, a proteasome inhibitor; not an essential gene
-S000037531	CDS					YCR076C		3	250045	249293	C		2011-02-03	1997-01-28	
-S000000673	ORF	Verified	YCR077C	PAT1	MRT1	chromosome 3	L000001183|L000003214	3	252628	250238	C		2011-02-03	2000-09-13|1997-01-28|2011-02-03	Deadenylation-dependent mRNA-decapping factor; also required for faithful chromosome transmission, maintenance of rDNA locus stability, and protection of mRNA 3'-UTRs from trimming; associated with topoisomerase II; binds to mRNAs under glucose starvation, most often in the 3' UTR; functionally linked to Pab1p; forms cytoplasmic foci upon DNA replication stress; phosphorylation by PKA inhibits P body foci formation
-S000030274	CDS					YCR077C		3	252628	250238	C		2011-02-03	2000-09-13|1997-01-28|2011-02-03	
-S000002133	ORF	Verified	YCR079W	PTC6	type 2C protein phosphatase PTC6|PPP2|AUP1	chromosome 3		3	252845	254173	W		2011-02-03	2000-09-13|1997-01-28	Mitochondrial type 2C protein phosphatase (PP2C); has similarity to mammalian PP1Ks; involved in mitophagy; null mutant is sensitive to rapamycin and has decreased phosphorylation of the Pda1 subunit of pyruvate dehydrogenase
-S000031401	CDS					YCR079W		3	252845	254173	W		2011-02-03	2000-09-13|1997-01-28	
-S000000677	ORF	Verified	YCR081W	SRB8	MED12|YCR080W|SSN5|NUT6|GIG1	chromosome 3	L000003007	3	254371	258654	W		2011-02-03	2000-09-13|1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; involved in glucose repression
-S000031712	CDS					YCR081W		3	254371	258654	W		2011-02-03	2000-09-13|1997-01-28	
-S000028609	ORF	Dubious	YCR081C-A			chromosome 3		3	258651	258415	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with SRB8/YCR081W; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
-S000031422	CDS					YCR081C-A		3	258651	258415	C		2011-02-03	2003-07-29	
-S000000678	ORF	Verified	YCR082W	AHC2		chromosome 3		3	258883	259269	W		2011-02-03	1997-01-28	Component of the ADA histone acetyltransferase complex; Ahc2p and Ahc1p are unique to the ADA complex and not shared with the related SAGA and SLIK complexes; may tether Ahc1p to the complex
-S000031866	CDS					YCR082W		3	258883	259269	W		2011-02-03	1997-01-28	
-S000000679	ORF	Verified	YCR083W	TRX3		chromosome 3		3	259578	259961	W		2011-02-03	1997-01-28	Mitochondrial thioredoxin; highly conserved oxidoreductase required to maintain the redox homeostasis of the cell, forms the mitochondrial thioredoxin system with Trr2p, redox state is maintained by both Trr2p and Glr1p
-S000031961	CDS					YCR083W		3	259578	259961	W		2011-02-03	1997-01-28	
-S000000680	ORF	Verified	YCR084C	TUP1	chromatin-silencing transcriptional regulator TUP1|UMR7|SFL2|ROX4|FLK1|CYC9|CRT4|AMM1|AER2|AAR1	chromosome 3	L000002391	3	262452	260311	C	77	2011-02-03	1997-01-28	General repressor of transcription; forms complex with Cyc8p, involved in the establishment of repressive chromatin structure through interactions with histones H3 and H4, appears to enhance expression of some genes
-S000032798	CDS					YCR084C		3	262452	260311	C		2011-02-03	1997-01-28	
-S000000681	ORF	Uncharacterized	YCR085W			chromosome 3		3	262916	263269	W		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YCR085W is not an essential gene
-S000032982	CDS					YCR085W		3	262916	263269	W		2011-02-03	1997-01-28	
-S000000682	ORF	Verified	YCR086W	CSM1		chromosome 3	S000007653	3	263392	263964	W		2011-02-03	1997-01-28	Nucleolar protein that mediates homolog segregation during meiosis I; forms a complex with Lrs4p and then Mam1p at kinetochores; required for condensin recruitment to the replication fork barrier site and rDNA repeat segregation
-S000033051	CDS					YCR086W		3	263392	263964	W		2011-02-03	1997-01-28	
-S000000683	ORF	Dubious	YCR087W			chromosome 3		3	263976	264491	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized gene YCR087C-A; YCR087W is not an essential gene
-S000033786	CDS					YCR087W		3	263976	264491	W		2011-02-03	1997-01-28	
-S000007223	ORF	Uncharacterized	YCR087C-A		LUG1	chromosome 3		3	264467	264006	C		2011-02-03	1999-07-17	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus; YCR087C-A is not an essential gene
-S000034092	CDS					YCR087C-A		3	264467	264006	C		2011-02-03	1999-07-17	
-S000000684	ORF	Verified	YCR088W	ABP1		chromosome 3	L000000013	3	265068	266846	W	80	2011-02-03	1997-01-28	Actin-binding protein of the cortical actin cytoskeleton; important for activation of the Arp2/3 complex that plays a key role actin in cytoskeleton organization; inhibits barbed-end actin filament elongation; phosphorylation within its Proline-Rich Regio, mediated by Cdc28p and Pho85p, protects Abp1p from proteolysis mediated by its own PEST sequences; mammalian homolog of HIP-55 (hematopoietic progenitor kinase 1 [HPK1]-interacting protein of 55 kDa)
-S000033904	CDS					YCR088W		3	265068	266846	W		2011-02-03	1997-01-28	
-S000000685	ORF	Verified	YCR089W	FIG2		chromosome 3	L000003312	3	267434	272263	W		2011-02-03	2000-09-13|1997-01-28	Cell wall adhesin, expressed specifically during mating; may be involved in maintenance of cell wall integrity during mating; FIG2 has a paralog, AGA1, that arose from the whole genome duplication
-S000034060	CDS					YCR089W		3	267434	272263	W		2011-02-03	2000-09-13|1997-01-28	
-S000028491	ARS		ARS316	ARS316	ARSIII-273	chromosome 3		3	272852	273095			2011-02-03	2003-03-31|2006-09-06	Inefficient autonomously replicating sequence; active in ~25% of cell cycles
-S000178058	ARS_consensus_sequence					ARS316		3	273024	273008	C		2014-11-18	2014-11-18	
-S000000686	ORF	Uncharacterized	YCR090C			chromosome 3		3	272863	272315	C		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YCR090C is not an essential gene
-S000036138	CDS					YCR090C		3	272863	272315	C		2011-02-03	1997-01-28	
-S000000687	ORF	Verified	YCR091W	KIN82	putative serine/threonine protein kinase KIN82|FPK2	chromosome 3	L000000906	3	274404	276566	W		2011-02-03	2000-09-13|1997-01-28|2011-02-03	Putative serine/threonine protein kinase; implicated in the regulation of phospholipid asymmetry through the activation of phospholipid translocases (flippases); involved in the phosphorylation of upstream inhibitory kinase Ypk1p along with Fpk1p; has a redundant role in the cellular response to mating pheromone; KIN82 has a paralog, FPK1, that arose from the whole genome duplication
-S000036298	CDS					YCR091W		3	274404	276566	W		2011-02-03	2000-09-13|1997-01-28|2011-02-03	
-S000000688	ORF	Verified	YCR092C	MSH3	mismatch repair protein MSH3	chromosome 3	L000001191	3	279820	276764	C		2011-02-03	2007-09-06|1997-01-28	Mismatch repair protein; forms dimers with Msh2p that mediate repair of insertion or deletion mutations and removal of nonhomologous DNA ends, contains a PCNA (Pol30p) binding motif required for genome stability
-S000036361	CDS					YCR092C		3	279820	276764	C		2011-02-03	1997-01-28|2007-09-06	
-S000000689	ORF	Verified	YCR093W	CDC39	CCR4-NOT core subunit CDC39|SMD6|ROS1|NOT1	chromosome 3	L000000274	3	280117	286443	W	91	2011-02-03	2000-09-13|1997-01-28	Subunit of the CCR4-NOT1 core complex; this complex has multiple roles in the regulation of mRNA levels including regulation of transcription and destabilization of mRNA by deadenylation; basal transcription factor that increases initiation and elongation; activates the ATPase activity of Dhh1p, resulting in processing body disassembly
-S000037049	CDS					YCR093W		3	280117	286443	W		2011-02-03	2000-09-13|1997-01-28	
-S000000690	ORF	Verified	YCR094W	CDC50	aminophospholipid translocase regulatory protein CDC50	chromosome 3	L000004326	3	286762	287937	W		2011-02-03	1997-01-28	Endosomal protein that interacts with phospholipid flippase Drs2p; interaction with Cdc50p is essential for Drs2p catalytic activity; mutations affect cell polarity and polarized growth; similar to Lem3p; CDC50 has a paralog, YNR048W, that arose from the whole genome duplication
-S000037156	CDS					YCR094W		3	286762	287937	W		2011-02-03	1997-01-28	
-S000000691	ORF	Uncharacterized	YCR095C	OCA4		chromosome 3		3	289258	288170	C		2011-02-03	1997-01-28	Cytoplasmic protein required for replication of Brome mosaic virus; S. cerevisiae is a model system for studying replication of positive-strand RNA viruses in their natural hosts
-S000037199	CDS					YCR095C		3	289258	288170	C		2011-02-03	1997-01-28	
-S000029724	ORF	Uncharacterized	YCR095W-A			chromosome 3		3	289639	289797	W		2011-02-03	2004-08-27	Putative protein of unknown function
-S000036860	CDS					YCR095W-A		3	289639	289797	W		2011-02-03	2004-08-27	
-S000006839	long_terminal_repeat		YCRWdelta12			chromosome 3		3	291373	291712	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006841	long_terminal_repeat		YCRWomega3			chromosome 3		3	291922	292167	W		2011-02-03	2000-05-19	Ty5 LTR
-S000029655	silent_mating_type_cassette_array	silenced_gene	HMR	HMR		chromosome 3	L000000792	3	292388	295034	W	94	2011-02-03	2007-12-10	Mating-type cassette - right; unexpressed complete copy of the mating-type genes, silenced by the Sir2 histone deacetylase and its associated SIR1, SIR3 and SIR4 proteins; mating-type switching involves replacement of the Ya or Yalpha sequences present at the MAT locus with either the a or alpha genes located at one of the HM loci in a process stimulated by the HO endonuclease; sequence replacement occurs by gene conversion, leaving the donor unaltered
-S000124952	X_region					HMR		3	293032	293736	W		2011-02-03	2007-12-10	
-S000124953	Y_region					HMR		3	293737	294378	W		2011-02-03	2007-12-10	
-S000124954	Z1_region					HMR		3	294379	294617	W		2011-02-03	2007-12-10	
-S000028492	ARS		ARS317	ARS317	HMR-E ARS	chromosome 3		3	292638	292694			2014-11-18	2003-03-31|2014-11-18	ARS that fires extremely inefficiently and late during S phase; fires late and inefficiently compared to other origins in the genome; active in only a small fraction of cell cycles
-S000121225	ARS_consensus_sequence					ARS317		3	292684	292674	C		2011-02-03	2007-03-06	
-S000000692	ORF	Verified|silenced_gene	YCR096C	HMRA2	homeodomain  mating type protein a2|A2	chromosome 3		3	293538	293179	C		2011-02-03	1997-01-28	Silenced copy of a2 at HMR; similarity to Alpha2p; required along with a1p for inhibiting expression of the HO endonuclease in a/alpha HO/HO diploid cells with an active mating-type interconversion system
-S000037309	CDS					YCR096C		3	293538	293179	C		2011-02-03	1997-01-28	
-S000000694	ORF	Verified|silenced_gene	YCR097W	HMRA1	YCR097WB	chromosome 3	S000007657	3	293835	294321	W		2011-02-03	1997-01-28	Silenced copy of a1 at HMR; homeobox corepressor that interacts with Alpha2p to repress haploid-specific gene transcription in diploid cells
-S000030021	CDS					YCR097W		3	293835	293939	W		2011-02-03	1997-01-28	
-S000030022	CDS					YCR097W		3	293994	294239	W		2011-02-03	1997-01-28	
-S000030023	CDS					YCR097W		3	294292	294321	W		2011-02-03	1997-01-28	
-S000030024	intron					YCR097W		3	293940	293993	W		2011-02-03	1997-01-28	
-S000030025	intron					YCR097W		3	294240	294291	W		2011-02-03	1997-01-28	
-S000007632	ORF	Dubious	YCR097W-A			chromosome 3		3	294439	294705	W		2011-02-03	2000-07-12	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by homology to a hemiascomycetous yeast protein
-S000036353	CDS					YCR097W-A		3	294439	294705	W		2011-02-03	2000-07-12	
-S000028493	ARS		ARS318	ARS318	HMR-I ARS	chromosome 3		3	294820	294901			2014-11-18	2003-03-31|2014-11-18	ARS that becomes active if the nearby ARS317/HMR-E silencer is deleted; active in only a small fraction of cell cycles
-S000030213	ARS_consensus_sequence					ARS318		3	294824	294834	W		2011-02-03	2003-03-31|2009-02-19	
-S000006840	long_terminal_repeat		YCRWdelta13			chromosome 3		3	295003	295330	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006738	tRNA_gene		tT(AGU)C			chromosome 3	L000003755	3	295484	295556	W		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000032149	noncoding_exon					tT(AGU)C		3	295484	295556	W		2011-02-03	2000-05-19	
-S000006834	long_terminal_repeat		YCRCdelta14			chromosome 3		3	296190	295958	C		2011-02-03	2000-05-19|2007-04-02	Ty1 LTR
-S000000695	ORF	Verified	YCR098C	GIT1		chromosome 3	L000003211	3	298605	297049	C		2011-02-03	1997-01-28	Plasma membrane permease; mediates uptake of glycerophosphoinositol and glycerophosphocholine as sources of the nutrients inositol and phosphate; expression and transport rate are regulated by phosphate and inositol availability
-S000030063	CDS					YCR098C		3	298605	297049	C		2011-02-03	1997-01-28	
-S000000696	ORF	Uncharacterized	YCR099C			chromosome 3		3	301299	300832	C		2011-02-03	1997-01-28	Putative protein of unknown function
-S000031088	CDS					YCR099C		3	301299	300832	C		2011-02-03	1997-01-28	
-S000000697	ORF	Uncharacterized	YCR100C			chromosome 3		3	302221	301271	C		2011-02-03	1997-01-28	Putative protein of unknown function
-S000036663	CDS					YCR100C		3	302221	301271	C		2011-02-03	1997-01-28	
-S000000698	ORF	Uncharacterized	YCR101C			chromosome 3		3	303030	302482	C		2011-02-03	1997-01-28	Putative protein of unknown function; localizes to the membrane fraction; YCR101C is not an essential gene
-S000036721	CDS					YCR101C		3	303030	302482	C		2011-02-03	1997-01-28	
-S000000699	ORF	Uncharacterized	YCR102C			chromosome 3		3	305467	304361	C		2011-02-03	1997-01-28	Putative protein of unknown function; involved in copper metabolism; similar to C. carbonum toxD gene; member of the quinone oxidoreductase family
-S000036781	CDS					YCR102C		3	305467	304361	C		2011-02-03	1997-01-28	
-S000007231	ORF	Dubious	YCR102W-A			chromosome 3		3	306735	306932	W		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037829	CDS					YCR102W-A		3	306735	306932	W		2011-02-03	1999-07-17	
-S000000701	ORF	Verified	YCR104W	PAU3	seripauperin PAU3	chromosome 3	L000002739	3	307801	308175	W		2011-02-03	1997-01-28	Member of the seripauperin multigene family; encoded mainly in subtelomeric region; active during alcoholic fermentation; regulated by anaerobiosis; negatively regulated by oxygen; repressed by heme 
-S000037613	CDS					YCR104W		3	307801	308175	W		2011-02-03	1997-01-28	
-S000000702	ORF	Verified	YCR105W	ADH7	NADP-dependent alcohol dehydrogenase|ADHVII	chromosome 3		3	309070	310155	W		2011-02-03	1997-01-28	NADPH-dependent medium chain alcohol dehydrogenase; has broad substrate specificity; member of the cinnamyl family of alcohol dehydrogenases; may be involved in fusel alcohol synthesis or in aldehyde tolerance
-S000037676	CDS					YCR105W		3	309070	310155	W		2011-02-03	1997-01-28	
-S000000703	ORF	Verified	YCR106W	RDS1		chromosome 3		3	310958	313456	W		2011-02-03	1997-01-28	Putative zinc cluster transcription factor; involved in conferring resistance to cycloheximide
-S000037733	CDS					YCR106W		3	310958	313456	W		2011-02-03	1997-01-28	
-S000000704	ORF	Verified	YCR107W	AAD3	putative aryl-alcohol dehydrogenase	chromosome 3	L000004636	3	313890	314981	W		2011-02-03	2000-09-13|1997-01-28	Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role; AAD3 has a paralog, AAD15, that arose from a segmental duplication; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
-S000037782	CDS					YCR107W		3	313890	314981	W		2011-02-03	2000-09-13|1997-01-28	
-S000028944	telomere		TEL03R			chromosome 3		3	315783	316620	W	102	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome III; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
-S000028945	telomeric_repeat					TEL03R		3	316522	316620	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome III
-S000028946	X_element					TEL03R		3	315783	316239	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome III; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YCR108C
-S000028947	X_element_combinatorial_repeat					TEL03R		3	316240	316521	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr III; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000028494	ARS		ARS319	ARS319		chromosome 3		3	315807	315879			2014-11-18	2003-03-31|2014-11-18	Highly-active subtelomeric autonomously replicating sequence; initiates replication in ~90% of cell cycles
-S000030215	ARS_consensus_sequence					ARS319		3	315821	315831	W		2011-02-03	2003-03-31	
-S000028536	ORF	Uncharacterized	YCR108C			chromosome 3		3	316188	315997	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031145	CDS					YCR108C		3	316188	315997	C		2011-02-03	2003-07-29	
-S000121226	ARS		ARS400		ARSIV-1	chromosome 4		4	137	1392			2007-03-06	2007-03-06	Autonomously Replicating Sequence
-S000178059	ARS_consensus_sequence					ARS400		4	869	853	C		2014-11-18	2014-11-18	
-S000028875	telomere		TEL04L			chromosome 4		4	904	1	C	-153	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome IV; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
-S000028876	telomeric_repeat					TEL04L		4	154	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome IV
-S000028877	X_element					TEL04L		4	904	435	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome IV; spans 469 bp and contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028878	X_element_combinatorial_repeat					TEL04L		4	434	155	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr IV; spans 279 bp and contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000002407	ORF	Verified	YDL248W	COS7		chromosome 4	L000004065	4	1802	2953	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000036145	CDS					YDL248W		4	1802	2953	W		1996-07-31	1996-07-31	
-S000007602	ORF	Dubious	YDL247W-A			chromosome 4		4	3762	3836	W		2001-02-26	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by sequence comparison with hemiascomycetous yeast species
-S000037148	CDS					YDL247W-A		4	3762	3836	W		2001-02-26	2001-02-26	
-S000002406	ORF	Verified	YDL247W	MPH2	alpha-glucoside permease	chromosome 4		4	5985	7814	W		1996-07-31	1996-07-31	Alpha-glucoside permease; transports maltose, maltotriose, alpha-methylglucoside, and turanose; almost identical to Mph3p; encoded in a subtelomeric position in a region likely to have undergone duplication
-S000035265	CDS					YDL247W		4	5985	7814	W		1996-07-31	1996-07-31	
-S000002405	ORF	Verified	YDL246C	SOR2	L-iditol 2-dehydrogenase SOR2	chromosome 4		4	9756	8683	C		1996-07-31	1996-07-31	Sorbitol dehydrogenase; protein sequence is 99% identical to the Sor1p sorbitol dehydrogenase
-S000035109	CDS					YDL246C		4	9756	8683	C		1996-07-31	1996-07-31	
-S000002404	ORF	Verified	YDL245C	HXT15	HLT2|hexose transporter HXT15	chromosome 4	L000002986	4	13360	11657	C		1996-07-31	1996-07-31	Putative transmembrane polyol transporter; supports growth on and uptake of mannitol, sorbitol and xylitol with moderate affinity when overexpressed in a strain deleted for hexose family members; minor hexose transport activity when overexpressed in a similar strain; similarity to hexose transporters; expression is induced by low levels of glucose and repressed by high levels of glucose
-S000035017	CDS					YDL245C		4	13360	11657	C		1996-07-31	1996-07-31	
-S000118427	ARS		ARS403		ARSIV-16	chromosome 4		4	15493	15739			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000178060	ARS_consensus_sequence					ARS403		4	15682	15666	C		2014-11-18	2014-11-18	
-S000002403	ORF	Verified	YDL244W	THI13	4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase	chromosome 4	S000007414	4	16204	17226	W		1996-07-31	1996-07-31	Protein involved in synthesis of the thiamine precursor HMP; member of a subtelomeric gene family including THI5, THI11, THI12, and THI13; hydroxymethylpyrimidine is also known as HMP
-S000034919	CDS					YDL244W		4	16204	17226	W		1996-07-31	1996-07-31	
-S000002402	ORF	Verified	YDL243C	AAD4	putative aryl-alcohol dehydrogenase	chromosome 4	L000004637	4	18566	17577	C		1996-07-31	1996-07-31	Putative aryl-alcohol dehydrogenase; involved in oxidative stress response; similar to P. chrysosporium aryl-alcohol dehydrogenase; expression induced in cells treated with the mycotoxin patulin; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
-S000032895	CDS					YDL243C		4	18566	17577	C		1996-07-31	1996-07-31	
-S000002401	ORF	Dubious	YDL242W			chromosome 4		4	18959	19312	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032853	CDS					YDL242W		4	18959	19312	W		1996-07-31	1996-07-31	
-S000002400	ORF	Uncharacterized	YDL241W			chromosome 4		4	20635	21006	W		1996-07-31	1996-07-31	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; YDL241W is not an essential gene
-S000032761	CDS					YDL241W		4	20635	21006	W		1996-07-31	1996-07-31	
-S000007601	ORF	Dubious	YDL240C-A			chromosome 4		4	22608	22471	C		2001-02-26	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by sequence comparison with hemiascomycetous yeast species
-S000037147	CDS					YDL240C-A		4	22608	22471	C		2001-02-26	2001-02-26	
-S000002399	ORF	Verified	YDL240W	LRG1		chromosome 4	L000000953	4	22823	25876	W		1996-07-31	1996-07-31|2011-02-03	GTPase-activating protein (GAP); contains Rho1p-specific GAP activity, interacting with activated forms of Rho1p; functions along with Sac7p as a negative regulator of the Pkc1p-mediated cell wall integrity signaling pathway; negative regulator of cell wall 1,3-beta-glucan biosynthesis; required for efficient cell fusion; contains a RhoGAP domain and three Lin-11-Isl1-Mec-3 (LIM) domains
-S000032681	CDS					YDL240W		4	22823	25876	W		1996-07-31	1996-07-31|2011-02-03	
-S000002398	ORF	Verified	YDL239C	ADY3		chromosome 4		4	28775	26403	C		1996-07-31	1996-07-31|2011-02-03	Protein required for spore wall formation; subunit of the leading edge protein (LEP) complex (Ssp1-Ady3-Don1-Irc10) that forms a ring-like structure at the leading edge of the prospore membrane during meiosis II; mediates assembly of the LEP complex, formation of the ring-like structure via interaction with spindle pole body components and prospore membrane maturation; potentially phosphorylated by Cdc28p; ADY3 has a paralog, CNM67, that arose from the whole
-S000032048	CDS					YDL239C		4	28775	26403	C		1996-07-31	1996-07-31|2011-02-03	
-S000002397	ORF	Verified	YDL238C	GUD1	guanine deaminase	chromosome 4		4	30454	28985	C		1996-07-31	1996-07-31	Guanine deaminase; a catabolic enzyme of the guanine salvage pathway producing xanthine and ammonia from guanine; activity is low in exponentially-growing cultures but expression is increased in post-diauxic and stationary-phase cultures
-S000031892	CDS					YDL238C		4	30454	28985	C		1996-07-31	1996-07-31	
-S000002396	ORF	Verified	YDL237W	AIM6	LRC1	chromosome 4		4	30657	31829	W		1996-07-31	1996-07-31|2011-02-03	Protein of unknown function; required for respiratory growth; YDL237W is not an essential gene
-S000031783	CDS					YDL237W		4	30657	31829	W		1996-07-31	1996-07-31|2011-02-03	
-S000002395	ORF	Verified	YDL236W	PHO13	4-nitrophenylphosphatase	chromosome 4	L000001425	4	32296	33234	W		1996-07-31	1996-07-31	Conserved phosphatase acting as a metabolite repair enzyme; shows specific dephosphorylating activity on two side-products of central carbohydrate metabolism, 2-phosphoglycolate and 4-phosphoerythronate; alkaline phosphatase specific for p-nitrophenyl phosphate; also has protein phosphatase activity; human ortholog PGP shows similar substrate specificity, deletion causes similar metabolite accumulation phenotypes, suggesting conserved role in eliminating glycolytic byproducts
-S000030827	CDS					YDL236W		4	32296	33234	W		1996-07-31	1996-07-31	
-S000002394	ORF	Verified	YDL235C	YPD1		chromosome 4	L000003285	4	33918	33415	C		1996-07-31	1996-07-31	Osmotic stress-responsive phosphorelay intermediate sensor protein; phosphorylated by the plasma membrane sensor Sln1p in response to osmotic stress and then in turn phosphorylates the response regulators Ssk1p in the cytosol and Skn7p in the nucleus
-S000030691	CDS					YDL235C		4	33918	33415	C		1996-07-31	1996-07-31	
-S000002393	ORF	Verified	YDL234C	GYP7		chromosome 4	L000003067	4	36477	34237	C		2011-02-03	1996-07-31	GTPase-activating protein for yeast Rab family members; members include Ypt7p (most effective), Ypt1p, Ypt31p, and Ypt32p (in vitro); involved in vesicle mediated protein trafficking; contains a PH-like domain
-S000036775	CDS					YDL234C		4	36477	34237	C		2011-02-03	1996-07-31	
-S000002392	ORF	Uncharacterized	YDL233W	MFG1		chromosome 4		4	36797	38173	W		2011-02-03	1996-07-31	Regulator of filamentous growth; interacts with FLO11 promoter and regulates FLO11 expression; binds to transcription factors Flo8p and Mss11p; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YDL233W is not an essential gene
-S000036757	CDS					YDL233W		4	36797	38173	W		2011-02-03	1996-07-31	
-S000002391	ORF	Verified	YDL232W	OST4	olichyl-diphosphooligosaccharide--protein glycotransferase OST4	chromosome 4	L000003180	4	38487	38597	W		2011-02-03	1996-07-31	Subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes protein asparagine-linked glycosylation; type I membrane protein required for incorporation of Ost3p or Ost6p into the OST complex
-S000036662	CDS					YDL232W		4	38487	38597	W		2011-02-03	1996-07-31	
-S000002390	ORF	Verified	YDL231C	BRE4		chromosome 4		4	42244	38867	C		2011-02-03	1996-07-31	Zinc finger protein containing five transmembrane domains; null mutant exhibits strongly fragmented vacuoles and sensitivity to brefeldin A, a drug which is known to affect intracellular transport
-S000036514	CDS					YDL231C		4	42244	38867	C		2011-02-03	1996-07-31	
-S000002389	ORF	Verified	YDL230W	PTP1	tyrosine protein phosphatase PTP1	chromosome 4	L000001525	4	42700	43707	W		2011-02-03	1996-07-31	Phosphotyrosine-specific protein phosphatase; dephosphorylates a broad range of substrates in vivo, including Fpr3p; localized to the cytoplasm and the mitochondria; proposed to be a negative regulator of filamentation
-S000036498	CDS					YDL230W		4	42700	43707	W		2011-02-03	1996-07-31	
-S000002388	ORF	Verified	YDL229W	SSB1	Hsp70 family ATPase SSB1|YG101	chromosome 4	L000002073|L000002508	4	44065	45906	W	-129	2011-02-03	1996-07-31	Cytoplasmic ATPase that is a ribosome-associated molecular chaperone; functions with J-protein partner Zuo1p; may be involved in folding of newly-made polypeptide chains; member of the HSP70 family; interacts with phosphatase subunit Reg1p; SSB1 has a paralog, SSB2, that arose from the whole genome duplication
-S000035996	CDS					YDL229W		4	44065	45906	W		2011-02-03	1996-07-31	
-S000002387	ORF	Dubious	YDL228C			chromosome 4		4	45918	45277	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified gene SSB1
-S000035797	CDS					YDL228C		4	45918	45277	C		2011-02-03	1996-07-31	
-S000114787	ARS		ARS404	ARS404	HO ARS	chromosome 4		4	46185	46237			2014-11-18	2014-11-18|2006-04-10	Autonomously Replicating Sequence
-S000121227	ARS_consensus_sequence					ARS404		4	46230	46214	C		2014-11-18	2014-11-18|2007-03-06	
-S000002386	ORF	Verified	YDL227C	HO		chromosome 4	L000000796	4	48031	46271	C	-130	2011-02-03	1996-07-31	Site-specific endonuclease; required for gene conversion at the MAT locus (homothallic switching) through the generation of a ds DNA break; expression restricted to mother cells in late G1 as controlled by Swi4p-Swi6p, Swi5p, and Ash1p
-S000035713	CDS					YDL227C		4	48031	46271	C		2011-02-03	1996-07-31	
-S000002385	ORF	Verified	YDL226C	GCS1		chromosome 4	L000000693	4	52173	51115	C		2011-02-03	1996-07-31	ADP-ribosylation factor GTPase activating protein (ARF GAP); involved in ER-Golgi transport; required for prospore membrane formation; regulates phospholipase Spo14p; shares functional similarity with Glo3p; GCS1 has a paralog, SPS18, that arose from the whole genome duplication
-S000035648	CDS					YDL226C		4	52173	51115	C		2011-02-03	1996-07-31	
-S000002384	ORF	Verified	YDL225W	SHS1	septin SHS1|SEP7	chromosome 4		4	52445	54100	W		2011-02-03	1996-07-31	Component of the septin ring that is required for cytokinesis; present at the ends of rod-like septin hetero-oligomers; C-terminal extension is important for recruitment of Bni5p to the mother-bud neck, which in turn is required for Myo1p recruitment and cytokinesis; undergoes sumoylation and phosphorylation during mitosis; protein abundance increases in response to DNA replication stress
-S000035638	CDS					YDL225W		4	52445	54100	W		2011-02-03	1996-07-31	
-S000002383	ORF	Verified	YDL224C	WHI4		chromosome 4	L000004493	4	56346	54397	C		2011-02-03	1996-07-31	Putative RNA binding protein; regulates the cell size requirement for passage through Start and commitment to cell division; WHI4 has a paralog, WHI3, that arose from the whole genome duplication
-S000034657	CDS					YDL224C		4	56346	54397	C		2011-02-03	1996-07-31	
-S000002382	ORF	Verified	YDL223C	HBT1		chromosome 4	S000007655	4	60405	57265	C		2011-02-03	1996-07-31	Shmoo tip protein, substrate of Hub1p ubiquitin-like protein; mutants are defective for mating projection formation, thereby implicating Hbt1p in polarized cell morphogenesis; HBT1 has a paralog, YNL195C, that arose from the whole genome duplication
-S000034598	CDS					YDL223C		4	60405	57265	C		2011-02-03	1996-07-31	
-S000002381	ORF	Verified	YDL222C	FMP45		chromosome 4		4	61801	60872	C		2011-02-03	1996-07-31	Integral membrane protein localized to mitochondria; required for sporulation and maintaining sphingolipid content; similar to SUR7; FMP45 has a paralog, YNL194C, that arose from the whole genome duplication
-S000034458	CDS					YDL222C		4	61801	60872	C		2011-02-03	1996-07-31	
-S000002380	ORF	Dubious	YDL221W			chromosome 4		4	62011	62562	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the 3' end of essential gene CDC13
-S000034428	CDS					YDL221W		4	62011	62562	W		2011-02-03	1996-07-31	
-S000002379	ORF	Verified	YDL220C	CDC13	telomere-binding protein CDC13|EST4	chromosome 4	L000000253	4	65018	62244	C	-122	2011-02-03	1996-07-31	Single stranded DNA-binding protein found at TG1-3 telomere G-tails; key roles in regulation of telomerase, telomere end protection, conventional telomere replication; regulates telomere replication through recruitment of specific sub-complexes, essential function is telomere capping; forms homodimer via N-terminus; disruption of dimerization leads to short telomeres; autophagy and proteasome are involved in Cdc13p degradation; differentially phosphorylated through cell cycle
-S000032343	CDS					YDL220C		4	65018	62244	C		2011-02-03	1996-07-31	
-S000002378	ORF	Verified	YDL219W	DTD1	D-tyrosyl-tRNA(Tyr) deacylase	chromosome 4		4	65242	65765	W		2011-02-03	1996-07-31	D-Tyr-tRNA(Tyr) deacylase; functions in protein translation, may affect nonsense suppression via alteration of the protein synthesis machinery; ubiquitous among eukaryotes
-S000032532	CDS					YDL219W		4	65242	65306	W		2011-02-03	1996-07-31	
-S000032533	CDS					YDL219W		4	65378	65765	W		2011-02-03	1996-07-31	
-S000032534	intron					YDL219W		4	65307	65377	W		2011-02-03	1996-07-31	
-S000002377	ORF	Uncharacterized	YDL218W			chromosome 4		4	66493	67446	W		2011-02-03	1996-07-31	Putative protein of unknown function; YDL218W transcription is regulated by Azf1p and induced by starvation and aerobic conditions; expression also induced in cells treated with the mycotoxin patulin
-S000031549	CDS					YDL218W		4	66493	67446	W		2011-02-03	1996-07-31	
-S000002376	ORF	Verified	YDL217C	TIM22	translocation channel protein TIM22	chromosome 4	L000004157	4	68606	67983	C		2011-02-03	1996-07-31	Essential core component of the mitochondrial TIM22 complex; involved in insertion of polytopic proteins into the inner membrane; forms the channel through which proteins are imported
-S000031465	CDS					YDL217C		4	68606	67983	C		2011-02-03	1996-07-31	
-S000002375	ORF	Verified	YDL216C	RRI1	COP9 signalosome catalytic subunit RRI1|JAB1|CSN5	chromosome 4	S000007574	4	70319	68997	C		2011-02-03	1996-07-31|2006-04-13	Catalytic subunit of the COP9 signalosome (CSN) complex; acts as an isopeptidase in cleaving the ubiquitin-like protein Nedd8 from SCF ubiquitin ligases; metalloendopeptidase involved in the adaptation to pheromone signaling; involved in modulation of genes controlling amino acid and lipid metabolism, and ergosterol biosynthesis
-S000031346	CDS					YDL216C		4	70319	68997	C		2011-02-03	1996-07-31|2006-04-13	
-S000002374	ORF	Verified	YDL215C	GDH2	glutamate dehydrogenase (NAD(+))|GDHB|GDH-B	chromosome 4	L000000697	4	73918	70640	C		2011-02-03	1996-07-31	NAD(+)-dependent glutamate dehydrogenase; degrades glutamate to ammonia and alpha-ketoglutarate; expression sensitive to nitrogen catabolite repression and intracellular ammonia levels; genetically interacts with GDH3 by suppressing stress-induced apoptosis
-S000031302	CDS					YDL215C		4	73918	70640	C		2011-02-03	1996-07-31	
-S000002373	ORF	Verified	YDL214C	PRR2	serine/threonine protein kinase PRR2	chromosome 4		4	76545	74446	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; inhibits pheromone induced signalling downstream of MAPK, possibly at the level of the Ste12p transcription factor; mutant has increased aneuploidy tolerance; PRR2 has a paralog, NPR1, that arose from the whole genome duplication
-S000030339	CDS					YDL214C		4	76545	74446	C		2011-02-03	1996-07-31	
-S000002372	ORF	Verified	YDL213C	NOP6		chromosome 4		4	77966	77289	C		2011-02-03	1996-07-31	rRNA-binding protein required for 40S ribosomal subunit biogenesis; contains an RNA recognition motif (RRM); hydrophilin essential to overcome the stress of the desiccation-rehydration process; NOP6 may be a fungal-specific gene as no homologs have been yet identified in higher eukaryotes
-S000030227	CDS					YDL213C		4	77966	77289	C		2011-02-03	1996-07-31	
-S000002371	ORF	Verified	YDL212W	SHR3	APF1	chromosome 4	L000001885	4	78426	79058	W		2011-02-03	1996-07-31	Endoplasmic reticulum packaging chaperone; required for incorporation of amino acid permeases into COPII coated vesicles for transport to the cell surface
-S000030170	CDS					YDL212W		4	78426	79058	W		2011-02-03	1996-07-31	
-S000002370	ORF	Uncharacterized	YDL211C			chromosome 4		4	80412	79294	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; YDL211C has a paralog, TDA7, that arose from the whole genome duplication
-S000036399	CDS					YDL211C		4	80412	79294	C		2011-02-03	1996-07-31	
-S000006576	tRNA_gene		tG(GCC)D1			chromosome 4	L000003761	4	83548	83618	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000031690	noncoding_exon					tG(GCC)D1		4	83548	83618	W		2011-02-03	2000-05-19	
-S000002369	ORF	Verified	YDL210W	UGA4		chromosome 4	L000002424	4	84270	85985	W		2011-02-03	1996-07-31	GABA (gamma-aminobutyrate) permease; serves as a GABA transport protein involved in the utilization of GABA as a nitrogen source; catalyzes the transport of putrescine and delta-aminolevulinic acid (ALA); localized to the vacuolar membrane
-S000036357	CDS					YDL210W		4	84270	85985	W		2011-02-03	1996-07-31	
-S000118428	ARS		ARS405		ARSIV-86	chromosome 4		4	85945	86176			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178061	ARS_consensus_sequence					ARS405		4	86125	86109	C		2014-11-18	2014-11-18	
-S000002368	ORF	Verified	YDL209C	CWC2	NTC40	chromosome 4		4	87226	86207	C		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; binds directly to U6 snRNA; similar to S. pombe Cwf2
-S000036574	CDS					YDL209C		4	87226	86207	C		2011-02-03	1996-07-31	
-S000002367	ORF	Verified	YDL208W	NHP2	snoRNA-binding protein NHP2	chromosome 4	L000001243	4	87512	87982	W		2011-02-03	1996-07-31|2005-11-22	Protein related to mammalian high mobility group (HMG) proteins; nuclear protein; essential for function of H/ACA-type snoRNPs, which are involved in 18S rRNA processing
-S000036516	CDS					YDL208W		4	87512	87982	W		2011-02-03	1996-07-31|2005-11-22	
-S000002366	ORF	Verified	YDL207W	GLE1	nucleoporin GLE1|NLE2|BRR3|RSS1	chromosome 4	L000003399|L000001255|S000029324	4	88248	89864	W		2011-02-03	1996-07-31	Cytoplasmic nucleoporin required for polyadenylated mRNA export; contains a nuclear export signal; when bound to inositol hexakisphosphate (IP6), functions as an activator for the Dbp5p ATPase activity at the nuclear pore complex during mRNA export; mediates translation initiation; required for efficient translation termination
-S000036457	CDS					YDL207W		4	88248	89864	W		2011-02-03	1996-07-31	
-S000002365	ORF	Uncharacterized	YDL206W			chromosome 4		4	90176	92464	W		2011-02-03	1996-07-31	Putative protein of unknown function; YDL206W is not an essential protein
-S000035556	CDS					YDL206W		4	90176	92464	W		2011-02-03	1996-07-31	
-S000002364	ORF	Verified	YDL205C	HEM3	hydroxymethylbilane synthase|OLE2	chromosome 4	L000000762	4	93745	92762	C		2011-02-03	1996-07-31	Porphobilinogen deaminase; catalyzes the conversion of 4-porphobilinogen to hydroxymethylbilane, the third step in heme biosynthesis; localizes to the cytoplasm and nucleus; expression is regulated by Hap2p-Hap3p, but not by levels of heme; human homolog HMBS can complement yeast mutant and allow growth of haploid null after sporulation of a heterozygous diploid
-S000035448	CDS					YDL205C		4	93745	92762	C		2011-02-03	1996-07-31	
-S000002363	ORF	Verified	YDL204W	RTN2		chromosome 4		4	94605	95786	W		2011-02-03	1996-07-31	Reticulon protein; involved in nuclear pore assembly and maintenance of tubular ER morphology; promotes membrane curvature; regulates the ER asymmetry-induced inheritance block during ER stress; role in ER-derived peroxisomal biogenesis; interacts with Sec6p, Yip3p, and Sbh1p; less abundant than RTN1; member of RTNLA (reticulon-like A) subfamily; protein increases in abundance and relocalizes to plasma membrane upon DNA replication stress
-S000035441	CDS					YDL204W		4	94605	95786	W		2011-02-03	1996-07-31	
-S000002362	ORF	Verified	YDL203C	ACK1		chromosome 4		4	97953	96082	C		2011-02-03	1996-07-31	Protein that functions in the cell wall integrity pathway; functions upstream of Pkc1p; GFP-fusion protein expression is induced in response to the DNA-damaging agent MMS; non-tagged Ack1p is detected in purified mitochondria
-S000035331	CDS					YDL203C		4	97953	96082	C		2011-02-03	1996-07-31	
-S000002361	ORF	Verified	YDL202W	MRPL11	mitochondrial 54S ribosomal protein YmL11|YmL11	chromosome 4	L000002686	4	98475	99224	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; localizes to vacuole in response to H2O2
-S000035301	CDS					YDL202W		4	98475	99224	W		2011-02-03	1996-07-31	
-S000002360	ORF	Verified	YDL201W	TRM8	tRNA (guanine46-N7)-methyltransferase	chromosome 4		4	99561	100421	W		2011-02-03	1996-07-31	Noncatalytic subunit of a tRNA methyltransferase complex; Trm8p and Trm82p comprise an enzyme that catalyzes a methyl-transfer from S-adenosyl-l-methionine to the N(7) atom of guanine at position 46 in tRNA; Trm8 lacks catalytic activity if not bound to Trm82p
-S000034332	CDS					YDL201W		4	99561	100421	W		2011-02-03	1996-07-31	
-S000002359	ORF	Verified	YDL200C	MGT1	methylated-DNA--protein-cysteine methyltransferase|MGMT	chromosome 4	L000001106	4	101067	100501	C		2011-02-03	1996-07-31|2006-04-13	DNA repair methyltransferase (6-O-methylguanine-DNA methylase); involved in protection against DNA alkylation damage
-S000034219	CDS					YDL200C		4	101067	100501	C		2011-02-03	1996-07-31|2006-04-13	
-S000002358	ORF	Uncharacterized	YDL199C			chromosome 4		4	103353	101290	C		2011-02-03	1996-07-31	Putative transporter; member of the sugar porter family
-S000035760	CDS					YDL199C		4	103353	101290	C		2011-02-03	1996-07-31	
-S000002357	ORF	Verified	YDL198C	GGC1	SHM1|YHM1	chromosome 4	L000001881	4	104551	103649	C		2011-02-03	1996-07-31	Mitochondrial GTP/GDP transporter; essential for mitochondrial genome maintenance; has a role in mitochondrial iron transport; member of the mitochondrial carrier family
-S000035649	CDS					YDL198C		4	104551	103649	C		2011-02-03	1996-07-31	
-S000002356	ORF	Verified	YDL197C	ASF2		chromosome 4	L000000127	4	106494	104917	C	-109.03	2011-02-03	1996-07-31	Anti-silencing protein; causes derepression of silent loci when overexpressed
-S000034644	CDS					YDL197C		4	106494	104917	C		2011-02-03	1996-07-31	
-S000002355	ORF	Dubious	YDL196W			chromosome 4		4	106741	107070	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame is located in promoter region of essential gene SEC31
-S000034607	CDS					YDL196W		4	106741	107070	W		2011-02-03	1996-07-31	
-S000002354	ORF	Verified	YDL195W	SEC31	WEB1	chromosome 4	L000002484	4	107208	111029	W		2011-02-03	1996-07-31|2011-02-03	Component of the Sec13p-Sec31p complex of the COPII vesicle coat; COPII coat is required for vesicle formation in ER to Golgi transport; mutant has increased aneuploidy tolerance
-S000034506	CDS					YDL195W		4	107208	111029	W		2011-02-03	1996-07-31|2011-02-03	
-S000002353	ORF	Verified	YDL194W	SNF3	glucose sensor	chromosome 4	L000001946	4	111580	114234	W	-104	2011-02-03	1996-07-31	Plasma membrane low glucose sensor, regulates glucose transport; high affinity sensor that contains 12 predicted transmembrane segments and a long C-terminal tail required for induction of hexose transporters; also senses fructose and mannose; SNF3 has a paralog, RGT2, that arose from the whole genome duplication
-S000033579	CDS					YDL194W		4	111580	114234	W		2011-02-03	1996-07-31	
-S000002352	ORF	Verified	YDL193W	NUS1	ditrans,polycis-polyprenyl diphosphate synthase	chromosome 4		4	114672	115799	W		2011-02-03	1996-07-31	Forms dehydrodolichyl diphosphate syntase complex with RER2 or SRT1; tet-repressible mutant shows accumulation of hypoglycosylated forms of CPY, suggesting that Nus1p may be involved in protein trafficking; mutations in human homolog NUS1 have been implicated in congenital scoliosis, neurological impairment, refractory epilepsy, hearing deficit, and visual impairment; human cis-prenyltransferase complex complements yeast null mutant
-S000033540	CDS					YDL193W		4	114672	115799	W		2011-02-03	1996-07-31	
-S000002351	ORF	Verified	YDL192W	ARF1	Arf family GTPase ARF1	chromosome 4	L000000104	4	116321	116866	W	-91	2011-02-03	1996-07-31	ADP-ribosylation factor; GTPase of the Ras superfamily involved in regulation of coated vesicle formation in intracellular trafficking within the Golgi; ARF1 has a paralog, ARF2, that arose from the whole genome duplication; arf1 arf2 double null mutation is complemented by human ARF1, ARF4, ARF5, or ARF6
-S000033475	CDS					YDL192W		4	116321	116866	W		2011-02-03	1996-07-31	
-S000002350	ORF	Verified	YDL191W	RPL35A	uL29|ribosomal 60S subunit protein L35A|L35A|L29|SOS1	chromosome 4	L000001985	4	117664	118517	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L35A; homologous to mammalian ribosomal protein L35 and bacterial L29; RPL35A has a paralog, RPL35B, that arose from the whole genome duplication
-S000033395	CDS					YDL191W		4	117664	117666	W		2011-02-03	1996-07-31	
-S000033396	CDS					YDL191W		4	118158	118517	W		2011-02-03	1996-07-31	
-S000033397	intron					YDL191W		4	117667	118157	W		2011-02-03	1996-07-31	
-S000002349	ORF	Verified	YDL190C	UFD2	ubiquitin-ubiquitin ligase UFD2	chromosome 4	L000002788	4	121592	118707	C		2011-02-03	1996-07-31|2011-02-03	Ubiquitin chain assembly factor (E4); cooperates with a ubiquitin-activating enzyme (E1), a ubiquitin-conjugating enzyme (E2), and a ubiquitin protein ligase (E3) to conjugate ubiquitin to substrates; also functions as an E3
-S000032665	CDS					YDL190C		4	121592	118707	C		2011-02-03	1996-07-31|2011-02-03	
-S000002348	ORF	Verified	YDL189W	RBS1		chromosome 4		4	122216	123589	W		2011-02-03	2000-07-22|1996-07-31	Protein involved in assembly of the RNA polymerase III (Pol III) complex; high copy suppressor of Pol III assembly mutation and psk1 psk2 mutations that confer temperature-sensitivity for galactose utilization; physically interacts with Pol III; proposed to bind single-stranded nucleic acids via its R3H domain
-S000033663	CDS					YDL189W		4	122216	123589	W		2011-02-03	2000-07-22|1996-07-31	
-S000122396	five_prime_UTR_intron					YDL189W		4	122078	122176	W		2011-02-03	2007-04-27	
-S000118429	ARS		ARS406		ARSIV-124	chromosome 4		4	123617	123901			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178062	ARS_consensus_sequence					ARS406		4	123795	123779	C		2014-11-18	2014-11-18	
-S000002347	ORF	Verified	YDL188C	PPH22	phosphoprotein phosphatase 2A catalytic subunit PPH22|PPH2	chromosome 4	L000001473	4	124998	123865	C	-102	2011-02-03	1996-07-31	Catalytic subunit of protein phosphatase 2A (PP2A); functionally redundant with Pph21p; methylated at C terminus; forms alternate complexes with several regulatory subunits; involved in signal transduction and regulation of mitosis; protein abundance increases in response to DNA replication stress; dephosphorylates Tel1p/Mec1p-phosphorylated Cdc13p to promote telomerase release from telomeres at G2/M; PPH22 has a paralog, PPH21, that arose from the whole genome duplication
-S000030301	CDS					YDL188C		4	124998	123865	C		2011-02-03	1996-07-31	
-S000002345	ORF	Uncharacterized	YDL186W			chromosome 4		4	125616	126449	W		2011-02-03	1996-07-31	Putative protein of unknown function; YDL186W is not an essential gene
-S000030062	CDS					YDL186W		4	125616	126449	W		2011-02-03	1996-07-31	
-S000002346	ORF	Dubious	YDL187C			chromosome 4		4	125838	125509	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030099	CDS					YDL187C		4	125838	125509	C		2011-02-03	1996-07-31	
-S000002344	ORF	Verified	YDL185W	VMA1	H(+)-transporting V1 sector ATPase subunit A|TFP1|CLS8	chromosome 4	L000002289	4	126787	130002	W	-101.43	2011-02-03	1996-07-31	Subunit A of the V1 peripheral membrane domain of V-ATPase; protein precursor undergoes self-catalyzed splicing to yield the extein Tfp1p and the intein Vde (PI-SceI), which is a site-specific endonuclease; the V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase) has eight subunits; involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner
-S000029978	CDS					YDL185W		4	126787	130002	W		2011-02-03	1996-07-31	
-S000029636	intein_encoding_region					YDL185W	S000007537	4	127636	129000	W		2014-11-18	2014-11-18	Vma1p derived endonuclease; a 50 kDa intein derived from the self-splicing of amino acid residues 284-738 of the VMA1 primary translation product; has endonuclease activity and cleaves at the VMA1 gene to stimulate gene conversion during meiosis
-S000007600	ORF	Dubious	YDL185C-A			chromosome 4		4	126835	126608	C		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YDL185W; identified by homology with hemiascomycetous yeast species
-S000037146	CDS					YDL185C-A		4	126835	126608	C		2011-02-03	2001-02-26	
-S000002343	ORF	Verified	YDL184C	RPL41A	eL41|ribosomal 60S subunit protein L41A|L41e|YL41|L47A|L41A|RPL47A	chromosome 4	L000001738	4	130484	130407	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L41A; comprises only 25 amino acids; rpl41a rpl41b double null mutant is viable; homologous to mammalian ribosomal protein L41, no bacterial homolog; RPL41A has a paralog, RPL41B, that arose from the whole genome duplication
-S000037317	CDS					YDL184C		4	130484	130407	C		2011-02-03	1996-07-31	
-S000002342	ORF	Verified	YDL183C		MKR1	chromosome 4		4	131833	130871	C		2011-02-03	1996-07-31	Protein that may form an active mitochondrial KHE system; mitochondrial inner-membrane protein; non-essential gene; KHE system stands for K+/H+ exchanger system
-S000037236	CDS					YDL183C		4	131833	130871	C		2011-02-03	1996-07-31	
-S000002341	ORF	Verified	YDL182W	LYS20	homocitrate synthase LYS20	chromosome 4	L000004103	4	133437	134723	W		2011-02-03	1996-07-31	Homocitrate synthase isozyme and functions in DNA repair; catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, which is the first step in the lysine biosynthesis pathway; LYS20 has a paralog, LYS21, that arose from the whole genome duplication
-S000037198	CDS					YDL182W		4	133437	134723	W		2011-02-03	1996-07-31	
-S000002340	ORF	Verified	YDL181W	INH1	ATPase inhibitor	chromosome 4	L000000866	4	135179	135436	W		2011-02-03	1996-07-31	Protein that inhibits ATP hydrolysis by the F1F0-ATP synthase; inhibitory function is enhanced by stabilizing proteins Stf1p and Stf2p; has a calmodulin-binding motif and binds calmodulin in vitro; INH1 has a paralog, STF1, that arose from the whole genome duplication
-S000037121	CDS					YDL181W		4	135179	135436	W		2011-02-03	1996-07-31	
-S000002339	ORF	Uncharacterized	YDL180W			chromosome 4		4	135896	137539	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole
-S000036445	CDS					YDL180W		4	135896	137539	W		2011-02-03	1996-07-31	
-S000002338	ORF	Verified	YDL179W	PCL9		chromosome 4	L000004041	4	138291	139205	W		2011-02-03	1996-07-31	Cyclin; forms a functional kinase complex with Pho85p cyclin-dependent kinase (Cdk), expressed in late M/early G1 phase, activated by Swi5p; PCL9 has a paralog, PCL2, that arose from the whole genome duplication
-S000032032	CDS					YDL179W		4	138291	139205	W		2011-02-03	1996-07-31	
-S000002337	ORF	Verified	YDL178W	DLD2	D-lactate dehydrogenase|AIP2	chromosome 4	L000000070	4	139522	141114	W		2011-02-03	1996-07-31	D-2-hydroxyglutarate dehydrogenase, and minor D-lactate dehydrogenase; mitochondrial matrix protein that oxidizes D-2-hydroxyglutarate (D-2HG), an oncometabolite, to alpha-ketoglutarate with a minor role in lactate catabolism; located in the mitochondrial matrix
-S000031886	CDS					YDL178W		4	139522	141114	W		2011-02-03	1996-07-31	
-S000002336	ORF	Uncharacterized	YDL177C			chromosome 4		4	141721	141209	C		2011-02-03	1996-07-31	Putative protein of unknown function; similar to the mouse IMPACT gene; YDL177C is not an essential gene
-S000031688	CDS					YDL177C		4	141721	141209	C		2011-02-03	1996-07-31	
-S000002335	ORF	Verified	YDL176W			chromosome 4		4	142097	144223	W		2011-02-03	1996-07-31	Protein of unknown function; predicted by computational methods to be involved in fructose-1,6-bisphosphatase (Fbp1p) degradation; interacts with components of the GID complex; YDL176W is not an essential gene
-S000036245	CDS					YDL176W		4	142097	144223	W		2011-02-03	1996-07-31	
-S000002334	ORF	Verified	YDL175C	AIR2	TRAMP complex RNA-binding subunit	chromosome 4		4	145518	144484	C		2011-02-03	1996-07-31	RNA-binding subunit of the TRAMP nuclear RNA surveillance complex; involved in nuclear RNA processing and degradation; involved in TRAMP complex assembly as a bridge between Mtr4p and Trf4p; stimulates the poly(A) polymerase activity of Pap2p in vitro; has 5 zinc knuckle motifs; AIR2 has a paralog, AIR1, that arose from the whole genome duplication; Air2p and Air1p have nonredundant roles in regulation of substrate specificity of the exosome
-S000036095	CDS					YDL175C		4	145518	144484	C		2011-02-03	1996-07-31	
-S000002333	ORF	Verified	YDL174C	DLD1	D-lactate dehydrogenase	chromosome 4	L000000508	4	147589	145826	C		2011-02-03	1996-07-31	Major mitochondrial D-lactate dehydrogenase; oxidizes D-lactate to pyruvate, transcription is heme-dependent, repressed by glucose, and derepressed in ethanol or lactate; located in the mitochondrial inner membrane
-S000035215	CDS					YDL174C		4	147589	145826	C		2011-02-03	1996-07-31	
-S000002332	ORF	Verified	YDL173W	PAR32		chromosome 4		4	148191	149078	W		2011-02-03	1996-07-31	Protein of unknown function; hyperphosphorylated upon rapamycin treatment in a Tap42p-dependent manner; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; PAR32 is not an essential gene
-S000035172	CDS					YDL173W		4	148191	149078	W		2011-02-03	1996-07-31	
-S000002331	ORF	Dubious	YDL172C			chromosome 4		4	149086	148607	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035016	CDS					YDL172C		4	149086	148607	C		2011-02-03	1996-07-31	
-S000002330	ORF	Verified	YDL171C	GLT1	glutamate synthase (NADH)	chromosome 4	L000003333	4	155640	149203	C		2011-02-03	1996-07-31	NAD(+)-dependent glutamate synthase (GOGAT); synthesizes glutamate from glutamine and alpha-ketoglutarate; with Gln1p, forms the secondary pathway for glutamate biosynthesis from ammonia; expression regulated by nitrogen source; assembles into filaments as cells approach stationary phase and under cytosolic acidification and starvation conditions
-S000034863	CDS					YDL171C		4	155640	149203	C		2011-02-03	1996-07-31	
-S000002329	ORF	Verified	YDL170W	UGA3		chromosome 4	L000002423	4	156318	157904	W		2011-02-03	1996-07-31	Transcriptional activator for GABA-dependent induction of GABA genes; binds to DNA elements found in the promoters of target genes and increases their expression in the presence of GABA (gamma-aminobutyrate); zinc finger transcription factor of the Zn(2)-Cys(6) binuclear cluster domain type; localized to the nucleus; examples of GABA genes include UGA1, UGA2, and UGA4
-S000034829	CDS					YDL170W		4	156318	157904	W		2011-02-03	1996-07-31	
-S000002328	ORF	Verified	YDL169C	UGX2		chromosome 4	L000002851	4	158735	158064	C		2011-02-03	1996-07-31	Protein of unknown function; transcript accumulates in response to any combination of stress conditions
-S000033142	CDS					YDL169C		4	158735	158064	C		2011-02-03	1996-07-31	
-S000002327	ORF	Verified	YDL168W	SFA1	bifunctional alcohol dehydrogenase/S-(hydroxymethyl)glutathione dehydrogenase|ADH5	chromosome 4	L000001868	4	159604	160764	W		2011-02-03	1996-07-31	Bifunctional alcohol dehydrogenase and formaldehyde dehydrogenase; formaldehyde dehydrogenase activity is glutathione-dependent; functions in formaldehyde detoxification and formation of long chain and complex alcohols, regulated by Hog1p-Sko1p; protein abundance increases in response to DNA replication stress
-S000033096	CDS					YDL168W		4	159604	160764	W		2011-02-03	1996-07-31	
-S000002326	ORF	Verified	YDL167C	NRP1		chromosome 4	L000000121	4	163154	160995	C		2011-02-03	1996-07-31	Putative RNA binding protein of unknown function; localizes to stress granules induced by glucose deprivation; predicted to be involved in ribosome biogenesis
-S000032963	CDS					YDL167C		4	163154	160995	C		2011-02-03	1996-07-31	
-S000002325	ORF	Verified	YDL166C	FAP7	nucleoside-triphosphatase	chromosome 4		4	164042	163449	C		2011-02-03	1996-07-31	Essential NTPase required for small ribosome subunit synthesis; mediates processing of the 20S pre-rRNA at site D in the cytoplasm but associates only transiently with 43S preribosomes via Rps14p; complex with Rps14 is conserved between humans, yeast, and arches; may be the endonuclease for site D; depletion leads to accumulation of pre-40S ribosomes in 80S-like ribosomes; human TAF9 functionally complements the lethality of the null mutation
-S000032043	CDS					YDL166C		4	164042	163449	C		2011-02-03	1996-07-31	
-S000002324	ORF	Verified	YDL165W	CDC36	CCR4-NOT core subunit CDC36|NOT2|DNA19	chromosome 4	L000000272	4	164290	164865	W	-80	2011-02-03	1996-07-31	Component of the CCR4-NOT core complex, involved in mRNA decapping; this complex has multiple roles in regulating mRNA levels including regulation of transcription and destabilizing mRNAs through deadenylation; basal transcription factor
-S000031977	CDS					YDL165W		4	164290	164865	W		2011-02-03	1996-07-31	
-S000002322	ORF	Dubious	YDL163W			chromosome 4		4	166956	167258	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CDC9/YDL164C encoding DNA ligase
-S000030824	CDS					YDL163W		4	166956	167258	W		2011-02-03	1996-07-31	
-S000002323	ORF	Verified	YDL164C	CDC9	DNA ligase (ATP) CDC9|MMS8	chromosome 4	L000000249	4	167254	164987	C	-78	2011-02-03	1996-07-31	DNA ligase I found in nucleus and mitochondria; essential enzyme that joins Okazaki fragments during DNA replication; also acts in ribonucleotide excision repair, base excision repair, and recombination; DNA ligase I mutants trigger ubiquitination of PCNA at K107, facilitating Rad59p-mediated bypass of unligated Okazaki fragments; human homolog LIG1 can complement yeast cdc9 temperature-sensitive mutant at restrictive temperature
-S000030891	CDS					YDL164C		4	167254	164987	C		2011-02-03	1996-07-31	
-S000002320	ORF	Verified	YDL161W	ENT1	epsin	chromosome 4		4	167714	169078	W		2011-02-03	1996-07-31	Epsin-like protein involved in endocytosis and actin patch assembly; functionally redundant with Ent2p; binds clathrin via a clathrin-binding domain motif at C-terminus; relocalizes from bud neck to cytoplasm upon DNA replication stress; ENT1 has a paralog, ENT2, that arose from the whole genome duplication
-S000030611	CDS					YDL161W		4	167714	169078	W		2011-02-03	1996-07-31	
-S000002321	ORF	Dubious	YDL162C			chromosome 4		4	167715	167359	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ENT1/YDL161W, a verified gene involved in endocytosis and actin cortical patch assembly
-S000030690	CDS					YDL162C		4	167715	167359	C		2011-02-03	1996-07-31	
-S000028520	ORF	Verified	YDL160C-A	MHF2		chromosome 4		4	169608	169366	C		2011-02-03	2003-07-29	Component of the heterotetrameric MHF histone-fold complex; in humans the MHF complex interacts with both DNA and Mph1p ortholog FANCM to stabilize and remodel blocked replication forks and repair damaged DNA; mhf2 srs2 double mutants are MMS hypersensitive; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-X, also known as MHF2
-S000030315	CDS					YDL160C-A		4	169608	169366	C		2011-02-03	2003-07-29	
-S000002319	ORF	Verified	YDL160C	DHH1	DExD/H-box ATP-dependent RNA helicase DHH1	chromosome 4	L000000504	4	171930	170410	C		2011-02-03	1996-07-31	Cytoplasmic DEAD-box helicase, stimulates mRNA decapping; coordinates distinct steps in mRNA function and decay, interacting with both decapping and deadenylase complexes; role in translational repression, mRNA decay, and possibly mRNA export; interacts and cooperates with Ngr1p to promote specific mRNA decay; ATP- and RNA-bound form promotes processing body (PB) assembly, while ATPase stimulation by Not1p promotes PB disassembly; forms cytoplasmic foci on replication stress
-S000036698	CDS					YDL160C		4	171930	170410	C		2011-02-03	1996-07-31	
-S000007599	ORF	Uncharacterized	YDL159W-A		YDL159W-B	chromosome 4		4	172182	172313	W		2011-02-03	2001-02-26	Putative protein of unknown function; identified by sequence comparison with hemiascomycetous yeast species
-S000037145	CDS					YDL159W-A		4	172182	172313	W		2011-02-03	2001-02-26	
-S000002318	ORF	Verified	YDL159W	STE7	mitogen-activated protein kinase kinase STE7	chromosome 4	L000002117	4	172481	174028	W	-76	2011-02-03	1996-07-31	Signal transducing MAP kinase kinase; involved in pheromone response where it phosphorylates Fus3p; involved in the pseudohyphal/invasive growth pathway where it phosphorylates of Kss1p; phosphorylated by Ste11p; degraded by ubiquitin pathway
-S000036970	CDS					YDL159W		4	172481	174028	W		2011-02-03	1996-07-31	
-S000028612	ORF	Dubious	YDL159C-B		YDL159C-A	chromosome 4		4	173232	173056	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031444	CDS					YDL159C-B		4	173232	173056	C		2011-02-03	2003-07-29	
-S000002317	ORF	Dubious	YDL158C			chromosome 4		4	174174	173866	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036885	CDS					YDL158C		4	174174	173866	C		2011-02-03	1996-07-31	
-S000002316	ORF	Uncharacterized	YDL157C			chromosome 4		4	174588	174232	C		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000036806	CDS					YDL157C		4	174588	174232	C		2011-02-03	1996-07-31	
-S000002315	ORF	Verified	YDL156W	CMR1		chromosome 4		4	174918	176486	W		2011-02-03	1996-07-31	Nuclear protein with a role in protein quality control; localizes to the intranuclear quality control compartment (INQ) in response to proteasome inhibition or DNA replication stress; INQ likely sequesters proteins involved in DNA metabolism for degradation or re-folding; DNA-binding protein with preference for UV-damaged DNA; contains three WD domains (WD-40 repeat); human ortholog WDR76 also exhibits perinuclear localization under similar stress conditions
-S000035992	CDS					YDL156W		4	174918	176486	W		2011-02-03	1996-07-31	
-S000002314	ORF	Verified	YDL155W	CLB3	B-type cyclin CLB3	chromosome 4	L000000351	4	176773	178056	W		2011-02-03	1996-07-31	B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the G2/M transition; may be involved in DNA replication and spindle assembly; accumulates during S phase and G2, then targeted for ubiquitin-mediated degradation; relative distribution to the nucleus increases upon DNA replication stress; CLB3 has a paralog, CLB4, that arose from the whole genome duplication
-S000035864	CDS					YDL155W		4	176773	178056	W		2011-02-03	1996-07-31	
-S000002313	ORF	Verified	YDL154W	MSH5	MutS family protein MSH5	chromosome 4	L000002573	4	178334	181039	W		2011-02-03	1996-07-31	Protein of the MutS family; forms a dimer with Msh4p that facilitates crossovers between homologs during meiosis; msh5-Y823H mutation confers tolerance to DNA alkylating agents; homologs present in C. elegans and humans
-S000035754	CDS					YDL154W		4	178334	181039	W		2011-02-03	1996-07-31	
-S000002311	ORF	Dubious	YDL152W			chromosome 4		4	182822	183187	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SAS10/YDL153C, a component of the small ribosomal subunit processosome
-S000034761	CDS					YDL152W		4	182822	183187	W		2011-02-03	1996-07-31	
-S000002312	ORF	Verified	YDL153C	SAS10	rRNA-processing protein SAS10|UTP3	chromosome 4	L000003317	4	183018	181186	C		2011-02-03	1996-07-31	Subunit of U3-containing Small Subunit (SSU) processome complex; involved in production of 18S rRNA and assembly of small ribosomal subunit; disrupts silencing when overproduced; mutant has increased aneuploidy tolerance; essential gene
-S000035646	CDS					YDL153C		4	183018	181186	C		2011-02-03	1996-07-31	
-S000002309	ORF	Verified	YDL150W	RPC53	DNA-directed RNA polymerase III subunit C53|C53|RPC4	chromosome 4	L000001691	4	183343	184611	W	-70	2011-02-03	1996-07-31	RNA polymerase III subunit C53
-S000034634	CDS					YDL150W		4	183343	184611	W		2011-02-03	1996-07-31	
-S000002310	ORF	Dubious	YDL151C	BUD30		chromosome 4	S000007648	4	183899	183318	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 96% of ORF overlaps the verified gene RPC53; diploid mutant displays a weak budding pattern phenotype in a systematic assay
-S000034639	CDS					YDL151C		4	183899	183318	C		2011-02-03	1996-07-31	
-S000002308	ORF	Verified	YDL149W	ATG9	autophagy protein ATG9|CVT6|APG9|CVT7|AUT9	chromosome 4	L000004759|L000004753|L000004758|S000029131	4	184925	187918	W		2011-02-03	1996-07-31	Transmembrane protein involved in forming Cvt and autophagic vesicles; cycles between the phagophore assembly site (PAS) and other cytosolic punctate structures, not found in autophagosomes; may be involved in membrane delivery to the PAS
-S000032870	CDS					YDL149W		4	184925	187918	W		2011-02-03	1996-07-31	
-S000002307	ORF	Verified	YDL148C	NOP14	snoRNA-binding rRNA-processing protein NOP14|UTP2	chromosome 4		4	190586	188154	C		2011-02-03	1996-07-31	Nucleolar protein; forms a complex with Noc4p that mediates maturation and nuclear export of 40S ribosomal subunits; also present in the small subunit processome complex, which is required for processing of pre-18S rRNA
-S000032714	CDS					YDL148C		4	190586	188154	C		2011-02-03	1996-07-31	
-S000002306	ORF	Verified	YDL147W	RPN5	proteasome regulatory particle lid subunit RPN5|NAS5	chromosome 4	L000004451|L000004305	4	190924	192261	W		2011-02-03	1996-07-31	Subunit of the CSN and 26S proteasome lid complexes; similar to mammalian p55 subunit and to another S. cerevisiae regulatory subunit, Rpn7p; Rpn5p is an essential protein; the COP9 signalosome is also known as the CSN
-S000032657	CDS					YDL147W		4	190924	192261	W		2011-02-03	1996-07-31	
-S000002305	ORF	Verified	YDL146W	LDB17		chromosome 4		4	192750	194225	W		2011-02-03	1996-07-31	Protein involved in the regulation of endocytosis; transiently recruited to actin cortical patches in a SLA1-dependent manner after late coat component assembly; GFP-fusion protein localizes to the periphery, cytoplasm, bud, and bud neck
-S000032526	CDS					YDL146W		4	192750	194225	W		2011-02-03	1996-07-31	
-S000002304	ORF	Verified	YDL145C	COP1	coatomer subunit alpha|SOO1|RET1|SEC33	chromosome 4	L000002603	4	198176	194571	C		2011-02-03	1996-07-31	Alpha subunit of COPI vesicle coatomer complex; complex surrounds transport vesicles in the early secretory pathway
-S000031516	CDS					YDL145C		4	198176	194571	C		2011-02-03	1996-07-31	
-S000002303	ORF	Verified	YDL144C			chromosome 4		4	199732	198662	C		2011-02-03	2003-09-22|1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YDL144C is not an essential gene; protein abundance increases in response to DNA replication stress
-S000031463	CDS					YDL144C		4	199732	198662	C		2011-02-03	2003-09-22|1996-07-31	
-S000002302	ORF	Verified	YDL143W	CCT4	chaperonin-containing T-complex subunit CCT4|ANC2|TCP4	chromosome 4	L000000087	4	199996	201582	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo
-S000031415	CDS					YDL143W		4	199996	201582	W		2011-02-03	1996-07-31	
-S000002301	ORF	Verified	YDL142C	CRD1	cardiolipin synthase|CLS1	chromosome 4	L000003358	4	202570	201719	C		2011-02-03	1996-07-31	Cardiolipin synthase; produces cardiolipin, which is a phospholipid of the mitochondrial inner membrane that is required for normal mitochondrial membrane potential and function and for correct integration of membrane-multispanning proteins into the mitochondrial outer membrane; required to maintain tubular mitochondrial morphology and functions in mitochondrial fusion; also required for normal vacuolar ion homeostasis
-S000030494	CDS					YDL142C		4	202570	201719	C		2011-02-03	1996-07-31	
-S000002300	ORF	Verified	YDL141W	BPL1	biotin--[acetyl-CoA-carboxylase] ligase BPL1|ACC2	chromosome 4	L000002771	4	203039	205111	W		2011-02-03	1996-07-31	Biotin:apoprotein ligase; covalently modifies proteins with the addition of biotin, required for acetyl-CoA carboxylase (Acc1p) holoenzyme formation; comparative analysis suggests that a mitochondrially targeted form may result from translation starting at a non-canonical codon upstream of the annotated start codon; human homolog HLCS can complement yeast BPL1 mutant
-S000030458	CDS					YDL141W		4	203039	205111	W		2011-02-03	1996-07-31	
-S000002299	ORF	Verified	YDL140C	RPO21	DNA-directed RNA polymerase II core subunit RPO21|B220|SUA8|RPB220|RPB1	chromosome 4	L000001744	4	210561	205360	C	-68	2011-02-03	1996-07-31	RNA polymerase II largest subunit B220; part of central core; phosphorylation of C-terminal heptapeptide repeat domain regulates association with transcription and splicing factors; similar to bacterial beta-prime
-S000030216	CDS					YDL140C		4	210561	205360	C		2011-02-03	1996-07-31	
-S000002298	ORF	Verified	YDL139C	SCM3		chromosome 4	L000003281	4	212046	211375	C		2011-02-03	2003-09-22|1996-07-31	Nonhistone component of centromeric chromatin; binds to histone H3 variant, Cse4p, and recruits it to centromeres; involved in the assembly and maintenance of Cse4-H4 at centromeres; required for kinetochore assembly and G2/M progression; may protect Cse4p from ubiquitination; homolog of mammalian HJURP
-S000037514	CDS					YDL139C		4	212046	211375	C		2011-02-03	2003-09-22|1996-07-31	
-S000118430	ARS		ARS409		ARSIV-213	chromosome 4		4	212519	212618			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178063	ARS_consensus_sequence					ARS409		4	212594	212578	C		2014-11-18	2014-11-18	
-S000002297	ORF	Verified	YDL138W	RGT2	glucose sensor	chromosome 4	L000003268	4	213351	215642	W		2011-02-03	1996-07-31	Plasma membrane high glucose sensor that regulates glucose transport; low affinity sesnor that contains 12 predicted transmembrane segments and a long C-terminal tail required for hexose transporter induction; phosphorylation of the tail by Yck1p/Yck2p facilitates binding to the HXT co-repressors, Mth1p and Std1p; RGT2 has a paralog, SNF3, that arose from the whole genome duplication
-S000037451	CDS					YDL138W		4	213351	215642	W		2011-02-03	1996-07-31	
-S000002296	ORF	Verified	YDL137W	ARF2	Arf family GTPase ARF2	chromosome 4	L000000105|L000000060	4	216529	217074	W	-64	1996-07-31	1996-07-31	ADP-ribosylation factor; GTPase of the Ras superfamily involved in regulation of coated formation vesicles in intracellular trafficking within the Golgi; ARF2 has a paralog, ARF1, that arose from the whole genome duplication; arf1 arf2 double null mutation is complemented by human ARF1, ARF4, ARF5, or ARF6
-S000036736	CDS					YDL137W		4	216529	217074	W		1996-07-31	1996-07-31	
-S000122094	five_prime_UTR_intron					YDL137W		4	216158	216489	W		2007-04-04	2007-04-04	
-S000002295	ORF	Verified	YDL136W	RPL35B	uL29|ribosomal 60S subunit protein L35B|L35B|L29|SOS2	chromosome 4	L000001986	4	217600	218367	W		1996-07-31	1996-07-31	Ribosomal 60S subunit protein L35B; homologous to mammalian ribosomal protein L35 and bacterial L29; RPL35B has a paralog, RPL35A, that arose from the whole genome duplication
-S000036637	CDS					YDL136W		4	217600	217602	W		1996-07-31	1996-07-31	
-S000036638	CDS					YDL136W		4	218008	218367	W		1996-07-31	1996-07-31	
-S000036639	intron					YDL136W		4	217603	218007	W		1996-07-31	1996-07-31	
-S000002294	ORF	Verified	YDL135C	RDI1		chromosome 4	L000002743	4	219288	218680	C		1996-07-31	1996-07-31	Rho GDP dissociation inhibitor; involved in the localization and regulation of Cdc42p and Rho1p; protein abundance increases in response to DNA replication stress
-S000036486	CDS					YDL135C		4	219288	218680	C		1996-07-31	1996-07-31	
-S000002292	ORF	Verified	YDL134C	PPH21	phosphoprotein phosphatase 2A catalytic subunit PPH21	chromosome 4	L000001472	4	220771	219662	C	-66	1996-07-31	1996-07-31	Catalytic subunit of protein phosphatase 2A (PP2A); functionally redundant with Pph22p; methylated at C terminus; forms alternate complexes with several regulatory subunits; involved in signal transduction and regulation of mitosis; forms nuclear foci upon DNA replication stress; PPH21 has a paralog, PPH22, that arose from the whole genome duplication
-S000035565	CDS					YDL134C		4	220771	219662	C		1996-07-31	1996-07-31	
-S000002293	ORF	Verified	YDL133C-A	RPL41B	eL41|ribosomal 60S subunit protein L41B|L41e|YL41|L47B|L41B|YDL134C-A|RPL47B	chromosome 4	L000001739	4	221801	221724	C		1999-07-17	1999-07-17	Ribosomal 60S subunit protein L41B; comprises only 25 amino acids; rpl41a rpl41b double null mutant is viable; homologous to mammalian ribosomal protein L41, no bacterial homolog; RPL41B has a paralog, RPL41A, that arose from the whole genome duplication
-S000030753	CDS					YDL133C-A		4	221801	221724	C		1999-07-17	1999-07-17	
-S000002291	ORF	Verified	YDL133W	SRF1		chromosome 4		4	222427	223740	W		1996-07-31	1996-07-31	Regulator of phospholipase D (Spo14p); interacts with Spo14p and regulates its catalytic activity; capable of buffering the toxicity of C16:0 platelet activating factor, a lipid that accumulates intraneuronally in Alzheimer's patients
-S000035552	CDS					YDL133W		4	222427	223740	W		1996-07-31	1996-07-31	
-S000002290	ORF	Verified	YDL132W	CDC53	cullin CDC53	chromosome 4	L000000281	4	224304	226751	W	-81	1996-07-31	1996-07-31	Cullin; structural protein of SCF complexes (which also contain Skp1p, Cdc34p, Hrt1p and an F-box protein) involved in ubiquitination; SCF promotes the G1-S transition by targeting G1 cyclins and the Cln-CDK inhibitor Sic1p for degradation; human homolog CUL1 can complement yeast cdc53 null mutant
-S000035487	CDS					YDL132W		4	224304	226751	W		1996-07-31	1996-07-31	
-S000002289	ORF	Verified	YDL131W	LYS21	homocitrate synthase LYS21	chromosome 4	L000004259	4	227393	228715	W		1996-07-31	1996-07-31	Homocitrate synthase isozyme; catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, which is the first step in the lysine biosynthesis pathway; LYS21 has a paralog, LYS20, that arose from the whole genome duplication
-S000035437	CDS					YDL131W		4	227393	228715	W		1996-07-31	1996-07-31	
-S000007232	ORF	Verified	YDL130W-A	STF1	ATPase-binding protein|AIS2	chromosome 4	L000002126	4	229171	229431	W		1999-07-17	1999-07-17	Protein involved in regulation of the mitochondrial F1F0-ATP synthase; Stf1p and Stf2p act as stabilizing factors that enhance inhibitory action of the Inh1p protein; protein abundance increases in response to DNA replication stress; STF1 has a paralog, INH1, that arose from the whole genome duplication
-S000033965	CDS					YDL130W-A		4	229171	229431	W		1999-07-17	1999-07-17	
-S000002288	ORF	Verified	YDL130W	RPP1B	ribosomal protein P1B|YP1beta|P1B|L44'|Ax|RPLA3|RPL44'	chromosome 4	L000003298|L000001734	4	229906	230527	W		1996-07-31	1996-07-31	Ribosomal protein P1 beta; component of the ribosomal stalk, which is involved in interaction of translational elongation factors with ribosome; free (non-ribosomal) P1 stimulates the phosphorylation of the eIF2 alpha subunit (Sui2p) by Gcn2p; accumulation is regulated by phosphorylation and interaction with the P2 stalk component
-S000035361	CDS					YDL130W		4	229906	230019	W		1996-07-31	1996-07-31	
-S000035362	CDS					YDL130W		4	230321	230527	W		1996-07-31	1996-07-31	
-S000035363	intron					YDL130W		4	230020	230320	W		1996-07-31	1996-07-31	
-S000002287	ORF	Verified	YDL129W			chromosome 4		4	231024	231899	W		1996-07-31	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus; YDL129W is not an essential gene; relative distribution to the nucleus increases upon DNA replication stress
-S000034421	CDS					YDL129W		4	231024	231899	W		1996-07-31	1996-07-31	
-S000002286	ORF	Verified	YDL128W	VCX1	MNR1|HUM1	chromosome 4	L000002990	4	232652	233887	W		1996-07-31	1996-07-31	Vacuolar membrane antiporter with Ca2+/H+ and K+/H+ exchange activity; involved in control of cytosolic Ca2+ and K+ concentrations; has similarity to sodium/calcium exchangers, including the bovine Na+/Ca2+,K+ antiporter
-S000034358	CDS					YDL128W		4	232652	233887	W		1996-07-31	1996-07-31	
-S000002285	ORF	Verified	YDL127W	PCL2	cyclin PCL2|CLN4	chromosome 4	L000002784	4	234927	235853	W		2004-02-11	2004-02-11|1996-07-31	Cyclin, interacts with cyclin-dependent kinase Pho85p; member of the Pcl1,2-like subfamily, involved in the regulation of polarized growth and morphogenesis and progression through the cell cycle; localizes to sites of polarized cell growth; PCL2 has a paralog, PCL9, that arose from the whole genome duplication
-S000033442	CDS					YDL127W		4	234927	235853	W		2004-02-11	2004-02-11|1996-07-31	
-S000178064	ARS		ARS409.5			chromosome 4		4	235937	236185			2014-11-18	2014-11-18	Strong autonomously replicating sequence
-S000002284	ORF	Verified	YDL126C	CDC48	AAA family ATPase CDC48	chromosome 4	L000000280	4	238664	236157	C		2004-02-11	1996-07-31	AAA ATPase; subunit of polyUb-selective segregase complex involved in ERAD, INM-associated degradation (INMAD), mitotic spindle disassembly, macroautophagy, PMN, ribosome-associated degradation, ribophagy, homotypic ER membrane fusion, SCF complex disassembly, cell wall integrity during heat stress, and telomerase regulation; mobilizes membrane-anchored transcription factors by regulated Ub/proteasome-dependent processing (RUP); human ortholog VCP complements a cdc48 mutant
-S000033307	CDS					YDL126C		4	238664	236157	C		2004-02-11	1996-07-31	
-S000002283	ORF	Verified	YDL125C	HNT1	adenosine 5'-monophosphoramidase	chromosome 4	L000003334	4	239606	239019	C		2004-02-11	1996-07-31	Adenosine 5'-monophosphoramidase; interacts physically and genetically with Kin28p, a CDK and TFIIK subunit, and genetically with CAK1; member of histidine triad (HIT) superfamily of nucleotide-binding proteins; protein abundance increases in response to DNA replication stress; human homolog HINT1 can complement yeast hnt1 mutant
-S000033248	CDS					YDL125C		4	239398	239019	C		2004-02-11	1996-07-31	
-S000033247	CDS					YDL125C		4	239606	239510	C		2004-02-11	1996-07-31	
-S000033249	intron					YDL125C		4	239509	239399	C		2004-02-11	1996-07-31	
-S000002282	ORF	Verified	YDL124W		aldo-keto reductase superfamily protein	chromosome 4		4	240259	241197	W		2004-02-11	1996-07-31	NADPH-dependent alpha-keto amide reductase; reduces aromatic alpha-keto amides, aliphatic alpha-keto esters, and aromatic alpha-keto esters; member of the aldo-keto reductase (AKR) family; protein abundance increases in response to DNA replication stress
-S000033228	CDS					YDL124W		4	240259	241197	W		2004-02-11	1996-07-31	
-S000002281	ORF	Verified	YDL123W	SNA4		chromosome 4		4	241418	241840	W		2004-02-11	1996-07-31	Protein of unknown function; localized to the vacuolar outer membrane; predicted to be palmitoylated
-S000032369	CDS					YDL123W		4	241418	241840	W		2004-02-11	1996-07-31	
-S000002280	ORF	Verified	YDL122W	UBP1	ubiquitin-specific protease UBP1	chromosome 4	L000002415	4	242552	244981	W		2004-02-11	1996-07-31	Ubiquitin-specific protease; removes ubiquitin from ubiquitinated proteins; cleaves at the C terminus of ubiquitin fusions irrespective of their size; capable of cleaving polyubiquitin chains
-S000032268	CDS					YDL122W		4	242552	244981	W		2004-02-11	1996-07-31	
-S000002279	ORF	Uncharacterized	YDL121C			chromosome 4		4	245582	245133	C		2004-02-11	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YDL121C is not an essential protein
-S000031235	CDS					YDL121C		4	245582	245133	C		2004-02-11	1996-07-31	
-S000002278	ORF	Verified	YDL120W	YFH1	ferroxidase	chromosome 4	L000003525	4	245923	246447	W		2004-02-11	1996-07-31	Mitochondrial matrix iron chaperone; oxidizes and stores iron; interacts with Isu1p to promote Fe-S cluster assembly; mutation results in multiple Fe/S-dependent enzyme deficiencies; human frataxin homolog FXN is mutated in Friedrich's ataxia; human FTL gene can complement yeast yfh1 null mutant
-S000031221	CDS					YDL120W		4	245923	246447	W		2004-02-11	1996-07-31	
-S000002276	ORF	Dubious	YDL118W			chromosome 4		4	247302	247682	W		2004-02-11	1996-07-31	Dubious open reading frame, unlikely to encode a protein; overlaps almost completely with YDL119C; mutations that would affect both YDL118W and YDL119C confer defective telomere maintenance and are synthetically sick or lethal with alpha-synuclein
-S000030066	CDS					YDL118W		4	247302	247682	W		2004-02-11	1996-07-31	
-S000002277	ORF	Verified	YDL119C	HEM25		chromosome 4		4	247612	246689	C		2004-02-11	1996-07-31	Mitochondrial glycine transporter; required for the transport of glycine into mitochondria for initiation of heme biosynthesis, with YMC1 acting as a secondary transporter; homolog of human SLC25A38, a mitochondrial glycine transporter associated with nonsyndromic autosomal recessive congenital sideroblastic anemia; human SLC25A38 can complement the heme deficiency associated with the null mutant; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
-S000030189	CDS					YDL119C		4	247612	246689	C		2004-02-11	1996-07-31	
-S000002275	ORF	Verified	YDL117W	CYK3		chromosome 4		4	248581	251238	W		2004-02-11	1996-07-31	SH3-domain protein located in the bud neck and cytokinetic actin ring; relocalizes from bud neck to nucleus upon DNA replication stress; activates the chitin synthase activity of Chs2p during cytokinesis; suppressor of growth and cytokinesis defects of chs2 phospho-mutants
-S000029965	CDS					YDL117W		4	248581	251238	W		2004-02-11	1996-07-31	
-S000002274	ORF	Verified	YDL116W	NUP84		chromosome 4	L000003137	4	251566	253746	W		2004-02-11	1996-07-31	Subunit of the Nup84p subcomplex of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport and NPC biogenesis; also plays roles in several processes that may require localization of genes or chromosomes at the nuclear periphery, including double-strand break repair, transcription and chromatin silencing; homologous to human NUP107
-S000029859	CDS					YDL116W		4	251566	253746	W		2004-02-11	1996-07-31	
-S000118431	ARS		ARS410		ARSIV-254	chromosome 4		4	253791	254039			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000178065	ARS_consensus_sequence					ARS410		4	253948	253932	C		2014-11-18	2014-11-18	
-S000007598	ORF	Dubious	YDL114W-A			chromosome 4		4	254935	255048	W		2004-02-11	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified based on homology to hemiascomycetous yeasts
-S000037144	CDS					YDL114W-A		4	254935	255048	W		2004-02-11	2001-02-26	
-S000002273	ORF	Verified	YDL115C	IWR1		chromosome 4		4	255126	253995	C		2007-07-10	2004-02-23|2007-07-10|1996-07-31|2004-01-23	RNA polymerase II transport factor, conserved from yeast to humans; also has a role in transporting RNA polymerase III into the nucleus; interacts with most of the RNAP II subunits; nucleo-cytoplasmic shuttling protein; deletion causes hypersensitivity to K1 killer toxin; protein increases in abundance and relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000123279	CDS					YDL115C		4	254974	253995	C		2007-07-10	2007-07-10	
-S000037159	CDS					YDL115C		4	255126	255045	C		2007-07-10	2004-02-23|2007-07-10|1996-07-31|2004-01-23	
-S000123278	intron					YDL115C		4	255044	254975	C		2007-07-10	2007-07-10	
-S000002272	ORF	Uncharacterized	YDL114W		short-chain dehydrogenase/reductase	chromosome 4		4	255604	256530	W		2004-02-11	1996-07-31	Putative short-chain dehydrogenase/reductase; YDL114W is not an essential gene
-S000037093	CDS					YDL114W		4	255604	256530	W		2004-02-11	1996-07-31	
-S000130171	ARS		ARS411			chromosome 4		4	256530	256633			2009-05-07	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000002271	ORF	Verified	YDL113C	ATG20	CVT20|SNX42	chromosome 4		4	258555	256633	C		2004-02-11	1996-07-31	Sorting nexin family member; required for the cytoplasm-to-vacuole targeting (Cvt) pathway and for endosomal sorting; has a Phox homology domain that binds phosphatidylinositol-3-phosphate; interacts with Snx4p; potential Cdc28p substrate
-S000036989	CDS					YDL113C		4	258555	256633	C		2004-02-11	1996-07-31	
-S000002270	ORF	Verified	YDL112W	TRM3	tRNA (guanosine(18)-2'-O)-methyltransferase	chromosome 4	L000004920	4	258915	263225	W		2004-02-11	1996-07-31	2'-O-ribose methyltransferase; catalyzes the ribose methylation of the guanosine nucleotide at position 18 of tRNAs
-S000036371	CDS					YDL112W		4	258915	263225	W		2004-02-11	1996-07-31	
-S000002269	ORF	Verified	YDL111C	RRP42	exosome non-catalytic core subunit RRP42	chromosome 4	L000003551	4	264110	263313	C		2004-02-11	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp42p (EXOSC7)
-S000036214	CDS					YDL111C		4	264110	263313	C		2004-02-11	1996-07-31	
-S000002268	ORF	Verified	YDL110C	TMA17	ADC17	chromosome 4	S000154294	4	264964	264512	C		2004-02-11	1996-07-31	ATPase dedicated chaperone that adapts proteasome assembly to stress; Tma17p is induced upon stress; interacts with Rpt6p to assist its pairing to Rpt3p and early steps in proteasome biogenesis; associates with ribosomes; heterozygous deletion demonstrated increases in chromosome instability in a rad9 deletion background; protein abundance is decreased upon intracellular iron depletion
-S000036093	CDS					YDL110C		4	264964	264512	C		2004-02-11	1996-07-31	
-S000002267	ORF	Uncharacterized	YDL109C		putative lipase	chromosome 4		4	267201	265258	C		2004-02-11	1996-07-31	Putative lipase; involved in lipid metabolism; not an essential gene; YDL109C has a paralog, ROG1, that arose from the whole genome duplication
-S000033934	CDS					YDL109C		4	267201	265258	C		2004-02-11	1996-07-31	
-S000002266	ORF	Verified	YDL108W	KIN28	TFIIH complex serine/threonine-protein kinase subunit KIN28	chromosome 4	L000000905	4	267698	268699	W		2004-02-11	1996-07-31	Serine/threonine protein kinase, subunit of transcription factor TFIIH; involved in transcription initiation at RNA polymerase II promoters; phosphorylates Ser5 residue of the PolII C-terminal domain (CTD) at gene promoters; relocalizes to the cytosol in response to hypoxia
-S000033868	CDS					YDL108W		4	267698	267725	W		2004-02-11	1996-07-31	
-S000033869	CDS					YDL108W		4	267807	268699	W		2004-02-11	1996-07-31	
-S000033870	intron					YDL108W		4	267726	267806	W		2004-02-11	1996-07-31	
-S000002265	ORF	Verified	YDL107W	MSS2		chromosome 4	L000001202	4	268921	269976	W		2004-02-11	1996-07-31	Peripherally bound inner membrane protein of the mitochondrial matrix; involved in membrane insertion of C-terminus of Cox2p, interacts genetically and physically with Cox18p
-S000033109	CDS					YDL107W		4	268921	269976	W		2004-02-11	1996-07-31	
-S000002264	ORF	Verified	YDL106C	PHO2	phoB|GRF10|BAS2	chromosome 4	L000000728	4	271901	270222	C	-58.01	2004-02-11	1996-07-31	Homeobox transcription factor; regulatory targets include genes involved in phosphate metabolism; binds cooperatively with Pho4p to the PHO5 promoter; phosphorylation of Pho2p facilitates interaction with Pho4p; relocalizes to the cytosol in response to hypoxia
-S000032983	CDS					YDL106C		4	271901	270222	C		2004-02-11	1996-07-31	
-S000002263	ORF	Verified	YDL105W	NSE4	Smc5-Smc6 complex subunit NSE4|QRI2	chromosome 4	L000002653	4	272389	273597	W		2004-02-11	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair
-S000032948	CDS					YDL105W		4	272389	273597	W		2004-02-11	1996-07-31	
-S000002262	ORF	Verified	YDL104C	QRI7	putative N(6)-L-threonylcarbamoyladenine synthase	chromosome 4	L000002654	4	274876	273653	C		2004-02-11	1996-07-31	Protein involved in threonylcarbamoyl adenosine biosynthesis; Sua5p and Qri7p are necessary and sufficient for RNA t6A modification in vitro; highly conserved mitochondrial protein; essential for t6A modification of mitochondrial tRNAs that decode ANN codons; similar to Kae1p and E. coli YgjD, both of which are also required for tRNA t6A modification; when directed to the cytoplasm, complements the essential function of Kae1p in the KEOPS complex
-S000031963	CDS					YDL104C		4	274876	273653	C		2004-02-11	1996-07-31	
-S000002261	ORF	Verified	YDL103C	QRI1	UDP-N-acetylglucosamine diphosphorylase|UAP1	chromosome 4	L000002652	4	276581	275148	C		2004-02-11	1996-07-31	UDP-N-acetylglucosamine pyrophosphorylase; catalyzes the formation of UDP-N-acetylglucosamine (UDP-GlcNAc), which is important in cell wall biosynthesis, protein N-glycosylation, and GPI anchor biosynthesis; protein abundance increases in response to DNA replication stress
-S000031867	CDS					YDL103C		4	276581	275148	C		2004-02-11	1996-07-31	
-S000002260	ORF	Verified	YDL102W	POL3	DNA-directed DNA polymerase delta POL3|CDC2|TEX1|HPR6	chromosome 4	L000000242	4	276872	280165	W	-55	2004-02-11	1996-07-31|2011-02-03	Catalytic subunit of DNA polymerase delta; required for chromosomal DNA replication during mitosis and meiosis, intragenic recombination, repair of double strand DNA breaks, and DNA replication during nucleotide excision repair (NER)
-S000031813	CDS					YDL102W		4	276872	280165	W		2004-02-11	1996-07-31|2011-02-03	
-S000002259	ORF	Verified	YDL101C	DUN1	serine/threonine protein kinase DUN1	chromosome 4	L000000531	4	281848	280307	C		2004-02-11	1996-07-31	Cell-cycle checkpoint S/T protein kinase; required for transient G2/M arrest after DNA damage, damage-induced transcription, and nuclear-to-cytoplasmic redistribution of Rnr2p-Rnr4p after genotoxic stress and iron deprivation; phosphorylates repair protein Rad55p, transcriptional repressor Sml1p, superoxide dismutase, and ribonucleotide reductase inhibitors Crt1p and Dif1p; functions in the Mec1p pathway to regulate dNTP pools and telomere length; postreplicative repair role
-S000031605	CDS					YDL101C		4	281848	280307	C		2004-02-11	1996-07-31	
-S000002258	ORF	Verified	YDL100C	GET3	guanine nucleotide exchange factor GET3|ARR4	chromosome 4		4	283176	282112	C		2004-02-11	1996-07-31	Guanine nucleotide exchange factor for Gpa1p; amplifies G protein signaling; functions as a chaperone under ATP-depleted oxidative stress conditions; subunit of GET complex, involved in ATP dependent Golgi to ER trafficking and insertion of tail-anchored (TA) proteins into ER membrane under non-stress conditions; binds as dimer to transmembrane domain (TMD) cargo, shielding TMDs from aqueous solvent; protein abundance increases under DNA replication stress
-S000030758	CDS					YDL100C		4	283176	282112	C		2004-02-11	1996-07-31	
-S000002257	ORF	Verified	YDL099W	BUG1		chromosome 4		4	283419	284444	W		2004-02-11	1996-07-31	Cis-golgi localized protein involved in ER to Golgi transport; forms a complex with the mammalian GRASP65 homolog, Grh1p; mutants are compromised for the fusion of ER-derived vesicles with Golgi membranes
-S000034178	CDS					YDL099W		4	283419	284444	W		2004-02-11	1996-07-31	
-S000002256	ORF	Verified	YDL098C	SNU23	U4/U6-U5 snRNP complex subunit SNU23	chromosome 4		4	285165	284581	C		2004-02-11	1996-07-31	Component of the U4/U6.U5 snRNP complex; involved in mRNA splicing via spliceosome
-S000034033	CDS					YDL098C		4	285165	284581	C		2004-02-11	1996-07-31	
-S000002255	ORF	Verified	YDL097C	RPN6	proteasome regulatory particle lid subunit RPN6|NAS4	chromosome 4	L000004306	4	286695	285391	C		2004-02-11	1996-07-31	Essential, non-ATPase regulatory subunit of the 26S proteasome lid; required for the assembly and activity of the 26S proteasome; the human homolog (S9 protein) partially rescues Rpn6p depletion; protein abundance increases in response to DNA replication stress
-S000033908	CDS					YDL097C		4	286695	285391	C		2004-02-11	1996-07-31	
-S000002253	ORF	Verified	YDL095W	PMT1	dolichyl-phosphate-mannose-protein mannosyltransferase PMT1	chromosome 4	L000001458	4	287059	289512	W		2004-02-11	1996-07-31	Protein O-mannosyltransferase of the ER membrane; transfers mannose from dolichyl phosphate-D-mannose to protein serine and threonine residues; 1 of 7 related proteins involved in O-glycosylation which is essential for cell wall rigidity; involved in ER quality control; amino terminus faces cytoplasm, carboxyl terminus faces ER lumen
-S000033095	CDS					YDL095W		4	287059	289512	W		2004-02-11	1996-07-31	
-S000002254	ORF	Dubious	YDL096C	OPI6		chromosome 4		4	287324	286998	C		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene PMT1/YDL095W; YDL096C is not essential
-S000033140	CDS					YDL096C		4	287324	286998	C		2004-02-11	1996-07-31	
-S000002251	ORF	Verified	YDL093W	PMT5	putative dolichyl-phosphate-mannose-protein mannosyltransferase PMT5	chromosome 4	L000003164	4	289909	292140	W		2004-02-11	1996-07-31	Protein O-mannosyltransferase; transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues; acts in a complex with Pmt3p, can instead interact with Pmt2p in some conditions; target for new antifungals
-S000032094	CDS					YDL093W		4	289909	292140	W		2004-02-11	1996-07-31	
-S000002252	ORF	Dubious	YDL094C			chromosome 4		4	290081	289572	C		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verfied gene PMT5/YDL093W; YDL094C is not essential
-S000032962	CDS					YDL094C		4	290081	289572	C		2004-02-11	1996-07-31	
-S000002250	ORF	Verified	YDL092W	SRP14	RNA-binding signal recognition particle subunit SRP14	chromosome 4	L000002061	4	292781	293221	W		2004-02-11	1996-07-31	Signal recognition particle (SRP) subunit; interacts with the RNA component of SRP to form the Alu domain, which is the region of SRP responsible for arrest of nascent chain elongation during membrane targeting; homolog of mammalian SRP14
-S000031975	CDS					YDL092W		4	292781	293221	W		2004-02-11	1996-07-31	
-S000002249	ORF	Verified	YDL091C	UBX3		chromosome 4		4	294759	293392	C		2004-02-11	1996-07-31	Clathrin-coated vesicle component, regulator of endocytosis; copurifies with the DSC ubiquitin ligase complex; UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p; required for efficient clathrin-mediated endocytosis; ortholog of fission yeast Ucp10
-S000030889	CDS					YDL091C		4	294759	293392	C		2004-02-11	1996-07-31	
-S000002248	ORF	Verified	YDL090C	RAM1	protein farnesyltransferase|STE16|SGP2|SCG2|FUS8|DPR1	chromosome 4	L000001579	4	296329	295034	C	-33	2004-02-11	1996-07-31	Beta subunit of the CAAX farnesyltransferase (FTase); this complex prenylates the a-factor mating pheromone and Ras proteins; required for the membrane localization of Ras proteins and a-factor; homolog of the mammalian FTase beta subunit
-S000030792	CDS					YDL090C		4	296329	295034	C		2004-02-11	1996-07-31	
-S000002247	ORF	Verified	YDL089W	NUR1		chromosome 4		4	296820	298274	W		2004-02-11	1996-07-31	Protein involved in regulation of mitotic exit; dephosphorylation target of Cdc14p in anaphase, which promotes timely rDNA segregation and allows mitotic progression; interacts with Csm1p, Lrs4p; required for rDNA repeat stability; null mutant causes increase in unequal sister-chromatid exchange; GFP-fusion protein localizes to the nuclear periphery, possible Cdc28p substrate
-S000037902	CDS					YDL089W		4	296820	298274	W		2004-02-11	1996-07-31	
-S000002246	ORF	Verified	YDL088C	ASM4	FG-nucleoporin ASM4|NUP59	chromosome 4	L000002642	4	300003	298417	C		2004-02-11	1996-07-31	FG-nucleoporin component of central core of nuclear pore complex (NPC); contributes directly to nucleocytoplasmic transport; induces membrane tubulation, which may contribute to nuclear pore assembly; ASM4 has a paralog, NUP53, that arose from the whole genome duplication
-S000037765	CDS					YDL088C		4	300003	298417	C		2004-02-11	1996-07-31	
-S000002245	ORF	Verified	YDL087C	LUC7	EPE1|EXM2	chromosome 4	L000003348	4	300999	300214	C		2004-02-11	1996-07-31	Essential protein associated with the U1 snRNP complex; splicing factor involved in recognition of 5' splice site; contains two zinc finger motifs; N-terminal zinc finger binds pre-mRNA; relocalizes to the cytosol in response to hypoxia
-S000037703	CDS					YDL087C		4	300999	300214	C		2004-02-11	1996-07-31	
-S000002244	ORF	Uncharacterized	YDL086W		carboxymethylenebutenolidase	chromosome 4		4	301413	302234	W		2004-02-11	1996-07-31	Putative carboxymethylenebutenolidase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YDL086W is not an essential gene
-S000036968	CDS					YDL086W		4	301413	302234	W		2004-02-11	1996-07-31	
-S000028611	ORF	Dubious	YDL086C-A			chromosome 4		4	302089	301655	C		2004-02-11	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps uncharacterized ORF YDL086W; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
-S000031442	CDS					YDL086C-A		4	302089	301655	C		2004-02-11	2003-07-29	
-S000007588	ORF	Uncharacterized	YDL085C-A			chromosome 4		4	302670	302464	C		2004-02-11	2001-01-30	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
-S000037099	CDS					YDL085C-A		4	302670	302464	C		2004-02-11	2001-01-30	
-S000002243	ORF	Verified	YDL085W	NDE2	NADH-ubiquinone reductase (H(+)-translocating) NDE2|NDH2	chromosome 4		4	303211	304848	W		2004-02-11	1996-07-31	Mitochondrial external NADH dehydrogenase; catalyzes the oxidation of cytosolic NADH; Nde1p and Nde2p are involved in providing the cytosolic NADH to the mitochondrial respiratory chain; NDE2 has a paralog, NDE1, that arose from the whole genome duplication
-S000036900	CDS					YDL085W		4	303211	304848	W		2004-02-11	1996-07-31	
-S000002242	ORF	Verified	YDL084W	SUB2	ATP-dependent RNA helicase SUB2	chromosome 4	L000004574	4	305237	306577	W		2004-02-11	1996-07-31	Component of the TREX complex required for nuclear mRNA export; member of the DEAD-box RNA helicase superfamily and is involved in early and late steps of spliceosome assembly; homolog of the human splicing factor hUAP56; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000036856	CDS					YDL084W		4	305237	306577	W		2004-02-11	1996-07-31	
-S000002241	ORF	Verified	YDL083C	RPS16B	uS9|ribosomal 40S subunit protein S16B|S9|rp61R|S16B	chromosome 4	L000004478	4	307789	306926	C		2004-02-11	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S16 and bacterial S9; RPS16B has a paralog, RPS16A, that arose from the whole genome duplication
-S000035913	CDS					YDL083C		4	307333	306926	C		2004-02-11	1996-07-31	
-S000035912	CDS					YDL083C		4	307789	307766	C		2004-02-11	1996-07-31	
-S000035914	intron					YDL083C		4	307765	307334	C		2004-02-11	1996-07-31	
-S000002240	ORF	Verified	YDL082W	RPL13A	eL13|ribosomal 60S subunit protein L13A|L13e|L13A	chromosome 4	L000004454	4	308424	309388	W		2004-02-11	1996-07-31	Ribosomal 60S subunit protein L13A; not essential for viability; homologous to mammalian ribosomal protein L13, no bacterial homolog; RPL13A has a paralog, RPL13B, that arose from the whole genome duplication
-S000035860	CDS					YDL082W		4	308424	308427	W		2004-02-11	1996-07-31	
-S000035861	CDS					YDL082W		4	308793	309388	W		2004-02-11	1996-07-31	
-S000035862	intron					YDL082W		4	308428	308792	W		2004-02-11	1996-07-31	
-S000002239	ORF	Verified	YDL081C	RPP1A	P1A|ribosomal protein P1A|RPLA1	chromosome 4	L000002627	4	310122	309802	C		2004-02-11	1996-07-31	Ribosomal stalk protein P1 alpha; involved in the interaction between translational elongation factors and the ribosome; free (non-ribosomal) P1 stimulates the phosphorylation of the eIF2 alpha subunit (Sui2p) by Gcn2p; accumulation of P1 in the cytoplasm is regulated by phosphorylation and interaction with the P2 stalk component
-S000035711	CDS					YDL081C		4	310122	309802	C		2004-02-11	1996-07-31	
-S000002238	ORF	Verified	YDL080C	THI3	branched-chain-2-oxoacid decarboxylase THI3|KID1	chromosome 4	L000003499	4	312471	310642	C		2004-02-11	1996-07-31	Regulatory protein that binds Pdc2p and Thi2p transcription factors; activates thiamine biosynthesis transcription factors Pdc2p and Thi2p by binding to them, but releases and de-activates them upon binding to thiamine pyrophosphate (TPP), the end product of the pathway; has similarity to decarboxylases but enzymatic activity is not detected
-S000035644	CDS					YDL080C		4	312471	310642	C		2004-02-11	1996-07-31	
-S000002237	ORF	Verified	YDL079C	MRK1	putative serine/threonine protein kinase MRK1	chromosome 4	L000001151	4	314748	312951	C		2004-02-11	1996-07-31	Glycogen synthase kinase 3 (GSK-3) homolog; one of four GSK-3 homologs in S. cerevisiae that function to activate Msn2p-dependent transcription of stress responsive genes and that function in protein degradation; MRK1 has a paralog, RIM11, that arose from the whole genome duplication
-S000033718	CDS					YDL079C		4	314044	312951	C		2004-02-11	1996-07-31	
-S000033717	CDS					YDL079C		4	314748	314337	C		2004-02-11	1996-07-31	
-S000033719	intron					YDL079C		4	314336	314045	C		2004-02-11	1996-07-31	
-S000002236	ORF	Verified	YDL078C	MDH3	malate dehydrogenase MDH3	chromosome 4	L000001047	4	316388	315357	C		2004-02-11	1996-07-31	Peroxisomal malate dehydrogenase; catalyzes interconversion of malate and oxaloacetate; involved in the glyoxylate cycle
-S000033624	CDS					YDL078C		4	316388	315357	C		2004-02-11	1996-07-31	
-S000130172	ARS		ARS412			chromosome 4		4	316771	317230			2014-11-18	2014-11-18|2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000178066	ARS_consensus_sequence					ARS412		4	316862	316878	W		2014-11-18	2014-11-18	
-S000002235	ORF	Verified	YDL077C	VAM6	VPS39|VPL22|VPL18|CVT4	chromosome 4	L000003935	4	320120	316971	C		2004-02-11	1996-07-31	Guanine nucleotide exchange factor for the GTPase Gtr1p; subunit of the HOPS endocytic tethering complex; vacuole membrane protein; functions as a Rab GTPase effector, interacting with both GTP- and GDP-bound conformations of Ypt7p; facilitates tethering and promotes membrane fusion events at the late endosome and vacuole; required for both membrane and protein trafficking; component of vacuole-mitochondrion contacts (vCLAMPs) important for lipid transfer between organelles
-S000033526	CDS					YDL077C		4	320120	316971	C		2004-02-11	1996-07-31	
-S000002234	ORF	Verified	YDL076C	RXT3		chromosome 4		4	321552	320668	C		2004-02-11	1996-07-31	Component of the Rpd3L histone deacetylase complex; involved in histone deacetylation; protein abundance increases in response to DNA replication stress
-S000032814	CDS					YDL076C		4	321552	320668	C		2004-02-11	1996-07-31	
-S000002233	ORF	Verified	YDL075W	RPL31A	eL31|ribosomal 60S subunit protein L31A|L31e|YL28|L34A|L31A|RPL34	chromosome 4	L000003297|L000001727	4	322226	322988	W		2004-02-11	1996-07-31	Ribosomal 60S subunit protein L31A; associates with karyopherin Sxm1p; loss of both Rpl31p and Rpl39p confers lethality; homologous to mammalian ribosomal protein L31, no bacterial homolog; RPL31A has a paralog, RPL31B, that arose from the whole genome duplication
-S000032744	CDS					YDL075W		4	322226	322282	W		2004-02-11	1996-07-31	
-S000032745	CDS					YDL075W		4	322704	322988	W		2004-02-11	1996-07-31	
-S000032746	intron					YDL075W		4	322283	322703	W		2004-02-11	1996-07-31	
-S000006454	snoRNA_gene		snR63	SNR63		chromosome 4	L000004532	4	323471	323217	C		2004-02-11	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A2256
-S000030842	noncoding_exon					snR63		4	323471	323217	C		2004-02-11	2000-05-19	
-S000002232	ORF	Verified	YDL074C	BRE1	E3 ubiquitin-protein ligase BRE1	chromosome 4		4	326149	324047	C		2004-02-11	1996-07-31	E3 ubiquitin ligase; forms heterodimer with Rad6p to regulate K63 polyubiquitination in response to oxidative stress and to monoubiquinate histone H2B-K123, which is required for the subsequent methylation of histone H3-K4 and H3-K79; required for DSBR, transcription, silencing, and checkpoint control; interacts with RNA-binding protein Npl3p, linking histone ubiquitination to mRNA processing; Bre1p-dependent histone ubiquitination promotes pre-mRNA splicing
-S000032572	CDS					YDL074C		4	326149	324047	C		2004-02-11	1996-07-31	
-S000002231	ORF	Verified	YDL073W	AHK1		chromosome 4		4	326613	329567	W		2004-02-11	1996-07-31	Scaffold protein in the HKR1 sub-branch of the Hog1p-signaling pathway; physically interacts with the cytoplasmic domain of Hkr1p, and with Sho1p, Pbs2p, and Ste11p; prevents cross-talk signaling from Hkr1p of the osmotic stress MAPK cascade to the Kss1p MAPK cascade; non-essential gene
-S000032520	CDS					YDL073W		4	326613	329567	W		2004-02-11	1996-07-31	
-S000118432	ARS		ARS413		ARSIV-330	chromosome 4		4	329566	329814			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000178067	ARS_consensus_sequence					ARS413		4	329671	329687	W		2014-11-18	2014-11-18	
-S000002230	ORF	Verified	YDL072C	YET3		chromosome 4		4	330447	329836	C		2004-02-11	1996-07-31	Protein of unknown function; YET3 null mutant decreases the level of secreted invertase; homolog of human BAP31 protein; protein abundance increases in response to DNA replication stress
-S000031514	CDS					YDL072C		4	330447	329836	C		2004-02-11	1996-07-31	
-S000002228	ORF	Verified	YDL070W	BDF2		chromosome 4	L000004431	4	331024	332940	W		2011-02-03	1996-07-31	Protein involved in transcription initiation; acts at TATA-containing promoters; associates with the basal transcription factor TFIID; contains two bromodomains; corresponds to the C-terminal region of mammalian TAF1; redundant with Bdf1p; protein abundance increases in response to DNA replication stress; BDF2 has a paralog, BDF1, that arose from the whole genome duplication
-S000031410	CDS					YDL070W		4	331024	332940	W		2011-02-03	1996-07-31	
-S000002229	ORF	Dubious	YDL071C		IRC1	chromosome 4		4	331040	330666	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF BDF2/YDL070W
-S000031459	CDS					YDL071C		4	331040	330666	C		2011-02-03	1996-07-31	
-S000002226	ORF	Dubious	YDL068W			chromosome 4		4	333500	333829	W		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030510	CDS					YDL068W		4	333500	333829	W		2004-02-11	1996-07-31	
-S000002227	ORF	Verified	YDL069C	CBS1		chromosome 4	L000000230	4	333810	333121	C		2004-02-11	2003-09-22|1996-07-31	Mitochondrial translational activator of the COB mRNA; membrane protein that interacts with translating ribosomes, acts on the COB mRNA 5'-untranslated leader
-S000030553	CDS					YDL069C		4	333810	333121	C		2004-02-11	2003-09-22|1996-07-31	
-S000002225	ORF	Verified	YDL067C	COX9	cytochrome c oxidase subunit VIIa	chromosome 4	L000000393	4	334396	334217	C		2004-02-11	1996-07-31	Subunit VIIa of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain
-S000037632	CDS					YDL067C		4	334396	334217	C		2004-02-11	1996-07-31	
-S000002224	ORF	Verified	YDL066W	IDP1	isocitrate dehydrogenase (NADP(+)) IDP1	chromosome 4	L000000852	4	334835	336121	W		2004-02-11	1996-07-31	Mitochondrial NADP-specific isocitrate dehydrogenase; catalyzes the oxidation of isocitrate to alpha-ketoglutarate; not required for mitochondrial respiration and may function to divert alpha-ketoglutarate to biosynthetic processes
-S000037594	CDS					YDL066W		4	334835	336121	W		2004-02-11	1996-07-31	
-S000002223	ORF	Verified	YDL065C	PEX19	PAS12	chromosome 4	L000003965	4	337277	336249	C		2006-04-12	1996-07-31|2006-04-12	Chaperone and import receptor for newly-synthesized class I PMPs; binds peroxisomal membrane proteins (PMPs) in the cytoplasm and delivers them to the peroxisome for subsequent insertion into the peroxisomal membrane; interacts with Myo2p and contributes to peroxisome partitioning
-S000037387	CDS					YDL065C		4	337277	336249	C		2006-04-12	1996-07-31|2006-04-12	
-S000002222	ORF	Verified	YDL064W	UBC9	E2 SUMO-conjugating protein UBC9	chromosome 4	L000002636	4	337487	338070	W		2004-02-11	1996-07-31	SUMO-conjugating enzyme involved in the Smt3p conjugation pathway; nuclear protein required for S- and M-phase cyclin degradation and mitotic control; involved in proteolysis mediated by the anaphase-promoting complex cyclosome (APCC)
-S000036730	CDS					YDL064W		4	337487	337524	W		2004-02-11	1996-07-31	
-S000036731	CDS					YDL064W		4	337635	338070	W		2004-02-11	1996-07-31	
-S000036732	intron					YDL064W		4	337525	337634	W		2004-02-11	1996-07-31	
-S000002220	ORF	Dubious	YDL062W			chromosome 4		4	339857	340282	W		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized ORF YDL063C; YDL062W is not essential
-S000036515	CDS					YDL062W		4	339857	340282	W		2004-02-11	1996-07-31	
-S000002221	ORF	Verified	YDL063C	SYO1		chromosome 4		4	340134	338272	C		2004-02-11	1996-07-31	Transport adaptor or symportin; facilitates synchronized nuclear coimport of the two 5S-rRNA binding proteins Rpl5p and Rpl11p; binds to nascent Rpl5p during translation; required for biogenesis of the large ribosomal subunit; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
-S000036559	CDS					YDL063C		4	340134	338272	C		2004-02-11	1996-07-31	
-S000002219	ORF	Verified	YDL061C	RPS29B	uS14|ribosomal 40S subunit protein S29B|S14|YS29|S36B|S29B|YS29B	chromosome 4	L000002550	4	340798	340628	C		2004-02-11	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S29 and bacterial S14; RPS29B has a paralog, RPS29A, that arose from the whole genome duplication
-S000035564	CDS					YDL061C		4	340798	340628	C		2004-02-11	1996-07-31	
-S000122093	five_prime_UTR_intron					YDL061C		4	341219	340811	C		2007-04-04	2007-04-04	
-S000002218	ORF	Verified	YDL060W	TSR1		chromosome 4		4	341619	343985	W		2004-02-11	1996-07-31	Protein required for processing of 20S pre-rRNA in the cytoplasm; associates with pre-40S ribosomal particles; inhibits the premature association of 60S subunits with assembling 40S subunits in the cytoplasm; similar to Bms1p; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000035549	CDS					YDL060W		4	341619	343985	W		2004-02-11	1996-07-31	
-S000002217	ORF	Verified	YDL059C	RAD59		chromosome 4	L000003987	4	344953	344237	C		2004-02-11	1996-07-31	Protein involved DNA double-strand break repair; repairs breaks in DNA during vegetative growth via recombination and single-strand annealing; anneals complementary single-stranded DNA; forms nuclear foci upon DNA replication stress; required for loading of Rad52p to DSBs; regulates replication fork progression in DNA ligase I-deficient cells; paralog of Rad52p
-S000035590	CDS					YDL059C		4	344953	344237	C		2004-02-11	1996-07-31	
-S000002216	ORF	Verified	YDL058W	USO1	INT1	chromosome 4	L000002446	4	345665	351037	W		2004-02-11	1996-07-31	Essential protein involved in vesicle-mediated ER to Golgi transport; binds membranes and functions during vesicle docking to the Golgi; required for assembly of the ER-to-Golgi SNARE complex
-S000035550	CDS					YDL058W		4	345665	351037	W		2004-02-11	1996-07-31	
-S000002215	ORF	Uncharacterized	YDL057W			chromosome 4		4	351434	352420	W		2004-02-11	1996-07-31	Putative protein of unknown function; YDL057W is not an essential gene
-S000034554	CDS					YDL057W		4	351434	352420	W		2004-02-11	1996-07-31	
-S000002214	ORF	Verified	YDL056W	MBP1	transcription factor MBP1	chromosome 4	L000001032	4	352877	355378	W		2004-02-11	1996-07-31	Transcription factor; involved in regulation of cell cycle progression from G1 to S phase, forms a complex with Swi6p that binds to MluI cell cycle box regulatory element in promoters of DNA synthesis genes
-S000034419	CDS					YDL056W		4	352877	355378	W		2004-02-11	1996-07-31	
-S000002213	ORF	Verified	YDL055C	PSA1	mannose-1-phosphate guanylyltransferase|SRB1|VIG9|MPG1	chromosome 4	L000002625|L000002860|L000002049	4	356759	355674	C		2004-02-11	1996-07-31	GDP-mannose pyrophosphorylase (mannose-1-phosphate guanyltransferase); synthesizes GDP-mannose from GTP and mannose-1-phosphate in cell wall biosynthesis; required for normal cell wall structure
-S000034293	CDS					YDL055C		4	356759	355674	C		2004-02-11	1996-07-31	
-S000006629	tRNA_gene		tK(UUU)D			chromosome 4	L000003762|S000007415	4	359577	359672	W		2004-02-11	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034182	intron					tK(UUU)D		4	359614	359636	W		2004-02-11	2000-05-19	
-S000034180	noncoding_exon					tK(UUU)D		4	359577	359613	W		2004-02-11	2000-05-19	
-S000034181	noncoding_exon					tK(UUU)D		4	359637	359672	W		2004-02-11	2000-05-19	
-S000002212	ORF	Verified	YDL054C	MCH1		chromosome 4		4	361285	359825	C		2004-02-11	1996-07-31	Protein with similarity to mammalian monocarboxylate permeases; monocarboxylate permeases are involved in transport of monocarboxylic acids across the plasma membrane but mutant is not deficient in monocarboxylate transport
-S000033372	CDS					YDL054C		4	361285	359825	C		2004-02-11	1996-07-31	
-S000002211	ORF	Verified	YDL053C	PBP4		chromosome 4		4	362256	361699	C		2004-02-11	1996-07-31	Pbp1p binding protein; interacts strongly with Pab1p-binding protein 1 (Pbp1p) in the yeast two-hybrid system; also interacts with Lsm12p in a copurification assay; relative distribution to the nucleus increases upon DNA replication stress
-S000033305	CDS					YDL053C		4	362256	361699	C		2004-02-11	1996-07-31	
-S000002210	ORF	Verified	YDL052C	SLC1	1-acylglycerol-3-phosphate O-acyltransferase SLC1	chromosome 4	L000001914	4	363583	362672	C		2004-02-11	1996-07-31	1-acyl-sn-glycerol-3-phosphate acyltransferase; catalyzes the acylation of lysophosphatidic acid to form phosphatidic acid, a key intermediate in lipid metabolism; enzymatic activity detected in lipid particles and microsomes
-S000033244	CDS					YDL052C		4	363583	362672	C		2004-02-11	1996-07-31	
-S000002209	ORF	Verified	YDL051W	LHP1	YLA1|LAH1	chromosome 4	L000002518	4	363952	364779	W		2004-02-11	1996-07-31	RNA binding protein required for maturation of tRNA and U6 snRNA; acts as a molecular chaperone for RNAs transcribed by polymerase III; homologous to human La (SS-B) autoantigen
-S000033227	CDS					YDL051W		4	363952	364779	W		2004-02-11	1996-07-31	
-S000002208	ORF	Dubious	YDL050C			chromosome 4		4	364817	364446	C		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032313	CDS					YDL050C		4	364817	364446	C		2004-02-11	1996-07-31	
-S000002207	ORF	Verified	YDL049C	KNH1		chromosome 4	L000002837	4	365874	365068	C		2004-02-11	1996-07-31	Protein with similarity to Kre9p; Kre9p is involved in cell wall beta 1,6-glucan synthesis; overproduction suppresses growth defects of a kre9 null mutant; required for propionic acid resistance
-S000031388	CDS					YDL049C		4	365874	365068	C		2004-02-11	1996-07-31	
-S000002206	ORF	Verified	YDL048C	STP4		chromosome 4	L000003372	4	368211	366739	C		2004-02-11	1999-02-09|1996-07-31	Protein containing a Kruppel-type zinc-finger domain; similar to Stp1p, Stp2p; predicted transcription factor; relative distribution to the nucleus increases upon DNA replication stress; STP4 has a paralog, STP3, that arose from the whole genome duplication
-S000031282	CDS					YDL048C		4	368211	366739	C		2004-02-11	1999-02-09|1996-07-31	
-S000002205	ORF	Verified	YDL047W	SIT4	type 2A-related serine/threonine-protein phosphatase SIT4|PPH1	chromosome 4	L000001901	4	369771	370706	W		2011-02-03	1996-07-31	Ceramide-activated, type 2A-related serine-threonine phosphatase; functions in G1/S transition of mitotic cycle; controls lifespan, mitochondrial function, cell cycle progression by regulating HXK2 phosphorylation; regulator of COPII coat dephosphorylation; required for ER to Golgi traffic; interacts with Hrr25p kinase; cytoplasmic and nuclear protein that modulates functions mediated by Pkc1p including cell wall and actin cytoskeleton organization; similar to human PP6
-S000031218	CDS					YDL047W		4	369771	370706	W		2011-02-03	1996-07-31	
-S000002204	ORF	Verified	YDL046W	NPC2	sterol transporter	chromosome 4	S000028462	4	371240	371761	W		2011-02-03	1996-07-31	Sterol transport protein and functional homolog of human NPC2/He1; human NPC2 is a cholesterol-binding protein whose deficiency causes Niemann-Pick type C2 disease involving retention of cholesterol in lysosomes; yeast NPC2 can complement mutations in human NPC2
-S000031100	CDS					YDL046W		4	371240	371761	W		2011-02-03	1996-07-31	
-S000006430	ORF	Verified	YDL045W-A	MRP10	mitochondrial 37S ribosomal protein YmS-T|YmS-T	chromosome 4	L000003390	4	372248	372535	W		2011-02-03	1999-07-17	Mitochondrial ribosomal protein of the small subunit; contains twin cysteine-x9-cysteine motifs; oxidized by Mia40p during import into mitochondria
-S000032810	CDS					YDL045W-A		4	372248	372535	W		2011-02-03	1999-07-17	
-S000002203	ORF	Verified	YDL045C	FAD1	FMN adenylyltransferase	chromosome 4	L000000598	4	373608	372688	C		2011-02-03	1996-07-31	Flavin adenine dinucleotide (FAD) synthetase; performs the second step in synthesis of FAD from riboflavin; mutation is functionally complemented by human FLAD1
-S000030018	CDS					YDL045C		4	373608	372688	C		2011-02-03	1996-07-31	
-S000002202	ORF	Verified	YDL044C	MTF2	NAM1	chromosome 4	L000001212	4	375289	373967	C	-17.93	2011-02-03	1996-07-31	Mitochondrial protein that interacts with mitochondrial RNA polymerase; interacts with an N-terminal region of mitochondrial RNA polymerase (Rpo41p) and couples RNA processing and translation to transcription
-S000029908	CDS					YDL044C		4	375289	373967	C		2011-02-03	1996-07-31	
-S000002201	ORF	Verified	YDL043C	PRP11	RNA11	chromosome 4	L000001502	4	376480	375680	C	-17.13	2011-02-03	1996-07-31	Subunit of the SF3a splicing factor complex; required for spliceosome assembly
-S000037237	CDS					YDL043C		4	376480	375680	C		2011-02-03	1996-07-31	
-S000002199	ORF	Dubious	YDL041W			chromosome 4		4	378102	378455	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene SIR2/YDL042C
-S000037091	CDS					YDL041W		4	378102	378455	W		2011-02-03	1996-07-31	
-S000002200	ORF	Verified	YDL042C	SIR2	NAD-dependent histone deacetylase SIR2|MAR1	chromosome 4	L000001895	4	378445	376757	C	-16.03	2011-02-03	1996-07-31	Conserved NAD+ dependent histone deacetylase of the Sirtuin family; deacetylation targets are primarily nuclear proteins; required for telomere hypercluster formation in quiescent yeast cells; involved in regulation of lifespan; plays roles in silencing at HML, HMR, telomeres, and rDNA; negatively regulates initiation of DNA replication; functions as regulator of autophagy like mammalian homolog SIRT1, and also of mitophagy
-S000037155	CDS					YDL042C		4	378445	376757	C		2011-02-03	1996-07-31	
-S000002198	ORF	Verified	YDL040C	NAT1	peptide alpha-N-acetyltransferase complex A subunit NAT1|NAA15|AAA1	chromosome 4	L000000002	4	381438	378874	C	-14.93	2011-02-03	1996-07-31	Subunit of protein N-terminal acetyltransferase NatA; NatA comprised of Nat1p, Ard1p, and Nat5p; N-terminally acetylates many proteins to influence multiple processes such as cell cycle progression, heat-shock resistance, mating, sporulation, telomeric silencing and early stages of mitophagy; orthologous to human NAA15; expression of both human NAA10 and NAA15 functionally complements ard1 nat1 double mutant although single mutations are not complemented by their orthologs
-S000036986	CDS					YDL040C		4	381438	378874	C		2011-02-03	1996-07-31	
-S000002197	ORF	Verified	YDL039C	PRM7	pheromone-regulated protein PRM7|YDL038C	chromosome 4		4	384081	381985	C		2011-02-03	1996-07-31|2008-06-05	Pheromone-regulated protein; predicted to have one transmembrane segment; promoter contains Gcn4p binding elements; in W303 strain one continuous open reading frame comprising of YDL037C, the intergenic region and YDL039C encodes the IMI1
-S000035141	CDS					YDL039C		4	384081	381985	C		2011-02-03	1996-07-31|2008-06-05	
-S000002195	ORF	Verified	YDL037C	BSC1		chromosome 4		4	385587	384601	C		2011-02-03	1996-07-31	Protein of unconfirmed function; similar to cell surface flocculin Flo11p; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; in W303 strain one continuous open reading frame comprising of YDL037C, the intergenic region and YDL039C encodes the gene IMI1
-S000034059	CDS					YDL037C		4	385587	384601	C		2011-02-03	1996-07-31	
-S000002194	ORF	Verified	YDL036C	PUS9	pseudouridine synthase PUS9	chromosome 4		4	388901	387513	C		2011-02-03	1996-07-31	Mitochondrial tRNA:pseudouridine synthase; catalyzes the formation of pseudouridine at position 32 in mitochondrial tRNAs; contains an N-terminal mitochondrial targeting sequence; PUS9 has a paralog, RIB2, that arose from the whole genome duplication
-S000033903	CDS					YDL036C		4	388901	387513	C		2011-02-03	1996-07-31	
-S000002192	ORF	Dubious	YDL034W			chromosome 4		4	391783	392127	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps with verified gene GPR1/YDL035C; YDL034W is not an essential gene
-S000033108	CDS					YDL034W		4	391783	392127	W		2011-02-03	1996-07-31	
-S000002193	ORF	Verified	YDL035C	GPR1		chromosome 4	L000004298	4	392057	389172	C		2011-02-03	1996-07-31	Plasma membrane G protein coupled receptor (GPCR); interacts with the heterotrimeric G protein alpha subunit, Gpa2p, and with Plc1p; sensor that integrates nutritional signals with the modulation of cell fate via PKA and cAMP synthesis
-S000033783	CDS					YDL035C		4	392057	389172	C		2011-02-03	1996-07-31	
-S000002190	ORF	Dubious	YDL032W			chromosome 4		4	393690	394001	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene SLM3/YDL033C; YDL032W is not an essential gene
-S000032947	CDS					YDL032W		4	393690	394001	W		2011-02-03	1996-07-31	
-S000002191	ORF	Verified	YDL033C	SLM3	tRNA-5-taurinomethyluridine 2-sulfurtransferase|MTU1|MTO2	chromosome 4		4	393912	392659	C		2011-02-03	1996-07-31	tRNA-specific 2-thiouridylase; responsible for 2-thiolation of the wobble base of mitochondrial tRNAs; human homolog TRMU is implicated in myoclonus epilepsy associated with ragged red fibers (MERRF), and can complement yeast null mutant
-S000032981	CDS					YDL033C		4	393912	392659	C		2011-02-03	1996-07-31	
-S000002189	ORF	Verified	YDL031W	DBP10	putative ATP-dependent RNA helicase DBP10	chromosome 4	L000004557	4	394217	397204	W		2011-02-03	1996-07-31|2011-02-03	Putative ATP-dependent RNA helicase of the DEAD-box protein family; constituent of 66S pre-ribosomal particles; essential protein involved in ribosome biogenesis
-S000032837	CDS					YDL031W		4	394217	397204	W		2011-02-03	1996-07-31|2011-02-03	
-S000002188	ORF	Verified	YDL030W	PRP9	SF3a splicing factor complex subunit PRP9	chromosome 4	L000001501	4	397537	399129	W		2011-02-03	1996-07-31	Subunit of the SF3a splicing factor complex; required for spliceosome assembly; acts after the formation of the U1 snRNP-pre-mRNA complex
-S000031920	CDS					YDL030W		4	397537	399129	W		2011-02-03	1996-07-31	
-S000002187	ORF	Verified	YDL029W	ARP2	actin-related protein 2|ACT2	chromosome 4	L000000026	4	399340	400638	W		2011-02-03	1996-07-31	Essential component of the Arp2/3 complex; Arp2/3 is a highly conserved actin nucleation center required for the motility and integrity of actin patches; involved in endocytosis and membrane growth and polarity; required for efficient Golgi-to-ER trafficking in COPI mutants
-S000032598	CDS					YDL029W		4	399340	399361	W		2011-02-03	1996-07-31	
-S000032599	CDS					YDL029W		4	399485	400638	W		2011-02-03	1996-07-31	
-S000032600	intron					YDL029W		4	399362	399484	W		2011-02-03	1996-07-31	
-S000002186	ORF	Verified	YDL028C	MPS1	serine/threonine/tyrosine protein kinase MPS1|PAC8|RPK1	chromosome 4	L000001698	4	403291	400997	C		2011-02-03	1996-07-31|2011-02-03	Dual-specificity kinase; autophosphorylation required for function; required for spindle pole body (SPB) duplication and spindle checkpoint function; contributes to bi-orientation by promoting formation of force-generating kinetochore-microtubule attachments in meiosis I; substrates include SPB proteins Spc42p, Spc110p, and Spc98p, mitotic exit network protein Mob1p, kinetochore protein Cnn1p, and checkpoint protein Mad1p; substrate of APCC(Cdh1); similar to human Mps1p
-S000031526	CDS					YDL028C		4	403291	400997	C		2011-02-03	1996-07-31|2011-02-03	
-S000002184	ORF	Dubious	YDL026W			chromosome 4		4	404749	405060	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031360	CDS					YDL026W		4	404749	405060	W		2011-02-03	1996-07-31	
-S000002185	ORF	Uncharacterized	YDL027C	MRX9		chromosome 4		4	404957	403695	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YDL027C is not an essential gene
-S000031399	CDS					YDL027C		4	404957	403695	C		2011-02-03	1996-07-31	
-S000028610	ORF	Dubious	YDL025W-A			chromosome 4		4	405410	405514	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the ORF YDL025C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
-S000031440	CDS					YDL025W-A		4	405410	405514	W		2011-02-03	2003-07-29	
-S000002183	ORF	Verified	YDL025C	RTK1	putative serine/threonine protein kinase RTK1	chromosome 4		4	407206	405344	C		2011-02-03	1996-07-31	Putative protein kinase, potentially phosphorylated by Cdc28p; interacts with ribosome biogenesis factors, Cka2, Gus1 and Arc1; protein abundance increases in response to DNA replication stress
-S000030352	CDS					YDL025C		4	407206	405344	C		2011-02-03	1996-07-31	
-S000118433	ARS		ARS414		ARSIV-408	chromosome 4		4	408075	408316			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000002182	ORF	Verified	YDL024C	DIA3	putative acid phosphatase DIA3	chromosome 4		4	409857	408451	C		2011-02-03	1996-07-31	Protein of unknown function; involved in invasive and pseudohyphal growth
-S000030155	CDS					YDL024C		4	409857	408451	C		2011-02-03	1996-07-31	
-S000028537	ORF	Uncharacterized	YDL022C-A			chromosome 4		4	410056	409808	C		2011-02-03	2003-07-29	Protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cytosol; partially overlaps the verified gene DIA3; identified by fungal homology and RT-PCR; mRNA identified as translated by ribosome profiling data
-S000031146	CDS					YDL022C-A		4	410056	409808	C		2011-02-03	2003-07-29	
-S000006510	tRNA_gene		tA(AGC)D			chromosome 4	L000003763	4	410379	410451	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000032254	noncoding_exon					tA(AGC)D		4	410379	410451	W		2011-02-03	2000-05-19	
-S000002180	ORF	Verified	YDL022W	GPD1	glycerol-3-phosphate dehydrogenase (NAD(+)) GPD1|OSR5|OSG1|HOR1|DAR1	chromosome 4	L000000722	4	411825	413000	W		2011-02-03	1996-07-31	NAD-dependent glycerol-3-phosphate dehydrogenase; key enzyme of glycerol synthesis, essential for growth under osmotic stress; expression regulated by high-osmolarity glycerol response pathway; protein abundance increases in response to DNA replication stress; constitutively inactivated via phosphorylation by the protein kinases Ypk1p and Ypk2p, dephosphorylation increases catalytic activity; forms a heterodimer with Pnc1p to facilitate its peroxisomal import
-S000037411	CDS					YDL022W		4	411825	413000	W		2011-02-03	1996-07-31	
-S000002181	ORF	Dubious	YDL023C		SRF4	chromosome 4		4	412081	411761	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in other Saccharomyces species; overlaps the verified gene GPD1; deletion confers sensitivity to GSAO; deletion in cyr1 mutant results in loss of stress resistance
-S000037466	CDS					YDL023C		4	412081	411761	C		2011-02-03	1996-07-31	
-S000002179	ORF	Verified	YDL021W	GPM2	phosphoglycerate mutase family protein GPM2	chromosome 4	L000003294	4	413953	414888	W		2011-02-03	1996-07-31	Homolog of Gpm1p phosphoglycerate mutase; converts 3-phosphoglycerate to 2-phosphoglycerate in glycolysis; may be non-functional; GPM2 has a paralog, GPM3, that arose from the whole genome duplication
-S000037296	CDS					YDL021W		4	413953	414888	W		2011-02-03	1996-07-31	
-S000002178	ORF	Verified	YDL020C	RPN4	stress-regulated transcription factor RPN4|UFD5|SON1	chromosome 4	L000001984	4	416708	415113	C		2011-02-03	1996-07-31	Transcription factor that stimulates expression of proteasome genes; Rpn4p levels are in turn regulated by the 26S proteasome in a negative feedback control mechanism; RPN4 is transcriptionally regulated by various stress responses; relative distribution to the nucleus increases upon DNA replication stress
-S000036564	CDS					YDL020C		4	416708	415113	C		2011-02-03	1996-07-31	
-S000002177	ORF	Verified	YDL019C	OSH2	oxysterol-binding protein related protein OSH2	chromosome 4		4	421514	417663	C		2011-02-03	1996-07-31	Member of an oxysterol-binding protein family with seven members; in S. cerevisiae, family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability; contains FFAT motif; interacts with ER anchor Scs2p at patches at the plasma membrane and at the nuclear envelope; regulated by sterol binding; OSH2 has a paralog, SWH1, that arose from the whole genome duplication
-S000035539	CDS					YDL019C		4	421514	417663	C		2011-02-03	1996-07-31	
-S000002176	ORF	Verified	YDL018C	ERP3		chromosome 4	L000004680	4	423510	422833	C		2011-02-03	1996-07-31	Protein with similarity to Emp24p and Erv25p; member of the p24 family involved in ER to Golgi transport
-S000035452	CDS					YDL018C		4	423510	422833	C		2011-02-03	1996-07-31	
-S000002175	ORF	Verified	YDL017W	CDC7	serine/threonine protein kinase CDC7|SAS1|LSD6	chromosome 4	L000000247	4	424209	425732	W	-1	2011-02-03	1996-07-31	DDK (Dbf4-dependent kinase) catalytic subunit; required for origin firing and replication fork progression in mitotic S phase through phosphorylation of Mcm2-7p complexes and Cdc45p; kinase activity correlates with cyclical DBF4 expression; required for pre-meiotic DNA replication, meiotic DSB formation, recruitment of monopolin complex to kinetochores during meiosis I, regulation of meiosis-specific Ndt80p; mutation complemented by human CDC7 and DBF4 co-expression
-S000035373	CDS					YDL017W		4	424209	425732	W		2011-02-03	1996-07-31	
-S000002174	ORF	Dubious	YDL016C			chromosome 4		4	425872	425570	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CDC7/YDL153C, the catalytic subunit of a complex that regulates DNA replication
-S000034291	CDS					YDL016C		4	425872	425570	C		2011-02-03	1996-07-31	
-S000002173	ORF	Verified	YDL015C	TSC13	trans-2-enoyl-CoA reductase (NADPH) TSC13	chromosome 4		4	426934	426002	C		2011-02-03	1996-07-31	Enoyl reductase; catalyzes last step in each cycle of very long chain fatty acid elongation; localizes to ER, highly enriched in a structure marking nuclear-vacuolar junctions; coimmunoprecipitates with elongases Elo2p and Elo3p; protein increases in abundance and relative distribution to ER foci increases upon DNA replication stress; human homolog TECR implicated in nonsyndromic mental retardation, can complement yeast mutant
-S000034157	CDS					YDL015C		4	426934	426002	C		2011-02-03	1996-07-31	
-S000002172	ORF	Verified	YDL014W	NOP1	rRNA methyltransferase NOP1|LOT3	chromosome 4	L000001260	4	427364	428347	W	-1.93	2011-02-03	1996-07-31	Histone glutamine methyltransferase, modifies H2A at Q105 in nucleolus; component of the small subunit processome complex, which is required for processing of pre-18S rRNA; ortholog of mammalian fibrillarin; inviability of the null mutant is functionally complemented by human FBL
-S000034123	CDS					YDL014W		4	427364	428347	W		2011-02-03	1996-07-31	
-S000002171	ORF	Verified	YDL013W	SLX5	SUMO-targeted ubiquitin ligase complex subunit SLX5|ULS2|HEX3	chromosome 4	L000000768	4	429067	430926	W	-1.69	2011-02-03	1996-07-31	Subunit of the Slx5-Slx8 SUMO-targeted Ub ligase (STUbL) complex; role in Ub-mediated degradation of histone variant Cse4p preventing mislocalization to euchromatin; role in proteolysis of spindle positioning protein Kar9p, and DNA repair proteins Rad52p and Rad57p; forms SUMO-dependent nuclear foci, including DNA repair centers; contains a RING domain and two SIM motifs; associates with the centromere; required for maintenance of genome integrity like human ortholog RNF4
-S000033268	CDS					YDL013W		4	429067	430926	W		2011-02-03	1996-07-31	
-S000002170	ORF	Verified	YDL012C			chromosome 4		4	431517	431108	C		2011-02-03	1996-07-31	Tail-anchored plasma membrane protein with a conserved CYSTM module; possibly involved in response to stress; may contribute to non-homologous end-joining (NHEJ) based on ydl012c htz1 double null phenotype; YDL012C has a paralog, YBR016W, that arose from the whole genome duplication
-S000033170	CDS					YDL012C		4	431386	431108	C		2011-02-03	1996-07-31	
-S000033169	CDS					YDL012C		4	431517	431473	C		2011-02-03	1996-07-31	
-S000033171	intron					YDL012C		4	431472	431387	C		2011-02-03	1996-07-31	
-S000002168	ORF	Verified	YDL010W	GRX6	glutathione-disulfide reductase GRX6	chromosome 4		4	432330	433025	W		2011-02-03	1996-07-31	Cis-golgi localized monothiol glutaredoxin, binds Fe-S cluster; more similar in activity to dithiol than other monothiol glutaredoxins; involved in the oxidative stress response; GRX6 has a paralog, GRX7, that arose from the whole genome duplication
-S000032278	CDS					YDL010W		4	432330	433025	W		2011-02-03	1996-07-31	
-S000002169	ORF	Dubious	YDL011C			chromosome 4		4	432631	432308	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the uncharacterized ORF YDL010W
-S000032316	CDS					YDL011C		4	432631	432308	C		2011-02-03	1996-07-31	
-S000002167	ORF	Uncharacterized	YDL009C			chromosome 4		4	433248	432925	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA identified as translated by ribosome profiling data; SWAT-GFP and mCherry fusion proteins localize to the cytosol; partially overlaps the verified ORF YDL010W; YDL009C is not an essential gene
-S000032265	CDS					YDL009C		4	433248	432925	C		2011-02-03	1996-07-31	
-S000002166	ORF	Verified	YDL008W	APC11	anaphase promoting complex subunit 11	chromosome 4	L000004322	4	433497	433994	W		2011-02-03	1996-07-31	Catalytic core subunit, Anaphase-Promoting Complex/Cyclosome (APC/C); which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; contains a RING-H2 domain that is required for activity
-S000032227	CDS					YDL008W		4	433497	433994	W		2011-02-03	1996-07-31	
-S000006739	tRNA_gene		tT(AGU)D			chromosome 4	L000003788	4	434336	434264	C		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000032153	noncoding_exon					tT(AGU)D		4	434336	434264	C		2011-02-03	2000-05-19	
-S000006842	long_terminal_repeat		YDLCdelta1			chromosome 4		4	434739	434423	C		2011-02-03	2000-05-19	Ty1 LTR
-S000130173	ARS		ARS415			chromosome 4		4	434971	435320			2014-11-18	2014-11-18|2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000113557	ORF	Uncharacterized	YDL007C-A			chromosome 4		4	436824	436567	C		2011-02-03	2005-11-17	Putative protein of unknown function
-S000113558	CDS					YDL007C-A		4	436824	436567	C		2011-02-03	2005-11-17	
-S000006843	long_terminal_repeat		YDLWtau1			chromosome 4		4	437149	437518	W		2011-02-03	2000-05-19	Ty4 LTR
-S000006721	tRNA_gene		tS(AGA)D1			chromosome 4	L000003764	4	437772	437853	W		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000031630	noncoding_exon					tS(AGA)D1		4	437772	437853	W		2011-02-03	2000-05-19	
-S000002165	ORF	Verified	YDL007W	RPT2	proteasome regulatory particle base subunit RPT2|YTA5|YHS4	chromosome 4	L000002559	4	438047	439360	W		2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; required for normal peptide hydrolysis by the core 20S particle; N-myristoylation of Rpt2p at Gly2 is involved in regulating the proper intracellular distribution of proteasome activity by controlling the nuclear localization of the 26S proteasome
-S000031210	CDS					YDL007W		4	438047	439360	W		2011-02-03	1996-07-31	
-S000002164	ORF	Verified	YDL006W	PTC1	type 2C protein phosphatase PTC1|TPD1|KCS2|CWH47	chromosome 4	L000000890|L000001523	4	439909	440754	W		2011-02-03	1996-07-31	Type 2C protein phosphatase (PP2C); dephosphorylates Hog1p, inactivating osmosensing MAPK cascade; involved in Fus3p activation during pheromone response; deletion affects precursor tRNA splicing, mitochondrial inheritance, and sporulation
-S000031084	CDS					YDL006W		4	439909	440754	W		2011-02-03	1996-07-31	
-S000002163	ORF	Verified	YDL005C	MED2		chromosome 4	L000003914	4	442309	441014	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; relocalizes to the cytosol in response to hypoxia
-S000030042	CDS					YDL005C		4	442309	441014	C		2011-02-03	1996-07-31	
-S000002162	ORF	Verified	YDL004W	ATP16	F1F0 ATP synthase subunit delta	chromosome 4	L000000150	4	443029	443511	W		2011-02-03	1996-07-31	Delta subunit of the central stalk of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; F1 translationally regulates ATP6 and ATP8 expression to achieve a balanced output of ATP synthase genes encoded in nucleus and mitochondria; phosphorylated
-S000030001	CDS					YDL004W		4	443029	443511	W		2011-02-03	1996-07-31	
-S000002161	ORF	Verified	YDL003W	MCD1	kleisin alpha|SCC1|RHC21|PDS3	chromosome 4	L000002676	4	444683	446383	W		2011-02-03	1996-07-31	Essential alpha-kleisin subunit of the cohesin complex; required for sister chromatid cohesion in mitosis and meiosis; apoptosis induces cleavage and translocation of a C-terminal fragment to mitochondria; expression peaks in S phase
-S000029870	CDS					YDL003W		4	444683	446383	W		2011-02-03	1996-07-31	
-S000002160	ORF	Verified	YDL002C	NHP10	HMO2	chromosome 4	L000002765	4	447578	446967	C		2011-02-03	1996-07-31	Non-essential INO80 chromatin remodeling complex subunit; preferentially binds DNA ends, protecting them from exonucleatic cleavage; deletion affects telomere maintenance via recombination; related to mammalian high mobility group proteins
-S000037122	CDS					YDL002C		4	447578	446967	C		2011-02-03	1996-07-31	
-S000002159	ORF	Verified	YDL001W	RMD1		chromosome 4		4	447984	449276	W		2011-02-03	1996-07-31	Cytoplasmic protein required for sporulation
-S000037078	CDS					YDL001W		4	447984	449276	W		2011-02-03	1996-07-31	
-S000006466	centromere		CEN4	CEN4		chromosome 4	L000000297	4	449711	449821	W	0	2011-02-03	2000-05-19|2006-05-08	Chromosome IV centromere
-S000077266	centromere_DNA_Element_I					CEN4		4	449711	449720	W		2011-02-03	2004-10-04	
-S000077267	centromere_DNA_Element_II					CEN4		4	449721	449796	W		2011-02-03	2004-10-04	
-S000077268	centromere_DNA_Element_III					CEN4		4	449797	449821	W		2011-02-03	2004-10-04	
-S000002408	ORF	Verified	YDR001C	NTH1	alpha,alpha-trehalase NTH1	chromosome 4	L000001280	4	452475	450220	C		2011-02-03	1996-07-31	Neutral trehalase, degrades trehalose; required for thermotolerance and may mediate resistance to other cellular stresses; phosphorylated and activated by Cdc28p at the G1/S phase transition to coordinately regulate carbohydrate metabolism and the cell cycle; inhibited by Dcs1p; NTH1 has a paralog, NTH2, that arose from the whole genome duplication
-S000033545	CDS					YDR001C		4	452475	450220	C		2011-02-03	1996-07-31	
-S000002409	ORF	Verified	YDR002W	YRB1	Ran GTPase-binding protein YRB1|STP52|SFO1|HTN1|CST20	chromosome 4	L000001871|S000029527|L000002134	4	453045	453650	W		2011-02-03	1996-07-31	Ran GTPase binding protein; involved in nuclear protein import and RNA export, ubiquitin-mediated protein degradation during the cell cycle; shuttles between the nucleus and cytoplasm; is essential; homolog of human RanBP1
-S000034475	CDS					YDR002W		4	453045	453650	W		2011-02-03	1996-07-31	
-S000002410	ORF	Verified	YDR003W	RCR2	SSH5	chromosome 4	S000029511|L000002952	4	454122	454754	W		2011-02-03	1996-07-31	Vacuolar protein; presumably functions within the endosomal-vacuolar trafficking pathway, affecting events that determine whether plasma membrane proteins are degraded or routed to the plasma membrane; RCR2 has a paralog, RCR1, that arose from the whole genome duplication
-S000034587	CDS					YDR003W		4	454122	454754	W		2011-02-03	1996-07-31	
-S000028819	ORF	Uncharacterized	YDR003W-A			chromosome 4		4	454782	454904	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000033630	CDS					YDR003W-A		4	454782	454904	W		2011-02-03	2003-07-29	
-S000002411	ORF	Verified	YDR004W	RAD57	putative DNA-dependent ATPase RAD57	chromosome 4	L000001577	4	455201	456583	W	2	2011-02-03	1996-07-31	Protein that stimulates strand exchange; stimulates strand exchange by stabilizing the binding of Rad51p to single-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; forms heterodimer with Rad55p
-S000034681	CDS					YDR004W		4	455201	456583	W		2011-02-03	1996-07-31	
-S000002412	ORF	Verified	YDR005C	MAF1	RNA polymerase III-inhibiting protein MAF1	chromosome 4	L000002614	4	458103	456836	C		2011-02-03	1996-07-31	Highly conserved negative regulator of RNA polymerase III; involved in tRNA processing and stability; inhibits tRNA degradation via rapid tRNA decay (RTD) pathway; binds N-terminal domain of Rpc160p subunit of Pol III to prevent closed-complex formation; regulated by phosphorylation mediated by TORC1, protein kinase A, Sch9p, casein kinase 2; localizes to cytoplasm during vegetative growth and translocates to nucleus and nucleolus under stress conditions
-S000034763	CDS					YDR005C		4	458017	456836	C		2011-02-03	1996-07-31	
-S000034762	CDS					YDR005C		4	458103	458098	C		2011-02-03	1996-07-31	
-S000034764	intron					YDR005C		4	458097	458018	C		2011-02-03	1996-07-31	
-S000002413	ORF	Verified	YDR006C	SOK1		chromosome 4	L000001983	4	461247	458542	C		2011-02-03	1996-07-31	Protein of unknown function; overexpression suppresses the growth defect of mutants lacking protein kinase A activity; involved in cAMP-mediated signaling; localized to the nucleus; similar to the mouse testis-specific protein PBS13
-S000035723	CDS					YDR006C		4	461247	458542	C		2011-02-03	1996-07-31	
-S000002414	ORF	Verified	YDR007W	TRP1	phosphoribosylanthranilate isomerase TRP1	chromosome 4	L000002352	4	461842	462516	W	1	2011-02-03	2004-02-11|1996-07-31	Phosphoribosylanthranilate isomerase; catalyzes the third step in tryptophan biosynthesis; in 2004, the sequence of TRP1 from strain S228C was updated by changing the previously annotated internal STOP (TAA) to serine (TCA); enhances vegetative growth at low and high temperatures when used as an auxotrophic marker in strains such as W303
-S000035920	CDS					YDR007W		4	461842	462516	W		2011-02-03	2004-02-11|1996-07-31	
-S000029652	ARS		ARS416	ARS1		chromosome 4	S000007454	4	462567	462622			2014-11-18	2014-11-18|2006-04-10	Early-firing autonomously replicating sequence; highly efficient chromosomal replicator active in nearly every cell cycle
-S000121228	ARS_consensus_sequence					ARS416		4	462606	462596	C		2011-02-03	2007-03-06	
-S000002415	ORF	Dubious	YDR008C			chromosome 4		4	462602	462252	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps TRP1/YDR007W on opposite strand
-S000035999	CDS					YDR008C		4	462602	462252	C		2011-02-03	1996-07-31	
-S000002416	ORF	Verified	YDR009W	GAL3	transcriptional regulator GAL3	chromosome 4	L000000660	4	463434	464996	W	1	2011-02-03	1996-07-31	Transcriptional regulator; involved in activation of the GAL genes in response to galactose; forms a complex with Gal80p to relieve Gal80p inhibition of Gal4p; binds galactose and ATP but does not have galactokinase activity; GAL3 has a paralog, GAL1, that arose from the whole genome duplication
-S000037895	CDS					YDR009W		4	463434	464996	W		2011-02-03	1996-07-31	
-S000002417	ORF	Dubious	YDR010C			chromosome 4		4	465383	465051	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037562	CDS					YDR010C		4	465383	465051	C		2011-02-03	1996-07-31	
-S000002418	ORF	Verified	YDR011W	SNQ2	ATP-binding cassette transporter SNQ2	chromosome 4	L000001957	4	465919	470424	W		2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; multidrug transporter involved in multidrug resistance and resistance to singlet oxygen species
-S000037672	CDS					YDR011W		4	465919	470424	W		2011-02-03	1996-07-31	
-S000002419	ORF	Verified	YDR012W	RPL4B	uL4|ribosomal 60S subunit protein L4B|L4|rp2|YL2|L4B|L2B	chromosome 4	L000001702	4	471853	472941	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L4B; homologous to mammalian ribosomal protein L4 and bacterial L4; RPL4B has a paralog, RPL4A, that arose from the whole genome duplication
-S000037729	CDS					YDR012W		4	471853	472941	W		2011-02-03	1996-07-31	
-S000002420	ORF	Verified	YDR013W	PSF1	DNA replication protein PSF1|CDC101	chromosome 4		4	473157	473783	W		2011-02-03	1996-07-31	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p); complex is localized to DNA replication origins and implicated in assembly of the DNA replication machinery
-S000037779	CDS					YDR013W		4	473157	473783	W		2011-02-03	1996-07-31	
-S000002421	ORF	Verified	YDR014W	RAD61	WPL1	chromosome 4		4	474046	475989	W		2011-02-03	1996-07-31	Subunit of a complex that inhibits sister chromatid cohesion; also negatively regulates chromosome condensation; inhibited by Eco1p-acetylated cohesin subunits Smc3p and Mcd1p; binds Smc3p ATPase head of cohesin; related to the human Wapl protein that controls the association of cohesin with chromatin
-S000030660	CDS					YDR014W		4	474046	475989	W		2011-02-03	1996-07-31	
-S000113613	ORF	Verified	YDR014W-A	HED1		chromosome 4		4	477797	478285	W		2011-02-03	2006-04-14	Meiosis-specific protein; down-regulates Rad51p-mediated mitotic recombination when the meiotic recombination machinery is impaired; promotes synapsis and required for the normal morphogenesis of synaptonemal complex; prevents the recruitment of Rad54p to site-specific DNA double-strand breaks in vivo; early meiotic gene, transcribed specifically during meiotic prophase
-S000114898	CDS					YDR014W-A		4	477797	478285	W		2011-02-03	2006-04-14	
-S000002422	ORF	Dubious	YDR015C			chromosome 4		4	478199	477960	C		2011-02-03	1996-07-31|2006-04-13	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene HED1/YDR014W-A
-S000030702	CDS					YDR015C		4	478199	477960	C		2011-02-03	1996-07-31|2006-04-13	
-S000002423	ORF	Verified	YDR016C	DAD1		chromosome 4		4	478758	478474	C		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
-S000030807	CDS					YDR016C		4	478758	478474	C		2011-02-03	1996-07-31	
-S000002424	ORF	Verified	YDR017C	KCS1	inositol polyphosphate kinase KCS1	chromosome 4	L000000889	4	482267	479115	C		2011-02-03	1996-07-31	Inositol hexakisphosphate and inositol heptakisphosphate kinase; generation of high energy inositol pyrophosphates by Kcs1p is required for many processes such as vacuolar biogenesis, stress response, RNA polymerase I-mediated rRNA transcription and telomere maintenance; inositol hexakisphosphate is also known as IP6; inositol heptakisphosphate is also known as IP7
-S000031751	CDS					YDR017C		4	482267	479115	C		2011-02-03	1996-07-31	
-S000002425	ORF	Uncharacterized	YDR018C		putative acyltransferase	chromosome 4		4	483860	482670	C		2011-02-03	1996-07-31	Probable membrane protein with three predicted transmembrane domains; similar to C. elegans F55A11.5 and maize 1-acyl-glycerol-3-phosphate acyltransferase; YDR018C has a paralog, CST26, that arose from the whole genome duplication
-S000031907	CDS					YDR018C		4	483860	482670	C		2011-02-03	1996-07-31	
-S000118434	ARS		ARS417		ARSIV-484	chromosome 4		4	484006	484059			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178068	ARS_consensus_sequence					ARS417		4	484035	484019	C		2014-11-18	2014-11-18	
-S000002426	ORF	Verified	YDR019C	GCV1	glycine decarboxylase subunit T|GSD1	chromosome 4	L000002736	4	485365	484163	C		2011-02-03	1996-07-31	T subunit of the mitochondrial glycine decarboxylase complex; glycine decarboxylase is required for the catabolism of glycine to 5,10-methylene-THF; expression is regulated by levels of levels of 5,10-methylene-THF in the cytoplasm
-S000032068	CDS					YDR019C		4	485365	484163	C		2011-02-03	1996-07-31	
-S000002427	ORF	Uncharacterized	YDR020C	DAS2	putative uridine kinase DAS2|RRT3	chromosome 4		4	486444	485746	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription; weak similarity with uridine kinases and with phosphoribokinases
-S000032817	CDS					YDR020C		4	486444	485746	C		2011-02-03	1996-07-31	
-S000002428	ORF	Verified	YDR021W	FAL1	ATP-dependent RNA helicase FAL1	chromosome 4	L000003480	4	486804	488003	W		2011-02-03	1996-07-31	Nucleolar protein required for maturation of 18S rRNA; member of the eIF4A subfamily of DEAD-box ATP-dependent RNA helicases; 18S rRNA biogenesis defect of the null mutant is functionally complemented by human EIF4A3
-S000032973	CDS					YDR021W		4	486804	488003	W		2011-02-03	1996-07-31	
-S000002429	ORF	Verified	YDR022C	ATG31	CIS1	chromosome 4	L000003475	4	488662	488072	C		2011-02-03	1996-07-31	Autophagy-specific protein required for autophagosome formation; forms a complex with Atg17p and Atg29p that localizes other proteins to the pre-autophagosomal structure; constitutively phosphorylated, and phosphorylation of residue S174 is required for function; high-copy suppressor of CIK1 deletion
-S000033002	CDS					YDR022C		4	488662	488072	C		2011-02-03	1996-07-31	
-S000006770	tRNA_gene		tV(UAC)D			chromosome 4	L000003787	4	488870	488797	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000036290	noncoding_exon					tV(UAC)D		4	488870	488797	C		2011-02-03	2000-05-19	
-S000002430	ORF	Verified	YDR023W	SES1	serine--tRNA ligase SES1|SerRS	chromosome 4	L000001867	4	489508	490896	W		2011-02-03	1996-07-31	Cytosolic seryl-tRNA synthetase; class II aminoacyl-tRNA synthetase that aminoacylates tRNA(Ser), displays tRNA-dependent amino acid recognition which enhances discrimination of the serine substrate, interacts with peroxin Pex21p
-S000033710	CDS					YDR023W		4	489508	490896	W		2011-02-03	1996-07-31	
-S000002431	ORF	Dubious	YDR024W	FYV1		chromosome 4		4	491017	491502	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; mutation decreases survival upon exposure to K1 killer toxin
-S000033822	CDS					YDR024W		4	491017	491502	W		2011-02-03	1996-07-31	
-S000002432	ORF	Verified	YDR025W	RPS11A	uS17|ribosomal 40S subunit protein S11A|S17|rp41A|YS12|S18A|S11A	chromosome 4	L000001757	4	491515	492324	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S11 and bacterial S17; N-terminally propionylated in vivo; RPS11A has a paralog, RPS11B, that arose from the whole genome duplication
-S000033919	CDS					YDR025W		4	491515	491559	W		2011-02-03	1996-07-31	
-S000033920	CDS					YDR025W		4	491899	492324	W		2011-02-03	1996-07-31	
-S000033921	intron					YDR025W		4	491560	491898	W		2011-02-03	1996-07-31	
-S000002433	ORF	Verified	YDR026C	NSI1	YTT1	chromosome 4		4	494268	492556	C		2011-02-03	1996-07-31	RNA polymerase I termination factor; binds to rDNA terminator element, required for efficient Pol I termination; required for rDNA silencing at NTS1; facilities association of Sir2p with NTS1, contributes to rDNA stability and cell longevity; interacts physically with Fob1p and RENT subunits, Sir2p and Net1p; may interact with ribosomes, based on co-purification experiments; Myb-like DNA-binding protein; NSI1 has a paralog, REB1, that arose from the whole genome duplication
-S000033977	CDS					YDR026C		4	494268	492556	C		2011-02-03	1996-07-31	
-S000002434	ORF	Verified	YDR027C	VPS54	TCS3|CGP1|LUV1	chromosome 4	L000004648	4	497318	494649	C		2011-02-03	1996-07-31	Component of the GARP (Golgi-associated retrograde protein) complex; GARP is required for the recycling of proteins from endosomes to the late Golgi, and for mitosis after DNA damage induced checkpoint arrest; potentially phosphorylated by Cdc28p; members of the GARP complex are Vps51p-Vps52p-Vps53p-Vps54p
-S000034876	CDS					YDR027C		4	497318	494649	C		2011-02-03	1996-07-31	
-S000002435	ORF	Verified	YDR028C	REG1	protein phosphatase regulator REG1|SRN1|SPP43|PZF240|HEX2	chromosome 4	L000001609	4	500879	497835	C	2.79	2011-02-03	1996-07-31	Regulatory subunit of type 1 protein phosphatase Glc7p; involved in negative regulation of glucose-repressible genes; involved in regulation of the nucleocytoplasmic shuttling of Hxk2p; REG1 has a paralog, REG2, that arose from the whole genome duplication
-S000035027	CDS					YDR028C		4	500879	497835	C		2011-02-03	1996-07-31	
-S000002436	ORF	Uncharacterized	YDR029W			chromosome 4		4	501100	501414	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR029W is not an essential gene
-S000035276	CDS					YDR029W		4	501100	501414	W		2011-02-03	1996-07-31	
-S000002437	ORF	Verified	YDR030C	RAD28		chromosome 4	L000004123	4	503273	501753	C		2011-02-03	1996-07-31	Protein involved in DNA repair; related to the human CSA protein that is involved in transcription-coupled repair nucleotide excision repair
-S000036180	CDS					YDR030C		4	503273	501753	C		2011-02-03	1996-07-31	
-S000002438	ORF	Verified	YDR031W	MIX14	MIC14	chromosome 4		4	503498	503863	W		2011-02-03	2004-07-22|1996-07-31	Mitochondrial intermembrane space protein of unknown function; required for normal oxygen consumption; contains twin cysteine-x9-cysteine motifs; protein abundance increases in response to DNA replication stress
-S000036965	CDS					YDR031W		4	503498	503863	W		2011-02-03	2004-07-22|1996-07-31	
-S000002439	ORF	Verified	YDR032C	PST2	flavodoxin-like fold family protein	chromosome 4		4	504695	504099	C		2011-02-03	1996-07-31	Protein with similarity to a family of flavodoxin-like proteins; induced by oxidative stress in a Yap1p dependent manner; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress; PST2 has a paralog, RFS1, that arose from the whole genome duplication
-S000036988	CDS					YDR032C		4	504695	504099	C		2011-02-03	1996-07-31	
-S000119069	ARS		ARS450		ARSIV-506|ARS417.5	chromosome 4		4	505343	505584			2011-02-03	2006-10-05	Autonomously Replicating Sequence
-S000002440	ORF	Verified	YDR033W	MRH1		chromosome 4		4	508147	509109	W		2011-02-03	1996-07-31	Protein that localizes primarily to the plasma membrane; also found at the nuclear envelope; long-lived protein that is asymmetrically retained in the plasma membrane of mother cells; the authentic, non-tagged protein is detected in mitochondria in a phosphorylated state; null mutation confers sensitivity to acetic acid
-S000037115	CDS					YDR033W		4	508147	509109	W		2011-02-03	1996-07-31	
-S000002441	ORF	Verified	YDR034C	LYS14		chromosome 4	L000000971	4	512109	509737	C	8	2011-02-03	1996-07-31	Transcriptional activator involved in regulating lysine biosynthesis; involved in the regulation of genes of the lysine biosynthesis pathway; requires 2-aminoadipate semialdehyde as co-inducer
-S000037166	CDS					YDR034C		4	512109	509737	C		2011-02-03	1996-07-31	
-S000006844	long_terminal_repeat		YDRCdelta2			chromosome 4		4	513258	512986	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006845	long_terminal_repeat		YDRCdelta3			chromosome 4		4	513590	513259	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006846	long_terminal_repeat		YDRCdelta4			chromosome 4		4	514020	513692	C		2011-02-03	2000-05-19	Ty2 LTR
-S000007345	transposable_element_gene		YDR034C-D		gag-pol fusion protein	chromosome 4		4	519356	514043	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000035118	CDS					YDR034C-D		4	518062	514043	C		2011-02-03	1999-07-17	
-S000035117	CDS					YDR034C-D		4	519356	518064	C		2011-02-03	1999-07-17	
-S000035119	plus_1_translational_frameshift					YDR034C-D		4	518063	518063	C		2011-02-03	1999-07-17	
-S000007344	transposable_element_gene		YDR034C-C		gag protein	chromosome 4		4	519356	518040	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000035078	CDS					YDR034C-C		4	519356	518040	C		2011-02-03	1999-07-17	
-S000006862	LTR_retrotransposon		YDRCTy2-1		Ty2	chromosome 4		4	519647	513692	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000006847	long_terminal_repeat		YDRCdelta5			chromosome 4		4	519647	519316	C		2011-02-03	2000-05-19	Ty2 LTR
-S000006649	tRNA_gene		tL(UAA)D			chromosome 4	L000003765	4	519743	519826	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000037383	noncoding_exon					tL(UAA)D		4	519743	519826	W		2011-02-03	2000-05-19	
-S000006848	long_terminal_repeat		YDRCdelta6a			chromosome 4		4	520475	520173	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006863	long_terminal_repeat		YDRWdelta7			chromosome 4		4	520477	520805	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007233	ORF	Uncharacterized	YDR034C-A			chromosome 4		4	520692	520516	C		2011-02-03	1999-07-17	Putative protein of unknown function; contained within the solo Ty1 LTR element YDRWdelta7
-S000035073	CDS					YDR034C-A		4	520692	520516	C		2011-02-03	1999-07-17	
-S000006849	long_terminal_repeat		YDRCdelta6b			chromosome 4		4	520833	520806	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006693	tRNA_gene		tQ(UUG)D1			chromosome 4	L000003766	4	520972	521043	W		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034805	noncoding_exon					tQ(UUG)D1		4	520972	521043	W		2011-02-03	2000-05-19	
-S000007234	ORF	Uncharacterized	YDR034W-B			chromosome 4		4	521314	521469	W		2011-02-03	1999-07-17	Predicted tail-anchored plasma membrane protein; contains conserved CYSTM module; related proteins in other organisms may be involved in response to stress; N- and C-terminal fusion proteins localize to the cell periphery; YDR034W-B has a paralog, YBR056W-A, that arose from the whole genome duplication
-S000030044	CDS					YDR034W-B		4	521314	521469	W		2011-02-03	1999-07-17	
-S000002442	ORF	Verified	YDR035W	ARO3	3-deoxy-7-phosphoheptulonate synthase ARO3	chromosome 4	L000000118	4	521816	522928	W		2011-02-03	1996-07-31	3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) synthase; catalyzes the first step in aromatic amino acid biosynthesis and is feedback-inhibited by phenylalanine or high concentration of tyrosine or tryptophan
-S000029906	CDS					YDR035W		4	521816	522928	W		2011-02-03	1996-07-31	
-S000002443	ORF	Verified	YDR036C	EHD3	MRP5	chromosome 4		4	524713	523211	C		2011-02-03	1996-07-31	3-hydroxyisobutyryl-CoA hydrolase; member of a family of enoyl-CoA hydratase/isomerases; non-tagged protein is detected in highly purified mitochondria in high-throughput studies; phosphorylated; mutation affects fluid-phase endocytosis
-S000029947	CDS					YDR036C		4	524713	523211	C		2011-02-03	1996-07-31	
-S000002444	ORF	Verified	YDR037W	KRS1	lysine--tRNA ligase KRS1|GCD5	chromosome 4	L000000673|L000000919	4	525440	527215	W		2011-02-03	1996-07-31	Lysyl-tRNA synthetase
-S000031019	CDS					YDR037W		4	525440	527215	W		2011-02-03	1996-07-31	
-S000002445	ORF	Verified	YDR038C	ENA5	putative Na(+)-exporting P-type ATPase ENA5	chromosome 4	L000003293	4	530697	527422	C		2011-02-03	1996-07-31	Protein with similarity to P-type ATPase sodium pumps; member of the Na+ efflux ATPase family
-S000031057	CDS					YDR038C		4	530697	527422	C		2011-02-03	1996-07-31	
-S000002446	ORF	Verified	YDR039C	ENA2	Na(+)-exporting P-type ATPase ENA2	chromosome 4	L000000556	4	534582	531307	C		2011-02-03	1996-07-31	P-type ATPase sodium pump; involved in Na+ efflux to allow salt tolerance; likely not involved in Li+ efflux
-S000031179	CDS					YDR039C		4	534582	531307	C		2011-02-03	1996-07-31	
-S000002447	ORF	Verified	YDR040C	ENA1	Na(+)/Li(+)-exporting P-type ATPase ENA1|PMR2|HOR6	chromosome 4	L000001456	4	538467	535192	C	15	2011-02-03	1996-07-31	P-type ATPase sodium pump; involved in Na+ and Li+ efflux to allow salt tolerance
-S000032116	CDS					YDR040C		4	538467	535192	C		2011-02-03	1996-07-31	
-S000002448	ORF	Verified	YDR041W	RSM10	mitochondrial 37S ribosomal protein RSM10	chromosome 4		4	539803	540414	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S10 ribosomal protein; essential for viability, unlike most other mitoribosomal proteins
-S000032233	CDS					YDR041W		4	539803	540414	W		2011-02-03	1996-07-31	
-S000002449	ORF	Uncharacterized	YDR042C			chromosome 4		4	541203	540601	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression is increased in ssu72-ts69 mutant
-S000032269	CDS					YDR042C		4	541203	540601	C		2011-02-03	1996-07-31	
-S000006507	snoRNA_gene		snR47	SNR47		chromosome 4	L000003414	4	541700	541602	C		2011-02-03	2000-05-19|2007-04-04	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A2220 and small subunit (SSU) rRNA at position A619
-S000030649	noncoding_exon					snR47		4	541700	541602	C		2011-02-03	2000-05-19|2007-04-04	
-S000002450	ORF	Verified	YDR043C	NRG1	transcriptional regulator NRG1	chromosome 4	L000004598	4	543369	542674	C		2011-02-03	1996-07-31	Transcriptional repressor; recruits the Cyc8p-Tup1p complex to promoters; mediates glucose repression and negatively regulates a variety of processes including filamentous growth and alkaline pH response; activated in stochastic pulses of nuclear localization in response to low glucose
-S000033143	CDS					YDR043C		4	543369	542674	C		2011-02-03	1996-07-31	
-S000002451	ORF	Verified	YDR044W	HEM13	coproporphyrinogen oxidase	chromosome 4	L000000765	4	546642	547628	W		2011-02-03	1996-07-31	Coproporphyrinogen III oxidase; oxygen-requiring enzyme that catalyzes sixth step in heme biosynthetic pathway; transcription is repressed by oxygen and heme (via Rox1p and Hap1p); human homolog CPOX can complement yeast mutant and allow growth of haploid null after sporulation of a heterozygous diploid
-S000033232	CDS					YDR044W		4	546642	547628	W		2011-02-03	1996-07-31	
-S000002452	ORF	Verified	YDR045C	RPC11	DNA-directed RNA polymerase III core subunit RPC11|C11	chromosome 4	L000004954	4	548310	547978	C		2011-02-03	1996-07-31	RNA polymerase III subunit C11; mediates pol III RNA cleavage activity and is important for termination of transcription; homologous to TFIIS
-S000033256	CDS					YDR045C		4	548310	547978	C		2011-02-03	1996-07-31	
-S000002453	ORF	Verified	YDR046C	BAP3	amino acid transporter BAP3|PAP1	chromosome 4	L000004277	4	550576	548762	C		2011-02-03	1996-07-31	Amino acid permease; involved in uptake of cysteine, leucine, isoleucine and valine; BAP3 has a paralog, BAP2, that arose from the whole genome duplication
-S000033308	CDS					YDR046C		4	550576	548762	C		2011-02-03	1996-07-31	
-S000002454	ORF	Verified	YDR047W	HEM12	uroporphyrinogen decarboxylase HEM12|HEM6	chromosome 4	L000000764	4	551860	552948	W		2011-02-03	1996-07-31	Uroporphyrinogen decarboxylase; catalyzes the fifth step in the heme biosynthetic pathway; localizes to both the cytoplasm and nucleus; a hem12 mutant has phenotypes similar to patients with porphyria cutanea tarda
-S000034271	CDS					YDR047W		4	551860	552948	W		2011-02-03	1996-07-31	
-S000002456	ORF	Verified	YDR049W	VMS1		chromosome 4		4	553254	555152	W		2011-02-03	1996-07-31	Component of a Cdc48p-complex involved in protein quality control; exhibits cytosolic and ER-membrane localization, with Cdc48p, during normal growth, and contributes to ER-associated degradation (ERAD) of specific substrates at a step after their ubiquitination; forms a mitochondrially-associated complex with Cdc48p and Npl4p under oxidative stress that is required for ubiquitin-mediated mitochondria-associated protein degradation (MAD); conserved in C. elegans and humans
-S000035432	CDS					YDR049W		4	553254	555152	W		2011-02-03	1996-07-31	
-S000002455	ORF	Dubious	YDR048C			chromosome 4		4	553398	553084	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF VMS1/YDR049W
-S000034352	CDS					YDR048C		4	553398	553084	C		2011-02-03	1996-07-31	
-S000118435	ARS		ARS418		ARSIV-555	chromosome 4		4	555240	555404			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000002457	ORF	Verified	YDR050C	TPI1	triose-phosphate isomerase TPI1	chromosome 4	L000002326	4	556472	555726	C		2011-02-03	1996-07-31	Triose phosphate isomerase, abundant glycolytic enzyme; mRNA half-life is regulated by iron availability; transcription is controlled by activators Reb1p, Gcr1p, and Rap1p through binding sites in the 5' non-coding region; inhibition of Tpi1p activity by PEP (phosphoenolpyruvate) stimulates redox metabolism in respiring cells; E104D mutation in human homolog TPI1 causes a rare autosomal disease; human TPI1 can complement yeast null mutant
-S000036419	CDS					YDR050C		4	556472	555726	C		2011-02-03	1996-07-31	
-S000002458	ORF	Verified	YDR051C	DET1	acid phosphatase DET1	chromosome 4		4	558060	557056	C		2011-02-03	1996-07-31	Acid phosphatase; involved in the non-vesicular transport of sterols in both directions between the endoplasmic reticulum and plasma membrane; deletion confers sensitivity to nickel
-S000036483	CDS					YDR051C		4	558060	557056	C		2011-02-03	1996-07-31	
-S000002460	ORF	Dubious	YDR053W			chromosome 4		4	560249	560644	W		2011-02-03	1996-07-31	Putative protein of unknown function; open reading frame overlaps 5' end of essential DBF4 gene encoding the regulatory subunit of the Cdc7p-Dbf4p kinase complex
-S000037331	CDS					YDR053W		4	560249	560644	W		2011-02-03	1996-07-31	
-S000002459	ORF	Verified	YDR052C	DBF4	protein serine/threonine kinase activating protein DBF4|DNA52|LSD7	chromosome 4	L000000488|S000029149|L000000513	4	560625	558511	C		2011-02-03	1996-07-31	Regulatory subunit of Cdc7p-Dbf4p kinase complex; required for Cdc7p kinase activity and initiation of DNA replication; phosphorylates the Mcm2-7 family of proteins; cell cycle regulated; relative distribution to the nucleus increases upon DNA replication stress; co-expression of human CDC7 and DBF4 complements single cdc7 or dbf4 null mutations or the cdc7 dbf4 double null mutation
-S000036579	CDS					YDR052C		4	560625	558511	C		2011-02-03	1996-07-31	
-S000002461	ORF	Verified	YDR054C	CDC34	SCF E2 ubiquitin-protein ligase catalytic subunit CDC34|UBC3|DNA6	chromosome 4	L000000271	4	562327	561440	C	37	2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme (E2); catalytic subunit of SCF ubiquitin-protein ligase complex (together with Skp1p, Rbx1p, Cdc53p, and an F-box protein) that regulates cell cycle progression by targeting key substrates for degradation; protein abundance increases in response to DNA replication stress; human CDC34 functionally complements the thermosensitivity of the cdc34-2 mutant
-S000037377	CDS					YDR054C		4	562327	561440	C		2011-02-03	1996-07-31	
-S000002462	ORF	Verified	YDR055W	PST1	HPF2	chromosome 4	L000004850	4	563527	564861	W		2011-02-03	1996-07-31	Cell wall protein that contains a putative GPI-attachment site; secreted by regenerating protoplasts; up-regulated by activation of the cell integrity pathway, as mediated by Rlm1p; upregulated by cell wall damage via disruption of FKS1; PST1 has a paralog, ECM33, that arose from the whole genome duplication
-S000030148	CDS					YDR055W		4	563527	564861	W		2011-02-03	1996-07-31	
-S000002463	ORF	Uncharacterized	YDR056C	EMC10		chromosome 4		4	565640	565023	C		2011-02-03	1996-07-31	Putative protein of unknown function; subunit of evolutionarily conserved EMC (Endoplasmic Reticulum Membrane Complex) implicated in ERAD (ER-associated degradation) and proper assembly of multi-pass transmembrane (TM) proteins; EMC acts in yeast as an ER-mitochondria tether that interacts with outer membrane protein Tom5p of TOM (Translocase of the Mitochondrial Outer Membrane) complex; YDR056C is not an essential protein
-S000030254	CDS					YDR056C		4	565640	565023	C		2011-02-03	1996-07-31	
-S000002464	ORF	Verified	YDR057W	YOS9		chromosome 4		4	565927	567555	W		2011-02-03	1996-07-31	ER quality-control lectin; integral subunit of the HRD ligase; participates in efficient ER retention of misfolded proteins by recognizing them and delivering them to Hrd1p; binds to glycans with terminal alpha-1,6 linked mannose on misfolded N-glycosylated proteins and participates in targeting proteins to ERAD; member of the OS-9 protein family
-S000030476	CDS					YDR057W		4	565927	567555	W		2011-02-03	1996-07-31	
-S000118436	ARS		ARS419		ARSIV-568	chromosome 4		4	567610	567685			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178069	ARS_consensus_sequence					ARS419		4	567677	567661	C		2014-11-18	2014-11-18	
-S000002465	ORF	Verified	YDR058C	TGL2	triglyceride lipase	chromosome 4	L000003248	4	568703	567723	C		2011-02-03	1996-07-31	Triacylglycerol lipase that is localized to the mitochondria; has lipolytic activity towards triacylglycerols and diacylglycerols when expressed in E. coli
-S000030539	CDS					YDR058C		4	568703	567723	C		2011-02-03	1996-07-31	
-S000006709	tRNA_gene		tR(UCU)D			chromosome 4	L000003767	4	568882	568953	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000037839	noncoding_exon					tR(UCU)D		4	568882	568953	W		2011-02-03	2000-05-19	
-S000006531	tRNA_gene		tD(GUC)D			chromosome 4	L000003768	4	568964	569035	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000037680	noncoding_exon					tD(GUC)D		4	568964	569035	W		2011-02-03	2000-05-19	
-S000002466	ORF	Verified	YDR059C	UBC5	E2 ubiquitin-conjugating protein UBC5	chromosome 4	L000002408	4	569770	569234	C		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme; mediates selective degradation of short-lived, abnormal, or excess proteins, including histone H3; central component of the cellular stress response; expression is heat inducible; protein abundance increases in response to DNA replication stress; UBC5 has a paralog, UBC4, that arose from the whole genome duplication
-S000031454	CDS					YDR059C		4	569633	569234	C		2011-02-03	1996-07-31	
-S000031453	CDS					YDR059C		4	569770	569724	C		2011-02-03	1996-07-31	
-S000031455	intron					YDR059C		4	569723	569634	C		2011-02-03	1996-07-31	
-S000002467	ORF	Verified	YDR060W	MAK21	RNA-binding ribosome biosynthesis protein MAK21|NOC1	chromosome 4	L000000993	4	570649	573726	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; required for large (60S) ribosomal subunit biogenesis; acts as part of a Mak21p-Noc2p-Rrp5p module that associates with nascent pre-rRNA during transcription and has a role in bigenesis of the large ribosomal subunit; involved in nuclear export of pre-ribosomes; required for maintenance of dsRNA virus; homolog of human CAATT-binding protein
-S000031685	CDS					YDR060W		4	570649	573726	W		2011-02-03	1996-07-31	
-S000002468	ORF	Uncharacterized	YDR061W			chromosome 4		4	574164	575783	W		2011-02-03	1996-07-31	Protein with similarity to ABC transporter family members; lacks predicted membrane-spanning regions; transcriptionally activated by Yrm1p along with genes involved in multidrug resistance
-S000031826	CDS					YDR061W		4	574164	575783	W		2011-02-03	1996-07-31	
-S000002469	ORF	Verified	YDR062W	LCB2	serine C-palmitoyltransferase LCB2|TSC1|SCS1	chromosome 4	L000001819	4	576474	578159	W		2011-02-03	1996-07-31	Component of serine palmitoyltransferase; responsible along with Lcb1p for the first committed step in sphingolipid synthesis, which is the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine
-S000031954	CDS					YDR062W		4	576474	578159	W		2011-02-03	1996-07-31	
-S000002470	ORF	Verified	YDR063W	AIM7	GMF1|GMF	chromosome 4		4	578663	579112	W		2011-02-03	1996-07-31	Protein that interacts with Arp2/3 complex; interacts with Arp2/3 complex to stimulate actin filament debranching and inhibit actin nucleation; has similarity to Cof1p and also to human glia maturation factor (GMF); null mutant displays elevated mitochondrial genome loss
-S000032842	CDS					YDR063W		4	578663	579112	W		2011-02-03	1996-07-31	
-S000002471	ORF	Verified	YDR064W	RPS13	uS15|ribosomal 40S subunit protein S13|YS15|S27a|S15|S13|RPS13C|RPS13B	chromosome 4	L000002900|L000002655	4	579458	580452	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S13 and bacterial S15
-S000032956	CDS					YDR064W		4	579458	579478	W		2011-02-03	1996-07-31	
-S000032957	CDS					YDR064W		4	580018	580452	W		2011-02-03	1996-07-31	
-S000032958	intron					YDR064W		4	579479	580017	W		2011-02-03	1996-07-31	
-S000002472	ORF	Verified	YDR065W	RRG1		chromosome 4		4	580687	581784	W		2011-02-03	1996-07-31	Protein of unknown function; required for vacuolar acidification and mitochondrial genome maintenance; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000033047	CDS					YDR065W		4	580687	581784	W		2011-02-03	1996-07-31	
-S000002473	ORF	Verified	YDR066C	RTR2	putative protein-serine/threonine phosphatase	chromosome 4		4	582498	581908	C		2011-02-03	1996-07-31	Protein of unknown function; exhibits genetic interactions with Rtr1p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YDR066C is not an essential gene; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress; RTR2 has a paralog, RTR1, that arose from the whole genome duplication
-S000033084	CDS					YDR066C		4	582498	581908	C		2011-02-03	1996-07-31	
-S000002474	ORF	Uncharacterized	YDR067C	OCA6	protein-tyrosine-phosphatase	chromosome 4		4	583465	582791	C		2011-02-03	1996-07-31	Cytoplasmic protein required for replication of Brome mosaic virus; S. cerevisiae is a model system for studying positive-strand RNA virus replication; null mutation confers sensitivity to tunicamycin and DTT
-S000033843	CDS					YDR067C		4	583465	582791	C		2011-02-03	1996-07-31	
-S000002475	ORF	Verified	YDR068W	DOS2		chromosome 4	L000000518	4	583713	584645	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000034055	CDS					YDR068W		4	583713	584645	W		2011-02-03	1996-07-31	
-S000002476	ORF	Verified	YDR069C	DOA4	ubiquitin-specific protease DOA4|UBP4|SSV7|NPI2|MUT4|DOS1	chromosome 4	L000000514	4	587719	584939	C		2011-02-03	1996-07-31	Ubiquitin hydrolase; deubiquitinates intralumenal vesicle (ILVs) cargo proteins; required for recycling ubiquitin from proteasome-bound ubiquitinated intermediates, acts at the late endosome/prevacuolar compartment to recover ubiquitin from ubiquitinated membrane proteins destined for the vacuole; DOA4 has a paralog, UBP5, that arose from the whole genome duplication
-S000034891	CDS					YDR069C		4	587719	584939	C		2011-02-03	1996-07-31	
-S000002477	ORF	Verified	YDR070C	FMP16		chromosome 4		4	588379	588098	C		2011-02-03	1996-07-31	Protein of unknown function; may be involved in responding to conditions of stress; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress
-S000036234	CDS					YDR070C		4	588379	588098	C		2011-02-03	1996-07-31	
-S000002478	ORF	Verified	YDR071C	PAA1	polyamine acetyltransferase	chromosome 4		4	589402	588827	C		2011-02-03	1996-07-31	Polyamine acetyltransferase; acetylates polyamines (e.g. putrescine, spermidine, spermine) and also aralkylamines (e.g. tryptamine, phenylethylamine); may be involved in transcription and/or DNA replication
-S000036334	CDS					YDR071C		4	589402	588827	C		2011-02-03	1996-07-31	
-S000002479	ORF	Verified	YDR072C	IPT1	MIC2|inositolphosphotransferase|KTI6|SYR4	chromosome 4	L000004226|L000003534|S000029294	4	591344	589761	C		2011-02-03	1996-07-31	Inositolphosphotransferase; involved in synthesis of mannose-(inositol-P)2-ceramide (M(IP)2C), the most abundant sphingolipid; can mutate to resistance to the antifungals syringomycin E and DmAMP1 and to K. lactis zymocin
-S000037011	CDS					YDR072C		4	591344	589761	C		2011-02-03	1996-07-31	
-S000002480	ORF	Verified	YDR073W	SNF11		chromosome 4	L000003167	4	592439	592948	W		2011-02-03	1996-07-31	Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; interacts with a highly conserved 40-residue sequence of Snf2p; relocates to the cytosol under hypoxic conditions
-S000037137	CDS					YDR073W		4	592439	592948	W		2011-02-03	1996-07-31	
-S000002481	ORF	Verified	YDR074W	TPS2	trehalose-phosphatase TPS2|PFK3|HOG2	chromosome 4	L000002331	4	593893	596583	W		2011-02-03	1996-07-31	Phosphatase subunit of the trehalose-6-P synthase/phosphatase complex; involved in synthesis of the storage carbohydrate trehalose; expression is induced by stress conditions and repressed by the Ras-cAMP pathway; protein abundance increases in response to DNA replication stress
-S000037233	CDS					YDR074W		4	593893	596583	W		2011-02-03	1996-07-31	
-S000002482	ORF	Verified	YDR075W	PPH3	phosphoprotein phosphatase PP4 catalytic subunit PPH3	chromosome 4	L000001471	4	597156	598082	W	53	2011-02-03	1996-07-31	Catalytic subunit of protein phosphatase PP4 complex; Pph3p and Psy2p form active complex, Psy4p may provide substrate specificity; regulates recovery from the DNA damage checkpoint, the gene conversion- and single-strand annealing-mediated pathways of meiotic double-strand break repair and efficient Non-Homologous End-Joining (NHEJ) pathway; involved in activation of Gln3p to alleviate nitrogen catabolite repression; Pph3p and Psy2p localize to foci on meiotic chromosomes
-S000029904	CDS					YDR075W		4	597156	598082	W		2011-02-03	1996-07-31	
-S000002483	ORF	Verified	YDR076W	RAD55	putative DNA-dependent ATPase RAD55	chromosome 4	L000001575	4	598468	599688	W	53	2011-02-03	1996-07-31	Protein that stimulates strand exchange; stimulates strand exchange by stabilizing the binding of Rad51p to single-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; forms heterodimer with Rad57p
-S000030010	CDS					YDR076W		4	598468	599688	W		2011-02-03	1996-07-31	
-S000002484	ORF	Verified	YDR077W	SED1		chromosome 4	L000001859	4	600793	601809	W		2011-02-03	1996-07-31	Major stress-induced structural GPI-cell wall glycoprotein; associates with translating ribosomes, possible role in mitochondrial genome maintenance; ORF contains two distinct variable minisatellites; SED1 has a paralog, SPI1, that arose from the whole genome duplication
-S000030135	CDS					YDR077W		4	600793	601809	W		2011-02-03	1996-07-31	
-S000002485	ORF	Verified	YDR078C	SHU2		chromosome 4		4	602869	602198	C		2011-02-03	1996-07-31	Component of Shu complex (aka PCSS complex); Shu complex also includes Psy3, Csm2, Shu1, and promotes error-free DNA repair, Shu complex mediates inhibition of Srs2p function; promotes formation of Rad51p filaments; important for both mitotic and meiotic homologous recombination, and contains a conserved SWIM domain that is necessary for both
-S000030241	CDS					YDR078C		4	602869	602198	C		2011-02-03	1996-07-31	
-S000002486	ORF	Verified	YDR079W	PET100		chromosome 4	L000003521	4	603064	603399	W		2011-02-03	1996-07-31	Chaperone that facilitates the assembly of cytochrome c oxidase; integral to the mitochondrial inner membrane; interacts with a subcomplex of subunits VII, VIIa, and VIII (Cox7p, Cox9p, and Cox8p) but not with the holoenzyme
-S000031263	CDS					YDR079W		4	603064	603399	W		2011-02-03	1996-07-31	
-S000007603	ORF	Verified	YDR079C-A	TFB5	TFIIH complex subunit TFB5	chromosome 4		4	603811	603593	C		2011-02-03	2001-02-26	Component of RNA polymerase II general transcription factor TFIIH; involved in transcription initiation and in nucleotide-excision repair; relocalizes to the cytosol in response to hypoxia; homolog of Chlamydomonas reinhardtii REX1-S protein involved in DNA repair
-S000037149	CDS					YDR079C-A		4	603811	603593	C		2011-02-03	2001-02-26	
-S000002487	ORF	Verified	YDR080W	VPS41	VPL20|VAM2|SVL2|FET2|CVT8	chromosome 4	L000003512|L000004234	4	604008	606986	W		2011-02-03	1996-07-31	Subunit of the HOPS endocytic tethering complex; vacuole membrane protein that functions as a Rab GTPase effector, interacting specifically with the GTP-bound conformation of Ypt7p, facilitating tethering, docking and promoting membrane fusion events at the late endosome and vacuole; required for both membrane and protein trafficking; Yck3p-mediated phosphorylation regulates the organization of vacuolar fusion sites
-S000032217	CDS					YDR080W		4	604008	606986	W		2011-02-03	1996-07-31	
-S000002488	ORF	Verified	YDR081C	PDC2		chromosome 4	L000001355	4	610081	607304	C	50	2011-02-03	1996-07-31	Transcription factor for thiamine-regulated genes; required for expression of the two isoforms of pyruvate decarboxylase (PDC1 and PDC5) along with thiamine biosynthetic genes; binds a DNA sequence in the PDC5 promoter; mutant fails to grow on 2% glucose and thus is scored as inviable under standard conditions
-S000032243	CDS					YDR081C		4	610081	607304	C		2011-02-03	1996-07-31	
-S000002489	ORF	Verified	YDR082W	STN1		chromosome 4	L000003921	4	610441	611925	W		2011-02-03	1996-07-31	Telomere end-binding and capping protein; plays a key role with Pol12p in linking telomerase action with completion of lagging strand synthesis, and in a regulatory step required for telomere capping; similar to human Stn1
-S000032408	CDS					YDR082W		4	610441	611925	W		2011-02-03	1996-07-31	
-S000002490	ORF	Verified	YDR083W	RRP8	25S rRNA (adenine645-N1)-methyltransferase	chromosome 4		4	612073	613251	W		2011-02-03	2003-09-22|2006-01-19|1996-07-31	Nucleolar S-adenosylmethionine-dependent rRNA methyltransferase; methylates adenine (m1A) of the large subunit (LSU) rRNA at position 645; involved in pre-rRNA cleavage at site A2; mutation is synthetically lethal with a gar1 mutation; deletion disrupts telomere maintenance by influencing the expression of neighboring gene STN1
-S000033239	CDS					YDR083W		4	612073	613251	W		2011-02-03	2003-09-22|2006-01-19|1996-07-31	
-S000002491	ORF	Verified	YDR084C	TVP23		chromosome 4		4	614004	613405	C		2011-02-03	1996-07-31	Integral membrane protein; localized to late Golgi vesicles along with the v-SNARE Tlg2p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
-S000033277	CDS					YDR084C		4	614004	613405	C		2011-02-03	1996-07-31	
-S000002492	ORF	Verified	YDR085C	AFR1		chromosome 4	L000000059	4	616150	614288	C	47.97	2011-02-03	1996-07-31	Protein required for pheromone-induced projection (shmoo) formation; regulates septin architecture during mating; has an RVXF motif that mediates targeting of Glc7p to mating projections; interacts with Cdc12p; AFR1 has a paralog, YER158C, that arose from the whole genome duplication
-S000033345	CDS					YDR085C		4	616150	614288	C		2011-02-03	1996-07-31	
-S000002493	ORF	Verified	YDR086C	SSS1	translocon subunit SSS1	chromosome 4	L000002092	4	617170	616928	C		2011-02-03	1996-07-31	Subunit of the Sec61p translocation complex (Sec61p-Sss1p-Sbh1p); this complex forms a channel for passage of secretory proteins through the endoplasmic reticulum membrane, and of the Ssh1p complex (Ssh1p-Sbh2p-Sss1p); interacts with Ost4p and Wbp1p
-S000033427	CDS					YDR086C		4	617170	616928	C		2011-02-03	1996-07-31	
-S000002494	ORF	Verified	YDR087C	RRP1		chromosome 4	L000001774	4	618306	617470	C		2011-02-03	1996-07-31	Essential evolutionarily conserved nucleolar protein; necessary for biogenesis of 60S ribosomal subunits and for processing of pre-rRNAs to mature rRNA; associated with several distinct 66S pre-ribosomal particles
-S000034333	CDS					YDR087C		4	618306	617470	C		2011-02-03	1996-07-31	
-S000002495	ORF	Verified	YDR088C	SLU7	mRNA splicing protein SLU7|SLT17	chromosome 4	L000001922	4	619645	618497	C		2011-02-03	1996-07-31	RNA splicing factor; required for ATP-independent portion of 2nd catalytic step of spliceosomal RNA splicing; interacts with Prp18p; contains zinc knuckle domain
-S000034412	CDS					YDR088C		4	619645	618497	C		2011-02-03	1996-07-31	
-S000006700	tRNA_gene		tR(ACG)D			chromosome 4	L000003786	4	620041	619969	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000030369	noncoding_exon					tR(ACG)D		4	620041	619969	C		2011-02-03	2000-05-19	
-S000002496	ORF	Verified	YDR089W	VTC5		chromosome 4		4	622112	624721	W		2011-02-03	1996-07-31	Novel subunit of the vacuolar transporter chaperone complex; vacuolar transmembrane protein that regulates biosynthesis of polyphosphate; deletion reduces and overexpression increases polyP accumulation; SPX domain (Syg1, Pho81, Xpr1)-containing protein involved in phosphate homeostasis; relocalizes from vacuole to cytoplasm upon DNA replication stress
-S000035491	CDS					YDR089W		4	622112	624721	W		2011-02-03	1996-07-31	
-S000002497	ORF	Uncharacterized	YDR090C			chromosome 4		4	625998	625066	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000035405	CDS					YDR090C		4	625998	625066	C		2011-02-03	1996-07-31	
-S000002498	ORF	Verified	YDR091C	RLI1	Fe-S cluster-binding ribosome biosynthesis protein	chromosome 4		4	628534	626708	C		2011-02-03	1996-07-31	Essential Fe-S protein; required for ribosome biogenesis, translation initiation/termination; facilitates binding of multifactor complex (MFC) of initiation factors to small ribosomal subunit; Dom34-Hbs1 complex and Rli1p work in dissociating inactive ribosomes, thereby facilitating translation restart; forms complex with Lto1p and Yae1p; dependency on ROS-labile FeS clusters, activity in nuclear ribosomal-subunit export impaired by mild oxidative stress
-S000035466	CDS					YDR091C		4	628534	626708	C		2011-02-03	1996-07-31	
-S000130174	ARS		ARS420			chromosome 4		4	628938	629582			2014-11-18	2014-11-18|2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000002499	ORF	Verified	YDR092W	UBC13	E2  ubiquitin-conjugating protein UBC13	chromosome 4	L000003387	4	629876	630605	W		2011-02-03	1996-07-31	E2 ubiquitin-conjugating enzyme; involved in the error-free DNA postreplication repair pathway; interacts with Mms2p to assemble ubiquitin chains at the Ub Lys-63 residue; DNA damage triggers redistribution from the cytoplasm to the nucleus
-S000035560	CDS					YDR092W		4	629876	629905	W		2011-02-03	1996-07-31	
-S000035561	CDS					YDR092W		4	630174	630605	W		2011-02-03	1996-07-31	
-S000035562	intron					YDR092W		4	629906	630173	W		2011-02-03	1996-07-31	
-S000002500	ORF	Verified	YDR093W	DNF2	aminophospholipid-translocating P4-type ATPase DNF2	chromosome 4		4	631282	636120	W		2011-02-03	1996-07-31	Aminophospholipid translocase (flippase); type 4 P-type ATPase; involved in phospholipid translocation, contributing to endocytosis, protein transport, and cellular polarization; localizes primarily to the plasma membrane; localizes to the shmoo tip where it has a redundant role in the cellular response to mating pheromone; DNF2 has a paralog, DNF1, that arose from the whole genome duplication
-S000036482	CDS					YDR093W		4	631282	636120	W		2011-02-03	1996-07-31	
-S000002501	ORF	Dubious	YDR094W			chromosome 4		4	635840	636175	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF DNF2/YDR093W
-S000036554	CDS					YDR094W		4	635840	636175	W		2011-02-03	1996-07-31	
-S000002502	ORF	Dubious	YDR095C			chromosome 4		4	636527	636117	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036605	CDS					YDR095C		4	636527	636117	C		2011-02-03	1996-07-31	
-S000002503	ORF	Verified	YDR096W	GIS1	histone demethylase GIS1	chromosome 4	L000003351	4	637139	639823	W		2011-02-03	1996-07-31	Histone demethylase and transcription factor; regulates genes during nutrient limitation; activity modulated by proteasome-mediated proteolysis; has JmjC and JmjN domain in N-terminus that interact, promoting stability and proper transcriptional activity; contains two transactivating domains downstream of Jmj domains and a C-terminal DNA binding domain; relocalizes to the cytosol in response to hypoxia; GIS1 has a paralog, RPH1, that arose from the whole genome duplication
-S000037381	CDS					YDR096W		4	637139	639823	W		2011-02-03	1996-07-31	
-S000118437	ARS		ARS421		ARSIV-640	chromosome 4		4	640006	640072			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178070	ARS_consensus_sequence					ARS421		4	640062	640046	C		2014-11-18	2014-11-18	
-S000002504	ORF	Verified	YDR097C	MSH6	PMS6|mismatch repair ATPase MSH6|PMS3	chromosome 4	L000003135|L000004503|S000029377	4	643837	640109	C		2011-02-03	1996-07-31	Protein required for mismatch repair in mitosis and meiosis; forms a complex with Msh2p to repair both single-base & insertion-deletion mispairs; also involved in interstrand cross-link repair; potentially phosphorylated by Cdc28p
-S000037420	CDS					YDR097C		4	643837	640109	C		2011-02-03	1996-07-31	
-S000002505	ORF	Verified	YDR098C	GRX3	monothiol glutaredoxin GRX3	chromosome 4	S000007444	4	644930	644178	C		2014-11-18	1996-07-31|2014-11-18	Glutathione-dependent oxidoreductase; hydroperoxide and superoxide-radical responsive; monothiol glutaredoxin subfamily member along with Grx4p and Grx5p; protects cells from oxidative damage; with Grx4p, binds to Aft1p in iron-replete conditions, promoting its dissociation from promoters; evidence exists indicating that the translation start site is not Met1 as currently annotated, but rather Met36; GRX3 has a paralog, GRX4, that arose from the whole genome duplication
-S000037543	CDS					YDR098C		4	644930	644178	C		2014-11-18	1996-07-31|2014-11-18	
-S000006694	tRNA_gene		tQ(UUG)D2			chromosome 4	L000003785	4	645224	645153	C		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034810	noncoding_exon					tQ(UUG)D2		4	645224	645153	C		2011-02-03	2000-05-19	
-S000006850	long_terminal_repeat		YDRCdelta7			chromosome 4		4	645835	645502	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007391	transposable_element_gene		YDR098C-B		gag-pol fusion protein	chromosome 4		4	651126	645858	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000032257	CDS					YDR098C-B		4	649820	645858	C		2011-02-03	1999-07-17	
-S000032256	CDS					YDR098C-B		4	651126	649822	C		2011-02-03	1999-07-17	
-S000032258	plus_1_translational_frameshift					YDR098C-B		4	649821	649821	C		2011-02-03	1999-07-17	
-S000007390	transposable_element_gene		YDR098C-A		gag protein	chromosome 4		4	651126	649804	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000032236	CDS					YDR098C-A		4	651126	649804	C		2011-02-03	1999-07-17	
-S000006859	LTR_retrotransposon		YDRCTy1-1		Ty1	chromosome 4		4	651419	645502	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000006851	long_terminal_repeat		YDRCdelta8			chromosome 4		4	651419	651086	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006855	long_terminal_repeat		YDRCsigma1			chromosome 4		4	651503	651420	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006852	long_terminal_repeat		YDRCdelta9			chromosome 4		4	651980	651682	C		2011-02-03	2000-05-19	Ty1 LTR
-S000002506	ORF	Verified	YDR099W	BMH2	14-3-3 family protein BMH2|SCD3	chromosome 4	L000000186	4	653607	654428	W	63	2011-02-03	1996-07-31	14-3-3 protein, minor isoform; controls proteome at post-transcriptional level, binds proteins and DNA, involved in regulation of many processes including exocytosis, vesicle transport, Ras/MAPK signaling, and rapamycin-sensitive signaling; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; abundance relative to Bmh1p increases during sporulation
-S000030398	CDS					YDR099W		4	653607	654428	W		2011-02-03	1996-07-31	
-S000122095	five_prime_UTR_intron					YDR099W		4	652781	653523	W		2011-02-03	2007-04-04	
-S000002507	ORF	Verified	YDR100W	TVP15		chromosome 4		4	655013	655444	W		2011-02-03	1996-07-31	Integral membrane protein; localized to late Golgi vesicles along with the v-SNARE Tlg2p
-S000035845	CDS					YDR100W		4	655013	655444	W		2011-02-03	1996-07-31	
-S000002508	ORF	Verified	YDR101C	ARX1	putative hydrolase	chromosome 4		4	657467	655686	C		2011-02-03	1996-07-31	Nuclear export factor for the ribosomal pre-60S subunit; shuttling factor which directly binds FG rich nucleoporins and facilities translocation through the nuclear pore complex; interacts directly with Alb1p; responsible for Tif6p recycling defects in the absence of Rei1; associated with the ribosomal export complex
-S000035887	CDS					YDR101C		4	657467	655686	C		2011-02-03	1996-07-31	
-S000002509	ORF	Uncharacterized	YDR102C			chromosome 4		4	657980	657648	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR102C is not an essential gene; homozygous diploid deletion strain exhibits high budding index
-S000036020	CDS					YDR102C		4	657980	657648	C		2011-02-03	1996-07-31	
-S000002510	ORF	Verified	YDR103W	STE5	NUL3|HMD3	chromosome 4	L000002115	4	658350	661103	W	63	2011-02-03	1996-07-31	Pheromone-responsive MAPK scaffold protein; couples activation of the G-protein-coupled pheromone receptor to MAPK activation; intramolecular interaction of PH and VWA domains blocks activation of assembled signaling cascade components (Ste11p, Ste7p and Fus3p) under basal conditions; Gbeta-gamma (Ste4p-Ste18p)-dependent docking at the plasma membrane and binding of PI(4,5)P2 by the PH domain relieves autoinhibition, resulting in pheromone-dependent pathway activation
-S000036909	CDS					YDR103W		4	658350	661103	W		2011-02-03	1996-07-31	
-S000002511	ORF	Verified	YDR104C	SPO71		chromosome 4		4	664910	661173	C		2011-02-03	1996-07-31	Meiosis-specific protein required for prospore membrane morphogenesis; localizes to the prospore membrane (PSM) during sporulation; required for PSM elongation and closure; genetically antagonistic to SPO1; recruits Vps13p to the PSM during sporulation; interacts and functions cooperatively with Spo73p; mutants have defects in the PSM, aberrant spore wall formation and reduced PtdIns-phosphate pools in the PSM; contains three PH-like domains
-S000036931	CDS					YDR104C		4	664910	661173	C		2011-02-03	1996-07-31	
-S000002512	ORF	Verified	YDR105C	TMS1		chromosome 4		4	666770	665349	C		2011-02-03	1996-07-31	Vacuolar membrane protein of unknown function; is conserved in mammals; predicted to contain eleven transmembrane helices; interacts with Pdr5p, a protein involved in multidrug resistance
-S000036992	CDS					YDR105C		4	666770	665349	C		2011-02-03	1996-07-31	
-S000002513	ORF	Verified	YDR106W	ARP10		chromosome 4	L000003439	4	667004	667858	W		2011-02-03	1996-07-31	Component of the dynactin complex; localized to the pointed end of the Arp1p filament; may regulate membrane association of the complex
-S000037120	CDS					YDR106W		4	667004	667858	W		2011-02-03	1996-07-31	
-S000006601	tRNA_gene		tI(AAU)D			chromosome 4	L000003784	4	668080	668007	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000030399	noncoding_exon					tI(AAU)D		4	668080	668007	C		2011-02-03	2000-05-19	
-S000006856	long_terminal_repeat		YDRWsigma2		YDRCsigma2	chromosome 4		4	668096	668436	W		2011-02-03	2000-05-19|2007-04-02	Ty3 LTR
-S000006864	long_terminal_repeat		YDRWdelta10			chromosome 4		4	668543	668784	W		2011-02-03	2000-05-19	Ty1 LTR
-S000002514	ORF	Verified	YDR107C	TMN2		chromosome 4		4	671034	669016	C		2011-02-03	1996-07-31	Protein with a role in cellular adhesion and filamentous growth; similar to Tmn3p; member of the evolutionarily conserved Transmembrane Nine family of proteins with nine membrane-spanning segments; TMN2 has a paralog, EMP70, that arose from the whole genome duplication
-S000037823	CDS					YDR107C		4	671034	669016	C		2011-02-03	1996-07-31	
-S000002515	ORF	Verified	YDR108W	TRS85	GSG1|MUM1	chromosome 4	L000002779|S000029315|L000002585	4	671269	673365	W		2011-02-03	1996-07-31	Component of transport protein particle (TRAPP) complex III; TRAPPIII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating endosome-Golgi traffic and required for membrane expansion during autophagy and the CVT pathway; directs Ypt1p to the PAS; late post-replication meiotic role
-S000029911	CDS					YDR108W		4	671269	673365	W		2011-02-03	1996-07-31	
-S000002516	ORF	Uncharacterized	YDR109C		putative phosphotransferase	chromosome 4		4	675667	673520	C		2011-02-03	1996-07-31	Putative kinase
-S000029962	CDS					YDR109C		4	675667	673520	C		2011-02-03	1996-07-31	
-S000002517	ORF	Verified	YDR110W	FOB1	replication fork barrier binding protein FOB1|HRM1	chromosome 4	L000003959	4	676102	677802	W		2011-02-03	1996-07-31	Nucleolar protein that binds the rDNA replication fork barrier site; required for replication fork blocking, recombinational hotspot activity, condensin recruitment to replication fork barrier (RFB), and rDNA repeat segregation; related to retroviral integrases
-S000031039	CDS					YDR110W		4	676102	677802	W		2011-02-03	1996-07-31	
-S000002519	ORF	Dubious	YDR112W	IRC2		chromosome 4		4	679544	679852	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ALT2/YDR111C; null mutant displays increased levels of spontaneous Rad52p foci
-S000032093	CDS					YDR112W		4	679544	679852	W		2011-02-03	1996-07-31	
-S000002518	ORF	Uncharacterized	YDR111C	ALT2	alanine transaminase ALT2	chromosome 4		4	679764	678241	C		2011-02-03	1996-07-31	Catalytically inactive alanine transaminase; expression is repressed in the presence of alanine and repression is mediated by Nrg1p; ALT2 has a paralog, ALT1, that arose from the whole genome duplication
-S000031067	CDS					YDR111C		4	679764	678241	C		2011-02-03	1996-07-31	
-S000002520	ORF	Verified	YDR113C	PDS1	securin	chromosome 4	L000001368	4	681617	680496	C		2011-02-03	1996-07-31	Securin; inhibits anaphase by binding separin Esp1p; blocks cyclin destruction and mitotic exit, essential for meiotic progression and mitotic cell cycle arrest; localization is cell-cycle dependent and regulated by Cdc28p phosphorylation
-S000032118	CDS					YDR113C		4	681617	680496	C		2011-02-03	1996-07-31	
-S000002522	ORF	Verified	YDR115W	MRX14	putative mitochondrial 54S ribosomal protein	chromosome 4		4	682175	682492	W		2011-02-03	1996-07-31	Putative mitochondrial ribosomal protein of the large subunit; similar to E. coli L34 ribosomal protein; required for respiratory growth, as are most mitochondrial ribosomal proteins; protein increases in abundance and relocalizes to the plasma membrane upon DNA replication stress
-S000032311	CDS					YDR115W		4	682175	682492	W		2011-02-03	1996-07-31	
-S000002521	ORF	Uncharacterized	YDR114C			chromosome 4		4	682226	681924	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant exhibits poor growth at elevated pH and calcium
-S000032200	CDS					YDR114C		4	682226	681924	C		2011-02-03	1996-07-31	
-S000002523	ORF	Verified	YDR116C	MRPL1	mitochondrial 54S ribosomal protein MRPL1	chromosome 4		4	683581	682724	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000033144	CDS					YDR116C		4	683581	682724	C		2011-02-03	1996-07-31	
-S000002524	ORF	Verified	YDR117C	TMA64	RBF64	chromosome 4		4	685643	683946	C		2011-02-03	1996-07-31	Protein of unknown function that associates with ribosomes; has a putative RNA binding domain; in mammals the corresponding protein, eIF2D, has been shown to possess translation initiation factor activity
-S000033197	CDS					YDR117C		4	685643	683946	C		2011-02-03	1996-07-31	
-S000002525	ORF	Verified	YDR118W	APC4	anaphase promoting complex subunit 4	chromosome 4	L000004319	4	685882	687840	W		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; component of the platform domain of the APC/C, based on structural analysis; relative distribution to the nucleus increases upon DNA replication stress
-S000033282	CDS					YDR118W		4	685882	687840	W		2011-02-03	1996-07-31	
-S000028820	ORF	Dubious	YDR118W-A			chromosome 4		4	687768	687884	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified using a combination of expression profiling and mass spectrometry
-S000033639	CDS					YDR118W-A		4	687768	687884	W		2011-02-03	2003-07-29	
-S000002526	ORF	Uncharacterized	YDR119W	VBA4		chromosome 4		4	688227	690533	W		2011-02-03	1996-07-31	Protein of unknown function; proposed role as a basic amino acid permease based on phylogeny; GFP-fusion protein localizes to vacuolar membrane; physical interaction with Atg27p suggests a possible role in autophagy; non-essential gene
-S000034153	CDS					YDR119W		4	688227	690533	W		2011-02-03	1996-07-31	
-S000113555	ORF	Verified	YDR119W-A	COX26		chromosome 4		4	691014	691214	W		2011-02-03	2005-11-16	Stabilizes or regulates formation of respiratory chain supercomplexes composed of Complex III (ubiquinol-cytochrome c reductase) and Complex IV (cytochrome c oxidase)
-S000113556	CDS					YDR119W-A		4	691014	691214	W		2011-02-03	2005-11-16	
-S000002527	ORF	Verified	YDR120C	TRM1	tRNA (guanine26-N2)-dimethyltransferase	chromosome 4	L000002337	4	693261	691549	C		2011-02-03	1996-07-31	tRNA methyltransferase; two forms of protein are made by alternative translation starts; localizes to both nucleus and mitochondrion to produce modified base N2,N2-dimethylguanosine in tRNAs in both compartments; nuclear Trm1p is evenly distributed around inner nuclear membrane in WT, but mislocalizes as puncta near ER-nucleus junctions in spindle pole body (SPB) mutants; both Trm1p inner nuclear membrane targeting and maintenance depend upon SPB
-S000035345	CDS					YDR120C		4	693261	691549	C		2011-02-03	1996-07-31	
-S000002528	ORF	Verified	YDR121W	DPB4	DNA polymerase epsilon noncatalytic subunit	chromosome 4	S000007463	4	693585	694175	W		2011-02-03	1996-07-31	Subunit of DNA pol epsilon and of ISW2 chromatin accessibility complex; involved in both chromosomal DNA replication and inheritance of telomeric silencing; stabilizes the interaction of Pol epsilon with primer-template DNA, positively affecting the processivity of the polymerase and exonuclease activities of Pol epsilon; interacts with extranucleosomal DNA and acts as anchor point for ISW2 complex that retains its position on DNA during nucleosome mobilization
-S000035456	CDS					YDR121W		4	693585	694175	W		2011-02-03	1996-07-31	
-S000002529	ORF	Verified	YDR122W	KIN1	serine/threonine protein kinase KIN1	chromosome 4	L000000901	4	694700	697894	W		2011-02-03	1996-07-31	Serine/threonine protein kinase involved in regulation of exocytosis; localizes to the cytoplasmic face of the plasma membrane; KIN1 has a paralog, KIN2, that arose from the whole genome duplication
-S000036387	CDS					YDR122W		4	694700	697894	W		2011-02-03	1996-07-31	
-S000002530	ORF	Verified	YDR123C	INO2	SCS1|DIE1	chromosome 4	L000000868|L000002801	4	699468	698554	C		2011-02-03	1996-07-31	Transcription factor; component of the heteromeric Ino2p/Ino4p basic helix-loop-helix transcription activator that binds inositol/choline-responsive elements (ICREs), required for derepression of phospholipid biosynthetic genes in response to inositol depletion; involved in diauxic shift
-S000036420	CDS					YDR123C		4	699468	698554	C		2011-02-03	1996-07-31	
-S000002531	ORF	Uncharacterized	YDR124W			chromosome 4		4	700315	701289	W		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene; expression is strongly induced by alpha factor
-S000036553	CDS					YDR124W		4	700315	701289	W		2011-02-03	1996-07-31	
-S000002532	ORF	Verified	YDR125C	ECM18	alpha/beta hydrolase family protein	chromosome 4	L000003893	4	702758	701397	C		2011-02-03	1996-07-31	Protein of unknown function; ECM18 has a paralog, ICT1, that arose from the whole genome duplication
-S000036581	CDS					YDR125C		4	702758	701397	C		2011-02-03	1996-07-31	
-S000114834	ARS		ARS422	ARS422	ARSIV-703|ARO1 ARS	chromosome 4		4	702887	703132			2011-02-03	2006-09-08|2006-04-12	Autonomously Replicating Sequence
-S000178071	ARS_consensus_sequence					ARS422		4	702924	702940	W		2014-11-18	2014-11-18	
-S000002533	ORF	Verified	YDR126W	SWF1	palmitoyltransferase SWF1|PSL10	chromosome 4		4	703234	704244	W		2011-02-03	1996-07-31	Palmitoyltransferase that acts on transmembrane proteins; including the SNAREs Snc1p, Syn8p, Tlg1p and likely all SNAREs; contains an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; may have a role in vacuole fusion
-S000037340	CDS					YDR126W		4	703234	704244	W		2011-02-03	1996-07-31	
-S000002534	ORF	Verified	YDR127W	ARO1	pentafunctional protein ARO1p	chromosome 4	L000000116	4	704484	709250	W	81	2011-02-03	1996-07-31	Pentafunctional arom protein; catalyzes steps 2 through 6 in the biosynthesis of chorismate, which is a precursor to aromatic amino acids
-S000037463	CDS					YDR127W		4	704484	709250	W		2011-02-03	1996-07-31	
-S000002535	ORF	Verified	YDR128W	MTC5	SEA3	chromosome 4		4	709549	712995	W		2011-02-03	1996-07-31	Subunit of SEACAT, a subcomplex of the SEA complex; Mtc1p, along with Rtc1p and Sea4p, redundantly inhibit the TORC1 inhibitory role of the Iml1p/SEACIT (Iml1p-Npr2p-Npr3p) subcomplex, a GAP for GTPase Gtr1p (EGOC subunit) in response to amino acid limitation, thereby resulting in activation of TORC1 signaling; SEA is a coatomer-related complex that associates dynamically with the vacuole; relative distribution to the vacuolar membrane decreases upon DNA replication stress
-S000030151	CDS					YDR128W		4	709549	712995	W		2011-02-03	1996-07-31	
-S000002536	ORF	Verified	YDR129C	SAC6	fimbrin|ABP67	chromosome 4	L000001793	4	715379	713340	C	84	2011-02-03	1996-07-31	Fimbrin, actin-bundling protein; cooperates with Scp1p in organization and maintenance of the actin cytoskeleton; phosphorylated by Cdc28p/Clb2p in metaphase on T103, to regulate conformation, and modulate actin filament binding affinity and actin cable dynamics; relocalizes from the plasma membrane to the cytoplasm upon DNA replication stress; human homologs PLS3 and LCP1 implicated in spinocerebellar ataxia type 2 (SCA2) can each complement yeast null mutant
-S000030258	CDS					YDR129C		4	715247	713340	C		2011-02-03	1996-07-31	
-S000030257	CDS					YDR129C		4	715379	715359	C		2011-02-03	1996-07-31	
-S000030259	intron					YDR129C		4	715358	715248	C		2011-02-03	1996-07-31	
-S000002537	ORF	Verified	YDR130C	FIN1		chromosome 4		4	716622	715747	C		2011-02-03	1996-07-31	Spindle pole body-related intermediate filament protein; forms cell cycle-specific filaments between spindle pole bodies in dividing cells; localizes to poles and microtubules of spindle during anaphase and contributes to spindle stability; involved in Glc7p localization and regulation; relative distribution to the nucleus increases upon DNA replication stress
-S000030642	CDS					YDR130C		4	716622	715747	C		2011-02-03	1996-07-31	
-S000002538	ORF	Verified	YDR131C			chromosome 4		4	718460	716790	C		2011-02-03	1996-07-31	F-box protein subunit of SCF ubiquitin ligase complex; substrate-specific adaptor subunit that recruits substrates to a core ubiquitination complex
-S000030724	CDS					YDR131C		4	718460	716790	C		2011-02-03	1996-07-31	
-S000002539	ORF	Verified	YDR132C			chromosome 4		4	720303	718816	C		2011-02-03	1996-07-31	Protein of unknown function; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; YDR132C has a paralog, YLR108C, that arose from the whole genome duplication
-S000031561	CDS					YDR132C		4	720303	718816	C		2011-02-03	1996-07-31	
-S000002540	ORF	Dubious	YDR133C			chromosome 4		4	721297	720962	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps YDR134C
-S000031648	CDS					YDR133C		4	721297	720962	C		2011-02-03	1996-07-31	
-S000002541	blocked_reading_frame		YDR134C			chromosome 4		4	721481	721071	C		2011-02-03	1996-07-31	Cell wall protein; YDR134C has a paralog, CCW12, that arose from the whole genome duplication; S. cerevisiae genome reference strain S288C contains an internal in-frame stop at codon 67, which in other strains encodes glutamine
-S000031764	CDS					YDR134C		4	721481	721071	C		2011-02-03	1996-07-31	
-S000002542	ORF	Verified	YDR135C	YCF1	ATP-binding cassette glutathione S-conjugate transporter YCF1	chromosome 4	L000002499	4	727551	723004	C		2011-02-03	1996-07-31	Vacuolar glutathione S-conjugate transporter; ABC-C transporter of the ATP-binding cassette family; required for vacuole fusion; forms stable complexes with vacuole fusion machinery; regulates Vam7p recruitment to vacuoles; role in detoxifying metals (Cd, Hg, As); transports GSSG that is not immediately reduced in cytosol to vacuole; transports unconjugated bilirubin, selenodigluthatione, oxidized glutathione; similar to human cystic fibrosis protein CFTR
-S000031914	CDS					YDR135C		4	727551	723004	C		2011-02-03	1996-07-31	
-S000002544	ORF	Verified	YDR137W	RGP1		chromosome 4	L000001628	4	728259	730250	W	82	2011-02-03	1996-07-31	Subunit of a Golgi membrane exchange factor (Ric1p-Rgp1p); this complex catalyzes nucleotide exchange on Ypt6p
-S000032960	CDS					YDR137W		4	728259	730250	W		2011-02-03	1996-07-31	
-S000002543	ORF	Dubious	YDR136C	VPS61		chromosome 4		4	728283	727711	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 4% of ORF overlaps the verified gene RGP1; deletion causes a vacuolar protein sorting defect
-S000032795	CDS					YDR136C		4	728283	727711	C		2011-02-03	1996-07-31	
-S000002545	ORF	Verified	YDR138W	HPR1	TRF1	chromosome 4	L000000808	4	730578	732836	W	82	2011-02-03	1996-07-31	Subunit of THO/TREX complexes; this complex couple transcription elongation with mitotic recombination and with mRNA metabolism and export, subunit of an RNA Pol II complex; regulates lifespan; involved in telomere maintenance; similar to Top1p
-S000033050	CDS					YDR138W		4	730578	732836	W		2011-02-03	1996-07-31	
-S000002546	ORF	Verified	YDR139C	RUB1	NEDD8 family protein RUB1	chromosome 4	L000003330|L000004485	4	733924	733618	C		2011-02-03	2000-12-01|1996-07-31	Ubiquitin-like protein with similarity to mammalian NEDD8; conjugation (neddylation) substrates include the cullins Cdc53p, Rtt101p, and Cul3p; activated by Ula1p and Uba3p (E1 enzyme pair); conjugation mediated by Ubc12p (E2 enzyme)
-S000033098	CDS					YDR139C		4	733702	733618	C		2011-02-03	2000-12-01|1996-07-31	
-S000033097	CDS					YDR139C		4	733924	733776	C		2011-02-03	2000-12-01|1996-07-31	
-S000033099	intron					YDR139C		4	733775	733703	C		2011-02-03	2000-12-01|1996-07-31	
-S000002547	ORF	Verified	YDR140W	MTQ2	S-adenosylmethionine-dependent methyltransferase	chromosome 4		4	734138	734803	W		2011-02-03	1996-07-31	S-adenosylmethionine-dependent methyltransferase; subunit of complex with Trm112p that methylates translation release factor Sup45p (eRF1) in the ternary complex eRF1-eRF3-GTP; similar to E.coli PrmC; member of the seven beta-strand family
-S000036021	CDS					YDR140W		4	734138	734803	W		2011-02-03	1996-07-31	
-S000002548	ORF	Verified	YDR141C	DOP1		chromosome 4		4	739997	734901	C		2011-02-03	1996-07-31	Golgi-localized, leucine-zipper domain containing protein; involved in endosome to Golgi transport, organization of the ER, establishing cell polarity, and morphogenesis; detected in highly purified mitochondria in high-throughput studies
-S000036047	CDS					YDR141C		4	739997	734901	C		2011-02-03	1996-07-31	
-S000002549	ORF	Verified	YDR142C	PEX7	PEB1|PAS7	chromosome 4	L000001340	4	741600	740473	C		2011-02-03	1996-07-31	Peroxisomal signal receptor for peroxisomal matrix proteins; recognizes the N-terminal nonapeptide signal (PTS2); WD repeat protein; defects in human homolog cause lethal rhizomelic chondrodysplasia punctata (RCDP)
-S000036136	CDS					YDR142C		4	741600	740473	C		2011-02-03	1996-07-31	
-S000002550	ORF	Verified	YDR143C	SAN1	ubiquitin-protein ligase SAN1	chromosome 4	L000001800	4	743874	742042	C		2011-02-03	1996-07-31	Ubiquitin-protein ligase; involved in proteasome-dependent degradation of aberrant nuclear proteins; targets substrates with regions of exposed hydrophobicity containing 5 or more contiguous hydrophobic residues; contains intrinsically disordered regions that contribute to substrate recognition; prefers a window of exposed hydrophobicity that causes a particular level of protein insolubility, suggesting that San1p evolved to target highly aggregation-prone proteins
-S000036257	CDS					YDR143C		4	743874	742042	C		2011-02-03	1996-07-31	
-S000002551	ORF	Verified	YDR144C	MKC7	aspartyl protease|YPS2	chromosome 4	L000003069	4	746101	744311	C		2011-02-03	1996-07-31	GPI-anchored aspartyl protease; member of the yapsin family of proteases involved in cell wall growth and maintenance; shares functions with Yap3p and Kex2p; MKC7 has a paralog, YPS1, that arose from the whole genome duplication
-S000036336	CDS					YDR144C		4	746101	744311	C		2011-02-03	1996-07-31	
-S000002552	ORF	Verified	YDR145W	TAF12	TafII61|TafII68|TAF68|TAF61	chromosome 4	L000003462	4	746738	748357	W		2011-02-03	1996-07-31	Subunit (61/68 kDa) of TFIID and SAGA complexes; involved in RNA polymerase II transcription initiation and in chromatin modification, similar to histone H2A; overexpression of the human ortholog, TAF12, an oncogene involved in the formation of choroid plexus carcinomas, results in dosage chromosomal instability (dCIN) in a human cell line similar to the dCIN observed in yeast overexpressors
-S000037046	CDS					YDR145W		4	746738	748357	W		2011-02-03	1996-07-31	
-S000119070	ARS		ARS451		ARSIV-748|ARS422.5	chromosome 4		4	748392	748637			2011-02-03	2006-10-05	Autonomously Replicating Sequence
-S000178072	ARS_consensus_sequence					ARS451		4	748456	748472	W		2014-11-18	2014-11-18	
-S000002553	ORF	Verified	YDR146C	SWI5	DNA-binding transcription factor SWI5	chromosome 4	L000002253	4	750742	748613	C		2011-02-03	1996-07-31	Transcription factor that recruits Mediator and Swi/Snf complexes; activates transcription of genes expressed at the M/G1 phase boundary and in G1 phase; required for expression of the HO gene controlling mating type switching; localization to nucleus occurs during G1 and appears to be regulated by phosphorylation by Cdc28p kinase; SWI5 has a paralog, ACE2, that arose from the whole genome duplication
-S000037075	CDS					YDR146C		4	750742	748613	C		2011-02-03	1996-07-31	
-S000002554	ORF	Verified	YDR147W	EKI1	bifunctional choline kinase/ethanolamine kinase EKI1	chromosome 4	L000004610	4	751631	753235	W		2011-02-03	1996-07-31	Ethanolamine kinase; primarily responsible for phosphatidylethanolamine synthesis via the CDP-ethanolamine pathway; exhibits some choline kinase activity, thus contributing to phosphatidylcholine synthesis via the CDP-choline pathway; EKI1 has a paralog, CKI1, that arose from the whole genome duplication
-S000037235	CDS					YDR147W		4	751631	753235	W		2011-02-03	1996-07-31	
-S000118438	ARS		ARS423		ARSIV-753	chromosome 4		4	753242	753386			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178073	ARS_consensus_sequence					ARS423		4	753333	753317	C		2014-11-18	2014-11-18	
-S000002555	ORF	Verified	YDR148C	KGD2	alpha-ketoglutarate dehydrogenase KGD2	chromosome 4	L000000898	4	755066	753675	C		2011-02-03	1996-07-31	Dihydrolipoyl transsuccinylase; component of the mitochondrial alpha-ketoglutarate dehydrogenase complex, which catalyzes the oxidative decarboxylation of alpha-ketoglutarate to succinyl-CoA in the TCA cycle; phosphorylated
-S000037302	CDS					YDR148C		4	755066	753675	C		2011-02-03	1996-07-31	
-S000002557	ORF	Verified	YDR150W	NUM1	PAC12	chromosome 4	L000001287	4	755628	763874	W		2011-02-03	1996-07-31	Protein required for nuclear migration; component of the mitochondria-ER-cortex-ancor (MECA); required for the association of mitochondria with the cell cortex and for accurate distribution of mitochondrial network; interacts with Mdm36p to link the ER and mitochondria at the cortex; localizes to the mother cell cortex and the bud tip; may mediate interactions of dynein and cytoplasmic microtubules with the cell cortex
-S000031071	CDS					YDR150W		4	755628	763874	W		2011-02-03	1996-07-31	
-S000002556	ORF	Dubious	YDR149C			chromosome 4		4	756262	755555	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene NUM1/YDR150W; null mutation blocks anaerobic growth
-S000029951	CDS					YDR149C		4	756262	755555	C		2011-02-03	1996-07-31	
-S000002558	ORF	Verified	YDR151C	CTH1	putative mRNA-binding protein CTH1	chromosome 4	L000002772	4	765155	764178	C		2011-02-03	1996-07-31	Member of the CCCH zinc finger family; similar to mammalian Tis11 protein, which activates transcription and also has a role in mRNA degradation; may function with Tis11p in iron homeostasis; CTH1 has a paralog, TIS11, that arose from the whole genome duplication
-S000031106	CDS					YDR151C		4	765155	764178	C		2011-02-03	1996-07-31	
-S000002559	ORF	Verified	YDR152W	GIR2		chromosome 4		4	765706	766503	W		2011-02-03	1996-07-31	Highly-acidic RWD domain-containing cytoplasmic protein; forms a highly conserved complex with Rbg2p that is responsible for efficient cell growth under amino acid starvation and binds translational activator Gcn1p in dose-dependent manner according to stress level; associates with translating ribosomes; intrinsically unstructured protein whose stability is enhanced upon binding Rbg2p
-S000031232	CDS					YDR152W		4	765706	766503	W		2011-02-03	1996-07-31	
-S000002560	ORF	Verified	YDR153C	ENT5		chromosome 4		4	767971	766736	C		2011-02-03	1996-07-31	Protein containing an N-terminal epsin-like domain; involved in clathrin recruitment and traffic between the Golgi and endosomes; associates with the clathrin adaptor Gga2p, clathrin adaptor complex AP-1, and clathrin
-S000032164	CDS					YDR153C		4	767971	766736	C		2011-02-03	1996-07-31	
-S000002561	ORF	Dubious	YDR154C			chromosome 4		4	768753	768403	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant exhibits synthetic phenotype with alpha-synuclein
-S000032245	CDS					YDR154C		4	768753	768403	C		2011-02-03	1996-07-31	
-S000002562	ORF	Verified	YDR155C	CPR1	peptidylprolyl isomerase CPR1|CPH1|CYP1	chromosome 4	L000002663	4	769000	768512	C		2011-02-03	1996-07-31	Cytoplasmic peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; binds the drug cyclosporin A; N-terminally propionylated in vivo; protein abundance increases in response to DNA replication stress
-S000032345	CDS					YDR155C		4	769000	768512	C		2011-02-03	1996-07-31	
-S000002563	ORF	Verified	YDR156W	RPA14	DNA-directed RNA polymerase I subunit RPA14|A14	chromosome 4	L000002883	4	769525	769938	W		2011-02-03	1996-07-31	RNA polymerase I subunit A14
-S000033241	CDS					YDR156W		4	769525	769938	W		2011-02-03	1996-07-31	
-S000002564	ORF	Dubious	YDR157W			chromosome 4		4	769931	770332	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033302	CDS					YDR157W		4	769931	770332	W		2011-02-03	1996-07-31	
-S000002565	ORF	Verified	YDR158W	HOM2	aspartate-semialdehyde dehydrogenase|THR2	chromosome 4	L000000799	4	770357	771454	W	92	2011-02-03	1996-07-31	Aspartic beta semi-aldehyde dehydrogenase; catalyzes the second step in the common pathway for methionine and threonine biosynthesis; expression regulated by Gcn4p and the general control of amino acid synthesis
-S000033370	CDS					YDR158W		4	770357	771454	W		2011-02-03	1996-07-31	
-S000002566	ORF	Verified	YDR159W	SAC3	LEP1	chromosome 4	L000001792	4	771877	775782	W	92	2011-02-03	1996-07-31	mRNA export factor; required for biogenesis of the small ribosomal subunit; component of TREX-2 complex (Sac3p-Thp1p-Sus1p-Cdc31p) involved in transcription elongation and mRNA export from the nucleus; involved in post-transcriptional tethering of active genes to the nuclear periphery and to non-nascent mRNP; similar to the human germinal center-associated nuclear protein (GANP)
-S000034282	CDS					YDR159W		4	771877	775782	W		2011-02-03	1996-07-31	
-S000002567	ORF	Verified	YDR160W	SSY1	RAA1|SHR10	chromosome 4	L000004190|L000003184|S000029399|L000001553	4	776163	778721	W	92	2011-02-03	1996-07-31	Component of the SPS plasma membrane amino acid sensor system; senses external amino acid concentration and transmits intracellular signals that result in regulation of expression of amino acid permease genes; other members are Ssy1p, Ptr3p, and Ssy5p
-S000034346	CDS					YDR160W		4	776163	778721	W		2011-02-03	1996-07-31	
-S000002568	ORF	Verified	YDR161W	ACL4		chromosome 4	L000004169	4	779043	780206	W		2011-02-03	1996-07-31	Specific assembly chaperone for ribosomal protein Rpl4p; binds to an evolutionarily conserved surface extension of nascent Rpl4p and chaperones Rpl4p until its assembly into the pre-ribosome; transcriptionally co-regulated with rRNA and ribosome biosynthesis genes
-S000035308	CDS					YDR161W		4	779043	780206	W		2011-02-03	1996-07-31	
-S000002569	ORF	Verified	YDR162C	NBP2		chromosome 4	L000002861	4	781100	780390	C		2011-02-03	1996-07-31	Protein involved in the HOG (high osmolarity glycerol) pathway; negatively regulates Hog1p by recruitment of phosphatase Ptc1p the Pbs2p-Hog1p complex; interacts with Bck1p and down regulates the cell wall integrity pathway; found in the nucleus and cytoplasm, contains an SH3 domain and a Ptc1p binding domain (PBM)
-S000035337	CDS					YDR162C		4	781100	780390	C		2011-02-03	1996-07-31	
-S000002570	ORF	Verified	YDR163W	CWC15	U2-type spliceosomal complex subunit CWC15	chromosome 4		4	781423	781950	W		2011-02-03	1996-07-31	Non-essential protein involved in pre-mRNA splicing; component of a complex containing Cef1p; has similarity to S. pombe Cwf15p
-S000035446	CDS					YDR163W		4	781423	781950	W		2011-02-03	1996-07-31	
-S000002571	ORF	Verified	YDR164C	SEC1		chromosome 4	L000001827	4	784215	782041	C	94.77	2011-02-03	1996-07-31	Sm-like protein involved in docking and fusion of exocytic vesicles; binds to assembled SNARE complexes at the membrane and stimulates membrane fusion; localization to sites of secretion (bud neck and bud tip) is dependent on SNARE function; interacts directly with essential exocyst subunit Sec6p
-S000035467	CDS					YDR164C		4	784215	782041	C		2011-02-03	1996-07-31	
-S000002572	ORF	Verified	YDR165W	TRM82		chromosome 4		4	784871	786205	W		2011-02-03	1996-07-31	Catalytic subunit of a tRNA methyltransferase complex; Trm8p and Trm82p comprise an enzyme that catalyzes a methyl-transfer from S-adenosyl-l-methionine to the N(7) atom of guanine at position 46 in tRNA; Trm8 lacks catalytic activity if not bound to Trm82p; relocalizes to the cytosol in response to hypoxia; mutation in human ortholog WDR4 causes microcephalic primordial dwarfism
-S000035563	CDS					YDR165W		4	784871	786205	W		2011-02-03	1996-07-31	
-S000002573	ORF	Verified	YDR166C	SEC5	exocyst subunit SEC5	chromosome 4	L000001831	4	789221	786306	C	95	2011-02-03	1996-07-31	Essential 107kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion; involved in assembly of the exocyst complex; required with Sec3p for ER inheritance where it promotes anchoring of the cortical ER at the bud tip
-S000035593	CDS					YDR166C		4	789221	786306	C		2011-02-03	1996-07-31	
-S000002574	ORF	Verified	YDR167W	TAF10	TafII25|TAF25|TAF23	chromosome 4	L000003460	4	789449	790069	W		2011-02-03	1996-07-31	Subunit (145 kDa) of TFIID and SAGA complexes; involved in RNA polymerase II transcription initiation and in chromatin modification
-S000036558	CDS					YDR167W		4	789449	790069	W		2011-02-03	1996-07-31	
-S000002575	ORF	Verified	YDR168W	CDC37	SMO1	chromosome 4	L000000273	4	790328	791848	W	95	2011-02-03	1996-07-31	Essential Hsp90p co-chaperone; necessary for passage through the START phase of the cell cycle; stabilizes protein kinase nascent chains and participates along with Hsp90p in their folding
-S000036673	CDS					YDR168W		4	790328	791848	W		2011-02-03	1996-07-31	
-S000002576	ORF	Verified	YDR169C	STB3		chromosome 4	L000002109	4	793889	792348	C		2011-02-03	1996-07-31	Ribosomal RNA processing element (RRPE)-binding protein; involved in the glucose-induced transition from quiescence to growth; restricted to nucleus in quiescent cells, released into cytoplasm after glucose repletion; binds Sin3p; relative distribution to the nucleus increases upon DNA replication stress
-S000036712	CDS					YDR169C		4	793889	792348	C		2011-02-03	1996-07-31	
-S000028538	ORF	Uncharacterized	YDR169C-A			chromosome 4		4	794723	794574	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031147	CDS					YDR169C-A		4	794723	794574	C		2011-02-03	2003-07-29	
-S000002577	ORF	Verified	YDR170C	SEC7	Arf family guanine nucleotide exchange factor SEC7	chromosome 4	L000001833	4	802222	796193	C	96	2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for ADP ribosylation factors; involved in proliferation of the Golgi, intra-Golgi transport and ER-to-Golgi transport; found in the cytoplasm and on Golgi-associated coated vesicles
-S000036405	CDS					YDR170C		4	802222	796193	C		2011-02-03	1996-07-31	
-S000006695	tRNA_gene		tQ(UUG)D3			chromosome 4	L000003783	4	802802	802731	C		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034813	noncoding_exon					tQ(UUG)D3		4	802802	802731	C		2011-02-03	2000-05-19	
-S000006865	long_terminal_repeat		YDRWdelta11			chromosome 4		4	802905	803235	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007227	transposable_element_gene		YDR170W-A		gag protein	chromosome 4		4	803195	804517	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag; YDR170W-A is part of a mutant retrotransposon; distribution in the cytoplasm becomes irregular rather than punctate upon DNA replication stress
-S000036096	CDS					YDR170W-A		4	803195	804517	W		2011-02-03	1999-07-17	
-S000118439	ARS		ARS425		ARSIV-806	chromosome 4		4	806052	806277			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178074	ARS_consensus_sequence					ARS425		4	806099	806115	W		2014-11-18	2014-11-18	
-S000002578	ORF	Verified	YDR171W	HSP42	heat shock protein HSP42	chromosome 4	L000003095	4	806621	807748	W		2011-02-03	1996-07-31	Small heat shock protein (sHSP) with chaperone activity; forms barrel-shaped oligomers that suppress unfolded protein aggregation; involved in cytoskeleton reorganization after heat shock; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress
-S000030208	CDS					YDR171W		4	806621	807748	W		2011-02-03	1996-07-31	
-S000002579	ORF	Verified	YDR172W	SUP35	translation termination factor GTPase eRF3|eRF3|[PSI(+)]|[PSI]|SUP36|SUP2|SUF12|SAL3|PNM2|GST1	chromosome 4	L000002200	4	808324	810381	W	142.87	2011-02-03	1996-07-31	Translation termination factor eRF3; has a role in mRNA deadenylation and decay; altered protein conformation creates the [PSI(+)] prion that modifies cellular fitness, alters translational fidelity by affecting reading frame selection, and results in a nonsense suppressor phenotype; many stress-response genes are repressed in the presence of [PSI(+)]
-S000030332	CDS					YDR172W		4	808324	810381	W		2011-02-03	1996-07-31	
-S000002580	ORF	Verified	YDR173C	ARG82	inositol polyphosphate multikinase|ARGRIII|IPK2|ARGR3	chromosome 4	L000002727	4	811632	810565	C	95	2011-02-03	1996-07-31	Inositol polyphosphate multikinase (IPMK); sequentially phosphorylates Ins(1,4,5)P3 to form Ins(1,3,4,5,6)P5; also has diphosphoinositol polyphosphate synthase activity; regulates arginine-, phosphate-, and nitrogen-responsive genes
-S000030416	CDS					YDR173C		4	811632	810565	C		2011-02-03	1996-07-31	
-S000002581	ORF	Verified	YDR174W	HMO1	HSM2	chromosome 4	L000003234	4	812110	812850	W		2011-02-03	1996-07-31	Chromatin associated high mobility group (HMG) family member; involved in compacting, bending, bridging and looping DNA; rDNA-binding component that regulates transcription from RNA polymerase I promoters; regulates start site selection of ribosomal protein genes via RNA polymerase II promoters; role in genome maintenance; associates with a 5'-3' DNA helicase and Fpr1p, a prolyl isomerase; relocalizes to the cytosol in response to hypoxia
-S000031344	CDS					YDR174W		4	812110	812850	W		2011-02-03	1996-07-31	
-S000002582	ORF	Verified	YDR175C	RSM24	mitochondrial 37S ribosomal protein RSM24	chromosome 4		4	814152	813193	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000031376	CDS					YDR175C		4	814152	813193	C		2011-02-03	1996-07-31	
-S000002583	ORF	Verified	YDR176W	NGG1	histone acetyltransferase NGG1|SWI7|ADA3	chromosome 4	L000001241	4	814452	816560	W		2011-02-03	1996-07-31	Subunit of chromatin modifying histone acetyltransferase complexes; member of the ADA complex, the SAGA complex, and the SLIK complex; transcriptional regulator involved in glucose repression of Gal4p-regulated genes
-S000031512	CDS					YDR176W		4	814452	816560	W		2011-02-03	1996-07-31	
-S000002584	ORF	Verified	YDR177W	UBC1	E2 ubiquitin-conjugating protein UBC1	chromosome 4	L000002406	4	816878	817525	W		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme; key E2 partner with Ubc4p for the anaphase-promoting complex (APC); mediates selective degradation of short-lived and abnormal proteins; plays a role in vesicle biogenesis and ER-associated protein degradation (ERAD); component of the cellular stress response; protein abundance increases in response to DNA replication stress key E2 partner with Ubc4p for the anaphase-promoting complex (APC)
-S000031590	CDS					YDR177W		4	816878	817525	W		2011-02-03	1996-07-31	
-S000002585	ORF	Verified	YDR178W	SDH4	succinate dehydrogenase membrane anchor subunit SDH4|ACN18	chromosome 4	L000001826	4	817950	818495	W		2011-02-03	1996-07-31	Membrane anchor subunit of succinate dehydrogenase (SDH); involved in coupling the oxidation of succinate to the transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; has similarity to human SDH subunit D (SDHD), which is implicated in paraganglioma
-S000032569	CDS					YDR178W		4	817950	818495	W		2011-02-03	1996-07-31	
-S000002586	ORF	Verified	YDR179C	CSN9		chromosome 4	S000007578	4	819196	818708	C		2011-02-03	1996-07-31	Subunit of the Cop9 signalosome; Cop9 signalosome is required for deneddylation, or removal of the ubiquitin-like protein Rub1p from Cdc53p (cullin); involved in adaptation to pheromone signaling
-S000032647	CDS					YDR179C		4	819196	818708	C		2011-02-03	1996-07-31	
-S000002587	ORF	Verified	YDR179W-A	NVJ3		chromosome 4		4	819433	820824	W		2011-02-03	2004-07-21|1996-07-31	Protein with a potential role in tethering ER and vacuoles; localizes to nucleus-vacuole junctions in an Mdm1p-dependent manner; contains a lipid-binding PXA domain
-S000037444	CDS					YDR179W-A		4	819433	820824	W		2011-02-03	2004-07-21|1996-07-31	
-S000002588	ORF	Verified	YDR180W	SCC2	cohesin-loading factor complex subunit SCC2	chromosome 4	L000004262	4	821295	825776	W		2011-02-03	1996-07-31	Subunit of cohesin loading factor (Scc2p-Scc4p); a complex required for loading of cohesin complexes onto chromosomes; involved in establishing sister chromatid cohesion during DSB repair via histone H2AX; promotes gene expression program that supports translational fidelity; evolutionarily-conserved adherin; relocalizes to cytosol in response to hypoxia; human disorder Cornelia de Lange syndrome is caused by mutations in NIPBL, the human ortholog of SCC2
-S000034456	CDS					YDR180W		4	821295	825776	W		2011-02-03	1996-07-31	
-S000002589	ORF	Verified	YDR181C	SAS4		chromosome 4	L000004214	4	827355	825910	C		2011-02-03	1996-07-31	Subunit of the SAS complex (Sas2p, Sas4p, Sas5p); acetylates free histones and nucleosomes and regulates transcriptional silencing; required for the HAT activity of Sas2p
-S000034496	CDS					YDR181C		4	827355	825910	C		2011-02-03	1996-07-31	
-S000002590	ORF	Verified	YDR182W	CDC1	putative lipid phosphatase CDC1|ESP2|DSR1|DSC1	chromosome 4	L000000241	4	827582	829057	W		2011-02-03	1996-07-31	Putative mannose-ethanolamine phosphate phosphodiesterase; involved in GPI-anchor remodeling prior to the attachment of cell wall proteins to beta 1,3-glucan, removing ethanolamine phosphate from the first mannose of GPI anchors; mutants display elevated Ca2+-dependent signaling resulting in secondary actin polarization and Golgi inheritance defects; enzyme is Mn2+-dependent; mutants have cell division cycle defect and fragile cell walls
-S000034637	CDS					YDR182W		4	827582	829057	W		2011-02-03	1996-07-31	
-S000028539	ORF	Uncharacterized	YDR182W-A			chromosome 4		4	829151	829354	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031148	CDS					YDR182W-A		4	829151	829354	W		2011-02-03	2003-07-29	
-S000002591	ORF	Verified	YDR183W	PLP1		chromosome 4	L000003424	4	829585	830277	W		2011-02-03	1996-07-31	Protein that interacts with CCT (chaperonin containing TCP-1) complex; has a role in actin and tubulin folding; has weak similarity to phosducins, which are G-protein regulators
-S000034709	CDS					YDR183W		4	829585	830277	W		2011-02-03	1996-07-31	
-S000028540	ORF	Dubious	YDR183C-A			chromosome 4		4	830654	830397	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by fungal homology and RT-PCR
-S000031190	CDS					YDR183C-A		4	830654	830397	C		2011-02-03	2003-07-29	
-S000002592	ORF	Verified	YDR184C	ATC1	LIC4	chromosome 4	L000004405	4	831513	830629	C		2011-02-03	1996-07-31	Nuclear protein; possibly involved in regulation of cation stress responses and/or in the establishment of bipolar budding pattern; relative distribution to the nucleus decreases upon DNA replication stress
-S000034749	CDS					YDR184C		4	831513	830629	C		2011-02-03	1996-07-31	
-S000002593	ORF	Verified	YDR185C	UPS3	GEP2	chromosome 4		4	832473	831934	C		2011-02-03	1996-07-31	Mitochondrial protein of unknown function; similar to Ups1p and Ups2p which are involved in regulation of mitochondrial cardiolipin and phosphatidylethanolamine levels; null is viable but interacts synthetically with ups1 and ups2 mutations; UPS3 has a paralog, UPS2, that arose from the whole genome duplication
-S000035675	CDS					YDR185C		4	832473	831934	C		2011-02-03	1996-07-31	
-S000002594	ORF	Verified	YDR186C	SND1		chromosome 4		4	835492	832859	C		2011-02-03	1996-07-31	Protein involved in SRP-independent targeting of substrates to the ER; component of an alternative ER targeting pathway that has partial functional redundancy with the GET pathway; preference for substrates with downstream transmembrane domains; interacts with Env10p/Snd2p and Pho88p/Snd3p; can compensate for loss of SRP; may interact with ribosomes, based on co-purification experiments; GFP-fusion protein localizes to the cytoplasm
-S000035744	CDS					YDR186C		4	835492	832859	C		2011-02-03	1996-07-31	
-S000002596	ORF	Verified	YDR188W	CCT6	chaperonin-containing T-complex subunit CCT6|TCP20|TCP6|HTR3	chromosome 4	L000002271	4	836421	838061	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, essential protein that is required for the assembly of actin and tubulins in vivo; contains an ATP-binding motif
-S000036804	CDS					YDR188W		4	836421	838061	W		2011-02-03	1996-07-31	
-S000002595	ORF	Dubious	YDR187C			chromosome 4		4	836746	836228	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified, essential ORF CCT6/YDR188W
-S000035828	CDS					YDR187C		4	836746	836228	C		2011-02-03	1996-07-31	
-S000002597	ORF	Verified	YDR189W	SLY1	syntaxin-binding protein	chromosome 4	L000001923	4	838392	840392	W		2011-02-03	1996-07-31	Hydrophilic protein involved in ER/Golgi vesicle trafficking; SM (Sec1/Munc-18) family protein that binds the tSNARE Sed5p and stimulates its assembly into a trans-SNARE membrane-protein complex
-S000036882	CDS					YDR189W		4	838392	840392	W		2011-02-03	1996-07-31	
-S000002598	ORF	Verified	YDR190C	RVB1	RuvB family ATP-dependent DNA helicase pontin|TIP49|TIH1|TIP49A	chromosome 4	S000007843	4	841995	840604	C		2011-02-03	1996-07-31	ATP-dependent DNA helicase, also known as pontin; member of the AAA+ and RuvB-like protein families; similar to Rvb2p; conserved component of multiple complexes including the INO80 complex, the Swr1 complex, and the R2TP complex (Rvb1-Rvb2-Tah1-Pih1); involved in multiple processes such as chromatin remodeling, box C/D snoRNP assembly, and RNA polymerase II assembly
-S000036562	CDS					YDR190C		4	841995	840604	C		2011-02-03	1996-07-31	
-S000002599	ORF	Verified	YDR191W	HST4	NAD-dependent histone deacetylase HST4	chromosome 4	L000003043	4	842337	843449	W		2011-02-03	1996-07-31	NAD(+)-dependent protein deacetylase; deacetylation targets are primarily mitochondrial proteins; involved along with Hst3p in silencing at telomeres, cell cycle progression, radiation resistance, genomic stability and short-chain fatty acid metabolism; accumulates in mitochondria in response to biotin starvation and may link biotin metabolism with energy homeostasis; member of the Sir2 family and may be the functional equivalent of human SIRT3
-S000036688	CDS					YDR191W		4	842337	843449	W		2011-02-03	1996-07-31	
-S000002601	ORF	Dubious	YDR193W			chromosome 4		4	844554	844952	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030657	CDS					YDR193W		4	844554	844952	W		2011-02-03	1996-07-31	
-S000002600	ORF	Verified	YDR192C	NUP42	FG-nucleoporin NUP42|UIP1|RIP1	chromosome 4	L000002940	4	844861	843569	C		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; also part of the nuclear pore complex (NPC) cytoplasmic filaments; contributes directly to nucleocytoplasmic transport and maintenance of the NPC permeability barrier and is involved in gene tethering at the nuclear periphery; interacts with Gle1p
-S000036723	CDS					YDR192C		4	844861	843569	C		2011-02-03	1996-07-31	
-S000002602	ORF	Verified	YDR194C	MSS116	ATP-dependent RNA helicase	chromosome 4	L000001206	4	847946	845952	C		2011-02-03	1996-07-31	Mitochondrial transcription elongation factor; DEAD-box protein; required for efficient splicing of mitochondrial Group I and II introns; non-polar RNA helicase that also facilities strand annealing; promotes RNA folding by stabilizing an early assembly intermediate
-S000030696	CDS					YDR194C		4	847946	845952	C		2011-02-03	1996-07-31	
-S000028541	ORF	Uncharacterized	YDR194W-A			chromosome 4		4	848071	848223	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031191	CDS					YDR194W-A		4	848071	848223	W		2011-02-03	2003-07-29	
-S000002603	ORF	Verified	YDR195W	REF2	RNA-processing protein REF2	chromosome 4	L000002661	4	848599	850200	W		2011-02-03	1996-07-31	RNA-binding protein; involved in the cleavage step of mRNA 3'-end formation prior to polyadenylation, and in snoRNA maturation; part of holo-CPF subcomplex APT, which associates with 3'-ends of snoRNA- and mRNA-encoding genes; putative regulatory subunit of type 1 protein phosphatase Glc7p, required for actomyosin ring formation, and for timely dephosphorylation and release of Bnr1p from the division site; relocalizes to the cytosol in response to hypoxia
-S000030881	CDS					YDR195W		4	848599	850200	W		2011-02-03	1996-07-31	
-S000002604	ORF	Verified	YDR196C	CAB5	putative dephospho-CoA kinase	chromosome 4		4	850999	850274	C		2011-02-03	1996-07-31	Subunit of the CoA-Synthesizing Protein Complex (CoA-SPC); subunits of this complex are: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p; probable dephospho-CoA kinase (DPCK) that catalyzes the last step in coenzyme A biosynthesis; null mutant lethality is complemented by human homolog DCAKD and by E. coli coaE (encoding DPCK); detected in purified mitochondria in high-throughput studies; also localized to lipid droplets
-S000031739	CDS					YDR196C		4	850999	850274	C		2011-02-03	1996-07-31	
-S000002605	ORF	Verified	YDR197W	CBS2	CBP7	chromosome 4	L000000231	4	851228	852397	W		2011-02-03	1996-07-31	Mitochondrial translational activator of the COB mRNA; interacts with translating ribosomes, acts on the COB mRNA 5'-untranslated leader
-S000032020	CDS					YDR197W		4	851228	852397	W		2011-02-03	1996-07-31	
-S000002606	ORF	Verified	YDR198C	RKM2	protein-lysine N-methyltransferase	chromosome 4		4	853972	852533	C		2011-02-03	1996-07-31	Ribosomal protein lysine methyltransferase; responsible for trimethylation of the lysine residue at position 3 of Rpl12Ap and Rpl12Bp
-S000032059	CDS					YDR198C		4	853972	852533	C		2011-02-03	1996-07-31	
-S000002607	ORF	Dubious	YDR199W			chromosome 4		4	854175	854540	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene VPS64/YDR200C; computationally predicted to have thiol-disulfide oxidoreductase activity
-S000033057	CDS					YDR199W		4	854175	854540	W		2011-02-03	1996-07-31	
-S000002608	ORF	Verified	YDR200C	VPS64	FAR9	chromosome 4		4	856093	854279	C		2011-02-03	1996-07-31	Protein required for cytoplasm to vacuole targeting of proteins; forms a complex with Far3p and Far7p to Far11p involved in recovery from pheromone-induced cell cycle arrest; mutant has increased aneuploidy tolerance; VPS64 has a paralog, FAR10, that arose from the whole genome duplication
-S000037661	CDS					YDR200C		4	856093	854279	C		2011-02-03	1996-07-31	
-S000002609	ORF	Verified	YDR201W	SPC19		chromosome 4	L000004693	4	856317	856814	W		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; also localized to nuclear side of spindle pole body
-S000030528	CDS					YDR201W		4	856317	856814	W		2011-02-03	1996-07-31	
-S000002611	ORF	Dubious	YDR203W			chromosome 4		4	857682	857999	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF RAV2/YDR202C
-S000030685	CDS					YDR203W		4	857682	857999	W		2011-02-03	1996-07-31	
-S000002610	ORF	Verified	YDR202C	RAV2		chromosome 4		4	857953	856898	C		2011-02-03	1996-07-31	Subunit of RAVE complex (Rav1p, Rav2p, Skp1p); the RAVE complex associates with the V1 domain of the vacuolar membrane (H+)-ATPase (V-ATPase) and promotes assembly and reassembly of the holoenzyme
-S000030555	CDS					YDR202C		4	857953	856898	C		2011-02-03	1996-07-31	
-S000002612	ORF	Verified	YDR204W	COQ4	ubiquinone biosynthesis protein COQ4	chromosome 4	L000003957	4	858137	859144	W		2011-02-03	1996-07-31	Protein with a role in ubiquinone (Coenzyme Q) biosynthesis; possibly functioning in stabilization of Coq7p; located on matrix face of mitochondrial inner membrane; component of a mitochondrial ubiquinone-synthesizing complex; human homolog COQ4 can complement yeast coq4 null mutant
-S000030757	CDS					YDR204W		4	858137	859144	W		2011-02-03	1996-07-31	
-S000002613	ORF	Verified	YDR205W	MSC2	metal cation transporter MSC2	chromosome 4		4	859346	861520	W		2011-02-03	2003-09-22|1996-07-31	Endoplasmic reticulum zinc transporter; part of a heterodimeric transporter with Zrg17p that transfers zinc from the cytosol to the ER lumen; member of the cation diffusion facilitator family of efflux pumps; localizes to ER and nucleus; mutations affect the cellular distribution of zinc and also confer defects in meiotic recombination between homologous chromatids
-S000031604	CDS					YDR205W		4	859346	861520	W		2011-02-03	2003-09-22|1996-07-31	
-S000002614	ORF	Verified	YDR206W	EBS1		chromosome 4	L000004629	4	862054	864708	W		2011-02-03	1996-07-31	Protein involved in translation inhibition and nonsense-mediated decay; interacts with cap binding protein Cdc33p and with Nam7p; localizes to P-bodies upon glucose starvation; mRNA abundance regulated by mRNA decay factors; EBS1 has a paralog, EST1, that arose from the whole genome duplication
-S000031711	CDS					YDR206W		4	862054	864708	W		2011-02-03	1996-07-31	
-S000002615	ORF	Verified	YDR207C	UME6	DNA-binding transcriptional regulator UME6|RIM16|NIM2|CAR80	chromosome 4	L000002426	4	867522	865012	C		2011-02-03	1996-07-31	Rpd3L histone deacetylase complex subunit; key transcriptional regulator of early meiotic genes; involved in chromatin remodeling and transcriptional repression via DNA looping; binds URS1 upstream regulatory sequence, represses transcription by recruiting conserved histone deacetylase Rpd3p (through co-repressor Sin3p) and chromatin-remodeling factor Isw2p; couples metabolic responses to nutritional cues with initiation and progression of meiosis, forms compl
-S000031768	CDS					YDR207C		4	867522	865012	C		2011-02-03	1996-07-31	
-S000002616	ORF	Verified	YDR208W	MSS4	1-phosphatidylinositol-4-phosphate 5-kinase	chromosome 4	L000001203	4	868224	870563	W		2011-02-03	1996-07-31	Phosphatidylinositol-4-phosphate 5-kinase; involved in actin cytoskeleton organization and cell morphogenesis; multicopy suppressor of stt4 mutation
-S000031959	CDS					YDR208W		4	868224	870563	W		2011-02-03	1996-07-31	
-S000002618	ORF	Uncharacterized	YDR210W			chromosome 4		4	871074	871301	W		2011-02-03	1996-07-31	Predicted tail-anchored plasma membrane protein; contains a conserved CYSTM module; related proteins in other organisms may be involved in response to stress; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery
-S000034858	CDS					YDR210W		4	871074	871301	W		2011-02-03	1996-07-31	
-S000002617	ORF	Uncharacterized	YDR209C			chromosome 4		4	871449	871036	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR209C is not an essential gene; partially overlaps uncharacterized gene YDR210W
-S000032797	CDS					YDR209C		4	871449	871036	C		2011-02-03	1996-07-31	
-S000006867	long_terminal_repeat		YDRWdelta13			chromosome 4		4	871821	872152	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006884	LTR_retrotransposon		YDRWTy2-2		Ty2	chromosome 4		4	871821	877779	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007392	transposable_element_gene		YDR210W-A		gag protein	chromosome 4		4	872112	873428	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000029817	CDS					YDR210W-A		4	872112	873428	W		2011-02-03	1999-07-17	
-S000007393	transposable_element_gene		YDR210W-B		gag-pol fusion protein	chromosome 4		4	872112	877425	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000029819	CDS					YDR210W-B		4	872112	873404	W		2011-02-03	1999-07-17	
-S000029820	CDS					YDR210W-B		4	873406	877425	W		2011-02-03	1999-07-17	
-S000029821	plus_1_translational_frameshift					YDR210W-B		4	873405	873405	W		2011-02-03	1999-07-17	
-S000006868	long_terminal_repeat		YDRWdelta14			chromosome 4		4	877448	877779	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007410	transposable_element_gene		YDR210C-D		gag-pol fusion protein|YDR210W-D	chromosome 4		4	883927	878659	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000029824	CDS					YDR210C-D		4	882621	878659	C		2011-02-03	1999-07-17	
-S000029823	CDS					YDR210C-D		4	883927	882623	C		2011-02-03	1999-07-17	
-S000029825	plus_1_translational_frameshift					YDR210C-D		4	882622	882622	C		2011-02-03	1999-07-17	
-S000007409	transposable_element_gene		YDR210C-C		gag protein|YDR210W-C	chromosome 4		4	883927	882605	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000029822	CDS					YDR210C-C		4	883927	882605	C		2011-02-03	1999-07-17	
-S000006860	LTR_retrotransposon		YDRCTy1-2		Ty1	chromosome 4		4	884220	878303	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000006613	tRNA_gene		tI(UAU)D			chromosome 4	L000003769	4	884361	884493	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000035113	intron					tI(UAU)D		4	884398	884457	W		2011-02-03	2000-05-19	
-S000035111	noncoding_exon					tI(UAU)D		4	884361	884397	W		2011-02-03	2000-05-19	
-S000035112	noncoding_exon					tI(UAU)D		4	884458	884493	W		2011-02-03	2000-05-19	
-S000002619	ORF	Verified	YDR211W	GCD6	translation initiation factor eIF2B catalytic subunit epsilon	chromosome 4	L000000674	4	884727	886865	W		2011-02-03	1996-07-31	Catalytic epsilon subunit of the translation initiation factor eIF2B; eIF2B is the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression; forms cytoplasmic foci upon DNA replication stress
-S000034999	CDS					YDR211W		4	884727	886865	W		2011-02-03	1996-07-31	
-S000002620	ORF	Verified	YDR212W	TCP1	chaperonin-containing T-complex alpha subunit TCP1|CCT1	chromosome 4	L000002267	4	887232	888911	W	127	2011-02-03	1996-07-31	Alpha subunit of chaperonin-containing T-complex; complex mediates protein folding in the cytosol; involved in actin cytoskeleton maintenance; overexpression in neurons suppresses formation of pathogenic conformations of huntingtin protein
-S000035134	CDS					YDR212W		4	887232	888911	W		2011-02-03	1996-07-31	
-S000002621	ORF	Verified	YDR213W	UPC2	MOX4	chromosome 4		4	889751	892492	W		2011-02-03	1996-07-31	Sterol regulatory element binding protein; induces sterol biosynthetic genes, upon sterol depletion; acts as a sterol sensor, binding ergosterol in sterol rich conditions; relocates from intracellular membranes to perinuclear foci upon sterol depletion; redundant activator of filamentation with ECM22, up-regulating the expression of filamentous growth genes; contains a Zn[2]-Cys[6] binuclear cluster; UPC2 has a paralog, ECM22, that arose from the whole genome duplication
-S000036022	CDS					YDR213W		4	889751	892492	W		2011-02-03	1996-07-31	
-S000002622	ORF	Verified	YDR214W	AHA1		chromosome 4		4	892875	893927	W		2011-02-03	1996-07-31	Co-chaperone that binds Hsp82p and activates its ATPase activity; plays a role in determining prion variants; similar to Hch1p; expression is regulated by stresses such as heat shock; protein abundance increases in response to DNA replication stress
-S000036092	CDS					YDR214W		4	892875	893927	W		2011-02-03	1996-07-31	
-S000002623	ORF	Dubious	YDR215C			chromosome 4		4	894502	894089	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant displays elevated sensitivity to expression of a mutant huntingtin fragment or of alpha-synuclein
-S000036137	CDS					YDR215C		4	894502	894089	C		2011-02-03	1996-07-31|2011-02-03	
-S000002624	ORF	Verified	YDR216W	ADR1	DNA-binding transcription factor ADR1	chromosome 4	L000000050	4	895035	899006	W	125	2011-02-03	1996-07-31	Carbon source-responsive zinc-finger transcription factor; required for transcription of the glucose-repressed gene ADH2, of peroxisomal protein genes, and of genes required for ethanol, glycerol, and fatty acid utilization
-S000036296	CDS					YDR216W		4	895035	899006	W		2011-02-03	1996-07-31	
-S000130175	ARS		ARS427			chromosome 4		4	899051	899596			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000002625	ORF	Verified	YDR217C	RAD9	chromatin-binding protein RAD9	chromosome 4	L000001562	4	903480	899551	C	126	2011-02-03	1996-07-31	DNA damage-dependent checkpoint protein; required for cell-cycle arrest in G1/S, intra-S, and G2/M, plays a role in postreplication repair (PRR) pathway; transmits checkpoint signal by activating Rad53p and Chk1p; hyperphosphorylated by Mec1p and Tel1p; multiple cyclin dependent kinase consensus sites and the C-terminal BRCT domain contribute to DNA damage checkpoint activation; Rad9p Chk1 Activating Domain (CAD) is phosphorylated at multiple sites by Cdc28p/Clb2p
-S000036338	CDS					YDR217C		4	903480	899551	C		2011-02-03	1996-07-31	
-S000002626	ORF	Verified	YDR218C	SPR28	septin SPR28	chromosome 4	L000004150	4	905052	903781	C		2011-02-03	1996-07-31	Sporulation-specific homolog of the CDC3/10/11/12 family of genes; meiotic septin expressed at high levels during meiotic divisions and ascospore formation; the yeast CDC3/10/11/12 family is a family of bud neck microfilament genes
-S000037012	CDS					YDR218C		4	905052	903781	C		2011-02-03	1996-07-31	
-S000002627	ORF	Verified	YDR219C	MFB1		chromosome 4		4	906852	905455	C		2011-02-03	1996-07-31	Mitochondria-associated F-box protein; involved in maintenance of normal mitochondrial morphology; interacts with Skp1p through the F-box motif; preferentially localizes to the mother cell during budding
-S000037083	CDS					YDR219C		4	906852	905455	C		2011-02-03	1996-07-31	
-S000002628	ORF	Dubious	YDR220C			chromosome 4		4	907293	907000	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant exhibits synthetic phenotype with alpha-synuclein
-S000037911	CDS					YDR220C		4	907293	907000	C		2011-02-03	1996-07-31	
-S000002629	ORF	Verified	YDR221W	GTB1		chromosome 4		4	907330	909438	W		2011-02-03	1996-07-31	Glucosidase II beta subunit, forms a complex with alpha subunit Rot2p; involved in removal of two glucose residues from N-linked glycans during glycoprotein biogenesis in the ER; relocalizes from ER to cytoplasm upon DNA replication stress
-S000029995	CDS					YDR221W		4	907330	909438	W		2011-02-03	1996-07-31	
-S000002630	ORF	Uncharacterized	YDR222W			chromosome 4		4	910054	911301	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; YDR222W has a paralog, YLR225C, that arose from the whole genome duplication
-S000030976	CDS					YDR222W		4	910054	911301	W		2011-02-03	1996-07-31	
-S000002631	ORF	Verified	YDR223W	CRF1		chromosome 4		4	912099	913502	W		2011-02-03	1996-07-31	Transcriptional corepressor; involved in repression of ribosomal protein (RP) gene transcription via the TOR signaling pathway which promotes accumulation of Crf1p in the nucleus; role in repression of RP genes varies by strain; CRF1 has a paralog, IFH1, that arose from the whole genome duplication
-S000031073	CDS					YDR223W		4	912099	913502	W		2011-02-03	1996-07-31	
-S000118440	ARS		ARS428		ARSIV-914	chromosome 4		4	913790	914038			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178075	ARS_consensus_sequence					ARS428		4	913856	913872	W		2014-11-18	2014-11-18	
-S000002632	ORF	Verified	YDR224C	HTB1	histone H2B|SPT12	chromosome 4	L000000829	4	914712	914317	C	132	2011-02-03	1996-07-31	Histone H2B; core histone protein required for chromatin assembly and chromosome function; nearly identical to HTB2; Rad6p-Bre1p-Lge1p mediated ubiquitination regulates reassembly after DNA replication, transcriptional activation, meiotic DSB formation and H3 methylation
-S000031108	CDS					YDR224C		4	914712	914317	C		2011-02-03	1996-07-31	
-S000002633	ORF	Verified	YDR225W	HTA1	histone H2A|SPT11|H2A1	chromosome 4	L000000827	4	915530	915928	W	132	2011-02-03	1996-07-31	Histone H2A; core histone protein required for chromatin assembly and chromosome function; one of two nearly identical subtypes (see also HTA2); DNA damage-dependent phosphorylation by Mec1p facilitates DNA repair; acetylated by Nat4p; N-terminally propionylated in vivo
-S000031234	CDS					YDR225W		4	915530	915928	W		2011-02-03	1996-07-31	
-S000002634	ORF	Verified	YDR226W	ADK1	adenylate kinase ADK1|AKY2|AKY1	chromosome 4	L000000046	4	916486	917154	W	133	2011-02-03	1996-07-31	Adenylate kinase, required for purine metabolism; localized to the cytoplasm and the mitochondria; lacks cleavable signal sequence; protein abundance increases in response to DNA replication stress; mutations affecting Adk1p catalytic activity deregulate expression of phosphate utilization genes PHO5 and PHO84; human homolog AK1 can complement yeast adk1 mutant
-S000032219	CDS					YDR226W		4	916486	917154	W		2011-02-03	1996-07-31	
-S000002635	ORF	Verified	YDR227W	SIR4	chromatin-silencing protein SIR4|UTH2|STE9|ASD1	chromosome 4	L000001897	4	917571	921647	W	128	2011-02-03	1996-07-31	SIR protein involved in assembly of silent chromatin domains; silent information regulator (SIR) along with SIR2 and SIR3; involved in assembly of silent chromatin domains at telomeres and the silent mating-type loci; some alleles of SIR4 prolong lifespan; required for telomere hypercluster formation in quiescent yeast cells
-S000032314	CDS					YDR227W		4	917571	921647	W		2011-02-03	1996-07-31	
-S000118441	ARS		ARS429		ARSIV-922	chromosome 4		4	921692	921939			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178076	ARS_consensus_sequence					ARS429		4	921736	921752	W		2014-11-18	2014-11-18	
-S000002636	ORF	Verified	YDR228C	PCF11		chromosome 4	L000004116	4	923806	921926	C		2011-02-03	1996-07-31	mRNA 3' end processing factor; essential component of cleavage and polyadenylation factor IA (CF IA), involved in pre-mRNA 3' end processing and in transcription termination; binds C-terminal domain of largest subunit of RNA pol II (Rpo21p); required for gene looping; relocalizes to the cytosol in response to hypoxia
-S000032352	CDS					YDR228C		4	923806	921926	C		2011-02-03	1996-07-31	
-S000002637	ORF	Verified	YDR229W	IVY1		chromosome 4		4	924785	926146	W		2011-02-03	1996-07-31	Phospholipid-binding protein that interacts with both Ypt7p and Vps33p; may partially counteract the action of Vps33p and vice versa, localizes to the rim of the vacuole as cells approach stationary phase
-S000033246	CDS					YDR229W		4	924785	926146	W		2011-02-03	1996-07-31	
-S000002638	ORF	Dubious	YDR230W			chromosome 4		4	926223	926570	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene COX20/YDR231C
-S000034096	CDS					YDR230W		4	926223	926570	W		2011-02-03	1996-07-31	
-S000002639	ORF	Verified	YDR231C	COX20		chromosome 4	S000007474	4	926910	926293	C		2011-02-03	1996-07-31	Mitochondrial inner membrane protein; required for proteolytic processing of Cox2p and its assembly into cytochrome c oxidase
-S000034128	CDS					YDR231C		4	926910	926293	C		2011-02-03	1996-07-31	
-S000002640	ORF	Verified	YDR232W	HEM1	5-aminolevulinate synthase|OLE3|CYD1	chromosome 4	L000000760	4	927452	929098	W		2011-02-03	1996-07-31	5-aminolevulinate synthase; catalyzes the first step in the heme biosynthetic pathway; an N-terminal signal sequence is required for localization to the mitochondrial matrix; expression is regulated by Hap2p-Hap3p; has a pyridoxal phosphate cofactor whose insertion is mediated by Mcx1p
-S000034287	CDS					YDR232W		4	927452	929098	W		2011-02-03	1996-07-31	
-S000002641	ORF	Verified	YDR233C	RTN1		chromosome 4		4	930357	929470	C		2011-02-03	1996-07-31	Reticulon protein; involved in nuclear pore assembly and maintenance of tubular ER morphology; promotes membrane curvature; regulates the ER asymmetry-induced inheritance block during ER stress; role in ER-derived peroxisomal biogenesis; increases tubular ER when overexpressed; mutants have reduced phosphatidylserine transfer between the ER and mitochondria; interacts with exocyst subunit Sec6p, Yip3p, and Sbh1p; member of the RTNLA subfamily
-S000034311	CDS					YDR233C		4	930357	929470	C		2011-02-03	1996-07-31	
-S000002642	ORF	Verified	YDR234W	LYS4	homoaconitate hydratase LYS4|LYS3	chromosome 4	L000000966	4	931129	933210	W	145.87	2011-02-03	1996-07-31	Homoaconitase; catalyzes the conversion of homocitrate to homoisocitrate, which is a step in the lysine biosynthesis pathway
-S000035310	CDS					YDR234W		4	931129	933210	W		2011-02-03	1996-07-31	
-S000002643	ORF	Verified	YDR235W	PRP42	mRNA splicing protein PRP42|SNU65|MUD16	chromosome 4	L000003969	4	933504	935138	W		2011-02-03	1996-07-31	U1 snRNP protein involved in splicing; required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats
-S000035386	CDS					YDR235W		4	933504	935138	W		2011-02-03	1996-07-31	
-S000002644	ORF	Verified	YDR236C	FMN1	riboflavin kinase	chromosome 4		4	935892	935236	C		2011-02-03	1996-07-31	Riboflavin kinase, produces riboflavin monophosphate (FMN); FMN is a necessary cofactor for many enzymes; predominantly localizes to the microsomal fraction and also found in the mitochondrial inner membrane; human RFK functionally complements the lethality of the null mutation
-S000035407	CDS					YDR236C		4	935892	935236	C		2011-02-03	1996-07-31	
-S000002645	ORF	Verified	YDR237W	MRPL7	mitochondrial 54S ribosomal protein YmL7/YmL5|YmL7|YmL5	chromosome 4	L000002684	4	936615	937493	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; MRPL7 produces both YmL5 and YmL7, which are two different modified forms of the same protein
-S000035502	CDS					YDR237W		4	936615	937493	W		2011-02-03	1996-07-31	
-S000002646	ORF	Verified	YDR238C	SEC26	coatomer subunit beta	chromosome 4	L000001847	4	940816	937895	C		2011-02-03	1996-07-31	Essential beta-coat protein of the COPI coatomer; involved in ER-to-Golgi protein trafficking and maintenance of normal ER morphology; shares 43% sequence identity with mammalian beta-coat protein (beta-COP)
-S000035532	CDS					YDR238C		4	940816	937895	C		2011-02-03	1996-07-31	
-S000002647	ORF	Verified	YDR239C			chromosome 4		4	943420	941057	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments
-S000035595	CDS					YDR239C		4	943420	941057	C		2011-02-03	1996-07-31	
-S000002649	ORF	Dubious	YDR241W	BUD26		chromosome 4		4	945151	945438	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 1% of ORF overlaps the verified gene SNU56; diploid mutant displays a weak budding pattern phenotype in a systematic assay
-S000036282	CDS					YDR241W		4	945151	945438	W		2011-02-03	1996-07-31	
-S000002648	ORF	Verified	YDR240C	SNU56	MUD10	chromosome 4	L000004362	4	945152	943674	C		2011-02-03	1996-07-31	Component of U1 snRNP required for mRNA splicing via spliceosome; yeast specific, no metazoan counterpart; interacts with mRNA in commitment complex
-S000036072	CDS					YDR240C		4	945152	943674	C		2011-02-03	1996-07-31	
-S000006866	long_terminal_repeat		YDRWdelta12			chromosome 4		4	945351	945673	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006857	long_terminal_repeat		YDRCsigma3			chromosome 4		4	946295	945955	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006778	tRNA_gene		tY(GUA)D	SUP2		chromosome 4	L000003770	4	946312	946400	W		2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000034661	intron					tY(GUA)D		4	946351	946364	W		2011-02-03	2000-05-19	
-S000034659	noncoding_exon					tY(GUA)D		4	946312	946350	W		2011-02-03	2000-05-19	
-S000034660	noncoding_exon					tY(GUA)D		4	946365	946400	W		2011-02-03	2000-05-19	
-S000002650	ORF	Verified	YDR242W	AMD2	putative amidase	chromosome 4	L000000083	4	946807	948456	W		2011-02-03	1996-07-31	Putative amidase
-S000036363	CDS					YDR242W		4	946807	948456	W		2011-02-03	1996-07-31	
-S000002651	ORF	Verified	YDR243C	PRP28	mRNA splicing protein PRP28	chromosome 4	L000001509	4	950284	948518	C	144.27	2011-02-03	1996-07-31	RNA binding protein; involved in RNA isomerization at the 5' splice site and for exchange of U6 for U1 snRNA at the 5' splice site; similar to the RNA helicases of the DEAD-box family
-S000036406	CDS					YDR243C		4	950284	948518	C		2011-02-03	1996-07-31	
-S000002652	ORF	Verified	YDR244W	PEX5	PAS10	chromosome 4	L000001342	4	950563	952401	W		2011-02-03	1996-07-31	Peroxisomal membrane signal receptor for peroxisomal matrix proteins; receptor for the C-terminal tripeptide signal sequence (PTS1) of peroxisomal matrix proteins; required for peroxisomal matrix protein import; also proposed to have PTS1-receptor independent functions
-S000030212	CDS					YDR244W		4	950563	952401	W		2011-02-03	1996-07-31	
-S000002653	ORF	Verified	YDR245W	MNN10	alpha-1,6-mannosyltransferase|REC41|SLC2|BED1	chromosome 4	L000002793|L000002853	4	952800	953981	W		2011-02-03	1996-07-31	Subunit of a Golgi mannosyltransferase complex; complex mediates elongation of the polysaccharide mannan backbone; membrane protein of the mannosyltransferase family; other members of the complex are Anp1p, Mnn9p, Mnn11p, and Hoc1p
-S000030334	CDS					YDR245W		4	952800	953981	W		2011-02-03	1996-07-31	
-S000002654	ORF	Verified	YDR246W	TRS23	TRAPP subunit TRS23	chromosome 4	S000007432	4	954288	954947	W		2011-02-03	1996-07-31	Core component of transport protein particle (TRAPP) complexes I-III; TRAPP complexes are related multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII); human homolog is TRAPPC4
-S000030489	CDS					YDR246W		4	954288	954947	W		2011-02-03	1996-07-31	
-S000028542	ORF	Uncharacterized	YDR246W-A			chromosome 4		4	955133	955333	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031192	CDS					YDR246W-A		4	955133	955333	W		2011-02-03	2003-07-29	
-S000002655	ORF	Verified	YDR247W	VHS1	putative serine/threonine protein kinase VHS1	chromosome 4		4	956013	957398	W		2011-02-03	1996-07-31	Cytoplasmic serine/threonine protein kinase; identified as a high-copy suppressor of the synthetic lethality of a sis2 sit4 double mutant, suggesting a role in G1/S phase progression; VHS1 has a paralog, SKS1, that arose from the whole genome duplication
-S000031345	CDS					YDR247W		4	956013	957398	W		2011-02-03	1996-07-31	
-S000002656	ORF	Uncharacterized	YDR248C		gluconokinase	chromosome 4		4	958339	957758	C		2011-02-03	1996-07-31	Putative gluconokinase; sequence similarity to bacterial and human gluconokinase; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; upregulated by deletion of the RNAP-II associated factor, PAF1
-S000031382	CDS					YDR248C		4	958339	957758	C		2011-02-03	1996-07-31	
-S000002657	ORF	Uncharacterized	YDR249C			chromosome 4		4	959802	958681	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000031491	CDS					YDR249C		4	959802	958681	C		2011-02-03	1996-07-31	
-S000002658	ORF	Dubious	YDR250C			chromosome 4		4	960361	960086	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031286	CDS					YDR250C		4	960361	960086	C		2011-02-03	1996-07-31	
-S000002659	ORF	Verified	YDR251W	PAM1		chromosome 4	L000001334	4	960614	963106	W		2011-02-03	1996-07-31	Essential protein of unknown function; exhibits variable expression during colony morphogenesis; overexpression permits survival without protein phosphatase 2A, inhibits growth, and induces a filamentous phenotype; PAM1 has a paralog, SVL3, that arose from the whole genome duplication
-S000032340	CDS					YDR251W		4	960614	963106	W		2011-02-03	1996-07-31	
-S000002660	ORF	Verified	YDR252W	BTT1	CCR4-NOT core subunit BTT1	chromosome 4	L000000195	4	963412	963861	W		2011-02-03	1996-07-31	Heterotrimeric nascent polypeptide-associated complex beta3 subunit; complex binds ribosomes via its beta-subunits in close proximity to nascent polypeptides; interacts with Caf130p of the CCR4-NOT complex; similar to human BTF3; BTT1 has a paralog, EGD1, that arose from the whole genome duplication
-S000032433	CDS					YDR252W		4	963412	963861	W		2011-02-03	1996-07-31	
-S000002661	ORF	Verified	YDR253C	MET32		chromosome 4	L000003470	4	964565	963990	C		2011-02-03	1996-07-31	Zinc-finger DNA-binding transcription factor; involved in transcriptional regulation of the methionine biosynthetic genes; targets strong transcriptional activator Met4p to promoters of sulfur metabolic genes; feedforward loop exists in the regulation of genes controlled by Met4p and Met32p; lack of such a loop for MET31 may account for the differential actions of Met32p and Met31p; MET32 has a paralog, MET31, that arose from the whole genome duplication
-S000032479	CDS					YDR253C		4	964565	963990	C		2011-02-03	1996-07-31	
-S000002662	ORF	Verified	YDR254W	CHL4	MCM17|CTF17	chromosome 4	L000000321	4	965113	966489	W		2011-02-03	1996-07-31	Outer kinetochore protein required for chromosome stability; involved in new kinetochore assembly and sister chromatid cohesion; forms a stable complex with Iml3p; peripheral component of the Ctf19 kinetochore complex that interacts with Ctf19p, Ctf3p, and Mif2p; required for the spindle assembly checkpoint; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-N and fission yeast mis15
-S000034580	CDS					YDR254W		4	965113	966489	W		2011-02-03	1996-07-31	
-S000002663	ORF	Verified	YDR255C	RMD5	ubiquitin-protein ligase RMD5|GID2	chromosome 4		4	967822	966557	C		2011-02-03	1996-07-31	Component of GID Complex that confers ubiquitin ligase (U3) activity; necessary for polyubiquitination and degradation of the gluconeogenic enzyme fructose-1,6-bisphosphatase; forms dimer with Fyv10p that is then recruited to GID Complex by Gid8p; also required for sporulation; conserved protein that has a degenerate RING finger domain
-S000034601	CDS					YDR255C		4	967822	966557	C		2011-02-03	1996-07-31	
-S000002664	ORF	Verified	YDR256C	CTA1	catalase A	chromosome 4	L000000428	4	969680	968133	C		2011-02-03	1996-07-31	Catalase A; breaks down hydrogen peroxide in the peroxisomal matrix formed by acyl-CoA oxidase (Pox1p) during fatty acid beta-oxidation
-S000034671	CDS					YDR256C		4	969680	968133	C		2011-02-03	1996-07-31	
-S000002665	ORF	Verified	YDR257C	RKM4	ribosomal lysine N-methyltransferase|SET7|RMS1	chromosome 4	L000003277	4	971474	969990	C		2011-02-03	1996-07-31	Ribosomal lysine methyltransferase; specific for monomethylation of Rpl42ap and Rpl42bp (lysine 55); nuclear SET-domain containing protein
-S000034751	CDS					YDR257C		4	971474	969990	C		2011-02-03	1996-07-31	
-S000002666	ORF	Verified	YDR258C	HSP78	chaperone ATPase HSP78	chromosome 4	L000000821	4	974243	971808	C		2011-02-03	1996-07-31	Oligomeric mitochondrial matrix chaperone; cooperates with Ssc1p in mitochondrial thermotolerance after heat shock; able to prevent the aggregation of misfolded proteins as well as resolubilize protein aggregates
-S000035676	CDS					YDR258C		4	974243	971808	C		2011-02-03	1996-07-31	
-S000002667	ORF	Verified	YDR259C	YAP6	HAL7	chromosome 4	L000004344	4	975782	974631	C		2011-02-03	1996-07-31	Basic leucine zipper (bZIP) transcription factor; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; overexpression increases sodium and lithium tolerance; computational analysis suggests a role in regulation of expression of genes involved in carbohydrate metabolism; YAP6 has a paralog, CIN5, that arose from the whole genome duplication
-S000035746	CDS					YDR259C		4	975782	974631	C		2011-02-03	1996-07-31	
-S000002668	ORF	Verified	YDR260C	SWM1	APC13	chromosome 4	L000004027	4	977229	976717	C		2011-02-03	1996-07-31	Subunit of the anaphase-promoting complex (APC); APC is an E3 ubiquitin ligase that regulates the metaphase-anaphase transition and exit from mitosis; required for activation of the daughter-specific gene expression and spore wall maturation
-S000035460	CDS					YDR260C		4	977229	976717	C		2011-02-03	1996-07-31	
-S000002669	ORF	Verified	YDR261C	EXG2	glucan exo-1,3-beta-glucosidase	chromosome 4	L000000593	4	979209	977521	C	162	2011-02-03	1996-07-31	Exo-1,3-beta-glucanase; involved in cell wall beta-glucan assembly; may be anchored to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor
-S000035548	CDS					YDR261C		4	979209	977521	C		2011-02-03	1996-07-31	
-S000006722	tRNA_gene		tS(AGA)D2			chromosome 4	L000003774	4	981055	980974	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000031633	noncoding_exon					tS(AGA)D2		4	981055	980974	C		2011-02-03	2000-05-19	
-S000006869	long_terminal_repeat		YDRWdelta19			chromosome 4		4	981171	981502	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006885	LTR_retrotransposon		YDRWTy2-3		Ty2	chromosome 4		4	981171	987125	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007396	transposable_element_gene		YDR261W-A		gag protein	chromosome 4		4	981462	982778	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000034032	CDS					YDR261W-A		4	981462	982778	W		2011-02-03	1999-07-17	
-S000007397	transposable_element_gene		YDR261W-B		gag-pol fusion protein	chromosome 4		4	981462	986775	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000034034	CDS					YDR261W-B		4	981462	982754	W		2011-02-03	1999-07-17	
-S000034035	CDS					YDR261W-B		4	982756	986775	W		2011-02-03	1999-07-17	
-S000034036	plus_1_translational_frameshift					YDR261W-B		4	982755	982755	W		2011-02-03	1999-07-17	
-S000006870	long_terminal_repeat		YDRWdelta20			chromosome 4		4	986794	987125	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006853	long_terminal_repeat		YDRCdelta21			chromosome 4		4	987483	987150	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007395	transposable_element_gene		YDR261C-D		gag-pol fusion protein	chromosome 4		4	992349	987534	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; Gag processing produces capsid proteins, Pol is cleaved to produce protease, reverse transcriptase and integrase activities; in YDRCTy1-3 TYB is mutant and probably non-functional
-S000032325	CDS					YDR261C-D		4	991043	987534	C		2011-02-03	1999-07-17	
-S000032324	CDS					YDR261C-D		4	992349	991045	C		2011-02-03	1999-07-17	
-S000032326	plus_1_translational_frameshift					YDR261C-D		4	991044	991044	C		2011-02-03	1999-07-17	
-S000007394	transposable_element_gene		YDR261C-C		gag protein	chromosome 4		4	992349	991027	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; Gag processing produces capsid proteins; in YDRCTy1-3 TYB is mutant and probably non-functional
-S000031433	CDS					YDR261C-C		4	992349	991027	C		2011-02-03	1999-07-17	
-S000006861	LTR_retrotransposon		YDRCTy1-3		Ty1	chromosome 4		4	992642	987150	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
-S000006854	long_terminal_repeat		YDRCdelta22			chromosome 4		4	992642	992309	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006880	long_terminal_repeat		YDRCsigma4		YDRWsigma4	chromosome 4		4	992815	992740	C		2011-02-03	2000-05-19|2007-04-02	Ty3 LTR
-S000006577	tRNA_gene		tG(GCC)D2			chromosome 4	L000003771	4	992832	992902	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000031716	noncoding_exon					tG(GCC)D2		4	992832	992902	W		2011-02-03	2000-05-19	
-S000002670	ORF	Uncharacterized	YDR262W			chromosome 4		4	993134	993952	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole and is induced in response to the DNA-damaging agent MMS; gene expression increases in response to Zymoliase treatment
-S000036503	CDS					YDR262W		4	993134	993952	W		2011-02-03	1996-07-31	
-S000002671	ORF	Verified	YDR263C	DIN7	exodeoxyribonuclease DIN7|DIN3	chromosome 4	L000003086	4	995534	994242	C		2011-02-03	1996-07-31	Mitochondrial nuclease functioning in DNA repair and replication; modulates the stability of the mitochondrial genome, induced by exposure to mutagens, also induced during meiosis at a time nearly coincident with commitment to recombination; DIN7 has a paralog, EXO1, that arose from the whole genome duplication
-S000036563	CDS					YDR263C		4	995534	994242	C		2011-02-03	1996-07-31	
-S000002672	ORF	Verified	YDR264C	AKR1	palmitoyltransferase AKR1	chromosome 4	L000000072	4	998323	996029	C		2011-02-03	1996-07-31	Palmitoyl transferase involved in protein palmitoylation; acts as a negative regulator of pheromone response pathway; required for endocytosis of pheromone receptors; involved in cell shape control; contains ankyrin repeats; AKR1 has a paralog, AKR2, that arose from the whole genome duplication; any of several human homologs encoding DHHC-type zinc fingers (ZDHHC) can complement temperature sensitivity of yeast akr1 null mutant
-S000036629	CDS					YDR264C		4	998323	996029	C		2011-02-03	1996-07-31	
-S000002673	ORF	Verified	YDR265W	PEX10	ubiquitin-protein ligase peroxin 10|PAS4	chromosome 4	L000003961	4	998864	999877	W		2011-02-03	1996-07-31	Peroxisomal membrane E3 ubiquitin ligase; required for for Ubc4p-dependent Pex5p ubiquitination and peroxisomal matrix protein import; contains zinc-binding RING domain; mutations in human homolog cause various peroxisomal disorders
-S000036772	CDS					YDR265W		4	998864	999877	W		2011-02-03	1996-07-31	
-S000002674	ORF	Verified	YDR266C	HEL2	E3 ubiquitin-protein ligase HEL2	chromosome 4		4	1002023	1000104	C		2011-02-03	1996-07-31	RING finger ubiquitin ligase (E3); involved in ubiquitination and degradation of excess histones; interacts with Ubc4p and Rad53p; null mutant sensitive to hydroxyurea (HU); green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; computational analysis suggests a role as a transcription factor
-S000030572	CDS					YDR266C		4	1002023	1000104	C		2011-02-03	1996-07-31	
-S000002675	ORF	Verified	YDR267C	CIA1	iron-sulfur cluster assembly protein CIA1	chromosome 4		4	1003502	1002510	C		2011-02-03	1996-07-31	Component of cytosolic iron-sulfur protein assembly (CIA) machinery; acts at late step of Fe-S cluster assembly; forms CIA targeting complex with Cia2p and Met18p that directs Fe-S cluster incorporation into subset of proteins involved in methionine biosynthesis, DNA replication and repair, transcription, telomere maintenance; contains WD40 repeats; human homolog CIAO1 can complement yeast cia1 null mutant
-S000030699	CDS					YDR267C		4	1003502	1002510	C		2011-02-03	1996-07-31	
-S000002676	ORF	Verified	YDR268W	MSW1	tryptophan--tRNA ligase MSW1	chromosome 4	L000001209	4	1004004	1005143	W		2011-02-03	1996-07-31	Mitochondrial tryptophanyl-tRNA synthetase
-S000030885	CDS					YDR268W		4	1004004	1005143	W		2011-02-03	1996-07-31	
-S000002678	ORF	Verified	YDR270W	CCC2	Cu(2+)-transporting P-type ATPase CCC2	chromosome 4	L000000235	4	1005675	1008689	W		2011-02-03	1996-07-31	Cu(+2)-transporting P-type ATPase; required for export of copper from the cytosol into an extracytosolic compartment; similar to human proteins involved in Menkes and Wilsons diseases; protein abundance increases in response to DNA replication stress; affects TBSV model (+)RNA virus replication by regulating copper metabolism; human homologs ATP7A and ATP7B both complement yeast null mutant
-S000031624	CDS					YDR270W		4	1005675	1008689	W		2011-02-03	1996-07-31	
-S000002677	ORF	Dubious	YDR269C			chromosome 4		4	1005988	1005665	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031741	CDS					YDR269C		4	1005988	1005665	C		2011-02-03	1996-07-31	
-S000002679	ORF	Dubious	YDR271C			chromosome 4		4	1008766	1008395	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CCC2/YDR270W
-S000031691	CDS					YDR271C		4	1008766	1008395	C		2011-02-03	1996-07-31	
-S000002680	ORF	Verified	YDR272W	GLO2	hydroxyacylglutathione hydrolase GLO2	chromosome 4	L000003488	4	1009010	1009834	W		2011-02-03	1996-07-31	Cytoplasmic glyoxalase II; catalyzes the hydrolysis of S-D-lactoylglutathione into glutathione and D-lactate; GLO2 has a paralog, GLO4, that arose from the whole genome duplication
-S000032699	CDS					YDR272W		4	1009010	1009834	W		2011-02-03	1996-07-31	
-S000002681	ORF	Verified	YDR273W	DON1		chromosome 4		4	1010176	1011273	W		2011-02-03	1996-07-31	Meiosis-specific component of the spindle pole body; subunit of the leading edge protein (LEP) complex (Ssp1-Ady3-Don1-Irc10) that forms a ring-like structure at the leading edge of the prospore membrane (PSM) during meiosis II; required for PSM growth and closure; DON1 has a paralog, CUE5, that arose from the whole genome
-S000032778	CDS					YDR273W		4	1010176	1011273	W		2011-02-03	1996-07-31	
-S000002682	ORF	Uncharacterized	YDR274C			chromosome 4		4	1011960	1011589	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR274C is not an essential gene
-S000032843	CDS					YDR274C		4	1011960	1011589	C		2011-02-03	1996-07-31	
-S000002683	ORF	Verified	YDR275W	BSC2		chromosome 4		4	1012252	1012959	W		2011-02-03	1996-07-31	Protein of unknown function; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; null mutant displays increased translation rate and increased readthrough of premature stop codons; BSC2 has a paralog, IRC23, that arose from the whole genome duplication
-S000034861	CDS					YDR275W		4	1012252	1012959	W		2011-02-03	1996-07-31	
-S000002684	ORF	Verified	YDR276C	PMP3	SNA1	chromosome 4		4	1013643	1013476	C		2011-02-03	1996-07-31	Small plasma membrane protein; confers resistance to amphotericin B and is a potential target of this common antifungal drug; related to a family of plant polypeptides that are overexpressed under high salt concentration or low temperature; not essential for viability; deletion causes hyperpolarization of the plasma membrane potential
-S000034908	CDS					YDR276C		4	1013643	1013476	C		2011-02-03	1996-07-31	
-S000002685	ORF	Verified	YDR277C	MTH1	HTR1|DGT1|BPC1	chromosome 4	L000001213|L000000831	4	1015702	1014401	C		2011-02-03	1996-07-31	Negative regulator of the glucose-sensing signal transduction pathway; required for repression of transcription by Rgt1p; interacts with Rgt1p and the Snf3p and Rgt2p glucose sensors; phosphorylated by Yck1p, triggering Mth1p degradation; MTH1 has a paralog, STD1, that arose from the whole genome duplication
-S000035061	CDS					YDR277C		4	1015702	1014401	C		2011-02-03	1996-07-31	
-S000118442	ARS		ARS430		ARSIV-1017	chromosome 4		4	1016670	1016911			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178077	ARS_consensus_sequence					ARS430		4	1016846	1016830	C		2014-11-18	2014-11-18	
-S000006546	tRNA_gene		tE(CUC)D			chromosome 4	L000003781	4	1017278	1017207	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis
-S000031893	noncoding_exon					tE(CUC)D		4	1017278	1017207	C		2011-02-03	2000-05-19	
-S000002686	ORF	Uncharacterized	YDR278C			chromosome 4		4	1017318	1017001	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR278C is not an essential gene
-S000035163	CDS					YDR278C		4	1017318	1017001	C		2011-02-03	1996-07-31	
-S000002687	ORF	Verified	YDR279W	RNH202	Rnh2B	chromosome 4		4	1019368	1020420	W		2011-02-03	1996-07-31	Ribonuclease H2 subunit; required for RNase H2 activity; role in ribonucleotide excision repair; related to human AGS2 that causes Aicardi-Goutieres syndrome
-S000036060	CDS					YDR279W		4	1019368	1020420	W		2011-02-03	1996-07-31	
-S000002688	ORF	Verified	YDR280W	RRP45	exosome non-catalytic core subunit RRP45	chromosome 4	L000004578	4	1020747	1021664	W		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp45p (PM/SCL-75, EXOSC9); protein abundance increases in response to DNA replication stress
-S000035087	CDS					YDR280W		4	1020747	1021664	W		2011-02-03	1996-07-31	
-S000002689	ORF	Verified	YDR281C	PHM6		chromosome 4	S000007515	4	1022321	1022007	C		2011-02-03	1996-07-31	Protein of unknown function; expression is regulated by phosphate levels
-S000035153	CDS					YDR281C		4	1022321	1022007	C		2011-02-03	1996-07-31	
-S000006881	long_terminal_repeat		YDRWsigma5			chromosome 4		4	1023137	1023477	W		2011-02-03	2000-05-19	Ty3 LTR
-S000002690	ORF	Verified	YDR282C	MRX10		chromosome 4		4	1024755	1023511	C		2011-02-03	1996-07-31	Mitochondrial inner membrane protein of unknown function; associates with mitochondrial ribosome; localizes to the inner membrane with the C terminus facing the intermembrane space; ortholog of human RMND1, mutation in which is implicated in infantile encephaloneuromyopathy and defective mitochondrial translation
-S000035316	CDS					YDR282C		4	1024755	1023511	C		2011-02-03	1996-07-31	
-S000002691	ORF	Verified	YDR283C	GCN2	serine/threonine-protein kinase GCN2|AAS102|NDR2|AAS1	chromosome 4	L000000681	4	1030049	1025070	C	173	2011-02-03	1996-07-31	Protein kinase; phosphorylates the alpha-subunit of translation initiation factor eIF2 (Sui2p) in response to starvation; activated by uncharged tRNAs and the Gcn1p-Gcn20p complex; contributes to DNA damage checkpoint control
-S000036262	CDS					YDR283C		4	1030049	1025070	C		2011-02-03	1996-07-31	
-S000002692	ORF	Verified	YDR284C	DPP1	bifunctional diacylglycerol diphosphate phosphatase/phosphatidate phosphatase|ZRG1	chromosome 4	L000003582	4	1031419	1030550	C		2011-02-03	1996-07-31	Diacylglycerol pyrophosphate (DGPP) phosphatase; zinc-regulated vacuolar membrane-associated lipid phosphatase, dephosphorylates DGPP to phosphatidate (PA) and Pi, then PA to diacylglycerol; involved in lipid signaling and cell metabolism
-S000036340	CDS					YDR284C		4	1031419	1030550	C		2011-02-03	1996-07-31	
-S000002693	ORF	Verified	YDR285W	ZIP1		chromosome 4	L000002568	4	1032436	1035063	W		2011-02-03	1996-07-31	Transverse filament protein of the synaptonemal complex; required for normal levels of meiotic recombination and pairing between homologous chromosome during meiosis; required for meiotic recombination between non-allelc sites; potential Cdc28p substrate
-S000036473	CDS					YDR285W		4	1032436	1035063	W		2011-02-03	1996-07-31	
-S000002694	ORF	Uncharacterized	YDR286C			chromosome 4		4	1035575	1035231	C		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to have thiol-disulfide oxidoreductase active site
-S000037085	CDS					YDR286C		4	1035575	1035231	C		2011-02-03	1996-07-31	
-S000002695	ORF	Verified	YDR287W	INM2	inositol monophosphate 1-phosphatase INM2	chromosome 4		4	1035995	1036873	W		2011-02-03	1996-07-31	Inositol monophosphatase; involved in biosynthesis of inositol; enzymatic activity requires magnesium ions and is inhibited by lithium and sodium ions; inm1 inm2 double mutant lacks inositol auxotrophy
-S000037232	CDS					YDR287W		4	1035995	1036873	W		2011-02-03	1996-07-31	
-S000002696	ORF	Verified	YDR288W	NSE3	Smc5-Smc6 complex subunit NSE3	chromosome 4		4	1037195	1038106	W		2011-02-03	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; protein abundance increases in response to DNA replication stress
-S000037315	CDS					YDR288W		4	1037195	1038106	W		2011-02-03	1996-07-31	
-S000002698	ORF	Dubious	YDR290W		SWS1	chromosome 4		4	1039370	1039699	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RTT103
-S000031324	CDS					YDR290W		4	1039370	1039699	W		2011-02-03	1996-07-31	
-S000002697	ORF	Verified	YDR289C	RTT103		chromosome 4		4	1039509	1038280	C		2011-02-03	1996-07-31	Protein involved in transcription termination by RNA polymerase II; interacts with exonuclease Rat1p and Rai1p; has an RPR domain (carboxy-terminal domain interacting domain); also involved in regulation of Ty1 transposition
-S000037346	CDS					YDR289C		4	1039509	1038280	C		2011-02-03	1996-07-31	
-S000002699	ORF	Verified	YDR291W	HRQ1	ATP-dependent 3'-5' DNA helicase	chromosome 4		4	1039728	1042961	W		2011-02-03	1996-07-31	3'-5' DNA helicase that has DNA strand annealing activity; helicase activity is stimulated by fork structure and 3'-tail length of substrates; acts with Rad4p in nucleotide-excision repair; belongs to the widely conserved RecQ family of proteins which are involved in maintaining genomic integrity; similar to the human RecQ4p implicated in Rothmund-Thomson syndrome (RTS)
-S000032334	CDS					YDR291W		4	1039728	1042961	W		2011-02-03	1996-07-31	
-S000002700	ORF	Verified	YDR292C	SRP101	Signal recognition particle receptor subunit alpha	chromosome 4	L000002067	4	1045011	1043146	C		2011-02-03	1996-07-31	Signal recognition particle (SRP) receptor alpha subunit; contain GTPase domains; involved in SRP-dependent protein targeting; interacts with the beta subunit, Srp102p
-S000032412	CDS					YDR292C		4	1045011	1043146	C		2011-02-03	1996-07-31	
-S000002701	ORF	Verified	YDR293C	SSD1	mRNA-binding translational repressor SSD1|SRK1|RLT1|MCS1|CLA1	chromosome 4	L000002077	4	1049392	1045640	C	176	2011-02-03	1996-07-31	Translational repressor with a role in polar growth and wall integrity; regulated by Cbk1p phosphorylation to effect bud-specific translational control and localization of specific mRNAs; interacts with TOR pathway components; contains a functional N-terminal nuclear localization sequence and nucleocytoplasmic shuttling appears to be critical to Ssd1p function
-S000032503	CDS					YDR293C		4	1049392	1045640	C		2011-02-03	1996-07-31	
-S000002702	ORF	Verified	YDR294C	DPL1	sphinganine-1-phosphate aldolase DPL1|BST1	chromosome 4	L000004296	4	1052228	1050459	C		2011-02-03	1996-07-31	Dihydrosphingosine phosphate lyase; regulates intracellular levels of sphingolipid long-chain base phosphates (LCBPs), degrades phosphorylated long chain bases, prefers C16 dihydrosphingosine-l-phosphate as a substrate
-S000032617	CDS					YDR294C		4	1052228	1050459	C		2011-02-03	1996-07-31	
-S000002703	ORF	Verified	YDR295C	HDA2	PLO2	chromosome 4		4	1054647	1052623	C		2011-02-03	1996-07-31	Subunit of the HDA1 histone deacetylase complex; possibly tetrameric trichostatin A-sensitive class II histone deacetylase complex contains Hda1p homodimer and an Hda2p-Hda3p heterodimer; involved in telomere maintenance; relocalizes to the cytosol in response to hypoxia
-S000033335	CDS					YDR295C		4	1054647	1052623	C		2011-02-03	1996-07-31	
-S000002704	ORF	Verified	YDR296W	MHR1	XTC1	chromosome 4	L000004333	4	1055212	1055892	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; also involved in homologous recombination in mitochondria; required for recombination-dependent mtDNA partitioning; involved in stimulation of mitochondrial DNA replication in response to oxidative stress
-S000033421	CDS					YDR296W		4	1055212	1055892	W		2011-02-03	1996-07-31	
-S000002705	ORF	Verified	YDR297W	SUR2	sphingosine hydroxylase|SYR2	chromosome 4	L000002244|L000002259	4	1056551	1057600	W		2011-02-03	1996-07-31	Sphinganine C4-hydroxylase; catalyses the conversion of sphinganine to phytosphingosine in sphingolipid biosyntheis
-S000033508	CDS					YDR297W		4	1056551	1057600	W		2011-02-03	1996-07-31	
-S000118443	ARS		ARS431		ARSIV-1058	chromosome 4		4	1057841	1057951			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178078	ARS_consensus_sequence					ARS431		4	1057887	1057903	W		2014-11-18	2014-11-18	
-S000002706	ORF	Verified	YDR298C	ATP5	F1F0 ATP synthase subunit 5|OSC1	chromosome 4	L000000145	4	1058814	1058176	C		2011-02-03	1996-07-31	Subunit 5 of the stator stalk of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; homologous to bovine subunit OSCP (oligomycin sensitivity-conferring protein); phosphorylated
-S000033515	CDS					YDR298C		4	1058814	1058176	C		2011-02-03	1996-07-31	
-S000002707	ORF	Verified	YDR299W	BFR2	rRNA-processing protein BFR2	chromosome 4	L000004432	4	1059627	1061231	W		2011-02-03	1996-07-31	Component of the SSU and 90S preribosomes; involved in pre-18S rRNA processing; binds to U3 snoRNA and Mpp10p; multicopy suppressor of sensitivity to Brefeldin A; expression is induced during lag phase and also by cold shock
-S000033609	CDS					YDR299W		4	1059627	1061231	W		2011-02-03	1996-07-31	
-S000002708	ORF	Verified	YDR300C	PRO1	glutamate 5-kinase	chromosome 4	L000001491	4	1062791	1061505	C	187	2011-02-03	1996-07-31	Gamma-glutamyl kinase; catalyzes the first step in proline biosynthesis; required for nitrogen starvation-induced ribophagy but not for nonselective autophagy; PRO1 has a paralog, YHR033W, that arose from the whole genome duplication
-S000030896	CDS					YDR300C		4	1062791	1061505	C		2011-02-03	1996-07-31	
-S000002709	ORF	Verified	YDR301W	CFT1	YHH1	chromosome 4	L000003600	4	1063352	1067425	W		2011-02-03	1996-07-31	RNA-binding subunit of the mRNA cleavage and polyadenylation factor; involved in poly(A) site recognition and required for both pre-mRNA cleavage and polyadenylation, 51% sequence similarity with mammalian AAUAA-binding subunit of CPSF
-S000031983	CDS					YDR301W		4	1063352	1067425	W		2011-02-03	1996-07-31	
-S000002710	ORF	Verified	YDR302W	GPI11	mannose-ethanolamine phosphotransferase GPI11	chromosome 4		4	1067731	1068390	W		2011-02-03	1996-07-31	ER membrane protein involved in a late step of GPI anchor assembly; involved in the addition of phosphoethanolamine to the multiply mannosylated glycosylphosphatidylinositol (GPI) intermediate; human PIG-Fp is a functional homolog
-S000032108	CDS					YDR302W		4	1067731	1068390	W		2011-02-03	1996-07-31	
-S000002711	ORF	Verified	YDR303C	RSC3		chromosome 4		4	1071386	1068729	C		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; essential gene required for maintenance of proper ploidy and regulation of ribosomal protein genes and the cell wall/stress response; RSC3 has a paralog, RSC30, that arose from the whole genome duplication
-S000032135	CDS					YDR303C		4	1071386	1068729	C		2011-02-03	1996-07-31	
-S000002712	ORF	Verified	YDR304C	CPR5	peptidylprolyl isomerase family protein CPR5|CYP5	chromosome 4	L000000466	4	1072557	1071880	C		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (cyclophilin) of the ER; catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; transcriptionally induced in response to unfolded proteins in the ER; CPR5 has a paralog, CPR2, that arose from the whole genome duplication
-S000034130	CDS					YDR304C		4	1072557	1071880	C		2011-02-03	1996-07-31	
-S000002713	ORF	Verified	YDR305C	HNT2	bis(5'-adenosyl)-triphosphatase|APH1	chromosome 4	L000003335	4	1073488	1072746	C		2011-02-03	1996-07-31	Dinucleoside triphosphate hydrolase; has similarity to the tumor suppressor FHIT and belongs to the histidine triad (HIT) superfamily of nucleotide-binding proteins
-S000034247	CDS					YDR305C		4	1073312	1072746	C		2011-02-03	1996-07-31	
-S000034246	CDS					YDR305C		4	1073488	1073402	C		2011-02-03	1996-07-31	
-S000034248	intron					YDR305C		4	1073401	1073313	C		2011-02-03	1996-07-31	
-S000002714	ORF	Verified	YDR306C			chromosome 4		4	1075171	1073735	C		2011-02-03	1996-07-31	F-box protein of unknown function; interacts with Sgt1p via a Leucine-Rich Repeat (LRR) domain
-S000034313	CDS					YDR306C		4	1075171	1073735	C		2011-02-03	1996-07-31	
-S000006767	tRNA_gene		tV(CAC)D			chromosome 4	L000003780	4	1075544	1075472	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000030586	noncoding_exon					tV(CAC)D		4	1075544	1075472	C		2011-02-03	2000-05-19	
-S000002715	ORF	Uncharacterized	YDR307W	PMT7	putative dolichyl-phosphate-mannose--protein mannosyltransferase	chromosome 4	S000029378|L000004021|L000004010	4	1075865	1077853	W		2011-02-03	1996-07-31	Putative protein mannosyltransferase similar to Pmt1p; has a potential role in protein O-glycosylation
-S000035324	CDS					YDR307W		4	1075865	1077853	W		2011-02-03	1996-07-31	
-S000002716	ORF	Verified	YDR308C	SRB7	SSX1|MED21	chromosome 4	L000002754|S000029514|L000002097	4	1078449	1078027	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; target of the global repressor Tup1p
-S000035339	CDS					YDR308C		4	1078449	1078027	C		2011-02-03	1996-07-31	
-S000002717	ORF	Verified	YDR309C	GIC2		chromosome 4	L000003314	4	1080199	1079048	C		2011-02-03	1996-07-31	Redundant rho-like GTPase Cdc42p effector; involved in initiation of budding and cellular polarization; interacts with Cdc42p via the Cdc42/Rac-interactive binding (CRIB) domain and with PI(4,5)P2 via a polybasic region; GIC2 has a paralog, GIC1, that arose from the whole genome duplication
-S000035408	CDS					YDR309C		4	1080199	1079048	C		2011-02-03	1996-07-31	
-S000002718	ORF	Verified	YDR310C	SUM1		chromosome 4	L000003008	4	1084316	1081128	C		2011-02-03	1996-07-31	Transcriptional repressor that regulates middle-sporulation genes; required for mitotic repression of middle sporulation-specific genes; also acts as general replication initiation factor; involved in telomere maintenance, chromatin silencing; regulated by pachytene checkpoint
-S000034868	CDS					YDR310C		4	1084316	1081128	C		2011-02-03	1996-07-31	
-S000002719	ORF	Verified	YDR311W	TFB1	TFIIH/NER complex subunit TFB1	chromosome 4	L000002284	4	1085065	1086993	W		2011-02-03	1996-07-31	Subunit of TFIIH and nucleotide excision repair factor 3 complexes; required for nucleotide excision repair, target for transcriptional activators; relocalizes to the cytosol in response to hypoxia
-S000035123	CDS					YDR311W		4	1085065	1086993	W		2011-02-03	1996-07-31	
-S000002720	ORF	Verified	YDR312W	SSF2	rRNA-binding ribosome biosynthesis protein	chromosome 4	L000002081	4	1087581	1088942	W		2011-02-03	1996-07-31	Protein required for ribosomal large subunit maturation; functionally redundant with Ssf1p; member of the Brix family; SSF2 has a paralog, SSF1, that arose from the whole genome duplication
-S000035275	CDS					YDR312W		4	1087581	1088942	W		2011-02-03	1996-07-31	
-S000002721	ORF	Verified	YDR313C	PIB1	phosphatidylinositol-3-phosphate-binding ubiquitin-protein ligase	chromosome 4	L000004635	4	1090079	1089219	C		2011-02-03	1996-07-31	RING-type ubiquitin ligase of the endosomal and vacuolar membranes; binds phosphatidylinositol(3)-phosphate; contains a FYVE finger domain
-S000036080	CDS					YDR313C		4	1090079	1089219	C		2011-02-03	1996-07-31	
-S000002722	ORF	Verified	YDR314C	RAD34		chromosome 4		4	1092511	1090433	C		2011-02-03	1996-07-31	Protein involved in nucleotide excision repair (NER); homologous to RAD4
-S000036213	CDS					YDR314C		4	1092511	1090433	C		2011-02-03	1996-07-31	
-S000002723	ORF	Verified	YDR315C	IPK1	inositol pentakisphosphate 2-kinase|GSL1	chromosome 4	L000003564	4	1093586	1092741	C		2011-02-03	1996-07-31	Inositol 1,3,4,5,6-pentakisphosphate 2-kinase; nuclear protein required for synthesis of 1,2,3,4,5,6-hexakisphosphate (phytate), which is integral to cell function; has 2 motifs conserved in other fungi; ipk1 gle1 double mutant is inviable; human IPPK can complement ipk1 null mutant
-S000036321	CDS					YDR315C		4	1093586	1092741	C		2011-02-03	1996-07-31	
-S000002724	ORF	Verified	YDR316W	OMS1	putative RNA methyltransferase	chromosome 4		4	1093763	1095178	W		2011-02-03	1996-07-31	Protein integral to the mitochondrial membrane; has a conserved methyltransferase motif and is predicted to be an RNA methyltransferase; multicopy suppressor of respiratory defects caused by OXA1 mutations
-S000030079	CDS					YDR316W		4	1093763	1095178	W		2011-02-03	1996-07-31	
-S000006563	tRNA_gene		tF(GAA)D			chromosome 4	L000003779	4	1095461	1095370	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000035376	intron					tF(GAA)D		4	1095424	1095406	C		2011-02-03	2000-05-19	
-S000035375	noncoding_exon					tF(GAA)D		4	1095405	1095370	C		2011-02-03	2000-05-19	
-S000035374	noncoding_exon					tF(GAA)D		4	1095461	1095425	C		2011-02-03	2000-05-19	
-S000006871	long_terminal_repeat		YDRWdelta23			chromosome 4		4	1095767	1096104	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006882	LTR_retrotransposon		YDRWTy1-4		Ty1	chromosome 4		4	1095767	1101692	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007398	transposable_element_gene		YDR316W-A		gag protein	chromosome 4		4	1096064	1097386	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000034439	CDS					YDR316W-A		4	1096064	1097386	W		2011-02-03	1999-07-17	
-S000007399	transposable_element_gene		YDR316W-B		gag-pol fusion protein	chromosome 4		4	1096064	1101332	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000034443	CDS					YDR316W-B		4	1096064	1097368	W		2011-02-03	1999-07-17	
-S000034444	CDS					YDR316W-B		4	1097370	1101332	W		2011-02-03	1999-07-17	
-S000034445	plus_1_translational_frameshift					YDR316W-B		4	1097369	1097369	W		2011-02-03	1999-07-17	
-S000006872	long_terminal_repeat		YDRWdelta24			chromosome 4		4	1101355	1101692	W		2011-02-03	2000-05-19	Ty1 LTR
-S000002725	ORF	Verified	YDR317W	HIM1		chromosome 4	S000029210|L000000774	4	1102184	1103428	W	275	2011-02-03	1996-07-31	Protein of unknown function involved in DNA repair
-S000030217	CDS					YDR317W		4	1102184	1103428	W		2011-02-03	1996-07-31	
-S000002726	ORF	Verified	YDR318W	MCM21	CTF5	chromosome 4	L000003998	4	1103758	1104947	W		2011-02-03	2003-09-27|1996-07-31	Component of the kinetochore sub-complex COMA; COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) bridges kinetochore subunits in contact with centromeric DNA with subunits bound to microtubules during kinetochore assembly; involved in minichromosome maintenance; modified by sumoylation; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-O and fission yeast mal2
-S000030336	CDS					YDR318W		4	1103758	1103809	W		2011-02-03	2003-09-27|1996-07-31	
-S000030337	CDS					YDR318W		4	1103893	1104947	W		2011-02-03	2003-09-27	
-S000030338	intron					YDR318W		4	1103810	1103892	W		2011-02-03	2003-09-27	
-S000002727	ORF	Uncharacterized	YDR319C	YFT2	FIT2A	chromosome 4		4	1105827	1105003	C		2011-02-03	1996-07-31	Protein required for normal ER membrane biosynthesis; member of the highly conserved FIT family of proteins involved in triglyceride droplet biosynthesis and homologous to human FIT2; interacts with Sst2p and Hsp82p in high-throughput two-hybrid screens
-S000030447	CDS					YDR319C		4	1105827	1105003	C		2011-02-03	1996-07-31	
-S000002728	ORF	Verified	YDR320C	SWA2	BUD24|AUX1	chromosome 4		4	1108101	1106095	C		2011-02-03	1996-07-31	Auxilin-like protein involved in vesicular transport; clathrin-binding protein required for uncoating of clathrin-coated vesicles
-S000030945	CDS					YDR320C		4	1108101	1106095	C		2011-02-03	1996-07-31	
-S000028821	ORF	Dubious	YDR320W-B			chromosome 4		4	1108484	1108621	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene DAD4/YDR320C-A
-S000033640	CDS					YDR320W-B		4	1108484	1108621	W		2011-02-03	2003-07-29	
-S000007604	ORF	Verified	YDR320C-A	DAD4	HSK2	chromosome 4		4	1108498	1108280	C		2011-02-03	2001-02-26	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
-S000037150	CDS					YDR320C-A		4	1108498	1108280	C		2011-02-03	2001-02-26	
-S000002729	ORF	Verified	YDR321W	ASP1	asparaginase ASP1	chromosome 4	L000000129	4	1108702	1109847	W	190	2011-02-03	1996-07-31	Cytosolic L-asparaginase, involved in asparagine catabolism; catalyzes hydrolysis of L-asparagine to aspartic acid and ammonia; important enzyme for the treatment of acute lymphoblastic leukemia; has low glutaminase activity and dependence; synthesized constitutively
-S000031109	CDS					YDR321W		4	1108702	1109847	W		2011-02-03	1996-07-31	
-S000119071	ARS		ARS452		ARSIV-1110|ARS431.5	chromosome 4		4	1109964	1110204			2011-02-03	2006-10-05	Autonomously Replicating Sequence
-S000002730	ORF	Verified	YDR322W	MRPL35	mitochondrial 54S ribosomal protein YmL35|YmL35	chromosome 4	L000002694	4	1110589	1111692	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000031250	CDS					YDR322W		4	1110589	1111692	W		2011-02-03	1996-07-31	
-S000007255	ORF	Verified	YDR322C-A	TIM11	F1F0 ATP synthase subunit e|ATP21	chromosome 4	L000004719	4	1112293	1112003	C		2011-02-03	1999-07-17	Subunit e of mitochondrial F1F0-ATPase; ATPase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; essential for the dimeric and oligomeric state of ATP synthase, which in turn determines the shape of inner membrane cristae
-S000035372	CDS					YDR322C-A		4	1112293	1112003	C		2011-02-03	1999-07-17	
-S000002731	ORF	Verified	YDR323C	PEP7	VPT19|VPS19|VPL21|VAC1	chromosome 4	L000001377	4	1114027	1112480	C	192	2011-02-03	1996-07-31	Adaptor protein involved in vesicle-mediated vacuolar protein sorting; multivalent adaptor protein; facilitates vesicle-mediated vacuolar protein sorting by ensuring high-fidelity vesicle docking and fusion, which are essential for targeting of vesicles to the endosome; required for vacuole inheritance
-S000031288	CDS					YDR323C		4	1114027	1112480	C		2011-02-03	1996-07-31	
-S000002732	ORF	Verified	YDR324C	UTP4		chromosome 4		4	1116763	1114433	C		2011-02-03	1996-07-31	Subunit of U3-containing 90S preribosome and SSU processome complexes; involved in production of 18S rRNA and assembly of small ribosomal subunit; member of t-Utp subcomplex involved with transcription of 35S rRNA transcript; Small Subunit processome is also known as SSU processome
-S000032287	CDS					YDR324C		4	1116763	1114433	C		2011-02-03	1996-07-31	
-S000002733	ORF	Verified	YDR325W	YCG1	condensin subunit YCG1|YCS5|TIE1	chromosome 4	S000007469	4	1117126	1120233	W		2011-02-03	2002-12-17|1996-07-31	Subunit of the condensin complex; required for establishment and maintenance of chromosome condensation, chromosome segregation and chromatin binding by the complex; required for tRNA genes clustering at the nucleolus; required for replication slow zone breakage following Mec1p inactivation; transcription is cell cycle regulated, peaking in mitosis and declining in G1; protein is constitutively degraded by the proteasome; rate limiting for condensin recruitment to chromatin
-S000032437	CDS					YDR325W		4	1117126	1120233	W		2011-02-03	2002-12-17|1996-07-31	
-S000002734	ORF	Verified	YDR326C	YSP2	LAM2|LTC4	chromosome 4		4	1124925	1120609	C		2011-02-03	1996-07-31	Sterol-binding protein; has a probable role in retrograde transport of sterols from the plasma membrane to the ER; contains two StART-like domains that bind sterols and a GRAM domain; co-localizes to puncta in the cortical ER with Sip3p; one of six StART-like domain-containing proteins in yeast that may be involved in sterol transfer between intracellular membranes; conserved across eukaryotes
-S000032495	CDS					YDR326C		4	1124925	1120609	C		2011-02-03	1996-07-31	
-S000002735	ORF	Dubious	YDR327W			chromosome 4		4	1125302	1125628	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SKP1
-S000034595	CDS					YDR327W		4	1125302	1125628	W		2011-02-03	1996-07-31	
-S000002736	ORF	Verified	YDR328C	SKP1	SCF ubiquitin ligase subunit SKP1|CBF3D|MGO1	chromosome 4	L000001910	4	1126018	1125434	C		2011-02-03	1996-07-31	Evolutionarily conserved kinetochore protein; part of multiple protein complexes, including the SCF ubiquitin ligase complex, the CBF3 complex that binds centromeric DNA, and the RAVE complex that regulates assembly of the V-ATPase; protein abundance increases in response to DNA replication stress
-S000034604	CDS					YDR328C		4	1126018	1125434	C		2011-02-03	1996-07-31	
-S000002737	ORF	Verified	YDR329C	PEX3	PAS3	chromosome 4	L000001339	4	1127595	1126270	C		2011-02-03	1996-07-31	Peroxisomal membrane protein (PMP); required for proper localization and stability of PMPs; anchors peroxisome retention factor Inp1p at the peroxisomal membrane; interacts with Pex19p
-S000034672	CDS					YDR329C		4	1127595	1126270	C		2011-02-03	1996-07-31	
-S000002738	ORF	Verified	YDR330W	UBX5		chromosome 4		4	1127872	1129374	W		2011-02-03	1996-07-31	UBX domain-containing protein that interacts with Cdc48p; ubiquitin regulatory X is also known as UBX
-S000034262	CDS					YDR330W		4	1127872	1129374	W		2011-02-03	1996-07-31	
-S000002739	ORF	Verified	YDR331W	GPI8	GPI-anchor transamidase	chromosome 4	L000004086	4	1129588	1130823	W		2011-02-03	1996-07-31	ER membrane glycoprotein subunit of the GPI transamidase complex; adds glycosylphosphatidylinositol (GPI) anchors to newly synthesized proteins; human PIG-K protein is a functional homolog
-S000034385	CDS					YDR331W		4	1129588	1130823	W		2011-02-03	1996-07-31	
-S000002740	ORF	Verified	YDR332W	IRC3	double-stranded DNA-dependent ATPase	chromosome 4		4	1131001	1133070	W		2011-02-03	1996-07-31	Double-stranded DNA-dependent helicase of the DExH/D-box family; required for maintenance of the mitochondrial (mt) genome; null mutant accumulates double-stranded breaks in mt DNA; localizes to the mt matrix
-S000035410	CDS					YDR332W		4	1131001	1133070	W		2011-02-03	1996-07-31	
-S000002741	ORF	Verified	YDR333C	RQC1		chromosome 4		4	1135431	1133260	C		2011-02-03	1996-07-31	Component of the ribosome quality control complex (RQC); RQC (Rqc1p-Rkr1p-Tae2p-Cdc48p-Npl4p-Ufd1p) is a ribosome-bound complex required for the degradation of polypeptides arising from stalled translation; required along with Rkr1p for recruitment of the Cdc48p-Npl4p-Ufd1p AAA ATPase complex to the RQC
-S000035465	CDS					YDR333C		4	1135431	1133260	C		2011-02-03	1996-07-31	
-S000002742	ORF	Verified	YDR334W	SWR1	chromatin-remodeling protein SWR1	chromosome 4	S000007447	4	1135932	1140476	W		2011-02-03	1996-07-31	Swi2/Snf2-related ATPase; structural component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; relocalizes to the cytosol in response to hypoxia; chronological aging factor that mediates lifespan extension by dietary restriction
-S000035602	CDS					YDR334W		4	1135932	1140476	W		2011-02-03	1996-07-31	
-S000002743	ORF	Verified	YDR335W	MSN5	karyopherin MSN5|STE21|KAP142	chromosome 4	L000002124|L000003212	4	1141168	1144842	W	196	2011-02-03	1996-07-31	Karyopherin; involved in nuclear import and export of proteins, including import of replication protein A and export of Far1p and transcription factors Swi5p, Swi6p, Msn2p, and Pho4p; required for re-export of mature tRNAs after their retrograde import from the cytoplasm; exportin-5 homolog
-S000036506	CDS					YDR335W		4	1141168	1144842	W		2011-02-03	1996-07-31	
-S000002744	ORF	Uncharacterized	YDR336W	MRX8		chromosome 4		4	1145092	1146036	W		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; sumoylated under stress conditions in a genome wide study; YDR336W is not an essential gene
-S000036602	CDS					YDR336W		4	1145092	1146036	W		2011-02-03	1996-07-31	
-S000002745	ORF	Verified	YDR337W	MRPS28	mitochondrial 37S ribosomal protein MRPS28	chromosome 4	L000001176	4	1146319	1147179	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000036695	CDS					YDR337W		4	1146319	1147179	W		2011-02-03	1996-07-31	
-S000002746	ORF	Uncharacterized	YDR338C			chromosome 4		4	1149466	1147379	C		2011-02-03	1996-07-31	Putative protein of unknown function; member of the multi-drug and toxin extrusion (MATE) family of the multidrug/oligosaccharidyl-lipid/polysaccharide (MOP) exporter superfamily
-S000036729	CDS					YDR338C		4	1149466	1147379	C		2011-02-03	1996-07-31	
-S000002747	ORF	Verified	YDR339C	FCF1	rRNA-processing protein FCF1|UTP24	chromosome 4		4	1150520	1149951	C		2011-02-03	1996-07-31	Putative PINc domain nuclease; required for early cleavages of 35S pre-rRNA and maturation of 18S rRNA; component of the SSU (small subunit) processome involved in 40S ribosomal subunit biogenesis; copurifies with Faf1p
-S000030573	CDS					YDR339C		4	1150520	1149951	C		2011-02-03	1996-07-31	
-S000002748	ORF	Dubious	YDR340W			chromosome 4		4	1150881	1151183	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000030471	CDS					YDR340W		4	1150881	1151183	W		2011-02-03	1996-07-31	
-S000006777	tRNA_gene		tX(XXX)D			chromosome 4	L000003778	4	1150941	1150842	C		2011-02-03	2000-05-19	tRNA of undetermined specificity, predicted by tRNAscan-SE analysis; very similar to serine tRNAs
-S000032726	noncoding_exon					tX(XXX)D		4	1150941	1150842	C		2011-02-03	2000-05-19	
-S000006873	long_terminal_repeat		YDRWdelta25			chromosome 4		4	1151039	1151368	W		2011-02-03	2000-05-19	Ty1 LTR
-S000002749	ORF	Verified	YDR341C		arginine--tRNA ligase|ArgRS|RRS1	chromosome 4		4	1153626	1151803	C		2011-02-03	1996-07-31	Arginyl-tRNA synthetase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YDR341C has a paralog, MSR1, that arose from the whole genome duplication
-S000030508	CDS					YDR341C		4	1153626	1151803	C		2011-02-03	1996-07-31	
-S000002750	ORF	Verified	YDR342C	HXT7	hexose transporter HXT7	chromosome 4	L000000841	4	1155928	1154216	C		2011-02-03	1996-07-31	High-affinity glucose transporter; member of the major facilitator superfamily, nearly identical to Hxt6p, expressed at high basal levels relative to other HXTs, expression repressed by high glucose levels; HXT7 has a paralog, HXT4, that arose from the whole genome duplication
-S000031436	CDS					YDR342C		4	1155928	1154216	C		2011-02-03	1996-07-31	
-S000118444	ARS		ARS432		ARSIV-1159	chromosome 4		4	1159262	1159510			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000119074	ARS_consensus_sequence					ARS432		4	1159461	1159447	C		2011-02-03	2006-10-05	
-S000002751	ORF	Verified	YDR343C	HXT6	hexose transporter HXT6	chromosome 4	L000000840	4	1161320	1159608	C		2011-02-03	1996-07-31	High-affinity glucose transporter; member of the major facilitator superfamily, nearly identical to Hxt7p, expressed at high basal levels relative to other HXTs, repression of expression by high glucose requires SNF3; HXT6 has a paralog, HXT1, that arose from the whole genome duplication
-S000031535	CDS					YDR343C		4	1161320	1159608	C		2011-02-03	1996-07-31	
-S000002752	ORF	Dubious	YDR344C			chromosome 4		4	1162449	1162006	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031692	CDS					YDR344C		4	1162449	1162006	C		2011-02-03	1996-07-31	
-S000002753	ORF	Verified	YDR345C	HXT3	hexose transporter HXT3	chromosome 4	L000000837	4	1164660	1162957	C	209.07	2011-02-03	1996-07-31	Low affinity glucose transporter of the major facilitator superfamily; expression is induced in low or high glucose conditions; HXT3 has a paralog, HXT5, that arose from the whole genome duplication
-S000032671	CDS					YDR345C		4	1164660	1162957	C		2011-02-03	1996-07-31	
-S000119072	ARS		ARS453		ARSIV-1166|ARS432.5	chromosome 4		4	1166067	1166212			2014-11-18	2014-11-18|2006-10-05	Autonomously Replicating Sequence
-S000119073	ARS_consensus_sequence					ARS453		4	1166181	1166167	C		2011-02-03	2006-10-05	
-S000002754	ORF	Verified	YDR346C	SVF1	SGI1	chromosome 4		4	1168659	1167214	C		2011-02-03	1996-07-31	Protein with a potential role in cell survival pathways; required for the diauxic growth shift; expression in mammalian cells increases survival under conditions inducing apoptosis; mutant has increased aneuploidy tolerance
-S000032732	CDS					YDR346C		4	1168659	1167214	C		2011-02-03	1996-07-31	
-S000002755	ORF	Verified	YDR347W	MRP1	mitochondrial 37S ribosomal protein MRP1	chromosome 4	L000001152	4	1169178	1170143	W	204.07	2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; MRP1 exhibits genetic interactions with PET122, encoding a COX3-specific translational activator, and with PET123, encoding a small subunit mitochondrial ribosomal protein
-S000032890	CDS					YDR347W		4	1169178	1170143	W		2011-02-03	1996-07-31	
-S000002756	ORF	Verified	YDR348C	PAL1		chromosome 4		4	1171825	1170326	C		2011-02-03	1996-07-31	Protein of unknown function thought to be involved in endocytosis; physically interacts with Ede1p and is found at endocytic sites at cell periphery during early stages of endocytosis; green fluorescent protein (GFP)-fusion protein localizes to bud neck; potential Cdc28p substrate; similar to S. pombe Pal1 protein; relocalizes from bud neck to cytoplasm upon DNA replication stress; PAL1 has a paralog, YHR097C, that arose from the whole genome duplication
-S000034824	CDS					YDR348C		4	1171825	1170326	C		2011-02-03	1996-07-31	
-S000002757	ORF	Verified	YDR349C	YPS7	putative aspartic endopeptidase	chromosome 4	L000004384	4	1174176	1172386	C		2011-02-03	1996-07-31	Putative GPI-anchored aspartic protease; member of the yapsin family of proteases involved in cell wall growth and maintenance; located in the cytoplasm and endoplasmic reticulum
-S000034909	CDS					YDR349C		4	1174176	1172386	C		2011-02-03	1996-07-31	
-S000006874	long_terminal_repeat		YDRWdelta26			chromosome 4		4	1175316	1175647	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006858	long_terminal_repeat		YDRCsigma6			chromosome 4		4	1175812	1175134	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006659	tRNA_gene		tM(CAU)D	EMT1		chromosome 4	L000000551|L000003772	4	1175829	1175901	W		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
-S000034501	noncoding_exon					tM(CAU)D		4	1175829	1175901	W		2011-02-03	2000-05-19	
-S000002758	ORF	Verified	YDR350C	ATP22	TCM10	chromosome 4	L000002912	4	1178174	1176120	C		2011-02-03	1996-07-31|2011-02-03	Specific translational activator for the mitochondrial ATP6 mRNA; Atp6p encodes a subunit of F1F0 ATP synthase; localized to the mitochondrial inner membrane
-S000033802	CDS					YDR350C		4	1178174	1176120	C		2011-02-03	1996-07-31|2011-02-03	
-S000002759	ORF	Verified	YDR351W	SBE2		chromosome 4	L000002745	4	1178666	1181260	W		2011-02-03	1996-07-31	Protein required for bud growth; involved in transport of cell wall components from the Golgi to the cell surface; SBE2 has a paralog, SBE22, that arose from the whole genome duplication
-S000034051	CDS					YDR351W		4	1178666	1181260	W		2011-02-03	1996-07-31	
-S000002760	ORF	Verified	YDR352W	YPQ2		chromosome 4		4	1181801	1182754	W		2011-02-03	1996-07-31	Putative vacuolar membrane transporter for cationic amino acids; likely contributes to amino acid homeostasis by exporting cationic amino acids from the vacuole; member of the PQ-loop family, with seven transmembrane domains; mutant phenotype is functionally complemented by rat PQLC2 vacuolar transporter
-S000034941	CDS					YDR352W		4	1181801	1182754	W		2011-02-03	1996-07-31	
-S000002761	ORF	Verified	YDR353W	TRR1	thioredoxin-disulfide reductase TRR1	chromosome 4	L000003953	4	1183299	1184258	W		2011-02-03	1996-07-31	Cytoplasmic thioredoxin reductase; key regulatory enzyme that determines the redox state of the thioredoxin system, which acts as a disulfide reductase system and protects cells against both oxidative and reductive stress; protein abundance increases in response to DNA replication stress; TRR1 has a paralog, TRR2, that arose from the whole genome duplication
-S000035089	CDS					YDR353W		4	1183299	1184258	W		2011-02-03	1996-07-31	
-S000002762	ORF	Verified	YDR354W	TRP4	anthranilate phosphoribosyltransferase	chromosome 4	L000002355	4	1184747	1185889	W	209	2011-02-03	1996-07-31	Anthranilate phosphoribosyl transferase; transferase of the tryptophan biosynthetic pathway; catalyzes the phosphoribosylation of anthranilate; subject to the general control system of amino acid biosynthesis
-S000035242	CDS					YDR354W		4	1184747	1185889	W		2011-02-03	1996-07-31	
-S000028613	ORF	Dubious	YDR354C-A			chromosome 4		4	1185282	1185139	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps TRP4; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031447	CDS					YDR354C-A		4	1185282	1185139	C		2011-02-03	2003-07-29	
-S000002764	ORF	Verified	YDR356W	SPC110	NUF1|XCM1	chromosome 4	L000001285	4	1186107	1188941	W		2011-02-03	1996-07-31	Inner plaque spindle pole body (SPB) component; ortholog of human kendrin; gamma-tubulin small complex (gamma-TuSC) receptor that interacts with Spc98p to recruit the complex to the nuclear side of the SPB, connecting nuclear microtubules to the SPB; promotes gamma-TuSC assembly and oligomerization to initiate microtubule nucleation; interacts with Tub4p-complex and calmodulin; phosphorylated by Mps1p in cell cycle-dependent manner
-S000036297	CDS					YDR356W		4	1186107	1188941	W		2011-02-03	1996-07-31	
-S000002763	ORF	Dubious	YDR355C			chromosome 4		4	1186369	1186067	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified essential ORF SPC110/YDR356W
-S000035318	CDS					YDR355C		4	1186369	1186067	C		2011-02-03	1996-07-31	
-S000002765	ORF	Verified	YDR357C	CNL1	BLC1	chromosome 4		4	1189567	1189199	C		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; interacts with Msb3p; null mutant is sensitive to drug inducing secretion of vacuolar cargo; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000036341	CDS					YDR357C		4	1189567	1189199	C		2011-02-03	1996-07-31	
-S000002766	ORF	Verified	YDR358W	GGA1	ubiquitin-binding protein	chromosome 4	S000007493	4	1190059	1191732	W		2011-02-03	1996-07-31	Golgi-localized protein with homology to gamma-adaptin; interacts with and regulates Arf1p and Arf2p in a GTP-dependent manner in order to facilitate traffic through the late Golgi; GGA1 has a paralog, GGA2, that arose from the whole genome duplication
-S000036474	CDS					YDR358W		4	1190059	1191732	W		2011-02-03	1996-07-31	
-S000002768	ORF	Dubious	YDR360W	OPI7		chromosome 4		4	1194598	1195032	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene VID21/YDR359C
-S000030092	CDS					YDR360W		4	1194598	1195032	W		2011-02-03	1996-07-31|2011-02-03	
-S000002767	ORF	Verified	YDR359C	EAF1	VID21	chromosome 4		4	1194884	1191936	C		2011-02-03	2004-02-06|1996-07-31	Component of the NuA4 histone acetyltransferase complex; acts as a platform for assembly of NuA4 subunits into the native complex; required for initiation of pre-meiotic DNA replication, likely due to its requirement for expression of IME1
-S000037088	CDS					YDR359C		4	1194884	1191936	C		2011-02-03	2004-02-06|1996-07-31	
-S000002769	ORF	Verified	YDR361C	BCP1	protein-transporting protein BCP1	chromosome 4		4	1196263	1195412	C		2011-02-03	1996-07-31	Essential protein involved in nuclear export of Mss4p; Mss4p is a lipid kinase that generates phosphatidylinositol 4,5-biphosphate and plays a role in actin cytoskeleton organization and vesicular transport
-S000030230	CDS					YDR361C		4	1196263	1195412	C		2011-02-03	1996-07-31	
-S000002770	ORF	Verified	YDR362C	TFC6	transcription factor TFIIIC subunit TFC6|tau 91	chromosome 4	L000004492	4	1198697	1196679	C		2011-02-03	1996-07-31	Subunit of RNA polymerase III transcription initiation factor complex; one of six subunits of RNA polymerase III transcription initiation factor complex (TFIIIC); part of TFIIIC TauB domain that binds BoxB promoter sites of tRNA and other genes; cooperates with Tfc3p in DNA binding; human homolog is TFIIIC-110
-S000031159	CDS					YDR362C		4	1198697	1196679	C		2011-02-03	1996-07-31	
-S000077077	matrix_attachment_site		ETC6	ETC6		chromosome 4		4	1198885	1198907	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; remains predominantly localized to the nuclear periphery throughout cell cycle; located between divergently transcribed genes TFC6 and ESC2
-S000002771	ORF	Verified	YDR363W	ESC2		chromosome 4	L000004423	4	1199183	1200553	W		2011-02-03	1996-07-31	Sumo-like domain protein; prevents accumulation of toxic intermediates during replication-associated recombinational repair; roles in silencing, lifespan, chromatid cohesion and the intra-S-phase DNA damage checkpoint; RENi family member
-S000031326	CDS					YDR363W		4	1199183	1200553	W		2011-02-03	1996-07-31	
-S000006616	tRNA_gene		tK(CUU)D1			chromosome 4	L000003773	4	1201750	1201822	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000035877	noncoding_exon					tK(CUU)D1		4	1201750	1201822	W		2011-02-03	2000-05-19	
-S000007235	ORF	Verified	YDR363W-A	SEM1	proteasome regulatory particle lid subunit SEM1|HOD1|DSS1	chromosome 4	L000003539|L000004647	4	1202128	1202397	W		2011-02-03	1999-07-17	19S proteasome regulatory particle lid subcomplex component; role in Ub-dependent proteolysis and proteasome stability; involved in TREX-2 mediated mRNA export, and in the prevention of transcription-associated genome instability; ubiquitinated by Nedd4-like E3-ligase, Rsp5p; human ortholog DSS1, a BRCA1 binding protein implicated in cancer, complements the yeast null; drives trinucleotide repeat expansion; protein abundance increases in response to DNA replication stress
-S000037294	CDS					YDR363W-A		4	1202128	1202397	W		2011-02-03	1999-07-17	
-S000002772	ORF	Verified	YDR364C	CDC40	SLU4|SLT15|PRP17	chromosome 4	L000000275|L000001921	4	1204210	1202843	C	211	2011-02-03	1996-07-31	Pre-mRNA splicing factor; important for catalytic step II of pre-mRNA splicing and plays a role in cell cycle progression, particularly at the G1/S phase transition; required for DNA synthesis during mitosis and meiosis; has WD repeats; thermosensitivity of the cdc40 null mutant is functionally complemented by a chimeric construct containing the N-terminal 156 amino acids of yeast Cdc40p fused to the C-terminal two thirds (297 amino acids) of human CDC40
-S000031393	CDS					YDR364C		4	1204210	1202843	C		2011-02-03	1996-07-31	
-S000002773	ORF	Verified	YDR365C	ESF1		chromosome 4		4	1206383	1204497	C		2011-02-03	1996-07-31	Nucleolar protein involved in pre-rRNA processing; depletion causes severely decreased 18S rRNA levels
-S000032429	CDS					YDR365C		4	1206383	1204497	C		2011-02-03	1996-07-31	
-S000006875	long_terminal_repeat		YDRWdelta27			chromosome 4		4	1206704	1207037	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006883	LTR_retrotransposon		YDRWTy1-5		Ty1	chromosome 4		4	1206704	1212621	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007400	transposable_element_gene		YDR365W-A		gag protein	chromosome 4		4	1206997	1208319	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000032504	CDS					YDR365W-A		4	1206997	1208319	W		2011-02-03	1999-07-17	
-S000007401	transposable_element_gene		YDR365W-B		gag-pol fusion protein	chromosome 4	S000029012	4	1206997	1212265	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000032510	CDS					YDR365W-B		4	1206997	1208301	W		2011-02-03	1999-07-17	
-S000032511	CDS					YDR365W-B		4	1208303	1212265	W		2011-02-03	1999-07-17	
-S000032512	plus_1_translational_frameshift					YDR365W-B		4	1208302	1208302	W		2011-02-03	1999-07-17	
-S000006876	long_terminal_repeat		YDRWdelta28			chromosome 4		4	1212288	1212621	W		2011-02-03	2000-05-19	Ty1 LTR
-S000002774	ORF	Uncharacterized	YDR366C			chromosome 4		4	1212836	1212438	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000032506	CDS					YDR366C		4	1212836	1212438	C		2011-02-03	1996-07-31	
-S000002775	ORF	Verified	YDR367W	KEI1		chromosome 4		4	1212848	1213614	W		2011-02-03	1996-07-31	Component of inositol phosphorylceramide (IPC) synthase; forms a complex with Aur1p and regulates its activity; required for IPC synthase complex localization to the Golgi; post-translationally processed by Kex2p; KEI1 is an essential gene
-S000032662	CDS					YDR367W		4	1212848	1212877	W		2011-02-03	1996-07-31	
-S000032663	CDS					YDR367W		4	1212979	1213614	W		2011-02-03	1996-07-31	
-S000032664	intron					YDR367W		4	1212878	1212978	W		2011-02-03	1996-07-31	
-S000002776	ORF	Verified	YDR368W	YPR1	trifunctional aldehyde reductase/carbonyl reductase (NADPH)/glucose 1-dehydrogenase (NADP(+)) YPR1	chromosome 4	L000003084	4	1213904	1214842	W		2011-02-03	1996-07-31	NADPH-dependent aldo-keto reductase; reduces multiple substrates including 2-methylbutyraldehyde and D,L-glyceraldehyde, expression is induced by osmotic and oxidative stress; functionally redundant with other aldo-keto reductases; protein abundance increases in response to DNA replication stress; YPR1 has a paralog, GCY1, that arose from the whole genome duplication; human homolog AKR1B1 can complement yeast null mutant
-S000033354	CDS					YDR368W		4	1213904	1214842	W		2011-02-03	1996-07-31	
-S000002777	ORF	Verified	YDR369C	XRS2		chromosome 4	L000002489	4	1217580	1215016	C	211	2011-02-03	1996-07-31	Protein required for DNA repair; component of the Mre11 complex, which is involved in double strand breaks, meiotic recombination, telomere maintenance, and checkpoint signaling
-S000033386	CDS					YDR369C		4	1217580	1215016	C		2011-02-03	1996-07-31	
-S000002778	ORF	Verified	YDR370C	DXO1		chromosome 4		4	1219110	1217782	C		2011-02-03	1996-07-31	mRNA 5'-end-capping quality-control protein; has distributive, 5'-3' exoRNase activity; similar to Rai1p;
-S000034314	CDS					YDR370C		4	1219110	1217782	C		2011-02-03	1996-07-31	
-S000002779	ORF	Uncharacterized	YDR371W	CTS2	putative chitinase	chromosome 4		4	1219413	1220948	W		2011-02-03	1996-07-31	Putative chitinase; functionally complements A. gossypii cts2 mutant sporulation defect
-S000034441	CDS					YDR371W		4	1219413	1220948	W		2011-02-03	1996-07-31	
-S000028822	ORF	Dubious	YDR371C-A			chromosome 4		4	1219613	1219509	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized gene CTS2/YDR371W; identified by expression profiling and mass spectrometry
-S000033641	CDS					YDR371C-A		4	1219613	1219509	C		2011-02-03	2003-07-29	
-S000002780	ORF	Verified	YDR372C	VPS74	MNN3|API1	chromosome 4		4	1222149	1221112	C		2011-02-03	1996-07-31	Golgi phosphatidylinositol-4-kinase effector and PtdIns4P sensor; interacts with the cytosolic domains of cis and medial glycosyltransferases, and in the PtdIns4P-bound state mediates the targeting of these enzymes to the Golgi; interacts with the catalytic domain of Sac1p, the major cellular PtdIns4P phosphatase, to direct dephosphosphorylation of the Golgi pool of PtdIns4P; tetramerization required for function; ortholog of human GOLPH3/GPP34/GMx33
-S000034509	CDS					YDR372C		4	1222149	1221112	C		2011-02-03	1996-07-31	
-S000002781	ORF	Verified	YDR373W	FRQ1	frequenin	chromosome 4		4	1222759	1223331	W		2011-02-03	1996-07-31	N-myristoylated calcium-binding protein; may have a role in intracellular signaling through its regulation of the phosphatidylinositol 4-kinase Pik1p; member of the recoverin/frequenin branch of the EF-hand superfamily; human NCS1 functionally complements the heat sensitivity of a frq1 ts mutant
-S000035570	CDS					YDR373W		4	1222759	1223331	W		2011-02-03	1996-07-31	
-S000002782	ORF	Verified	YDR374C	PHO92	mRNA-binding phosphate metabolism regulator	chromosome 4		4	1224394	1223474	C		2011-02-03	1996-07-31	Posttranscriptional regulator of phosphate metabolism; facilitates PHO4 mRNA degradation by interacting with Pop2p; regulates PHO4 mRNA stability by binding to PHO4's 3'UTR in a phosphate-dependent manner; contains highly conserved YTH (YT521-B Homology) domain that exhibits RNA-binding activity; human homolog YTHDF2 can complement yeast null mutant
-S000035608	CDS					YDR374C		4	1224394	1223474	C		2011-02-03	1996-07-31	
-S000113553	ORF	Verified	YDR374W-A	WIP1		chromosome 4		4	1224757	1225026	W		2011-02-03	2005-11-16	Kinetochore localized protein of unknown function; interacts with Cnn1p (CENP-T); orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-W and fission yeast new1
-S000113554	CDS					YDR374W-A		4	1224757	1225026	W		2011-02-03	2005-11-16	
-S000002783	ORF	Verified	YDR375C	BCS1	bifunctional AAA family ATPase chaperone/translocase BCS1	chromosome 4	L000000164	4	1226536	1225166	C		2011-02-03	1996-07-31	Protein translocase and chaperone required for Complex III assembly; member of the AAA ATPase family; forms a homo-oligomeric complex in the mitochondrial inner membrane that translocates the C-terminal domain of Rip1p from the matrix across the inner membrane and delivers it to an assembly intermediate of respiratory Complex III; also required for assembly of the Qcr10p subunit; mutation is functionally complemented by human homolog BCS1L, linked to neonatal diseases
-S000035698	CDS					YDR375C		4	1226536	1225166	C		2011-02-03	1996-07-31	
-S000002784	ORF	Verified	YDR376W	ARH1	NADPH-adrenodoxin reductase	chromosome 4	L000002799	4	1226822	1228303	W		2011-02-03	1996-07-31	Oxidoreductase of the mitochondrial inner membrane; involved in cytoplasmic and mitochondrial iron homeostasis and required for activity of Fe-S cluster-containing enzymes; one of the few mitochondrial proteins essential for viability
-S000036678	CDS					YDR376W		4	1226822	1228303	W		2011-02-03	1996-07-31	
-S000002785	ORF	Verified	YDR377W	ATP17	F1F0 ATP synthase subunit f	chromosome 4	L000003415	4	1228611	1228916	W		2011-02-03	1996-07-31	Subunit f of the F0 sector of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis
-S000036737	CDS					YDR377W		4	1228611	1228916	W		2011-02-03	1996-07-31	
-S000002786	ORF	Verified	YDR378C	LSM6	U4/U6-U5 snRNP complex subunit LSM6	chromosome 4	L000004685	4	1229609	1229349	C		2011-02-03	1996-07-31|2005-11-22	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA
-S000036760	CDS					YDR378C		4	1229609	1229349	C		2011-02-03	1996-07-31|2005-11-22	
-S000002787	ORF	Verified	YDR379W	RGA2		chromosome 4	L000004022	4	1230167	1233196	W		2011-02-03	1996-07-31	GTPase-activating protein for polarity-establishment protein Cdc42p; implicated in control of septin organization, pheromone response, and haploid invasive growth; regulated by Pho85p and Cdc28p; RGA2 has a paralog, RGA1, that arose from the whole genome duplication
-S000036849	CDS					YDR379W		4	1230167	1233196	W		2011-02-03	1996-07-31	
-S000007605	ORF	Verified	YDR379C-A	SDH6		chromosome 4		4	1233517	1233278	C		2011-02-03	2001-02-26	Mitochondrial protein involved in assembly of succinate dehydrogenase; has a role in maturation of the Sdh2p subunit; member of the LYR protein family; mutations in human ortholog SDHAF1 are associated with infantile leukoencephalopathy
-S000037182	CDS					YDR379C-A		4	1233517	1233278	C		2011-02-03	2001-02-26	
-S000002788	ORF	Verified	YDR380W	ARO10	phenylpyruvate decarboxylase ARO10	chromosome 4		4	1234218	1236125	W		2011-02-03	1996-07-31	Phenylpyruvate decarboxylase; catalyzes decarboxylation of phenylpyruvate to phenylacetaldehyde, which is the first specific step in the Ehrlich pathway; involved in protein N-terminal Met and Ala catabolism
-S000037478	CDS					YDR380W		4	1234218	1236125	W		2011-02-03	1996-07-31	
-S000002789	ORF	Verified	YDR381W	YRA1	RNA-binding protein YRA1|SHE11	chromosome 4	L000002959|L000002873	4	1236558	1238004	W		2011-02-03	1999-07-17|1996-07-31	Nuclear polyadenylated RNA-binding protein; required for export of poly(A)+ mRNA from the nucleus; proposed to couple mRNA export with 3' end processing via its interactions with Mex67p and Pcf11p; interacts with DBP2; inhibits the helicase activity of Dbp2; functionally redundant with Yra2p, another REF family member
-S000037615	CDS					YDR381W		4	1236558	1236842	W		2011-02-03	1999-07-17|1996-07-31	
-S000037616	CDS					YDR381W		4	1237609	1238004	W		2011-02-03	1999-07-17	
-S000037617	intron					YDR381W		4	1236843	1237608	W		2011-02-03	1999-07-17	
-S000007650	ORF	Verified	YDR381C-A			chromosome 4		4	1238850	1238312	C		2011-02-03	2004-01-26|2001-03-30	Protein of unknown function; localized to the mitochondrial outer membrane
-S000037338	CDS					YDR381C-A		4	1238630	1238312	C		2011-02-03	2004-01-26|2001-03-30	
-S000037337	CDS					YDR381C-A		4	1238850	1238825	C		2011-02-03	2004-01-26|2001-03-30	
-S000037339	intron					YDR381C-A		4	1238824	1238631	C		2011-02-03	2004-01-26|2001-03-30	
-S000002790	ORF	Verified	YDR382W	RPP2B	ribosomal protein P2B|YP2beta|P2B|L45|YPA1|RPL45	chromosome 4	L000001736	4	1239492	1239824	W		2011-02-03	1996-07-31	Ribosomal protein P2 beta; a component of the ribosomal stalk, which is involved in the interaction between translational elongation factors and the ribosome; free (non-ribosomal) P2 stimulates the phosphorylation of the eIF2 alpha subunit (Sui2p) by Gcn2p; regulates the accumulation of P1 (Rpp1Ap and Rpp1Bp) in the cytoplasm
-S000030372	CDS					YDR382W		4	1239492	1239824	W		2011-02-03	1996-07-31	
-S000002791	ORF	Verified	YDR383C	NKP1		chromosome 4		4	1240676	1239960	C		2011-02-03	2003-09-22|1996-07-31	Central kinetochore protein and subunit of the Ctf19 complex; mutants have elevated rates of chromosome loss; orthologous to fission yeast kinetochore protein fta4
-S000030450	CDS					YDR383C		4	1240676	1239960	C		2011-02-03	2003-09-22|1996-07-31	
-S000118445	ARS		ARS433		ARSIV-1241	chromosome 4		4	1240882	1241110			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178079	ARS_consensus_sequence					ARS433		4	1240919	1240935	W		2014-11-18	2014-11-18	
-S000002792	ORF	Verified	YDR384C	ATO3	putative ammonium permease ATO3	chromosome 4		4	1242031	1241204	C		2011-02-03	1996-07-31	Plasma membrane protein, putative ammonium transporter; regulation pattern suggests a possible role in export of ammonia from the cell; phosphorylated in mitochondria; member of the TC 9.B.33 YaaH family of putative transporters
-S000030592	CDS					YDR384C		4	1242031	1241204	C		2011-02-03	1996-07-31	
-S000002793	ORF	Verified	YDR385W	EFT2	elongation factor 2	chromosome 4	L000000544	4	1243230	1245758	W		2011-02-03	1996-07-31	Elongation factor 2 (EF-2), also encoded by EFT1; catalyzes ribosomal translocation during protein synthesis; contains diphthamide, the unique posttranslationally modified histidine residue specifically ADP-ribosylated by diphtheria toxin; EFT2 has a paralog, EFT1, that arose from the whole genome duplication
-S000030719	CDS					YDR385W		4	1243230	1245758	W		2011-02-03	1996-07-31	
-S000002794	ORF	Verified	YDR386W	MUS81	SLX3	chromosome 4	L000004650	4	1246084	1247982	W		2011-02-03	1996-07-31	Subunit of structure-specific Mms4p-Mus81p endonuclease; cleaves branched DNA; involved in DNA repair, replication fork stability, and joint molecule formation/resolution during meiotic recombination; promotes template switching during break-induced replication (BIR), causing non-reciprocal translocations (NRTs); helix-hairpin-helix protein; phosphorylation of non-catalytic subunit Mms4p by Cdc28p and Cdcp during mitotic cell cycle activates function of Mms4p-Mus81p
-S000031582	CDS					YDR386W		4	1246084	1247982	W		2011-02-03	1996-07-31	
-S000002795	ORF	Uncharacterized	YDR387C	CIN10		chromosome 4		4	1249821	1248154	C		2011-02-03	1996-07-31	Putative transporter; member of the sugar porter family; non-essential gene; overexpression results in elevated colony sectoring, an indicator of chromosomal instability
-S000031627	CDS					YDR387C		4	1249821	1248154	C		2011-02-03	1996-07-31	
-S000002796	ORF	Verified	YDR388W	RVS167	amphiphysin	chromosome 4	L000001789	4	1250186	1251634	W		2011-02-03	1996-07-31	Calmodulin-binding actin-associated protein; roles in endocytic membrane tabulation and constriction, and exocytosis; N-BAR domain protein that interacts with Rvs161p to regulate actin cytoskeleton, endocytosis, and viability following starvation or osmotic stress; recruited to bud tips by Gyl1p and Gyp5p during polarized growth; homolog of mammalian amphiphysin
-S000031800	CDS					YDR388W		4	1250186	1251634	W		2011-02-03	1996-07-31	
-S000002797	ORF	Verified	YDR389W	SAC7		chromosome 4	L000001794	4	1252537	1254501	W	220	2011-02-03	1996-07-31	GTPase activating protein (GAP) for Rho1p; regulator of a Tor2p-mediated, Rho1p GTPase switch that controls organization of the actin cytoskeleton; negative regulator of the RHO1-PKC1-MAPK cell integrity (CWI) and membrane fluidity homeostasis signaling pathways; potential Cdc28p substrate; SAC7 has a paralog, BAG7, that arose from the whole genome duplication
-S000031909	CDS					YDR389W		4	1252537	1254501	W		2011-02-03	1996-07-31	
-S000002798	ORF	Verified	YDR390C	UBA2	E1 ubiquitin-activating protein UBA2|UAL1	chromosome 4	L000002404	4	1256847	1254937	C		2011-02-03	1996-07-31	Subunit of heterodimeric nuclear SUMO activating enzyme E1 with Aos1p; activates Smt3p (SUMO) before its conjugation to proteins (sumoylation), which may play a role in protein targeting; essential for viability
-S000032721	CDS					YDR390C		4	1256847	1254937	C		2011-02-03	1996-07-31	
-S000006572	tRNA_gene		tG(CCC)D	SUF3		chromosome 4	L000002151|L000003777	4	1257079	1257008	C	232	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
-S000032332	noncoding_exon					tG(CCC)D		4	1257079	1257008	C		2011-02-03	2000-05-19	
-S000002799	ORF	Uncharacterized	YDR391C			chromosome 4		4	1258056	1257358	C		2011-02-03	1996-07-31	Putative protein of unknown function; possibly involved in zinc homeostasis; Bdf1p-dependent transcription induced by salt stress; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
-S000032830	CDS					YDR391C		4	1258056	1257358	C		2011-02-03	1996-07-31	
-S000002800	ORF	Verified	YDR392W	SPT3	transcriptional regulator SPT3	chromosome 4	L000002029	4	1258696	1259709	W		2011-02-03	1996-07-31	Subunit of the SAGA and SAGA-like transcriptional regulatory complexes; interacts with Spt15p to activate transcription of some RNA polymerase II-dependent genes, also functions to inhibit transcription at some promoters; relocalizes to the cytosol in response to hypoxia
-S000033594	CDS					YDR392W		4	1258696	1259709	W		2011-02-03	1996-07-31	
-S000002801	ORF	Verified	YDR393W	SHE9	MDM33	chromosome 4	L000002871	4	1259901	1261271	W		2011-02-03	1996-07-31	Protein required for normal mitochondrial morphology; mitochondrial inner membrane protein; may be involved in fission of the inner membrane; forms a homo-oligomeric complex
-S000033681	CDS					YDR393W		4	1259901	1261271	W		2011-02-03	1996-07-31	
-S000002802	ORF	Verified	YDR394W	RPT3	proteasome regulatory particle base subunit RPT3|YTA2|YNT1	chromosome 4	L000002556|L000002537	4	1261681	1262967	W		2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; substrate of N-acetyltransferase B
-S000033819	CDS					YDR394W		4	1261681	1262967	W		2011-02-03	1996-07-31	
-S000002803	ORF	Verified	YDR395W	SXM1	KAP108	chromosome 4	L000003508	4	1263324	1266158	W		2011-02-03	1996-07-31	Nuclear transport factor (karyopherin); involved in protein transport between the cytoplasm and nucleoplasm; similar to Nmd5p, Cse1p, Lph2p, and the human cellular apoptosis susceptibility protein, CAS1
-S000034692	CDS					YDR395W		4	1263324	1266158	W		2011-02-03	1996-07-31	
-S000002804	ORF	Dubious	YDR396W			chromosome 4		4	1266295	1266795	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; extensively overlaps essential NCB2 gene encoding the beta subunit of the NC2 dimeric histone-fold complex
-S000034845	CDS					YDR396W		4	1266295	1266795	W		2011-02-03	1996-07-31	
-S000002805	ORF	Verified	YDR397C	NCB2	negative cofactor 2 transcription regulator complex subunit NCB2|YDR1	chromosome 4	L000003241	4	1266898	1266366	C		2011-02-03	1996-07-31	Subunit of a heterodimeric NC2 transcription regulator complex; complex binds to TBP and can repress transcription by preventing preinitiation complex assembly or stimulate activated transcription; homologous to human NC2beta; complex also includes Bur6p
-S000034923	CDS					YDR397C		4	1266769	1266366	C		2011-02-03	1996-07-31	
-S000034922	CDS					YDR397C		4	1266898	1266862	C		2011-02-03	1996-07-31	
-S000034924	intron					YDR397C		4	1266861	1266770	C		2011-02-03	1996-07-31	
-S000002806	ORF	Verified	YDR398W	UTP5		chromosome 4		4	1267471	1269402	W		2011-02-03	1996-07-31	Subunit of U3-containing Small Subunit (SSU) processome complex; involved in production of 18S rRNA and assembly of small ribosomal subunit
-S000035902	CDS					YDR398W		4	1267471	1269402	W		2011-02-03	1996-07-31	
-S000002807	ORF	Verified	YDR399W	HPT1	hypoxanthine phosphoribosyltransferase|HGPRTase|HPRT|BRA6	chromosome 4	L000004313	4	1270068	1270733	W		2011-02-03	1996-07-31	Dimeric hypoxanthine-guanine phosphoribosyltransferase; catalyzes the transfer of the phosphoribosyl portion of 5-phosphoribosyl-alpha-1-pyrophosphate to a purine base (either guanine or hypoxanthine) to form pyrophosphate and a purine nucleotide (either guanosine monophosphate or inosine monophosphate); mutations in the human homolog HPRT1 can cause Lesch-Nyhan syndrome and Kelley-Seegmiller syndrome
-S000036067	CDS					YDR399W		4	1270068	1270733	W		2011-02-03	1996-07-31	
-S000002808	ORF	Verified	YDR400W	URH1	trifunctional uridine nucleosidase/nicotinamide riboside hydrolase/nicotinic acid riboside hydrolase	chromosome 4	S000007492	4	1271063	1272085	W		2011-02-03	2003-09-22|1996-07-31	Uridine nucleosidase (uridine-cytidine N-ribohydrolase); cleaves N-glycosidic bonds in nucleosides; involved in the pyrimidine salvage and nicotinamide riboside salvage pathways
-S000033224	CDS					YDR400W		4	1271063	1272085	W		2011-02-03	2003-09-22|1996-07-31	
-S000002809	ORF	Dubious	YDR401W			chromosome 4		4	1272223	1272786	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033274	CDS					YDR401W		4	1272223	1272786	W		2011-02-03	1996-07-31	
-S000002810	ORF	Verified	YDR402C	DIT2	putative cytochrome P450|CYP56	chromosome 4	L000000507	4	1273703	1272234	C		2011-02-03	1996-07-31	N-formyltyrosine oxidase; sporulation-specific microsomal enzyme involved in the production of N,N-bisformyl dityrosine required for spore wall maturation, homologous to cytochrome P-450s; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000033300	CDS					YDR402C		4	1273703	1272234	C		2011-02-03	1996-07-31	
-S000002811	ORF	Verified	YDR403W	DIT1		chromosome 4	L000000506	4	1274602	1276212	W		2011-02-03	1996-07-31	Sporulation-specific enzyme required for spore wall maturation; involved in the production of a soluble LL-dityrosine-containing precursor of the spore wall; transcripts accumulate at the time of prospore enclosure
-S000034267	CDS					YDR403W		4	1274602	1276212	W		2011-02-03	1996-07-31	
-S000118446	ARS		ARS434		ARSIV-1276	chromosome 4		4	1276225	1276452			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000002812	ORF	Verified	YDR404C	RPB7	DNA-directed RNA polymerase II subunit RPB7|B16	chromosome 4	L000001681	4	1277169	1276654	C		2011-02-03	1996-07-31	RNA polymerase II subunit B16; forms dissociable heterodimer with Rpb4p; Rpb4/7 dissociates from RNAPII as Ser2 CTD phosphorylation increases; Rpb4/7 regulates cellular lifespan via mRNA decay process; involved in recruitment of 3'-end processing factors to transcribing RNA polymerase II complex, export of mRNA to cytoplasm under stress conditions; also involved in translation initiation
-S000034321	CDS					YDR404C		4	1277169	1276654	C		2011-02-03	1996-07-31	
-S000002813	ORF	Verified	YDR405W	MRP20	mitochondrial 54S ribosomal protein YmL41|YmL41|MRPL41	chromosome 4	L000001158	4	1277646	1278437	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000035411	CDS					YDR405W		4	1277646	1278437	W		2011-02-03	1996-07-31	
-S000002814	ORF	Verified	YDR406W	PDR15	ATP-binding cassette multidrug transporter PDR15	chromosome 4	L000002909	4	1279210	1283799	W		2011-02-03	1996-07-31	Plasma membrane ATP binding cassette (ABC) transporter; multidrug transporter and general stress response factor implicated in cellular detoxification; regulated by Pdr1p, Pdr3p and Pdr8p; promoter contains a PDR responsive element; PDR15 has a paralog, PDR5, that arose from the whole genome duplication
-S000035511	CDS					YDR406W		4	1279210	1283799	W		2011-02-03	1996-07-31	
-S000028543	ORF	Dubious	YDR406W-A		YDR406C-A	chromosome 4		4	1283799	1284044	W		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by fungal homology and RT-PCR
-S000031193	CDS					YDR406W-A		4	1283799	1284044	W		2011-02-03	2003-07-29	
-S000002815	ORF	Verified	YDR407C	TRS120		chromosome 4	S000007435	4	1287938	1284069	C		2011-02-03	1996-07-31	Component of transport protein particle (TRAPP) complex II; TRAPPII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating intra-Golgi and endosome-Golgi traffic
-S000035551	CDS					YDR407C		4	1287938	1284069	C		2011-02-03	1996-07-31	
-S000002816	ORF	Verified	YDR408C	ADE8	phosphoribosylglycinamide formyltransferase	chromosome 4	L000000037	4	1288859	1288215	C	256	2011-02-03	1996-07-31	Phosphoribosyl-glycinamide transformylase; catalyzes a step in the 'de novo' purine nucleotide biosynthetic pathway
-S000035623	CDS					YDR408C		4	1288859	1288215	C		2011-02-03	1996-07-31	
-S000077072	matrix_attachment_site		ETC1	ETC1		chromosome 4		4	1289041	1289063	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; located between divergently transcribed genes ADE8 and SIZ1
-S000002817	ORF	Verified	YDR409W	SIZ1	SUMO ligase SIZ1|ULL1	chromosome 4	S000007589	4	1289406	1292120	W		2011-02-03	1996-07-31	SUMO E3 ligase; promotes attachment of small ubiquitin-related modifier sumo (Smt3p) to primarily cytoplasmic proteins; regulates Rsp5p ubiquitin ligase activity and is in turn itself regulated by Rsp5p; required for sumoylation of septins and histone H3 variant Cse4p, a prerequisite for STUbL-mediated Ub-dependent degradation; localizes to the septin ring; acts as an adapter between E2, Ubc9p and substrates; tends to compensate for survival of DNA damage in absence of Nfi1p
-S000036616	CDS					YDR409W		4	1289406	1292120	W		2011-02-03	1996-07-31	
-S000002818	ORF	Verified	YDR410C	STE14	protein-S-isoprenylcysteine carboxyl O-methyltransferase	chromosome 4	L000002121	4	1293091	1292372	C	259.47	2011-02-03	1996-07-31	Farnesyl cysteine-carboxyl methyltransferase; mediates the carboxyl methylation step during C-terminal CAAX motif processing of a-factor and RAS proteins in the endoplasmic reticulum, localizes to the ER membrane
-S000037364	CDS					YDR410C		4	1293091	1292372	C		2011-02-03	1996-07-31	
-S000002819	ORF	Verified	YDR411C	DFM1		chromosome 4		4	1294394	1293369	C		2011-02-03	1996-07-31	Endoplasmic reticulum (ER) localized protein; involved in ER-associated protein degradation (ERAD), ER stress, and homeostasis; interacts with components of ERAD-L and ERAD-C and Cdc48p; derlin-like family member similar to Der1p
-S000037501	CDS					YDR411C		4	1294394	1293369	C		2011-02-03	1996-07-31	
-S000002820	ORF	Verified	YDR412W	RRP17		chromosome 4		4	1294693	1295400	W		2011-02-03	1996-07-31	Component of the pre-60S pre-ribosomal particle; required for cell viability under standard (aerobic) conditions but not under anaerobic conditions; exonuclease required for 5' end processing of pre-60S ribosomal RNA
-S000030317	CDS					YDR412W		4	1294693	1295400	W		2011-02-03	1996-07-31	
-S000002821	ORF	Dubious	YDR413C			chromosome 4		4	1295411	1294836	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the essential uncharacterized ORF YDR412W that is implicated in rRNA processing
-S000030389	CDS					YDR413C		4	1295411	1294836	C		2011-02-03	1996-07-31	
-S000002822	ORF	Verified	YDR414C	ERD1	LDB2	chromosome 4	L000000566|L000004741	4	1296686	1295598	C		2011-02-03	1996-07-31|2011-02-03	Predicted membrane protein required for lumenal ER protein retention; mutants secrete the endogenous ER protein, BiP (Kar2p)
-S000030512	CDS					YDR414C		4	1296686	1295598	C		2011-02-03	1996-07-31|2011-02-03	
-S000002823	ORF	Uncharacterized	YDR415C		putative aminopeptidase	chromosome 4		4	1298161	1297037	C		2011-02-03	1996-07-31	Putative aminopeptidase; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to the vacuole
-S000031437	CDS					YDR415C		4	1298161	1297037	C		2011-02-03	1996-07-31	
-S000002824	ORF	Verified	YDR416W	SYF1	mRNA splicing protein SYF1|NTC90	chromosome 4	L000004195	4	1298432	1301011	W		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); that contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; null mutant has splicing defect and arrests in G2/M; relocalizes to the cytosol in response to hypoxia; homologs in human and C. elegans
-S000031649	CDS					YDR416W		4	1298432	1301011	W		2011-02-03	1996-07-31	
-S000002826	ORF	Verified	YDR418W	RPL12B	uL11|ribosomal 60S subunit protein L12B|L11|YL23|L15B|L12B	chromosome 4	L000001711	4	1301616	1302113	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L12B; rpl12a rpl12b double mutant exhibits slow growth and slow translation; homologous to mammalian ribosomal protein L12 and bacterial L11; RPL12B has a paralog, RPL12A, that arose from the whole genome duplication
-S000032701	CDS					YDR418W		4	1301616	1302113	W		2011-02-03	1996-07-31	
-S000002825	ORF	Dubious	YDR417C			chromosome 4		4	1301926	1301555	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RPL12B/YDR418W
-S000031695	CDS					YDR417C		4	1301926	1301555	C		2011-02-03	1996-07-31	
-S000118447	ARS		ARS435		ARSIV-1303	chromosome 4		4	1302689	1302768			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000002827	ORF	Verified	YDR419W	RAD30	DNA-directed DNA polymerase eta|DBH1	chromosome 4	L000003523	4	1303174	1305072	W		2011-02-03	1996-07-31	DNA polymerase eta; involved in translesion synthesis during post-replication repair; catalyzes the synthesis of DNA opposite cyclobutane pyrimidine dimers and other lesions; involved in formation of post-replicative damage-induced genome-wide cohesion; may also have a role in protection against mitochondrial mutagenesis; mutations in human pol eta are responsible for XPV
-S000032806	CDS					YDR419W		4	1303174	1305072	W		2011-02-03	1996-07-31	
-S000006723	tRNA_gene		tS(AGA)D3			chromosome 4	L000003782	4	1305630	1305712	W		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000031657	noncoding_exon					tS(AGA)D3		4	1305630	1305712	W		2011-02-03	2000-05-19	
-S000130176	ARS		ARS436			chromosome 4		4	1305757	1306312			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000002828	ORF	Verified	YDR420W	HKR1		chromosome 4	L000000788	4	1306267	1311675	W		2011-02-03	1996-07-31	Mucin family member that functions as an osmosensor in the HOG pathway; large, highly glycosylated protein that functions redundantly with Msb2p in Sho1p-mediated osmostresss induction of the HOG signaling pathway; cytoplasmic domain interacts with Ahk1p a scaffold protein that prevents cross talk with the Kss1p MAPK of the filamentous growth pathway; mutant displays defects in beta-1,3 glucan synthesis and bud site selection
-S000032953	CDS					YDR420W		4	1306267	1311675	W		2011-02-03	1996-07-31	
-S000002829	ORF	Verified	YDR421W	ARO80		chromosome 4		4	1312040	1314892	W		2011-02-03	1996-07-31	Zinc finger transcriptional activator of the Zn2Cys6 family; activates transcription of aromatic amino acid catabolic genes in the presence of aromatic amino acids
-S000033023	CDS					YDR421W		4	1312040	1314892	W		2011-02-03	1996-07-31	
-S000002830	ORF	Verified	YDR422C	SIP1		chromosome 4	L000001890	4	1317773	1315326	C		2011-02-03	1996-07-31|2006-04-12	Alternate beta-subunit of the Snf1p kinase complex; may confer substrate specificity; vacuolar protein containing KIS (Kinase-Interacting Sequence) and ASC (Association with Snf1 kinase Complex) domains involved in protein interactions
-S000033079	CDS					YDR422C		4	1317773	1315326	C		2011-02-03	1996-07-31|2006-04-12	
-S000002831	ORF	Verified	YDR423C	CAD1	YAP2	chromosome 4	L000000206	4	1319275	1318046	C	271	2011-02-03	1996-07-31	AP-1-like basic leucine zipper (bZIP) transcriptional activator; involved in stress responses, iron metabolism, and pleiotropic drug resistance; controls a set of genes involved in stabilizing proteins; binds consensus sequence TTACTAA; CAD1 has a paralog, YAP1, that arose from the whole genome duplication
-S000033829	CDS					YDR423C		4	1319275	1318046	C		2011-02-03	1996-07-31	
-S000002832	ORF	Verified	YDR424C	DYN2	dynein light chain|SLC1	chromosome 4	L000003064	4	1319841	1319387	C		2011-02-03	1996-07-31	Cytoplasmic light chain dynein, microtubule motor protein; required for intracellular transport and cell division; involved in mitotic spindle positioning; forms complex with dynein intermediate chain Pac11p that promotes Dyn1p homodimerization, potentiates motor processivity; Dyn2p-Pac11p complex important for interaction of dynein motor complex with dynactin complex; acts as molecular glue to dimerize, stabilize Nup82-Nsp1-Nup159 complex module of cytoplasmic pore filaments
-S000033950	CDS					YDR424C		4	1319617	1319387	C		2011-02-03	1996-07-31	
-S000033949	CDS					YDR424C		4	1319720	1319698	C		2011-02-03	1996-07-31	
-S000033948	CDS					YDR424C		4	1319841	1319817	C		2011-02-03	1996-07-31	
-S000033952	intron					YDR424C		4	1319697	1319618	C		2011-02-03	1996-07-31	
-S000033951	intron					YDR424C		4	1319816	1319721	C		2011-02-03	1996-07-31	
-S000002833	ORF	Verified	YDR425W	SNX41		chromosome 4		4	1320064	1321941	W		2011-02-03	1996-07-31	Sorting nexin; involved in the retrieval of late-Golgi SNAREs from the post-Golgi endosome to the trans-Golgi network; interacts with Snx4p
-S000034950	CDS					YDR425W		4	1320064	1321941	W		2011-02-03	1996-07-31	
-S000002834	ORF	Dubious	YDR426C			chromosome 4		4	1322006	1321629	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SNX41
-S000035012	CDS					YDR426C		4	1322006	1321629	C		2011-02-03	1996-07-31	
-S000002835	ORF	Verified	YDR427W	RPN9	proteasome regulatory particle lid subunit RPN9|NAS7	chromosome 4	L000004309	4	1322205	1323386	W		2011-02-03	1996-07-31	Non-ATPase regulatory subunit of the 26S proteasome; similar to putative proteasomal subunits in other species; null mutant is temperature sensitive and exhibits cell cycle and proteasome assembly defects; protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
-S000035280	CDS					YDR427W		4	1322205	1323386	W		2011-02-03	1996-07-31	
-S000002836	ORF	Verified	YDR428C	BNA7	arylformamidase	chromosome 4		4	1324239	1323454	C		2011-02-03	1996-07-31	Formylkynurenine formamidase; involved in the de novo biosynthesis of NAD from tryptophan via kynurenine
-S000035320	CDS					YDR428C		4	1324239	1323454	C		2011-02-03	1996-07-31	
-S000002837	ORF	Verified	YDR429C	TIF35	translation initiation factor eIF3 core subunit g	chromosome 4	L000004253	4	1325301	1324477	C		2011-02-03	1996-07-31	eIF3g subunit of the eukaryotic translation initiation factor 3 (eIF3); subunit of the core complex of eIF3; is essential for translation; stimulates resumption of ribosomal scanning during translation reinitiation; eIF3 is also involved in programmed stop codon readthrough
-S000036266	CDS					YDR429C		4	1325301	1324477	C		2011-02-03	1996-07-31	
-S000002839	ORF	Dubious	YDR431W			chromosome 4		4	1328390	1328701	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000029889	CDS					YDR431W		4	1328390	1328701	W		2011-02-03	1996-07-31	
-S000002838	ORF	Verified	YDR430C	CYM1	MOP112	chromosome 4		4	1328470	1325501	C		2011-02-03	1996-07-31	Lysine-specific metalloprotease of the pitrilysin family; metalloprotease of the intermembrane space; degrades proteins and presequence peptides cleaved from imported proteins; required for normal mitochondrial morphology
-S000037179	CDS					YDR430C		4	1328470	1325501	C		2011-02-03	1996-07-31	
-S000002840	ORF	Verified	YDR432W	NPL3	mRNA-binding protein NPL3|NAB1|NOP3|MTS1|MTR13	chromosome 4	L000001270	4	1328783	1330027	W		2011-02-03	1996-07-31	RNA-binding protein; promotes elongation, regulates termination, and carries poly(A) mRNA from nucleus to cytoplasm; represses translation initiation by binding eIF4G; required for pre-mRNA splicing; interacts with E3 ubiquitin ligase Bre1p, linking histone ubiquitination to mRNA processing; may have role in telomere maintenance; dissociation from mRNAs promoted by Mtr10p; phosphorylated by Sky1p in cytoplasm; protein abundance increases in response to DNA replication stress
-S000029988	CDS					YDR432W		4	1328783	1330027	W		2011-02-03	1996-07-31	
-S000002841	ORF	Dubious	YDR433W		KRE22	chromosome 4		4	1329600	1330040	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030126	CDS					YDR433W		4	1329600	1330040	W		2011-02-03	1996-07-31	
-S000002842	ORF	Verified	YDR434W	GPI17	GPI-anchor transamidase GPI17	chromosome 4		4	1331237	1332841	W		2011-02-03	1996-07-31	Transmembrane protein; subunit of the glycosylphosphatidylinositol transamidase complex that adds GPIs to newly synthesized proteins; human PIG-S homolog
-S000031125	CDS					YDR434W		4	1331237	1332841	W		2011-02-03	1996-07-31	
-S000002843	ORF	Verified	YDR435C	PPM1	leucine carboxy methyltransferase	chromosome 4		4	1333969	1332983	C		2011-02-03	1996-07-31	Carboxyl methyltransferase; methylates the C terminus of the protein phosphatase 2A catalytic subunit (Pph21p or Pph22p), which is important for complex formation with regulatory subunits; required for methionine to inhibit autophagy and promote growth
-S000031177	CDS					YDR435C		4	1333969	1332983	C		2011-02-03	1996-07-31	
-S000002844	ORF	Verified	YDR436W	PPZ2	salt homeostasis regulator	chromosome 4	L000001479	4	1334821	1336953	W		2011-02-03	1996-07-31	Serine/threonine protein phosphatase Z, isoform of Ppz1p; involved in regulation of potassium transport, which affects osmotic stability, cell cycle progression, and halotolerance
-S000031349	CDS					YDR436W		4	1334821	1336953	W		2011-02-03	1996-07-31	
-S000002845	ORF	Verified	YDR437W	GPI19	phosphatidylinositol N-acetylglucosaminyltransferase GPI19	chromosome 4		4	1337352	1337774	W		2011-02-03	1996-07-31	Subunit of GPI-GlcNAc transferase involved in synthesis of GlcNAc-PI; N-acetylglucosaminyl phosphatidylinositol (GlcNAc-PI) is the first intermediate in glycosylphosphatidylinositol (GPI) anchor synthesis; shares similarity with mammalian PIG-P
-S000032347	CDS					YDR437W		4	1337352	1337774	W		2011-02-03	1996-07-31	
-S000002846	ORF	Verified	YDR438W	THI74		chromosome 4		4	1338274	1339386	W		2011-02-03	1996-07-31	Mitochondrial transporter repressible by thiamine; THI74 has a paralog, YML018C, that arose from the whole genome duplication; shows sequence homology to human gene SLC35F3, a thiamine transporter implicated in hypertension
-S000032476	CDS					YDR438W		4	1338274	1339386	W		2011-02-03	1996-07-31	
-S000002847	ORF	Verified	YDR439W	LRS4		chromosome 4	L000004395	4	1339676	1340719	W		2011-02-03	1996-07-31	Nucleolar protein that forms a complex with Csm1p; and then Mam1p at kinetochores during meiosis I to mediate accurate homolog segregation; required for condensin recruitment to the replication fork barrier site and rDNA repeat segregation
-S000032575	CDS					YDR439W		4	1339676	1340719	W		2011-02-03	1996-07-31	
-S000002848	ORF	Verified	YDR440W	DOT1	histone methyltransferase DOT1|KMT4|PCH1	chromosome 4	L000004390|L000004273	4	1342493	1344241	W		2011-02-03	1996-07-31	Nucleosomal histone H3-Lys79 methylase; methylation is required for telomeric silencing, meiotic checkpoint control, and DNA damage response
-S000033292	CDS					YDR440W		4	1342493	1344241	W		2011-02-03	1996-07-31	
-S000002849	ORF	Verified	YDR441C	APT2	adenine phosphoribosyltransferase APT2	chromosome 4	L000000102	4	1345062	1344517	C		2011-02-03	1996-07-31	Potential adenine phosphoribosyltransferase; encodes a protein with similarity to adenine phosphoribosyltransferase, but artificially expressed protein exhibits no enzymatic activity; APT2 has a paralog, APT1, that arose from the whole genome duplication
-S000033331	CDS					YDR441C		4	1345062	1344517	C		2011-02-03	1996-07-31	
-S000002850	ORF	Dubious	YDR442W			chromosome 4		4	1345647	1346039	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034272	CDS					YDR442W		4	1345647	1346039	W		2011-02-03	1996-07-31	
-S000002851	ORF	Verified	YDR443C	SSN2	SSX5|MED13|RYE3|UME2|SRB9|SCA1|NUT8	chromosome 4	L000001803|L000002088|S000029518|L000002101	4	1349938	1345676	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for stable association of Srb10p-Srb11p kinase; essential for transcriptional regulation
-S000034322	CDS					YDR443C		4	1349938	1345676	C		2011-02-03	1996-07-31	
-S000002852	ORF	Uncharacterized	YDR444W		putative hydrolase	chromosome 4		4	1350290	1352353	W		2011-02-03	1996-07-31	Putative hydrolase acting on ester bonds
-S000034446	CDS					YDR444W		4	1350290	1352353	W		2011-02-03	1996-07-31	
-S000006617	tRNA_gene		tK(CUU)D2			chromosome 4	L000003776	4	1352538	1352466	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000035878	noncoding_exon					tK(CUU)D2		4	1352538	1352466	C		2011-02-03	2000-05-19	
-S000002853	ORF	Dubious	YDR445C			chromosome 4		4	1352589	1352182	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034512	CDS					YDR445C		4	1352589	1352182	C		2011-02-03	1996-07-31	
-S000006877	long_terminal_repeat		YDRWdelta29			chromosome 4		4	1352644	1352975	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006878	long_terminal_repeat		YDRWdelta30			chromosome 4		4	1352976	1353226	W		2011-02-03	2000-05-19	Ty1 LTR
-S000002854	ORF	Verified	YDR446W	ECM11		chromosome 4	L000003886	4	1353725	1354633	W		2011-02-03	1996-07-31	Meiosis-specific protein; component of the Synaptonemal Complex (SC) along with Gmc2p; required for efficient crossover formation and for the efficient loading of the SC transverse filament protein, Zip1p; is SUMOlytaed in a Gmc2p manner, and SUMOylation is required for its function in meiosis; GFP fusion protein is present in discrete clusters in the nucleus throughout mitosis; may be involved in maintaining chromatin structure
-S000035576	CDS					YDR446W		4	1353725	1354633	W		2011-02-03	1996-07-31	
-S000002855	ORF	Verified	YDR447C	RPS17B	eS17|ribosomal 40S subunit protein S17B|S17e|rp51B|S17B|RPL51B|RP51B	chromosome 4	L000001670|L000001741	4	1355553	1354829	C		2011-02-03	1996-07-31	Ribosomal protein 51 (rp51) of the small (40s) subunit; homologous to mammalian ribosomal protein S17, no bacterial homolog; RPS17B has a paralog, RPS17A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000035611	CDS					YDR447C		4	1355236	1354829	C		2011-02-03	1996-07-31	
-S000035610	CDS					YDR447C		4	1355553	1355551	C		2011-02-03	1996-07-31	
-S000035612	intron					YDR447C		4	1355550	1355237	C		2011-02-03	1996-07-31	
-S000002856	ORF	Verified	YDR448W	ADA2	chromatin-binding transcription regulator ADA2|SWI8	chromosome 4	L000000029	4	1356065	1357369	W		2011-02-03	1996-07-31	Transcription coactivator; component of the ADA and SAGA transcriptional adaptor/HAT (histone acetyltransferase) complexes
-S000035771	CDS					YDR448W		4	1356065	1357369	W		2011-02-03	1996-07-31	
-S000002857	ORF	Verified	YDR449C	UTP6	snoRNA-binding rRNA-processing protein UTP6	chromosome 4		4	1358902	1357580	C		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
-S000036633	CDS					YDR449C		4	1358902	1357580	C		2011-02-03	1996-07-31	
-S000002858	ORF	Verified	YDR450W	RPS18A	uS13|ribosomal 40S subunit protein S18A|S18A|S13	chromosome 4	L000004480	4	1359923	1360798	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S18 and bacterial S13; RPS18A has a paralog, RPS18B, that arose from the whole genome duplication; protein increases in abundance and relocalizes from cytoplasm to nuclear foci upon DNA replication stress
-S000036543	CDS					YDR450W		4	1359923	1359969	W		2011-02-03	1996-07-31	
-S000036544	CDS					YDR450W		4	1360405	1360798	W		2011-02-03	1996-07-31	
-S000036545	intron					YDR450W		4	1359970	1360404	W		2011-02-03	1996-07-31	
-S000002859	ORF	Verified	YDR451C	YHP1		chromosome 4		4	1362181	1361120	C		2011-02-03	1996-07-31	Homeobox transcriptional repressor; binds Mcm1p and early cell cycle box (ECB) elements of cell cycle regulated genes, thereby restricting ECB-mediated transcription to the M/G1 interval; YHP1 has a paralog, YOX1, that arose from the whole genome duplication
-S000036584	CDS					YDR451C		4	1362181	1361120	C		2011-02-03	1996-07-31	
-S000002860	ORF	Verified	YDR452W	PPN1	endopolyphosphatase|PHM5	chromosome 4	S000007514	4	1362878	1364902	W		2011-02-03	1996-07-31	Dual endo- and exopolyphosphatase with a role in phosphate metabolism; acts as both an endopolyphosphatase cleaving long chains of polyphosphate distributively to generate shorter polymer chains and as an exopolyphosphatase catalyzing the hydrolysis of terminal phosphate from polyphosphate; localizes to the vacuole, nucleus and cytosol; functions as a homodimer; relocalizes from vacuole to cytoplasm upon DNA replication stress
-S000036745	CDS					YDR452W		4	1362878	1364902	W		2011-02-03	1996-07-31	
-S000002861	ORF	Verified	YDR453C	TSA2	thioredoxin peroxidase TSA2|cTPxII	chromosome 4		4	1365662	1365072	C		2011-02-03	1996-07-31	Stress inducible cytoplasmic thioredoxin peroxidase; cooperates with Tsa1p in the removal of reactive oxygen, nitrogen and sulfur species using thioredoxin as hydrogen donor; deletion enhances the mutator phenotype of tsa1 mutants; protein abundance increases in response to DNA replication stress; TSA2 has a paralog, TSA1, that arose from the whole genome duplication
-S000037410	CDS					YDR453C		4	1365662	1365072	C		2011-02-03	1996-07-31	
-S000002862	ORF	Verified	YDR454C	GUK1	BRA3|guanylate kinase|PUR5	chromosome 4	L000000745	4	1366827	1366264	C		2011-02-03	1996-07-31	Guanylate kinase; converts GMP to GDP; required for growth and mannose outer chain elongation of cell wall N-linked glycoproteins
-S000037538	CDS					YDR454C		4	1366827	1366264	C		2011-02-03	1996-07-31	
-S000002864	ORF	Verified	YDR456W	NHX1	bifunctional K:H/Na:H antiporter NHX1|VPL27|NHA2|VPS44	chromosome 4	L000004336	4	1367485	1369386	W		2011-02-03	1996-07-31	Na+/H+ and K+/H+ exchanger; required for intracellular sequestration of Na+ and K+; located in the vacuole and late endosome compartments; required for osmotolerance to acute hypertonic shock and for vacuolar fusion; ortholog of human NHE9, which is linked to autism
-S000030521	CDS					YDR456W		4	1367485	1369386	W		2011-02-03	1996-07-31	
-S000002863	ORF	Dubious	YDR455C			chromosome 4		4	1367681	1367373	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YDR456W
-S000037654	CDS					YDR455C		4	1367681	1367373	C		2011-02-03	1996-07-31	
-S000002865	ORF	Verified	YDR457W	TOM1	E3 ubiquitin-protein ligase TOM1	chromosome 4	L000002983	4	1369790	1379596	W		2011-02-03	1996-07-31	E3 ubiquitin ligase of the hect-domain class; has a role in mRNA export from the nucleus and may regulate transcriptional coactivators; involved in degradation of excess histones; interacts with Dia2p and is required for Dia2p degradation; required to target Cdc6p for ubiquitin-mediated destruction during G1 phase
-S000030634	CDS					YDR457W		4	1369790	1379596	W		2011-02-03	1996-07-31	
-S000130177	ARS		ARS439			chromosome 4		4	1379641	1380100			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000002866	ORF	Verified	YDR458C	HEH2		chromosome 4		4	1382046	1380055	C		2011-02-03	1996-07-31	Inner nuclear membrane (INM) protein; contains helix-extension-helix (HEH) motif, nuclear localization signal sequence; targeting to the INM requires the Srp1p-Kap95p karyopherins and the Ran cycle; HEH2 has a paralog, SRC1, that arose from the whole genome duplication
-S000030675	CDS					YDR458C		4	1382046	1380055	C		2011-02-03	1996-07-31	
-S000002867	ORF	Verified	YDR459C	PFA5	palmitoyltransferase PFA5	chromosome 4		4	1383443	1382319	C		2011-02-03	1996-07-31	Palmitoyltransferase with autoacylation activity; likely functions in pathway(s) outside Ras; member of a family of putative palmitoyltransferases containing an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain
-S000031546	CDS					YDR459C		4	1383443	1382319	C		2011-02-03	1996-07-31	
-S000002868	ORF	Verified	YDR460W	TFB3	TFIIH/NER complex subunit TFB3|RIG2	chromosome 4	L000003496	4	1383811	1384776	W		2011-02-03	1996-07-31	Subunit of TFIIH and nucleotide excision repair factor 3 complexes; involved in transcription initiation, required for nucleotide excision repair; ring finger protein similar to mammalian CAK and TFIIH subunit
-S000031579	CDS					YDR460W		4	1383811	1384776	W		2011-02-03	1996-07-31	
-S000002869	ORF	Verified	YDR461W	MFA1	mating pheromone a	chromosome 4	L000001096	4	1385176	1385286	W	280.27	2011-02-03	1996-07-31	Mating pheromone a-factor; made by a cells; interacts with alpha cells to induce cell cycle arrest and other responses leading to mating; biogenesis involves C-terminal modification, N-terminal proteolysis, and export; also encoded by MFA2
-S000032540	CDS					YDR461W		4	1385176	1385286	W		2011-02-03	1996-07-31	
-S000087209	ORF	Uncharacterized	YDR461C-A			chromosome 4		4	1385766	1385524	C		2011-02-03	2005-11-15	Putative protein of unknown function
-S000087210	CDS					YDR461C-A		4	1385766	1385524	C		2011-02-03	2005-11-15	
-S000002870	ORF	Verified	YDR462W	MRPL28	mitochondrial 54S ribosomal protein YmL28|YmL28	chromosome 4	L000002691	4	1386073	1386516	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; protein abundance increases in response to DNA replication stress
-S000032692	CDS					YDR462W		4	1386073	1386516	W		2011-02-03	1996-07-31	
-S000002871	ORF	Verified	YDR463W	STP1	SSY2|BAP1	chromosome 4	L000002132	4	1386816	1388375	W	298	2011-02-03	2003-09-22|1996-07-31	Transcription factor; contains a N-terminal regulatory motif (RI) that acts as a cytoplasmic retention determinant and as an Asi dependent degron in the nucleus; undergoes proteolytic processing by SPS (Ssy1p-Ptr3p-Ssy5p)-sensor component Ssy5p in response to extracellular amino acids; activates transcription of amino acid permease genes and may have a role in tRNA processing; STP1 has a paralog, STP2, that arose from the whole genome duplication
-S000032755	CDS					YDR463W		4	1386816	1388375	W		2011-02-03	2003-09-22|1996-07-31	
-S000002872	ORF	Verified	YDR464W	SPP41		chromosome 4	L000002019	4	1388872	1393179	W	297	2011-02-03	1996-07-31	Protein of unknown function; involved in negative regulation of expression of spliceosome components PRP4 and PRP3; relocalizes to the cytosol in response to hypoxia
-S000033502	CDS					YDR464W		4	1388872	1393179	W		2011-02-03	1996-07-31	
-S000028614	ORF	Dubious	YDR464C-A			chromosome 4		4	1392680	1392492	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031450	CDS					YDR464C-A		4	1392680	1392492	C		2011-02-03	2003-07-29	
-S000002873	ORF	Verified	YDR465C	RMT2	protein-arginine N5-methyltransferase	chromosome 4	L000004724	4	1394574	1393336	C		2011-02-03	1996-07-31	Arginine N5 methyltransferase; methylates ribosomal protein Rpl12 (L12) on Arg67; relative distribution to the nucleus increases upon DNA replication stress
-S000033538	CDS					YDR465C		4	1394574	1393336	C		2011-02-03	1996-07-31	
-S000002874	ORF	Verified	YDR466W	PKH3	protein kinase PKH3	chromosome 4		4	1395121	1397817	W		2011-02-03	1996-07-31	Protein kinase with similarity to mammalian PDK1 and yeast Pkh1p/Phk2p; yeast Pkh1p and Pkh2p are two redundant upstream activators of Pkc1p; identified as a multicopy suppressor of a pkh1 pkh2 double mutant
-S000033694	CDS					YDR466W		4	1395121	1397817	W		2011-02-03	1996-07-31	
-S000002875	ORF	Dubious	YDR467C			chromosome 4		4	1397909	1397583	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033742	CDS					YDR467C		4	1397909	1397583	C		2011-02-03	1996-07-31	
-S000002876	ORF	Verified	YDR468C	TLG1		chromosome 4	L000004227	4	1398700	1398026	C		2011-02-03	1996-07-31	Essential t-SNARE that mediates fusion of vesicles with the late Golgi; forms a complex with Tlg2p and Vti1p; mediates fusion of endosome-derived vesicles with the late Golgi; binds the docking complex VFT (Vps fifty-three) through interaction with Vps51p
-S000034625	CDS					YDR468C		4	1398700	1398026	C		2011-02-03	1996-07-31	
-S000002877	ORF	Verified	YDR469W	SDC1	SAF19|CPS25	chromosome 4		4	1399015	1399542	W		2011-02-03	1996-07-31	Subunit of the COMPASS (Set1C) complex; COMPASS methylates lysine 4 of histone H3 and is required in chromatin silencing at telomeres; contains a Dpy-30 domain that mediates interaction with Bre2p; similar to C. elegans and human DPY-30
-S000034852	CDS					YDR469W		4	1399015	1399542	W		2011-02-03	1996-07-31	
-S000002878	ORF	Verified	YDR470C	UGO1		chromosome 4		4	1401214	1399706	C		2011-02-03	2000-04-06|1996-07-31|2011-02-03	Outer membrane component of the mitochondrial fusion machinery; binds to Fzo1p and Mgm1p to link these two GTPases during mitochondrial fusion; involved in fusion of both the outer and inner membranes; facilitates dimerization of Fzo1p during fusion; import into the outer membrane is mediated by Tom70p and Mim1p; has similarity to carrier proteins but likely not a transporter; similar to human SLC25A46 implicated in optic atroprophy spectrum disorder
-S000035822	CDS					YDR470C		4	1401214	1399706	C		2011-02-03	2000-04-06|1996-07-31|2011-02-03	
-S000002879	ORF	Verified	YDR471W	RPL27B	eL27|ribosomal 60S subunit protein L27B|L27e|L27B	chromosome 4	L000002898	4	1401770	1402564	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L27B; homologous to mammalian ribosomal protein L27, no bacterial homolog; RPL27B has a paralog, RPL27A, that arose from the whole genome duplication
-S000036787	CDS					YDR471W		4	1401770	1401800	W		2011-02-03	1996-07-31	
-S000036788	CDS					YDR471W		4	1402185	1402564	W		2011-02-03	1996-07-31	
-S000036789	intron					YDR471W		4	1401801	1402184	W		2011-02-03	1996-07-31	
-S000006498	snoRNA_gene		snR13	SNR13		chromosome 4	L000002849	4	1402919	1403042	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at positions A2280 and A2281
-S000036591	noncoding_exon					snR13		4	1402919	1403042	W		2011-02-03	2000-05-19	
-S000002880	ORF	Verified	YDR472W	TRS31	TRAPP subunit TRS31	chromosome 4	S000007433	4	1403322	1404173	W		2011-02-03	1996-07-31	Core component of transport protein particle (TRAPP) complexes I-III; TRAPP complexes are related multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII)
-S000036864	CDS					YDR472W		4	1403322	1404173	W		2011-02-03	1996-07-31	
-S000118448	ARS		ARS440		ARSIV-1404	chromosome 4		4	1404290	1404524			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178080	ARS_consensus_sequence					ARS440		4	1404322	1404338	W		2014-11-18	2014-11-18	
-S000002881	ORF	Verified	YDR473C	PRP3	U4/U6-U5 snRNP complex subunit PRP3|RNA3	chromosome 4	L000001496	4	1405854	1404445	C	300	2011-02-03	1996-07-31	Splicing factor; component of the U4/U6-U5 snRNP complex
-S000036886	CDS					YDR473C		4	1405854	1404445	C		2011-02-03	1996-07-31	
-S000002883	ORF	Verified	YDR475C	JIP4	YDR474C	chromosome 4		4	1410094	1407464	C		2011-02-03	2003-09-30|1996-07-31	Protein of unknown function; previously annotated as two separate ORFs, YDR474C and YDR475C, which were merged as a result of corrections to the systematic reference sequence; JIP4 has a paralog, YOR019W, that arose from the whole genome duplication
-S000037707	CDS					YDR475C		4	1410094	1407464	C		2011-02-03	2003-09-30|1996-07-31	
-S000002884	ORF	Uncharacterized	YDR476C			chromosome 4		4	1411127	1410453	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YDR476C is not an essential gene
-S000037771	CDS					YDR476C		4	1411127	1410453	C		2011-02-03	1996-07-31	
-S000002885	ORF	Verified	YDR477W	SNF1	AMP-activated serine/threonine-protein kinase catalytic subunit SNF1|PAS14|HAF3|GLC2|CCR1|CAT1	chromosome 4	L000001944	4	1412373	1414274	W	304	2011-02-03	1996-07-31	AMP-activated S/T protein kinase; forms a complex with Snf4p and members of the Sip1p/Sip2p/Gal83p family; required for transcription of glucose-repressed genes, thermotolerance, sporulation, and peroxisome biogenesis; regulates nucleocytoplasmic shuttling of Hxk2p; regulates filamentous growth and acts as a non-canonical GEF, activating Arf3p during invasive growth; SUMOylation by Mms21p inhibits its function and targets Snf1p for destruction via the Slx5-Slx8 Ub ligase
-S000029842	CDS					YDR477W		4	1412373	1414274	W		2011-02-03	1996-07-31	
-S000002886	ORF	Verified	YDR478W	SNM1		chromosome 4	L000002825	4	1414575	1415171	W		2011-02-03	1996-07-31	Ribonuclease MRP complex subunit; ribonuclease (RNase) MRP cleaves pre-rRNA and has a role in cell cycle-regulated degradation of daughter cell-specific mRNAs; binds to the NME1 RNA subunit of RNase MRP
-S000030848	CDS					YDR478W		4	1414575	1415171	W		2011-02-03	1996-07-31	
-S000002887	ORF	Verified	YDR479C	PEX29		chromosome 4		4	1416874	1415210	C		2011-02-03	1996-07-31	ER-resident protein involved in peroxisomal biogenesis; ER-localized protein that associates with peroxisomes; interacts with Pex30p and reticulons Rtn1p and Yop1p to regulate peroxisome biogenesis from the ER; role in peroxisomal-destined vesicular flow from the ER; regulates peroxisomal size, number and distribution; Pex28p and Pex29p may act at steps upstream of those mediated by Pex30p, Pex31p, and Pex32p; forms ER foci upon DNA replication stress
-S000030901	CDS					YDR479C		4	1416874	1415210	C		2011-02-03	1996-07-31	
-S000002888	ORF	Verified	YDR480W	DIG2	RST2	chromosome 4	L000003123	4	1417399	1418370	W		2011-02-03	1996-07-31	MAP kinase-responsive inhibitor of the Ste12p transcription factor; involved in the regulation of mating-specific genes and the invasive growth pathway; related regulators Dig1p and Dig2p bind to Ste12p; DIG2 has a paralog, DIG1, that arose from the whole genome duplication
-S000032009	CDS					YDR480W		4	1417399	1418370	W		2011-02-03	1996-07-31	
-S000002889	ORF	Verified	YDR481C	PHO8	alkaline phosphatase PHO8|phoH	chromosome 4	L000001422	4	1420250	1418550	C	306	2011-02-03	1996-07-31	Repressible vacuolar alkaline phosphatase; regulated by levels of Pi and by Pho4p, Pho9p, Pho80p, Pho81p and Pho85p; dephosphorylates phosphotyrosyl peptides; contributes to NAD+ metabolism by producing nicotinamide riboside from NMN
-S000032056	CDS					YDR481C		4	1420250	1418550	C		2011-02-03	1996-07-31	
-S000002890	ORF	Verified	YDR482C	CWC21	U2-type spliceosomal complex subunit CWC21	chromosome 4		4	1420838	1420431	C		2011-02-03	1996-07-31	Protein involved in RNA splicing by the spliceosome; component of a complex containing Cef1p; interacts genetically with ISY1 and BUD13; may bind RNA; has similarity to S. pombe Cwf21p
-S000032970	CDS					YDR482C		4	1420838	1420431	C		2011-02-03	1996-07-31	
-S000002891	ORF	Verified	YDR483W	KRE2	alpha-1,2-mannosyltransferase KRE2|MNT1	chromosome 4	L000000913	4	1421157	1422485	W	306	2011-02-03	1996-07-31	Alpha1,2-mannosyltransferase of the Golgi; involved in protein mannosylation; KRE2 has a paralog, KTR6, that arose from the whole genome duplication
-S000033119	CDS					YDR483W		4	1421157	1422485	W		2011-02-03	1996-07-31	
-S000002892	ORF	Verified	YDR484W	VPS52	SAC2	chromosome 4	L000001791	4	1422763	1424688	W	314	2011-02-03	1996-07-31	Component of the GARP (Golgi-associated retrograde protein) complex; GARP is required for the recycling of proteins from endosomes to the late Golgi, and for mitosis after DNA damage induced checkpoint arrest; involved in localization of actin and chitin; members of the GARP complex are Vps51p-Vps52p-Vps53p-Vps54p
-S000033198	CDS					YDR484W		4	1422763	1424688	W		2011-02-03	1996-07-31	
-S000002893	ORF	Verified	YDR485C	VPS72	SWC2	chromosome 4		4	1427207	1424820	C		2011-02-03	2003-09-22|1996-07-31	Htz1p-binding component of the SWR1 complex; exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; may function as a lock that prevents removal of H2AZ from nucleosomes; required for vacuolar protein sorting
-S000033955	CDS					YDR485C		4	1427207	1424820	C		2011-02-03	2003-09-22|1996-07-31	
-S000002894	ORF	Verified	YDR486C	VPS60	CHM5|MOS10	chromosome 4		4	1428120	1427431	C		2011-02-03	2003-09-22|1996-07-31	Protein involved in late endosome to vacuole transport; cytoplasmic and vacuolar membrane protein; required for normal filament maturation during pseudohyphal growth; may function in targeting cargo proteins for degradation; interacts with Vta1p
-S000034065	CDS					YDR486C		4	1428120	1427431	C		2011-02-03	2003-09-22|1996-07-31	
-S000002895	ORF	Verified	YDR487C	RIB3	3,4-dihydroxy-2-butanone-4-phosphate synthase RIB3	chromosome 4	L000001635	4	1428980	1428354	C		2011-02-03	1996-07-31	3,4-dihydroxy-2-butanone-4-phosphate synthase (DHBP synthase); required for riboflavin biosynthesis from ribulose-5-phosphate, also has an unrelated function in mitochondrial respiration
-S000034158	CDS					YDR487C		4	1428980	1428354	C		2011-02-03	1996-07-31	
-S000002896	ORF	Verified	YDR488C	PAC11	dynein intermediate chain	chromosome 4	L000001330	4	1430789	1429188	C		2011-02-03	1996-07-31	Dynein intermediate chain, microtubule motor protein; required for intracellular transport and cell division; acts in cytoplasmic dynein pathway; forms complex with dynein light chain Dyn2p that promotes Dyn1p homodimerization and potentiates motor processivity; Dyn2p-Pac11p complex is also important for interaction of dynein motor complex with dynactin complex; forms cortical cytoplasmic microtubule capture site with Num1p; essential in the absence of CIN8
-S000035100	CDS					YDR488C		4	1430789	1429188	C		2011-02-03	1996-07-31	
-S000002897	ORF	Verified	YDR489W	SLD5	DNA replication protein SLD5|CDC105	chromosome 4		4	1431012	1431896	W		2011-02-03	1996-07-31	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p); complex is localized to DNA replication origins and implicated in assembly of the DNA replication machinery
-S000035299	CDS					YDR489W		4	1431012	1431896	W		2011-02-03	1996-07-31	
-S000002898	ORF	Verified	YDR490C	PKH1	serine/threonine protein kinase PKH1	chromosome 4	L000004616	4	1434268	1431968	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; involved in sphingolipid-mediated signaling pathway that controls endocytosis; activates Ypk1p and Ykr2p, components of signaling cascade required for maintenance of cell wall integrity; contains a PH-like domain; redundant with Pkh2p; PKH1 has a paralog, PKH2, that arose from the whole genome duplication
-S000036098	CDS					YDR490C		4	1434268	1431968	C		2011-02-03	1996-07-31	
-S000002900	ORF	Verified	YDR492W	IZH1	PAQR-type receptor	chromosome 4		4	1434924	1435874	W		2011-02-03	1996-07-31	Membrane protein involved in zinc ion homeostasis; member of the four-protein IZH family; transcription is regulated directly by Zap1p, expression induced by zinc deficiency and fatty acids; deletion increases sensitivity to elevated zinc; IZH1 has a paralog, IZH4, that arose from the whole genome duplication
-S000031780	CDS					YDR492W		4	1434924	1435874	W		2011-02-03	1996-07-31	
-S000002899	ORF	Dubious	YDR491C			chromosome 4		4	1434991	1434500	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036239	CDS					YDR491C		4	1434991	1434500	C		2011-02-03	1996-07-31	
-S000002901	ORF	Verified	YDR493W	MZM1	AIM8|FMP36	chromosome 4		4	1436217	1436588	W		2011-02-03	1996-07-31	Protein required for assembly of the cytochrome bc(1) complex; acts as a chaperone for Rip1p and facilitates its insertion into the complex at a late stage of assembly; localized to the mitochondrial matrix; null mutant exhibits a respiratory growth defect and reduced mitochondrial zinc levels, which is characteristic of mutations affecting bc(1) complex assembly; member of the LYR protein family; human LYRM7 is a functional ortholog
-S000031922	CDS					YDR493W		4	1436217	1436588	W		2011-02-03	1996-07-31	
-S000002902	ORF	Verified	YDR494W	RSM28	mitochondrial 37S ribosomal protein RSM28	chromosome 4		4	1436930	1438015	W		2011-02-03	2002-12-17|1996-07-31	Mitochondrial ribosomal protein of the small subunit; genetic interactions suggest a possible role in promoting translation initiation
-S000037424	CDS					YDR494W		4	1436930	1438015	W		2011-02-03	2002-12-17|1996-07-31	
-S000002903	ORF	Verified	YDR495C	VPS3	CORVET complex subunit VPS3|VPT17|VPL3|PEP6	chromosome 4	L000002469	4	1441150	1438115	C		2011-02-03	1996-07-31	Component of CORVET membrane tethering complex; cytoplasmic protein required for the sorting and processing of soluble vacuolar proteins, acidification of the vacuolar lumen, and assembly of the vacuolar H+-ATPase
-S000037459	CDS					YDR495C		4	1441150	1438115	C		2011-02-03	1996-07-31	
-S000002904	ORF	Verified	YDR496C	PUF6		chromosome 4		4	1443403	1441433	C		2011-02-03	1996-07-31	Pumilio-homology domain protein; binds the 3' UTR of ASH1 mRNA and represses its translation, resulting in proper asymmetric localization of ASH1 mRNA; required at post-transcriptional step for efficient retrotransposition; absence results in decreased Ty1 Gag:GFP protein levels; co-sediments with the 60S ribosomal subunit and is required for its biogenesis
-S000037553	CDS					YDR496C		4	1443403	1441433	C		2011-02-03	1996-07-31	
-S000002905	ORF	Verified	YDR497C	ITR1	myo-inositol transporter ITR1	chromosome 4	L000000879	4	1445467	1443713	C		2011-02-03	1996-07-31	Myo-inositol transporter; member of the sugar transporter superfamily; expression is repressed by inositol and choline via Opi1p and derepressed via Ino2p and Ino4p; relative distribution to the vacuole increases upon DNA replication stress; ITR1 has a paralog, ITR2, that arose from the whole genome duplication
-S000037634	CDS					YDR497C		4	1445467	1443713	C		2011-02-03	1996-07-31	
-S000002906	ORF	Verified	YDR498C	SEC20		chromosome 4	L000001843	4	1446994	1445843	C		2011-02-03	1996-07-31	Membrane glycoprotein v-SNARE; involved in retrograde transport from the Golgi to the endoplasmic reticulum (ER); required for N- and O-glycosylation in the Golgi but not in the ER and for efficient nuclear fusion during mating; mediates Sey1p-independent homotypic ER fusion; interacts with the Dsl1p complex through Tip20p
-S000030424	CDS					YDR498C		4	1446994	1445843	C		2011-02-03	1996-07-31	
-S000002907	ORF	Verified	YDR499W	LCD1	PIE1|DDC2	chromosome 4		4	1447830	1450073	W		2011-02-03	1996-07-31	Essential protein required for the DNA integrity checkpoint pathways; interacts physically with Mec1p; putative homolog of S. pombe Rad26 and human ATRIP; forms nuclear foci upon DNA replication stress
-S000030564	CDS					YDR499W		4	1447830	1450073	W		2011-02-03	1996-07-31	
-S000002908	ORF	Verified	YDR500C	RPL37B	eL37|ribosomal 60S subunit protein L37B|L37e|YL35|L43|L37B	chromosome 4	L000002899	4	1450853	1450198	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L37B; required for processing of 27SB pre-rRNA and formation of stable 66S assembly intermediates; protein abundance increases in response to DNA replication stress; homologous to mammalian ribosomal protein L37, no bacterial homolog; RPL37B has a paralog, RPL37A, that arose from the whole genome duplication
-S000036331	CDS					YDR500C		4	1450457	1450198	C		2011-02-03	1996-07-31	
-S000036330	CDS					YDR500C		4	1450853	1450847	C		2011-02-03	1996-07-31	
-S000036332	intron					YDR500C		4	1450846	1450458	C		2011-02-03	1996-07-31	
-S000002909	ORF	Verified	YDR501W	PLM2		chromosome 4	S000007440	4	1451353	1452918	W		2011-02-03	1996-07-31	Putative transcription factor, contains Forkhead Associated domain; found associated with chromatin; target of SBF transcription factor; induced in response to DNA damaging agents and deletion of telomerase; PLM2 has a paralog, TOS4, that arose from the whole genome duplication
-S000037037	CDS					YDR501W		4	1451353	1452918	W		2011-02-03	1996-07-31	
-S000002910	ORF	Verified	YDR502C	SAM2	methionine adenosyltransferase SAM2|ETH2	chromosome 4	L000001799	4	1454464	1453310	C		2011-02-03	1996-07-31	S-adenosylmethionine synthetase; catalyzes transfer of the adenosyl group of ATP to the sulfur atom of methionine; comparative analysis suggests that a mitochondrially targeted form may result from translation starting at a non-canonical codon upstream of the annotated start codon
-S000037058	CDS					YDR502C		4	1454464	1453310	C		2011-02-03	1996-07-31	
-S000130178	ARS		ARS442			chromosome 4		4	1454509	1455087			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000002911	ORF	Verified	YDR503C	LPP1	phosphatidate phosphatase LPP1	chromosome 4	L000004266	4	1455866	1455042	C		2011-02-03	1996-07-31	Lipid phosphate phosphatase; catalyzes Mg(2+)-independent dephosphorylation of phosphatidic acid (PA), lysophosphatidic acid, and diacylglycerol pyrophosphate; involved in control of the cellular levels of phosphatidylinositol and PA
-S000037180	CDS					YDR503C		4	1455866	1455042	C		2011-02-03	1996-07-31	
-S000002912	ORF	Verified	YDR504C	SPG3		chromosome 4		4	1456694	1456311	C		2011-02-03	1996-07-31	Protein required for high temperature survival during stationary phase; not required for growth on nonfermentable carbon sources; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
-S000037274	CDS					YDR504C		4	1456694	1456311	C		2011-02-03	1996-07-31	
-S000002913	ORF	Verified	YDR505C	PSP1	GIN5	chromosome 4	L000002881|L000002877	4	1459220	1456695	C		2011-02-03	1996-07-31|2011-02-03	Asn and gln rich protein of unknown function; high-copy suppressor of POL1 (DNA polymerase alpha) and partial suppressor of CDC2 (polymerase delta) and CDC6 (pre-RC loading factor) mutations; overexpression results in growth inhibition; PSP1 has a paralog, YLR177W, that arose from the whole genome duplication
-S000029936	CDS					YDR505C		4	1459220	1456695	C		2011-02-03	1996-07-31|2011-02-03	
-S000002914	ORF	Verified	YDR506C	GMC1	putative oxidoreductase	chromosome 4		4	1461554	1459728	C		2011-02-03	1996-07-31	Protein involved in meiotic progression; mutants are delayed in meiotic nuclear division and are defective in synaptonemal complex assembly; possible membrane-localized protein; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000030050	CDS					YDR506C		4	1461554	1459728	C		2011-02-03	1996-07-31	
-S000006638	tRNA_gene		tL(CAA)D			chromosome 4	L000003775	4	1461829	1461715	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000033776	intron					tL(CAA)D		4	1461791	1461759	C		2011-02-03	2000-05-19	
-S000033775	noncoding_exon					tL(CAA)D		4	1461758	1461715	C		2011-02-03	2000-05-19	
-S000033774	noncoding_exon					tL(CAA)D		4	1461829	1461792	C		2011-02-03	2000-05-19	
-S000118449	ARS		ARS443		ARSIV-1462	chromosome 4		4	1461862	1462173			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000002915	ORF	Verified	YDR507C	GIN4	protein kinase GIN4|ERC47	chromosome 4	L000002876	4	1465786	1462358	C		2011-02-03	1996-07-31	Protein kinase involved in bud growth and assembly of the septin ring; proposed to have kinase-dependent and kinase-independent activities; undergoes autophosphorylation; similar to Hsl1p; GIN4 has a paralog, KCC4, that arose from the whole genome duplication
-S000030234	CDS					YDR507C		4	1465786	1462358	C		2011-02-03	1996-07-31	
-S000002917	ORF	Dubious	YDR509W			chromosome 4		4	1468226	1468573	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031352	CDS					YDR509W		4	1468226	1468573	W		2011-02-03	1996-07-31	
-S000002916	ORF	Verified	YDR508C	GNP1	glutamine permease GNP1	chromosome 4	L000002806	4	1468444	1466453	C		2011-02-03	1996-07-31	High-affinity glutamine permease; also transports Leu, Ser, Thr, Cys, Met and Asn; expression is fully dependent on Grr1p and modulated by the Ssy1p-Ptr3p-Ssy5p (SPS) sensor of extracellular amino acids; GNP1 has a paralog, AGP1, that arose from the whole genome duplication
-S000031178	CDS					YDR508C		4	1468444	1466453	C		2011-02-03	1996-07-31	
-S000002918	ORF	Verified	YDR510W	SMT3	SUMO family protein SMT3	chromosome 4	L000001938	4	1469400	1469705	W		2011-02-03	1996-07-31	Ubiquitin-like protein of the SUMO family; conjugated to lysine residues of target proteins; associates with transcriptionally active genes; regulates chromatid cohesion, chromosome segregation, APC-mediated proteolysis, DNA replication and septin ring dynamics; human homolog SUMO1 can complement yeast null mutant
-S000032284	CDS					YDR510W		4	1469400	1469705	W		2011-02-03	1996-07-31	
-S000028615	ORF	Dubious	YDR510C-A			chromosome 4		4	1469811	1469695	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031452	CDS					YDR510C-A		4	1469811	1469695	C		2011-02-03	2003-07-29	
-S000002919	ORF	Verified	YDR511W	SDH7	ACN9	chromosome 4		4	1470017	1470418	W		2011-02-03	1996-07-31	Mitochondrial protein involved in assembly of succinate dehydrogenase; has a role in maturation of the Sdh2p subunit; localized to the mitochondrial intermembrane space; required for acetate utilization and gluconeogenesis; mutation in Drosophila ortholog SDHAF3 causes reduced succinate dehydrogenase activity and neuronal and muscular dysfunction; member of the LYR protein family
-S000032384	CDS					YDR511W		4	1470017	1470418	W		2011-02-03	1996-07-31	
-S000002921	ORF	Verified	YDR513W	GRX2	dithiol glutaredoxin GRX2|TTR1	chromosome 4	L000000510|L000002386	4	1471017	1471448	W		2011-02-03	1996-07-31	Cytoplasmic glutaredoxin; thioltransferase, glutathione-dependent disulfide oxidoreductase involved in maintaining redox state of target proteins, also exhibits glutathione peroxidase activity, expression induced in response to stress; GRX2 has two in-frame start codons resulting in a shorter isoform that is retained in the cytosol and a longer form translocated to the mitochondrial matrix; GRX2 has a paralog, GRX1, that arose from the whole genome duplication
-S000033294	CDS					YDR513W		4	1471017	1471448	W		2011-02-03	1996-07-31	
-S000002920	ORF	Verified	YDR512C	EMI1		chromosome 4		4	1471063	1470500	C		2011-02-03	1996-07-31	Non-essential protein of unknown function; required for transcriptional induction of the early meiotic-specific transcription factor IME1, also required for sporulation; contains twin cysteine-x9-cysteine motifs; deletion affects mitochondrial morphology
-S000032449	CDS					YDR512C		4	1471063	1470500	C		2011-02-03	1996-07-31	
-S000002922	ORF	Verified	YDR514C			chromosome 4		4	1472999	1471548	C		2011-02-03	1996-07-31	Protein of unknown function that localizes to mitochondria; overexpression affects endocytic protein trafficking; YDR514C has a paralog, GFD2, that arose from the whole genome duplication
-S000033333	CDS					YDR514C		4	1472999	1471548	C		2011-02-03	1996-07-31	
-S000002923	ORF	Verified	YDR515W	SLF1	SRO99	chromosome 4	L000004191|L000002894	4	1473429	1474772	W		2011-02-03	1996-07-31	RNA binding protein that associates with polysomes; may be involved in regulating mRNA translation; involved in the copper-dependent mineralization of copper sulfide complexes on cell surface in cells cultured in copper salts; SLF1 has a paralog, SRO9, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000034278	CDS					YDR515W		4	1473429	1474772	W		2011-02-03	1996-07-31	
-S000002924	ORF	Verified	YDR516C	EMI2	putative glucokinase	chromosome 4		4	1476476	1474974	C		2011-02-03	1996-07-31	Non-essential protein of unknown function; required for transcriptional induction of the early meiotic-specific transcription factor IME1; required for sporulation; expression regulated by glucose-repression transcription factors Mig1/2p; EMI2 has a paralog, GLK1, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000034325	CDS					YDR516C		4	1476476	1474974	C		2011-02-03	1996-07-31	
-S000002925	ORF	Verified	YDR517W	GRH1		chromosome 4		4	1477239	1478357	W		2011-02-03	1996-07-31	Acetylated cis-Golgi protein, involved in ER to Golgi transport; homolog of human GRASP65; forms a complex with the coiled-coil protein Bug1p; mutants are compromised for the fusion of ER-derived vesicles with Golgi membranes; protein abundance increases in response to DNA replication stress
-S000034449	CDS					YDR517W		4	1477239	1478357	W		2011-02-03	1996-07-31	
-S000002926	ORF	Verified	YDR518W	EUG1	protein disulfide isomerase EUG1	chromosome 4	L000000589	4	1478608	1480161	W		2011-02-03	1996-07-31	Protein disulfide isomerase of the endoplasmic reticulum lumen; EUG1 has a paralog, PDI1, that arose from the whole genome duplication; function overlaps with that of Pdi1p; may interact with nascent polypeptides in the ER
-S000034562	CDS					YDR518W		4	1478608	1480161	W		2011-02-03	1996-07-31	
-S000002927	ORF	Verified	YDR519W	FPR2	peptidylprolyl isomerase family protein FPR2|FKB2	chromosome 4	L000000613	4	1480425	1480832	W		2011-02-03	1996-07-31	Membrane-bound peptidyl-prolyl cis-trans isomerase (PPIase); binds to the drugs FK506 and rapamycin; expression pattern suggests possible involvement in ER protein trafficking; relocalizes from nucleus to vacuole upon DNA replication stress; mutation is functionally complemented by human FKBP2
-S000035584	CDS					YDR519W		4	1480425	1480832	W		2011-02-03	1996-07-31	
-S000002929	ORF	Dubious	YDR521W			chromosome 4		4	1483141	1483476	W		2011-02-03	1996-07-31	Dubious ORF that overlaps YDR520C; mutant increases expression of PIS1 and RPL3 in glycerol
-S000035558	CDS					YDR521W		4	1483141	1483476	W		2011-02-03	1996-07-31	
-S000002928	ORF	Uncharacterized	YDR520C	URC2	RRT4	chromosome 4	S000122335	4	1483403	1481085	C		2011-02-03	1996-07-31	Putative Zn(II)2Cys6 motif containing transcription factor; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription; similar to S. kluyveri Urc2p involved in uracil catabolism
-S000035462	CDS					YDR520C		4	1483403	1481085	C		2011-02-03	1996-07-31	
-S000002930	ORF	Verified	YDR522C	SPS2		chromosome 4	L000002025	4	1485303	1483795	C		2011-02-03	1996-07-31	Protein expressed during sporulation; SPS2 has a paralog, SPS22, that arose from the whole genome duplication; redundant with Sps22p for organization of the beta-glucan layer of the spore wall; S. pombe ortholog is a spore wall component
-S000035591	CDS					YDR522C		4	1485303	1483795	C		2011-02-03	1996-07-31	
-S000118450	ARS		ARS446		ARSIV-1487	chromosome 4		4	1486918	1487161			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178081	ARS_consensus_sequence					ARS446		4	1487092	1487076	C		2014-11-18	2014-11-18	
-S000002931	ORF	Verified	YDR523C	SPS1	putative serine/threonine protein kinase SPS1	chromosome 4	L000002024	4	1487038	1485566	C		2011-02-03	1996-07-31	Putative protein serine/threonine kinase; localizes to the nucleus and cytoplasm; required for efficient spore packaging, prospore membrane development and closure and localization of enzymes involved in spore wall synthesis; interacts with and required for Ssp1p phosphorylation and turnover; member of the GCKIII subfamily of STE20 kinases; multiply phosphorylated on S/T residues; interacts with 14-3-3 proteins, Bmh1p and Bmh2p; expressed at the end of meiosis
-S000036490	CDS					YDR523C		4	1487038	1485566	C		2011-02-03	1996-07-31	
-S000002932	ORF	Verified	YDR524C	AGE1	SAT1	chromosome 4	S000007502	4	1488990	1487542	C		2011-02-03	1996-07-31	ADP-ribosylation factor (ARF) GTPase activating protein (GAP) effector; involved in the secretory and endocytic pathways; contains C2C2H2 cysteine/histidine motif
-S000036586	CDS					YDR524C		4	1488990	1487542	C		2011-02-03	1996-07-31	
-S000028740	ORF	Uncharacterized	YDR524W-C		YDR524W-A	chromosome 4		4	1489403	1489492	W		2011-02-03	2003-07-29	Putative protein of unknown function; small ORF identified by SAGE; deletion strains are moderately sensitive to the radiomimetic drug bleomycin
-S000033410	CDS					YDR524W-C		4	1489403	1489492	W		2011-02-03	2003-07-29	
-S000028739	ORF	Uncharacterized	YDR524C-B			chromosome 4		4	1489798	1489598	C		2011-02-03	2003-07-29	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; YDR524C-B has a paralog, YCL048W-A, that arose from the whole genome duplication
-S000033383	CDS					YDR524C-B		4	1489798	1489598	C		2011-02-03	2003-07-29	
-S000002933	ORF	Dubious	YDR525W	API2		chromosome 4		4	1489905	1490234	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 26% of ORF overlaps the dubious ORF YDR524C-A; insertion mutation in a cdc34-2 mutant background causes altered bud morphology
-S000036746	CDS					YDR525W		4	1489905	1490234	W		2011-02-03	1996-07-31	
-S000028616	ORF	Dubious	YDR524C-A		YDR524C-C	chromosome 4		4	1489990	1489871	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031456	CDS					YDR524C-A		4	1489990	1489871	C		2011-02-03	2003-07-29	
-S000007236	ORF	Verified	YDR525W-A	SNA2		chromosome 4		4	1490596	1490835	W		2011-02-03	1999-07-17	Protein of unknown function; has similarity to Pmp3p, which is involved in cation transport; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
-S000036177	CDS					YDR525W-A		4	1490596	1490835	W		2011-02-03	1999-07-17	
-S000002935	ORF	Verified	YDR527W	RBA50		chromosome 4		4	1491094	1492413	W		2011-02-03	1996-07-31|2011-02-03	Protein involved in transcription; interacts with RNA polymerase II subunits Rpb2p, Rpb3, and Rpb11p; has similarity to human RPAP1
-S000037626	CDS					YDR527W		4	1491094	1492413	W		2011-02-03	1996-07-31|2011-02-03	
-S000002934	ORF	Dubious	YDR526C			chromosome 4		4	1491545	1491075	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037413	CDS					YDR526C		4	1491545	1491075	C		2011-02-03	1996-07-31	
-S000028466	snoRNA_gene		snR84	SNR84	RUF1	chromosome 4		4	1493026	1492477	C		2011-02-03	2003-03-05	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2266; overexpression confers resistance to baking-associated stress
-S000030073	noncoding_exon					snR84		4	1493026	1492477	C		2011-02-03	2003-03-05	
-S000002936	ORF	Verified	YDR528W	HLR1		chromosome 4		4	1494586	1495857	W		2011-02-03	1996-07-31	Protein involved in regulation of cell wall composition and integrity; also involved in cell wall response to osmotic stress; overproduction suppresses a lysis sensitive PKC mutation; HLR1 has a paralog, LRE1, that arose from the whole genome duplication
-S000030394	CDS					YDR528W		4	1494586	1495857	W		2011-02-03	1996-07-31	
-S000002937	ORF	Verified	YDR529C	QCR7	ubiquinol--cytochrome-c reductase subunit 7|UCR7|CRO1|COR4	chromosome 4	L000001547	4	1496548	1496165	C		2011-02-03	1996-07-31	Subunit 7 of ubiquinol cytochrome-c reductase (Complex III); Complex III is a component of the mitochondrial inner membrane electron transport chain; oriented facing the mitochondrial matrix; N-terminus appears to play a role in complex assembly
-S000030475	CDS					YDR529C		4	1496548	1496165	C		2011-02-03	1996-07-31	
-S000002938	ORF	Verified	YDR530C	APA2	bifunctional AP-4-A phosphorylase/ADP sulfurylase	chromosome 4	L000000091	4	1497768	1496791	C		2011-02-03	1996-07-31	Diadenosine 5',5'''-P1,P4-tetraphosphate phosphorylase II; AP4A phosphorylase involved in catabolism of bis(5'-nucleosidyl) tetraphosphates; APA2 has a paralog, APA1, that arose from the whole genome duplication
-S000031311	CDS					YDR530C		4	1497768	1496791	C		2011-02-03	1996-07-31	
-S000002939	ORF	Verified	YDR531W	CAB1	pantothenate kinase	chromosome 4		4	1498232	1499335	W		2011-02-03	1996-07-31	Pantothenate kinase, ATP:D-pantothenate 4'-phosphotransferase; catalyzes the first committed step in the universal biosynthetic pathway for synthesis of coenzyme A (CoA); transcriptionally regulated by Upc2p via a sterol response element
-S000031423	CDS					YDR531W		4	1498232	1499335	W		2011-02-03	1996-07-31	
-S000002940	ORF	Verified	YDR532C	KRE28		chromosome 4		4	1500553	1499396	C		2011-02-03	1996-07-31	Subunit of a kinetochore-microtubule binding complex; complex bridges centromeric heterochromatin and kinetochore MAPs and motors; required for sister chromatid bi-orientation and kinetochore binding of SAC components; complex also includes Spc105p; modified by sumoylation
-S000031481	CDS					YDR532C		4	1500553	1499396	C		2011-02-03	1996-07-31	
-S000002941	ORF	Verified	YDR533C	HSP31	glutathione-independent methylglyoxalase	chromosome 4		4	1502160	1501447	C		2011-02-03	1996-07-31	Methylglyoxalase that converts methylglyoxal to D-lactate; involved in oxidative stress resistance, diauxic shift, and stationary phase survival; has similarity to E. coli Hsp31 and C. albicans Glx3p; member of the DJ-1/ThiJ/PfpI superfamily, which includes human DJ-1 involved in Parkinson's disease and cancer; exists as a dimer and contains a putative metal-binding site; protein abundance increases in response to DNA replication stress
-S000031524	CDS					YDR533C		4	1502160	1501447	C		2011-02-03	1996-07-31	
-S000002942	ORF	Verified	YDR534C	FIT1		chromosome 4		4	1504900	1503314	C		2011-02-03	1996-07-31	Mannoprotein that is incorporated into the cell wall; incorporated via a glycosylphosphatidylinositol (GPI) anchor; involved in the retention of siderophore-iron in the cell wall 
-S000031631	CDS					YDR534C		4	1504900	1503314	C		2011-02-03	1996-07-31	
-S000002943	ORF	Dubious	YDR535C			chromosome 4		4	1507362	1506606	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YDR535C is not an essential gene
-S000032613	CDS					YDR535C		4	1507058	1506606	C		2011-02-03	1996-07-31	
-S000032612	CDS					YDR535C		4	1507362	1507315	C		2011-02-03	1996-07-31	
-S000032614	intron					YDR535C		4	1507314	1507059	C		2011-02-03	1996-07-31	
-S000002944	ORF	Verified	YDR536W	STL1	glucose-inactivated glycerol proton symporter STL1	chromosome 4	L000002130	4	1508005	1509714	W		2011-02-03	1996-07-31	Glycerol proton symporter of the plasma membrane; subject to glucose-induced inactivation, strongly but transiently induced when cells are subjected to osmotic shock
-S000032772	CDS					YDR536W		4	1508005	1509714	W		2011-02-03	1996-07-31	
-S000002946	ORF	Verified	YDR538W	PAD1	phenylacrylic acid decarboxylase PAD1|POF1	chromosome 4	L000001331	4	1510902	1511630	W		2011-02-03	1996-07-31	Phenylacrylic acid decarboxylase; confers resistance to cinnamic acid, decarboxylates aromatic carboxylic acids to the corresponding vinyl derivatives; also has mRNA binding activity; homolog of E. coli UbiX; co-overproduction of Pad1p and Fdc1p greatly increases cinnamic acid decarboxylase activity
-S000033597	CDS					YDR538W		4	1510902	1511630	W		2011-02-03	1996-07-31	
-S000002945	ORF	Dubious	YDR537C			chromosome 4		4	1511461	1510856	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps verified ORF PAD1/YDR538W
-S000032834	CDS					YDR537C		4	1511461	1510856	C		2011-02-03	1996-07-31	
-S000002947	ORF	Verified	YDR539W	FDC1	putative phenylacrylic acid decarboxylase FDC1	chromosome 4		4	1512094	1513605	W		2011-02-03	1996-07-31	Ferulic acid decarboxylase, also active on p-coumaric acid; essential for decarboxylation of aromatic carboxylic acids to corresponding vinyl derivatives; co-overproduction of Pad1p and Fdc1p greatly increases cinnamic acid decarboxylase activity; structure implicates Glu285 as the general base in the nonoxidative decarboxylation reaction catalyzed by Fdc1p; homolog of E. coli UbiD; GFP-fusion protein localizes to cytoplasm
-S000033698	CDS					YDR539W		4	1512094	1513605	W		2011-02-03	1996-07-31	
-S000002948	ORF	Verified	YDR540C	IRC4		chromosome 4		4	1517675	1517136	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant displays increased levels of spontaneous Rad52p foci; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
-S000034746	CDS					YDR540C		4	1517675	1517136	C		2011-02-03	1996-07-31	
-S000006879	long_terminal_repeat		YDRWdelta31			chromosome 4		4	1518484	1518807	W		2011-02-03	2000-05-19	Ty1 LTR
-S000002949	ORF	Verified	YDR541C		carbonyl reductase (NADPH-dependent)	chromosome 4		4	1520698	1519664	C		2011-02-03	1996-07-31|2011-02-03	Aldehyde reductase; substrates include both aromatic and aliphatic aldehydes; uses NADPH as cofactor; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000035672	CDS					YDR541C		4	1520698	1519664	C		2011-02-03	1996-07-31|2011-02-03	
-S000002950	ORF	Verified	YDR542W	PAU10	seripauperin PAU10	chromosome 4		4	1523249	1523611	W		2011-02-03	1996-07-31	Protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to the vacuole; member of the seripauperin multigene family encoded mainly in subtelomeric regions
-S000035788	CDS					YDR542W		4	1523249	1523611	W		2011-02-03	1996-07-31	
-S000028948	telomere		TEL04R			chromosome 4		4	1524625	1531933	W	321	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome IV; composed of an X element core sequence, X element combinatorial repeats, a short stretch of telomeric repeats, and a long Y' element
-S000028949	telomeric_repeat					TEL04R		4	1525371	1525466	W		2011-02-03	2003-09-09	Internal telomeric repeats on the right arm of Chromosome IV
-S000028950	X_element					TEL04R		4	1524625	1525089	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome IV; spans 464 bp and contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YDR543C
-S000028951	X_element_combinatorial_repeat					TEL04R		4	1525090	1525370	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr IV; spans 280 bp and contains repeats of the D, C, B and A types, Tbf1p binding sites, and ORF YDR544C; formerly called SubTelomeric Repeats
-S000028952	Y_prime_element					TEL04R		4	1525467	1531933	W		2011-02-03	2003-09-09	Telomeric long Y' element on the right arm of Chromosome IV; contains an ARS consensus sequence, a region of 36-bp repeats, and ORFs YRF1-1/YDR545W and YDR545C-A
-S000002951	ORF	Dubious	YDR543C			chromosome 4		4	1524933	1524634	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035825	CDS					YDR543C		4	1524933	1524634	C		2011-02-03	1996-07-31	
-S000002952	ORF	Dubious	YDR544C			chromosome 4		4	1525523	1525095	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035945	CDS					YDR544C		4	1525523	1525095	C		2011-02-03	1996-07-31	
-S000002953	ORF	Verified	YDR545W	YRF1-1	Y' element ATP-dependent helicase protein 1 copy 1|YRF1	chromosome 4	L000004879	4	1526321	1531711	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
-S000036865	CDS					YDR545W		4	1526321	1531711	W		2011-02-03	1996-07-31	
-S000028617	ORF	Dubious	YDR545C-A			chromosome 4		4	1531342	1530863	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF YRF1-1/YDR545W
-S000031458	CDS					YDR545C-A		4	1531342	1530863	C		2011-02-03	2003-07-29	
-S000028621	ORF	Dubious	YEL077W-A			chromosome 5		5	630	1112	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031470	CDS					YEL077W-A		5	630	1112	W		2003-07-29	2003-07-29	
-S000006409	ORF	Uncharacterized	YEL077C		Y' element ATP-dependent helicase	chromosome 5		5	4097	264	C		1996-07-31	1996-07-31	Helicase-like protein encoded within the telomeric Y' element
-S000034008	CDS					YEL077C		5	4097	264	C		1996-07-31	1996-07-31	
-S000077377	ARS		ARS502			chromosome 5		5	4097	4185			2004-10-19	2004-10-19	Autonomously Replicating Sequence
-S000002956	ORF	Dubious	YEL075W-A		YEL076W-C	chromosome 5		5	4870	5481	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031130	CDS					YEL075W-A		5	4870	5481	W		1996-07-31	1996-07-31	
-S000002955	ORF	Uncharacterized	YEL076C-A			chromosome 5		5	5114	4185	C		1996-07-31	1996-07-31	Putative protein of unknown function
-S000036122	CDS					YEL076C-A		5	4322	4185	C		1996-07-31	1996-07-31	
-S000036121	CDS					YEL076C-A		5	5114	4602	C		1996-07-31	1996-07-31	
-S000036123	intron					YEL076C-A		5	4601	4323	C		1996-07-31	1996-07-31	
-S000000802	ORF	Uncharacterized	YEL076C			chromosome 5		5	5114	4464	C		1996-07-31	1996-07-31	Putative protein of unknown function
-S000033207	CDS					YEL076C		5	5114	4464	C		1996-07-31	1996-07-31	
-S000000801	ORF	Uncharacterized	YEL075C			chromosome 5		5	5713	5345	C		1996-07-31	1996-07-31	Putative protein of unknown function
-S000033136	CDS					YEL075C		5	5713	5345	C		1996-07-31	1996-07-31	
-S000000800	ORF	Dubious	YEL074W			chromosome 5		5	6126	6464	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; large scale expression analysis showed an increase in mRNA accumulation in strains mutant for exosome components
-S000033091	CDS					YEL074W		5	6126	6464	W		1996-07-31	1996-07-31	
-S000077378	ARS		ARS503			chromosome 5		5	6378	6453			2014-11-18	2004-10-19|2014-11-18	Autonomously Replicating Sequence
-S000028879	telomere		TEL05L			chromosome 5		5	6473	1	C	-52	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome V; annotated components include an X element core sequence and a long Y' element; TEL05L does have telomeric repeats (TEL05L-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
-S000028880	X_element					TEL05L		5	6473	6279	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome V; contains an ARS consensus sequence and spans ORF YEL074W
-S000028881	Y_prime_element					TEL05L		5	6278	1	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome V; contains an ARS consensus sequence, a region of 36-bp repeats, and six ORFs (YEL075C, YEL076C, YEL076C-A, YEL077C, YEL075W-A, YEL077W-A)
-S000000799	ORF	Uncharacterized	YEL073C			chromosome 5		5	7553	7230	C		1996-07-31	1996-07-31	Putative protein of unknown function; located adjacent to ARS503 and the telomere on the left arm of chromosome V; regulated by inositol/choline
-S000032128	CDS					YEL073C		5	7553	7230	C		1996-07-31	1996-07-31	
-S000077379	ARS		ARS504			chromosome 5		5	8786	10019			2004-10-19	2004-10-19|2011-02-03	Autonomously Replicating Sequence
-S000000798	ORF	Verified	YEL072W	RMD6		chromosome 5		5	13720	14415	W		1996-07-31	1996-07-31	Protein required for sporulation
-S000032092	CDS					YEL072W		5	13720	14415	W		1996-07-31	1996-07-31	
-S000000797	ORF	Verified	YEL071W	DLD3	D-lactate dehydrogenase	chromosome 5		5	16355	17845	W		1996-07-31	1996-07-31	2-hydroxyglutarate transhydrogenase, and minor D-lactate dehydrogenase; converts D-2-hydroxyglutarate (D-2HG), an oncometabolite, to alpha-ketoglutarate in the presence of FAD, with concomitant reduction of pyruvate to D-lactate; minor lactate dehydrogenase activity; component of the retrograde regulon that consists of genes whose expression are stimulated by damage to mitochondria and reduced in cells grown with glutamate as the sole nitrogen source; located in the cytoplasm
-S000031974	CDS					YEL071W		5	16355	17845	W		1996-07-31	1996-07-31	
-S000000796	ORF	Verified	YEL070W	DSF1	MAN1|mannitol dehydrogenase DSF1	chromosome 5		5	19589	21097	W		1996-07-31	1996-07-31	Mannitol dehydrogenase; deletion suppresses mutation of mpt5; DSF1 has a paralog, MAN2, that arose from a segmental duplication
-S000031743	CDS					YEL070W		5	19589	21097	W		1996-07-31	1996-07-31	
-S000000795	ORF	Verified	YEL069C	HXT13	HLT1|hexose transporter HXT13	chromosome 5	L000002640	5	23231	21537	C		1996-07-31	1996-07-31	Putative transmembrane polyol transporter; supports growth on and uptake of mannitol and sorbitol with moderate affinity when overexpressed in a strain deleted for hexose family members; minor hexose transport activity when overexpressed in a similar strain; induced by non-fermentable carbon sources; induced in low glucose, repressed in high glucose; HXT13 has a paralog, HXT17, that arose from a segmental duplication
-S000030787	CDS					YEL069C		5	23231	21537	C		1996-07-31	1996-07-31	
-S000000794	ORF	Uncharacterized	YEL068C			chromosome 5		5	25978	25646	C		1996-07-31	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; SWAT-GFP and seamless-GFP fusion proteins localize to the endoplasmic reticulum and mCherry fusion protein localizes to the vacuole
-S000037857	CDS					YEL068C		5	25978	25646	C		1996-07-31	1996-07-31	
-S000000792	ORF	Verified	YEL066W	HPA3	D-amino-acid N-acetyltransferase	chromosome 5	L000004380	5	26667	27206	W		1996-07-31	1996-07-31	D-Amino acid N-acetyltransferase that detoxifies D-amino acids; catalyzes N-acetylation of D-amino acids through ordered bi-bi mechanism in which acetyl-CoA is first substrate bound and CoA is last product liberated; acetylates histones and polyamines, also autoacetylates
-S000037723	CDS					YEL066W		5	26667	27206	W		1996-07-31	1996-07-31	
-S000000793	ORF	Uncharacterized	YEL067C			chromosome 5		5	26776	26189	C		1996-07-31	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000037750	CDS					YEL067C		5	26776	26189	C		1996-07-31	1996-07-31	
-S000000791	ORF	Verified	YEL065W	SIT1	siderophore transporter|ARN3	chromosome 5		5	27657	29543	W		1996-07-31	1996-07-31	Ferrioxamine B transporter; member of the ARN family of transporters that specifically recognize siderophore-iron chelates; transcription is induced during iron deprivation and diauxic shift; potentially phosphorylated by Cdc28p
-S000036964	CDS					YEL065W		5	27657	29543	W		1996-07-31	1996-07-31	
-S000000790	ORF	Verified	YEL064C	AVT2		chromosome 5		5	31239	29797	C		1996-07-31	1996-07-31	Putative transporter; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
-S000036881	CDS					YEL064C		5	31239	29797	C		1996-07-31	1996-07-31	
-S000000789	ORF	Verified	YEL063C	CAN1	arginine permease CAN1	chromosome 5	L000000213	5	33466	31694	C	-50	1996-07-31	1996-07-31	Plasma membrane arginine permease; requires phosphatidyl ethanolamine (PE) for localization, exclusively associated with lipid rafts; mutation confers canavanine resistance; CAN1 has a paralog, ALP1, that arose from the whole genome duplication
-S000036793	CDS					YEL063C		5	33466	31694	C		1996-07-31	1996-07-31	
-S000000788	ORF	Verified	YEL062W	NPR2	nitrogen permease regulating protein NPR2	chromosome 5	L000001274	5	34407	36254	W		2003-09-22	2003-09-22|1996-07-31	Subunit of the Iml1p/SEACIT complex; SEACIT (Iml1p-Npr2p-Npr3p) is a subcomplex of the SEA complex, a coatomer-related complex that associates dynamically with the vacuole; Npr2p may have a structural or regulatory role, supporting Iml1p function as a GAP for the Rag family GTPase Gtr1p, and resulting in inhibition of TORC1 signaling in response to amino acid deprivation; SEACIT is required for non-nitrogen-starvation-induced autophagy; homolog of human tumor suppressor NPRL2
-S000035991	CDS					YEL062W		5	34407	36254	W		2003-09-22	2003-09-22|1996-07-31	
-S000000787	ORF	Verified	YEL061C	CIN8	kinesin motor protein CIN8|SDS15|KSL2	chromosome 5	L000000340	5	39537	36535	C		2003-09-22	2003-09-22|1996-07-31	Kinesin motor protein; involved in mitotic spindle assembly and chromosome segregation
-S000035795	CDS					YEL061C		5	39537	36535	C		2003-09-22	2003-09-22|1996-07-31	
-S000000786	ORF	Verified	YEL060C	PRB1	proteinase B|CVT1	chromosome 5	L000001480	5	41953	40046	C	-48	1996-07-31	1996-07-31	Vacuolar proteinase B (yscB) with H3 N-terminal endopeptidase activity; serine protease of the subtilisin family; involved in protein degradation in the vacuole and required for full protein degradation during sporulation; activity inhibited by Pbi2p; protein abundance increases in response to DNA replication stress; PRB1 has a paralog, YSP3, that arose from the whole genome duplication
-S000035710	CDS					YEL060C		5	41953	40046	C		1996-07-31	1996-07-31	
-S000002954	ORF	Verified	YEL059C-A	SOM1		chromosome 5	L000003993	5	42624	42400	C		1996-07-31	1996-07-31	Subunit of the mitochondrial inner membrane peptidase (IMP); IMP is required for maturation of mitochondrial proteins of the intermembrane space; Som1p facilitates cleavage of a subset of substrates; contains twin cysteine-x9-cysteine motifs
-S000035802	CDS					YEL059C-A		5	42624	42400	C		1996-07-31	1996-07-31	
-S000000785	ORF	Dubious	YEL059W	HHY1	ENV6	chromosome 5		5	42652	42960	W		1996-07-31	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; mutant is hypersensitive to hygromycin B indicative of defects in vacuolar trafficking
-S000034663	CDS					YEL059W		5	42652	42960	W		1996-07-31	1996-07-31	
-S000000784	ORF	Verified	YEL058W	PCM1	phosphoacetylglucosamine mutase PCM1|AGM1	chromosome 5	L000001351	5	43252	44925	W		1996-07-31	1996-07-31	Essential N-acetylglucosamine-phosphate mutase; converts GlcNAc-6-P to GlcNAc-1-P, which is a precursor for the biosynthesis of chitin and for the formation of N-glycosylated mannoproteins and glycosylphosphatidylinositol anchors
-S000033785	CDS					YEL058W		5	43252	44925	W		1996-07-31	1996-07-31	
-S000000783	ORF	Verified	YEL057C	SDD1		chromosome 5		5	45721	45020	C		1996-07-31	1996-07-31	Protein of unknown function; overproduction suppresses lethality due to expression of the dominant PET9 allele AAC2-A128P; may have a role in telomere maintenance; target of UME6 regulation
-S000033614	CDS					YEL057C		5	45721	45020	C		1996-07-31	1996-07-31	
-S000000782	ORF	Verified	YEL056W	HAT2		chromosome 5	L000003400	5	47168	48373	W		1996-07-31	1996-07-31	Subunit of the Hat1p-Hat2p histone acetyltransferase complex; required for high affinity binding of the complex to free histone H4, thereby enhancing Hat1p activity; similar to human RbAp46 and 48; has a role in telomeric silencing
-S000033568	CDS					YEL056W		5	47168	48373	W		1996-07-31	1996-07-31	
-S000000781	ORF	Verified	YEL055C	POL5	DNA-directed DNA polymerase	chromosome 5	L000004119	5	51539	48471	C		1996-07-31	1996-07-31	DNA Polymerase phi; has sequence similarity to the human MybBP1A and weak sequence similarity to B-type DNA polymerases, not required for chromosomal DNA replication; required for the synthesis of rRNA
-S000032784	CDS					YEL055C		5	51539	48471	C		1996-07-31	1996-07-31	
-S000081374	snoRNA_gene		snR80	SNR80		chromosome 5		5	52320	52150	C		2005-11-29	2005-11-29	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U776 and small subunit (SSU) rRNA at position U759
-S000113618	noncoding_exon					snR80		5	52320	52150	C		2005-11-29	2005-11-29	
-S000028744	ORF	Dubious	YEL053W-A			chromosome 5		5	52908	53255	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene RPL12A/YEL054C
-S000033414	CDS					YEL053W-A		5	52908	53255	W		2003-07-29	2003-07-29	
-S000000780	ORF	Verified	YEL054C	RPL12A	uL11|ribosomal 60S subunit protein L12A|L11|YL23|L15A|L12A	chromosome 5	L000001712	5	53218	52721	C		1996-07-31	1996-07-31	Ribosomal 60S subunit protein L12A; rpl12a rpl12b double mutant exhibits slow growth and slow translation; homologous to mammalian ribosomal protein L12 and bacterial L11; RPL12A has a paralog, RPL12B, that arose from the whole genome duplication
-S000032694	CDS					YEL054C		5	53218	52721	C		1996-07-31	1996-07-31	
-S000000779	ORF	Verified	YEL053C	MAK10	NAA35	chromosome 5	L000000983	5	56102	53901	C	-43	1996-07-31	1996-07-31	Non-catalytic subunit of the NatC N-terminal acetyltransferase; required for replication of dsRNA virus; expression is glucose-repressible; human NatC ortholog, Naa35, requires co-expression of the human catalytic subunit, Naa30, to functionally complement the null allele
-S000032563	CDS					YEL053C		5	56102	53901	C		1996-07-31	1996-07-31	
-S000000778	ORF	Verified	YEL052W	AFG1		chromosome 5	L000000055	5	56571	58100	W		1996-07-31	1996-07-31	Protein that may act as a chaperone for cytochrome c oxidase subunits; conserved protein; may act as a chaperone in the degradation of misfolded or unassembled cytochrome c oxidase subunits; localized to matrix face of the mitochondrial inner membrane; member of the AAA family but lacks a protease domain
-S000031642	CDS					YEL052W		5	56571	58100	W		1996-07-31	1996-07-31	
-S000000777	ORF	Verified	YEL051W	VMA8	H(+)-transporting V1 sector ATPase subunit D	chromosome 5	L000002463	5	58378	59148	W		1996-07-31	1996-07-31	Subunit D of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; plays a role in the coupling of proton transport and ATP hydrolysis; the V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase) has eight subunits
-S000031545	CDS					YEL051W		5	58378	59148	W		1996-07-31	1996-07-31	
-S000077380	ARS		ARS507		ARSV-59	chromosome 5		5	59338	59477			2014-11-18	2014-11-18|2004-10-19|2006-09-07	Autonomously Replicating Sequence
-S000178082	ARS_consensus_sequence					ARS507		5	59470	59454	C		2014-11-18	2014-11-18	
-S000028545	ORF	Dubious	YEL050W-A			chromosome 5		5	59549	59740	W		2003-07-29	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by fungal homology and RT-PCR
-S000031195	CDS					YEL050W-A		5	59549	59740	W		2003-07-29	2003-07-29	
-S000000776	ORF	Verified	YEL050C	RML2	mitochondrial 54S ribosomal protein RML2	chromosome 5	L000004131	5	60851	59670	C		1996-07-31	1996-07-31	Mitochondrial ribosomal protein of the large subunit (L2); has similarity to E. coli L2 ribosomal protein; mutant allele (fat21) causes inability to utilize oleate, and induce oleic acid oxidation; may interfere with activity of the Adr1p transcription factor
-S000031449	CDS					YEL050C		5	60851	59670	C		1996-07-31	1996-07-31	
-S000006458	snoRNA_gene		snR67	SNR67		chromosome 5	L000004536	5	61352	61433	W		2000-05-19	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at positions G2619 and U2724
-S000030853	noncoding_exon					snR67		5	61352	61433	W		2000-05-19	2000-05-19	
-S000006444	snoRNA_gene		snR53	SNR53		chromosome 5	L000004522	5	61699	61789	W		2000-05-19	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position A796
-S000030737	noncoding_exon					snR53		5	61699	61789	W		2000-05-19	2000-05-19	
-S000006578	tRNA_gene		tG(GCC)E			chromosome 5	L000003808	5	61960	61890	C		2000-05-19	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000037897	noncoding_exon					tG(GCC)E		5	61960	61890	C		2000-05-19	2000-05-19	
-S000006889	long_terminal_repeat		YELWdelta1			chromosome 5		5	62081	62756	W		2000-05-19	2000-05-19	Ty1 LTR
-S000006890	long_terminal_repeat		YELWdelta2			chromosome 5		5	62142	62474	W		2000-05-19	2000-05-19	Ty1 LTR
-S000000775	ORF	Verified	YEL049W	PAU2	seripauperin PAU2	chromosome 5	L000002738	5	63728	64090	W		1996-07-31	1996-07-31	Member of the seripauperin multigene family; encoded mainly in subtelomeric region; active during alcoholic fermentation; regulated by anaerobiosis; negatively regulated by oxygen; repressed by heme 
-S000030708	CDS					YEL049W		5	63728	64090	W		1996-07-31	1996-07-31	
-S000000774	ORF	Verified	YEL048C	TCA17		chromosome 5		5	65167	64709	C		1996-07-31	1996-07-31	Component of transport protein particle (TRAPP) complex II; TRAPPII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating intra-Golgi and endosome-Golgi traffic; promotes association of TRAPPII-specific subunits with the TRAPP core complex; sedlin related; human Sedlin mutations cause SEDT, a skeletal disorder
-S000030547	CDS					YEL048C		5	65167	64709	C		1996-07-31	1996-07-31	
-S000000773	ORF	Verified	YEL047C	FRD1	fumarate reductase|FRDS1	chromosome 5		5	66797	65385	C		1996-07-31	1996-07-31	Soluble fumarate reductase; required with isoenzyme Osm1p for anaerobic growth; may interact with ribosomes, based on co-purification experiments; authentic, non-tagged protein is detected in purified mitochondria in high-throughput studies; similar to Arxula adeninovorans fumarate reductase; protein abundance increases in response to DNA replication stress; FRD1 has a paralog, OSM1, that arose from the whole genome duplication
-S000030396	CDS					YEL047C		5	66797	65385	C		1996-07-31	1996-07-31	
-S000000772	ORF	Verified	YEL046C	GLY1	threonine aldolase GLY1	chromosome 5	L000000718	5	68792	67629	C		1996-07-31	1996-07-31	Threonine aldolase; catalyzes the cleavage of L-allo-threonine and L-threonine to glycine; involved in glycine biosynthesis
-S000037630	CDS					YEL046C		5	68792	67629	C		1996-07-31	1996-07-31	
-S000000771	ORF	Dubious	YEL045C			chromosome 5		5	69265	68840	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion gives MMS sensitivity, growth defect under alkaline conditions, less than optimal growth upon citric acid stress
-S000037503	CDS					YEL045C		5	69265	68840	C		1996-07-31	1996-07-31	
-S000000770	ORF	Verified	YEL044W	IES6		chromosome 5		5	69757	70257	W		1996-07-31	1996-07-31	Component of the INO80 chromatin remodeling complex; critical for INO80 function; involved in regulation of chromosome segregation and maintenance of normal centromeric chromatin structure; human ortholog INO80C is a member of the human INO80 complex; implicated in DNA repair based on genetic interactions with RAD52 epistasis genes
-S000037449	CDS					YEL044W		5	69757	70257	W		1996-07-31	1996-07-31	
-S000000769	ORF	Verified	YEL043W			chromosome 5		5	70478	73348	W		1996-07-31	1996-07-31	Predicted cytoskeleton protein involved in intracellular signaling; based on quantitative analysis of protein-protein interaction maps; may interact with ribosomes, based on co-purification studies; contains fibronectin type III domain fold
-S000036714	CDS					YEL043W		5	70478	73348	W		1996-07-31	1996-07-31	
-S000000768	ORF	Verified	YEL042W	GDA1	guanosine diphosphatase	chromosome 5	L000000695	5	73771	75327	W		1996-07-31	1996-07-31	Guanosine diphosphatase located in the Golgi; involved in the transport of GDP-mannose into the Golgi lumen, converting GDP to GMP after mannose is transferred to substrates; null mutants are defective in sporulation and pre-meiotic S phase entry; orthologous to human ENTPD6, a meiosis-associated non-obstructive azoospermia (NOA) related gene identified in GWAS studies
-S000036632	CDS					YEL042W		5	73771	75327	W		1996-07-31	1996-07-31	
-S000000767	ORF	Verified	YEL041W	YEF1	NADH/NAD(+) kinase	chromosome 5		5	75944	77431	W		1996-07-31	1996-07-31	ATP-NADH kinase; phosphorylates both NAD and NADH; homooctameric structure consisting of 60-kDa subunits; similar to Pos5p; overexpression complements certain pos5 phenotypes; YEF1 has a paralog, UTR1, that arose from the whole genome duplication
-S000036511	CDS					YEL041W		5	75944	77431	W		1996-07-31	1996-07-31	
-S000000766	ORF	Verified	YEL040W	UTR2	CRH2	chromosome 5	L000002448	5	78053	79456	W		1996-07-31	1996-07-31	Chitin transglycosylase; functions in the transfer of chitin to beta(1-6) and beta(1-3) glucans in the cell wall; similar to and functionally redundant with Crh1; glycosylphosphatidylinositol (GPI)-anchored protein localized to bud neck
-S000036453	CDS					YEL040W		5	78053	79456	W		1996-07-31	1996-07-31	
-S000000765	ORF	Verified	YEL039C	CYC7	cytochrome c isoform 2	chromosome 5	L000000451	5	79977	79636	C	-27	1996-07-31	1996-07-31	Cytochrome c isoform 2, expressed under hypoxic conditions; also known as iso-2-cytochrome c; electron carrier of the mitochondrial intermembrane space that transfers electrons from ubiquinone-cytochrome c oxidoreductase to cytochrome c oxidase during cellular respiration; protein abundance increases in response to DNA replication stress; CYC7 has a paralog, CYC1, that arose from the whole genome duplication
-S000035665	CDS					YEL039C		5	79977	79636	C		1996-07-31	1996-07-31	
-S000000764	ORF	Verified	YEL038W	UTR4	putative acireductone synthase UTR4	chromosome 5	L000002449	5	80462	81145	W		2006-05-09	1996-07-31|2006-05-09	Protein with sequence similarity to acireductone synthases; involved in methionine salvage; found in both the cytoplasm and nucleus
-S000035624	CDS					YEL038W		5	80462	81145	W		2006-05-09	1996-07-31|2006-05-09	
-S000000763	ORF	Verified	YEL037C	RAD23		chromosome 5	L000001568	5	82603	81407	C	-26	1996-07-31	1996-07-31	Protein with ubiquitin-like N terminus; subunit of Nuclear Excision Repair Factor 2 (NEF2) with Rad4p that binds damaged DNA; enhances protein deglycosylation activity of Png1p; also involved, with Rad4p, in ubiquitylated protein turnover; Rad4p-Rad23p heterodimer binds to promoters of DNA damage response genes to repress their transcription in the absence of DNA damage
-S000035488	CDS					YEL037C		5	82603	81407	C		1996-07-31	1996-07-31	
-S000000762	ORF	Verified	YEL036C	ANP1	MNN8|GEM3	chromosome 5	L000000089	5	84552	83050	C	-26	1996-07-31	1996-07-31	Subunit of the alpha-1,6 mannosyltransferase complex; type II membrane protein; has a role in retention of glycosyltransferases in the Golgi; involved in osmotic sensitivity and resistance to aminonitrophenyl propanediol
-S000034468	CDS					YEL036C		5	84552	83050	C		1996-07-31	1996-07-31	
-S000000761	ORF	Uncharacterized	YEL035C	UTR5		chromosome 5	L000002450	5	85545	85045	C		1996-07-31	1996-07-31	Protein of unknown function; transcription may be regulated by Gcr1p; essential for growth under standard (aerobic) conditions but not under anaerobic conditions
-S000034388	CDS					YEL035C		5	85545	85045	C		1996-07-31	1996-07-31	
-S000000760	ORF	Verified	YEL034W	HYP2	translation elongation factor eIF-5A|eIF-5A|eIF5A|TIF51A	chromosome 5	L000000847|L000002307	5	85676	86149	W		1996-07-31	1996-07-31	Translation elongation factor eIF-5A; required for translation of proteins containing polyproline stretches, including Bni1p, and this leads to a requirement for mating projection formation; structural homolog of bacterial EF-P; undergoes an essential hypusination modification; HYP2 has a paralog, ANB1, that arose from the whole genome duplication; human EIF5A complements the inviability of the yeast hyp2 anb1 double null mutant
-S000034356	CDS					YEL034W		5	85676	86149	W		1996-07-31	1996-07-31	
-S000000759	ORF	Uncharacterized	YEL033W	MTC7		chromosome 5		5	86179	86598	W		1996-07-31	1996-07-31	Protein of unknown function; predicted metabolic role based on network analysis derived from ChIP experiments, a large-scale deletion study and localization of transcription factor binding sites; null mutant is sensitive to temperature oscillation in a cdc13-1 mutant
-S000033441	CDS					YEL033W		5	86179	86598	W		1996-07-31	1996-07-31	
-S000028743	ORF	Dubious	YEL034C-A			chromosome 5		5	86215	85613	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps HYP2/YEL034W, a verified gene that encodes eiF-5A
-S000033413	CDS					YEL034C-A		5	86215	85613	C		2003-07-29	2003-07-29	
-S000006724	tRNA_gene		tS(AGA)E			chromosome 5	L000003789	5	86604	86685	W		2000-05-19	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000032362	noncoding_exon					tS(AGA)E		5	86604	86685	W		2000-05-19	2000-05-19	
-S000000758	ORF	Verified	YEL032W	MCM3	MCM DNA helicase complex subunit MCM3	chromosome 5	L000001039	5	86937	89852	W	-24	1996-07-31	1996-07-31	Protein involved in DNA replication; component of the Mcm2-7 hexameric helicase complex that binds chromatin as a part of the pre-replicative complex
-S000033351	CDS					YEL032W		5	86937	89852	W		1996-07-31	1996-07-31	
-S000028620	ORF	Dubious	YEL032C-A			chromosome 5		5	87201	87040	C		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031469	CDS					YEL032C-A		5	87201	87040	C		2003-07-29	2003-07-29	
-S000000757	ORF	Verified	YEL031W	SPF1	ion-transporting P-type ATPase SPF1|PER9|PIO1|COD1	chromosome 5	L000003454	5	90258	93905	W		1996-07-31	1996-07-31	P-type ATPase, ion transporter of the ER membrane; required to maintain normal lipid composition of intracellular compartments and proper targeting of mitochondrial outer membrane tail-anchored proteins; involved in ER function and Ca2+ homeostasis; required for regulating Hmg2p degradation; confers sensitivity to a killer toxin (SMKT) produced by Pichia farinosa KK1
-S000033284	CDS					YEL031W		5	90258	93905	W		1996-07-31	1996-07-31	
-S000077381	ARS		ARS508		ARSV-94	chromosome 5		5	93978	94218			2006-09-07	2004-10-19|2006-09-07	Autonomously Replicating Sequence
-S000178083	ARS_consensus_sequence					ARS508		5	94055	94071	W		2014-11-18	2014-11-18	
-S000000756	ORF	Verified	YEL030W	ECM10	Hsp70 family ATPase ECM10|SSC3	chromosome 5	L000003885	5	94644	96578	W		1996-07-31	1996-07-31	Heat shock protein of the Hsp70 family; localized in mitochondrial nucleoids, plays a role in protein translocation, interacts with Mge1p in an ATP-dependent manner; overexpression induces extensive mitochondrial DNA aggregations; ECM10 has a paralog, SSC1, that arose from the whole genome duplication
-S000033225	CDS					YEL030W		5	94644	96578	W		1996-07-31	1996-07-31	
-S000028619	ORF	Dubious	YEL030C-A			chromosome 5		5	94897	94583	C		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031462	CDS					YEL030C-A		5	94897	94583	C		2003-07-29	2003-07-29	
-S000000755	ORF	Verified	YEL029C	BUD16	putative pyridoxal kinase BUD16	chromosome 5		5	97796	96858	C		1996-07-31	1996-07-31	Putative pyridoxal kinase; a key enzyme involved in pyridoxal 5'-phosphate synthesis, the active form of vitamin B6; required for genome integrity; involved in bud-site selection; similarity to yeast BUD17 and human pyridoxal kinase (PDXK)
-S000032366	CDS					YEL029C		5	97796	96858	C		1996-07-31	1996-07-31	
-S000000754	ORF	Uncharacterized	YEL028W			chromosome 5		5	98668	99129	W		1996-07-31	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YEL028C is not an essential gene
-S000031432	CDS					YEL028W		5	98668	99129	W		1996-07-31	1996-07-31	
-S000006886	long_terminal_repeat		YELCdelta3			chromosome 5		5	99664	99490	C		2000-05-19	2000-05-19	Ty1 LTR
-S000006660	tRNA_gene		tM(CAU)E	IMT4		chromosome 5	L000003790	5	100133	100204	W		2000-05-19	2000-05-19	Methionine initiator tRNA (tRNA-Met); predicted by tRNAscan-SE analysis; one of four initiator methionine tRNAs in yeast that are functional for translation
-S000034533	noncoding_exon					tM(CAU)E		5	100133	100204	W		2000-05-19	2000-05-19	
-S000000753	ORF	Verified	YEL027W	VMA3	H(+)-transporting V0 sector ATPase subunit c|CUP5|GEF2|CLS7	chromosome 5	L000000441	5	100769	101251	W	-18	1996-07-31	1996-07-31	Proteolipid subunit c of the V0 domain of vacuolar H(+)-ATPase; dicyclohexylcarbodiimide binding subunit; required for vacuolar acidification and important for copper and iron metal ion homeostasis
-S000031319	CDS					YEL027W		5	100769	101251	W		1996-07-31	1996-07-31	
-S000000752	ORF	Verified	YEL026W	SNU13	RNA binding protein SNU13	chromosome 5		5	101943	102323	W		1996-07-31	1996-07-31	RNA binding protein; part of U3 snoRNP involved in rRNA processing, part of U4/U6-U5 tri-snRNP involved in mRNA splicing, similar to human 15.5K protein
-S000031209	CDS					YEL026W		5	101943	102323	W		1996-07-31	1996-07-31	
-S000000751	ORF	Uncharacterized	YEL025C		SRI1	chromosome 5		5	106147	102581	C		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
-S000030133	CDS					YEL025C		5	106147	102581	C		1996-07-31	1996-07-31	
-S000000750	ORF	Verified	YEL024W	RIP1	ubiquinol--cytochrome-c reductase catalytic subunit RIP1	chromosome 5	L000001643	5	107260	107907	W		1996-07-31	1996-07-31	Ubiquinol-cytochrome-c reductase; a Rieske iron-sulfur protein of the mitochondrial cytochrome bc1 complex; transfers electrons from ubiquinol to cytochrome c1 during respiration; during import, Rip1p is first imported into the mitochondrial matrix where it is processed, acquires its Fe-S cluster, and is folded, then is translocated into the inner membrane by the action of a homo-oligomer of Bcs1p, and finally is delivered by Bcs1p to Complex III for assembly
-S000030065	CDS					YEL024W		5	107260	107907	W		1996-07-31	1996-07-31	
-S000000749	ORF	Uncharacterized	YEL023C			chromosome 5		5	110552	108504	C		1996-07-31	1996-07-31	Putative protein of unknown function; expression is increased greatly during sporulation; YEL023C is not an essential gene
-S000029902	CDS					YEL023C		5	110552	108504	C		1996-07-31	1996-07-31	
-S000000748	ORF	Verified	YEL022W	GEA2	Arf family guanine nucleotide exchange factor GEA2	chromosome 5	L000004717	5	111421	115800	W		1996-07-31	1996-07-31	Guanine nucleotide exchange factor for ADP ribosylation factors (ARFs); involved in vesicular transport between the Golgi and ER, Golgi organization, and actin cytoskeleton organization; GEA2 has a paralog, GEA1, that arose from the whole genome duplication
-S000037316	CDS					YEL022W		5	111421	115800	W		1996-07-31	1996-07-31	
-S000000747	ORF	Verified	YEL021W	URA3	orotidine-5'-phosphate decarboxylase	chromosome 5	L000002432	5	116167	116970	W	-7	1996-07-31	1996-07-31	Orotidine-5'-phosphate (OMP) decarboxylase; catalyzes the sixth enzymatic step in the de novo biosynthesis of pyrimidines, converting OMP into uridine monophosphate (UMP); converts 5-FOA into 5-fluorouracil, a toxic compound
-S000037201	CDS					YEL021W		5	116167	116970	W		1996-07-31	1996-07-31	
-S000007256	ORF	Verified	YEL020W-A	TIM9	protein transporter TIM9	chromosome 5	L000004718	5	117211	117474	W		1999-07-17	1999-07-17	Essential protein of the mitochondrial intermembrane space; forms a complex with Tim10p (TIM10 complex) that delivers hydrophobic proteins to the TIM22 complex for insertion into the inner membrane
-S000034788	CDS					YEL020W-A		5	117211	117474	W		1999-07-17	1999-07-17	
-S000028544	ORF	Dubious	YEL020C-B			chromosome 5		5	117380	117183	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene YEL020W-A; identified by fungal homology and RT-PCR
-S000031194	CDS					YEL020C-B		5	117380	117183	C		2003-07-29	2003-07-29	
-S000006490	ncRNA_gene		RPR1	RPR1		chromosome 5	L000001748	5	118035	117667	C	-6	2000-05-19	2000-05-19	RNA component of nuclear RNase P; nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; may be responsible for recognition of substrate tRNAs
-S000032263	noncoding_exon					RPR1		5	118035	117667	C		2000-05-19	2000-05-19	
-S000006888	long_terminal_repeat		YELCtau1			chromosome 5		5	118551	118230	C		2000-05-19	2000-05-19	Ty4 LTR
-S000000746	ORF	Verified	YEL020C	PXP1	putative indolepyruvate decarboxylase family protein	chromosome 5		5	120299	118617	C		1996-07-31	1996-07-31	Peroxisomal matrix protein; well-conserved in fungi; contains tripartite homology domain of thiamine pyrophosphate (TPP) enzymes; targeted to peroxisomes by Pex5p; contains low sequence identity with Pdc1p; mRNA identified as translated by ribosome profiling data
-S000037043	CDS					YEL020C		5	120299	118617	C		1996-07-31	1996-07-31	
-S000000745	ORF	Verified	YEL019C	MMS21	SUMO ligase MMS21|PSO10|NSE2	chromosome 5	L000001125	5	121301	120498	C		1996-07-31	1996-07-31	Highly conserved SUMO E3 ligase subunit of SMC5-SMC6 complex; required for anchoring dsDNA breaks to the nuclear periphery; SMC5-SMC6 plays a key role in removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; required for efficient sister chromatid cohesion; mutants are sensitive to MMS, show increased spontaneous mutation and mitotic recombination; SUMOylates and inhibits Snf1p function; supports nucleolar function
-S000035285	CDS					YEL019C		5	121301	120498	C		1996-07-31	1996-07-31	
-S000000744	ORF	Verified	YEL018W	EAF5		chromosome 5		5	121471	122310	W		1996-07-31	1996-07-31	Non-essential subunit of the NuA4 acetyltransferase complex; Esa1p-associated factor; relocalizes to the cytosol in response to hypoxia
-S000035234	CDS					YEL018W		5	121471	122310	W		1996-07-31	1996-07-31	
-S000028742	ORF	Dubious	YEL018C-A			chromosome 5		5	121988	121455	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF EAF5/YEL018W
-S000033412	CDS					YEL018C-A		5	121988	121455	C		2003-07-29	2003-07-29	
-S000002103	ORF	Verified	YEL017C-A	PMP2	proteolipid ATPase	chromosome 5	L000001454	5	122929	122798	C		1996-07-31	1996-07-31	Proteolipid associated with plasma membrane H(+)-ATPase (Pma1p); regulates plasma membrane H(+)-ATPase activity; protein abundance increases in response to DNA replication stress; PMP2 has a paralog, PMP1, that arose from the whole genome duplication
-S000035297	CDS					YEL017C-A		5	122929	122798	C		1996-07-31	1996-07-31	
-S000000743	ORF	Verified	YEL017W	GTT3		chromosome 5		5	123657	124670	W		1996-07-31	1996-07-31	Protein of unknown function may be involved in glutathione metabolism; function suggested by computational analysis of large-scale protein-protein interaction data; N- and C-terminal fusion proteins localize to the cell periphery
-S000035057	CDS					YEL017W		5	123657	124670	W		1996-07-31	1996-07-31	
-S000000742	ORF	Verified	YEL016C	NPP2	nucleotide diphosphatase/phosphodiesterase NPP2	chromosome 5		5	126218	124737	C		1996-07-31	1996-07-31	Nucleotide pyrophosphatase/phosphodiesterase; mediates extracellular nucleotide phosphate hydrolysis along with Npp1p and Pho5p; activity and expression enhanced during conditions of phosphate starvation; involved in spore wall assembly; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; NPP2 has a paralog, NPP1, that arose from the whole genome duplication; npp1 npp2 double mutant exhibits reduced dityrosine fluorescence relative to single mutants
-S000034054	CDS					YEL016C		5	126218	124737	C		1996-07-31	1996-07-31	
-S000000741	ORF	Verified	YEL015W	EDC3	LSM16|DCP3	chromosome 5		5	126629	128284	W		1996-07-31	1996-07-31	Non-essential conserved protein with a role in mRNA decapping; specifically affects the function of the decapping enzyme Dcp1p; mediates decay of the RPS28B mRNA via binding to both Rps28Bp (or Rps28Ap) and the RPS28B mRNA; mediates decay of the YRA1 mRNA by a different, translation-independent mechanism; localizes to cytoplasmic mRNA processing bodies; forms cytoplasmic foci upon DNA replication stress
-S000034021	CDS					YEL015W		5	126629	128284	W		1996-07-31	1996-07-31	
-S000000740	ORF	Dubious	YEL014C			chromosome 5		5	128608	128303	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033749	CDS					YEL014C		5	128608	128303	C		1996-07-31	1996-07-31	
-S000000739	ORF	Verified	YEL013W	VAC8	protein anchor VAC8|YEB3	chromosome 5	L000004028	5	128825	130561	W		1996-07-31	1996-07-31	Phosphorylated and palmitoylated vacuolar membrane protein; interacts with Atg13p, required for the cytoplasm-to-vacuole targeting (Cvt) pathway; interacts with Nvj1p to form nucleus-vacuole junctions
-S000033107	CDS					YEL013W		5	128825	130561	W		1996-07-31	1996-07-31	
-S000006697	tRNA_gene		tQ(UUG)E2			chromosome 5	L000003807	5	131153	131082	C		2000-05-19	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034949	noncoding_exon					tQ(UUG)E2		5	131153	131082	C		2000-05-19	2000-05-19	
-S000000738	ORF	Verified	YEL012W	UBC8	E2 ubiquitin-conjugating protein UBC8|GID3	chromosome 5	L000002410	5	131772	132551	W		2000-12-01	2000-12-01|1996-07-31	Ubiquitin-conjugating enzyme that regulates gluconeogenesis; negatively regulates gluconeogenesis by mediating the glucose-induced ubiquitination of fructose-1,6-bisphosphatase (FBPase); cytoplasmic enzyme that catalyzes the ubiquitination of histones in vitro
-S000033012	CDS					YEL012W		5	131772	131776	W		2000-12-01	2000-12-01	
-S000033013	CDS					YEL012W		5	131900	132551	W		2000-12-01	2000-12-01|1996-07-31	
-S000033014	intron					YEL012W		5	131777	131899	W		2000-12-01	2000-12-01	
-S000000737	ORF	Verified	YEL011W	GLC3	1,4-alpha-glucan branching enzyme|GHA1	chromosome 5	L000000705	5	133120	135234	W	-2	1996-07-31	1996-07-31	Glycogen branching enzyme, involved in glycogen accumulation; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress; glycogen accumulation defect of the null mutant is functionally complemented by human GBE1, which is associated with glycogen storage disease
-S000032907	CDS					YEL011W		5	133120	135234	W		1996-07-31	1996-07-31	
-S000006618	tRNA_gene		tK(CUU)E1			chromosome 5	L000003806	5	135497	135425	C		2000-05-19	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000037790	noncoding_exon					tK(CUU)E1		5	135497	135425	C		2000-05-19	2000-05-19	
-S000006887	long_terminal_repeat		YELCdelta4			chromosome 5		5	135939	135612	C		2000-05-19	2000-05-19	Ty1 LTR
-S000000736	ORF	Dubious	YEL010W			chromosome 5		5	136279	136629	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032835	CDS					YEL010W		5	136279	136629	W		1996-07-31	1996-07-31	
-S000028741	ORF	Dubious	YEL009C-A			chromosome 5		5	136778	136371	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YEL010W
-S000033411	CDS					YEL009C-A		5	136778	136371	C		2003-07-29	2003-07-29	
-S000006891	long_terminal_repeat		YELWdelta5			chromosome 5		5	137324	137639	W		2000-05-19	2000-05-19	Ty1 LTR
-S000006892	long_terminal_repeat		YELWdelta6			chromosome 5		5	138221	138553	W		2000-05-19	2000-05-19	Ty1 LTR
-S000006710	tRNA_gene		tR(UCU)E			chromosome 5	L000003791	5	138666	138737	W		2000-05-19	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000037841	noncoding_exon					tR(UCU)E		5	138666	138737	W		2000-05-19	2000-05-19	
-S000000735	ORF	Verified	YEL009C	GCN4	amino acid starvation-responsive transcription factor GCN4|AAS101|ARG9|AAS3	chromosome 5	L000000683	5	139763	138918	C	-3	1996-07-31	1996-07-31	bZIP transcriptional activator of amino acid biosynthetic genes;  activator responds to amino acid starvation; expression is tightly regulated at both the transcriptional and translational levels
-S000032641	CDS					YEL009C		5	139763	138918	C		1996-07-31	1996-07-31	
-S000000734	ORF	Uncharacterized	YEL008W			chromosome 5		5	140512	140892	W		1996-07-31	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YEL008W is not an essential gene; predicted to be involved in metabolism
-S000032595	CDS					YEL008W		5	140512	140892	W		1996-07-31	1996-07-31	
-S000028618	ORF	Dubious	YEL008C-A			chromosome 5		5	140818	140726	C		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031461	CDS					YEL008C-A		5	140818	140726	C		2003-07-29	2003-07-29	
-S000000733	ORF	Verified	YEL007W	MIT1	TOS9	chromosome 5		5	141892	143892	W		2011-02-03	1996-07-31	Transcriptional regulator of pseudohyphal growth; protein with sequence similarity to S. pombe gti1+ (gluconate transport inducer 1) and C. albicans Wor1
-S000031610	CDS					YEL007W		5	141892	143892	W		2011-02-03	1996-07-31	
-S000000732	ORF	Verified	YEL006W	YEA6	NAD+ transporter|NDT2	chromosome 5		5	144327	145334	W		2011-02-03	1996-07-31	Putative mitochondrial NAD+ transporter; member of the mitochondrial carrier subfamily (see also YIA6); has putative human ortholog; YEA6 has a paralog, YIA6, that arose from the whole genome duplication
-S000031480	CDS					YEL006W		5	144327	145334	W		2011-02-03	1996-07-31	
-S000077382	ARS		ARS510		ARSV-146	chromosome 5		5	145678	145840			2014-11-18	2014-11-18|2004-10-19|2006-09-07	Autonomously Replicating Sequence
-S000000731	ORF	Verified	YEL005C	VAB2	VAB31	chromosome 5		5	146755	145907	C		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; interacts with Vps21p-GFP; has potential role in vacuolar function, as suggested by its ability to bind Vac8p; likely member of; Vab2p-GFP-fusion localizes to cytoplasm in punctate pattern
-S000030477	CDS					YEL005C		5	146755	145907	C		2011-02-03	1996-07-31	
-S000000730	ORF	Verified	YEL004W	YEA4		chromosome 5	L000004419	5	146951	147979	W		2011-02-03	1996-07-31	Uridine diphosphate-N-acetylglucosamine (UDP-GlcNAc) transporter; required for cell wall chitin synthesis; localized to the ER
-S000030440	CDS					YEL004W		5	146951	147979	W		2011-02-03	1996-07-31	
-S000000729	ORF	Verified	YEL003W	GIM4	tubulin-binding prefolding complex subunit GIM4|PFD2	chromosome 5	L000004368	5	148176	148599	W		2011-02-03	1996-07-31|2007-07-09	Subunit of the heterohexameric cochaperone prefoldin complex; complex binds specifically to cytosolic chaperonin and transfers target proteins to it
-S000030310	CDS					YEL003W		5	148176	148194	W		2011-02-03	1996-07-31|2007-07-09	
-S000123269	CDS					YEL003W		5	148283	148599	W		2011-02-03	2007-07-09	
-S000123268	intron					YEL003W		5	148195	148282	W		2011-02-03	2007-07-09	
-S000000728	ORF	Verified	YEL002C	WBP1	dolichyl-diphosphooligosaccharide-protein glycotransferase	chromosome 5	L000002483	5	150014	148722	C		2011-02-03	1996-07-31	Beta subunit of the oligosaccharyl transferase glycoprotein complex; required for N-linked glycosylation of proteins in the endoplasmic reticulum; human homolog DDOST can complement yeast growth defect during down-regulation of yeast gene
-S000037446	CDS					YEL002C		5	150014	148722	C		2011-02-03	1996-07-31	
-S000000727	ORF	Verified	YEL001C	IRC22		chromosome 5		5	150978	150301	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion localizes to the ER; YEL001C is non-essential; null mutant displays increased levels of spontaneous Rad52p foci
-S000037333	CDS					YEL001C		5	150978	150301	C		2011-02-03	1996-07-31	
-S000006467	centromere		CEN5	CEN5		chromosome 5	L000000298	5	151987	152104	W	0	2011-02-03	2000-05-19|2006-05-08	Chromosome V centromere
-S000077269	centromere_DNA_Element_I					CEN5		5	151987	151996	W		2011-02-03	2004-10-04	
-S000077270	centromere_DNA_Element_II					CEN5		5	151997	152079	W		2011-02-03	2004-10-04	
-S000077271	centromere_DNA_Element_III					CEN5		5	152080	152104	W		2011-02-03	2004-10-04	
-S000000803	ORF	Verified	YER001W	MNN1	alpha-1,3-mannosyltransferase MNN1	chromosome 5	L000001126	5	153520	155808	W	0	2011-02-03	1996-07-31	Alpha-1,3-mannosyltransferase; integral membrane glycoprotein of the Golgi complex, required for addition of alpha1,3-mannose linkages to N-linked and O-linked oligosaccharides, one of five S. cerevisiae proteins of the MNN1 family
-S000033040	CDS					YER001W		5	153520	155808	W		2011-02-03	1996-07-31	
-S000000804	ORF	Verified	YER002W	NOP16		chromosome 5		5	156803	157498	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; involved in 60S ribosomal subunit biogenesis
-S000033709	CDS					YER002W		5	156803	157498	W		2011-02-03	1996-07-31	
-S000000805	ORF	Verified	YER003C	PMI40	mannose-6-phosphate isomerase PMI40|PMI	chromosome 5	L000001452	5	159118	157736	C		2011-02-03	1996-07-31	Mannose-6-phosphate isomerase; catalyzes the interconversion of fructose-6-P and mannose-6-P; required for early steps in protein mannosylation
-S000033753	CDS					YER003C		5	158994	157736	C		2011-02-03	1996-07-31	
-S000033752	CDS					YER003C		5	159118	159088	C		2011-02-03	1996-07-31	
-S000033754	intron					YER003C		5	159087	158995	C		2011-02-03	1996-07-31	
-S000000806	ORF	Verified	YER004W	FMP52		chromosome 5		5	159580	160275	W		2011-02-03	1996-07-31	Protein of unknown function; localized to the mitochondrial outer membrane; induced by treatment with 8-methoxypsoralen and UVA irradiation
-S000033918	CDS					YER004W		5	159580	160275	W		2011-02-03	1996-07-31	
-S000000807	ORF	Verified	YER005W	YND1	apyrase|YEJ5|APY1	chromosome 5	S000007428	5	160550	162442	W		2011-02-03	1996-07-31	Apyrase with wide substrate specificity; helps prevent inhibition of glycosylation by hydrolyzing nucleoside tri- and diphosphates that inhibit glycotransferases; partially redundant with Gda1p; mediates adenovirus E4orf4-induced toxicity
-S000034049	CDS					YER005W		5	160550	162442	W		2011-02-03	1996-07-31	
-S000000808	ORF	Verified	YER006W	NUG1	RNA-binding GTPase NUG1	chromosome 5		5	162723	164285	W		2011-02-03	1996-07-31	GTPase that associates with nuclear 60S pre-ribosomes; required for export of 60S ribosomal subunits from the nucleus
-S000034937	CDS					YER006W		5	162723	164285	W		2011-02-03	1996-07-31	
-S000000809	ORF	Verified	YER007W	PAC2		chromosome 5	L000001329	5	164527	166083	W		2011-02-03	1996-07-31	Microtubule effector required for tubulin heterodimer formation; binds alpha-tubulin, required for normal microtubule function, null mutant exhibits cold-sensitive microtubules and sensitivity to benomyl
-S000035125	CDS					YER007W		5	164527	166083	W		2011-02-03	1996-07-31	
-S000028745	ORF	Dubious	YER006C-A			chromosome 5		5	164661	164344	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF PAC2/YER007W
-S000033415	CDS					YER006C-A		5	164661	164344	C		2011-02-03	2003-07-29	
-S000002957	ORF	Verified	YER007C-A	TMA20	RBF20	chromosome 5		5	166885	166237	C		2011-02-03	1996-07-31	Protein of unknown function that associates with ribosomes; has a putative RNA binding domain; interacts with Tma22p; null mutant exhibits translation defects; has homology to human oncogene MCT-1; protein abundance increases in response to DNA replication stress
-S000032950	CDS					YER007C-A		5	166771	166237	C		2011-02-03	1996-07-31	
-S000032949	CDS					YER007C-A		5	166885	166875	C		2011-02-03	1996-07-31	
-S000032951	intron					YER007C-A		5	166874	166772	C		2011-02-03	1996-07-31	
-S000006499	snRNA_gene		snR14	SNR14	U4	chromosome 5	L000001965	5	167586	167427	C		2011-02-03	2000-05-19	U4 spliceosomal RNA (U4 snRNA); interacts with U6
-S000036593	noncoding_exon					snR14		5	167586	167427	C		2011-02-03	2000-05-19	
-S000000810	ORF	Verified	YER008C	SEC3	GTP-Rho binding exocyst subunit SEC3|PSL1	chromosome 5	L000001829|L000001520	5	171818	167808	C	3	2011-02-03	1996-07-31	Subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to sites of exocytosis prior to SNARE-mediated fusion; PtdIns[4,5]P2-binding protein that localizes to exocytic sites in a Rho1p-dependent, actin-independent manner, targeting and anchoring the exocyst to the plasma membrane with Exo70p; direct GTP Rho1p effector; required for ER inheritance; relocalizes away from bud neck upon DNA replication stress
-S000035220	CDS					YER008C		5	171818	167808	C		2011-02-03	1996-07-31	
-S000000811	ORF	Verified	YER009W	NTF2	Ran GTPase-binding protein NTF2	chromosome 5	L000002863	5	172115	172492	W		2011-02-03	1996-07-31	Nuclear envelope protein; interacts with GDP-bound Gsp1p and with proteins of the nuclear pore to transport Gsp1p into the nucleus where it is an essential player in nucleocytoplasmic transport
-S000036204	CDS					YER009W		5	172115	172492	W		2011-02-03	1996-07-31	
-S000000812	ORF	Verified	YER010C		bifunctional 4-hydroxy-4-methyl-2-oxoglutarate aldolase/oxaloacetate decarboxylase	chromosome 5		5	173338	172634	C		2011-02-03	1996-07-31	Bifunctional HMG aldolase/oxaloacetate decarboxylase; requires divalent metal ions for activity; competitively inhibited by oxalate; forms a ring-shaped homotrimer; similar to members of the prokaryotic RraA family of class II (divalent metal ion dependent) pyruvate aldolases from the meta cleavage pathways of protocatechuate and gallate
-S000036925	CDS					YER010C		5	173338	172634	C		2011-02-03	1996-07-31	
-S000077383	ARS		ARS511		ARSV-174	chromosome 5		5	173700	173864			2014-11-18	2014-11-18|2004-10-19|2006-09-07	Autonomously Replicating Sequence
-S000178084	ARS_consensus_sequence					ARS511		5	173808	173792	C		2014-11-18	2014-11-18	
-S000000813	ORF	Verified	YER011W	TIR1	GPI-anchored mannoprotein|SRP1	chromosome 5	L000002059	5	175248	176012	W		2011-02-03	1996-07-31	Cell wall mannoprotein; expression is downregulated at acidic pH and induced by cold shock and anaerobiosis; abundance is increased in cells cultured without shaking; member of the Srp1p/Tip1p family of serine-alanine-rich proteins
-S000037042	CDS					YER011W		5	175248	176012	W		2011-02-03	1996-07-31	
-S000006912	long_terminal_repeat		YERWdelta7			chromosome 5		5	176705	176856	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006550	tRNA_gene		tE(UUC)E1			chromosome 5	L000003792	5	177099	177170	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
-S000034436	noncoding_exon					tE(UUC)E1		5	177099	177170	W		2011-02-03	2000-05-19	
-S000000814	ORF	Verified	YER012W	PRE1	proteasome core particle subunit beta 4	chromosome 5	L000001483	5	177835	178431	W		2011-02-03	1996-07-31	Beta 4 subunit of the 20S proteasome; localizes to the nucleus throughout the cell cycle
-S000037113	CDS					YER012W		5	177835	178431	W		2011-02-03	1996-07-31	
-S000000815	ORF	Verified	YER013W	PRP22	DEAH-box ATP-dependent RNA helicase PRP22	chromosome 5	L000001508	5	178841	182278	W		2011-02-03	1996-07-31	DEAH-box RNA-dependent ATPase/ATP-dependent RNA helicase; associates with lariat intermediates before the second catalytic step of splicing; mediates ATP-dependent mRNA release from the spliceosome and unwinds RNA duplexes; required for proofreading the exon ligation reaction
-S000037868	CDS					YER013W		5	178841	182278	W		2011-02-03	1996-07-31	
-S000000816	ORF	Verified	YER014W	HEM14	oxygen-dependent protoporphyrinogen oxidase	chromosome 5	L000003353	5	182600	184219	W		2011-02-03	1996-07-31	Protoporphyrinogen oxidase; a mitochondrial enzyme that catalyzes the seventh step in the heme biosynthetic pathway, converting protoporphyrinogen IX to protoporphyrin IX; inhibited by diphenyl ether-type herbicides
-S000029903	CDS					YER014W		5	182600	184219	W		2011-02-03	1996-07-31	
-S000000817	ORF	Verified	YER015W	FAA2	medium-chain fatty acid-CoA ligase FAA2|FAM1	chromosome 5	L000000595|L000000599	5	184541	186775	W		2011-02-03	1996-07-31	Medium chain fatty acyl-CoA synthetase; activates imported fatty acids; accepts a wide range of fatty acid chain lengths with a preference for medium chains, C9:0-C13:0; localized to the peroxisome; comparative analysis suggests that a mitochondrially targeted form may result from translation starting at a non-canonical codon upstream of the annotated start codon
-S000030015	CDS					YER015W		5	184541	186775	W		2011-02-03	1996-07-31	
-S000007590	ORF	Verified	YER014C-A	BUD25		chromosome 5		5	184700	183731	C		2011-02-03	2001-02-14	Protein involved in bud-site selection; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern
-S000037101	CDS					YER014C-A		5	184169	183731	C		2011-02-03	2001-02-14	
-S000037100	CDS					YER014C-A		5	184700	184678	C		2011-02-03	2001-02-14	
-S000037102	intron					YER014C-A		5	184677	184170	C		2011-02-03	2001-02-14	
-S000000818	ORF	Verified	YER016W	BIM1	microtubule-binding protein BIM1|EB1|YEB1	chromosome 5	L000003272	5	188277	189311	W		2011-02-03	1996-07-31	Microtubule plus end-tracking protein; together with Kar9p makes up the cortical microtubule capture site and delays the exit from mitosis when the spindle is oriented abnormally; homolog of human end binding protein 1 (EB1)
-S000031017	CDS					YER016W		5	188277	189311	W		2011-02-03	1996-07-31	
-S000000819	ORF	Verified	YER017C	AFG3	AAA family ATPase AFG3|YTA10	chromosome 5	L000002562|L000000057	5	191788	189503	C		2011-02-03	1996-07-31	Mitochondrial inner membrane m-AAA protease component; mediates degradation of misfolded or unassembled proteins; also required for correct assembly of mitochondrial enzyme complexes; involved in cytoplasmic mRNA translation and aging; expression of human homolog AFG3L2 can complement yeast yta12 afg3 double mutant
-S000031051	CDS					YER017C		5	191788	189503	C		2011-02-03	1996-07-31	
-S000000820	ORF	Verified	YER018C	SPC25	kinetochore-associated Ndc80 complex subunit SPC25	chromosome 5	L000004695	5	192624	191959	C		2011-02-03	1996-07-31	Component of the kinetochore-associated Ndc80 complex; involved in chromosome segregation, spindle checkpoint activity, and kinetochore clustering; evolutionarily conserved; other members include Ndc80p, Nuf2p, Spc24p, and Spc25p
-S000031164	CDS					YER018C		5	192624	191959	C		2011-02-03	1996-07-31	
-S000000821	ORF	Verified	YER019W	ISC1	inositol phosphosphingolipid phospholipase	chromosome 5		5	192797	194230	W		2011-02-03	1996-07-31	Inositol phosphosphingolipid phospholipase C; mitochondrial membrane localized; hydrolyzes complex sphingolipids to produce ceramide; activates genes required for non-fermentable carbon source metabolism during diauxic shift; activated by phosphatidylserine, cardiolipin, and phosphatidylglycerol; mediates Na+ and Li+ halotolerance; ortholog of mammalian neutral sphingomyelinase type 2
-S000032239	CDS					YER019W		5	192797	194230	W		2011-02-03	1996-07-31	
-S000002127	ORF	Verified	YER019C-A	SBH2	Arf family guanine nucleotide exchange factor SBH2|SEB2	chromosome 5	L000002847|L000004138	5	194539	194273	C		2011-02-03	1996-07-31	Ssh1p-Sss1p-Sbh2p complex component; involved in protein translocation into the endoplasmic reticulum; SBH2 has a paralog, SBH1, that arose from the whole genome duplication
-S000032656	CDS					YER019C-A		5	194539	194273	C		2011-02-03	1996-07-31	
-S000000822	ORF	Verified	YER020W	GPA2	guanine nucleotide-binding protein subunit alpha|SSP101	chromosome 5	L000000721	5	195168	196517	W	10	2011-02-03	1996-07-31	Nucleotide binding alpha subunit of the heterotrimeric G protein; interacts with the receptor Gpr1p, has signaling role in response to nutrients; required for the recruitment of Ras-GTP at the plasma membrane and in the nucleus
-S000032231	CDS					YER020W		5	195168	196517	W		2011-02-03	1996-07-31	
-S000000823	ORF	Verified	YER021W	RPN3	proteasome regulatory particle lid subunit RPN3|SUN2	chromosome 5	L000003109	5	196948	198519	W		2011-02-03	1996-07-31	Essential non-ATPase regulatory subunit of the 26S proteasome lid; similar to the p58 subunit of the human 26S proteasome; temperature-sensitive alleles cause metaphase arrest, suggesting a role for the proteasome in cell cycle control
-S000032304	CDS					YER021W		5	196948	198519	W		2011-02-03	1996-07-31	
-S000000824	ORF	Verified	YER022W	SRB4	MED17	chromosome 5	L000002051	5	198812	200875	W		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for basal RNA polymerase II transcription; homozygosity of the human MED17 L371P mutation is associated with infantile cerebral and cerebellar atrophy with poor myelination
-S000033166	CDS					YER022W		5	198812	200875	W		2011-02-03	1996-07-31	
-S000000825	ORF	Verified	YER023W	PRO3	pyrroline-5-carboxylate reductase|ORE2	chromosome 5	L000001493	5	201076	201936	W	23	2011-02-03	1996-07-31	Delta 1-pyrroline-5-carboxylate reductase; catalyzes the last step in proline biosynthesis
-S000033229	CDS					YER023W		5	201076	201936	W		2011-02-03	1996-07-31	
-S000028622	ORF	Dubious	YER023C-A			chromosome 5		5	201734	201522	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene PRO3; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
-S000031472	CDS					YER023C-A		5	201734	201522	C		2011-02-03	2003-07-29	
-S000000826	ORF	Verified	YER024W	YAT2	carnitine O-acetyltransferase YAT2	chromosome 5		5	202192	204963	W		2011-02-03	1996-07-31	Carnitine acetyltransferase; has similarity to Yat1p, which is a carnitine acetyltransferase associated with the mitochondrial outer membrane
-S000033278	CDS					YER024W		5	202192	204963	W		2011-02-03	1996-07-31	
-S000000827	ORF	Verified	YER025W	GCD11	translation initiation factor eIF2 subunit gamma|SUI4	chromosome 5	L000000677	5	205251	206834	W	14	2011-02-03	1996-07-31	Gamma subunit of the translation initiation factor eIF2; involved in the identification of the start codon; binds GTP when forming the ternary complex with GTP and tRNAi-Met; mutations in human ortholog cause X-linked intellectual disability (XLID)
-S000034151	CDS					YER025W		5	205251	206834	W		2011-02-03	1996-07-31	
-S000006593	tRNA_gene		tH(GUG)E1			chromosome 5	L000003793	5	207357	207428	W		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
-S000035209	noncoding_exon					tH(GUG)E1		5	207357	207428	W		2011-02-03	2000-05-19	
-S000000828	ORF	Verified	YER026C	CHO1	CDP-diacylglycerol-serine O-phosphatidyltransferase|PSS1	chromosome 5	L000000327|L000001521	5	208474	207644	C	22	2011-02-03	1996-07-31	Phosphatidylserine synthase; functions in phospholipid biosynthesis; catalyzes the reaction CDP-diaclyglycerol + L-serine = CMP + L-1-phosphatidylserine, transcriptionally repressed by myo-inositol and choline
-S000034205	CDS					YER026C		5	208474	207644	C		2011-02-03	1996-07-31	
-S000000829	ORF	Verified	YER027C	GAL83	SPM1	chromosome 5	L000000666	5	210232	208979	C	11	2011-02-03	1996-07-31	One of three possible beta-subunits of the Snf1 kinase complex; allows nuclear localization of the Snf1 kinase complex in the presence of a nonfermentable carbon source; necessary and sufficient for phosphorylation of the Mig2p transcription factor in response to alkaline stress; functionally redundant with SIP1 and SIP2 for the phosphorylation of Mig1p in response to glucose deprivation; contains a glycogen-binding domain
-S000034334	CDS					YER027C		5	210232	208979	C		2011-02-03	1996-07-31	
-S000000830	ORF	Verified	YER028C	MIG3		chromosome 5		5	211876	210692	C		2011-02-03	1996-07-31	Transcriptional regulator; partially nonfunctional in S288C strains but has a major role in catabolite repression and ethanol response in some other strains; involved in response to toxic agents; phosphorylation by Snf1p or the Mec1p pathway inactivates Mig3p, allowing induction of damage response genesenvironment
-S000035341	CDS					YER028C		5	211876	210692	C		2011-02-03	1996-07-31	
-S000077384	ARS		ARS512		ARSV-212	chromosome 5		5	212383	212631			2011-02-03	2004-10-19|2006-09-07	Autonomously Replicating Sequence
-S000178085	ARS_consensus_sequence					ARS512		5	212454	212470	W		2014-11-18	2014-11-18	
-S000000831	ORF	Verified	YER029C	SMB1	mRNA splicing protein SMB1|Sm B|SmB	chromosome 5	L000004361	5	213177	212587	C		2011-02-03	1996-07-31	Core Sm protein Sm B; part of heteroheptameric complex (with Smd1p, Smd2p, Smd3p, Sme1p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm B and Sm B'
-S000035476	CDS					YER029C		5	213177	212587	C		2011-02-03	1996-07-31	
-S000000832	ORF	Verified	YER030W	CHZ1		chromosome 5		5	213437	213898	W		2011-02-03	1996-07-31|2005-11-29	Histone chaperone for Htz1p/H2A-H2B dimer; required for the stabilization of the Chz1p-Htz1-H2B complex; has overlapping function with Nap1p; null mutant displays weak sensitivity to MMS and benomyl; contains a highly conserved CHZ motif; protein abundance increases in response to DNA replication stress
-S000036549	CDS					YER030W		5	213437	213898	W		2011-02-03	1996-07-31|2005-11-29	
-S000000833	ORF	Verified	YER031C	YPT31	Rab family GTPase YPT31|YPT8	chromosome 5	L000002545	5	214747	214076	C		2011-02-03	1996-07-31	Rab family GTPase; involved in the exocytic pathway; mediates intra-Golgi traffic or the budding of post-Golgi vesicles from the trans-Golgi; YPT31 has a paralog, YPT32, that arose from the whole genome duplication; localizes to the transitional and late Golgi
-S000036578	CDS					YER031C		5	214747	214076	C		2011-02-03	1996-07-31	
-S000000834	ORF	Verified	YER032W	FIR1	PIP1	chromosome 5	L000003487	5	215063	217693	W		2011-02-03	2003-09-22|1996-07-31	Protein involved in 3' mRNA processing; interacts with Ref2p; APCC(Cdh1) substrate; potential Cdc28p substrate
-S000037329	CDS					YER032W		5	215063	217693	W		2011-02-03	2003-09-22|1996-07-31	
-S000000835	ORF	Verified	YER033C	ZRG8		chromosome 5	S000007518	5	221287	218057	C		2011-02-03	1996-07-31	Protein of unknown function; authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; GFP-fusion protein is localized to the cytoplasm; transcription induced under conditions of zinc deficiency
-S000037376	CDS					YER033C		5	221287	218057	C		2011-02-03	1996-07-31	
-S000000836	ORF	Verified	YER034W			chromosome 5		5	221846	222403	W		2011-02-03	1996-07-31	Protein of unknown function; non-essential gene; expression induced upon calcium shortage; protein abundance increases in response to DNA replication stress
-S000030147	CDS					YER034W		5	221846	222403	W		2011-02-03	1996-07-31	
-S000000837	ORF	Verified	YER035W	EDC2		chromosome 5		5	222639	223076	W		2011-02-03	1996-07-31	RNA-binding protein that directly activates mRNA decapping; binds mRNA substrate and enhances activity of decapping proteins Dcp1p and Dcp2p; has a role in translation during heat stress; protein increases in abundance and relocalizes to nucleolus and to nuclear foci upon DNA replication stress; EDC2 has a paralog, EDC1, that arose from the whole genome duplication
-S000030324	CDS					YER035W		5	222639	223076	W		2011-02-03	1996-07-31	
-S000000838	ORF	Verified	YER036C	ARB1	ATP-binding cassette family ATPase ARB1	chromosome 5		5	225199	223367	C		2011-02-03	1996-07-31	ATPase of the ATP-binding cassette (ABC) family; involved in 40S and 60S ribosome biogenesis, has similarity to Gcn20p; shuttles from nucleus to cytoplasm, physically interacts with Tif6p, Lsg1p; human homolog ABCF2 can complement yeast ARB1 mutant
-S000030397	CDS					YER036C		5	225199	223367	C		2011-02-03	1996-07-31	
-S000000839	ORF	Verified	YER037W	PHM8	bifunctional nucleotidase/lysophosphatidic acid phosphatase	chromosome 5		5	225889	226854	W		2011-02-03	1996-07-31	Lysophosphatidic acid (LPA) phosphatase, nucleotidase; principle and physiological nucleotidase working on GMP, UMP and CMP; involved in LPA hydrolysis in response to phosphate starvation and ribose salvage pathway; phosphatase activity is soluble and Mg2+ dependent; expression is induced by low phosphate levels and by inactivation of Pho85p; repressed by Gcn4p under normal conditions; PHM8 has a paralog, SDT1, that arose from the whole genome duplication
-S000031397	CDS					YER037W		5	225889	226854	W		2011-02-03	1996-07-31	
-S000000840	ORF	Verified	YER038C	KRE29	Smc5-Smc6 complex subunit KRE29|NSE6	chromosome 5		5	228252	226858	C		2011-02-03	1996-07-31	Subunit of the SMC5-SMC6 complex; this complex is involved in removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; heterozygous mutant shows haploinsufficiency in K1 killer toxin resistance
-S000031448	CDS					YER038C		5	228252	226858	C		2011-02-03	1996-07-31	
-S000028746	ORF	Uncharacterized	YER038W-A	FMP49		chromosome 5		5	228451	228831	W		2011-02-03	2003-07-29	Mitochondrial protein of unknown function; almost completely overlaps ORF HVG1/YER039C
-S000033416	CDS					YER038W-A		5	228451	228831	W		2011-02-03	2003-07-29	
-S000000841	ORF	Verified	YER039C	HVG1	putative GDP-mannose transporter|YEM9	chromosome 5	L000003907	5	229205	228456	C		2011-02-03	1996-07-31	Protein of unknown function; HVG1 has a paralog, VRG4, that arose from the whole genome duplication
-S000031567	CDS					YER039C		5	229205	228456	C		2011-02-03	1996-07-31	
-S000007226	ORF	Uncharacterized	YER039C-A			chromosome 5		5	229481	229263	C		2011-02-03	1999-07-17	Putative protein of unknown function; YER039C-A is not an essential gene
-S000030146	CDS					YER039C-A		5	229481	229263	C		2011-02-03	1999-07-17	
-S000000842	ORF	Verified	YER040W	GLN3	nitrogen-responsive transcriptional regulator GLN3	chromosome 5	L000000710	5	229795	231987	W	38	2011-02-03	1996-07-31	Transcriptional activator of genes regulated by nitrogen catabolite repression; localization and activity regulated by quality of nitrogen source and Ure2p
-S000031823	CDS					YER040W		5	229795	231987	W		2011-02-03	1996-07-31	
-S000000843	ORF	Verified	YER041W	YEN1	crossover junction endodeoxyribonuclease	chromosome 5		5	232461	234740	W		2011-02-03	1996-07-31|2011-02-03	Holliday junction resolvase; promotes template switching during break-induced replication (BIR), causing non-reciprocal translocations (NRTs); localization is cell-cycle dependent and regulated by Cdc28p phosphorylation; homolog of human GEN1; similar to S. cerevisiae endonuclease Rth1p
-S000031953	CDS					YER041W		5	232461	234740	W		2011-02-03	1996-07-31|2011-02-03	
-S000000844	ORF	Verified	YER042W	MXR1	peptide-methionine-S-sulfoxide reductase|msrA	chromosome 5	L000004794	5	234937	235491	W		2011-02-03	1996-07-31	Methionine-S-sulfoxide reductase; involved in the response to oxidative stress; protects iron-sulfur clusters from oxidative inactivation along with MXR2; involved in the regulation of lifespan; reduced activity of human homolog implicated in Alzheimer disease
-S000032841	CDS					YER042W		5	234937	235491	W		2011-02-03	1996-07-31	
-S000000845	ORF	Verified	YER043C	SAH1	adenosylhomocysteinase	chromosome 5	L000002989	5	237119	235770	C		2011-02-03	1996-07-31	S-adenosyl-L-homocysteine hydrolase; catabolizes S-adenosyl-L-homocysteine which is formed after donation of the activated methyl group of S-adenosyl-L-methionine (AdoMet) to an acceptor; regulates cellular lipid homoeostasis by regulating phosphatidylcholine(PC)synthesis and triacylglycerol (TG) levels
-S000032879	CDS					YER043C		5	237119	235770	C		2011-02-03	1996-07-31	
-S000000846	ORF	Verified	YER044C	ERG28	BUD18	chromosome 5		5	238016	237570	C		2011-02-03	1996-07-31	Endoplasmic reticulum membrane protein; may facilitate protein-protein interactions between the Erg26p dehydrogenase and the Erg27p 3-ketoreductase and/or tether these enzymes to the ER, also interacts with Erg6p
-S000032987	CDS					YER044C		5	238016	237570	C		2011-02-03	1996-07-31	
-S000001954	ORF	Verified	YER044C-A	MEI4		chromosome 5	L000001060	5	239774	238460	C	41	2011-02-03	1996-07-31	Meiosis-specific protein involved in forming DSBs; involved in double-strand break (DSBs) formation during meiotic recombination; required for chromosome synapsis and production of viable spores
-S000032766	CDS					YER044C-A		5	239623	238460	C		2011-02-03	1996-07-31	
-S000032765	CDS					YER044C-A		5	239774	239712	C		2011-02-03	1996-07-31	
-S000032767	intron					YER044C-A		5	239711	239624	C		2011-02-03	1996-07-31	
-S000000847	ORF	Verified	YER045C	ACA1		chromosome 5		5	241501	240032	C		2011-02-03	1996-07-31	ATF/CREB family basic leucine zipper (bZIP) transcription factor; binds as a homodimer to the ATF/CREB consensus sequence TGACGTCA; important for carbon source utilization; target genes include GRE2 and COS8; ACA1 has a paralog, CST6, that arose from the whole genome duplication
-S000033081	CDS					YER045C		5	241501	240032	C		2011-02-03	1996-07-31	
-S000000848	ORF	Verified	YER046W	SPO73		chromosome 5		5	243180	243611	W		2011-02-03	1996-07-31	Meiosis-specific protein required for prospore membrane morphogenesis; required for the proper shape of the prospore membrane (PSM) and for spore wall formation; functions cooperatively with SPO71 in PSM elongation; physically interacts with Spo71p; genetically antagonistic to SPO1, similar to SPO71; localizes to the PSM; required for spore wall formation during sporulation; dispensable for both nuclear divisions during meiosis; dysferlin domain-only protein
-S000033892	CDS					YER046W		5	243180	243611	W		2011-02-03	1996-07-31	
-S000028747	ORF	Dubious	YER046W-A			chromosome 5		5	243700	244029	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SAP1/YER047C
-S000033417	CDS					YER046W-A		5	243700	244029	W		2011-02-03	2003-07-29	
-S000000849	ORF	Verified	YER047C	SAP1	putative AAA family ATPase SAP1	chromosome 5	L000004134	5	246503	243810	C		2011-02-03	1996-07-31	Putative ATPase of the AAA family; interacts with the Sin1p transcriptional repressor in the two-hybrid system
-S000033982	CDS					YER047C		5	246503	243810	C		2011-02-03	1996-07-31	
-S000000850	ORF	Verified	YER048C	CAJ1		chromosome 5	L000000210	5	248157	246982	C		2011-02-03	1996-07-31	Nuclear type II J heat shock protein of the E. coli dnaJ family; contains a leucine zipper-like motif, binds to non-native substrates for presentation to Ssa3p, may function during protein translocation, assembly and disassembly
-S000034089	CDS					YER048C		5	248157	246982	C		2011-02-03	1996-07-31	
-S000006893	long_terminal_repeat		YERCdelta8			chromosome 5		5	249331	249109	C		2011-02-03	2000-05-19|2007-04-03	Ty1 LTR
-S000006913	long_terminal_repeat		YERWdelta9			chromosome 5		5	249445	249752	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006904	long_terminal_repeat		YERCsigma1			chromosome 5		5	250270	249930	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006696	tRNA_gene		tQ(UUG)E1			chromosome 5	L000003794	5	250286	250357	W		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034942	noncoding_exon					tQ(UUG)E1		5	250286	250357	W		2011-02-03	2000-05-19	
-S000007237	ORF	Verified	YER048W-A	ISD11		chromosome 5		5	250718	251002	W		2011-02-03	1999-07-17	Cysteine desulfurase (Nfs1p) activator; essential for the formation of the persulfide intermediate at the desulfurase active site during pyridoxal phosphate-dependent desulfuration of cysteine; required for mitochondrial iron-sulfur cluster biosynthesis; exclusive to eukaryotes, implicated as eukaryotic supplement to the bacterium-derived Fe-S cluster (ISC) assembly apparatus; involved in regulation of iron metabolism; member of the LYR protein family
-S000036074	CDS					YER048W-A		5	250718	251002	W		2011-02-03	1999-07-17	
-S000000851	ORF	Verified	YER049W	TPA1	oxidative DNA demethylase	chromosome 5		5	251728	253662	W		2011-02-03	1996-07-31	Fe(II)/2-oxoglutarate-dependent dioxygenase family member; catalyzes the repair of methyl-base lesions in both ss and dsDNA by oxidative demethylation; Poly(rA)-binding protein involved in mRNA poly(A) tail length and mRNA stability; role in translation termination efficiency; interacts with Sup45p (eRF1), Sup35p (eRF3) and Pab1p; similar to human prolyl 4-hydroxylase OGFOD1; binds Fe(II) and 2-oxoglutarate
-S000035095	CDS					YER049W		5	251728	253662	W		2011-02-03	1996-07-31	
-S000000852	ORF	Verified	YER050C	RSM18	mitochondrial 37S ribosomal protein RSM18	chromosome 5		5	254387	253971	C		2011-02-03	1996-07-31|2005-11-28	Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S18 ribosomal protein
-S000036333	CDS					YER050C		5	254387	253971	C		2011-02-03	1996-07-31|2005-11-28	
-S000000853	ORF	Verified	YER051W	JHD1	[Histone H3]-lysine-36 demethylase|KDM2|JHDM1	chromosome 5		5	254656	256134	W		2011-02-03	1996-07-31	JmjC domain family histone demethylase specific for H3-K36; similar to proteins found in human, mouse, drosophila, X. laevis, C. elegans, and S. pombe
-S000037038	CDS					YER051W		5	254656	256134	W		2011-02-03	1996-07-31	
-S000000854	ORF	Verified	YER052C	HOM3	aspartate kinase|THR3|SIL4|BOR1	chromosome 5	L000000800	5	257958	256375	C	48	2011-02-03	1996-07-31	Aspartate kinase (L-aspartate 4-P-transferase); cytoplasmic enzyme that catalyzes the first step in the common pathway for methionine and threonine biosynthesis; expression regulated by Gcn4p and the general control of amino acid synthesis
-S000037071	CDS					YER052C		5	257958	256375	C		2011-02-03	1996-07-31	
-S000077385	ARS		ARS513			chromosome 5		5	257958	258737			2011-02-03	2004-10-19	Autonomously Replicating Sequence
-S000000855	ORF	Verified	YER053C	PIC2	Cu/Pi carrier	chromosome 5		5	259639	258737	C		2011-02-03	1996-07-31	Mitochondrial copper and phosphate carrier; imports copper and inorganic phosphate into mitochondria; functionally redundant with Mir1p but less abundant than Mir1p under normal conditions; expression is induced at high temperature
-S000037192	CDS					YER053C		5	259639	258737	C		2011-02-03	1996-07-31	
-S000007523	ORF	Verified	YER053C-A			chromosome 5		5	261046	260933	C		2011-02-03	2000-07-14	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; protein abundance increases in response to DNA replication stress
-S000037059	CDS					YER053C-A		5	261046	260933	C		2011-02-03	2000-07-14	
-S000000856	ORF	Verified	YER054C	GIP2		chromosome 5	L000003093	5	263698	262052	C		2011-02-03	1996-07-31	Putative regulatory subunit of protein phosphatase Glc7p; involved in glycogen metabolism; contains a conserved motif (GVNK motif) that is also found in Gac1p, Pig1p, and Pig2p; GIP2 has a paralog, PIG2, that arose from the whole genome duplication
-S000037276	CDS					YER054C		5	263698	262052	C		2011-02-03	1996-07-31	
-S000000857	ORF	Verified	YER055C	HIS1	ATP phosphoribosyltransferase	chromosome 5	L000000778	5	265785	264892	C	49	2011-02-03	1996-07-31	ATP phosphoribosyltransferase; a hexameric enzyme, catalyzes the first step in histidine biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts; transcription is regulated by general amino acid control
-S000029938	CDS					YER055C		5	265785	264892	C		2011-02-03	1996-07-31	
-S000000858	ORF	Verified	YER056C	FCY2	purine-cytosine permease|BRA7	chromosome 5	L000000607	5	268113	266512	C	49	2011-02-03	1996-07-31	Purine-cytosine permease; mediates purine (adenine, guanine, and hypoxanthine) and cytosine accumulation; relative distribution to the vacuole increases upon DNA replication stress
-S000030053	CDS					YER056C		5	268113	266512	C		2011-02-03	1996-07-31	
-S000002135	ORF	Verified	YER056C-A	RPL34A	eL34|ribosomal 60S subunit protein L34A|L34e|L34A	chromosome 5	L000004465	5	270185	269423	C		2011-02-03	2000-12-01|1996-07-31	Ribosomal 60S subunit protein L34A; homologous to mammalian ribosomal protein L34, no bacterial homolog; RPL34A has a paralog, RPL34B, that arose from the whole genome duplication
-S000031749	CDS					YER056C-A		5	269751	269423	C		2011-02-03	2000-12-01|1996-07-31	
-S000031748	CDS					YER056C-A		5	270185	270149	C		2011-02-03	2000-12-01|1996-07-31	
-S000031750	intron					YER056C-A		5	270148	269752	C		2011-02-03	2000-12-01|1996-07-31	
-S000000859	ORF	Verified	YER057C	HMF1	putative isoleucine biosynthesis protein HMF1|HIG1	chromosome 5	L000004440	5	271126	270737	C		2011-02-03	1996-07-31	Member of the p14.5 protein family; functionally complements Mmf1p function when targeted to mitochondria; heat shock inducible; high-dosage growth inhibitor; forms a homotrimer in vitro; HMF1 has a paralog, MMF1, that arose from the whole genome duplication
-S000030235	CDS					YER057C		5	271126	270737	C		2011-02-03	1996-07-31	
-S000000860	ORF	Verified	YER058W	PET117		chromosome 5	L000001396	5	271768	272091	W		2011-02-03	1996-07-31	Protein required for assembly of cytochrome c oxidase
-S000031258	CDS					YER058W		5	271768	272091	W		2011-02-03	1996-07-31	
-S000000861	ORF	Verified	YER059W	PCL6		chromosome 5	L000004038	5	272624	273886	W		2011-02-03	1996-07-31	Pho85p cyclin of the Pho80p subfamily; forms the major Glc8p kinase together with Pcl7p and Pho85p; involved in the control of glycogen storage by Pho85p; stabilized by Elongin C binding; PCL6 has a paralog, PCL7, that arose from the whole genome duplication
-S000031353	CDS					YER059W		5	272624	273886	W		2011-02-03	1996-07-31	
-S000000862	ORF	Verified	YER060W	FCY21	purine-cytosine permease	chromosome 5	L000003373	5	274567	276153	W		2011-02-03	1996-07-31	Putative purine-cytosine permease; very similar to Fcy2p but cannot substitute for its function
-S000032301	CDS					YER060W		5	274567	276153	W		2011-02-03	1996-07-31	
-S000178086	ARS		ARS513.5			chromosome 5		5	276130	276528			2014-11-18	2014-11-18	Very weak autonomously replicating sequence
-S000002958	ORF	Verified	YER060W-A	FCY22	purine-cytosine permease	chromosome 5	L000003374	5	276572	278164	W		2011-02-03	1999-07-17|1996-07-31	Putative purine-cytosine permease; very similar to Fcy2p but cannot substitute for its function
-S000032822	CDS					YER060W-A		5	276572	278164	W		2011-02-03	1999-07-17|1996-07-31	
-S000178087	ARS		ARS513.7			chromosome 5		5	278076	278357			2014-11-18	2014-11-18	Weak autonomously replicating sequence
-S000178088	ARS_consensus_sequence					ARS513.7		5	278177	278161	C		2014-11-18	2014-11-18	
-S000000863	ORF	Verified	YER061C	CEM1	fatty acid synthase CEM1	chromosome 5	L000000292	5	279626	278298	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial beta-keto-acyl synthase; possible role in fatty acid synthesis; required for mitochondrial respiration; human homolog OXSM can complement yeast cem1 null mutant
-S000032319	CDS					YER061C		5	279626	278298	C		2011-02-03	1996-07-31|2011-02-03	
-S000000864	ORF	Verified	YER062C	GPP2	HOR2|glycerol-1-phosphatase HOR2	chromosome 5	L000003979	5	280682	279930	C		2011-02-03	1996-07-31	DL-glycerol-3-phosphate phosphatase involved in glycerol biosynthesis; also known as glycerol-1-phosphatase; induced in response to hyperosmotic or oxidative stress, and during diauxic shift; GPP2 has a paralog, GPP1, that arose from the whole genome duplication
-S000032451	CDS					YER062C		5	280682	279930	C		2011-02-03	1996-07-31	
-S000000865	ORF	Verified	YER063W	THO1		chromosome 5	L000004712	5	281710	282366	W		2011-02-03	1996-07-31	Conserved nuclear RNA-binding protein; specifically binds to transcribed chromatin in a THO- and RNA-dependent manner, genetically interacts with shuttling hnRNP NAB2; overproduction suppresses transcriptional defect caused by hpr1 mutation
-S000033296	CDS					YER063W		5	281710	282366	W		2011-02-03	1996-07-31	
-S000000866	ORF	Verified	YER064C	VHR2		chromosome 5		5	284222	282705	C		2011-02-03	1996-07-31	Non-essential nuclear protein; null mutation has global effects on transcription; VHR2 has a paralog, VHR1, that arose from the whole genome duplication; relative distribution to the nucleus increases upon DNA replication stress
-S000033339	CDS					YER064C		5	284222	282705	C		2011-02-03	1996-07-31	
-S000000867	ORF	Verified	YER065C	ICL1	isocitrate lyase 1	chromosome 5	L000000848	5	286914	285241	C		2011-02-03	1996-07-31	Isocitrate lyase; catalyzes the formation of succinate and glyoxylate from isocitrate, a key reaction of the glyoxylate cycle; expression of ICL1 is induced by growth on ethanol and repressed by growth on glucose
-S000033405	CDS					YER065C		5	286914	285241	C		2011-02-03	1996-07-31	
-S000077386	ARS		ARS514		ARSV-288	chromosome 5		5	287552	287629			2014-11-18	2014-11-18|2004-10-19|2006-09-07	Autonomously Replicating Sequence
-S000178089	ARS_consensus_sequence					ARS514		5	287565	287581	W		2014-11-18	2014-11-18	
-S000006894	long_terminal_repeat		YERCdelta10			chromosome 5		5	288062	287745	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006734	tRNA_gene		tS(UGA)E	SUP19	SUP20	chromosome 5	L000002192|L000003805	5	288524	288443	C	50	2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000034046	noncoding_exon					tS(UGA)E		5	288524	288443	C		2011-02-03	2000-05-19	
-S000000868	ORF	Uncharacterized	YER066W	RRT13		chromosome 5		5	290242	290799	W		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene identified in a screen for mutants with decreased levels of rDNA transcription
-S000034374	CDS					YER066W		5	290242	290799	W		2011-02-03	1996-07-31	
-S000000869	ORF	Verified	YER067W	RGI1		chromosome 5		5	292066	292551	W		2011-02-03	1996-07-31	Protein of unknown function; involved in energy metabolism under respiratory conditions; protein abundance is increased upon intracellular iron depletion or in response to DNA replication stress; RGI1 has a paralog, RGI2, that arose from the whole genome duplication
-S000034452	CDS					YER067W		5	292066	292551	W		2011-02-03	1996-07-31	
-S000002959	ORF	Dubious	YER066C-A			chromosome 5		5	292203	291703	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized ORF YER067W
-S000035687	CDS					YER066C-A		5	292203	291703	C		2011-02-03	1996-07-31	
-S000028748	ORF	Dubious	YER067C-A			chromosome 5		5	292563	292240	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF RGI1/YER067W
-S000033418	CDS					YER067C-A		5	292563	292240	C		2011-02-03	2003-07-29	
-S000000870	ORF	Verified	YER068W	MOT2	CCR4-NOT core ubiquitin-protein ligase subunit MOT2|SIG1|NOT4	chromosome 5	L000001887|L000001137	5	293050	294813	W		2011-02-03	1996-07-31	Ubiquitin-protein ligase subunit of the CCR4-NOT complex; with Ubc4p, ubiquitinates nascent polypeptide-associated complex subunits and histone demethyase Jhd2p; CCR4-NOT has roles in transcription regulation, mRNA degradation, and post-transcriptional modifications; regulates levels of DNA Polymerase-{alpha} to promote efficient and accurate DNA replication
-S000035479	CDS					YER068W		5	293050	294813	W		2011-02-03	1996-07-31	
-S000000871	ORF	Verified	YER069W	ARG5,6	argC|argB|bifunctional acetylglutamate kinase/N-acetyl-gamma-glutamyl-phosphate reductase	chromosome 5	L000000110	5	295410	298001	W	55	2011-02-03	1996-07-31	Acetylglutamate kinase and N-acetyl-gamma-glutamyl-phosphate reductase; N-acetyl-L-glutamate kinase (NAGK) catalyzes the 2nd and N-acetyl-gamma-glutamyl-phosphate reductase (NAGSA), the 3rd step in arginine biosynthesis; synthesized as a precursor which is processed in the mitochondrion to yield mature NAGK and NAGSA; enzymes form a metabolon complex with Arg2p; NAGK C-terminal domain stabilizes the enzymes, slows catalysis and is involved in feed-back inhibition by arginine
-S000035588	CDS					YER069W		5	295410	298001	W		2011-02-03	1996-07-31	
-S000028749	ORF	Dubious	YER068C-A			chromosome 5		5	295732	295301	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF ARG5,6/YER069W
-S000033419	CDS					YER068C-A		5	295732	295301	C		2011-02-03	2003-07-29	
-S000000872	ORF	Verified	YER070W	RNR1	ribonucleotide-diphosphate reductase subunit RNR1|SDS12|RIR1|CRT7	chromosome 5	L000001655	5	298950	301616	W		2011-02-03	1996-07-31	Major isoform of large subunit of ribonucleotide-diphosphate reductase; the RNR complex catalyzes rate-limiting step in dNTP synthesis, regulated by DNA replication and DNA damage checkpoint pathways via localization of small subunits; relative distribution to the nucleus increases upon DNA replication stress; RNR1 has a paralog, RNR3, that arose from the whole genome duplication
-S000035499	CDS					YER070W		5	298950	301616	W		2011-02-03	1996-07-31	
-S000000873	ORF	Uncharacterized	YER071C	TDA2		chromosome 5		5	302327	301947	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; null mutant is sensitive to expression of the top1-T722A allele
-S000035526	CDS					YER071C		5	302327	301947	C		2011-02-03	1996-07-31	
-S000000874	ORF	Verified	YER072W	VTC1	PHM4|NRF1	chromosome 5	L000004689	5	302806	303195	W		2011-02-03	1996-07-31	Regulatory subunit of the vacuolar transporter chaperone (VTC) complex; VTC complex is involved in membrane trafficking, vacuolar polyphosphate accumulation, microautophagy and non-autophagic vacuolar fusion; also has mRNA binding activity; protein abundance increases in response to DNA replication stress
-S000036469	CDS					YER072W		5	302806	303195	W		2011-02-03	1996-07-31	
-S000000875	ORF	Verified	YER073W	ALD5	aldehyde dehydrogenase (NAD(P)(+)) ALD5	chromosome 5	L000004949	5	304030	305592	W		2011-02-03	1996-07-31|2011-02-03	Mitochondrial aldehyde dehydrogenase; involved in regulation or biosynthesis of electron transport chain components and acetate formation; activated by K+; utilizes NADP+ as the preferred coenzyme; constitutively expressed
-S000036548	CDS					YER073W		5	304030	305592	W		2011-02-03	1996-07-31|2011-02-03	
-S000000876	ORF	Verified	YER074W	RPS24A	eS24|ribosomal 40S subunit protein S24A|S24e|S24A|RPS24EA	chromosome 5	L000002710	5	306323	307196	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S24, no bacterial homolog; RPS24A has a paralog, RPS24B, that arose from the whole genome duplication
-S000036669	CDS					YER074W		5	306323	306325	W		2011-02-03	1996-07-31	
-S000036670	CDS					YER074W		5	306792	307196	W		2011-02-03	1996-07-31	
-S000036671	intron					YER074W		5	306326	306791	W		2011-02-03	1996-07-31	
-S000007651	ORF	Verified	YER074W-A	YOS1		chromosome 5		5	307653	308123	W		2011-02-03	2004-01-08|2001-06-29	Integral membrane protein required for ER to Golgi transport; localized to the Golgi, the ER, and COPII vesicles; interacts with Yip1p and Yif1p
-S000037341	CDS					YER074W-A		5	307653	307746	W		2011-02-03	2004-01-08|2001-06-29	
-S000037342	CDS					YER074W-A		5	307849	307956	W		2011-02-03	2004-01-08|2001-06-29	
-S000037343	CDS					YER074W-A		5	308068	308123	W		2011-02-03	2004-01-08|2001-06-29	
-S000037344	intron					YER074W-A		5	307747	307848	W		2011-02-03	2004-01-08|2001-06-29	
-S000037345	intron					YER074W-A		5	307957	308067	W		2011-02-03	2004-01-08|2001-06-29	
-S000000877	ORF	Verified	YER075C	PTP3	tyrosine protein phosphatase PTP3	chromosome 5	L000003996	5	311199	308413	C		2011-02-03	1996-07-31|2011-02-03	Phosphotyrosine-specific protein phosphatase; involved in the inactivation of mitogen-activated protein kinase (MAPK) during osmolarity sensing; dephosporylates Hog1p MAPK and regulates its localization; localized to the cytoplasm
-S000036705	CDS					YER075C		5	311199	308413	C		2011-02-03	1996-07-31|2011-02-03	
-S000006522	tRNA_gene		tA(UGC)E			chromosome 5	L000003804	5	312095	312023	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
-S000034855	noncoding_exon					tA(UGC)E		5	312095	312023	C		2011-02-03	2000-05-19	
-S000006914	long_terminal_repeat		YERWdelta11			chromosome 5		5	312274	312445	W		2011-02-03	2000-05-19	Ty1 LTR
-S000028750	ORF	Dubious	YER076W-A			chromosome 5		5	313390	313737	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YER076C
-S000033444	CDS					YER076W-A		5	313390	313737	W		2011-02-03	2003-07-29	
-S000000878	ORF	Uncharacterized	YER076C			chromosome 5		5	313498	312590	C		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; analysis of HA-tagged protein suggests a membrane localization
-S000037415	CDS					YER076C		5	313498	312590	C		2011-02-03	1996-07-31	
-S000000879	ORF	Uncharacterized	YER077C	MRX1		chromosome 5		5	316600	314534	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; null mutation results in a decrease in plasma membrane electron transport
-S000037540	CDS					YER077C		5	316600	314534	C		2011-02-03	1996-07-31	
-S000077387	ARS		ARS515			chromosome 5		5	316600	316807			2011-02-03	2004-10-19	Autonomously Replicating Sequence
-S000000880	ORF	Verified	YER078C	ICP55	aminopeptidase	chromosome 5		5	318342	316807	C		2011-02-03	1996-07-31	Mitochondrial aminopeptidase; cleaves the N termini of at least 38 imported proteins after cleavage by the mitochondrial processing peptidase (MPP), thereby increasing their stability; member of the aminopeptidase P family
-S000037656	CDS					YER078C		5	318342	316807	C		2011-02-03	1996-07-31	
-S000028546	ORF	Uncharacterized	YER078W-A			chromosome 5		5	318646	318810	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031196	CDS					YER078W-A		5	318646	318810	W		2011-02-03	2003-07-29	
-S000000881	ORF	Uncharacterized	YER079W			chromosome 5		5	318920	319552	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000030524	CDS					YER079W		5	318920	319552	W		2011-02-03	1996-07-31	
-S000000882	ORF	Verified	YER080W	AIM9	FMP29	chromosome 5		5	319963	321846	W		2011-02-03	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays elevated frequency of mitochondrial genome loss
-S000031341	CDS					YER080W		5	319963	321846	W		2011-02-03	1996-07-31	
-S000028751	ORF	Dubious	YER079C-A			chromosome 5		5	320240	319902	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF AIM9/YER080W
-S000033445	CDS					YER079C-A		5	320240	319902	C		2011-02-03	2003-07-29	
-S000029010	ncRNA_gene		SRG1	SRG1		chromosome 5		5	322212	322762	W		2011-02-03	2003-10-29	Non-protein-coding RNA that regulates the transcription of SER3; expression of SRG1 RNA represses expression of its neighboring gene SER3 via a transcription-interference mechanism
-S000035975	noncoding_exon					SRG1		5	322212	322762	W		2011-02-03	2003-10-29	
-S000000883	ORF	Verified	YER081W	SER3	phosphoglycerate dehydrogenase SER3	chromosome 5	S000007457	5	322686	324095	W		2011-02-03	1996-07-31	3-phosphoglycerate dehydrogenase and alpha-ketoglutarate reductase; 3PG dehydrogenase that catalyzes the first step in serine and glycine biosynthesis; also functions as an alpha-ketoglutarate reductase, converting alpha-ketoglutarate to D-2-hydroxyglutarate (D-2HG); localizes to the cytoplasm; SER3 has a paralog, SER33, that arose from the whole genome duplication
-S000031424	CDS					YER081W		5	322686	324095	W		2011-02-03	1996-07-31	
-S000000884	ORF	Verified	YER082C	UTP7	KRE31	chromosome 5		5	325936	324272	C		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
-S000031483	CDS					YER082C		5	325936	324272	C		2011-02-03	1996-07-31	
-S000000885	ORF	Verified	YER083C	GET2	GET complex subunit GET2|RMD7|HUR2	chromosome 5		5	327031	326174	C		2011-02-03	2003-09-22|1996-07-31	Subunit of the GET complex; involved in insertion of proteins into the ER membrane; required for the retrieval of HDEL proteins from the Golgi to the ER in an ERD2 dependent fashion and for meiotic nuclear division
-S000031538	CDS					YER083C		5	327031	326174	C		2011-02-03	2003-09-22|1996-07-31	
-S000000886	ORF	Uncharacterized	YER084W			chromosome 5		5	327065	327451	W		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels
-S000032559	CDS					YER084W		5	327065	327451	W		2011-02-03	1996-07-31	
-S000028752	ORF	Dubious	YER084W-A			chromosome 5		5	327598	328110	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps uncharacterized ORF YER085C
-S000033446	CDS					YER084W-A		5	327598	328110	W		2011-02-03	2003-07-29	
-S000000887	ORF	Uncharacterized	YER085C			chromosome 5		5	328140	327619	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000032615	CDS					YER085C		5	328140	327619	C		2011-02-03	1996-07-31	
-S000000888	ORF	Verified	YER086W	ILV1	threonine ammonia-lyase ILV1|ISO1	chromosome 5	L000000857	5	328477	330207	W	64	2011-02-03	1999-07-17|1996-07-31	Threonine deaminase, catalyzes first step in isoleucine biosynthesis; expression is under general amino acid control; ILV1 locus exhibits highly positioned nucleosomes whose organization is independent of known ILV1 regulation
-S000032774	CDS					YER086W		5	328477	330207	W		2011-02-03	1996-07-31	
-S000000889	ORF	Verified	YER087W	AIM10	putative proline--tRNA ligase AIM10	chromosome 5		5	330576	332306	W		2011-02-03	1996-07-31	Protein with similarity to tRNA synthetases; non-tagged protein is detected in purified mitochondria; null mutant is viable and displays elevated frequency of mitochondrial genome loss
-S000033504	CDS					YER087W		5	330576	332306	W		2011-02-03	1996-07-31	
-S000028753	ORF	Dubious	YER087C-A			chromosome 5		5	332368	331817	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF AIM10/YER087W
-S000033447	CDS					YER087C-A		5	332368	331817	C		2011-02-03	2003-07-29	
-S000002128	ORF	Verified	YER087C-B	SBH1	Arf family guanine nucleotide exchange factor SBH1|YER087C-A|SEB1	chromosome 5	L000002846|L000004137	5	332830	332582	C		2011-02-03	1996-07-31	Beta subunit of Sec61p ER translocation complex (Sec61p-Sss1p-Sbh1p); involved in protein translocation into the endoplasmic reticulum; interacts with the exocyst complex and also with Rtn1p; cotranslationally N-acetylated by NatA; SBH1 has a paralog, SBH2, that arose from the whole genome duplication
-S000037045	CDS					YER087C-B		5	332830	332582	C		2011-02-03	1996-07-31	
-S000000890	ORF	Verified	YER088C	DOT6	PBF2	chromosome 5	L000004393	5	335188	333176	C		2011-02-03	1996-07-31	Protein involved in rRNA and ribosome biogenesis; activated in stochastic pulses of nuclear localization; binds polymerase A and C motif; subunit of the RPD3L histone deacetylase complex; has chromatin specific SANT domain; involved in telomeric gene silencing and filamentation; relative distribution to the nucleus increases upon DNA replication stress
-S000033553	CDS					YER088C		5	335188	333176	C		2011-02-03	1996-07-31	
-S000028623	ORF	Dubious	YER088W-B			chromosome 5		5	335927	336073	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the ORF PTC2/YER089C; identified by gene-trapping, expression analysis, and homology searching
-S000031475	CDS					YER088W-B		5	335927	336073	W		2011-02-03	2003-07-29	
-S000028754	ORF	Dubious	YER088C-A			chromosome 5		5	336019	335696	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORFs PTC2/YER089C and YER088W-B
-S000033448	CDS					YER088C-A		5	336019	335696	C		2011-02-03	2003-07-29	
-S000000891	ORF	Verified	YER089C	PTC2	type 2C protein phosphatase PTC2	chromosome 5	L000003403	5	337340	335946	C		2011-02-03	1996-07-31	Type 2C protein phosphatase (PP2C); dephosphorylates Hog1p to limit maximal osmostress induced kinase activity; dephosphorylates Ire1p to downregulate the unfolded protein response; dephosphorylates Cdc28p; inactivates the DNA damage checkpoint; PTC2 has a paralog, PTC3, that arose from the whole genome duplication
-S000033635	CDS					YER089C		5	337340	335946	C		2011-02-03	1996-07-31	
-S000000892	ORF	Verified	YER090W	TRP2	anthranilate synthase TRP2	chromosome 5	L000002353	5	337949	339472	W	76	2011-02-03	1996-07-31	Anthranilate synthase; catalyzes the initial step of tryptophan biosynthesis, forms multifunctional hetero-oligomeric anthranilate synthase:indole-3-glycerol phosphate synthase enzyme complex with Trp3p
-S000035640	CDS					YER090W		5	337949	339472	W		2011-02-03	1996-07-31	
-S000029725	ORF	Dubious	YER090C-A			chromosome 5		5	338411	338322	C		2011-02-03	2004-08-27	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036876	CDS					YER090C-A		5	338411	338322	C		2011-02-03	2004-08-27	
-S000000893	ORF	Verified	YER091C	MET6	5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase	chromosome 5	L000001081	5	342167	339864	C	77	2011-02-03	1996-07-31	Cobalamin-independent methionine synthase; involved in methionine biosynthesis and regeneration; requires a minimum of two glutamates on the methyltetrahydrofolate substrate, similar to bacterial metE homologs
-S000035673	CDS					YER091C		5	342167	339864	C		2011-02-03	1996-07-31	
-S000007238	ORF	Dubious	YER091C-A			chromosome 5		5	342611	342390	C		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034939	CDS					YER091C-A		5	342611	342390	C		2011-02-03	1999-07-17	
-S000000894	ORF	Verified	YER092W	IES5		chromosome 5		5	342855	343232	W		2011-02-03	1996-07-31	Non-essential INO80 chromatin remodeling complex subunit; deletion affects telomere maintenance via recombination
-S000035789	CDS					YER092W		5	342855	343232	W		2011-02-03	1996-07-31	
-S000000895	ORF	Verified	YER093C	TSC11	TORC2 complex subunit TSC11|AVO3	chromosome 5		5	347612	343320	C		2011-02-03	1996-07-31	Subunit of TORC2 (Tor2p-Lst8p-Avo1-Avo2-Tsc11p-Bit61p); TORC2 is a membrane-associated complex that regulates actin cytoskeletal dynamics during polarized growth and cell wall integrity; involved in sphingolipid metabolism; contains a RasGEFN domain
-S000035826	CDS					YER093C		5	347612	343320	C		2011-02-03	1996-07-31	
-S000002960	ORF	Verified	YER093C-A	AIM11	GEP8	chromosome 5		5	348400	347912	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant is viable but shows increased loss of mitochondrial genome and synthetic interaction with prohibitin (phb1); contains an intron; SWAT-GFP and mCherry fusion proteins localize to the mitochondria; YER093C-A has a paralog, YBL059W, that arose from the whole genome duplication
-S000030866	CDS					YER093C-A		5	348201	347912	C		2011-02-03	1996-07-31	
-S000030865	CDS					YER093C-A		5	348400	348277	C		2011-02-03	1996-07-31	
-S000030867	intron					YER093C-A		5	348276	348202	C		2011-02-03	1996-07-31	
-S000000896	ORF	Verified	YER094C	PUP3	proteasome core particle subunit beta 3|SCS32	chromosome 5	L000001532	5	349346	348729	C		2011-02-03	1996-07-31	Beta 3 subunit of the 20S proteasome; involved in ubiquitin-dependent catabolism; human homolog is subunit C10
-S000035946	CDS					YER094C		5	349346	348729	C		2011-02-03	1996-07-31	
-S000000897	ORF	Verified	YER095W	RAD51	recombinase RAD51|MUT5	chromosome 5	L000001571	5	349980	351182	W	78	2011-02-03	1996-07-31	Strand exchange protein; forms a helical filament with DNA that searches for homology; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; homolog of Dmc1p and bacterial RecA protein
-S000036878	CDS					YER095W		5	349980	351182	W		2011-02-03	1996-07-31	
-S000000898	ORF	Verified	YER096W	SHC1		chromosome 5	L000001879	5	351698	353236	W	79.23	2011-02-03	1996-07-31	Sporulation-specific activator of Chs3p (chitin synthase III); required for the synthesis of the chitosan layer of ascospores; transcriptionally induced at alkaline pH; SHC1 has a paralog, SKT5, that arose from the whole genome duplication
-S000036926	CDS					YER096W		5	351698	353236	W		2011-02-03	1996-07-31	
-S000006915	long_terminal_repeat		YERWdelta12			chromosome 5		5	353399	353735	W		2011-02-03	2000-05-19	Ty1 LTR
-S000077388	ARS		ARS516		ARSV-354	chromosome 5		5	353578	353636			2014-11-18	2014-11-18|2004-10-19|2006-10-02	Autonomously Replicating Sequence
-S000178090	ARS_consensus_sequence					ARS516		5	353582	353598	W		2014-11-18	2014-11-18	
-S000006916	long_terminal_repeat		YERWdelta13			chromosome 5		5	354136	354850	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006908	long_terminal_repeat		YERCtau2			chromosome 5		5	354730	354360	C		2011-02-03	2000-05-19	Ty4 LTR
-S000006905	long_terminal_repeat		YERCsigma2			chromosome 5		5	354917	354851	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006551	tRNA_gene		tE(UUC)E2			chromosome 5	L000003795	5	354934	355005	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034437	noncoding_exon					tE(UUC)E2		5	354934	355005	W		2011-02-03	2000-05-19	
-S000000899	ORF	Dubious	YER097W			chromosome 5		5	355140	355469	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036977	CDS					YER097W		5	355140	355469	W		2011-02-03	1996-07-31	
-S000000900	ORF	Verified	YER098W	UBP9	putative ubiquitin-specific protease UBP9	chromosome 5	L000003170	5	355466	357730	W		2011-02-03	1996-07-31	Ubiquitin-specific protease that cleaves ubiquitin-protein fusions; UBP9 has a paralog, UBP13, that arose from the whole genome duplication
-S000037747	CDS					YER098W		5	355466	357730	W		2011-02-03	1996-07-31	
-S000000901	ORF	Verified	YER099C	PRS2	ribose phosphate diphosphokinase subunit PRS2	chromosome 5	L000001512	5	359061	358105	C		2011-02-03	1996-07-31	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase, synthesizes PRPP; which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes; PRS2 has a paralog, PRS4, that arose from the whole genome duplication
-S000037788	CDS					YER099C		5	359061	358105	C		2011-02-03	1996-07-31	
-S000000902	ORF	Verified	YER100W	UBC6	E2 ubiquitin-conjugating protein UBC6|DOA2	chromosome 5	L000002409	5	359562	360314	W		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme involved in ERAD; located at the cytosolic side of the ER membrane; tail region contains a transmembrane segment at the C-terminus; substrate of the ubiquitin-proteasome pathway; ER-associated protein degradation is also known as ERAD
-S000035454	CDS					YER100W		5	359562	360314	W		2011-02-03	1996-07-31	
-S000000903	ORF	Verified	YER101C	AST2		chromosome 5	L000000134	5	361794	360502	C		2011-02-03	1996-07-31	Lipid raft associated protein; overexpression restores Pma1p localization to lipid rafts which is required for targeting of Pma1p to the plasma membrane; sometimes classified in the medium-chain dehydrogenase/reductases (MDRs) superfamily; AST2 has a paralog, AST1, that arose from the whole genome duplication
-S000036309	CDS					YER101C		5	361794	360502	C		2011-02-03	1996-07-31	
-S000000904	ORF	Verified	YER102W	RPS8B	eS8|ribosomal 40S subunit protein S8B|S8e|rp19|YS9|S8B|S14B	chromosome 5	L000001754	5	363100	363702	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S8, no bacterial homolog; RPS8B has a paralog, RPS8A, that arose from the whole genome duplication
-S000036450	CDS					YER102W		5	363100	363702	W		2011-02-03	1996-07-31	
-S000122096	five_prime_UTR_intron					YER102W		5	362733	363092	W		2011-02-03	2007-04-04	
-S000000905	ORF	Verified	YER103W	SSA4	Hsp70 family chaperone SSA4|YG107	chromosome 5	L000002072	5	364589	366517	W		2011-02-03	1996-07-31	Heat shock protein that is highly induced upon stress; plays a role in SRP-dependent cotranslational protein-membrane targeting and translocation; member of the HSP70 family; cytoplasmic protein that concentrates in nuclei upon starvation; SSA4 has a paralog, SSA3, that arose from the whole genome duplication
-S000036552	CDS					YER103W		5	364589	366517	W		2011-02-03	1996-07-31	
-S000000906	ORF	Verified	YER104W	RTT105		chromosome 5	S000007476	5	366802	367428	W		2011-02-03	1996-07-31	Protein with a role in regulation of Ty1 transposition
-S000037250	CDS					YER104W		5	366802	367428	W		2011-02-03	1996-07-31	
-S000000907	ORF	Verified	YER105C	NUP157		chromosome 5	L000003139	5	372013	367838	C		2011-02-03	1996-07-31	Subunit of the inner ring of the nuclear pore complex (NPC); contributes to NPC assembly and tethering of DNA to the nuclear periphery; both Nup170p and NUP157p are similar to human Nup155p; NUP157 has a paralog, NUP170, that arose from the whole genome duplication
-S000037287	CDS					YER105C		5	372013	367838	C		2011-02-03	1996-07-31	
-S000000908	ORF	Verified	YER106W	MAM1		chromosome 5		5	372326	373234	W		2011-02-03	1996-07-31	Monopolin; meiosis-specific kinetochore-associated protein involved in monopolar attachment of sister kinetochores to the meiotic spindle; subunit of monopolin, a complex that prevents biorientation of sister kinetochores to ensure homolog biorientation during meiosis I; regulates the conformation, enzyme kinetics and substrate specificity of the Dsn1p kinase, Hrr1p; expressed only during the first meiotic division
-S000037445	CDS					YER106W		5	372326	373234	W		2011-02-03	1996-07-31	
-S000028755	ORF	Dubious	YER107W-A			chromosome 5		5	374394	374714	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF GLE2/YER107C
-S000033449	CDS					YER107W-A		5	374394	374714	W		2011-02-03	2003-07-29	
-S000000909	ORF	Verified	YER107C	GLE2	RNA export factor GLE2|RAE1	chromosome 5	L000004084	5	374545	373448	C		2011-02-03	1996-07-31	RNA export factor associated with the nuclear pore complex (NPC); associates with NUP116p; required for polyadenylated RNA export but not for protein import; homologous to S. pombe Rae1p and human RAE1
-S000037509	CDS					YER107C		5	374545	373448	C		2011-02-03	1996-07-31	
-S000000911	blocked_reading_frame		YER109C	FLO8	transcription factor FLO8|STA10|YER108C|PHD5	chromosome 5	L000003202|S000000910|S000029523|L000004208	5	377614	375215	C		2011-02-03	1999-07-17|1996-07-31	Transcription factor; required for flocculation, diploid filamentous growth, and haploid invasive growth; forms a heterodimer with Mss1p that interacts with the Swi/Snf complex during transcriptional activation of FLO1, FLO11, and STA1; S. cerevisiae genome reference strain S288C contains an internal in-frame stop at codon 142, which in other strains encodes tryptophan
-S000030400	CDS					YER109C		5	377614	375215	C		2011-02-03	1999-07-17|1996-07-31	
-S000000912	ORF	Verified	YER110C	KAP123	YRB4	chromosome 5	L000003445|L000003466	5	382103	378762	C		2011-02-03	1996-07-31	Karyopherin beta; mediates nuclear import of ribosomal proteins prior to assembly into ribosomes and import of histones H3 and H4; localizes to the nuclear pore, nucleus, and cytoplasm; exhibits genetic interactions with RAI1
-S000030722	CDS					YER110C		5	382103	378762	C		2011-02-03	1996-07-31	
-S000000913	ORF	Verified	YER111C	SWI4	SBF complex DNA-binding subunit SWI4|ART1	chromosome 5	L000000124|L000002252	5	385876	382595	C		2011-02-03	1996-07-31	DNA binding component of the SBF complex (Swi4p-Swi6p); a transcriptional activator that in concert with MBF (Mbp1-Swi6p) regulates late G1-specific transcription of targets including cyclins and genes required for DNA synthesis and repair; Slt2p-independent regulator of cold growth; acetylation at two sites, K1016 and K1066, regulates interaction with Swi6p
-S000031559	CDS					YER111C		5	385876	382595	C		2011-02-03	1996-07-31	
-S000000914	ORF	Verified	YER112W	LSM4	U6 snRNA complex subunit LSM4|USS1|SDB23	chromosome 5	L000002447	5	387232	387795	W		2011-02-03	1996-07-31	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; forms cytoplasmic foci upon DNA replication stress
-S000031681	CDS					YER112W		5	387232	387795	W		2011-02-03	1996-07-31	
-S000000915	ORF	Verified	YER113C	TMN3		chromosome 5		5	390052	387932	C		2011-02-03	1996-07-31	Protein with a role in cellular adhesion and filamentous growth; similar to Emp70p and Tmn2p; member of Transmembrane Nine family with 9 transmembrane segments; localizes to Golgi; induced by 8-methoxypsoralen plus UVA irradiation
-S000031762	CDS					YER113C		5	390052	387932	C		2011-02-03	1996-07-31	
-S000000916	ORF	Verified	YER114C	BOI2	BEB1	chromosome 5	L000000166|L000002916	5	393712	390590	C		2011-02-03	1996-07-31	Protein implicated in polar growth, functionally redundant with Boi1p; interacts with bud-emergence protein Bem1p; contains an SH3 (src homology 3) domain and a PH (pleckstrin homology) domain; BOI2 has a paralog, BOI1, that arose from the whole genome duplication
-S000031880	CDS					YER114C		5	393712	390590	C		2011-02-03	1996-07-31	
-S000000917	ORF	Verified	YER115C	SPR6		chromosome 5	L000002023	5	394867	394292	C	93	2011-02-03	1996-07-31	Protein of unknown function; expressed during sporulation; not required for sporulation, but gene exhibits genetic interactions with other genes required for sporulation
-S000032791	CDS					YER115C		5	394867	394292	C		2011-02-03	1996-07-31	
-S000000918	ORF	Verified	YER116C	SLX8	SUMO-targeted ubiquitin ligase complex subunit SLX8	chromosome 5		5	396172	395348	C		2011-02-03	1996-07-31	Subunit of Slx5-Slx8 SUMO-targeted ubiquitin ligase (STUbL) complex; role in proteolysis of spindle positioning protein Kar9, DNA repair proteins Rad52p and Rad57p; stimulated by SUMO-modified substrates; contains a C-terminal RING domain; forms nuclear foci upon DNA replication stress; required for maintenance of genome integrity like human ortholog RNF
-S000032881	CDS					YER116C		5	396172	395348	C		2011-02-03	1996-07-31	
-S000000919	ORF	Verified	YER117W	RPL23B	uL14|ribosomal 60S subunit protein L23B|L14|YL32|L23B|L17aB	chromosome 5	L000001717	5	396769	397653	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L23B; homologous to mammalian ribosomal protein L23 and bacterial L14; RPL23B has a paralog, RPL23A, that arose from the whole genome duplication
-S000033044	CDS					YER117W		5	396769	396810	W		2011-02-03	1996-07-31	
-S000033045	CDS					YER117W		5	397282	397653	W		2011-02-03	1996-07-31	
-S000033046	intron					YER117W		5	396811	397281	W		2011-02-03	1996-07-31	
-S000000920	ORF	Verified	YER118C	SHO1	osmosensor SHO1|SSU81	chromosome 5	L000002632|L000002823	5	399055	397952	C		2011-02-03	1996-07-31	Transmembrane osmosensor for filamentous growth and HOG pathways; involved in activation of the Cdc42p- and MAP kinase-dependent filamentous growth pathway and the high-osmolarity glycerol (HOG) response pathway; phosphorylated by Hog1p; interacts with Pbs2p, Msb2p, Hkr1p, and Ste11p
-S000033082	CDS					YER118C		5	399055	397952	C		2011-02-03	1996-07-31	
-S000000921	ORF	Verified	YER119C	AVT6	aspartate/glutamate transporter	chromosome 5		5	400842	399496	C		2011-02-03	1996-07-31	Vacuolar aspartate and glutamate exporter; member of a family of seven genes (AVT1-7) related to vesicular GABA-glycine transporters; involved in compartmentalizing acidic amino acids in response to nitrogen starvation; AVT6 has a paralog, AVT5, that arose from the whole genome duplication
-S000033839	CDS					YER119C		5	400842	399496	C		2011-02-03	1996-07-31	
-S000000922	ORF	Verified	YER120W	SCS2	phosphatidylinositol-binding protein SCS2	chromosome 5	L000002629	5	401135	401869	W		2011-02-03	1996-07-31	Integral ER membrane protein, regulates phospholipid metabolism; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to plasma membrane (PM) and regulate PI4P levels by controlling access of Sac1p phosphatase to substrate PI4P in the PM; interacts with FFAT motifs in Opi1p, Swh1p, Osh2p, and Osh3p; involved in telomeric silencing; VAP homolog; SCS2 has a paralog, SCS22, that arose from the whole genome duplication
-S000036090	CDS					YER120W		5	401135	401869	W		2011-02-03	1996-07-31	
-S000002961	ORF	Dubious	YER119C-A			chromosome 5		5	401238	400867	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; deletion mutation blocks replication of Brome mosaic virus in S. cerevisiae, but this is likely due to effects on the overlapping gene SCS2
-S000033092	CDS					YER119C-A		5	401238	400867	C		2011-02-03	1996-07-31	
-S000000923	ORF	Uncharacterized	YER121W			chromosome 5		5	402375	402719	W		2011-02-03	1996-07-31	Putative protein of unknown function; may be involved in phosphatase regulation and/or generation of precursor metabolites and energy
-S000036211	CDS					YER121W		5	402375	402719	W		2011-02-03	1996-07-31	
-S000000924	ORF	Verified	YER122C	GLO3	ADP-ribosylation factor GTPase-activating protein	chromosome 5	L000000713	5	404352	402871	C		2011-02-03	1996-07-31	ADP-ribosylation factor GTPase activating protein (ARF GAP); involved in ER-Golgi transport; shares functional similarity with Gcs1p
-S000036231	CDS					YER122C		5	404352	402871	C		2011-02-03	1996-07-31	
-S000000925	ORF	Verified	YER123W	YCK3	casein kinase YCK3|CKI3	chromosome 5	L000002915	5	404813	406387	W		2011-02-03	2000-03-16|1996-07-31	Palmitoylated vacuolar membrane-localized casein kinase I isoform; negatively regulates vacuole fusion during hypertonic stress via phosphorylation of Vps41p; shares essential functions with Hrr25p; regulates vesicle fusion in AP-3 pathway
-S000036985	CDS					YER123W		5	404813	406387	W		2011-02-03	2000-03-16|1996-07-31	
-S000077389	ARS		ARS517		ARSV-407	chromosome 5		5	406752	406953			2011-02-03	2004-10-19|2006-09-07	Autonomously Replicating Sequence
-S000000926	ORF	Verified	YER124C	DSE1		chromosome 5		5	409063	407342	C		2011-02-03	1996-07-31	Daughter cell-specific protein; may regulate cross-talk between the mating and filamentation pathways; deletion affects cell separation after division and sensitivity to alpha-factor and drugs affecting the cell wall; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000037009	CDS					YER124C		5	409063	407342	C		2011-02-03	1996-07-31	
-S000000927	ORF	Verified	YER125W	RSP5	NEDD4 family E3 ubiquitin-protein ligase|SMM1|UBY1|NPI1|MUT2|MDP1	chromosome 5	L000001054|L000001779|L000001220	5	410189	412618	W		2011-02-03	1996-07-31	NEDD4 family E3 ubiquitin ligase; regulates processes including: MVB sorting, the heat shock response, transcription, endocytosis and ribosome stability; ubiquitinates Sec23p, Sna3p, Ste4p, Nfi1p, Rpo21p and Sem1p; autoubiquitinates; deubiquitinated by Ubp2p; regulated by SUMO ligase Siz1p, in turn regulates Siz1p SUMO ligase activity; required for efficient Golgi-to-ER trafficking in COPI mutants; mutant tolerates aneuploidy; human homolog implicated in Liddle syndrome
-S000037135	CDS					YER125W		5	410189	412618	W		2011-02-03	1996-07-31	
-S000000928	ORF	Verified	YER126C	NSA2	rRNA-processing protein NSA2	chromosome 5		5	414179	413394	C		2011-02-03	1996-07-31	Protein constituent of 66S pre-ribosomal particles; contributes to processing of the 27S pre-rRNA; recruited by ribosomal proteins L17, L35, and L37 to assembling ribosomes after 27SB pre-rRNA is generated, immediately preceding removal of ITS2
-S000037193	CDS					YER126C		5	414179	413394	C		2011-02-03	1996-07-31	
-S000000929	ORF	Verified	YER127W	LCP5		chromosome 5	L000004265	5	414481	415554	W		2011-02-03	1996-07-31	Essential protein involved in maturation of 18S rRNA; depletion leads to inhibited pre-rRNA processing and reduced polysome levels; localizes primarily to the nucleolus
-S000029893	CDS					YER127W		5	414481	415554	W		2011-02-03	1996-07-31	
-S000000930	ORF	Verified	YER128W	VFA1		chromosome 5		5	415859	416470	W		2011-02-03	1996-07-31	Protein that interacts with Vps4p and has a role in vacuolar sorting; stimulates the ATPase activity of Vps4; localizes to endosomes in a Vps4-dependent manner; overexpression causes canavanine sensitivity and confers a partial class D vacuole morphology
-S000030007	CDS					YER128W		5	415859	416470	W		2011-02-03	1996-07-31	
-S000000931	ORF	Verified	YER129W	SAK1	serine/threonine protein kinase SAK1|PAK1	chromosome 5	L000001333	5	417281	420709	W		2011-02-03	1996-07-31	Upstream serine/threonine kinase for the SNF1 complex; plays a role in pseudohyphal groth; partially redundant with Elm1p and Tos3p; members of this family have functional orthology with LKB1, a mammalian kinase associated with Peutz-Jeghers cancer-susceptibility syndrome; SAK1 has a paralog, TOS3, that arose from the whole genome duplication
-S000030128	CDS					YER129W		5	417281	420709	W		2011-02-03	1996-07-31	
-S000000932	ORF	Verified	YER130C	COM2		chromosome 5		5	422446	421115	C		2011-02-03	1996-07-31	Transcription factor that binds IME1 Upstream Activation Signal (UAS)ru; COM2 transcription is regulated by Haa1p, Sok2p and Zap1p transcriptional activators; may bind the IME1 promoter under all growth conditions to negatively regulate its transcription in the absence of a positive regulator that binds more effectively; repressor activity may depend on phosphorylation by PKA; C. albicans homolog (MNL1) plays a role in adaptation to stress
-S000031102	CDS					YER130C		5	422446	421115	C		2011-02-03	1996-07-31	
-S000000933	ORF	Verified	YER131W	RPS26B	eS26|ribosomal 40S subunit protein S26B|S26e|S26B	chromosome 5	L000001763	5	423952	424311	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S26, no bacterial homolog; RPS26B has a paralog, RPS26A, that arose from the whole genome duplication; human homolog can partially complement an RPS26A, RPS26B double null mutant; mutations in the human gene are associated with Diamond-Blackfan anemia
-S000031231	CDS					YER131W		5	423952	424311	W		2011-02-03	1996-07-31	
-S000122097	five_prime_UTR_intron					YER131W		5	423591	423951	W		2011-02-03	2007-04-04	
-S000006493	snoRNA_gene		snR4	SNR4		chromosome 5	L000001959	5	424698	424883	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA) but not shown to be active; no target site is predicted within the ribosomal RNAs
-S000034305	noncoding_exon					snR4		5	424698	424883	W		2011-02-03	2000-05-19	
-S000000934	ORF	Verified	YER132C	PMD1		chromosome 5	L000003968	5	430449	425188	C		2011-02-03	1996-07-31	Protein with an N-terminal kelch-like domain; putative negative regulator of early meiotic gene expression; required, with Mds3p, for growth under alkaline conditions; PMD1 has a paralog, MDS3, that arose from the whole genome duplication
-S000032160	CDS					YER132C		5	430449	425188	C		2011-02-03	1996-07-31	
-S000006443	snoRNA_gene		snR52	SNR52		chromosome 5	L000004521	5	431220	431129	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2921 and small subunit (SSU) rRNA at position A420
-S000030733	noncoding_exon					snR52		5	431220	431129	C		2011-02-03	2000-05-19	
-S000006895	long_terminal_repeat		YERCdelta14			chromosome 5		5	431822	431490	C		2011-02-03	2000-05-19	Ty1 LTR
-S000000935	ORF	Verified	YER133W	GLC7	type 1 serine/threonine-protein phosphatase catalytic subunit GLC7|DIS2S1|PP1|DIS2|CID1	chromosome 5	L000000706	5	432495	433958	W		2011-02-03	1996-07-31	Type 1 S/T protein phosphatase (PP1) catalytic subunit; involved in glycogen metabolism, sporulation and mitotic progression; interacts with multiple regulatory subunits; regulates actomyosin ring formation; subunit of CPF; recruited to mating projections by Afr1p interaction; regulates nucleocytoplasmic shuttling of Hxk2p; import into the nucleus is inhibited during spindle assembly checkpoint arrest; involved in dephosphorylating Rps6a/b and Bnr1p
-S000032307	CDS					YER133W		5	432495	432671	W		2011-02-03	1996-07-31	
-S000032308	CDS					YER133W		5	433197	433958	W		2011-02-03	1996-07-31	
-S000032309	intron					YER133W		5	432672	433196	W		2011-02-03	1996-07-31	
-S000006594	tRNA_gene		tH(GUG)E2			chromosome 5	L000003803	5	434612	434541	C		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
-S000035212	noncoding_exon					tH(GUG)E2		5	434612	434541	C		2011-02-03	2000-05-19	
-S000006906	long_terminal_repeat		YERCsigma3			chromosome 5		5	434971	434631	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006896	long_terminal_repeat		YERCdelta15			chromosome 5		5	435447	435128	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006619	tRNA_gene		tK(CUU)E2			chromosome 5	L000003802	5	435824	435752	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000037795	noncoding_exon					tK(CUU)E2		5	435824	435752	C		2011-02-03	2000-05-19	
-S000006897	long_terminal_repeat		YERCdelta16			chromosome 5		5	436277	435946	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006909	long_terminal_repeat		YERCtau3			chromosome 5		5	436605	436279	C		2011-02-03	2000-05-19	Ty4 LTR
-S000028756	ORF	Dubious	YER133W-A			chromosome 5		5	437191	437532	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF YER134C
-S000033450	CDS					YER133W-A		5	437191	437532	W		2011-02-03	2003-07-29	
-S000000936	ORF	Verified	YER134C		Mg-dependent acid phosphatase|MDP-1	chromosome 5		5	437803	437267	C		2011-02-03	1996-07-31	Magnesium-dependent acid phosphatase; member of the haloacid dehalogenase superfamily; non-essential gene
-S000032339	CDS					YER134C		5	437803	437267	C		2011-02-03	1996-07-31	
-S000000937	ORF	Uncharacterized	YER135C			chromosome 5		5	438344	437952	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YER135C is not an essential gene
-S000032452	CDS					YER135C		5	438344	437952	C		2011-02-03	1996-07-31	
-S000006753	tRNA_gene		tV(AAC)E1			chromosome 5	L000003796	5	438700	438773	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000035942	noncoding_exon					tV(AAC)E1		5	438700	438773	W		2011-02-03	2000-05-19	
-S000077390	ARS		ARS518		ARSV-439	chromosome 5		5	438934	439182			2011-02-03	2004-10-19|2006-09-07	Autonomously Replicating Sequence
-S000178091	ARS_consensus_sequence					ARS518		5	439102	439086	C		2014-11-18	2014-11-18	
-S000000938	ORF	Verified	YER136W	GDI1	SEC19	chromosome 5	L000000699	5	439616	440971	W		2011-02-03	1996-07-31	GDP dissociation inhibitor; regulates vesicle traffic in secretory pathways by regulating the dissociation of GDP from the Sec4/Ypt/rab family of GTP binding proteins
-S000033298	CDS					YER136W		5	439616	440971	W		2011-02-03	1996-07-31	
-S000028757	ORF	Dubious	YER137W-A			chromosome 5		5	441575	441880	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YER137C
-S000033451	CDS					YER137W-A		5	441575	441880	W		2011-02-03	2003-07-29	
-S000000939	ORF	Uncharacterized	YER137C			chromosome 5		5	441819	441373	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000033341	CDS					YER137C		5	441819	441373	C		2011-02-03	1996-07-31	
-S000006491	ncRNA_gene		SCR1	SCR1		chromosome 5	L000001818	5	441987	442508	W		2011-02-03	2000-05-19|2004-10-08	RNA subunit of the Signal Recognition Particle (SRP)
-S000034550	noncoding_exon					SCR1		5	441987	442508	W		2011-02-03	2000-05-19|2004-10-08	
-S000077391	ARS		ARS519			chromosome 5		5	442416	442735			2011-02-03	2004-10-19	Autonomously Replicating Sequence
-S000006917	long_terminal_repeat		YERWdelta17			chromosome 5		5	442734	443072	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006602	tRNA_gene		tI(AAU)E1			chromosome 5	L000003801	5	443275	443202	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000037353	noncoding_exon					tI(AAU)E1		5	443275	443202	C		2011-02-03	2000-05-19	
-S000006898	long_terminal_repeat		YERCdelta19			chromosome 5		5	443733	443397	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006919	long_terminal_repeat		YERWdelta21			chromosome 5		5	444834	445139	W		2011-02-03	2000-05-19	Ty1 LTR
-S000000940	transposable_element_gene		YER138C		gag-pol fusion protein	chromosome 5		5	449024	443756	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000033407	CDS					YER138C		5	447721	443756	C		2011-02-03	1996-07-31	
-S000033406	CDS					YER138C		5	449024	447723	C		2011-02-03	1996-07-31	
-S000033408	plus_1_translational_frameshift					YER138C		5	447722	447722	C		2011-02-03	1996-07-31	
-S000007402	transposable_element_gene		YER137C-A		gag protein	chromosome 5		5	449024	447702	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000034807	CDS					YER137C-A		5	449024	447702	C		2011-02-03	1999-07-17	
-S000006910	LTR_retrotransposon		YERCTy1-1		Ty1	chromosome 5		5	449320	443397	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000006899	long_terminal_repeat		YERCdelta20			chromosome 5		5	449320	448984	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007239	ORF	Uncharacterized	YER138W-A			chromosome 5		5	449474	449578	W		2011-02-03	1999-07-17	Putative protein of unknown function; YER138W-A has a paralog, YBL107W-A, that arose from a single-locus duplication
-S000030980	CDS					YER138W-A		5	449474	449578	W		2011-02-03	1999-07-17	
-S000000941	ORF	Verified	YER139C	RTR1	RNA polymerase II subunit B1 CTD phosphatase RTR1	chromosome 5		5	451243	450563	C		2011-02-03	1996-07-31	CTD phosphatase; dephosphorylates S5-P in the C-terminal domain of Rpo21p; has a cysteine-rich motif required for function and conserved in eukaryotes; shuttles between the nucleus and cytoplasm; RTR1 has a paralog, RTR2, that arose from the whole genome duplication
-S000034331	CDS					YER139C		5	451243	450563	C		2011-02-03	1996-07-31	
-S000000942	ORF	Verified	YER140W	EMP65		chromosome 5		5	451565	453235	W		2011-02-03	1996-07-31	Integral membrane protein of the ER; forms an ER-membrane associated protein complex with Slp1p; identified along with SLP1 in a screen for mutants defective in the unfolded protein response (UPR); proposed to function in the folding of integral membrane proteins; interacts genetically with MPS3; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000035305	CDS					YER140W		5	451565	453235	W		2011-02-03	1996-07-31	
-S000000943	ORF	Verified	YER141W	COX15		chromosome 5	L000002578	5	453459	454919	W		2011-02-03	1996-07-31	Protein required for the hydroxylation of heme O to form heme A; heme A is an essential prosthetic group for cytochrome c oxidase
-S000035366	CDS					YER141W		5	453459	454919	W		2011-02-03	1996-07-31	
-S000000944	ORF	Verified	YER142C	MAG1	MMS5	chromosome 5	L000000976	5	456036	455146	C	110	2011-02-03	1996-07-31	3-methyl-adenine DNA glycosylase; involved in protecting DNA against alkylating agents; initiates base excision repair by removing damaged bases to create abasic sites that are subsequently repaired; protein abundance increases in response to DNA replication stress
-S000035403	CDS					YER142C		5	456036	455146	C		2011-02-03	1996-07-31	
-S000000945	ORF	Verified	YER143W	DDI1	VSM1	chromosome 5	L000004257	5	456319	457605	W		2011-02-03	1996-07-31	DNA damage-inducible v-SNARE binding protein; role in suppression of protein secretion; may play a role in S-phase checkpoint control; has ubiquitin-associated (UBA), ubiquitin-like (UBL), and retroviral-like proteinase (RVP) domains
-S000035500	CDS					YER143W		5	456319	457605	W		2011-02-03	1996-07-31	
-S000000946	ORF	Verified	YER144C	UBP5	putative ubiquitin-specific protease UBP5	chromosome 5	L000002419	5	460223	457806	C		2011-02-03	1996-07-31	Putative ubiquitin-specific protease; concentrates at the bud neck; UBP5 has a paralog, DOA4, that arose from the whole genome duplication
-S000035528	CDS					YER144C		5	460223	457806	C		2011-02-03	1996-07-31	
-S000000947	ORF	Verified	YER145C	FTR1	high-affinity iron permease FTR1	chromosome 5	L000003066	5	461740	460526	C		2011-02-03	1996-07-31	High affinity iron permease; involved in the transport of iron across the plasma membrane; forms complex with Fet3p; expression is regulated by iron; protein abundance increases in response to DNA replication stress
-S000035592	CDS					YER145C		5	461740	460526	C		2011-02-03	1996-07-31	
-S000000948	ORF	Verified	YER146W	LSM5	RNA-binding protein LSM5	chromosome 5	L000004684	5	462585	462866	W		2011-02-03	1996-07-31	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA
-S000036550	CDS					YER146W		5	462585	462866	W		2011-02-03	1996-07-31	
-S000028758	ORF	Dubious	YER145C-A			chromosome 5		5	462823	462386	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps verified ORF LSM5/YER146W
-S000033452	CDS					YER145C-A		5	462823	462386	C		2011-02-03	2003-07-29	
-S000000949	ORF	Verified	YER147C	SCC4	cohesin-loading factor complex subunit SCC4	chromosome 5		5	464842	462968	C		2011-02-03	1996-07-31	Subunit of cohesin loading factor (Scc2p-Scc4p); complex is required for the loading of cohesin complexes onto chromosomes; involved in establishing sister chromatid cohesion during double-strand break repair via phosphorylated histone H2AX
-S000036587	CDS					YER147C		5	464842	462968	C		2011-02-03	1996-07-31	
-S000000950	ORF	Verified	YER148W	SPT15	TATA-binding protein|TBP|TBP1|BTF1	chromosome 5	L000002037	5	465303	466025	W	110	2011-02-03	1996-07-31	TATA-binding protein (TBP); general transcription factor that interacts with other factors to form the preinitiation complex at promoters; essential for viability, highly conserved; yeast gene can complement mutations in human homolog TBP
-S000037378	CDS					YER148W		5	465303	466025	W		2011-02-03	1996-07-31	
-S000028759	ORF	Dubious	YER147C-A			chromosome 5		5	465613	465203	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SPT15/YER148W
-S000033453	CDS					YER147C-A		5	465613	465203	C		2011-02-03	2003-07-29	
-S000028760	ORF	Dubious	YER148W-A			chromosome 5		5	466185	466763	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF PEA2/YER149C
-S000033464	CDS					YER148W-A		5	466185	466763	W		2011-02-03	2003-07-29	
-S000000951	ORF	Verified	YER149C	PEA2	PPF2|DFG9	chromosome 5	L000003143	5	467470	466208	C		2011-02-03	1996-07-31	Coiled-coil 12S polarisome subunit; required for polarity establishment, apical bud growth, shmoo formation, filamentous differentiation; involved in Bni1p localization at sites of polarized growth, controlling polarized assembly of actin cables; role in apical growth affects diploid-specific bipolar bud site selection; retains Slt2p at bud tip to regulate ER inheritance; role in Ca2+ influx, cell fusion; S288C allele encoding Leu409 rather than Met linked with non-invasion
-S000037418	CDS					YER149C		5	467470	466208	C		2011-02-03	1996-07-31	
-S000000952	ORF	Verified	YER150W	SPI1		chromosome 5	L000004852	5	468370	468816	W		2011-02-03	1996-07-31	GPI-anchored cell wall protein involved in weak acid resistance; basal expression requires Msn2p/Msn4p; expression is induced under conditions of stress and during the diauxic shift; SPI1 has a paralog, SED1, that arose from the whole genome duplication
-S000030182	CDS					YER150W		5	468370	468816	W		2011-02-03	1996-07-31	
-S000006754	tRNA_gene		tV(AAC)E2			chromosome 5	L000003797	5	469457	469530	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000035943	noncoding_exon					tV(AAC)E2		5	469457	469530	W		2011-02-03	2000-05-19	
-S000000953	ORF	Verified	YER151C	UBP3	mRNA-binding ubiquitin-specific protease UBP3|BLM3	chromosome 5	L000002417|S000086717	5	472424	469686	C		2011-02-03	1996-07-31	Ubiquitin-specific protease involved in transport and osmotic response; negatively regulates Ras/PKA signaling; interacts with Bre5p to coregulate anterograde, retrograde transport between ER and Golgi; involved in transcription elongation in response to osmostress through phosphorylation at Ser695 by Hog1p; inhibitor of gene silencing; role in ribophagy; cleaves ubiquitin fusions but not polyubiquitin; protein abundance increases in response to DNA replication stress
-S000030288	CDS					YER151C		5	472424	469686	C		2011-02-03	1996-07-31	
-S000028761	ORF	Dubious	YER152W-A			chromosome 5		5	473485	474051	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YER152C
-S000033465	CDS					YER152W-A		5	473485	474051	W		2011-02-03	2003-07-29	
-S000000954	ORF	Verified	YER152C		2-aminoadipate transaminase	chromosome 5		5	473988	472657	C		2011-02-03	1996-07-31	Protein with 2-aminoadipate transaminase activity; shares amino acid similarity with the aminotransferases Aro8p and Aro9p; YER152C is not an essential gene
-S000030401	CDS					YER152C		5	473988	472657	C		2011-02-03	1996-07-31	
-S000000955	ORF	Verified	YER153C	PET122		chromosome 5	L000001397	5	474805	474041	C	118	2011-02-03	1996-07-31	Mitochondrial translational activator specific for the COX3 mRNA; acts together with Pet54p and Pet494p; located in the mitochondrial inner membrane
-S000031314	CDS					YER153C		5	474805	474041	C		2011-02-03	1996-07-31	
-S000000956	ORF	Verified	YER154W	OXA1	membrane insertase OXA1|PET1402	chromosome 5	L000001318	5	475020	476228	W	112	2011-02-03	1996-07-31	Mitochondrial inner membrane insertase; mediates the insertion of both mitochondrial- and nuclear-encoded proteins from the matrix into the inner membrane; also has a role in insertion of carrier proteins into the inner membrane; acts as a voltage-gated ion channel, activated by substrate peptides; interacts with mitochondrial ribosomes; conserved from bacteria to animals
-S000031446	CDS					YER154W		5	475020	476228	W		2011-02-03	1996-07-31	
-S000000957	ORF	Verified	YER155C	BEM2	TSL1|SUP9|IPL2	chromosome 5	L000000168	5	482848	476345	C	119	2011-02-03	1996-07-31	Rho GTPase activating protein (RhoGAP); involved in the control of cytoskeleton organization and cellular morphogenesis; required for bud emergence; potential GAP for Rho4p
-S000031485	CDS					YER155C		5	482848	476345	C		2011-02-03	1996-07-31	
-S000000958	ORF	Uncharacterized	YER156C			chromosome 5		5	484341	483325	C		2011-02-03	1996-07-31	Putative protein of unknown function; interacts with Hsp82p and copurifies with Ipl1p; expression is copper responsive and downregulated in strains deleted for MAC1, a copper-responsive transcription factor; similarity to mammalian MYG1
-S000031540	CDS					YER156C		5	484341	483325	C		2011-02-03	1996-07-31	
-S000000959	ORF	Verified	YER157W	COG3	Golgi transport complex subunit COG3|SEC34|GRD20	chromosome 5	L000004876	5	484788	487193	W		2011-02-03	1996-07-31	Essential component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
-S000032561	CDS					YER157W		5	484788	487193	W		2011-02-03	1996-07-31	
-S000006552	tRNA_gene		tE(UUC)E3			chromosome 5	L000003800	5	487402	487331	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
-S000034442	noncoding_exon					tE(UUC)E3		5	487402	487331	C		2011-02-03	2000-05-19	
-S000006920	long_terminal_repeat		YERWdelta22			chromosome 5		5	487834	488165	W		2011-02-03	2000-05-19	Ty1 LTR
-S000000960	ORF	Uncharacterized	YER158C			chromosome 5		5	490578	488857	C		2011-02-03	1996-07-31	Protein of unknown function; potentially phosphorylated by Cdc28p; YER158C has a paralog, AFR1, that arose from the whole genome duplication
-S000032616	CDS					YER158C		5	490578	488857	C		2011-02-03	1996-07-31	
-S000028624	ORF	Dubious	YER158W-A			chromosome 5		5	491487	491702	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031478	CDS					YER158W-A		5	491487	491702	W		2011-02-03	2003-07-29	
-S000000961	ORF	Verified	YER159C	BUR6	negative cofactor 2 transcription regulator complex subunit BUR6|NCB1	chromosome 5	L000003240	5	491958	491530	C		2011-02-03	1996-07-31	Subunit of a heterodimeric NC2 transcription regulator complex; complex binds to TBP and can repress transcription by preventing preinitiation complex assembly or stimulate activated transcription; homologous to human NC2alpha; complex also includes Ncb2p; bur6 ncb2 double mutation is functionally complemented by coexpression of human DRAP1 and DR1, although the single bur6 mutation is not complemented by its ortholog DRAP1
-S000032723	CDS					YER159C		5	491958	491530	C		2011-02-03	1996-07-31	
-S000006701	tRNA_gene		tR(ACG)E			chromosome 5	L000003799	5	492424	492352	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000030371	noncoding_exon					tR(ACG)E		5	492424	492352	C		2011-02-03	2000-05-19	
-S000006900	long_terminal_repeat		YERCdelta23			chromosome 5		5	492833	492695	C		2011-02-03	2000-05-19	Ty1 LTR
-S000000962	transposable_element_gene		YER160C		gag-pol fusion protein	chromosome 5		5	498124	492856	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000034492	CDS					YER160C		5	496821	492856	C		2011-02-03	1996-07-31	
-S000034491	CDS					YER160C		5	498124	496823	C		2011-02-03	1996-07-31	
-S000034493	plus_1_translational_frameshift					YER160C		5	496822	496822	C		2011-02-03	1996-07-31	
-S000007403	transposable_element_gene		YER159C-A		gag protein	chromosome 5		5	498124	496802	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000030149	CDS					YER159C-A		5	498124	496802	C		2011-02-03	1999-07-17	
-S000006911	LTR_retrotransposon		YERCTy1-2		Ty1	chromosome 5		5	498421	492695	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000006901	long_terminal_repeat		YERCdelta24			chromosome 5		5	498421	498084	C		2011-02-03	2000-05-19	Ty1 LTR
-S000077392	ARS		ARS520			chromosome 5		5	498884	499182			2014-11-18	2004-10-19|2014-11-18	Autonomously Replicating Sequence
-S000178092	ARS_consensus_sequence					ARS520		5	498884	498900	W		2014-11-18	2014-11-18	
-S000000963	ORF	Verified	YER161C	SPT2	EXA1|SIN1	chromosome 5	L000002028	5	500348	499347	C	127	2011-02-03	1996-07-31	Protein involved in negative regulation of transcription; required for RNA polyadenylation; exhibits regulated interactions with both histones and SWI-SNF components; relocalizes to the cytosol in response to hypoxia; similar to mammalian HMG1 proteins
-S000034600	CDS					YER161C		5	500348	499347	C		2011-02-03	1996-07-31	
-S000000964	ORF	Verified	YER162C	RAD4		chromosome 5	L000001558	5	502894	500630	C	128	2011-02-03	1996-07-31|2011-02-03	Protein that recognizes and binds damaged DNA (with Rad23p) during NER; subunit of Nuclear Excision Repair Factor 2 (NEF2); also involved, with Rad23p, in turnover of ubiquitylated proteins; Rad4p-Rad23p heterodimer binds to promoters of DNA damage response genes to repress their transcription in the absence of DNA damage; NER stands for nucleotide excision repair
-S000034668	CDS					YER162C		5	502894	500630	C		2011-02-03	1996-07-31|2011-02-03	
-S000000965	ORF	Verified	YER163C	GCG1	gamma-glutamylcyclotransferase	chromosome 5		5	503782	503084	C		2011-02-03	1996-07-31	Gamma-glutamyl cyclotransferase; cleaves the gamma-glutamyl bond of glutathione to yield 5-oxoproline and a Cys-Gly dipeptide; similar to mammalian pro-apoptotic protein ChaC1; expression of mouse ChaC1 in yeast increases apoptosis; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; periodically expressed during the metabolic cycle
-S000034748	CDS					YER163C		5	503782	503084	C		2011-02-03	1996-07-31	
-S000000966	ORF	Verified	YER164W	CHD1	chromatin-remodeling ATPase CHD1	chromosome 5	L000003467	5	505392	509798	W		2011-02-03	1996-07-31	Chromatin remodeler that regulates various aspects of transcription; acts in in conjunction with Isw1b to regulate chromatin structure and maintain chromatin integrity during transcription elongation by RNAP II by preventing trans-histone exchange over coding regions; contains a chromo domain, a helicase domain and a DNA-binding domain; component of both the SAGA and SLIK complexes
-S000035707	CDS					YER164W		5	505392	509798	W		2011-02-03	1996-07-31	
-S000000967	ORF	Verified	YER165W	PAB1	polyadenylate-binding protein	chromosome 5	L000001327	5	510373	512106	W		2011-02-03	1996-07-31	Poly(A) binding protein; part of the 3'-end RNA-processing complex, mediates interactions between the 5' cap structure and the 3' mRNA poly(A) tail, involved in control of poly(A) tail length, interacts with translation factor eIF-4G; stimulates, but is not required for the deadenylation activity of the Pan2p-Pan3p poly(A)-ribonuclease complex
-S000035793	CDS					YER165W		5	510373	512106	W		2011-02-03	1996-07-31	
-S000000968	ORF	Verified	YER166W	DNF1	aminophospholipid-translocating P4-type ATPase DNF1	chromosome 5		5	512744	517459	W		2011-02-03	1996-07-31	Aminophospholipid translocase (flippase); type 4 P-type ATPase; involved in phospholipid translocation, contributing to endocytosis, protein transport, and cellular polarization; localizes primarily to the plasma membrane; localizes to the shmoo tip where it has a redundant role in the cellular response to mating pheromone; DNF1 has a paralog, DNF2, that arose from the whole genome duplication
-S000035898	CDS					YER166W		5	512744	517459	W		2011-02-03	1996-07-31	
-S000028762	ORF	Dubious	YER165C-A			chromosome 5		5	512983	512627	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene DNF1/YER166W
-S000033466	CDS					YER165C-A		5	512983	512627	C		2011-02-03	2003-07-29	
-S000000969	ORF	Verified	YER167W	BCK2	CTR7	chromosome 5	L000000163	5	518216	520771	W		2011-02-03	1996-07-31	Serine/threonine-rich protein involved in PKC1 signaling pathway; protein kinase C (PKC1) signaling pathway controls cell integrity; overproduction suppresses pkc1 mutations
-S000036791	CDS					YER167W		5	518216	520771	W		2011-02-03	1996-07-31	
-S000077393	ARS		ARS521			chromosome 5		5	520772	521030			2011-02-03	2004-10-19	Autonomously Replicating Sequence
-S000000970	ORF	Verified	YER168C	CCA1	tRNA adenylyltransferase|TNT1	chromosome 5	L000000232	5	522669	521029	C		2011-02-03	1996-07-31	ATP (CTP):tRNA-specific tRNA nucleotidyltransferase; different forms targeted to the nucleus, cytosol, and mitochondrion are generated via the use of multiple transcriptional and translational start sites; human homolog TRNT1 complements yeast null mutant
-S000036817	CDS					YER168C		5	522669	521029	C		2011-02-03	1996-07-31	
-S000000971	ORF	Verified	YER169W	RPH1	KDM4	chromosome 5	L000004504	5	523369	525759	W		2011-02-03	1996-07-31	JmjC domain-containing histone demethylase; targets tri- and dimethylated H3K36; associates with actively transcribed regions and promotes elongation; repressor of autophagy-related genes in nutrient-replete conditions; damage-responsive repressor of PHR1; phosphorylated by the Rad53p-dependent DNA damage checkpoint pathway and by a Rim1p-mediated event during starvation; target of stress-induced hormesis; RPH1 has a paralog, GIS1, that arose from the whole genome duplication
-S000036928	CDS					YER169W		5	523369	525759	W		2011-02-03	1996-07-31	
-S000000972	ORF	Verified	YER170W	ADK2	adenylate kinase ADK2|PAK3|AKY3	chromosome 5	L000000047	5	525974	526651	W	146	2011-02-03	1996-07-31	Mitochondrial adenylate kinase; catalyzes the reversible synthesis of GTP and AMP from GDP and ADP; may serve as a back-up for synthesizing GTP or ADP depending on metabolic conditions; 3' sequence of ADK2 varies with strain background
-S000036684	CDS					YER170W		5	525974	526651	W		2011-02-03	1996-07-31	
-S000000973	ORF	Verified	YER171W	RAD3	TFIIH/NER complex ATP-dependent 5'-3' DNA helicase subunit RAD3|REM1	chromosome 5	L000001557	5	527082	529418	W	146	2011-02-03	1996-07-31	5' to 3' DNA helicase; involved in nucleotide excision repair and transcription; subunit of RNA polII initiation factor TFIIH and of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPD protein; mutant has aneuploidy tolerance; protein abundance increases in response to DNA replication stress
-S000036770	CDS					YER171W		5	527082	529418	W		2011-02-03	1996-07-31	
-S000000974	ORF	Verified	YER172C	BRR2	ATP-dependent RNA helicase BRR2|PRP44|SNU246|SLT22|RSS1	chromosome 5	L000003100|L000003283	5	536021	529530	C		2011-02-03	1996-07-31	RNA-dependent ATPase RNA helicase (DEIH box); required for disruption of U4/U6 base-pairing in native snRNPs to activate the spliceosome for catalysis; homologous to human U5-200kD
-S000030569	CDS					YER172C		5	536021	529530	C		2011-02-03	1996-07-31	
-S000000975	ORF	Verified	YER173W	RAD24	RS1	chromosome 5	L000001777	5	536300	538279	W	147	2011-02-03	1996-07-31	Checkpoint protein; involved in the activation of the DNA damage and meiotic pachytene checkpoints; subunit of a clamp loader that loads Rad17p-Mec3p-Ddc1p onto DNA; homolog of human and S. pombe Rad17 protein
-S000030767	CDS					YER173W		5	536300	538279	W		2011-02-03	1996-07-31	
-S000028763	ORF	Dubious	YER172C-A			chromosome 5		5	536655	536275	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF RAD24/YER173W
-S000033467	CDS					YER172C-A		5	536655	536275	C		2011-02-03	2003-07-29	
-S000000976	ORF	Verified	YER174C	GRX4	monothiol glutaredoxin GRX4	chromosome 5	S000007445	5	539168	538434	C		2011-02-03	1996-07-31	Glutathione-dependent oxidoreductase; hydroperoxide and superoxide-radical responsive; monothiol glutaredoxin subfamily member along with Grx3p and Grx5p; protects cells from oxidative damage; with Grx3p, binds to Aft1p in iron-replete conditions, promoting its dissociation from promoters; mutant has increased aneuploidy tolerance; transcription regulated by Yap5p; GRX4 has a paralog, GRX3, that arose from the whole genome duplication
-S000030799	CDS					YER174C		5	539168	538434	C		2011-02-03	1996-07-31	
-S000000977	ORF	Verified	YER175C	TMT1	TAM1	chromosome 5		5	540363	539464	C		2011-02-03	1996-07-31	Trans-aconitate methyltransferase; cytosolic enzyme that catalyzes the methyl esterification of 3-isopropylmalate, an intermediate of the leucine biosynthetic pathway, and trans-aconitate, which inhibits the citric acid cycle
-S000031738	CDS					YER175C		5	540363	539464	C		2011-02-03	1996-07-31	
-S000028625	ORF	Uncharacterized	YER175W-A			chromosome 5		5	540650	540814	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031479	CDS					YER175W-A		5	540650	540814	W		2011-02-03	2003-07-29	
-S000000978	ORF	Verified	YER176W	ECM32	MTT1|HEL1	chromosome 5	L000003934	5	541690	545055	W		2011-02-03	1996-07-31	DNA dependent ATPase/DNA helicase; helicase belonging to the Dna2p- and Nam7p-like family of helicases that is involved in modulating translation termination; interacts with the translation termination factors, localized to polysomes
-S000032015	CDS					YER176W		5	541690	545055	W		2011-02-03	1996-07-31	
-S000000979	ORF	Verified	YER177W	BMH1	14-3-3 family protein BMH1|APR6	chromosome 5	L000000185	5	545611	546414	W	148	2011-02-03	1996-07-31	14-3-3 protein, major isoform; controls proteome at post-transcriptional level, binds proteins and DNA, involved in regulation of exocytosis, vesicle transport, Ras/MAPK and rapamycin-sensitive signaling, aggresome formation, spindle position checkpoint; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; antiapoptotic gene similar to human 14-3-3; BMH1 has a paralog, BMH2, that arose from whole genome duplication
-S000032121	CDS					YER177W		5	545611	546414	W		2011-02-03	1996-07-31	
-S000000980	ORF	Verified	YER178W	PDA1	pyruvate dehydrogenase (acetyl-transferring) subunit E1 alpha	chromosome 5	L000001352	5	546817	548079	W	143	2011-02-03	2003-09-22|1996-07-31	E1 alpha subunit of the pyruvate dehydrogenase (PDH) complex; catalyzes the direct oxidative decarboxylation of pyruvate to acetyl-CoA; phosphorylated; regulated by glucose; PDH complex is concentrated in spots within the mitochondrial matrix, often near the ERMES complex and near peroxisomes
-S000033032	CDS					YER178W		5	546817	548079	W		2011-02-03	2003-09-22|1996-07-31	
-S000000981	ORF	Verified	YER179W	DMC1	recombinase DMC1|ISC2	chromosome 5	L000000509	5	548421	549517	W		2011-02-03	1996-07-31	Meiosis-specific recombinase required for double-strand break repair; also required for pairing between homologous chromosomes; required for the normal morphogenesis of synaptonemal complex; homolog of Rad51p and the bacterial RecA protein; binds ssDNA and dsDNA, forms helical filaments; stimulated by Rdh54p
-S000033128	CDS					YER179W		5	548421	548552	W		2011-02-03	1996-07-31	
-S000033129	CDS					YER179W		5	548645	549517	W		2011-02-03	1996-07-31	
-S000033130	intron					YER179W		5	548553	548644	W		2011-02-03	1996-07-31	
-S000077394	ARS		ARS522		ARSV-550|ARS501	chromosome 5		5	549566	549814			2011-02-03	2004-10-19|2006-09-07	Autonomously Replicating Sequence; active origin of replication near the right end of Chromosome V that is activated late in S phase, late activation appears to result from telomeric proximity
-S000000982	ORF	Verified	YER180C	ISC10		chromosome 5	L000000876	5	550527	549724	C		2011-02-03	1996-07-31	Protein required for sporulation; transcript is induced 7.5 hours after induction of meiosis, expected to play significant role in the formation of reproductive cells
-S000032813	CDS					YER180C		5	550527	549724	C		2011-02-03	1996-07-31	
-S000028437	ORF	Verified	YER180C-A	SLO1		chromosome 5	S000028475	5	551122	550865	C		2011-02-03	2003-03-07	Protein interacting with Arl3p; Arl3p is a GTPase of the Ras superfamily involved in vesicle-tethering at the Golgi; putative ortholog of human SCOCO
-S000030116	CDS					YER180C-A		5	551122	550865	C		2011-02-03	2003-03-07	
-S000006603	tRNA_gene		tI(AAU)E2			chromosome 5	L000003798	5	551358	551285	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000037354	noncoding_exon					tI(AAU)E2		5	551358	551285	C		2011-02-03	2000-05-19	
-S000006921	long_terminal_repeat		YERWdelta25			chromosome 5		5	551442	551773	W		2011-02-03	2000-05-19	Ty1 LTR
-S000000983	ORF	Verified	YER181C			chromosome 5		5	551796	551473	C		2011-02-03	1996-07-31	Mitochondrial protein of unknown function; conserved among S. cerevisiae strains; extensively overlaps a Ty1 LTR; YER181C is not an essential gene
-S000032942	CDS					YER181C		5	551796	551473	C		2011-02-03	1996-07-31	
-S000006902	long_terminal_repeat		YERCdelta26			chromosome 5		5	552267	552040	C		2011-02-03	2000-05-19	Ty1 LTR
-S000000984	ORF	Uncharacterized	YER182W	FMP10		chromosome 5		5	552525	553259	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000034960	CDS					YER182W		5	552525	553259	W		2011-02-03	1996-07-31	
-S000000985	ORF	Verified	YER183C	FAU1	5-formyltetrahydrofolate cyclo-ligase	chromosome 5		5	553969	553334	C		2011-02-03	1996-07-31	5,10-methenyltetrahydrofolate synthetase; involved in folic acid biosynthesis
-S000035021	CDS					YER183C		5	553969	553334	C		2011-02-03	1996-07-31	
-S000000986	ORF	Verified	YER184C	TOG1		chromosome 5		5	558680	556296	C		2011-02-03	1996-07-31	Transcriptional activator of oleate genes; regulates genes involved in fatty acid utilization; zinc cluster protein; deletion confers sensitivity to Calcufluor white, and prevents growth on glycerol or lactate as sole carbon source
-S000035120	CDS					YER184C		5	558680	556296	C		2011-02-03	1996-07-31	
-S000000987	ORF	Verified	YER185W	PUG1		chromosome 5		5	559454	560365	W		2011-02-03	1996-07-31	Plasma membrane protein involved in protoprophyrin and heme transport; roles in the uptake of protoprophyrin IX and the efflux of heme; expression is induced under both low-heme and low-oxygen conditions; member of the fungal lipid-translocating exporter (LTE) family of proteins
-S000036056	CDS					YER185W		5	559454	560365	W		2011-02-03	1996-07-31	
-S000000988	ORF	Uncharacterized	YER186C			chromosome 5		5	562625	561705	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000036102	CDS					YER186C		5	562625	561705	C		2011-02-03	1996-07-31	
-S000006903	long_terminal_repeat		YERComega1			chromosome 5		5	564024	563928	C		2011-02-03	2000-05-19	Ty5 LTR
-S000000989	ORF	Uncharacterized	YER187W			chromosome 5		5	566230	566655	W		2011-02-03	1996-07-31	Putative protein of unknown function; induced in respiratory-deficient cells
-S000031676	CDS					YER187W		5	566230	566655	W		2011-02-03	1996-07-31	
-S000000990	ORF	Dubious	YER188W			chromosome 5		5	568040	568759	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; large-scale analyses show mRNA expression increases under anaerobic conditions and two-hybrid interactions with Sst2p
-S000031818	CDS					YER188W		5	568040	568759	W		2011-02-03	1996-07-31	
-S000006922	long_terminal_repeat		YERWomega2			chromosome 5		5	568791	569024	W		2011-02-03	2000-05-19	Ty5 LTR
-S000028953	telomere		TEL05R			chromosome 5		5	569599	576874	W	151	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome V; annotated components include an X element core sequence, X element combinatorial repeats, and a long Y' element; TEL05R does have telomeric repeats (TEL05R-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
-S000028954	X_element					TEL05R		5	569599	570060	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome V; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YER188C-A
-S000028955	X_element_combinatorial_repeat					TEL05R		5	570061	570329	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr V; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; Formerly called SubTelomeric Repeats
-S000028956	Y_prime_element					TEL05R		5	570330	576874	W		2011-02-03	2003-09-09	Telomeric long Y' element on the right arm of Chromosome V; contains an ARS consensus sequence, a region of 36-bp repeats, and four ORFs (YRF1-2/YER190W, YER189W, YER190C-A, YER190C-B)
-S000077395	ARS		ARS523			chromosome 5		5	569618	569695			2014-11-18	2014-11-18|2004-10-19	Autonomously Replicating Sequence
-S000178093	ARS_consensus_sequence					ARS523		5	569629	569645	W		2014-11-18	2014-11-18	
-S000028764	ORF	Uncharacterized	YER188C-A			chromosome 5		5	569907	569608	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000033468	CDS					YER188C-A		5	569907	569608	C		2011-02-03	2003-07-29	
-S000000991	ORF	Uncharacterized	YER189W			chromosome 5		5	571155	571523	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000031933	CDS					YER189W		5	571155	571523	W		2011-02-03	1996-07-31	
-S000000992	ORF	Verified	YER190W	YRF1-2	Y' element ATP-dependent helicase protein 1 copy 2|YRF1	chromosome 5		5	571480	576525	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p; induced by treatment with 8-methoxypsoralen and UVA irradiation
-S000036410	CDS					YER190W		5	571480	576525	W		2011-02-03	1996-07-31	
-S000028626	ORF	Dubious	YER190C-A			chromosome 5		5	575379	574804	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF YRF1-2/YER190W; identified by gene-trapping, expression analysis, and homology
-S000031482	CDS					YER190C-A		5	575379	574804	C		2011-02-03	2003-07-29	
-S000028627	ORF	Uncharacterized	YER190C-B			chromosome 5		5	576162	575680	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031484	CDS					YER190C-B		5	576162	575680	C		2011-02-03	2003-07-29	
-S000001826	ORF	Uncharacterized	YFL068W			chromosome 6		6	53	535	W		1996-07-31	1996-07-31	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cytosol
-S000030466	CDS					YFL068W		6	53	535	W		1996-07-31	1996-07-31	
-S000001827	ORF	Uncharacterized	YFL067W			chromosome 6		6	836	1363	W		1996-07-31	1996-07-31	Protein of unknown function; down-regulated at low calcium levels; mCherry fusion protein localizes to the vacuole
-S000037641	CDS					YFL067W		6	836	1363	W		1996-07-31	1996-07-31	
-S000001828	ORF	Uncharacterized	YFL066C		Y' element ATP-dependent helicase	chromosome 6		6	2615	1437	C		1996-07-31	1996-07-31	Helicase-like protein encoded within the telomeric Y' element; induced by treatment with 8-methoxypsoralen and UVA irradiation; SWAT-GFP and mCherry fusion proteins localize to the nucleus
-S000037520	CDS					YFL066C		6	2615	1437	C		1996-07-31	1996-07-31	
-S000001829	ORF	Uncharacterized	YFL065C			chromosome 6		6	3338	3030	C		1996-07-31	1996-07-31	Putative protein of unknown function; induced by treatment with 8-methoxypsoralen and UVA irradiation
-S000037426	CDS					YFL065C		6	3338	3030	C		1996-07-31	1996-07-31	
-S000001830	ORF	Uncharacterized	YFL064C			chromosome 6		6	3846	3322	C		1996-07-31	1996-07-31	Putative protein of unknown function
-S000031930	CDS					YFL064C		6	3846	3322	C		1996-07-31	1996-07-31	
-S000001831	ORF	Dubious	YFL063W			chromosome 6		6	5066	5521	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031881	CDS					YFL063W		6	5066	5521	W		1996-07-31	1996-07-31	
-S000029653	ARS		ARS600	ARS600	ARS600.1|ARS120	chromosome 6	L000000123	6	5426	5529			2014-11-18	2014-11-18|2006-03-02	Subtelomeric Autonomously Replicating Sequence; originally published as ARS120
-S000114519	ARS_consensus_sequence					ARS600		6	5492	5482	C		2006-03-02	2006-03-02	
-S000028882	telomere		TEL06L			chromosome 6		6	5530	1	C	-60	2003-09-09	2003-09-09|2011-02-03	Telomeric region on the left arm of Chromosome VI; composed of an X element core sequence, X element combinatorial repeats, a stretch of telomeric repeats, and a short Y' element
-S000028883	telomeric_repeat					TEL06L		6	4819	4685	C		2003-09-09	2003-09-09	Internal telomeric repeats on the left arm of Chromosome VI
-S000028884	X_element					TEL06L		6	5530	5068	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome VI; contains an ARS consensus sequence, an Abf1p binding site consensus sequence and ORF YFL063W
-S000028885	X_element_combinatorial_repeat					TEL06L		6	5067	4820	C		2003-09-09	2003-09-09|2011-02-03	Telomeric X element combinatorial repeat on the left arm of Chr VI; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000028886	Y_prime_element					TEL06L		6	4684	1	C		2003-09-09	2003-09-09	Telomeric short Y' element on the left arm of Chromosome VI; contains a region of 36-bp repeats and five ORFs (YFL064C, YFL065C, YFL066C, YFL067W, YFL068W)
-S000001832	ORF	Verified	YFL062W	COS4		chromosome 6	L000004062	6	6426	7565	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000031765	CDS					YFL062W		6	6426	7565	W		1996-07-31	1996-07-31	
-S000001833	ORF	Verified	YFL061W	DDI2	cyanamide hydratase	chromosome 6		6	9545	10222	W		1996-07-31	1996-07-31	Cyanamide hydratase that detoxifies cyanamide; member of the HD domain metalloprotein superfamily; expression is induced over 100-fold by cyanamide and by SN2-type DNA alkylating agents such as MMS and DMA; induction decreased in rad6 and rad18 mutants; gene and protein are identical to DDI3 and Ddi3p
-S000036244	CDS					YFL061W		6	9545	10222	W		1996-07-31	1996-07-31	
-S000001834	ORF	Verified	YFL060C	SNO3	putative pyridoxal 5'-phosphate synthase	chromosome 6	L000003453	6	10969	10301	C		1996-07-31	1996-07-31	Protein of unknown function; nearly identical to Sno2p; expression is induced before the diauxic shift and also in the absence of thiamin
-S000036055	CDS					YFL060C		6	10969	10301	C		1996-07-31	1996-07-31	
-S000001835	ORF	Verified	YFL059W	SNZ3	pyridoxine biosynthesis protein SNZ3	chromosome 6	L000002577	6	11363	12259	W		1996-07-31	1996-07-31	Member of a stationary phase-induced gene family; expressed in the presence of galactose; transcription of SNZ3 is induced prior to diauxic shift, and also in the absence of thiamin in a Thi2p-dependent manner; forms a coregulated gene pair with SNO3
-S000035247	CDS					YFL059W		6	11363	12259	W		1996-07-31	1996-07-31	
-S000001836	ORF	Verified	YFL058W	THI5	4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase	chromosome 6	L000002850	6	12929	13951	W		1996-07-31	1996-07-31	Protein involved in synthesis of the thiamine precursor HMP; member of a subtelomeric gene family including THI5, THI11, THI12, and THI13; hydroxymethylpyrimidine is also known as HMP
-S000035156	CDS					YFL058W		6	12929	13951	W		1996-07-31	1996-07-31	
-S000001838	pseudogene		YFL056C	AAD6	YFL057C	chromosome 6	L000004638	6	15431	14305	C		2014-11-18	1996-07-31|2014-11-18	Putative aryl-alcohol dehydrogenase; involved in oxidative stress response; similar to P. chrysosporium aryl-alcohol dehydrogenase; ORFs AAD6/YFL056C and AAD16/YFL057C are displaced from one another by -1 frameshift; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family; expression induced in cells treated with the mycotoxin patulin
-S000034007	CDS					YFL056C		6	15431	14305	C		2014-11-18	1996-07-31|2014-11-18	
-S000001839	ORF	Verified	YFL055W	AGP3		chromosome 6	L000003948	6	17004	18680	W		1996-07-31	1996-07-31	Low-affinity amino acid permease; may act to supply the cell with amino acids as nitrogen source in nitrogen-poor conditions; transcription is induced under conditions of sulfur limitation; plays a role in regulating Ty1 transposition
-S000033961	CDS					YFL055W		6	17004	18680	W		1996-07-31	1996-07-31	
-S000178094	ARS		ARS600.4			chromosome 6		6	20702	20900			2014-11-18	2014-11-18	Strong autonomously replicating sequence
-S000001840	ORF	Uncharacterized	YFL054C	AQY3		chromosome 6		6	22787	20847	C		1996-07-31	1996-07-31	Putative channel-like protein; similar to Fps1p; mediates passive diffusion of glycerol in the presence of ethanol
-S000033120	CDS					YFL054C		6	22787	20847	C		1996-07-31	1996-07-31	
-S000001841	ORF	Verified	YFL053W	DAK2	dihydroxyacetone kinase	chromosome 6	L000004204	6	23423	25198	W		1996-07-31	1996-07-31	Dihydroxyacetone kinase; required for detoxification of dihydroxyacetone (DHA); involved in stress adaptation
-S000033090	CDS					YFL053W		6	23423	25198	W		1996-07-31	1996-07-31	
-S000001842	ORF	Verified	YFL052W	ZNF1	DNA-binding domain containing protein|ROP1	chromosome 6		6	28232	29629	W		1996-07-31	1996-07-31	Zinc cluster transcription factor that regulates respiratory growth; binds to promoters of genes involved in respiration, gluconeogenesis, and the glyoxylate shunt; required for normal carbon source utilization and stress response
-S000032997	CDS					YFL052W		6	28232	29629	W		1996-07-31	1996-07-31	
-S000001843	ORF	Uncharacterized	YFL051C			chromosome 6		6	30540	30058	C		1996-07-31	1996-07-31	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the cell periphery while mCherry fusion protein localizes to both the cell periphery and vacuole; YFL051C is not an essential gene
-S000032013	CDS					YFL051C		6	30540	30058	C		1996-07-31	1996-07-31	
-S000007633	ARS		ARS601	ARS601		chromosome 6		6	32473	32995			2001-03-02	2001-03-02	Autonomously replicating sequence on Chromosome VI; overlaps ARS602, ARS601/ARS602 together appear to be activated during the second half of S phase in ~32% of cell cycles
-S000121262	ARS_consensus_sequence					ARS601		6	32708	32718	W		2007-03-08	2007-03-08	
-S000007634	ARS		ARS602	ARS602		chromosome 6		6	32667	33247			2001-03-02	2001-03-02	Autonomously replicating sequence on Chromosome VI; overlaps ARS601, ARS601/ARS602 together appear to be activated during the second half of S phase in ~32% of cell cycles
-S000121263	ARS_consensus_sequence					ARS602		6	32970	32960	C		2007-03-08	2007-03-08	
-S000001844	ORF	Verified	YFL050C	ALR2	putative Mg(2+) transporter ALR2	chromosome 6	L000002888	6	35848	33272	C		1996-07-31	1996-07-31	Probable Mg(2+) transporter; overexpression confers increased tolerance to Al(3+) and Ga(3+) ions; plays a role in regulating Ty1 transposition
-S000031839	CDS					YFL050C		6	35848	33272	C		1996-07-31	1996-07-31	
-S000001845	ORF	Verified	YFL049W	SWP82		chromosome 6		6	36803	38674	W		1996-07-31	1996-07-31	Member of the SWI/SNF chromatin remodeling complex; has an as yet unidentified role in the complex; has identifiable counterparts in closely related yeast species; abundantly expressed in many growth conditions; paralog of Npl6p; relocates to the cytosol under hypoxic conditions
-S000030907	CDS					YFL049W		6	36803	38674	W		1996-07-31	1996-07-31	
-S000001846	ORF	Verified	YFL048C	EMP47		chromosome 6	L000002804	6	40180	38843	C		1996-07-31	1996-07-31	Integral membrane component of ER-derived COPII-coated vesicles; functionS in ER to Golgi transport; EMP47 has a paralog, EMP46, that arose from the whole genome duplication
-S000030785	CDS					YFL048C		6	40180	38843	C		1996-07-31	1996-07-31	
-S000001847	ORF	Verified	YFL047W	RGD2		chromosome 6		6	40421	42565	W		1996-07-31	1996-07-31	GTPase-activating protein (RhoGAP) for Cdc42p and Rho5p; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000037893	CDS					YFL047W		6	40421	42565	W		1996-07-31	1996-07-31	
-S000001848	ORF	Verified	YFL046W	FMP32		chromosome 6		6	42815	43438	W		1996-07-31	1996-07-31	Putative assembly factor for cytochrome c oxidase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; has similarity to human MCUR1/CCDC90A
-S000037798	CDS					YFL046W		6	42815	43438	W		1996-07-31	1996-07-31	
-S000001849	ORF	Verified	YFL045C	SEC53	phosphomannomutase SEC53|ALG4	chromosome 6	L000001849	6	44392	43628	C		1996-07-31	1996-07-31	Phosphomannomutase; involved in synthesis of GDP-mannose and dolichol-phosphate-mannose; required for folding and glycosylation of secretory proteins in the ER lumen
-S000037699	CDS					YFL045C		6	44392	43628	C		1996-07-31	1996-07-31	
-S000001850	ORF	Verified	YFL044C	OTU1	ubiquitin-specific protease OTU1|YOD1	chromosome 6		6	45560	44655	C		1996-07-31	1996-07-31	Deubiquitylation enzyme that binds to the chaperone-ATPase Cdc48p; may contribute to regulation of protein degradation by deubiquitylating substrates that have been ubiquitylated by Ufd2p; member of the Ovarian Tumor (OTU) family; protein abundance increases in response to DNA replication stress
-S000036927	CDS					YFL044C		6	45560	44655	C		1996-07-31	1996-07-31	
-S000001852	ORF	Verified	YFL042C	LAM5	LTC2|YFL043C	chromosome 6		6	47744	45720	C		2001-05-29	2001-05-29|1996-07-31	Putative sterol transfer protein; one of six StART-like domain-containing proteins in yeast that may be involved in sterol transfer between intracellular membranes; conserved across eukaryotes; has both GRAM and StART-like (VASt) domains; localizes to membrane contact sites throughout the cell, including nucleus-vacuole junctions and ER-mitochondrial contact sites
-S000036790	CDS					YFL042C		6	47744	45720	C		2001-05-29	2001-05-29|1996-07-31	
-S000028547	ORF	Uncharacterized	YFL041W-A			chromosome 6		6	48734	48925	W		2003-07-29	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031197	CDS					YFL041W-A		6	48734	48925	W		2003-07-29	2003-07-29	
-S000001853	ORF	Verified	YFL041W	FET5	ferroxidase FET5	chromosome 6	L000002773	6	49139	51007	W		2001-05-29	1996-07-31	Multicopper oxidase; integral membrane protein with similarity to Fet3p; may have a role in iron transport
-S000035986	CDS					YFL041W		6	49139	51007	W		2001-05-29	1996-07-31	
-S000001854	ORF	Uncharacterized	YFL040W			chromosome 6		6	51350	52972	W		2001-05-29	1996-07-31	Putative transporter; member of the sugar porter family; YFL040W is not an essential gene; may have a role in intracellular sterol transport
-S000035851	CDS					YFL040W		6	51350	52972	W		2001-05-29	1996-07-31	
-S000001855	ORF	Verified	YFL039C	ACT1	actin|ABY1|END7	chromosome 6	L000000025	6	54696	53260	C	-59	2011-02-03	1996-07-31|2011-02-03	Actin; structural protein involved in cell polarization, endocytosis, and other cytoskeletal functions
-S000034732	CDS					YFL039C		6	54377	53260	C		2001-05-29	1996-07-31	
-S000034731	CDS					YFL039C		6	54696	54687	C		2011-02-03	1996-07-31	
-S000034733	intron					YFL039C		6	54686	54378	C		2011-02-03	1996-07-31|2011-02-03	
-S000001856	ORF	Verified	YFL038C	YPT1	Rab family GTPase YPT1|YP2	chromosome 6	L000002543	6	55986	55366	C	-59	2011-02-03	1996-07-31	Rab family GTPase; involved in the ER-to-Golgi step of the secretory pathway; complex formation with the Rab escort protein Mrs6p is required for prenylation of Ypt1p by type II protein geranylgeranyltransferase (Bet2p-Bet4p); binds to unspliced HAC1 mRNA; regulates the unfolded protein response (UPR) by promoting the decay of HAC1 RNA; localizes to the early Golgi, the transitional Golgi and ER membranes, pre-autophagosomal structures, and cytoplasmic vesicles
-S000033828	CDS					YFL038C		6	55986	55366	C		2011-02-03	1996-07-31	
-S000001857	ORF	Verified	YFL037W	TUB2	beta-tubulin|SHE8|ARM10	chromosome 6	L000002388	6	56336	57709	W	-59	2011-02-03	1996-07-31	Beta-tubulin; associates with alpha-tubulin (Tub1p and Tub3p) to form tubulin dimer, which polymerizes to form microtubules; mutation in human ortholog is associated with congenital fibrosis of the extraocular muscles (CFEOM) with polymicrogyria
-S000033779	CDS					YFL037W		6	56336	57709	W		2011-02-03	1996-07-31	
-S000130129	ncRNA_gene		RUF21	RUF21		chromosome 6		6	58521	57815	C		2011-02-03	2009-05-04|2011-02-03	RNA of Unknown Function
-S000130130	noncoding_exon					RUF21		6	58521	57815	C		2011-02-03	2009-05-04|2011-02-03	
-S000001858	ORF	Verified	YFL036W	RPO41	DNA-directed RNA polymerase	chromosome 6	L000001747	6	58782	62837	W		2011-02-03	1996-07-31	Mitochondrial RNA polymerase; single subunit enzyme similar to those of T3 and T7 bacteriophages; requires a specificity subunit encoded by MTF1 for promoter recognition; Mtf1p interacts with and stabilizes the Rpo41p-promoter complex, enhancing DNA bending and melting to facilitate pre-initiation open complex formation; Rpo41p also synthesizes RNA primers for mitochondrial DNA replication
-S000033655	CDS					YFL036W		6	58782	62837	W		2011-02-03	1996-07-31	
-S000001859	ORF	Verified	YFL034C-B	MOB2	YFL035C-A|YFL035C	chromosome 6	L000003535|S000007658|S000002966	6	63993	63016	C		2011-02-03	1996-07-31	Activator of Cbk1p kinase; component of the RAM signaling network that regulates cellular polarity and morphogenesis; activation of Cbk1p facilitates the Ace2p-dependent daughter cell-specific transcription of genes involved in cell separation; similar to Mob1p
-S000036508	CDS					YFL034C-B		6	63859	63016	C		2011-02-03	1996-07-31	
-S000036507	CDS					YFL034C-B		6	63993	63974	C		2011-02-03	1996-07-31	
-S000036509	intron					YFL034C-B		6	63973	63860	C		2011-02-03	1996-07-31	
-S000006436	ORF	Verified	YFL034C-A	RPL22B	eL22|ribosomal 60S subunit protein L22B|L22e|rp4|l1c|YL31|L22B|YFL035C-B	chromosome 6	L000004513|S000002967	6	64932	64243	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L22A; required for translation of long 5' UTR of IME1 mRNA and meiotic entry; homologous to mammalian ribosomal protein L22, no bacterial homolog; RPL22B has a paralog, RPL22A, that arose from the whole genome duplication
-S000036495	CDS					YFL034C-A		6	64599	64243	C		2011-02-03	1996-07-31	
-S000036494	CDS					YFL034C-A		6	64932	64921	C		2011-02-03	1996-07-31	
-S000036496	intron					YFL034C-A		6	64920	64600	C		2011-02-03	1996-07-31	
-S000001860	ORF	Uncharacterized	YFL034W	MIL1		chromosome 6		6	65477	68698	W		2011-02-03	1996-07-31|2011-02-03	Predicted lipase; binds variant medium clathrin chain Apm2p and contributes to its membrane recruitment; putative integral membrane protein that interacts with Rpp0p component of ribosomal stalk
-S000032866	CDS					YFL034W		6	65477	68698	W		2011-02-03	1996-07-31|2011-02-03	
-S000007635	ARS		ARS603	ARS603		chromosome 6		6	68759	68861			2014-11-18	2001-03-02|2014-11-18	Highly-efficient autonomously replicating sequence on Chromosome VI; activated during the second half of S phase in ~67% of cell cycles
-S000121268	ARS_consensus_sequence					ARS603		6	68829	68839	W		2011-02-03	2007-03-08	
-S000121269	ARS_consensus_sequence					ARS603		6	68855	68845	C		2011-02-03	2007-03-08	
-S000001861	ORF	Verified	YFL033C	RIM15	protein kinase RIM15|TAK1	chromosome 6	L000003524|L000003204	6	74427	69115	C		2011-02-03	1996-07-31	Protein kinase involved in cell proliferation in response to nutrients; glucose-repressible; involved in signal transduction during cell proliferation in response to nutrients, specifically the establishment of stationary phase; identified as a regulator of IME2; phosphorylates Igo1p and Igo2p; substrate of Pho80p-Pho85p kinase
-S000032693	CDS					YFL033C		6	74427	69115	C		2011-02-03	1996-07-31	
-S000001862	ORF	Dubious	YFL032W			chromosome 6		6	74872	75192	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene HAC1/YFL031W; YFL032W is not an essential gene
-S000032655	CDS					YFL032W		6	74872	75192	W		2011-02-03	1996-07-31	
-S000001863	ORF	Verified	YFL031W	HAC1	transcription factor HAC1|IRE15|ERN4	chromosome 6	L000002611	6	75179	76147	W		2011-02-03	2001-05-29|1996-07-31	Basic leucine zipper (bZIP) transcription factor (ATF/CREB1 homolog); regulates the unfolded protein response, via UPRE binding, and membrane biogenesis; ER stress-induced splicing pathway facilitates efficient Hac1p synthesis; two functional forms of Hac1p are produced; translation initiation is repressed under non-stress conditions; protein abundance increases in response to DNA replication stress
-S000031638	CDS					YFL031W		6	75179	75839	W		2011-02-03	2001-05-29|1996-07-31	
-S000031639	CDS					YFL031W		6	76092	76147	W		2011-02-03	2001-05-29	
-S000031640	intron					YFL031W		6	75840	76091	W		2011-02-03	2001-05-29	
-S000028629	ORF	Dubious	YFL031C-A		YFL030C-A	chromosome 6		6	76115	76014	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps HAC1/YFL031W; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000031489	CDS					YFL031C-A		6	76115	76014	C		2011-02-03	2003-07-29	
-S000001864	ORF	Verified	YFL030W	AGX1	alanine--glyoxylate transaminase	chromosome 6		6	76831	77988	W		2011-02-03	1996-07-31	Alanine:glyoxylate aminotransferase (AGT); catalyzes the synthesis of glycine from glyoxylate, which is one of three pathways for glycine biosynthesis in yeast; similar to mammalian and plant alanine:glyoxylate aminotransferases; human homolog AGXT complements yeast null mutant
-S000031544	CDS					YFL030W		6	76831	77988	W		2011-02-03	1996-07-31	
-S000001865	ORF	Verified	YFL029C	CAK1	cyclin-dependent protein kinase-activating kinase CAK1|CIV1	chromosome 6	L000003177	6	79161	78055	C		2011-02-03	1996-07-31	Cyclin-dependent kinase-activating kinase; required for passage through the cell cycle; phosphorylates and activates Cdc28p; nucleotide-binding pocket differs significantly from those of most other protein kinases
-S000031499	CDS					YFL029C		6	79161	78055	C		2011-02-03	1996-07-31	
-S000001866	ORF	Verified	YFL028C	CAF16	putative ATP-binding cassette family ATPase CAF16	chromosome 6	L000003418	6	80213	79344	C		2011-02-03	1996-07-31	Part of evolutionarily-conserved CCR4-NOT regulatory complex; contains single ABC-type ATPase domain but no transmembrane domain; interacts with several subunits of Mediator
-S000030636	CDS					YFL028C		6	80213	79344	C		2011-02-03	1996-07-31	
-S000001867	ORF	Verified	YFL027C	GYP8		chromosome 6		6	81912	80419	C		2011-02-03	1996-07-31	GTPase-activating protein for yeast Rab family members; Ypt1p is the preferred in vitro substrate but also acts on Sec4p, Ypt31p and Ypt32p; involved in the regulation of ER to Golgi vesicle transport
-S000030523	CDS					YFL027C		6	81912	80419	C		2011-02-03	1996-07-31	
-S000001868	ORF	Verified	YFL026W	STE2	alpha-factor pheromone receptor STE2	chromosome 6	L000002112	6	82580	83875	W	-37	2011-02-03	1996-07-31|2011-02-03	Receptor for alpha-factor pheromone; seven transmembrane-domain GPCR that interacts with both pheromone and a heterotrimeric G protein to initiate the signaling response that leads to mating between haploid a and alpha cells
-S000030488	CDS					YFL026W		6	82580	83875	W		2011-02-03	1996-07-31|2011-02-03	
-S000001869	ORF	Verified	YFL025C	BST1	PER17	chromosome 6	L000004294	6	87234	84145	C		2011-02-03	1996-07-31	GPI inositol deacylase of the endoplasmic reticulum (ER); negatively regulates COPII vesicle formation; prevents production of vesicles with defective subunits; required for proper discrimination between resident ER proteins and Golgi-bound cargo molecules; functional ortholog of human PGAP1, mutation of which is associated with intellectual disability and encephalopathy
-S000037627	CDS					YFL025C		6	87234	84145	C		2011-02-03	1996-07-31	
-S000001870	ORF	Verified	YFL024C	EPL1		chromosome 6	L000004576	6	90345	87847	C		2011-02-03	1996-07-31	Subunit of NuA4, an essential histone H4/H2A acetyltransferase complex; conserved region at N-terminus is essential for interaction with the NPC (nucleosome core particle); required for autophagy; homologous to Drosophila Enhancer of Polycomb; coding sequence contains length polymorphisms in different strains
-S000037484	CDS					YFL024C		6	90345	87847	C		2011-02-03	1996-07-31	
-S000001871	ORF	Verified	YFL023W	BUD27	URI1	chromosome 6	S000007647	6	90986	93376	W		2011-02-03	1996-07-31	Unconventional prefoldin protein involved in translation initiation; required for correct assembly of RNAP I, II, and III in an Rpb5p-dependent manner; shuttles between nucleus and cytoplasm; mutants have inappropriate expression of nutrient sensitive genes due to translational derepression of Gcn4p transcription factor; diploid mutants show random budding; ortholog of human URI/RMP
-S000037447	CDS					YFL023W		6	90986	93376	W		2011-02-03	1996-07-31	
-S000001872	ORF	Verified	YFL022C	FRS2	phenylalanine--tRNA ligase subunit alpha	chromosome 6	L000000630	6	95010	93499	C		2011-02-03	1996-07-31|2011-02-03	Alpha subunit of cytoplasmic phenylalanyl-tRNA synthetase; forms a tetramer with Frs1p to form active enzyme; evolutionarily distant from mitochondrial phenylalanyl-tRNA synthetase based on protein sequence, but substrate binding is similar
-S000036666	CDS					YFL022C		6	95010	93499	C		2011-02-03	1996-07-31|2011-02-03	
-S000001873	ORF	Verified	YFL021W	GAT1	MEP80|NIL1	chromosome 6	L000002835	6	95966	97498	W		2011-02-03	1996-07-31	Transcriptional activator of nitrogen catabolite repression genes; contains a GATA-1-type zinc finger DNA-binding motif; activity and localization regulated by nitrogen limitation and Ure2p; different translational starts produce two major and two minor isoforms that are differentially regulated and localized
-S000036630	CDS					YFL021W		6	95966	97498	W		2011-02-03	1996-07-31	
-S000028766	ORF	Dubious	YFL021C-A			chromosome 6		6	96615	95761	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF GAT1/YFL021W
-S000033470	CDS					YFL021C-A		6	96615	95761	C		2011-02-03	2003-07-29	
-S000001874	ORF	Verified	YFL020C	PAU5	seripauperin PAU5	chromosome 6	L000002815	6	99599	99231	C		2011-02-03	1996-07-31	Member of the seripauperin multigene family; encoded mainly in subtelomeric regions; induced during alcoholic fermentation; induced by low temperature and also by anaerobic conditions; negatively regulated by oxygen and repressed by heme
-S000036468	CDS					YFL020C		6	99599	99231	C		2011-02-03	1996-07-31	
-S000006924	long_terminal_repeat		YFLWdelta1			chromosome 6		6	100581	100901	W		2011-02-03	2000-05-19	Ty1 LTR
-S000001875	ORF	Dubious	YFL019C			chromosome 6		6	100605	100252	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YFL019C is not an essential gene
-S000035776	CDS					YFL019C		6	100605	100252	C		2011-02-03	1996-07-31	
-S000006681	tRNA_gene		tP(UGG)F	SUF9		chromosome 6	L000002157|L000003809	6	101376	101478	W	-13	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in proline codons
-S000035980	intron					tP(UGG)F		6	101412	101442	W		2011-02-03	2000-05-19	
-S000035978	noncoding_exon					tP(UGG)F		6	101376	101411	W		2011-02-03	2000-05-19	
-S000035979	noncoding_exon					tP(UGG)F		6	101443	101478	W		2011-02-03	2000-05-19	
-S000001876	ORF	Verified	YFL018C	LPD1	dihydrolipoyl dehydrogenase|HPD1	chromosome 6	L000000951	6	103127	101628	C		2011-02-03	1996-07-31	Dihydrolipoamide dehydrogenase; the lipoamide dehydrogenase component (E3) of the pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase multi-enzyme complexes; PDH complex is concentrated in spots within the mitochondrial matrix, often near the ERMES complex and near peroxisomes; LPD1 has a paralog, IRC15, that arose from the whole genome duplication
-S000035657	CDS					YFL018C		6	103127	101628	C		2011-02-03	1996-07-31	
-S000002965	ORF	Verified	YFL017W-A	SMX2	mRNA splicing protein SMX2|Sm G|SmG|YFL018W-A|SNP2	chromosome 6	L000001955	6	103699	103932	W		2011-02-03	1996-07-31	Core Sm protein Sm G; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Smd3p, Sme1p, and Smx3p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm G
-S000037748	CDS					YFL017W-A		6	103699	103932	W		2011-02-03	1996-07-31	
-S000001877	ORF	Verified	YFL017C	GNA1	glucosamine 6-phosphate N-acetyltransferase|PAT1	chromosome 6	L000004865	6	104462	103983	C		2011-02-03	1996-07-31	Glucosamine-6-phosphate acetyltransferase; evolutionarily conserved; required for multiple cell cycle events including passage through START, DNA synthesis, and mitosis; involved in UDP-N-acetylglucosamine synthesis, forms GlcNAc6P from AcCoA
-S000035587	CDS					YFL017C		6	104462	103983	C		2011-02-03	1996-07-31	
-S000178095	ARS		ARS603.1			chromosome 6		6	104463	104701			2014-11-18	2014-11-18	Very weak autonomously replicating sequence
-S000001878	ORF	Verified	YFL016C	MDJ1		chromosome 6	L000001048	6	106236	104701	C		2011-02-03	1996-07-31	Co-chaperone that stimulates HSP70 protein Ssc1p ATPase activity; involved in protein folding/refolding in the mitochodrial matrix; required for proteolysis of misfolded proteins; member of the HSP40 (DnaJ) family of chaperones
-S000035478	CDS					YFL016C		6	106236	104701	C		2011-02-03	1996-07-31	
-S000028765	ORF	Dubious	YFL015W-A			chromosome 6		6	106415	106732	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YFL015C
-S000033469	CDS					YFL015W-A		6	106415	106732	W		2011-02-03	2003-07-29	
-S000001879	ORF	Dubious	YFL015C			chromosome 6		6	106963	106469	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps dubious ORF YFL015W-A; YFL015C is not an essential gene
-S000034451	CDS					YFL015C		6	106963	106469	C		2011-02-03	1996-07-31	
-S000001880	ORF	Verified	YFL014W	HSP12	lipid-binding protein HSP12|HOR5|GLP1	chromosome 6	L000000816	6	107256	107585	W		2011-02-03	1996-07-31	Plasma membrane protein involved in maintaining membrane organization; involved in maintaining organization during stress conditions; induced by heat shock, oxidative stress, osmostress, stationary phase, glucose depletion, oleate and alcohol; protein abundance increased in response to DNA replication stress and dietary restriction; regulated by the HOG and Ras-Pka pathways; required for dietary restriction-induced lifespan extension
-S000034418	CDS					YFL014W		6	107256	107585	W		2011-02-03	1996-07-31	
-S000028628	ORF	Dubious	YFL013W-A			chromosome 6		6	107799	108602	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps IES1/YFL013C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
-S000031487	CDS					YFL013W-A		6	107799	108602	W		2011-02-03	2003-07-29	
-S000002964	ORF	Dubious	YFL012W-A		YFL013W-A	chromosome 6		6	109810	110184	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene IES1/YFL013C
-S000029905	CDS					YFL012W-A		6	109810	110184	W		2011-02-03	1996-07-31	
-S000001881	ORF	Verified	YFL013C	IES1		chromosome 6		6	109930	107852	C		2011-02-03	1996-07-31	Subunit of the INO80 chromatin remodeling complex; relocalizes to the cytosol in response to hypoxia
-S000034280	CDS					YFL013C		6	109930	107852	C		2011-02-03	1996-07-31	
-S000001882	ORF	Uncharacterized	YFL012W			chromosome 6		6	110647	111093	W		2011-02-03	1996-07-31	Putative protein of unknown function; transcribed during sporulation; null mutant exhibits increased resistance to rapamycin
-S000033440	CDS					YFL012W		6	110647	111093	W		2011-02-03	1996-07-31	
-S000001883	ORF	Verified	YFL011W	HXT10	hexose transporter HXT10	chromosome 6	L000000844	6	112345	113985	W		2011-02-03	1996-07-31	Putative hexose transporter; expressed at low levels and expression is repressed by glucose
-S000033350	CDS					YFL011W		6	112345	113985	W		2011-02-03	1996-07-31	
-S000001955	ORF	Verified	YFL010W-A	AUA1	YFL011W-A	chromosome 6	L000000156	6	114990	115274	W		2011-02-03	1999-07-17	Protein required for the negative regulation by ammonia of Gap1p; Gap1p is a general amino acid permease
-S000031553	CDS					YFL010W-A		6	114990	115274	W		2011-02-03	1999-07-17	
-S000001884	ORF	Verified	YFL010C	WWM1		chromosome 6		6	115743	115108	C		2011-02-03	1996-07-31	WW domain containing protein of unknown function; binds to Mca1p, a caspase-related protease that regulates H2O2-induced apoptosis; overexpression causes G1 phase growth arrest and clonal death that is suppressed by overexpression of MCA1
-S000033237	CDS					YFL010C		6	115743	115108	C		2011-02-03	1996-07-31	
-S000001885	ORF	Verified	YFL009W	CDC4	SCF ubiquitin ligase complex subunit CDC4	chromosome 6	L000000244	6	116145	118484	W	-9	2011-02-03	1996-07-31	F-box protein required for both the G1/S and G2/M phase transitions; modular substrate specificity factor which associates with core SCF (Cdc53p, Skp1p and Hrt1p/Rbx1p) to form the SCFCdc4 complex; SCFCdc4 acts as a ubiquitin-protein ligase directing ubiquitination of cyclin-dependent kinase (CDK) phosphorylated substrates, such as: Sic1p, Far1p, Cdc6p, Clb6p, and Cln3p
-S000032546	CDS					YFL009W		6	116145	118484	W		2011-02-03	1996-07-31	
-S000007645	ARS		ARS603.5	ARS603.5		chromosome 6		6	118637	118957			2011-02-03	2001-03-15	Autonomously replicating sequence on Chromosome VI; activated early in S phase in ~50% of cell cycles
-S000121270	ARS_consensus_sequence					ARS603.5		6	118688	118678	C		2011-02-03	2007-03-08	
-S000001886	ORF	Verified	YFL008W	SMC1	cohesin subunit SMC1|CHL10	chromosome 6	L000001926	6	119429	123106	W	-10	2011-02-03	1996-07-31	Subunit of the multiprotein cohesin complex; essential protein involved in chromosome segregation and in double-strand DNA break repair; SMC chromosomal ATPase family member, binds DNA with a preference for DNA with secondary structure
-S000032447	CDS					YFL008W		6	119429	123106	W		2011-02-03	1996-07-31	
-S000001887	ORF	Verified	YFL007W	BLM10	YFL006W	chromosome 6	S000007437	6	123479	129910	W		2011-02-03	2003-09-26|1996-07-31	Proteasome activator; binds the core proteasome (CP) and stimulates proteasome-mediated protein degradation by inducing gate opening; required for sequestering CP into proteasome storage granule (PSG) during quiescent phase and for nuclear import of CP in proliferating cells; required for resistance to bleomycin, may be involved in protecting against oxidative damage; similar to mammalian PA200
-S000031431	CDS					YFL007W		6	123479	129910	W		2011-02-03	2003-09-26|1996-07-31	
-S000007636	ARS		ARS604	ARS604		chromosome 6		6	127751	128071			2011-02-03	2001-03-02	Extremely inefficient ARS on Chromosome VI
-S000121271	ARS_consensus_sequence					ARS604		6	127869	127879	W		2011-02-03	2007-03-08	
-S000001889	ORF	Verified	YFL005W	SEC4	Rab family GTPase SEC4|SRO6	chromosome 6	L000001830	6	130334	130981	W	-6	2011-02-03	1996-07-31	Rab family GTPase; essential for vesicle-mediated exocytic secretion and autophagy; associates with the exocyst component Sec15p and may regulate polarized delivery of transport vesicles to the exocyst at the plasma membrane
-S000031208	CDS					YFL005W		6	130334	130981	W		2011-02-03	1996-07-31	
-S000130127	ncRNA_gene		RUF20	RUF20		chromosome 6		6	131503	131061	C		2011-02-03	2009-05-04	RNA of Unknown Function
-S000130128	noncoding_exon					RUF20		6	131503	131061	C		2011-02-03	2009-05-04	
-S000001890	ORF	Verified	YFL004W	VTC2	vacuolar transporter chaperone|PHM1	chromosome 6	S000007511	6	131810	134296	W		2011-02-03	1996-07-31	Regulatory subunit of the vacuolar transporter chaperone (VTC) complex; involved in membrane trafficking, vacuolar polyphosphate accumulation, microautophagy and non-autophagic vacuolar fusion; VTC2 has a paralog, VTC3, that arose from the whole genome duplication
-S000031094	CDS					YFL004W		6	131810	134296	W		2011-02-03	1996-07-31	
-S000007637	ARS		ARS605	ARS605		chromosome 6		6	135985	136085			2011-02-03	2001-03-02	Autonomously replicating sequence on Chromosome VI; activated early in S phase in ~27% of cell cycles; inactive during premeiotic S phase
-S000121274	ARS_consensus_sequence					ARS605		6	136047	136037	C		2011-02-03	2007-03-08	
-S000001891	ORF	Verified	YFL003C	MSH4	MutS family protein MSH4	chromosome 6	L000001192	6	137157	134521	C		2011-02-03	1996-07-31	Protein involved in meiotic recombination; required for normal levels of crossing over, colocalizes with Zip2p to discrete foci on meiotic chromosomes, has homology to bacterial MutS protein
-S000030006	CDS					YFL003C		6	137157	134521	C		2011-02-03	1996-07-31	
-S000006669	tRNA_gene		tN(GUU)F			chromosome 6	L000003818	6	137559	137486	C		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000030707	noncoding_exon					tN(GUU)F		6	137559	137486	C		2011-02-03	2000-05-19	
-S000006925	long_terminal_repeat		YFLWdelta2			chromosome 6		6	137663	137912	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006926	long_terminal_repeat		YFLWdelta3			chromosome 6		6	137913	138240	W		2011-02-03	2000-05-19	Ty2 LTR
-S000006930	LTR_retrotransposon		YFLWTy2-1		Ty2	chromosome 6		6	137913	143871	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007404	transposable_element_gene		YFL002W-B		gag protein	chromosome 6		6	138204	139520	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000031732	CDS					YFL002W-B		6	138204	139520	W		2011-02-03	1999-07-17	
-S000002962	transposable_element_gene		YFL002W-A		gag-pol fusion protein	chromosome 6		6	138204	143517	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000031719	CDS					YFL002W-A		6	138204	139496	W		2011-02-03	1999-07-17	
-S000031720	CDS					YFL002W-A		6	139498	143517	W		2011-02-03	1999-07-17	
-S000031721	plus_1_translational_frameshift					YFL002W-A		6	139497	139497	W		2011-02-03	1999-07-17	
-S000006927	long_terminal_repeat		YFLWdelta4			chromosome 6		6	143540	143871	W		2011-02-03	2000-05-19	Ty2 LTR
-S000006928	long_terminal_repeat		YFLWdelta5			chromosome 6		6	143872	143947	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006929	long_terminal_repeat		YFLWtau1			chromosome 6		6	144203	144523	W		2011-02-03	2000-05-19	Ty4 LTR
-S000006923	long_terminal_repeat		YFLCdelta6			chromosome 6		6	144822	144524	C		2011-02-03	2000-05-19	Ty1 LTR
-S000001894	ORF	Verified	YFL002C	SPB4	putative ATP-dependent RNA helicase SPB4	chromosome 6	L000001991	6	146934	145114	C		2011-02-03	1996-07-31	Putative ATP-dependent RNA helicase; nucleolar protein required for synthesis of 60S ribosomal subunits at a late step in the pathway; sediments with 66S pre-ribosomes in sucrose gradients
-S000029891	CDS					YFL002C		6	146934	145114	C		2011-02-03	1996-07-31	
-S000001895	ORF	Verified	YFL001W	DEG1	pseudouridine synthase DEG1|HRM3|PUS3	chromosome 6	L000000501	6	147131	148459	W	-1	2011-02-03	1996-07-31	tRNA:pseudouridine synthase; introduces pseudouridines at position 38 or 39 in tRNA; also responsible for pseudouracil modification of some mRNAs; important for maintenance of translation efficiency and normal cell growth, localizes to both the nucleus and cytoplasm; non-essential for viability
-S000037314	CDS					YFL001W		6	147131	148459	W		2011-02-03	1996-07-31	
-S000001896	centromere		CEN6	CEN6		chromosome 6	L000000299	6	148510	148627	W	0	2011-02-03	2000-05-19|2006-05-08	Chromosome VI centromere
-S000077272	centromere_DNA_Element_I					CEN6		6	148510	148519	W		2011-02-03	2004-10-04	
-S000077273	centromere_DNA_Element_II					CEN6		6	148520	148602	W		2011-02-03	2004-10-04	
-S000077274	centromere_DNA_Element_III					CEN6		6	148603	148627	W		2011-02-03	2004-10-04	
-S000001897	ORF	Verified	YFR001W	LOC1		chromosome 6		6	149110	149724	W		2011-02-03	1996-07-31	Nuclear protein involved in asymmetric localization of ASH1 mRNA; binds double-stranded RNA in vitro; constituent of 66S pre-ribosomal particles; required at post-transcriptional step for efficient retrotransposition; absence results in decreased Ty1 Gag:GFP protein levels; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000033165	CDS					YFR001W		6	149110	149724	W		2011-02-03	1996-07-31	
-S000001898	ORF	Verified	YFR002W	NIC96	linker nucleoporin NIC96	chromosome 6	L000001250	6	150016	152535	W		2011-02-03	1996-07-31	Linker nucleoporin component of the nuclear pore complex (NPC); also part of the NPC nuclear basket; contributes to nucleocytoplasmic transport and NPC biogenesis; forms stable associations with three FG-nucleoporins (Nsp1p, Nup57p, and Nup49p)
-S000033226	CDS					YFR002W		6	150016	152535	W		2011-02-03	1996-07-31	
-S000001899	ORF	Verified	YFR003C	YPI1	type 1 protein phosphatase-activating protein YPI1	chromosome 6		6	153124	152657	C		2011-02-03	1996-07-31	Regulatory subunit of the type I protein phosphatase (PP1) Glc7p; Glc7p participates in the regulation of a variety of metabolic processes including mitosis and glycogen metabolism; in vitro evidence suggests Ypi1p is an inhibitor of Glc7p while in vivo evidence suggests it is an activator; overproduction causes decreased cellular content of glycogen; partial depletion causes lithium sensitivity, while overproduction confers lithium-tolerance
-S000033251	CDS					YFR003C		6	153124	152657	C		2011-02-03	1996-07-31	
-S000001900	ORF	Verified	YFR004W	RPN11	proteasome regulatory particle lid subunit RPN11|MPR1	chromosome 6	L000002976|L000002965	6	153393	154313	W		2011-02-03	1996-07-31	Metalloprotease subunit of 19S regulatory particle; part of 26S proteasome lid; couples the deubiquitination and degradation of proteasome substrates; involved, independent of catalytic activity, in fission of mitochondria and peroxisomes; protein abundance increases in response to DNA replication stress
-S000034135	CDS					YFR004W		6	153393	154313	W		2011-02-03	1996-07-31	
-S000001901	ORF	Verified	YFR005C	SAD1	mRNA splicing protein SAD1	chromosome 6	L000001795	6	155873	154527	C		2011-02-03	1996-07-31	Conserved zinc-finger domain protein involved in pre-mRNA splicing; critical for splicing of nearly all intron-containing genes; required for assembly of U4 snRNA into the U4/U6 particle
-S000034191	CDS					YFR005C		6	155873	154527	C		2011-02-03	1996-07-31	
-S000001902	ORF	Uncharacterized	YFR006W		putative Xaa-Pro dipeptidase	chromosome 6		6	156145	157752	W		2011-02-03	1996-07-31	Putative X-Pro aminopeptidase; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YFR006W is not an essential gene
-S000034389	CDS					YFR006W		6	156145	157752	W		2011-02-03	1996-07-31	
-S000006564	tRNA_gene		tF(GAA)F			chromosome 6	L000003817	6	158007	157916	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000035384	intron					tF(GAA)F		6	157970	157952	C		2011-02-03	2000-05-19	
-S000035383	noncoding_exon					tF(GAA)F		6	157951	157916	C		2011-02-03	2000-05-19	
-S000035382	noncoding_exon					tF(GAA)F		6	158007	157971	C		2011-02-03	2000-05-19	
-S000006933	long_terminal_repeat		YFRWdelta7			chromosome 6		6	158376	158686	W		2011-02-03	2000-05-19	Ty1 LTR
-S000001903	ORF	Verified	YFR007W	YFH7	AIM12	chromosome 6		6	159299	160360	W		2011-02-03	1996-07-31	Putative kinase with similarity to the PRK/URK/PANK kinase subfamily; the PRK/URK/PANK subfamily of P-loop kinases is also known as phosphoribulokinase/uridine kinase/bacterial pantothenate kinase
-S000035412	CDS					YFR007W		6	159299	160360	W		2011-02-03	1996-07-31	
-S000001904	ORF	Verified	YFR008W	FAR7		chromosome 6		6	160535	161200	W		2011-02-03	1996-07-31	Protein involved in recovery from pheromone-induced cell cycle arrest; acts in a Far1p-independent pathway; interacts with Far3p, Far8p, Far9p, Far10p, and Far11p; protein abundance increases in response to DNA replication stress
-S000035513	CDS					YFR008W		6	160535	161200	W		2011-02-03	1996-07-31	
-S000006931	long_terminal_repeat		YFRCdelta8			chromosome 6		6	162135	161804	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006579	tRNA_gene		tG(GCC)F1	SUF20		chromosome 6	L000002167|L000003810	6	162228	162298	W	6	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
-S000031966	noncoding_exon					tG(GCC)F1		6	162228	162298	W		2011-02-03	2000-05-19	
-S000001905	ORF	Verified	YFR009W	GCN20	putative AAA family ATPase GCN20	chromosome 6	L000000689	6	162488	164746	W		2011-02-03	1996-07-31	Positive regulator of the Gcn2p kinase activity; forms a complex with Gcn1p; proposed to stimulate Gcn2p activation by an uncharged tRNA
-S000035605	CDS					YFR009W		6	162488	164746	W		2011-02-03	1996-07-31	
-S000028823	ORF	Dubious	YFR009W-A			chromosome 6		6	163875	164132	W		2011-02-03	2003-08-07|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YFR009W; identified by expression profiling and mass spectrometry
-S000033643	CDS					YFR009W-A		6	163875	164132	W		2011-02-03	2003-08-07|2003-07-29	
-S000001906	ORF	Verified	YFR010W	UBP6	ubiquitin-specific protease UBP6	chromosome 6	L000004586	6	165067	166566	W		2011-02-03	1996-07-31	Ubiquitin-specific protease; situated in the base subcomplex of the 26S proteasome, releases free ubiquitin from branched polyubiquitin chains en bloc, rather than from the distal tip of the chain; negatively regulates degradation of ubiquitinated proteins by the proteasome; works in opposition to Hul5p polyubiquitin elongation activity; mutant has aneuploidy tolerance; human homolog UBP14 complements yeast null mutant
-S000037248	CDS					YFR010W		6	165067	166566	W		2011-02-03	1996-07-31	
-S000028824	ORF	Dubious	YFR010W-A			chromosome 6		6	166728	166916	W		2011-02-03	2003-08-07|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized gene YFR011C; identified by expression profiling and mass spectrometry
-S000033645	CDS					YFR010W-A		6	166728	166916	W		2011-02-03	2003-08-07|2003-07-29	
-S000001907	ORF	Verified	YFR011C	MIC19	AIM13|MCS19	chromosome 6		6	167258	166746	C		2011-02-03	1996-07-31	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; Mic19p is peripheral to the inner membrane and may connect Mic60p with the Mic10p-Mic12p-Mic27p subcomplex; both yeast and human Mic19p become oxidized, and oxidation may regulate MICOS
-S000037259	CDS					YFR011C		6	167258	166746	C		2011-02-03	1996-07-31	
-S000006779	tRNA_gene		tY(GUA)F1	SUP11		chromosome 6	L000003811|L000002188	6	167437	167525	W	4	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000030879	intron					tY(GUA)F1		6	167476	167489	W		2011-02-03	2000-05-19	
-S000030877	noncoding_exon					tY(GUA)F1		6	167437	167475	W		2011-02-03	2000-05-19	
-S000030878	noncoding_exon					tY(GUA)F1		6	167490	167525	W		2011-02-03	2000-05-19	
-S000007638	ARS		ARS606	ARS606		chromosome 6		6	167547	167801			2014-11-18	2001-03-06|2014-11-18	Highly-efficient autonomously replicating sequence on Chromosome VI; activated early in S phase in ~74% of cell cycles; replication capacity dependent upon Sum1p
-S000121275	ARS_consensus_sequence					ARS606		6	167736	167726	C		2011-02-03	2007-03-08	
-S000001908	ORF	Verified	YFR012W	DCV1		chromosome 6		6	167888	168496	W		2011-02-03	1996-07-31	Protein of unknown function; deletion mutant shows strong genetic interaction with cdc28-as1 mutant in the presence of 1-NM-PP1; DCV1 has a paralog, YOL019W, that arose from the whole genome duplication
-S000037437	CDS					YFR012W		6	167888	168496	W		2011-02-03	1996-07-31	
-S000007606	ORF	Uncharacterized	YFR012W-A			chromosome 6		6	169224	169310	W		2011-02-03	2001-02-26	Putative protein of unknown function; identified by homology
-S000037183	CDS					YFR012W-A		6	169224	169310	W		2011-02-03	2001-02-26	
-S000001909	ORF	Verified	YFR013W	IOC3		chromosome 6		6	169922	172285	W		2011-02-03	1996-07-31	Subunit of the Isw1a complex; Isw1a has nucleosome-stimulated ATPase activity and represses transcription initiation by specific positioning of a promoter proximal dinucleosome; promotes nucleosome shifts in the 5 prime direction; IOC3 has a paralog, ESC8, that arose from the whole genome duplication
-S000037546	CDS					YFR013W		6	169922	172285	W		2011-02-03	1996-07-31	
-S000001910	ORF	Verified	YFR014C	CMK1	calmodulin-dependent protein kinase CMK1	chromosome 6	L000000366	6	173877	172537	C		2011-02-03	1996-07-31|2011-02-03	Calmodulin-dependent protein kinase; may play a role in stress response, many Ca++/calmodulin dependent phosphorylation substrates demonstrated in vitro, amino acid sequence similar to mammalian Cam Kinase II; CMK1 has a paralog, CMK2, that arose from the whole genome duplication
-S000030207	CDS					YFR014C		6	173877	172537	C		2011-02-03	1996-07-31|2011-02-03	
-S000001911	ORF	Verified	YFR015C	GSY1	glycogen (starch) synthase GSY1	chromosome 6	L000000739	6	176391	174265	C		2011-02-03	1996-07-31	Glycogen synthase; expression induced by glucose limitation, nitrogen starvation, environmental stress, and entry into stationary phase; GSY1 has a paralog, GSY2, that arose from the whole genome duplication; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
-S000030390	CDS					YFR015C		6	176391	174265	C		2011-02-03	1996-07-31	
-S000001912	ORF	Verified	YFR016C			chromosome 6		6	180743	177042	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and bud; interacts with Spa2p; YFR016C is not an essential gene
-S000030514	CDS					YFR016C		6	180743	177042	C		2011-02-03	1996-07-31	
-S000006580	tRNA_gene		tG(GCC)F2			chromosome 6	L000003816	6	181044	180974	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000031970	noncoding_exon					tG(GCC)F2		6	181044	180974	C		2011-02-03	2000-05-19	
-S000001913	ORF	Verified	YFR017C	IGD1		chromosome 6		6	182861	182274	C		2011-02-03	1996-07-31	Cytoplasmic protein that inhibits Gdb1p glycogen debranching activity; required for normal intracellular accumulation of glycogen; phosphorylated in vivo; expression increases during wine fermentation; protein abundance increases in response to DNA replication stress; IGD1 has a paralog, YOL024W, that arose from the whole genome duplication
-S000031438	CDS					YFR017C		6	182861	182274	C		2011-02-03	1996-07-31	
-S000001914	ORF	Uncharacterized	YFR018C			chromosome 6		6	184222	183131	C		2011-02-03	1996-07-31	Putative protein of unknown function; SWAT-GFP and seamless GFP fusion proteins localize to the endoplasmic reticulum and mCherry fusion protein localizes to the vacuole
-S000031539	CDS					YFR018C		6	184222	183131	C		2011-02-03	1996-07-31	
-S000001915	ORF	Verified	YFR019W	FAB1	1-phosphatidylinositol-3-phosphate 5-kinase|SVL7	chromosome 6	L000000597	6	184502	191338	W		2011-02-03	1996-07-31|2011-02-03	1-phosphatidylinositol-3-phosphate 5-kinase; vacuolar membrane kinase that generates phosphatidylinositol (3,5)P2, which is involved in vacuolar sorting and homeostasis
-S000032628	CDS					YFR019W		6	184502	191338	W		2011-02-03	1996-07-31|2011-02-03	
-S000006731	tRNA_gene		tS(GCU)F			chromosome 6	L000003815	6	191613	191513	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000037442	intron					tS(GCU)F		6	191576	191558	C		2011-02-03	2000-05-19	
-S000037441	noncoding_exon					tS(GCU)F		6	191557	191513	C		2011-02-03	2000-05-19	
-S000037440	noncoding_exon					tS(GCU)F		6	191613	191577	C		2011-02-03	2000-05-19	
-S000006932	long_terminal_repeat		YFRCdelta9			chromosome 6		6	191854	191685	C		2011-02-03	2000-05-19	Ty1 LTR
-S000001916	ORF	Verified	YFR020W	CSS2		chromosome 6		6	192737	193435	W		2011-02-03	1996-07-31	Protein of unknown function, secreted when constitutively expressed; SWAT-GFP fusion protein localizes to the endoplasmic reticulum (ER) and extracellular region, while mCherry fusion protein localizes to the ER and vacuole; mRNA identified as translated by ribosome profiling data; CSS2 is a non-essential gene
-S000031952	CDS					YFR020W		6	192737	193435	W		2011-02-03	1996-07-31	
-S000001917	ORF	Verified	YFR021W	ATG18	phosphoinositide binding protein ATG18|SVP1|AUT10|CVT18|NMR1	chromosome 6		6	194812	196314	W		2011-02-03	1996-07-31	Phosphoinositide binding protein; required for vesicle formation in autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; binds both phosphatidylinositol (3,5)-bisphosphate and phosphatidylinositol 3-phosphate; WD-40 repeat protein; relocalizes from vacuole to cytoplasm upon DNA replication stress; has 4 mammalian homologs WIPI1, WIPI2, WIPI3 and WIPI4/WDR45; mutations in human WDR45 cause static encephalopathy of childhood with neurodegeneration in adulthood
-S000032840	CDS					YFR021W		6	194812	196314	W		2011-02-03	1996-07-31	
-S000001918	ORF	Verified	YFR022W	ROG3	ART7	chromosome 6		6	196833	199034	W		2011-02-03	1996-07-31	Alpha-arrestin involved in ubiquitin-dependent endocytosis; contributes to desensitization of agonist-occupied alpha-factor receptor Ste2p by Rsp5p-independent internalization; PPXY motif-mediated binding of the ubiquitin ligase Rsp5p is not required for adaptation; mutation suppresses the temperature sensitivity of an mck1 rim11 double mutant; SWAT-GFP and mCherry fusion proteins localize to the cytosol; ROG3 has a paralog, ROD1, that arose from the whole genome duplication
-S000032952	CDS					YFR022W		6	196833	199034	W		2011-02-03	1996-07-31	
-S000007639	ARS		ARS607	ARS607		chromosome 6		6	199395	199505			2011-02-03	2001-03-06	Highly-efficient autonomously replicating sequence on Chromosome VI; activated very early in S phase in >85% of cell cycles
-S000121276	ARS_consensus_sequence					ARS607		6	199416	199426	W		2011-02-03	2007-03-08	
-S000130131	ncRNA_gene		RUF22	RUF22		chromosome 6		6	199813	199299	C		2011-02-03	2009-05-04	RNA of Unknown Function; precise location of 3' end uncertain; RUF22 may be longer than currently annotated
-S000130132	noncoding_exon					RUF22		6	199813	199299	C		2011-02-03	2009-05-04	
-S000001919	ORF	Verified	YFR023W	PES4		chromosome 6	L000001381	6	199874	201709	W		2011-02-03	1996-07-31	Poly(A) binding protein, suppressor of DNA polymerase epsilon mutation; PES4 has a paralog, MIP6, that arose from the whole genome duplication
-S000033022	CDS					YFR023W		6	199874	201709	W		2011-02-03	1996-07-31	
-S000002968	ORF	Verified	YFR024C-A	LSB3	YFR024C	chromosome 6		6	203433	201960	C		2011-02-03	1996-07-31|2008-06-02	Protein containing a C-terminal SH3 domain; binds Las17p, which is a homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly and actin polymerization; protein abundance increases in response to DNA replication stress; LSB3 has a paralog, YSC84, that arose from the whole genome duplication
-S000035055	CDS					YFR024C-A		6	203292	201960	C		2011-02-03	1996-07-31|2008-06-02	
-S000035054	CDS					YFR024C-A		6	203433	203387	C		2011-02-03	1996-07-31	
-S000035056	intron					YFR024C-A		6	203386	203293	C		2011-02-03	1996-07-31|2008-06-02	
-S000001921	ORF	Verified	YFR025C	HIS2	histidinol-phosphatase	chromosome 6	L000000779	6	204750	203743	C	32	2011-02-03	1996-07-31	Histidinolphosphatase; catalyzes the eighth step in histidine biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts; transcription is regulated by general amino acid control
-S000033826	CDS					YFR025C		6	204750	203743	C		2011-02-03	1996-07-31	
-S000006511	tRNA_gene		tA(AGC)F			chromosome 6	L000003814	6	204996	204924	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000032277	noncoding_exon					tA(AGC)F		6	204996	204924	C		2011-02-03	2000-05-19	
-S000001922	ORF	Verified	YFR026C	ULI1		chromosome 6		6	206257	205748	C		2011-02-03	1996-07-31	Protein of unknown function; involved in and induced by the endoplasmic reticulum unfolded protein response (UPR); SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
-S000033947	CDS					YFR026C		6	206257	205748	C		2011-02-03	1996-07-31	
-S000006934	long_terminal_repeat		YFRWdelta10			chromosome 6		6	206922	207138	W		2011-02-03	2000-05-19	Ty1 LTR
-S000001923	ORF	Verified	YFR027W	ECO1	CTF7	chromosome 6	L000004789	6	207452	208297	W		2011-02-03	1996-07-31	Acetyltransferase; required for establishment of sister chromatid cohesion; acetylates Mps3p to regulate nuclear organization; modifies Smc3p at replication forks and Mcd1p in response to dsDNA breaks; phosphorylated by three kinases (Cdc28p, Cdc7p, Mck1p) to generate pair of phosphates spaced precisely for recognition by ubiquitin ligase SCF-Cdc4; mutations in human homolog ESCO2 cause Roberts syndrome; relative distribution to nucleus increases upon DNA replication stress
-S000034947	CDS					YFR027W		6	207452	208297	W		2011-02-03	1996-07-31	
-S000001924	ORF	Verified	YFR028C	CDC14	phosphoprotein phosphatase CDC14|OAF3	chromosome 6	L000000254	6	210068	208413	C	36	2011-02-03	1996-07-31	Protein phosphatase required for mitotic exit; required for rDNA segregation, cytokinesis, meiosis I spindle disassembly, environmental stress response; held in nucleolus by Cdc55p in early meiosis, liberated by FEAR and Mitotic Exit Network in anaphase, enabling it to effect a decrease in CDK/B-cyclin activity and mitotic exit; sequestered in metaphase II, released upon entry into anaphase II; human homolog CDC14A can complement thermosensitivity of yeast cdc14-1 mutant
-S000035011	CDS					YFR028C		6	210068	208413	C		2011-02-03	1996-07-31	
-S000006780	tRNA_gene		tY(GUA)F2	SUP6		chromosome 6	L000003813|L000002185	6	210707	210619	C	38	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000030888	intron					tY(GUA)F2		6	210668	210655	C		2011-02-03	2000-05-19	
-S000030887	noncoding_exon					tY(GUA)F2		6	210654	210619	C		2011-02-03	2000-05-19	
-S000030886	noncoding_exon					tY(GUA)F2		6	210707	210669	C		2011-02-03	2000-05-19	
-S000001925	ORF	Verified	YFR029W	PTR3	RAA2|SSY3	chromosome 6	L000003185|L000003493|S000029400|L000001554	6	210937	212973	W	46	2011-02-03	1996-07-31	Component of the SPS plasma membrane amino acid sensor system; senses external amino acid concentration and transmits intracellular signals that result in regulation of expression of amino acid permease genes; other members are Ssy1p, Ptr3p, and Ssy5p
-S000035279	CDS					YFR029W		6	210937	212973	W		2011-02-03	1996-07-31	
-S000001926	ORF	Verified	YFR030W	MET10	sulfite reductase subunit alpha	chromosome 6	L000001084	6	213312	216419	W	41	2011-02-03	1996-07-31	Subunit alpha of assimilatory sulfite reductase; complex converts sulfite into sulfide
-S000037036	CDS					YFR030W		6	213312	216419	W		2011-02-03	1996-07-31	
-S000007640	ARS		ARS608	ARS608		chromosome 6		6	216357	216704			2011-02-03	2001-03-06	Extremely inefficient autonomously replicating sequence on Chr VI; activated early in S phase in <10% of cell cycles
-S000121280	ARS_consensus_sequence					ARS608		6	216484	216494	W		2011-02-03	2007-03-08	
-S000001927	ORF	Verified	YFR031C	SMC2	condensin subunit SMC2	chromosome 6	L000001927	6	220106	216594	C		2011-02-03	1996-07-31|2011-02-03	Subunit of the condensin complex; condensin reorganizes chromosomes during both mitosis and meiosis; essential SMC chromosomal ATPase family member that forms a subcomplex with Smc2p that has ATP-hydrolyzing and DNA-binding activity, but other condensin subunits are required for chromatin binding; required for clustering of tRNA genes at the nucleolus
-S000037057	CDS					YFR031C		6	220106	216594	C		2011-02-03	1996-07-31|2011-02-03	
-S000002104	ORF	Verified	YFR031C-A	RPL2A	uL2|ribosomal 60S subunit protein L2A|L2|rp8|YL6|L5A|L2A|RPL5B	chromosome 6	L000003147	6	221418	220507	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L2A; homologous to mammalian ribosomal protein L2 and bacterial L2; RPL2A has a paralog, RPL2B, that arose from the whole genome duplication
-S000032329	CDS					YFR031C-A		6	221267	220507	C		2011-02-03	1996-07-31	
-S000032328	CDS					YFR031C-A		6	221418	221415	C		2011-02-03	1996-07-31	
-S000032330	intron					YFR031C-A		6	221414	221268	C		2011-02-03	1996-07-31	
-S000130133	ncRNA_gene		RUF23	RUF23		chromosome 6		6	221714	221967	W		2011-02-03	2009-05-04	RNA of Unknown Function; precise location of 3' end uncertain; RUF23 may be longer than currently annotated
-S000130134	noncoding_exon					RUF23		6	221714	221967	W		2011-02-03	2009-05-04	
-S000001928	ORF	Uncharacterized	YFR032C	RRT5		chromosome 6		6	222959	222090	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription; expressed at high levels during sporulation
-S000037177	CDS					YFR032C		6	222959	222090	C		2011-02-03	1996-07-31	
-S000006437	ORF	Verified	YFR032C-A	RPL29	eL29|ribosomal 60S subunit protein L29|L29e|YL43|L29	chromosome 6	L000004514	6	223437	223258	C		2011-02-03	1999-07-17	Ribosomal 60S subunit protein L29; not essential for translation, but required for proper joining of large and small ribosomal subunits and for normal translation rate; homologous to mammalian ribosomal protein L29, no bacterial homolog
-S000034020	CDS					YFR032C-A		6	223437	223258	C		2011-02-03	1999-07-17	
-S000122098	five_prime_UTR_intron					YFR032C-A		6	223771	223441	C		2011-02-03	2007-04-04	
-S000028630	ORF	Uncharacterized	YFR032C-B			chromosome 6		6	223973	223710	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032386	CDS					YFR032C-B		6	223973	223710	C		2011-02-03	2003-07-29	
-S000001929	ORF	Verified	YFR033C	QCR6	ubiquinol--cytochrome-c reductase subunit 6|UCR6|COR3	chromosome 6	L000001546	6	224769	224326	C		2011-02-03	1996-07-31	Subunit 6 of the ubiquinol cytochrome-c reductase complex; the complex, also known as the cytochrome bc(1) complex or Complex III, is a component of the mitochondrial inner membrane electron transport chain; highly acidic protein; required for maturation of cytochrome c1; may be loosely associated with the complex since it is easily released into the intermembrane space
-S000037271	CDS					YFR033C		6	224769	224326	C		2011-02-03	1996-07-31	
-S000001930	ORF	Verified	YFR034C	PHO4	phosphate-sensing transcription factor PHO4|phoD	chromosome 6	L000001420	6	225958	225020	C	47	2011-02-03	1996-07-31	Basic helix-loop-helix (bHLH) transcription factor of the myc-family; activates transcription cooperatively with Pho2p in response to phosphate limitation; binding to 'CACGTG' motif is regulated by chromatin restriction, competitive binding of Cbf1p to the same DNA binding motif and cooperation with Pho2p; function is regulated by phosphorylation at multiple sites and by phosphate availability
-S000029931	CDS					YFR034C		6	225958	225020	C		2011-02-03	1996-07-31	
-S000028631	ORF	Dubious	YFR034W-A			chromosome 6		6	226022	226309	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps YFR035C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
-S000032387	CDS					YFR034W-A		6	226022	226309	W		2011-02-03	2003-07-29	
-S000001931	ORF	Uncharacterized	YFR035C			chromosome 6		6	226465	226121	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant exhibits synthetic phenotype with alpha-synuclein
-S000030041	CDS					YFR035C		6	226465	226121	C		2011-02-03	1996-07-31	
-S000006620	tRNA_gene		tK(CUU)F			chromosome 6	L000003812	6	226760	226688	C		2011-02-03	2000-05-19|2011-02-03	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000036006	noncoding_exon					tK(CUU)F		6	226760	226688	C		2011-02-03	2000-05-19|2011-02-03	
-S000001932	ORF	Verified	YFR036W	CDC26	anaphase promoting complex subunit CDC26|SCD26|HIT3	chromosome 6	L000000265|L000001809	6	226963	227337	W	52	2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; relocalizes to the cytosol in response to hypoxia
-S000031122	CDS					YFR036W		6	226963	227337	W		2011-02-03	1996-07-31	
-S000028767	ORF	Dubious	YFR036W-A			chromosome 6		6	227451	228101	W		2011-02-03	2003-08-07|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps verified ORF RSC8/YFR037C
-S000033471	CDS					YFR036W-A		6	227451	228101	W		2011-02-03	2003-08-07|2003-07-29	
-S000001933	ORF	Verified	YFR037C	RSC8	SWH3	chromosome 6	L000003458|L000003393	6	229186	227513	C		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; essential for viability and mitotic growth; homolog of SWI/SNF subunit Swi3p, but unlike Swi3p, does not activate transcription of reporters
-S000031163	CDS					YFR037C		6	229186	227513	C		2011-02-03	1996-07-31	
-S000001934	ORF	Verified	YFR038W	IRC5	putative ATPase	chromosome 6		6	229380	231941	W		2011-02-03	2004-02-05|1996-07-31	Putative ATPase containing the DEAD/H helicase-related sequence motif; null mutant displays increased levels of spontaneous Rad52p foci; SWAT-GFP and mCherry fusion proteins localize to the nucleus
-S000031348	CDS					YFR038W		6	229380	231941	W		2011-02-03	2004-02-05|1996-07-31	
-S000001935	ORF	Verified	YFR039C	OSW7		chromosome 6		6	233544	232012	C		2011-02-03	1996-07-31	Protein involved in outer spore wall assembly; likely involved directly in dityrosine layer assembly; may be involved in response to high salt and changes in carbon source; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; deletion mutant has decreased spore survival in Drosophila feces; OSW7 has a paralog, SHE10, that arose from the whole genome duplication; paralogs are redundant for spore wall dityrosine assembly
-S000031395	CDS					YFR039C		6	233544	232012	C		2011-02-03	1996-07-31	
-S000001936	ORF	Verified	YFR040W	SAP155		chromosome 6	L000002598	6	234242	237250	W		2011-02-03	2003-09-26|1996-07-31|2011-02-03	Protein required for function of the Sit4p protein phosphatase; forms a complex with Sit4p; member of a family of similar proteins including Sap4p, Sap185p, and Sap190p; protein abundance increases in response to DNA replication stress; SAP155 has a paralog, SAP4, that arose from the whole genome duplication
-S000032382	CDS					YFR040W		6	234242	237250	W		2011-02-03	2003-09-26|1996-07-31|2011-02-03	
-S000001937	ORF	Verified	YFR041C	ERJ5		chromosome 6		6	238255	237368	C		2011-02-03	1996-07-31	Type I membrane protein with a J domain; required to preserve the folding capacity of the endoplasmic reticulum; loss of the non-essential ERJ5 gene leads to a constitutively induced unfolded protein response
-S000032446	CDS					YFR041C		6	238255	237368	C		2011-02-03	1996-07-31	
-S000001938	ORF	Verified	YFR042W	KEG1		chromosome 6		6	238458	239060	W		2011-02-03	1996-07-31	Integral membrane protein of the ER; physically interacts with Kre6p; has a role in the synthesis of beta-1,6-glucan in the cell wall; required for cell viability
-S000033287	CDS					YFR042W		6	238458	239060	W		2011-02-03	1996-07-31	
-S000001939	ORF	Verified	YFR043C	IRC6		chromosome 6		6	239827	239114	C		2011-02-03	1996-07-31	Clathrin coat accessory factor; involved in clathrin-mediated vesicle trafficking; may function to link the AP-1 clathrin adaptor complex with the Rab GTPase Ypt31p; has structural similarity to G-proteins; mouse homolog Aagab (p34) functionally complements irc6 null mutation; null mutant displays increased levels of spontaneous Rad52p foci
-S000033328	CDS					YFR043C		6	239827	239114	C		2011-02-03	1996-07-31	
-S000001940	ORF	Verified	YFR044C	DUG1	metallodipeptidase	chromosome 6		6	241437	239992	C		2011-02-03	1996-07-31	Cys-Gly metallo-di-peptidase; forms a complex with Dug2p and Dug3p to degrade glutathione (GSH) and other peptides containing a gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p); human homolog CNDP2 can complement yeast dug1 mutant
-S000033403	CDS					YFR044C		6	241437	239992	C		2011-02-03	1996-07-31	
-S000001941	ORF	Uncharacterized	YFR045W			chromosome 6		6	241998	242999	W		2011-02-03	2004-02-05|2007-04-04|1996-07-31	Putative mitochondrial transport protein; null mutant is viable, exhibits decreased levels of chitin and normal resistance to calcofluor white
-S000122078	CDS					YFR045W		6	241998	242009	W		2011-02-03	2007-04-04	
-S000034370	CDS					YFR045W		6	242082	242999	W		2011-02-03	2004-02-05|2007-04-04|1996-07-31	
-S000122079	intron					YFR045W		6	242010	242081	W		2011-02-03	2007-04-04	
-S000001942	ORF	Verified	YFR046C	CNN1	centromere-binding protein CNN1	chromosome 6		6	244159	243074	C		2011-02-03	1996-07-31	Kinetochore protein; associated with the essential kinetochore proteins Nnf1p and Spc24p; phosphorylated by Clb5-Cdk1, Mps1p, Ipl1p and to a lesser extent by Clb2-Cdk1; localizes to the lower region of the Ndc80 complex during anaphase and regulates KMN activity by inhibiting the Mtw1 and Spc105 complexes from binding to the Ndc80 complex; similar to metazoan CENP-T
-S000034403	CDS					YFR046C		6	244159	243074	C		2011-02-03	1996-07-31	
-S000001943	ORF	Verified	YFR047C	BNA6	nicotinate-nucleotide diphosphorylase (carboxylating)|QPT1	chromosome 6		6	245166	244279	C		2011-02-03	1996-07-31	Quinolinate phosphoribosyl transferase; required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
-S000034510	CDS					YFR047C		6	245166	244279	C		2011-02-03	1996-07-31	
-S000001944	ORF	Verified	YFR048W	RMD8		chromosome 6		6	246146	248134	W		2011-02-03	1996-07-31	Cytosolic protein required for sporulation
-S000035572	CDS					YFR048W		6	246146	248134	W		2011-02-03	1996-07-31	
-S000001945	ORF	Verified	YFR049W	YMR31	KGD4|mitochondrial 37S ribosomal protein YMR31	chromosome 6	L000002726	6	248523	248894	W		2011-02-03	1996-07-31	Subunit of the mitochondrial alpha-ketoglutarate dehydrogenase; recruits E3 subunit (Lpd1p) to the E1-E2 (Kgd1p, Kgd2p) core; has similarity to human mitochondrial ribosomal protein MRP-S36
-S000035651	CDS					YFR049W		6	248523	248894	W		2011-02-03	1996-07-31	
-S000001946	ORF	Verified	YFR050C	PRE4	proteasome core particle subunit beta 7	chromosome 6	L000001486	6	249866	249066	C		2011-02-03	1996-07-31	Beta 7 subunit of the 20S proteasome
-S000035525	CDS					YFR050C		6	249866	249066	C		2011-02-03	1996-07-31	
-S000001947	ORF	Verified	YFR051C	RET2	coatomer subunit delta	chromosome 6	L000004127	6	251803	250163	C		2011-02-03	1996-07-31	Delta subunit of the coatomer complex (COPI); COPI coats Golgi-derived transport vesicles; involved in retrograde transport between Golgi and ER
-S000035589	CDS					YFR051C		6	251803	250163	C		2011-02-03	1996-07-31	
-S000001948	ORF	Verified	YFR052W	RPN12	proteasome regulatory particle lid subunit RPN12|NIN1	chromosome 6	L000001251	6	252505	253329	W		2011-02-03	1996-07-31	Subunit of the 19S regulatory particle of the 26S proteasome lid; synthetically lethal with RPT1, which is an ATPase component of the 19S regulatory particle; physically interacts with Nob1p and Rpn3p; protein abundance increases in response to DNA replication stress
-S000036541	CDS					YFR052W		6	252505	253329	W		2011-02-03	1996-07-31	
-S000028768	ORF	Dubious	YFR052C-A			chromosome 6		6	253734	253429	C		2011-02-03	2003-08-07|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF HXK1/YFR053C
-S000033472	CDS					YFR052C-A		6	253734	253429	C		2011-02-03	2003-08-07|2003-07-29	
-S000001949	ORF	Verified	YFR053C	HXK1	hexokinase 1	chromosome 6	L000000833	6	255049	253592	C	70	2011-02-03	1996-07-31	Hexokinase isoenzyme 1; a cytosolic protein that catalyzes phosphorylation of glucose during glucose metabolism; expression is highest during growth on non-glucose carbon sources; glucose-induced repression involves hexokinase Hxk2p; HXK1 has a paralog, HXK2, that arose from the whole genome duplication
-S000036582	CDS					YFR053C		6	255049	253592	C		2011-02-03	1996-07-31	
-S000007641	ARS		ARS609	ARS609		chromosome 6		6	256277	256431			2011-02-03	2001-03-06	Autonomously replicating sequence on Chromosome VI; activated very late in S phase in ~37% of cell cycles; this origin is specifically fired in the absence of RAD53 in the presence of hydroxyurea
-S000121281	ARS_consensus_sequence					ARS609		6	256385	256375	C		2011-02-03	2007-03-08	
-S000001950	ORF	Dubious	YFR054C			chromosome 6		6	259433	258855	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000036701	CDS					YFR054C		6	259433	258855	C		2011-02-03	1996-07-31	
-S000001952	ORF	Verified	YFR055W	IRC7	cysteine-S-conjugate beta-lyase IRC7	chromosome 6		6	264204	265226	W		2011-02-03	1996-07-31	Beta-lyase involved in the production of thiols; null mutant displays increased levels of spontaneous Rad52p foci; expression induced by nitrogen limitation in a GLN3, GAT1-dependent manner and by copper levels in a Mac1-dependent manner
-S000037482	CDS					YFR055W		6	264204	265226	W		2011-02-03	1996-07-31	
-S000001951	ORF	Dubious	YFR056C			chromosome 6		6	264325	263957	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YFR055W
-S000037536	CDS					YFR056C		6	264325	263957	C		2011-02-03	1996-07-31	
-S000001953	ORF	Uncharacterized	YFR057W			chromosome 6		6	269061	269516	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000030392	CDS					YFR057W		6	269061	269516	W		2011-02-03	1996-07-31	
-S000121260	ARS		ARS610	ARS610	ARSVI-270	chromosome 6		6	269417	270035			2011-02-03	2007-03-08	Autonomously Replicating Sequence
-S000028957	telomere		TEL06R			chromosome 6		6	269731	270161	W	73	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome VI; composed of an X element core sequence and a short terminal stretch of telomeric repeats
-S000028958	telomeric_repeat					TEL06R		6	270113	270161	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome VI
-S000028959	X_element					TEL06R		6	269731	270112	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome VI; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000029680	gene_group		MAL1	MAL1		chromosome 7	L000001000	7							Multigene complex, polymeric locus for maltose fermentation; encodes the MAL13 trans-acting MAL-activator, MAL11 maltose permease, and MAL12 maltase
-S000028887	telomere		TEL07L			chromosome 7		7	781	1	C	-172	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome VII; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
-S000028888	telomeric_repeat					TEL07L		7	34	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome VII
-S000028889	X_element					TEL07L		7	781	318	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome VII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028890	X_element_combinatorial_repeat					TEL07L		7	317	35	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr VII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000006948	long_terminal_repeat		YGLWomega1			chromosome 7		7	838	1079	W		2000-05-19	2000-05-19	Ty5 LTR
-S000003232	ORF	Verified	YGL263W	COS12		chromosome 7	L000004069	7	2790	3932	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000031687	CDS					YGL263W		7	2790	3932	W		1996-07-31	1996-07-31	
-S000003231	ORF	Uncharacterized	YGL262W			chromosome 7		7	5312	5839	W		1996-07-31	1996-07-31	Putative protein of unknown function; null mutant displays elevated sensitivity to expression of a mutant huntingtin fragment or of alpha-synuclein; YGL262W is not an essential gene
-S000031603	CDS					YGL262W		7	5312	5839	W		1996-07-31	1996-07-31	
-S000003230	ORF	Uncharacterized	YGL261C	PAU11	seripauperin PAU11	chromosome 7		7	6652	6290	C		1996-07-31	1996-07-31	Putative protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; mRNA expression appears to be regulated by SUT1 and UPC2
-S000030725	CDS					YGL261C		7	6652	6290	C		1996-07-31	1996-07-31	
-S000003229	ORF	Uncharacterized	YGL260W			chromosome 7		7	6860	7090	W		1996-07-31	1996-07-31	Putative protein of unknown function; transcription is significantly increased in a NAP1 deletion background; deletion mutant has increased accumulation of nickel and selenium
-S000030684	CDS					YGL260W		7	6860	7090	W		1996-07-31	1996-07-31	
-S000003228	ORF	Uncharacterized	YGL259W	YPS5		chromosome 7	L000004385	7	8470	8967	W		1996-07-31	1996-07-31	Protein with similarity to GPI-anchored aspartic proteases; such proteases are Yap1p and Yap3p; mCherry fusion protein localizes to the vacuole
-S000030354	CDS					YGL259W		7	8470	8967	W		1996-07-31	1996-07-31	
-S000007607	ORF	Uncharacterized	YGL258W-A			chromosome 7		7	9162	9395	W		2001-02-26	2001-02-26	Putative protein of unknown function
-S000037184	CDS					YGL258W-A		7	9162	9395	W		2001-02-26	2001-02-26	
-S000003227	ORF	Verified	YGL258W	VEL1		chromosome 7		7	11110	11730	W		1996-07-31	1996-07-31	Protein of unknown function; highly induced in zinc-depleted conditions and has increased expression in NAP1 deletion mutants; VEL1 has a paralog, YOR387C, that arose from a single-locus duplication
-S000030158	CDS					YGL258W		7	11110	11730	W		1996-07-31	1996-07-31	
-S000003226	ORF	Verified	YGL257C	MNT2	alpha-1,3-mannosyltransferase MNT2	chromosome 7	S000007417	7	14157	12481	C		1996-07-31	1996-07-31	Mannosyltransferase; involved in adding the 4th and 5th mannose residues of O-linked glycans
-S000037390	CDS					YGL257C		7	14157	12481	C		1996-07-31	1996-07-31	
-S000003225	ORF	Verified	YGL256W	ADH4	alcohol dehydrogenase ADH4|ZRG5|NRC465	chromosome 7	L000000044	7	15159	16307	W	-169	2008-06-02	1996-07-31|2008-06-02	Alcohol dehydrogenase isoenzyme type IV; dimeric enzyme demonstrated to be zinc-dependent despite sequence similarity to iron-activated alcohol dehydrogenases; transcription is induced in response to zinc deficiency
-S000037356	CDS					YGL256W		7	15159	16307	W		2008-06-02	1996-07-31|2008-06-02	
-S000003224	ORF	Verified	YGL255W	ZRT1	high-affinity Zn(2+) transporter ZRT1	chromosome 7	L000003260	7	20978	22108	W		1996-07-31	1996-07-31	High-affinity zinc transporter of the plasma membrane; responsible for the majority of zinc uptake; transcription is induced under low-zinc conditions by the Zap1p transcription factor
-S000037251	CDS					YGL255W		7	20978	22108	W		1996-07-31	1996-07-31	
-S000003223	ORF	Verified	YGL254W	FZF1	SUL1|RSU1|NRC299	chromosome 7	L000001781|L000000656	7	22304	23203	W		1996-07-31	1996-07-31	Transcription factor involved in sulfite metabolism; sole identified regulatory target is SSU1; overexpression suppresses sulfite-sensitivity of many unrelated mutants due to hyperactivation of SSU1, contains five zinc fingers; protein abundance increases in response to DNA replication stress
-S000036566	CDS					YGL254W		7	22304	23203	W		1996-07-31	1996-07-31	
-S000003222	ORF	Verified	YGL253W	HXK2	hexokinase 2|SCI2|HKB|HEX1	chromosome 7	L000000834	7	23935	25395	W	-167	1996-07-31	1996-07-31	Hexokinase isoenzyme 2; phosphorylates glucose in cytosol; predominant hexokinase during growth on glucose; represses expression of HXK1, GLK1, induces expression of its own gene; antiapoptotic; phosphorylation/dephosphorylation at Ser14 by kinase Snf1p, phosphatase Glc7p-Reg1p regulates nucleocytoplasmic shuttling of Hxk2p; functions downstream of Sit4p in control of cell cycle, mitochondrial function, oxidative stress resistance, chronological lifespan; has paralog HXK1
-S000036456	CDS					YGL253W		7	23935	25395	W		1996-07-31	1996-07-31	
-S000003221	ORF	Verified	YGL252C	RTG2		chromosome 7	L000001784	7	27484	25718	C		1996-07-31	1996-07-31	Sensor of mitochondrial dysfunction; regulates the subcellular location of Rtg1p and Rtg3p, transcriptional activators of the retrograde (RTG) and TOR pathways; Rtg2p is inhibited by the phosphorylated form of Mks1p
-S000036310	CDS					YGL252C		7	27484	25718	C		1996-07-31	1996-07-31	
-S000003220	ORF	Verified	YGL251C	HFM1	MER3	chromosome 7	L000002581	7	31636	27921	C		2000-07-14	2000-07-14|1996-07-31	Meiosis specific DNA helicase; involved in the conversion of double-stranded breaks to later recombination intermediates and in crossover control; catalyzes the unwinding of Holliday junctions; has ssDNA and dsDNA stimulated ATPase activity
-S000035419	CDS					YGL251C		7	31426	27921	C		2000-07-14	2000-07-14|1996-07-31	
-S000035418	CDS					YGL251C		7	31636	31579	C		2000-07-14	2000-07-14	
-S000035420	intron					YGL251C		7	31578	31427	C		2000-07-14	2000-07-14	
-S000003219	ORF	Verified	YGL250W	RMR1		chromosome 7		7	31910	32635	W		2003-09-22	2003-09-22|1996-07-31	Protein required for meiotic recombination and gene conversion; null mutant displays reduced PIS1 expression and growth defects on non-fermentable carbon sources and minimal media; GFP-fusion protein localizes to both cytoplasm and nucleus
-S000035397	CDS					YGL250W		7	31910	32635	W		2003-09-22	2003-09-22|1996-07-31	
-S000003218	ORF	Verified	YGL249W	ZIP2		chromosome 7	L000003536	7	33098	35212	W		1996-07-31	1996-07-31	Meiosis-specific protein; involved in normal synaptonemal complex formation and pairing between homologous chromosomes during meiosis; relocalizes from mitochondrion to cytoplasm upon DNA replication stress
-S000034159	CDS					YGL249W		7	33098	35212	W		1996-07-31	1996-07-31	
-S000144910	ncRNA_gene		RME3	RME3	SUT534	chromosome 7		7	35013	33109	C		2014-11-18	2014-11-18	Antisense transcript that represses the meiosis-specific ZIP2 gene; expressed in haploid cells under sporulation inducing conditions; regulates ZIP2 in a cis-dependent manner; RME3 is repressed by the MAT a1/alpha2 complex in diploid cells
-S000178099	noncoding_exon					RME3		7	35013	33109	C		2014-11-18	2014-11-18	
-S000003217	ORF	Verified	YGL248W	PDE1	3',5'-cyclic-nucleotide phosphodiesterase PDE1	chromosome 7	L000001358	7	35653	36762	W		1996-07-31	1996-07-31	Low-affinity cyclic AMP phosphodiesterase; controls glucose and intracellular acidification-induced cAMP signaling, target of the cAMP-protein kinase A (PKA) pathway; glucose induces transcription and inhibits translation
-S000033288	CDS					YGL248W		7	35653	36762	W		1996-07-31	1996-07-31	
-S000003216	ORF	Verified	YGL247W	BRR6		chromosome 7		7	36933	37526	W		1996-07-31	1996-07-31	Essential nuclear envelope integral membrane protein; interacts and functions with Apq12p and Brl1p in lipid homeostasis; mutants are defective in nuclear pore complex biogenesis, nuclear envelope morphology, mRNA nuclear export, and are sensitive to sterol biosynthesis inhibitors and membrane fluidizing agents; exhibits synthetic lethal genetic interactions with genes involved in lipid metabolism; homologous to Brl1p
-S000033240	CDS					YGL247W		7	36933	37526	W		1996-07-31	1996-07-31	
-S000003215	ORF	Verified	YGL246C	RAI1	decapping nuclease	chromosome 7	S000007430	7	38780	37617	C		1996-07-31	1996-07-31	Nuclear protein with decapping endonuclease activity; targets mRNAs with unmethylated 7-methylguanosine cap structures and 5'-triphosphates; binds to and stabilizes the exoribonuclease Rat1p; required for pre-rRNA processing; relocalizes to the cytosol in response to hypoxia; homologous to human DOM3Z
-S000033150	CDS					YGL246C		7	38780	37617	C		1996-07-31	1996-07-31	
-S000003214	ORF	Verified	YGL245W	GUS1	glutamate--tRNA ligase GUS1|GluRS|GSN1	chromosome 7		7	39023	41149	W		2003-09-22	2003-09-22|1996-07-31	Glutamyl-tRNA synthetase (GluRS); forms a complex with methionyl-tRNA synthetase (Mes1p) and Arc1p; complex formation increases the catalytic efficiency of both tRNA synthetases and ensures their correct localization to the cytoplasm; protein abundance increases in response to DNA replication stress
-S000033122	CDS					YGL245W		7	39023	41149	W		2003-09-22	2003-09-22|1996-07-31	
-S000003213	ORF	Verified	YGL244W	RTF1	CSL3	chromosome 7	L000001782	7	41498	43174	W		1999-07-17	1999-07-17|1996-07-31	Subunit of RNAPII-associated chromatin remodeling Paf1 complex; regulates gene expression by directing cotranscriptional histone modification, influences transcription and chromatin structure through several independent functional domains; directly or indirectly regulates DNA-binding properties of Spt15p and relative activities of different TATA elements; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay
-S000032242	CDS					YGL244W		7	41498	43174	W		1999-07-17	1999-07-17|1996-07-31	
-S000003212	ORF	Verified	YGL243W	TAD1	tRNA-specific adenosine deaminase	chromosome 7	L000004621	7	43307	44509	W		1996-07-31	1996-07-31	tRNA-specific adenosine deaminase; deaminates adenosine-37 to inosine in tRNA-Ala
-S000032159	CDS					YGL243W		7	43307	44509	W		1996-07-31	1996-07-31	
-S000003211	ORF	Verified	YGL242C			chromosome 7		7	45197	44652	C		1996-07-31	1996-07-31	Protein of unknown function; N-terminally propionylated in vivo; deletion mutant is viable
-S000032036	CDS					YGL242C		7	45197	44652	C		1996-07-31	1996-07-31	
-S000003210	ORF	Verified	YGL241W	KAP114		chromosome 7	L000004867	7	45445	48459	W		1996-07-31	1996-07-31	Karyopherin, responsible for nuclear import of specific proteins; cargoes include Spt15p, Sua7p, histones H2A and H2B, and Nap1p; amino terminus shows similarity to those of other importins, particularly Cse1p; localization is primarily nuclear; function is regulated by sumoylation; protein abundance increases in response to DNA replication stress
-S000032007	CDS					YGL241W		7	45445	48459	W		1996-07-31	1996-07-31	
-S000003209	ORF	Verified	YGL240W	DOC1	anaphase promoting complex subunit DOC1|APC10	chromosome 7	L000004350	7	48613	49365	W		2003-09-22	2003-09-22|1996-07-31	Processivity factor; required for the ubiquitination activity of the anaphase promoting complex (APC), mediates the activity of the APC by contributing to substrate recognition; involved in cyclin proteolysis; contains a conserved DOC1 homology domain
-S000031054	CDS					YGL240W		7	48613	49365	W		2003-09-22	2003-09-22|1996-07-31	
-S000003207	ORF	Verified	YGL238W	CSE1	importin-alpha export receptor|KAP109	chromosome 7	L000000425	7	49552	52434	W		1996-07-31	1996-07-31	Nuclear envelope protein that acts as a recycling factor; mediates the nuclear export of Srp1p (importin alpha) back to the cytoplasm after its import substrates have been released into the nucleoplasm, thereby allowing the participation of Srp1p in multiple rounds of nuclear import; required for accurate chromosome segregation; homolog of metazoan CAS and human CSE1L, overexpression of which is implicated in cancer progression
-S000029914	CDS					YGL238W		7	49552	52434	W		1996-07-31	1996-07-31	
-S000003208	ORF	Dubious	YGL239C			chromosome 7		7	49745	49431	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene CSE1
-S000029968	CDS					YGL239C		7	49745	49431	C		1996-07-31	1996-07-31	
-S000003206	ORF	Verified	YGL237C	HAP2		chromosome 7	L000000752	7	53528	52731	C	-148	1996-07-31	1996-07-31	Subunit of the Hap2p/3p/4p/5p CCAAT-binding complex; complex is heme-activated and glucose-repressed; complex is a transcriptional activator and global regulator of respiratory gene expression; contains sequences sufficient for both complex assembly and DNA binding; respiratory defect of the null mutant is functionally complemented by human NFYA
-S000037826	CDS					YGL237C		7	53528	52731	C		1996-07-31	1996-07-31	
-S000003204	ORF	Uncharacterized	YGL235W			chromosome 7		7	55279	55815	W		2004-07-15	1996-07-31	Putative protein of unknown function; potential Cdc28p substrate; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
-S000037051	CDS					YGL235W		7	55279	55815	W		2004-07-15	1996-07-31	
-S000003205	ORF	Verified	YGL236C	MTO1	tRNA modification protein MTO1|IPS1	chromosome 7		7	55796	53787	C		2004-07-15	2004-07-15|1996-07-31	Mitochondrial protein; forms heterodimer complex with Mss1p that performs 5-carboxymethylaminomethyl modification of the wobble uridine base in mitochondrial tRNAs; required for respiration in paromomycin-resistant 15S rRNA mutants; human homolog MTO1 can complement yeast null mutant
-S000037073	CDS					YGL236C		7	55796	53787	C		2004-07-15	2004-07-15|1996-07-31	
-S000003203	ORF	Verified	YGL234W	ADE5,7	bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase	chromosome 7	L000000035	7	56482	58890	W	-152	2004-07-15	1996-07-31	Enzyme of the 'de novo' purine nucleotide biosynthetic pathway; contains aminoimidazole ribotide synthetase and glycinamide ribotide synthetase activities
-S000036969	CDS					YGL234W		7	56482	58890	W		2004-07-15	1996-07-31	
-S000003202	ORF	Verified	YGL233W	SEC15	Rab GTPase-binding exocyst subunit SEC15	chromosome 7	L000001840	7	59122	61854	W		2004-07-15	1996-07-31	Essential 113 kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis prior to SNARE-mediated fusion; interacts with and functions as a downstream effector of active, GTP-bound Sec4p, a Rab family GTPase
-S000036914	CDS					YGL233W		7	59122	61854	W		2004-07-15	1996-07-31	
-S000003201	ORF	Verified	YGL232W	TAN1	putative tRNA acetyltransferase	chromosome 7		7	62075	63002	W		2004-07-15	1996-07-31	Putative tRNA acetyltransferase; RNA-binding protein required for the formation of the modified nucleoside N(4)-acetylcytidine in serine and leucine tRNAs but not required for the same modification in 18S rRNA; protein abundance increases in response to DNA replication stress
-S000036130	CDS					YGL232W		7	62075	62131	W		2004-07-15	1996-07-31	
-S000036131	CDS					YGL232W		7	62190	63002	W		2004-07-15	1996-07-31	
-S000036132	intron					YGL232W		7	62132	62189	W		2004-07-15	1996-07-31	
-S000003200	ORF	Verified	YGL231C	EMC4	chaperone EMC4	chromosome 7		7	63620	63048	C		2004-07-15	1996-07-31	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; homologous to worm ZK616.6/EMC-4 and fly CG11137; mutation is functionally complemented by human EMC4
-S000035888	CDS					YGL231C		7	63620	63048	C		2004-07-15	1996-07-31	
-S000003199	ORF	Uncharacterized	YGL230C			chromosome 7		7	64215	63772	C		2004-07-15	1996-07-31	Putative protein of unknown function; non-essential gene
-S000034975	CDS					YGL230C		7	64215	63772	C		2004-07-15	1996-07-31	
-S000118451	ARS		ARS702		ARSVII-64	chromosome 7		7	64360	64464			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000119018	ARS_consensus_sequence					ARS702		7	64458	64444	C		2006-10-03	2006-10-03	
-S000003198	ORF	Verified	YGL229C	SAP4		chromosome 7	L000003341	7	66959	64503	C		2004-07-15	1996-07-31	Protein required for function of the Sit4p protein phosphatase; member of a family of similar proteins that form complexes with Sit4p, including Sap155p, Sap185p, and Sap190p; SAP4 has a paralog, SAP155, that arose from the whole genome duplication
-S000034012	CDS					YGL229C		7	66959	64503	C		2004-07-15	1996-07-31	
-S000003197	ORF	Verified	YGL228W	SHE10		chromosome 7	L000002872	7	67598	69331	W		2004-07-15	1996-07-31	Protein involved in outer spore wall assembly; likely involved directly in dityrosine layer assembly; putative GPI-anchored protein; overexpression causes growth arrest;; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; SHE10 has a paralog, OSW7/YFR039C, that arose from the whole genome duplication; paralogs are redundant for spore wall dityrosine assembly
-S000033924	CDS					YGL228W		7	67598	69331	W		2004-07-15	1996-07-31	
-S000003196	ORF	Verified	YGL227W	VID30	glucose-induced degradation complex subunit VID30|GID1	chromosome 7	L000004008	7	69671	72547	W		2004-07-15	1996-07-31	Central component of GID Complex, involved in FBPase degradation; interacts strongly with Gid8p to serve as a scaffold for other GID Complex subunits; contains SPRY domain and 3 domains that are also found in Gid8p - LisH, CTLH, and CRA; required for association of Vid vesicles and actin patches in vacuole import and degradation pathway; shifts the balance of nitrogen metabolism toward glutamate production; localizes to the nucleus and the cytoplasm
-S000033846	CDS					YGL227W		7	69671	72547	W		2004-07-15	1996-07-31	
-S000003194	ORF	Verified	YGL226C-A	OST5	dolichyl-diphosphooligosaccharide--protein glycotransferase subunit	chromosome 7	L000002944	7	73158	72749	C		2011-02-03	1996-07-31	Zeta subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins
-S000037108	CDS					YGL226C-A		7	72988	72749	C		2011-02-03	1996-07-31	
-S000037107	CDS					YGL226C-A		7	73158	73138	C		2011-02-03	1996-07-31	
-S000037109	intron					YGL226C-A		7	73137	72989	C		2011-02-03	1996-07-31	
-S000003195	ORF	Verified	YGL226W	MTC3		chromosome 7		7	73340	73711	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; mtc3 is synthetically sick with cdc13-1
-S000033716	CDS					YGL226W		7	73340	73711	W		2011-02-03	1996-07-31	
-S000006757	tRNA_gene		tV(AAC)G3			chromosome 7	L000003854	7	73902	73829	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000036907	noncoding_exon					tV(AAC)G3		7	73902	73829	C		2011-02-03	2000-05-19	
-S000003193	ORF	Verified	YGL225W	VRG4	GDP-mannose transporter|VIG4|LDB3|GOG5|VAN2	chromosome 7	L000000719	7	76894	77907	W		2011-02-03	1996-07-31	Golgi GDP-mannose transporter; regulates Golgi function and glycosylation in Golgi; VRG4 has a paralog, HVG1, that arose from the whole genome duplication
-S000033042	CDS					YGL225W		7	76894	77907	W		2011-02-03	1996-07-31	
-S000003192	ORF	Verified	YGL224C	SDT1	nucleotidase|SSM1	chromosome 7	L000003406	7	78857	78015	C		2011-02-03	1996-07-31	Pyrimidine nucleotidase; responsible for production of nicotinamide riboside and nicotinic acid riboside; overexpression suppresses the 6-AU sensitivity of transcription elongation factor S-II, as well as resistance to other pyrimidine derivatives; SDT1 has a paralog, PHM8, that arose from the whole genome duplication
-S000032898	CDS					YGL224C		7	78857	78015	C		2011-02-03	1996-07-31	
-S000003191	ORF	Verified	YGL223C	COG1	Golgi transport complex subunit COG1|SEC36|LDB11|COD3	chromosome 7		7	80365	79112	C		2011-02-03	1996-07-31	Essential component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
-S000032824	CDS					YGL223C		7	80365	79112	C		2011-02-03	1996-07-31	
-S000003190	ORF	Verified	YGL222C	EDC1		chromosome 7		7	81186	80659	C		2011-02-03	1996-07-31	RNA-binding protein that activates mRNA decapping directly; binds to mRNA substrate and enhances activity of decapping proteins Dcp1p and Dcp2p; has a role in translation during heat stress; protein becomes more abundant and forms cytoplasmic foci in response to DNA replication stress; EDC1 has a paralog, EDC2, that arose from the whole genome duplication
-S000031900	CDS					YGL222C		7	81186	80659	C		2011-02-03	1996-07-31	
-S000003189	ORF	Verified	YGL221C	NIF3	hypothetical protein	chromosome 7	L000003316	7	82292	81426	C		2011-02-03	1996-07-31	Protein of unknown function; similar to Listeria monocytogenes major sigma factor (rpoD gene product); the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000031759	CDS					YGL221C		7	82292	81426	C		2011-02-03	1996-07-31	
-S000003188	ORF	Verified	YGL220W	BOL2	FRA2|AIM15	chromosome 7		7	82374	82736	W		2011-02-03	1996-07-31	Cytosolic protein involved in repression of iron regulon transcription; forms an iron-independent complex with Fra1p, Grx3p, and Grx4p; null mutant fails to repress the iron regulon and is sensitive to nickel; sequence similarity to human BOLA family member, BOLA2
-S000031708	CDS					YGL220W		7	82374	82736	W		2011-02-03	1996-07-31	
-S000003186	ORF	Dubious	YGL218W		SRF1	chromosome 7		7	83650	84300	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 93% of ORF overlaps the verified gene MDM34; deletion in cyr1 mutant results in loss of stress resistance
-S000030779	CDS					YGL218W		7	83650	84300	W		2011-02-03	1996-07-31	
-S000003187	ORF	Verified	YGL219C	MDM34	ERMES complex subunit MDM34|MMM2	chromosome 7		7	84257	82878	C		2011-02-03	1996-07-31	Mitochondrial component of the ERMES complex; links the ER to mitochondria and may promote inter-organellar calcium and phospholipid exchange as well as coordinating mitochondrial DNA replication and growth; required for mitophagy; ERMES complex is often co-localized with peroxisomes and with concentrated areas of pyruvate dehydrogenase
-S000030809	CDS					YGL219C		7	84257	82878	C		2011-02-03	1996-07-31	
-S000003184	ORF	Verified	YGL216W	KIP3	tubulin-dependent ATPase KIP3	chromosome 7	L000003911	7	84885	87302	W		2011-02-03	1996-07-31	Kinesin-related antiparallel sliding motor protein; involved in mitotic spindle positioning; sliding activity promotes bipolar spindle assembly and maintenance of genome stability; inhibits spindle elongation, destabilizing late anaphase spindle microtubules that polymerize beyond the midzone
-S000037780	CDS					YGL216W		7	84885	87302	W		2011-02-03	1996-07-31	
-S000003185	ORF	Dubious	YGL217C			chromosome 7		7	85180	84839	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF KIP3/YGL216W
-S000030618	CDS					YGL217C		7	85180	84839	C		2011-02-03	1996-07-31	
-S000003183	ORF	Verified	YGL215W	CLG1		chromosome 7	L000000356	7	87981	89339	W		2011-02-03	1996-07-31	Cyclin-like protein that interacts with Pho85p; has sequence similarity to G1 cyclins PCL1 and PCL2
-S000037731	CDS					YGL215W		7	87981	89339	W		2011-02-03	1996-07-31	
-S000003182	ORF	Dubious	YGL214W			chromosome 7		7	90010	90495	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion mutation phenotype is likely due to the overlapping verified ORF SKI8/YGL213C
-S000037674	CDS					YGL214W		7	90010	90495	W		2011-02-03	1996-07-31|2011-02-03	
-S000003181	ORF	Verified	YGL213C	SKI8	SKI complex subunit WD repeat protein SKI8|REC103	chromosome 7	L000001906	7	91247	90054	C	-149	2011-02-03	1996-07-31	Ski complex component and WD-repeat protein; mediates 3'-5' RNA degradation by the cytoplasmic exosome; also required for meiotic double-strand break recombination; null mutants have superkiller phenotype
-S000037570	CDS					YGL213C		7	91247	90054	C		2011-02-03	1996-07-31	
-S000003180	ORF	Verified	YGL212W	VAM7	VPL24|VPS43	chromosome 7	L000002452	7	91432	92382	W		2011-02-03	1996-07-31	Vacuolar SNARE protein; functions with Vam3p in vacuolar protein trafficking; has an N-terminal PX domain (phosphoinositide-binding module) that binds PtdIns-3-P and mediates membrane binding; SNAP-25 homolog; protein abundance increases in response to DNA replication stress
-S000036874	CDS					YGL212W		7	91432	92382	W		2011-02-03	1996-07-31	
-S000003179	ORF	Verified	YGL211W	NCS6	TUC1|YGL210W-A	chromosome 7		7	92512	93591	W		2011-02-03	2004-07-20|1996-07-31	Protein required for uridine thiolation of Gln, Lys, and Glu tRNAs; required for the thiolation of uridine at the wobble position of Gln, Lys, and Glu tRNAs; has a role in urmylation and in invasive and pseudohyphal growth; inhibits replication of Brome mosaic virus in S. cerevisiae
-S000036823	CDS					YGL211W		7	92512	93591	W		2011-02-03	2004-07-20|1996-07-31	
-S000003178	ORF	Verified	YGL210W	YPT32	Rab family GTPase YPT32	chromosome 7	L000002897	7	93792	94460	W		2011-02-03	1996-07-31	Rab family GTPase involved in the exocytic pathway; mediates intra-Golgi traffic or the budding of post-Golgi vesicles from the trans-Golgi; protein abundance increases in response to DNA replication stress; YPT32 has a paralog, YPT31, that arose from the whole genome duplication
-S000036765	CDS					YGL210W		7	93792	94460	W		2011-02-03	1996-07-31	
-S000003177	ORF	Verified	YGL209W	MIG2	MLZ1	chromosome 7	L000003254	7	95858	97006	W		2011-02-03	1996-07-31	Zinc finger transcriptional repressor; cooperates with Mig1p in glucose-induced gene repression; under low glucose conditions relocalizes to mitochondrion, where it interacts with Ups1p, antagonizes mitochondrial fission factor Dnm1p, indicative of a role in mitochondrial fusion or regulating morphology; regulates filamentous growth in response to glucose depletion; activated in stochastic pulses of nuclear localization in response to low glucose
-S000035806	CDS					YGL209W		7	95858	97006	W		2011-02-03	1996-07-31	
-S000003176	ORF	Verified	YGL208W	SIP2	SPM2	chromosome 7	L000001891|L000001998	7	97338	98585	W		2011-02-03	1996-07-31|2011-02-03	One of three beta subunits of the Snf1 kinase complex; involved in the response to glucose starvation; null mutants exhibit accelerated aging; N-myristoylprotein localized to the cytoplasm and the plasma membrane; SIP2 has a paralog, GAL83, that arose from the whole genome duplication
-S000035685	CDS					YGL208W		7	97338	98585	W		2011-02-03	1996-07-31|2011-02-03	
-S000003175	ORF	Verified	YGL207W	SPT16	chromatin-remodeling protein SPT16|SSF1|CDC68	chromosome 7	L000002038	7	98969	102076	W	-134	2011-02-03	1996-07-31	Subunit of the heterodimeric FACT complex (Spt16p-Pob3p); FACT associates with chromatin via interaction with Nhp6Ap and Nhp6Bp, and reorganizes nucleosomes to facilitate access to DNA by RNA and DNA polymerases; specifically required for diauxic shift-induced H2B deposition onto rDNA genes; mutations cause reduced nucleosome occupancy over highly transcribed regions; coregulates transcription with Mot1p through preinitiation complex assembly and nucleosome organization
-S000034683	CDS					YGL207W		7	98969	102076	W		2011-02-03	1996-07-31	
-S000003174	ORF	Verified	YGL206C	CHC1	clathrin heavy chain|SWA5	chromosome 7	L000000317	7	107504	102543	C	-133	2011-02-03	1996-07-31	Clathrin heavy chain; subunit of the major coat protein involved in intracellular protein transport and endocytosis; the clathrin triskelion is a trimeric molecule composed of three heavy chains that radiate from a vertex and three light chains which bind noncovalently near the vertex of the triskelion; the light chain (CLC1) is thought to regulate function
-S000034547	CDS					YGL206C		7	107504	102543	C		2011-02-03	1996-07-31	
-S000003173	ORF	Verified	YGL205W	POX1	acyl-CoA oxidase|FOX1	chromosome 7	L000001467	7	108158	110404	W		2011-02-03	1996-07-31	Fatty-acyl coenzyme A oxidase; involved in the fatty acid beta-oxidation pathway; localized to the peroxisomal matrix
-S000034502	CDS					YGL205W		7	108158	110404	W		2011-02-03	1996-07-31	
-S000006595	tRNA_gene		tH(GUG)G1			chromosome 7	L000003822	7	110696	110625	C		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
-S000036197	noncoding_exon					tH(GUG)G1		7	110696	110625	C		2011-02-03	2000-05-19	
-S000006950	long_terminal_repeat		YGLWtau1			chromosome 7		7	110855	111225	W		2011-02-03	2000-05-19	Ty4 LTR
-S000006935	long_terminal_repeat		YGLCdelta1			chromosome 7		7	111505	111226	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006940	long_terminal_repeat		YGLWdelta2			chromosome 7		7	111506	111698	W		2011-02-03	2000-05-19	Ty1 LTR
-S000003172	ORF	Uncharacterized	YGL204C			chromosome 7		7	112005	111700	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA identified as translated by ribosome profiling data; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
-S000033547	CDS					YGL204C		7	112005	111700	C		2011-02-03	1996-07-31	
-S000118452	ARS		ARS704		ARSVII-112	chromosome 7		7	112079	112317			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000119019	ARS_consensus_sequence					ARS704		7	112125	112139	W		2011-02-03	2006-10-03	
-S000003171	ORF	Verified	YGL203C	KEX1	serine-type carboxypeptidase	chromosome 7	L000000895	7	114664	112475	C	-131	2011-02-03	1996-07-31	Cell death protease essential for hypochlorite-induced apoptosis; involved in the processing of killer toxin and alpha factor precursor; cleaves Lys and Arg residues from the C-terminus of peptides and proteins
-S000033480	CDS					YGL203C		7	114664	112475	C		2011-02-03	1996-07-31	
-S000006941	long_terminal_repeat		YGLWdelta3			chromosome 7		7	114939	115269	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006630	tRNA_gene		tK(UUU)G1			chromosome 7	L000003819	7	115488	115583	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000033672	intron					tK(UUU)G1		7	115525	115547	W		2011-02-03	2000-05-19	
-S000033670	noncoding_exon					tK(UUU)G1		7	115488	115524	W		2011-02-03	2000-05-19	
-S000033671	noncoding_exon					tK(UUU)G1		7	115548	115583	W		2011-02-03	2000-05-19	
-S000003170	ORF	Verified	YGL202W	ARO8	bifunctional 2-aminoadipate transaminase/aromatic-amino-acid:2-oxoglutarate transaminase	chromosome 7	L000003949	7	116059	117561	W		2011-02-03	1996-07-31	Aromatic aminotransferase I; expression is regulated by general control of amino acid biosynthesis
-S000033459	CDS					YGL202W		7	116059	117561	W		2011-02-03	1996-07-31	
-S000114845	ARS		ARS706	ARS706	ARO8 ARS	chromosome 7		7	117561	117854			2011-02-03	2006-04-12	Autonomously Replicating Sequence
-S000003169	ORF	Verified	YGL201C	MCM6	MCM DNA helicase complex subunit MCM6	chromosome 7	L000004104	7	120907	117854	C		2011-02-03	2004-01-23|1996-07-31	Protein involved in DNA replication; component of the Mcm2-7 hexameric helicase complex that binds chromatin as a part of the pre-replicative complex; forms a subcomplex with Mcm4p and Mcm7p
-S000033344	CDS					YGL201C		7	120907	117854	C		2011-02-03	2004-01-23|1996-07-31	
-S000006621	tRNA_gene		tK(CUU)G1			chromosome 7	L000003820	7	122269	122341	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000029888	noncoding_exon					tK(CUU)G1		7	122269	122341	W		2011-02-03	2000-05-19	
-S000003168	ORF	Verified	YGL200C	EMP24	BST2	chromosome 7	L000000549	7	123305	122694	C		2011-02-03	1996-07-31	Component of the p24 complex; role in misfolded protein quality control; binds to GPI anchor proteins and mediates their efficient transport from the ER to the Golgi; integral membrane protein that associates with endoplasmic reticulum-derived COPII-coated vesicles
-S000032658	CDS					YGL200C		7	123305	122694	C		2011-02-03	1996-07-31	
-S000003166	ORF	Verified	YGL198W	YIP4		chromosome 7		7	123591	124298	W		2011-02-03	2004-01-23|1996-07-31	Protein that interacts with Rab GTPases; localized to late Golgi vesicles; computational analysis of large-scale protein-protein interaction data suggests a possible role in vesicle-mediated transport
-S000034057	CDS					YGL198W		7	123591	124298	W		2011-02-03	2004-01-23|1996-07-31	
-S000003167	ORF	Dubious	YGL199C			chromosome 7		7	124042	123572	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YIP4/YGL198W
-S000034896	CDS					YGL199C		7	124042	123572	C		2011-02-03	1996-07-31	
-S000003165	ORF	Verified	YGL197W	MDS3		chromosome 7	L000003960	7	124698	129161	W		2011-02-03	1996-07-31|2011-02-03	Putative component of the TOR regulatory pathway; negative regulator of early meiotic gene expression; required, with Pmd1p, for growth under alkaline conditions; has an N-terminal kelch-like domain; MDS3 has a paralog, PMD1, that arose from the whole genome duplication
-S000033900	CDS					YGL197W		7	124698	129161	W		2011-02-03	1996-07-31|2011-02-03	
-S000003164	ORF	Verified	YGL196W	DSD1	D-serine ammonia-lyase DSD1	chromosome 7		7	129883	131169	W		2011-02-03	2004-07-19|1996-07-31	D-serine dehydratase (aka D-serine ammonia-lyase); converts D-serine to pyruvate and ammonia by a reaction dependent on pyridoxal 5'-phosphate and zinc; may play a role in D-serine detoxification; L-serine is not a substrate
-S000033780	CDS					YGL196W		7	129883	131169	W		2011-02-03	2004-07-19|1996-07-31	
-S000003163	ORF	Verified	YGL195W	GCN1	AAS103|NDR1	chromosome 7	L000000680	7	131525	139543	W		2011-02-03	1996-07-31	Positive regulator of the Gcn2p kinase activity; forms a complex with Gcn20p; proposed to stimulate Gcn2p activation by an uncharged tRNA
-S000033049	CDS					YGL195W		7	131525	139543	W		2011-02-03	1996-07-31	
-S000087160	ORF	Uncharacterized	YGL194C-A			chromosome 7		7	139961	139719	C		2011-02-03	2005-11-10	Putative protein of unknown function; identified based on comparisons of the genome sequences of six Saccharomyces species; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
-S000087161	CDS					YGL194C-A		7	139961	139719	C		2011-02-03	2005-11-10	
-S000003162	ORF	Verified	YGL194C	HOS2	histone deacetylase HOS2|RTL1	chromosome 7	L000004092|L000003448	7	141726	140368	C		2011-02-03	1996-07-31	Histone deacetylase and subunit of Set3 and Rpd3L complexes; required for gene activation via specific deacetylation of lysines in H3 and H4 histone tails; subunit of the Set3 complex, a meiotic-specific repressor of sporulation specific genes that contains deacetylase activity; co-localizes with Cmr1p in nuclear foci in response to DNA damage by MMS
-S000032901	CDS					YGL194C		7	141726	140368	C		2011-02-03	1996-07-31	
-S000003161	ORF	Uncharacterized	YGL193C			chromosome 7		7	142227	141916	C		2011-02-03	1996-07-31	Haploid-specific gene repressed by a1-alpha2; turned off in sir3 null strains, absence enhances the sensitivity of rad52-327 cells to campothecin almost 100-fold
-S000032793	CDS					YGL193C		7	142227	141916	C		2011-02-03	1996-07-31	
-S000003160	ORF	Verified	YGL192W	IME4	mRNA (N6-adenosine)-methyltransferase|SPO8	chromosome 7	L000000863|L000002001	7	142246	144048	W	-130	2011-02-03	1996-07-31	mRNA N6-adenosine methyltransferase required for entry into meiosis; mediates N6-adenosine methylation of bulk mRNA during the induction of sporulation which includes the meiotic regulators IME1, IME2 and IME4 itself; repressed in haploids via production of antisense IME4 transcripts; transcribed in diploid cells where antisense transcription is repressed; orthologous to human METTL3 (MT-A70)
-S000031956	CDS					YGL192W		7	142246	144048	W		2011-02-03	1996-07-31	
-S000144908	ncRNA_gene		RME2	RME2	IME4-AS	chromosome 7		7	144120	141898	C		2014-11-18	2014-11-18	Antisense transcript initiated from the 3' end of the IME4 locus; expressed in haploids and interferes with IME4 expression through a cis-acting mechanism; RME2 expression is repressed by the MAT a1/alpha2 repressor complex
-S000178098	noncoding_exon					RME2		7	144120	141898	C		2014-11-18	2014-11-18	
-S000003159	ORF	Verified	YGL191W	COX13	cytochrome c oxidase subunit VIa	chromosome 7	L000000397	7	144808	145197	W		2011-02-03	1996-07-31	Subunit VIa of cytochrome c oxidase; present in a subclass of cytochrome c oxidase complexes that may have a role in mimimizing generation of reactive oxygen species; not essential for cytochrome c oxidase activity but may modulate activity in response to ATP; required for assembly of Rcf2p into cytochrome c oxidase - cytochrome bc1 supercomplexes
-S000031830	CDS					YGL191W		7	144808	145197	W		2011-02-03	1996-07-31	
-S000003158	ORF	Verified	YGL190C	CDC55	TMR4|protein phosphatase 2A regulatory subunit CDC55	chromosome 7	L000000282|S000029602|L000003191	7	147389	145809	C	-125	2011-02-03	1996-07-31	Regulatory subunit B of protein phosphatase 2A (PP2A); Zds1p/2p-dependent localization to cytoplasm promotes mitotic entry; localization to nucleus prevents mitotic exit; required for correct nuclear division, chromosome segregation during achiasmate meiosis; maintains nucleolar sequestration of Cdc14p during early meiosis; limits formation of PP2A-Rts1p holocomplexes to ensure timely dissolution of sister chromosome cohesion; homolog of mammalian B55
-S000031647	CDS					YGL190C		7	147389	145809	C		2011-02-03	1996-07-31	
-S000003157	ORF	Verified	YGL189C	RPS26A	eS26|ribosomal 40S subunit protein S26A|S26e|S26A|RPS26	chromosome 7	L000003256|L000001762	7	148588	148229	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S26, no bacterial homolog; RPS26A has a paralog, RPS26B, that arose from the whole genome duplication; human homolog can partially complement an RPS26A, RPS26B double null mutant; mutations in the human gene are associated with Diamond-Blackfan anemia
-S000031468	CDS					YGL189C		7	148588	148229	C		2011-02-03	1996-07-31	
-S000122100	five_prime_UTR_intron					YGL189C		7	148966	148599	C		2011-02-03	2007-04-04	
-S000028635	ORF	Uncharacterized	YGL188C-A			chromosome 7		7	148964	148824	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000032391	CDS					YGL188C-A		7	148964	148824	C		2011-02-03	2003-07-29	
-S000003156	ORF	Dubious	YGL188C			chromosome 7		7	149516	149343	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030546	CDS					YGL188C		7	149516	149343	C		2011-02-03	1996-07-31	
-S000003155	ORF	Verified	YGL187C	COX4	cytochrome c oxidase subunit IV	chromosome 7	L000000386	7	150171	149704	C		2011-02-03	1996-07-31	Subunit IV of cytochrome c oxidase; the terminal member of the mitochondrial inner membrane electron transport chain; precursor N-terminal 25 residues are cleaved during mitochondrial import; phosphorylated; spermidine enhances translation
-S000030404	CDS					YGL187C		7	150171	149704	C		2011-02-03	1996-07-31	
-S000122089	five_prime_UTR_intron					YGL187C		7	150525	150184	C		2011-02-03	2007-03-28	
-S000003154	ORF	Verified	YGL186C	TPN1		chromosome 7		7	152776	151037	C		2011-02-03	1996-07-31	Plasma membrane pyridoxine (vitamin B6) transporter; member of the purine-cytosine permease subfamily within the major facilitator superfamily; proton symporter with similarity to Fcy21p, Fcy2p, and Fcy22p
-S000030268	CDS					YGL186C		7	152776	151037	C		2011-02-03	1996-07-31	
-S000003153	ORF	Uncharacterized	YGL185C		putative hydroxyacid dehydrogenase	chromosome 7		7	154306	153167	C		2011-02-03	1996-07-31	Putative protein with sequence similar to hydroxyacid dehydrogenases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000037513	CDS					YGL185C		7	154306	153167	C		2011-02-03	1996-07-31	
-S000003152	ORF	Verified	YGL184C	STR3	cystathionine beta-lyase STR3	chromosome 7		7	156012	154615	C		2011-02-03	1996-07-31	Peroxisomal cystathionine beta-lyase; converts cystathionine into homocysteine; may be redox regulated by Gto1p; involved in the release of the aromatic thiol 3-mercaptohexanol during wine fermentation
-S000037385	CDS					YGL184C		7	156012	154615	C		2011-02-03	1996-07-31	
-S000003151	ORF	Verified	YGL183C	MND1		chromosome 7		7	157285	156543	C		2011-02-03	2003-01-07|1996-07-31	Protein required for recombination and meiotic nuclear division; forms a complex with Hop2p, which is involved in chromosome pairing and repair of meiotic double-strand breaks
-S000037289	CDS					YGL183C		7	157199	156543	C		2011-02-03	2003-01-07|1996-07-31	
-S000037288	CDS					YGL183C		7	157285	157283	C		2011-02-03	2003-01-07	
-S000037290	intron					YGL183C		7	157282	157200	C		2011-02-03	2003-01-07	
-S000003150	ORF	Dubious	YGL182C			chromosome 7		7	157596	157273	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MND1/YGL183C
-S000036583	CDS					YGL182C		7	157596	157273	C		2011-02-03	1996-07-31	
-S000003149	ORF	Verified	YGL181W	GTS1	LSR1|FHT1	chromosome 7	L000000743	7	157906	159096	W		2011-02-03	1996-07-31	Protein involved in Arf3p regulation and in transcription regulation; localizes to the nucleus and to endocytic patches; contains an N-terminal Zn-finger and ArfGAP homology domain, a C-terminal glutamine-rich region, and a UBA (ubiquitin associated) domain; gts1 mutations affect budding, cell size, heat tolerance, sporulation, life span, ultradian rhythms, endocytosis; expression oscillates in a pattern similar to metabolic oscillations
-S000036556	CDS					YGL181W		7	157906	159096	W		2011-02-03	1996-07-31	
-S000003148	ORF	Verified	YGL180W	ATG1	serine/threonine protein kinase ATG1|APG1|CVT10|AUT3	chromosome 7	L000003955|S000028502|L000004761	7	160065	162758	W		2011-02-03	1996-07-31	Protein serine/threonine kinase; required for vesicle formation in autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; structurally required for phagophore assembly site formation; during autophagy forms a complex with Atg13p and Atg17p; essential for cell cycle progression from G2/M to G1 under nitrogen starvation
-S000036454	CDS					YGL180W		7	160065	162758	W		2011-02-03	1996-07-31	
-S000118453	ARS		ARS707		ARSVII-163	chromosome 7		7	163218	163318			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000119020	ARS_consensus_sequence					ARS707		7	163236	163250	W		2011-02-03	2006-10-03	
-S000003147	ORF	Verified	YGL179C	TOS3	serine/threonine protein kinase TOS3	chromosome 7		7	165091	163409	C		2011-02-03	1996-07-31	Protein kinase; related to and functionally redundant with Elm1p and Sak1p for the phosphorylation and activation of Snf1p; functionally orthologous to LKB1, a mammalian kinase associated with Peutz-Jeghers cancer-susceptibility syndrome; TOS3 has a paralog, SAK1, that arose from the whole genome duplication
-S000035343	CDS					YGL179C		7	165091	163409	C		2011-02-03	1996-07-31	
-S000003146	ORF	Verified	YGL178W	MPT5	UTH4|PUF5|HTR1	chromosome 7	L000001146	7	167352	170571	W		2011-02-03	1996-07-31	mRNA-binding protein of the PUF family; binds to specific mRNAs, often in the 3' UTR; has broad specificity and binds to more than 1000 mRNAs (16% of the transcriptome); recruits the CCR4-NOT deadenylase complex to mRNAs along with Dhh1p and Dcp1p to promote deadenylation, decapping, and decay; also interacts with the Caf20p translational initiation repressor, affecting its mRNA target specificity
-S000034396	CDS					YGL178W		7	167352	167354	W		2011-02-03	1996-07-31	
-S000034397	CDS					YGL178W		7	167995	170571	W		2011-02-03	1996-07-31	
-S000034398	intron					YGL178W		7	167355	167994	W		2011-02-03	1996-07-31	
-S000003145	ORF	Dubious	YGL177W			chromosome 7		7	167559	167906	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034289	CDS					YGL177W		7	167559	167906	W		2011-02-03	1996-07-31	
-S000003144	ORF	Uncharacterized	YGL176C			chromosome 7		7	173079	171415	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant is viable and has no detectable phenotype
-S000033315	CDS					YGL176C		7	173079	171415	C		2011-02-03	1996-07-31	
-S000003143	ORF	Verified	YGL175C	SAE2	ssDNA endodeoxyribonuclease SAE2|COM1	chromosome 7	L000002892	7	174322	173285	C		2011-02-03	1996-07-31	Endonuclease required for telomere elongation; required for telomeric 5' C-rich strand resection; involved in ds-break repair and processing hairpin DNA structures with the MRX complex; function requires sumoylation and phosphorylation; exists as inactive oligomers that are transiently released into smaller active units by phosphorylation; DNA damage triggers Sae2p removal, so active Sae2p is present only transiently; sequence and functional similarity with human CtIP/RBBP8
-S000033258	CDS					YGL175C		7	174322	173285	C		2011-02-03	1996-07-31	
-S000003142	ORF	Verified	YGL174W	BUD13	CWC26	chromosome 7		7	174545	175345	W		2011-02-03	1996-07-31	Subunit of the RES complex; RES complex is required for nuclear pre-mRNA retention and splicing; involved in bud-site selection; diploid mutants display a unipolar budding pattern instead of the wild-type bipolar pattern due to a specific defect in MATa1 pre-mRNA splicing which leads to haploid gene expression in diploids
-S000033236	CDS					YGL174W		7	174545	175345	W		2011-02-03	1996-07-31	
-S000003141	ORF	Verified	YGL173C	XRN1	chromatin-binding exonuclease XRN1|KEM1|SKI1|SEP1|RAR5|DST2	chromosome 7	L000000891|L000001902	7	180113	175527	C	-111	2011-02-03	1996-07-31	Evolutionarily-conserved 5'-3' exonuclease; component of cytoplasmic processing (P) bodies involved in mRNA decay; also enters the nucleus and positively regulates transcription initiation and elongation; plays a role in microtubule-mediated processes, filamentous growth, ribosomal RNA maturation, and telomere maintenance; activated by the scavenger decapping enzyme Dcs1p
-S000033145	CDS					YGL173C		7	180113	175527	C		2011-02-03	1996-07-31	
-S000003140	ORF	Verified	YGL172W	NUP49	FG-nucleoporin NUP49|NSP49	chromosome 7	L000001290	7	180700	182118	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier; found in stable complex with Nic96p and two other FG-nucleoproteins (Nsp1p and Nup57p)
-S000032312	CDS					YGL172W		7	180700	182118	W		2011-02-03	1996-07-31	
-S000003139	ORF	Verified	YGL171W	ROK1	RNA-dependent ATPase ROK1	chromosome 7	L000003005	7	182390	184084	W		2011-02-03	1996-07-31	RNA-dependent ATPase; involved in pre-rRNA processing at sites A0, A1, and A2, and in control of cell cycle progression; contains two upstream open reading frames (uORFs) in 5' untranslated region which regulate translation
-S000032238	CDS					YGL171W		7	182390	184084	W		2011-02-03	1996-07-31	
-S000003138	ORF	Verified	YGL170C	SPO74		chromosome 7		7	185394	184153	C		2011-02-03	1996-07-31	Component of the meiotic outer plaque of the spindle pole body; involved in modifying the meiotic outer plaque that is required prior to prospore membrane formation
-S000032119	CDS					YGL170C		7	185394	184153	C		2011-02-03	1996-07-31	
-S000006622	tRNA_gene		tK(CUU)G2			chromosome 7	L000003852	7	185786	185714	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000029890	noncoding_exon					tK(CUU)G2		7	185786	185714	C		2011-02-03	2000-05-19	
-S000003137	ORF	Verified	YGL169W	SUA5	threonylcarbamoyladenylate synthase	chromosome 7	L000002140	7	186059	187339	W	-104.06	2011-02-03	1996-07-31	Protein involved in threonylcarbamoyl adenosine biosynthesis; Sua5p and Qri7p are necessary and sufficient for RNA t6A modification in vitro; null mutant lacks N6-threonylcarbamoyl adenosine (t6A) modification in the anticodon loop of ANN-decoding tRNA; member of conserved YrdC/Sua5 family; binds single-stranded telomeric DNA and null mutant has abnormal telomere length
-S000031262	CDS					YGL169W		7	186059	187339	W		2011-02-03	1996-07-31	
-S000003136	ORF	Verified	YGL168W	HUR1		chromosome 7		7	187464	187796	W		2011-02-03	1996-07-31	Protein of unknown function; reported null mutant phenotype of hydroxyurea sensitivity may be due to effects on overlapping PMR1 gene
-S000031124	CDS					YGL168W		7	187464	187796	W		2011-02-03	1996-07-31	
-S000130163	ARS		ARS709			chromosome 7		7	187464	187796			2011-02-03	2009-05-07	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
-S000003135	ORF	Verified	YGL167C	PMR1	Ca(2+)/Mn(2+)-transporting P-type ATPase PMR1|SSC1|LDB1|BSD1	chromosome 7	L000004740|L000001455	7	190468	187616	C	-104	2011-02-03	1996-07-31	High affinity Ca2+/Mn2+ P-type ATPase; required for Ca2+ and Mn2+ transport into Golgi; involved in Ca2+ dependent protein sorting, processing; D53A mutant (Mn2+ transporting) is rapamycin sensitive, Q783A mutant (Ca2+ transporting) is rapamycin resistant; Mn2+ transport into Golgi lumen required for rapamycin sensitivity; mutations in human homolog ATP2C1 cause acantholytic skin condition Hailey-Hailey disease; human ATP2C1 can complement yeast null mutant
-S000030956	CDS					YGL167C		7	190468	187616	C		2011-02-03	1996-07-31	
-S000003134	ORF	Verified	YGL166W	CUP2	ACE1	chromosome 7	L000000439	7	191129	191806	W	-101	2011-02-03	1996-07-31	Copper-binding transcription factor; activates transcription of the metallothionein genes CUP1-1 and CUP1-2 in response to elevated copper concentrations; required for regulation of copper genes in response to DNA-damaging reagents; CUP2 has a paralog, HAA1, that arose from the whole genome duplication
-S000030040	CDS					YGL166W		7	191129	191806	W		2011-02-03	1996-07-31	
-S000003133	ORF	Dubious	YGL165C			chromosome 7		7	191976	191398	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CUP2/YGL166W
-S000029838	CDS					YGL165C		7	191976	191398	C		2011-02-03	1996-07-31	
-S000003132	ORF	Verified	YGL164C	YRB30		chromosome 7		7	193300	191978	C		2011-02-03	1996-07-31	RanGTP-binding protein; inhibits RanGAP1 (Rna1p)-mediated GTP hydrolysis of RanGTP (Gsp1p); shares similarity to proteins in other fungi but not in higher eukaryotes
-S000037824	CDS					YGL164C		7	193300	191978	C		2011-02-03	1996-07-31	
-S000003131	ORF	Verified	YGL163C	RAD54	DNA-dependent ATPase RAD54|XRS1	chromosome 7	L000001574	7	196403	193707	C	-111	2011-02-03	1996-07-31	DNA-dependent ATPase that stimulates strand exchange; modifies the topology of double-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; member of the SWI/SNF family of DNA translocases; forms nuclear foci upon DNA replication stress
-S000037069	CDS					YGL163C		7	196403	193707	C		2011-02-03	1996-07-31	
-S000003130	ORF	Verified	YGL162W	SUT1		chromosome 7	L000003483	7	198138	199037	W		2011-02-03	1996-07-31	Zn(II)2Cys6 family transcription factor; positively regulates sterol uptake genes under anaerobic conditions; involved in hypoxic gene expression; represses filamentation-inducing genes during vegetative growth; positively regulates mating with SUT2 by repressing expression of genes that act as mating inhibitors; repressed by STE12; relocalizes from the nucleus to the cytoplasm upon DNA replication stress; SUT1 has a paralog, SUT2, that arose from the whole genome duplication
-S000037047	CDS					YGL162W		7	198138	199037	W		2011-02-03	1996-07-31	
-S000003129	ORF	Verified	YGL161C	YIP5		chromosome 7		7	200142	199210	C		2011-02-03	1996-07-31	Protein that interacts with Rab GTPases; localized to late Golgi vesicles; computational analysis of large-scale protein-protein interaction data suggests a possible role in vesicle-mediated transport
-S000036937	CDS					YGL161C		7	200142	199210	C		2011-02-03	1996-07-31	
-S000003128	ORF	Verified	YGL160W	AIM14	putative metalloreductase|YNO1	chromosome 7		7	200561	202273	W		2011-02-03	1996-07-31	NADPH oxidase localized to the perinuclear ER; produces superoxide from NADPH; overexpression causes MCA1 dependent apoptosis; likely involved in superoxide-mediated regulation of the actin cytoskeleton; member of a conserved superfamily of NADPH oxidases (NOX enzymes); has similarity to iron/copper reductases (FRE1-8), particularly Fre8p
-S000036910	CDS					YGL160W		7	200561	202273	W		2011-02-03	1996-07-31	
-S000003127	ORF	Uncharacterized	YGL159W			chromosome 7		7	202721	203833	W		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant has no detectable phenotype
-S000036059	CDS					YGL159W		7	202721	203833	W		2011-02-03	1996-07-31	
-S000118454	ARS		ARS710		ARSVII-204	chromosome 7		7	203914	204155			2011-02-03	2006-08-30|2011-02-03	Autonomously Replicating Sequence
-S000119021	ARS_consensus_sequence					ARS710		7	203972	203986	W		2011-02-03	2006-10-03	
-S000006951	long_terminal_repeat		YGLWtau2			chromosome 7		7	204982	205337	W		2011-02-03	2000-05-19	Ty4 LTR
-S000006639	tRNA_gene		tL(CAA)G1			chromosome 7	L000003821	7	205521	205634	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000034236	intron					tL(CAA)G1		7	205559	205590	W		2011-02-03	2000-05-19	
-S000034234	noncoding_exon					tL(CAA)G1		7	205521	205558	W		2011-02-03	2000-05-19	
-S000034235	noncoding_exon					tL(CAA)G1		7	205591	205634	W		2011-02-03	2000-05-19	
-S000003126	ORF	Verified	YGL158W	RCK1	putative serine/threonine protein kinase RCK1	chromosome 7	L000001592	7	207033	208571	W		2011-02-03	1996-07-31	Protein kinase involved in oxidative stress response; promotes pseudohyphal growth via activation of Ubp3p phosphorylation; identified as suppressor of S. pombe cell cycle checkpoint mutations; RCK1 has a paralog, RCK2, that arose from the whole genome duplication
-S000035130	CDS					YGL158W		7	207033	208571	W		2011-02-03	1996-07-31	
-S000003125	ORF	Verified	YGL157W	ARI1	carbonyl reductase (NADPH-dependent) ARI1	chromosome 7		7	209006	210049	W		2011-02-03	1996-07-31	NADPH-dependent aldehyde reductase; utilizes aromatic and alophatic aldehyde substrates; member of the short-chain dehydrogenase/reductase superfamily
-S000034964	CDS					YGL157W		7	209006	210049	W		2011-02-03	1996-07-31	
-S000003124	ORF	Verified	YGL156W	AMS1	alpha-mannosidase	chromosome 7	L000000084	7	210416	213667	W	-98	2011-02-03	1996-07-31	Vacuolar alpha mannosidase; involved in free oligosaccharide (fOS) degradation; delivered to the vacuole in a novel pathway separate from the secretory pathway
-S000034834	CDS					YGL156W		7	210416	213667	W		2011-02-03	1996-07-31	
-S000003123	ORF	Verified	YGL155W	CDC43	protein geranylgeranyltransferase type I subunit CDC43|CAL1	chromosome 7	L000000277	7	214081	215211	W	-99	2011-02-03	1996-07-31	Beta subunit of geranylgeranyltransferase type I; subunit of the Ram2p-Cdc43p heterodimer that catalyzes the geranylgeranylation of the cysteine residue in proteins containing a C-terminal CaaX sequence ending in Leu or Phe; has substrates important for morphogenesis
-S000033923	CDS					YGL155W		7	214081	215211	W		2011-02-03	1996-07-31	
-S000003122	ORF	Verified	YGL154C	LYS5	holo-[acyl-carrier-protein] synthase	chromosome 7	L000000967	7	216096	215278	C	-97	2011-02-03	1996-07-31	Phosphopantetheinyl transferase involved in lysine biosynthesis; converts inactive apo-form of Lys2p (alpha-aminoadipate reductase) into catalytically active holo-form by posttranslational addition of phosphopantetheine
-S000033755	CDS					YGL154C		7	216096	215278	C		2011-02-03	1996-07-31	
-S000003121	ORF	Verified	YGL153W	PEX14		chromosome 7	L000004118	7	216273	217298	W		2011-02-03	1996-07-31	Central component of the peroxisomal importomer complex; peroxisomal protein import machinery docking complex component; interacts with both PTS1 (Pex5p) and PTS2 (Pex7p) peroxisomal matrix protein signal recognition factors and membrane receptor Pex13p
-S000033715	CDS					YGL153W		7	216273	217298	W		2011-02-03	1996-07-31	
-S000003120	ORF	Dubious	YGL152C			chromosome 7		7	217369	216692	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF PEX14/YGL153W
-S000033004	CDS					YGL152C		7	217369	216692	C		2011-02-03	1996-07-31	
-S000003119	ORF	Verified	YGL151W	NUT1	SSX4|MED5	chromosome 7	L000003073|S000029517|L000002100	7	217524	220922	W		2011-02-03	1996-07-31	Component of the RNA polymerase II mediator complex; mediator is required for transcriptional activation and also has a role in basal transcription
-S000032975	CDS					YGL151W		7	217524	220922	W		2011-02-03	1996-07-31	
-S000003117	ORF	Uncharacterized	YGL149W			chromosome 7		7	225572	225877	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YGL149W is not an essential gene
-S000032110	CDS					YGL149W		7	225572	225877	W		2011-02-03	1996-07-31	
-S000003118	ORF	Verified	YGL150C	INO80	chromatin-remodeling ATPase INO80	chromosome 7	L000004543	7	225573	221104	C		2011-02-03	1996-07-31	ATPase and nucleosome spacing factor; subunit of complex containing actin and actin-related proteins that has chromatin remodeling activity and 3' to 5' DNA helicase activity in vitro; promotes nucleosome shifts in the 3 prime direction; has a role in modulating stress gene transcription
-S000032821	CDS					YGL150C		7	225573	221104	C		2011-02-03	1996-07-31	
-S000003116	ORF	Verified	YGL148W	ARO2	bifunctional chorismate synthase/riboflavin reductase [NAD(P)H] ARO2	chromosome 7	L000000117	7	226399	227529	W	-90	2011-02-03	1996-07-31	Bifunctional chorismate synthase and flavin reductase; catalyzes the conversion of 5-enolpyruvylshikimate 3-phosphate (EPSP) to form chorismate, which is a precursor to aromatic amino acids; protein abundance increases in response to DNA replication stress
-S000031990	CDS					YGL148W		7	226399	227529	W		2011-02-03	1996-07-31	
-S000003115	ORF	Verified	YGL147C	RPL9A	uL6|ribosomal 60S subunit protein L9A|L6|rp24|YL11|L9A|L8A	chromosome 7	L000001708	7	228329	227754	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L9A; homologous to mammalian ribosomal protein L9 and bacterial L6; RPL9A has a paralog, RPL9B, that arose from a single-locus duplication
-S000031756	CDS					YGL147C		7	228329	227754	C		2011-02-03	1996-07-31	
-S000003114	ORF	Uncharacterized	YGL146C	RRT6		chromosome 7		7	229686	228751	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription; contains two putative transmembrane spans, but no significant homology to other known proteins
-S000030808	CDS					YGL146C		7	229686	228751	C		2011-02-03	1996-07-31	
-S000003113	ORF	Verified	YGL145W	TIP20	TIP1	chromosome 7	L000002756	7	230243	232348	W		2011-02-03	1996-07-31|2011-02-03	Peripheral membrane protein required for COPI vesicle fusion to the ER; mediates Sey1p-independent homotypic ER fusion; prohibits back-fusion of COPII vesicles with the ER; forms a tethering complex with Sec39p and Dsl1p that interacts with ER SNAREs Sec20p and Use1p
-S000030778	CDS					YGL145W		7	230243	232348	W		2011-02-03	1996-07-31|2011-02-03	
-S000007642	ARS		ARS701		ARS137	chromosome 7		7	231907	231981			2011-02-03	2001-03-06	ARS containing only an imperfect match to the core consensus sequence
-S000003112	ORF	Verified	YGL144C	ROG1	putative lipase ROG1	chromosome 7		7	234507	232450	C		2011-02-03	1996-07-31	Lipase with specificity for monoacylglycerol; preferred substrate is 1-oleoylglycerol; null mutation affects lipid droplet morphology and overexpression causes increased accumulation of reactive oxygen species
-S000030591	CDS					YGL144C		7	234507	232450	C		2011-02-03	1996-07-31	
-S000003111	ORF	Verified	YGL143C	MRF1		chromosome 7	L000001150	7	235958	234717	C		2011-02-03	1996-07-31	Mitochondrial translation release factor; involved in stop codon recognition and hydrolysis of the peptidyl-tRNA bond during mitochondrial translation; lack of MRF1 causes mitochondrial genome instability
-S000037757	CDS					YGL143C		7	235958	234717	C		2011-02-03	1996-07-31	
-S000003110	ORF	Verified	YGL142C	GPI10	putative glycosylphosphatidylinositol-alpha 1,2 mannosyltransferase	chromosome 7	L000004297	7	238119	236269	C		2011-02-03	1996-07-31	Integral membrane protein involved in GPI anchor synthesis; putative alpha 1,2 mannosyltransferase required for addition of the third mannose onto the glycosylphosphatidylinositol (GPI) core structure; human PIG-Bp is a functional homolog
-S000037696	CDS					YGL142C		7	238119	236269	C		2011-02-03	1996-07-31	
-S000003109	ORF	Verified	YGL141W	HUL5	ubiquitin-ubiquitin ligase HUL5	chromosome 7		7	238353	241085	W		2011-02-03	1996-07-31	Multiubiquitin chain assembly factor (E4); proteasome processivity factor that elongates polyUb chains on substrates, opposing Ubp6p, a branched polyubiquitin protease; required for retrograde transport of misfolded proteins during ERAD; required for ubiquitination of a subset of cytosolic misfolded proteins upon heat shock
-S000037673	CDS					YGL141W		7	238353	241085	W		2011-02-03	1996-07-31	
-S000130164	ARS		ARS712			chromosome 7		7	241085	241353			2011-02-03	2009-05-07	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
-S000003108	ORF	Uncharacterized	YGL140C			chromosome 7		7	245012	241353	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene; contains multiple predicted transmembrane domains
-S000037564	CDS					YGL140C		7	245012	241353	C		2011-02-03	1996-07-31	
-S000003107	ORF	Verified	YGL139W	FLC3	putative flavin adenine dinucleotide transporter|HUF3	chromosome 7		7	245716	248124	W		2011-02-03	1996-07-31	Putative FAD transporter, similar to Flc1p and Flc2p; localized to the ER; FLC3 has a paralog, FLC1, that arose from the whole genome duplication
-S000037900	CDS					YGL139W		7	245716	248124	W		2011-02-03	1996-07-31	
-S000003106	ORF	Uncharacterized	YGL138C			chromosome 7		7	249531	248494	C		2011-02-03	1996-07-31	Putative protein of unknown function; has no significant sequence similarity to any known protein
-S000036000	CDS					YGL138C		7	249531	248494	C		2011-02-03	1996-07-31	
-S000003105	ORF	Verified	YGL137W	SEC27	coatomer subunit beta'	chromosome 7	L000001848	7	249869	252738	W		2011-02-03	1996-07-31	Essential beta'-coat protein of the COPI coatomer; involved in ER-to-Golgi and Golgi-to-ER transport; contains WD40 domains that mediate cargo selective interactions; 45% sequence identity to mammalian beta'-COP
-S000035921	CDS					YGL137W		7	249869	249886	W		2011-02-03	1996-07-31	
-S000035922	CDS					YGL137W		7	250087	252738	W		2011-02-03	1996-07-31	
-S000035923	intron					YGL137W		7	249887	250086	W		2011-02-03	1996-07-31	
-S000003104	ORF	Verified	YGL136C	MRM2	21S rRNA (uridine2791-2'-O) methyltransferase	chromosome 7		7	253859	252897	C		2011-02-03	1996-07-31	Mitochondrial 2' O-ribose methyltransferase; required for methylation of U(2791) in 21S rRNA; MRM2 deletion confers thermosensitive respiration and loss of mitochondrial DNA; has similarity to Spb1p and Trm7p, and to E. coli FtsJ/RrmJ
-S000035725	CDS					YGL136C		7	253859	252897	C		2011-02-03	1996-07-31	
-S000003103	ORF	Verified	YGL135W	RPL1B	uL1|ribosomal 60S subunit protein L1B|L1|L1B|SSM2	chromosome 7	L000002658	7	254641	255294	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L1B; N-terminally acetylated; homologous to mammalian ribosomal protein L10A and bacterial L1; RPL1B has a paralog, RPL1A, that arose from the whole genome duplication; rpl1a rpl1b double null mutation is lethal
-S000035683	CDS					YGL135W		7	254641	255294	W		2011-02-03	1996-07-31	
-S000003102	ORF	Verified	YGL134W	PCL10		chromosome 7	L000004042	7	255663	256964	W		2011-02-03	1996-07-31	Pho85p cyclin; recruits, activates, and targets Pho85p cyclin-dependent protein kinase to its substrate; PCL10 has a paralog, PCL8, that arose from the whole genome duplication
-S000034682	CDS					YGL134W		7	255663	256964	W		2011-02-03	1996-07-31	
-S000003101	ORF	Verified	YGL133W	ITC1		chromosome 7		7	257707	261501	W		2011-02-03	1996-07-31	Subunit of ATP-dependent Isw2p-Itc1p chromatin remodeling complex; required for repression of a-specific genes, repression of early meiotic genes during mitotic growth, and repression of INO1; similar to mammalian Acf1p, the regulatory subunit of the mammalian ATP-utilizing chromatin assembly and modifying factor (ACF) complex; ITC1 has a paralog, YPL216W, that arose from the whole genome duplication
-S000034589	CDS					YGL133W		7	257707	261501	W		2011-02-03	1996-07-31	
-S000003100	ORF	Dubious	YGL132W			chromosome 7		7	261580	261915	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene SNT2/YGL131C
-S000034500	CDS					YGL132W		7	261580	261915	W		2011-02-03	1996-07-31	
-S000003099	ORF	Verified	YGL131C	SNT2	DNA-binding E3 ubiquitin-protein ligase SNT2	chromosome 7		7	265859	261648	C		2011-02-03	1996-07-31	Subunit of Snt2C complex, RING finger ubiquitin ligase (E3); physically associates with Ecm5p and Rpd3p; along with Ecm5p, recruits Rpd3p to small number of promoters; colocalizes with Ecm5p, independently of Rpd3p, to promoters of stress response genes upon oxidative stress; involved in ubiquitination, degradation of excess histones; interacts with Ubc4p; role in regulating genes encoding amine transporters; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000033546	CDS					YGL131C		7	265859	261648	C		2011-02-03	1996-07-31	
-S000003098	ORF	Verified	YGL130W	CEG1	mRNA guanylyltransferase 	chromosome 7	L000000291	7	266145	267524	W		2011-02-03	1996-07-31	Guanylyltransferase involved in mRNA 5' capping; subunit of mRNA capping enzyme, which is a heterotetramer composed of two molecules of Ceg1p and a homodimer of Cet1p, the mRNA 5'-triphosphatase subunit; nuclear import of Ceg1p requires interaction with Cet1p; mammalian capping enzyme is a single bifunctional polypeptide; human homolog RNGTT can complement yeast ceg1 null mutant
-S000033518	CDS					YGL130W		7	266145	267524	W		2011-02-03	1996-07-31	
-S000003097	ORF	Verified	YGL129C	RSM23	mitochondrial 37S ribosomal protein RSM23	chromosome 7		7	269075	267723	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial ribosomal protein of the small subunit; has similarity to mammalian apoptosis mediator proteins; null mutation prevents induction of apoptosis by overproduction of metacaspase Mca1p
-S000033944	CDS					YGL129C		7	269075	267723	C		2011-02-03	1996-07-31|2011-02-03	
-S000003096	ORF	Verified	YGL128C	CWC23	U2-type spliceosomal complex subunit CWC23	chromosome 7		7	270144	269293	C		2011-02-03	2003-09-22|1996-07-31	Component of a complex containing Cef1p; putatively involved in pre-mRNA splicing; has similarity to E. coli DnaJ and other DnaJ-like proteins and to S. pombe Cwf23p
-S000033837	CDS					YGL128C		7	270144	269293	C		2011-02-03	2003-09-22|1996-07-31	
-S000003095	ORF	Verified	YGL127C	SOH1	MED31	chromosome 7	L000001982	7	270775	270392	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; involved in telomere maintenance; conserved with other metazoan MED31 subunits
-S000033696	CDS					YGL127C		7	270775	270392	C		2011-02-03	1996-07-31	
-S000003094	ORF	Verified	YGL126W	SCS3	FIT2B	chromosome 7	L000002845	7	270997	272139	W		2011-02-03	1996-07-31	Protein required for inositol prototrophy; required for normal ER membrane biosynthesis; ortholog of the FIT family of proteins involved in triglyceride droplet biosynthesis and homologous to human FIT2; disputed role in the synthesis of inositol phospholipids from inositol
-S000033638	CDS					YGL126W		7	270997	272139	W		2011-02-03	1996-07-31	
-S000003093	ORF	Verified	YGL125W	MET13	methylenetetrahydrofolate reductase (NAD(P)H) MET13|MRPL45|MET11	chromosome 7	L000003570|L000001085	7	272520	274322	W	-77	2011-02-03	2003-01-06|1996-07-31	Major isozyme of methylenetetrahydrofolate reductase; catalyzes the reduction of 5,10-methylenetetrahydrofolate to 5-methyltetrahydrofolate in the methionine biosynthesis pathway
-S000030346	CDS					YGL125W		7	272520	274322	W		2011-02-03	2003-01-06|1996-07-31	
-S000003092	ORF	Verified	YGL124C	MON1	AUT12	chromosome 7		7	276714	274780	C		2011-02-03	1996-07-31|2011-02-03	Subunit of a heterodimeric guanine nucleotide exchange factor (GEF); subunit of the Mon1-Ccz1 GEF complex which stimulates nucleotide exchange and activation of Ypt7p, a Rab family GTPase involved in membrane tethering and fusion events at the late endosome and vacuole; GEF activity is stimulated by membrane association and anionic phospholipids; role in localizing Ypt7p to the vacuolar membrane; required for autophagy, the CVT pathway and mitophagy; potential Cdc28 substrate
-S000030087	CDS					YGL124C		7	276714	274780	C		2011-02-03	1996-07-31|2011-02-03	
-S000003091	ORF	Verified	YGL123W	RPS2	uS5|ribosomal 40S subunit protein S2|rp12|Ys5|S5|S4|S2|SUP138|SUP44|SUP38|RPS4	chromosome 7	L000002205	7	277617	278381	W	-72	2011-02-03	1996-07-31	Protein component of the small (40S) subunit; essential for control of translational accuracy; phosphorylation by C-terminal domain kinase I (CTDK-I) enhances translational accuracy; methylated on one or more arginine residues by Hmt1p; homologous to mammalian ribosomal protein S2 and bacterial S5
-S000030054	CDS					YGL123W		7	277617	278381	W		2011-02-03	1996-07-31	
-S000028634	ORF	Dubious	YGL123C-A			chromosome 7		7	277864	277634	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene RPS2/YGL123W
-S000032390	CDS					YGL123C-A		7	277864	277634	C		2011-02-03	2003-07-29	
-S000003090	ORF	Verified	YGL122C	NAB2	mRNA-binding protein NAB2	chromosome 7	L000001227	7	280523	278946	C		2011-02-03	1996-07-31	Nuclear polyadenylated RNA-binding protein; required for nuclear mRNA export and poly(A) tail length control; stimulates RNA polymerase III transcription by enhancing TFIIIB binding to promoters; protects mRNA against decay by the nuclear exosome in a poly(A)-tail-dependent manner; involved in forming export-competent mRNPs in the nucleus; autoregulates mRNA levels; NLS binds Kap104p; protein abundance increases under DNA replication stress; related to human hnRNPs
-S000037370	CDS					YGL122C		7	280523	278946	C		2011-02-03	1996-07-31	
-S000003089	ORF	Verified	YGL121C	GPG1		chromosome 7		7	281157	280777	C		2011-02-03	1996-07-31	Proposed gamma subunit of the heterotrimeric G protein; interacts with the receptor Gpr1p; involved in regulation of pseudohyphal growth; requires Gpb1p or Gpb2p to interact with Gpa2p; overproduction causes prion curing
-S000037311	CDS					YGL121C		7	281157	280777	C		2011-02-03	1996-07-31	
-S000003088	ORF	Verified	YGL120C	PRP43	DEAH-box ATP-dependent RNA helicase PRP43|JA1	chromosome 7	L000003359	7	283937	281634	C		2011-02-03	1996-07-31	RNA helicase in the DEAH-box family; functions in both RNA polymerase I and polymerase II transcript metabolism; catalyzes removal of U2, U5, and U6 snRNPs from the postsplicing lariat-intron ribonucleoprotein complex; required for efficient biogenesis of both small- and large-subunit rRNAs; acts with Sqs1p to promote 20S to 18S rRNA processing catalyzed by endonuclease Nob1p
-S000037207	CDS					YGL120C		7	283937	281634	C		2011-02-03	1996-07-31	
-S000003087	ORF	Verified	YGL119W	COQ8	protein kinase COQ8|ABC1	chromosome 7	L000000010	7	284442	285947	W		2011-02-03	1996-07-31	ATPase required for ubiquinone biosynthesis and respiratory growth; maintains levels of CoQ biosynthetic proteins; binds to CoQ biosynthesis intermediates; UbiB protein kinase-like family member that lacks canonical protein kinase activity; similar to prokaryotic proteins involved in ubiquinone biosynthesis; human homolog ADCK3 complements a coq8 null, is associated with CoQ and respiratory-chain deficiencies, and is mutated in autosomal-recessive cerebellar ataxia type 2
-S000037639	CDS					YGL119W		7	284442	285947	W		2011-02-03	1996-07-31	
-S000118455	ARS		ARS714		ARSVII-286	chromosome 7		7	285991	286081			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000119022	ARS_consensus_sequence					ARS714		7	286004	286018	W		2011-02-03	2006-10-03	
-S000006771	tRNA_gene		tW(CCA)G1			chromosome 7	L000003851	7	287455	287350	C		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
-S000032524	intron					tW(CCA)G1		7	287419	287386	C		2011-02-03	2000-05-19	
-S000032523	noncoding_exon					tW(CCA)G1		7	287385	287350	C		2011-02-03	2000-05-19	
-S000032522	noncoding_exon					tW(CCA)G1		7	287455	287420	C		2011-02-03	2000-05-19	
-S000003086	ORF	Uncharacterized	YGL118C			chromosome 7		7	288451	288014	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YGL118C is not an essential gene
-S000037518	CDS					YGL118C		7	288451	288014	C		2011-02-03	1996-07-31	
-S000130165	ARS		ARS715			chromosome 7		7	288451	288512			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000003085	ORF	Uncharacterized	YGL117W			chromosome 7		7	288512	289309	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000037461	CDS					YGL117W		7	288512	289309	W		2011-02-03	1996-07-31	
-S000003084	ORF	Verified	YGL116W	CDC20	ubiquitin-protein transferase activating protein CDC20|PAC5	chromosome 7	L000000259	7	289809	291641	W	-70	2011-02-03	1996-07-31	Activator of anaphase-promoting complex/cyclosome (APC/C); APC/C is required for metaphase/anaphase transition; directs ubiquitination of mitotic cyclins, Pds1p, and other anaphase inhibitors; cell-cycle regulated; potential Cdc28p substrate; relative distribution to the nucleus increases upon DNA replication stress
-S000032000	CDS					YGL116W		7	289809	291641	W		2011-02-03	1996-07-31	
-S000003083	ORF	Verified	YGL115W	SNF4	AMP-activated serine/threonine-protein kinase regulatory subunit SNF4|SCI1|CAT3	chromosome 7	L000001947	7	292033	293001	W		2011-02-03	1996-07-31	Activating gamma subunit of the AMP-activated Snf1p kinase complex; additional subunits of the complex are Snf1p and a Sip1p/Sip2p/Gal83p family member; activates glucose-repressed genes, represses glucose-induced genes; role in sporulation, and peroxisome biogenesis; protein abundance increases in response to DNA replication stress
-S000031879	CDS					YGL115W		7	292033	293001	W		2011-02-03	1996-07-31	
-S000003082	ORF	Uncharacterized	YGL114W		OPT3	chromosome 7		7	293460	295637	W		2011-02-03	1996-07-31	Putative protein of unknown function; predicted member of the oligopeptide transporter (OPT) family of membrane transporters
-S000031734	CDS					YGL114W		7	293460	295637	W		2011-02-03	1996-07-31	
-S000003081	ORF	Verified	YGL113W	SLD3		chromosome 7		7	295932	297938	W		2011-02-03	1996-07-31	Protein involved in the initiation of DNA replication; required for proper assembly of replication proteins at the origins of replication; interacts with Cdc45p; localizes to nuclear foci that become diffuse upon DNA replication stress; homologous to the human Treslin/Ticrr protein
-S000036243	CDS					YGL113W		7	295932	297938	W		2011-02-03	1996-07-31	
-S000003080	ORF	Verified	YGL112C	TAF6	TafII60|TAF60	chromosome 7	L000002828	7	299728	298178	C		2011-02-03	1996-07-31	Subunit (60 kDa) of TFIID and SAGA complexes; involved in transcription initiation of RNA polymerase II and in chromatin modification, similar to histone H4; relocalizes to the cytosol in response to hypoxia
-S000036054	CDS					YGL112C		7	299728	298178	C		2011-02-03	1996-07-31	
-S000003079	ORF	Verified	YGL111W	NSA1	ribosome biosynthesis protein NSA1	chromosome 7		7	299978	301369	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; involved in 60S ribosomal subunit biogenesis
-S000035260	CDS					YGL111W		7	299978	301369	W		2011-02-03	1996-07-31	
-S000003078	ORF	Verified	YGL110C	CUE3		chromosome 7		7	303411	301537	C		2011-02-03	1996-07-31	Protein of unknown function; has a CUE domain that binds ubiquitin, which may facilitate intramolecular monoubiquitination
-S000035107	CDS					YGL110C		7	303411	301537	C		2011-02-03	1996-07-31	
-S000003077	ORF	Dubious	YGL109W			chromosome 7		7	303513	303836	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the uncharacterized gene YGL108C
-S000034172	CDS					YGL109W		7	303513	303836	W		2011-02-03	1996-07-31|2011-02-03	
-S000003076	ORF	Verified	YGL108C			chromosome 7		7	304071	303649	C		2011-02-03	1996-07-31	Protein of unknown function, predicted to be palmitoylated; SWAT-GFP, seamless-GFP and mCherry C-terminal fusion proteins localize to the cytosol, while N-terminal GFP fusion protein localizes to the cell periphery; protein abundance increases in response to DNA replication stress
-S000034006	CDS					YGL108C		7	304071	303649	C		2011-02-03	1996-07-31	
-S000003075	ORF	Verified	YGL107C	RMD9		chromosome 7		7	306273	304333	C		2011-02-03	1996-07-31	Mitochondrial protein required for respiratory growth; mutant phenotype and genetic interactions suggest a role in delivering mt mRNAs to ribosomes; located on matrix face of the inner membrane and loosely associated with mitoribosomes; RMD9 has a paralog, YBR238C, that arose from the whole genome duplication
-S000033204	CDS					YGL107C		7	306273	304333	C		2011-02-03	1996-07-31	
-S000003074	ORF	Verified	YGL106W	MLC1		chromosome 7	L000004170	7	306560	307009	W		2011-02-03	1996-07-31	Essential light chain for Myo1p; light chain for Myo2p; stabilizes Myo2p by binding to the neck region; interacts with Myo1p, Iqg1p, and Myo2p to coordinate formation and contraction of the actomyosin ring with targeted membrane deposition
-S000033181	CDS					YGL106W		7	306560	307009	W		2011-02-03	1996-07-31	
-S000003073	ORF	Verified	YGL105W	ARC1		chromosome 7	L000003553	7	307437	308567	W		2011-02-03	1996-07-31	Protein that binds tRNA and methionyl- and glutamyl-tRNA synthetases; involved in tRNA delivery, stimulating catalysis, and ensuring localization; also binds quadruplex nucleic acids; protein abundance increases in response to DNA replication stress; methionyl-tRNA synthetase is Mes1p; glutamyl-tRNA synthetase is Gus1p
-S000033089	CDS					YGL105W		7	307437	308567	W		2011-02-03	1996-07-31	
-S000003072	ORF	Verified	YGL104C	VPS73	putative sugar transporter	chromosome 7		7	310173	308713	C		2011-02-03	1996-07-31	Mitochondrial protein; mutation affects vacuolar protein sorting; putative transporter; member of the sugar porter family; VPS73 has a paralog, YBR241C, that arose from the whole genome duplication
-S000032120	CDS					YGL104C		7	310173	308713	C		2011-02-03	1996-07-31	
-S000003071	ORF	Verified	YGL103W	RPL28	uL15|ribosomal 60S subunit protein L28|L15|rp44|YL24|L29|L28|CYH2	chromosome 7	L000000454	7	310967	311927	W	-64	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L28; homologous to mammalian ribosomal protein L27A and bacterial L15; may have peptidyl transferase activity; can mutate to cycloheximide resistance
-S000032088	CDS					YGL103W		7	310967	311015	W		2011-02-03	1996-07-31	
-S000032089	CDS					YGL103W		7	311527	311927	W		2011-02-03	1996-07-31	
-S000032090	intron					YGL103W		7	311016	311526	W		2011-02-03	1996-07-31	
-S000003070	ORF	Dubious	YGL102C			chromosome 7		7	311933	311505	C		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 3' end of essential RPL28 gene encoding a large subunit ribosomal protein
-S000031837	CDS					YGL102C		7	311933	311505	C		2011-02-03	1996-07-31	
-S000003069	ORF	Uncharacterized	YGL101W			chromosome 7		7	312193	312840	W		2011-02-03	1996-07-31	Protein of unknown function; non-essential gene; interacts with the DNA helicase Hpr5p; YGL101W has a paralog, YBR242W, that arose from the whole genome duplication
-S000031742	CDS					YGL101W		7	312193	312840	W		2011-02-03	1996-07-31	
-S000003068	ORF	Verified	YGL100W	SEH1		chromosome 7	L000003153	7	313234	314283	W		2011-02-03	1996-07-31	Subunit of the Nup84 nuclear pore and SEACAT subcomplexes; involved in nucleocytoplasmic transport and NPC biogenesis in the nuclear pore subcomplex; subunit of SEACAT, a subcomplex of the SEA complex that inhibits the TORC1 inhibitory role of SEACIT (Iml1p-Npr2p-Npr3p), a GAP for Gtr1p in response to amino acid limitation, thereby resulting in activation of TORC1 signaling; SEA is a coatomer-related complex that associates dynamically with the vacuole; human SEH1 homolog
-S000030802	CDS					YGL100W		7	313234	314283	W		2011-02-03	1996-07-31	
-S000003067	ORF	Verified	YGL099W	LSG1	putative GTPase LSG1|KRE35	chromosome 7		7	314631	316553	W		2011-02-03	1996-07-31	Putative GTPase involved in 60S ribosomal subunit biogenesis; required for the release of Nmd3p from 60S subunits in the cytoplasm
-S000032465	CDS					YGL099W		7	314631	316553	W		2011-02-03	1996-07-31	
-S000028467	snoRNA_gene		snR82	SNR82	RUF2	chromosome 7		7	316788	317055	W		2011-02-03	2003-03-06	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U1110, U2349, and U2351
-S000030074	noncoding_exon					snR82		7	316788	317055	W		2011-02-03	2003-03-06	
-S000003066	ORF	Verified	YGL098W	USE1	SNAP receptor USE1|SLT1	chromosome 7		7	317342	318079	W		2011-02-03	1996-07-31	Essential SNARE protein localized to the ER; involved in retrograde traffic from the Golgi to the ER and Sey1p-independent homotypic ER fusion; required for efficient nuclear fusion during mating; forms a complex with the SNAREs Sec22p, Sec20p and Ufe1p
-S000032364	CDS					YGL098W		7	317342	318079	W		2011-02-03	1996-07-31	
-S000006942	long_terminal_repeat		YGLWdelta4			chromosome 7		7	318697	318860	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006936	long_terminal_repeat		YGLCdelta5			chromosome 7		7	319341	319009	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006937	long_terminal_repeat		YGLCsigma1			chromosome 7		7	319762	319423	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006596	tRNA_gene		tH(GUG)G2			chromosome 7	L000003853	7	319781	319852	W		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
-S000036200	noncoding_exon					tH(GUG)G2		7	319781	319852	W		2011-02-03	2000-05-19	
-S000006939	long_terminal_repeat		YGLCtau3			chromosome 7		7	320707	320355	C		2011-02-03	2000-05-19	Ty4 LTR
-S000003065	ORF	Verified	YGL097W	SRM1	Ran guanyl-nucleotide exchange factor|TSM437|PRP20|MTR1	chromosome 7	L000002058|L000001216|S000029621|L000002370	7	321782	323230	W		2011-02-03	1996-07-31	Nucleotide exchange factor for Gsp1p; localizes to the nucleus, required for nucleocytoplasmic trafficking of macromolecules; suppressor of the pheromone response pathway; potentially phosphorylated by Cdc28p; human homolog of the RAN GEF, RCC1, can complement a temperature sensitive point mutant
-S000032259	CDS					YGL097W		7	321782	323230	W		2011-02-03	1996-07-31	
-S000003064	ORF	Verified	YGL096W	TOS8		chromosome 7		7	325331	326161	W		2011-02-03	1996-07-31	Homeodomain-containing protein and putative transcription factor; found associated with chromatin; target of SBF transcription factor; induced during meiosis and under cell-damaging conditions; TOS8 has a paralog, CUP9, that arose from the whole genome duplication
-S000031260	CDS					YGL096W		7	325331	326161	W		2011-02-03	1996-07-31	
-S000006943	long_terminal_repeat		YGLWdelta6			chromosome 7		7	327904	328224	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006553	tRNA_gene		tE(UUC)G1	SOE1		chromosome 7	L000003823|L000001980	7	328583	328654	W	-63	2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; can mutate to become a missense suppressor tRNA that inserts glutamate residues at lysine codons; target of K. lactis zymocin
-S000034645	noncoding_exon					tE(UUC)G1		7	328583	328654	W		2011-02-03	2000-05-19	
-S000003063	ORF	Verified	YGL095C	VPS45	VPL28|STT10	chromosome 7	L000002478	7	330607	328874	C		2011-02-03	1996-07-31	Protein of the Sec1p/Munc-18 family; essential for vacuolar protein sorting; required for the function of Pep12p and the early endosome/late Golgi SNARE Tlg2p; essential for fusion of Golgi-derived vesicles with the prevacuolar compartment
-S000031062	CDS					YGL095C		7	330607	328874	C		2011-02-03	1996-07-31	
-S000003062	ORF	Verified	YGL094C	PAN2	poly(A)-specific ribonuclease	chromosome 7	L000003115	7	334465	331118	C		2011-02-03	1996-07-31	Catalytic subunit of the Pan2p-Pan3p poly(A)-ribonuclease complex; complex acts to control poly(A) tail length and regulate the stoichiometry and activity of postreplication repair complexes
-S000030953	CDS					YGL094C		7	334465	331118	C		2011-02-03	1996-07-31	
-S000003061	ORF	Verified	YGL093W	SPC105		chromosome 7	L000004697	7	334886	337639	W		2011-02-03	1996-07-31	Subunit of a kinetochore-microtubule binding complex; complex bridges centromeric heterochromatin and kinetochore MAPs and motors; required for sister chromatid bi-orientation and kinetochore binding of SAC components; complex also includes Kre28p; modified by sumoylation
-S000030038	CDS					YGL093W		7	334886	337639	W		2011-02-03	1996-07-31	
-S000003060	ORF	Verified	YGL092W	NUP145	nucleocytoplasmic transporter NUP145|RAT10	chromosome 7	L000001294	7	337906	341859	W		2011-02-03	1996-07-31	Essential protein with distinct roles in two nuclear pore subcomplexes; catalyzes its own proteolytic cleavage in vivo to generate a C-terminal fragment that is a structural component of the Nup84p subcomplex (with roles in NPC biogenesis and localization of genes to the nuclear periphery), and an N-terminal fragment that is one of several FG-nucleoporins within the NPC central core directly responsible for nucleocytoplasmic transport; homologous to human NUP98
-S000029907	CDS					YGL092W		7	337906	341859	W		2011-02-03	1996-07-31	
-S000003059	ORF	Verified	YGL091C	NBP35	Fe-S cluster-binding ATPase	chromosome 7	L000003338	7	343042	342056	C		2011-02-03	1996-07-31	Essential cytoplasmic iron-sulfur cluster binding protein; forms a complex with Cfd1p that is involved in iron-sulfur protein assembly in the cytosol; similar to P-loop NTPases
-S000037170	CDS					YGL091C		7	343042	342056	C		2011-02-03	1996-07-31	
-S000003058	ORF	Verified	YGL090W	LIF1		chromosome 7	L000004541	7	343319	344584	W		2011-02-03	1996-07-31	Component of the DNA ligase IV complex; this complex mediates nonhomologous end joining in DNA double-strand break repair; physically interacts with Dnl4p and Nej1p; homologous to mammalian XRCC4 protein
-S000037116	CDS					YGL090W		7	343319	344584	W		2011-02-03	1996-07-31	
-S000003057	ORF	Verified	YGL089C	MF(ALPHA)2		chromosome 7	L000001095	7	345153	344791	C	-58	2011-02-03	1996-07-31	Mating pheromone alpha-factor, made by alpha cells; interacts with mating type a cells to induce cell cycle arrest and other responses leading to mating; also encoded by MF(ALPHA)1, which is more highly expressed; binds copper(II) ions
-S000036327	CDS					YGL089C		7	345153	344791	C		2011-02-03	1996-07-31	
-S000003056	ORF	Dubious	YGL088W			chromosome 7		7	345836	346201	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps snR10, a snoRNA required for preRNA processing
-S000036288	CDS					YGL088W		7	345836	346201	W		2011-02-03	1996-07-31	
-S000007499	snoRNA_gene		snR10	SNR10		chromosome 7		7	345986	346230	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); essential gene required for for preRNA processing, specifically for cleavage at sites A1 and A2; also guides pseudouridylation of large subunit (LSU) rRNA at position U2923
-S000036589	noncoding_exon					snR10		7	345986	346230	W		2011-02-03	2000-05-19	
-S000003055	ORF	Verified	YGL087C	MMS2	E2  ubiquitin-conjugating protein MMS2	chromosome 7	L000004015	7	346904	346406	C		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme variant; involved in error-free postreplication repair; forms a heteromeric complex with Ubc13p, an active ubiquitin-conjugating enzyme; cooperates with chromatin-associated RING finger proteins, Rad18p and Rad5p; protein abundance increases in response to DNA replication stress
-S000036106	CDS					YGL087C		7	346808	346406	C		2011-02-03	1996-07-31	
-S000036105	CDS					YGL087C		7	346904	346894	C		2011-02-03	1996-07-31	
-S000036107	intron					YGL087C		7	346893	346809	C		2011-02-03	1996-07-31	
-S000003054	ORF	Verified	YGL086W	MAD1	coiled-coil domain-containing protein MAD1	chromosome 7	L000000974	7	347119	349368	W		2011-02-03	1996-07-31	Coiled-coil protein involved in spindle-assembly checkpoint; required for inhibition of karyopherin/importin Pse1p (aka Kap121p) upon spindle assembly checkpoint arrest; phosphorylated by Mps1p upon checkpoint activation which leads to inhibition of anaphase promoting complex activity; forms a complex with Mad2p; gene dosage imbalance between MAD1 and MAD2 leads to chromosome instability
-S000035277	CDS					YGL086W		7	347119	349368	W		2011-02-03	1996-07-31	
-S000003053	ORF	Uncharacterized	YGL085W	LCL3		chromosome 7		7	349616	350440	W		2011-02-03	1996-07-31	Putative protein of unknown function; mutant has long chronological lifespan; has homology to Staphylococcus aureus nuclease; GFP-fusion protein localizes to mitochondria; is induced in response to the DNA-damaging agent MMS
-S000035126	CDS					YGL085W		7	349616	350440	W		2011-02-03	1996-07-31	
-S000003052	ORF	Verified	YGL084C	GUP1	O-acyltransferase	chromosome 7	L000004739	7	352298	350616	C		2011-02-03	1996-07-31	Plasma membrane protein involved in remodeling GPI anchors; member of the MBOAT family of putative membrane-bound O-acyltransferases; role in misfolded protein quality control; proposed to be involved in glycerol transport; homolog of the mammalian Hedgehog pathway modulator HHATL; GUP1 has a paralog, GUP2, that arose from the whole genome duplication
-S000034877	CDS					YGL084C		7	352298	350616	C		2011-02-03	1996-07-31	
-S000118456	ARS		ARS716		ARSVII-353	chromosome 7		7	352760	352906			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178100	ARS_consensus_sequence					ARS716		7	352865	352849	C		2014-11-18	2014-11-18	
-S000003051	ORF	Verified	YGL083W	SCY1		chromosome 7	L000003258	7	353058	355472	W		2011-02-03	1996-07-31	Putative kinase; suppressor of GTPase mutant; similar to bovine rhodopsin kinase; may have a role in intracellular sterol transport
-S000034832	CDS					YGL083W		7	353058	355472	W		2011-02-03	1996-07-31	
-S000003050	ORF	Uncharacterized	YGL082W			chromosome 7		7	355827	356972	W		2011-02-03	1996-07-31	Putative protein of unknown function; predicted prenylation/proteolysis target of Afc1p and Rce1p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; not an essential gene; YGL082W has a paralog, YPL191C, that arose from the whole genome duplication
-S000033922	CDS					YGL082W		7	355827	356972	W		2011-02-03	1996-07-31	
-S000003049	ORF	Uncharacterized	YGL081W			chromosome 7		7	357377	358339	W		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene; interacts genetically with CHS5, a gene involved in chitin biosynthesis
-S000033825	CDS					YGL081W		7	357377	358339	W		2011-02-03	1996-07-31	
-S000003048	ORF	Verified	YGL080W	MPC1	pyruvate transporter MPC1|FMP37	chromosome 7		7	358636	359028	W		2011-02-03	1996-07-31	Highly conserved subunit of mitochondrial pyruvate carrier (MPC); MPC is a mitochondrial inner membrane complex that mediates pyruvate uptake and comprises Mpc1p and Mpc2p during fermentative growth, or Mcp1p and Mpc3p during respiratory growth; null mutant displays slow growth that is complemented by expression of human or mouse ortholog; mutation in human ortholog MPC1 is associated with lactic acidosis and hyperpyruvatemia
-S000033711	CDS					YGL080W		7	358636	359028	W		2011-02-03	1996-07-31	
-S000003047	ORF	Verified	YGL079W	KXD1	KIB1	chromosome 7		7	359444	360100	W		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; null mutant is sensitive to drug inducing secretion of vacuolar cargo; GFP-fusion protein localizes to the endosome
-S000034302	CDS					YGL079W		7	359444	360100	W		2011-02-03	1996-07-31	
-S000003046	ORF	Verified	YGL078C	DBP3	RNA-dependent ATPase DBP3	chromosome 7	L000000494	7	361859	360288	C		2011-02-03	1996-07-31	RNA-Dependent ATPase, member of DExD/H-box family; involved in cleavage of site A3 within the ITS1 spacer during rRNA processing; not essential for growth, but deletion causes severe slow-growth phenotype
-S000034146	CDS					YGL078C		7	361859	360288	C		2011-02-03	1996-07-31	
-S000003045	ORF	Verified	YGL077C	HNM1	CTR1	chromosome 7	L000000433|L000000795	7	363916	362225	C		2011-02-03	1996-07-31	Plasma membrane transporter for choline, ethanolamine, and carnitine; involved in the uptake of nitrogen mustard and the uptake of glycine betaine during hypersaline stress; co-regulated with phospholipid biosynthetic genes and negatively regulated by choline and myo-inositol
-S000034066	CDS					YGL077C		7	363916	362225	C		2011-02-03	1996-07-31	
-S000007302	snoRNA_gene		snR39	SNR39		chromosome 7	L000003054	7	365251	365163	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A807
-S000036769	noncoding_exon					snR39		7	365251	365163	C		2011-02-03	2000-05-19	
-S000003044	ORF	Verified	YGL076C	RPL7A	uL30|ribosomal 60S subunit protein L7A|YL8|L7A|L6A|L30|rp11	chromosome 7	L000002704|L000003255	7	365996	364335	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L7A; required for processing of 27SA3 pre-rRNA to 27SB pre-rRNA during assembly of large ribosomal subunit; depletion leads to a turnover of pre-rRNA; contains a conserved C-terminal Nucleic acid Binding Domain (NDB2); binds to Domain II of 25S and 5.8S rRNAs; homologous to mammalian ribosomal protein L7 and bacterial L30; RPL7A has a paralog, RPL7B, that arose from the whole genome duplication
-S000032065	CDS					YGL076C		7	364964	364335	C		2011-02-03	1996-07-31	
-S000032064	CDS					YGL076C		7	365526	365433	C		2011-02-03	1996-07-31	
-S000032063	CDS					YGL076C		7	365996	365986	C		2011-02-03	1996-07-31	
-S000032067	intron					YGL076C		7	365432	364965	C		2011-02-03	1996-07-31	
-S000032066	intron					YGL076C		7	365985	365527	C		2011-02-03	1996-07-31	
-S000007303	snoRNA_gene		snR39B	SNR39B		chromosome 7	L000003494	7	366469	366374	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position G805
-S000030654	noncoding_exon					snR39B		7	366469	366374	C		2011-02-03	2000-05-19	
-S000003043	ORF	Verified	YGL075C	MPS2	MMC1	chromosome 7	L000004546|L000004250	7	368088	366925	C		2011-02-03	1996-07-31	Essential membrane protein localized at nuclear envelope and SPBs; required for insertion of the newly duplicated spindle pole body into the nuclear envelope; potentially phosphorylated by Cdc28p; MPS2 has a paralog, CSM4, that arose from the whole genome duplication
-S000031904	CDS					YGL075C		7	368088	366925	C		2011-02-03	1996-07-31	
-S000003041	ORF	Verified	YGL073W	HSF1	stress-responsive transcription factor HSF1|MAS3|EXA3	chromosome 7	L000000814	7	368753	371254	W		2011-02-03	1996-07-31	Trimeric heat shock transcription factor; activates multiple genes in response to highly diverse stresses; recognizes variable heat shock elements (HSEs) consisting of inverted NGAAN repeats; monitors translational status of cell through an RQC (Ribosomal Quality Control)-mediated translation-stress signal; involved in diauxic shift; posttranslationally regulated; human homolog HSF1 with linker region mutations can complement yeast hsf1 mutant
-S000030864	CDS					YGL073W		7	368753	371254	W		2011-02-03	1996-07-31	
-S000003042	ORF	Dubious	YGL074C			chromosome 7		7	368922	368596	C		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 5' end of essential HSF1 gene encoding heat shock transcription factor
-S000031746	CDS					YGL074C		7	368922	368596	C		2011-02-03	1996-07-31	
-S000003040	ORF	Dubious	YGL072C			chromosome 7		7	371362	371003	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene HSF1; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
-S000030701	CDS					YGL072C		7	371362	371003	C		2011-02-03	1996-07-31	
-S000003039	ORF	Verified	YGL071W	AFT1	DNA-binding transcription factor AFT1|RCS1	chromosome 7	L000002660|L000001594	7	372012	374084	W		2011-02-03	1996-07-31	Transcription factor involved in iron utilization and homeostasis; binds consensus site PyPuCACCCPu and activates transcription in response to changes in iron availability; in iron-replete conditions localization is regulated by Grx3p, Grx4p, and Fra2p, and promoter binding is negatively regulated via Grx3p-Grx4p binding; AFT1 has a paralog, AFT2, that arose from the whole genome duplication; relative distribution to the nucleus increases upon DNA replication stress
-S000030658	CDS					YGL071W		7	372012	374084	W		2011-02-03	1996-07-31	
-S000003038	ORF	Verified	YGL070C	RPB9	DNA-directed RNA polymerase II core subunit RPB9|B12.6|SSU73|SHI	chromosome 7	L000001683|L000001880	7	374827	374459	C		2011-02-03	1996-07-31	RNA polymerase II subunit B12.6; contacts DNA; mutations affect transcription start site selection and fidelity of transcription
-S000037754	CDS					YGL070C		7	374827	374459	C		2011-02-03	1996-07-31	
-S000003036	ORF	Verified	YGL068W	MNP1	mitochondrial nucleoid protein MNP1	chromosome 7		7	375087	375671	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; has similarity to E. coli L7/L12 and human MRPL7 ribosomal proteins; associates with the mitochondrial nucleoid; required for normal respiratory growth
-S000030909	CDS					YGL068W		7	375087	375671	W		2011-02-03	1996-07-31	
-S000003037	ORF	Dubious	YGL069C		SRF3	chromosome 7		7	375514	375050	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 92% of ORF overlaps the uncharacterized ORF YGL068W; deletion in cyr1 mutant results in loss of stress resistance
-S000030942	CDS					YGL069C		7	375514	375050	C		2011-02-03	1996-07-31	
-S000003035	ORF	Verified	YGL067W	NPY1	NAD(+) diphosphatase	chromosome 7	S000007505	7	376101	377255	W		2011-02-03	1996-07-31	NADH diphosphatase (pyrophosphatase); hydrolyzes the pyrophosphate linkage in NADH and related nucleotides; localizes to peroxisomes; nudix hydrolase family member
-S000029896	CDS					YGL067W		7	376101	377255	W		2011-02-03	1996-07-31	
-S000003034	ORF	Verified	YGL066W	SGF73	deubiquitination module subunit SGF73|SCA7	chromosome 7		7	377609	379582	W		2011-02-03	1996-07-31	Subunit of DUBm module of SAGA and SLIK; has roles in anchoring deubiquitination module (DUBm) into SAGA and SLIK complexes, maintaining organization and ubiquitin-binding conformation of Ubp8p, thereby contributing to overall DUBm activity; involved in preinitiation complex assembly at promoters; relocalizes to cytosol under hypoxia; human homolog ATXN7 implicated in spinocerebellar ataxia, and can complement yeast null mutant
-S000037894	CDS					YGL066W		7	377609	379582	W		2011-02-03	1996-07-31	
-S000003033	ORF	Verified	YGL065C	ALG2	GDP-Man:Man(1)GlcNAc(2)-PP-dolichol alpha-1,3-mannosyltransferase	chromosome 7	L000002798	7	381271	379760	C		2011-02-03	1996-07-31	Mannosyltransferase in the N-linked glycosylation pathway; catalyzes two consecutive steps in the N-linked glycosylation pathway; alg2 mutants exhibit temperature-sensitive growth and abnormal accumulation of the lipid-linked oligosaccharide Man2GlcNAc2-PP-Dol; human ALG2 complements the temperature sensitivity and dolichol-linked oligosaccharide biosynthesis defect of the alg2-1 mutant, but mutant form from a patient with CDG-Ii fails to complement
-S000035998	CDS					YGL065C		7	381271	379760	C		2011-02-03	1996-07-31	
-S000003032	ORF	Verified	YGL064C	MRH4	ATP-dependent RNA helicase	chromosome 7		7	383208	381523	C		2011-02-03	1996-07-31	Mitochondrial ATP-dependent RNA helicase of the DEAD-box family; required for assembly of the large subunit of mitochondrial ribosomes; binds to the large subunit rRNA, 21S_rRNA; localizes to the matrix face of the mitochondrial inner membrane and associates with the large subunit precursor and with mature ribosomes
-S000035835	CDS					YGL064C		7	383208	381523	C		2011-02-03	1996-07-31	
-S000003031	ORF	Verified	YGL063W	PUS2	pseudouridine synthase PUS2	chromosome 7	L000003361	7	383654	384766	W		2011-02-03	1996-07-31|2011-02-03	Mitochondrial tRNA:pseudouridine synthase; acts at positions 27 and 28, but not at position 72; efficiently and rapidly targeted to mitochondria, specifically dedicated to mitochondrial tRNA modification; mutation also affects pseudouridylation of some nuclear-encoded mRNAs; PUS2 has a paralog, PUS1, that arose from the whole genome duplication
-S000035805	CDS					YGL063W		7	383654	384766	W		2011-02-03	1996-07-31|2011-02-03	
-S000028633	ORF	Dubious	YGL063C-A			chromosome 7		7	384651	384502	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032389	CDS					YGL063C-A		7	384651	384502	C		2011-02-03	2003-07-29	
-S000003030	ORF	Verified	YGL062W	PYC1	pyruvate carboxylase 1	chromosome 7	L000001542	7	385196	388732	W		2011-02-03	1996-07-31	Pyruvate carboxylase isoform; cytoplasmic enzyme that converts pyruvate to oxaloacetate; differentially regulated than isoform Pyc2p; mutations in the human homolog are associated with lactic acidosis; PYC1 has a paralog, PYC2, that arose from the whole genome duplication
-S000035682	CDS					YGL062W		7	385196	388732	W		2011-02-03	1996-07-31	
-S000118457	ARS		ARS717		ARSVII-389	chromosome 7		7	388658	388891			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000119023	ARS_consensus_sequence					ARS717		7	388846	388832	C		2011-02-03	2006-10-03	
-S000003029	ORF	Verified	YGL061C	DUO1		chromosome 7	L000004421	7	389711	388968	C		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); cooperates with Dam1p to connect the DASH complex with microtubules (MT); couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
-S000034613	CDS					YGL061C		7	389711	388968	C		2011-02-03	1996-07-31	
-S000003028	ORF	Verified	YGL060W	YBP2	YBH1	chromosome 7		7	390065	391990	W		2011-02-03	1996-07-31	Central kinetochore associated protein; mediates mitotic progression; interacts with several central kinetochore proteins and centromeric histone Cse4p; role in resistance to oxidative stress; similar to Slk19p; YBP2 has a paralog, YBP1, that arose from the whole genome duplication
-S000034586	CDS					YGL060W		7	390065	391990	W		2011-02-03	1996-07-31	
-S000003027	ORF	Verified	YGL059W	PKP2	protein kinase PKP2	chromosome 7		7	392223	393698	W		2011-02-03	2003-01-02|1996-07-31|2011-02-03	Mitochondrial protein kinase; negatively regulates activity of the pyruvate dehydrogenase complex by phosphorylating the ser-133 residue of the Pda1p subunit; acts in concert with kinase Pkp1p and phosphatases Ptc5p and Ptc6p; relocalizes from mitochondrion to cytoplasm upon DNA replication stress
-S000035146	CDS					YGL059W		7	392223	393698	W		2011-02-03	2003-01-02|1996-07-31|2011-02-03	
-S000003026	ORF	Verified	YGL058W	RAD6	E2 ubiquitin-conjugating protein RAD6|PSO8|UBC2	chromosome 7	L000001560	7	393986	394504	W	-44	2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme (E2); involved in postreplication repair as a heterodimer with Rad18p, regulation of K63 polyubiquitination in response to oxidative stress, DSBR and checkpoint control as a heterodimer with Bre1p, ubiquitin-mediated N-end rule protein degradation as a heterodimer with Ubr1p, ERAD with Ubr1p in the absence of canonical ER membrane ligases, and Rpn4p turnover as part of proteasome homeostasis, in complex with Ubr2p and Mub1p
-S000035031	CDS					YGL058W		7	393986	394504	W		2011-02-03	1996-07-31	
-S000003025	ORF	Verified	YGL057C	GEP7		chromosome 7		7	395829	394966	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant exhibits a respiratory growth defect and synthetic interactions with prohibitin (phb1) and gem1; authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000034817	CDS					YGL057C		7	395829	394966	C		2011-02-03	1996-07-31	
-S000003024	ORF	Verified	YGL056C	SDS23		chromosome 7	L000004692	7	397618	396035	C		2011-02-03	1996-07-31|2011-02-03	Protein involved in cell separation during budding; one of two S. cerevisiae homologs (Sds23p and Sds24p) of the S. pombe Sds23 protein, which is implicated in APC/cyclosome regulation; SDS23 has a paralog, SDS24, that arose from the whole genome duplication
-S000033939	CDS					YGL056C		7	397618	396035	C		2011-02-03	1996-07-31|2011-02-03	
-S000003023	ORF	Verified	YGL055W	OLE1	stearoyl-CoA 9-desaturase|MDM2	chromosome 7	L000001052|L000001297	7	398628	400160	W	-37	2011-02-03	1996-07-31	Delta(9) fatty acid desaturase; required for monounsaturated fatty acid synthesis and for normal distribution of mitochondria
-S000033893	CDS					YGL055W		7	398628	400160	W		2011-02-03	1996-07-31	
-S000003022	ORF	Verified	YGL054C	ERV14	cornichon family protein	chromosome 7	L000004816	7	401287	400871	C		2011-02-03	1996-07-31	COPII-coated vesicle protein; involved in vesicle formation and incorporation of specific secretory cargo; required for the delivery of bud-site selection protein Axl2p and Nha1p antiporter to cell surface; related to Drosophila cornichon; ERV14 has a paralog, ERV15, that arose from the whole genome duplication
-S000033689	CDS					YGL054C		7	401287	400871	C		2011-02-03	1996-07-31	
-S000006554	tRNA_gene		tE(UUC)G2			chromosome 7	L000003850	7	401598	401527	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000034647	noncoding_exon					tE(UUC)G2		7	401598	401527	C		2011-02-03	2000-05-19	
-S000006949	long_terminal_repeat		YGLWsigma2			chromosome 7		7	401616	401894	W		2011-02-03	2000-05-19	Ty3 LTR
-S000006944	long_terminal_repeat		YGLWdelta7			chromosome 7		7	401959	402290	W		2011-02-03	2000-05-19	Ty1 LTR
-S000003021	ORF	Verified	YGL053W	PRM8	pheromone-regulated DUP240 family protein PRM8	chromosome 7		7	402589	403302	W		2011-02-03	1996-07-31	Pheromone-regulated protein; contains with 2 predicted transmembrane segments and an FF sequence, a motif involved in COPII binding; forms a complex with Prp9p in the ER; member of DUP240 gene family; PRM8 has a paralog, PRM9, that arose from a segmental duplication
-S000033637	CDS					YGL053W		7	402589	403302	W		2011-02-03	1996-07-31	
-S000003020	ORF	Dubious	YGL052W			chromosome 7		7	403437	403742	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MST27
-S000030345	CDS					YGL052W		7	403437	403742	W		2011-02-03	1996-07-31	
-S000003019	ORF	Verified	YGL051W	MST27	DUP240 family protein MST27	chromosome 7		7	403687	404391	W		2011-02-03	1996-07-31	Putative integral membrane protein, involved in vesicle formation; forms complex with Mst28p; member of DUP240 gene family; binds COPI and COPII vesicles; MST27 has a paralog, MST28, that arose from a segmental duplication
-S000030145	CDS					YGL051W		7	403687	404391	W		2011-02-03	1996-07-31	
-S000006945	long_terminal_repeat		YGLWdelta8			chromosome 7		7	405004	405145	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006946	long_terminal_repeat		YGLWdelta9			chromosome 7		7	405146	405207	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006938	long_terminal_repeat		YGLCsigma3			chromosome 7		7	405453	405208	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006711	tRNA_gene		tR(UCU)G1			chromosome 7	L000003824	7	405470	405541	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000037328	noncoding_exon					tR(UCU)G1		7	405470	405541	W		2011-02-03	2000-05-19	
-S000003018	ORF	Verified	YGL050W	TYW3	tRNA methyltransferase TYW3	chromosome 7		7	405776	406597	W		2011-02-03	1996-07-31	tRNA methyltransferase required for synthesis of wybutosine; a modified guanosine found at the 3'-position adjacent to the anticodon of phenylalanine tRNA which supports reading frame maintenance by stabilizing codon-anticodon interactions
-S000030037	CDS					YGL050W		7	405776	406597	W		2011-02-03	1996-07-31	
-S000003017	ORF	Verified	YGL049C	TIF4632	translation initiation factor eIF4G|eIF4G2	chromosome 7	L000002310	7	409604	406860	C		2011-02-03	1996-07-31	Translation initiation factor eIF4G; subunit of the mRNA cap-binding protein complex (eIF4F) that also contains eIF4E (Cdc33p); associates with the poly(A)-binding protein Pab1p, also interacts with eIF4A (Tif1p); TIF4632 has a paralog, TIF4631, that arose from the whole genome duplication
-S000030563	CDS					YGL049C		7	409604	406860	C		2011-02-03	1996-07-31	
-S000003016	ORF	Verified	YGL048C	RPT6	proteasome regulatory particle base subunit RPT6|SUG1|SCB68|CRL3|CIM3	chromosome 7	L000002174|L000000406|L000002265	7	411286	410069	C	-43	2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; bound by ubiquitin-protein ligases Ubr1p and Ufd4p; localized mainly to the nucleus throughout the cell cycle; protein abundance increases in response to DNA replication stress
-S000030499	CDS					YGL048C		7	411286	410069	C		2011-02-03	1996-07-31	
-S000003015	ORF	Verified	YGL047W	ALG13	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase catalytic subunit ALG13	chromosome 7		7	411552	412160	W		2011-02-03	1996-07-31	Catalytic component of UDP-GlcNAc transferase; required for the second step of dolichyl-linked oligosaccharide synthesis; anchored to the ER membrane via interaction with Alg14p; similar to bacterial and human glycosyltransferases; protein abundance increases in response to DNA replication stress; both human homologs ALG13 and ALG14 are required to complement yeast alg13 mutant
-S000030465	CDS					YGL047W		7	411552	412160	W		2011-02-03	1996-07-31	
-S000006755	tRNA_gene		tV(AAC)G1			chromosome 7	L000003849	7	412367	412294	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000036903	noncoding_exon					tV(AAC)G1		7	412367	412294	C		2011-02-03	2000-05-19	
-S000006947	long_terminal_repeat		YGLWdelta10			chromosome 7		7	412456	412725	W		2011-02-03	2000-05-19	Ty1 LTR
-S000003013	ORF	Verified	YGL045W	RIM8	ART9|YGL046W|PAL3	chromosome 7	L000004171	7	414102	415730	W		2011-02-03	2003-01-09|1996-07-31	Protein involved in proteolytic activation of Rim101p; part of response to alkaline pH; interacts with ESCRT-1 subunits Stp22p and Vps28p; essential for anaerobic growth; member of the arrestin-related trafficking adaptor family
-S000037558	CDS					YGL045W		7	414102	415730	W		2011-02-03	2003-01-09|1996-07-31	
-S000003012	ORF	Verified	YGL044C	RNA15		chromosome 7	L000001651	7	417036	416146	C		2011-02-03	1996-07-31	Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; required for gene looping and maintenance of genome stability
-S000037423	CDS					YGL044C		7	417036	416146	C		2011-02-03	1996-07-31	
-S000003011	ORF	Verified	YGL043W	DST1	SII|S-II|TFIIS|P37|PPR2	chromosome 7	L000001476|L000000530	7	417483	418412	W	24	2011-02-03	1996-07-31	General transcription elongation factor TFIIS; enables RNA polymerase II to read through blocks to elongation by stimulating cleavage of nascent transcripts stalled at transcription arrest sites; maintains RNAPII elongation activity on ribosomal protein genes during conditions of transcriptional stress
-S000031998	CDS					YGL043W		7	417483	418412	W		2011-02-03	1996-07-31	
-S000003010	ORF	Dubious	YGL042C			chromosome 7		7	418593	418288	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; deletion mutation blocks replication of Brome mosaic virus in S. cerevisiae, but this is likely due to effects on the overlapping gene DST1
-S000031778	CDS					YGL042C		7	418593	418288	C		2011-02-03	1996-07-31	
-S000028826	ORF	Uncharacterized	YGL041W-A			chromosome 7		7	418825	419289	W		2011-02-03	2003-07-29|2011-02-03	Putative protein of unknown function; conserved in fungi; identified by expression profiling and mass spectrometry
-S000033650	CDS					YGL041W-A		7	418825	419289	W		2011-02-03	2003-07-29|2011-02-03	
-S000028548	ORF	Uncharacterized	YGL041C-B			chromosome 7		7	418886	418704	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
-S000031198	CDS					YGL041C-B		7	418886	418704	C		2011-02-03	2003-07-29	
-S000003009	ORF	Dubious	YGL041C			chromosome 7		7	419225	419022	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000029877	CDS					YGL041C		7	419225	419022	C		2011-02-03	1996-07-31|2011-02-03	
-S000003008	ORF	Verified	YGL040C	HEM2	porphobilinogen synthase HEM2|OLE4|SLU1	chromosome 7	L000000761	7	420555	419527	C		2011-02-03	1996-07-31	Aminolevulinate dehydratase; a homo-octameric enzyme, catalyzes the conversion of 5-aminolevulinate to porphobilinogen, the second step in heme biosynthesis; enzymatic activity is zinc-dependent; localizes to the cytoplasm and nucleus; human homolog ALAD can complement yeast hem2 mutant
-S000036193	CDS					YGL040C		7	420555	419527	C		2011-02-03	1996-07-31	
-S000118458	ARS		ARS718		ARSVII-421	chromosome 7		7	421171	421279			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000119024	ARS_consensus_sequence					ARS718		7	421279	421265	C		2011-02-03	2006-10-03	
-S000006640	tRNA_gene		tL(CAA)G2	SUP54		chromosome 7	L000003825|L000002211	7	423092	423205	W	-24	2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; can mutate to suppress amber nonsense mutations
-S000034245	intron					tL(CAA)G2		7	423130	423161	W		2011-02-03	2000-05-19	
-S000034243	noncoding_exon					tL(CAA)G2		7	423092	423129	W		2011-02-03	2000-05-19	
-S000034244	noncoding_exon					tL(CAA)G2		7	423162	423205	W		2011-02-03	2000-05-19	
-S000003007	ORF	Verified	YGL039W		carbonyl reductase (NADPH-dependent)	chromosome 7		7	423961	425007	W		2011-02-03	1996-07-31	Aldehyde reductase; reduces aliphatic aldehyde substrates using NADH as cofactor; shown to reduce carbonyl compounds to chiral alcohols
-S000035325	CDS					YGL039W		7	423961	425007	W		2011-02-03	1996-07-31	
-S000003006	ORF	Verified	YGL038C	OCH1	LDB12|NGD29	chromosome 7	L000001295	7	426804	425362	C	-31.86	2011-02-03	1996-07-31	Mannosyltransferase of the cis-Golgi apparatus; initiates the polymannose outer chain elongation of N-linked oligosaccharides of glycoproteins
-S000035173	CDS					YGL038C		7	426804	425362	C		2011-02-03	1996-07-31	
-S000003005	ORF	Verified	YGL037C	PNC1	nicotinamidase	chromosome 7		7	427947	427297	C		2011-02-03	1996-07-31	Nicotinamidase that converts nicotinamide to nicotinic acid; part of the NAD(+) salvage pathway; required for life span extension by calorie restriction; lacks a peroxisomal targeting signal but is imported into peroxisomes via binding to Gpd1p; PNC1 expression responds to all known stimuli that extend replicative life span; protein increases in abundance and relative distribution to cytoplasmic foci decreases upon DNA replication stress
-S000034206	CDS					YGL037C		7	427947	427297	C		2011-02-03	1996-07-31	
-S000003004	ORF	Uncharacterized	YGL036W			chromosome 7	L000003392	7	428601	431330	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YGL036W is not an essential gene
-S000034168	CDS					YGL036W		7	428601	431330	W		2011-02-03	1996-07-31	
-S000003003	ORF	Verified	YGL035C	MIG1	transcription factor MIG1|TDS22|SSN1|CAT4	chromosome 7	L000001110	7	433062	431548	C	-27	2011-02-03	1996-07-31	Transcription factor involved in glucose repression; sequence specific DNA binding protein containing two Cys2His2 zinc finger motifs; regulated by the SNF1 kinase and the GLC7 phosphatase; regulates filamentous growth along with Mig2p in response to glucose depletion; activated in stochastic pulses of nuclear localization, shuttling between cytosol and nucleus depending on external glucose levels and its phosphorylation state
-S000034005	CDS					YGL035C		7	433062	431548	C		2011-02-03	1996-07-31	
-S000003002	ORF	Uncharacterized	YGL034C			chromosome 7		7	433579	433214	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YGL034C is not an essential gene
-S000033200	CDS					YGL034C		7	433579	433214	C		2011-02-03	1996-07-31	
-S000003001	ORF	Verified	YGL033W	HOP2		chromosome 7	L000004230	7	435625	436401	W		2014-11-18	2000-12-01|2014-11-18|1996-07-31	Meiosis-specific protein that localizes to chromosomes; prevents synapsis between nonhomologous chromosomes and ensures synapsis between homologs; complexes with Mnd1p to promote homolog pairing and meiotic double-strand break repair; heterodimer of Hop2p-Mnd1p stimulates the Dmc1p-mediated strand invasion
-S000033177	CDS					YGL033W		7	435625	435679	W		2011-02-03	2000-12-01|1996-07-31	
-S000033178	CDS					YGL033W		7	435750	436312	W		2014-11-18	2000-12-01|2014-11-18|1996-07-31	
-S000178097	CDS					YGL033W		7	436375	436401	W		2014-11-18	2014-11-18	
-S000033179	intron					YGL033W		7	435680	435749	W		2011-02-03	2000-12-01|1996-07-31	
-S000178096	intron					YGL033W		7	436313	436374	W		2014-11-18	2014-11-18	
-S000003000	ORF	Verified	YGL032C	AGA2		chromosome 7	L000000062	7	436833	436570	C	-23.06	2011-02-03	1996-07-31	Adhesion subunit of a-agglutinin of a-cells; C-terminal sequence acts as a ligand for alpha-agglutinin (Sag1p) during agglutination, modified with O-linked oligomannosyl chains, linked to anchorage subunit Aga1p via two disulfide bonds
-S000033030	CDS					YGL032C		7	436833	436570	C		2011-02-03	1996-07-31	
-S000002999	ORF	Verified	YGL031C	RPL24A	eL24|ribosomal 60S subunit protein L24A|L24e|rp29|YL21|L30A|L24A|RPL30A	chromosome 7	L000001724	7	437934	437467	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L24A; not essential for translation but may be required for normal translation rate; homologous to mammalian ribosomal protein L24, no bacterial homolog; RPL24A has a paralog, RPL24B, that arose from the whole genome duplication
-S000032115	CDS					YGL031C		7	437934	437467	C		2011-02-03	1996-07-31	
-S000122099	five_prime_UTR_intron					YGL031C		7	438397	437942	C		2011-02-03	2007-04-04	
-S000002998	ORF	Verified	YGL030W	RPL30	eL30|ribosomal 60S subunit protein L30|L30e|rp73|YL38|L32|L30	chromosome 7	L000001726	7	439091	439638	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L30; involved in pre-rRNA processing in the nucleolus; autoregulates splicing of its transcript; homologous to mammalian ribosomal protein L30, no bacterial homolog
-S000032082	CDS					YGL030W		7	439091	439093	W		2011-02-03	1996-07-31	
-S000032083	CDS					YGL030W		7	439324	439638	W		2011-02-03	1996-07-31	
-S000032084	intron					YGL030W		7	439094	439323	W		2011-02-03	1996-07-31	
-S000002997	ORF	Verified	YGL029W	CGR1		chromosome 7	S000007411	7	440063	440425	W		2011-02-03	1996-07-31	Protein involved in nucleolar integrity and processing of pre-rRNA; has a role in processing rRNA for the 60S ribosome subunit; transcript is induced in response to cytotoxic stress but not genotoxic stress; relocalizes from nucleus to nucleolus upon DNA replication stress
-S000030962	CDS					YGL029W		7	440063	440425	W		2011-02-03	1996-07-31	
-S000006565	tRNA_gene		tF(GAA)G			chromosome 7	L000003848	7	440807	440716	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000035389	intron					tF(GAA)G		7	440770	440752	C		2011-02-03	2000-05-19	
-S000035388	noncoding_exon					tF(GAA)G		7	440751	440716	C		2011-02-03	2000-05-19	
-S000035387	noncoding_exon					tF(GAA)G		7	440807	440771	C		2011-02-03	2000-05-19	
-S000002996	ORF	Verified	YGL028C	SCW11	putative glucan endo-1,3-beta-D-glucosidase	chromosome 7		7	442909	441281	C		2011-02-03	1996-07-31	Cell wall protein with similarity to glucanases; may play a role in conjugation during mating based on its regulation by Ste12p
-S000030849	CDS					YGL028C		7	442909	441281	C		2011-02-03	1996-07-31	
-S000002995	ORF	Verified	YGL027C	CWH41	DER7|GLS1	chromosome 7	L000003121|L000000715	7	446143	443642	C		2011-02-03	1996-07-31	Processing alpha glucosidase I; ER type II integral membrane N-glycoprotein involved in assembly of cell wall beta 1,6 glucan and asparagine-linked protein glycosylation; also involved in ER protein quality control and sensing of ER stress
-S000029845	CDS					YGL027C		7	446143	443642	C		2011-02-03	1996-07-31	
-S000002994	ORF	Verified	YGL026C	TRP5	tryptophan synthase TRP5	chromosome 7	L000002356	7	448535	446412	C	-22	2011-02-03	1996-07-31	Tryptophan synthase; catalyzes the last step of tryptophan biosynthesis; regulated by the general control system of amino acid biosynthesis
-S000037836	CDS					YGL026C		7	448535	446412	C		2011-02-03	1996-07-31	
-S000002992	ORF	Dubious	YGL024W		SST3	chromosome 7		7	449788	450123	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially/completely overlaps the verified ORF PGD1/YGL025C
-S000037721	CDS					YGL024W		7	449788	450123	W		2011-02-03	1996-07-31	
-S000002993	ORF	Verified	YGL025C	PGD1	MED3|HRS1	chromosome 7	L000000811|L000001408	7	449957	448764	C		2011-02-03	2003-09-22|1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for basal and activated transcription; direct target of Cyc8p-Tup1p transcriptional corepressor
-S000037746	CDS					YGL025C		7	449957	448764	C		2011-02-03	2003-09-22|1996-07-31	
-S000002991	ORF	Verified	YGL023C	PIB2		chromosome 7	S000007475	7	452104	450197	C		2011-02-03	1996-07-31	Protein of unknown function; contains FYVE domain; similar to Fab1 and Vps27
-S000036924	CDS					YGL023C		7	452104	450197	C		2011-02-03	1996-07-31	
-S000002990	ORF	Verified	YGL022W	STT3	dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3	chromosome 7	L000002716	7	452404	454560	W		2011-02-03	1996-07-31	Subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins; forms a subcomplex with Ost3p and Ost4p and is directly involved in catalysis
-S000036896	CDS					YGL022W		7	452404	454560	W		2011-02-03	1996-07-31	
-S000002989	ORF	Verified	YGL021W	ALK1	protein kinase ALK1	chromosome 7	L000002852	7	454785	457067	W		2011-02-03	1996-07-31	Protein kinase; along with its paralog, ALK2, required for proper spindle positioning and nuclear segregation following mitotic arrest, proper organization of cell polarity factors in mitosis, proper localization of formins and polarity factors, and survival in cells that activate spindle assembly checkpoint; phosphorylated in response to DNA damage; ALK1 has a paralog, ALK2, that arose from the whole genome duplication; similar to mammalian haspins
-S000036836	CDS					YGL021W		7	454785	457067	W		2011-02-03	1996-07-31	
-S000002988	ORF	Verified	YGL020C	GET1	GET complex subunit GET1|MDM39	chromosome 7		7	457870	457163	C		2011-02-03	1996-07-31	Subunit of the GET complex; involved in insertion of proteins into the ER membrane; required for the retrieval of HDEL proteins from the Golgi to the ER in an ERD2 dependent fashion and for normal mitochondrial morphology and inheritance
-S000035892	CDS					YGL020C		7	457870	457163	C		2011-02-03	1996-07-31	
-S000002987	ORF	Verified	YGL019W	CKB1	casein kinase 2 regulatory subunit CKB1	chromosome 7	L000002856	7	458156	458992	W		2011-02-03	1996-07-31	Beta regulatory subunit of casein kinase 2 (CK2); a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerases
-S000034946	CDS					YGL019W		7	458156	458992	W		2011-02-03	1996-07-31	
-S000002986	ORF	Verified	YGL018C	JAC1	J-type chaperone JAC1	chromosome 7	L000003591	7	459664	459110	C		2011-02-03	1996-07-31	Specialized J-protein that functions in Fe-S cluster biogenesis; functions with Hsp70 in Fe-S cluster biogenesis in mitochondria; involved in iron metabolism; contains a J domain typical to J-type chaperones; localizes to the mitochondrial matrix
-S000034703	CDS					YGL018C		7	459664	459110	C		2011-02-03	1996-07-31	
-S000002985	ORF	Verified	YGL017W	ATE1	arginyltransferase	chromosome 7	L000000137	7	459854	461365	W	-12	2011-02-03	1996-07-31	Arginyl-tRNA-protein transferase; catalyzes post-translational conjugation of arginine to the amino termini of acceptor proteins which are then subject to degradation via the N-end rule pathway
-S000034655	CDS					YGL017W		7	459854	461365	W		2011-02-03	1996-07-31	
-S000002984	ORF	Verified	YGL016W	KAP122	PDR6	chromosome 7	L000001366	7	461666	464911	W	-10	2011-02-03	1996-07-31	Karyopherin beta; responsible for import of the Toa1p-Toa2p complex into the nucleus; binds to nucleoporins Nup1p and Nup2p; may play a role in regulation of pleiotropic drug resistance
-S000033773	CDS					YGL016W		7	461666	464911	W		2011-02-03	1996-07-31	
-S000002983	ORF	Uncharacterized	YGL015C			chromosome 7		7	465435	465043	C		2011-02-03	1996-07-31	Putative protein of unknown function; null mutants accumulate cargo in the Golgi
-S000033596	CDS					YGL015C		7	465435	465043	C		2011-02-03	1996-07-31	
-S000002982	ORF	Verified	YGL014W	PUF4	YGL023	chromosome 7		7	466141	468807	W		2011-02-03	1996-07-31	Member of the PUF protein family; PUF family is defined by the presence of Pumilio homology domains that confer RNA binding activity; preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors
-S000033567	CDS					YGL014W		7	466141	468807	W		2011-02-03	1996-07-31	
-S000028825	ORF	Dubious	YGL014C-A			chromosome 7		7	466398	466237	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by expression profiling and mass spectrometry
-S000033647	CDS					YGL014C-A		7	466398	466237	C		2011-02-03	2003-07-29	
-S000002981	ORF	Verified	YGL013C	PDR1	drug-responsive transcription factor PDR1|TPE3|TPE1|TIL1|SMR2|NRA2|CYH3|BOR2|ANT1|AMY1	chromosome 7	L000002984|L000003503|L000001361	7	472298	469092	C	-8	2011-02-03	1996-07-31	Transcription factor that regulates the pleiotropic drug response; zinc cluster protein that is a master regulator involved in recruiting other zinc cluster proteins to pleiotropic drug response elements (PDREs) to fine tune the regulation of multidrug resistance genes; relocalizes to the cytosol in response to hypoxia; PDR1 has a paralog, PDR3, that arose from the whole genome duplication
-S000032756	CDS					YGL013C		7	472298	469092	C		2011-02-03	1996-07-31	
-S000002980	ORF	Verified	YGL012W	ERG4	delta(24(24(1)))-sterol reductase	chromosome 7	L000000571	7	472855	474276	W		2011-02-03	1996-07-31	C-24(28) sterol reductase; catalyzes the final step in ergosterol biosynthesis; mutants are viable, but lack ergosterol
-S000032737	CDS					YGL012W		7	472855	474276	W		2011-02-03	1996-07-31	
-S000002979	ORF	Verified	YGL011C	SCL1	proteasome core particle subunit alpha 1|PRC2	chromosome 7	L000001812	7	475247	474489	C	-8	2011-02-03	1996-07-31	Alpha 1 subunit of the 20S proteasome; involved in the degradation of ubiquitinated substrates; 20S proteasome is the core complex of the 26S proteasome; essential for growth; detected in the mitochondria
-S000032541	CDS					YGL011C		7	475247	474489	C		2011-02-03	1996-07-31	
-S000002978	ORF	Verified	YGL010W	MPO1		chromosome 7		7	475545	476069	W		2011-02-03	1996-07-31	Protein involved in metabolism of phytosphingosine; not an essential gene
-S000031636	CDS					YGL010W		7	475545	476069	W		2011-02-03	1996-07-31	
-S000002977	ORF	Verified	YGL009C	LEU1	3-isopropylmalate dehydratase LEU1	chromosome 7	L000000942	7	478652	476313	C	-5	2011-02-03	1996-07-31	Isopropylmalate isomerase; catalyzes the second step in the leucine biosynthesis pathway
-S000031584	CDS					YGL009C		7	478652	476313	C		2011-02-03	1996-07-31	
-S000002976	ORF	Verified	YGL008C	PMA1	H(+)-exporting P2-type ATPase PMA1|KTI10	chromosome 7	L000001449	7	482666	479910	C	-2	2011-02-03	1996-07-31	Plasma membrane P2-type H+-ATPase; pumps protons out of cell; major regulator of cytoplasmic pH and plasma membrane potential; long-lived protein asymmetrically distributed at plasma membrane between mother cells and buds; accumulates at high levels in mother cells during aging, buds emerge with very low levels of Pma1p, newborn cells have low levels of Pma1p; Hsp30p plays a role in Pma1p regulation; interactions with Std1p appear to propagate [GAR+]
-S000030720	CDS					YGL008C		7	482666	479910	C		2011-02-03	1996-07-31	
-S000028632	ORF	Uncharacterized	YGL007C-A			chromosome 7		7	483027	482941	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; deletion exhibits slow-growth phenotype; computationally predicted to have a role in cell budding
-S000032388	CDS					YGL007C-A		7	483027	482941	C		2011-02-03	2003-07-29	
-S000002975	ORF	Uncharacterized	YGL007W	BRP1		chromosome 7		7	483260	483637	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; located in the upstream region of PMA1; deletion leads to polyamine resistance due to downregulation of PMA1
-S000030678	CDS					YGL007W		7	483260	483637	W		2011-02-03	1996-07-31	
-S000118459	ARS		ARS719		ARSVII-485	chromosome 7		7	484930	485157			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000119025	ARS_consensus_sequence					ARS719		7	485110	485096	C		2011-02-03	2006-10-03	
-S000028769	ORF	Uncharacterized	YGL006W-A			chromosome 7		7	485423	485533	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by SAGE
-S000033473	CDS					YGL006W-A		7	485423	485533	W		2011-02-03	2003-07-29	
-S000002974	ORF	Verified	YGL006W	PMC1	calcium-transporting ATPase PMC1	chromosome 7	L000001451	7	485921	489442	W		2011-02-03	1996-07-31	Vacuolar Ca2+ ATPase involved in depleting cytosol of Ca2+ ions; prevents growth inhibition by activation of calcineurin in the presence of elevated concentrations of calcium; similar to mammalian PMCA1a
-S000030624	CDS					YGL006W		7	485921	489442	W		2011-02-03	1996-07-31	
-S000002973	ORF	Verified	YGL005C	COG7	Golgi transport complex subunit COG7|COD5	chromosome 7		7	490547	489708	C		2011-02-03	1996-07-31	Component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
-S000030391	CDS					YGL005C		7	490547	489708	C		2011-02-03	1996-07-31	
-S000002972	ORF	Verified	YGL004C	RPN14		chromosome 7		7	491956	490703	C		2011-02-03	1996-07-31	Evolutionarily conserved 19S regulatory particle assembly-chaperone; proteasome-interacting protein involved in the assembly of the base subcomplex of the 19S proteasome regulatory particle (RP); null mutants accumulate ubiquitinated Gcn4p and display decreased 26S proteasome stability; interacts with Rpt5p
-S000037620	CDS					YGL004C		7	491956	490703	C		2011-02-03	1996-07-31	
-S000002971	ORF	Verified	YGL003C	CDH1	HCT1	chromosome 7	L000004229	7	494174	492474	C		2011-02-03	1996-07-31	Activator of anaphase-promoting complex/cyclosome (APC/C); antagonist of the spindle assembly checkpoint; directs ubiquitination of cyclins resulting in mitotic exit; targets the APC/C to specific substrates including: Cdc20p, Ase1p, Cin8p, Fin1p and Clb5p; partially active in metaphase, and fully active in anaphase; cell-cycle regulated
-S000037480	CDS					YGL003C		7	494174	492474	C		2011-02-03	1996-07-31	
-S000002970	ORF	Verified	YGL002W	ERP6		chromosome 7	L000004683	7	494517	495167	W		2011-02-03	1996-07-31	Member of the p24 family involved in ER to Golgi transport; similar to Emp24p and Erv25p; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; ERP6 has a paralog, ERP1, that arose from the whole genome duplication
-S000037443	CDS					YGL002W		7	494517	495167	W		2011-02-03	1996-07-31	
-S000002969	ORF	Verified	YGL001C	ERG26	sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating)	chromosome 7		7	496502	495453	C		2011-02-03	1996-07-31	C-3 sterol dehydrogenase; catalyzes the second of three steps required to remove two C-4 methyl groups from an intermediate in ergosterol biosynthesis; human homolog NSDHL implicated in CK syndrome, and can complement yeast null mutant; molecular target of natural product and antifungal compound FR171456
-S000036649	CDS					YGL001C		7	496502	495453	C		2011-02-03	1996-07-31	
-S000006468	centromere		CEN7	CEN7		chromosome 7	L000000300	7	497038	496920	C	0	2011-02-03	2000-05-19|2004-10-08|2006-05-09	Chromosome VII centromere
-S000077293	centromere_DNA_Element_I					CEN7		7	497038	497029	C		2011-02-03	2004-10-08	
-S000077294	centromere_DNA_Element_II					CEN7		7	497028	496945	C		2011-02-03	2004-10-08	
-S000077295	centromere_DNA_Element_III					CEN7		7	496944	496920	C		2011-02-03	2004-10-08	
-S000003233	ORF	Verified	YGR001C	EFM5	protein-lysine N-methyltransferase|AML1	chromosome 7		7	498034	497133	C		2011-02-03	2000-07-14|1996-07-31	S-adenosylmethionine-dependent lysine methyltransferase; involved in the trimethylation of eEF1A (Tef1p/Tef2p) at lysine 79; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; required for replication of Brome mosaic virus in budding yeast; expresses a circular RNA; originally misclassified as a N-6-adenine specific DNA methyltransferase based on sequence similarity; both Efm5p and human ortholog N6AMT2 can methylate eEF1a from either species in vitro
-S000032873	CDS					YGR001C		7	497365	497133	C		2011-02-03	1996-07-31	
-S000032872	CDS					YGR001C		7	497937	497459	C		2011-02-03	2000-07-14|1996-07-31	
-S000032871	CDS					YGR001C		7	498034	498000	C		2011-02-03	2000-07-14	
-S000032875	intron					YGR001C		7	497458	497366	C		2011-02-03	1996-07-31	
-S000032874	intron					YGR001C		7	497999	497938	C		2011-02-03	2000-07-14	
-S000003234	ORF	Verified	YGR002C	SWC4	GOD1|EAF2	chromosome 7		7	499906	498476	C		2011-02-03	1996-07-31	Component of the Swr1p complex that incorporates Htz1p into chromatin; component of the NuA4 histone acetyltransferase complex
-S000032986	CDS					YGR002C		7	499906	498476	C		2011-02-03	1996-07-31	
-S000003235	ORF	Verified	YGR003W	CUL3	cullin CUL3|CULLIN B|CULB	chromosome 7		7	500132	502366	W		2011-02-03	1996-07-31	Ubiquitin-protein ligase; forms a complex with Elc1p that polyubiquitylates monoubiquitylated RNA polymerase II to trigger its proteolysis; cullin family member with similarity to Cdc53p and human CUL3
-S000033740	CDS					YGR003W		7	500132	502366	W		2011-02-03	1996-07-31	
-S000003236	ORF	Verified	YGR004W	PEX31	peroxisome biogenesis protein	chromosome 7		7	502938	504326	W		2011-02-03	1996-07-31	Peroxisomal integral membrane protein; involved in negative regulation of peroxisome size; partially functionally redundant with Pex30p and Pex32p; probably acts at a step downstream of steps mediated by Pex28p and Pex29p; PEX31 has a paralog, PEX30, that arose from the whole genome duplication
-S000033874	CDS					YGR004W		7	502938	504326	W		2011-02-03	1996-07-31	
-S000003237	ORF	Verified	YGR005C	TFG2	transcription factor IIF subunit TFG2	chromosome 7	L000002633	7	505859	504657	C		2011-02-03	1996-07-31	TFIIF (Transcription Factor II) middle subunit; involved in both transcription initiation and elongation of RNA polymerase II; homologous to human RAP30
-S000033942	CDS					YGR005C		7	505859	504657	C		2011-02-03	1996-07-31	
-S000003238	ORF	Verified	YGR006W	PRP18	mRNA splicing protein PRP18	chromosome 7	L000001505	7	506070	506825	W		2011-02-03	2004-01-22|1996-07-31	Splicing factor and component of snRNP U5; factor involved in the positioning of the 3' splice site during the second catalytic step of splicing; interacts with Slu7p
-S000034938	CDS					YGR006W		7	506070	506825	W		2011-02-03	2004-01-22|1996-07-31	
-S000003239	ORF	Verified	YGR007W	ECT1	ethanolamine-phosphate cytidylyltransferase|MUQ1	chromosome 7	L000001218	7	506969	507940	W		2011-02-03	1996-07-31	Ethanolamine-phosphate cytidylyltransferase; catalyzes the second step of phosphatidylethanolamine biosynthesis; involved in the maintenance of plasma membrane; similar to mammalian CTP: phosphocholine cytidylyl-transferases; inability of the null mutant to synthesize phosphatidylethanolamine and phosphatidylcholine from ethanolamine is functionally complemented by human PCYT2
-S000035086	CDS					YGR007W		7	506969	507940	W		2011-02-03	1996-07-31	
-S000003240	ORF	Verified	YGR008C	STF2	ATPase-stabilizing factor family protein	chromosome 7	L000002127	7	508364	508110	C		2011-02-03	1996-07-31	Protein involved in resistance to desiccation stress; Stf2p exhibits antioxidant properties, and its overexpression prevents ROS accumulation and apoptosis; binds to F0 sector of mitochondrial F1F0 ATPase in vitro and may modulate the inhibitory action of Inh1p and Stf1p; protein abundance increases in response to DNA replication stress; STF2 has a paralog, TMA10, that arose from the whole genome duplication
-S000035152	CDS					YGR008C		7	508364	508110	C		2011-02-03	1996-07-31	
-S000118460	ARS		ARS720		ARSVII-509	chromosome 7		7	508729	508977			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178101	ARS_consensus_sequence					ARS720		7	508909	508893	C		2014-11-18	2014-11-18	
-S000003241	ORF	Verified	YGR009C	SEC9	HSS7	chromosome 7	L000001835	7	511002	509047	C		2011-02-03	1996-07-31	t-SNARE protein required for secretory vesicle-plasma membrane fusion; similar to but not functionally redundant with Spo20p; interacts non-exocyst bound Sec6p; SNAP-25 homolog
-S000035315	CDS					YGR009C		7	511002	509047	C		2011-02-03	1996-07-31	
-S000003242	ORF	Verified	YGR010W	NMA2	nicotinamide-nucleotide adenylyltransferase NMA2	chromosome 7		7	511545	512732	W		2011-02-03	1996-07-31	Nicotinic acid mononucleotide adenylyltransferase; catalyzes the transfer of the adenylyl moiety of ATP to nicotinamide mononucleotide to form NAD; involved in de novo and salvage synthesis of NAD(+); homolog of human NMNAT; NMA2 has a paralog, NMA1, that arose from the whole genome duplication
-S000037117	CDS					YGR010W		7	511545	512732	W		2011-02-03	1996-07-31	
-S000003243	ORF	Dubious	YGR011W			chromosome 7		7	512497	512823	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037223	CDS					YGR011W		7	512497	512823	W		2011-02-03	1996-07-31	
-S000003244	ORF	Verified	YGR012W	MCY1	putative cysteine synthase	chromosome 7		7	513159	514340	W		2011-02-03	1996-07-31	Putative cysteine synthase; localized to the mitochondrial outer membrane
-S000029879	CDS					YGR012W		7	513159	514340	W		2011-02-03	1996-07-31	
-S000003245	ORF	Verified	YGR013W	SNU71		chromosome 7	L000004363	7	514554	516416	W		2011-02-03	1996-07-31	Component of U1 snRNP required for mRNA splicing via spliceosome; yeast specific, no metazoan counterpart
-S000029977	CDS					YGR013W		7	514554	516416	W		2011-02-03	1996-07-31	
-S000003246	ORF	Verified	YGR014W	MSB2		chromosome 7	L000001185	7	516943	520863	W	2	2011-02-03	1996-07-31	Mucin family member involved in various signaling pathways; functions as osmosensor in the Sho1p-mediated HOG pathway; functions in Cdc42p- and MAP kinase-dependent filamentous growth signaling pathway; processed into secreted and cell-associated forms by aspartyl protease Yps1p; potential Cdc28p substrate
-S000030086	CDS					YGR014W		7	516943	520863	W		2011-02-03	1996-07-31	
-S000003247	ORF	Uncharacterized	YGR015C		putative hydrolase	chromosome 7		7	522076	521090	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion
-S000030196	CDS					YGR015C		7	522076	521090	C		2011-02-03	1996-07-31	
-S000003248	ORF	Uncharacterized	YGR016W			chromosome 7		7	522261	522833	W		2011-02-03	1996-07-31	Putative protein of unknown function
-S000031230	CDS					YGR016W		7	522261	522833	W		2011-02-03	1996-07-31	
-S000003249	ORF	Uncharacterized	YGR017W			chromosome 7		7	523787	524680	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the nucleus and the cytoplasm
-S000031323	CDS					YGR017W		7	523787	524680	W		2011-02-03	1996-07-31	
-S000003250	ORF	Uncharacterized	YGR018C			chromosome 7		7	524694	524365	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA identified as translated by ribosome profiling data; partially overlaps the uncharacterized ORF YGR017W
-S000031392	CDS					YGR018C		7	524694	524365	C		2011-02-03	1996-07-31	
-S000003251	ORF	Verified	YGR019W	UGA1	4-aminobutyrate transaminase	chromosome 7	L000002422	7	525229	526644	W		2011-02-03	1996-07-31	Gamma-aminobutyrate (GABA) transaminase; also known as 4-aminobutyrate aminotransferase; involved in the 4-aminobutyrate and glutamate degradation pathways; required for normal oxidative stress tolerance and nitrogen utilization; protein abundance increases in response to DNA replication stress
-S000032468	CDS					YGR019W		7	525229	526644	W		2011-02-03	1996-07-31	
-S000003252	ORF	Verified	YGR020C	VMA7	H(+)-transporting V1 sector ATPase subunit F	chromosome 7	L000002462	7	527329	526973	C		2011-02-03	1996-07-31	Subunit F of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; required for the V1 domain to assemble onto the vacuolar membrane; the V1 peripheral membrane domain of vacuolar H+-ATPase (V-ATPase) has eight subunits
-S000032415	CDS					YGR020C		7	527329	526973	C		2011-02-03	1996-07-31	
-S000003253	ORF	Uncharacterized	YGR021W		HAH1	chromosome 7		7	527632	528504	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000033286	CDS					YGR021W		7	527632	528504	W		2011-02-03	1996-07-31	
-S000003255	ORF	Verified	YGR023W	MTL1		chromosome 7	L000004649	7	529264	530919	W		2011-02-03	1996-07-31	Putative plasma membrane sensor; involved in cell integrity signaling and stress response during glucose starvation and oxidative stress; has structural and functional similarity to Mid2p; MTL1 has a paralog, MID2, that arose from the whole genome duplication
-S000034269	CDS					YGR023W		7	529264	530919	W		2011-02-03	1996-07-31	
-S000003254	ORF	Dubious	YGR022C			chromosome 7		7	529586	529257	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF MTL1/YGR023W
-S000033318	CDS					YGR022C		7	529586	529257	C		2011-02-03	1996-07-31	
-S000006532	tRNA_gene		tD(GUC)G1			chromosome 7	L000003826	7	531610	531681	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000036686	noncoding_exon					tD(GUC)G1		7	531610	531681	W		2011-02-03	2000-05-19	
-S000003256	ORF	Verified	YGR024C	THG1	tRNA guanylyltransferase	chromosome 7		7	532596	531883	C		2011-02-03	1996-07-31	tRNAHis guanylyltransferase; adds a guanosine residue to the 5' end of tRNAH is after transcription and RNase P cleavage; can also catalyze reverse (3'-5') polymerization with certain substrates in a template-dependent reaction; couples nuclear division and migration to cell budding and cytokinesis; essential enzyme conserved among eukaryotes
-S000034310	CDS					YGR024C		7	532596	531883	C		2011-02-03	1996-07-31	
-S000003257	ORF	Dubious	YGR025W			chromosome 7		7	532639	532941	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034440	CDS					YGR025W		7	532639	532941	W		2011-02-03	1996-07-31	
-S000003258	ORF	Uncharacterized	YGR026W			chromosome 7		7	532985	533821	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery
-S000034561	CDS					YGR026W		7	532985	533821	W		2011-02-03	1996-07-31	
-S000003259	ORF	Verified	YGR027C	RPS25A	eS25|ribosomal 40S subunit protein S25A|S25e|rp45|YS23|S31A|S25A|RPS31A	chromosome 7	L000003257	7	534458	534132	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S25, no bacterial homolog; RPS25A has a paralog, RPS25B, that arose from the whole genome duplication
-S000035521	CDS					YGR027C		7	534458	534132	C		2011-02-03	1996-07-31	
-S000122101	five_prime_UTR_intron					YGR027C		7	534785	534474	C		2011-02-03	2007-04-04	
-S000006965	long_terminal_repeat		YGRWdelta11			chromosome 7		7	535211	535542	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006952	long_terminal_repeat		YGRCdelta12			chromosome 7		7	535759	535607	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006966	long_terminal_repeat		YGRWdelta13			chromosome 7		7	535760	536097	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006982	LTR_retrotransposon		YGRWTy1-1		Ty1	chromosome 7		7	535760	541685	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007405	transposable_element_gene		YGR027W-A		gag protein	chromosome 7		7	536057	537379	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000036251	CDS					YGR027W-A		7	536057	537379	W		2011-02-03	1999-07-17	
-S000007406	transposable_element_gene		YGR027W-B		gag-pol fusion protein	chromosome 7	S000029013	7	536057	541325	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000036253	CDS					YGR027W-B		7	536057	537361	W		2011-02-03	1999-07-17	
-S000036254	CDS					YGR027W-B		7	537363	541325	W		2011-02-03	1999-07-17	
-S000036255	plus_1_translational_frameshift					YGR027W-B		7	537362	537362	W		2011-02-03	1999-07-17	
-S000006967	long_terminal_repeat		YGRWdelta14			chromosome 7		7	541348	541685	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006555	tRNA_gene		tE(UUC)G3			chromosome 7	L000003827	7	541850	541921	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
-S000034674	noncoding_exon					tE(UUC)G3		7	541850	541921	W		2011-02-03	2000-05-19	
-S000003260	ORF	Verified	YGR028W	MSP1	YTA4	chromosome 7	L000001200|L000002558	7	542203	543291	W		2011-02-03	1996-07-31	Highly-conserved N-terminally anchored AAA-ATPase; distributed in the mitochondrial outer membrane and peroxisomes; involved in mitochondrial protein sorting; functions as an extraction engine in local organelle surveillance to remove and initiate degradation of mistargeted proteins, ensuring fidelity of organelle-specific localization of tail-anchored proteins; contains an N-terminal transmembrane domain and C-terminal cytoplasmic ATPase domain
-S000035635	CDS					YGR028W		7	542203	543291	W		2011-02-03	1996-07-31	
-S000003261	ORF	Verified	YGR029W	ERV1	flavin-linked sulfhydryl oxidase	chromosome 7	L000000583	7	543553	544205	W		2011-02-03	2000-07-14|1996-07-31	Flavin-linked sulfhydryl oxidase of the mitochondrial IMS; N-terminus is an intrinsically disordered domain that in the cytosol helps target Erv1p to mitochondria, and in the intermembrane space oxidizes Mia40p as part of a disulfide relay system that promotes intermembrane space retention of imported proteins; functional ortholog of human GFER (ALR); human GFER carrying N-terminal 21 amino acids of Erv1p functionally complements the lethality of the erv1 null mutation
-S000035763	CDS					YGR029W		7	543553	543638	W		2011-02-03	2000-07-14	
-S000035764	CDS					YGR029W		7	543722	544205	W		2011-02-03	2000-07-14|1996-07-31	
-S000035765	intron					YGR029W		7	543639	543721	W		2011-02-03	2000-07-14	
-S000006533	tRNA_gene		tD(GUC)G2			chromosome 7	L000003847	7	544648	544577	C		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000036692	noncoding_exon					tD(GUC)G2		7	544648	544577	C		2011-02-03	2000-05-19	
-S000006506	snoRNA_gene		snR46	SNR46		chromosome 7	L000003413	7	545370	545566	W		2011-02-03	2000-05-19|2007-05-08	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2865
-S000030619	noncoding_exon					snR46		7	545370	545566	W		2011-02-03	2000-05-19|2007-05-08	
-S000003262	ORF	Verified	YGR030C	POP6	ribonuclease P/MRP protein subunit POP6	chromosome 7	L000004302	7	546157	545681	C		2011-02-03	1996-07-31	Subunit of RNase MRP, nuclear RNase P and telomerase; forms a soluble heterodimer with Pop7p that binds P3 domain of RNase MRP and RNase P RNAs; RNase MRP cleaves pre-rRNA, nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs, while telomerase replenishes telomeric DNA; relocalizes to the cytosol in response to hypoxia
-S000035582	CDS					YGR030C		7	546157	545681	C		2011-02-03	1996-07-31	
-S000003263	ORF	Verified	YGR031W	IMO32		chromosome 7		7	546441	547469	W		2011-02-03	1996-07-31	Conserved mitochondrial protein of unknown function; processed by both mitochondrial processing peptidase and mitochondrial octapeptidyl aminopeptidase; gene contains the nested antisense gene NAG1
-S000036524	CDS					YGR031W		7	546441	547469	W		2011-02-03	1996-07-31	
-S000028636	ORF	Verified	YGR031C-A	NAG1		chromosome 7		7	547300	546809	C		2011-02-03	2003-07-29	Protein involved in yeast cell wall biogenesis; localizes to the cell periphery; production of Nag1p is dependent upon the presence of Slt2p and Rlm1p; gene is nested within and antisense to IMO32
-S000032392	CDS					YGR031C-A		7	547300	546809	C		2011-02-03	2003-07-29	
-S000003264	ORF	Verified	YGR032W	GSC2	1,3-beta-glucan synthase GSC2|FKS2	chromosome 7	L000000716|L000000733	7	548264	553951	W		2011-02-03	1996-07-31	Catalytic subunit of 1,3-beta-glucan synthase; involved in formation of the inner layer of the spore wall; activity positively regulated by Rho1p and negatively by Smk1p; GSC2 has a paralog, FKS1, that arose from the whole genome duplication
-S000036645	CDS					YGR032W		7	548264	553951	W		2011-02-03	1996-07-31	
-S000003265	ORF	Verified	YGR033C	TIM21	FMP17	chromosome 7		7	554967	554248	C		2011-02-03	1996-07-31	Nonessential component of the TIM23 complex; interacts with the Translocase of the Outer Mitochondrial membrane (TOM complex) and with respiratory enzymes; may regulate the Translocase of the Inner Mitochondrial membrane (TIM23 complex) activity
-S000036681	CDS					YGR033C		7	554967	554248	C		2011-02-03	1996-07-31	
-S000003266	ORF	Verified	YGR034W	RPL26B	uL24|ribosomal 60S subunit protein L26B|L24|YL33|L33B|L26B	chromosome 7	L000004462	7	555812	556672	W		2011-02-03	1996-07-31|2006-10-05	Ribosomal 60S subunit protein L26B; binds to 5.8S rRNA; non-essential even when paralog is also deleted; deletion has minimal affections on ribosome biosynthesis; homologous to mammalian ribosomal protein L26 and bacterial L24; RPL26B has a paralog, RPL26A, that arose from the whole genome duplication
-S000037472	CDS					YGR034W		7	555812	555830	W		2011-02-03	1996-07-31|2006-10-05	
-S000037473	CDS					YGR034W		7	556308	556672	W		2011-02-03	1996-07-31	
-S000037474	intron					YGR034W		7	555831	556307	W		2011-02-03	1996-07-31|2006-10-05	
-S000003267	ORF	Uncharacterized	YGR035C			chromosome 7		7	557422	557072	C		2011-02-03	1996-07-31	Putative protein of unknown function, potential Cdc28p substrate; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance; YGR035C has a paralog, YLR346C, that arose from the whole genome duplication
-S000037516	CDS					YGR035C		7	557422	557072	C		2011-02-03	1996-07-31	
-S000028827	ORF	Uncharacterized	YGR035W-A			chromosome 7		7	557565	557786	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000033652	CDS					YGR035W-A		7	557565	557786	W		2011-02-03	2003-07-29	
-S000003268	ORF	Verified	YGR036C	CAX4	CWH8	chromosome 7	L000002917	7	558868	558149	C		2011-02-03	1996-07-31	Dolichyl pyrophosphate (Dol-P-P) phosphatase; has a luminally oriented active site in the ER; cleaves the anhydride linkage in Dol-P-P; required for Dol-P-P-linked oligosaccharide intermediate synthesis and protein N-glycosylation
-S000037649	CDS					YGR036C		7	558868	558149	C		2011-02-03	1996-07-31	
-S000003269	ORF	Verified	YGR037C	ACB1	long-chain fatty acid transporter ACB1	chromosome 7	L000000016	7	559994	559731	C		2011-02-03	1996-07-31	Acyl-CoA-binding protein; transports newly synthesized acyl-CoA esters from fatty acid synthetase (Fas1p-Fas2p) to acyl-CoA-consuming processes; subject to starvation-induced, Grh1p-mediated unconventional secretion; protein abundance increases in response to DNA replication stress
-S000030442	CDS					YGR037C		7	559994	559731	C		2011-02-03	1996-07-31	
-S000003270	ORF	Verified	YGR038W	ORM1	sphingolipid homeostasis protein ORM1	chromosome 7	L000003422	7	560682	561350	W		2011-02-03	1996-07-31	Protein that mediates sphingolipid homeostasis; evolutionarily conserved, required for resistance to agents that induce unfolded protein response; Orm1p and Orm2p together control membrane biogenesis by coordinating lipid homeostasis with protein quality control; ORM1 has a paralog, ORM2, that arose from the whole genome duplication
-S000030632	CDS					YGR038W		7	560682	561350	W		2011-02-03	1996-07-31	
-S000006725	tRNA_gene		tS(AGA)G			chromosome 7	L000003846	7	561743	561662	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000032368	noncoding_exon					tS(AGA)G		7	561743	561662	C		2011-02-03	2000-05-19	
-S000006953	long_terminal_repeat		YGRCdelta15			chromosome 7		7	562176	561843	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007408	transposable_element_gene		YGR038C-B		gag-pol fusion protein	chromosome 7		7	567467	562199	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000031864	CDS					YGR038C-B		7	566161	562199	C		2011-02-03	1999-07-17	
-S000031863	CDS					YGR038C-B		7	567467	566163	C		2011-02-03	1999-07-17	
-S000031865	plus_1_translational_frameshift					YGR038C-B		7	566162	566162	C		2011-02-03	1999-07-17	
-S000007407	transposable_element_gene		YGR038C-A		gag protein	chromosome 7		7	567467	566145	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000031828	CDS					YGR038C-A		7	567467	566145	C		2011-02-03	1999-07-17	
-S000006962	LTR_retrotransposon		YGRCTy1-2		Ty1	chromosome 7		7	567760	561843	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000006954	long_terminal_repeat		YGRCdelta16			chromosome 7		7	567760	567427	C		2011-02-03	2000-05-19	Ty1 LTR
-S000118461	ARS		ARS721		ARSVII-569	chromosome 7		7	568490	568737			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000119026	ARS_consensus_sequence					ARS721		7	568660	568646	C		2011-02-03	2006-10-03	
-S000006955	long_terminal_repeat		YGRCdelta17			chromosome 7		7	569072	568740	C		2011-02-03	2000-05-19	Ty2 LTR
-S000118462	ARS		ARS722		ARSVII-575	chromosome 7		7	574622	574915			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178102	ARS_consensus_sequence					ARS722		7	574701	574717	W		2014-11-18	2014-11-18	
-S000006964	LTR_retrotransposon		YGRCTy2-1		Ty2	chromosome 7		7	574700	568740	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
-S000006956	long_terminal_repeat		YGRCdelta18			chromosome 7		7	574700	574369	C		2011-02-03	2000-05-19	Ty2 LTR
-S000003271	ORF	Uncharacterized	YGR039W			chromosome 7		7	574888	575199	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YGR039W is not an essential gene
-S000030717	CDS					YGR039W		7	574888	575199	W		2011-02-03	1996-07-31	
-S000003272	ORF	Verified	YGR040W	KSS1	mitogen-activated serine/threonine-protein kinase KSS1	chromosome 7	L000000922	7	575398	576504	W		2011-02-03	1996-07-31	Mitogen-activated protein kinase (MAPK); involved in signal transduction pathways that control filamentous growth and pheromone response; regulates septum assembly, and may directly phosphorylate Bni4p; the KSS1 gene is nonfunctional in S288C strains and functional in W303 strains
-S000031506	CDS					YGR040W		7	575398	576504	W		2011-02-03	1996-07-31	
-S000130166	ARS		ARS723			chromosome 7		7	575484	576346			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000003273	ORF	Verified	YGR041W	BUD9		chromosome 7	L000003939	7	577487	579130	W		2011-02-03	1996-07-31	Protein involved in bud-site selection; mutant has increased aneuploidy tolerance; diploid mutants display a unipolar budding pattern instead of the wild-type bipolar pattern, and bud at the distal pole; BUD9 has a paralog, BUD8, that arose from the whole genome duplication
-S000031558	CDS					YGR041W		7	577487	579130	W		2011-02-03	1996-07-31	
-S000003274	ORF	Verified	YGR042W	MTE1		chromosome 7		7	579476	580291	W		2011-02-03	1996-07-31	Protein of unknown function; involved in maintenance of proper telomere length; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus; forms nuclear foci upon DNA replication stress
-S000032536	CDS					YGR042W		7	579476	580291	W		2011-02-03	1996-07-31	
-S000003275	ORF	Verified	YGR043C	NQM1	sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate transaldolase NQM1	chromosome 7		7	581436	580435	C		2011-02-03	1996-07-31	Transaldolase of unknown function; transcription is repressed by Mot1p and induced by alpha-factor and during diauxic shift; NQM1 has a paralog, TAL1, that arose from the whole genome duplication
-S000032607	CDS					YGR043C		7	581436	580435	C		2011-02-03	1996-07-31	
-S000130167	ARS		ARS724			chromosome 7		7	581436	582213			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000003276	ORF	Verified	YGR044C	RME1	CSP1	chromosome 7	L000001648	7	583892	582990	C	14	2011-02-03	1996-07-31	Zinc finger protein involved in control of meiosis; prevents meiosis by repressing IME1 expression and promotes mitosis by activating CLN2 expression; directly repressed by a1-alpha2 regulator; mediates cell type control of sporulation; relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000032718	CDS					YGR044C		7	583892	582990	C		2011-02-03	1996-07-31	
-S000003277	ORF	Dubious	YGR045C			chromosome 7		7	584296	583934	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032825	CDS					YGR045C		7	584296	583934	C		2011-02-03	1996-07-31	
-S000003278	ORF	Verified	YGR046W	TAM41	putative phosphatidate cytidylyltransferase|MMP37	chromosome 7		7	584895	586052	W		2011-02-03	1996-07-31	Mitochondrial phosphatidate cytidylyltransferase (CDP-DAG synthase); required for cardiolipin biosynthesis; viability of null mutant is strain-dependent; mRNA is targeted to the bud; mutant displays defect in mitochondrial protein import, likely due to altered membrane lipid composition
-S000033590	CDS					YGR046W		7	584895	586052	W		2011-02-03	1996-07-31	
-S000003279	ORF	Verified	YGR047C	TFC4	transcription factor TFIIIC subunit TFC4|tau 131|PCF1	chromosome 7	L000001348|L000002288	7	589469	586392	C		2011-02-03	1996-07-31	Subunit of RNA polymerase III transcription initiation factor complex; one of six subunits of RNA polymerase III transcription initiation factor complex (TFIIIC); part of the TauA domain of TFIIIC that binds BoxA DNA promoter sites of tRNA and similar genes; has TPR motifs; human homolog is TFIIIC-102
-S000033631	CDS					YGR047C		7	589469	586392	C		2011-02-03	1996-07-31	
-S000003280	ORF	Verified	YGR048W	UFD1	polyubiquitin-binding protein UFD1	chromosome 7	L000002787	7	589826	590911	W		2011-02-03	1996-07-31	Substrate-recruiting cofactor of the Cdc48p-Npl4p-Ufd1p segregase; polyubiquitin binding protein that assists in the dislocation of misfolded, ERAD substrates that are subsequently delivered to the proteasome for degradation; involved in regulated destruction of ER membrane proteins such as HMG-CoA reductase (Hmg1/2p) and cytoplasmic proteins (Fbp1p); involved in mobilizing membrane bound transcription factors by regulated Ub/proteasome-dependent processing (RUP)
-S000033814	CDS					YGR048W		7	589826	590911	W		2011-02-03	1996-07-31	
-S000003281	ORF	Verified	YGR049W	SCM4		chromosome 7	L000001814	7	591314	591877	W		2011-02-03	1996-07-31	Mitochondrial outer membrane protein of unknown function; predicted to have 4 transmembrane segments; import is mediated by Tom70p and Mim1p; interacts genetically with a cdc4 mutation; SCM4 has a paralog, ATG33, that arose from the whole genome duplication
-S000034690	CDS					YGR049W		7	591314	591877	W		2011-02-03	1996-07-31	
-S000003282	ORF	Uncharacterized	YGR050C			chromosome 7		7	592442	592086	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA identified as translated by ribosome profiling data
-S000035714	CDS					YGR050C		7	592442	592086	C		2011-02-03	1996-07-31	
-S000003283	ORF	Dubious	YGR051C			chromosome 7		7	593229	592906	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YGR051C is not an essential gene
-S000035801	CDS					YGR051C		7	593229	592906	C		2011-02-03	1996-07-31	
-S000003284	ORF	Uncharacterized	YGR052W	FMP48	protein kinase FMP48	chromosome 7		7	593596	594705	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; induced by treatment with 8-methoxypsoralen and UVA irradiation
-S000036785	CDS					YGR052W		7	593596	594705	W		2011-02-03	1996-07-31	
-S000003285	ORF	Uncharacterized	YGR053C			chromosome 7		7	595837	594986	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000036816	CDS					YGR053C		7	595837	594986	C		2011-02-03	1996-07-31	
-S000003286	ORF	Verified	YGR054W			chromosome 7		7	596693	598621	W		2011-02-03	1996-07-31|2011-02-03	Eukaryotic initiation factor eIF2A; associates specifically with both 40S subunits and 80 S ribosomes, and interacts genetically with both eIF5b and eIF4E; homologous to mammalian eIF2A
-S000036916	CDS					YGR054W		7	596693	598621	W		2011-02-03	1996-07-31|2011-02-03	
-S000003287	ORF	Verified	YGR055W	MUP1		chromosome 7	L000003071	7	599417	601141	W		2011-02-03	1996-07-31	High affinity methionine permease; integral membrane protein with 13 putative membrane-spanning regions; also involved in cysteine uptake
-S000036973	CDS					YGR055W		7	599417	601141	W		2011-02-03	1996-07-31	
-S000003288	ORF	Verified	YGR056W	RSC1	RSC subunit protein RSC1	chromosome 7	L000004024	7	601661	604447	W		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; required for expression of mid-late sporulation-specific genes; contains two essential bromodomains, a bromo-adjacent homology (BAH) domain, and an AT hook; RSC1 has a paralog, RSC2, that arose from the whole genome duplication
-S000037741	CDS					YGR056W		7	601661	604447	W		2011-02-03	1996-07-31	
-S000003289	ORF	Verified	YGR057C	LST7		chromosome 7	L000004355	7	605501	604773	C		2011-02-03	2003-09-22|1996-07-31	Subunit of the Lst4p-Lst7p GTPase activating protein complex for Gtr2p; stimulates the GTPase activity of Rag family GTPase Gtr2p, within the context of the Gtr1p-Gtr2p heterodimer, after amino acid stimulation; required for activation of TORC1 in response to amino acid stimulation; recruited to the vacuolar membrane during amino acid starvation and released from the membrane by TORC1; required for the transport of amino acid permease Gap1p from the Golgi to the cell surface
-S000037768	CDS					YGR057C		7	605501	604773	C		2011-02-03	2003-09-22|1996-07-31	
-S000003290	ORF	Verified	YGR058W	PEF1		chromosome 7		7	606136	607143	W		2011-02-03	1996-07-31|2011-02-03	Penta-EF-hand protein; required for polar bud growth and cell wall abscission; binds calcium and zinc with different affinity; localizes to bud site in G1, bud neck in G2; binds to Sec31p and modulates COPII coat assembly
-S000029835	CDS					YGR058W		7	606136	607143	W		2011-02-03	1996-07-31|2011-02-03	
-S000003291	ORF	Verified	YGR059W	SPR3	septin SPR3	chromosome 7	L000002022	7	607563	609101	W		2011-02-03	1996-07-31	Sporulation-specific homolog of the CDC3/10/11/12 family of genes; septin protein involved in sporulation; regulated by ABFI; the yeast CDC3/10/11/12 family is a family of bud neck microfilament genes
-S000030838	CDS					YGR059W		7	607563	609101	W		2011-02-03	1996-07-31	
-S000006440	snoRNA_gene		snR48	SNR48		chromosome 7	L000004518	7	609584	609696	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at positions G2791 and G2793
-S000030651	noncoding_exon					snR48		7	609584	609696	W		2011-02-03	2000-05-19	
-S000003292	ORF	Verified	YGR060W	ERG25	methylsterol monooxygenase	chromosome 7	L000003089	7	610564	611493	W		2011-02-03	1996-07-31	C-4 methyl sterol oxidase; catalyzes the first of three steps required to remove two C-4 methyl groups from an intermediate in ergosterol biosynthesis; mutants accumulate the sterol intermediate 4,4-dimethylzymosterol; human MSMO1 functionally complements the growth defect caused by repression of ERG25 expression
-S000031788	CDS					YGR060W		7	610564	611493	W		2011-02-03	1996-07-31	
-S000003293	ORF	Verified	YGR061C	ADE6	phosphoribosylformylglycinamidine synthase	chromosome 7	L000000036	7	615965	611889	C	39	2011-02-03	1996-07-31	Formylglycinamidine-ribonucleotide (FGAM)-synthetase; catalyzes a step in the 'de novo' purine nucleotide biosynthetic pathway
-S000031938	CDS					YGR061C		7	615965	611889	C		2011-02-03	1996-07-31	
-S000003294	ORF	Verified	YGR062C	COX18	membrane insertase COX18|OXA2	chromosome 7	L000003308	7	617278	616328	C		2011-02-03	1996-07-31	Protein required for membrane insertion of C-terminus of Cox2p; mitochondrial integral inner membrane protein; interacts genetically and physically with Mss2p and Pnt1p; similar to S. cerevisiae Oxa1, N. crassa Oxa2p, and E. coli YidC; respiratory defect of the null mutant is functionally complemented by human COX18 carrying the N-terminal 54 amino acids of S. cerevisiae Cox18p
-S000032054	CDS					YGR062C		7	617278	616328	C		2011-02-03	1996-07-31	
-S000003296	ORF	Dubious	YGR064W			chromosome 7		7	617621	617989	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SPT4/YGR063C
-S000033116	CDS					YGR064W		7	617621	617989	W		2011-02-03	1996-07-31	
-S000003295	ORF	Verified	YGR063C	SPT4	transcription elongation factor SPT4	chromosome 7	L000002030	7	617824	617516	C	40	2011-02-03	1996-07-31	Spt4p/5p (DSIF) transcription elongation factor complex subunit; the Spt4/5 complex binds to ssRNA in a sequence-specific manner, and along with RNAP I and II has multiple roles regulating transcriptional elongation, RNA processing, quality control, and transcription-coupled repair; localizes to kinetochores and heterochromatin, influencing chromosomal dynamics and silencing; required for transcription through long trinucleotide repeats in ORFs and non-protein coding regions
-S000032968	CDS					YGR063C		7	617824	617516	C		2011-02-03	1996-07-31	
-S000003297	ORF	Verified	YGR065C	VHT1		chromosome 7	S000007487	7	619858	618077	C		2011-02-03	1996-07-31	High-affinity plasma membrane H+-biotin (vitamin H) symporter; mutation results in fatty acid auxotrophy; 12 transmembrane domain containing major facilitator subfamily member; mRNA levels negatively regulated by iron deprivation and biotin
-S000033152	CDS					YGR065C		7	619858	618077	C		2011-02-03	1996-07-31	
-S000003298	ORF	Uncharacterized	YGR066C			chromosome 7		7	621799	620921	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000033915	CDS					YGR066C		7	621799	620921	C		2011-02-03	1996-07-31	
-S000003299	ORF	Uncharacterized	YGR067C			chromosome 7		7	624786	622372	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; contains a zinc finger motif similar to that of Adr1p
-S000034061	CDS					YGR067C		7	624786	622372	C		2011-02-03	1996-07-31|2011-02-03	
-S000028637	ORF	Dubious	YGR068W-A			chromosome 7		7	626294	626389	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with the uncharacterized ORF YGR068C
-S000032393	CDS					YGR068W-A		7	626294	626389	W		2011-02-03	2003-07-29	
-S000003301	ORF	Dubious	YGR069W			chromosome 7		7	627083	627418	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035169	CDS					YGR069W		7	627083	627418	W		2011-02-03	1996-07-31	
-S000003300	ORF	Verified	YGR068C	ART5		chromosome 7		7	627084	625324	C		2011-02-03	1996-07-31	Protein proposed to regulate endocytosis of plasma membrane proteins; regulates by recruiting the ubiquitin ligase Rsp5p to its target in the plasma membrane; SWAT-GFP and mCherry fusion proteins localize to the cytosol
-S000034144	CDS					YGR068C		7	627084	625324	C		2011-02-03	1996-07-31	
-S000003302	ORF	Verified	YGR070W	ROM1	Rho family guanine nucleotide exchange factor ROM1|SKC1	chromosome 7	L000003181	7	627806	631273	W		2011-02-03	1996-07-31|2011-02-03	Guanine nucleotide exchange factor (GEF) for Rho1p; mutations are synthetically lethal with mutations in rom2, which also encodes a GEP; ROM1 has a paralog, ROM2, that arose from the whole genome duplication
-S000036051	CDS					YGR070W		7	627806	631273	W		2011-02-03	1996-07-31|2011-02-03	
-S000003303	ORF	Verified	YGR071C	ENV11		chromosome 7		7	634063	631481	C		2011-02-03	1996-07-31	Protein proposed to be involved in vacuolar functions; mutant shows defect in CPY processing and fragmented vacuoles; deletion mutant has increased glycogen accumulation and displays elongated buds; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; ENV11 has a paralog, VID22, that arose from the whole genome duplication
-S000036097	CDS					YGR071C		7	634063	631481	C		2011-02-03	1996-07-31	
-S000003304	ORF	Verified	YGR072W	UPF3	SUP112|SUA6	chromosome 7	L000003057|S000029549|L000002231	7	634304	635467	W	32	2011-02-03	1996-07-31	Component of the nonsense-mediated mRNA decay (NMD) pathway; along with Nam7p and Nmd2p; involved in decay of mRNA containing nonsense codons; involved in telomere maintenance
-S000029860	CDS					YGR072W		7	634304	635467	W		2011-02-03	1996-07-31	
-S000003306	ORF	Verified	YGR074W	SMD1	mRNA splicing protein SMD1|SPP92	chromosome 7	L000001928	7	635712	636152	W		2011-02-03	1996-07-31	Core Sm protein Sm D1; part of heteroheptameric complex (with Smb1p, Smd2p, Smd3p, Sme1p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; relocalizes to the cytosol in response to hypoxia; homolog of human Sm D1; protein abundance increases in response to DNA replication stress
-S000031921	CDS					YGR074W		7	635712	636152	W		2011-02-03	1996-07-31	
-S000003305	ORF	Dubious	YGR073C			chromosome 7		7	635986	635615	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; extensively overlaps essential SMD1 gene encoding a U6 snRNP protein
-S000031714	CDS					YGR073C		7	635986	635615	C		2011-02-03	1996-07-31	
-S000003307	ORF	Verified	YGR075C	PRP38	U4/U6-U5 snRNP complex subunit PRP38	chromosome 7	L000001510	7	636875	636147	C		2011-02-03	1996-07-31	Unique component of the U4/U6.U5 tri-snRNP particle; tri-snRNP is required for conformational changes which result in the catalytic activation of the spliceosome; dispensable for spliceosome assembly
-S000031968	CDS					YGR075C		7	636875	636147	C		2011-02-03	1996-07-31	
-S000003308	ORF	Verified	YGR076C	MRPL25	mitochondrial 54S ribosomal protein YmL25|AFO1|YmL25|YMR26	chromosome 7	L000002532	7	637577	637104	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; mutation confers increased replicative lifespan
-S000037456	CDS					YGR076C		7	637577	637104	C		2011-02-03	1996-07-31	
-S000003309	ORF	Verified	YGR077C	PEX8	PAS6	chromosome 7	L000004222|L000003962	7	639513	637744	C		2011-02-03	1996-07-31	Intraperoxisomal organizer of the peroxisomal import machinery; organizes the formation of the importomer complex, bridging the docking complex with the RING finger complex; tightly associated with the lumenal face of the peroxisomal membrane; essential for peroxisome biogenesis; binds PTS1-signal receptor Pex5p, and PTS2-signal receptor Pex7p
-S000037552	CDS					YGR077C		7	639513	637744	C		2011-02-03	1996-07-31	
-S000003310	ORF	Verified	YGR078C	PAC10	tubulin-binding prefolding complex subunit PAC10|RKS2|PFD3|GIM2	chromosome 7	L000002864	7	640371	639772	C		2011-02-03	1996-07-31	Part of the heteromeric co-chaperone GimC/prefoldin complex; complex promotes efficient protein folding
-S000037609	CDS					YGR078C		7	640371	639772	C		2011-02-03	1996-07-31	
-S000003311	ORF	Uncharacterized	YGR079W			chromosome 7		7	640720	641832	W		2011-02-03	1996-07-31	Putative protein of unknown function; YGR079W is not an essential gene
-S000030491	CDS					YGR079W		7	640720	641832	W		2011-02-03	1996-07-31	
-S000003312	ORF	Verified	YGR080W	TWF1		chromosome 7	L000004372	7	642010	643008	W		2011-02-03	1996-07-31	Twinfilin; highly conserved actin monomer-sequestering protein involved in regulation of the cortical actin cytoskeleton; coordinates actin filament severing and monomer sequestering at sites of rapid actin turnover; composed of two cofilin-like regions, stimulates actin depolymerization as does the mouse homolog, mTwf1
-S000037367	CDS					YGR080W		7	642010	643008	W		2011-02-03	1996-07-31	
-S000003313	ORF	Verified	YGR081C	SLX9		chromosome 7		7	643780	643148	C		2011-02-03	1996-07-31	Protein required for pre-rRNA processing; associated with the 90S pre-ribosome and 43S small ribosomal subunit precursor; interacts with U3 snoRNA; deletion mutant has synthetic fitness defect with an sgs1 deletion mutant
-S000037394	CDS					YGR081C		7	643780	643148	C		2011-02-03	1996-07-31	
-S000003314	ORF	Verified	YGR082W	TOM20	MOM19|MAS20	chromosome 7	L000001029	7	644044	644595	W		2011-02-03	1996-07-31	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import steps for all mitochondrially directed proteins; acts as a receptor for incoming precursor proteins
-S000030069	CDS					YGR082W		7	644044	644595	W		2011-02-03	1996-07-31	
-S000003315	ORF	Verified	YGR083C	GCD2	translation initiation factor eIF2B subunit delta|GCD12	chromosome 7	L000000671	7	646815	644860	C	54	2011-02-03	1996-07-31	Delta subunit of the translation initiation factor eIF2B; the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression
-S000030132	CDS					YGR083C		7	646815	644860	C		2011-02-03	1996-07-31	
-S000003316	ORF	Verified	YGR084C	MRP13	mitochondrial 37S ribosomal protein YmS-A	chromosome 7	L000001142|L000001157	7	648142	647123	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000030307	CDS					YGR084C		7	648142	647123	C		2011-02-03	1996-07-31	
-S000003317	ORF	Verified	YGR085C	RPL11B	uL5|ribosomal 60S subunit protein L11B|rp39B|YL22|L5|L16A|L11B	chromosome 7	L000001730|L000001713	7	648907	648383	C	56	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L11B; expressed at half the level of Rpl11Ap; involved in ribosomal assembly; depletion causes degradation of 60S proteins and RNA; homologous to mammalian ribosomal protein L11 and bacterial L5; RPL11B has a paralog, RPL11A, that arose from the whole genome duplication
-S000033620	CDS					YGR085C		7	648907	648383	C		2011-02-03	1996-07-31	
-S000003318	ORF	Verified	YGR086C	PIL1	lipid-binding protein PIL1	chromosome 7		7	650617	649598	C		2011-02-03	1996-07-31	Eisosome core component; eisosomes are large immobile cell cortex structures associated with endocytosis; detected in phosphorylated state in mitochondria; phosphorylated on Thr233 upon Pkc1p hyperactivation in a Slt2p MAPK-dependent fashion; null mutant shows activation of Pkc1p/Ypk1p stress resistance pathways; member of BAR domain family; protein increases in abundance and relocalizes from plasma membrane to cytoplasm upon DNA replication stress
-S000033727	CDS					YGR086C		7	650617	649598	C		2011-02-03	1996-07-31	
-S000003319	ORF	Verified	YGR087C	PDC6	indolepyruvate decarboxylase 6	chromosome 7	L000001357	7	652981	651290	C		2011-02-03	1996-07-31	Minor isoform of pyruvate decarboxylase; decarboxylates pyruvate to acetaldehyde, involved in amino acid catabolism; transcription is glucose- and ethanol-dependent, and is strongly induced during sulfur limitation
-S000033866	CDS					YGR087C		7	652981	651290	C		2011-02-03	1996-07-31	
-S000003320	ORF	Verified	YGR088W	CTT1	catalase T|SPS101	chromosome 7	L000000435	7	654634	656322	W		2011-02-03	1996-07-31|2006-01-23	Cytosolic catalase T; has a role in protection from oxidative damage by hydrogen peroxide
-S000034811	CDS					YGR088W		7	654634	656322	W		2011-02-03	1996-07-31|2006-01-23	
-S000003321	ORF	Verified	YGR089W	NNF2		chromosome 7		7	656960	659770	W		2011-02-03	1996-07-31	Protein that exhibits physical and genetic interactions with Rpb8p; Rpb8p is a subunit of RNA polymerases I, II, and III; computational analysis of large-scale protein-protein interaction data suggests a role in chromosome segregation
-S000034943	CDS					YGR089W		7	656960	659770	W		2011-02-03	1996-07-31	
-S000118463	ARS		ARS727		ARSVII-660	chromosome 7		7	659907	660002			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000119027	ARS_consensus_sequence					ARS727		7	660000	659986	C		2011-02-03	2006-10-03	
-S000006749	tRNA_gene		tT(UGU)G1			chromosome 7	L000003828	7	661749	661820	W		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000030910	noncoding_exon					tT(UGU)G1		7	661749	661820	W		2011-02-03	2000-05-19	
-S000003322	ORF	Verified	YGR090W	UTP22	rRNA-processing protein UTP22	chromosome 7		7	662358	666071	W		2011-02-03	1996-07-31	Component of the small-subunit processome; required for nuclear export of tRNAs; may facilitate binding of Utp8p to aminoacylated tRNAs and their delivery to Los1p for export; conserved from yeast to mammals
-S000033602	CDS					YGR090W		7	662358	666071	W		2011-02-03	1996-07-31	
-S000003323	ORF	Verified	YGR091W	PRP31	U4/U6-U5 snRNP complex subunit PRP31	chromosome 7	L000002947	7	666341	667825	W		2011-02-03	1996-07-31	Splicing factor; component of the U4/U6-U5 snRNP complex
-S000034543	CDS					YGR091W		7	666341	667825	W		2011-02-03	1996-07-31	
-S000003324	ORF	Verified	YGR092W	DBF2	serine/threonine-protein kinase DBF2	chromosome 7	L000000487	7	668189	669907	W	28	2011-02-03	1996-07-31	Ser/Thr kinase involved in transcription and stress response; functions as part of a network of genes in exit from mitosis; localization is cell cycle regulated; activated by Cdc15p during the exit from mitosis; also plays a role in regulating the stability of SWI5 and CLB2 mRNAs; phosphorylates Chs2p to regulate primary septum formation and Hof1p to regulate cytokinesis; DBF2 has a paralog, DBF20, that arose from the whole genome duplication
-S000034610	CDS					YGR092W		7	668189	669907	W		2011-02-03	1996-07-31	
-S000003325	ORF	Verified	YGR093W	DRN1		chromosome 7		7	670388	671911	W		2011-02-03	1996-07-31	Splicing factor that modulates turnover of branched RNAs by Dbr1p; interacts with spliceosomal components and branched RNA splicing products; enhances Dbr1p debranching in vitro; conserved protein with domain organization identical from yeast to human; N-terminal homology to Dbr1p N-terminus, but Dbr1p catalytic residues not conserved; relocalizes to the cytosol in response to hypoxia
-S000034725	CDS					YGR093W		7	670388	671911	W		2011-02-03	1996-07-31	
-S000003326	ORF	Verified	YGR094W	VAS1	valine--tRNA ligase	chromosome 7	L000002457	7	672186	675500	W		2011-02-03	1996-07-31	Mitochondrial and cytoplasmic valyl-tRNA synthetase; human homolog VARS2 implicated in mitochondrial diseases, can partially complement yeast null mutant
-S000035718	CDS					YGR094W		7	672186	675500	W		2011-02-03	1996-07-31	
-S000003327	ORF	Verified	YGR095C	RRP46	exosome non-catalytic core subunit RRP46	chromosome 7	L000004579	7	676342	675671	C		2011-02-03	2003-09-22|1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp46p (EXOSC5)
-S000035767	CDS					YGR095C		7	676342	675671	C		2011-02-03	2003-09-22|1996-07-31	
-S000003328	ORF	Verified	YGR096W	TPC1	thiamine transporter TPC1	chromosome 7		7	676621	677565	W		2011-02-03	1996-07-31	Mitochondrial membrane transporter; mediates uptake of the essential cofactor thiamine pyrophosphate (ThPP) into mitochondria; expression appears to be regulated by carbon source; member of the mitochondrial carrier family
-S000035962	CDS					YGR096W		7	676621	677565	W		2011-02-03	1996-07-31	
-S000003329	ORF	Verified	YGR097W	ASK10	RGC2	chromosome 7	L000002770	7	678695	682135	W		2011-02-03	1996-07-31	Regulator of the Fps1p glycerol channel; under nonstress conditions, binds to Fps1p to positively regulate glycerol transport; under osmotic stress, multiple phosphorylation by Hog1p causes Ask10p to dissociate from Fps1p; forms homodimers and heterodimerizes with paralog Rgc1p; phosphorylated in response to oxidative stress; has a role in destruction of Ssn8p; associates with RNA polymerase II holoenzyme
-S000037821	CDS					YGR097W		7	678695	682135	W		2011-02-03	1996-07-31	
-S000003330	ORF	Verified	YGR098C	ESP1	separase	chromosome 7	L000000584	7	687458	682566	C	60	2011-02-03	1996-07-31	Separase, a caspase-like cysteine protease; promotes sister chromatid separation by mediating dissociation of the cohesin Scc1p from chromatin; inhibits protein phosphatase 2A-Cdc55p to promote mitotic exit; inhibited by Pds1p; relative distribution to the nucleus increases upon DNA replication stress
-S000037871	CDS					YGR098C		7	687458	682566	C		2011-02-03	1996-07-31	
-S000003331	ORF	Verified	YGR099W	TEL2		chromosome 7	L000002913	7	687899	689965	W		2011-02-03	1996-07-31	Subunit of the ASTRA complex, involved in chromatin remodeling; subunit of the telomere cap complex DNA-binding protein specific to single-stranded yeast telomeric DNA repeats, required for telomere length regulation and telomere position effect; involved in the stability or biogenesis of PIKKs such as TORC1
-S000029946	CDS					YGR099W		7	687899	689965	W		2011-02-03	1996-07-31	
-S000003332	ORF	Verified	YGR100W	MDR1	GYP2|MIC1	chromosome 7	L000003270	7	690245	693097	W		2011-02-03	1996-07-31	Cytoplasmic GTPase-activating protein; activates Ypt/Rab transport GTPases Ypt6p, Ypt31p and Sec4p; involved in recycling of internalized proteins and regulation of Golgi secretory function
-S000035442	CDS					YGR100W		7	690245	693097	W		2011-02-03	1996-07-31	
-S000003333	ORF	Verified	YGR101W	PCP1	rhomboid protease PCP1|RBD1|MDM37	chromosome 7		7	693363	694403	W		2011-02-03	1996-07-31	Mitochondrial serine protease; required for the processing of various mitochondrial proteins and maintenance of mitochondrial DNA and morphology; belongs to the rhomboid-GlpG superfamily of intramembrane peptidases
-S000035497	CDS					YGR101W		7	693363	694403	W		2011-02-03	1996-07-31	
-S000003334	ORF	Verified	YGR102C	GTF1	glutamyl-tRNA(Gln) amidotransferase subunit F	chromosome 7		7	695135	694584	C		2011-02-03	1996-07-31	Subunit of the trimeric GatFAB AmidoTransferase(AdT) complex; involved in the formation of Q-tRNAQ; transposon insertion mutant is salt sensitive and null mutant has growth defects; non-tagged protein is detected in purified mitochondria
-S000035523	CDS					YGR102C		7	695135	694584	C		2011-02-03	1996-07-31	
-S000003335	ORF	Verified	YGR103W	NOP7	mRNA-binding ribosome synthesis protein NOP7|YPH1	chromosome 7	S000007661	7	695417	697234	W		2011-02-03	1996-07-31	Component of several different pre-ribosomal particles; forms a complex with Ytm1p and Erb1p that is required for maturation of the large ribosomal subunit; required for exit from G0 and the initiation of cell proliferation
-S000036462	CDS					YGR103W		7	695417	697234	W		2011-02-03	1996-07-31	
-S000003336	ORF	Verified	YGR104C	SRB5	MED18	chromosome 7	L000002052	7	698368	697445	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; required for proper termination of transcription for some genes; involved in telomere maintenance
-S000036489	CDS					YGR104C		7	698368	697445	C		2011-02-03	1996-07-31	
-S000003337	ORF	Verified	YGR105W	VMA21		chromosome 7	L000002466	7	698599	698832	W		2011-02-03	1996-07-31	Integral membrane protein required for V-ATPase function; not an actual component of the vacuolar H+-ATPase (V-ATPase) complex; diverged ortholog of human XMEA (X-linked Myopathy with Excessive Autophagy); functions in the assembly of the V-ATPase; localized to the yeast endoplasmic reticulum (ER)
-S000036647	CDS					YGR105W		7	698599	698832	W		2011-02-03	1996-07-31	
-S000003338	ORF	Verified	YGR106C	VOA1		chromosome 7		7	699786	698989	C		2011-02-03	1996-07-31	ER protein that functions in assembly of the V0 sector of V-ATPase; functions with other assembly factors; null mutation enhances the vacuolar ATPase (V-ATPase) deficiency of a vma21 mutant impaired in endoplasmic reticulum (ER) retrieval
-S000036683	CDS					YGR106C		7	699786	698989	C		2011-02-03	1996-07-31	
-S000006646	tRNA_gene		tL(GAG)G			chromosome 7	L000003829	7	700675	700756	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; not essential for viability even though this is the only tRNA that decodes GAG codons
-S000031926	noncoding_exon					tL(GAG)G		7	700675	700756	W		2011-02-03	2000-05-19	
-S000006631	tRNA_gene		tK(UUU)G2			chromosome 7	L000003845	7	701048	700953	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000033693	intron					tK(UUU)G2		7	701011	700989	C		2011-02-03	2000-05-19	
-S000033692	noncoding_exon					tK(UUU)G2		7	700988	700953	C		2011-02-03	2000-05-19	
-S000033691	noncoding_exon					tK(UUU)G2		7	701048	701012	C		2011-02-03	2000-05-19	
-S000006968	long_terminal_repeat		YGRWdelta19			chromosome 7		7	701104	701350	W		2011-02-03	2000-05-19	Ty1 LTR
-S000003339	ORF	Dubious	YGR107W			chromosome 7		7	702667	703116	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037476	CDS					YGR107W		7	702667	703116	W		2011-02-03	1996-07-31	
-S000003340	ORF	Verified	YGR108W	CLB1	B-type cyclin CLB1|SCB1	chromosome 7	L000000349	7	703636	705051	W		2011-02-03	1996-07-31	B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the transition from G2 to M phase; accumulates during G2 and M, then targeted via a destruction box motif for ubiquitin-mediated degradation by the proteasome; CLB1 has a paralog, CLB2, that arose from the whole genome duplication
-S000037604	CDS					YGR108W		7	703636	705051	W		2011-02-03	1996-07-31	
-S000003341	ORF	Verified	YGR109C	CLB6	B-type cyclin CLB6	chromosome 7	L000000354	7	706501	705359	C		2011-02-03	1996-07-31	B-type cyclin involved in DNA replication during S phase; activates Cdc28p to promote initiation of DNA synthesis; functions in formation of mitotic spindles along with Clb3p and Clb4p; most abundant during late G1; CLB6 has a paralog, CLB5, that arose from the whole genome duplication
-S000037653	CDS					YGR109C		7	706501	705359	C		2011-02-03	1996-07-31	
-S000006527	tRNA_gene		tC(GCA)G			chromosome 7	L000003844	7	707179	707108	C		2011-02-03	2000-05-19	Cysteine tRNA (tRNA-Cys), predicted by tRNAscan-SE analysis
-S000035213	noncoding_exon					tC(GCA)G		7	707179	707108	C		2011-02-03	2000-05-19	
-S000006978	long_terminal_repeat		YGRWsigma4			chromosome 7		7	707195	707534	W		2011-02-03	2000-05-19	Ty3 LTR
-S000006984	LTR_retrotransposon		YGRWTy3-1		Ty3	chromosome 7		7	707195	712545	W		2011-02-03	2000-05-19	Ty3 element, LTR retrotransposon of the Gypsy (Metaviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; transposition is induced upon exposure to mating pheromone
-S000007346	transposable_element_gene		YGR109W-A		gag protein	chromosome 7		7	707610	708482	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000033102	CDS					YGR109W-A		7	707610	708482	W		2011-02-03	1999-07-17	
-S000007347	transposable_element_gene		YGR109W-B		gag-pol fusion protein	chromosome 7		7	707610	712254	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000033103	CDS					YGR109W-B		7	707610	708459	W		2011-02-03	1999-07-17	
-S000033104	CDS					YGR109W-B		7	708461	712254	W		2011-02-03	1999-07-17	
-S000033105	plus_1_translational_frameshift					YGR109W-B		7	708460	708460	W		2011-02-03	1999-07-17	
-S000006979	long_terminal_repeat		YGRWsigma5			chromosome 7		7	712206	712545	W		2011-02-03	2000-05-19	Ty3 LTR
-S000006957	long_terminal_repeat		YGRCdelta20			chromosome 7		7	713384	713084	C		2011-02-03	2000-05-19	Ty1 LTR
-S000003342	ORF	Verified	YGR110W	CLD1	carboxylic ester hydrolase	chromosome 7		7	713709	715046	W		2011-02-03	1996-07-31	Mitochondrial cardiolipin-specific phospholipase; functions upstream of Taz1p to generate monolyso-cardiolipin; transcription increases upon genotoxic stress; involved in restricting Ty1 transposition; has homology to mammalian CGI-58
-S000030464	CDS					YGR110W		7	713709	715046	W		2011-02-03	1996-07-31	
-S000118464	ARS		ARS728		ARSVII-715	chromosome 7		7	715312	715377			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000119028	ARS_consensus_sequence					ARS728		7	715315	715329	W		2011-02-03	2006-10-03	
-S000003343	ORF	Uncharacterized	YGR111W			chromosome 7		7	715828	717030	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
-S000031339	CDS					YGR111W		7	715828	717030	W		2011-02-03	1996-07-31	
-S000003344	ORF	Verified	YGR112W	SHY1		chromosome 7	L000004140	7	717358	718527	W		2011-02-03	1996-07-31	Mitochondrial inner membrane protein required for complex IV assembly; associates with complex IV assembly intermediates and complex III/complex IV supercomplexes; similar to human SURF1 involved in Leigh Syndrome; complex IV is also known as cytochrome c oxidase
-S000031421	CDS					YGR112W		7	717358	718527	W		2011-02-03	1996-07-31	
-S000003345	ORF	Verified	YGR113W	DAM1		chromosome 7	L000004420	7	718893	719924	W		2011-02-03	2001-05-31|1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); cooperates with Duo1p to connect the DASH complex with the microtubules (MT); couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; Ipl1p target for regulating kinetochore-MT attachments
-S000031509	CDS					YGR113W		7	718893	719924	W		2011-02-03	2001-05-31|1996-07-31	
-S000003348	ORF	Verified	YGR116W	SPT6	chromatin-remodeling histone chaperone SPT6|SSN20|CRE2	chromosome 7	L000002032	7	720409	724764	W	87.64	2011-02-03	1996-07-31	Nucleosome remodeling protein; functions in various aspects of transcription, chromatin maintenance, and RNA processing; required for the maintenance of chromatin structure during transcription in order to inhibit transcription from promoters within the coding region; required for H3K36 trimethylation but not dimethylation by Set2p
-S000032690	CDS					YGR116W		7	720409	724764	W		2011-02-03	1996-07-31	
-S000003346	ORF	Dubious	YGR114C			chromosome 7		7	720654	720265	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps 5' end of the essential gene SPT6
-S000031522	CDS					YGR114C		7	720654	720265	C		2011-02-03	1996-07-31	
-S000003347	ORF	Dubious	YGR115C			chromosome 7		7	721151	720372	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified and essential ORF SPT6/YGR115C
-S000031629	CDS					YGR115C		7	721151	720372	C		2011-02-03	1996-07-31	
-S000003349	ORF	Uncharacterized	YGR117C			chromosome 7		7	726479	725049	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000032722	CDS					YGR117C		7	726479	725049	C		2011-02-03	1996-07-31	
-S000003350	ORF	Verified	YGR118W	RPS23A	uS12|ribosomal 40S subunit protein S23A|rp37|YS14|S28A|S23A|S12	chromosome 7	L000001764	7	726974	727730	W		2011-02-03	1996-07-31|2011-02-03	Ribosomal protein 28 (rp28) of the small (40S) ribosomal subunit; required for translational accuracy; homologous to mammalian ribosomal protein S23 and bacterial S12; RPS23A has a paralog, RPS23B, that arose from the whole genome duplication; deletion of both RPS23A and RPS23B is lethal
-S000033494	CDS					YGR118W		7	726974	727038	W		2011-02-03	1996-07-31	
-S000033495	CDS					YGR118W		7	727358	727730	W		2011-02-03	1996-07-31	
-S000033496	intron					YGR118W		7	727039	727357	W		2011-02-03	1996-07-31|2011-02-03	
-S000003351	ORF	Verified	YGR119C	NUP57	FG-nucleoporin NUP57	chromosome 7	L000002619	7	729671	728046	C		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier; found in stable complex with Nic96p and two other FG-nucleoproteins (Nsp1p and Nup49p)
-S000033534	CDS					YGR119C		7	729671	728046	C		2011-02-03	1996-07-31	
-S000003352	ORF	Verified	YGR120C	COG2	Golgi transport complex subunit COG2|SEC35	chromosome 7	L000004877	7	730821	730033	C		2011-02-03	2003-09-22|1996-07-31	Essential component of the conserved oligomeric Golgi complex; a cytosolic tethering complex that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments; the components of the Golgi complex are Gog1p through Cog8p
-S000034667	CDS					YGR120C		7	730821	730033	C		2011-02-03	2003-09-22|1996-07-31	
-S000006670	tRNA_gene		tN(GUU)G			chromosome 7	L000003830	7	731137	731210	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
-S000030710	noncoding_exon					tN(GUU)G		7	731137	731210	W		2011-02-03	2000-05-19	
-S000003353	ORF	Verified	YGR121C	MEP1	ammonium permease MEP1|AMT1	chromosome 7	L000001073	7	732927	731449	C		2011-02-03	1996-07-31	Ammonium permease; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation; human homolog RHCG complements yeast null mutant; mutations in human homolog RHCG implicated in metabolic acidosis; MEP1 has a paralog, MEP3, that arose from the whole genome duplication
-S000034743	CDS					YGR121C		7	732927	731449	C		2011-02-03	1996-07-31	
-S000028550	ORF	Uncharacterized	YGR121W-A			chromosome 7		7	733412	733627	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000031236	CDS					YGR121W-A		7	733412	733627	W		2011-02-03	2003-07-29	
-S000003354	ORF	Verified	YGR122W			chromosome 7		7	733935	735143	W		2011-02-03	1996-07-31	Protein that may be involved in pH regulation; probable ortholog of A. nidulans PalC, which is involved in pH regulation and binds to the ESCRT-III complex; null mutant does not properly process Rim101p and has decreased resistance to rapamycin; GFP-fusion protein is cytoplasmic; relative distribution to cytoplasm increases upon DNA replication stress
-S000035706	CDS					YGR122W		7	733935	735143	W		2011-02-03	1996-07-31	
-S000006969	long_terminal_repeat		YGRWdelta21			chromosome 7		7	735542	735872	W		2011-02-03	2000-05-19	Ty1 LTR
-S000007240	ORF	Dubious	YGR122C-A			chromosome 7		7	735758	735630	C		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; similar to YLR334C and YOL106W
-S000032623	CDS					YGR122C-A		7	735758	735630	C		2011-02-03	1999-07-17	
-S000006980	long_terminal_repeat		YGRWsigma6			chromosome 7		7	735982	736322	W		2011-02-03	2000-05-19	Ty3 LTR
-S000006713	tRNA_gene		tR(UCU)G3			chromosome 7	L000003831	7	736340	736411	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000037332	noncoding_exon					tR(UCU)G3		7	736340	736411	W		2011-02-03	2000-05-19	
-S000003355	ORF	Verified	YGR123C	PPT1	protein serine/threonine phosphatase	chromosome 7	L000002624	7	738203	736662	C		2011-02-03	1996-07-31	Protein serine/threonine phosphatase; regulates Hsp90 chaperone by affecting its ATPase and cochaperone binding activities; has similarity to human phosphatase PP5; present in both the nucleus and cytoplasm; expressed during logarithmic growth
-S000035715	CDS					YGR123C		7	738203	736662	C		2011-02-03	1996-07-31	
-S000006604	tRNA_gene		tI(AAU)G			chromosome 7	L000003832	7	739122	739195	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000030407	noncoding_exon					tI(AAU)G		7	739122	739195	W		2011-02-03	2000-05-19	
-S000003356	ORF	Verified	YGR124W	ASN2	asparagine synthase (glutamine-hydrolyzing) 2	chromosome 7	L000003156	7	739944	741662	W		2011-02-03	1996-07-31	Asparagine synthetase; catalyzes the synthesis of L-asparagine from L-aspartate in the asparagine biosynthetic pathway; ASN2 has a paralog, ASN1, that arose from the whole genome duplication
-S000035868	CDS					YGR124W		7	739944	741662	W		2011-02-03	1996-07-31	
-S000003357	ORF	Uncharacterized	YGR125W			chromosome 7		7	742325	745435	W		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant has decreased rapamycin resistance but normal wormannin resistance; green fluorescent protein (GFP)-fusion protein localizes to the vacuole
-S000036786	CDS					YGR125W		7	742325	745435	W		2011-02-03	1996-07-31	
-S000003358	ORF	Uncharacterized	YGR126W			chromosome 7		7	745835	746527	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus and is induced in response to the DNA-damaging agent MMS
-S000036861	CDS					YGR126W		7	745835	746527	W		2011-02-03	1996-07-31	
-S000003359	ORF	Uncharacterized	YGR127W			chromosome 7		7	746798	747736	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression is regulated by Msn2p/Msn4p, indicating a possible role in stress response
-S000036917	CDS					YGR127W		7	746798	747736	W		2011-02-03	1996-07-31	
-S000003360	ORF	Verified	YGR128C	UTP8		chromosome 7		7	750091	747950	C		2011-02-03	1996-07-31	Nucleolar protein required for export of tRNAs from the nucleus; also copurifies with the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
-S000036949	CDS					YGR128C		7	750091	747950	C		2011-02-03	1996-07-31	
-S000003361	ORF	Verified	YGR129W	SYF2	NTC31	chromosome 7	L000004196	7	750400	751047	W		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); NTC contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; relocalizes to the cytosol in response to hypoxia; isy1 syf2 cells have defective spindles activiating cell cycle arrest
-S000037743	CDS					YGR129W		7	750400	751047	W		2011-02-03	1996-07-31	
-S000003362	ORF	Verified	YGR130C			chromosome 7		7	753844	751394	C		2011-02-03	1996-07-31	Component of the eisosome with unknown function; GFP-fusion protein localizes to the cytoplasm; specifically phosphorylated in vitro by mammalian diphosphoinositol pentakisphosphate (IP7)
-S000030568	CDS					YGR130C		7	753844	751394	C		2011-02-03	1996-07-31	
-S000003363	ORF	Verified	YGR131W	FHN1		chromosome 7		7	754726	755250	W		2011-02-03	1996-07-31	Protein of unknown function; induced by ketoconazole; promoter region contains sterol regulatory element motif, which has been identified as a Upc2p-binding site; overexpression complements function of Nce102p in NCE102 deletion strain; FHN1 has a paralog, NCE102, that arose from the whole genome duplication
-S000030762	CDS					YGR131W		7	754726	755250	W		2011-02-03	1996-07-31	
-S000003364	ORF	Verified	YGR132C	PHB1	prohibitin subunit PHB1	chromosome 7	L000001416|L000001415	7	756452	755589	C		2011-02-03	1996-07-31	Subunit of the prohibitin complex (Phb1p-Phb2p); prohibitin is a 1.2 MDa ring-shaped inner mitochondrial membrane chaperone that stabilizes newly synthesized proteins; determinant of replicative life span; involved in mitochondrial segregation; prohibitin deficiency induces a mitochondrial unfolded protein response (mtUPR)
-S000030798	CDS					YGR132C		7	756452	755589	C		2011-02-03	1996-07-31	
-S000003365	ORF	Verified	YGR133W	PEX4	E2 ubiquitin-protein ligase peroxin 4|UBC10|PAS2	chromosome 7	L000001338	7	756896	757447	W		2011-02-03	1996-07-31	Peroxisomal ubiquitin conjugating enzyme; required for peroxisomal matrix protein import and peroxisome biogenesis
-S000031790	CDS					YGR133W		7	756896	757447	W		2011-02-03	1996-07-31	
-S000003366	ORF	Verified	YGR134W	CAF130	CCR4-NOT core subunit CAF130	chromosome 7		7	757770	761138	W		2011-02-03	1996-07-31	Subunit of the CCR4-NOT transcriptional regulatory complex; CCR4-NOT complex is evolutionarily-conserved and involved in controlling mRNA initiation, elongation, and degradation
-S000031982	CDS					YGR134W		7	757770	761138	W		2011-02-03	1996-07-31	
-S000003367	ORF	Verified	YGR135W	PRE9	proteasome core particle subunit alpha 3	chromosome 7	L000002701	7	761392	762168	W		2011-02-03	1996-07-31	Alpha 3 subunit of the 20S proteasome; the only nonessential 20S subunit; may be replaced by the alpha 4 subunit (Pre6p) under stress conditions to create a more active proteasomal isoform
-S000032101	CDS					YGR135W		7	761392	762168	W		2011-02-03	1996-07-31	
-S000003368	ORF	Verified	YGR136W	LSB1		chromosome 7		7	762428	763153	W		2011-02-03	1996-07-31	Negative regulator of actin nucleation-promoting factor activity; interacts with Las17p, a homolog of human Wiskott-Aldrich Syndrome protein (WASP), via an N-terminal SH3 domain, and along with PIN3 cooperatively inhibits the nucleation of actin filaments; overexpression blocks receptor-mediated endocytosis; protein increases in abundance and forms nuclear foci in response to DNA replication stress; LSB1 has a paralog, PIN3, that arose from the whole genome duplication
-S000033027	CDS					YGR136W		7	762428	763153	W		2011-02-03	1996-07-31	
-S000003369	ORF	Dubious	YGR137W			chromosome 7		7	762888	763262	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033117	CDS					YGR137W		7	762888	763262	W		2011-02-03	1996-07-31	
-S000003370	ORF	Verified	YGR138C	TPO2	spermine transporter	chromosome 7		7	765606	763762	C		2011-02-03	1996-07-31	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; specific for spermine; localizes to the plasma membrane; transcription of TPO2 is regulated by Haa1p; TPO2 has a paralog, TPO3, that arose from the whole genome duplication
-S000033153	CDS					YGR138C		7	765606	763762	C		2011-02-03	1996-07-31	
-S000003371	ORF	Dubious	YGR139W			chromosome 7		7	765726	766064	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034004	CDS					YGR139W		7	765726	766064	W		2011-02-03	1996-07-31	
-S000003372	ORF	Verified	YGR140W	CBF2	CSL5|NDC10|CTF14|CEP2|CBF3A	chromosome 7	L000000430|L000001238|L000000221	7	767429	770299	W		2011-02-03	1996-07-31	Essential kinetochore protein; component of the CBF3 multisubunit complex that binds to the CDEIII region of the centromere; Cbf2p also binds to the CDEII region possibly forming a different multimeric complex, ubiquitinated in vivo; sumoylated in an Mms21p-dependent manner; relative distribution to the spindle pole body decreases upon DNA replication stress
-S000034959	CDS					YGR140W		7	767429	770299	W		2011-02-03	1996-07-31	
-S000003373	ORF	Verified	YGR141W	VPS62		chromosome 7		7	770569	771972	W		2011-02-03	1996-07-31	Vacuolar protein sorting (VPS) protein; required for cytoplasm to vacuole targeting of proteins; VPS62 has a paralog, TDA6, that arose from the whole genome duplication
-S000035068	CDS					YGR141W		7	770569	771972	W		2011-02-03	1996-07-31	
-S000003374	ORF	Verified	YGR142W	BTN2		chromosome 7		7	772454	773686	W		2011-02-03	1996-07-31	v-SNARE binding protein; facilitates specific protein retrieval from a late endosome to the Golgi; modulates arginine uptake, possible role in mediating pH homeostasis between the vacuole and plasma membrane H(+)-ATPase; contributes to prion curing; preferentially expressed after severe ethanol stress
-S000035175	CDS					YGR142W		7	772454	773686	W		2011-02-03	1996-07-31	
-S000006970	long_terminal_repeat		YGRWdelta22			chromosome 7		7	774040	774162	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006512	tRNA_gene		tA(AGC)G			chromosome 7	L000003833	7	774349	774421	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000032279	noncoding_exon					tA(AGC)G		7	774349	774421	W		2011-02-03	2000-05-19	
-S000003375	ORF	Verified	YGR143W	SKN1	beta-glucan synthesis-associated protein SKN1	chromosome 7	L000001907	7	775193	777508	W	88.14	2011-02-03	1996-07-31	Protein involved in sphingolipid biosynthesis; type II membrane protein; SKN1 has a paralog, KRE6, that arose from the whole genome duplication
-S000036052	CDS					YGR143W		7	775193	777508	W		2011-02-03	1996-07-31	
-S000118465	ARS		ARS729		ARSVII-778	chromosome 7		7	777966	778214			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000119029	ARS_consensus_sequence					ARS729		7	778014	778028	W		2011-02-03	2006-10-03	
-S000178103	ARS_consensus_sequence					ARS729		7	778196	778180	C		2014-11-18	2014-11-18	
-S000006971	long_terminal_repeat		YGRWdelta23			chromosome 7		7	778784	779112	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006972	long_terminal_repeat		YGRWdelta24			chromosome 7		7	779116	779224	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006958	long_terminal_repeat		YGRCdelta25			chromosome 7		7	779515	779225	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006590	tRNA_gene		tG(UCC)G	SUF4		chromosome 7	L000002152|L000003834	7	779616	779687	W	105	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
-S000037534	noncoding_exon					tG(UCC)G		7	779616	779687	W		2011-02-03	2000-05-19	
-S000003376	ORF	Verified	YGR144W	THI4	thiamine thiazole synthase|MOL1|ESP35	chromosome 7	L000001133|L000000585	7	780399	781379	W		2011-02-03	1996-07-31	Thiazole synthase; abundant protein involved in the formation of the thiazole moiety of thiamine during thiamine biosynthesis; acts more as a co-substrate rather than an enzyme by providing the sulphur source for thiazole formation; undergoes a single turnover only; required for mitochondrial genome stability in response to DNA damaging agents
-S000036192	CDS					YGR144W		7	780399	781379	W		2011-02-03	1996-07-31	
-S000003377	ORF	Verified	YGR145W	ENP2	ribosome biosynthesis protein ENP2	chromosome 7		7	781767	783890	W		2011-02-03	1996-07-31|2011-02-03	Component of the SSU; required for pre-18S rRNA processing, biogenesis of the small ribosomal subunit; interacts with U3 snoRNA, Mpp10p and Bfr2p; contains WD repeats, and has homology to Spb1p
-S000029871	CDS					YGR145W		7	781767	783890	W		2011-02-03	1996-07-31|2011-02-03	
-S000003378	ORF	Verified	YGR146C	ECL1		chromosome 7		7	784858	784223	C		2011-02-03	1996-07-31	Protein of unknown function; mitochondrial-dependent role in the extension of chronological lifespan; overexpression increases oxygen consumption and respiratory activity while deletion results in reduced oxygen consumption under conditions of caloric restriction; induced by iron homeostasis transcription factor Aft2p; multicopy suppressor of temperature sensitive hsf1 mutant; induced by treatment with 8-methoxypsoralen and UVA irradiation
-S000031718	CDS					YGR146C		7	784858	784223	C		2011-02-03	1996-07-31	
-S000028638	ORF	Uncharacterized	YGR146C-A			chromosome 7		7	785437	785276	C		2011-02-03	2003-07-29	Putative protein of unknown function
-S000032394	CDS					YGR146C-A		7	785437	785276	C		2011-02-03	2003-07-29	
-S000003379	ORF	Verified	YGR147C	NAT2		chromosome 7	L000001233	7	786920	786054	C		2011-02-03	1996-07-31	Protein of unknown function; has an apparent role in acetylation of N-terminal methionine residues
-S000031870	CDS					YGR147C		7	786920	786054	C		2011-02-03	1996-07-31	
-S000003380	ORF	Verified	YGR148C	RPL24B	eL24|ribosomal 60S subunit protein L24B|L24e|rp29|YL21|L30B|L24B|RPL30B	chromosome 7	L000001725	7	787779	787312	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L24B; not essential for translation but may be required for normal translation rate; homologous to mammalian ribosomal protein L24, no bacterial homolog; RPL24B has a paralog, RPL24A, that arose from the whole genome duplication
-S000031971	CDS					YGR148C		7	787779	787312	C		2011-02-03	1996-07-31	
-S000122102	five_prime_UTR_intron					YGR148C		7	788178	787787	C		2011-02-03	2007-04-04	
-S000003381	ORF	Verified	YGR149W	GPC1		chromosome 7		7	789031	790329	W		2011-02-03	1996-07-31	Glycerophosphocholine acyltransferase (GPCAT); involved in in phosphatidylcholine (PC) synthesis; uses acetyl-CoA to acylate glycero-3-phosphocholine to yield lyso-PC; also catalyzes acylation of glycerophosphoethanolamine with acyl-CoA; predicted to be an integal membrane protein
-S000037495	CDS					YGR149W		7	789031	790329	W		2011-02-03	1996-07-31	
-S000003382	ORF	Verified	YGR150C	CCM1	DMR1|RRG2	chromosome 7		7	793053	790459	C		2011-02-03	1996-07-31	Mitochondrial 15S rRNA-binding protein; required for intron removal of COB and COX1 pre-mRNAs; has separable roles in stabilizing mitochondrial 15S rRNA and in maturation of the COB and COX1 mRNAs; contains pentatricopeptide repeat (PPR) motifs; mutant is respiratory deficient and has defective plasma membrane electron transport
-S000036478	CDS					YGR150C		7	793053	790459	C		2011-02-03	1996-07-31	
-S000006973	long_terminal_repeat		YGRWdelta26			chromosome 7		7	793237	793559	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006523	tRNA_gene		tA(UGC)G			chromosome 7	L000003835	7	794417	794489	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
-S000034874	noncoding_exon					tA(UGC)G		7	794417	794489	W		2011-02-03	2000-05-19	
-S000003383	ORF	Dubious	YGR151C			chromosome 7		7	794990	794655	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF RSR1/BUD1/YGR152C; relative distribution to the nucleus increases upon DNA replication stress
-S000037176	CDS					YGR151C		7	794990	794655	C		2011-02-03	1996-07-31	
-S000003384	ORF	Verified	YGR152C	RSR1	Ras family GTPase RSR1|BUD1	chromosome 7	L000001780	7	795492	794674	C	98	2011-02-03	1996-07-31	GTP-binding protein of the Ras superfamily; required for bud site selection, morphological changes in response to mating pheromone, and efficient cell fusion; localized to the plasma membrane; significantly similar to mammalian Rap GTPases
-S000037247	CDS					YGR152C		7	795492	794674	C		2011-02-03	1996-07-31	
-S000003385	ORF	Uncharacterized	YGR153W		TOS10	chromosome 7		7	796092	796745	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function
-S000037368	CDS					YGR153W		7	796092	796745	W		2011-02-03	1996-07-31|2011-02-03	
-S000003386	ORF	Verified	YGR154C	GTO1	omega-class glutathione transferase	chromosome 7		7	797868	796798	C		2011-02-03	1996-07-31	Omega-class glutathione transferase; induced under oxidative stress; putative peroxisomal localization
-S000037395	CDS					YGR154C		7	797868	796798	C		2011-02-03	1996-07-31	
-S000003387	ORF	Verified	YGR155W	CYS4	cystathionine beta-synthase CYS4|VMA41|STR4|NHS5	chromosome 7	L000001248|L000000471	7	798543	800066	W	87.14	2011-02-03	1996-07-31	Cystathionine beta-synthase; catalyzes synthesis of cystathionine from serine and homocysteine, the first committed step in cysteine biosynthesis; responsible for hydrogen sulfide generation; advances passage through START by promoting cell growth which requires catalytic activity, and reducing critical cell size independent of catalytic activity; mutations in human ortholog CBS cause homocystinuria; human CBS can complement yeast null mutant
-S000030070	CDS					YGR155W		7	798543	800066	W		2011-02-03	1996-07-31	
-S000003388	ORF	Verified	YGR156W	PTI1	cleavage polyadenylation factor subunit PTI1	chromosome 7		7	800546	801823	W		2011-02-03	1996-07-31	Essential component of CPF (cleavage and polyadenylation factor); involved in 3' end formation of snoRNA and mRNA; interacts directly with Pta1p; relocalizes to the cytosol in response to hypoxia; similar to mammalian Cleavage-Stimulation Factor CstF-64
-S000030236	CDS					YGR156W		7	800546	801823	W		2011-02-03	1996-07-31	
-S000003389	ORF	Verified	YGR157W	CHO2	phosphatidylethanolamine N-methyltransferase|PEM1	chromosome 7	L000000328	7	802440	805049	W		2011-02-03	1996-07-31	Phosphatidylethanolamine methyltransferase (PEMT); catalyzes the first step in the conversion of phosphatidylethanolamine to phosphatidylcholine during the methylation pathway of phosphatidylcholine biosynthesis
-S000030380	CDS					YGR157W		7	802440	805049	W		2011-02-03	1996-07-31	
-S000003390	ORF	Verified	YGR158C	MTR3	exosome non-catalytic core subunit MTR3	chromosome 7	L000003982	7	806021	805269	C		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hMtr3p (EXOSC6)
-S000033622	CDS					YGR158C		7	806021	805269	C		2011-02-03	1996-07-31	
-S000003392	ORF	Dubious	YGR160W			chromosome 7		7	807073	807684	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033399	CDS					YGR160W		7	807073	807684	W		2011-02-03	1996-07-31	
-S000003391	ORF	Verified	YGR159C	NSR1	SHE5	chromosome 7	L000001278	7	807656	806412	C		2011-02-03	1996-07-31	Nucleolar protein that binds nuclear localization sequences; required for pre-rRNA processing and ribosome biogenesis; binds to single stranded telomeric DNA and mRNA; methylated by Hmt1p; interaction with Top1p and nucleolar localization are negatively regulated by polyphosphorylation
-S000033736	CDS					YGR159C		7	807656	806412	C		2011-02-03	1996-07-31	
-S000003393	ORF	Uncharacterized	YGR161C	RTS3		chromosome 7		7	809420	808629	C		2011-02-03	1996-07-31	Putative component of the protein phosphatase type 2A complex
-S000033431	CDS					YGR161C		7	809420	808629	C		2011-02-03	1996-07-31	
-S000029726	ORF	Uncharacterized	YGR161W-C			chromosome 7		7	810227	810505	W		2011-02-03	2004-08-27	Putative protein of unknown function; identified by sequence comparison with hemiascomycetous yeast species
-S000036877	CDS					YGR161W-C		7	810227	810505	W		2011-02-03	2004-08-27	
-S000006974	long_terminal_repeat		YGRWdelta27			chromosome 7		7	811447	811778	W		2011-02-03	2000-05-19	Ty2 LTR
-S000006983	LTR_retrotransposon		YGRWTy2-2		Ty2	chromosome 7		7	811447	817397	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007369	transposable_element_gene		YGR161W-A		gag protein	chromosome 7		7	811738	813054	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000030119	CDS					YGR161W-A		7	811738	813054	W		2011-02-03	1999-07-17	
-S000007370	transposable_element_gene		YGR161W-B		gag-pol fusion protein	chromosome 7	S000029014	7	811738	817051	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000030122	CDS					YGR161W-B		7	811738	813030	W		2011-02-03	1999-07-17	
-S000030123	CDS					YGR161W-B		7	813032	817051	W		2011-02-03	1999-07-17	
-S000030124	plus_1_translational_frameshift					YGR161W-B		7	813031	813031	W		2011-02-03	1999-07-17	
-S000006975	long_terminal_repeat		YGRWdelta28			chromosome 7		7	817074	817397	W		2011-02-03	2000-05-19	Ty2 LTR
-S000006959	long_terminal_repeat		YGRCdelta29			chromosome 7		7	817724	817393	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007368	transposable_element_gene		YGR161C-D		gag-pol fusion protein	chromosome 7		7	823015	817747	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000036390	CDS					YGR161C-D		7	821709	817747	C		2011-02-03	1999-07-17	
-S000036389	CDS					YGR161C-D		7	823015	821711	C		2011-02-03	1999-07-17	
-S000036391	plus_1_translational_frameshift					YGR161C-D		7	821710	821710	C		2011-02-03	1999-07-17	
-S000007367	transposable_element_gene		YGR161C-C		gag protein	chromosome 7		7	823015	821693	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000036388	CDS					YGR161C-C		7	823015	821693	C		2011-02-03	1999-07-17	
-S000006963	LTR_retrotransposon		YGRCTy1-3		Ty1	chromosome 7		7	823306	817393	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000006960	long_terminal_repeat		YGRCdelta30			chromosome 7		7	823306	822975	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006756	tRNA_gene		tV(AAC)G2			chromosome 7	L000003836	7	823482	823555	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000036904	noncoding_exon					tV(AAC)G2		7	823482	823555	W		2011-02-03	2000-05-19	
-S000003394	ORF	Verified	YGR162W	TIF4631	translation initiation factor eIF4G|eiF4G1	chromosome 7	L000002309	7	824059	826917	W		2011-02-03	1996-07-31	Translation initiation factor eIF4G; subunit of the mRNA cap-binding protein complex (eIF4F) that also contains eIF4E (Cdc33p); interacts with Pab1p and with eIF4A (Tif1p); also has a role in biogenesis of the large ribosomal subunit; TIF4631 has a paralog, TIF4632, that arose from the whole genome duplication
-S000033543	CDS					YGR162W		7	824059	826917	W		2011-02-03	1996-07-31	
-S000003395	ORF	Verified	YGR163W	GTR2		chromosome 7	L000004611	7	827552	828577	W		2011-02-03	1996-07-31	Subunit of a TORC1-stimulating GTPase complex; subunit of the Gtr1-Gtr2 GTPase complex that stimulates TORC1 in response to amino acid stimulation; stimulates the GTPase activity of Gtr1p; negatively regulates the Ran/Tc4 GTPase cycle; activates transcription; tethered to the vacuolar membrane as part of the EGO complex (EGOC); required for sorting of Gap1p; activated by the the Lst4p-Lst7p GAP complex; localizes to cytoplasm and to chromatin; homolog of human RagC and
-S000033603	CDS					YGR163W		7	827552	828577	W		2011-02-03	1996-07-31	
-S000003396	ORF	Dubious	YGR164W			chromosome 7		7	828625	828960	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034546	CDS					YGR164W		7	828625	828960	W		2011-02-03	1996-07-31	
-S000006712	tRNA_gene		tR(UCU)G2			chromosome 7	L000003843	7	828794	828723	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
-S000037330	noncoding_exon					tR(UCU)G2		7	828794	828723	C		2011-02-03	2000-05-19	
-S000003397	ORF	Verified	YGR165W	MRPS35	mitochondrial 37S ribosomal protein MRPS35	chromosome 7		7	829116	830153	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; null mutant does not grow on glycerol, is sensitive to 2,4-dichlorophenol, and accumulates large lipid droplets
-S000034612	CDS					YGR165W		7	829116	830153	W		2011-02-03	1996-07-31	
-S000003398	ORF	Verified	YGR166W	TRS65	KRE11	chromosome 7	L000000918	7	830515	832197	W	154.34	2011-02-03	1996-07-31	Component of transport protein particle (TRAPP) complex II; TRAPPII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating intra-Golgi and endosome-Golgi traffic; role in cell wall beta-glucan biosynthesis and the stress response
-S000034756	CDS					YGR166W		7	830515	832197	W		2011-02-03	1996-07-31	
-S000003399	ORF	Verified	YGR167W	CLC1	SCD4	chromosome 7	L000000355	7	832456	833157	W		2011-02-03	1996-07-31	Clathrin light chain; subunit of the major coat protein involved in intracellular protein transport and endocytosis; regulates endocytic progression; thought to regulate clathrin function; the clathrin triskelion is a trimeric molecule composed of three heavy chains that radiate from a vertex and three light chains which bind noncovalently near the vertex of the triskelion
-S000035721	CDS					YGR167W		7	832456	833157	W		2011-02-03	1996-07-31	
-S000003400	ORF	Uncharacterized	YGR168C			chromosome 7		7	834482	833352	C		2011-02-03	1996-07-31	Putative protein of unknown function; YGR168C is not an essential gene
-S000035768	CDS					YGR168C		7	834482	833352	C		2011-02-03	1996-07-31	
-S000118466	ARS		ARS731		ARSVII-835	chromosome 7		7	834491	834734			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000119030	ARS_consensus_sequence					ARS731		7	834664	834650	C		2011-02-03	2006-10-03	
-S000003401	ORF	Verified	YGR169C	PUS6	pseudouridine synthase PUS6	chromosome 7		7	835903	834689	C		2011-02-03	1996-07-31	tRNA:pseudouridine synthase; catalyzes the conversion of uridine to pseudouridine at position 31 in cytoplasmic and mitochondrial tRNAs; mutation of Asp168 to Ala abolishes enzyme activity; not essential for viability
-S000035880	CDS					YGR169C		7	835903	834689	C		2011-02-03	1996-07-31	
-S000028521	ORF	Verified	YGR169C-A	LSO2	YGR169C-C	chromosome 7		7	836665	836387	C		2011-02-03	2003-07-29	Protein with a potential role in response to iron deprivation; localizes to nucleus and cytoplasm, and nuclear localization is enhanced under iron-replete conditions; null mutant exhibits slow growth during iron deprivation; LSO2 has a paralog, LSO1, that arose from the whole genome duplication
-S000030316	CDS					YGR169C-A		7	836665	836387	C		2011-02-03	2003-07-29	
-S000003402	ORF	Verified	YGR170W	PSD2	phosphatidylserine decarboxylase 2	chromosome 7	L000002817	7	837142	840558	W		2011-02-03	1996-07-31	Phosphatidylserine decarboxylase of the Golgi and vacuolar membranes; converts phosphatidylserine to phosphatidylethanolamine; controls vacuolar membrane phospholipid content by regulating phospholipids in compartments that will eventually give rise to the vacuole; loss of Psd2p causes a specific reduction in vacuolar membrane PE levels while total PE levels are not significantly affected
-S000036827	CDS					YGR170W		7	837142	840558	W		2011-02-03	1996-07-31	
-S000003403	ORF	Verified	YGR171C	MSM1	methionine--tRNA ligase MSM1	chromosome 7	L000001196	7	842551	840824	C		2011-02-03	1996-07-31	Mitochondrial methionyl-tRNA synthetase (MetRS); functions as a monomer in mitochondrial protein synthesis; functions similarly to cytoplasmic MetRS although the cytoplasmic form contains a zinc-binding domain not found in Msm1p
-S000036868	CDS					YGR171C		7	842551	840824	C		2011-02-03	1996-07-31	
-S000003404	ORF	Verified	YGR172C	YIP1	transporter YIP1	chromosome 7	L000003259	7	843591	842845	C		2011-02-03	1996-07-31	Integral membrane protein; required for the biogenesis of ER-derived COPII transport vesicles; interacts with Yif1p and Yos1p; localizes to the Golgi, the ER, and COPII vesicles; human homolog YIPF5 can complement yeast yip1 mutant
-S000037595	CDS					YGR172C		7	843591	842845	C		2011-02-03	1996-07-31	
-S000003405	ORF	Verified	YGR173W	RBG2	GIR1	chromosome 7		7	843854	844960	W		2011-02-03	1996-07-31	Protein with a role in translation; forms a complex with Gir2p; has similarity to mammalian developmentally regulated GTP-binding protein
-S000037694	CDS					YGR173W		7	843854	844960	W		2011-02-03	1996-07-31	
-S000006981	long_terminal_repeat		YGRWsigma7			chromosome 7		7	845281	845602	W		2011-02-03	2000-05-19	Ty3 LTR
-S000006581	tRNA_gene		tG(GCC)G1			chromosome 7	L000003837	7	845649	845719	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000037454	noncoding_exon					tG(GCC)G1		7	845649	845719	W		2011-02-03	2000-05-19	
-S000003406	ORF	Verified	YGR174C	CBP4		chromosome 7	L000000227	7	846405	845893	C		2011-02-03	1996-07-31	Mitochondrial protein required for assembly of cytochrome bc1 complex; interacts with the Cbp3p-Cbp6p complex and newly synthesized cytochrome b (Cobp) to promote assembly of Cobp into the cytochrome bc1 complex
-S000037715	CDS					YGR174C		7	846405	845893	C		2011-02-03	1996-07-31	
-S000028639	ORF	Uncharacterized	YGR174W-A			chromosome 7		7	846655	846741	W		2011-02-03	2003-07-29	Putative protein of unknown function; predicted to have a role in cell budding based on computational "guilt by association" analysis
-S000032395	CDS					YGR174W-A		7	846655	846741	W		2011-02-03	2003-07-29	
-S000003407	ORF	Verified	YGR175C	ERG1	squalene monooxygenase	chromosome 7	L000000568	7	848423	846933	C		2011-02-03	1996-07-31	Squalene epoxidase; catalyzes the epoxidation of squalene to 2,3-oxidosqualene; plays an essential role in the ergosterol-biosynthesis pathway and is the specific target of the antifungal drug terbinafine; human SQLE functionally complements the lethality of the erg1 null mutation
-S000037776	CDS					YGR175C		7	848423	846933	C		2011-02-03	1996-07-31	
-S000003408	ORF	Dubious	YGR176W			chromosome 7		7	848720	849067	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030672	CDS					YGR176W		7	848720	849067	W		2011-02-03	1996-07-31	
-S000003409	ORF	Verified	YGR177C	ATF2	alcohol O-acetyltransferase	chromosome 7	L000003345	7	850436	848829	C		2011-02-03	1996-07-31	Alcohol acetyltransferase; may play a role in steroid detoxification; forms volatile esters during fermentation, which is important for brewing and winemaking
-S000030746	CDS					YGR177C		7	850436	848829	C		2011-02-03	1996-07-31	
-S000003410	ORF	Verified	YGR178C	PBP1	MRS16	chromosome 7	L000003967	7	853215	851047	C		2011-02-03	1996-07-31	Component of glucose deprivation induced stress granules; involved in P-body-dependent granule assembly; similar to human ataxin-2; interacts with Pab1p to regulate mRNA polyadenylation; interacts with Mkt1p to regulate HO translation; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress
-S000030834	CDS					YGR178C		7	853215	851047	C		2011-02-03	1996-07-31	
-S000003411	ORF	Verified	YGR179C	OKP1		chromosome 7		7	854895	853675	C		2011-02-03	1996-07-31	Outer kinetochore protein required for accurate chromosome segregation; component of COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) a kinetochore sub-complex which functions as a platform for kinetochore assembly; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-Q and fission yeast fta7
-S000031845	CDS					YGR179C		7	854895	853675	C		2011-02-03	1996-07-31	
-S000003412	ORF	Verified	YGR180C	RNR4	ribonucleotide-diphosphate reductase subunit RNR4|PSO3|CRT3	chromosome 7	L000002819|S000029396|L000004184	7	856301	855264	C		2011-02-03	1996-07-31	Ribonucleotide-diphosphate reductase (RNR) small subunit; the RNR complex catalyzes the rate-limiting step in dNTP synthesis and is regulated by DNA replication and DNA damage checkpoint pathways via localization of the small subunits; relocalizes from nucleus to cytoplasm upon DNA replication stress; RNR4 has a paralog, RNR2, that arose from the whole genome duplication
-S000031850	CDS					YGR180C		7	856301	855264	C		2011-02-03	1996-07-31	
-S000006641	tRNA_gene		tL(CAA)G3			chromosome 7	L000003842	7	857491	857378	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
-S000034251	intron					tL(CAA)G3		7	857453	857422	C		2011-02-03	2000-05-19	
-S000034250	noncoding_exon					tL(CAA)G3		7	857421	857378	C		2011-02-03	2000-05-19	
-S000034249	noncoding_exon					tL(CAA)G3		7	857491	857454	C		2011-02-03	2000-05-19	
-S000003413	ORF	Verified	YGR181W	TIM13	protein translocase subunit TIM13	chromosome 7		7	858287	858604	W		2011-02-03	1996-07-31	Mitochondrial intermembrane space protein; forms a complex with Tim8p that delivers a subset of hydrophobic proteins to the TIM22 complex for insertion into the inner membrane
-S000032812	CDS					YGR181W		7	858287	858604	W		2011-02-03	1996-07-31	
-S000003414	ORF	Dubious	YGR182C			chromosome 7		7	858904	858551	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF TIM13/YGR181W
-S000032855	CDS					YGR182C		7	858904	858551	C		2011-02-03	1996-07-31	
-S000003415	ORF	Verified	YGR183C	QCR9	ubiquinol--cytochrome-c reductase subunit 9|UCR9	chromosome 7	L000001549	7	859476	859063	C	148	2011-02-03	1996-07-31	Subunit 9 of ubiquinol cytochrome-c reductase (Complex III); Complex III is a component of the mitochondrial inner membrane electron transport chain; required for electron transfer at the ubiquinol oxidase site of the complex
-S000032944	CDS					YGR183C		7	859260	859063	C		2011-02-03	1996-07-31	
-S000032943	CDS					YGR183C		7	859476	859474	C		2011-02-03	1996-07-31	
-S000032945	intron					YGR183C		7	859473	859261	C		2011-02-03	1996-07-31	
-S000003416	ORF	Verified	YGR184C	UBR1	E3 ubiquitin-protein ligase UBR1|PTR1	chromosome 7	L000002420	7	865753	859901	C		2011-02-03	1996-07-31	E3 ubiquitin ligase (N-recognin); heterodimerizes with Rad6p to recognize and ubiquitinate substrates of the N-end rule pathway; role in endoplasmic reticulum-associated protein degradation (ERAD) in the absence of canonical ER membrane ligases or after stress; major role in targeting misfolded cytosolic proteins for degradation; regulates peptide transport via Cup9p ubiquitination; mutation in human UBR1 causes Johansson-Blizzard Syndrome (JBS)
-S000033034	CDS					YGR184C		7	865753	859901	C		2011-02-03	1996-07-31	
-S000003417	ORF	Verified	YGR185C	TYS1	tyrosine--tRNA ligase TYS1|TyrRS|TTS1	chromosome 7	L000001105	7	867520	866336	C		2011-02-03	1996-07-31	Cytoplasmic tyrosyl-tRNA synthetase; required for cytoplasmic protein synthesis; interacts with positions 34 and 35 of the tRNATyr anticodon; mutations in human ortholog YARS are associated with Charcot-Marie-Tooth (CMT) neuropathies; human ortholog YARS functionally complements the heat sensitivity of a ts allele; protein abundance increases in response to DNA replication stress
-S000033686	CDS					YGR185C		7	867520	866336	C		2011-02-03	1996-07-31	
-S000003418	ORF	Verified	YGR186W	TFG1	transcription factor IIF subunit TFG1|RAP74|SSU71	chromosome 7	L000002594	7	867774	869981	W		2011-02-03	1996-07-31	TFIIF (Transcription Factor II) largest subunit; involved in both transcription initiation and elongation of RNA polymerase II; homologous to human RAP74
-S000033854	CDS					YGR186W		7	867774	869981	W		2011-02-03	1996-07-31	
-S000003419	ORF	Verified	YGR187C	HGH1		chromosome 7	L000003003	7	871416	870232	C		2011-02-03	1996-07-31	Nonessential protein of unknown function; predicted to be involved in ribosome biogenesis; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; similar to mammalian BRP16 (Brain protein 16); relative distribution to the nucleus increases upon DNA replication stress
-S000033880	CDS					YGR187C		7	871416	870232	C		2011-02-03	1996-07-31	
-S000003420	ORF	Verified	YGR188C	BUB1	protein kinase BUB1	chromosome 7	L000000196	7	875109	872044	C	150	2011-02-03	1996-07-31	Protein kinase involved in the cell cycle checkpoint into anaphase; in complex with Mad1p and Bub3p, prevents progression into anaphase in presence of spindle damage; Cdc28p-mediated phosphorylation at Bub1p-T566 is important for degradation in anaphase and adaptation of checkpoint to prolonged mitotic arrest; associates with centromere DNA via Skp1p; involved in Sgo1p relocalization in response to sister kinetochore tension; paralog MAD3 arose from whole genome duplication
-S000034040	CDS					YGR188C		7	875109	872044	C		2011-02-03	1996-07-31	
-S000006976	long_terminal_repeat		YGRWdelta31			chromosome 7		7	875951	876279	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006623	tRNA_gene		tK(CUU)G3			chromosome 7	L000003838	7	876394	876466	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000029892	noncoding_exon					tK(CUU)G3		7	876394	876466	W		2011-02-03	2000-05-19	
-S000003421	ORF	Verified	YGR189C	CRH1	transglycosylase	chromosome 7	S000007423	7	878192	876669	C		2011-02-03	1996-07-31	Chitin transglycosylase; functions in the transfer of chitin to beta(1-6) and beta(1-3) glucans in the cell wall; similar and functionally redundant to Utr2; localizes to sites of polarized growth; expression induced by cell wall stress
-S000034926	CDS					YGR189C		7	878192	876669	C		2011-02-03	1996-07-31	
-S000006772	tRNA_gene		tW(CCA)G2			chromosome 7	L000003841	7	878815	878710	C		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
-S000032530	intron					tW(CCA)G2		7	878779	878746	C		2011-02-03	2000-05-19	
-S000032529	noncoding_exon					tW(CCA)G2		7	878745	878710	C		2011-02-03	2000-05-19	
-S000032528	noncoding_exon					tW(CCA)G2		7	878815	878780	C		2011-02-03	2000-05-19	
-S000003423	ORF	Verified	YGR191W	HIP1	histidine permease	chromosome 7	L000000775	7	880420	882231	W	146	2011-02-03	1996-07-31	High-affinity histidine permease; also involved in the transport of manganese ions
-S000036175	CDS					YGR191W		7	880420	882231	W		2011-02-03	1996-07-31	
-S000003422	ORF	Dubious	YGR190C			chromosome 7		7	880661	880296	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene HIP1/YGR191W
-S000035932	CDS					YGR190C		7	880661	880296	C		2011-02-03	1996-07-31	
-S000003424	ORF	Verified	YGR192C	TDH3	glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) TDH3|GAPDH|GPD|SSS2|HSP36|HSP35|GLD1	chromosome 7	L000002274	7	883810	882812	C		2011-02-03	1996-07-31	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH), isozyme 3; involved in glycolysis and gluconeogenesis; tetramer that catalyzes the reaction of glyceraldehyde-3-phosphate to 1,3 bis-phosphoglycerate; detected in the cytoplasm and cell wall; GAPDH-derived antimicrobial peptides secreted by S. cerevisiae are active against a wide variety of wine-related yeasts and bacteria; binds AU-rich RNA
-S000036226	CDS					YGR192C		7	883810	882812	C		2011-02-03	1996-07-31	
-S000003425	ORF	Verified	YGR193C	PDX1		chromosome 7	L000001369	7	885741	884509	C		2011-02-03	1996-07-31	E3-binding protein of the mitochondrial pyruvate dehydrogenase complex; plays a structural role in the complex by binding and positioning dihydrolipoamide dehydrogenase (E3) to the dihydrolipoamide acetyltransferase (E2) core
-S000036958	CDS					YGR193C		7	885741	884509	C		2011-02-03	1996-07-31	
-S000003426	ORF	Verified	YGR194C	XKS1	xylulokinase	chromosome 7		7	887875	886073	C		2011-02-03	1996-07-31	Xylulokinase; converts D-xylulose and ATP to xylulose 5-phosphate and ADP; rate limiting step in fermentation of xylulose; required for xylose fermentation by recombinant S. cerevisiae strains
-S000037017	CDS					YGR194C		7	887875	886073	C		2011-02-03	1996-07-31	
-S000119032	ARS		ARS737		ARSVII-888|ARS731.5	chromosome 7		7	888413	888493			2014-11-18	2014-11-18|2006-10-03	Autonomously Replicating Sequence
-S000119033	ARS_consensus_sequence					ARS737		7	888414	888430	W		2014-11-18	2014-11-18|2006-10-03	
-S000003427	ORF	Verified	YGR195W	SKI6	exosome non-catalytic core subunit SKI6|RRP41|ECM20	chromosome 7	L000003895|L000004426	7	888882	889622	W		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp41p (EXOSC4)
-S000037164	CDS					YGR195W		7	888882	889622	W		2011-02-03	1996-07-31	
-S000003428	ORF	Verified	YGR196C	FYV8		chromosome 7		7	892186	889733	C		2011-02-03	1996-07-31	Protein of unknown function; required for survival upon exposure to K1 killer toxin
-S000037853	CDS					YGR196C		7	892186	889733	C		2011-02-03	1996-07-31	
-S000003429	ORF	Verified	YGR197C	SNG1		chromosome 7	L000002747	7	894140	892497	C		2011-02-03	1996-07-31	Protein involved in resistance to nitrosoguanidine and 6-azauracil; expression is regulated by transcription factors involved in multidrug resistance; SNG1 has a paralog, YJR015W, that arose from the whole genome duplication
-S000029875	CDS					YGR197C		7	894140	892497	C		2011-02-03	1996-07-31	
-S000003430	ORF	Verified	YGR198W	YPP1		chromosome 7		7	894693	897146	W		2011-02-03	1996-07-31	Cargo-transport protein involved in endocytosis; interacts with phosphatidylinositol-4-kinase Stt4p; is required, along with Efr3p, for the assembly and recruitment of multiple copies of the kinase into phosphoinositide kinase (PIK) patches at the plasma membrane; positively regulates Stt4p; GFP-fusion protein localizes to the cytoplasm; YGR198W is an essential gene
-S000030951	CDS					YGR198W		7	894693	897146	W		2011-02-03	1996-07-31	
-S000003431	ORF	Verified	YGR199W	PMT6	dolichyl-phosphate-mannose-protein mannosyltransferase PMT6	chromosome 7	L000004009|L000004020	7	897502	899781	W		2011-02-03	1996-07-31	Protein O-mannosyltransferase; transfers mannose from dolichyl phosphate-D-mannose to protein serine/threonine residues of secretory proteins; reaction is essential for cell wall rigidity; member of a family of mannosyltransferases
-S000031053	CDS					YGR199W		7	897502	899781	W		2011-02-03	1996-07-31	
-S000003432	ORF	Verified	YGR200C	ELP2	Elongator subunit ELP2|KTI3|TOT2	chromosome 7		7	902270	899904	C		2011-02-03	1996-07-31	Subunit of Elongator complex; binds to microtubules via conserved alkaline residues; has two seven-bladed WD40 β propellers; Elongator complex is required for modification of wobble nucleosides in tRNA; target of Kluyveromyces lactis zymocin
-S000036532	CDS					YGR200C		7	902270	899904	C		2011-02-03	1996-07-31	
-S000003433	ORF	Uncharacterized	YGR201C			chromosome 7		7	903197	902520	C		2011-02-03	2003-09-22|1996-07-31	Putative protein of unknown function
-S000036618	CDS					YGR201C		7	903197	902520	C		2011-02-03	2003-09-22|1996-07-31	
-S000003434	ORF	Verified	YGR202C	PCT1	choline-phosphate cytidylyltransferase|CCT1|BSR2	chromosome 7	L000000240	7	904748	903474	C		2011-02-03	1996-07-31	Cholinephosphate cytidylyltransferase; a rate-determining enzyme of the CDP-choline pathway for phosphatidylcholine synthesis, inhibited by Sec14p, activated upon lipid-binding; contains an element within the regulatory domain involved in both silencing and activation of enzymatic activity
-S000036716	CDS					YGR202C		7	904748	903474	C		2011-02-03	1996-07-31	
-S000003435	ORF	Verified	YGR203W	YCH1	phosphatase YCH1	chromosome 7		7	905237	905683	W		2011-02-03	1996-07-31	Phosphatase with sequence similarity to Cdc25p; Arr2p and Mih1p; member of the single-domain rhodanese homology superfamily; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
-S000030650	CDS					YGR203W		7	905237	905683	W		2011-02-03	1996-07-31	
-S000003436	ORF	Verified	YGR204W	ADE3	trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3	chromosome 7	L000000033	7	905934	908774	W	159	2011-02-03	1996-07-31	Cytoplasmic trifunctional enzyme C1-tetrahydrofolate synthase; involved in single carbon metabolism and required for biosynthesis of purines, thymidylate, methionine, and histidine; null mutation causes auxotrophy for adenine and histidine
-S000030764	CDS					YGR204W		7	905934	908774	W		2011-02-03	1996-07-31	
-S000028640	ORF	Uncharacterized	YGR204C-A			chromosome 7		7	909174	909061	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032416	CDS					YGR204C-A		7	909174	909061	C		2011-02-03	2003-07-29	
-S000003437	ORF	Verified	YGR205W	TDA10	putative ATP-dependent kinase	chromosome 7		7	909213	910085	W		2011-02-03	1996-07-31	ATP-binding protein of unknown function; crystal structure resembles that of E.coli pantothenate kinase and other small kinases; null mutant is sensitive to expression of the top1-T722A allele
-S000030854	CDS					YGR205W		7	909213	910085	W		2011-02-03	1996-07-31	
-S000003438	ORF	Verified	YGR206W	MVB12	ubiquitin-binding ESCRT-I subunit protein MVB12	chromosome 7		7	910432	910737	W		2011-02-03	1996-07-31	ESCRT-I subunit required to stabilize ESCRT-I core complex oligomers; the ESCRT-I core complex (Stp22p, Vps28p, Srn2p) is involved in ubiquitin-dependent sorting of proteins into the endosome; deletion mutant is sensitive to rapamycin and nystatin
-S000031833	CDS					YGR206W		7	910432	910737	W		2011-02-03	1996-07-31	
-S000003439	ORF	Verified	YGR207C	CIR1		chromosome 7		7	911628	910843	C		2011-02-03	1996-07-31	Mitochondrial protein that interacts with frataxin (Yfh1p); putative ortholog of mammalian electron transfer flavoprotein complex subunit ETF-beta; may have a role in oxidative stress response
-S000031940	CDS					YGR207C		7	911628	910843	C		2011-02-03	1996-07-31	
-S000003440	ORF	Verified	YGR208W	SER2	phosphoserine phosphatase	chromosome 7	L000001866	7	911883	912812	W	168	2011-02-03	1996-07-31	Phosphoserine phosphatase of the phosphoglycerate pathway; involved in serine and glycine biosynthesis, expression is regulated by the available nitrogen source
-S000032117	CDS					YGR208W		7	911883	912812	W		2011-02-03	1996-07-31	
-S000003441	ORF	Verified	YGR209C	TRX2	thioredoxin TRX2|LMA1	chromosome 7	L000002358	7	913227	912913	C	161	2011-02-03	1996-07-31	Cytoplasmic thioredoxin isoenzyme; part of thioredoxin system which protects cells against oxidative and reductive stress; forms LMA1 complex with Pbi2p; acts as a cofactor for Tsa1p; required for ER-Golgi transport and vacuole inheritance; with Trx1p, facilitates mitochondrial import of small Tims Tim9p, Tim10p, Tim13p by maintaining them in reduced form; abundance increases under DNA replication stress; TRX2 has a paralog, TRX1, that arose from the whole genome duplication
-S000032991	CDS					YGR209C		7	913227	912913	C		2011-02-03	1996-07-31	
-S000003442	ORF	Uncharacterized	YGR210C			chromosome 7		7	914738	913503	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000032713	CDS					YGR210C		7	914738	913503	C		2011-02-03	1996-07-31	
-S000003443	ORF	Verified	YGR211W	ZPR1	zinc finger-containing protein ZPR1	chromosome 7	L000004700	7	915241	916701	W		2011-02-03	1996-07-31	Essential protein with two zinc fingers; present in nucleus of growing cells, relocates to cytoplasm in starved cells via a process mediated by Cpr1p; binds translation elongation factor eEF-1 (Tef1p); relative distribution to nucleus increases upon DNA replication stress; human ZPR1 gene can complement yeast by allowing growth during down-regulation of yeast zpr1
-S000032885	CDS					YGR211W		7	915241	916701	W		2011-02-03	1996-07-31	
-S000003444	ORF	Verified	YGR212W	SLI1	N-acetyltransferase	chromosome 7		7	917040	918446	W		2011-02-03	1996-07-31	N-acetyltransferase; confers resistance to the sphingolipid biosynthesis inhibitor myriocin (ISP-1) by converting it into N-acetyl-myriocin, co-operates with Ypk1p in mediating resistance to myriocin
-S000034830	CDS					YGR212W		7	917040	918446	W		2011-02-03	1996-07-31	
-S000003445	ORF	Verified	YGR213C	RTA1		chromosome 7	L000003245	7	919465	918512	C		2011-02-03	1996-07-31	Protein involved in 7-aminocholesterol resistance; has seven potential membrane-spanning regions; expression is induced under both low-heme and low-oxygen conditions; member of the fungal lipid-translocating exporter (LTE) family of protein; RTA1 has a paralog, YLR046C, that arose from the whole genome duplication
-S000034869	CDS					YGR213C		7	919465	918512	C		2011-02-03	1996-07-31	
-S000003446	ORF	Verified	YGR214W	RPS0A	uS2|ribosomal 40S subunit protein S0A|S2|S0A|YST1|NAB1A|NAB1	chromosome 7	L000001226|L000001225	7	920575	921788	W		2011-02-03	1996-07-31	Ribosomal 40S subunit protein S0A; required for maturation of 18S rRNA along with Rps0Bp; deletion of either RPS0 gene reduces growth rate, deletion of both genes is lethal; homologous to human ribosomal protein SA and bacterial S2; RPS0A has a paralog, RPS0B, that arose from the whole genome duplication;
-S000035102	CDS					YGR214W		7	920575	920664	W		2011-02-03	1996-07-31	
-S000035103	CDS					YGR214W		7	921120	921788	W		2011-02-03	1996-07-31	
-S000035104	intron					YGR214W		7	920665	921119	W		2011-02-03	1996-07-31	
-S000003447	ORF	Verified	YGR215W	RSM27	mitochondrial 37S ribosomal protein RSM27	chromosome 7		7	922175	922507	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000035176	CDS					YGR215W		7	922175	922507	W		2011-02-03	1996-07-31	
-S000003448	ORF	Verified	YGR216C	GPI1	phosphatidylinositol N-acetylglucosaminyltransferase	chromosome 7	L000000725	7	924462	922633	C		2011-02-03	1996-07-31	Membrane protein involved in the synthesis of GlcNAc-PI; N-acetylglucosaminyl phosphatidylinositol (GlcNAc-PI) is the first intermediate in the synthesis of glycosylphosphatidylinositol (GPI) anchors; human and mouse GPI1p are functional homologs
-S000035248	CDS					YGR216C		7	924462	922633	C		2011-02-03	1996-07-31	
-S000003449	ORF	Verified	YGR217W	CCH1		chromosome 7	L000003440	7	924696	930815	W		2011-02-03	1996-07-31	Voltage-gated high-affinity calcium channel; involved in calcium influx in response to some environmental stresses as well as exposure to mating pheromones; interacts and partially co-localizes with Mid1p; however, evidence suggests CCH1 is not required for Mid1p function
-S000036194	CDS					YGR217W		7	924696	930815	W		2011-02-03	1996-07-31	
-S000006582	tRNA_gene		tG(GCC)G2			chromosome 7	L000003840	7	931023	930953	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
-S000037457	noncoding_exon					tG(GCC)G2		7	931023	930953	C		2011-02-03	2000-05-19	
-S000006961	long_terminal_repeat		YGRCtau3			chromosome 7		7	931540	931171	C		2011-02-03	2000-05-19	Ty4 LTR
-S000006977	long_terminal_repeat		YGRWdelta32			chromosome 7		7	931688	932019	W		2011-02-03	2000-05-19	Ty1 LTR
-S000003450	ORF	Verified	YGR218W	CRM1	exportin CRM1|XPO1|KAP124	chromosome 7	L000000420	7	932541	935795	W		2011-02-03	1996-07-31	Major karyopherin; involved in export of proteins, RNAs, and ribosomal subunits from the nucleus; exportin
-S000029874	CDS					YGR218W		7	932541	935795	W		2011-02-03	1996-07-31	
-S000003451	ORF	Dubious	YGR219W			chromosome 7		7	936035	936376	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MRPL9/YGR220C
-S000031776	CDS					YGR219W		7	936035	936376	W		2011-02-03	1996-07-31	
-S000003452	ORF	Verified	YGR220C	MRPL9	mitochondrial 54S ribosomal protein YmL9|YmL9	chromosome 7	L000001163|L000002525	7	936883	936074	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000036227	CDS					YGR220C		7	936883	936074	C		2011-02-03	1996-07-31	
-S000003453	ORF	Verified	YGR221C	TOS2		chromosome 7		7	938992	937124	C		2011-02-03	1996-07-31|2011-02-03	Protein involved in localization of Cdc24p to the site of bud growth; may act as a membrane anchor; localizes to the bud neck and bud tip; potentially phosphorylated by Cdc28p; TOS2 has a paralog, SKG6, that arose from the whole genome duplication
-S000036329	CDS					YGR221C		7	938992	937124	C		2011-02-03	1996-07-31|2011-02-03	
-S000006495	snRNA_gene		snR7-L	SNR7-L	U5L|SNR7	chromosome 7		7	939672	939459	C		2011-02-03	2004-03-30	U5 spliceosomal RNA (U5 snRNA), long form; associated with spliceosome
-S000033299	noncoding_exon					snR7-L		7	939672	939459	C		2011-02-03	2004-03-30	
-S000006496	snRNA_gene		snR7-S	SNR7-S	U5S|SNR7	chromosome 7		7	939672	939494	C		2011-02-03	2004-04-01	U5 spliceosomal RNA (U5 snRNA), short form; derived from SNR7-L by 3' end processing; associated with spliceosome
-S000033320	noncoding_exon					snR7-S		7	939672	939494	C		2011-02-03	2004-04-01	
-S000003454	ORF	Verified	YGR222W	PET54		chromosome 7	L000001391	7	939923	940804	W	174	2011-02-03	1996-07-31	Mitochondrial inner membrane protein; binds to the 5' UTR of the COX3 mRNA to activate its translation together with Pet122p and Pet494p; also binds to the COX1 Group I intron AI5 beta to facilitate exon ligation during splicing
-S000036470	CDS					YGR222W		7	939923	940804	W		2011-02-03	1996-07-31	
-S000003455	ORF	Verified	YGR223C	HSV2		chromosome 7		7	942215	940869	C		2011-02-03	1996-07-31	Phosphatidylinositol 3,5-bisphosphate-binding protein; plays a role in micronucleophagy; belongs to the PROPPIN family of proteins; predicted to fold as a seven-bladed beta-propeller; displays punctate cytoplasmic localization
-S000036479	CDS					YGR223C		7	942215	940869	C		2011-02-03	1996-07-31	
-S000003456	ORF	Verified	YGR224W	AZR1	azole transporter	chromosome 7		7	942806	944647	W		2011-02-03	1996-07-31	Plasma membrane transporter of the major facilitator superfamily; involved in resistance to azole drugs such as ketoconazole and fluconazole
-S000037202	CDS					YGR224W		7	942806	944647	W		2011-02-03	1996-07-31	
-S000003457	ORF	Verified	YGR225W	AMA1	SPO70	chromosome 7	L000004668	7	945145	947019	W		2011-02-03	2000-12-01|1996-07-31|2005-11-29	Activator of meiotic anaphase promoting complex (APC/C); Cdc20p family member; required for initiation of spore wall assembly; required for Clb1p degradation during meiosis; prevents premature assembly of the meiosis I spindle, required for DSB induced prophase I arrest
-S000037306	CDS					YGR225W		7	945145	946327	W		2011-02-03	2000-12-01|1996-07-31	
-S000037307	CDS					YGR225W		7	946421	947019	W		2011-02-03	2000-12-01|2005-11-29	
-S000037308	intron					YGR225W		7	946328	946420	W		2011-02-03	2000-12-01	
-S000003458	ORF	Dubious	YGR226C			chromosome 7		7	947001	946792	C		2011-02-03	1996-07-31|2005-11-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; overlaps significantly with a verified ORF, AMA1/YGR225W
-S000037323	CDS					YGR226C		7	947001	946792	C		2011-02-03	1996-07-31|2005-11-29	
-S000003459	ORF	Verified	YGR227W	DIE2	dolichyl-P-Glc:Glc(2)Man(9)GlcNAc(2)-PP-dolichol alpha-1,2- glucosyltransferase|ALG10	chromosome 7	L000002802	7	947420	948997	W		2011-02-03	1996-07-31|2011-02-03	Dolichyl-phosphoglucose-dependent alpha-1,2-glucosyltransferase; located in the ER; functions in pathway that synthesizes the dolichol-linked oligosaccharide precursor for N-linked protein glycosylation; has a role in regulation of ITR1 and INO1; human homolog ALG10B can complement yeast die2 null mutant
-S000029996	CDS					YGR227W		7	947420	948997	W		2011-02-03	1996-07-31|2011-02-03	
-S000003460	ORF	Dubious	YGR228W			chromosome 7		7	949365	949709	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SMI1/YGR229C
-S000030071	CDS					YGR228W		7	949365	949709	W		2011-02-03	1996-07-31	
-S000003461	ORF	Verified	YGR229C	SMI1	KNR4	chromosome 7	L000000909	7	950899	949382	C		2011-02-03	1996-07-31	Protein involved in the regulation of cell wall synthesis; proposed to be involved in coordinating cell cycle progression with cell wall integrity
-S000030134	CDS					YGR229C		7	950899	949382	C		2011-02-03	1996-07-31	
-S000003462	ORF	Verified	YGR230W	BNS1		chromosome 7	L000004859	7	951894	952307	W		2011-02-03	1996-07-31	Protein of unknown function; overexpression bypasses need for Spo12p, but not required for meiosis; BNS1 has a paralog, SPO12, that arose from the whole genome duplication
-S000032548	CDS					YGR230W		7	951894	952307	W		2011-02-03	1996-07-31	
-S000003463	ORF	Verified	YGR231C	PHB2	prohibitin subunit PHB2	chromosome 7	L000004019	7	953480	952548	C		2011-02-03	2004-07-15|1996-07-31	Subunit of the prohibitin complex (Phb1p-Phb2p); prohibitin is a 1.2 MDa ring-shaped inner mitochondrial membrane chaperone that stabilizes newly synthesized proteins; determinant of replicative life span; involved in mitochondrial segregation; prohibitin deficiency induces a mitochondrial unfolded protein response (mtUPR)
-S000032579	CDS					YGR231C		7	953480	952548	C		2011-02-03	2004-07-15|1996-07-31	
-S000003464	ORF	Verified	YGR232W	NAS6		chromosome 7		7	953960	954646	W		2011-02-03	1996-07-31	Evolutionarily conserved 19S regulatory particle assembly-chaperone; proteasome-interacting protein involved in the assembly of the base subcomplex of the 19S proteasomal regulatory particle (RP); ortholog of human oncoprotein gankyrin, also known as p28, which interacts with the Rb tumor suppressor and CDK4/6
-S000033340	CDS					YGR232W		7	953960	954646	W		2011-02-03	1996-07-31	
-S000003465	ORF	Verified	YGR233C	PHO81	VAC6|phoS	chromosome 7	L000001427|S000029634|L000004050	7	958210	954674	C		2011-02-03	1996-07-31	Cyclin-dependent kinase (CDK) inhibitor; regulates Pho80p-Pho85p and Pcl7p-Pho85p cyclin-CDK complexes in response to phosphate levels; inhibitory activity for Pho80p-Pho85p requires myo-D-inositol heptakisphosphate (IP7) generated by Vip1p; relative distribution to the nucleus increases upon DNA replication stress
-S000033365	CDS					YGR233C		7	958210	954674	C		2011-02-03	1996-07-31	
-S000003466	ORF	Verified	YGR234W	YHB1	flavohemoglobin|YHB4	chromosome 7	L000002510	7	959904	961103	W		2011-02-03	1996-07-31	Nitric oxide oxidoreductase; flavohemoglobin that plays role in oxidative and nitrosative stress responses; protects against nitration of cellular targets and against cell growth inhibition under aerobic or anaerobic conditions; yeast flavohemoglobin Yhb1p and human homolog neuroglobin NGB protect cells against alpha-synuclein cytotoxicity and aggregate formation; protein increases in abundance, relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
-S000033479	CDS					YGR234W		7	959904	961103	W		2011-02-03	1996-07-31	
-S000003467	ORF	Verified	YGR235C	MIC26	MOS2|MCS29|MIO27	chromosome 7		7	962061	961360	C		2011-02-03	1996-07-31	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; Mic26p is a non-essential component of the complex
-S000033513	CDS					YGR235C		7	962061	961360	C		2011-02-03	1996-07-31	
-S000003468	ORF	Verified	YGR236C	SPG1		chromosome 7		7	962817	962530	C		2011-02-03	1996-07-31|2005-11-22	Protein required for high temperature survival during stationary phase; not required for growth on nonfermentable carbon sources; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000033575	CDS					YGR236C		7	962817	962530	C		2011-02-03	1996-07-31|2005-11-22	
-S000003469	ORF	Uncharacterized	YGR237C			chromosome 7		7	965655	963298	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000034450	CDS					YGR237C		7	965655	963298	C		2011-02-03	1996-07-31	
-S000003470	ORF	Verified	YGR238C	KEL2		chromosome 7	L000003593	7	968687	966039	C		2011-02-03	1996-07-31	Protein that negatively regulates mitotic exit; forms a complex with Kel1p and Bud14p that regulates Bnr1p (formin) to affect actin cable assembly, cytokinesis, and polarized growth; functions in a complex with Kel1p, interacts with Tem1p and Lte1p; localizes to regions of polarized growth; potential Cdc28p substrate
-S000034584	CDS					YGR238C		7	968687	966039	C		2011-02-03	1996-07-31	
-S000003471	ORF	Verified	YGR239C	PEX21		chromosome 7	L000004797	7	970053	969187	C		2011-02-03	1996-07-31	Peroxin required for peroxisomal matrix protein targeting; acts on proteins containing the PTS2 targeting sequence; interacts with Pex7p; constitutively expressed; partially redundant with Pex18p; required for import of the Gpd1p-Pnc1p heterodimer in which only Gpd1p has a peroxisomal targeting signal; relative distribution to cytoplasmic foci increases upon DNA replication stress
-S000034676	CDS					YGR239C		7	970053	969187	C		2011-02-03	1996-07-31	
-S000003472	ORF	Verified	YGR240C	PFK1	6-phosphofructokinase subunit alpha	chromosome 7	L000001404	7	973734	970771	C	184	2011-02-03	1996-07-31	Alpha subunit of heterooctameric phosphofructokinase; involved in glycolysis, indispensable for anaerobic growth, activated by fructose-2,6-bisphosphate and AMP, mutation inhibits glucose induction of cell cycle-related genes
-S000036620	CDS					YGR240C		7	973734	970771	C		2011-02-03	1996-07-31	
-S000028551	ORF	Uncharacterized	YGR240C-A			chromosome 7		7	974777	974577	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031237	CDS					YGR240C-A		7	974777	974577	C		2011-02-03	2003-07-29	
-S000003474	ORF	Dubious	YGR242W			chromosome 7		7	976415	976723	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YAP1802/YGR241C
-S000036776	CDS					YGR242W		7	976415	976723	W		2011-02-03	1996-07-31	
-S000003473	ORF	Verified	YGR241C	YAP1802		chromosome 7	L000004199	7	976581	974875	C		2011-02-03	1996-07-31	Protein of the AP180 family, involved in clathrin cage assembly; binds Pan1p and clathrin; YAP1802 has a paralog, YAP1801, that arose from the whole genome duplication
-S000036696	CDS					YGR241C		7	976581	974875	C		2011-02-03	1996-07-31	
-S000003475	ORF	Verified	YGR243W	MPC3	mitochondrial pyruvate carrier|FMP43	chromosome 7		7	977336	977776	W		2011-02-03	1996-07-31	Highly conserved subunit of the mitochondrial pyruvate carrier (MPC); expressed during growth on nonfermentable carbon sources, and heterodimerizes with Mpc1p to form the respiratory isoform of MPC; MPC localizes to the mitochondrial inner membrane and mediates pyruvate uptake; MPC3 paralog, MPC2, heterodimerizes with Mpc1p to form the fermentative MPC isoform; protein abundance increases in response to DNA replication stress
-S000036844	CDS					YGR243W		7	977336	977776	W		2011-02-03	1996-07-31	
-S000118467	ARS		ARS733		ARSVII-978	chromosome 7		7	977728	977976			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000119031	ARS_consensus_sequence					ARS733		7	977905	977891	C		2011-02-03	2006-10-03	
-S000003476	ORF	Verified	YGR244C	LSC2	succinate--CoA ligase (GDP-forming) subunit beta	chromosome 7	L000004592	7	979319	978036	C		2011-02-03	1996-07-31	Beta subunit of succinyl-CoA ligase; succinyl-CoA ligase is a mitochondrial enzyme of the TCA cycle that catalyzes the nucleotide-dependent conversion of succinyl-CoA to succinate
-S000036869	CDS					YGR244C		7	979319	978036	C		2011-02-03	1996-07-31	
-S000003477	ORF	Verified	YGR245C	SDA1		chromosome 7		7	982068	979765	C		2011-02-03	1996-07-31	Protein required for actin organization and passage through Start; highly conserved nuclear protein; required for actin cytoskeleton organization; plays a critical role in G1 events; binds Nap1p; involved in 60S ribosome biogenesis
-S000037596	CDS					YGR245C		7	982068	979765	C		2011-02-03	1996-07-31	
-S000003478	ORF	Verified	YGR246C	BRF1	transcription factor TFIIIB subunit BRF1|TFIIIB70|TDS4|PCF4	chromosome 7	L000000193	7	984272	982482	C		2011-02-03	1996-07-31	TFIIIB B-related factor; one of three subunits of RNA polymerase III transcription initiation factor TFIIIB, binds TFIIIC and TBP and recruits RNA pol III to promoters, amino-terminal half is homologous to TFIIB; mutations in human homolog are associated with autosomal recessive cerebellar-facial-dental syndrome
-S000037668	CDS					YGR246C		7	984272	982482	C		2011-02-03	1996-07-31	
-S000003479	ORF	Verified	YGR247W	CPD1	2',3'-cyclic-nucleotide 3'-phosphodiesterase	chromosome 7		7	984966	985685	W		2011-02-03	1996-07-31	Cyclic nucleotide phosphodiesterase; hydrolyzes ADP-ribose 1'', 2''-cyclic phosphate to ADP-ribose 1''-phosphate; may have a role in tRNA splicing; no detectable phenotype is conferred by null mutation or by overexpression; protein abundance increases in response to DNA replication stress
-S000037753	CDS					YGR247W		7	984966	985685	W		2011-02-03	1996-07-31	
-S000003480	ORF	Verified	YGR248W	SOL4	6-phosphogluconolactonase SOL4	chromosome 7	L000003365	7	985972	986739	W		2011-02-03	1996-07-31	6-phosphogluconolactonase; protein abundance increases in response to DNA replication stress; SOL4 has a paralog, SOL3, that arose from the whole genome duplication
-S000030588	CDS					YGR248W		7	985972	986739	W		2011-02-03	1996-07-31	
-S000003481	ORF	Verified	YGR249W	MGA1		chromosome 7	L000001100	7	988049	989419	W		2011-02-03	1996-07-31	Protein similar to heat shock transcription factor; multicopy suppressor of pseudohyphal growth defects of ammonium permease mutants
-S000030700	CDS					YGR249W		7	988049	989419	W		2011-02-03	1996-07-31	
-S000003482	ORF	Verified	YGR250C	RIE1		chromosome 7		7	993521	991176	C		2011-02-03	1996-07-31	Putative RNA binding protein; localizes to stress granules induced by glucose deprivation; interacts with Rbg1p in a two-hybrid assay; protein abundance increases in response to DNA replication stress
-S000031515	CDS					YGR250C		7	993521	991176	C		2011-02-03	1996-07-31	
-S000003483	ORF	Verified	YGR251W	NOP19	DHI1	chromosome 7		7	995639	996229	W		2011-02-03	1996-07-31	Ribosome biogenesis factor; nucleolar protein associated with pre-rRNA components of the 90S preribosome, required for cleavage of pre-rRNA at A0, A1 and A2 sites; interacts with RNA helicase Dhr2p and RNA helicase-like protein Utp25p; required for incorporation of Utp25p into preribosomes
-S000031667	CDS					YGR251W		7	995639	996229	W		2011-02-03	1996-07-31	
-S000003484	ORF	Verified	YGR252W	GCN5	histone acetyltransferase GCN5|AAS104|KAT2|SWI9|ADA4	chromosome 7	L000000684	7	996869	998188	W		2011-02-03	1996-07-31	Catalytic subunit of ADA and SAGA histone acetyltransferase complexes; modifies N-terminal lysines on histones H2B and H3; acetylates Rsc4p, a subunit of the RSC chromatin-remodeling complex, altering replication stress tolerance; relocalizes to the cytosol in response to hypoxia; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; greater involvement in repression of RNAPII-dependent transcription than in activation
-S000031757	CDS					YGR252W		7	996869	998188	W		2011-02-03	1996-07-31	
-S000003485	ORF	Verified	YGR253C	PUP2	proteasome core particle subunit alpha 5|DOA5	chromosome 7	L000001531	7	999140	998358	C		2011-02-03	1996-07-31	Alpha 5 subunit of the 20S proteasome; involved in ubiquitin-dependent catabolism; human homolog is subunit zeta
-S000031854	CDS					YGR253C		7	999140	998358	C		2011-02-03	1996-07-31	
-S000118468	ARS		ARS734		ARSVII-999	chromosome 7		7	999456	999576			2014-11-18	2014-11-18|2006-08-30|2011-02-03	Autonomously Replicating Sequence
-S000178104	ARS_consensus_sequence					ARS734		7	999504	999520	W		2014-11-18	2014-11-18	
-S000003486	ORF	Verified	YGR254W	ENO1	phosphopyruvate hydratase ENO1|HSP48	chromosome 7	L000000559	7	1000927	1002240	W		2011-02-03	1996-07-31	Enolase I, a phosphopyruvate hydratase; catalyzes conversion of 2-phosphoglycerate to phosphoenolpyruvate during glycolysis and the reverse reaction during gluconeogenesis; expression repressed in response to glucose; protein abundance increases in response to DNA replication stress; N-terminally propionylated in vivo; ENO1 has a paralog, ENO2, that arose from the whole genome duplication
-S000032820	CDS					YGR254W		7	1000927	1002240	W		2011-02-03	1996-07-31	
-S000130168	ARS		ARS735			chromosome 7		7	1002239	1002522			2011-02-03	2009-05-07	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
-S000003487	ORF	Verified	YGR255C	COQ6	putative N,N-dimethylaniline monooxygenase COQ6	chromosome 7	L000003876	7	1003962	1002523	C		2011-02-03	1996-07-31	Flavin-dependent monooxygenase involved in ubiquinone biosynthesis; responsible for hydroxylation at position C5 and deamination at C4 during ubiquinone (Coenzyme Q) biosynthesis; localizes to matrix face of mitochondrial inner membrane in a large complex with other ubiquinone biosynthetic enzymes; human homolog COQ6 can complement yeast null mutant and is implicated in steroid-resistant nephrotic syndrome (SRNS)
-S000032856	CDS					YGR255C		7	1003962	1002523	C		2011-02-03	1996-07-31	
-S000006750	tRNA_gene		tT(UGU)G2			chromosome 7	L000003839	7	1004216	1004287	W		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000030915	noncoding_exon					tT(UGU)G2		7	1004216	1004287	W		2011-02-03	2000-05-19	
-S000003488	ORF	Verified	YGR256W	GND2	phosphogluconate dehydrogenase (decarboxylating) GND2	chromosome 7	L000003352	7	1004624	1006102	W		2011-02-03	1996-07-31	6-phosphogluconate dehydrogenase (decarboxylating); catalyzes an NADPH regenerating reaction in the pentose phosphate pathway; required for growth on D-glucono-delta-lactone; GND2 has a paralog, GND1, that arose from the whole genome duplication
-S000033003	CDS					YGR256W		7	1004624	1006102	W		2011-02-03	1996-07-31	
-S000003489	ORF	Verified	YGR257C	MTM1		chromosome 7		7	1007305	1006205	C		2011-02-03	1996-07-31	Mitochondrial protein of the mitochondrial carrier family; high affinity pyridoxal 5'-phosphate (PLP) transporter, important for delivery of PLP cofactor to mitochondrial enzymes; involved in mitochondrial iron homeostasis and in activating mitochondrial Sod2p by facilitating insertion of an essential manganese cofactor
-S000033036	CDS					YGR257C		7	1007305	1006205	C		2011-02-03	1996-07-31	
-S000003490	ORF	Verified	YGR258C	RAD2	ssDNA endodeoxyribonuclease RAD2	chromosome 7	L000001556	7	1010766	1007671	C	192	2011-02-03	1996-07-31	Single-stranded DNA endonuclease; cleaves single-stranded DNA during nucleotide excision repair to excise damaged DNA; subunit of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPG protein
-S000033688	CDS					YGR258C		7	1010766	1007671	C		2011-02-03	1996-07-31	
-S000077075	matrix_attachment_site		ETC4	ETC4		chromosome 7		7	1010927	1010949	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; remains predominantly localized to the nuclear periphery throughout cell cycle; located between divergently transcribed genes RAD2 and TNA1
-S000003492	ORF	Verified	YGR260W	TNA1		chromosome 7		7	1012485	1014089	W		2011-02-03	1996-07-31	High affinity nicotinic acid plasma membrane permease; responsible for uptake of low levels of nicotinic acid; expression of the gene increases in the absence of extracellular nicotinic acid or para-aminobenzoate (PABA)
-S000034815	CDS					YGR260W		7	1012485	1014089	W		2011-02-03	1996-07-31	
-S000003491	ORF	Dubious	YGR259C			chromosome 7		7	1012921	1012481	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF TNA1/YGR260W
-S000033805	CDS					YGR259C		7	1012921	1012481	C		2011-02-03	1996-07-31	
-S000003493	ORF	Verified	YGR261C	APL6	YKS5	chromosome 7	L000003034	7	1016750	1014321	C		2011-02-03	1996-07-31	Beta3-like subunit of the yeast AP-3 complex; functions in transport of alkaline phosphatase to the vacuole via the alternate pathway; exists in both cytosolic and peripherally associated membrane-bound pools
-S000034880	CDS					YGR261C		7	1016750	1014321	C		2011-02-03	1996-07-31	
-S000003494	ORF	Verified	YGR262C	BUD32	serine/threonine protein kinase BUD32|LDB14	chromosome 7		7	1017759	1016974	C		2011-02-03	1996-07-31	Protein kinase; component of the EKC/KEOPS complex with Kae1p, Cgi121p, Pcc1p, and Gon7p; Pyrococcus Bud32 ortholog functions as a P-loop ATPase rather than a protein kinase in the context of the complex; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription; mutation is functionally complemented by human TP53RK
-S000034994	CDS					YGR262C		7	1017759	1016974	C		2011-02-03	1996-07-31	
-S000003495	ORF	Verified	YGR263C	SAY1	steryl deacetylase	chromosome 7		7	1019241	1017967	C		2011-02-03	1996-07-31	Sterol deacetylase; component of the sterol acetylation/deacetylation cycle along with Atf2p; active both in the endoplasmic reticulum (ER) and in lipid droplets; integral membrane protein with active site in the ER lumen; green fluorescent protein (GFP)-fusion protein localizes to the ER
-S000035935	CDS					YGR263C		7	1019241	1017967	C		2011-02-03	1996-07-31	
-S000003497	ORF	Dubious	YGR265W			chromosome 7		7	1021648	1022058	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MES1/YGR264C, which encodes methionyl-tRNA synthetase
-S000036929	CDS					YGR265W		7	1021648	1022058	W		2011-02-03	1996-07-31	
-S000003496	ORF	Verified	YGR264C	MES1	methionine--tRNA ligase MES1|MetRS|MESI	chromosome 7	L000001075	7	1021853	1019598	C	204	2011-02-03	1996-07-31	Methionyl-tRNA synthetase; forms a complex with glutamyl-tRNA synthetase (Gus1p) and Arc1p, which increases the catalytic efficiency of both tRNA synthetases; also has a role in nuclear export of tRNAs; mutations in human ortholog MARS are associated with pediatric pulmonary alveolar proteinosis
-S000036088	CDS					YGR264C		7	1021853	1019598	C		2011-02-03	1996-07-31	
-S000003498	ORF	Verified	YGR266W			chromosome 7		7	1022656	1024761	W		2011-02-03	1996-07-31	Protein of unknown function; predicted to contain a single transmembrane domain; mutant has increased aneuploidy tolerance; localized to both the mitochondrial outer membrane and the plasma membrane; protein abundance increases in response to DNA replication stress
-S000036991	CDS					YGR266W		7	1022656	1024761	W		2011-02-03	1996-07-31	
-S000003499	ORF	Verified	YGR267C	FOL2	GTP cyclohydrolase I	chromosome 7	L000000621	7	1025735	1025004	C	215	2011-02-03	1996-07-31	GTP-cyclohydrolase I, catalyzes first step in folic acid biosynthesis; human homolog GCH1 is implicated in dopa-responsive dystonia (DRD), and can complement yeast null mutant
-S000037019	CDS					YGR267C		7	1025735	1025004	C		2011-02-03	1996-07-31	
-S000003501	ORF	Dubious	YGR269W			chromosome 7		7	1026636	1026962	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF HUA1/YGR268C
-S000029827	CDS					YGR269W		7	1026636	1026962	W		2011-02-03	1996-07-31	
-S000003500	ORF	Verified	YGR268C	HUA1		chromosome 7		7	1026653	1026057	C		2011-02-03	1996-07-31	Cytoplasmic protein containing a zinc finger domain; sequence similarity to that of Type I J-proteins; computational analysis of large-scale protein-protein interaction data suggests a possible role in actin patch assembly
-S000037084	CDS					YGR268C		7	1026653	1026057	C		2011-02-03	1996-07-31	
-S000003502	ORF	Verified	YGR270W	YTA7		chromosome 7	L000002561	7	1027370	1031509	W		2011-02-03	1996-07-31	Protein that localizes to chromatin; has a role in regulation of histone gene expression; has a bromodomain-like region that interacts with the N-terminal tail of histone H3, and an ATPase domain; relocalizes to the cytosol in response to hypoxia; potentially phosphorylated by Cdc28p
-S000030911	CDS					YGR270W		7	1027370	1031509	W		2011-02-03	1996-07-31	
-S000028641	ORF	Dubious	YGR270C-A			chromosome 7		7	1027600	1027382	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF YTA7/YGR270W
-S000032417	CDS					YGR270C-A		7	1027600	1027382	C		2011-02-03	2003-07-29	
-S000003503	ORF	Verified	YGR271W	SLH1	putative RNA helicase	chromosome 7		7	1031791	1037694	W		2011-02-03	1996-07-31|2011-02-03	Putative RNA helicase related to Ski2p; involved in translation inhibition of non-poly(A) mRNAs; required for repressing propagation of dsRNA viruses
-S000030983	CDS					YGR271W		7	1031791	1037694	W		2011-02-03	1996-07-31|2011-02-03	
-S000007608	ORF	Verified	YGR271C-A	EFG1	YGR272C	chromosome 7		7	1038501	1037800	C		2011-02-03	2001-02-26|2007-12-11	Essential protein required for maturation of 18S rRNA; null mutant is sensitive to hydroxyurea and is delayed in recovering from alpha-factor arrest; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus
-S000037185	CDS					YGR271C-A		7	1038501	1037800	C		2011-02-03	2001-02-26|2007-12-11	
-S000003505	ORF	Uncharacterized	YGR273C		IBI1	chromosome 7		7	1039239	1038715	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression downregulated by treatment with 8-methoxypsoralen plus UVA irradiation; not an essential gene; YGR273C has a paralog, YMR295C, that arose from the whole genome duplication
-S000031075	CDS					YGR273C		7	1039239	1038715	C		2011-02-03	1996-07-31	
-S000003506	ORF	Verified	YGR274C	TAF1	KAT4|TafII145|TafII130|TAF145|TAF130	chromosome 7	L000002748	7	1043095	1039895	C		2011-02-03	1996-07-31|2011-02-03	TFIID subunit, involved in RNA pol II transcription initiation; possesses in vitro histone acetyltransferase activity but its role in vivo appears to be minor; involved in promoter binding and G1/S progression; relocalizes to the cytosol in response to hypoxia
-S000032074	CDS					YGR274C		7	1043095	1039895	C		2011-02-03	1996-07-31|2011-02-03	
-S000003507	ORF	Verified	YGR275W	RTT102		chromosome 7	L000004851	7	1043276	1043749	W		2011-02-03	2003-09-22|1996-07-31	Component of both the SWI/SNF and RSC chromatin remodeling complexes; suggested role in chromosome maintenance; possible weak regulator of Ty1 transposition; protein abundance increases in response to DNA replication stress
-S000032191	CDS					YGR275W		7	1043276	1043749	W		2011-02-03	2003-09-22|1996-07-31	
-S000003508	ORF	Verified	YGR276C	RNH70	RNA82|REX1	chromosome 7	L000004048	7	1045480	1043819	C		2011-02-03	1996-07-31	3'-5' exoribonuclease; required for maturation of 3' ends of 5S rRNA and tRNA-Arg3 from dicistronic transcripts
-S000032221	CDS					YGR276C		7	1045480	1043819	C		2011-02-03	1996-07-31	
-S000003509	ORF	Verified	YGR277C	CAB4	putative pantetheine-phosphate adenylyltransferase	chromosome 7		7	1046561	1045644	C		2011-02-03	1996-07-31	Subunit of the CoA-Synthesizing Protein Complex (CoA-SPC); subunits of this complex are: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p; probable pantetheine-phosphate adenylyltransferase (PPAT); PPAT catalyzes the fourth step in the biosynthesis of coenzyme A from pantothenate; null mutant lethality is complemented by E. coli coaD (encoding PPAT) and by human COASY
-S000032280	CDS					YGR277C		7	1046561	1045644	C		2011-02-03	1996-07-31	
-S000003510	ORF	Verified	YGR278W	CWC22	U2-type spliceosomal complex subunit CWC22	chromosome 7		7	1046731	1048464	W		2011-02-03	1996-07-31	Spliceosome-associated protein that is required for pre-mRNA splicing; necessary for Prp2p function at the first catalytic step of splicing; has similarity to S. pombe Cwf22p; CWC22 is an essential protein
-S000033193	CDS					YGR278W		7	1046731	1048464	W		2011-02-03	1996-07-31	
-S000003511	ORF	Verified	YGR279C	SCW4	putative family 17 glucosidase	chromosome 7	L000004565	7	1049958	1048798	C		2011-02-03	1996-07-31	Cell wall protein with similarity to glucanases; scw4 scw10 double mutants exhibit defects in mating; SCW4 has a paralog, SCW10, that arose from the whole genome duplication
-S000033219	CDS					YGR279C		7	1049958	1048798	C		2011-02-03	1996-07-31	
-S000003512	ORF	Verified	YGR280C	PXR1	telomerase inhibitor|PinX1|GNO1	chromosome 7	S000007659	7	1051725	1050910	C		2011-02-03	1996-07-31	Essential protein involved in rRNA and snoRNA maturation; competes with TLC1 RNA for binding to Est2p, suggesting a role in negative regulation of telomerase; human homolog inhibits telomerase; contains a G-patch RNA interacting domain
-S000035203	CDS					YGR280C		7	1051725	1050910	C		2011-02-03	1996-07-31	
-S000003513	ORF	Verified	YGR281W	YOR1	ATP-binding cassette transporter YOR1|YRS1	chromosome 7	L000003083	7	1052824	1057257	W		2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; multidrug transporter mediates export of many different organic anions including oligomycin; homolog of human cystic fibrosis transmembrane receptor (CFTR)
-S000035335	CDS					YGR281W		7	1052824	1057257	W		2011-02-03	1996-07-31	
-S000003514	ORF	Verified	YGR282C	BGL2	glucan 1,3-beta-glucosidase|SCW9	chromosome 7	L000000175|S000029440|L000004570	7	1058724	1057783	C		2011-02-03	1996-07-31	Endo-beta-1,3-glucanase; major protein of the cell wall, involved in cell wall maintenance; involved in incorporation of newly synthesized mannoprotein molecules into the cell wall
-S000035378	CDS					YGR282C		7	1058724	1057783	C		2011-02-03	1996-07-31	
-S000003515	ORF	Verified	YGR283C		putative methyltransferase	chromosome 7		7	1060040	1059015	C		2011-02-03	1996-07-31	Putative methyltransferase; may interact with ribosomes, based on co-purification experiments; predicted to be involved in ribosome biogenesis; null mutant is resistant to fluconazole; GFP-fusion protein localizes to the nucleolus; YGR283C has a paralog, YMR310C, that arose from the whole genome duplication
-S000035443	CDS					YGR283C		7	1060040	1059015	C		2011-02-03	1996-07-31	
-S000003516	ORF	Verified	YGR284C	ERV29		chromosome 7		7	1061590	1060658	C		2011-02-03	1996-07-31	Protein localized to COPII-coated vesicles; involved in vesicle formation and incorporation of specific secretory cargo; protein abundance increases in response to DNA replication stress
-S000036349	CDS					YGR284C		7	1061590	1060658	C		2011-02-03	1996-07-31	
-S000003517	ORF	Verified	YGR285C	ZUO1	zuotin	chromosome 7	L000002571	7	1063153	1061852	C		2011-02-03	1996-07-31	Ribosome-associated chaperone; zuotin functions in ribosome biogenesis and as a chaperone for nascent polypeptide chains in partnership with Ssz1p and SSb1/2; contains a DnaJ domain and functions as a J-protein partner for Ssb1p and Ssb2p; human gene DNAJC2 can partially complement yeast zuo1 null mutant
-S000036447	CDS					YGR285C		7	1063153	1061852	C		2011-02-03	1996-07-31	
-S000003518	ORF	Verified	YGR286C	BIO2	biotin synthase	chromosome 7	L000000181	7	1064940	1063813	C		2011-02-03	1996-07-31	Biotin synthase; catalyzes the conversion of dethiobiotin to biotin, which is the last step of the biotin biosynthesis pathway; complements E. coli bioB mutant
-S000036536	CDS					YGR286C		7	1064940	1063813	C		2011-02-03	1996-07-31	
-S000003519	ORF	Verified	YGR287C	IMA1	oligo-1,6-glucosidase IMA1	chromosome 7		7	1068991	1067222	C		2011-02-03	1996-07-31	Major isomaltase (alpha-1,6-glucosidase/alpha-methylglucosidase); required for isomaltose utilization; preferred specificity for isomaltose, alpha-methylglucoside, and palatinose, but also exhibits alpha-1,2 glucosidase activity on sucrose and kojibiose, and can cleave the 1,3-alpha linkage of nigerose and turanose and the alpha-1,5 linkage of leucrose in vitro; member of the IMA isomaltase family
-S000036609	CDS					YGR287C		7	1068991	1067222	C		2011-02-03	1996-07-31	
-S000003520	ORF	Verified	YGR288W	MAL13	transcription factor MAL13|MALR	chromosome 7	L000001010	7	1070293	1071714	W		2011-02-03	1996-07-31	MAL-activator protein; part of complex locus MAL1; nonfunctional in genomic reference strain S288C
-S000037379	CDS					YGR288W		7	1070293	1071714	W		2011-02-03	1996-07-31	
-S000003522	ORF	Dubious	YGR290W			chromosome 7		7	1075482	1075925	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; putative HLH protein; partially overlaps the verified ORF MAL11/YGR289C (a high-affinity maltose transporter)
-S000030534	CDS					YGR290W		7	1075482	1075925	W		2011-02-03	1996-07-31	
-S000003521	ORF	Verified	YGR289C	MAL11	alpha-glucoside permease|MALT|AGT1	chromosome 7	L000002978	7	1075813	1073963	C		2011-02-03	1996-07-31	High-affinity maltose transporter (alpha-glucoside transporter); inducible; encoded in the MAL1 complex locus; broad substrate specificity that includes maltotriose; required for isomaltose utilization
-S000037432	CDS					YGR289C		7	1075813	1073963	C		2011-02-03	1996-07-31	
-S000003523	ORF	Dubious	YGR291C			chromosome 7		7	1076504	1076283	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030599	CDS					YGR291C		7	1076504	1076283	C		2011-02-03	1996-07-31	
-S000003524	ORF	Verified	YGR292W	MAL12	alpha-glucosidase MAL12|MALS	chromosome 7	L000001009	7	1076599	1078353	W	226	2011-02-03	1996-07-31	Maltase (alpha-D-glucosidase); inducible protein involved in maltose catabolism; encoded in the MAL1 complex locus; hydrolyzes the disaccharides maltose, turanose, maltotriose, and sucrose
-S000030723	CDS					YGR292W		7	1076599	1078353	W		2011-02-03	1996-07-31	
-S000003526	ORF	Verified	YGR294W	PAU12	seripauperin PAU12	chromosome 7		7	1080306	1080668	W		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP fusion protein localizes to both the endoplasmic reticulum and vacuole
-S000031646	CDS					YGR294W		7	1080306	1080668	W		2011-02-03	1996-07-31	
-S000003525	ORF	Dubious	YGR293C			chromosome 7		7	1080346	1079885	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YGR294W
-S000030754	CDS					YGR293C		7	1080346	1079885	C		2011-02-03	1996-07-31	
-S000003527	ORF	Verified	YGR295C	COS6		chromosome 7	L000004064	7	1082729	1081584	C		2011-02-03	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000031677	CDS					YGR295C		7	1082729	1081584	C		2011-02-03	1996-07-31	
-S000028960	telomere		TEL07R			chromosome 7		7	1083635	1090940	W	231	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome VII; annotated components include an X element core sequence, X element combinatorial repeats, and a long Y' element; TEL07R does have telomeric repeats (TEL07R-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
-S000028961	X_element					TEL07R		7	1083635	1084092	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome VII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028962	X_element_combinatorial_repeat					TEL07R		7	1084093	1084346	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr VII; contains repeats of the D, C, and B types; formerly called SubTelomeric Repeats
-S000028963	Y_prime_element					TEL07R		7	1084347	1090940	W		2011-02-03	2003-09-09	Telomeric long Y' element on the right arm of Chromosome VII; contains an ARS consensus sequence, a region of 36-bp repeats, and three ORFs (YRF1-3/YGR296W, YGR296C-A, YGR296C-B)
-S000130170	ARS		ARS736			chromosome 7		7	1083795	1084863			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000003528	ORF	Verified	YGR296W	YRF1-3	Y' element ATP-dependent helicase protein 1 copy 3|YRF1	chromosome 7		7	1084864	1090591	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
-S000031882	CDS					YGR296W		7	1084864	1084882	W		2011-02-03	1996-07-31	
-S000031883	CDS					YGR296W		7	1085031	1090591	W		2011-02-03	1996-07-31	
-S000031884	intron					YGR296W		7	1084883	1085030	W		2011-02-03	1996-07-31	
-S000028642	ORF	Dubious	YGR296C-A			chromosome 7		7	1089445	1088870	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps TEL07R
-S000032418	CDS					YGR296C-A		7	1089445	1088870	C		2011-02-03	2003-07-29	
-S000028643	ORF	Dubious	YGR296C-B			chromosome 7		7	1090228	1089746	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; contained completely within TEL07R
-S000032419	CDS					YGR296C-B		7	1090228	1089746	C		2011-02-03	2003-07-29	
-S000028644	ORF	Dubious	YHL050W-A			chromosome 8		8	811	1293	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032420	CDS					YHL050W-A		8	811	1293	W		2003-07-29	2003-07-29	
-S000001042	ORF	Uncharacterized	YHL050C			chromosome 8		8	3311	445	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; potential Cdc28p substrate
-S000030583	CDS					YHL050C		8	1897	445	C		1996-07-31	1996-07-31	
-S000030582	CDS					YHL050C		8	3311	2671	C		2011-02-03	1996-07-31	
-S000030584	intron					YHL050C		8	2670	1898	C		2011-02-03	1996-07-31|2011-02-03	
-S000001041	ORF	Uncharacterized	YHL049C			chromosome 8		8	4541	3726	C		2011-02-03	1996-07-31	Putative protein of unknown function
-S000031013	CDS					YHL049C		8	4541	3726	C		2011-02-03	1996-07-31	
-S000130145	ARS		ARS801			chromosome 8		8	5471	6401			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000028891	telomere		TEL08L			chromosome 8		8	5505	1	C	-40	2011-02-03	2003-09-09|2011-02-03	Telomeric region on the left arm of Chromosome VIII; composed of an X element core sequence, an X element combinatorial repeat, a short Y' element, and a short terminal stretch of telomeric repeats
-S000028892	telomeric_repeat					TEL08L		8	34	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome VIII
-S000028893	X_element					TEL08L		8	5505	5052	C		2011-02-03	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome VIII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028894	X_element_combinatorial_repeat					TEL08L		8	5051	4952	C		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr VIII; contains a D-type repeat; formerly called SubTelomeric Repeats
-S000028895	Y_prime_element					TEL08L		8	4951	35	C		2011-02-03	2003-09-09|2011-02-03	Telomeric short Y' element on the left arm of Chromosome VIII; contains an ARS consensus sequence, a region of 36-bp repeats, and three ORFs (YHL049C, YHL050C, YHL050W-A)
-S000028829	ORF	Uncharacterized	YHL048C-A			chromosome 8		8	5797	5663	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000033659	CDS					YHL048C-A		8	5797	5663	C		2011-02-03	2003-07-29	
-S000001040	ORF	Verified	YHL048W	COS8		chromosome 8	L000004066	8	6401	7546	W		2011-02-03	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
-S000030997	CDS					YHL048W		8	6401	7546	W		2011-02-03	1996-07-31	
-S000118356	ARS		ARS802		ARSVIII-8	chromosome 8		8	7702	7767			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178105	ARS_consensus_sequence					ARS802		8	7755	7739	C		2014-11-18	2014-11-18	
-S000006986	long_terminal_repeat		YHLComega1			chromosome 8		8	8225	7994	C		2011-02-03	2000-05-19	Ty5 LTR
-S000028775	ORF	Dubious	YHL046W-A			chromosome 8		8	9981	10307	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF ARN2/YHL047C
-S000033493	CDS					YHL046W-A		8	9981	10307	W		2011-02-03	2003-07-29	
-S000001039	ORF	Verified	YHL047C	ARN2	siderophore transporter|TAF1	chromosome 8		8	10213	8351	C		2011-02-03	1996-07-31|2011-02-03	Transporter; member of the ARN family of transporters that specifically recognize siderophore-iron chelates; responsible for uptake of iron bound to the siderophore triacetylfusarinine C
-S000029944	CDS					YHL047C		8	10213	8351	C		2011-02-03	1996-07-31|2011-02-03	
-S000001038	ORF	Verified	YHL046C	PAU13	seripauperin PAU13	chromosome 8		8	12285	11923	C		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; expression is induced after ethanol shock; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000029841	CDS					YHL046C		8	12285	11923	C		2011-02-03	1996-07-31	
-S000001037	ORF	Dubious	YHL045W			chromosome 8		8	12502	12849	W		2011-02-03	1996-07-31	Putative protein of unknown function; not an essential gene
-S000037882	CDS					YHL045W		8	12502	12849	W		2011-02-03	1996-07-31	
-S000001036	ORF	Uncharacterized	YHL044W		DUP240 family protein	chromosome 8		8	13565	14272	W		2011-02-03	1996-07-31	Putative integral membrane protein; member of DUP240 gene family; green fluorescent protein (GFP)-fusion protein localizes to the plasma membrane in a punctate pattern
-S000037802	CDS					YHL044W		8	13565	14272	W		2011-02-03	1996-07-31	
-S000001035	ORF	Verified	YHL043W	ECM34		chromosome 8	L000003903	8	14901	15413	W		2011-02-03	1996-07-31	Protein of unknown function; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins; SWAT-GFP, seamless-GFP and mCherry C-terminal fusion proteins localize to the cytosol
-S000035918	CDS					YHL043W		8	14901	15413	W		2011-02-03	1996-07-31	
-S000001034	ORF	Uncharacterized	YHL042W			chromosome 8		8	15667	16119	W		2011-02-03	1996-07-31	Protein of unknown function; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins; SWAT-GFP and mCherry fusion proteins localize to the vacuole
-S000035803	CDS					YHL042W		8	15667	16119	W		2011-02-03	1996-07-31	
-S000001033	ORF	Dubious	YHL041W			chromosome 8		8	17392	17841	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035678	CDS					YHL041W		8	17392	17841	W		2011-02-03	1996-07-31	
-S000001032	ORF	Verified	YHL040C	ARN1	siderophore transporter	chromosome 8		8	20971	19088	C		2011-02-03	1996-07-31	ARN family transporter for siderophore-iron chelates; responsible for uptake of iron bound to ferrirubin, ferrirhodin, and related siderophores; protein increases in abundance and relocalizes to the vacuole upon DNA replication stress
-S000034609	CDS					YHL040C		8	20971	19088	C		2011-02-03	1996-07-31	
-S000001031	ORF	Verified	YHL039W	EFM1	protein-lysine N-methyltransferase	chromosome 8		8	21783	23540	W		2011-02-03	1996-07-31	Lysine methyltransferase; involved in the monomethylation of eEF1A (Tef1p/Tef2p); SET-domain family member; predicted involvement in ribosome biogenesis; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
-S000036027	CDS					YHL039W		8	21783	23540	W		2011-02-03	1996-07-31	
-S000001030	ORF	Verified	YHL038C	CBP2		chromosome 8	L000000225	8	25509	23617	C		2011-02-03	1996-07-31	Required for splicing of the group I intron bI5 of the COB pre-mRNA; nuclear-encoded mitochondrial protein that binds to the RNA to promote splicing; also involved in but not essential for splicing of the COB bI2 intron and the intron in the 21S rRNA gene
-S000035079	CDS					YHL038C		8	25509	23617	C		2011-02-03	1996-07-31	
-S000001029	ORF	Dubious	YHL037C			chromosome 8		8	26179	25778	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034940	CDS					YHL037C		8	26179	25778	C		2011-02-03	1996-07-31|2011-02-03	
-S000001028	ORF	Verified	YHL036W	MUP3		chromosome 8	L000003357	8	26241	27881	W		2011-02-03	1996-07-31	Low affinity methionine permease; similar to Mup1p
-S000034885	CDS					YHL036W		8	26241	27881	W		2011-02-03	1996-07-31	
-S000001027	ORF	Verified	YHL035C	VMR1	putative ATP-binding cassette multidrug transporter VMR1	chromosome 8		8	32756	27978	C		2011-02-03	1996-07-31	Vacuolar membrane protein; involved in multiple drug resistance and metal sensitivity; ATP-binding cassette (ABC) family member involved in drug transport; potential Cdc28p substrate; induced under respiratory conditions; VMR1 has a paralog, YBT1, that arose from the whole genome duplication
-S000033937	CDS					YHL035C		8	32756	27978	C		2011-02-03	1996-07-31	
-S000028774	ORF	Dubious	YHL034W-A			chromosome 8		8	33176	33637	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SBP1/YHL034C
-S000033492	CDS					YHL034W-A		8	33176	33637	W		2011-02-03	2003-07-29	
-S000001026	ORF	Verified	YHL034C	SBP1	SSB1|SSBR1	chromosome 8	L000002628|L000002076	8	34077	33193	C		2011-02-03	1996-07-31	Protein that binds eIF4G and has a role in repression of translation; has an RGG motif; found in cytoplasmic P bodies; binds to mRNAs under glucose starvation stress, most often in the 5' UTR; found associated with small nucleolar RNAs snR10 and snR11; SBP1 has a paralog, RNP1, that arose from the whole genome duplication
-S000033834	CDS					YHL034C		8	34077	33193	C		2011-02-03	1996-07-31	
-S000001025	ORF	Verified	YHL033C	RPL8A	eL8|ribosomal 60S subunit protein L8A|L8e|rp6|YL5|L8A|L4A|MAK7	chromosome 8	L000000981|L000001704	8	36025	35255	C	-38	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L8A; required for processing of 27SA3 pre-rRNA to 27SB pre-rRNA during assembly of large ribosomal subunit; depletion leads to a turnover of pre-rRNA; L8 binds to Domain I of 25S and 5.8 S rRNAs; mutation results in decreased amounts of free 60S subunits; homologous to mammalian ribosomal protein L7A, no bacterial homolog; RPL8A has a paralog, RPL8B, that arose from the whole genome duplication
-S000033669	CDS					YHL033C		8	36025	35255	C		2011-02-03	1996-07-31	
-S000001024	ORF	Verified	YHL032C	GUT1	glycerol kinase	chromosome 8	L000000746	8	38508	36379	C		2011-02-03	1996-07-31	Glycerol kinase; converts glycerol to glycerol-3-phosphate; glucose repression of expression is mediated by Adr1p and Ino2p-Ino4p; derepression of expression on non-fermentable carbon sources is mediated by Opi1p and Rsf1p
-S000030379	CDS					YHL032C		8	38508	36379	C		2011-02-03	1996-07-31	
-S000028773	ORF	Dubious	YHL030W-A			chromosome 8		8	39074	39535	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene GOS1/YHL031C
-S000033490	CDS					YHL030W-A		8	39074	39535	W		2011-02-03	2003-07-29	
-S000001023	ORF	Verified	YHL031C	GOS1		chromosome 8	L000004085	8	39486	38815	C		2011-02-03	1996-07-31	v-SNARE protein involved in Golgi transport; homolog of the mammalian protein GOS-28/GS28
-S000030199	CDS					YHL031C		8	39486	38815	C		2011-02-03	1996-07-31	
-S000001022	ORF	Verified	YHL030W	ECM29		chromosome 8	L000003899	8	40084	45690	W		2011-02-03	1996-07-31	Scaffold protein; assists in association of the proteasome core particle with the regulatory particle; inhibits proteasomal ATPase activity; degraded by the mature proteasome after assembly; contains HEAT-like repeats; protein increases in abundance and relocalizes from nucleus to cytoplasm upon DNA replication stress
-S000030143	CDS					YHL030W		8	40084	45690	W		2011-02-03	1996-07-31	
-S000001021	ORF	Uncharacterized	YHL029C	OCA5		chromosome 8		8	47968	45929	C		2011-02-03	1996-07-31	Cytoplasmic protein required for replication of Brome mosaic virus; S. cerevisiae is a model system for studying replication of positive-strand RNA viruses in their natural hosts
-S000030645	CDS					YHL029C		8	47968	45929	C		2011-02-03	1996-07-31	
-S000001020	ORF	Verified	YHL028W	WSC4	YFW1|YHC8	chromosome 8	L000004219	8	48763	50580	W		2011-02-03	1996-07-31	Endoplasmic reticulum (ER) membrane protein; involved in the translocation of soluble secretory proteins and insertion of membrane proteins into the ER membrane; may also have a role in the stress response but has only partial functional overlap with WSC1-3
-S000030604	CDS					YHL028W		8	48763	50580	W		2011-02-03	1996-07-31	
-S000001019	ORF	Verified	YHL027W	RIM101	alkaline-responsive transcriptional regulator RIM101|RIM1	chromosome 8	L000002818	8	51111	52988	W		2011-02-03	1996-07-31	Cys2His2 zinc-finger transcriptional repressor; involved in alkaline responsive gene repression as part of adaptation to alkaline conditions; involved in cell wall assembly; required for alkaline pH-stimulated haploid invasive growth and sporulation; activated by alkaline-dependent proteolytic processing which results in removal of the C-terminal tail; similar to A. nidulans PacC
-S000030530	CDS					YHL027W		8	51111	52988	W		2011-02-03	1996-07-31	
-S000001018	ORF	Uncharacterized	YHL026C			chromosome 8		8	54166	53219	C		2011-02-03	1996-07-31|2005-11-07	Putative protein of unknown function; transcriptionally regulated by Upc2p via an upstream sterol response element; SWAT-GFP fusion protein localizes to the cell periphery, while mCherry fusion localizes to both the cell periphery and vacuole; YHL026C is not an essential gene; in 2005 the start site was moved 141 nt upstream (see Locus History)
-S000037665	CDS					YHL026C		8	54166	53219	C		2011-02-03	1996-07-31|2005-11-07	
-S000001017	ORF	Verified	YHL025W	SNF6		chromosome 8	L000001949	8	54851	55849	W		2011-02-03	1996-07-31	Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; functions interdependently in transcriptional activation with Snf2p and Snf5p; relocates to the cytosol under hypoxic conditions
-S000037635	CDS					YHL025W		8	54851	55849	W		2011-02-03	1996-07-31	
-S000001016	ORF	Verified	YHL024W	RIM4		chromosome 8	L000004288|L000004795	8	56649	58790	W		2011-02-03	1996-07-31	Putative RNA-binding protein; required for the expression of early and middle sporulation genes
-S000037557	CDS					YHL024W		8	56649	58790	W		2011-02-03	1996-07-31	
-S000001015	ORF	Verified	YHL023C	NPR3	RMD11	chromosome 8		8	62563	59123	C		2011-02-03	1996-07-31	Subunit of the Iml1p/SEACIT complex; SEACIT (Iml1p-Npr2p-Npr3p) is a subcomplex of SEAC, a coatomer-related complex that associates dynamically with the vacuole; Npr3p may have a structural or regulatory role, supporting Iml1p function as a GAP for the Rag family GTPase Gtr1p, and leading to inhibition of TORC1 signaling in response to amino acid deprivation; SEACIT is required for non-nitrogen-starvation-induced autophagy; null mutant has meiotic defects; human NPRL3 homolog
-S000037421	CDS					YHL023C		8	62563	59123	C		2011-02-03	1996-07-31	
-S000006597	tRNA_gene		tH(GUG)H			chromosome 8	L000003855	8	62755	62826	W		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
-S000033884	noncoding_exon					tH(GUG)H		8	62755	62826	W		2011-02-03	2000-05-19	
-S000001014	ORF	Verified	YHL022C	SPO11		chromosome 8	L000002002	8	64157	62961	C	-23	2011-02-03	1996-07-31	Meiosis-specific protein that initiates meiotic recombination; initiates meiotic recombination by catalyzing the formation of double-strand breaks in DNA via a transesterification reaction; required for homologous chromosome pairing and synaptonemal complex formation
-S000031919	CDS					YHL022C		8	64157	62961	C		2011-02-03	1996-07-31	
-S000114849	ARS		ARS805	ARS805	ARSVIII-64|SPO11 ARS	chromosome 8		8	64296	64371			2014-11-18	2014-11-18|2006-04-13|2006-09-07|2011-02-03	Autonomously Replicating Sequence
-S000178106	ARS_consensus_sequence					ARS805		8	64299	64315	W		2014-11-18	2014-11-18	
-S000001013	ORF	Verified	YHL021C	AIM17	FMP12	chromosome 8		8	65859	64462	C		2011-02-03	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays reduced frequency of mitochondrial genome loss
-S000031775	CDS					YHL021C		8	65859	64462	C		2011-02-03	1996-07-31	
-S000001012	ORF	Verified	YHL020C	OPI1	transcriptional regulator OPI1	chromosome 8	L000001303	8	67456	66242	C		2011-02-03	1996-07-31	Transcriptional regulator of a variety of genes; phosphorylation by protein kinase A stimulates Opi1p function in negative regulation of phospholipid biosynthetic genes; involved in telomere maintenance; null exhibits disrupted mitochondrial metabolism and low cardiolipin content, strongly correlated with overproduction of inositol; binds to phosphatidic acid
-S000029857	CDS					YHL020C		8	67456	66242	C		2011-02-03	1996-07-31	
-S000028772	ORF	Dubious	YHL019W-A			chromosome 8		8	67711	68304	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene APM2/YHL019C
-S000033486	CDS					YHL019W-A		8	67711	68304	W		2011-02-03	2003-07-29	
-S000001011	ORF	Verified	YHL019C	APM2		chromosome 8	L000000095	8	69548	67731	C		2011-02-03	1996-07-31	Protein of unknown function; homologous to the medium chain of mammalian clathrin-associated protein complex; involved in vesicular transport
-S000035353	CDS					YHL019C		8	69548	67731	C		2011-02-03	1996-07-31	
-S000001010	ORF	Uncharacterized	YHL018W		4a-hydroxytetrahydrobiopterin dehydratase	chromosome 8		8	69708	70070	W		2011-02-03	1996-07-31	Putative 4a-hydroxytetrahydrobiopterin dehydratase; green fluorescent protein (GFP)-fusion protein localizes to mitochondria and is induced in response to the DNA-damaging agent MMS
-S000035323	CDS					YHL018W		8	69708	70070	W		2011-02-03	1996-07-31	
-S000001009	ORF	Uncharacterized	YHL017W			chromosome 8		8	70276	71874	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein co-localizes with clathrin-coated vesicles; YHL017W has a paralog, PTM1, that arose from the whole genome duplication
-S000035245	CDS					YHL017W		8	70276	71874	W		2011-02-03	1996-07-31	
-S000001008	ORF	Verified	YHL016C	DUR3		chromosome 8	L000000534	8	74244	72037	C	-13	2011-02-03	1996-07-31	Plasma membrane transporter for both urea and polyamines; expression is highly sensitive to nitrogen catabolite repression and induced by allophanate, the last intermediate of the allantoin degradative pathway
-S000034197	CDS					YHL016C		8	74244	72037	C		2011-02-03	1996-07-31	
-S000028828	ORF	Uncharacterized	YHL015W-A			chromosome 8		8	74699	74782	W		2011-02-03	2003-07-29	Putative protein of unknown function
-S000033654	CDS					YHL015W-A		8	74699	74782	W		2011-02-03	2003-07-29	
-S000001007	ORF	Verified	YHL015W	RPS20	uS10|ribosomal 40S subunit protein S20|S10|URP2	chromosome 8	L000002442	8	75412	75777	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; overproduction suppresses mutations affecting RNA polymerase III-dependent transcription; homologous to mammalian ribosomal protein S20 and bacterial S10
-S000034165	CDS					YHL015W		8	75412	75777	W		2011-02-03	1996-07-31	
-S000001006	ORF	Verified	YHL014C	YLF2	YLF1	chromosome 8	L000002519	8	77314	76097	C		2011-02-03	1996-07-31	Protein of unknown function; has weak similarity to E. coli GTP-binding protein gtp1; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000034003	CDS					YHL014C		8	77314	76097	C		2011-02-03	1996-07-31	
-S000001005	ORF	Verified	YHL013C	OTU2		chromosome 8		8	78353	77430	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; member of the ovarian tumor-like (OTU) superfamily of predicted cysteine proteases; shows cytoplasmic localization; protein abundance increases in response to DNA replication stress
-S000033190	CDS					YHL013C		8	78353	77430	C		2011-02-03	1996-07-31	
-S000001004	ORF	Uncharacterized	YHL012W		UTP--glucose-1-phosphate uridylyltransferase	chromosome 8		8	78936	80417	W		2011-02-03	1996-07-31	Putative UTP glucose-1-phosphate uridylyltransferase; YHL012W has a paralog, UGP1, that arose from the whole genome duplication
-S000033163	CDS					YHL012W		8	78936	80417	W		2011-02-03	1996-07-31	
-S000001003	ORF	Verified	YHL011C	PRS3	ribose phosphate diphosphokinase subunit PRS3	chromosome 8	L000001514	8	81616	80654	C		2011-02-03	1996-07-31	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase; synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes
-S000033025	CDS					YHL011C		8	81616	80654	C		2011-02-03	1996-07-31	
-S000001002	ORF	Verified	YHL010C	ETP1	BRP2	chromosome 8		8	83721	81964	C		2011-02-03	1996-07-31	Protein of unknown function required for growth on ethanol; contains a zinc finger region and has homology to human BRAP2, which is a cytoplasmic protein that binds nuclear localization sequences
-S000032099	CDS					YHL010C		8	83721	81964	C		2011-02-03	1996-07-31	
-S000001001	ORF	Verified	YHL009C	YAP3		chromosome 8	L000004382	8	85060	84068	C		2011-02-03	1996-07-31	Basic leucine zipper (bZIP) transcription factor
-S000030991	CDS					YHL009C		8	85060	84068	C		2011-02-03	1996-07-31	
-S000006758	tRNA_gene		tV(AAC)H			chromosome 8	L000003865	8	85371	85298	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000032130	noncoding_exon					tV(AAC)H		8	85371	85298	C		2011-02-03	2000-05-19	
-S000006987	long_terminal_repeat		YHLCsigma1			chromosome 8		8	85538	85388	C		2011-02-03	2000-05-19	Ty3 LTR
-S000006989	long_terminal_repeat		YHLWtau1			chromosome 8		8	85539	85909	W		2011-02-03	2000-05-19	Ty4 LTR
-S000006991	LTR_retrotransposon		YHLWTy4-1		Ty4	chromosome 8		8	85539	91761	W		2011-02-03	2000-05-19	Ty4 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007371	transposable_element_gene		YHL009W-A		gag protein	chromosome 8		8	85909	87150	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000032880	CDS					YHL009W-A		8	85909	87150	W		2011-02-03	1999-07-17	
-S000007372	transposable_element_gene		YHL009W-B		gag-pol fusion protein	chromosome 8	S000029015	8	85909	91318	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000032882	CDS					YHL009W-B		8	85909	86994	W		2011-02-03	1999-07-17	
-S000032883	CDS					YHL009W-B		8	86996	91318	W		2011-02-03	1999-07-17	
-S000032884	plus_1_translational_frameshift					YHL009W-B		8	86995	86995	W		2011-02-03	1999-07-17	
-S000006990	long_terminal_repeat		YHLWtau2			chromosome 8		8	91391	91761	W		2011-02-03	2000-05-19	Ty4 LTR
-S000006985	long_terminal_repeat		YHLCdelta1			chromosome 8		8	92099	91772	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006988	long_terminal_repeat		YHLWdelta2			chromosome 8		8	92240	92390	W		2011-02-03	2000-05-19	Ty1 LTR
-S000001000	ORF	Uncharacterized	YHL008C			chromosome 8		8	94510	92627	C		2011-02-03	1996-07-31	Putative protein of unknown function; may be involved in the uptake of chloride ions; does not appear to be involved in monocarboxylic acid transport; green fluorescent protein (GFP)-fusion protein localizes to the vacuole
-S000030923	CDS					YHL008C		8	94510	92627	C		2011-02-03	1996-07-31	
-S000028771	ORF	Dubious	YHL006W-A			chromosome 8		8	97732	98085	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF STE20/YHL007C
-S000033485	CDS					YHL006W-A		8	97732	98085	W		2011-02-03	2003-07-29	
-S000000999	ORF	Verified	YHL007C	STE20	mitogen-activated protein kinase kinase kinase kinase STE20	chromosome 8	L000002123	8	97937	95118	C		2011-02-03	1996-07-31	Cdc42p-activated signal transducing kinase; involved in pheromone response, pseudohyphal/invasive growth, vacuole inheritance, down-regulation of sterol uptake; GBB motif binds Ste4p; member of the PAK (p21-activated kinase) family
-S000030840	CDS					YHL007C		8	97937	95118	C		2011-02-03	1996-07-31	
-S000000998	ORF	Verified	YHL006C	SHU1		chromosome 8		8	98795	98343	C		2011-02-03	2004-01-29|1996-07-31	Component of Shu complex (aka PCSS complex); Shu complex also includes Psy3, Csm2, Shu2, and promotes error-free DNA repair, mediates inhibition of Srs2p function; essential for promoting the establishment of homolog bias during meiotic homologous recombination; promotes both crossover (CO) and non-crossover (NCO) pathways of meiotic recombination and formation of Rad51p filaments
-S000029837	CDS					YHL006C		8	98795	98343	C		2011-02-03	2004-01-29|1996-07-31	
-S000000996	ORF	Verified	YHL004W	MRP4	mitochondrial 37S ribosomal protein MRP4	chromosome 8	L000001154	8	99219	100403	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
-S000037796	CDS					YHL004W		8	99219	100403	W		2011-02-03	1996-07-31	
-S000000997	ORF	Uncharacterized	YHL005C			chromosome 8		8	99220	98828	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YHL005C is not an essential gene
-S000037818	CDS					YHL005C		8	99220	98828	C		2011-02-03	1996-07-31	
-S000000995	ORF	Verified	YHL003C	LAG1	sphingosine N-acyltransferase LAG1	chromosome 8	L000000928	8	101883	100648	C		2011-02-03	1996-07-31	Ceramide synthase component; involved in synthesis of ceramide from C26(acyl)-coenzyme A and dihydrosphingosine or phytosphingosine, functionally equivalent to Lac1p; forms ER foci upon DNA replication stress; homolog of human CERS2, a tumor metastasis suppressor gene whose silencing enhances invasion/metastasis of prostate cancer cells; LAG1 has a paralog, LAC1, that arose from the whole genome duplication
-S000036974	CDS					YHL003C		8	101883	100648	C		2011-02-03	1996-07-31	
-S000000994	ORF	Verified	YHL002W	HSE1	ESCRT-0 subunit protein HSE1	chromosome 8		8	102612	103970	W		2011-02-03	1996-07-31	Subunit of the endosomal Vps27p-Hse1p complex; complex is required for sorting of ubiquitinated membrane proteins into intralumenal vesicles prior to vacuolar degradation, as well as for recycling of Golgi proteins and formation of lumenal membranes
-S000036957	CDS					YHL002W		8	102612	103970	W		2011-02-03	1996-07-31	
-S000028770	ORF	Dubious	YHL002C-A			chromosome 8		8	103075	102587	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF HSE1/YHL002W
-S000033484	CDS					YHL002C-A		8	103075	102587	C		2011-02-03	2003-07-29	
-S000000993	ORF	Verified	YHL001W	RPL14B	eL14|ribosomal 60S subunit protein L14B|L14e|L14B	chromosome 8	L000002707	8	104277	105091	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L14B; homologous to mammalian ribosomal protein L14, no bacterial homolog; RPL14B has a paralog, RPL14A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000036892	CDS					YHL001W		8	104277	104405	W		2011-02-03	1996-07-31	
-S000036893	CDS					YHL001W		8	104804	105091	W		2011-02-03	1996-07-31	
-S000036894	intron					YHL001W		8	104406	104803	W		2011-02-03	1996-07-31	
-S000006469	centromere		CEN8	CEN8		chromosome 8	L000000301	8	105703	105586	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome VIII centromere
-S000077284	centromere_DNA_Element_I					CEN8		8	105703	105694	C		2011-02-03	2004-10-08	
-S000077285	centromere_DNA_Element_II					CEN8		8	105693	105611	C		2011-02-03	2004-10-08	
-S000077286	centromere_DNA_Element_III					CEN8		8	105610	105586	C		2011-02-03	2004-10-08	
-S000001043	ORF	Verified	YHR001W	OSH7	oxysterol-binding protein related protein OSH7	chromosome 8		8	106055	107368	W		2011-02-03	1996-07-31	Oxysterol-binding protein; part of family with seven members in S. cerevisiae; family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability; OSH7 has a paralog, OSH6, that arose from the whole genome duplication
-S000033353	CDS					YHR001W		8	106055	107368	W		2011-02-03	1996-07-31	
-S000003529	ORF	Verified	YHR001W-A	QCR10	ubiquinol--cytochrome-c reductase subunit 10	chromosome 8	L000001550	8	107826	108122	W		2011-02-03	1996-07-31	Subunit of the ubiqunol-cytochrome c oxidoreductase complex; this complex comprises part of the mitochondrial respiratory chain; members include Cobp, Rip1p, Cyt1p, Cor1p, Qcr2p, Qcr6p, Qcr7p, Qcr8p, Qcr9p, and Qcr10p and comprises part of the mitochondrial respiratory chain
-S000035662	CDS					YHR001W-A		8	107826	107831	W		2011-02-03	1996-07-31	
-S000035663	CDS					YHR001W-A		8	107895	108122	W		2011-02-03	1996-07-31	
-S000035664	intron					YHR001W-A		8	107832	107894	W		2011-02-03	1996-07-31	
-S000001044	ORF	Verified	YHR002W	LEU5	coenzyme A transporter	chromosome 8	L000000946	8	108812	109885	W	0	2011-02-03	1996-07-31	Mitochondrial carrier protein; involved in the accumulation of CoA in the mitochondrial matrix; homolog of human Graves disease protein SLC25A16, which complements yeast null mutant; does not encode an isozyme of Leu4p, as first hypothesized
-S000034263	CDS					YHR002W		8	108812	109885	W		2011-02-03	1996-07-31	
-S000001045	ORF	Verified	YHR003C	TCD1	tRNA threonylcarbamoyladenosine dehydratase	chromosome 8		8	111317	110028	C		2011-02-03	1996-07-31	tRNA threonylcarbamoyladenosine dehydratase; required for the ct6A tRNA base modification, where an adenosine at position 37 is modified to form a cyclized active ester with an oxazolone ring; localized to the mitochondrial outer membrane; TCD1 has a paralog, TCD2, that arose from the whole genome duplication
-S000034299	CDS					YHR003C		8	111317	110028	C		2011-02-03	1996-07-31	
-S000001046	ORF	Verified	YHR004C	NEM1	Nem1-Spo7 phosphatase catalytic subunit NEM1	chromosome 8		8	113094	111754	C		2011-02-03	1996-07-31	Probable catalytic subunit of Nem1p-Spo7p phosphatase holoenzyme; regulates nuclear growth by controlling phospholipid biosynthesis, required for normal nuclear envelope morphology and sporulation; homolog of the human protein Dullard
-S000034400	CDS					YHR004C		8	113094	111754	C		2011-02-03	1996-07-31	
-S000001047	ORF	Verified	YHR005C	GPA1	guanine nucleotide-binding protein subunit alpha|SCG1|DAC1|CDC70	chromosome 8	L000000720	8	114917	113499	C	3	2011-02-03	1996-07-31	Subunit of the G protein involved in pheromone response; GTP-binding alpha subunit of the heterotrimeric G protein; negatively regulates the mating pathway by sequestering G(beta)gamma and by triggering an adaptive response; activates Vps34p at the endosome; protein abundance increases in response to DNA replication stress
-S000034477	CDS					YHR005C		8	114917	113499	C		2011-02-03	1996-07-31	
-S000003530	ORF	Verified	YHR005C-A	TIM10	protein transporter TIM10|MRS11	chromosome 8	L000003574	8	115901	115620	C		2011-02-03	1999-07-17	Essential protein of the mitochondrial intermembrane space; forms a complex with Tim9p (TIM10 complex) that delivers hydrophobic proteins to the TIM22 complex for insertion into the inner membrane
-S000033460	CDS					YHR005C-A		8	115901	115620	C		2011-02-03	1999-07-17	
-S000006740	tRNA_gene		tT(AGU)H			chromosome 8	L000003864	8	116179	116107	C		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000032165	noncoding_exon					tT(AGU)H		8	116179	116107	C		2011-02-03	2000-05-19	
-S000130146	ARS		ARS806			chromosome 8		8	116179	116421			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000006992	long_terminal_repeat		YHRCdelta3			chromosome 8		8	116752	116421	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006993	long_terminal_repeat		YHRCdelta4			chromosome 8		8	117061	116763	C		2011-02-03	2000-05-19	Ty1 LTR
-S000001048	ORF	Verified	YHR006W	STP2		chromosome 8	L000003370	8	117814	119439	W		2011-02-03	1996-07-31	Transcription factor; activated by proteolytic processing in response to signals from the SPS sensor system for external amino acids; activates transcription of amino acid permease genes; STP2 has a paralog, STP1, that arose from the whole genome duplication
-S000035553	CDS					YHR006W		8	117814	119439	W		2011-02-03	1996-07-31	
-S000001049	ORF	Verified	YHR007C	ERG11	sterol 14-demethylase|CYP51	chromosome 8	L000000577	8	121683	120091	C	12	2011-02-03	1996-07-31	Lanosterol 14-alpha-demethylase; catalyzes C-14 demethylation of lanosterol to form 4,4''-dimethyl cholesta-8,14,24-triene-3-beta-ol in ergosterol biosynthesis pathway; transcriptionally down-regulated when ergosterol is in excess; member of cytochrome P450 family; associated and coordinately regulated with the P450 reductase Ncp1p; human CYP51A1 functionally complements the lethality of the erg11 null mutation
-S000035603	CDS					YHR007C		8	121683	120091	C		2011-02-03	1996-07-31	
-S000028830	ORF	Uncharacterized	YHR007C-A			chromosome 8		8	122765	122550	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry; SWAT-GFP fusion protein localizes to the nucleus
-S000034480	CDS					YHR007C-A		8	122765	122550	C		2011-02-03	2003-07-29	
-S000001050	ORF	Verified	YHR008C	SOD2	superoxide dismutase SOD2	chromosome 8	L000001979	8	123590	122889	C	12	2011-02-03	1996-07-31	Mitochondrial manganese superoxide dismutase; protects cells against oxygen toxicity and oxidative stress; human mitochondrial SOD2 can complement a yeast null mutant and human cytoplasmic SOD1 can also complement when targeted to the mitochondrial matrix
-S000035694	CDS					YHR008C		8	123590	122889	C		2011-02-03	1996-07-31	
-S000001051	ORF	Verified	YHR009C	TDA3	BTN3	chromosome 8		8	125680	124109	C		2011-02-03	1996-07-31	Putative oxidoreductase involved in late endosome to Golgi transport; physical and genetical interactions with Btn2p; null mutant is viable, has extended S phase, and sensitive to expression of top1-T722A allele; similar to human FOXRED1
-S000036628	CDS					YHR009C		8	125680	124109	C		2011-02-03	1996-07-31	
-S000001052	ORF	Verified	YHR010W	RPL27A	eL27|ribosomal 60S subunit protein L27A|L27e|L27A|RPL27	chromosome 8	L000002708	8	126521	127492	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L27A; homologous to mammalian ribosomal protein L27, no bacterial homolog; RPL27A has a paralog, RPL27B, that arose from the whole genome duplication
-S000036518	CDS					YHR010W		8	126521	126551	W		2011-02-03	1996-07-31	
-S000036519	CDS					YHR010W		8	127113	127492	W		2011-02-03	1996-07-31	
-S000036520	intron					YHR010W		8	126552	127112	W		2011-02-03	1996-07-31	
-S000001053	ORF	Verified	YHR011W	DIA4	putative serine--tRNA ligase DIA4	chromosome 8		8	127780	129120	W		2011-02-03	1996-07-31	Probable mitochondrial seryl-tRNA synthetase; mutant displays increased invasive and pseudohyphal growth
-S000036641	CDS					YHR011W		8	127780	129120	W		2011-02-03	1996-07-31	
-S000001054	ORF	Verified	YHR012W	VPS29	retromer subunit VPS29|VPT6|PEP11	chromosome 8	L000002840	8	129481	130448	W		2011-02-03	1996-07-31	Subunit of the membrane-associated retromer complex; endosomal protein; essential for endosome-to-Golgi retrograde transport; forms a subcomplex with Vps35p and Vps26p that selects cargo proteins for endosome-to-Golgi retrieval
-S000036738	CDS					YHR012W		8	129481	129528	W		2011-02-03	1996-07-31	
-S000036739	CDS					YHR012W		8	129648	130448	W		2011-02-03	1996-07-31	
-S000036740	intron					YHR012W		8	129529	129647	W		2011-02-03	1996-07-31	
-S000001055	ORF	Verified	YHR013C	ARD1	peptide alpha-N-acetyltransferase complex A subunit ARD1|NAA10	chromosome 8	L000000103	8	131446	130730	C	10	2011-02-03	1996-07-31	Subunit of protein N-terminal acetyltransferase NatA; NatA comprises Nat1p, Ard1p, Nat5p; acetylates many proteins to influence telomeric silencing, cell cycle, heat-shock resistance, mating, sporulation, early stages of mitophagy; protein abundance increases under DNA replication stress; mutations in human homolog X-linked NAA10 lead to Ogden syndrome (S37P) and intellectual disability (R116W); expression of human NAA10 and NAA15 can complement ard1 nat1 double mutant
-S000037391	CDS					YHR013C		8	131446	130730	C		2011-02-03	1996-07-31	
-S000001056	ORF	Verified	YHR014W	SPO13		chromosome 8	L000002004	8	132047	132922	W	11	2011-02-03	1996-07-31	Meiotic regulator; involved in maintaining sister chromatid cohesion during meiosis I as well as promoting proper attachment of kinetochores to the spindle during meiosis I and meiosis II; anaphase-promoting complex (APC) substrate that is degraded during anaphase I; expressed only in meiotic cells
-S000037600	CDS					YHR014W		8	132047	132922	W		2011-02-03	1996-07-31	
-S000006726	tRNA_gene		tS(AGA)H			chromosome 8	L000003863	8	133107	133026	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
-S000032372	noncoding_exon					tS(AGA)H		8	133107	133026	C		2011-02-03	2000-05-19	
-S000118357	ARS		ARS807		ARSVIII-134	chromosome 8		8	133438	133539			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178107	ARS_consensus_sequence					ARS807		8	133530	133514	C		2014-11-18	2014-11-18	
-S000006994	long_terminal_repeat		YHRCdelta5			chromosome 8		8	133442	133201	C		2011-02-03	2000-05-19	Ty1 LTR
-S000006995	long_terminal_repeat		YHRCdelta6			chromosome 8		8	133684	133565	C		2011-02-03	2000-05-19	Ty1 LTR
-S000007007	long_terminal_repeat		YHRWdelta7			chromosome 8		8	133685	134009	W		2011-02-03	2000-05-19	Ty1 LTR
-S000006698	tRNA_gene		tQ(UUG)H			chromosome 8	L000003856	8	134321	134392	W		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000031701	noncoding_exon					tQ(UUG)H		8	134321	134392	W		2011-02-03	2000-05-19	
-S000001057	ORF	Verified	YHR015W	MIP6		chromosome 8	L000004334	8	134554	136533	W		2011-02-03	1996-07-31	Putative RNA-binding protein; interacts with Mex67p, which is a component of the nuclear pore involved in nuclear mRNA export; MIP6 has a paralog, PES4, that arose from the whole genome duplication
-S000030365	CDS					YHR015W		8	134554	136533	W		2011-02-03	1996-07-31	
-S000001058	ORF	Verified	YHR016C	YSC84	LSB4	chromosome 8	L000003175	8	138455	136881	C		2011-02-03	1996-07-31	Actin-binding protein; involved in bundling of actin filaments and endocytosis of actin cortical patches; activity stimulated by Las17p; contains SH3 domain similar to Rvs167p; YSC84 has a paralog, LSB3, that arose from the whole genome duplication
-S000030436	CDS					YHR016C		8	138240	136881	C		2011-02-03	1996-07-31	
-S000030435	CDS					YHR016C		8	138455	138409	C		2011-02-03	1996-07-31	
-S000030437	intron					YHR016C		8	138408	138241	C		2011-02-03	1996-07-31	
-S000001059	ORF	Verified	YHR017W	YSC83		chromosome 8	L000002830	8	138694	139851	W		2011-02-03	1996-07-31	Non-essential mitochondrial protein of unknown function; mRNA induced during meiosis, peaking between mid to late prophase of meiosis I; similar to S. douglasii YSD83
-S000030626	CDS					YHR017W		8	138694	139851	W		2011-02-03	1996-07-31	
-S000029042	ARS		ARS808	ARS2		chromosome 8	L000000122	8	140349	141274			2011-02-03	2006-04-13	Autonomously Replicating Sequence
-S000001060	ORF	Verified	YHR018C	ARG4	argininosuccinate lyase ARG4	chromosome 8	L000000109	8	141402	140011	C	12	2011-02-03	1996-07-31	Argininosuccinate lyase; catalyzes the final step in the arginine biosynthesis pathway
-S000030670	CDS					YHR018C		8	141402	140011	C		2011-02-03	1996-07-31	
-S000001061	ORF	Verified	YHR019C	DED81	asparagine--tRNA ligase DED81	chromosome 8	L000002734	8	143558	141894	C		2011-02-03	1996-07-31	Cytosolic asparaginyl-tRNA synthetase; required for protein synthesis, catalyzes the specific attachment of asparagine to its cognate tRNA
-S000031533	CDS					YHR019C		8	143558	141894	C		2011-02-03	1996-07-31	
-S000001062	ORF	Verified	YHR020W		proline--tRNA ligase	chromosome 8		8	143996	146062	W		2011-02-03	1996-07-31	Prolyl-tRNA synthetase; N-terminal domain shows weak homology to prokaryotic posttransfer editing domain, but does not possess posttransfer editing activity; may interact with ribosomes, based on co-purification experiments
-S000031552	CDS					YHR020W		8	143996	146062	W		2011-02-03	1996-07-31	
-S000006513	tRNA_gene		tA(AGC)H			chromosome 8	L000003862	8	146314	146242	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
-S000032282	noncoding_exon					tA(AGC)H		8	146314	146242	C		2011-02-03	2000-05-19	
-S000007003	long_terminal_repeat		YHRCsigma2			chromosome 8		8	146671	146331	C		2011-02-03	2000-05-19	Ty3 LTR
-S000007010	long_terminal_repeat		YHRWtau3			chromosome 8		8	146844	147114	W		2011-02-03	2000-05-19	Ty4 LTR
-S000001063	ORF	Verified	YHR021C	RPS27B	eS27|ribosomal 40S subunit protein S27B|S27e|rp61|YS20|S27B	chromosome 8	L000002713	8	148669	147871	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S27, no bacterial homolog; RPS27B has a paralog, RPS27A, that arose from the whole genome duplication
-S000031620	CDS					YHR021C		8	148116	147871	C		2011-02-03	1996-07-31	
-S000031619	CDS					YHR021C		8	148669	148667	C		2011-02-03	1996-07-31	
-S000031621	intron					YHR021C		8	148666	148117	C		2011-02-03	1996-07-31	
-S000003531	ORF	Uncharacterized	YHR021W-A	ECM12		chromosome 8	L000003887	8	149225	149680	W		2011-02-03	1999-07-17	Putative protein of unknown function; may contribute to cell wall biosynthesis, mutants display zymolyase hypersensitivity
-S000034210	CDS					YHR021W-A		8	149225	149680	W		2011-02-03	1999-07-17	
-S000001064	ORF	Uncharacterized	YHR022C			chromosome 8		8	150345	149575	C		2011-02-03	1996-07-31	Putative protein of unknown function; YHR022C is not an essential gene
-S000032603	CDS					YHR022C		8	150345	149575	C		2011-02-03	1996-07-31	
-S000028645	ORF	Uncharacterized	YHR022C-A			chromosome 8		8	151306	151217	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032421	CDS					YHR022C-A		8	151306	151217	C		2011-02-03	2003-07-29	
-S000001065	ORF	Verified	YHR023W	MYO1	myosin 1	chromosome 8	L000001222	8	151666	157452	W		2011-02-03	1996-07-31	Type II myosin heavy chain; required for wild-type cytokinesis and cell separation; localizes to the actomyosin ring; binds to myosin light chains Mlc1p and Mlc2p through its IQ1 and IQ2 motifs respectively
-S000032750	CDS					YHR023W		8	151666	157452	W		2011-02-03	1996-07-31	
-S000001066	ORF	Verified	YHR024C	MAS2	mitochondrial-processing protease subunit alpha|MIF2	chromosome 8	L000001027	8	159192	157744	C	26	2011-02-03	1996-07-31	Alpha subunit of the mitochondrial processing protease (MPP); essential processing enzyme that cleaves the N-terminal targeting sequences from mitochondrially imported proteins
-S000032823	CDS					YHR024C		8	159192	157744	C		2011-02-03	1996-07-31	
-S000001067	ORF	Verified	YHR025W	THR1	homoserine kinase	chromosome 8	L000002298	8	159438	160511	W	26	2011-02-03	1996-07-31	Homoserine kinase; conserved protein required for threonine biosynthesis; long-lived protein that is preferentially retained in mother cells and forms cytoplasmic filaments; expression is regulated by the GCN4-mediated general amino acid control pathway
-S000033588	CDS					YHR025W		8	159438	160511	W		2011-02-03	1996-07-31	
-S000001068	ORF	Verified	YHR026W	VMA16	H(+)-transporting V0 sector ATPase subunit c''|PPA1	chromosome 8	L000001468	8	160844	161485	W	27	2011-02-03	1996-07-31	Subunit c'' of the vacuolar ATPase; v-ATPase functions in acidification of the vacuole; one of three proteolipid subunits of the V0 domain
-S000033662	CDS					YHR026W		8	160844	161485	W		2011-02-03	1996-07-31	
-S000001069	ORF	Verified	YHR027C	RPN1	proteasome regulatory particle base subunit RPN1|NAS1|HRD2	chromosome 8	L000003039	8	164711	161730	C		2011-02-03	1996-07-31	Non-ATPase base subunit of the 19S RP of the 26S proteasome; may participate in the recognition of several ligands of the proteasome; contains a leucine-rich repeat (LRR) domain, a site for protein-protein interactions; RP is the acronym for regulatory particle
-S000033726	CDS					YHR027C		8	164711	161730	C		2011-02-03	1996-07-31	
-S000028776	ORF	Dubious	YHR028W-A			chromosome 8		8	167352	167672	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF DAP2/YHR028C
-S000033498	CDS					YHR028W-A		8	167352	167672	W		2011-02-03	2003-07-29	
-S000001070	ORF	Verified	YHR028C	DAP2	DPP2	chromosome 8	L000000483	8	167434	164978	C		2011-02-03	1996-07-31	Dipeptidyl aminopeptidase; synthesized as a glycosylated precursor; localizes to the vacuolar membrane; similar to Ste13p
-S000034620	CDS					YHR028C		8	167434	164978	C		2011-02-03	1996-07-31	
-S000118358	ARS		ARS809		ARSVIII-169	chromosome 8		8	168549	168723			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000001071	ORF	Verified	YHR029C	YHI9		chromosome 8		8	168561	167677	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant is defective in unfolded protein response; possibly involved in a membrane regulation metabolic pathway; member of the PhzF superfamily, though most likely not involved in phenazine production
-S000034772	CDS					YHR029C		8	168561	167677	C		2011-02-03	1996-07-31	
-S000001072	ORF	Verified	YHR030C	SLT2	mitogen-activated serine/threonine-protein kinase SLT2|LYT2|SLK2|MPK1|BYC2	chromosome 8	L000001919	8	170344	168890	C		2011-02-03	1996-07-31	Serine/threonine MAP kinase; coordinates expression of all 19S regulatory particle assembly-chaperones (RACs) to control proteasome abundance; involved in regulating maintenance of cell wall integrity, cell cycle progression, nuclear mRNA retention in heat shock, septum assembly; required for mitophagy, pexophagy; affects recruitment of mitochondria to phagophore assembly site; plays role in adaptive response of cells to cold; regulated by the PKC1-mediated signaling pathway
-S000035799	CDS					YHR030C		8	170344	168890	C		2011-02-03	1996-07-31	
-S000001073	ORF	Verified	YHR031C	RRM3	RTT104	chromosome 8	S000007420	8	172970	170799	C		2011-02-03	1996-07-31	DNA helicase involved in rDNA replication and Ty1 transposition; binds to and suppresses DNA damage at G4 motifs in vivo; relieves replication fork pauses at telomeric regions; structurally and functionally related to Pif1p
-S000035940	CDS					YHR031C		8	172970	170799	C		2011-02-03	1996-07-31	
-S000001074	ORF	Verified	YHR032W	ERC1		chromosome 8		8	173344	175089	W		2011-02-03	1996-07-31	Member of the multi-drug and toxin extrusion (MATE) family; the MATE family is part of the multidrug/oligosaccharidyl-lipid/polysaccharide (MOP) exporter superfamily; overproduction confers ethionine resistance and accumulation of S-adenosylmethionine
-S000036858	CDS					YHR032W		8	173344	175089	W		2011-02-03	1996-07-31	
-S000028831	ORF	Dubious	YHR032W-A			chromosome 8		8	175195	175374	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YHR032C-A
-S000034481	CDS					YHR032W-A		8	175195	175374	W		2011-02-03	2003-07-29	
-S000028646	ORF	Dubious	YHR032C-A			chromosome 8		8	175394	175275	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YHR032W-A
-S000032422	CDS					YHR032C-A		8	175394	175275	C		2011-02-03	2003-07-29	
-S000001075	ORF	Uncharacterized	YHR033W		putative glutamate 5-kinase	chromosome 8		8	175548	176819	W		2011-02-03	1996-07-31	Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm; YHR033W has a paralog, PRO1, that arose from the whole genome duplication
-S000036911	CDS					YHR033W		8	175548	176819	W		2011-02-03	1996-07-31	
-S000001076	ORF	Verified	YHR034C	PIH1	NOP17	chromosome 8		8	177999	176965	C		2011-02-03	1996-07-31	Component of the conserved R2TP complex (Rvb1-Rvb2-Tah1-Pih1); R2TP complex interacts with Hsp90 (Hsp82p and Hsc82p) to mediate assembly large protein complexes such as box C/D snoRNPs and RNA polymerase II
-S000036943	CDS					YHR034C		8	177999	176965	C		2011-02-03	1996-07-31	
-S000001077	ORF	Verified	YHR035W	NEL1		chromosome 8		8	178219	180111	W		2011-02-03	1996-07-31	Activator of Sar1p GTPase activity; paralog of Sec23 but does not associate with the COPII components; not an essential gene
-S000037726	CDS					YHR035W		8	178219	180111	W		2011-02-03	1996-07-31	
-S000001078	ORF	Verified	YHR036W	BRL1		chromosome 8		8	180345	181760	W		2011-02-03	1996-07-31	Essential nuclear envelope/ER integral membrane protein; interacts and functions with Apq12p and Brr6p in lipid homeostasis; mutants are defective in nuclear pore complex biogenesis, mRNA nuclear export and are sensitive to sterol biosynthesis inhibitors and membrane fluidizing agents; identified as a dosage suppressor of a temperature sensitive mutation in the major karyopherin, CRM1; homologous to Brr6p
-S000037810	CDS					YHR036W		8	180345	181760	W		2011-02-03	1996-07-31	
-S000001079	ORF	Verified	YHR037W	PUT2	1-pyrroline-5-carboxylate dehydrogenase	chromosome 8	L000001536	8	181977	183704	W	24	2011-02-03	1996-07-31	Delta-1-pyrroline-5-carboxylate dehydrogenase; nuclear-encoded mitochondrial protein involved in utilization of proline as sole nitrogen source; deficiency of human homolog ALDH4A1 causes type II hyperprolinemia (HPII), an autosomal recessive inborn error of metabolism; human homolog ALDH4A1 can complement yeast null mutant
-S000037908	CDS					YHR037W		8	181977	183704	W		2011-02-03	1996-07-31	
-S000001080	ORF	Verified	YHR038W	RRF1	FIL1|KIM4	chromosome 8	L000004366	8	184066	184758	W		2011-02-03	1996-07-31	Mitochondrial ribosome recycling factor; essential for mitochondrial protein synthesis and for the maintenance of the respiratory function of mitochondria
-S000030835	CDS					YHR038W		8	184066	184758	W		2011-02-03	1996-07-31	
-S000001081	ORF	Verified	YHR039C	MSC7	meiotic recombination directing protein	chromosome 8		8	186809	184875	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; msc7 mutants are defective in directing meiotic recombination events to homologous chromatids
-S000030880	CDS					YHR039C		8	186809	184875	C		2011-02-03	1996-07-31	
-S000002100	ORF	Verified	YHR039C-A	VMA10	H(+)-transporting V1 sector ATPase subunit G|YHR039BC|YHR039C-B	chromosome 8	L000002954	8	187679	187173	C		2011-02-03	1996-07-31	Subunit G of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; involved in vacuolar acidification; the V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase) has eight subunits
-S000035240	CDS					YHR039C-A		8	187514	187173	C		2011-02-03	1996-07-31	
-S000035239	CDS					YHR039C-A		8	187679	187677	C		2011-02-03	1996-07-31	
-S000035241	intron					YHR039C-A		8	187676	187515	C		2011-02-03	1996-07-31	
-S000001082	ORF	Verified	YHR040W	BCD1		chromosome 8		8	187924	189024	W		2011-02-03	1996-07-31	Essential protein required for the accumulation of box C/D snoRNA
-S000031978	CDS					YHR040W		8	187924	189024	W		2011-02-03	1996-07-31	
-S000001083	ORF	Verified	YHR041C	SRB2	MED20|HRS2	chromosome 8	L000002050|L000003586	8	189864	189131	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; general transcription factor involved in telomere maintenance
-S000032051	CDS					YHR041C		8	189749	189131	C		2011-02-03	1996-07-31	
-S000032050	CDS					YHR041C		8	189864	189851	C		2011-02-03	1996-07-31	
-S000032052	intron					YHR041C		8	189850	189750	C		2011-02-03	1996-07-31	
-S000001084	ORF	Verified	YHR042W	NCP1	CPR1	chromosome 8	L000001482	8	190543	192618	W		2011-02-03	1996-07-31	NADP-cytochrome P450 reductase; involved in ergosterol biosynthesis; associated and coordinately regulated with Erg11p
-S000033000	CDS					YHR042W		8	190543	192618	W		2011-02-03	1996-07-31	
-S000001085	ORF	Verified	YHR043C	DOG2	2-deoxyglucose-6-phosphatase	chromosome 8	L000000516	8	193545	192805	C		2011-02-03	1996-07-31	2-deoxyglucose-6-phosphate phosphatase; member of a family of low molecular weight phosphatases, induced by oxidative and osmotic stress, confers 2-deoxyglucose resistance when overexpressed; DOG2 has a paralog, DOG1, that arose from a single-locus duplication; the last half of DOG1 and DOG2 are subject to gene conversions among S. cerevisiae, S. paradoxus, and S. mikatae
-S000033060	CDS					YHR043C		8	193545	192805	C		2011-02-03	1996-07-31	
-S000001086	ORF	Verified	YHR044C	DOG1	2-deoxyglucose-6-phosphatase	chromosome 8	L000000515	8	194808	194068	C		2011-02-03	1996-07-31	2-deoxyglucose-6-phosphate phosphatase; member of a family of low molecular weight phosphatases; confers 2-deoxyglucose resistance when overexpressed; DOG1 has a paralog, DOG2, that arose from a single-locus duplication; the last half of DOG1 and DOG2 are subject to gene conversions among S. cerevisiae, S. paradoxus, and S. mikatae
-S000033147	CDS					YHR044C		8	194808	194068	C		2011-02-03	1996-07-31	
-S000001087	ORF	Uncharacterized	YHR045W			chromosome 8		8	195551	197233	W		2011-02-03	1996-07-31	Putative protein of unknown function; possible role in iron metabolism and/or amino acid and carbohydrate metabolism; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum
-S000033998	CDS					YHR045W		8	195551	197233	W		2011-02-03	1996-07-31	
-S000001088	ORF	Verified	YHR046C	INM1	inositol monophosphate 1-phosphatase INM1	chromosome 8		8	198285	197398	C		2011-02-03	1996-07-31	Inositol monophosphatase; involved in biosynthesis of inositol and in phosphoinositide second messenger signaling; INM1 expression increases in the presence of inositol and decreases upon exposure to antibipolar drugs lithium and valproate
-S000034037	CDS					YHR046C		8	198285	197398	C		2011-02-03	1996-07-31	
-S000001089	ORF	Verified	YHR047C	AAP1	arginine/alanine aminopeptidase|AAP1'	chromosome 8	L000000006	8	201310	198740	C		2011-02-03	1996-07-31	Arginine/alanine amino peptidase; overproduction stimulates glycogen accumulation; AAP1 has a paralog, APE2, that arose from the whole genome duplication
-S000034139	CDS					YHR047C		8	201310	198740	C		2011-02-03	1996-07-31	
-S000001090	ORF	Uncharacterized	YHR048W	YHK8		chromosome 8		8	204607	206151	W		2011-02-03	1996-07-31	Presumed antiporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; expression of gene is up-regulated in cells exhibiting reduced susceptibility to azoles
-S000035165	CDS					YHR048W		8	204607	206151	W		2011-02-03	1996-07-31	
-S000001091	ORF	Verified	YHR049W	FSH1	putative serine hydrolase	chromosome 8		8	206462	207193	W		2011-02-03	1996-07-31	Putative serine hydrolase; localizes to both the nucleus and cytoplasm; sequence is similar to S. cerevisiae Fsh2p and Fsh3p and the human candidate tumor suppressor OVCA2
-S000035291	CDS					YHR049W		8	206462	207193	W		2011-02-03	1996-07-31	
-S000003532	ORF	Dubious	YHR049C-A			chromosome 8		8	207530	207234	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031834	CDS					YHR049C-A		8	207530	207234	C		2011-02-03	1996-07-31|2011-02-03	
-S000001092	ORF	Verified	YHR050W	SMF2	divalent metal ion transporter SMF2	chromosome 8	L000001932|L000001870	8	207654	209303	W		2011-02-03	1996-07-31	Divalent metal ion transporter involved in manganese homeostasis; has broad specificity for di-valent and tri-valent metals; post-translationally regulated by levels of metal ions; member of the Nramp family of metal transport proteins
-S000036147	CDS					YHR050W		8	207654	209303	W		2011-02-03	1996-07-31	
-S000028832	ORF	Uncharacterized	YHR050W-A			chromosome 8		8	209475	209645	W		2011-02-03	2003-07-29	Protein of unknown function; identified by expression profiling and mass spectrometry
-S000034482	CDS					YHR050W-A		8	209475	209645	W		2011-02-03	2003-07-29	
-S000001093	ORF	Verified	YHR051W	COX6	cytochrome c oxidase subunit VI	chromosome 8	L000000390	8	209705	210151	W		2011-02-03	1996-07-31	Subunit VI of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain; expression is regulated by oxygen levels
-S000029851	CDS					YHR051W		8	209705	210151	W		2011-02-03	1996-07-31	
-S000001094	ORF	Verified	YHR052W	CIC1	NSA3	chromosome 8		8	210848	211978	W		2011-02-03	1996-07-31	Essential protein that interacts with proteasome components; has a potential role in proteasome substrate specificity; also copurifies with 66S pre-ribosomal particles
-S000031769	CDS					YHR052W		8	210848	211978	W		2011-02-03	1996-07-31	
-S000028470	ncRNA_gene		RUF5-1	RUF5-1	RUF5	chromosome 8		8	212409	213118	W		2011-02-03	2004-04-01	RNA of Unknown Function
-S000030107	noncoding_exon					RUF5-1		8	212409	213118	W		2011-02-03	2004-04-01	
-S000028647	ORF	Dubious	YHR052W-A			chromosome 8		8	212510	212704	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps CUP1-1
-S000032423	CDS					YHR052W-A		8	212510	212704	W		2011-02-03	2003-07-29	
-S000001095	ORF	Verified	YHR053C	CUP1-1	metallothionein CUP1|CUP1	chromosome 8	L000000436	8	212720	212535	C		2011-02-03	1996-07-31	Metallothionein; binds copper and mediates resistance to high concentrations of copper and cadmium; locus is variably amplified in different strains, with two copies, CUP1-1 and CUP1-2, in the genomic sequence reference strain S288C; CUP1-1 has a paralog, CUP1-2, that arose from a segmental duplication
-S000031831	CDS					YHR053C		8	212720	212535	C		2011-02-03	1996-07-31	
-S000130147	ARS		ARS810			chromosome 8		8	212720	213185			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000001096	ORF	Uncharacterized	YHR054C			chromosome 8		8	214249	213185	C		2011-02-03	1996-07-31	Putative protein of unknown function; partial duplicate of RSC30/YHR056C, truncated remnant of segmental duplication
-S000031964	CDS					YHR054C		8	214249	213185	C		2011-02-03	1996-07-31	
-S000028474	ncRNA_gene		RUF5-2	RUF5-2	RUF5	chromosome 8		8	214407	215116	W		2011-02-03	2004-04-01	RNA of Unknown Function
-S000030115	noncoding_exon					RUF5-2		8	214407	215116	W		2011-02-03	2004-04-01	
-S000028648	ORF	Dubious	YHR054W-A			chromosome 8		8	214508	214702	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps CUP1-2
-S000032424	CDS					YHR054W-A		8	214508	214702	W		2011-02-03	2003-07-29	
-S000001097	ORF	Verified	YHR055C	CUP1-2	metallothionein CUP1|CUP1	chromosome 8		8	214718	214533	C		2011-02-03	1996-07-31	Metallothionein; binds copper and mediates resistance to high concentrations of copper and cadmium; locus is variably amplified in different strains, with two copies, CUP1-1 and CUP1-2, in the genomic sequence reference strain S288C; CUP1-2 has a paralog, CUP1-1, that arose from a segmental duplication
-S000037453	CDS					YHR055C		8	214718	214533	C		2011-02-03	1996-07-31	
-S000130148	ARS		ARS811			chromosome 8		8	214718	215183			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000028777	ORF	Dubious	YHR056W-A			chromosome 8		8	217406	217840	W		2011-02-03	2004-01-29|2011-02-03|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps ORF RSC30/YHR056C
-S000033500	CDS					YHR056W-A		8	217406	217840	W		2011-02-03	2004-01-29|2003-07-29|2011-02-03	
-S000001098	ORF	Verified	YHR056C	RSC30		chromosome 8		8	217834	215183	C		2011-02-03	2004-01-29|1996-07-31|2011-02-03	Component of the RSC chromatin remodeling complex; non-essential gene required for regulation of ribosomal protein genes and the cell wall/stress response; null mutants are osmosensitive; RSC30 has a paralog, RSC3, that arose from the whole genome duplication
-S000037529	CDS					YHR056C		8	217834	215183	C		2011-02-03	2004-01-29|1996-07-31|2011-02-03	
-S000001099	ORF	Verified	YHR057C	CPR2	peptidylprolyl isomerase CPR2|CYP2	chromosome 8	L000000463	8	218843	218226	C		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; potential role in the secretory pathway; seamless-GFP and mCherry fusion proteins localize to the vacuole, while SWAT-GFP fusion localizes to both the endoplasmic reticulum and vacuole; suppresses toxicity of slow-folding human Z-type alpha1-antitrypsin variant associated with liver cirrhosis and emphysema
-S000037607	CDS					YHR057C		8	218843	218226	C		2011-02-03	1996-07-31	
-S000001100	ORF	Verified	YHR058C	MED6	mediator complex subunit MED6	chromosome 8	L000003569	8	219884	218997	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; protein abundance increases in response to DNA replication stress
-S000037687	CDS					YHR058C		8	219884	218997	C		2011-02-03	1996-07-31	
-S000001101	ORF	Verified	YHR059W	FYV4		chromosome 8		8	220108	220500	W		2011-02-03	1996-07-31	Protein of unknown function; required for survival upon exposure to K1 killer toxin
-S000030557	CDS					YHR059W		8	220108	220500	W		2011-02-03	1996-07-31	
-S000001102	ORF	Verified	YHR060W	VMA22	VPH6|CEV1	chromosome 8	L000002789	8	220725	221270	W		2011-02-03	1996-07-31	Protein that is required for vacuolar H+-ATPase (V-ATPase) function; peripheral membrane protein; not an actual component of the V-ATPase complex; functions in the assembly of the V-ATPase; localized to the yeast endoplasmic reticulum (ER)
-S000029986	CDS					YHR060W		8	220725	221270	W		2011-02-03	1996-07-31	
-S000001103	ORF	Verified	YHR061C	GIC1		chromosome 8	L000003313	8	222478	221534	C		2011-02-03	1996-07-31	Protein involved in initiation of budding and cellular polarization; interacts with Cdc42p via the Cdc42/Rac-interactive binding (CRIB) domain; relocalizes from bud neck to nucleus upon DNA replication stress; GIC1 has a paralog, GIC2, that arose from the whole genome duplication
-S000030028	CDS					YHR061C		8	222478	221534	C		2011-02-03	1996-07-31	
-S000001104	ORF	Verified	YHR062C	RPP1	RNA-binding RNA processing protein RPP1	chromosome 8	L000004007	8	223758	222877	C		2011-02-03	1996-07-31	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; relocalizes to the cytosol in response to hypoxia
-S000030103	CDS					YHR062C		8	223758	222877	C		2011-02-03	1996-07-31	
-S000001105	ORF	Verified	YHR063C	PAN5	2-dehydropantoate 2-reductase PAN5	chromosome 8		8	225169	224030	C		2011-02-03	1996-07-31	2-dehydropantoate 2-reductase; part of the pantothenic acid pathway, structurally homologous to E. coli panE
-S000030303	CDS					YHR063C		8	225169	224030	C		2011-02-03	1996-07-31	
-S000028778	ORF	Dubious	YHR063W-A			chromosome 8		8	225442	225777	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF SSZ1/YHR064C
-S000033501	CDS					YHR063W-A		8	225442	225777	W		2011-02-03	2003-07-29	
-S000001106	ORF	Verified	YHR064C	SSZ1	PDR13	chromosome 8	L000004029	8	227141	225525	C		2011-02-03	2003-09-22|1996-07-31	Hsp70 protein that interacts with Zuo1p (a DnaJ homolog); interacts with Zuo1p to form a ribosome-associated complex that binds the ribosome via the Zuo1p subunit; also involved in pleiotropic drug resistance via sequential activation of PDR1 and PDR5; binds ATP
-S000030385	CDS					YHR064C		8	227141	225525	C		2011-02-03	2003-09-22|1996-07-31	
-S000001107	ORF	Verified	YHR065C	RRP3	RNA-dependent ATPase RRP3	chromosome 8	L000004225	8	229037	227532	C		2011-02-03	2003-09-22|1996-07-31	Protein involved in rRNA processing; required for maturation of the 35S primary transcript of pre-rRNA and for cleavage leading to mature 18S rRNA; homologous to eIF-4a, which is a DEAD box RNA-dependent ATPase with helicase activity
-S000033722	CDS					YHR065C		8	229037	227532	C		2011-02-03	2003-09-22|1996-07-31	
-S000001108	ORF	Verified	YHR066W	SSF1	rRNA-binding ribosome biosynthesis protein	chromosome 8	L000002080	8	229335	230696	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; required for ribosomal large subunit maturation; functionally redundant with Ssf2p; member of the Brix family; SSF1 has a paralog, SSF2, that arose from the whole genome duplication
-S000033935	CDS					YHR066W		8	229335	230696	W		2011-02-03	1996-07-31	
-S000001109	ORF	Verified	YHR067W	HTD2	hydroxyacyl-thioester dehydratase HTD2|RMD12	chromosome 8		8	230970	231812	W		2011-02-03	1996-07-31	Mitochondrial 3-hydroxyacyl-thioester dehydratase; involved in fatty acid biosynthesis, required for respiratory growth and for normal mitochondrial morphology
-S000034794	CDS					YHR067W		8	230970	231812	W		2011-02-03	1996-07-31	
-S000001110	ORF	Verified	YHR068W	DYS1	deoxyhypusine synthase	chromosome 8	L000003346	8	232133	233296	W		2011-02-03	1996-07-31	Deoxyhypusine synthase; catalyzes formation of deoxyhypusine, the first step in hypusine biosynthesis; triggers posttranslational hypusination of translation elongation factor eIF-5A and regulates its intracellular levels; tetrameric; human homolog DHPS allows growth of yeast haploid dys1 null mutant after sporulation of heterozygous diploid
-S000034934	CDS					YHR068W		8	232133	233296	W		2011-02-03	1996-07-31	
-S000001111	ORF	Verified	YHR069C	RRP4	exosome non-catalytic core subunit RRP4	chromosome 8	L000003549	8	234658	233579	C		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain RNA binding domains; has similarity to human hRrp4p (EXOSC2)
-S000034980	CDS					YHR069C		8	234658	233579	C		2011-02-03	1996-07-31	
-S000001112	ORF	Verified	YHR070W	TRM5	tRNA (guanine) methyltransferase	chromosome 8		8	234881	236380	W		2011-02-03	1996-07-31	tRNA(m(1)G37)methyltransferase; methylates a tRNA base adjacent to the anticodon that has a role in prevention of frameshifting; localized to both cytoplasm and mitochondria, and modifies both cytoplasmic and mitochondrial tRNAs; mutations in human ortholog TRMT5 are associated with skeletal muscle respiratory chain deficiencies, and trm5 mutations analogous to disease mutations decrease respiration
-S000034511	CDS					YHR070W		8	234881	236380	W		2011-02-03	1996-07-31	
-S000028779	ORF	Dubious	YHR069C-A			chromosome 8		8	235236	234874	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps ORF TRM5/YHR070W
-S000033503	CDS					YHR069C-A		8	235236	234874	C		2011-02-03	2003-07-29	
-S000028780	ORF	Dubious	YHR070C-A			chromosome 8		8	236512	236102	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene TRM5/YHR070W
-S000033520	CDS					YHR070C-A		8	236512	236102	C		2011-02-03	2003-07-29	
-S000001113	ORF	Verified	YHR071W	PCL5		chromosome 8	L000004037	8	237004	237693	W		2011-02-03	1996-07-31	Cyclin; interacts with and phosphorylated by Pho85p cyclin-dependent kinase (Cdk), induced by Gcn4p at level of transcription, specifically required for Gcn4p degradation, may be sensor of cellular protein biosynthetic capacity
-S000034608	CDS					YHR071W		8	237004	237693	W		2011-02-03	1996-07-31	
-S000006566	tRNA_gene		tF(GAA)H1			chromosome 8	L000003861	8	237939	237848	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000032801	intron					tF(GAA)H1		8	237902	237884	C		2011-02-03	2000-05-19	
-S000032800	noncoding_exon					tF(GAA)H1		8	237883	237848	C		2011-02-03	2000-05-19	
-S000032799	noncoding_exon					tF(GAA)H1		8	237939	237903	C		2011-02-03	2000-05-19	
-S000001114	ORF	Verified	YHR072W	ERG7	lanosterol synthase ERG7	chromosome 8	L000000573	8	239098	241293	W		2011-02-03	1996-07-31|2011-02-03	Lanosterol synthase; an essential enzyme that catalyzes the cyclization of squalene 2,3-epoxide, a step in ergosterol biosynthesis; human LSS functionally complements the lethality of the erg7 null mutation
-S000034721	CDS					YHR072W		8	239098	241293	W		2011-02-03	1996-07-31|2011-02-03	
-S000028781	ORF	Dubious	YHR071C-A			chromosome 8		8	239230	238910	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF ERG7/YHR072W
-S000033521	CDS					YHR071C-A		8	239230	238910	C		2011-02-03	2003-07-29	
-S000007455	ORF	Verified	YHR072W-A	NOP10	snoRNP complex protein NOP10	chromosome 8		8	241664	241840	W		2011-02-03	2000-12-01	Subunit of box H/ACA snoRNP complex; required for pseudouridylation and processing of pre-18S rRNA
-S000036439	CDS					YHR072W-A		8	241664	241840	W		2011-02-03	2000-12-01	
-S000001115	ORF	Verified	YHR073W	OSH3	oxysterol-binding protein related protein OSH3	chromosome 8		8	242582	245572	W		2011-02-03	1996-07-31	Member of an oxysterol-binding protein family; this family has seven members in S. cerevisiae; family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability; contains FFAT motif; interacts with ER anchor Scs2p at patches at the plasma membrane; regulated by sterol binding
-S000035693	CDS					YHR073W		8	242582	245572	W		2011-02-03	1996-07-31	
-S000028834	ORF	Dubious	YHR073W-A			chromosome 8		8	242868	243044	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF YHR073W; identified by expression profiling and mass spectrometry
-S000034484	CDS					YHR073W-A		8	242868	243044	W		2011-02-03	2003-07-29	
-S000028833	ORF	Dubious	YHR073C-B			chromosome 8		8	245502	245422	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF YHR073W; identified by expression profiling and mass spectrometry
-S000034483	CDS					YHR073C-B		8	245502	245422	C		2011-02-03	2003-07-29	
-S000118359	ARS		ARS813		ARSVIII-246	chromosome 8		8	245773	245847			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178108	ARS_consensus_sequence					ARS813		8	245789	245805	W		2014-11-18	2014-11-18	
-S000001116	ORF	Verified	YHR074W	QNS1	glutamine-dependent NAD(+) synthetase	chromosome 8	S000007569	8	246193	248337	W		2011-02-03	1996-07-31	Glutamine-dependent NAD(+) synthetase; essential for the formation of NAD(+) from nicotinic acid adenine dinucleotide
-S000035833	CDS					YHR074W		8	246193	248337	W		2011-02-03	1996-07-31	
-S000001117	ORF	Verified	YHR075C	PPE1	carboxylesterase-mitochondrial 37S ribosomal protein YmS2|YmS2|MRPS2	chromosome 8		8	249641	248439	C		2011-02-03	1996-07-31	Protein with carboxyl methyl esterase activity; may have a role in demethylation of the phosphoprotein phosphatase catalytic subunit; also identified as a small subunit mitochondrial ribosomal protein
-S000035876	CDS					YHR075C		8	249641	248439	C		2011-02-03	1996-07-31	
-S000001118	ORF	Verified	YHR076W	PTC7	type 2C protein phosphatase PTC7	chromosome 8		8	251101	252225	W		2011-02-03	1996-07-31|2007-07-09	Type 2C serine/threonine protein phosphatase (PP2C); alternatively spliced to create two mRNA isoforms; protein from spliced form localizes to the mitochondria while the one from the unspliced form is localized to the nuclear envelope; activates coenzyme Q6 biosynthesis by dephosphorylation of demethoxy-Q6 hydroxylase Coq7p
-S000037820	CDS					YHR076W		8	251101	251155	W		2011-02-03	1996-07-31|2007-07-09	
-S000123271	CDS					YHR076W		8	251249	252225	W		2011-02-03	2007-07-09	
-S000123270	intron					YHR076W		8	251156	251248	W		2011-02-03	2007-07-09	
-S000001119	ORF	Verified	YHR077C	NMD2	SUP111|UPF2|SUA1|IFS1	chromosome 8	L000001257|S000029548|L000002230	8	255756	252374	C	51	2011-02-03	1999-11-17|1996-07-31	Protein involved in the nonsense-mediated mRNA decay (NMD) pathway; interacts with Nam7p and Upf3p; involved in telomere maintenance
-S000037864	CDS					YHR077C		8	255637	252374	C		2011-02-03	1999-11-17	
-S000037863	CDS					YHR077C		8	255756	255751	C		2011-02-03	1999-11-17|1996-07-31	
-S000037865	intron					YHR077C		8	255750	255638	C		2011-02-03	1999-11-17	
-S000001120	ORF	Uncharacterized	YHR078W			chromosome 8		8	256360	258018	W		2011-02-03	1996-07-31	High osmolarity-regulated gene of unknown function
-S000029926	CDS					YHR078W		8	256360	258018	W		2011-02-03	1996-07-31	
-S000001121	ORF	Verified	YHR079C	IRE1	bifunctional endoribonuclease/protein kinase IRE1|ERN1	chromosome 8	L000000875	8	261591	258244	C		2011-02-03	1996-07-31	Serine-threonine kinase and endoribonuclease; transmembrane protein that mediates the unfolded protein response (UPR) by regulating Hac1p synthesis through HAC1 mRNA splicing; role in homeostatic adaptation to ER stress; Kar2p binds inactive Ire1p and releases from it upon ER stress
-S000029980	CDS					YHR079C		8	261591	258244	C		2011-02-03	1996-07-31	
-S000001957	ORF	Verified	YHR079C-A	SAE3	YHR079BC|YHR079C-B	chromosome 8	L000002893	8	262553	262192	C		2011-02-03	1996-07-31|2005-11-03	Meiosis-specific protein involved in meiotic recombination; involved in DMC1-dependent meiotic recombination; forms heterodimer with Mei5p; proposed to be an assembly factor for Dmc1p
-S000087058	CDS					YHR079C-A		8	262354	262192	C		2011-02-03	2005-11-03	
-S000034792	CDS					YHR079C-A		8	262553	262441	C		2011-02-03	1996-07-31|2005-11-03	
-S000087057	intron					YHR079C-A		8	262440	262355	C		2011-02-03	2005-11-03	
-S000001122	ORF	Verified	YHR080C	LAM4	LTC3	chromosome 8		8	266838	262801	C		2011-02-03	1996-07-31	Sterol-binding protein that localizes to puncta in the cortical ER; sterol binding occurs via two StART-like domains; one of six StART-like domain-containing proteins in yeast that may be involved in intracellular sterol transfer between membranes; conserved across eukaryotes; has both GRAM and StART-like (VASt) domains; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
-S000037712	CDS					YHR080C		8	266838	262801	C		2011-02-03	1996-07-31	
-S000001123	ORF	Verified	YHR081W	LRP1	RRP47|YC1D	chromosome 8		8	267538	268092	W		2011-02-03	1996-07-31	Nuclear exosome-associated nucleic acid binding protein; involved in RNA processing, surveillance, degradation, tethering, and export; forms a stable heterodimer with Rrp6p and regulates its exonucleolytic activity; rapidly degraded by the proteasome in the absence of Rrp6p; homolog of mammalian nuclear matrix protein C1D involved in regulation of DNA repair and recombination
-S000030578	CDS					YHR081W		8	267538	268092	W		2011-02-03	1996-07-31	
-S000001124	ORF	Verified	YHR082C	KSP1	putative serine/threonine protein kinase KSP1	chromosome 8	L000000921	8	271548	268459	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; associates with TORC1 and likely involved in TOR signaling cascades; negative regulator of autophagy; nuclear translocation required for haploid filamentous growth; regulates filamentous growth induced nuclear translocation of Bcy1p, Fus3p, and Sks1p; overproduction causes allele-specific suppression of prp20-10; protein abundance increases in response to DNA replication stress
-S000030628	CDS					YHR082C		8	271548	268459	C		2011-02-03	1996-07-31	
-S000001125	ORF	Verified	YHR083W	SAM35	SAM complex subunit SAM35|TOM38|TOB38|FMP20	chromosome 8		8	272627	273616	W		2011-02-03	1996-07-31	Component of the sorting and assembly machinery (SAM) complex; the SAM (or TOB) complex is located in the mitochondrial outer membrane; the complex binds precursors of beta-barrel proteins and facilitates their insertion into the outer membrane
-S000030804	CDS					YHR083W		8	272627	273616	W		2011-02-03	1996-07-31	
-S000001126	ORF	Verified	YHR084W	STE12	homeodomain family transcription factor STE12	chromosome 8	L000002119	8	274174	276240	W	65.64	2011-02-03	1996-07-31	Transcription factor that is activated by a MAPK signaling cascade; activates genes involved in mating or pseudohyphal/invasive growth pathways; cooperates with Tec1p transcription factor to regulate genes specific for invasive growth
-S000030898	CDS					YHR084W		8	274174	276240	W		2011-02-03	1996-07-31	
-S000001127	ORF	Verified	YHR085W	IPI1		chromosome 8		8	276764	277768	W		2011-02-03	1996-07-31	Component of the Rix1 complex and possibly pre-replicative complexes; required for processing of ITS2 sequences from 35S pre-rRNA; component of the pre-60S ribosomal particle with the dynein-related AAA-type ATPase Mdn1p; required for pre-replicative complex (pre-RC) formation and maintenance during DNA replication licensing; relocalizes to the cytosol in response to hypoxia; essential gene
-S000031899	CDS					YHR085W		8	276764	277768	W		2011-02-03	1996-07-31	
-S000001128	ORF	Verified	YHR086W	NAM8	MUD15|MRE2	chromosome 8	L000001147|L000001230	8	278153	279724	W		2011-02-03	1996-07-31	RNA binding protein, component of the U1 snRNP protein; mutants are defective in meiotic recombination and in formation of viable spores, involved in the formation of DSBs through meiosis-specific splicing of REC107 pre-mRNA; Nam8p regulon embraces the meiotic pre-mRNAs of REC107, HFM1, AMA1 SPO22 and PCH2; the putative RNA binding domains RRM2 and RRM3 are required for Nam8p meiotic function
-S000032027	CDS					YHR086W		8	278153	279724	W		2011-02-03	1996-07-31	
-S000028552	ORF	Uncharacterized	YHR086W-A			chromosome 8		8	280231	280392	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
-S000031238	CDS					YHR086W-A		8	280231	280392	W		2011-02-03	2003-07-29	
-S000001129	ORF	Verified	YHR087W	RTC3	HGI1	chromosome 8		8	280820	281155	W		2011-02-03	1996-07-31	Protein of unknown function involved in RNA metabolism; has structural similarity to SBDS, the human protein mutated in Shwachman-Diamond Syndrome (the yeast SBDS ortholog = SDO1); null mutation suppresses cdc13-1 temperature sensitivity; protein abundance increases in response to DNA replication stress
-S000032137	CDS					YHR087W		8	280820	281155	W		2011-02-03	1996-07-31	
-S000001130	ORF	Verified	YHR088W	RPF1	rRNA-binding ribosome biosynthesis protein RPF1	chromosome 8		8	281495	282382	W		2011-02-03	1996-07-31	Protein involved in assembly and export of the large ribosomal subunit; nucleolar protein; constituent of 66S pre-ribosomal particles; contains a sigma(70)-like motif, which is thought to bind RNA
-S000034136	CDS					YHR088W		8	281495	282382	W		2011-02-03	1996-07-31	
-S000001131	ORF	Verified	YHR089C	GAR1	H/ACA snoRNP pseudouridylase subunit GAR1	chromosome 8	L000000668	8	283298	282681	C		2011-02-03	1996-07-31	Protein component of the H/ACA snoRNP pseudouridylase complex; involved in the modification and cleavage of the 18S pre-rRNA
-S000034183	CDS					YHR089C		8	283298	282681	C		2011-02-03	1996-07-31	
-S000001132	ORF	Verified	YHR090C	YNG2	histone acetyltransferase YNG2|EAF4|NBN1	chromosome 8	L000004452	8	284625	283777	C		2011-02-03	1996-07-31	Subunit of NuA4, an essential histone acetyltransferase complex; positions Piccolo NuA4 for efficient acetylation of histone H4 or histone H2A; relocalizes to the cytosol in response to hypoxia; similar to human tumor suppressor ING1 and its isoforms ING4 and ING5
-S000033033	CDS					YHR090C		8	284625	283777	C		2011-02-03	1996-07-31	
-S000001133	ORF	Verified	YHR091C	MSR1	arginine--tRNA ligase MSR1	chromosome 8	L000002618	8	286770	284839	C		2011-02-03	1996-07-31	Mitochondrial arginyl-tRNA synthetase; mutations in human ortholog are associated with pontocerebellar hypoplasia type 6; MSR1 has a paralog, YDR341C, that arose from the whole genome duplication
-S000033677	CDS					YHR091C		8	286770	284839	C		2011-02-03	1996-07-31	
-S000130149	ARS		ARS814			chromosome 8		8	286770	287128			2011-02-03	2009-05-06|2011-02-03	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000001134	ORF	Verified	YHR092C	HXT4	hexose transporter HXT4|RAG1|LGT1	chromosome 8	L000000838	8	288811	287081	C		2011-02-03	1996-07-31|2011-02-03	High-affinity glucose transporter; member of the major facilitator superfamily, expression is induced by low levels of glucose and repressed by high levels of glucose; HXT4 has a paralog, HXT7, that arose from the whole genome duplication
-S000033772	CDS					YHR092C		8	288811	287081	C		2011-02-03	1996-07-31|2011-02-03	
-S000001135	ORF	Dubious	YHR093W	AHT1		chromosome 8	L000000065	8	289142	289690	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; multicopy suppressor of glucose transport defects, likely due to the presence of an HXT4 regulatory element in the region
-S000033970	CDS					YHR093W		8	289142	289690	W		2011-02-03	1996-07-31	
-S000001136	ORF	Verified	YHR094C	HXT1	hexose transporter HXT1|HOR4	chromosome 8	L000000835	8	292625	290913	C	66.54	2011-02-03	1996-07-31	Low-affinity glucose transporter of the major facilitator superfamily; expression is induced by Hxk2p in the presence of glucose and repressed by Rgt1p when glucose is limiting; HXT1 has a paralog, HXT6, what arose from the whole genome duplication
-S000034018	CDS					YHR094C		8	292625	290913	C		2011-02-03	1996-07-31	
-S000001137	ORF	Dubious	YHR095W			chromosome 8		8	292943	293437	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035020	CDS					YHR095W		8	292943	293437	W		2011-02-03	1996-07-31|2011-02-03	
-S000001138	ORF	Verified	YHR096C	HXT5	hexose transporter HXT5	chromosome 8	L000000839	8	296447	294669	C		2011-02-03	1996-07-31	Hexose transporter with moderate affinity for glucose; induced in the presence of non-fermentable carbon sources, induced by a decrease in growth rate, contains an extended N-terminal domain relative to other HXTs; HXT5 has a paralog, HXT3, that arose from the whole genome duplication
-S000035072	CDS					YHR096C		8	296447	294669	C		2011-02-03	1996-07-31	
-S000130150	ARS		ARS815			chromosome 8		8	297060	297179			2014-11-18	2014-11-18|2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000001139	ORF	Uncharacterized	YHR097C			chromosome 8		8	298609	297385	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus; YHR097C has a paralog, PAL1, that arose from the whole genome duplication
-S000035267	CDS					YHR097C		8	298360	297385	C		2011-02-03	1996-07-31	
-S000035266	CDS					YHR097C		8	298609	298485	C		2011-02-03	1996-07-31	
-S000035268	intron					YHR097C		8	298484	298361	C		2011-02-03	1996-07-31	
-S000001140	ORF	Verified	YHR098C	SFB3	LST1	chromosome 8	L000004659	8	301934	299145	C		2011-02-03	1996-07-31	Component of the Sec23p-Sfb3p heterodimer of the COPII vesicle coat; COPII coat is required for cargo selection during vesicle formation in ER to Golgi transport; scaffolding function of Lst1p required to generate vesicles that can accommodate difficult cargo proteins that include large oligomeric assemblies and asymmetrically distributed membrane proteins; homologous to Sec24p and Sfb2p
-S000036156	CDS					YHR098C		8	301934	299145	C		2011-02-03	1996-07-31	
-S000001141	ORF	Verified	YHR099W	TRA1	histone acetyltransferase TRA1	chromosome 8	L000003945	8	302761	313995	W		2011-02-03	1996-07-31	Subunit of SAGA and NuA4 histone acetyltransferase complexes; interacts with acidic activators (e.g., Gal4p) which leads to transcription activation; similar to human TRRAP, which is a cofactor for c-Myc mediated oncogenic transformation
-S000036322	CDS					YHR099W		8	302761	313995	W		2011-02-03	1996-07-31	
-S000001142	ORF	Verified	YHR100C	GEP4	phosphatidylglycerophosphatase	chromosome 8		8	314673	314116	C		2011-02-03	1996-07-31	Mitochondrial phosphatidylglycerophosphatase (PGP phosphatase); dephosphorylates phosphatidylglycerolphosphate to generate phosphatidylglycerol, an essential step during cardiolipin biosynthesis; null mutant is sensitive to tunicamycin, DTT
-S000034711	CDS					YHR100C		8	314673	314116	C		2011-02-03	1996-07-31	
-S000001143	ORF	Verified	YHR101C	BIG1		chromosome 8	L000003416	8	315968	314874	C		2011-02-03	1996-07-31	Integral membrane protein of the endoplasmic reticulum; required for normal content of cell wall beta-1,6-glucan
-S000035670	CDS					YHR101C		8	315771	314874	C		2011-02-03	1996-07-31	
-S000035669	CDS					YHR101C		8	315968	315859	C		2011-02-03	1996-07-31	
-S000035671	intron					YHR101C		8	315858	315772	C		2011-02-03	1996-07-31	
-S000001144	ORF	Verified	YHR102W	KIC1	putative serine/threonine protein kinase KIC1|NRK1	chromosome 8	L000001276	8	316572	319814	W		2011-02-03	1996-07-31	Protein kinase of the PAK/Ste20 family, required for cell integrity; physically interacts with Cdc31p (centrin), which is a component of the spindle pole body; part of the RAM network that regulates cellular polarity and morphogenesis
-S000035759	CDS					YHR102W		8	316572	319814	W		2011-02-03	1996-07-31	
-S000001145	ORF	Verified	YHR103W	SBE22		chromosome 8	L000003101	8	320414	322972	W		2011-02-03	1996-07-31	Protein involved in bud growth; involved in the transport of cell wall components from the Golgi to the cell surface; similar in structure and functionally redundant with Sbe2p; SBE22 has a paralog, SBE2, that arose from the whole genome duplication
-S000035866	CDS					YHR103W		8	320414	322972	W		2011-02-03	1996-07-31	
-S000001146	ORF	Verified	YHR104W	GRE3	trifunctional aldehyde reductase/xylose reductase/glucose 1-dehydrogenase (NADP(+))	chromosome 8	L000004178	8	323409	324392	W		2011-02-03	1996-07-31	Aldose reductase; involved in methylglyoxal, d-xylose, arabinose, and galactose metabolism; stress induced (osmotic, ionic, oxidative, heat shock, starvation and heavy metals); regulated by the HOG pathway; protein abundance increases in response to DNA replication stress
-S000036784	CDS					YHR104W		8	323409	324392	W		2011-02-03	1996-07-31	
-S000001147	ORF	Verified	YHR105W	YPT35		chromosome 8		8	324766	325410	W		2011-02-03	1996-07-31	Endosomal protein of unknown function; contains a phox (PX) homology domain; binds to both phosphatidylinositol-3-phosphate (PtdIns(3)P) and proteins involved in ER-Golgi or vesicular transport
-S000036859	CDS					YHR105W		8	324766	325410	W		2011-02-03	1996-07-31	
-S000001148	ORF	Verified	YHR106W	TRR2	thioredoxin-disulfide reductase TRR2	chromosome 8	L000003954	8	325598	326626	W		2011-02-03	1996-07-31	Mitochondrial thioredoxin reductase; involved in protection against oxidative stress, required with Glr1p to maintain the redox state of Trx3p; contains active-site motif (CAVC) present in prokaryotic orthologs; binds NADPH and FAD; TRR2 has a paralog, TRR1, that arose from the whole genome duplication
-S000036915	CDS					YHR106W		8	325598	326626	W		2011-02-03	1996-07-31	
-S000001149	ORF	Verified	YHR107C	CDC12	septin CDC12|PSL7|CLA10	chromosome 8	L000000348|L000000252	8	328036	326813	C	68.14	2011-02-03	1996-07-31	Component of the septin ring that is required for cytokinesis; septins are GTP-binding proteins that assemble into rod-like hetero-oligomers that can associate with other rods to form filaments; septin rings at the mother-bud neck act as scaffolds for recruiting cell division factors and as barriers to prevent diffusion of specific proteins between mother and daughter cells
-S000036947	CDS					YHR107C		8	328036	326813	C		2011-02-03	1996-07-31	
-S000001150	ORF	Verified	YHR108W	GGA2	phosphatidylinositol 4-phosphate-binding protein	chromosome 8	S000007494	8	328303	330060	W		2011-02-03	1996-07-31	Protein that regulates Arf1p, Arf2p to facilitate Golgi trafficking; binds phosphatidylinositol 4-phosphate, which plays a role in TGN localization; has homology to gamma-adaptin; GGA2 has a paralog, GGA1, that arose from the whole genome duplication
-S000037727	CDS					YHR108W		8	328303	330060	W		2011-02-03	1996-07-31	
-S000001151	ORF	Verified	YHR109W	CTM1	cytochrome c lysine N-methyltransferase	chromosome 8	S000007504	8	330310	332067	W		2011-02-03	1996-07-31	Cytochrome c lysine methyltransferase; trimethylates residue 72 of apo-cytochrome c (Cyc1p) in the cytosol; not required for normal respiratory growth
-S000037814	CDS					YHR109W		8	330310	332067	W		2011-02-03	1996-07-31	
-S000001152	ORF	Verified	YHR110W	ERP5		chromosome 8	L000004682	8	332282	332920	W		2011-02-03	1996-07-31	Protein with similarity to Emp24p and Erv25p; member of the p24 family involved in ER to Golgi transport
-S000030739	CDS					YHR110W		8	332282	332920	W		2011-02-03	1996-07-31	
-S000001153	ORF	Verified	YHR111W	UBA4	YHR1	chromosome 8		8	333072	334394	W		2011-02-03	1996-07-31	E1-like protein that activates Urm1p before urmylation; also acts in thiolation of the wobble base of cytoplasmic tRNAs by adenylating and then thiolating Urm1p; receives sulfur from Tum1p
-S000030847	CDS					YHR111W		8	333072	334394	W		2011-02-03	1996-07-31	
-S000001154	ORF	Verified	YHR112C		putative cystathionine beta-lyase	chromosome 8		8	335663	334527	C		2011-02-03	1996-07-31	Protein of unknown function; localizes to the cytoplasm and nucleus; overexpression affects protein trafficking through the endocytic pathway
-S000031735	CDS					YHR112C		8	335663	334527	C		2011-02-03	1996-07-31	
-S000001155	ORF	Verified	YHR113W	APE4	aspartyl aminopeptidase	chromosome 8		8	336337	337809	W		2011-02-03	1996-07-31	Cytoplasmic aspartyl aminopeptidase with possible vacuole function; Cvt pathway cargo protein; cleaves unblocked N-terminal acidic amino acids from peptide substrates; forms a 12-subunit homo-oligomer; M18 metalloprotease family
-S000031980	CDS					YHR113W		8	336337	337809	W		2011-02-03	1996-07-31	
-S000001156	ORF	Verified	YHR114W	BZZ1	LSB7	chromosome 8		8	338083	339984	W		2011-02-03	1996-07-31	SH3 domain protein implicated in regulating actin polymerization; able to recruit actin polymerization machinery through its SH3 domains; colocalizes with cortical actin patches and Las17p; interacts with type I myosins
-S000032098	CDS					YHR114W		8	338083	339984	W		2011-02-03	1996-07-31	
-S000001157	ORF	Verified	YHR115C	DMA1	ubiquitin-conjugating protein DMA1|CHF1	chromosome 8	S000029719	8	341359	340109	C		2011-02-03	1996-07-31	Ubiquitin-protein ligase (E3); controls septin dynamics, spindle position checkpoint (SPOC) with ligase Dma2p by regulating recruitment of Elm1p to bud neck; regulates levels of eIF2 subunit Gcd11p, as well as abundance, localization, and ubiquitination of Cdk inhibitory kinase Swe1p; ubiquitinates cyclin Pcl1p; ortholog of human RNF8, similar to human Chfr; contains FHA, RING fingers; DMA1 has a paralog, DMA2, that arose from the whole genome duplication
-S000032967	CDS					YHR115C		8	341359	340109	C		2011-02-03	1996-07-31	
-S000001158	ORF	Verified	YHR116W	COX23		chromosome 8		8	341665	342120	W		2011-02-03	1996-07-31	Protein that functions in mitochondrial copper homeostasis; mitochondrial intermembrane space protein; essential for functional cytochrome oxidase expression; homologous to Cox17p; contains twin cysteine-x9-cysteine motifs
-S000033114	CDS					YHR116W		8	341665	342120	W		2011-02-03	1996-07-31	
-S000001159	ORF	Verified	YHR117W	TOM71	protein channel TOM71|TOM72	chromosome 8	L000003252	8	342349	344268	W		2011-02-03	1996-07-31	Mitochondrial outer membrane protein; probable minor component of the TOM (translocase of outer membrane) complex responsible for recognition and import of mitochondrially directed proteins; TOM71 has a paralog, TOM70, that arose from the whole genome duplication
-S000033188	CDS					YHR117W		8	342349	344268	W		2011-02-03	1996-07-31	
-S000001160	ORF	Verified	YHR118C	ORC6	origin recognition complex subunit 6	chromosome 8	L000001306	8	345628	344321	C		2011-02-03	1996-07-31	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; phosphorylated by Cdc28p; mutation in the human Orc6p is linked to Meier-Gorlin syndrome
-S000033913	CDS					YHR118C		8	345628	344321	C		2011-02-03	1996-07-31	
-S000001161	ORF	Verified	YHR119W	SET1	histone methyltransferase SET1|KMT2|YTX1	chromosome 8	L000003286	8	346043	349285	W		2011-02-03	1996-07-31	Histone methyltransferase, subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3K4; Set1p-dependent H3K4 trimethylation recruits Nrd1p, allowing efficient termination of snoRNAs and cryptic unstable transcripts (CUTs) by Nrd1p-Nab3p-Sen1p pathway; modulates histone acetylation levels in promoter proximal regions to ensure efficient Nrd1p-dependent termination; required in transcriptional silencing near telomeres and at silent mating type loci; has a SET domain
-S000034097	CDS					YHR119W		8	346043	349285	W		2011-02-03	1996-07-31	
-S000001162	ORF	Verified	YHR120W	MSH1	mismatch repair ATPase MSH1	chromosome 8	L000001189	8	349574	352453	W	70.44	2011-02-03	1996-07-31	DNA-binding protein of the mitochondria; involved in repair of mitochondrial DNA; has ATPase activity and binds to DNA mismatches; has homology to E. coli MutS; transcription is induced during meiosis
-S000035066	CDS					YHR120W		8	349574	352453	W		2011-02-03	1996-07-31	
-S000001163	ORF	Verified	YHR121W	LSM12		chromosome 8		8	352756	353319	W		2011-02-03	1996-07-31	Protein of unknown function that may function in RNA processing; interacts with Pbp1p and Pbp4p and associates with ribosomes; contains an RNA-binding LSM domain and an AD domain; GFP-fusion protein is induced by the DNA-damaging agent MMS; relative distribution to the nucleus increases upon DNA replication stress
-S000035174	CDS					YHR121W		8	352756	353319	W		2011-02-03	1996-07-31	
-S000001164	ORF	Verified	YHR122W	CIA2	iron-sulfur cluster assembly protein CIA2	chromosome 8		8	353625	354320	W		2011-02-03	1996-07-31	Component of cytosolic iron-sulfur protein assembly (CIA) machinery; acts at a late step of Fe-S cluster assembly; forms the CIA targeting complex with Cia1p and Met18p that directs Fe-S cluster incorporation into a subset of proteins involved in methionine biosynthesis, DNA replication and repair, transcription, and telomere maintenance; ortholog of human FAM96B
-S000036050	CDS					YHR122W		8	353625	354320	W		2011-02-03	1996-07-31	
-S000001165	ORF	Verified	YHR123W	EPT1	bifunctional diacylglycerol cholinephosphotransferase/ethanolaminephosphotransferase	chromosome 8	L000000563	8	354815	356081	W		2011-02-03	1996-07-31	sn-1,2-diacylglycerol ethanolamine- and cholinephosphotranferase; not essential for viability; EPT1 has a paralog, CPT1, that arose from the whole genome duplication
-S000036151	CDS					YHR123W		8	354815	354864	W		2011-02-03	1996-07-31	
-S000036152	CDS					YHR123W		8	354956	356081	W		2011-02-03	1996-07-31	
-S000036153	intron					YHR123W		8	354865	354955	W		2011-02-03	1996-07-31	
-S000001166	ORF	Verified	YHR124W	NDT80	transcription factor NDT80	chromosome 8	L000003016	8	356561	358444	W		2011-02-03	1996-07-31	Meiosis-specific transcription factor; required for exit from pachytene and for full meiotic recombination; activates middle sporulation genes; competes with Sum1p for binding to promoters containing middle sporulation elements (MSE) 
-S000029855	CDS					YHR124W		8	356561	358444	W		2011-02-03	1996-07-31	
-S000006567	tRNA_gene		tF(GAA)H2			chromosome 8	L000003860	8	358569	358478	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
-S000032804	intron					tF(GAA)H2		8	358532	358514	C		2011-02-03	2000-05-19	
-S000032803	noncoding_exon					tF(GAA)H2		8	358513	358478	C		2011-02-03	2000-05-19	
-S000032802	noncoding_exon					tF(GAA)H2		8	358569	358533	C		2011-02-03	2000-05-19	
-S000006996	long_terminal_repeat		YHRCdelta8			chromosome 8		8	358850	358672	C		2011-02-03	2000-05-19	Ty1 LTR
-S000001167	ORF	Dubious	YHR125W			chromosome 8		8	358858	359163	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031773	CDS					YHR125W		8	358858	359163	W		2011-02-03	1996-07-31	
-S000007005	long_terminal_repeat		YHRCtau4			chromosome 8		8	359067	358850	C		2011-02-03	2000-05-19	Ty4 LTR
-S000007008	long_terminal_repeat		YHRWdelta9			chromosome 8		8	359079	359372	W		2011-02-03	2000-05-19	Ty1 LTR
-S000001168	ORF	Uncharacterized	YHR126C	ANS1		chromosome 8		8	360181	359702	C		2011-02-03	1996-07-31	Putative GPI protein; SWAT-GFP and mCherry fusion proteins localize to the vacuole; transcription dependent upon Azf1p
-S000031832	CDS					YHR126C		8	360181	359702	C		2011-02-03	1996-07-31	
-S000001169	ORF	Verified	YHR127W		HSN1	chromosome 8	L000004353	8	360913	361644	W		2011-02-03	1996-07-31	Protein of unknown function; localizes to the nucleus; required for asymmetric localization of Kar9p during mitosis
-S000032038	CDS					YHR127W		8	360913	361644	W		2011-02-03	1996-07-31	
-S000001170	ORF	Verified	YHR128W	FUR1	uracil phosphoribosyltransferase	chromosome 8	L000000651	8	362115	362765	W	91	2011-02-03	2003-09-22|1996-07-31	Uracil phosphoribosyltransferase; synthesizes UMP from uracil; involved in the pyrimidine salvage pathway
-S000037493	CDS					YHR128W		8	362115	362765	W		2011-02-03	2003-09-22|1996-07-31	
-S000001171	ORF	Verified	YHR129C	ARP1	actin-related protein 1|ACT5	chromosome 8	L000000028	8	364153	362999	C		2011-02-03	1996-07-31	Actin-related protein of the dynactin complex; required for spindle orientation and nuclear migration; forms actin-like short filament composed of 9 or 10 Arp1p monomers; putative ortholog of mammalian centractin
-S000037551	CDS					YHR129C		8	364153	362999	C		2011-02-03	1996-07-31	
-S000001172	ORF	Uncharacterized	YHR130C			chromosome 8		8	365300	364965	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YHR130C is not an essential gene
-S000037165	CDS					YHR130C		8	365300	364965	C		2011-02-03	1996-07-31	
-S000028782	ORF	Dubious	YHR131W-A			chromosome 8		8	367747	367992	W		2011-02-03	2004-07-26|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YHR131C
-S000033522	CDS					YHR131W-A		8	367747	367992	W		2011-02-03	2004-07-26|2003-07-29	
-S000001173	ORF	Uncharacterized	YHR131C			chromosome 8		8	367892	365340	C		2011-02-03	2004-07-26|1996-07-31	Putative protein of unknown function; GFP-fusion protein localizes to the cytoplasm; overexpression causes cell cycle delay or arrest; contains a PH domain and binds phosphatidylinositols and other lipids in a large-scale study; YHR131C has a paralog, YNL144C, that arose from the whole genome duplication
-S000037245	CDS					YHR131C		8	367892	365340	C		2011-02-03	2004-07-26|1996-07-31	
-S000001174	ORF	Verified	YHR132C	ECM14	putative metallocarboxypeptidase	chromosome 8	L000003889	8	369794	368502	C		2011-02-03	1996-07-31	Putative metalloprotease with similarity to zinc carboxypeptidases; required for normal cell wall assembly
-S000037322	CDS					YHR132C		8	369794	368502	C		2011-02-03	1996-07-31	
-S000007496	ORF	Verified	YHR132W-A	IGO2	phosphatase regulator	chromosome 8		8	370054	370449	W		2011-02-03	2000-01-21	Protein required for initiation of G0 program; prevents degradation of nutrient-regulated mRNAs via the 5'-3' mRNA decay pathway; phosphorylated by Rim15p; GFP protein localizes to the cytoplasm and nucleus; IGO2 has a paralog, IGO1, that arose from the whole genome duplication
-S000032170	CDS					YHR132W-A		8	370054	370449	W		2011-02-03	2000-01-21	
-S000001175	ORF	Verified	YHR133C	NSG1		chromosome 8		8	371597	370722	C		2011-02-03	1996-07-31	Protein involved in regulation of sterol biosynthesis; specifically stabilizes Hmg2p, one of two HMG-CoA isoenzymes that catalyze the rate-limiting step in sterol biosynthesis; forms foci at the nuclear periphery upon DNA replication stress; relocalizes to the cytosol in response to hypoxia; homolog of mammalian INSIG proteins; NSG1 has a paralog, NSG2, that arose from the whole genome duplication
-S000037393	CDS					YHR133C		8	371597	370722	C		2011-02-03	1996-07-31	
-S000001176	ORF	Verified	YHR134W	WSS1	metalloendopeptidase WSS1	chromosome 8		8	371749	372558	W		2011-02-03	1996-07-31	Metalloprotease involved in DNA repair, removes DNA-protein crosslinks at stalled replication forks during replication of damaged DNA; localizes to a single spot on the nuclear periphery of mother cells but not daughters; interacts genetically with SMT3; activated by DNA binding
-S000030068	CDS					YHR134W		8	371749	372558	W		2011-02-03	1996-07-31	
-S000001177	ORF	Verified	YHR135C	YCK1	serine/threonine protein kinase YCK1|CKI2	chromosome 8	L000002500	8	374310	372694	C		2011-02-03	1996-07-31	Palmitoylated plasma membrane-bound casein kinase I (CK1) isoform; shares redundant functions with Yck2p in morphogenesis, proper septin assembly, endocytic trafficking, and glucose sensing; stabilized by Sod1p binding in the presence of glucose and oxygen, causing glucose repression of respiratory metabolism; involved in the phosphorylation and regulation of glucose sensor Rgt2p; YCK1 has a paralog, YCK2, that arose from the whole genome duplication
-S000030130	CDS					YHR135C		8	374310	372694	C		2011-02-03	1996-07-31	
-S000001178	ORF	Verified	YHR136C	SPL2		chromosome 8	L000004174	8	375100	374654	C		2011-02-03	1996-07-31	Protein with similarity to cyclin-dependent kinase inhibitors; downregulates low-affinity phosphate transport during phosphate limitation by targeting Pho87p to the vacuole; upstream region harbors putative hypoxia response element (HRE) cluster; overproduction suppresses a plc1 null mutation; promoter shows an increase in Snf2p occupancy after heat shock; GFP-fusion protein localizes to the cytoplasm
-S000030305	CDS					YHR136C		8	375100	374654	C		2011-02-03	1996-07-31	
-S000001179	ORF	Verified	YHR137W	ARO9	aromatic-amino-acid:2-oxoglutarate transaminase	chromosome 8	L000003950	8	375709	377250	W		2011-02-03	1996-07-31	Aromatic aminotransferase II; catalyzes the first step of tryptophan, phenylalanine, and tyrosine catabolism
-S000033667	CDS					YHR137W		8	375709	377250	W		2011-02-03	1996-07-31	
-S000028649	ORF	Dubious	YHR137C-A			chromosome 8		8	376388	375738	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene ARO9/YHR137W; identified by gene-trapping, expression analysis, and genome-wide homology searching
-S000032425	CDS					YHR137C-A		8	376388	375738	C		2011-02-03	2003-07-29	
-S000001180	ORF	Verified	YHR138C			chromosome 8		8	377699	377355	C		2011-02-03	1996-07-31	Protein of unknown function; similar to Pbi2p; double null mutant lacking Pbi2p and Yhr138cp exhibits highly fragmented vacuoles; protein abundance increases in response to DNA replication stress
-S000033725	CDS					YHR138C		8	377699	377355	C		2011-02-03	1996-07-31	
-S000001181	ORF	Verified	YHR139C	SPS100		chromosome 8	L000002027	8	379199	378219	C		2011-02-03	1996-07-31	Protein required for spore wall maturation; expressed during sporulation; may be a component of the spore wall; expression also induced in cells treated with the mycotoxin patulin; SPS100 has a paralog, YGP1, that arose from the whole genome duplication
-S000033864	CDS					YHR139C		8	379199	378219	C		2011-02-03	1996-07-31	
-S000003533	ORF	Dubious	YHR139C-A			chromosome 8		8	380419	380108	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035738	CDS					YHR139C-A		8	380419	380108	C		2011-02-03	1996-07-31	
-S000001182	ORF	Uncharacterized	YHR140W			chromosome 8		8	380572	381291	W		2011-02-03	1996-07-31	Putative integral membrane protein of unknown function
-S000033477	CDS					YHR140W		8	380572	381291	W		2011-02-03	1996-07-31	
-S000007297	snoRNA_gene		snR32	SNR32		chromosome 8	L000001970	8	381540	381727	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2191
-S000036759	noncoding_exon					snR32		8	381540	381727	W		2011-02-03	2000-05-19	
-S000001183	ORF	Verified	YHR141C	RPL42B	eL42|ribosomal 60S subunit protein L42B|L44e|YP44|YL27|L42B|L41B|MAK18	chromosome 8	L000001732|L000000990	8	382751	381990	C	95	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L42B; required for propagation of the killer toxin-encoding M1 double-stranded RNA satellite of the L-A double-stranded RNA virus; homologous to mammalian ribosomal protein L36A, no bacterial homolog; RPL42B has a paralog, RPL42A, that arose from the whole genome duplication
-S000033511	CDS					YHR141C		8	382306	381990	C		2011-02-03	1996-07-31	
-S000033510	CDS					YHR141C		8	382751	382748	C		2011-02-03	1996-07-31	
-S000033512	intron					YHR141C		8	382747	382307	C		2011-02-03	1996-07-31	
-S000001184	ORF	Verified	YHR142W	CHS7		chromosome 8	S000007442	8	383538	384488	W		2011-02-03	1996-07-31	Protein of unknown function; may be involved in chitin biosynthesis by regulation of Chs3p export from the ER; relocalizes from bud neck to ER upon DNA replication stress
-S000033600	CDS					YHR142W		8	383538	384488	W		2011-02-03	1996-07-31	
-S000001186	ORF	Verified	YHR143W	DSE2		chromosome 8		8	385510	386487	W		2011-02-03	1996-07-31	Daughter cell-specific secreted protein with similarity to glucanases; degrades cell wall from the daughter side causing daughter to separate from mother; expression is repressed by cAMP
-S000034514	CDS					YHR143W		8	385510	386487	W		2011-02-03	1996-07-31	
-S000001185	ORF	Verified	YHR143W-A	RPC10	DNA-directed RNA polymerase core subunit RPC10|ABC10-alpha|RPB12	chromosome 8	L000001686	8	387233	387445	W		2011-02-03	1996-07-31	RNA polymerase subunit ABC10-alpha, found in RNA pol I, II, and III; relocalizes from nucleolus to cytoplasm upon DNA replication stress
-S000036603	CDS					YHR143W-A		8	387233	387445	W		2011-02-03	1996-07-31	
-S000001187	ORF	Verified	YHR144C	DCD1	deoxycytidine monophosphate deaminase	chromosome 8	L000000496	8	388726	387788	C		2011-02-03	1996-07-31	Deoxycytidine monophosphate (dCMP) deaminase; involved in dUMP and dTMP biosynthesis; expression is NOT cell cycle regulated
-S000034581	CDS					YHR144C		8	388726	387788	C		2011-02-03	1996-07-31	
-S000006682	tRNA_gene		tP(UGG)H	SUF8		chromosome 8	L000002156|L000003859	8	388995	388893	C	82	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin; can mutate to suppress +1 frameshift mutations in proline codons
-S000035984	intron					tP(UGG)H		8	388959	388929	C		2011-02-03	2000-05-19	
-S000035983	noncoding_exon					tP(UGG)H		8	388928	388893	C		2011-02-03	2000-05-19	
-S000035982	noncoding_exon					tP(UGG)H		8	388995	388960	C		2011-02-03	2000-05-19	
-S000001188	ORF	Dubious	YHR145C			chromosome 8		8	389337	388981	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034646	CDS					YHR145C		8	389337	388981	C		2011-02-03	1996-07-31	
-S000006997	long_terminal_repeat		YHRCdelta10			chromosome 8		8	389509	389177	C		2011-02-03	2000-05-19	Ty2 LTR
-S000006998	long_terminal_repeat		YHRCdelta11			chromosome 8		8	389845	389613	C		2011-02-03	2000-05-19	Ty1 LTR
-S000001189	ORF	Verified	YHR146W	CRP1		chromosome 8		8	390300	391697	W		2011-02-03	1996-07-31	Protein that binds to cruciform DNA structures; CRP1 has a paralog, MDG1, that arose from the whole genome duplication
-S000035695	CDS					YHR146W		8	390300	391697	W		2011-02-03	1996-07-31	
-S000118360	ARS		ARS818		ARSVIII-392	chromosome 8		8	392180	392395			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178109	ARS_consensus_sequence					ARS818		8	392249	392233	C		2014-11-18	2014-11-18	
-S000001190	ORF	Verified	YHR147C	MRPL6	mitochondrial 54S ribosomal protein YmL16|YmL16	chromosome 8	L000001161	8	393283	392639	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
-S000035761	CDS					YHR147C		8	393283	392639	C		2011-02-03	1996-07-31	
-S000001191	ORF	Verified	YHR148W	IMP3	snoRNA-binding rRNA-processing protein IMP3	chromosome 8	S000007425	8	393534	394085	W		2011-02-03	1996-07-31	Component of the SSU processome; SSU processome is required for pre-18S rRNA processing, essential protein that interacts with Mpp10p and mediates interactions of Imp4p and Mpp10p with U3 snoRNA
-S000035958	CDS					YHR148W		8	393534	394085	W		2011-02-03	1996-07-31	
-S000001192	ORF	Verified	YHR149C	SKG6		chromosome 8		8	396659	394455	C		2011-02-03	1996-07-31	Integral membrane protein; localizes primarily to growing sites such as the bud tip or the cell periphery; potential Cdc28p substrate; Skg6p interacts with Zds1p and Zds2p; SKG6 has a paralog, TOS2, that arose from the whole genome duplication
-S000037794	CDS					YHR149C		8	396659	394455	C		2011-02-03	1996-07-31	
-S000001193	ORF	Verified	YHR150W	PEX28		chromosome 8		8	397251	398990	W		2011-02-03	1996-07-31	Peroxisomal integral membrane peroxin; involved in the regulation of peroxisomal size, number and distribution; genetic interactions suggest that Pex28p and Pex29p act at steps upstream of those mediated by Pex30p, Pex31p, and Pex32p
-S000037560	CDS					YHR150W		8	397251	398990	W		2011-02-03	1996-07-31	
-S000001194	ORF	Verified	YHR151C	MTC6		chromosome 8		8	400848	399268	C		2011-02-03	1996-07-31	Protein of unknown function; mtc6 is synthetically sick with cdc13-1; SWAT-GFP and mCherry fusion proteins localize to the vacuole while SWAT-GFP fusion also localizes to the endoplasmic reticulum
-S000037592	CDS					YHR151C		8	400848	399268	C		2011-02-03	1996-07-31	
-S000001195	ORF	Verified	YHR152W	SPO12	SDB21	chromosome 8	L000002003|S000029441|L000001821	8	401434	401955	W	83	2011-02-03	1996-07-31	Nucleolar protein of unknown function; positive regulator of mitotic exit; involved in regulating release of Cdc14p from the nucleolus in early anaphase, may play similar role in meiosis; SPO12 has a paralog, BNS1, that arose from the whole genome duplication
-S000037692	CDS					YHR152W		8	401434	401955	W		2011-02-03	1996-07-31	
-S000001196	ORF	Verified	YHR153C	SPO16		chromosome 8	L000002007	8	402682	402086	C	83	2011-02-03	1996-07-31	Meiosis-specific protein involved in synaptonemal complex assembly; implicated in regulation of crossover formation; required for sporulation
-S000037713	CDS					YHR153C		8	402682	402086	C		2011-02-03	1996-07-31	
-S000001197	ORF	Verified	YHR154W	RTT107	ESC4	chromosome 8	L000004424	8	402966	406178	W		2011-02-03	1996-07-31	Protein implicated in Mms22-dependent DNA repair during S phase; involved in recruiting the SMC5/6 complex to double-strand breaks; DNA damage induces phosphorylation by Mec1p at one or more SQ/TQ motifs; interacts with Mms22p and Slx4p; has four BRCT domains; has a role in regulation of Ty1 transposition; relative distribution to nuclear foci increases upon DNA replication stress
-S000030580	CDS					YHR154W		8	402966	406178	W		2011-02-03	1996-07-31	
-S000001198	ORF	Verified	YHR155W	LAM1	YSP1	chromosome 8		8	407103	410789	W		2011-02-03	1996-07-31	Putative sterol transfer protein; localizes to puncta in the cortical ER; probable role in retrograde transport of sterols from the plasma membrane to the ER; one of six StART-like domain-containing proteins in yeast that may be involved in sterol transfer between intracellular membranes; conserved across eukaryotes; contains GRAM, StART-like (VASt) and two PH-like domains
-S000030669	CDS					YHR155W		8	407103	410789	W		2011-02-03	1996-07-31	
-S000006462	snoRNA_gene		snR71	SNR71		chromosome 8	L000004540	8	411228	411317	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A2946
-S000031782	noncoding_exon					snR71		8	411228	411317	W		2011-02-03	2000-05-19	
-S000001199	ORF	Verified	YHR156C	LIN1	U5 snRNP complex subunit LIN1|SNU40	chromosome 8		8	412406	411384	C		2011-02-03	1996-07-31	Non-essential component of U5 snRNP; nuclear protein; physically interacts with Irr1p of cohesin complex; may link together proteins involved in chromosome segregation, mRNA splicing and DNA replication
-S000030744	CDS					YHR156C		8	412406	411384	C		2011-02-03	1996-07-31	
-S000001200	ORF	Verified	YHR157W	REC104		chromosome 8	L000001605	8	412907	413455	W	107	2011-02-03	1996-07-31	Protein involved in early stages of meiotic recombination; required for meiotic crossing over; forms a complex with Rec102p and Spo11p necessary during the initiation of recombination
-S000030900	CDS					YHR157W		8	412907	413455	W		2011-02-03	1996-07-31	
-S000001201	ORF	Verified	YHR158C	KEL1		chromosome 8	L000003592	8	417179	413685	C		2011-02-03	1996-07-31	Protein required for proper cell fusion and cell morphology; forms a complex with Bud14p and Kel2p that regulates Bnr1p (formin) to affect actin cable assembly, cytokinesis, and polarized growth; functions in a complex with Kel2p to negatively regulate mitotic exit, interacts with Tem1p and Lte1p; localizes to regions of polarized growth; potential Cdc28p substrate
-S000031842	CDS					YHR158C		8	417179	413685	C		2011-02-03	1996-07-31	
-S000001202	ORF	Uncharacterized	YHR159W	TDA11		chromosome 8		8	417549	419063	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; potential Cdc28p substrate; null mutant is sensitive to expression of the top1-T722A allele
-S000032058	CDS					YHR159W		8	417549	419063	W		2011-02-03	1996-07-31	
-S000001203	ORF	Verified	YHR160C	PEX18		chromosome 8	L000004796	8	420072	419221	C		2011-02-03	1996-07-31	Peroxin; required for targeting of peroxisomal matrix proteins containing PTS2; interacts with Pex7p; partially redundant with Pex21p; primarily responsible for peroxisomal import during growth on oleate, and expression is induced during oleate growth
-S000031912	CDS					YHR160C		8	420072	419221	C		2011-02-03	1996-07-31	
-S000001204	ORF	Verified	YHR161C	YAP1801		chromosome 8	L000004198	8	422286	420373	C		2011-02-03	1996-07-31	Protein of the AP180 family, involved in clathrin cage assembly; binds Pan1p and clathrin; YAP1801 has a paralog, YAP1802, that arose from the whole genome duplication
-S000032851	CDS					YHR161C		8	422286	420373	C		2011-02-03	1996-07-31	
-S000001205	ORF	Verified	YHR162W	MPC2	mitochondrial pyruvate carrier	chromosome 8		8	423072	423461	W		2011-02-03	1996-07-31	Highly conserved subunit of the mitochondrial pyruvate carrier (MPC); expressed during growth on fermentable carbon sources, and heterodimerizes with Mpc1p to form the fermentative isoform of MPC; MPC localizes to the mitochondrial inner membrane and mediates pyruvate uptake; MPC2 paralog, MPC3, heterodimerizes with Mpc1p to form the respiratory MPC isoform
-S000033001	CDS					YHR162W		8	423072	423461	W		2011-02-03	1996-07-31	
-S000001206	ORF	Verified	YHR163W	SOL3	6-phosphogluconolactonase SOL3	chromosome 8	L000003117	8	423724	424473	W		2011-02-03	1996-07-31|2005-11-07	6-phosphogluconolactonase; catalyzes the second step of the pentose phosphate pathway; weak multicopy suppressor of los1-1 mutation; homologous to Sol2p and Sol1p; SOL3 has a paralog, SOL4, that arose from the whole genome duplication
-S000033074	CDS					YHR163W		8	423724	424473	W		2011-02-03	1996-07-31|2005-11-07	
-S000001207	ORF	Verified	YHR164C	DNA2	bifunctional ATP-dependent DNA helicase/ssDNA endodeoxyribonuclease DNA2|WEB2	chromosome 8	L000003158	8	429178	424610	C		2011-02-03	1996-07-31	Tripartite DNA replication factor; single-stranded DNA-dependent ATPase, ATP-dependent nuclease, helicase; tracking protein for flap cleavage during Okazaki fragment maturation; involved in DNA repair/processing of meiotic DNA double strand breaks; component of telomeric chromatin with cell-cycle dependent localization; required for telomerase-dependent telomere synthesis; forms nuclear foci upon DNA replication stress; human homolog DNA2 complements yeast dna2 mutant
-S000033680	CDS					YHR164C		8	429178	424610	C		2011-02-03	1996-07-31	
-S000028783	ORF	Dubious	YHR165W-A			chromosome 8		8	436647	436958	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps ORF PRP8/YHR165C
-S000033524	CDS					YHR165W-A		8	436647	436958	W		2011-02-03	2003-07-29	
-S000001208	ORF	Verified	YHR165C	PRP8	U4/U6-U5 snRNP complex subunit PRP8|USA2|SLT21|RNA8|DNA39|DBF3	chromosome 8	L000001500|L000003226	8	436948	429707	C		2011-02-03	1996-07-31	Component of U4/U6-U5 snRNP complex; involved in second catalytic step of splicing; participates in spliceosomal assembly through its interaction with U1 snRNA; largest and most evolutionarily conserved protein of the spliceosome; mutations in human ortholog, PRPF8, cause Retinitis pigmentosa and missplicing in Myelodysplastic syndrome; mouse ortholog interacts with androgen receptor and may have a role in prostate cancer
-S000033804	CDS					YHR165C		8	436948	429707	C		2011-02-03	1996-07-31	
-S000001209	ORF	Verified	YHR166C	CDC23	anaphase promoting complex subunit CDC23	chromosome 8	L000000261	8	439050	437170	C		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition
-S000033878	CDS					YHR166C		8	439050	437170	C		2011-02-03	1996-07-31	
-S000001210	ORF	Verified	YHR167W	THP2		chromosome 8		8	439342	440127	W		2011-02-03	1996-07-31	Subunit of the THO and TREX complexes; THO connects transcription elongation and mitotic recombination, and TREX is recruited to activated genes and couples transcription to mRNA export; involved in telomere maintenance
-S000034871	CDS					YHR167W		8	439342	440127	W		2011-02-03	1996-07-31	
-S000001211	ORF	Verified	YHR168W	MTG2	putative GTPase MTG2	chromosome 8		8	440377	441933	W		2011-02-03	1996-07-31|2011-02-03	Putative GTPase; member of the Obg family; peripheral protein of the mitochondrial inner membrane that associates with the large ribosomal subunit; required for mitochondrial translation, possibly via a role in ribosome assembly
-S000035023	CDS					YHR168W		8	440377	441933	W		2011-02-03	1996-07-31|2011-02-03	
-S000001212	ORF	Verified	YHR169W	DBP8	ATP-dependent RNA helicase DBP8	chromosome 8	L000004248	8	442181	443476	W		2011-02-03	1996-07-31	ATPase, putative RNA helicase of the DEAD-box family; component of 90S preribosome complex involved in production of 18S rRNA and assembly of 40S small ribosomal subunit; ATPase activity stimulated by association with Esf2p
-S000035188	CDS					YHR169W		8	442181	443476	W		2011-02-03	1996-07-31	
-S000001213	ORF	Verified	YHR170W	NMD3	ribosome-binding protein NMD3|SRC5	chromosome 8	L000002937	8	443828	445384	W		2011-02-03	1996-07-31	Protein involved in nuclear export of the large ribosomal subunit; acts as a Crm1p-dependent adapter protein for export of nascent ribosomal subunits through the nuclear pore complex
-S000036170	CDS					YHR170W		8	443828	445384	W		2011-02-03	1996-07-31	
-S000001214	ORF	Verified	YHR171W	ATG7	APG11|APG7|CVT2	chromosome 8	L000004701|S000029035|L000004786	8	445713	447605	W		2005-11-07	1996-07-31	Autophagy-related protein and dual specificity member of the E1 family; mediates the attachment of Atg12p to Atg5p and Atg8p to phosphatidylethanolamine which are required steps in autophagosome formation; E1 enzymes are also known as ubiquitin-activating enzymes; involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner
-S000036922	CDS					YHR171W		8	445713	447605	W		2005-11-07	1996-07-31	
-S000118361	ARS		ARS820		ARSVIII-448	chromosome 8		8	447714	447795			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178110	ARS_consensus_sequence					ARS820		8	447793	447777	C		2014-11-18	2014-11-18	
-S000001215	ORF	Verified	YHR172W	SPC97		chromosome 8	L000003543	8	448335	450806	W		2005-11-07	1996-07-31	Component of the microtubule-nucleating Tub4p (gamma-tubulin) complex; interacts with Spc110p at the spindle pole body (SPB) inner plaque and with Spc72p at the SPB outer plaque
-S000036987	CDS					YHR172W		8	448335	450806	W		2005-11-07	1996-07-31	
-S000001216	ORF	Uncharacterized	YHR173C			chromosome 8		8	451153	450815	C		2005-11-07	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; SWAT-GFP and mCherry fusion proteins localize to the vacuole
-S000037013	CDS					YHR173C		8	451153	450815	C		2005-11-07	1996-07-31	
-S000001217	ORF	Verified	YHR174W	ENO2	phosphopyruvate hydratase ENO2	chromosome 8	L000000560	8	451327	452640	W		2005-11-07	1996-07-31	Enolase II, a phosphopyruvate hydratase; catalyzes conversion of 2-phosphoglycerate to phosphoenolpyruvate during glycolysis and the reverse reaction during gluconeogenesis; expression induced in response to glucose; ENO2 has a paralog, ENO1, that arose from the whole genome duplication
-S000037161	CDS					YHR174W		8	451327	452640	W		2005-11-07	1996-07-31	
-S000001218	ORF	Verified	YHR175W	CTR2	low-affinity Cu transporter	chromosome 8	L000004070	8	452872	453441	W		2005-11-07	1996-07-31	Low-affinity copper transporter of the vacuolar membrane; mutation confers resistance to toxic copper concentrations, while overexpression confers resistance to copper starvation; regulated by nonsense-mediated mRNA decay pathway
-S000029818	CDS					YHR175W		8	452872	453441	W		2005-11-07	1996-07-31	
-S000028553	ORF	Uncharacterized	YHR175W-A			chromosome 8		8	453558	453707	W		2005-11-07	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031239	CDS					YHR175W-A		8	453558	453707	W		2005-11-07	2003-07-29	
-S000001219	ORF	Verified	YHR176W	FMO1	N,N-dimethylaniline monooxygenase	chromosome 8		8	454229	455527	W		2005-11-07	2004-01-29|1996-07-31	Flavin-containing monooxygenase; localized to the cytoplasmic face of the ER membrane; catalyzes oxidation of biological thiols to maintain the ER redox buffer ratio for correct folding of disulfide-bonded proteins
-S000029937	CDS					YHR176W		8	454229	455527	W		2005-11-07	2004-01-29|1996-07-31	
-S000001220	ORF	Verified	YHR177W		GON3	chromosome 8		8	456591	457952	W		2005-11-07	1996-07-31	Putative transcription factor containing a WOPR domain; binds DNA in vitro; similar to C. albicans Wor1p transcription factor that regulates white-opaque switching; overexpression causes a cell cycle delay or arrest
-S000030949	CDS					YHR177W		8	456591	457952	W		2005-11-07	1996-07-31	
-S000001221	ORF	Verified	YHR178W	STB5		chromosome 8	L000003368	8	459299	461530	W		2005-11-07	1996-07-31	Transcription factor; involved in regulating multidrug resistance and oxidative stress response; forms a heterodimer with Pdr1p; contains a Zn(II)2Cys6 zinc finger domain that interacts with a pleiotropic drug resistance element in vitro
-S000031050	CDS					YHR178W		8	459299	461530	W		2005-11-07	1996-07-31	
-S000001222	ORF	Verified	YHR179W	OYE2	NADPH dehydrogenase	chromosome 8	L000001325	8	462502	463704	W		2005-11-07	1996-07-31	Conserved NADPH oxidoreductase containing flavin mononucleotide (FMN); responsible for geraniol reduction into citronellol during fermentation; homologous to Oye3p with different ligand binding and catalytic properties; may be involved in sterol metabolism, oxidative stress response, and programmed cell death; protein abundance increases in response to DNA replication stress
-S000031157	CDS					YHR179W		8	462502	463704	W		2005-11-07	1996-07-31	
-S000006999	long_terminal_repeat		YHRCdelta12			chromosome 8		8	464147	463920	C		2005-11-07	2000-05-19	Ty1 LTR
-S000001223	ORF	Dubious	YHR180W			chromosome 8		8	465178	465669	W		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000032113	CDS					YHR180W		8	465178	465669	W		2005-11-07	1996-07-31	
-S000007009	long_terminal_repeat		YHRWdelta13			chromosome 8		8	466549	466863	W		2005-11-07	2000-05-19	Ty1 LTR
-S000028555	ORF	Dubious	YHR180W-A			chromosome 8		8	466932	467114	W		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps dubious ORF YHR180C-B and long terminal repeat YHRCsigma3
-S000031241	CDS					YHR180W-A		8	466932	467114	W		2005-11-07	2003-07-29	
-S000007004	long_terminal_repeat		YHRCsigma3			chromosome 8		8	466975	466884	C		2005-11-07	2000-05-19	Ty3 LTR
-S000006751	tRNA_gene		tT(UGU)H			chromosome 8	L000003857	8	466990	467061	W		2005-11-07	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000036268	noncoding_exon					tT(UGU)H		8	466990	467061	W		2005-11-07	2000-05-19	
-S000028554	ORF	Dubious	YHR180C-B			chromosome 8		8	467062	466958	C		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the dubious ORF YHR180W-A
-S000031240	CDS					YHR180C-B		8	467062	466958	C		2005-11-07	2003-07-29	
-S000001224	ORF	Verified	YHR181W	SVP26	ERV26	chromosome 8		8	467228	467914	W		2005-11-07	1996-07-31	Integral membrane protein of the early Golgi apparatus and ER; involved in COP II vesicle transport; may also function to promote retention of proteins in the early Golgi compartment
-S000032177	CDS					YHR181W		8	467228	467914	W		2005-11-07	1996-07-31	
-S000001225	ORF	Verified	YHR182W			chromosome 8		8	468219	470576	W		2005-11-07	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and cytoplasm; relocalizes from bud neck to cytoplasm upon DNA replication stress
-S000032262	CDS					YHR182W		8	468219	470576	W		2005-11-07	1996-07-31	
-S000001226	ORF	Verified	YHR183W	GND1	phosphogluconate dehydrogenase (decarboxylating) GND1	chromosome 8	L000003125	8	470960	472429	W		2005-11-07	1996-07-31	6-phosphogluconate dehydrogenase (decarboxylating); catalyzes an NADPH regenerating reaction in the pentose phosphate pathway; required for growth on D-glucono-delta-lactone and adaptation to oxidative stress; GND1 has a paralog, GND2, that arose from the whole genome duplication
-S000033135	CDS					YHR183W		8	470960	472429	W		2005-11-07	1996-07-31	
-S000028784	ORF	Dubious	YHR182C-A			chromosome 8		8	471412	470939	C		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF GND1/YHR183W
-S000033525	CDS					YHR182C-A		8	471412	470939	C		2005-11-07	2003-07-29	
-S000001227	ORF	Verified	YHR184W	SSP1	SPO3	chromosome 8	L000004410|L000004488	8	472744	474459	W		2005-11-07	1996-07-31	Protein involved in the control of meiotic nuclear division; involved in the coordination of meiosis with spore formation; subunit of the leading edge protein (LEP) complex (Ssp1-Ady3-Don1-Irc10) that forms a ring-like structure at the leading edge of the prospore membrane during meiosis II; required for assembly of the leading edge coat and both prospore membrane shaping and organization; transcription is induced midway through meiosis
-S000033191	CDS					YHR184W		8	472744	474459	W		2005-11-07	1996-07-31	
-S000001228	ORF	Verified	YHR185C	PFS1	ADY1	chromosome 8	L000004781	8	475340	474627	C		2005-11-07	1996-07-31	Sporulation protein required for prospore membrane formation; required for prospore membrane formation at selected spindle poles; ensures functionality of all four spindle pole bodies during meiosis II; not required for meiotic recombination or meiotic chromosome segregation
-S000033215	CDS					YHR185C		8	475340	474627	C		2005-11-07	1996-07-31	
-S000006768	tRNA_gene		tV(CAC)H			chromosome 8	L000003858	8	475778	475706	C		2005-11-07	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
-S000030621	noncoding_exon					tV(CAC)H		8	475778	475706	C		2005-11-07	2000-05-19	
-S000001229	ORF	Verified	YHR186C	KOG1	ubiquitin-binding TORC1 subunit KOG1|LAS24	chromosome 8		8	480672	475999	C		2005-11-07	1996-07-31	Subunit of TORC1; TORC1 is a rapamycin-sensitive complex involved in growth control that contains Tor1p or Tor2p, Lst8p and Tco89p; contains four HEAT repeats and seven WD-40 repeats; may act as a scaffold protein to couple TOR and its effectors
-S000033270	CDS					YHR186C		8	480672	475999	C		2005-11-07	1996-07-31	
-S000001230	ORF	Verified	YHR187W	IKI1	Elongator subunit IKI1|HAP2|ELP5|TOT5	chromosome 8	L000003562	8	480990	481919	W		2005-11-07	1996-07-31	Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; iki1 mutations confer resistance to the K. lactis toxin zymocin
-S000034195	CDS					YHR187W		8	480990	481919	W		2005-11-07	1996-07-31	
-S000001231	ORF	Verified	YHR188C	GPI16	GPI-anchor transamidase subunit GPI16	chromosome 8		8	483837	482005	C		2005-11-07	1996-07-31	Subunit of the glycosylphosphatidylinositol transamidase complex; transmembrane protein; adds GPIs to newly synthesized proteins; human PIG-Tp homolog
-S000034241	CDS					YHR188C		8	483837	482005	C		2005-11-07	1996-07-31	
-S000001232	ORF	Verified	YHR189W	PTH1	aminoacyl-tRNA hydrolase|PTH	chromosome 8		8	484028	484600	W		2005-11-07	1996-07-31	One of two mitochondrially-localized peptidyl-tRNA hydrolases; dispensable for respiratory growth on rich medium, but required for respiratory growth on minimal medium; see also PTH2
-S000034422	CDS					YHR189W		8	484028	484600	W		2005-11-07	1996-07-31	
-S000001233	ORF	Verified	YHR190W	ERG9	bifunctional farnesyl-diphosphate farnesyltransferase/squalene synthase	chromosome 8	L000000575	8	484845	486179	W		2005-11-07	1996-07-31	Farnesyl-diphosphate farnesyl transferase (squalene synthase); joins two farnesyl pyrophosphate moieties to form squalene in the sterol biosynthesis pathway
-S000036394	CDS					YHR190W		8	484845	486179	W		2005-11-07	1996-07-31	
-S000001234	ORF	Verified	YHR191C	CTF8		chromosome 8	L000003309	8	486631	486230	C		2005-11-07	1996-07-31	Subunit of a complex with Ctf18p; shares some subunits with Replication Factor C; required for sister chromatid cohesion
-S000036427	CDS					YHR191C		8	486631	486230	C		2005-11-07	1996-07-31	
-S000001235	ORF	Verified	YHR192W	LNP1		chromosome 8		8	486826	487662	W		2005-11-07	1996-07-31	Lunapark family member involved in ER network formation; regulates the ER asymmetry-induced inheritance block during ER stress; localizes to ER junctions and this localization is regulated by the yeast atlastin ortholog Sey1p; interacts with the reticulon protein Rtn1p; induced in response to the DNA-damaging agent MMS
-S000036575	CDS					YHR192W		8	486826	487662	W		2005-11-07	1996-07-31	
-S000001236	ORF	Verified	YHR193C	EGD2		chromosome 8	L000000546|L000002606	8	488236	487712	C		2005-11-07	1996-07-31	Alpha subunit of the nascent polypeptide-associated complex (NAC); involved in protein sorting and translocation; associated with cytoplasmic ribosomes
-S000036606	CDS					YHR193C		8	488236	487712	C		2005-11-07	1996-07-31	
-S000001237	ORF	Verified	YHR194W	MDM31		chromosome 8		8	488657	490396	W		2005-11-07	1996-07-31	Mitochondrial protein that may have a role in phospholipid metabolism; inner membrane protein with similarity to Mdm32p; required for normal mitochondrial morphology and inheritance; interacts genetically with MMM1, MMM2, MDM10, MDM12, and MDM34
-S000037365	CDS					YHR194W		8	488657	490396	W		2005-11-07	1996-07-31	
-S000028785	ORF	Dubious	YHR193C-A			chromosome 8		8	489027	488653	C		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified ORF MDM31/YHR194W
-S000033528	CDS					YHR193C-A		8	489027	488653	C		2005-11-07	2003-07-29	
-S000001238	ORF	Verified	YHR195W	NVJ1	VAB36	chromosome 8		8	490747	491712	W		2005-11-07	1996-07-31	Nuclear envelope protein; anchored to the nuclear inner membrane, that interacts with the vacuolar membrane protein Vac8p to promote formation of nucleus-vacuole junctions during piecemeal microautophagy of the nucleus (PMN)
-S000037505	CDS					YHR195W		8	490747	491712	W		2005-11-07	1996-07-31	
-S000001239	ORF	Verified	YHR196W	UTP9		chromosome 8		8	491931	493658	W		2005-11-07	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
-S000030211	CDS					YHR196W		8	491931	493658	W		2005-11-07	1996-07-31	
-S000001240	ORF	Verified	YHR197W	RIX1	IPI2	chromosome 8		8	493896	496187	W		2005-11-07	1996-07-31|2011-02-03	Component of the Rix1 complex and possibly pre-replicative complexes; required for processing of ITS2 sequences from 35S pre-rRNA; component of the pre-60S ribosomal particle with the dynein-related AAA-type ATPase Mdn1p; required for pre-replicative complex (pre-RC) formation and maintenance during DNA replication licensing; relocalizes to the cytosol in response to hypoxia; essential gene
-S000030393	CDS					YHR197W		8	493896	496187	W		2005-11-07	1996-07-31|2011-02-03	
-S000001241	ORF	Verified	YHR198C	AIM18	FMP22	chromosome 8		8	497280	496315	C		2005-11-07	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays elevated frequency of mitochondrial genome loss
-S000030441	CDS					YHR198C		8	497280	496315	C		2005-11-07	1996-07-31	
-S000001242	ORF	Verified	YHR199C	AIM46	FMP34	chromosome 8		8	498422	497490	C		2005-11-07	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays elevated frequency of mitochondrial genome loss
-S000031364	CDS					YHR199C		8	498422	497490	C		2005-11-07	1996-07-31	
-S000029704	ORF	Verified	YHR199C-A	NBL1	MCL1	chromosome 8		8	498859	498571	C		2005-11-07	2004-02-20	Subunit of the conserved chromosomal passenger complex (CPC); complex regulates mitotic chromosome segregation; not required for the kinase activity of the complex; mediates the interaction of Sli15p and Bir1p; other complex members are Ipl1p, Sli15p, and Bir1p
-S000036811	CDS					YHR199C-A		8	498719	498571	C		2005-11-07	2004-02-20	
-S000036810	CDS					YHR199C-A		8	498859	498787	C		2005-11-07	2004-02-20	
-S000036812	intron					YHR199C-A		8	498786	498720	C		2005-11-07	2004-02-20	
-S000001243	ORF	Verified	YHR200W	RPN10	proteasome regulatory particle base subunit RPN10|SUN1|MCB1	chromosome 8	L000003108	8	499079	499885	W		2005-11-07	1996-07-31	Non-ATPase base subunit of the 19S RP of the 26S proteasome; N-terminus plays a role in maintaining the structural integrity of the regulatory particle (RP); binds selectively to polyubiquitin chains; homolog of the mammalian S5a protein
-S000036384	CDS					YHR200W		8	499079	499885	W		2005-11-07	1996-07-31	
-S000001244	ORF	Verified	YHR201C	PPX1	exopolyphosphatase	chromosome 8	L000001477	8	501143	499950	C		2005-11-07	1996-07-31	Exopolyphosphatase; hydrolyzes inorganic polyphosphate (poly P) into Pi residues; located in the cytosol, plasma membrane, and mitochondrial matrix
-S000036416	CDS					YHR201C		8	501143	499950	C		2005-11-07	1996-07-31	
-S000118362	ARS		ARS822		ARSVIII-502	chromosome 8		8	501756	501996			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000001245	ORF	Uncharacterized	YHR202W			chromosome 8		8	502388	504196	W		2005-11-07	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole, while HA-tagged protein is found in the soluble fraction, suggesting cytoplasmic localization
-S000037129	CDS					YHR202W		8	502388	504196	W		2005-11-07	1996-07-31	
-S000001246	ORF	Verified	YHR203C	RPS4B	eS4|ribosomal 40S subunit protein S4B|S4e|rp5|YS6|S7B|S4B	chromosome 8	L000001750	8	505530	504476	C		2005-11-07	1999-07-17|1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S4, no bacterial homolog; RPS4B has a paralog, RPS4A, that arose from the whole genome duplication
-S000037172	CDS					YHR203C		8	505247	504476	C		2005-11-07	1999-07-17|1996-07-31	
-S000037171	CDS					YHR203C		8	505530	505517	C		2005-11-07	1999-07-17|1996-07-31	
-S000037173	intron					YHR203C		8	505516	505248	C		2005-11-07	1999-07-17|1996-07-31	
-S000001247	ORF	Verified	YHR204W	MNL1	alpha-1,2-mannosidase MNL1|HTM1	chromosome 8		8	506319	508709	W		2005-11-07	1996-07-31	Alpha-1,2-specific exomannosidase of the endoplasmic reticulum; involved in glycan trimming of both folded and misfolded glycoproteins; complexes with Pdi1p, and trims a mannose from Man8GlcNac2 glycans to generate Man7GlcNac2, an oligosaccharide signal on glycoproteins destined for ER-associated protein degradation; requires Pdi1p for stability and substrate recognition; human homolog EDEM1 can complement yeast null mutant
-S000037304	CDS					YHR204W		8	506319	508709	W		2005-11-07	1996-07-31	
-S000001248	ORF	Verified	YHR205W	SCH9	serine/threonine protein kinase SCH9|HRM2|KOM1	chromosome 8	L000001810	8	509363	511837	W		2005-11-07	1996-07-31	AGC family protein kinase; functional ortholog of mammalian S6 kinase; phosphorylated by Tor1p and required for TORC1-mediated regulation of ribosome biogenesis, translation initiation, and entry into G0 phase; involved in transactivation of osmostress-responsive genes; regulates G1 progression, cAPK activity and nitrogen activation of the FGM pathway; integrates nutrient signals and stress signals from sphingolipids to regulate lifespan
-S000037366	CDS					YHR205W		8	509363	511837	W		2005-11-07	1996-07-31	
-S000001249	ORF	Verified	YHR206W	SKN7	kinase-regulated stress-responsive transcription factor SKN7|POS9|BRY1	chromosome 8	L000001908	8	512732	514600	W		2005-11-07	1996-07-31	Nuclear response regulator and transcription factor; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; part of a branched two-component signaling system; required for optimal induction of heat-shock genes in response to oxidative stress; involved in osmoregulation; relocalizes to the cytosol in response to hypoxia; SKN7 has a paralog, HMS2, that arose from the whole genome duplication
-S000029994	CDS					YHR206W		8	512732	514600	W		2005-11-07	1996-07-31	
-S000001250	ORF	Verified	YHR207C	SET5	S-adenosylmethionine-dependent methyltransferase	chromosome 8		8	516485	514905	C		2005-11-07	1996-07-31	Methyltransferase involved in methylation of histone H4 Lys5, -8, -12; S-adenosylmethionine-dependent; zinc-finger protein, contains one canonical and two unusual fingers in unusual arrangements; deletion enhances replication of positive-strand RNA virus
-S000030030	CDS					YHR207C		8	516485	514905	C		2005-11-07	1996-07-31	
-S000001251	ORF	Verified	YHR208W	BAT1	branched-chain-amino-acid transaminase BAT1|TWT1|ECA39	chromosome 8	L000002396	8	517532	518713	W		2005-11-07	1996-07-31	Mitochondrial branched-chain amino acid (BCAA) aminotransferase; preferentially involved in BCAA biosynthesis; homolog of murine ECA39; highly expressed during logarithmic phase and repressed during stationary phase; BAT1 has a paralog, BAT2, that arose from the whole genome duplication
-S000030198	CDS					YHR208W		8	517532	518713	W		2005-11-07	1996-07-31	
-S000001252	ORF	Verified	YHR209W	CRG1	S-adenosylmethionine-dependent methyltransferase	chromosome 8		8	519437	520312	W		2005-11-07	1996-07-31	S-AdoMet-dependent methyltransferase involved in lipid homeostasis; mediates resistance to a drug cantharidin
-S000030378	CDS					YHR209W		8	519437	520312	W		2005-11-07	1996-07-31	
-S000001253	ORF	Uncharacterized	YHR210C		aldose 1-epimerase superfamily protein	chromosome 8		8	521737	520712	C		2005-11-07	1996-07-31	Putative aldose 1-epimerase superfamily protein; non-essential gene; highly expressed under anaeorbic conditions
-S000032576	CDS					YHR210C		8	521737	520712	C		2005-11-07	1996-07-31	
-S000001254	ORF	Verified	YHR211W	FLO5	flocculin FLO5	chromosome 8	L000000618	8	525392	528619	W		2005-11-07	1996-07-31	Lectin-like cell wall protein (flocculin) involved in flocculation; binds mannose chains on the surface of other cells, confers floc-forming ability that is chymotrypsin resistant but heat labile; important for co-flocculation with other yeasts, mediating interaction with specific species; FLO5 has a paralog, FLO1, that arose from a segmental duplication
-S000033338	CDS					YHR211W		8	525392	528619	W		2005-11-07	1996-07-31	
-S000007000	long_terminal_repeat		YHRCdelta14			chromosome 8		8	530379	530049	C		2005-11-07	2000-05-19	Ty1 LTR
-S000001255	ORF	Dubious	YHR212C			chromosome 8		8	538094	537759	C		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YHR212C has a paralog, YAR060C, that arose from a segmental duplication
-S000033360	CDS					YHR212C		8	538094	537759	C		2005-11-07	1996-07-31	
-S000028650	ORF	Uncharacterized	YHR212W-A			chromosome 8		8	538742	538945	W		2005-11-07	2003-07-29	Pseudogenic fragment with similarity to flocculins; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; YHR212W-A has a paralog, YAR061W, that arose from a segmental duplication
-S000032453	CDS					YHR212W-A		8	538742	538945	W		2005-11-07	2003-07-29	
-S000001256	ORF	Uncharacterized	YHR213W			chromosome 8		8	539151	539747	W		2005-11-07	1996-07-31	Pseudogenic fragment with similarity to flocculins; YHR213W has a paralog, YAR062W, that arose from a segmental duplication
-S000033478	CDS					YHR213W		8	539151	539747	W		2005-11-07	1996-07-31	
-S000028651	ORF	Uncharacterized	YHR213W-A			chromosome 8		8	540549	540782	W		2005-11-07	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032454	CDS					YHR213W-A		8	540549	540782	W		2005-11-07	2003-07-29	
-S000028652	ORF	Uncharacterized	YHR213W-B			chromosome 8		8	540800	541099	W		2005-11-07	2003-07-29	Pseudogenic fragment with similarity to flocculins; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; YHR213W-B has a paralog, YAR064W, that arose from a segmental duplication
-S000032455	CDS					YHR213W-B		8	540800	541099	W		2005-11-07	2003-07-29	
-S000001257	ORF	Uncharacterized	YHR214W			chromosome 8		8	541651	542262	W		2005-11-07	1996-07-31	Putative protein of unknown function; predicted to be a glycosylphosphatidylinositol-modified (GPI) protein; YHR214W has a paralog, YAR066W, that arose from a segmental duplication
-S000033542	CDS					YHR214W		8	541651	542262	W		2005-11-07	1996-07-31	
-S000003535	ORF	Dubious	YHR214W-A			chromosome 8		8	543008	543493	W		2005-11-07	1996-07-31	Dubious open reading frame; induced by zinc deficiency; YHR214W-A has a paralog, YAR068W, that arose from a segmental duplication
-S000035568	CDS					YHR214W-A		8	543008	543493	W		2005-11-07	1996-07-31	
-S000007001	long_terminal_repeat		YHRCdelta15			chromosome 8		8	543941	543610	C		2005-11-07	2000-05-19	Ty1 LTR
-S000003534	transposable_element_gene		YHR214C-B		gag-pol fusion protein	chromosome 8		8	549346	543964	C		2005-11-07	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes; YHR214C-B has a paralog, YAR070C, that arose from a segmental duplication
-S000035139	CDS					YHR214C-B		8	547929	543964	C		2005-11-07	1996-07-31	
-S000035138	CDS					YHR214C-B		8	549346	547931	C		2005-11-07	1996-07-31	
-S000035140	plus_1_translational_frameshift					YHR214C-B		8	547930	547930	C		2005-11-07	1996-07-31	
-S000007421	transposable_element_gene		YHR214C-C		gag protein	chromosome 8		8	549346	547910	C		2005-11-07	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000035142	CDS					YHR214C-C		8	549346	547910	C		2005-11-07	1999-07-17	
-S000007006	LTR_retrotransposon		YHRCTy1-1		Ty1	chromosome 8		8	549637	543610	C		2005-11-07	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
-S000007002	long_terminal_repeat		YHRCdelta16			chromosome 8		8	549637	549306	C		2005-11-07	2000-05-19	Ty1 LTR
-S000028653	ORF	Uncharacterized	YHR214C-D			chromosome 8		8	550941	550648	C		2005-11-07	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; SWAT-GFP and mCherry fusion proteins localize to the nucleus and endoplasmic reticulum respectively; YHR214C-D has a paralog, YAR069C, that arose from a segmental duplication
-S000032456	CDS					YHR214C-D		8	550941	550648	C		2005-11-07	2003-07-29	
-S000028654	ORF	Uncharacterized	YHR214C-E			chromosome 8		8	551499	551200	C		2005-11-07	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032457	CDS					YHR214C-E		8	551499	551200	C		2005-11-07	2003-07-29	
-S000001258	ORF	Verified	YHR215W	PHO12	acid phosphatase PHO12|PHO10	chromosome 8	L000001424	8	552099	553502	W		2005-11-07	1996-07-31	One of three repressible acid phosphatases; glycoprotein that is transported to the cell surface by the secretory pathway; pregulated by phosphate starvation; PHO12 has a paralog, PHO11, that arose from a segmental duplication
-S000033601	CDS					YHR215W		8	552099	553502	W		2005-11-07	1996-07-31	
-S000001259	ORF	Verified	YHR216W	IMD2	IMP dehydrogenase IMD2|PUR5	chromosome 8		8	554396	555967	W		2005-11-07	1996-07-31	Inosine monophosphate dehydrogenase; catalyzes the rate-limiting step in GTP biosynthesis, expression is induced by mycophenolic acid resulting in resistance to the drug, expression is repressed by nutrient limitation; IMD2 has a paralog, YAR073W/YAR075W, that arose from a segmental duplication
-S000034515	CDS					YHR216W		8	554396	555967	W		2005-11-07	1996-07-31	
-S000118363	ARS		ARS824		ARSVIII-556	chromosome 8		8	556001	556331			2006-08-30	2006-08-30	Autonomously Replicating Sequence
-S000028964	telomere		TEL08R			chromosome 8		8	556105	562643	W	131	2005-11-07	2003-09-09	Telomeric region on the right arm of Chromosome VIII; composed of an X element core sequence, X element combinatorial repeats, an internal stretch of telomeric repeats, a short Y' element, and a terminal stretch of telomeric repeats
-S000028966	telomeric_repeat					TEL08R		8	556832	556985	W		2005-11-07	2003-09-09	Internal telomeric repeats on the right arm of Chromosome VIII
-S000028965	telomeric_repeat					TEL08R		8	562457	562643	W		2005-11-07	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome VIII
-S000028967	X_element					TEL08R		8	556105	556575	W		2005-11-07	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome VIII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028968	X_element_combinatorial_repeat					TEL08R		8	556576	556831	W		2005-11-07	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr VIII; contains repeats of the D, C, and B types; formerly called SubTelomeric Repeats
-S000028969	Y_prime_element					TEL08R		8	556986	562456	W		2005-11-07	2003-09-09	Telomeric short Y' element on the right arm of Chromosome VIII; contains an ARS consensus sequence, a region of 36-bp repeats, and four ORFs (YHR218W, YHR219W, YHR218W-A, YHR219C-A)
-S000001260	ORF	Dubious	YHR217C			chromosome 8		8	557042	556581	C		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; located in the telomeric region TEL08R
-S000034583	CDS					YHR217C		8	557042	556581	C		2005-11-07	1996-07-31	
-S000001261	ORF	Uncharacterized	YHR218W			chromosome 8		8	558014	559924	W		2005-11-07	1996-07-31	Helicase-like protein encoded within the telomeric Y' element
-S000034722	CDS					YHR218W		8	558014	558615	W		2005-11-07	1996-07-31	
-S000034723	CDS					YHR218W		8	558715	559924	W		2005-11-07	1996-07-31	
-S000034724	intron					YHR218W		8	558616	558714	W		2005-11-07	1996-07-31	
-S000028786	ORF	Dubious	YHR218W-A			chromosome 8		8	559932	560249	W		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely within telomere TEL08L
-S000033530	CDS					YHR218W-A		8	559932	560249	W		2005-11-07	2003-07-29	
-S000001262	ORF	Uncharacterized	YHR219W			chromosome 8		8	560173	562047	W		2005-11-07	1996-07-31	Putative protein of unknown function with similarity to helicases; located in the telomere region on the right arm of chromosome VIII
-S000035716	CDS					YHR219W		8	560173	562047	W		2005-11-07	1996-07-31	
-S000028655	ORF	Dubious	YHR219C-A			chromosome 8		8	561681	561199	C		2005-11-07	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
-S000032458	CDS					YHR219C-A		8	561681	561199	C		2005-11-07	2003-07-29	
-S000028658	ORF	Dubious	YIL177W-A			chromosome 9		9	846	1328	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized gene YIL177C
-S000032462	CDS					YIL177W-A		9	846	1328	W		2003-07-29	2003-07-29	
-S000001439	ORF	Uncharacterized	YIL177C		Y' element ATP-dependent helicase	chromosome 9		9	6147	483	C		1994-12-10	1994-12-10	Putative Y' element ATP-dependent helicase
-S000034517	CDS					YIL177C		9	4598	483	C		1994-12-10	1994-12-10	
-S000034516	CDS					YIL177C		9	6147	4987	C		1994-12-10	1994-12-10	
-S000034518	intron					YIL177C		9	4986	4599	C		1994-12-10	1994-12-10	
-S000130156	ARS		ARS902			chromosome 9		9	7470	8793			2009-05-07	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000028896	telomere		TEL09L			chromosome 9		9	7784	1	C	-155	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome IX; composed of an X element core sequence, X element combinatorial repeats, a long Y' element, and a short terminal stretch of telomeric repeats
-S000028897	telomeric_repeat					TEL09L		9	77	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome IX
-S000028898	X_element					TEL09L		9	7784	7322	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome IX; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028899	X_element_combinatorial_repeat					TEL09L		9	7321	6949	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr IX; contains a repeat of the D type with a group I mitochondrial bI4 intron insertion; formerly called SubTelomeric Repeats
-S000028900	Y_prime_element					TEL09L		9	6948	78	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome IX; contains an ARS consensus sequence, a region of 36-bp repeats, and two ORFs YIL177C and YIL177W-A
-S000001438	ORF	Uncharacterized	YIL176C	PAU14	seripauperin PAU14	chromosome 9		9	9155	8793	C		1994-12-10	1994-12-10	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; identical to Pau1p
-S000034408	CDS					YIL176C		9	9155	8793	C		1994-12-10	1994-12-10	
-S000001437	pseudogene		YIL175W			chromosome 9		9	9183	9500	W		1994-12-10	1994-12-10	Hypothetical protein; classified as pseudogene because there is no ATG at the beginning of this ORF
-S000034372	CDS					YIL175W		9	9183	9500	W		1994-12-10	1994-12-10	
-S000001436	pseudogene		YIL174W			chromosome 9		9	9469	9696	W		1994-12-10	1994-12-10	Hypothetical protein
-S000034275	CDS					YIL174W		9	9469	9696	W		1994-12-10	1994-12-10	
-S000001435	ORF	Verified	YIL173W	VTH1	signal sequence-binding protein	chromosome 9		9	11492	16141	W		1994-12-10	1994-12-10	Putative membrane glycoprotein; has strong similarity to Vth2p and Pep1p/Vps10p; may be involved in vacuolar protein sorting
-S000033367	CDS					YIL173W		9	11492	16141	W		1994-12-10	1994-12-10	
-S000130157	ARS		ARS904			chromosome 9		9	16141	16784			2009-05-07	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000028798	ORF	Dubious	YIL171W-A			chromosome 9		9	18260	18712	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF IMA3/YIL172C
-S000033565	CDS					YIL171W-A		9	18260	18712	W		2003-07-29	2003-07-29	
-S000001434	ORF	Verified	YIL172C	IMA3	oligo-1,6-glucosidase IMA3	chromosome 9		9	18553	16784	C		1994-12-10	1994-12-10	Alpha-glucosidase; weak, but broad substrate specificity for alpha-1,4- and alpha-1,6-glucosides; member of IMA isomaltase family; not required for isomaltose utilization, but Ima3p overexpression allows the ima1 null mutant to grow on isomaltose; lower activitiy and thermostability in vitro than Ima2p despite sequence difference of only 3 amino acids; cleaves alpha-1,3 linkage of nigerose and turanose, but not alpha-1,5 of leucrose; identical to IMA4
-S000033269	CDS					YIL172C		9	18553	16784	C		1994-12-10	1994-12-10	
-S000001433	pseudogene		YIL171W		HXT12	chromosome 9	L000002639	9	19515	19844	W		1994-12-10	1994-12-10	Possible pseudogene in strain S288C; YIL171W and the adjacent ORF, YIL170W/HXT12, together encode a non-functional member of the hexose transporter family
-S000033235	CDS					YIL171W		9	19515	19844	W		1994-12-10	1994-12-10	
-S000001432	pseudogene		YIL170W	HXT12		chromosome 9		9	19847	21220	W		1994-12-10	1994-12-10	Possible pseudogene in strain S288C; YIL170W/HXT12 and the adjacent ORF, YIL171W, together encode a non-functional member of the hexose transporter family
-S000032383	CDS					YIL170W		9	19847	21220	W		1994-12-10	1994-12-10	
-S000001431	ORF	Verified	YIL169C	CSS1	HPF1'	chromosome 9		9	26106	23119	C		1994-12-10	1994-12-10	Protein of unknown function, secreted when constitutively expressed; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cell periphery, SWAT-GFP fusion also localizes to the extracellular region, and mCherry fusion also localizes to the vacuole; S/T rich and highly similar to YOL155C, a putative glucan alpha-1,4-glucosidase; transcript is induced in both high and low pH environments; non-essential gene
-S000031425	CDS					YIL169C		9	26106	23119	C		1994-12-10	1994-12-10	
-S000001429	blocked_reading_frame		YIL167W	SDL1	YIL168W	chromosome 9		9	29032	30048	W		2014-11-18	1994-12-10|2014-11-18	Blocked reading frame otherwise encoding L-serine dehydratase
-S000031256	CDS					YIL167W		9	29032	30048	W		2014-11-18	1994-12-10|2014-11-18	
-S000001428	ORF	Uncharacterized	YIL166C			chromosome 9		9	32566	30938	C		1994-12-10	1994-12-10	Putative protein with similarity to allantoate permease; similar to the allantoate permease (Dal5p) subfamily of the major facilitator superfamily; mRNA expression is elevated by sulfur limitation; YIL166C is a non-essential gene
-S000030233	CDS					YIL166C		9	32566	30938	C		1994-12-10	1994-12-10	
-S000001427	ORF	Uncharacterized	YIL165C			chromosome 9		9	34077	33718	C		1994-12-10	1994-12-10	Putative protein of unknown function; mutant exhibits mitophagy defects; in closely related species and other S. cerevisiae strain backgrounds YIL165C and adjacent ORF, YIL164C, likely constitute a single ORF encoding a nitrilase gene
-S000030045	CDS					YIL165C		9	34077	33718	C		1994-12-10	1994-12-10	
-S000001426	ORF	Verified	YIL164C	NIT1		chromosome 9	L000004211	9	34686	34087	C		1994-12-10	1994-12-10	Nitrilase; member of the nitrilase branch of the nitrilase superfamily; in closely related species and other S. cerevisiae strain backgrounds YIL164C and adjacent ORF, YIL165C, likely constitute a single ORF encoding a nitrilase gene
-S000029934	CDS					YIL164C		9	34686	34087	C		1994-12-10	1994-12-10	
-S000001425	ORF	Uncharacterized	YIL163C			chromosome 9		9	37252	36899	C		1994-12-10	1994-12-10	Protein of unknown function; mRNA identified as translated by ribosome profiling data
-S000037273	CDS					YIL163C		9	37252	36899	C		1994-12-10	1994-12-10	
-S000001424	ORF	Verified	YIL162W	SUC2	beta-fructofuranosidase SUC2	chromosome 9	L000002144	9	37385	38983	W	-153	1994-12-10	1994-12-10	Invertase; sucrose hydrolyzing enzyme; a secreted, glycosylated form is regulated by glucose repression, and an intracellular, nonglycosylated enzyme is produced constitutively
-S000037231	CDS					YIL162W		9	37385	38983	W		1994-12-10	1994-12-10	
-S000001423	ORF	Uncharacterized	YIL161W			chromosome 9		9	39433	40140	W		1994-12-10	1994-12-10	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; mRNA is enriched in Scp160p-associated mRNPs; YIL161W is a non-essential gene
-S000037133	CDS					YIL161W		9	39433	40140	W		1994-12-10	1994-12-10	
-S000001422	ORF	Verified	YIL160C	POT1	acetyl-CoA C-acyltransferase|POX3|FOX3	chromosome 9	L000001466	9	41444	40191	C		1994-12-10	1994-12-10	3-ketoacyl-CoA thiolase with broad chain length specificity; cleaves 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA during beta-oxidation of fatty acids
-S000037007	CDS					YIL160C		9	41444	40191	C		1994-12-10	1994-12-10	
-S000001421	ORF	Verified	YIL159W	BNR1	formin BNR1	chromosome 9	L000004058	9	41825	45952	W		1994-12-10	1994-12-10	Formin; nucleates the formation of linear actin filaments; involved in processes such as budding and mitotic spindle orientation which require the formation of polarized actin cables; activity is regulated by Hof1p and by the Bud14p-Kel1p-Kel2p complex; dephosphorylated and delocalized from the division site in a Glc7p/Ref2p-dependent manner; functionally redundant with BNI1
-S000035282	CDS					YIL159W		9	41825	45952	W		1994-12-10	1994-12-10	
-S000001420	ORF	Verified	YIL158W	AIM20		chromosome 9		9	46201	46815	W		1994-12-10	1994-12-10	Protein of unknown function; overexpression causes cell cycle delay or arrest; green fluorescent protein (GFP)-fusion protein localizes to vacuole; null mutant displays elevated frequency of mitochondrial genome loss; relocalizes from nucleus to cytoplasm upon DNA replication stress; AIM20 has a paralog, SKG1, that arose from the whole genome duplication
-S000035094	CDS					YIL158W		9	46201	46815	W		1994-12-10	1994-12-10	
-S000028797	ORF	Dubious	YIL156W-A			chromosome 9		9	47292	47693	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF COA1/YIL157C
-S000033563	CDS					YIL156W-A		9	47292	47693	W		2003-07-29	2003-07-29	
-S000001419	ORF	Verified	YIL157C	COA1	FMP35	chromosome 9		9	47542	46949	C		1994-12-10	1994-12-10	Mitochondrial inner membrane protein; required for assembly of the cytochrome c oxidase complex (complex IV); interacts with complex IV assembly factor Shy1p during the early stages of assembly
-S000034088	CDS					YIL157C		9	47542	46949	C		1994-12-10	1994-12-10	
-S000028511	ORF	Uncharacterized	YIL156W-B			chromosome 9		9	47690	47973	W		2003-07-29	2003-07-29	Putative protein of unknown function; originally identified based on homology to Ashbya gossypii and other related yeasts; SWAT-GFP and mCherry fusion proteins localize to the vacuole, while SWAT-GFP fusion also localizes to the endoplasmic reticulum
-S000030265	CDS					YIL156W-B		9	47690	47698	W		2003-07-29	2003-07-29	
-S000030266	CDS					YIL156W-B		9	47761	47973	W		2003-07-29	2003-07-29	
-S000030267	intron					YIL156W-B		9	47699	47760	W		2003-07-29	2003-07-29	
-S000001418	ORF	Verified	YIL156W	UBP7	ubiquitin-specific protease UBP7	chromosome 9	L000003169	9	48091	51306	W		1994-12-10	1994-12-10	Ubiquitin-specific protease that cleaves ubiquitin-protein fusions; UBP7 has a paralog, UBP11, that arose from the whole genome duplication
-S000034053	CDS					YIL156W		9	48091	51306	W		1994-12-10	1994-12-10	
-S000001417	ORF	Verified	YIL155C	GUT2	glycerol-3-phosphate dehydrogenase	chromosome 9	L000000747	9	53708	51759	C		1994-12-10	1994-12-10	Mitochondrial glycerol-3-phosphate dehydrogenase; expression is repressed by both glucose and cAMP and derepressed by non-fermentable carbon sources in a Snf1p, Rsf1p, Hap2/3/4/5 complex dependent manner
-S000033832	CDS					YIL155C		9	53708	51759	C		1994-12-10	1994-12-10	
-S000001416	ORF	Verified	YIL154C	IMP2'	IMP2	chromosome 9	L000000865	9	55021	53981	C		1994-12-10	1994-12-10	Transcriptional activator involved in maintenance of ion homeostasis; also involved in protection against DNA damage caused by bleomycin and other oxidants; contains a C-terminal leucine-rich repeat
-S000033080	CDS					YIL154C		9	55021	53981	C		1994-12-10	1994-12-10	
-S000001415	ORF	Verified	YIL153W	RRD1	peptidylprolyl isomerase RRD1|YPA1	chromosome 9	L000004483	9	55198	56379	W		1994-12-10	1994-12-10	Peptidyl-prolyl cis/trans-isomerase; activator of the phosphotyrosyl phosphatase activity of PP2A; involved in G1 phase progression, microtubule dynamics, bud morphogenesis and DNA repair; required for rapid reduction of Sgs1p levels in response to rapamycin; subunit of the Tap42p-Sit4p-Rrd1p complex; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress
-S000033043	CDS					YIL153W		9	55198	56379	W		1994-12-10	1994-12-10	
-S000001414	ORF	Uncharacterized	YIL152W			chromosome 9		9	56545	57252	W		1994-12-10	1994-12-10	Putative protein of unknown function
-S000032954	CDS					YIL152W		9	56545	57252	W		1994-12-10	1994-12-10	
-S000001413	ORF	Uncharacterized	YIL151C	ESL1		chromosome 9		9	60694	57338	C		1994-12-10	1994-12-10	hEST1A/B (SMG5/6)-like protein; contributes to environment-sensing adaptive gene expression responses; Esl1p and Esl2p contain a 14-3-3-like domain and a putative PilT N-terminus ribonuclease domain; ESL1 has a paralog, ESL2, that arose from the whole genome duplication
-S000032789	CDS					YIL151C		9	60694	57338	C		1994-12-10	1994-12-10	
-S000001412	ORF	Verified	YIL150C	MCM10	DNA43	chromosome 9	L000000512	9	62728	61013	C		1994-12-10	1994-12-10	Essential chromatin-associated protein; involved in initiation of DNA replication; required for association of MCM2-7 complex with replication origins; required to stabilize catalytic subunit of DNA polymerase-alpha; self-associates through its N-terminal domain
-S000031878	CDS					YIL150C		9	62728	61013	C		1994-12-10	1994-12-10	
-S000001411	ORF	Verified	YIL149C	MLP2		chromosome 9	S000007510	9	68067	63028	C		1994-12-10	1994-12-10	Myosin-like protein associated with the nuclear envelope; nuclear basket protein that connects the nuclear pore complex with the nuclear interior; involved in the Tel1p pathway that controls telomere length; MLP2 has a paralog, MLP1, that arose from the whole genome duplication
-S000031703	CDS					YIL149C		9	68067	63028	C		1994-12-10	1994-12-10	
-S000001410	ORF	Verified	YIL148W	RPL40A	eL40|ubiquitin-ribosomal 60S subunit protein L40A fusion protein|L40e|L40A|UB11|UBI1|CEP52A	chromosome 9	L000002411|L000000313	9	68708	69528	W		1994-12-10	1994-12-10	Ubiquitin-ribosomal 60S subunit protein L40A fusion protein; cleaved to yield ubiquitin and ribosomal protein L40A; ubiquitin may facilitate assembly of the ribosomal protein into ribosomes; homologous to mammalian ribosomal protein L40, no bacterial homolog; RPL40A has a paralog, RPL40B, that arose from the whole genome duplication; relative distribution to the nucleus increases upon DNA replication stress
-S000031651	CDS					YIL148W		9	68708	68715	W		1994-12-10	1994-12-10	
-S000031652	CDS					YIL148W		9	69150	69528	W		1994-12-10	1994-12-10	
-S000031653	intron					YIL148W		9	68716	69149	W		1994-12-10	1994-12-10	
-S000001409	ORF	Verified	YIL147C	SLN1	YPD2	chromosome 9	L000001916	9	73453	69791	C		1994-12-10	1994-12-10	Transmembrane histidine phosphotransfer kinase and osmosensor; regulates MAP kinase cascade; transmembrane protein with an intracellular kinase domain that signals to Ypd1p and Ssk1p, thereby forming a phosphorelay system similar to bacterial two-component regulators
-S000031443	CDS					YIL147C		9	73453	69791	C		1994-12-10	1994-12-10	
-S000178111	ARS		ARS907			chromosome 9		9	73820	73991			2014-11-18	2014-11-18	Autonomously replicating sequence
-S000001408	ORF	Verified	YIL146C	ATG32	mitophagy protein ATG32|ECM37	chromosome 9	L000003904	9	75773	74184	C		1994-12-10	1994-12-10	Mitochondrial outer membrane protein required to initiate mitophagy; recruits the autophagy adaptor protein Atg11p and the ubiquitin-like protein Atg8p to the mitochondrial surface to initiate mitophagy, the selective vacuolar degradation of mitochondria in response to starvation; can promote pexophagy when placed ectopically in the peroxisomal membrane; regulates mitophagy and ethanol production during alcoholic fermentation
-S000030520	CDS					YIL146C		9	75773	74184	C		1994-12-10	1994-12-10	
-S000001407	ORF	Verified	YIL145C	PAN6	pantoate--beta-alanine ligase PAN6	chromosome 9		9	77283	76354	C		2003-09-22	2003-09-22|1994-12-10	Pantothenate synthase; also known as pantoate-beta-alanine ligase, required for pantothenic acid biosynthesis, deletion causes pantothenic acid auxotrophy, homologous to E. coli panC
-S000030395	CDS					YIL145C		9	77283	76354	C		2003-09-22	2003-09-22|1994-12-10	
-S000001406	ORF	Verified	YIL144W	NDC80	kinetochore-associated Ndc80 complex subunit NDC80|TID3|HEC1	chromosome 9	L000004311	9	78074	80149	W		1994-12-10	1994-12-10	Component of the kinetochore-associated Ndc80 complex; conserved coiled-coil protein involved in chromosome segregation, spindle checkpoint activity, and kinetochore assembly and clustering; evolutionarily conserved; complex members include Ndc80p, Nuf2p, Scp24p, and Spc25p; modified by sumoylation
-S000030319	CDS					YIL144W		9	78074	80149	W		1994-12-10	1994-12-10	
-S000001405	ORF	Verified	YIL143C	SSL2	TFIIH/NER complex ATPase/helicase subunit SSL2|RAD25|LOM3	chromosome 9	L000002086	9	83041	80510	C		1994-12-10	1994-12-10	Component of RNA polymerase transcription factor TFIIH holoenzyme; acts as dsDNA-dependent translocase in context of TFIIH, unwinds DNA strands during initiation and promotes transcription start site (TSS) scanning; has DNA-dependent ATPase/helicase activity; interacts functionally with TFIIB, has roles in TSS selection and gene looping to juxtapose initiation and termination regions; involved in DNA repair; relocalizes to cytosol under hypoxia; homolog of human ERCC3
-S000037507	CDS					YIL143C		9	83041	80510	C		1994-12-10	1994-12-10	
-S000001404	ORF	Verified	YIL142W	CCT2	chaperonin-containing T-complex subunit CCT2|TCP2|BIN3	chromosome 9	L000002269	9	83302	84885	W		1994-12-10	1994-12-10	Subunit beta of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo
-S000037439	CDS					YIL142W		9	83302	84885	W		1994-12-10	1994-12-10	
-S000028796	ORF	Dubious	YIL142C-A			chromosome 9		9	83540	83208	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF CCT2/YIL142W
-S000033561	CDS					YIL142C-A		9	83540	83208	C		2003-07-29	2003-07-29	
-S000001403	ORF	Dubious	YIL141W			chromosome 9		9	85053	85442	W		1994-12-10	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000037327	CDS					YIL141W		9	85053	85442	W		1994-12-10	1994-12-10	
-S000001402	ORF	Verified	YIL140W	AXL2	SRO4|BUD10	chromosome 9	L000003104	9	85366	87837	W		1994-12-10	1994-12-10	Integral plasma membrane protein; required for axial budding in haploid cells; localizes to the incipient bud site and bud neck; glycosylated by Pmt4p; potential Cdc28p substrate
-S000037249	CDS					YIL140W		9	85366	87837	W		1994-12-10	1994-12-10	
-S000001401	ORF	Verified	YIL139C	REV7		chromosome 9	L000001618	9	88716	87979	C	-101	1994-12-10	1994-12-10	Accessory subunit of DNA polymerase zeta; involved in translesion synthesis during post-replication repair; required for mutagenesis induced by DNA damage; involved in double-strand break repair; forms a complex with Rev3p, Pol31p and Pol32p
-S000035566	CDS					YIL139C		9	88716	87979	C		1994-12-10	1994-12-10	
-S000001400	ORF	Verified	YIL138C	TPM2	tropomyosin TPM2	chromosome 9	L000002329	9	89715	89230	C		1994-12-10	1994-12-10	Minor isoform of tropomyosin; binds to and stabilizes actin cables and filaments, which direct polarized cell growth and the distribution of several organelles; appears to have distinct and also overlapping functions with Tpm1p; TPM2 has a paralog, TPM1, that arose from the whole genome duplication
-S000035475	CDS					YIL138C		9	89715	89230	C		1994-12-10	1994-12-10	
-S000001399	ORF	Verified	YIL137C	TMA108	TAE3|RBF108	chromosome 9		9	92788	89948	C		1994-12-10	1994-12-10	Ribosome-associated, nascent chain binding factor; binds N-terminal region of nascent peptides during translation; recognizes target proteins via its putative metallopeptidase peptide-binding pocket
-S000035340	CDS					YIL137C		9	92788	89948	C		1994-12-10	1994-12-10	
-S000001398	ORF	Verified	YIL136W	OM45		chromosome 9	L000001301	9	93619	94800	W		1994-12-10	1994-12-10	Mitochondrial outer membrane protein of unknown function; major constituent of the outer membrane, extending into the intermembrane space; interacts with porin (Por1p) and with Om14p; imported via the presequence pathway involving the TOM and TIM23 complexes, then assembled in the outer membrane by Mim1p; protein abundance increases in response to DNA replication stress
-S000034390	CDS					YIL136W		9	93619	94800	W		1994-12-10	1994-12-10	
-S000001397	ORF	Verified	YIL135C	VHS2		chromosome 9		9	96375	95065	C		1994-12-10	1994-12-10	Regulator of septin dynamics; involved in the regulation of septin dynamics at bud neck after mitotic entry, likely by stabilizing septin structure; regulated at post-translational level by cell cycle dependent phosphorylation; likely phosphorylated by Cdc28p and dephosphorylated by Cdc14p before cytokinesis; high-copy suppressor of synthetic lethality of sis2 sit4 double mutant; VHS2 has a paralog, MLF3, that arose from the whole genome duplication
-S000034198	CDS					YIL135C		9	96375	95065	C		1994-12-10	1994-12-10	
-S000028556	ORF	Uncharacterized	YIL134C-A			chromosome 9		9	96725	96522	C		2003-07-29	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
-S000031242	CDS					YIL134C-A		9	96725	96522	C		2003-07-29	2003-07-29	
-S000006459	snoRNA_gene		snR68	SNR68		chromosome 9	L000004537	9	97111	97246	W		1994-12-10	1994-12-10	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A2640
-S000030855	noncoding_exon					snR68		9	97111	97246	W		1994-12-10	1994-12-10	
-S000001396	ORF	Verified	YIL134W	FLX1	flavin adenine dinucleotide transporter FLX1	chromosome 9	L000002664	9	97395	98330	W		1994-12-10	1994-12-10	Mitochondrial flavin adenine dinucleotide transporter; FAD is a synthesis product of riboflavin; human homolog SLC25A32 is implicated in multiple acyl-CoA dehydrogenase deficiency (MADD) or glutaric aciduria type II (GAII), and can complement yeast null mutant
-S000034150	CDS					YIL134W		9	97395	98330	W		1994-12-10	1994-12-10	
-S000001395	ORF	Verified	YIL133C	RPL16A	uL13|ribosomal 60S subunit protein L16A|L13|rp22|YL15|L21A|L16A|RPL13	chromosome 9	L000001709	9	99416	98527	C		1994-12-10	1994-12-10	Ribosomal 60S subunit protein L16A; N-terminally acetylated, binds 5.8 S rRNA; transcriptionally regulated by Rap1p; homologous to mammalian ribosomal protein L13A and bacterial L13; RPL16A has a paralog, RPL16B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
-S000033253	CDS					YIL133C		9	99095	98527	C		1994-12-10	1994-12-10	
-S000033252	CDS					YIL133C		9	99416	99386	C		1994-12-10	1994-12-10	
-S000033254	intron					YIL133C		9	99385	99096	C		1994-12-10	1994-12-10	
-S000001394	ORF	Verified	YIL132C	CSM2		chromosome 9		9	100501	99860	C		1994-12-10	1994-12-10	Component of Shu complex (aka PCSS complex); Shu complex also includes Psy3, Shu1, Shu2, and promotes error-free DNA repair,; Shu complex mediates inhibition of Srs2p function; promotes formation of Rad51p filaments; Psy3p and Csm2p contain similar DNA-binding regions which work together to form a single DNA binding site; required for accurate chromosome segregation during meiosis
-S000033192	CDS					YIL132C		9	100501	99860	C		1994-12-10	1994-12-10	
-S000001393	ORF	Verified	YIL131C	FKH1	forkhead family transcription factor FKH1	chromosome 9	L000002607	9	102235	100781	C		1994-12-10	1994-12-10	Forkhead family transcription factor; rate-limiting replication origin activator; evolutionarily conserved lifespan regulator; binds multiple chromosomal elements with distinct specificities, cell cycle dynamics; regulates transcription elongation, chromatin silencing at mating loci, expression of G2/M phase genes; facilitates clustering, activation of early-firing replication origins; binds HML recombination enhancer, regulates donor preference during mating-type switching
-S000033138	CDS					YIL131C		9	102235	100781	C		1994-12-10	1994-12-10	
-S000001392	ORF	Verified	YIL130W	ASG1		chromosome 9		9	102782	105676	W		1994-12-10	1994-12-10	Zinc cluster protein proposed to be a transcriptional regulator; regulator involved in the stress response; null mutants have a respiratory deficiency, calcofluor white sensitivity and slightly increased cycloheximide resistance
-S000032296	CDS					YIL130W		9	102782	105676	W		1994-12-10	1994-12-10	
-S000118394	ARS		ARS909		ARSIX-106	chromosome 9		9	105870	106053			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000001391	ORF	Verified	YIL129C	TAO3	PAG1	chromosome 9		9	113237	106107	C		1994-12-10	1994-12-10	Component of the RAM signaling network; is involved in regulation of Ace2p activity and cellular morphogenesis, interacts with protein kinase Cbk1p and also with Kic1p
-S000032290	CDS					YIL129C		9	113237	106107	C		1994-12-10	1994-12-10	
-S000130158	ARS		ARS910			chromosome 9		9	113237	113806			2009-05-07	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000001390	ORF	Verified	YIL128W	MET18	MMS19	chromosome 9	L000003468	9	113806	116904	W		1994-12-10	1994-12-10	Component of cytosolic iron-sulfur protein assembly (CIA) machinery; acts at a late step of Fe-S cluster assembly; forms the CIA targeting complex with Cia1p and Cia2p that directs Fe-S cluster incorporation into a subset of proteins involved in methionine biosynthesis, DNA replication and repair, transcription, and telomere maintenance; ortholog of human MMS19
-S000032232	CDS					YIL128W		9	113806	116904	W		1994-12-10	1994-12-10	
-S000001389	ORF	Uncharacterized	YIL127C	RRT14		chromosome 9		9	117644	117024	C		1994-12-10	1994-12-10	Putative protein of unknown function; identified in a screen for mutants with decreased levels of rDNA transcription; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus; predicted to be involved in ribosome biogenesis
-S000031158	CDS					YIL127C		9	117644	117024	C		1994-12-10	1994-12-10	
-S000001388	ORF	Verified	YIL126W	STH1	RSC chromatin remodeling complex ATPase subunit STH1|NPS1	chromosome 9	L000002128	9	117992	122071	W	-91	1994-12-10	1994-12-10	ATPase component of the RSC chromatin remodeling complex; required for expression of early meiotic genes; promotes base excision repair in chromatin; essential helicase-related protein homologous to Snf2p
-S000031113	CDS					YIL126W		9	117992	122071	W		1994-12-10	1994-12-10	
-S000001387	ORF	Verified	YIL125W	KGD1	alpha-ketoglutarate dehydrogenase KGD1|OGD1	chromosome 9	L000000897	9	122689	125733	W	-91	1994-12-10	1994-12-10	Subunit of the mitochondrial alpha-ketoglutarate dehydrogenase complex; catalyzes a key step in the tricarboxylic acid (TCA) cycle, the oxidative decarboxylation of alpha-ketoglutarate to form succinyl-CoA
-S000031016	CDS					YIL125W		9	122689	125733	W		1994-12-10	1994-12-10	
-S000001386	ORF	Verified	YIL124W	AYR1	GBG1|acylglycerone-phosphate reductase	chromosome 9	S000007473	9	126204	127097	W		1994-12-10	1994-12-10	Bifunctional triacylglycerol lipase and 1-acyl DHAP reductase; NADPH-dependent 1-acyl dihydroxyacetone phosphate reductase involved in phosphatidic acid biosynthesis; lipid droplet triacylglycerol lipase involved in the mobilization of non-polar lipids; found in lipid particles, the endoplasmic reticulum and the mitochondrial outer membrane; required for spore germination; role in cell wall biosynthesis; capable of metabolizing steroid hormones; oleic acid inducible
-S000030012	CDS					YIL124W		9	126204	127097	W		1994-12-10	1994-12-10	
-S000001385	ORF	Verified	YIL123W	SIM1	putative glucosidase SIM1	chromosome 9	L000003937	9	128151	129581	W		2011-02-03	1994-12-10|2011-02-03	Protein of the SUN family (Sim1p, Uth1p, Nca3p, Sun4p); may participate in DNA replication; promoter contains SCB regulation box at -300 bp indicating that expression may be cell cycle-regulated; SIM1 has a paralog, SUN4, that arose from the whole genome duplication
-S000029900	CDS					YIL123W		9	128151	129581	W		2011-02-03	1994-12-10|2011-02-03	
-S000122103	five_prime_UTR_intron					YIL123W		9	127662	128148	W		2007-04-04	2007-04-04	
-S000001384	ORF	Verified	YIL122W	POG1		chromosome 9		9	130610	131665	W		2011-02-03	1994-12-10	Nuclear chromatin-associated protein of unknown function; may have a role in cell cycle regulation; overexpression promotes recovery from pheromone induced arrest and suppresses the stress sensitivity caused by a mutation in the E3 ubiquitin ligase Rsp5p; binds upstream of BAR1 and cell cycle-related genes; phsosphoylated form may be ubiquitinated by Dma2p; potential Cdc28p substrate; SBF regulated
-S000037860	CDS					YIL122W		9	130610	131665	W		2011-02-03	1994-12-10	
-S000001383	ORF	Verified	YIL121W	QDR2	cation transporter	chromosome 9		9	132244	133872	W		2011-02-03	1994-12-10	Plasma membrane transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; exports copper; has broad substrate specificity and can transport many mono- and divalent cations; transports a variety of drugs and is required for resistance to quinidine, barban, cisplatin, and bleomycin; contributes to potassium homeostasis; expression is regulated by copper
-S000037111	CDS					YIL121W		9	132244	133872	W		2011-02-03	1994-12-10	
-S000001382	ORF	Verified	YIL120W	QDR1	multidrug transporter	chromosome 9		9	134417	136108	W		2011-02-03	1994-12-10	Multidrug transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; involved in spore wall assembly; sequence similarity to DTR1 and QDR3, and the triple mutant dtr1 qdr1 qdr3 exhibits reduced dityrosine fluorescence relative to the single mutants; required for resistance to quinidine, ketoconazole, fluconazole, and barban; QDR1 has a paralog, AQR1, that arose from the whole genome duplication
-S000037040	CDS					YIL120W		9	134417	136108	W		2011-02-03	1994-12-10	
-S000118395	ARS		ARS911		ARSIX-136	chromosome 9		9	136098	136338			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178112	ARS_consensus_sequence					ARS911		9	136288	136272	C		2014-11-18	2014-11-18	
-S000001381	ORF	Verified	YIL119C	RPI1		chromosome 9	L000001697	9	137877	136654	C		2011-02-03	1994-12-10	Transcription factor, allelic differences between S288C and Sigma1278b; mediates fermentation stress tolerance by modulating cell wall integrity; overexpression suppresses heat shock sensitivity of wild-type RAS2 overexpression and also suppresses cell lysis defect of mpk1 mutation; allele from S288c can confer fMAPK pathway independent transcription of FLO11; S288C and Sigma1278b alleles differ in number of tandem repeats within ORF
-S000036217	CDS					YIL119C		9	137877	136654	C		2011-02-03	1994-12-10	
-S000001380	ORF	Verified	YIL118W	RHO3	Rho family GTPase RHO3	chromosome 9	L000001632	9	139752	140447	W		2011-02-03	1994-12-10	Non-essential small GTPase of the Rho/Rac family of Ras-like proteins; involved in the establishment of cell polarity; GTPase activity positively regulated by the GTPase activating protein (GAP) Rgd1p
-S000036201	CDS					YIL118W		9	139752	140447	W		2011-02-03	1994-12-10	
-S000001379	ORF	Verified	YIL117C	PRM5	pheromone-regulated protein PRM5	chromosome 9		9	141569	140613	C		2011-02-03	1994-12-10	Pheromone-regulated protein, predicted to have 1 transmembrane segment; induced during cell integrity signaling; PRM5 has a paralog, YNL058C, that arose from the whole genome duplication
-S000035189	CDS					YIL117C		9	141569	140613	C		2011-02-03	1994-12-10	
-S000001378	ORF	Verified	YIL116W	HIS5	histidinol-phosphate transaminase	chromosome 9	L000000782	9	142928	144085	W	-89	2011-02-03	1994-12-10	Histidinol-phosphate aminotransferase; catalyzes the seventh step in histidine biosynthesis; responsive to general control of amino acid biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts
-S000035124	CDS					YIL116W		9	142928	144085	W		2011-02-03	1994-12-10	
-S000028795	ORF	Dubious	YIL115W-A			chromosome 9		9	144268	144639	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene NUP159/YIL115C
-S000033557	CDS					YIL115W-A		9	144268	144639	W		2011-02-03	2003-07-29	
-S000001377	ORF	Verified	YIL115C	NUP159	FG-nucleoporin NUP159|RAT7|NUP158	chromosome 9	L000002782	9	148709	144327	C		2011-02-03	1994-12-10	FG-nucleoporin component of central core of the nuclear pore complex; also part of the nuclear pore complex (NPC) cytoplasmic filaments; contributes directly to nucleocytoplasmic transport; regulates ADP release from the ATP-dependent RNA helicase Dbp5p; forms a stable association with Nup82p, Gle2p and two other FG-nucleoporins (Nsp1p and Nup116p)
-S000034872	CDS					YIL115C		9	148709	144327	C		2011-02-03	1994-12-10	
-S000001376	ORF	Verified	YIL114C	POR2	putative porin POR2|YVDAC2	chromosome 9	L000003425	9	149988	149143	C		2011-02-03	1994-12-10	Putative mitochondrial porin (voltage-dependent anion channel); not required for mitochondrial membrane permeability or mitochondrial osmotic stability; POR2 has a paralog, POR1, that arose from the whole genome duplication
-S000033971	CDS					YIL114C		9	149988	149143	C		2011-02-03	1994-12-10	
-S000001375	ORF	Verified	YIL113W	SDP1	mitogen-activated protein kinase tyrosine protein phosphatase SDP1	chromosome 9	L000004339	9	150559	151188	W		2011-02-03	1994-12-10	Stress-inducible dual-specificity MAP kinase phosphatase; negatively regulates Slt2p MAP kinase by direct dephosphorylation, diffuse localization under normal conditions shifts to punctate localization after heat shock; SDP1 has a paralog, MSG5, that arose from the whole genome duplication
-S000033917	CDS					YIL113W		9	150559	151188	W		2011-02-03	1994-12-10	
-S000001374	ORF	Verified	YIL112W	HOS4		chromosome 9		9	151595	154846	W		2011-02-03	1994-12-10	Subunit of the Set3 complex; complex is a meiotic-specific repressor of sporulation specific genes that contains deacetylase activity; potential Cdc28p substrate
-S000033813	CDS					YIL112W		9	151595	154846	W		2011-02-03	1994-12-10	
-S000001373	ORF	Verified	YIL111W	COX5B	cytochrome c oxidase subunit Vb	chromosome 9	L000000389	9	155222	155765	W		2011-02-03	1994-12-10	Subunit Vb of cytochrome c oxidase; cytochrome c oxidase is the terminal member of the mitochondrial inner membrane electron transport chain; Cox5Bp is predominantly expressed during anaerobic growth while its isoform Va (Cox5Ap) is expressed during aerobic growth; COX5B has a paralog, COX5A, that arose from the whole genome duplication
-S000033706	CDS					YIL111W		9	155222	155222	W		2011-02-03	1994-12-10	
-S000033707	CDS					YIL111W		9	155311	155765	W		2011-02-03	1994-12-10	
-S000033708	intron					YIL111W		9	155223	155310	W		2011-02-03	1994-12-10	
-S000001372	ORF	Verified	YIL110W	HPM1	MNI1	chromosome 9		9	156045	157178	W		2011-02-03	1994-12-10	AdoMet-dependent methyltransferase; involved in a novel 3-methylhistidine modification of ribosomal protein Rpl3p; seven beta-strand MTase family member; null mutant exhibits a weak vacuolar protein sorting defect and caspofungin resistance
-S000033038	CDS					YIL110W		9	156045	157178	W		2011-02-03	1994-12-10	
-S000001371	ORF	Verified	YIL109C	SEC24	COPII subunit SEC24|ANU1	chromosome 9	L000004360	9	160165	157385	C		2011-02-03	1994-12-10	Component of the Sec23p-Sec24p heterodimer of the COPII vesicle coat; required for cargo selection during vesicle formation in ER to Golgi transport; homologous to Sfb3p; SEC24 has a paralog, SFB2, that arose from the whole genome duplication
-S000034140	CDS					YIL109C		9	160165	157385	C		2011-02-03	1994-12-10	
-S000001370	ORF	Verified	YIL108W		putative metalloendopeptidase	chromosome 9		9	160887	162977	W		2011-02-03	1994-12-10	Putative metalloendopeptidase; forms cytoplasmic foci upon DNA replication stress
-S000034098	CDS					YIL108W		9	160887	162977	W		2011-02-03	1994-12-10	
-S000001369	ORF	Verified	YIL107C	PFK26	PFK-2|PFK2	chromosome 9	L000001406	9	165761	163278	C		2011-02-03	1994-12-10	6-phosphofructo-2-kinase; inhibited by phosphoenolpyruvate and sn-glycerol 3-phosphate; has negligible fructose-2,6-bisphosphatase activity; transcriptional regulation involves protein kinase A
-S000032029	CDS					YIL107C		9	165761	163278	C		2011-02-03	1994-12-10	
-S000001368	ORF	Verified	YIL106W	MOB1		chromosome 9	L000003356	9	166415	167444	W		2011-02-03	1999-11-17|1994-12-10	Component of the mitotic exit network; associates with and is required for the activation and Cdc15p-dependent phosphorylation of the Dbf2p kinase; required for cytokinesis and cell separation; component of the CCR4 transcriptional complex; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress
-S000031985	CDS					YIL106W		9	166415	166434	W		2011-02-03	1999-11-17|1994-12-10	
-S000031986	CDS					YIL106W		9	166520	167444	W		2011-02-03	1999-11-17	
-S000031987	intron					YIL106W		9	166435	166519	W		2011-02-03	1999-11-17	
-S000028657	ORF	Uncharacterized	YIL105W-A			chromosome 9		9	167664	167804	W		2011-02-03	2003-07-29	Protein of unknown function; completely overlaps the verified gene SLM1; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; mRNA identified as translated by ribosome profiling data
-S000032461	CDS					YIL105W-A		9	167664	167804	W		2011-02-03	2003-07-29	
-S000001367	ORF	Verified	YIL105C	SLM1	phosphatidylinositol 4,5-bisphosphate-binding protein|LIT2	chromosome 9		9	169641	167581	C		2011-02-03	1994-12-10	Phosphoinositide PI4,5P(2) binding protein, forms a complex with Slm2p; acts downstream of Mss4p in a pathway regulating actin cytoskeleton organization in response to stress; TORC2 complex substrate and effector; protein abundance increases in response to DNA replication stress; SLM1 has a paralog, SLM2, that arose from the whole genome duplication
-S000030899	CDS					YIL105C		9	169641	167581	C		2011-02-03	1994-12-10	
-S000001366	ORF	Verified	YIL104C	SHQ1	Hsp90 cochaperone SHQ1	chromosome 9		9	171505	169982	C		2011-02-03	1994-12-10	Chaperone protein; required for the assembly of box H/ACA snoRNPs and thus for pre-rRNA processing; functions as an RNA mimic; forms a complex with Naf1p and interacts with H/ACA snoRNP components Nhp2p and Cbf5p; homology with known Hsp90p cochaperones; relocalizes to the cytosol in response to hypoxia
-S000030805	CDS					YIL104C		9	171505	169982	C		2011-02-03	1994-12-10	
-S000001365	ORF	Verified	YIL103W	DPH1	KIF48	chromosome 9		9	171751	173028	W		2011-02-03	1994-12-10	Protein required for synthesis of diphthamide; required along with Dph2p, Kti11p, Jjj3p, and Dph5p; diphthamide is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); may act in a complex with Dph2p and Kti11p
-S000030777	CDS					YIL103W		9	171751	173028	W		2011-02-03	1994-12-10	
-S000113587	ORF	Uncharacterized	YIL102C-A			chromosome 9		9	173592	173365	C		2011-02-03	2005-11-21	Putative protein of unknown function; identified based on comparisons of the genome sequences of six Saccharomyces species; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
-S000113588	CDS					YIL102C-A		9	173592	173365	C		2011-02-03	2005-11-21	
-S000001364	ORF	Uncharacterized	YIL102C			chromosome 9		9	174887	174582	C		2011-02-03	1994-12-10	Putative protein of unknown function
-S000030579	CDS					YIL102C		9	174887	174582	C		2011-02-03	1994-12-10	
-S000006741	tRNA_gene		tT(AGU)I1			chromosome 9	L000003866	9	175031	175103	W		2011-02-03	1994-12-10	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000036345	noncoding_exon					tT(AGU)I1		9	175031	175103	W		2011-02-03	1994-12-10	
-S000118396	ARS		ARS912		ARSIX-175	chromosome 9		9	175038	175358			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178113	ARS_consensus_sequence					ARS912		9	175170	175186	W		2014-11-18	2014-11-18	
-S000001363	ORF	Verified	YIL101C	XBP1		chromosome 9	L000004246	9	177250	175307	C		2011-02-03	1994-12-10	Transcriptional repressor; binds promoter sequences of cyclin genes, CYS3, and SMF2; not expressed during log phase of growth, but induced by stress or starvation during mitosis, and late in meiosis; represses 15% of all yeast genes as cells transition to quiescence; important for maintaining G1 arrest and for longevity of quiescent cells; member of Swi4p/Mbp1p family; phosphorylated by Cdc28p; relative distribution to nucleus increases upon DNA replication stress
-S000037752	CDS					YIL101C		9	177250	175307	C		2011-02-03	1994-12-10	
-S000001362	ORF	Dubious	YIL100W			chromosome 9		9	177373	177726	W		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the dubious ORF YIL100C-A
-S000037716	CDS					YIL100W		9	177373	177726	W		2011-02-03	1994-12-10	
-S000028794	ORF	Dubious	YIL100C-A			chromosome 9		9	177681	177343	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033555	CDS					YIL100C-A		9	177681	177343	C		2011-02-03	2003-07-29	
-S000001361	ORF	Verified	YIL099W	SGA1	glucan 1,4-alpha-glucosidase	chromosome 9	L000001875	9	178004	179653	W		2011-02-03	1994-12-10	Intracellular sporulation-specific glucoamylase; involved in glycogen degradation; induced during starvation of a/a diploids late in sporulation, but dispensable for sporulation
-S000032666	CDS					YIL099W		9	178004	179653	W		2011-02-03	1994-12-10	
-S000001360	ORF	Verified	YIL098C	FMC1		chromosome 9	L000004436	9	180239	179772	C		2011-02-03	1994-12-10	Mitochondrial matrix protein; required for assembly or stability at high temperature of the F1 sector of mitochondrial F1F0 ATP synthase; null mutant temperature sensitive growth on glycerol is suppressed by multicopy expression of Odc1p
-S000032508	CDS					YIL098C		9	180239	179772	C		2011-02-03	1994-12-10	
-S000001359	ORF	Verified	YIL097W	FYV10	glucose-induced degradation complex subunit FYV10|GID9	chromosome 9		9	180427	181977	W		2011-02-03	1994-12-10	Subunit of GID complex; involved in proteasome-dependent catabolite inactivation of gluconeogenic enzymes FBPase, PEPCK, and c-MDH; forms dimer with Rmd5p that is then recruited to GID Complex by Gid8p; contains a degenerate RING finger motif needed for GID complex ubiquitin ligase activity in vivo, as well as CTLH and CRA domains; plays role in anti-apoptosis; required for survival upon exposure to K1 killer toxin
-S000032474	CDS					YIL097W		9	180427	181977	W		2011-02-03	1994-12-10	
-S000001358	ORF	Verified	YIL096C	BMT5	25S rRNA (uracil2634-N3)-methyltransferase	chromosome 9		9	183127	182117	C		2011-02-03	1994-12-10	Methyltransferase required for m3U2634 methylation of the 25S rRNA; S-adenosylmethionine-dependent; associates with precursors of the 60S ribosomal subunit; predicted to be involved in ribosome biogenesis
-S000031394	CDS					YIL096C		9	183127	182117	C		2011-02-03	1994-12-10	
-S000006605	tRNA_gene		tI(AAU)I1			chromosome 9	L000003875	9	183513	183440	C		2011-02-03	1994-12-10	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000030348	noncoding_exon					tI(AAU)I1		9	183513	183440	C		2011-02-03	1994-12-10	
-S000001357	ORF	Verified	YIL095W	PRK1	serine/threonine protein kinase PRK1|PAK1	chromosome 9	L000002879	9	183937	186369	W		2011-02-03	1994-12-10	Protein serine/threonine kinase; regulates the organization and function of the actin cytoskeleton and reduces endocytic ability of cell through the phosphorylation of the Pan1p-Sla1p-End3p protein complex; PRK1 has a paralog, ARK1, that arose from the whole genome duplication
-S000031347	CDS					YIL095W		9	183937	186369	W		2011-02-03	1994-12-10	
-S000001356	ORF	Verified	YIL094C	LYS12	homoisocitrate dehydrogenase|LYS11|LYS10	chromosome 9	L000000970	9	187632	186517	C		2011-02-03	1994-12-10	Homo-isocitrate dehydrogenase; an NAD-linked mitochondrial enzyme required for the fourth step in the biosynthesis of lysine, in which homo-isocitrate is oxidatively decarboxylated to alpha-ketoadipate
-S000031160	CDS					YIL094C		9	187632	186517	C		2011-02-03	1994-12-10	
-S000001355	ORF	Verified	YIL093C	RSM25	mitochondrial 37S ribosomal protein RSM25	chromosome 9		9	188784	187990	C		2011-02-03	1994-12-10	Mitochondrial ribosomal protein of the small subunit
-S000030231	CDS					YIL093C		9	188784	187990	C		2011-02-03	1994-12-10	
-S000001354	ORF	Uncharacterized	YIL092W			chromosome 9		9	189066	190967	W		2011-02-03	1994-12-10	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus
-S000030095	CDS					YIL092W		9	189066	190967	W		2011-02-03	1994-12-10	
-S000001353	ORF	Verified	YIL091C	UTP25	rRNA-binding ribosome biosynthesis protein UTP25	chromosome 9		9	193195	191030	C		2011-02-03	1994-12-10	Nucleolar protein; required for 35S pre-RNA processing and 40S ribosomal subunit biogenesis
-S000029923	CDS					YIL091C		9	193195	191030	C		2011-02-03	1994-12-10	
-S000001352	ORF	Verified	YIL090W	ICE2		chromosome 9		9	193595	195070	W		2011-02-03	1994-12-10	Integral ER membrane protein with type-III transmembrane domains; required for maintenance of ER zinc homeostasis; necessary for efficient targeting of Trm1p tRNA methyltransferase to inner nuclear membrane; mutations cause defects in cortical ER morphology in both the mother and daughter cells
-S000029886	CDS					YIL090W		9	193595	195070	W		2011-02-03	1994-12-10	
-S000001351	ORF	Verified	YIL089W			chromosome 9		9	195599	196216	W		2011-02-03	1994-12-10	Protein of unknown function found in the ER and vacuole lumen; overexpression of YIL089W affects endocytic protein trafficking
-S000036415	CDS					YIL089W		9	195599	196216	W		2011-02-03	1994-12-10	
-S000007015	long_terminal_repeat		YILCtau1			chromosome 9		9	197023	196653	C		2011-02-03	1994-12-10	Ty4 LTR
-S000007011	long_terminal_repeat		YILCdelta1			chromosome 9		9	197488	197140	C		2011-02-03	1994-12-10	Ty1 LTR
-S000006547	tRNA_gene		tE(CUC)I			chromosome 9	L000003867	9	197592	197663	W		2011-02-03	1994-12-10	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis
-S000031939	noncoding_exon					tE(CUC)I		9	197592	197663	W		2011-02-03	1994-12-10	
-S000001350	ORF	Verified	YIL088C	AVT7		chromosome 9		9	199403	197931	C		2011-02-03	1994-12-10	Putative transporter; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
-S000036264	CDS					YIL088C		9	199403	197931	C		2011-02-03	1994-12-10	
-S000001349	ORF	Verified	YIL087C	AIM19	LRC2	chromosome 9		9	200119	199646	C		2011-02-03	1994-12-10	Protein of unknown function; mitochondrial protein that physically interacts with Tim23p; null mutant displays reduced respiratory growth
-S000035319	CDS					YIL087C		9	200119	199646	C		2011-02-03	1994-12-10	
-S000001348	ORF	Dubious	YIL086C			chromosome 9		9	200461	200153	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000035155	CDS					YIL086C		9	200461	200153	C		2011-02-03	1994-12-10	
-S000001347	ORF	Verified	YIL085C	KTR7	putative mannosyltransferase	chromosome 9	L000004100	9	202043	200490	C		2011-02-03	1994-12-10	Putative mannosyltransferase involved in protein glycosylation; member of the KRE2/MNT1 mannosyltransferase family; KTR7 has a paralog, KTR5, that arose from the whole genome duplication
-S000035010	CDS					YIL085C		9	202043	200490	C		2011-02-03	1994-12-10	
-S000001346	ORF	Verified	YIL084C	SDS3		chromosome 9	L000003384	9	203259	202276	C		2011-02-03	1994-12-10	Component of the Rpd3L histone deacetylase complex; required for its structural integrity and catalytic activity, involved in transcriptional silencing and required for sporulation; relocalizes to the cytosol in response to hypoxia; cells defective in SDS3 display pleiotropic phenotypes
-S000034086	CDS					YIL084C		9	203259	202276	C		2011-02-03	1994-12-10	
-S000001345	ORF	Verified	YIL083C	CAB2	phosphopantothenate--cysteine ligase CAB2	chromosome 9		9	204653	203556	C		2011-02-03	1994-12-10|2011-02-03	Subunit of the CoA-Synthesizing Protein Complex (CoA-SPC); subunits of this complex are: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p; probable phosphopantothenoylcysteine synthetase (PPCS), which catalyzes the second step of coenzyme A biosynthesis from pantothenate; null mutant lethality is complemented by human homolog PPCS and by E. coli coaBC (encoding a bifunctional enzyme with PPCS activity)
-S000033946	CDS					YIL083C		9	204653	203556	C		2011-02-03	1994-12-10|2011-02-03	
-S000007017	long_terminal_repeat		YILWsigma1			chromosome 9		9	205220	205559	W		2011-02-03	1994-12-10	Ty3 LTR
-S000007020	LTR_retrotransposon		YILWTy3-1		Ty3	chromosome 9		9	205220	210647	W		2011-02-03	1994-12-10	Ty3 element, LTR retrotransposon of the Gypsy (Metaviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; transposition is induced upon exposure to mating pheromone
-S000001344	ORF	Dubious	YIL082W			chromosome 9		9	205635	206507	W		2011-02-03	1994-12-10	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
-S000033890	CDS					YIL082W		9	205635	206507	W		2011-02-03	1994-12-10	
-S000003537	transposable_element_gene		YIL082W-A		gag-pol fusion protein	chromosome 9		9	205635	210132	W		2011-02-03	1994-12-10|1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
-S000030100	CDS					YIL082W-A		9	205635	206485	W		2011-02-03	1999-07-17|1994-12-10	
-S000030101	CDS					YIL082W-A		9	206487	210132	W		2011-02-03	1999-07-17|1994-12-10	
-S000030102	plus_1_translational_frameshift					YIL082W-A		9	206486	206486	W		2011-02-03	1999-07-17|1994-12-10	
-S000007018	long_terminal_repeat		YILWsigma2			chromosome 9		9	210308	210647	W		2011-02-03	1994-12-10	Ty3 LTR
-S000006606	tRNA_gene		tI(AAU)I2			chromosome 9	L000003868	9	210665	210738	W		2011-02-03	1994-12-10	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
-S000030349	noncoding_exon					tI(AAU)I2		9	210665	210738	W		2011-02-03	1994-12-10	
-S000001341	ORF	Verified	YIL079C	AIR1	TRAMP complex RNA-binding subunit	chromosome 9	S000028413	9	212005	210923	C		2011-02-03	1994-12-10	Zinc knuckle protein; involved in nuclear RNA processing and degradation as a component of the TRAMP complex; stimulates the poly(A) polymerase activity of Pap2p in vitro; AIR1 has a paralog, AIR2, that arose from the whole genome duplication; although Air1p and Air2p are homologous TRAMP subunits, they have nonredundant roles in regulation of substrate specificity of the exosome
-S000032850	CDS					YIL079C		9	212005	210923	C		2011-02-03	1994-12-10	
-S000001340	ORF	Verified	YIL078W	THS1	threonine--tRNA ligase THS1	chromosome 9	L000002301	9	212499	214703	W		2011-02-03	1994-12-10	Threonyl-tRNA synthetase; essential cytoplasmic protein; human homolog TARS can complement yeast null mutant
-S000032807	CDS					YIL078W		9	212499	214703	W		2011-02-03	1994-12-10	
-S000007644	ARS		ARS913	ARS901	ARSIX-215|ARS249	chromosome 9		9	214624	214754			2014-11-18	2001-03-06|2014-11-18|2006-09-08	Autonomously Replicating Sequence
-S000178114	ARS_consensus_sequence					ARS913		9	214732	214748	W		2014-11-18	2014-11-18	
-S000001339	ORF	Uncharacterized	YIL077C			chromosome 9		9	215953	214991	C		2011-02-03	1994-12-10	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
-S000032673	CDS					YIL077C		9	215953	214991	C		2011-02-03	1994-12-10	
-S000001338	ORF	Verified	YIL076W	SEC28	coatomer subunit epsilon|ANU2	chromosome 9	L000004402	9	216658	217548	W		2011-02-03	1994-12-10|2005-11-22	Epsilon-COP subunit of the coatomer; regulates retrograde Golgi-to-ER protein traffic; stabilizes Cop1p, the alpha-COP and the coatomer complex; non-essential for cell growth; protein abundance increases in response to DNA replication stress
-S000032630	CDS					YIL076W		9	216658	217548	W		2011-02-03	1994-12-10|2005-11-22	
-S000001337	ORF	Verified	YIL075C	RPN2	proteasome regulatory particle base subunit RPN2|SEN3	chromosome 9	L000001864	9	220700	217863	C		2011-02-03	1994-12-10	Subunit of the 26S proteasome; substrate of the N-acetyltransferase Nat1p; protein abundance increases in response to DNA replication stress
-S000031543	CDS					YIL075C		9	220700	217863	C		2011-02-03	1994-12-10	
-S000001336	ORF	Verified	YIL074C	SER33	phosphoglycerate dehydrogenase SER33	chromosome 9	S000007458	9	222490	221081	C		2011-02-03	1994-12-10	3-phosphoglycerate dehydrogenase and alpha-ketoglutarate reductase; 3PG dehydrogenase that catalyzes the first step in serine and glycine biosynthesis; also functions as an alpha-ketoglutarate reductase, converting alpha-ketoglutarate to D-2-hydroxyglutarate (D-2HG); localizes to the cytoplasm; SER33 has a paralog, SER3, that arose from the whole genome duplication
-S000031439	CDS					YIL074C		9	222490	221081	C		2011-02-03	1994-12-10	
-S000001335	ORF	Verified	YIL073C	SPO22	ZIP4	chromosome 9		9	225954	222937	C		2011-02-03	2003-09-27|1994-12-10	Meiosis-specific protein essential for chromosome synapsis; involved in completion of nuclear divisions during meiosis; induced early in meiosis
-S000030517	CDS					YIL073C		9	225809	222937	C		2011-02-03	2003-09-27	
-S000030516	CDS					YIL073C		9	225954	225900	C		2011-02-03	2003-09-27|1994-12-10	
-S000030518	intron					YIL073C		9	225899	225810	C		2011-02-03	2003-09-27	
-S000001334	ORF	Verified	YIL072W	HOP1		chromosome 9	L000000802	9	226602	228419	W	-59	2011-02-03	1994-12-10	Meiosis-specific protein required for chromosome synapsis; displays Red1p dependent localization to the unsynapsed axial-lateral elements of the synaptonemal complex; required for chiasma formation; in vitro, displays the ability to promote intra- and intermolecular synapsis between double-stranded DNA molecules and to fold DNA into rigid protein-DNA filaments
-S000030472	CDS					YIL072W		9	226602	228419	W		2011-02-03	1994-12-10	
-S000028793	ORF	Dubious	YIL071W-A			chromosome 9		9	228550	229026	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF PCI8/YIL071C
-S000033552	CDS					YIL071W-A		9	228550	229026	W		2011-02-03	2003-07-29	
-S000001333	ORF	Verified	YIL071C	PCI8	YIL071W|CSN11|YIH1	chromosome 9	S000007580	9	229994	228660	C		2011-02-03	1994-12-10	Possible shared subunit of Cop9 signalosome (CSN) and eIF3; binds eIF3b subunit Prt1p, has possible dual functions in transcriptional and translational control, contains a PCI (Proteasome-COP9 signalosome (CSN)-eIF3) domain
-S000030209	CDS					YIL071C		9	229994	228660	C		2011-02-03	1994-12-10	
-S000001332	ORF	Verified	YIL070C	MAM33		chromosome 9		9	231072	230272	C		2011-02-03	1994-12-10	Specific translational activator for the mitochondrial COX1 mRNA; acidic protein of the mitochondrial matrix; related to the human complement receptor gC1q-R
-S000037502	CDS					YIL070C		9	231072	230272	C		2011-02-03	1994-12-10	
-S000001331	ORF	Verified	YIL069C	RPS24B	eS24|ribosomal 40S subunit protein S24B|S24e|S24B|RPS24EB	chromosome 9	L000002711	9	232369	231553	C		2011-02-03	1994-12-10	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S24, no bacterial homolog; RPS24B has a paralog, RPS24A, that arose from the whole genome duplication
-S000036651	CDS					YIL069C		9	231957	231553	C		2011-02-03	1994-12-10	
-S000036650	CDS					YIL069C		9	232369	232367	C		2011-02-03	1994-12-10	
-S000036652	intron					YIL069C		9	232366	231958	C		2011-02-03	1994-12-10	
-S000028792	ORF	Dubious	YIL068W-A			chromosome 9		9	233013	233396	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF SEC6/YIL068C
-S000033551	CDS					YIL068W-A		9	233013	233396	W		2011-02-03	2003-07-29	
-S000001330	ORF	Verified	YIL068C	SEC6	SNARE-binding exocyst subunit SEC6	chromosome 9	L000001832	9	235474	233057	C		2011-02-03	1994-12-10	Essential 88kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion; anchors the assembled complex to sites of secretion; interacts with SM-like protein and SNARE regulator Sec1p and may recruit it to sites of secretion; binds to SNARE complexes binteracting with Sec9p
-S000036567	CDS					YIL068C		9	235474	233057	C		2011-02-03	1994-12-10	
-S000028791	ORF	Dubious	YIL066W-A			chromosome 9		9	237366	237809	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF YIL067C
-S000033550	CDS					YIL066W-A		9	237366	237809	W		2011-02-03	2003-07-29	
-S000001329	ORF	Uncharacterized	YIL067C			chromosome 9		9	237760	235724	C		2011-02-03	1994-12-10	Uncharacterized protein of unknown function
-S000035626	CDS					YIL067C		9	237760	235724	C		2011-02-03	1994-12-10	
-S000001328	ORF	Verified	YIL066C	RNR3	ribonucleotide-diphosphate reductase subunit RNR3|RIR3|DIN1	chromosome 9	L000001644|L000001657	9	240708	238099	C		2011-02-03	1994-12-10	Minor isoform of large subunit of ribonucleotide-diphosphate reductase; the RNR complex catalyzes rate-limiting step in dNTP synthesis, regulated by DNA replication and DNA damage checkpoint pathways via localization of small subunits; RNR3 has a paralog, RNR1, that arose from the whole genome duplication
-S000035554	CDS					YIL066C		9	240708	238099	C		2011-02-03	1994-12-10	
-S000001327	ORF	Verified	YIL065C	FIS1	MDV2	chromosome 9		9	241775	241308	C		2011-02-03	1994-12-10	Protein involved in mitochondrial fission and peroxisome abundance; may have a distinct role in tethering protein aggregates to mitochondria in order to retain them in the mother cell; required for localization of Dnm1p and Mdv1p during mitochondrial division; mediates ethanol-induced apoptosis and ethanol-induced mitochondrial fragmentation
-S000035474	CDS					YIL065C		9	241775	241308	C		2011-02-03	1994-12-10	
-S000001326	ORF	Verified	YIL064W	EFM4	SEE1	chromosome 9		9	241943	242716	W		2011-02-03	1994-12-10	Lysine methyltransferase; involved in the dimethylation of eEF1A (Tef1p/Tef2p) at lysine 316; sequence similarity to S-adenosylmethionine-dependent methyltransferases of the seven beta-strand family; role in vesicular transport
-S000035414	CDS					YIL064W		9	241943	242716	W		2011-02-03	1994-12-10	
-S000001325	ORF	Verified	YIL063C	YRB2		chromosome 9	L000002886	9	243744	242761	C		2011-02-03	1994-12-10	Protein of unknown function; involved in nuclear processes of the Ran-GTPase cycle; involved in nuclear protein export; contains Ran Binding Domain and FxFG repeats; interacts with Srm1p, GTP-Gsp1p, Rna1p and Crm1p; relocalizes to the cytosol in response to hypoxia; not essential for viability
-S000034323	CDS					YIL063C		9	243744	242761	C		2011-02-03	1994-12-10	
-S000001324	ORF	Verified	YIL062C	ARC15		chromosome 9	L000004032	9	244462	243998	C		2011-02-03	1994-12-10	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches; has mRNA binding activity
-S000034193	CDS					YIL062C		9	244462	243998	C		2011-02-03	1994-12-10	
-S000001323	ORF	Verified	YIL061C	SNP1	U1 snRNP complex subunit SNP1|U1-70K	chromosome 9	L000001954	9	245559	244657	C		2011-02-03	1994-12-10	Component of U1 snRNP required for mRNA splicing via spliceosome; substrate of the arginine methyltransferase Hmt1p; may interact with poly(A) polymerase to regulate polyadenylation; homolog of human U1 70K protein; protein abundance increases in response to DNA replication stress
-S000033301	CDS					YIL061C		9	245559	244657	C		2011-02-03	1994-12-10	
-S000119034	ARS		ARS923		ARSIX-246|ARS913.5	chromosome 9		9	245756	245925			2014-11-18	2014-11-18|2006-10-03	Autonomously Replicating Sequence
-S000178115	ARS_consensus_sequence					ARS923		9	245880	245864	C		2014-11-18	2014-11-18	
-S000007012	long_terminal_repeat		YILWdelta2		YILCdelta2	chromosome 9		9	246220	246552	W		2011-02-03	1994-12-10|2007-04-03	Ty2 LTR
-S000001322	ORF	Verified	YIL060W			chromosome 9		9	246392	246826	W		2011-02-03	1994-12-10	Mitochondrial protein of unknown function; required for respiratory growth; mutant accumulates less glycogen than does wild type; null mutation results in a decrease in plasma membrane electron transport; YIL060W is not an essential gene
-S000033276	CDS					YIL060W		9	246392	246826	W		2011-02-03	1994-12-10	
-S000001320	ORF	Dubious	YIL058W			chromosome 9		9	246914	247198	W		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034459	CDS					YIL058W		9	246914	247198	W		2011-02-03	1994-12-10	
-S000001321	ORF	Dubious	YIL059C			chromosome 9		9	246915	246550	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YIL060W
-S000034503	CDS					YIL059C		9	246915	246550	C		2011-02-03	1994-12-10	
-S000118397	ARS		ARS914		ARSIX-248	chromosome 9		9	247705	247760			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178116	ARS_consensus_sequence					ARS914		9	247752	247736	C		2014-11-18	2014-11-18	
-S000001319	ORF	Verified	YIL057C	RGI2		chromosome 9		9	248396	247902	C		2011-02-03	1994-12-10	Protein of unknown function; involved in energy metabolism under respiratory conditions; expression induced under carbon limitation and repressed under high glucose; RGI2 has a paralog, RGI1, that arose from the whole genome duplication
-S000032397	CDS					YIL057C		9	248396	247902	C		2011-02-03	1994-12-10	
-S000130159	ARS		ARS915			chromosome 9		9	248396	248850			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000006735	tRNA_gene		tS(UGA)I	SUP17		chromosome 9	L000002191|L000003869	9	248850	248931	W	-53	2011-02-03	1994-12-10	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
-S000034050	noncoding_exon					tS(UGA)I		9	248850	248931	W		2011-02-03	1994-12-10	
-S000001318	ORF	Verified	YIL056W	VHR1		chromosome 9		9	249991	251913	W		2011-02-03	1994-12-10	Transcriptional activator; required for the vitamin H-responsive element (VHRE) mediated induction of VHT1 (Vitamin H transporter) and BIO5 (biotin biosynthesis intermediate transporter) in response to low biotin concentrations; VHR1 has a paralog, VHR2, that arose from the whole genome duplication
-S000032356	CDS					YIL056W		9	249991	251913	W		2011-02-03	1994-12-10	
-S000001317	ORF	Uncharacterized	YIL055C			chromosome 9		9	253925	252042	C		2011-02-03	1994-12-10	Putative protein of unknown function
-S000031292	CDS					YIL055C		9	253925	252042	C		2011-02-03	1994-12-10	
-S000001316	ORF	Uncharacterized	YIL054W			chromosome 9		9	254543	254860	W		2011-02-03	1994-12-10	Protein of unknown function; expressed at both mRNA and protein levels
-S000031254	CDS					YIL054W		9	254543	254860	W		2011-02-03	1994-12-10	
-S000001315	ORF	Verified	YIL053W	GPP1	RHR2|glycerol-1-phosphatase RHR2	chromosome 9	L000003988	9	255115	255867	W		2011-02-03	1994-12-10|2006-01-24	Constitutively expressed DL-glycerol-3-phosphate phosphatase; also known as glycerol-1-phosphatase; involved in glycerol biosynthesis, induced in response to both anaerobic and osmotic stress; GPP1 has a paralog, GPP2, that arose from the whole genome duplication
-S000031111	CDS					YIL053W		9	255115	255867	W		2011-02-03	1994-12-10|2006-01-24	
-S000001314	ORF	Verified	YIL052C	RPL34B	eL34|ribosomal 60S subunit protein L34B|L34e|L34B	chromosome 9	L000004466	9	257063	256226	C		2011-02-03	1994-12-10	Ribosomal 60S subunit protein L34B; homologous to mammalian ribosomal protein L34, no bacterial homolog; RPL34B has a paralog, RPL34A, that arose from the whole genome duplication
-S000030947	CDS					YIL052C		9	256554	256226	C		2011-02-03	1994-12-10	
-S000030946	CDS					YIL052C		9	257063	257027	C		2011-02-03	1994-12-10	
-S000030948	intron					YIL052C		9	257026	256555	C		2011-02-03	1994-12-10	
-S000001313	ORF	Verified	YIL051C	MMF1	isoleucine biosynthesis protein MMF1|IBM1	chromosome 9	L000004449	9	258280	257843	C		2011-02-03	1994-12-10	Mitochondrial protein required for transamination of isoleucine; but not of valine or leucine; may regulate specificity of branched-chain transaminases Bat1p and Bat2p; induction of expression in response to stress is mediated by a Hog1p-regulated antisense RNA and gene looping; interacts genetically with mitochondrial ribosomal protein genes; MMF1 has a paralog, HMF1, that arose from the whole genome duplication
-S000029935	CDS					YIL051C		9	258280	257843	C		2011-02-03	1994-12-10	
-S000001312	ORF	Verified	YIL050W	PCL7		chromosome 9	L000004039	9	258913	259770	W		2011-02-03	1994-12-10	Pho85p cyclin of the Pho80p subfamily; forms a functional kinase complex with Pho85p which phosphorylates Mmr1p and is regulated by Pho81p; involved in glycogen metabolism, expression is cell-cycle regulated; PCL7 has a paralog, PCL6, that arose from the whole genome duplication
-S000029899	CDS					YIL050W		9	258913	259770	W		2011-02-03	1994-12-10	
-S000001311	ORF	Verified	YIL049W	DFG10	putative polyprenol reductase	chromosome 9	L000004073	9	260158	260919	W		2011-02-03	1994-12-10	Probable polyprenol reductase; catalyzes conversion of polyprenol to dolichol, the precursor for N-glycosylation; involved in filamentous growth; mutations in human homolog SRD5A3 confer CDG (Congenital Disorders of Glycosylation); human SRD5A3 can complement yeast null mutant
-S000030228	CDS					YIL049W		9	260158	260919	W		2011-02-03	1994-12-10	
-S000001310	ORF	Verified	YIL048W	NEO1	putative aminophospholipid-translocating P4-type ATPase NEO1	chromosome 9	L000004112	9	261437	264892	W		2011-02-03	1994-12-10	Phospholipid translocase (flippase), role in phospholipid asymmetry of plasma membrane; involved in endocytosis, vacuolar biogenesis and Golgi to ER vesicle-mediated transport; localizes to endosomes and the Golgi apparatus
-S000030109	CDS					YIL048W		9	261437	264892	W		2011-02-03	1994-12-10	
-S000028790	ORF	Dubious	YIL047C-A			chromosome 9		9	265467	265099	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF SYG1/YIL047C
-S000033549	CDS					YIL047C-A		9	265467	265099	C		2011-02-03	2003-07-29	
-S000001309	ORF	Verified	YIL047C	SYG1		chromosome 9	L000002256	9	267823	265115	C		2011-02-03	1994-12-10	Plasma membrane protein of unknown function; truncation and overexpression suppresses lethality of G-alpha protein deficiency
-S000036323	CDS					YIL047C		9	267823	265115	C		2011-02-03	1994-12-10	
-S000028836	ORF	Uncharacterized	YIL046W-A			chromosome 9		9	268309	268473	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034486	CDS					YIL046W-A		9	268309	268473	W		2011-02-03	2003-07-29	
-S000001308	ORF	Verified	YIL046W	MET30	ubiquitin-binding SDF ubiquitin ligase complex subunit MET30|ZRG11	chromosome 9	L000001093	9	268651	270573	W		2011-02-03	1994-12-10	F-box protein containing five copies of the WD40 motif; controls cell cycle function, sulfur metabolism, and methionine biosynthesis as part of the ubiquitin ligase complex; interacts with and regulates Met4p, localizes within the nucleus; dissociation of Met30p from SCF complex in response to cadmium stress is regulated by Cdc48p
-S000036284	CDS					YIL046W		9	268651	270573	W		2011-02-03	1994-12-10	
-S000001307	ORF	Verified	YIL045W	PIG2	putative protein phosphatase regulator PIG2	chromosome 9	L000001437	9	271161	272777	W		2011-02-03	1994-12-10	Putative type-1 protein phosphatase targeting subunit; tethers Glc7p type-1 protein phosphatase to Gsy2p glycogen synthase; PIG2 has a paralog, GIP2, that arose from the whole genome duplication
-S000036173	CDS					YIL045W		9	271161	272777	W		2011-02-03	1994-12-10	
-S000001306	ORF	Verified	YIL044C	AGE2	SAT2	chromosome 9	S000007503	9	273846	272950	C		2011-02-03	1994-12-10	ADP-ribosylation factor (ARF) GTPase activating protein (GAP) effector; involved in Trans-Golgi-Network (TGN) transport; contains C2C2H2 cysteine/histidine motif
-S000035184	CDS					YIL044C		9	273846	272950	C		2011-02-03	1994-12-10	
-S000001305	ORF	Verified	YIL043C	CBR1	CBR5	chromosome 9	L000000229	9	274926	274072	C		2011-02-03	1994-12-10|2006-01-23	Cytochrome b reductase; not essential for viability; also detected in mitochondria; mutation in conserved NADH binding domain of the human ortholog results in type I methemoglobinemia
-S000035022	CDS					YIL043C		9	274926	274072	C		2011-02-03	1994-12-10|2006-01-23	
-S000001304	ORF	Verified	YIL042C	PKP1	protein kinase PKP1	chromosome 9		9	276292	275108	C		2011-02-03	1994-12-10	Mitochondrial protein kinase; involved in negative regulation of pyruvate dehydrogenase complex activity by phosphorylating the ser-133 residue of the Pda1p subunit; acts in concert with kinase Pkp2p and phosphatases Ptc5p and Ptc6p
-S000034870	CDS					YIL042C		9	276292	275108	C		2011-02-03	1994-12-10	
-S000001303	ORF	Verified	YIL041W	GVP36		chromosome 9		9	276525	277505	W		2011-02-03	1994-12-10	BAR domain protein that localizes to early and late Golgi vesicles; required for adaptation to varying nutrient concentrations, fluid-phase endocytosis, polarization of the actin cytoskeleton, and vacuole biogenesis
-S000034047	CDS					YIL041W		9	276525	277505	W		2011-02-03	1994-12-10	
-S000001302	ORF	Verified	YIL040W	APQ12		chromosome 9		9	277723	278139	W		2011-02-03	1994-12-10	Nuclear envelope/ER integral membrane protein; interacts and functions with Brr6p and Brl1p in lipid homeostasis; mutants are defective in nuclear pore complex biogenesis, nuclear envelope morphology, mRNA export from the nucleus and are sensitive to sterol biosynthesis inhibitors and membrane fluidizing agents; exhibits synthetic lethal genetic interactions with genes involved in lipid metabolism
-S000033887	CDS					YIL040W		9	277723	278139	W		2011-02-03	1994-12-10	
-S000001301	ORF	Verified	YIL039W	TED1		chromosome 9		9	278426	279847	W		2011-02-03	1994-12-10	GPI-glycan remodelase; conserved phosphoesterase domain-containing protein; acts together with Emp24p/Erv25p in cargo exit from the ER; functional ortholog of mammalian GPI-glycan remodelase PGAP5; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
-S000035327	CDS					YIL039W		9	278426	279847	W		2011-02-03	1994-12-10	
-S000001300	ORF	Verified	YIL038C	NOT3	CCR4-NOT core subunit NOT3	chromosome 9	L000001265	9	282652	280142	C		2011-02-03	1994-12-10	Component of the CCR4-NOT core complex, involved in mRNA decapping; involved in transcription initiation and elongation and in mRNA degradation; conserved lysine in human homolog of Not3p and Not5p is mutated in cancers
-S000034315	CDS					YIL038C		9	282652	280142	C		2011-02-03	1994-12-10	
-S000001299	ORF	Verified	YIL037C	PRM2	pheromone-regulated protein PRM2	chromosome 9		9	284999	283029	C		2011-02-03	1994-12-10	Pheromone-regulated protein; predicted to have 4 transmembrane segments and a coiled coil domain; regulated by Ste12p; required for efficient nuclear fusion
-S000034252	CDS					YIL037C		9	284999	283029	C		2011-02-03	1994-12-10	
-S000001298	ORF	Verified	YIL036W	CST6	SHF1|ACA2	chromosome 9	L000002995	9	285666	287429	W		2011-02-03	1994-12-10	Basic leucine zipper (bZIP) transcription factor from ATF/CREB family involved in stress-responsive regulatory network; mediates transcriptional activation of NCE103 in response to low CO2 levels; proposed to be a regulator of oleate responsive genes; involved in utilization of non-optimal carbon sources and chromosome stability; relocalizes to the cytosol in response to hypoxia; CST6 has a paralog, ACA1, that arose from the whole genome duplication
-S000034215	CDS					YIL036W		9	285666	287429	W		2011-02-03	1994-12-10	
-S000001297	ORF	Verified	YIL035C	CKA1	casein kinase 2 catalytic subunit CKA1	chromosome 9	L000000343	9	288908	287790	C	-29	2011-02-03	1994-12-10	Alpha catalytic subunit of casein kinase 2 (CK2); a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerases; regulates Fkh1p-mediated donor preference during mating-type switching
-S000032136	CDS					YIL035C		9	288908	287790	C		2011-02-03	1994-12-10	
-S000001296	ORF	Verified	YIL034C	CAP2	F-actin-capping protein subunit beta	chromosome 9	L000000215	9	290089	289226	C	-28	2011-02-03	1994-12-10	Beta subunit of the capping protein heterodimer (Cap1p and Cap2p); capping protein (CP) binds to the barbed ends of actin filaments preventing further polymerization; localized predominantly to cortical actin patches; protein increases in abundance and relocalizes from bud neck to plasma membrane upon DNA replication stress
-S000032026	CDS					YIL034C		9	290089	289226	C		2011-02-03	1994-12-10	
-S000001295	ORF	Verified	YIL033C	BCY1	cAMP-dependent protein kinase regulatory subunit BCY1|SRA1	chromosome 9	L000002044	9	291669	290419	C	-28	2011-02-03	1994-12-10	Regulatory subunit of the cyclic AMP-dependent protein kinase (PKA); PKA is a component of a signaling pathway that controls a variety of cellular processes, including metabolism, cell cycle, stress response, stationary phase, and sporulation
-S000031897	CDS					YIL033C		9	291669	290419	C		2011-02-03	1994-12-10	
-S000001294	ORF	Dubious	YIL032C			chromosome 9		9	292317	291961	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030897	CDS					YIL032C		9	292317	291961	C		2011-02-03	1994-12-10	
-S000001293	ORF	Verified	YIL031W	ULP2	SUMO protease ULP2|SMT4	chromosome 9	L000001939	9	292633	295737	W		2011-02-03	1994-12-10	Peptidase that deconjugates Smt3/SUMO-1 peptides from proteins; plays a role in chromosome cohesion at centromeric regions and recovery from checkpoint arrest induced by DNA damage or DNA replication defects; potential Cdc28p substrate; human homolog PML implicated in promyelocytic leukemia can partially complement yeast null mutant
-S000030862	CDS					YIL031W		9	292633	295737	W		2011-02-03	1994-12-10	
-S000028789	ORF	Dubious	YIL030W-A			chromosome 9		9	295565	295903	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF ULP2/YIL031W
-S000033536	CDS					YIL030W-A		9	295565	295903	W		2011-02-03	2003-07-29	
-S000028788	ORF	Dubious	YIL029W-A			chromosome 9		9	299735	300106	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF SSM4/YIL030C
-S000033533	CDS					YIL029W-A		9	299735	300106	W		2011-02-03	2003-07-29	
-S000001292	ORF	Verified	YIL030C	SSM4	E3 ubiquitin-protein ligase SSM4|KIS3|DOA10	chromosome 9	L000002087	9	300009	296050	C		2011-02-03	1994-12-10	Membrane-embedded ubiquitin-protein ligase; ER and inner nuclear membrane localized RING-CH domain E3 ligase involved in ER-associated protein degradation (ERAD); targets misfolded cytosolic/nucleoplasmic domains of soluble and membrane embedded proteins (ERAD-C) and a transmembrane domain containing substrate (ERAD-M), Sbh2p; C-terminal element (CTE), conserved in human ortholog MARCH10/TEB4, determines substrate selectivity
-S000030668	CDS					YIL030C		9	300009	296050	C		2011-02-03	1994-12-10	
-S000006624	tRNA_gene		tK(CUU)I			chromosome 9	L000003874	9	300300	300228	C		2011-02-03	1994-12-10|2011-02-03	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
-S000036023	noncoding_exon					tK(CUU)I		9	300300	300228	C		2011-02-03	1994-12-10|2011-02-03	
-S000007013	long_terminal_repeat		YILCdelta3			chromosome 9		9	300727	300409	C		2011-02-03	1994-12-10	Ty1 LTR
-S000001291	ORF	Uncharacterized	YIL029C			chromosome 9		9	301257	300829	C		2011-02-03	1994-12-10	Putative protein of unknown function; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO); YIL029C has a paralog, YPR071W, that arose from a single-locus duplication
-S000031121	CDS					YIL029C		9	301257	300829	C		2011-02-03	1994-12-10	
-S000001290	ORF	Dubious	YIL028W			chromosome 9		9	302100	302498	W		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000031076	CDS					YIL028W		9	302100	302498	W		2011-02-03	1994-12-10	
-S000001289	ORF	Verified	YIL027C	EMC5	KRE27	chromosome 9		9	304104	303679	C		2011-02-03	1994-12-10	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response, and also shows K1 killer toxin resistance; homologous to worm B0334.15/EMC-5, fly CG15168, human MMGT
-S000030935	CDS					YIL027C		9	304104	303679	C		2011-02-03	1994-12-10	
-S000001288	ORF	Verified	YIL026C	IRR1	SCC3	chromosome 9	L000003590	9	307929	304477	C		2011-02-03	1994-12-10	Subunit of the cohesin complex; which is required for sister chromatid cohesion during mitosis and meiosis and interacts with centromeres and chromosome arms; relocalizes to the cytosol in response to hypoxia; essential for viability
-S000029925	CDS					YIL026C		9	307929	304477	C		2011-02-03	1994-12-10	
-S000001287	ORF	Dubious	YIL025C			chromosome 9		9	308575	308201	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000029834	CDS					YIL025C		9	308575	308201	C		2011-02-03	1994-12-10	
-S000001286	ORF	Uncharacterized	YIL024C			chromosome 9		9	309171	308602	C		2011-02-03	1994-12-10	Putative protein of unknown function; non-essential gene; expression directly regulated by the metabolic and meiotic transcriptional regulator Ume6p
-S000037819	CDS					YIL024C		9	309171	308602	C		2011-02-03	1994-12-10	
-S000001285	ORF	Verified	YIL023C	YKE4	Zn(2+) transporter YKE4	chromosome 9		9	310426	309386	C		2011-02-03	1994-12-10	Zinc transporter; localizes to the ER; null mutant is sensitive to calcofluor white, leads to zinc accumulation in cytosol; ortholog of the mouse KE4 and member of the ZIP (ZRT, IRT-like Protein) family
-S000035957	CDS					YIL023C		9	310426	309386	C		2011-02-03	1994-12-10	
-S000001284	ORF	Verified	YIL022W	TIM44	protein translocase subunit TIM44|MPI1|MIM44|ISP45	chromosome 9	L000001138	9	311165	312460	W		2011-02-03	1994-12-10	Essential component of the TIM23 complex; tethers the import motor and regulatory factors (PAM complex) to the translocation channel (Tim23p-Tim17p core complex); TIM23 complex is short for the translocase of the inner mitochondrial membrane
-S000035916	CDS					YIL022W		9	311165	312460	W		2011-02-03	1994-12-10	
-S000001283	ORF	Verified	YIL021W	RPB3	DNA-directed RNA polymerase II core subunit RPB3|B44	chromosome 9	L000001677|L000001589	9	312905	313861	W	-17	2011-02-03	1994-12-10	RNA polymerase II third largest subunit B44; part of central core; similar to prokaryotic alpha subunit
-S000035800	CDS					YIL021W		9	312905	313861	W		2011-02-03	1994-12-10	
-S000028656	ORF	Dubious	YIL021C-A			chromosome 9		9	313468	313199	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene RPB3/YIL021W; identified by gene-trapping, expression analysis, and genome-wide homology searching
-S000032459	CDS					YIL021C-A		9	313468	313199	C		2011-02-03	2003-07-29	
-S000130160	ARS		ARS918			chromosome 9		9	313861	314035			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000028787	ORF	Dubious	YIL020C-A			chromosome 9		9	314051	313713	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps origin of replication ARS918, partially overlaps ORF RPB3/YIL021W
-S000033532	CDS					YIL020C-A		9	314051	313713	C		2011-02-03	2003-07-29	
-S000001282	ORF	Verified	YIL020C	HIS6	1-(5-phosphoribosyl)-5- ((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase HIS6	chromosome 9	L000000783	9	314820	314035	C	-17	2011-02-03	1994-12-10	Enzyme that catalyzes the fourth step in the histidine pathway; Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts
-S000034720	CDS					YIL020C		9	314820	314035	C		2011-02-03	1994-12-10	
-S000001281	ORF	Verified	YIL019W	FAF1		chromosome 9		9	315093	316133	W		2011-02-03	1994-12-10	Protein required for pre-rRNA processing; also required for 40S ribosomal subunit assembly
-S000036117	CDS					YIL019W		9	315093	316133	W		2011-02-03	1994-12-10	
-S000001280	ORF	Verified	YIL018W	RPL2B	uL2|ribosomal 60S subunit protein L2B|L2|rp8|YL6|L5B|L2B|LOT2|RPL5A	chromosome 9	L000001707	9	316768	317932	W		2011-02-03	1994-12-10	Ribosomal 60S subunit protein L2B; homologous to mammalian ribosomal protein L2 and bacterial L2; RPL2B has a paralog, RPL2A, that arose from the whole genome duplication; expression is upregulated at low temperatures
-S000036024	CDS					YIL018W		9	316768	316771	W		2011-02-03	1994-12-10	
-S000036025	CDS					YIL018W		9	317172	317932	W		2011-02-03	1994-12-10	
-S000036026	intron					YIL018W		9	316772	317171	W		2011-02-03	1994-12-10	
-S000001279	ORF	Verified	YIL017C	VID28	glucose-induced degradation complex subunit VID28|YIL017W|GID5	chromosome 9		9	320965	318200	C		2011-02-03	1994-12-10	GID Complex subunit, serves as adaptor for regulatory subunit Vid24p; protein involved in proteasome-dependent catabolite degradation of fructose-1,6-bisphosphatase (FBPase); localized to the nucleus and the cytoplasm
-S000035053	CDS					YIL017C		9	320965	318200	C		2011-02-03	1994-12-10	
-S000001278	ORF	Verified	YIL016W	SNL1		chromosome 9	L000004403	9	321454	321933	W		2011-02-03	1994-12-10	Ribosome-associated protein; proposed to act in protein synthesis and nuclear pore complex biogenesis and maintenance as well as protein folding; has similarity to the mammalian BAG-1 protein
-S000035003	CDS					YIL016W		9	321454	321933	W		2011-02-03	1994-12-10	
-S000001277	ORF	Verified	YIL015W	BAR1	aspartyl protease BAR1|SST1	chromosome 9	L000000160	9	322342	324105	W	-12	2011-02-03	1994-12-10	Aspartyl protease; secreted into the periplasmic space of mating type a cell; helps cells find mating partners; cleaves and inactivates alpha factor allowing cells to recover from alpha-factor-induced cell cycle arrest
-S000034859	CDS					YIL015W		9	322342	324105	W		2011-02-03	1994-12-10	
-S000006534	tRNA_gene		tD(GUC)I1			chromosome 9	L000003873	9	324374	324303	C		2011-02-03	1994-12-10	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000030656	noncoding_exon					tD(GUC)I1		9	324374	324303	C		2011-02-03	1994-12-10	
-S000007019	long_terminal_repeat		YILWsigma3			chromosome 9		9	324391	324734	W		2011-02-03	1994-12-10	Ty3 LTR
-S000007016	long_terminal_repeat		YILWdelta4			chromosome 9		9	324831	325164	W		2011-02-03	1994-12-10	Ty1 LTR
-S000003536	ORF	Uncharacterized	YIL014C-A		YIL015C-A	chromosome 9		9	325526	325212	C		2011-02-03	1994-12-10	Putative protein of unknown function
-S000035773	CDS					YIL014C-A		9	325526	325212	C		2011-02-03	1994-12-10	
-S000006742	tRNA_gene		tT(AGU)I2			chromosome 9	L000003870	9	325748	325820	W		2011-02-03	1994-12-10	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
-S000036347	noncoding_exon					tT(AGU)I2		9	325748	325820	W		2011-02-03	1994-12-10	
-S000001276	ORF	Verified	YIL014W	MNT3	alpha-1,3-mannosyltransferase MNT3	chromosome 9		9	326103	327995	W		2011-02-03	1994-12-10	Alpha-1,3-mannosyltransferase; adds the fourth and fifth alpha-1,3-linked mannose residues to O-linked glycans during protein O-glycosylation
-S000033990	CDS					YIL014W		9	326103	327995	W		2011-02-03	1994-12-10	
-S000001275	ORF	Verified	YIL013C	PDR11	ATP-binding cassette multidrug transporter PDR11	chromosome 9	L000003163	9	332442	328207	C		2011-02-03	1994-12-10	ATP-binding cassette (ABC) transporter; multidrug transporter involved in multiple drug resistance; mediates sterol uptake when sterol biosynthesis is compromised; regulated by Pdr1p; required for anaerobic growth; PDR11 has a paralog, AUS1, that arose from the whole genome duplication
-S000033824	CDS					YIL013C		9	332442	328207	C		2011-02-03	1994-12-10	
-S000001274	ORF	Dubious	YIL012W			chromosome 9		9	333011	333352	W		2011-02-03	1994-12-10|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033748	CDS					YIL012W		9	333011	333352	W		2011-02-03	1994-12-10|2011-02-03	
-S000001273	ORF	Verified	YIL011W	TIR3	YIB1	chromosome 9		9	333727	334536	W		2011-02-03	1994-12-10	Cell wall mannoprotein; member of Srp1p/Tip1p family of serine-alanine-rich proteins; expressed under anaerobic conditions and required for anaerobic growth; TIR3 has a paralog, TIR2, that arose from the whole genome duplication
-S000033633	CDS					YIL011W		9	333727	334536	W		2011-02-03	1994-12-10	
-S000001272	ORF	Verified	YIL010W	DOT5	thioredoxin peroxidase DOT5	chromosome 9	L000004392	9	334882	335529	W		2011-02-03	1994-12-10	Nuclear thiol peroxidase; functions as an alkyl-hydroperoxide reductase during post-diauxic growth
-S000030341	CDS					YIL010W		9	334882	335529	W		2011-02-03	1994-12-10	
-S000006432	ORF	Verified	YIL009C-A	EST3	telomerase subunit EST3	chromosome 9	L000004271	9	336212	335666	C		2011-02-03	1997-10-20	Component of the telomerase holoenzyme; involved in telomere replication; synthesis of the full-length protein results from a programmed +1 ribosomal frameshift
-S000031928	CDS					YIL009C-A		9	335935	335666	C		2011-02-03	1997-10-20	
-S000031927	CDS					YIL009C-A		9	336212	335937	C		2011-02-03	1997-10-20	
-S000031929	plus_1_translational_frameshift					YIL009C-A		9	335936	335936	C		2011-02-03	1997-10-20	
-S000006535	tRNA_gene		tD(GUC)I2			chromosome 9	L000003872	9	336420	336349	C		2011-02-03	1994-12-10	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
-S000030659	noncoding_exon					tD(GUC)I2		9	336420	336349	C		2011-02-03	1994-12-10	
-S000007014	long_terminal_repeat		YILCdelta5			chromosome 9		9	336897	336708	C		2011-02-03	1994-12-10	Ty1 LTR
-S000001271	ORF	Verified	YIL009W	FAA3	long-chain fatty acid-CoA ligase FAA3	chromosome 9	L000000596	9	339344	341428	W		2011-02-03	1994-12-10	Long chain fatty acyl-CoA synthetase; activates imported fatty acids with a preference for C16:0-C18:0 chain lengths; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery
-S000030759	CDS					YIL009W		9	339344	341428	W		2011-02-03	1994-12-10	
-S000118398	ARS		ARS919		ARSIX-342	chromosome 9		9	341976	342045			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000001270	ORF	Verified	YIL008W	URM1	ubiquitin-related modifier URM1	chromosome 9	S000007535	9	342536	342835	W		2011-02-03	1994-12-10	Ubiquitin-like protein involved in thiolation of cytoplasmic tRNAs; receives sulfur from the E1-like enzyme Uba4p and transfers it to tRNA; also functions as a protein tag with roles in nutrient sensing and oxidative stress response
-S000030686	CDS					YIL008W		9	342536	342835	W		2011-02-03	1994-12-10	
-S000001269	ORF	Verified	YIL007C	NAS2		chromosome 9		9	343656	342994	C		2011-02-03	1994-12-10	Evolutionarily conserved 19S regulatory particle assembly-chaperone; involved in assembly of the base subcomplex of the 19S proteasomal regulatory particle (RP); non-essential gene; interacts with Rpn4p; protein abundance increases in response to DNA replication stress; ortholog of human p27
-S000030556	CDS					YIL007C		9	343656	342994	C		2011-02-03	1994-12-10	
-S000001268	ORF	Verified	YIL006W	YIA6	NAD+ transporter|NDT1	chromosome 9		9	344062	345183	W		2011-02-03	1994-12-10	Mitochondrial NAD+ transporter; involved in the transport of NAD+ into the mitochondria (see also YEA6); member of the mitochondrial carrier subfamily; disputed role as a pyruvate transporter; has putative mouse and human orthologs; YIA6 has a paralog, YEA6, that arose from the whole genome duplication
-S000030529	CDS					YIL006W		9	344062	345183	W		2011-02-03	1994-12-10	
-S000001267	ORF	Verified	YIL005W	EPS1	protein disulfide isomerase EPS1	chromosome 9		9	345692	347797	W		2011-02-03	1994-12-10	ER protein with chaperone and co-chaperone activity; involved in retention of resident ER proteins; has a role in recognizing proteins targeted for ER-associated degradation (ERAD), member of the protein disulfide isomerase family
-S000030455	CDS					YIL005W		9	345692	347797	W		2011-02-03	1994-12-10	
-S000001266	ORF	Verified	YIL004C	BET1	SLY12	chromosome 9	L000000171	9	348505	347946	C		2011-02-03	1994-12-10	Type II membrane protein required for vesicular transport; required for vesicular transport between the endoplasmic reticulum and Golgi complex; v-SNARE with similarity to synaptobrevins
-S000037580	CDS					YIL004C		9	348363	347946	C		2011-02-03	1994-12-10	
-S000037579	CDS					YIL004C		9	348505	348495	C		2011-02-03	1994-12-10	
-S000037581	intron					YIL004C		9	348494	348364	C		2011-02-03	1994-12-10	
-S000001265	ORF	Verified	YIL003W	CFD1	iron-sulfur cluster assembly protein CFD1|DRE3	chromosome 9		9	349122	350003	W		2011-02-03	1994-12-10	Highly conserved iron-sulfur cluster binding protein; localized in the cytoplasm; forms a complex with Nbp35p that is involved in iron-sulfur protein assembly in the cytosol
-S000037556	CDS					YIL003W		9	349122	350003	W		2011-02-03	1994-12-10	
-S000028835	ORF	Uncharacterized	YIL002W-A			chromosome 9		9	350301	350510	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034485	CDS					YIL002W-A		9	350301	350510	W		2011-02-03	2003-07-29	
-S000001264	ORF	Verified	YIL002C	INP51	phosphoinositide 5-phosphatase INP51|SJL1	chromosome 9	L000003319	9	353431	350591	C		2011-02-03	1994-12-10	Phosphatidylinositol 4,5-bisphosphate 5-phosphatase; synaptojanin-like protein with an N-terminal Sac1 domain, plays a role in phosphatidylinositol 4,5-bisphosphate homeostasis and in endocytosis; null mutation confers cold-tolerant growth
-S000032035	CDS					YIL002C		9	353431	350591	C		2011-02-03	1994-12-10	
-S000001263	ORF	Uncharacterized	YIL001W			chromosome 9		9	353940	355481	W		2011-02-03	1994-12-10	Putative protein of unknown function; contains a BTB/POZ domain which generally function in protein interactions; deletion slightly improved competitive fitness in rich media; GFP-tagged protein is localized to the cytoplasm
-S000031993	CDS					YIL001W		9	353940	355481	W		2011-02-03	1994-12-10	
-S000006470	centromere		CEN9	CEN9		chromosome 9	L000000302	9	355629	355745	W	0	2011-02-03	1994-12-10|2006-05-09	Chromosome IX centromere
-S000077275	centromere_DNA_Element_I					CEN9		9	355629	355638	W		2011-02-03	2004-10-05	
-S000077276	centromere_DNA_Element_II					CEN9		9	355639	355720	W		2011-02-03	2004-10-05	
-S000077277	centromere_DNA_Element_III					CEN9		9	355721	355745	W		2011-02-03	2004-10-05	
-S000001440	ORF	Verified	YIR001C	SGN1	RBP29|RBP1	chromosome 9		9	356895	356143	C		2011-02-03	1994-12-10	Cytoplasmic RNA-binding protein; contains an RNA recognition motif (RRM); may have a role in mRNA translation, as suggested by genetic interactions with genes encoding proteins involved in translational initiation
-S000032594	CDS					YIR001C		9	356895	356143	C		2011-02-03	1994-12-10	
-S000118399	ARS		ARS920		ARSIX-357	chromosome 9		9	357160	357396			2011-02-03	2006-08-30	Autonomously Replicating Sequence
-S000178117	ARS_consensus_sequence					ARS920		9	357222	357238	W		2014-11-18	2014-11-18	
-S000001441	ORF	Verified	YIR002C	MPH1	3'-5' DNA helicase	chromosome 9		9	360396	357415	C		2011-02-03	1994-12-10	3'-5' DNA helicase involved in error-free bypass of DNA lesions; binds flap DNA, stimulates activity of Rad27p and Dna2p; prevents crossovers between ectopic sequences by removing substrates for Mus81-Mms4 or Rad1-Rad10 cleavage; homolog of human FANCM Fanconi anemia protein that is involved in stabilizing and remodeling blocked replication forks; member of SF2 DExD/H superfamily of helicases; nonsense or missense mutations in FANCM can make people more likely to get cancer
-S000032716	CDS					YIR002C		9	360396	357415	C		2011-02-03	1994-12-10	
-S000001442	ORF	Verified	YIR003W	AIM21		chromosome 9		9	360885	362924	W		2011-02-03	1994-12-10	Protein of unknown function; involved in mitochondrial migration along actin filament; may interact with ribosomes; GFP-fusion protein colocalizes with Sac1p to the actin cytoskeleton
-S000032876	CDS					YIR003W		9	360885	362924	W		2011-02-03	1994-12-10	
-S000130161	ARS		ARS921			chromosome 9		9	362924	363221			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
-S000001443	ORF	Verified	YIR004W	DJP1	PAS22|ICS1	chromosome 9	L000003966	9	363221	364519	W		2011-02-03	1994-12-10	Cytosolic J-domain-containing protein; required for peroxisomal protein import and involved in peroxisome assembly; facilitates import of Mim1p and Mim2p into the mitochondrial outer membrane; homologous to E. coli DnaJ
-S000033586	CDS					YIR004W		9	363221	364519	W		2011-02-03	1994-12-10	
-S000001444	ORF	Verified	YIR005W	IST3	U2 snRNP complex subunit IST3|SNU17	chromosome 9		9	364889	365335	W		2011-02-03	1994-12-10	Component of the U2 snRNP; required for the first catalytic step of splicing and for spliceosomal assembly; interacts with Rds3p and is required for Mer1p-activated splicing; diploid mutants have a specific defect in MATa1 pre-mRNA splicing which leads to haploid gene expression in diploids
-S000033658	CDS					YIR005W		9	364889	365335	W		2011-02-03	1994-12-10	
-S000001445	ORF	Verified	YIR006C	PAN1	DIM2|MIP3|MDP3	chromosome 9	L000001335	9	369908	365466	C		2011-02-03	1994-12-10	Part of actin cytoskeleton-regulatory complex Pan1p-Sla1p-End3p; associates with actin patches on cell cortex; promotes protein-protein interactions essential for endocytosis; binds to and activates Arp2/3 complex in vitro; phosphorylation of Thr-1225 is regulated by MAPK Hog1p in response to osmotic stress; previously thought to be a subunit of poly(A) ribonuclease
-S000033724	CDS					YIR006C		9	369908	365466	C		2011-02-03	1994-12-10	
-S000006556	tRNA_gene		tE(UUC)I			chromosome 9	L000003871	9	370417	370488	W		2011-02-03	1994-12-10	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
-S000035987	noncoding_exon					tE(UUC)I		9	370417	370488	W		2011-02-03	1994-12-10	
-S000001446	ORF	Verified	YIR007W	EGH1	hydrolase	chromosome 9		9	370704	372998	W		2011-02-03	1994-12-10	Steryl-beta-glucosidase with broad specificity for aglycones; has a role in ergosteryl-beta-glucoside catabolism; required for normal vacuolar morphology; has similarity to the C. neoformans ergosteryl-beta-glucosidase EGCrP2; localizes to the cytosol
-S000034669	CDS					YIR007W		9	370704	372998	W		2011-02-03	1994-12-10	
-S000001447	ORF	Verified	YIR008C	PRI1	DNA primase subunit PRI1	chromosome 9	L000001489	9	374306	373077	C		2011-02-03	1994-12-10	Subunit of DNA primase; DNA primase is required for DNA synthesis and double-strand break repair
-S000034753	CDS					YIR008C		9	374306	373077	C		2011-02-03	1994-12-10	
-S000001448	ORF	Verified	YIR009W	MSL1	U2 snRNP complex subunit MSL1|YIB9|YIB9w	chromosome 9	L000004502	9	374525	374860	W		2011-02-03	1994-12-10	U2B component of U2 snRNP; involved in splicing, binds the U2 snRNA stem-loop IV in vitro but requires association of Lea1p for in vivo binding; does not contain the conserved C-terminal RNA binding domain found in other family members
-S000034977	CDS					YIR009W		9	374525	374860	W		2011-02-03	1994-12-10	
-S000001449	ORF	Verified	YIR010W	DSN1	MIND complex subunit DSN1	chromosome 9	L000004645	9	375431	377161	W		2011-02-03	1994-12-10	Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; Dsn1p phosphorylation promotes interaction between outer and inner kinetochore proteins; kinetochore receptor for monopolin, via interaction with subunit Csm1p; essential for meiotic but not mitotic chromosome segregation; MIND complex consists of Mtw1p, Nnf1p, Nsl1p and Dsn1p; modified by sumoylation; phosphorylated by monopolin subunit Hrr25p
-S000035994	CDS					YIR010W		9	375431	377161	W		2011-02-03	1994-12-10	
-S000001450	ORF	Verified	YIR011C	STS1	SSM5|DBF8	chromosome 9	L000000489	9	378246	377287	C		2011-02-03	1994-12-10	Protein required for localizing proteasomes to the nucleus; involved in cotranslational protein degradation; mediates interaction between nuclear import factor Srp1p and the proteasome; Sts1p and Srp1p couple proteasomes to nascent polypeptides emerging from the ribosome for cotranslational degradation; involved in ubiquitin-mediated protein degradation
-S000036807	CDS					YIR011C		9	378246	377287	C		2011-02-03	1994-12-10	
-S000001451	ORF	Verified	YIR012W	SQT1		chromosome 9	L000003431	9	378486	379781	W		2011-02-03	1994-12-10	Specific chaperone for ribosomal protein Rpl10p; binds nascent Rpl10p during translation; contains multiple WD repeats; interacts with Qsr1p in a two-hybrid assay; protein abundance increases in response to DNA replication stress
-S000036906	CDS					YIR012W		9	378486	379781	W		2011-02-03	1994-12-10	
-S000001452	ORF	Verified	YIR013C	GAT4		chromosome 9	S000007452	9	380384	380019	C		2011-02-03	1994-12-10	Protein containing GATA family zinc finger motifs; involved in spore wall assembly; sequence similarity to GAT3, and the double mutant gat3 gat4 exhibits reduced dityrosine fluorescence relative to the single mutants
-S000036935	CDS					YIR013C		9	380384	380019	C		2011-02-03	1994-12-10	
-S000001453	ORF	Uncharacterized	YIR014W			chromosome 9		9	381086	381814	W		2011-02-03	2003-09-22|1994-12-10	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; expression directly regulated by the metabolic and meiotic transcriptional regulator Ume6p; YIR014W is a non-essential gene
-S000037725	CDS					YIR014W		9	381086	381814	W		2011-02-03	2003-09-22|1994-12-10	
-S000001454	ORF	Verified	YIR015W	RPR2	ribonuclease P protein subunit RPR2	chromosome 9	L000004310	9	381948	382382	W		2011-02-03	1994-12-10	Subunit of nuclear RNase P; nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; not shared between RNase MRP and RNase P, in contrast to all other RNase P protein subunits; protein abundance increases in response to DNA replication stress
-S000037806	CDS					YIR015W		9	381948	382382	W		2011-02-03	1994-12-10	
-S000001455	ORF	Uncharacterized	YIR016W			chromosome 9		9	382628	383425	W		2011-02-03	1994-12-10	Putative protein of unknown function; expression directly regulated by the metabolic and meiotic transcriptional regulator Ume6p; overexpression causes a cell cycle delay or arrest; non-essential gene; YIR016W has a paralog, YOL036W, that arose from the whole genome duplication
-S000037904	CDS					YIR016W		9	382628	383425	W		2011-02-03	1994-12-10	
-S000028799	ORF	Dubious	YIR017W-A			chromosome 9		9	383566	384165	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000033566	CDS					YIR017W-A		9	383566	384165	W		2011-02-03	2003-07-29	
-S000001456	ORF	Verified	YIR017C	MET28		chromosome 9	L000001092	9	384119	383556	C		2011-02-03	1994-12-10	bZIP transcriptional activator in the Cbf1p-Met4p-Met28p complex; participates in the regulation of sulfur metabolism
-S000030791	CDS					YIR017C		9	384119	383556	C		2011-02-03	1994-12-10	
-S000001457	ORF	Verified	YIR018W	YAP5		chromosome 9	L000004343	9	384609	385346	W		2011-02-03	1994-12-10	Basic leucine zipper (bZIP) iron-sensing transcription factor; involved in diauxic shift; YAP5 has a paralog, YAP7, that arose from the whole genome duplication
-S000030914	CDS					YIR018W		9	384609	385346	W		2011-02-03	1994-12-10	
-S000028837	ORF	Uncharacterized	YIR018C-A			chromosome 9		9	385701	385564	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034488	CDS					YIR018C-A		9	385701	385564	C		2011-02-03	2003-07-29	
-S000001458	ORF	Verified	YIR019C	FLO11	MUC1|STA4	chromosome 9	L000002104	9	393675	389572	C		2011-02-03	1994-12-10	GPI-anchored cell surface glycoprotein (flocculin); required for pseudohyphal and invasive growth, flocculation, and biofilm formation; major determinant of colony morphology; transcription regulated by the MAPK pathway (Ste12p and Tec1p) and the cAMP pathway (Flo8p); required for formation of fibrous interconnections between cells of a wild strain; role in co-flocculation with other yeast species; cleaved and shed from cells, contributing to their surface properties
-S000030936	CDS					YIR019C		9	393675	389572	C		2011-02-03	1994-12-10	
-S000001459	ORF	Uncharacterized	YIR020C			chromosome 9		9	394557	394255	C		2011-02-03	1994-12-10	Protein of unknown function; mRNA identified as translated by ribosome profiling data; SWAT-GFP fusion protein localizes to the endoplasmic reticulum
-S000032045	CDS					YIR020C		9	394557	394255	C		2011-02-03	1994-12-10	
-S000007241	ORF	Dubious	YIR020W-A		YIR020W-B	chromosome 9		9	394917	395159	W		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000034820	CDS					YIR020W-A		9	394917	395159	W		2011-02-03	1999-07-17	
-S000132614	ncRNA_gene		PWR1	PWR1		chromosome 9		9	395999	396939	W		2011-02-03	2010-01-05	Intergenic regulatory ncRNA; one of two long ncRNAs that play key roles in regulating transcription of the nearby protein-coding ORF FLO11; PWR1 promotes FLO11 transcription by interfering with ncRNA ICR1, which is transcribed across the FLO11 promoter
-S000132615	noncoding_exon					PWR1		9	395999	396939	W		2011-02-03	2010-01-05	
-S000132612	ncRNA_gene		ICR1	ICR1		chromosome 9		9	397082	393884	C		2011-02-03	2010-01-05	Long intergenic regulatory ncRNA; has a key role in regulating transcription of the nearby protein-coding ORF FLO11; initiated far upstream from FLO11 and transcribed across much of the large promoter of FLO11, repressing FLO11 transcription in cis
-S000132613	noncoding_exon					ICR1		9	397082	393884	C		2011-02-03	2010-01-05	
-S000001460	ORF	Verified	YIR021W	MRS1	PET157	chromosome 9		9	397294	398385	W		2011-02-03	1994-12-10	Splicing protein; required for splicing of two mitochondrial group I introns (BI3 in COB and AI5beta in COX1); forms a splicing complex, containing four subunits of Mrs1p and two subunits of the BI3-encoded maturase, that binds to the BI3 RNA; MRS1 has a paralog, CCE1, that arose from the whole genome duplication
-S000032999	CDS					YIR021W		9	397294	398385	W		2011-02-03	1994-12-10	
-S000028800	ORF	Dubious	YIR020C-B			chromosome 9		9	397949	397215	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF MRS1
-S000033580	CDS					YIR020C-B		9	397949	397215	C		2011-02-03	2003-07-29	
-S000028838	ORF	Uncharacterized	YIR021W-A			chromosome 9		9	398514	398726	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
-S000034490	CDS					YIR021W-A		9	398514	398726	W		2011-02-03	2003-07-29	
-S000001461	ORF	Verified	YIR022W	SEC11	signal peptidase complex catalytic subunit SEC11	chromosome 9	L000001836	9	398733	399236	W	22	2011-02-03	1994-12-10	18kDa catalytic subunit of the Signal Peptidase Complex (SPC); the Signal Peptidase Complex cleaves the signal sequence of proteins targeted to the endoplasmic reticulum; other members are Spc1p, Spc2p, Spc3p, and Sec11p
-S000033111	CDS					YIR022W		9	398733	399236	W		2011-02-03	1994-12-10	
-S000001462	ORF	Verified	YIR023W	DAL81	DURL|UGA35	chromosome 9	L000000481	9	399777	402689	W	22	2011-02-03	1994-12-10	Positive regulator of genes in multiple nitrogen degradation pathways; contains DNA binding domain but does not appear to bind the dodecanucleotide sequence present in the promoter region of many genes involved in allantoin catabolism
-S000033187	CDS					YIR023W		9	399777	402689	W		2011-02-03	1994-12-10	
-S000028801	ORF	Dubious	YIR023C-A			chromosome 9		9	402706	402383	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF DAL81/YIR023W
-S000033581	CDS					YIR023C-A		9	402706	402383	C		2011-02-03	2003-07-29	
-S000001463	ORF	Verified	YIR024C	INA22	GIF1	chromosome 9	L000004438	9	403491	402841	C		2011-02-03	1994-12-10	F1F0 ATP synthase peripheral stalk assembly factor; subunit of the matrix-exposed inner mitochondrial membrane localized INA complex (Ina22p-Ina17p) involved in assembly of the F1F0 peripheral stalk; co-purifies with Aim43p, ATP synthase subunits, and cytochrome bc1 complex assembly factors; interacts with Arh1p, a mitochondrial oxidoreductase; deletion mutant has a respiratory growth defect
-S000033910	CDS					YIR024C		9	403491	402841	C		2011-02-03	1994-12-10	
-S000001464	ORF	Verified	YIR025W	MND2		chromosome 9		9	403659	404765	W		2011-02-03	1994-12-10	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); necessary for maintaining sister chromatid cohesion in prophase I of meiosis by inhibiting premature ubiquitination and subsequent degradation of substrates by the APC(Ama1) ubiquitin ligase
-S000034094	CDS					YIR025W		9	403659	404765	W		2011-02-03	1994-12-10	
-S000001465	ORF	Verified	YIR026C	YVH1	tyrosine protein phosphatase YVH1	chromosome 9	L000002567	9	405967	404873	C	31	2011-02-03	1994-12-10	Dual specificity protein phosphatase; regulates growth, sporulation, and glycogen accumulation in a cAMP-dependent protein kinase cascade dependent manner; mutants are defective in 60S ribosome assembly; positively regulates pre-autophagosomal structure (PAS) formation upon nitrogen starvation or rapamycin treatment
-S000034138	CDS					YIR026C		9	405967	404873	C		2011-02-03	1994-12-10	
-S000001466	ORF	Verified	YIR027C	DAL1	allantoinase	chromosome 9	L000000474	9	407642	406260	C	32.1	2011-02-03	1994-12-10	Allantoinase; converts allantoin to allantoate in the first step of allantoin degradation; expression sensitive to nitrogen catabolite repression
-S000034253	CDS					YIR027C		9	407642	406260	C		2011-02-03	1994-12-10	
-S000001467	ORF	Verified	YIR028W	DAL4	allantoin permease	chromosome 9	L000000477	9	408468	410375	W	34	2011-02-03	1994-12-10	Allantoin permease; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation
-S000035258	CDS					YIR028W		9	408468	410375	W		2011-02-03	1994-12-10	
-S000001468	ORF	Verified	YIR029W	DAL2	allantoicase|ALC1	chromosome 9	L000000475	9	410807	411838	W	36.1	2011-02-03	1994-12-10	Allantoicase; converts allantoate to urea and ureidoglycolate in the second step of allantoin degradation; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation
-S000035347	CDS					YIR029W		9	410807	411838	W		2011-02-03	1994-12-10	
-S000118400	ARS		ARS922		ARSIX-412	chromosome 9		9	411935	412011			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
-S000178118	ARS_consensus_sequence					ARS922		9	412001	411985	C		2014-11-18	2014-11-18	
-S000001469	ORF	Verified	YIR030C	DCG1		chromosome 9	L000000497	9	412770	412036	C	36.4	2011-02-03	1994-12-10	Protein of unknown function; expression is sensitive to nitrogen catabolite repression and regulated by Dal80p; contains transmembrane domain
-S000036237	CDS					YIR030C		9	412770	412036	C		2011-02-03	1994-12-10	
-S000028802	ORF	Dubious	YIR030W-A			chromosome 9		9	412899	413282	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF DAL7/YIR031C
-S000033582	CDS					YIR030W-A		9	412899	413282	W		2011-02-03	2003-07-29	
-S000001470	ORF	Verified	YIR031C	DAL7	malate synthase DAL7|MSL2|MLS2	chromosome 9	L000000479	9	414679	413015	C	36.9	2011-02-03	1994-12-10	Malate synthase; can accept butyryl-CoA as acyl-CoA donor in addition to traditional substrate acetyl-CoA; recycles glyoxylate generated during allantoin degradation; SWAT-GFP and mCherry fusion proteins localize to the cytosol; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation
-S000031686	CDS					YIR031C		9	414679	413015	C		2011-02-03	1994-12-10	
-S000001471	ORF	Verified	YIR032C	DAL3	ureidoglycolate hydrolase	chromosome 9	L000000476	9	415617	415030	C	37	2011-02-03	1994-12-10	Ureidoglycolate lyase; converts ureidoglycolate to glyoxylate and urea in the third step of allantoin degradation; expression is sensitive to nitrogen catabolite repression; this enzyme is sometimes referred to "ureidoglycolate hydrolase" but should not be confused with the Arabidopsis thaliana ureidoglycolate hydrolase enzyme which converts ureidoglycolate to glyoxylate, ammonia and carbon dioxide
-S000031829	CDS					YIR032C		9	415617	415030	C		2011-02-03	1994-12-10	
-S000001472	ORF	Verified	YIR033W	MGA2		chromosome 9	L000004181	9	416124	419465	W		2011-02-03	1994-12-10	ER membrane protein involved in regulation of OLE1 transcription; inactive ER form dimerizes and one subunit is then activated by ubiquitin/proteasome-dependent processing followed by nuclear targeting; MGA2 has a paralog, SPT23, that arose from the whole genome duplication
-S000032031	CDS					YIR033W		9	416124	419465	W		2011-02-03	1994-12-10	
-S000001473	ORF	Verified	YIR034C	LYS1	saccharopine dehydrogenase (NAD+, L-lysine-forming)	chromosome 9	L000000964	9	420736	419615	C	40	2011-02-03	1994-12-10	Saccharopine dehydrogenase (NAD+, L-lysine-forming); catalyzes the conversion of saccharopine to L-lysine, which is the final step in the lysine biosynthesis pathway; also has mRNA binding activity
-S000037430	CDS					YIR034C		9	420736	419615	C		2011-02-03	1994-12-10	
-S000001474	ORF	Uncharacterized	YIR035C		sepiapterin reductase family protein	chromosome 9		9	421790	421026	C		2011-02-03	1994-12-10	Putative cytoplasmic short-chain dehydrogenase/reductase
-S000037528	CDS					YIR035C		9	421790	421026	C		2011-02-03	1994-12-10	
-S000028803	ORF	Dubious	YIR036W-A			chromosome 9		9	422635	423036	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF IRC24/YIR036C
-S000033584	CDS					YIR036W-A		9	422635	423036	W		2011-02-03	2003-07-29	
-S000001475	ORF	Verified	YIR036C	IRC24	sepiapterin reductase family protein IRC24	chromosome 9		9	422865	422074	C		2011-02-03	1994-12-10	Putative benzil reductase;(GFP)-fusion protein localizes to the cytoplasm and is induced by the DNA-damaging agent MMS; sequence similarity with short-chain dehydrogenase/reductases; null mutant has increased spontaneous Rad52p foci
-S000037606	CDS					YIR036C		9	422865	422074	C		2011-02-03	1994-12-10	
-S000001476	ORF	Verified	YIR037W	HYR1	peroxiredoxin HYR1|ORP1|GPX3	chromosome 9	L000002612	9	423128	423619	W		2011-02-03	1994-12-10	Thiol peroxidase; functions as a hydroperoxide receptor to sense intracellular hydroperoxide levels and transduce a redox signal to the Yap1p transcription factor; HYR1 has a paralog, GPX1, that arose from the whole genome duplication
-S000030468	CDS					YIR037W		9	423128	423619	W		2011-02-03	1994-12-10	
-S000001477	ORF	Verified	YIR038C	GTT1	bifunctional glutathione transferase/peroxidase	chromosome 9	L000004612	9	424513	423809	C		2011-02-03	1994-12-10	ER associated glutathione S-transferase capable of homodimerization; expression induced during the diauxic shift and throughout stationary phase; functional overlap with Gtt2p, Grx1p, and Grx2p
-S000030525	CDS					YIR038C		9	424513	423809	C		2011-02-03	1994-12-10	
-S000007021	long_terminal_repeat		YIRCdelta6			chromosome 9		9	426425	426201	C		2011-02-03	1994-12-10	Ty1 LTR
-S000001478	ORF	Verified	YIR039C	YPS6	aspartyl protease	chromosome 9	L000004386	9	432111	430498	C		2011-02-03	1994-12-10	Putative GPI-anchored aspartic protease; member of the yapsin family of proteases involved in cell wall growth and maintenance
-S000030600	CDS					YIR039C		9	432111	430498	C		2011-02-03	1994-12-10	
-S000001479	ORF	Dubious	YIR040C			chromosome 9		9	433721	433389	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
-S000030026	CDS					YIR040C		9	433721	433389	C		2011-02-03	1994-12-10	
-S000001480	ORF	Verified	YIR041W	PAU15	seripauperin PAU15	chromosome 9		9	433929	434303	W		2011-02-03	1994-12-10	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole
-S000030194	CDS					YIR041W		9	433929	434303	W		2011-02-03	1994-12-10	
-S000001481	ORF	Uncharacterized	YIR042C			chromosome 9		9	435983	435273	C		2011-02-03	1994-12-10	Putative protein of unknown function; YIR042C is a non-essential gene
-S000030300	CDS					YIR042C		9	435983	435273	C		2011-02-03	1994-12-10	
-S000001482	blocked_reading_frame		YIR043C		YIR044C	chromosome 9		9	438179	437043	C		2014-11-18	1994-12-10|2014-11-18	Blocked reading frame; may encode a non-functional member of the conserved, often subtelomerically-encoded Cos protein family
-S000030384	CDS					YIR043C		9	438179	437043	C		2014-11-18	1994-12-10|2014-11-18	
-S000028970	telomere		TEL09R			chromosome 9		9	439068	439888	W	43	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome IX; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
-S000028971	telomeric_repeat					TEL09R		9	439816	439888	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome IX
-S000028972	X_element					TEL09R		9	439068	439533	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome IX; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
-S000028973	X_element_combinatorial_repeat					TEL09R		9	439534	439815	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr IX; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
-S000178596	not physically mapped		OTO1												Protein whose overexpression inhibits growth; encoded by a previously unannotated ORF located between YGR227W and YGR228W in the "C" direction; overexpression of PRM1 or UBP7 suppresses the growth inhibition caused by OTO1 overexpression; "orphan" ORF not conserved in any other known species
-S000182414	not physically mapped		SMT1												
-S000029044	not physically mapped		ASL1				S000029006								
-S000155235	not physically mapped		PDR19												
-S000155237	not physically mapped		PDR20												
-S000155238	not physically mapped		PDR21												
-S000183332	not physically mapped		HTC1												
-S000183742	not physically mapped		YPL2												
-S000183740	not physically mapped		YPL1												
-S000151128	not physically mapped		AIP5												
-S000029237	not in systematic sequence of S288C		KHR1	KHR1	KHR		L000000899								Killer toxin; encoded on the left arm of chromosome IX in some strains, including YJM789
-S000029522	not in systematic sequence of S288C		STA1	STA1	MAL5|DEX2	chromosome 9	L000003928	9							Glucoamylase (glucan 1,4-alpha-glucosidase)
-S000029524	not in systematic sequence of S288C		STA2	STA2			L000002105								Glucoamylase (glucan 1,4-alpha-glucosidase); allows yeast to degrade starch
-S000029525	not in systematic sequence of S288C		STA3	STA3			L000002106								Starch hydrolysis
-S000029679	not in systematic sequence of S288C		STRP	STRP			L000002135								Transmembrane protein with a highly basic C-terminal region
-S000029531	not in systematic sequence of S288C		SUC1	SUC1		chromosome 7	L000002143	7				228			Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
-S000029532	not in systematic sequence of S288C		SUC3	SUC3		chromosome 2	L000002145	2				146			Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
-S000029533	not in systematic sequence of S288C		SUC4	SUC4	SUC6	chromosome 13	L000002146	13							Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
-S000029534	not in systematic sequence of S288C		SUC5	SUC5		chromosome 4	L000002147	4				-152			Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
-S000029535	not in systematic sequence of S288C		SUC7	SUC7		chromosome 8	L000002148	8							Invertase; sucrose hydrolyzing enzyme; seven related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in strain S288C; unlike other forms of invertase, Suc7p is unable to hydrolyze raffinose
-S000029417	not in systematic sequence of S288C		RF2	RF2		chromosome 17	S000007533	17							Maturase-like coding sequence downstream of COX3/Q0275; present in some S. cerevisiae strains and other Saccharomyces species; compound ORF with homology to other group I open reading frames; in S288C is interrupted by two GC clusters, both of which ultimately result in a -1 frameshlft
-S000029677	not in systematic sequence of S288C		RTM1	RTM1			L000001785								Member of the lipid-translocating exporter (LTE) family; present in multiple copies associated with SUC telomeric loci, amplified in yeasts used for industrial biomass or ethanol production with molasses as substrate
-S000029656	not in systematic sequence of S288C		MAL2	MAL2		chromosome 3	L000001001	3				95			Multigene complex, polymeric locus for maltose fermentation; encodes the MAL23 trans-acting MAL-activator, MAL21 maltose permease, and MAL22 maltase; on the right arm of Chromosome III, but not in strain S288C
-S000029681	not in systematic sequence of S288C		MAL21	MAL21	MALT		L000001011								Maltose permease; part of the complex locus MAL2
-S000029682	not in systematic sequence of S288C		MAL22	MAL22	MALS		L000001012								Maltase (alpha-D-glucosidase); encoded within the complex locus MAL2
-S000029685	not in systematic sequence of S288C		MAL4	MAL4		chromosome 11	L000001006	11				85			Multigene complex, polymeric locus for maltose fermentation; encodes the MAL43 trans-acting MAL-activator, MAL41 maltose permease, and MAL42 maltase; on right arm of Chromosome XI, but not in strain S288C
-S000029686	not in systematic sequence of S288C		MAL41	MAL41	MALT		L000001018								Maltose permease; part of the complex locus MAL4
-S000029687	not in systematic sequence of S288C		MAL42	MAL42	MALS		L000001019								Maltase (alpha-D-glucosidase); encoded within the complex locus MAL4
-S000029688	not in systematic sequence of S288C		MAL43	MAL43	MALR		L000001020								MAL-activator protein; encoded within the complex locus MAL4
-S000029689	not in systematic sequence of S288C		MAL6	MAL6			L000001007								Multigene complex, polymeric locus for maltose fermentation; encodes the MAL63 trans-acting MAL-activator, MAL61 maltose permease, and MAL62 maltase; on the left arm of Chromosome VIII, but not in strain S288C
-S000029690	not in systematic sequence of S288C		MAL62	MAL62	MALS		L000001022								Maltase (alpha-D-glucosidase); encoded within the complex locus MAL6
-S000029659	not in systematic sequence of S288C		MAL63	MAL63	MALR		L000001023								MAL-activator protein; transcription factor; part of the complex locus MAL6, plays a positive role in the regulation of maltose fermentation
-S000029660	not in systematic sequence of S288C		MATA1	MATA1	A1		L000002970								Expressed copy (at MATa) of a1; homeobox-domain protein that, along with alpha2, represses transcription of haploid-specific genes in diploid cells; MATa1 pre-mRNA splicing requires Bud13p and Ist3p; a1 sequence is not present in SGD because the sequenced S288C strain is MATalpha, not MATa
-S000029661	not in systematic sequence of S288C		MATA2	MATA2	A2		L000002971								Protein of unknown function; identical to the C-terminal 119 amino acid residues of the MATalpha2 protein; a2 sequence is not present in SGD because the sequenced S288C strain is MATalpha, not MATa
-S000029662	not in systematic sequence of S288C		MEL1	MEL1		chromosome 2	L000001063	2				-77			Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose; regulated by several GAL genes
-S000029692	not in systematic sequence of S288C		MEL10	MEL10		chromosome 12	L000001072	12							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
-S000029663	not in systematic sequence of S288C		MEL2	MEL2			L000001064								Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
-S000029693	not in systematic sequence of S288C		MEL3	MEL3		chromosome 16	L000001065	16							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
-S000029694	not in systematic sequence of S288C		MEL4	MEL4		chromosome 11	L000001066	11							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
-S000029664	not in systematic sequence of S288C		MEL5	MEL5		chromosome 4	L000001067	4							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
-S000029665	not in systematic sequence of S288C		MEL6	MEL6		chromosome 13	L000001068	13							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
-S000029695	not in systematic sequence of S288C		MEL7	MEL7		chromosome 6	L000001069	6							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
-S000029696	not in systematic sequence of S288C		MEL8	MEL8		chromosome 15	L000001070	15							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
-S000029697	not in systematic sequence of S288C		MEL9	MEL9			L000001071								Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
-S000029666	not in systematic sequence of S288C		MPR1	MPR1			S000007536								L-azetidine-2-carboxylic acid acetyltransferase; reduces intracellular ROS and contributes to L-proline analog resistance and tolerance to ethanol and freezing; member of N-acetyltransferase superfamily; not found in S288C, only present in strains with Sigma1278b background; located on left arm of chromosome XIV approximately 15 kb from telomere
-S000029328	not in systematic sequence of S288C		NTS1-1	NTS1-1	NTS1		L000001282								Nontranscribed region of the rDNA repeat between the 3'ETS and RDN5; required for rDNA repeat expansion; contains RNA polymerase I termination site
-S000080162	not in systematic sequence of S288C		KHS1	KHS1											Thermolabile killer toxin encoded on the right arm of Chromosome V
-S000029703	not in systematic sequence of S288C		AWA1	AWA1											Putative GPI-anchored protein; localized to the cell wall; involved in foam formation in sake mash by conferring hydrophobicity to the cell surface
-S000029723	not in systematic sequence of S288C		YAR069W-A	BIO6											Putative 7-keto-8-aminopelargonic acid (KAPA) synthetase; in sake strains and S. cerevisiae strains YJM627 and A364a; involved in the biotin biosynthesis pathway; homologs present in S. bayanus, S. paradoxus, S. mikatae and S. kudriavzevii
-S000029698	not in systematic sequence of S288C		ENS2	ENS2	Endo.SceI|RF3		L000001619|L000000562								Mitochondrially-encoded 50 kD subunit of Endo.SceI; a dimeric multi-site-specific endonuclease that introduces double-stranded breaks at a number of well-defined sites on the mitochondrial DNA, inducing homologous recombination
-S000134352	not in systematic sequence of S288C		SUC8	SUC8		chromosome 10		10							Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
-S000130715	not in systematic sequence of S288C		ENA6	ENA6		chromosome 4		4							Plasma membrane sodium-pumping ATPase; the ENA6 gene is found in the PMR2 locus in the CEN.PK113-7D strain of S. cerevisiae, where other common lab strains have a varying number of the ENA genes (ENA1-ENA5) at the same locus
-S000124112	not in systematic sequence of S288C		TAT3	TAT3											Permease identified in lager brewing yeast strain Weihenstephan Nr.34; also in RM11-1a, but not S288C; subject to nitrogen catabolite repression and post-translational control, cellular localization dependent on nitrogen source quality
-S000124955	not in systematic sequence of S288C		MATA	MATA	MAT										Mating type locus; note that the systematic sequence in SGD contains MATalpha sequences
-S000125018	not in systematic sequence of S288C		YAR070W-A	BIO1											Putative pimeloyl-CoA synthetase involved in biotin biosynthesis; highly degraded pseudogenic paralog of YJR154W; functional copies present in S. cerevisiae strains YJM627 and A364a; functional pimeloyl-CoA synthetase (PCAS) genes are homologs of the bioW gene in Bacillus sp. and the bioC-bioH complex of E. coli
-S000125021	not in systematic sequence of S288C		YHR214W-F	BIO8											Putative 7-keto-8-aminopelargonic acid (KAPA) synthetase; highly degraded pseudogenic copy of BIO6/YAR069W-A; functional copy present in S. cerevisiae strains YJM627 and A364a; involved in the biotin biosynthesis pathway
-S000125022	not in systematic sequence of S288C		YHR214W-G	BIO7											Putative pimeloyl-CoA synthetase involved in biotin biosynthesis; in S. cerevisiae strains YJM627 and A364a; highly degraded pseudogenic copy of BIO1/YAR070W-A, which is a paralog of YJR154W
-S000029657	not in systematic sequence of S288C		MAL23	MAL23	MALR		L000001013								MAL-activator protein; encoded within the complex locus MAL2; required for maltose and isomaltose utilization
-S000029684	not in systematic sequence of S288C		MAL34	MAL34			L000001017								ORF with sequence and positional similarity to the MAL64 gene; the MAL64 gene is thought to be a nonfunctional copy of MAL63; encoded within the complex locus MAL3 in some strains of S. cerevisiae, but not in S288C
-S000029691	not in systematic sequence of S288C		MAL64	MAL64			L000001024								MAL64 is a nonfunctional homolog of the MAL63 trans-activator; encoded within the complex locus MAL6
-S000029658	not in systematic sequence of S288C		MAL61	MAL61	MALT		L000001021								High-affinity maltose transporter; narrow substrate specificity, transporting maltose and turanose but not other alpha-glucosides; other names include alpha-glucoside transporter and maltose permease
-S000145155	not in systematic sequence of S288C		FPG1	FPG1											Putative cell wall mannoprotein involved in foam formation; contains a signal peptide and a putative GPI anchor; protein precursor homologous to Awa1p and Hpf1p
-S000133140	not in systematic sequence of S288C		XDH1	XDH1		chromosome 15		15							Xylitol dehydrogenase; involved in utilization of xylose as a carbon source; not present in S288C, but located in a 65kb insertion on the right arm of chromosome XV in many wine strains such as EC1118 and AWRI1631
-S000149345	not in systematic sequence of S288C		IMI1	IMI1											Protein involved in maintaining mitochondrial integrity and glutathione homeostasis; localized to the cytoplasm; in W303 strain IMI1 is encoded by one continuous open reading frame comprising of YDL037C, the intergenic region and YDL039C, while in the reference sequence of S288C, YDL037C encodes Bsc1p and YDL039C encodes Prm7p.
-S000150108	not in systematic sequence of S288C		MPR2	MPR2											L-azetidine-2-carboxylic acid acetyltransferase; reduces intracellular ROS, contributes to L-proline analog resistance and tolerance to ethanol and freezing; member of N-acetyltransferase superfamily; not found in S288C, present in strains with Sigma1278b background; located on left arm of Chr X ~ 15 kb from telomere; identical to MPR1 except for one base at position 254, leading to Gly at position 85 in MPR1 and Glu in MPR2; present also in Japanese industrial baker's yeast
+S000002143	ORF	Dubious	YAL069W			chromosome 1		1	335	649	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031098	CDS					YAL069W		1	335	649	W		1996-07-31	1996-07-31	
+S000028594	ORF	Dubious	YAL068W-A			chromosome 1		1	538	792	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031372	CDS					YAL068W-A		1	538	792	W		2003-07-29	2003-07-29	
+S000121252	ARS		ARS102		ARSI-1	chromosome 1		1	707	776			2014-11-18	2014-11-18|2007-03-07	Autonomously Replicating Sequence
+S000028862	telomere		TEL01L			chromosome 1		1	801	1	C	-64	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome I; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
+S000028864	telomeric_repeat					TEL01L		1	62	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome I
+S000028865	X_element					TEL01L		1	801	337	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome I; contains an ARS consensus sequence, an Abf1p binding site consensus sequence and two small overlapping ORFs (YAL068W-A and YAL069W)
+S000028866	X_element_combinatorial_repeat					TEL01L		1	336	63	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr I; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000002142	ORF	Verified	YAL068C	PAU8	seripauperin PAU8	chromosome 1		1	2169	1807	C		1996-07-31	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions
+S000030944	CDS					YAL068C		1	2169	1807	C		1996-07-31	1996-07-31	
+S000028593	ORF	Uncharacterized	YAL067W-A			chromosome 1		1	2480	2707	W		2003-07-29	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031368	CDS					YAL067W-A		1	2480	2707	W		2003-07-29	2003-07-29	
+S000121253	ARS		ARS103		ARSI-8	chromosome 1		1	7997	8547			2011-02-03	2007-03-07	Autonomously Replicating Sequence; replication origin of very weak function
+S000000062	ORF	Verified	YAL067C	SEO1	putative permease SEO1	chromosome 1	L000003363	1	9016	7235	C		2011-02-03	1996-07-31	Putative permease; member of the allantoate transporter subfamily of the major facilitator superfamily; mutation confers resistance to ethionine sulfoxide
+S000029932	CDS					YAL067C		1	9016	7235	C		2011-02-03	1996-07-31	
+S000000061	ORF	Dubious	YAL066W			chromosome 1		1	10091	10399	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000029887	CDS					YAL066W		1	10091	10399	W		2011-02-03	1996-07-31	
+S000001817	ORF	Uncharacterized	YAL065C			chromosome 1		1	11951	11565	C		2011-02-03	1996-07-31	Putative protein of unknown function; shows sequence similarity to FLO1 and other flocculins
+S000037154	CDS					YAL065C		1	11951	11565	C		2011-02-03	1996-07-31	
+S000002141	ORF	Uncharacterized	YAL064W-B			chromosome 1		1	12046	12426	W		2011-02-03	1999-07-17	Fungal-specific protein of unknown function
+S000034793	CDS					YAL064W-B		1	12046	12426	W		2011-02-03	1999-07-17	
+S000002140	ORF	Uncharacterized	YAL064C-A	TDA8	YAL065C-A	chromosome 1		1	13743	13363	C		2011-02-03	1996-07-31	Putative protein of unknown function; null mutant is sensitive to expression of the top1-T722A allele; not an essential gene
+S000031541	CDS					YAL064C-A		1	13743	13363	C		2011-02-03	1996-07-31	
+S000000060	ORF	Verified	YAL064W			chromosome 1		1	21566	21850	W		2011-02-03	1996-07-31|2011-02-03	Protein of unknown function; may interact with ribosomes, based on co-purification experiments
+S000037087	CDS					YAL064W		1	21566	21850	W		2011-02-03	1996-07-31|2011-02-03	
+S000006787	long_terminal_repeat		YALWdelta1			chromosome 1		1	22230	22552	W		2011-02-03	2000-05-19	Ty1 LTR
+S000028813	ORF	Uncharacterized	YAL063C-A			chromosome 1		1	22685	22395	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000033613	CDS					YAL063C-A		1	22685	22395	C		2011-02-03	2003-07-29	
+S000000059	ORF	Verified	YAL063C	FLO9	flocculin FLO9	chromosome 1	L000003331	1	27968	24000	C		2011-02-03	1996-07-31	Lectin-like protein with similarity to Flo1p; thought to be expressed and involved in flocculation
+S000036982	CDS					YAL063C		1	27968	24000	C		2011-02-03	1996-07-31	
+S000118317	ARS		ARS104		ARSI-31	chromosome 1		1	30946	31183			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178034	ARS_consensus_sequence					ARS104		1	31002	31018	W		2014-11-18	2014-11-18	
+S000000058	ORF	Verified	YAL062W	GDH3	glutamate dehydrogenase (NADP(+)) GDH3|FUN51	chromosome 1	L000000698	1	31567	32940	W		2011-02-03	1996-07-31	NADP(+)-dependent glutamate dehydrogenase; synthesizes glutamate from ammonia and alpha-ketoglutarate; rate of alpha-ketoglutarate utilization differs from Gdh1p; expression regulated by nitrogen and carbon sources; GDH3 has a paralog, GDH1, that arose from the whole genome duplication
+S000036963	CDS					YAL062W		1	31567	32940	W		2011-02-03	1996-07-31	
+S000000057	ORF	Uncharacterized	YAL061W	BDH2	putative dehydrogenase BDH2	chromosome 1		1	33448	34701	W		2011-02-03	1996-07-31	Putative medium-chain alcohol dehydrogenase with similarity to BDH1; transcription induced by constitutively active PDR1 and PDR3
+S000036902	CDS					YAL061W		1	33448	34701	W		2011-02-03	1996-07-31	
+S000000056	ORF	Verified	YAL060W	BDH1	(R,R)-butanediol dehydrogenase|BDH	chromosome 1		1	35155	36303	W		2011-02-03	1996-07-31|2011-02-03	NAD-dependent (R,R)-butanediol dehydrogenase; catalyzes oxidation of (R,R)-2,3-butanediol to (3R)-acetoin, oxidation of meso-butanediol to (3S)-acetoin, and reduction of acetoin; enhances use of 2,3-butanediol as an aerobic carbon source
+S000036089	CDS					YAL060W		1	35155	36303	W		2011-02-03	1996-07-31|2011-02-03	
+S000000055	ORF	Verified	YAL059W	ECM1		chromosome 1	L000003052	1	36509	37147	W		2011-02-03	1996-07-31|2011-02-03	Pre-ribosomal factor involved in 60S ribosomal protein subunit export; associates with the pre-60S particle; shuttles between the nucleus and cytoplasm
+S000035122	CDS					YAL059W		1	36509	37147	W		2011-02-03	1996-07-31|2011-02-03	
+S000028734	ORF	Dubious	YAL059C-A			chromosome 1		1	36918	36496	C		2011-02-03	2003-07-29|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene ECM1/YAL059W
+S000033378	CDS					YAL059C-A		1	36918	36496	C		2011-02-03	2003-07-29|2011-02-03	
+S000000054	ORF	Verified	YAL058W	CNE1	calnexin|FUN48	chromosome 1	L000000373	1	37464	38972	W		2011-02-03	1996-07-31	Calnexin; integral membrane ER chaperone involved in folding and quality control of glycoproteins; chaperone activity is inhibited by Mpd1p, with which Cne1p interacts; 24% identical to mammalian calnexin; Ca+ binding not yet shown in yeast
+S000034933	CDS					YAL058W		1	37464	38972	W		2011-02-03	1996-07-31	
+S000002139	ORF	Dubious	YAL056C-A		YAL058C-A	chromosome 1		1	39046	38696	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035879	CDS					YAL056C-A		1	39046	38696	C		2011-02-03	1996-07-31	
+S000000052	ORF	Verified	YAL056W	GPB2	KRH1	chromosome 1		1	39259	41901	W		2011-02-03	2004-01-20|1996-07-31|2011-02-03	Multistep regulator of cAMP-PKA signaling; inhibits PKA downstream of Gpa2p and Cyr1p, thereby increasing cAMP dependency; inhibits Ras activity through direct interactions with Ira1p/2p; regulated by G-alpha protein Gpa2p; GPB2 has a paralog, GPB1, that arose from the whole genome duplication
+S000033885	CDS					YAL056W		1	39259	41901	W		2011-02-03	2004-01-20|1996-07-31|2011-02-03	
+S000121254	ARS		ARS105		ARSI-42	chromosome 1		1	41992	42151			2014-11-18	2014-11-18|2007-03-07	Autonomously Replicating Sequence
+S000000051	ORF	Verified	YAL055W	PEX22	ubiquitin-protein transferase activating protein PEX22|YAF5	chromosome 1		1	42177	42719	W		2011-02-03	1996-07-31	Putative peroxisomal membrane protein; required for import of peroxisomal proteins; functionally complements a Pichia pastoris pex22 mutation
+S000033812	CDS					YAL055W		1	42177	42719	W		2011-02-03	1996-07-31	
+S000000050	ORF	Verified	YAL054C	ACS1	acetate--CoA ligase 1|FUN44	chromosome 1	L000000024	1	45022	42881	C	-63.11	2011-02-03	1996-07-31	Acetyl-coA synthetase isoform; along with Acs2p, acetyl-coA synthetase isoform is the nuclear source of acetyl-coA for histone acetylation; expressed during growth on nonfermentable carbon sources and under aerobic conditions
+S000033073	CDS					YAL054C		1	45022	42881	C		2011-02-03	1996-07-31	
+S000000049	ORF	Verified	YAL053W	FLC2	flavin adenine dinucleotide transporter FLC2|HUF2	chromosome 1		1	45899	48250	W		2011-02-03	1996-07-31|2011-02-03	Putative calcium channel involved in calcium release under hypotonic stress; required for uptake of FAD into endoplasmic reticulum; involved in cell wall maintenance; FLC2 has a paralog, YOR365C, that arose from the whole genome duplication
+S000033037	CDS					YAL053W		1	45899	48250	W		2011-02-03	1996-07-31|2011-02-03	
+S000000048	ORF	Verified	YAL051W	OAF1	oleate-activated transcription factor OAF1|YAF1	chromosome 1	L000004197	1	48564	51707	W		2011-02-03	2004-07-20|1996-07-31|2011-02-03	Oleate-activated transcription factor; subunit of a heterodimeric complex with Pip2p, which binds to oleate-response elements (ORE) in the promoter of genes involved in beta-oxidation of fatty acids, peroxisome organization and biogenesis, activating transcription in the presence of oleate; regulates chromatin silencing at telomeres; involved in diauxic shift; OAF1 has a paralog, PIP2, that arose from the whole genome duplication
+S000032862	CDS					YAL051W		1	48564	51707	W		2011-02-03	2004-07-20|1996-07-31|2011-02-03	
+S000000047	ORF	Verified	YAL049C	AIM2	protein AIM2	chromosome 1		1	52595	51855	C		2011-02-03	1996-07-31	Cytoplasmic protein involved in mitochondrial function or organization; null mutant displays reduced frequency of mitochondrial genome loss; potential Hsp82p interactor
+S000031896	CDS					YAL049C		1	52595	51855	C		2011-02-03	1996-07-31	
+S000028733	ORF	Dubious	YAL047W-A			chromosome 1		1	54584	54913	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF GEM1/YAL048C
+S000033377	CDS					YAL047W-A		1	54584	54913	W		2011-02-03	2003-07-29	
+S000000046	ORF	Verified	YAL048C	GEM1	ERMES complex Ca(2+)-binding regulatory GTPase GEM1|GON1	chromosome 1		1	54789	52801	C		2011-02-03	1996-07-31	Outer mitochondrial membrane GTPase, subunit of the ERMES complex; potential regulatory subunit of the ERMES complex that links the ER to mitochondria and may promote inter-organellar calcium and phospholipid exchange as well as coordinating mitochondrial DNA replication and growth; cells lacking Gem1p contain collapsed, globular, or grape-like mitochondria; ortholog of metazoan Miro GTPases
+S000030895	CDS					YAL048C		1	54789	52801	C		2011-02-03	1996-07-31	
+S000000045	ORF	Verified	YAL047C	SPC72	gamma-tubulin complex subunit SPC72|LDB4	chromosome 1	L000003455	1	56857	54989	C		2011-02-03	1996-07-31|2011-02-03	Gamma-tubulin small complex (gamma-TuSC) receptor; recruits the gamma-TuSC complex to the cytoplasmic side of the SPB, connecting nuclear microtubules to the SPB; involved in astral microtubule formation, stabilization, and with Stu2p, anchoring astral MTs at the cytoplasmic face of the SPB, and regulating plus-end MT dynamics; regulated by Cdc5 kinase
+S000030803	CDS					YAL047C		1	56857	54989	C		2011-02-03	1996-07-31|2011-02-03	
+S000000044	ORF	Verified	YAL046C	BOL3	AIM1	chromosome 1		1	57385	57029	C		2011-02-03	1996-07-31	Protein involved in Fe-S cluster transfer to mitochondrial clients; protects [4Fe-4S] clusters from damage due to oxidative stress by acting along with Nfu1p at a late step in the transfer of [4Fe-4S] clusters from the ISA complex to mitochondrial client proteins like lipoate synthase and succinate dehydrogenase; sequence similarity to human BOLA family member, BOLA3, mutations of which are associated with Multiple Mitochondria Dysfunctions Syndrome (MMDS2)
+S000030666	CDS					YAL046C		1	57385	57029	C		2011-02-03	1996-07-31	
+S000007586	ORF	Verified	YAL044W-A	BOL1		chromosome 1		1	57518	57850	W		2011-02-03	2001-01-30	Mitochondrial matrix protein involved in Fe-S cluster biogenesis; facilitates [4Fe-2S] cluster inception into mitochondrial proteins such as lipoate synthase and succinate dehydrogenase; interacts and may function with Grx5p at an early step in Fe-S cluster biosynthesis; forms dimeric complexes with Grx5p and Nfu1p that alter the stability of shared Fe/S clusters; sequence similarity to human BOLA family member, BOLA1 and S. pombe uvi31, a putative DNA repair protein
+S000037097	CDS					YAL044W-A		1	57518	57850	W		2011-02-03	2001-01-30	
+S000000043	ORF	Dubious	YAL045C			chromosome 1		1	57796	57488	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps YAL044W-A
+S000030576	CDS					YAL045C		1	57796	57488	C		2011-02-03	1996-07-31	
+S000000042	ORF	Verified	YAL044C	GCV3	glycine decarboxylase subunit H	chromosome 1	L000003501	1	58462	57950	C		2011-02-03	2003-09-22|1996-07-31|2008-03-05	H subunit of the mitochondrial glycine decarboxylase complex; glycine decarboxylase is required for the catabolism of glycine to 5,10-methylene-THF; also required for all protein lipoylation; expression is regulated by levels of 5,10-methylene-THF
+S000037751	CDS					YAL044C		1	58462	57950	C		2011-02-03	2003-09-22|1996-07-31|2008-03-05	
+S000000041	ORF	Verified	YAL043C	PTA1	RNA-processing protein PTA1|FUN39	chromosome 1	L000001522	1	61052	58695	C		2011-02-03	1996-07-31	Subunit of holo-CPF; holo-CPF is a multiprotein complex and functional homolog of mammalian CPSF, required for the cleavage and polyadenylation of mRNA and snoRNA 3' ends; involved in pre-tRNA processing; binds to the phosphorylated CTD of RNAPII
+S000037691	CDS					YAL043C		1	61052	58695	C		2011-02-03	1996-07-31	
+S000000040	ORF	Verified	YAL042W	ERV46	FUN9	chromosome 1	L000000633	1	61316	62563	W		2011-02-03	1996-07-31	Protein localized to COPII-coated vesicles; forms a complex with Erv41p; involved in the membrane fusion stage of transport
+S000037669	CDS					YAL042W		1	61316	62563	W		2011-02-03	1996-07-31	
+S000002138	ORF	Dubious	YAL042C-A		YAL043C-A	chromosome 1		1	61608	61231	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF ERV46/YAL042W; YAL042C-A is a non-essential gene
+S000030422	CDS					YAL042C-A		1	61608	61231	C		2011-02-03	1996-07-31	
+S000000039	ORF	Verified	YAL041W	CDC24	Rho family guanine nucleotide exchange factor CDC24|CLS4	chromosome 1	L000000262	1	62840	65404	W	-56	2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for Cdc42p; required for polarity establishment and maintenance, and mutants have morphological defects in bud formation and shmooing; relocalizes from nucleus to cytoplasm upon DNA replication stress; thermosensitivity of the cdc24-4 mutant in the presence of sorbitol is functionally complemented by human CDC42
+S000037599	CDS					YAL041W		1	62840	65404	W		2011-02-03	1996-07-31	
+S000000038	ORF	Verified	YAL040C	CLN3	cyclin CLN3|WHI1|FUN10|DAF1	chromosome 1	L000000359	1	67520	65778	C	-56	2011-02-03	1996-07-31	G1 cyclin involved in cell cycle progression; activates Cdc28p kinase to promote G1 to S phase transition; plays a role in regulating transcription of other G1 cyclins, CLN1 and CLN2; regulated by phosphorylation and proteolysis; acetyl-CoA induces CLN3 transcription in response to nutrient repletion to promote cell-cycle entry; cell cycle arrest phenotype of the cln1 cln2 cln3 triple null mutant is complemented by any of human cyclins CCNA2, CCNB1, CCNC, CCND1, or CCNE1
+S000036825	CDS					YAL040C		1	67520	65778	C		2011-02-03	1996-07-31	
+S000000037	ORF	Verified	YAL039C	CYC3	holocytochrome c synthase CYC3|CCHL	chromosome 1	L000000450	1	69525	68716	C	-47	2011-02-03	1996-07-31	Cytochrome c heme lyase (holocytochrome c synthase); attaches heme to apo-cytochrome c (Cyc1p or Cyc7p) in mitochondrial intermembrane space; human homolog HCCS implicated in microphthalmia with linear skin defects (MLS), and can complement yeast null mutant
+S000035956	CDS					YAL039C		1	69525	68716	C		2011-02-03	1996-07-31	
+S000118318	ARS		ARS106		ARSI-70	chromosome 1		1	70300	70469			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178035	ARS_consensus_sequence					ARS106		1	70434	70418	C		2014-11-18	2014-11-18	
+S000000036	ORF	Verified	YAL038W	CDC19	pyruvate kinase CDC19|PYK1	chromosome 1	L000000258	1	71786	73288	W	-45	2011-02-03	1996-07-31	Pyruvate kinase; functions as a homotetramer in glycolysis to convert phosphoenolpyruvate to pyruvate, the input for aerobic (TCA cycle) or anaerobic (glucose fermentation) respiration; regulated via allosteric activation by fructose bisphosphate; CDC19 has a paralog, PYK2, that arose from the whole genome duplication
+S000035915	CDS					YAL038W		1	71786	73288	W		2011-02-03	1996-07-31	
+S000028592	ORF	Dubious	YAL037C-B			chromosome 1		1	73300	72326	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031366	CDS					YAL037C-B		1	73300	72326	C		2011-02-03	2003-07-29	
+S000028732	ORF	Uncharacterized	YAL037C-A			chromosome 1		1	73518	73426	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000033376	CDS					YAL037C-A		1	73518	73426	C		2011-02-03	2003-07-29	
+S000000035	ORF	Uncharacterized	YAL037W			chromosome 1		1	74020	74823	W		2011-02-03	1996-07-31	Putative protein of unknown function; YAL037W has a paralog, YOR342C, that arose from the whole genome duplication
+S000035798	CDS					YAL037W		1	74020	74823	W		2011-02-03	1996-07-31	
+S000000034	ORF	Verified	YAL036C	RBG1	GTP-binding protein RBG1|FUN11	chromosome 1	L000000634	1	76152	75043	C		2011-02-03	1996-07-31	Member of the DRG family of GTP-binding proteins; associates with translating ribosomes; interacts with Tma46p, Ygr250cp, Gir2p and Yap1p via two-hybrid
+S000034719	CDS					YAL036C		1	76152	75043	C		2011-02-03	1996-07-31	
+S000000033	ORF	Verified	YAL035W	FUN12	translation initiation factor eIF5B|eIF5B|yIF2	chromosome 1	L000000635	1	76427	79435	W		2011-02-03	1996-07-31	Translation initiation factor eIF5B; GTPase that promotes Met-tRNAiMet binding to ribosomes and ribosomal subunit joining; promotes GTP-dependent maturation of 18S rRNA by Nob1p; protein abundance increases in response to DNA replication stress; homolog of bacterial IF2
+S000034678	CDS					YAL035W		1	76427	79435	W		2011-02-03	1996-07-31	
+S000000032	ORF	Verified	YAL034W-A	MTW1	MIND complex subunit MTW1|NSL2|DSN3	chromosome 1	S000007418	1	79718	80587	W		2011-02-03	1996-07-31	Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; critical to kinetochore assembly; complex consists of Mtw1p Including Nnf1p-Nsl1p-Dsn1p (MIND)
+S000031836	CDS					YAL034W-A		1	79718	80587	W		2011-02-03	1996-07-31	
+S000002137	ORF	Dubious	YAL034C-B		YAL035C-A	chromosome 1		1	79842	79489	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031374	CDS					YAL034C-B		1	79842	79489	C		2011-02-03	1996-07-31	
+S000002134	ORF	Verified	YAL034C	FUN19		chromosome 1	L000000637	1	81951	80710	C		2011-02-03	2003-09-22|1996-07-31	Non-essential protein of unknown function; expression induced in response to heat stress; FUN19 has a paralog, YOR338W, that arose from the whole genome duplication
+S000034508	CDS					YAL034C		1	81951	80710	C		2011-02-03	2003-09-22|1996-07-31	
+S000000031	ORF	Verified	YAL033W	POP5	RNA-binding protein POP5|FUN53	chromosome 1	L000004301|L000000649	1	82706	83227	W		2011-02-03	1996-07-31	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs
+S000034465	CDS					YAL033W		1	82706	83227	W		2011-02-03	1996-07-31	
+S000000030	ORF	Verified	YAL032C	PRP45	mRNA splicing protein PRP45|FUN20	chromosome 1	L000000638	1	84474	83335	C		2011-02-03	1996-07-31	Protein required for pre-mRNA splicing; associates with the spliceosome and interacts with splicing factors Prp22p and Prp46p; orthologous to human transcriptional coactivator SKIP and can activate transcription of a reporter gene
+S000033541	CDS					YAL032C		1	84474	83335	C		2011-02-03	1996-07-31	
+S000028731	ORF	Dubious	YAL031W-A			chromosome 1		1	84669	84977	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF GIP4/YAL031C
+S000033375	CDS					YAL031W-A		1	84669	84977	W		2011-02-03	2003-07-29	
+S000000029	ORF	Verified	YAL031C	GIP4	protein phosphatase regulator GIP4|FUN21	chromosome 1	L000000639	1	87031	84749	C		2011-02-03	1996-07-31	Cytoplasmic protein that regulates protein phosphatase 1 Glc7p; protein overexpression relocalizes Glc7p from the nucleus and prevents chromosome segregation; potential Cdc28p substrate
+S000033476	CDS					YAL031C		1	87031	84749	C		2011-02-03	1996-07-31	
+S000000028	ORF	Verified	YAL030W	SNC1	SNAP receptor SNC1	chromosome 1	L000001942	1	87286	87752	W		2011-02-03	1996-07-31	Vesicle membrane receptor protein (v-SNARE); involved in the fusion between Golgi-derived secretory vesicles with the plasma membrane; proposed to be involved in endocytosis; member of the synaptobrevin/VAMP family of R-type v-SNARE proteins; SNC1 has a paralog, SNC2, that arose from the whole genome duplication
+S000033437	CDS					YAL030W		1	87286	87387	W		2011-02-03	1996-07-31	
+S000033438	CDS					YAL030W		1	87501	87752	W		2011-02-03	1996-07-31	
+S000033439	intron					YAL030W		1	87388	87500	W		2011-02-03	1996-07-31	
+S000000027	ORF	Verified	YAL029C	MYO4	myosin 4|SHE1|FUN22	chromosome 1	L000000640|L000001224	1	92270	87855	C		2011-02-03	1996-07-31	Type V myosin motor involved in actin-based transport of cargos; required for mRNA transport, including ASH1 mRNA, and facilitating the growth and movement of ER tubules into the growing bud along with She3p; MYO4 has a paralog, MYO2, that arose from the whole genome duplication
+S000033821	CDS					YAL029C		1	92270	87855	C		2011-02-03	1996-07-31	
+S000000026	ORF	Verified	YAL028W	FRT2	HPH2	chromosome 1		1	92900	94486	W		2011-02-03	1996-07-31	Tail-anchored ER membrane protein of unknown function; interacts with homolog Frt1p; promotes growth in conditions of high Na+, alkaline pH, or cell wall stress, possibly via a role in posttranslational translocation; potential Cdc28p substrate; FRT2 has a paralog, FRT1, that arose from the whole genome duplication
+S000033747	CDS					YAL028W		1	92900	94486	W		2011-02-03	1996-07-31	
+S000000025	ORF	Verified	YAL027W	SAW1	DNA-binding protein SAW1	chromosome 1		1	94687	95472	W		2011-02-03	1996-07-31	5'- and 3'-flap DNA binding protein; recruits Rad1p-Rad10p to single-strand annealing intermediates with 3' non-homologous tails for removal during double-strand break repair; complexes with Rad1p-Rad10p and stimulates its endonuclease activity; green fluorescent protein (GFP)-fusion protein localizes to the nucleus
+S000033629	CDS					YAL027W		1	94687	95472	W		2011-02-03	1996-07-31	
+S000028730	ORF	Dubious	YAL026C-A			chromosome 1		1	95823	95386	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YAL027W and the verified gene DRS2
+S000033374	CDS					YAL026C-A		1	95823	95386	C		2011-02-03	2003-07-29	
+S000119380	ncRNA_gene		HRA1	HRA1		chromosome 1		1	99305	99868	W		2011-02-03	2007-02-06|2007-05-08|2011-02-03	Non-protein-coding RNA; substrate of RNase P, possibly involved in rRNA processing, specifically maturation of 20S precursor into the mature 18S rRNA
+S000120654	noncoding_exon					HRA1		1	99305	99868	W		2011-02-03	2007-02-06|2007-05-08|2011-02-03	
+S000000024	ORF	Verified	YAL026C	DRS2	aminophospholipid-translocating P4-type ATPase DRS2|SWA3|FUN38	chromosome 1	L000000526	1	99697	95630	C		2011-02-03	1996-07-31|2011-02-03	Trans-golgi network aminophospholipid translocase (flippase); maintains membrane lipid asymmetry in post-Golgi secretory vesicles; contributes to clathrin-coated vesicle formation, endocytosis, protein trafficking between the Golgi and endosomal system and the cellular response to mating pheromone; autoinhibited by its C-terminal tail; localizes to the trans-Golgi network; mutations in human homolog ATP8B1 result in liver disease
+S000030197	CDS					YAL026C		1	99697	95630	C		2011-02-03	1996-07-31|2011-02-03	
+S000000023	ORF	Verified	YAL025C	MAK16	ribosome biosynthesis protein MAK16	chromosome 1	L000000989	1	101145	100225	C	-31	2011-02-03	1996-07-31|2011-02-03	Essential nuclear protein; constituent of 66S pre-ribosomal particles; required for maturation of 25S and 5.8S rRNAs; required for maintenance of M1 satellite double-stranded RNA of the L-A virus
+S000030064	CDS					YAL025C		1	101145	100225	C		2011-02-03	1996-07-31|2011-02-03	
+S000000022	ORF	Verified	YAL024C	LTE1	mitotic regulator LTE1|MSI2	chromosome 1	L000000955	1	105872	101565	C	-31	2011-02-03	1996-07-31	Protein similar to GDP/GTP exchange factors; without detectable GEF activity; required for asymmetric localization of Bfa1p at daughter-directed spindle pole bodies and for mitotic exit at low temperatures
+S000029981	CDS					YAL024C		1	105872	101565	C		2011-02-03	1996-07-31	
+S000000021	ORF	Verified	YAL023C	PMT2	dolichyl-phosphate-mannose-protein mannosyltransferase PMT2|FUN25	chromosome 1	L000000642|L000001459	1	108551	106272	C		2011-02-03	2002-12-17|1996-07-31	Protein O-mannosyltransferase of the ER membrane; transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues; involved in ER quality control; acts in a complex with Pmt1p, can instead interact with Pmt5p; antifungal drug target; PMT2 has a paralog, PMT3, that arose from the whole genome duplication
+S000037355	CDS					YAL023C		1	108551	106272	C		2011-02-03	2002-12-17|1996-07-31	
+S000000020	ORF	Verified	YAL022C	FUN26	nucleoside transmembrane transporter FUN26	chromosome 1	L000000643	1	110430	108877	C		2011-02-03	1996-07-31	High affinity, broad selectivity, nucleoside/nucleobase transporter; vacuolar membrane localized transporter which may regulate the balance of nicotinamide riboside (NmR) levels between the cytosol and vacuole, contributing to salvage of NmR for use in cytosolic NAD+ synthesis; equilibrative nucleoside transporter (ENT) family member
+S000037286	CDS					YAL022C		1	110430	108877	C		2011-02-03	1996-07-31	
+S000000019	ORF	Verified	YAL021C	CCR4	CCR4-NOT core exoribonuclease subunit CCR4|NUT21|FUN27	chromosome 1	L000000239	1	113359	110846	C	-25	2011-02-03	1996-07-31	Component of the CCR4-NOT transcriptional complex; CCR4-NOT is involved in regulation of gene expression; component of the major cytoplasmic deadenylase, which is involved in mRNA poly(A) tail shortening
+S000037200	CDS					YAL021C		1	113359	110846	C		2011-02-03	1996-07-31	
+S000028729	ORF	Dubious	YAL019W-A			chromosome 1		1	114250	114819	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF ATS1/YAL020C
+S000032720	CDS					YAL019W-A		1	114250	114819	W		2011-02-03	2003-07-29	
+S000000018	ORF	Verified	YAL020C	ATS1	KTI13|FUN28	chromosome 1	L000000644|L000000154	1	114615	113614	C		2011-02-03	1996-07-31|2011-02-03	Protein required for modification of wobble nucleosides in tRNA; acts with Elongator complex, Kti11p, and Kti12p; has a potential role in regulatory interactions between microtubules and the cell cycle; forms a stable heterodimer with Kti11p
+S000037124	CDS					YAL020C		1	114615	113614	C		2011-02-03	1996-07-31|2011-02-03	
+S000000017	ORF	Verified	YAL019W	FUN30	DNA-dependent ATPase FUN30	chromosome 1	L000000645	1	114919	118314	W		2011-02-03	1996-07-31	Snf2p family member with ATP-dependent chromatin remodeling activity; has a role in silencing at the mating type locus, telomeres and centromeres; enriched at centromeres and is required for correct chromatin structure around centromeres, as well as at the boundary element of the silent HMR; recruited to DNA double-strand breaks (DSBs) where it promotes 5' strand resection of DSBs; potential Cdc28p substrate
+S000037555	CDS					YAL019W		1	114919	118314	W		2011-02-03	1996-07-31	
+S000000016	ORF	Verified	YAL018C	LDS1		chromosome 1		1	119541	118564	C		2011-02-03	1996-07-31	Protein Involved in spore wall assembly; localizes to lipid droplets found on or outside of the prospore membrane; shares similarity with Lds2p and Rrt8p, and a strain mutant for all 3 genes exhibits reduced dityrosine fluorescence relative to the single mutants
+S000032033	CDS					YAL018C		1	119541	118564	C		2011-02-03	1996-07-31	
+S000000015	ORF	Verified	YAL017W	PSK1	serine/threonine protein kinase PSK1|FUN31	chromosome 1	L000000646	1	120225	124295	W		2011-02-03	1996-07-31|2011-02-03	PAS domain-containing serine/threonine protein kinase; coordinately regulates protein synthesis and carbohydrate metabolism and storage in response to a unknown metabolite that reflects nutritional status; PSK1 has a paralog, PSK2, that arose from the whole genome duplication
+S000031992	CDS					YAL017W		1	120225	124295	W		2011-02-03	1996-07-31|2011-02-03	
+S000118319	ARS		ARS107		ARSI-125	chromosome 1		1	124349	124597			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178036	ARS_consensus_sequence					ARS107		1	124479	124463	C		2014-11-18	2014-11-18	
+S000028528	ORF	Dubious	YAL016C-B			chromosome 1		1	124492	124307	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030333	CDS					YAL016C-B		1	124492	124307	C		2011-02-03	2003-07-29	
+S000000014	ORF	Verified	YAL016W	TPD3	protein phosphatase 2A structural subunit TPD3|FUN32	chromosome 1	L000002325	1	124879	126786	W	.5	2011-02-03	1996-07-31	Regulatory subunit A of the heterotrimeric PP2A complex; the heterotrimeric protein phosphatase 2A (PP2A) complex also contains regulatory subunit Cdc55p and either catalytic subunit Pph21p or Pph22p; required for cell morphogenesis and transcription by RNA polymerase III
+S000031874	CDS					YAL016W		1	124879	126786	W		2011-02-03	1996-07-31	
+S000028728	ORF	Dubious	YAL016C-A			chromosome 1		1	125069	124755	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF TPD3/YAL016W
+S000032719	CDS					YAL016C-A		1	125069	124755	C		2011-02-03	2003-07-29	
+S000000013	ORF	Verified	YAL015C	NTG1	bifunctional N-glycosylase/AP lyase NTG1|ogg2|SCR1|FUN33	chromosome 1	L000004114	1	128102	126903	C		2011-02-03	1996-07-31	DNA N-glycosylase and apurinic/apyrimidinic (AP) lyase; involved in base excision repair; acts in both nucleus and mitochondrion; creates a double-strand break at mtDNA origins that stimulates replication in response to oxidative stress; required for maintaining mitochondrial genome integrity; NTG1 has a paralog, NTG2, that arose from the whole genome duplication
+S000036247	CDS					YAL015C		1	128102	126903	C		2011-02-03	1996-07-31	
+S000000012	ORF	Verified	YAL014C	SYN8	syntaxin|SLT2|UIP2	chromosome 1		1	129019	128252	C		2011-02-03	2002-12-17|1996-07-31	Endosomal SNARE related to mammalian syntaxin 8
+S000036146	CDS					YAL014C		1	129019	128252	C		2011-02-03	2002-12-17|1996-07-31	
+S000000011	ORF	Verified	YAL013W	DEP1	Rpd3L histone deacetylase complex subunit DEP1|FUN54	chromosome 1	L000000502	1	129270	130487	W	12	2011-02-03	2003-12-15|1996-07-31|2011-02-03	Component of the Rpd3L histone deacetylase complex; required for diauxic shift-induced histone H2B deposition onto rDNA genes; transcriptional modulator involved in regulation of structural phospholipid biosynthesis genes and metabolically unrelated genes, as well as maintenance of telomeres, mating efficiency, and sporulation
+S000036100	CDS					YAL013W		1	129270	130487	W		2011-02-03	2003-12-15|1996-07-31|2011-02-03	
+S000000010	ORF	Verified	YAL012W	CYS3	cystathionine gamma-lyase CYS3|STR1|FUN35|CYI1	chromosome 1	L000000470	1	130799	131983	W	-16	2011-02-03	1996-07-31	Cystathionine gamma-lyase; catalyzes one of the two reactions involved in the transsulfuration pathway that yields cysteine from homocysteine with the intermediary formation of cystathionine; protein abundance increases in response to DNA replication stress
+S000035250	CDS					YAL012W		1	130799	131983	W		2011-02-03	1996-07-31	
+S000000009	ORF	Verified	YAL011W	SWC3	SWC1	chromosome 1		1	132199	134076	W		2011-02-03	2003-09-22|1996-07-31	Protein of unknown function; component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; required for formation of nuclear-associated array of smooth endoplasmic reticulum known as karmellae
+S000035116	CDS					YAL011W		1	132199	134076	W		2011-02-03	2003-09-22|1996-07-31	
+S000000008	ORF	Verified	YAL010C	MDM10	FUN37	chromosome 1	L000000648|L000001053	1	135665	134184	C		2011-02-03	1996-07-31|2011-02-03	Subunit of both the ERMES and the SAM complex; component of ERMES complex which acts as a molecular tether between the mitochondria and the ER, necessary for efficient phospholipid exchange between organelles and for mitophagy; SAM/TOB complex component that functions in the assembly of outer membrane beta-barrel proteins; involved in mitochondrial inheritance and morphology; ERMES complex is often co-localized with peroxisomes and concentrated areas of pyruvate dehydrogenase
+S000034958	CDS					YAL010C		1	135665	134184	C		2011-02-03	1996-07-31|2011-02-03	
+S000000007	ORF	Verified	YAL009W	SPO7	Nem1-Spo7 phosphatase regulatory subunit SPO7	chromosome 1	L000002000	1	135854	136633	W	-4	2011-02-03	1996-07-31	Putative regulatory subunit of Nem1p-Spo7p phosphatase holoenzyme; regulates nuclear growth by controlling phospholipid biosynthesis, required for normal nuclear envelope morphology, premeiotic replication, and sporulation
+S000034070	CDS					YAL009W		1	135854	136633	W		2011-02-03	1996-07-31	
+S000000006	ORF	Verified	YAL008W	FUN14	MCP3	chromosome 1	L000000636	1	136914	137510	W		2011-02-03	1996-07-31	Integral mitochondrial outer membrane (MOM) protein; dosage suppressor of an MDM10 null that reduces ERMES-related phenotypes, such as alterations in mitochondrial morphology, protein complex assembly, and lipid profile; dosage suppressor of MDM12, MDM34, and MMM1 null mutant growth defects; novel mechanism of MOM import involving Tom70p, the TOM complex, and the TIM23 complex, requiring mitochondrial membrane potential and processing by the IMP complex for correct biogenesis
+S000033957	CDS					YAL008W		1	136914	137510	W		2011-02-03	1996-07-31	
+S000000005	ORF	Verified	YAL007C	ERP2		chromosome 1	L000004679	1	138345	137698	C		2011-02-03	1996-07-31	Member of the p24 family involved in ER to Golgi transport; similar to Emp24p and Erv25p; role in misfolded protein quality control; forms a heterotrimeric complex with Erp1p, Emp24p, and Erv25p; localized to COPII-coated vesicles; ERP2 has a paralog, ERP4, that arose from the whole genome duplication
+S000033112	CDS					YAL007C		1	138345	137698	C		2011-02-03	1996-07-31	
+S000006786	long_terminal_repeat		YALCdelta2			chromosome 1		1	138992	138831	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006680	tRNA_gene		tP(UGG)A	TRN1		chromosome 1	L000003601	1	139152	139254	W	-2	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin; can mutate to suppress +1 frameshift mutations in proline codons
+S000035969	intron					tP(UGG)A		1	139188	139218	W		2011-02-03	2000-05-19	
+S000035967	noncoding_exon					tP(UGG)A		1	139152	139187	W		2011-02-03	2000-05-19	
+S000035968	noncoding_exon					tP(UGG)A		1	139219	139254	W		2011-02-03	2000-05-19	
+S000002136	ORF	Dubious	YAL004W			chromosome 1		1	140760	141407	W		2011-02-03	1996-07-31|2007-04-05	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene SSA1/YAL005C
+S000032057	CDS					YAL004W		1	140760	141407	W		2011-02-03	1996-07-31|2007-04-05	
+S000000004	ORF	Verified	YAL005C	SSA1	Hsp70 family ATPase SSA1|YG100	chromosome 1	L000002069	1	141431	139503	C	-1	2011-02-03	1996-07-31|2007-04-05	ATPase involved in protein folding and NLS-directed nuclear transport; member of HSP70 family; required for ubiquitin-dependent degradation of short-lived proteins; forms chaperone complex with Ydj1p; localized to nucleus, cytoplasm, cell wall; 98% identical to paralog Ssa2p with different functional specificity in propagation of yeast [URE3] prions, vacuolar-mediated degradations of gluconeogenesis enzymes; general targeting factor of Hsp104p to prion fibrils
+S000032096	CDS					YAL005C		1	141431	139503	C		2011-02-03	1996-07-31|2007-04-05	
+S000000003	ORF	Verified	YAL003W	EFB1	translation elongation factor 1 subunit beta|EF-1beta|eEF1Balpha|TEF5	chromosome 1	L000000542	1	142174	143160	W		2011-02-03	1996-07-31|1999-07-17	Translation elongation factor 1 beta; stimulates nucleotide exchange to regenerate EF-1 alpha-GTP for the next elongation cycle; part of the EF-1 complex, which facilitates binding of aminoacyl-tRNA to the ribosomal A site; human homolog EEF1B2 can complement yeast efb1 mutants
+S000031941	CDS					YAL003W		1	142174	142253	W		2011-02-03	1999-07-17|1996-07-31	
+S000031942	CDS					YAL003W		1	142620	143160	W		2011-02-03	1999-07-17|1996-07-31	
+S000031943	intron					YAL003W		1	142254	142619	W		2011-02-03	1999-07-17|1996-07-31	
+S000007500	snoRNA_gene		snR18	SNR18		chromosome 1		1	142367	142468	W		2011-02-03	2000-05-19|2007-05-08	C/D box small nucleolar RNA (snoRNA); commonly referred to as U18; guides 2'-O-methylation of large subunit (LSU) rRNA at positions A649 and C650
+S000036595	noncoding_exon					snR18		1	142367	142468	W		2011-02-03	2000-05-19|2007-05-08	
+S000000002	ORF	Verified	YAL002W	VPS8	CORVET complex membrane-binding subunit VPS8|VPL8|VPT8|FUN15	chromosome 1	L000003013	1	143707	147531	W		2011-02-03	2004-01-14|1996-07-31	Membrane-binding component of the CORVET complex; involved in endosomal vesicle tethering and fusion in the endosome to vacuole protein targeting pathway; interacts with Vps21p; contains RING finger motif
+S000031737	CDS					YAL002W		1	143707	147531	W		2011-02-03	2004-01-14|1996-07-31	
+S000121255	ARS		ARS108		ARSI-147	chromosome 1		1	147398	147717			2014-11-18	2014-11-18|2007-03-07	Autonomously Replicating Sequence
+S000000001	ORF	Verified	YAL001C	TFC3	transcription factor TFIIIC subunit TFC3|tau 138|TSV115|FUN24	chromosome 1	L000000641|L000002287	1	151166	147594	C	-1	2011-02-03	1996-07-31	Subunit of RNA polymerase III transcription initiation factor complex; part of the TauB domain of TFIIIC that binds DNA at the BoxB promoter sites of tRNA and similar genes; cooperates with Tfc6p in DNA binding; largest of six subunits of the RNA polymerase III transcription initiation factor complex (TFIIIC)
+S000030735	CDS					YAL001C		1	151006	147594	C		2011-02-03	1996-07-31	
+S000030734	CDS					YAL001C		1	151166	151097	C		2011-02-03	1996-07-31	
+S000030736	intron					YAL001C		1	151096	151007	C		2011-02-03	1996-07-31	
+S000006463	centromere		CEN1	CEN1		chromosome 1	L000000294	1	151465	151582	W	0	2011-02-03	2000-05-19|2006-05-08	Chromosome I centromere
+S000077257	centromere_DNA_Element_I					CEN1		1	151465	151474	W		2011-02-03	2004-10-04	
+S000077258	centromere_DNA_Element_II					CEN1		1	151475	151557	W		2011-02-03	2004-10-04	
+S000077259	centromere_DNA_Element_III					CEN1		1	151558	151582	W		2011-02-03	2004-10-04	
+S000000063	ORF	Verified	YAR002W	NUP60	FG-nucleoporin NUP60	chromosome 1		1	152257	153876	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier and is involved in gene tethering at the nuclear periphery; relocalizes to the cytosol in response to hypoxia; both NUP1 and NUP60 are homologous to human NUP153
+S000035473	CDS					YAR002W		1	152257	153876	W		2011-02-03	1996-07-31	
+S000002129	ORF	Verified	YAR002C-A	ERP1		chromosome 1	L000004678	1	154724	154065	C		2011-02-03	1999-07-17	Member of the p24 family involved in ER to Golgi transport; role in misfolded protein quality control; forms heterotrimeric complex with Erp2p, Emp24p, and Erv25p; localized to COPII-coated vesicles; ERP1 has a paralog, ERP6, that arose from the whole genome duplication
+S000032940	CDS					YAR002C-A		1	154724	154065	C		2011-02-03	1999-07-17	
+S000000064	ORF	Verified	YAR003W	SWD1	COMPASS subunit protein SWD1|SAF49|CPS50|FUN16	chromosome 1		1	155005	156285	W		2011-02-03	1996-07-31	Subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3 on lysine 4 and is required in transcriptional silencing near telomeres; WD40 beta propeller superfamily member with similarity to mammalian Rbbp7
+S000035547	CDS					YAR003W		1	155005	156285	W		2011-02-03	1996-07-31	
+S000000065	ORF	Verified	YAR007C	RFA1	replication factor A subunit protein RFA1|RPA70|RPA1|FUN3|BUF2	chromosome 1	L000000204|L000001620	1	158619	156754	C	-3	2011-02-03	1996-07-31	Subunit of heterotrimeric Replication Protein A (RPA); RPA is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination; RPA protects against inappropriate telomere recombination, and upon telomere uncapping, prevents cell proliferation by a checkpoint-independent pathway; role in DNA catenation/decatenation pathway of chromosome disentangling; relocalizes to the cytosol in response to hypoxia
+S000036676	CDS					YAR007C		1	158619	156754	C		2011-02-03	1996-07-31	
+S000000066	ORF	Verified	YAR008W	SEN34	tRNA splicing endonuclease subunit SEN34|FUN4	chromosome 1	L000003973	1	158966	159793	W		2011-02-03	1996-07-31	Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease (Sen complex) is composed of Sen2p, Sen15p, Sen34p, and Sen54p; Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface; Sen34p contains the active site for tRNA 3' splice site cleavage and has similarity to Sen2p and to Archaeal tRNA splicing endonuclease
+S000037450	CDS					YAR008W		1	158966	159793	W		2011-02-03	1996-07-31	
+S000077372	ARS		ARS109	ARS101	ARSI-160	chromosome 1		1	159907	160127			2011-02-03	2004-10-18|2006-09-06	ARS containing multiple redundant ORC binding sites; ORC is the acronym for origin recognition complex
+S000121251	ARS_consensus_sequence					ARS109		1	159945	159935	C		2011-02-03	2007-03-07	
+S000118986	ARS_consensus_sequence					ARS109		1	159952	159966	W		2011-02-03	2006-10-02	
+S000006788	long_terminal_repeat		YARCdelta3			chromosome 1		1	160237	160105	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006789	long_terminal_repeat		YARCdelta4			chromosome 1		1	160574	160238	C		2011-02-03	2000-05-19	Ty1 LTR
+S000000067	transposable_element_gene		YAR009C		truncated gag-pol fusion protein|YARCTyB1-1	chromosome 1		1	164187	160597	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; Gag processing produces capsid proteins, Pol is cleaved to produce protease, reverse transcriptase and integrase activities; in YARCTy1-1 TYB is mutant and probably non-functional; protein product forms cytoplasmic foci upon DNA replication stress
+S000037508	CDS					YAR009C		1	164187	160597	C		2011-02-03	1996-07-31	
+S000000068	transposable_element_gene		YAR010C		gag protein|YARCTyA1-1	chromosome 1		1	165866	164544	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; Gag processing produces capsid proteins; in YARCTy1-1 TYB is mutant and probably non-functional
+S000030210	CDS					YAR010C		1	165866	164544	C		2011-02-03	1996-07-31	
+S000006792	LTR_retrotransposon		YARCTy1-1		Ty1	chromosome 1		1	166162	160238	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
+S000006790	long_terminal_repeat		YARCdelta5			chromosome 1		1	166162	165826	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006521	tRNA_gene		tA(UGC)A	TGA1		chromosome 1	L000003602|S000029601|L000002292	1	166267	166339	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
+S000034842	noncoding_exon					tA(UGC)A		1	166267	166339	W		2011-02-03	2000-05-19	
+S000000069	ORF	Verified	YAR014C	BUD14	protein phosphatase regulator BUD14	chromosome 1		1	168871	166742	C		2011-02-03	2004-01-27|1996-07-31|2011-02-03	Protein involved in bud-site selection; Bud14p-Glc7p complex is a cortical regulator of dynein; forms a complex with Kel1p and Kel2p that regulates Bnr1p (formin) to affect actin cable assembly, cytokinesis, and polarized growth; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern; relative distribution to the nucleus increases upon DNA replication stress
+S000031457	CDS					YAR014C		1	168871	166742	C		2011-02-03	2004-01-27|1996-07-31|2011-02-03	
+S000000070	ORF	Verified	YAR015W	ADE1	phosphoribosylaminoimidazolesuccinocarboxamide synthase	chromosome 1	L000000031	1	169375	170295	W	4	2011-02-03	1996-07-31	N-succinyl-5-aminoimidazole-4-carboxamide ribotide synthetase; required for 'de novo' purine nucleotide biosynthesis; red pigment accumulates in mutant cells deprived of adenine; protein abundance increases in response to DNA replication stress
+S000031548	CDS					YAR015W		1	169375	170295	W		2011-02-03	1996-07-31	
+S000000071	ORF	Verified	YAR018C	KIN3	serine/threonine protein kinase KIN3|NPK1|FUN52	chromosome 1	L000000903	1	171703	170396	C		2011-02-03	1996-07-31	Nonessential serine/threonine protein kinase; possible role in DNA damage response; influences tolerance to high levels of ethanol
+S000032711	CDS					YAR018C		1	171703	170396	C		2011-02-03	1996-07-31	
+S000028735	ORF	Dubious	YAR019W-A			chromosome 1		1	174998	175330	W		2011-02-03	2003-07-29|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF CDC15/YAR019C
+S000033379	CDS					YAR019W-A		1	174998	175330	W		2011-02-03	2003-07-29|2011-02-03	
+S000000072	ORF	Verified	YAR019C	CDC15	serine/threonine protein kinase CDC15|LYT1	chromosome 1	L000000255	1	175135	172211	C	6	2011-02-03	1996-07-31|2011-02-03	Protein kinase of the Mitotic Exit Network; localized to the spindle pole bodies at late anaphase; promotes mitotic exit by directly switching on the kinase activity of Dbf2p; required for spindle disassembly after meiosis II; relocalizes to the cytoplasm upon DNA replication stress
+S000032794	CDS					YAR019C		1	175135	172211	C		2011-02-03	1996-07-31|2011-02-03	
+S000114488	ARS		ARS110	ARS110	ARSI-176	chromosome 1		1	176157	176404			2011-02-03	2006-09-06|2006-02-28	Autonomously Replicating Sequence; originally referred to as ADE1 ARS
+S000178037	ARS_consensus_sequence					ARS110		1	176232	176248	W		2014-11-18	2014-11-18	
+S000000073	ORF	Verified	YAR020C	PAU7	seripauperin PAU7	chromosome 1		1	177023	176856	C		2011-02-03	1996-07-31	Member of the seripauperin multigene family; active during alcoholic fermentation, regulated by anaerobiosis, inhibited by oxygen, repressed by heme
+S000034578	CDS					YAR020C		1	177023	176856	C		2011-02-03	1996-07-31	
+S000000074	ORF	Uncharacterized	YAR023C		DUP240 family protein	chromosome 1		1	179820	179281	C		2011-02-03	1996-07-31|2011-02-03	Putative integral membrane protein; member of DUP240 gene family
+S000035643	CDS					YAR023C		1	179820	179281	C		2011-02-03	1996-07-31|2011-02-03	
+S000006636	tRNA_gene		tL(CAA)A	SUP56		chromosome 1	L000003603	1	181141	181254	W	10	2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; can mutate to suppress amber nonsense mutations
+S000033745	intron					tL(CAA)A		1	181179	181210	W		2011-02-03	2000-05-19	
+S000033743	noncoding_exon					tL(CAA)A		1	181141	181178	W		2011-02-03	2000-05-19	
+S000033744	noncoding_exon					tL(CAA)A		1	181211	181254	W		2011-02-03	2000-05-19	
+S000006719	tRNA_gene		tS(AGA)A			chromosome 1	L000003604	1	182603	182522	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000032337	noncoding_exon					tS(AGA)A		1	182603	182522	C		2011-02-03	2000-05-19	
+S000006795	long_terminal_repeat		YARWsigma1			chromosome 1		1	182620	182959	W		2011-02-03	2000-05-19	Ty3 LTR
+S000006793	long_terminal_repeat		YARWdelta6			chromosome 1		1	183142	183474	W		2011-02-03	2000-05-19	Ty1 LTR
+S000000075	ORF	Verified	YAR027W	UIP3	DUP240 family protein UIP3	chromosome 1		1	183770	184477	W		2011-02-03	1996-07-31	Putative integral membrane protein of unknown function; interacts with Ulp1p at the nuclear periphery; member of DUP240 gene family
+S000036855	CDS					YAR027W		1	183770	184477	W		2011-02-03	1996-07-31	
+S000000076	ORF	Uncharacterized	YAR028W		DUP240 family protein	chromosome 1		1	184892	185596	W		2011-02-03	1996-07-31	Putative integral membrane protein; member of DUP240 gene family; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
+S000036899	CDS					YAR028W		1	184892	185596	W		2011-02-03	1996-07-31	
+S000000077	ORF	Uncharacterized	YAR029W		DUP240 family protein	chromosome 1		1	186321	186545	W		2011-02-03	1996-07-31	Member of DUP240 gene family but contains no transmembrane domains; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
+S000036967	CDS					YAR029W		1	186321	186545	W		2011-02-03	1996-07-31	
+S000000078	ORF	Verified	YAR031W	PRM9	pheromone-regulated DUP240 family protein PRM9	chromosome 1		1	186836	187732	W		2011-02-03	1996-07-31	Pheromone-regulated protein; contains 3 predicted transmembrane segments and an FF sequence, a motif involved in COPII binding; member of DUP240 gene family; PRM9 has a paralog, PRM8, that arose from a segmental duplication
+S000030609	CDS					YAR031W		1	186836	187732	W		2011-02-03	1996-07-31	
+S000001821	ORF	Dubious	YAR030C			chromosome 1		1	186853	186512	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YAR029W and the verified gene PRM9
+S000036694	CDS					YAR030C		1	186853	186512	C		2011-02-03	1996-07-31	
+S000000079	ORF	Verified	YAR033W	MST28	DUP240 family protein MST28	chromosome 1		1	188107	188811	W		2011-02-03	1996-07-31	Putative integral membrane protein, involved in vesicle formation; forms complex with Mst27p; member of DUP240 gene family; binds COPI and COPII vesicles; MST28 has a paralog, MST27, that arose from a segmental duplication
+S000030819	CDS					YAR033W		1	188107	188811	W		2011-02-03	1996-07-31	
+S000006794	long_terminal_repeat		YARWdelta7			chromosome 1		1	189426	189757	W		2011-02-03	2000-05-19	Ty2 LTR
+S000000080	ORF	Verified	YAR035W	YAT1	carnitine O-acetyltransferase YAT1	chromosome 1	L000002497	1	190193	192256	W		2011-02-03	1996-07-31	Outer mitochondrial carnitine acetyltransferase; minor ethanol-inducible enzyme involved in transport of activated acyl groups from the cytoplasm into the mitochondrial matrix; phosphorylated
+S000031976	CDS					YAR035W		1	190193	192256	W		2011-02-03	1996-07-31	
+S000028595	ORF	Uncharacterized	YAR035C-A			chromosome 1		1	192417	192337	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; predicted to have a role in cell budding based on computational "guilt by association" analysis
+S000031375	CDS					YAR035C-A		1	192417	192337	C		2011-02-03	2003-07-29	
+S000000081	ORF	Verified	YAR042W	SWH1	oxysterol-binding protein related protein SWH1|OSH1|YAR044W	chromosome 1	L000002249	1	192619	196185	W		2011-02-03	2003-09-27|2006-01-19|1996-07-31	Protein similar to mammalian oxysterol-binding protein; contains ankyrin repeats and FFAT motif; interacts with ER anchor Scs2p at the nucleus-vacuole junction; regulated by sterol binding; SWH1 has a paralog, OSH2, that arose from the whole genome duplication
+S000035065	CDS					YAR042W		1	192619	196185	W		2011-02-03	2003-09-27|2006-01-19|1996-07-31	
+S000000083	ORF	Dubious	YAR047C			chromosome 1		1	201787	201467	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031684	CDS					YAR047C		1	201787	201467	C		2011-02-03	1996-07-31	
+S000000084	ORF	Verified	YAR050W	FLO1	flocculin FLO1|FLO4|FLO2	chromosome 1	L000000617|L000000616	1	203403	208016	W	44	2011-02-03	1998-09-02|1996-07-31	Lectin-like protein involved in flocculation; cell wall protein that binds mannose chains on the surface of other cells, confers floc-forming ability that is chymotrypsin sensitive and heat resistant; important for co-flocculation with other yeasts, mediating interaction with specific species; FLO1 has a paralog, FLO5, that arose from a segmental duplication
+S000036444	CDS					YAR050W		1	203403	208016	W		2011-02-03	1998-09-02|1996-07-31	
+S000000085	ORF	Dubious	YAR053W			chromosome 1		1	208367	208663	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037285	CDS					YAR053W		1	208367	208663	W		2011-02-03	1996-07-31	
+S000006791	long_terminal_repeat		YARCdelta8			chromosome 1		1	209778	209448	C		2011-02-03	2000-05-19	Ty1 LTR
+S000121256	ARS		ARS111		ARSI-215	chromosome 1		1	214888	215644			2011-02-03	2007-03-07	Autonomously Replicating Sequence
+S000178038	ARS_consensus_sequence					ARS111		1	215028	215012	C		2014-11-18	2014-11-18	
+S000000086	ORF	Dubious	YAR060C			chromosome 1		1	217492	217157	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YAR060C has a paralog, YHR212C, that arose from a segmental duplication
+S000032661	CDS					YAR060C		1	217492	217157	C		2011-02-03	1996-07-31	
+S000000087	pseudogene		YAR061W		YAR062W	chromosome 1		1	218140	219145	W		2014-11-18	1996-07-31|2014-11-18	Pseudogenic fragment with similarity to flocculins; YAR061W has a paralog, YHR212W-A, that arose from a segmental duplication
+S000033393	CDS					YAR061W		1	218140	219145	W		2014-11-18	1996-07-31|2014-11-18	
+S000000089	ORF	Uncharacterized	YAR064W			chromosome 1		1	220198	220497	W		2011-02-03	1996-07-31	Pseudogenic fragment with similarity to flocculins; YAR064W has a paralog, YHR213W-B, that arose from a segmental duplication
+S000033577	CDS					YAR064W		1	220198	220497	W		2011-02-03	1996-07-31	
+S000002144	ORF	Uncharacterized	YAR066W			chromosome 1		1	221049	221660	W		2011-02-03	1996-07-31	Putative GPI protein; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; YAR066W has a paralog, YHR214W, that arose from a segmental duplication
+S000034603	CDS					YAR066W		1	221049	221660	W		2011-02-03	1996-07-31	
+S000000091	ORF	Uncharacterized	YAR068W			chromosome 1		1	222406	222891	W		2011-02-03	1996-07-31	Fungal-specific protein of unknown function; induced in respiratory-deficient cells; YAR068W has a paralog, YHR214W-A, that arose from a segmental duplication
+S000035691	CDS					YAR068W		1	222406	222891	W		2011-02-03	1996-07-31	
+S000121257	ARS		ARS112		ARSI-223	chromosome 1		1	222880	224046			2011-02-03	2007-03-07	Autonomously Replicating Sequence
+S000000092	ORF	Dubious	YAR069C			chromosome 1		1	224304	224011	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a protein, based on available experimental and comparative sequence data; YAR069C has a paralog, YHR214C-D, that arose from a segmental duplication
+S000035758	CDS					YAR069C		1	224304	224011	C		2011-02-03	1996-07-31	
+S000000093	ORF	Dubious	YAR070C			chromosome 1		1	224862	224563	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a protein, based on available experimental and comparative sequence data; YAR070C has a paralog, YHR214C-B, that arose from a segmental duplication
+S000036733	CDS					YAR070C		1	224862	224563	C		2011-02-03	1996-07-31	
+S000000094	ORF	Verified	YAR071W	PHO11	acid phosphatase PHO11	chromosome 1	L000001423	1	225460	226863	W	48	2011-02-03	1996-07-31	One of three repressible acid phosphatases; glycoprotein that is transported to the cell surface by the secretory pathway; induced by phosphate starvation and coordinately regulated by PHO4 and PHO2; PHO11 has a paralog, PHO12, that arose from a segmental duplication
+S000036824	CDS					YAR071W		1	225460	226863	W		2011-02-03	1996-07-31	
+S000000095	ORF	Dubious	YAR073W	IMD1		chromosome 1		1	227742	228953	W		2011-02-03	1996-07-31	Nonfunctional protein with homology to IMP dehydrogenase; blocked reading frame, located close to the telomere; not expressed at detectable levels; YAR073W and YAR075W comprise a continuous reading frame in most strains of S. cerevisiae; YAR073W/YAR075W together have a paralog, IMD2, that arose from a segmental duplication
+S000037618	CDS					YAR073W		1	227742	228953	W		2011-02-03	1996-07-31	
+S000002145	ORF	Dubious	YAR075W			chromosome 1		1	228844	229317	W		2011-02-03	1996-07-31	Non-functional protein with homology IMP dehydrogenase; YAR073W/IMD1 and YAR075W comprise a continuous reading frame in most strains of S. cerevisiae; YAR073W/YAR075W together have a paralog, IMD2, that arose from a segmental duplication
+S000037740	CDS					YAR075W		1	228844	229317	W		2011-02-03	1996-07-31	
+S000028937	telomere		TEL01R			chromosome 1		1	229411	230218	W	51	2011-02-03	2003-09-09|2011-02-03	Telomeric region on the right arm of Chromosome I; composed of an X element core sequence and a short terminal stretch of telomeric repeats
+S000028938	telomeric_repeat					TEL01R		1	230121	230218	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome I
+S000028939	X_element					TEL01R		1	229411	229871	W		2011-02-03	2003-09-09|2011-02-03	Telomeric X element Core sequence on the right arm of Chromosome I; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028438	ARS		ARS1001			chromosome 10		10	65	577			2002-12-16	2002-12-16	Autonomously Replicating Sequence
+S000028665	ORF	Dubious	YJL225W-A			chromosome 10		10	829	1311	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized gene YJL225C
+S000032490	CDS					YJL225W-A		10	829	1311	W		2003-07-29	2003-07-29	
+S000003760	ORF	Uncharacterized	YJL225C		Y' element ATP-dependent helicase	chromosome 10		10	6130	466	C		1996-07-31	1996-07-31	Putative Y' element ATP-dependent helicase
+S000033322	CDS					YJL225C		10	4581	466	C		1996-07-31	1996-07-31	
+S000033321	CDS					YJL225C		10	6130	4970	C		1996-07-31	1996-07-31	
+S000033323	intron					YJL225C		10	4969	4582	C		1996-07-31	1996-07-31	
+S000028439	ARS		ARS1002			chromosome 10		10	7445	7943			2002-12-16	2002-12-16	Autonomously Replicating Sequence
+S000028901	telomere		TEL10L			chromosome 10		10	7767	1	C	-125	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome X; composed of an X element core sequence, X element combinatorial repeats, a long Y' element, and a short terminal stretch of telomeric repeats
+S000028902	telomeric_repeat					TEL10L		10	60	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome X
+S000028903	X_element					TEL10L		10	7767	7305	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome X; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028904	X_element_combinatorial_repeat					TEL10L		10	7304	6932	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr X; contains a repeat of the D type with a group I mitochondrial bI4 intron insertion; formerly called SubTelomeric Repeats
+S000028905	Y_prime_element					TEL10L		10	6931	61	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome X; contains an ARS consensus sequence, a region of 36-bp repeats, and two ORFs YJL225C and YJL225W-A
+S000003759	ORF	Verified	YJL223C	PAU1	seripauperin PAU1	chromosome 10	L000001343	10	9138	8776	C		1996-07-31	1996-07-31	Member of the seripauperin multigene family; encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole; active during alcoholic fermentation; regulated by anaerobiosis, negatively regulated by oxygen; repressed by heme; identical to Pau14p
+S000032445	CDS					YJL223C		10	9138	8776	C		1996-07-31	1996-07-31	
+S000028664	ORF	Dubious	YJL222W-B			chromosome 10		10	9346	9483	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032489	CDS					YJL222W-B		10	9346	9483	W		2003-07-29	2003-07-29	
+S000028663	ORF	Dubious	YJL222W-A			chromosome 10		10	9452	9679	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032488	CDS					YJL222W-A		10	9452	9679	W		2003-07-29	2003-07-29	
+S000003758	ORF	Verified	YJL222W	VTH2	signal sequence-binding protein	chromosome 10		10	11475	16124	W		1996-07-31	1996-07-31	Putative membrane glycoprotein; has strong similarity to Vth1p and Pep1p/Vps10p; may be involved in vacuolar protein sorting
+S000032381	CDS					YJL222W		10	11475	16124	W		1996-07-31	1996-07-31	
+S000028440	ARS		ARS1003			chromosome 10		10	16124	16762			2002-12-16	2002-12-16	Autonomously Replicating Sequence
+S000003756	ORF	Dubious	YJL220W			chromosome 10		10	18243	18695	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL221C/FSP2
+S000032208	CDS					YJL220W		10	18243	18695	W		1996-07-31	1996-07-31	
+S000003757	ORF	Verified	YJL221C	IMA4	oligo-1,6-glucosidase IMA4|FSP2	chromosome 10	L000002901	10	18536	16767	C		1996-07-31	1996-07-31	Alpha-glucosidase; weak, but broad substrate specificity for alpha-1,4- and alpha-1,6-glucosides; member of IMA isomaltase family; not required for isomaltose utilization, but Ima4p overexpression allows the ima1 null mutant to grow on isomaltose; identical to IMA3
+S000032237	CDS					YJL221C		10	18536	16767	C		1996-07-31	1996-07-31	
+S000003755	ORF	Verified	YJL219W	HXT9	hexose transporter HXT9	chromosome 10	L000000843	10	19497	21200	W		1996-07-31	1996-07-31	Putative hexose transporter that is nearly identical to Hxt11p; has similarity to major facilitator superfamily (MFS) transporters, expression of HXT9 is regulated by transcription factors Pdr1p and Pdr3p
+S000031251	CDS					YJL219W		10	19497	21200	W		1996-07-31	1996-07-31	
+S000003754	ORF	Uncharacterized	YJL218W		acetyltransferase	chromosome 10		10	21973	22563	W		1996-07-31	1996-07-31	Putative acetyltransferase; similar to bacterial galactoside O-acetyltransferases; induced by oleate in an OAF1/PIP2-dependent manner; promoter contains an oleate response element consensus sequence; non-essential gene
+S000031119	CDS					YJL218W		10	21973	22563	W		1996-07-31	1996-07-31	
+S000003753	ORF	Verified	YJL217W	REE1		chromosome 10		10	23133	23729	W		1996-07-31	1996-07-31	Cytoplasmic protein involved in the regulation of enolase (ENO1); mRNA expression is induced by calcium shortage, copper deficiency (via Mac1p) and the presence of galactose (via Gal4p); mRNA expression is also regulated by the cell cycle
+S000030093	CDS					YJL217W		10	23133	23729	W		1996-07-31	1996-07-31	
+S000028441	ARS		ARS1004			chromosome 10		10	23662	24158			2002-12-16	2002-12-16	Autonomously Replicating Sequence
+S000178121	ARS_consensus_sequence					ARS1004		10	23819	23835	W		2014-11-18	2014-11-18	
+S000003752	ORF	Verified	YJL216C	IMA5	oligo-1,6-glucosidase IMA5	chromosome 10		10	26086	24341	C		1996-07-31	1996-07-31	Alpha-glucosidase; specificity for isomaltose, maltose, and palatinose, but not alpha-methylglucoside; most distant member of the IMA isomaltase family, but with similar catalytic properties as Ima1p and Ima2p; not required for isomaltose utilization, but Ima5p overexpression allows the ima1 null mutant to grow on isomaltose; can cleave alpha-1,3 linkage of nigerose and turanose and alpha-1,5 linkage of leucrose and is very sensitive to temperature in vitro
+S000029921	CDS					YJL216C		10	26086	24341	C		1996-07-31	1996-07-31	
+S000003751	ORF	Dubious	YJL215C			chromosome 10		10	26771	26412	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037269	CDS					YJL215C		10	26771	26412	C		1996-07-31	1996-07-31	
+S000003750	ORF	Verified	YJL214W	HXT8	hexose transporter HXT8	chromosome 10	L000000842	10	26887	28596	W		1996-07-31	1996-07-31	Protein of unknown function with similarity to hexose transporters; expression is induced by low levels of glucose and repressed by high levels of glucose
+S000037229	CDS					YJL214W		10	26887	28596	W		1996-07-31	1996-07-31	
+S000003749	ORF	Verified	YJL213W			chromosome 10		10	32163	33158	W		1996-07-31	1996-07-31	Protein of unknown function that may interact with ribosomes; periodically expressed during the yeast metabolic cycle; phosphorylated in vitro by the mitotic exit network (MEN) kinase complex, Dbf2p/Mob1p
+S000037130	CDS					YJL213W		10	32163	33158	W		1996-07-31	1996-07-31	
+S000003748	ORF	Verified	YJL212C	OPT1	oligopeptide transporter OPT1|GSH11|HGT1	chromosome 10		10	36249	33850	C		1996-07-31	1996-07-31	Proton-coupled oligopeptide transporter of the plasma membrane; also transports glutathione and phytochelatin; member of the OPT family
+S000037000	CDS					YJL212C		10	36249	33850	C		1996-07-31	1996-07-31	
+S000003746	ORF	Verified	YJL210W	PEX2	ubiquitin-protein ligase peroxin 2|PAS5|CRT1	chromosome 10	L000000422|L000003076	10	36919	37734	W		1996-07-31	1996-07-31	RING-finger peroxin and E3 ubiquitin ligase; peroxisomal membrane protein with a C-terminal zinc-binding RING domain, forms translocation subcomplex with Pex10p and Pex12p which functions in peroxisomal matrix protein import
+S000036292	CDS					YJL210W		10	36919	37734	W		1996-07-31	1996-07-31	
+S000003747	ORF	Dubious	YJL211C			chromosome 10		10	37200	36757	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL210W/PEX2
+S000036326	CDS					YJL211C		10	37200	36757	C		1996-07-31	1996-07-31	
+S000003745	ORF	Verified	YJL209W	CBP1		chromosome 10	L000000224	10	38005	39969	W		1996-07-31	1996-07-31	Mitochondrial protein, regulator of COB mRNA stability and translation; interacts with the 5'-untranslated region of the COB mRNA; found in a complex at the inner membrane along with Pet309p; localizes to mitochondrial foci upon DNA replication stress
+S000034944	CDS					YJL209W		10	38005	39969	W		1996-07-31	1996-07-31	
+S000003744	ORF	Verified	YJL208C	NUC1	ribonuclease	chromosome 10	L000001283	10	41183	40194	C		1996-07-31	1996-07-31	Major mitochondrial nuclease; has RNAse and DNA endo- and exonucleolytic activities; roles in mitochondrial recombination, apoptosis and maintenance of polyploidy; involved in fragmentation of genomic DNA during PND (programmed nuclear destruction); encodes ortholog of mammalian endoG
+S000033945	CDS					YJL208C		10	41183	40194	C		1996-07-31	1996-07-31	
+S000003743	ORF	Verified	YJL207C	LAA1		chromosome 10		10	47433	41389	C		1996-07-31	1996-07-31	AP-1 accessory protein; colocalizes with clathrin to the late-Golgi apparatus; involved in TGN-endosome transport; physically interacts with AP-1; similar to the mammalian p200; may interact with ribosomes; YJL207C is a non-essential gene
+S000033803	CDS					YJL207C		10	47433	41389	C		1996-07-31	1996-07-31	
+S000003741	ORF	Uncharacterized	YJL206C			chromosome 10		10	49935	47659	C		1996-07-31	1996-07-31	Putative protein of unknown function; similar to transcriptional regulators from the Zn[2]-Cys[6] binuclear cluster protein family; mRNA is weakly cell cycle regulated, peaking in S phase; induced rapidly upon MMS treatment
+S000033077	CDS					YJL206C		10	49935	47659	C		1996-07-31	1996-07-31	
+S000003742	ORF	Verified	YJL205C	NCE101	YJL205C-A|YJL206C-A|NCE1	chromosome 10	L000003097	10	50443	50139	C		1996-07-31	1996-07-31	Protein of unknown function; involved in secretion of proteins that lack classical secretory signal sequences; SWAT-GFP and mCherry fusion proteins localize to the cytosol
+S000034430	CDS					YJL205C		10	50268	50139	C		1996-07-31	1996-07-31	
+S000034429	CDS					YJL205C		10	50443	50412	C		1996-07-31	1996-07-31	
+S000034431	intron					YJL205C		10	50411	50269	C		1996-07-31	1996-07-31	
+S000003740	ORF	Verified	YJL204C	RCY1		chromosome 10		10	53151	50629	C		1996-07-31	1996-07-31	F-box protein involved in recycling endocytosed proteins; involved in recycling plasma membrane proteins internalized by endocytosis; localized to sites of polarized growth; direct interaction with C-terminal cytoplasmic region of Drs2p plays an important role for Drs2p function in endocytic recycling pathway
+S000032878	CDS					YJL204C		10	53151	50629	C		1996-07-31	1996-07-31	
+S000003739	ORF	Verified	YJL203W	PRP21	SPP91	chromosome 10	L000001507	10	53341	54183	W		1996-07-31	1996-07-31	Subunit of the SF3a splicing factor complex; required for spliceosome assembly
+S000032839	CDS					YJL203W		10	53341	54183	W		1996-07-31	1996-07-31	
+S000003738	ORF	Dubious	YJL202C			chromosome 10		10	54290	53943	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 3' end of essential PRP21 gene encoding a subunit of the SF3a splicing factor complex
+S000031876	CDS					YJL202C		10	54290	53943	C		1996-07-31	1996-07-31	
+S000003737	ORF	Verified	YJL201W	ECM25		chromosome 10	L000003897	10	54379	56178	W		1996-07-31	1996-07-31	Non-essential protein of unknown function; promoter contains a consensus binding sequence for factor Abf1p
+S000031819	CDS					YJL201W		10	54379	56178	W		1996-07-31	1996-07-31	
+S000003736	ORF	Verified	YJL200C	ACO2	aconitate hydratase ACO2	chromosome 10		10	58813	56444	C		1996-07-31	1996-07-31	Putative mitochondrial aconitase isozyme; similarity to Aco1p, an aconitase required for the TCA cycle; expression induced during growth on glucose, by amino acid starvation via Gcn4p, and repressed on ethanol
+S000031641	CDS					YJL200C		10	58813	56444	C		1996-07-31	1996-07-31	
+S000006743	tRNA_gene		tT(AGU)J			chromosome 10	L000003628	10	59172	59100	C		2000-05-19	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000032173	noncoding_exon					tT(AGU)J		10	59172	59100	C		2000-05-19	2000-05-19	
+S000007027	long_terminal_repeat		YJLWdelta1			chromosome 10		10	59505	59784	W		2011-02-03	2000-05-19	Ty1 LTR
+S000003735	ORF	Uncharacterized	YJL199C	MBB1		chromosome 10		10	60182	59856	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains, not conserved in closely related Saccharomyces species; protein detected in large-scale protein-protein interaction studies; YJL199C is not an essential gene
+S000035098	CDS					YJL199C		10	60182	59856	C		2011-02-03	1996-07-31	
+S000003734	ORF	Verified	YJL198W	PHO90	SPX domain-containing inorganic phosphate transporter	chromosome 10		10	60844	63489	W		2011-02-03	1996-07-31	Low-affinity phosphate transporter; acts upstream of Pho81p in regulation of the PHO pathway; deletion of pho84, pho87, pho89, pho90, and pho91 causes synthetic lethality; transcription independent of Pi and Pho4p activity; overexpression results in vigorous growth; PHO90 has a paralog, PHO87, that arose from the whole genome duplication
+S000034201	CDS					YJL198W		10	60844	63489	W		2011-02-03	1996-07-31	
+S000003733	ORF	Verified	YJL197W	UBP12	putative ubiquitin-specific protease UBP12	chromosome 10	L000003033	10	63805	67569	W		2011-02-03	1996-07-31	Ubiquitin-specific protease; cleaves ubiquitin from ubiquitinated proteins; present in the nucleus and cytoplasm
+S000034104	CDS					YJL197W		10	63805	67569	W		2011-02-03	1996-07-31	
+S000028839	ORF	Dubious	YJL197C-A			chromosome 10		10	66086	65805	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YJL197C/UBP12
+S000034494	CDS					YJL197C-A		10	66086	65805	C		2011-02-03	2003-07-29	
+S000028442	ARS		ARS1005			chromosome 10		10	67663	67736			2014-11-18	2002-12-16|2014-11-18	Autonomously Replicating Sequence
+S000003732	ORF	Verified	YJL196C	ELO1	fatty acid elongase ELO1	chromosome 10	L000003442	10	68782	67850	C		2011-02-03	1996-07-31	Elongase I, medium-chain acyl elongase; catalyzes carboxy-terminal elongation of unsaturated C12-C16 fatty acyl-CoAs to C16-C18 fatty acids; ELO1 has a paralog, ELO2, that arose from the whole genome duplication
+S000033953	CDS					YJL196C		10	68782	67850	C		2011-02-03	1996-07-31	
+S000003730	ORF	Verified	YJL194W	CDC6	AAA family ATPase CDC6	chromosome 10	L000000246	10	69338	70879	W	-124	2011-02-03	1996-07-31	Essential ATP-binding protein required for DNA replication; component of the pre-replicative complex (pre-RC) which requires ORC to associate with chromatin and is in turn required for Mcm2-7p DNA association; homologous to S. pombe Cdc18p; relocalizes from nucleus to cytoplasm upon DNA replication stress; degraded in response to plasma membrane stress
+S000033118	CDS					YJL194W		10	69338	70879	W		2011-02-03	1996-07-31	
+S000003731	ORF	Dubious	YJL195C			chromosome 10		10	69942	69241	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL194W/CDC6
+S000033155	CDS					YJL195C		10	69942	69241	C		2011-02-03	1996-07-31	
+S000003729	ORF	Uncharacterized	YJL193W			chromosome 10		10	71366	72574	W		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to encode a triose phosphate transporter subfamily member based on phylogenetic analysis; similar to YOR307C/SLY41; deletion mutant has a respiratory growth defect
+S000033028	CDS					YJL193W		10	71366	72574	W		2011-02-03	1996-07-31	
+S000003728	ORF	Verified	YJL192C	SOP4	EMC7	chromosome 10		10	73414	72710	C		2011-02-03	1996-07-31	ER-membrane protein; subunit of evolutionarily conserved EMC (Endoplasmic Reticulum Membrane Complex) implicated in ERAD (ER-associated degradation) and proper assembly of multi-pass transmembrane (TM) proteins; EMC acts in yeast as an ER-mitochondria tether that interacts with outer membrane protein Tom5 of TOM (Translocase of the Mitochondrial Outer Membrane) complex; suppressor of pma1-7, deletion of SOP4 slows down export of wild-type Pma1p and Pma1-7 from the ER
+S000032055	CDS					YJL192C		10	73414	72710	C		2011-02-03	1996-07-31	
+S000003727	ORF	Verified	YJL191W	RPS14B	uS11|ribosomal 40S subunit protein S14B|S11|rp59B|S14B|CRY2	chromosome 10	L000000424	10	73787	74611	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; required for ribosome assembly and 20S pre-rRNA processing; mutations confer cryptopleurine resistance; homologous to mammalian ribosomal protein S14 and bacterial S11; RPS14B has a paralog, RPS14A, that arose from the whole genome duplication
+S000032004	CDS					YJL191W		10	73787	73796	W		2011-02-03	1996-07-31	
+S000032005	CDS					YJL191W		10	74205	74611	W		2011-02-03	1996-07-31	
+S000032006	intron					YJL191W		10	73797	74204	W		2011-02-03	1996-07-31	
+S000003726	ORF	Verified	YJL190C	RPS22A	uS8|ribosomal 40S subunit protein S22A|S8|rp50|YS22|S24A|S22A|RPS24	chromosome 10	L000003150|L000001760	10	75302	74910	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S15A and bacterial S8; RPS22A has a paralog, RPS22B, that arose from the whole genome duplication
+S000031736	CDS					YJL190C		10	75302	74910	C		2011-02-03	1996-07-31	
+S000003725	ORF	Verified	YJL189W	RPL39	eL39|ribosomal 60S subunit protein L39|L39e|YL40|L46|L39|SPB2|RPL46	chromosome 10	L000001737	10	75933	76474	W		2011-02-03	1996-07-31|2011-02-03	Ribosomal 60S subunit protein L39; required for ribosome biogenesis; loss of both Rpl31p and Rpl39p confers lethality; also exhibits genetic interactions with SIS1 and PAB1; homologous to mammalian ribosomal protein L39, no bacterial homolog
+S000030844	CDS					YJL189W		10	75933	75938	W		2011-02-03	1996-07-31	
+S000030845	CDS					YJL189W		10	76325	76474	W		2011-02-03	1996-07-31	
+S000030846	intron					YJL189W		10	75939	76324	W		2011-02-03	1996-07-31|2011-02-03	
+S000003724	ORF	Dubious	YJL188C	BUD19		chromosome 10		10	76510	76202	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 88% of ORF overlaps the verified gene RPL39; diploid mutant displays a weak budding pattern phenotype in a systematic assay
+S000037873	CDS					YJL188C		10	76510	76202	C		2011-02-03	1996-07-31|2011-02-03	
+S000003723	ORF	Verified	YJL187C	SWE1	tyrosine protein kinase SWE1|WEE1	chromosome 10	L000002248	10	79262	76803	C		2011-02-03	1996-07-31	Protein kinase that regulates the G2/M transition; negative regulator of the Cdc28p kinase; morphogenesis checkpoint kinase; positive regulator of sphingolipid biosynthesis via Orm2p; phosphorylates a tyrosine residue in the N-terminus of Hsp90 in a cell-cycle associated manner, thus modulating the ability of Hsp90 to chaperone a selected clientele; localizes to the nucleus and to the daughter side of the mother-bud neck; homolog of S. pombe Wee1p; potential Cdc28p substrate
+S000037770	CDS					YJL187C		10	79262	76803	C		2011-02-03	1996-07-31	
+S000003722	ORF	Verified	YJL186W	MNN5	alpha-1,2-mannosyltransferase MNN5	chromosome 10	L000004918	10	80155	81915	W		2011-02-03	1996-07-31|2011-02-03	Alpha-1,2-mannosyltransferase; responsible for addition of the second alpha-1,2-linked mannose of the branches on the mannan backbone of oligosaccharides, localizes to an early Golgi compartment
+S000037744	CDS					YJL186W		10	80155	81915	W		2011-02-03	1996-07-31|2011-02-03	
+S000003721	ORF	Verified	YJL185C	ATG36		chromosome 10		10	82976	82095	C		2011-02-03	1996-07-31	Pex3p interacting protein, required for pexophagy; interacts with Atg8p and Atg11p; mRNA is weakly cell cycle regulated, peaking in G2 phase; YJL185C is a non-essential gene
+S000036951	CDS					YJL185C		10	82976	82095	C		2011-02-03	1996-07-31	
+S000003720	ORF	Verified	YJL184W	GON7	chromatin DNA-binding EKC/KEOPS complex subunit GON7|PCC2|LDB6	chromosome 10		10	83448	83819	W		2011-02-03	1996-07-31	Component of the EKC/KEOPS protein complex; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription; implicated in osmotic stress response; other complex members are Kae1p, Cgi121p, Pcc1p, and Bud32p
+S000036918	CDS					YJL184W		10	83448	83819	W		2011-02-03	1996-07-31	
+S000003719	ORF	Verified	YJL183W	MNN11	alpha-1,6-mannosyltransferase	chromosome 10	L000004260	10	84068	85336	W		2011-02-03	1996-07-31|2011-02-03	Subunit of a Golgi mannosyltransferase complex; this complex also contains Anp1p, Mnn9p, Mnn10p, and Hoc1p, and mediates elongation of the polysaccharide mannan backbone; has homology to Mnn10p
+S000036862	CDS					YJL183W		10	84068	85336	W		2011-02-03	1996-07-31|2011-02-03	
+S000003717	ORF	Uncharacterized	YJL181W	RBH1	RBH1	chromosome 10		10	85660	87495	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression is cell-cycle regulated as shown by microarray analysis; potential regulatory target of Mbp1p, which binds to the YJL181W promoter region; contains a PH-like domain; RBH1 has a paralog, RBH2, that arose from the whole genome duplication
+S000035872	CDS					YJL181W		10	85660	87495	W		2011-02-03	1996-07-31	
+S000003718	ORF	Dubious	YJL182C			chromosome 10		10	85752	85435	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized ORF YJL181W
+S000035944	CDS					YJL182C		10	85752	85435	C		2011-02-03	1996-07-31	
+S000003716	ORF	Verified	YJL180C	ATP12	ATP synthase complex assembly protein ATP12	chromosome 10	L000000149	10	88560	87583	C		2011-02-03	1996-07-31	Assembly factor for F1 sector of mitochondrial F1F0 ATP synthase; conserved protein; required for assembly of alpha and beta subunits into F1 sector of mitochondrial F1F0 ATP synthase; human homolog ATPAF2 can complement yeast atp12 mutant; mutation of human homolog reduces active ATP synthase levels and is associated with the disorder ATPAF2 deficiency
+S000035717	CDS					YJL180C		10	88560	87583	C		2011-02-03	1996-07-31	
+S000003715	ORF	Verified	YJL179W	PFD1	prefolding complex chaperone subunit|GIM6	chromosome 10	L000004367	10	88787	89116	W		2011-02-03	1996-07-31|2011-02-03	Subunit of heterohexameric prefoldin; prefoldin binds cytosolic chaperonin and transfers target proteins to it; involved in the biogenesis of actin and of alpha- and gamma-tubulin; prefoldin complex also localizes to chromatin of actively transcribed genes in the nucleus and facilitates transcriptional elongation
+S000034696	CDS					YJL179W		10	88787	89116	W		2011-02-03	1996-07-31|2011-02-03	
+S000003714	ORF	Verified	YJL178C	ATG27	ETF1	chromosome 10		10	90097	89282	C		2011-02-03	2004-02-12|1996-07-31	Type I membrane protein involved in autophagy and the Cvt pathway; may be involved in membrane delivery to the phagophore assembly site
+S000033739	CDS					YJL178C		10	90097	89282	C		2011-02-03	2004-02-12|1996-07-31	
+S000003713	ORF	Verified	YJL177W	RPL17B	uL22|ribosomal 60S subunit protein L17B|L22|YL17|L20B|L17B	chromosome 10	L000004457	10	90786	91657	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L17B; required for processing of 27SB pre-rRNA and formation of stable 66S assembly intermediates; homologous to mammalian ribosomal protein L17 and bacterial L22; RPL17B has a paralog, RPL17A, that arose from the whole genome duplication
+S000033683	CDS					YJL177W		10	90786	91094	W		2011-02-03	1996-07-31	
+S000033684	CDS					YJL177W		10	91412	91657	W		2011-02-03	1996-07-31	
+S000033685	intron					YJL177W		10	91095	91411	W		2011-02-03	1996-07-31	
+S000003711	ORF	Dubious	YJL175W			chromosome 10		10	94049	94561	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; deletion confers resistance to cisplatin, hypersensitivity to 5-fluorouracil, and growth defect at high pH with high calcium; overlaps gene for SWI3 transcription factor
+S000033497	CDS					YJL175W		10	94049	94561	W		2011-02-03	1996-07-31	
+S000003712	ORF	Verified	YJL176C	SWI3	HAF2|TYE2	chromosome 10	L000002251	10	94530	92053	C		2011-02-03	1996-07-31	Subunit of the SWI/SNF chromatin remodeling complex; SWI/SNF regulates transcription by remodeling chromosomes; contains SANT domain that is required for SWI/SNF assembly; is essential for displacement of histone H2A-H2B dimers during ATP-dependent remodeling; required for transcription of many genes, including ADH1, ADH2, GAL1, HO, INO1 and SUC2; relocates to the cytosol under hypoxic conditions
+S000033535	CDS					YJL176C		10	94530	92053	C		2011-02-03	1996-07-31	
+S000003710	ORF	Verified	YJL174W	KRE9		chromosome 10	L000000916	10	95092	95922	W	-111.26	2011-02-03	1996-07-31	Glycoprotein involved in cell wall beta-glucan assembly; null mutation leads to severe growth defects, aberrant multibudded morphology, and mating defects
+S000032753	CDS					YJL174W		10	95092	95922	W		2011-02-03	1996-07-31	
+S000003709	ORF	Verified	YJL173C	RFA3	RPA14|RPA3	chromosome 10	L000001622	10	96529	96161	C		2011-02-03	1996-07-31	Subunit of heterotrimeric Replication Protein A (RPA); RPA is a highly conserved single-stranded DNA binding protein complex involved in DNA replication, repair, recombination; RPA protects against inappropriate telomere recombination, and upon telomere uncapping, prevents cell proliferation by a checkpoint-independent pathway; with Sgs1p-Top2p-Rmi1p, stimulates DNA catenation/decatenation activity of Top3p; protein abundance increases in response to DNA replication stress
+S000032609	CDS					YJL173C		10	96529	96161	C		2011-02-03	1996-07-31	
+S000003708	ORF	Verified	YJL172W	CPS1	Gly-Xaa carboxypeptidase	chromosome 10	L000000403	10	97737	99467	W		2011-02-03	1996-07-31	Vacuolar carboxypeptidase S; expression is induced under low-nitrogen conditions
+S000032538	CDS					YJL172W		10	97737	99467	W		2011-02-03	1996-07-31	
+S000028443	ARS		ARS1006			chromosome 10		10	99458	99678			2014-11-18	2002-12-16|2014-11-18|2011-02-03	Autonomously Replicating Sequence
+S000178122	ARS_consensus_sequence					ARS1006		10	99617	99601	C		2014-11-18	2014-11-18	
+S000003707	ORF	Verified	YJL171C	TOH1		chromosome 10		10	100894	99704	C		2011-02-03	1996-07-31|2011-02-03	GPI-anchored cell wall protein of unknown function; induced in response to cell wall damaging agents and by mutations in genes involved in cell wall biogenesis; sequence similarity to YBR162C/TOS1, a covalently bound cell wall protein; protein abundance increases in response to DNA replication stress
+S000031523	CDS					YJL171C		10	100894	99704	C		2011-02-03	1996-07-31|2011-02-03	
+S000003706	ORF	Verified	YJL170C	ASG7		chromosome 10	L000004055	10	101779	101150	C		2011-02-03	1996-07-31|2006-01-18	Protein that regulates signaling from G protein beta subunit Ste4p; contributes to relocalization of Ste4p within the cell; specific to a-cells and induced by alpha-factor
+S000031474	CDS					YJL170C		10	101779	101150	C		2011-02-03	1996-07-31|2006-01-18	
+S000003705	ORF	Dubious	YJL169W			chromosome 10		10	102099	102467	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL168C/SET2
+S000030718	CDS					YJL169W		10	102099	102467	W		2011-02-03	1996-07-31|2011-02-03	
+S000003704	ORF	Verified	YJL168C	SET2	histone methyltransferase SET2|KMT3|EZL1	chromosome 10	L000003090	10	104428	102227	C		2011-02-03	1996-07-31|2011-02-03	Histone methyltransferase with a role in transcriptional elongation; methylates H3 lysine 36 (H3K36), which suppresses incorporation of acetylated histones and signals for the deacetylation of these histones within transcribed genes; associates with the C-terminal domain(CTD) of Rpo21p; H3K36me3 (trimethylation) requires Spt6p, proline 38 on H3, CTD of Rpo21p, Ctk1p, and C-terminal SRI domain of Ste2p; relocalizes to the cytosol in response to hypoxia
+S000030590	CDS					YJL168C		10	104428	102227	C		2011-02-03	1996-07-31|2011-02-03	
+S000003703	ORF	Verified	YJL167W	ERG20	bifunctional (2E,6E)-farnesyl diphosphate synthase/dimethylallyltranstransferase|FPP1|FDS1|BOT3	chromosome 10	L000000579	10	105014	106072	W		2011-02-03	1996-07-31	Farnesyl pyrophosphate synthetase; has both dimethylallyltranstransferase and geranyltranstransferase activities; catalyzes the formation of C15 farnesyl pyrophosphate units for isoprenoid and sterol biosynthesis
+S000030519	CDS					YJL167W		10	105014	106072	W		2011-02-03	1996-07-31	
+S000003702	ORF	Verified	YJL166W	QCR8	ubiquinol--cytochrome-c reductase subunit 8|COR5	chromosome 10	L000001548	10	106434	106718	W		2011-02-03	1996-07-31	Subunit 8 of ubiquinol cytochrome-c reductase (Complex III); Complex III is a component of the mitochondrial inner membrane electron transport chain; oriented facing the intermembrane space; expression is regulated by Abf1p and Cpf1p
+S000030370	CDS					YJL166W		10	106434	106718	W		2011-02-03	1996-07-31	
+S000003701	ORF	Verified	YJL165C	HAL5	protein kinase HAL5	chromosome 10	L000000751	10	109461	106894	C		2011-02-03	1996-07-31	Putative protein kinase; overexpression increases sodium and lithium tolerance, whereas gene disruption increases cation and low pH sensitivity and impairs potassium uptake, suggesting a role in regulation of Trk1p and/or Trk2p transporters; HAL5 has a paralog, KKQ8, that arose from the whole genome duplication
+S000037517	CDS					YJL165C		10	109461	106894	C		2011-02-03	1996-07-31	
+S000003700	ORF	Verified	YJL164C	TPK1	cAMP-dependent protein kinase catalytic subunit TPK1|SRA3|PKA1	chromosome 10	L000002045	10	111159	109966	C	-106	2011-02-03	1996-07-31|2011-02-03	cAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; inhibited by regulatory subunit Bcy1p in the absence of cAMP; phosphorylates and inhibits Whi3p to promote G1/S phase passage; partially redundant with Tpk2p and Tpk3p; phosphorylates pre-Tom40p, which impairs its import into mitochondria under non-respiratory conditions; TPK1 has a paralog, TPK3, that arose from the whole genome duplication
+S000037409	CDS					YJL164C		10	111159	109966	C		2011-02-03	1996-07-31|2011-02-03	
+S000003699	ORF	Uncharacterized	YJL163C			chromosome 10		10	113333	111666	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000036682	CDS					YJL163C		10	113333	111666	C		2011-02-03	1996-07-31	
+S000028444	ARS		ARS1007			chromosome 10		10	113678	113749			2014-11-18	2002-12-16|2014-11-18	Autonomously Replicating Sequence
+S000178123	ARS_consensus_sequence					ARS1007		10	113744	113728	C		2014-11-18	2014-11-18	
+S000003698	ORF	Verified	YJL162C	JJJ2		chromosome 10		10	115629	113878	C		2011-02-03	1996-07-31|2006-01-18	Protein of unknown function; contains a J-domain, which is a region with homology to the E. coli DnaJ protein
+S000036580	CDS					YJL162C		10	115629	113878	C		2011-02-03	1996-07-31|2006-01-18	
+S000006557	tRNA_gene		tE(UUC)J			chromosome 10	L000003627	10	116010	115939	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
+S000035988	noncoding_exon					tE(UUC)J		10	116010	115939	C		2011-02-03	2000-05-19	
+S000003697	ORF	Uncharacterized	YJL161W	FMP33		chromosome 10		10	117245	117787	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000036525	CDS					YJL161W		10	117245	117787	W		2011-02-03	1996-07-31	
+S000003696	ORF	Uncharacterized	YJL160C	PIR5	beta-1,3-glucan linked protein	chromosome 10		10	118825	117962	C		2011-02-03	2004-02-19|1996-07-31	Putative protein of unknown function; member of the PIR (Proteins with Internal Repeats) family of cell wall proteins; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, and mCherry fusion localizes to the vacuole; non-essential gene that is required for sporulation; mRNA is weakly cell cycle regulated, peaking in mitosis; YJL160C has a paralog, PIR1, that arose from the whole genome duplication
+S000035585	CDS					YJL160C		10	118825	117962	C		2011-02-03	2004-02-19|1996-07-31	
+S000003695	ORF	Verified	YJL159W	HSP150	heat shock protein HSP150|PIR2|ORE1|CCW7	chromosome 10	L000000824|L000001442	10	120449	121690	W		2011-02-03	2004-02-18|1996-07-31|2006-10-04	O-mannosylated heat shock protein; secreted and covalently attached to the cell wall via beta-1,3-glucan and disulfide bridges; required for cell wall stability; induced by heat shock, oxidative stress, and nitrogen limitation; HSP150 has a paralog, PIR3, that arose from the whole genome duplication
+S000035769	CDS					YJL159W		10	120449	121690	W		2011-02-03	2004-02-18|1996-07-31|2006-10-04	
+S000003694	ORF	Verified	YJL158C	CIS3	SCW8|CCW5|PIR4|CCW11	chromosome 10	S000029072|L000003951|L000004553|S000029439|L000004569	10	122948	122265	C		2011-02-03	1996-07-31	Mannose-containing glycoprotein constituent of the cell wall; member of the PIR (proteins with internal repeats) family
+S000035606	CDS					YJL158C		10	122948	122265	C		2011-02-03	1996-07-31	
+S000003693	ORF	Verified	YJL157C	FAR1	cyclin-dependent protein serine/threonine kinase inhibiting protein FAR1	chromosome 10	L000000600	10	126328	123836	C		2011-02-03	1996-07-31	CDK inhibitor and nuclear anchor; during the cell cycle Far1p sequesters the GEF Cdc24p in the nucleus; phosphorylation by Cdc28p-Cln results in SCFCdc4 complex-mediated ubiquitin-dependent degradation, releasing Cdc24p for export and activation of GTPase Cdc42p; in response to pheromone, phosphorylation of Far1p by MAPK Fus3p results in association with, and inhibition of Cdc28p-Cln, as well as Msn5p mediated nuclear export of Far1p-Cdc24p, targeting Cdc24p to polarity sites
+S000035524	CDS					YJL157C		10	126328	123836	C		2011-02-03	1996-07-31	
+S000007613	ORF	Dubious	YJL156W-A			chromosome 10		10	126604	126825	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037190	CDS					YJL156W-A		10	126604	126825	W		2011-02-03	2001-02-26	
+S000003692	ORF	Verified	YJL156C	SSY5	RAA3	chromosome 10	L000003187|S000029401|L000004045	10	128952	126853	C		2011-02-03	1996-07-31|2009-02-18	Serine protease of SPS plasma membrane amino acid sensor system; contains an inhibitory domain that dissociates in response to extracellular amino acids, freeing a catalytic domain to activate transcription factor Stp1p; other members are Ssy1p and Ptr3p
+S000034507	CDS					YJL156C		10	128952	126853	C		2011-02-03	1996-07-31|2009-02-18	
+S000003691	ORF	Verified	YJL155C	FBP26	fructose-2,6-bisphosphatase	chromosome 10	L000000606	10	130643	129285	C		2011-02-03	1996-07-31	Fructose-2,6-bisphosphatase, required for glucose metabolism; protein abundance increases in response to DNA replication stress
+S000034402	CDS					YJL155C		10	130643	129285	C		2011-02-03	1996-07-31	
+S000003690	ORF	Verified	YJL154C	VPS35	retromer subunit VPS35|VPT7|GRD9	chromosome 10	L000002477	10	133935	131101	C	-102	2011-02-03	1996-07-31	Endosomal subunit of membrane-associated retromer complex; required for retrograde transport; receptor that recognizes retrieval signals on cargo proteins, forms subcomplex with Vps26p and Vps29p that selects cargo proteins for retrieval; interacts with Ypt7p; overexpression of wild-type human VPS35 or Parkinson's-associated vps35-D686N or vps35-P299S variants complements Ni2+ resistance and Cd2+ sensitivity of yeast vps35 null mutant
+S000034312	CDS					YJL154C		10	133935	131101	C		2011-02-03	1996-07-31	
+S000003689	ORF	Verified	YJL153C	INO1	inositol-3-phosphate synthase INO1|APR1	chromosome 10	L000000867	10	135933	134332	C	-101	2011-02-03	2003-09-22|1996-07-31	Inositol-3-phosphate synthase; involved in synthesis of inositol phosphates and inositol-containing phospholipids; transcription is coregulated with other phospholipid biosynthetic genes by Ino2p and Ino4p, which bind the UASINO DNA element
+S000033398	CDS					YJL153C		10	135933	134332	C		2011-02-03	2003-09-22|1996-07-31	
+S000003688	ORF	Dubious	YJL152W			chromosome 10		10	136174	136533	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033364	CDS					YJL152W		10	136174	136533	W		2011-02-03	1996-07-31	
+S000003687	ORF	Verified	YJL151C	SNA3		chromosome 10		10	136773	136372	C		2011-02-03	1996-07-31	Protein involved in efficient MVB sorting of proteins to the vacuole; may function as an RSP5 adapter protein for MVB cargos; integral membrane protein localized to vacuolar intralumenal vesicles
+S000033267	CDS					YJL151C		10	136773	136372	C		2011-02-03	1996-07-31	
+S000003686	ORF	Dubious	YJL150W			chromosome 10		10	137123	137425	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033233	CDS					YJL150W		10	137123	137425	W		2011-02-03	1996-07-31	
+S000003685	ORF	Verified	YJL149W	DAS1	DUH1|SCF ubiquitin ligase complex subunit DAS1	chromosome 10		10	137379	139370	W		2011-02-03	1996-07-31	Putative SCF ubiquitin ligase F-box protein; interacts physically with both Cdc53p and Skp1 and genetically with CDC34; similar to putative F-box protein YDR131C
+S000032472	CDS					YJL149W		10	137379	139370	W		2011-02-03	1996-07-31	
+S000006508	snoRNA_gene		snR128	SNR128	U14	chromosome 10	L000001975	10	139691	139566	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); referred to as U14; essential gene required for cleavage of 35S primary rRNA transcript to release the precursor to the 18S rRNA; guides 2'-O-methylation of small subunit (SSU) rRNA at position C414
+S000035225	noncoding_exon					snR128		10	139691	139566	C		2011-02-03	2000-05-19	
+S000006509	snoRNA_gene		snR190	SNR190		chromosome 10	L000001977	10	139950	139761	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); predicted to guide 2'-O-methylation of large subunit (LSU) rRNA at position G2395; not shown to be active
+S000030414	noncoding_exon					snR190		10	139950	139761	C		2011-02-03	2000-05-19	
+S000003684	ORF	Verified	YJL148W	RPA34	DNA-directed RNA polymerase I subunit RPA34|CST21|A34.5	chromosome 10	L000004132|L000003000|S000029123	10	140437	141138	W		2011-02-03	1996-07-31	RNA polymerase I subunit A34.5; essential for nucleolar assembly and for high polymerase loading rate; nucleolar localization depends on Rpa49p
+S000032342	CDS					YJL148W		10	140437	141138	W		2011-02-03	1996-07-31	
+S000003683	ORF	Uncharacterized	YJL147C	MRX5		chromosome 10		10	142567	141419	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; homozygous diploid deletion strain has a sporulation defect characterized by elevated dityrosine in the soluble fraction; expression induced by calcium shortage; YJL147W is a non-essential gene
+S000031289	CDS					YJL147C		10	142567	141419	C		2011-02-03	1996-07-31	
+S000003682	ORF	Verified	YJL146W	IDS2		chromosome 10	L000000853	10	143292	144701	W		2011-02-03	1996-07-31	Protein involved in modulation of Ime2p activity during meiosis; appears to act indirectly to promote Ime2p-mediated late meiotic functions; found in growing cells and degraded during sporulation
+S000031249	CDS					YJL146W		10	143292	144701	W		2011-02-03	1996-07-31	
+S000003681	ORF	Verified	YJL145W	SFH5		chromosome 10		10	145160	146044	W		2011-02-03	1996-07-31	Non-classical phosphatidylinositol transfer protein (PITP); exhibits PI- but not PC-transfer activity; localizes to the peripheral endoplasmic reticulum, cytosol and microsomes; similar to Sec14p; partially relocalizes to the plasma membrane upon DNA replication stress
+S000031116	CDS					YJL145W		10	145160	146044	W		2011-02-03	1996-07-31	
+S000003680	ORF	Verified	YJL144W			chromosome 10		10	146359	146673	W		2011-02-03	1996-07-31	Cytoplasmic hydrophilin essential in desiccation-rehydration process; expression induced by osmotic stress, starvation and during stationary phase; protein abundance increases in response to DNA replication stress
+S000030090	CDS					YJL144W		10	146359	146673	W		2011-02-03	1996-07-31	
+S000003679	ORF	Verified	YJL143W	TIM17	protein transporter TIM17|SMS1|MPI2|MIM17	chromosome 10	L000001139	10	147101	147577	W		2011-02-03	1996-07-31	Essential component of the TIM23 complex; with Tim23p, contributes to the architecture and function of the import channel; may link the import motor to the core Translocase of the Inner Mitochondrial membrane (TIM23 complex)
+S000029979	CDS					YJL143W		10	147101	147577	W		2011-02-03	1996-07-31	
+S000003678	ORF	Dubious	YJL142C	IRC9		chromosome 10		10	148211	147819	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene YJL141C; null mutant displays increased levels of spontaneous Rad52p foci
+S000037267	CDS					YJL142C		10	148211	147819	C		2011-02-03	1996-07-31	
+S000003677	ORF	Verified	YJL141C	YAK1	serine/threonine protein kinase YAK1	chromosome 10	L000002490	10	150390	147967	C		2011-02-03	1996-07-31	Serine-threonine protein kinase; component of a glucose-sensing system that inhibits growth in response to glucose availability; upon nutrient deprivation Yak1p phosphorylates Pop2p to regulate mRNA deadenylation, the co-repressor Crf1p to inhibit transcription of ribosomal genes, and the stress-responsive transcription factors Hsf1p and Msn2p; nuclear localization negatively regulated by the Ras/PKA signaling pathway in the presence of glucose
+S000037175	CDS					YJL141C		10	150390	147967	C		2011-02-03	1996-07-31	
+S000003676	ORF	Verified	YJL140W	RPB4	DNA-directed RNA polymerase II subunit RPB4|B32|CTF15	chromosome 10	L000001678	10	150961	151626	W		2011-02-03	1996-07-31	RNA polymerase II subunit B32; forms dissociable heterodimer with Rpb7p; Rpb4/7 dissociates from RNAPII as Ser2 CTD phosphorylation increases; Rpb4/7 regulates cellular lifespan via mRNA decay process; involved in recruitment of 3'-end processing factors to transcribing RNAPII complex, export of mRNA to cytoplasm under stress conditions; also involved in translation initiation
+S000037123	CDS					YJL140W		10	150961	151626	W		2011-02-03	1996-07-31	
+S000003675	ORF	Verified	YJL139C	YUR1	mannosyltransferase YUR1	chromosome 10	L000002566	10	152999	151713	C	-90.66	2011-02-03	1996-07-31	Mannosyltransferase involved in protein N-glycosylation; member of the KTR1 family; located in the Golgi apparatus; YUR1 has a paralog, KTR2, that arose from the whole genome duplication
+S000035317	CDS					YJL139C		10	152999	151713	C		2011-02-03	1996-07-31	
+S000003674	ORF	Verified	YJL138C	TIF2	translation initiation factor eIF4A|eIF4A	chromosome 10	L000002303	10	154691	153504	C	-92	2011-02-03	1996-07-31	Translation initiation factor eIF4A; DEA(D/H)-box RNA helicase that couples ATPase activity to RNA binding and unwinding; forms a dumbbell structure of two compact domains connected by a linker; interacts with eIF4G; protein abundance increases in response to DNA replication stress; TIF2 has a paralog, TIF1, that arose from the whole genome duplication
+S000035154	CDS					YJL138C		10	154691	153504	C		2011-02-03	1996-07-31	
+S000003673	ORF	Verified	YJL137C	GLG2	glycogenin glucosyltransferase GLG2	chromosome 10	L000003159	10	156127	154985	C		2011-02-03	1996-07-31	Glycogenin glucosyltransferase; self-glucosylating initiator of glycogen synthesis, also glucosylates n-dodecyl-beta-D-maltoside; similar to mammalian glycogenin; GLG2 has a paralog, GLG1, that arose from the whole genome duplication
+S000035008	CDS					YJL137C		10	156127	154985	C		2011-02-03	1996-07-31	
+S000028806	ORF	Uncharacterized	YJL136W-A			chromosome 10		10	156169	156252	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by SAGE
+S000033589	CDS					YJL136W-A		10	156169	156252	W		2011-02-03	2003-07-29	
+S000003672	ORF	Verified	YJL136C	RPS21B	eS21|ribosomal 40S subunit protein S21B|S21e|YS25|S26B|S21B	chromosome 10	L000003031	10	157273	156550	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S21, no bacterial homolog; RPS21B has a paralog, RPS21A, that arose from the whole genome duplication
+S000034084	CDS					YJL136C		10	156789	156550	C		2011-02-03	1996-07-31	
+S000034083	CDS					YJL136C		10	157273	157250	C		2011-02-03	1996-07-31	
+S000034085	intron					YJL136C		10	157249	156790	C		2011-02-03	1996-07-31	
+S000003671	ORF	Dubious	YJL135W			chromosome 10		10	157877	158194	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified genes YJL134W/LCB3
+S000034027	CDS					YJL135W		10	157877	158194	W		2011-02-03	1996-07-31	
+S000003670	ORF	Verified	YJL134W	LCB3	sphinganine kinase LCB3|YSR2|LBP1	chromosome 10	L000004101	10	158188	159417	W		2011-02-03	1996-07-31	Long-chain base-1-phosphate phosphatase; specific for dihydrosphingosine-1-phosphate, regulates ceramide and long-chain base phosphates levels, involved in incorporation of exogenous long chain bases in sphingolipids; LCB3 has a paralog, YSR3, that arose from the whole genome duplication
+S000033888	CDS					YJL134W		10	158188	159417	W		2011-02-03	1996-07-31	
+S000028805	ORF	Uncharacterized	YJL133C-A			chromosome 10		10	159847	159623	C		2011-02-03	2003-07-29	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000033587	CDS					YJL133C-A		10	159847	159623	C		2011-02-03	2003-07-29	
+S000003669	ORF	Verified	YJL133W	MRS3	Fe(2+) transporter	chromosome 10	L000001179	10	160619	161563	W		2011-02-03	1996-07-31	Iron transporter, mediates Fe2+ transport across inner mito membrane; mitochondrial carrier family member; active under low-iron conditions; may transport other cations; MRS3 has a paralog, MRS4, that arose from the whole genome duplication
+S000033746	CDS					YJL133W		10	160619	161563	W		2011-02-03	1996-07-31	
+S000003668	ORF	Uncharacterized	YJL132W			chromosome 10		10	161914	164166	W		2011-02-03	1996-07-31	Putative protein of unknown function; localizes to the membrane fraction; possible Zap1p-regulated target gene induced by zinc deficiency; YJL132W is a non-essential gene
+S000033018	CDS					YJL132W		10	161914	164166	W		2011-02-03	1996-07-31	
+S000003667	ORF	Verified	YJL131C	AIM23		chromosome 10		10	165348	164278	C		2011-02-03	1996-07-31	Mitochondrial translation initiation factor 3 (IF3, mIF3); evolutionarily conserved; binds to E. coli ribosomes in vitro; null mutant displays severe respiratory growth defect and elevated frequency of mitochondrial genome loss
+S000032877	CDS					YJL131C		10	165348	164278	C		2011-02-03	1996-07-31	
+S000003666	ORF	Verified	YJL130C	URA2	bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase	chromosome 10	L000002431	10	172367	165723	C	-89	2011-02-03	1996-07-31|2011-02-03	Bifunctional carbamoylphosphate synthetase/aspartate transcarbamylase; catalyzes the first two enzymatic steps in the de novo biosynthesis of pyrimidines; both activities are subject to feedback inhibition by UTP
+S000031969	CDS					YJL130C		10	172367	165723	C		2011-02-03	1996-07-31|2011-02-03	
+S000122104	five_prime_UTR_intron					YJL130C		10	172752	172433	C		2011-02-03	2007-04-04	
+S000003665	ORF	Verified	YJL129C	TRK1		chromosome 10	L000002334	10	177306	173599	C		2011-02-03	1996-07-31	Component of the Trk1p-Trk2p potassium transport system; 180 kDa high affinity potassium transporter; phosphorylated in vivo and interacts physically with the phosphatase Ppz1p, suggesting Trk1p acitivy is regulated by phosphorylation; TRK1 has a paralog, TRK2, that arose from the whole genome duplication
+S000032672	CDS					YJL129C		10	177306	173599	C		2011-02-03	1996-07-31	
+S000003664	ORF	Verified	YJL128C	PBS2	mitogen-activated protein kinase kinase PBS2|SSK4|SFS4|HOG4	chromosome 10	L000001346|L000001874	10	180103	178097	C	-85	2011-02-03	1996-07-31|2011-02-03	MAP kinase kinase of the HOG signaling pathway; activated under severe osmotic stress; mitophagy-specific regulator; plays a role in regulating Ty1 transposition
+S000031693	CDS					YJL128C		10	180103	178097	C		2011-02-03	1996-07-31|2011-02-03	
+S000007612	ORF	Dubious	YJL127W-A		YJL127W-B	chromosome 10		10	180194	180310	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037189	CDS					YJL127W-A		10	180194	180310	W		2011-02-03	2001-02-26	
+S000028522	ORF	Uncharacterized	YJL127C-B		YJL127C-A	chromosome 10		10	181709	181551	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified based on homology to the filamentous fungus, Ashbya gossypii; SWAT-GFP and seamless-GFP fusion proteins localize to the mitochondria
+S000030318	CDS					YJL127C-B		10	181709	181551	C		2011-02-03	2003-07-29	
+S000003663	ORF	Verified	YJL127C	SPT10	SUD1|CRE1	chromosome 10	L000002035	10	184220	182298	C	-87	2011-02-03	1996-07-31	Histone H3 acetylase with a role in transcriptional regulation; sequence-specific activator of histone genes, binds specifically and cooperatively to pairs of UAS elements in core histone promoters, functions at or near TATA box; involved in S phase-specific acetylation of H3K56 at histone promoters, which is required for recruitment of SWI/SNF nucleosome remodeling complex and subsequent transcription
+S000031537	CDS					YJL127C		10	184220	182298	C		2011-02-03	1996-07-31	
+S000003662	ORF	Verified	YJL126W	NIT2	putative hydrolase	chromosome 10	L000004212	10	184501	185424	W		2011-02-03	1996-07-31	Nit protein; one of two proteins in S. cerevisiae with similarity to the Nit domain of NitFhit from fly and worm and to the mouse and human Nit protein which interacts with the Fhit tumor suppressor; nitrilase superfamily member
+S000031498	CDS					YJL126W		10	184501	185424	W		2011-02-03	1996-07-31	
+S000003661	ORF	Verified	YJL125C	GCD14	tRNA 1-methyladenosine methyltransferase subunit GCD14|TRM61	chromosome 10	L000002902	10	186679	185528	C		2011-02-03	1996-07-31	Subunit of tRNA (1-methyladenosine) methyltransferase; required, along with Gcd10p, for the modification of the adenine at position 58 in tRNAs, especially tRNAi-Met; first identified as a negative regulator of GCN4 expression
+S000030509	CDS					YJL125C		10	186679	185528	C		2011-02-03	1996-07-31	
+S000003660	ORF	Verified	YJL124C	LSM1	SPB8	chromosome 10	L000004427	10	187644	187126	C		2011-02-03	1996-07-31	Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and Lsm7p) involved in degradation of cytoplasmic mRNAs; also enters the nucleus and positively regulates transcription initiation; unlike most Sm-like proteins, Lsm1p requires both its SM-domain and C-terminal domain for RNA-binding; binds to mRNAs under glucose starvation, most often in the 3' UTR; forms cytoplasmic foci upon DNA replication stress
+S000030388	CDS					YJL124C		10	187644	187126	C		2011-02-03	1996-07-31	
+S000003659	ORF	Verified	YJL123C	MTC1		chromosome 10		10	189440	188004	C		2011-02-03	1996-07-31	Protein of unknown function that may interact with ribosomes; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to COPI-coated vesicles (early Golgi); mtc1 is synthetically lethal with cdc13-1
+S000030206	CDS					YJL123C		10	189440	188004	C		2011-02-03	1996-07-31	
+S000003658	ORF	Verified	YJL122W	ALB1		chromosome 10		10	189716	190243	W		2011-02-03	1996-07-31	Shuttling pre-60S factor; involved in the biogenesis of ribosomal large subunit; interacts directly with Arx1p; responsible for Tif6p recycling defects in absence of Rei1p
+S000037544	CDS					YJL122W		10	189716	190243	W		2011-02-03	1996-07-31	
+S000003656	ORF	Dubious	YJL120W			chromosome 10		10	191022	191345	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL121C/RPE1; deletion confers sensitivity to GSAO
+S000037326	CDS					YJL120W		10	191022	191345	W		2011-02-03	1996-07-31	
+S000003657	ORF	Verified	YJL121C	RPE1	ribulose-phosphate 3-epimerase RPE1|POS18|EPI1	chromosome 10	L000004023|L000002588	10	191090	190374	C		2011-02-03	1996-07-31	D-ribulose-5-phosphate 3-epimerase; catalyzes a reaction in the non-oxidative part of the pentose-phosphate pathway; mutants are sensitive to oxidative stress
+S000037363	CDS					YJL121C		10	191090	190374	C		2011-02-03	1996-07-31	
+S000003654	ORF	Verified	YJL118W			chromosome 10		10	191639	192298	W		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; YJL118W is a non-essential gene; deletion enhances the toxicity of heterologously expressed human alpha-synuclein
+S000035604	CDS					YJL118W		10	191639	192298	W		2011-02-03	1996-07-31	
+S000003655	ORF	Dubious	YJL119C			chromosome 10		10	191895	191572	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035622	CDS					YJL119C		10	191895	191572	C		2011-02-03	1996-07-31	
+S000003653	ORF	Verified	YJL117W	PHO86		chromosome 10	L000002945	10	192531	193466	W		2011-02-03	1996-07-31	Endoplasmic reticulum (ER) resident protein; required for ER exit of the high-affinity phosphate transporter Pho84p, specifically required for packaging of Pho84p into COPII vesicles; protein abundance increases in response to DNA replication stress
+S000035509	CDS					YJL117W		10	192531	193466	W		2011-02-03	1996-07-31	
+S000003652	ORF	Verified	YJL116C	NCA3	SUN family protein NCA3	chromosome 10	L000002936	10	194873	193860	C		2011-02-03	1996-07-31	Protein involved in mitochondrion organization; functions with Nca2p to regulate mitochondrial expression of subunits 6 (Atp6p) and 8 (Atp8p) of the Fo-F1 ATP synthase; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the vacuole; member of the SUN family; expression induced in cells treated with the mycotoxin patulin; NCA3 has a paralog, UTH1, that arose from the whole genome duplication
+S000034420	CDS					YJL116C		10	194873	193860	C		2011-02-03	1996-07-31	
+S000003651	ORF	Verified	YJL115W	ASF1	nucleosome assembly factor ASF1|CIA1	chromosome 10	L000000126	10	196287	197126	W	-80.06	2011-02-03	1996-07-31	Nucleosome assembly factor; involved in chromatin assembly, disassembly; required for recovery after DSB repair; role in H3K56 acetylation required for expression homeostasis, buffering mRNA synthesis rate against gene dosage changes in S phase; anti-silencing protein, derepresses silent loci when overexpressed; role in regulating Ty1 transposition; relocalizes to cytosol under hypoxia; growth defect of asf1 null is functionally complemented by either human ASF1A or ASF1B
+S000034387	CDS					YJL115W		10	196287	197126	W		2011-02-03	1996-07-31	
+S000006514	tRNA_gene		tA(AGC)J			chromosome 10	L000003626	10	197385	197313	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000032283	noncoding_exon					tA(AGC)J		10	197385	197313	C		2011-02-03	2000-05-19	
+S000007035	long_terminal_repeat		YJLWsigma1			chromosome 10		10	197401	197494	W		2011-02-03	2000-05-19	Ty3 LTR
+S000007036	long_terminal_repeat		YJLWtau1			chromosome 10		10	197545	197915	W		2011-02-03	2000-05-19	Ty4 LTR
+S000007039	LTR_retrotransposon		YJLWTy4-1		Ty4	chromosome 10		10	197545	203768	W		2011-02-03	2000-05-19|2011-02-03	Ty4 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000003650	transposable_element_gene		YJL114W		gag protein	chromosome 10		10	197915	198595	W		2011-02-03	1996-07-31|2011-02-03	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000034265	CDS					YJL114W		10	197915	198595	W		2011-02-03	1996-07-31|2011-02-03	
+S000003649	transposable_element_gene		YJL113W		gag-pol fusion protein	chromosome 10		10	198678	203325	W		2011-02-03	1996-07-31|2011-02-03	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000034131	CDS					YJL113W		10	198678	198998	W		2011-02-03	1996-07-31|2011-02-03	
+S000034132	CDS					YJL113W		10	199000	203325	W		2011-02-03	1996-07-31	
+S000034133	plus_1_translational_frameshift					YJL113W		10	198999	198999	W		2011-02-03	1996-07-31	
+S000007037	long_terminal_repeat		YJLWtau2			chromosome 10		10	203398	203768	W		2011-02-03	2000-05-19	Ty4 LTR
+S000028445	ARS		ARS1008			chromosome 10		10	204029	204917			2011-02-03	2002-12-16|2011-02-03	Autonomously Replicating Sequence
+S000178124	ARS_consensus_sequence					ARS1008		10	204241	204225	C		2014-11-18	2014-11-18	
+S000007022	long_terminal_repeat		YJLCdelta3			chromosome 10		10	204114	203783	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006536	tRNA_gene		tD(GUC)J1			chromosome 10	L000003605	10	204735	204806	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000030769	noncoding_exon					tD(GUC)J1		10	204735	204806	W		2011-02-03	2000-05-19	
+S000003648	ORF	Verified	YJL112W	MDV1	NET2|GAG3|FIS2	chromosome 10		10	205305	207449	W		2011-02-03	1996-07-31|2011-02-03	Peripheral protein of cytosolic face of mitochondrial outer membrane; required for mitochondrial fission; interacts with Fis1p and with the self-assembled oligomeric form of the dynamin-related GTPase Dnm1p; contains WD repeats; MDV1 has a paralog, CAF4, that arose from the whole genome duplication
+S000033273	CDS					YJL112W		10	205305	207449	W		2011-02-03	1996-07-31|2011-02-03	
+S000003647	ORF	Verified	YJL111W	CCT7	chaperonin-containing T-complex subunit CCT7|TCP7	chromosome 10	L000002763	10	207877	209529	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo; mutant has increased aneuploidy tolerance
+S000033222	CDS					YJL111W		10	207877	209529	W		2011-02-03	1996-07-31	
+S000003646	ORF	Verified	YJL110C	GZF3	NIL2|DEH1	chromosome 10	L000002858|L000003382	10	211577	209922	C		2011-02-03	1996-07-31	GATA zinc finger protein; negatively regulates nitrogen catabolic gene expression by competing with Gat1p for GATA site binding; function requires a repressive carbon source; dimerizes with Dal80p and binds to Tor1p; GZF3 has a paralog, DAL80, that arose from the whole genome duplication
+S000033132	CDS					YJL110C		10	211577	209922	C		2011-02-03	1996-07-31	
+S000003645	ORF	Verified	YJL109C	UTP10	snoRNA-binding rRNA-processing protein UTP10	chromosome 10		10	217309	212000	C		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA; mutant has increased aneuploidy tolerance
+S000032396	CDS					YJL109C		10	217309	212000	C		2011-02-03	1996-07-31	
+S000003644	ORF	Verified	YJL108C	PRM10	pheromone-regulated protein PRM10	chromosome 10		10	218856	217705	C		2011-02-03	1996-07-31	Pheromone-regulated protein; proposed to be involved in mating; predicted to have 5 transmembrane segments; induced by treatment with 8-methoxypsoralen and UVA irradiation
+S000032288	CDS					YJL108C		10	218856	217705	C		2011-02-03	1996-07-31	
+S000003643	ORF	Uncharacterized	YJL107C			chromosome 10		10	220016	218853	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression is induced by activation of the HOG1 mitogen-activated signaling pathway and this induction is Hog1p/Pbs2p dependent; YJL107C and adjacent ORF, YJL108C are merged in related fungi
+S000031290	CDS					YJL107C		10	220016	218853	C		2011-02-03	1996-07-31	
+S000003642	ORF	Verified	YJL106W	IME2	protein kinase IME2|SME1	chromosome 10	L000000862	10	221390	223327	W		2011-02-03	1996-07-31	Serine/threonine protein kinase involved in activation of meiosis; associates with Ime1p and mediates its stability, activates Ndt80p; IME2 expression is positively regulated by Ime1p; human CDK2 can complement ime2 null mutant
+S000031252	CDS					YJL106W		10	221390	223327	W		2011-02-03	1996-07-31	
+S000003641	ORF	Verified	YJL105W	SET4		chromosome 10		10	225055	226737	W		2011-02-03	1996-07-31	Protein of unknown function, contains a SET domain; SET4 has a paralog, SET3, that arose from the whole genome duplication
+S000031110	CDS					YJL105W		10	225055	226737	W		2011-02-03	1996-07-31	
+S000003640	ORF	Verified	YJL104W	PAM16	import motor complex subunit PAM16|TIM16|MIA1	chromosome 10		10	227327	227776	W		2011-02-03	1996-07-31	Subunit of the import motor (PAM complex); the PAM complex is a  component of the Translocase of the Inner Mitochondrial membrane (TIM23 complex); forms a 1:1 subcomplex with Pam18p and inhibits its cochaperone activity; contains a J-like domain
+S000031000	CDS					YJL104W		10	227327	227776	W		2011-02-03	1996-07-31	
+S000006501	snoRNA_gene		snR37	SNR37		chromosome 10	L000003502	10	228479	228094	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2944
+S000036767	noncoding_exon					snR37		10	228479	228094	C		2011-02-03	2000-05-19	
+S000028446	ARS		ARS1009			chromosome 10		10	228552	229043			2011-02-03	2002-12-16	Autonomously Replicating Sequence
+S000178125	ARS_consensus_sequence					ARS1009		10	228575	228559	C		2014-11-18	2014-11-18	
+S000003639	ORF	Verified	YJL103C	GSM1		chromosome 10		10	230881	229025	C		2011-02-03	1996-07-31	Putative zinc cluster protein of unknown function; proposed to be involved in the regulation of energy metabolism, based on patterns of expression and sequence analysis
+S000029933	CDS					YJL103C		10	230881	229025	C		2011-02-03	1996-07-31	
+S000003638	ORF	Verified	YJL102W	MEF2		chromosome 10	L000001058	10	231301	233760	W		2011-02-03	1996-07-31	Mitochondrial elongation factor involved in translational elongation
+S000029898	CDS					YJL102W		10	231301	233760	W		2011-02-03	1996-07-31	
+S000006702	tRNA_gene		tR(ACG)J			chromosome 10	L000003606	10	233939	234011	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000030405	noncoding_exon					tR(ACG)J		10	233939	234011	W		2011-02-03	2000-05-19	
+S000003637	ORF	Verified	YJL101C	GSH1	glutamate--cysteine ligase	chromosome 10	L000000735	10	236356	234320	C		2011-02-03	1996-07-31	Gamma glutamylcysteine synthetase; catalyzes the first step in glutathione (GSH) biosynthesis; expression induced by oxidants, cadmium, and mercury; protein abundance increases in response to DNA replication stress
+S000037157	CDS					YJL101C		10	236356	234320	C		2011-02-03	1996-07-31	
+S000003636	ORF	Verified	YJL100W	LSB6	1-phosphatidylinositol 4-kinase LSB6	chromosome 10		10	237263	239086	W		2011-02-03	1996-07-31	Type II phosphatidylinositol 4-kinase; binds Las17p, a homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly and actin polymerization
+S000037110	CDS					YJL100W		10	237263	239086	W		2011-02-03	1996-07-31	
+S000003635	ORF	Verified	YJL099W	CHS6	CSD3	chromosome 10	L000000334	10	239414	241654	W		2011-02-03	1996-07-31	Member of the ChAPs (Chs5p-Arf1p-binding proteins) family; part of the exomer complex that mediates export of specific cargo proteins, including Chs3p, from the Golgi to the plasma membrane; primary component of the Chs5/6 complex that binds directly to membranes; CHS6 has a paralog, BCH2, that arose from the whole genome duplication
+S000031796	CDS					YJL099W		10	239414	241654	W		2011-02-03	1996-07-31	
+S000003634	ORF	Verified	YJL098W	SAP185		chromosome 10	L000003246	10	242082	245258	W		2011-02-03	1996-07-31	Protein that forms a complex with the Sit4p protein phosphatase; required for Sit4p function; member of a family of similar proteins including Sap4p, Sap155p, and Sap190p; SAP185 has a paralog, SAP190, that arose from the whole genome duplication
+S000031694	CDS					YJL098W		10	242082	245258	W		2011-02-03	1996-07-31	
+S000003633	ORF	Verified	YJL097W	PHS1	enoyl-CoA hydratase PHS1	chromosome 10		10	245591	246244	W		2011-02-03	1996-07-31	Essential 3-hydroxyacyl-CoA dehydratase of the ER membrane; involved in elongation of very long-chain fatty acids; evolutionarily conserved, similar to mammalian PTPLA and PTPLB; involved in sphingolipid biosynthesis and protein trafficking
+S000031576	CDS					YJL097W		10	245591	246244	W		2011-02-03	1996-07-31	
+S000003632	ORF	Verified	YJL096W	MRPL49	mitochondrial 54S ribosomal protein YmL49|YmL49	chromosome 10		10	246490	246975	W		2011-02-03	2003-09-22|1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000030716	CDS					YJL096W		10	246490	246975	W		2011-02-03	2003-09-22|1996-07-31	
+S000077074	matrix_attachment_site		ETC3	ETC3		chromosome 10		10	247060	247082	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; located between MRPL49 and BCK1
+S000003631	ORF	Verified	YJL095W	BCK1	mitogen-activated protein kinase kinase kinase BCK1|SSP31|SLK1|SAP3|LAS3	chromosome 10	L000000162	10	247255	251691	W	-64	2011-02-03	1996-07-31	MAPKKK acting in the protein kinase C signaling pathway; the kinase C signaling pathway controls cell integrity; upon activation by Pkc1p phosphorylates downstream kinases Mkk1p and Mkk2p; MAPKKK is an acronym for mitogen-activated protein (MAP) kinase kinase kinase
+S000030629	CDS					YJL095W		10	247255	251691	W		2011-02-03	1996-07-31	
+S000003630	ORF	Verified	YJL094C	KHA1		chromosome 10		10	254442	251821	C		2011-02-03	1996-07-31	Putative K+/H+ antiporter; has a probable role in intracellular cation homeostasis; localized to Golgi vesicles and detected in highly purified mitochondria in high-throughput studies
+S000030439	CDS					YJL094C		10	254442	251821	C		2011-02-03	1996-07-31	
+S000003629	ORF	Verified	YJL093C	TOK1	YPK1|YORK|YKC1|DUK1	chromosome 10	L000003009	10	256812	254737	C		2011-02-03	1996-07-31	Outward-rectifier potassium channel of the plasma membrane; has two pore domains in tandem, each of which forms a functional channel permeable to potassium; carboxy tail functions to prevent inner gate closures; target of K1 toxin
+S000037648	CDS					YJL093C		10	256812	254737	C		2011-02-03	1996-07-31	
+S000003628	ORF	Verified	YJL092W	SRS2	DNA helicase SRS2|HPR5|RADH1|RADH	chromosome 10	L000000809|L000001578	10	257423	260947	W	-61	2011-02-03	1996-07-31	DNA helicase and DNA-dependent ATPase; involved in DNA repair and checkpoint recovery, needed for proper timing of commitment to meiotic recombination and transition from Meiosis I to II; blocks trinucleotide repeat expansion; affects genome stability; disassembles Rad51p nucleoprotein filaments during meiotic recombination; stimulates activity of the Mus81p-Mms4p endonuclease, independently of Srs2p catalytic activity; functional homolog of human RTEL1
+S000037603	CDS					YJL092W		10	257423	260947	W		2011-02-03	1996-07-31	
+S000003627	ORF	Verified	YJL091C	GWT1	glucosaminyl-phosphotidylinositol O-acyltransferase	chromosome 10		10	262552	261080	C		2011-02-03	2003-09-22|1996-07-31	Protein involved in the inositol acylation of GlcN-PI; the inositol acylation of glucosaminyl phosphatidylinositol (GlcN-PI) forms glucosaminyl(acyl)phosphatidylinositol (GlcN(acyl)PI), an intermediate in the biosynthesis of glycosylphosphatidylinositol (GPI) anchors
+S000037407	CDS					YJL091C		10	262552	261080	C		2011-02-03	2003-09-22|1996-07-31	
+S000003626	ORF	Verified	YJL090C	DPB11	protein kinase activating protein DPB11	chromosome 10	L000003001	10	265051	262757	C		2011-02-03	1996-07-31	DNA replication initiation protein; loads DNA pol epsilon onto pre-replication complexes at origins; checkpoint sensor recruited to stalled replication forks by the checkpoint clamp complex where it activates Mec1p; along with Rfa1p, binds to ultrafine anaphase bridges in mitotic cells and prevents accumulation of chromatin bridges by stimulating the Mec1p kinase and suppressing homologous recombination; ortholog of human TopBP1; forms nuclear foci upon DNA replication stress
+S000036680	CDS					YJL090C		10	265051	262757	C		2011-02-03	1996-07-31	
+S000003625	ORF	Verified	YJL089W	SIP4		chromosome 10	L000001893	10	265926	268415	W		2011-02-03	1996-07-31	C6 zinc cluster transcriptional activator; binds to the carbon source-responsive element (CSRE) of gluconeogenic genes; involved in the positive regulation of gluconeogenesis; regulated by Snf1p protein kinase; localized to the nucleus
+S000036795	CDS					YJL089W		10	265926	268415	W		2011-02-03	1996-07-31	
+S000003624	ORF	Verified	YJL088W	ARG3	ornithine carbamoyltransferase|argF	chromosome 10	L000000108	10	268799	269815	W	-61	2011-02-03	1999-02-28|1996-07-31	Ornithine carbamoyltransferase; also known as carbamoylphosphate:L-ornithine carbamoyltransferase; catalyzes the biosynthesis of the arginine precursor citrulline
+S000036728	CDS					YJL088W		10	268799	269815	W		2011-02-03	1999-02-28|1996-07-31	
+S000003623	ORF	Verified	YJL087C	TRL1	tRNA ligase|RLG1|LIG1	chromosome 10	L000002336	10	272485	270002	C		2011-02-03	1996-07-31	tRNA ligase; required for tRNA splicing and for both splicing and translation of HAC1 mRNA in the UPR; has phosphodiesterase, polynucleotide kinase, and ligase activities; localized at the inner nuclear envelope and partially to polysomes
+S000036631	CDS					YJL087C		10	272485	270002	C		2011-02-03	1996-07-31	
+S000003621	ORF	Verified	YJL085W	EXO70	GTP-Rho binding exocyst subunit EXO70	chromosome 10	L000003349	10	272827	274698	W		2011-02-03	1996-07-31	Subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis prior to SNARE-mediated fusion; PtdIns[4,5]P2-binding protein that localizes to exocytic sites in an actin-independent manner, targeting and anchoring the exocyst with Sec3p; involved in exocyst assembly; direct downstream effector of Rho3p and Cdc42p; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000035634	CDS					YJL085W		10	272827	274698	W		2011-02-03	1996-07-31	
+S000003622	ORF	Dubious	YJL086C			chromosome 10		10	272846	272478	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified genes YJL085W/EXO70 and YJL087C/TRL1
+S000035697	CDS					YJL086C		10	272846	272478	C		2011-02-03	1996-07-31	
+S000003620	ORF	Verified	YJL084C	ALY2	ART3	chromosome 10		10	278002	274862	C		2011-02-03	1997-07-27|1996-07-31	Alpha arrestin; controls nutrient-mediated intracellular sorting of permease Gap1p; interacts with AP-1 subunit Apl4p; phosphorylated by Npr1p and also by cyclin-CDK complex Pcl7p-Pho85p; promotes endocytosis of plasma membrane proteins; ALY2 has a paralog, ALY1, that arose from the whole genome duplication
+S000035516	CDS					YJL084C		10	278002	274862	C		2011-02-03	1997-07-27|1996-07-31	
+S000003619	ORF	Verified	YJL083W	TAX4		chromosome 10		10	278841	280655	W		2011-02-03	1996-07-31	EH domain-containing protein; involved in regulating phosphatidylinositol 4,5-bisphosphate levels and autophagy; Irs4p and Tax4p bind and activate the PtdIns phosphatase Inp51p; Irs4p and Tax4p are involved in localizing Atg17p to the PAS; TAX4 has a paralog, IRS4, that arose from the whole genome duplication
+S000034560	CDS					YJL083W		10	278841	280655	W		2011-02-03	1996-07-31	
+S000003618	ORF	Verified	YJL082W	IML2		chromosome 10		10	281185	283380	W		2011-02-03	1996-07-31	Protein required for clearance of inclusion bodies; localizes to the inclusion bodies formed under protein misfolding stress; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress; IML2 has a paralog, YKR018C, that arose from the whole genome duplication
+S000034438	CDS					YJL082W		10	281185	283380	W		2011-02-03	1996-07-31	
+S000003617	ORF	Verified	YJL081C	ARP4	ACT3	chromosome 10	L000000027	10	285271	283802	C		2011-02-03	1996-07-31	Nuclear actin-related protein involved in chromatin remodeling; component of chromatin-remodeling enzyme complexes
+S000034308	CDS					YJL081C		10	285271	283802	C		2011-02-03	1996-07-31	
+S000003616	ORF	Verified	YJL080C	SCP160		chromosome 10	L000001817	10	289226	285558	C		2011-02-03	1996-07-31	Essential RNA-binding G protein effector of mating response pathway; ligand-activated RNA-binding protein that delivers RNAs involved in polarization and perpetualizing mating signal to shmoo tip during pheromone signaling; Scp160p-mediated RNA trafficking essential for chemotropism and successful mating; mainly associated with nuclear envelope and ER, interacts in mRNA-dependent manner with translating ribosomes via multiple KH domains, similar to vertebrate vigilins
+S000033394	CDS					YJL080C		10	289226	285558	C		2011-02-03	1996-07-31	
+S000003615	ORF	Verified	YJL079C	PRY1	sterol-binding protein	chromosome 10	L000003216	10	290774	289875	C		2011-02-03	1996-07-31	Sterol binding protein involved in the export of acetylated sterols; secreted glycoprotein and member of the CAP protein superfamily (cysteine-rich secretory proteins (CRISP), antigen 5, and pathogenesis related 1 proteins); sterol export function is redundant with that of PRY2; may be involved in detoxification of hydrophobic compounds; PRY1 has a paralog, PRY2, that arose from the whole genome duplication
+S000033334	CDS					YJL079C		10	290774	289875	C		2011-02-03	1996-07-31	
+S000003614	ORF	Verified	YJL078C	PRY3		chromosome 10	L000003218	10	293981	291336	C		2011-02-03	1996-07-31	Cell wall-associated protein involved in export of acetylated sterols; member of the CAP protein superfamily (cysteine-rich secretory proteins (CRISP), antigen 5, and pathogenesis related 1 proteins); role in mating efficiency; expression of full-length transcript is daughter cell-specific; in response to alpha factor, a short transcript starting at +452 is expressed and the long form is repressed by Ste12p
+S000032582	CDS					YJL078C		10	293981	291336	C		2011-02-03	1996-07-31	
+S000028662	ORF	Uncharacterized	YJL077W-B			chromosome 10		10	294047	294145	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032487	CDS					YJL077W-B		10	294047	294145	W		2011-02-03	2003-07-29	
+S000028661	ORF	Uncharacterized	YJL077W-A			chromosome 10		10	294799	294885	W		2011-02-03	2003-07-29	Protein of unknown function; mRNA identified as translated by ribosome profiling data; completely overlaps the verified gene YJL077C/ICS3
+S000032486	CDS					YJL077W-A		10	294799	294885	W		2011-02-03	2003-07-29	
+S000003613	ORF	Verified	YJL077C	ICS3		chromosome 10		10	295061	294666	C		2011-02-03	1996-07-31	Protein with a role in copper homeostasis; possible role in vacuolar sorting and processing of secretory proteins; null mutants are hypersensitive to sortin2
+S000032502	CDS					YJL077C		10	295061	294666	C		2011-02-03	1996-07-31	
+S000003612	ORF	Verified	YJL076W	NET1	SRM8|CFI1|ESC5	chromosome 10	L000004425	10	295245	298814	W		2011-02-03	1996-07-31	Core subunit of the RENT complex; involved in nucleolar silencing and telophase exit; stimulates transcription by RNA polymerase I and regulates nucleolar structure; NET1 has a paralog, TOF2, that arose from the whole genome duplication
+S000032450	CDS					YJL076W		10	295245	298814	W		2011-02-03	1996-07-31	
+S000003611	ORF	Dubious	YJL075C	APQ13		chromosome 10		10	298876	298460	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 85% of ORF overlaps the verified gene NET1; null mutant is sensitive to sorbate
+S000031391	CDS					YJL075C		10	298876	298460	C		2011-02-03	1996-07-31	
+S000028447	ARS		ARS1010			chromosome 10		10	298981	299245			2014-11-18	2002-12-16|2014-11-18	Autonomously Replicating Sequence
+S000003610	ORF	Verified	YJL074C	SMC3	cohesin subunit SMC3	chromosome 10	L000003992	10	302849	299157	C		2011-02-03	1996-07-31	Subunit of the multiprotein cohesin complex; required for sister chromatid cohesion in mitotic cells; also required, with Rec8p, for cohesion and recombination during meiosis; phylogenetically conserved SMC chromosomal ATPase family member
+S000031287	CDS					YJL074C		10	302849	299157	C		2011-02-03	1996-07-31	
+S000003609	ORF	Verified	YJL073W	JEM1	KAR8	chromosome 10	L000003533	10	303181	305118	W		2011-02-03	1997-10-20|1996-07-31	DnaJ-like chaperone required for nuclear membrane fusion during mating; localizes to the ER membrane; exhibits genetic interactions with KAR2
+S000031229	CDS					YJL073W		10	303181	305118	W		2011-02-03	1997-10-20|1996-07-31	
+S000003608	ORF	Verified	YJL072C	PSF2	DNA replication protein PSF2|CDC102	chromosome 10		10	305862	305221	C		2011-02-03	1996-07-31	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p); complex is localized to DNA replication origins and implicated in assembly of the DNA replication machinery
+S000030195	CDS					YJL072C		10	305862	305221	C		2011-02-03	1996-07-31	
+S000003607	ORF	Verified	YJL071W	ARG2	acetyl-CoA:L-glutamate N-acetyltransferase|HRB574	chromosome 10	L000003263	10	306132	307856	W		2011-02-03	1996-07-31	Acetylglutamate synthase (glutamate N-acetyltransferase); mitochondrial enzyme that catalyzes the first step in the biosynthesis of the arginine precursor ornithine; forms a complex with Arg5,6p
+S000030084	CDS					YJL071W		10	306132	307856	W		2011-02-03	1996-07-31	
+S000003606	ORF	Uncharacterized	YJL070C		metallo-dependent hydrolase superfamily protein	chromosome 10		10	310637	307971	C		2011-02-03	1996-07-31	Putative metallo-dependent hydrolase superfamily protein; similar to AMP deaminases but lacks key catalytic residues and does not rescue purine nucleotide metabolic defect of quadruple aah1 ade8 amd1 his1 mutant; may regulate purine nucleotide homeostasis as overexpression in an AMD1 strain grown in adenine results in greatly reduced GDP and GTP intracellular levels; not an essential gene; YJL070C has a paralog, YBR284W, that arose from the whole genome duplication
+S000029919	CDS					YJL070C		10	310637	307971	C		2011-02-03	1996-07-31	
+S000003605	ORF	Verified	YJL069C	UTP18		chromosome 10		10	312706	310922	C		2011-02-03	1996-07-31	Small-subunit processome protein involved in pre-18S rRNA maturation; part of a subunit of the 90S preribosomal particle capable of interacting directly with the 5' ETS of the 35S pre-rRNA; contains WD40 repeats
+S000036438	CDS					YJL069C		10	312706	310922	C		2011-02-03	1996-07-31	
+S000003604	ORF	Verified	YJL068C		S-formylglutathione hydrolase|SFGH	chromosome 10		10	313915	313016	C		2011-02-03	1996-07-31	Esterase that can function as an S-formylglutathione hydrolase; non-essential intracellular esterase; may be involved in the detoxification of formaldehyde, which can be metabolized to S-formylglutathione; similar to human esterase D
+S000036339	CDS					YJL068C		10	313915	313016	C		2011-02-03	1996-07-31	
+S000003603	ORF	Dubious	YJL067W			chromosome 10		10	314084	314434	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036295	CDS					YJL067W		10	314084	314434	W		2011-02-03	1996-07-31	
+S000003602	ORF	Verified	YJL066C	MPM1		chromosome 10		10	314872	314114	C		2011-02-03	1996-07-31	Mitochondrial intermembrane space protein of unknown function
+S000035314	CDS					YJL066C		10	314872	314114	C		2011-02-03	1996-07-31	
+S000003600	ORF	Dubious	YJL064W			chromosome 10		10	315175	315570	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YJL065C/DLS1
+S000035084	CDS					YJL064W		10	315175	315570	W		2011-02-03	1996-07-31	
+S000003601	ORF	Verified	YJL065C	DLS1		chromosome 10		10	315557	315054	C		2011-02-03	1996-07-31	Subunit of ISW2/yCHRAC chromatin accessibility complex; ISW2/yCHRAC also includes Itc1p, Isw2p, and Dpb4p; involved in inheritance of telomeric silencing; DLS1 has a paralog, DPB3, that arose from the whole genome duplication
+S000035150	CDS					YJL065C		10	315557	315054	C		2011-02-03	1996-07-31	
+S000003599	ORF	Verified	YJL063C	MRPL8	mitochondrial 54S ribosomal protein YmL8|YmL8|HRD238	chromosome 10	L000001162|L000002524	10	316475	315759	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000034082	CDS					YJL063C		10	316475	315759	C		2011-02-03	1996-07-31	
+S000007611	ORF	Verified	YJL062W-A	COA3	COX25|RRG10	chromosome 10		10	316723	316980	W		2011-02-03	2001-02-26	Mitochondrial protein required for cytochrome c oxidase assembly; also involved in translational regulation of Cox1p and prevention of Cox1p aggregation before assembly; located in the mitochondrial inner membrane
+S000037188	CDS					YJL062W-A		10	316723	316980	W		2011-02-03	2001-02-26	
+S000003598	ORF	Verified	YJL062W	LAS21	mannose-ethanolamine phosphotransferase LAS21|GPI7	chromosome 10	L000004283|L000004818	10	317284	319776	W		2011-02-03	1996-07-31	Integral plasma membrane protein; involved in the synthesis of the glycosylphosphatidylinositol (GPI) core structure; mutations affect cell wall integrity
+S000034026	CDS					YJL062W		10	317284	319776	W		2011-02-03	1996-07-31	
+S000003597	ORF	Verified	YJL061W	NUP82	linker nucleoporin NUP82|HRB187	chromosome 10	L000002941	10	320016	322157	W		2011-02-03	1996-07-31	Linker nucleoporin component of the nuclear pore complex (NPC); also part of the NPC cytoplasmic filaments; contributes to nucleocytoplasmic transport and NPC biogenesis; forms stable associations with three FG-nucleoporins (Nsp1p, Nup159p, and Nup116p); relocalizes to the cytosol in response to hypoxia
+S000033873	CDS					YJL061W		10	320016	322157	W		2011-02-03	1996-07-31	
+S000003596	ORF	Verified	YJL060W	BNA3	kynurenine--oxoglutarate transaminase	chromosome 10		10	323386	324720	W		2011-02-03	1996-07-31	Kynurenine aminotransferase; catalyzes formation of kynurenic acid from kynurenine; potential Cdc28p substrate
+S000033737	CDS					YJL060W		10	323386	324720	W		2011-02-03	1996-07-31	
+S000003595	ORF	Verified	YJL059W	YHC3	amino acid transporter YHC3|BTN1	chromosome 10	L000003332|L000003284	10	324964	326190	W		2011-02-03	1996-07-31	Protein required for the ATP-dependent transport of arginine; vacuolar membrane protein; involved in the ATP-dependent transport of arginine into the vacuole and possibly in balancing ion homeostasis; human homolog CLN3 involved in Batten disease (juvenile onset neuronal ceroid lipofuscinosis) can complement yeast null mutant
+S000034862	CDS					YJL059W		10	324964	326190	W		2011-02-03	1996-07-31	
+S000003594	ORF	Verified	YJL058C	BIT61		chromosome 10		10	327873	326242	C		2011-02-03	1996-07-31	Subunit of TORC2 membrane-associated complex; involved in regulation of cell cycle-dependent actin cytoskeletal dynamics during polarized growth and cell wall integrity; BIT61 has a paralog, BIT2, that arose from the whole genome duplication
+S000032844	CDS					YJL058C		10	327873	326242	C		2011-02-03	1996-07-31	
+S000003593	ORF	Verified	YJL057C	IKS1	protein kinase IKS1	chromosome 10	L000004209	10	330121	328118	C		2011-02-03	1996-07-31	Protein kinase of unknown cellular role; putative serine/threonine kinase; expression is induced during mild heat stress; deletion mutants are hypersensitive to copper sulphate and resistant to sorbate; interacts with an N-terminal fragment of Sst2p
+S000032730	CDS					YJL057C		10	330121	328118	C		2011-02-03	1996-07-31	
+S000003592	ORF	Verified	YJL056C	ZAP1	ZRG10	chromosome 10	L000003321	10	333073	330431	C		2011-02-03	1996-07-31	Zinc-regulated transcription factor; binds to zinc-responsive promoters to induce transcription of certain genes in presence of zinc, represses other genes in low zinc; regulates its own transcription; contains seven zinc-finger domains
+S000032670	CDS					YJL056C		10	333073	330431	C		2011-02-03	1996-07-31	
+S000003591	ORF	Uncharacterized	YJL055W			chromosome 10		10	333357	334094	W		2011-02-03	1996-07-31	Putative protein of unknown function; functions together with HAM1 to mediate resistance to 5-FU; specifically reduces the incorporation of 5-FU into RNA, without affecting uptake or incorporation of uracil into RNA; proposed to be involved in the metabolism of purine and pyrimidine base analogues; deletion mutants are sensitive to HAP and AHA
+S000032627	CDS					YJL055W		10	333357	334094	W		2011-02-03	1996-07-31	
+S000003590	ORF	Verified	YJL054W	TIM54		chromosome 10	L000004342	10	334265	335701	W		2011-02-03	1996-07-31	Component of the mitochondrial TIM22 complex; involved in insertion of polytopic proteins into the inner membrane
+S000031626	CDS					YJL054W		10	334265	335701	W		2011-02-03	1996-07-31	
+S000003589	ORF	Verified	YJL053W	PEP8	retromer subunit PEP8|VPT4|VPS26|GRD6	chromosome 10	L000001378	10	335898	337037	W		2011-02-03	1996-07-31	Vacuolar protein component of the retromer; forms part of the multimeric membrane-associated retromer complex involved in vacuolar protein sorting along with Vps35p, Vps29p, Vps17p, and Vps5p; essential for endosome-to-Golgi retrograde protein transport; interacts with Ypt7p; protein abundance increases in response to DNA replication stress
+S000031497	CDS					YJL053W		10	335898	337037	W		2011-02-03	1996-07-31	
+S000028448	ARS		ARS1011		ARSX-337	chromosome 10		10	337281	337529			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
+S000007610	ORF	Uncharacterized	YJL052C-A			chromosome 10		10	338003	337884	C		2011-02-03	2001-02-26	Putative protein of unknown function; identified based on comparison to related yeast species; mCherry fusion protein localizes to the vacuole
+S000037187	CDS					YJL052C-A		10	338003	337884	C		2011-02-03	2001-02-26	
+S000003588	ORF	Verified	YJL052W	TDH1	glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) TDH1|GAPDH|GLD3	chromosome 10	L000002272	10	338271	339269	W		2011-02-03	1996-07-31	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH), isozyme 1; involved in glycolysis and gluconeogenesis; tetramer that catalyzes the reaction of glyceraldehyde-3-phosphate to 1,3 bis-phosphoglycerate; detected in the cytoplasm and cell wall; protein abundance increases in response to DNA replication stress; GAPDH-derived antimicrobial peptides secreted by S. cerevisiae are active against a wide variety of wine-related yeasts and bateria
+S000031373	CDS					YJL052W		10	338271	339269	W		2011-02-03	1996-07-31	
+S000003587	ORF	Verified	YJL051W	IRC8		chromosome 10		10	339787	342255	W		2011-02-03	1996-07-31	Bud tip localized protein of unknown function; mRNA is targeted to the bud by a She2p dependent transport system; mRNA is cell cycle regulated via Fkh2p, peaking in G2/M phase; null mutant displays increased levels of spontaneous Rad52p foc
+S000030449	CDS					YJL051W		10	339787	342255	W		2011-02-03	1996-07-31	
+S000003586	ORF	Verified	YJL050W	MTR4	ATP-dependent RNA helicase MTR4|DOB1	chromosome 10	L000004110	10	342522	345743	W		2011-02-03	1996-07-31	ATP-dependent 3'-5' RNA helicase of the DExD/H family; involved in nuclear RNA processing and degradation both as a component of TRAMP complex and in TRAMP-independent processes; TRAMP unwinds RNA duplexes, with Mtr4p unwinding activity stimulated by Pap2p/Air2p but not dependent on ongoing polyadenylation; contains an arch domain, with two coiled-coil arms/stalks and a globular fist/KOW domain, which has RNA binding activity and is required for 5.8S rRNA processing
+S000030313	CDS					YJL050W		10	342522	345743	W		2011-02-03	1996-07-31	
+S000003585	ORF	Uncharacterized	YJL049W	CHM7		chromosome 10		10	345973	347325	W		2011-02-03	1996-07-31	Yeast homolog of human CHMP7, localizes to the endoplasmic reticulum presumably as part of an ESCRT-III like complex; null mutant has growth defect at 37 C in an apq12 deletion background; non-essential gene
+S000036773	CDS					YJL049W		10	345973	347325	W		2011-02-03	1996-07-31	
+S000003584	ORF	Verified	YJL048C	UBX6	CUI2	chromosome 10		10	348637	347447	C		2011-02-03	1996-07-31	UBX (ubiquitin regulatory X) domain-containing protein; interacts with Cdc48p, transcription is repressed when cells are grown in media containing inositol and choline; UBX6 has a paralog, UBX7, that arose from the whole genome duplication
+S000036634	CDS					YJL048C		10	348637	347447	C		2011-02-03	1996-07-31	
+S000028804	ORF	Uncharacterized	YJL047C-A			chromosome 10		10	349178	349044	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000033585	CDS					YJL047C-A		10	349178	349044	C		2011-02-03	2003-07-29	
+S000006451	snoRNA_gene		snR60	SNR60		chromosome 10	L000004529	10	349233	349130	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at positions A817 and G908
+S000030821	noncoding_exon					snR60		10	349233	349130	C		2011-02-03	2000-05-19	
+S000003583	ORF	Verified	YJL047C	RTT101	cullin RTT101|CULC|CUL8	chromosome 10	L000004737	10	352108	349580	C		2011-02-03	1996-07-31	Cullin subunit of a Roc1p-dependent E3 ubiquitin ligase complex; role in anaphase progression; required for recovery after DSB repair; implicated in Mms22-dependent DNA repair; involved with Mms1p in nonfunctional rRNA decay; modified by the ubiquitin-like protein, Rub1p
+S000036565	CDS					YJL047C		10	352108	349580	C		2011-02-03	1996-07-31	
+S000003582	ORF	Verified	YJL046W	AIM22	putative lipoate--protein ligase|RRG3|LIP3	chromosome 10		10	352386	353615	W		2011-02-03	1996-07-31|2005-12-01	Putative lipoate-protein ligase; required along with Lip2 and Lip5 for lipoylation of Lat1p and Kgd2p; similar to E. coli LplA; null mutant displays reduced frequency of mitochondrial genome loss
+S000036505	CDS					YJL046W		10	352386	353615	W		2011-02-03	1996-07-31|2005-12-01	
+S000006781	tRNA_gene		tY(GUA)J1	SUP7		chromosome 10	L000003607|L000002186	10	354244	354332	W	-32	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000032080	intron					tY(GUA)J1		10	354283	354296	W		2011-02-03	2000-05-19	
+S000032078	noncoding_exon					tY(GUA)J1		10	354244	354282	W		2011-02-03	2000-05-19	
+S000032079	noncoding_exon					tY(GUA)J1		10	354297	354332	W		2011-02-03	2000-05-19	
+S000007024	long_terminal_repeat		YJLCdelta5			chromosome 10		10	355175	354844	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007023	long_terminal_repeat		YJLCdelta4			chromosome 10		10	355204	354538	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006714	tRNA_gene		tR(UCU)J1			chromosome 10	L000003608	10	355374	355445	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000030321	noncoding_exon					tR(UCU)J1		10	355374	355445	W		2011-02-03	2000-05-19	
+S000006537	tRNA_gene		tD(GUC)J2			chromosome 10	L000003609	10	355456	355527	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000030790	noncoding_exon					tD(GUC)J2		10	355456	355527	W		2011-02-03	2000-05-19	
+S000003581	ORF	Verified	YJL045W		succinate dehydrogenase SDH1b|SDH1b	chromosome 10		10	356024	357928	W		2011-02-03	1996-07-31	Minor succinate dehydrogenase isozyme; participates in oxidation of succinate and transfer of electrons to ubiquinone; induced during the diauxic shift in a Cat8p-dependent manner; YJL045W has a paralog, SDH1, that arose from the whole genome duplication
+S000035600	CDS					YJL045W		10	356024	357928	W		2011-02-03	1996-07-31	
+S000003580	ORF	Verified	YJL044C	GYP6		chromosome 10	L000000748	10	359676	358300	C		2011-02-03	1996-07-31	GTPase-activating protein (GAP) for yeast Rab family member Ypt6p; involved in vesicle mediated protein transport
+S000035463	CDS					YJL044C		10	359676	358300	C		2011-02-03	1996-07-31	
+S000003579	ORF	Uncharacterized	YJL043W			chromosome 10		10	360130	360903	W		2011-02-03	1996-07-31	Putative protein of unknown function; YJL043W is a non-essential gene
+S000035409	CDS					YJL043W		10	360130	360903	W		2011-02-03	1996-07-31	
+S000003578	ORF	Verified	YJL042W	MHP1		chromosome 10	L000002720	10	361249	365445	W		2011-02-03	1996-07-31	Microtubule-associated protein involved in microtubule organization; involved in assembly and stabilization of microtubules; overproduction results in cell cycle arrest at G2 phase; similar to Drosophila protein MAP and to mammalian MAP4 proteins
+S000034384	CDS					YJL042W		10	361249	365445	W		2011-02-03	1996-07-31	
+S000003577	ORF	Verified	YJL041W	NSP1	FG-nucleoporin NSP1	chromosome 10	L000001277	10	365784	368373	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; also part of the nuclear pore complex (NPC) nuclear basket; contributes directly to nucleocytoplasmic transport and maintenance of the NPC permeability barrier; found in stable complex with Nup82p, Gle2p and two other FG-nucleoporins (Nup159p and Nup116p); also found in stable complex with Nic96p and two other FG-nucleoproteins (Nup49p and Nup57p)
+S000034258	CDS					YJL041W		10	365784	365784	W		2011-02-03	1996-07-31	
+S000034259	CDS					YJL041W		10	365903	368373	W		2011-02-03	1996-07-31	
+S000034260	intron					YJL041W		10	365785	365902	W		2011-02-03	1996-07-31	
+S000003576	ORF	Verified	YJL039C	NUP192		chromosome 10	S000007465	10	373799	368748	C		2011-02-03	1996-07-31	Essential subunit of inner ring of nuclear pore complex (NPC); plays a role in modulating transport through the NPC; homologous to human NUP205
+S000034602	CDS					YJL039C		10	373799	368748	C		2011-02-03	1996-07-31	
+S000006538	tRNA_gene		tD(GUC)J3			chromosome 10	L000003625	10	374495	374424	C		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000030793	noncoding_exon					tD(GUC)J3		10	374495	374424	C		2011-02-03	2000-05-19	
+S000006715	tRNA_gene		tR(UCU)J2			chromosome 10	L000003624	10	374577	374506	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000030328	noncoding_exon					tR(UCU)J2		10	374577	374506	C		2011-02-03	2000-05-19	
+S000028449	ARS		ARS1012		ARSX-375	chromosome 10		10	374880	375122			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
+S000007025	long_terminal_repeat		YJLCdelta6			chromosome 10		10	374935	374844	C		2011-02-03	2000-05-19	Ty1 LTR
+S000028450	ARS		ARS1013			chromosome 10		10	375706	376227			2011-02-03	2002-12-16	Autonomously Replicating Sequence; inefficient as chromosomal replication origin; replication capacity dependent upon Sum1p
+S000003575	ORF	Verified	YJL038C	LOH1	OSW4	chromosome 10		10	375774	375115	C		2011-02-03	1996-07-31	Protein involved in outer spore wall assembly; likely involved directly in dityrosine layer assembly; induced during sporulation; repressed during vegetative growth by Sum1p and Hst1p; sequence similar to adjacent ORF, IRC18/YJL037W, and the irc18 loh1 double mutant exhibits reduced dityrosine fluorescence relative to the single mutants; SWAT-GFP and mCherry fusion proteins localize to the cytosol; proposed role in maintenance of genome integrity
+S000034497	CDS					YJL038C		10	375774	375115	C		2011-02-03	1996-07-31	
+S000003574	ORF	Verified	YJL037W	IRC18	OSW6	chromosome 10		10	376662	377336	W		2011-02-03	1996-07-31	Protein involved in outer spore wall assembly; possible role in assembly of the dityrosine layer; similar to adjacent ORF, LOH1; irc18 loh1 double mutant exhibits reduced dityrosine fluorescence relative to single mutants; SWAT-GFP fusion protein localizes to the ER and vacuole, while mCherry fusion localizes to the vacuole; expression induced in respiratory-deficient cells and carbon-limited chemostat culture; null mutant displays increased levels of spontaneous Rad52p foci
+S000034457	CDS					YJL037W		10	376662	377336	W		2011-02-03	1996-07-31	
+S000007026	long_terminal_repeat		YJLCdelta7			chromosome 10		10	377870	377598	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006759	tRNA_gene		tV(AAC)J			chromosome 10	L000003610	10	378360	378433	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000032964	noncoding_exon					tV(AAC)J		10	378360	378433	W		2011-02-03	2000-05-19	
+S000003573	ORF	Verified	YJL036W	SNX4	ATG24|CVT13	chromosome 10	S000007467|L000004764	10	378825	380096	W		2011-02-03	1996-07-31	Sorting nexin; involved in retrieval of late-Golgi SNAREs from post-Golgi endosomes to the trans-Golgi network and in cytoplasm to vacuole transport; contains a PX phosphoinositide-binding domain; forms complexes with Snx41p and with Atg20p
+S000032435	CDS					YJL036W		10	378825	380096	W		2011-02-03	1996-07-31	
+S000003572	ORF	Verified	YJL035C	TAD2	tRNA(adenine34) deaminase	chromosome 10	S000007489	10	381001	380249	C		2011-02-03	1996-07-31	Subunit of tRNA-specific adenosine-34 deaminase; forms a heterodimer with Tad3p that converts adenosine to inosine at the wobble position of several tRNAs
+S000032286	CDS					YJL035C		10	381001	380249	C		2011-02-03	1996-07-31	
+S000003571	ORF	Verified	YJL034W	KAR2	Hsp70 family ATPase KAR2|BIP|GRP78	chromosome 10	L000000887	10	381327	383375	W		2011-02-03	1996-07-31	ATPase involved in protein import into the ER; also acts as a chaperone to mediate protein folding in the ER and may play a role in ER export of soluble proteins; regulates the unfolded protein response via interaction with Ire1p
+S000032230	CDS					YJL034W		10	381327	383375	W		2011-02-03	1996-07-31	
+S000003570	ORF	Verified	YJL033W	HCA4	RNA-dependent ATPase HCA4|ECM24|DBP4	chromosome 10	L000003421	10	383837	386149	W		2011-02-03	1996-07-31	DEAD box RNA helicase; component of the SSU; interacts with Bfr2p and Enp2p; high-copy number suppression of a U14 snoRNA processing mutant suggests an involvement in 18S rRNA synthesis
+S000031248	CDS					YJL033W		10	383837	386149	W		2011-02-03	1996-07-31	
+S000003569	ORF	Dubious	YJL032W			chromosome 10		10	386348	386662	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 3' end of essential BET4 gene encoding the alpha subunit of Type II geranylgeranyltransferase
+S000031093	CDS					YJL032W		10	386348	386662	W		2011-02-03	1996-07-31	
+S000003568	ORF	Verified	YJL031C	BET4	Rab geranylgeranyltransferase BET4	chromosome 10	L000000173	10	387438	386368	C		2011-02-03	2004-01-27|1996-07-31	Alpha subunit of Type II geranylgeranyltransferase; required for vesicular transport between the endoplasmic reticulum and the Golgi; provides a membrane attachment moiety to Rab-like proteins Ypt1p and Sec4p
+S000030060	CDS					YJL031C		10	387348	386368	C		2011-02-03	2004-01-27	
+S000030059	CDS					YJL031C		10	387438	387436	C		2011-02-03	2004-01-27|1996-07-31	
+S000030061	intron					YJL031C		10	387435	387349	C		2011-02-03	2004-01-27	
+S000003567	ORF	Verified	YJL030W	MAD2	spindle checkpoint protein MAD2	chromosome 10	L000000975	10	387657	388247	W		2011-02-03	1996-07-31	Component of the spindle-assembly checkpoint complex; delays onset of anaphase in cells with defects in mitotic spindle assembly; forms a complex with Mad1p; regulates APC/C activity during prometaphase and metaphase of meiosis I; gene dosage imbalance between MAD1 and MAD2 leads to chromosome instability
+S000030009	CDS					YJL030W		10	387657	388247	W		2011-02-03	1996-07-31	
+S000003566	ORF	Verified	YJL029C	VPS53		chromosome 10		10	390853	388385	C		2011-02-03	1996-07-31	Component of the GARP (Golgi-associated retrograde protein) complex; GARP is required for the recycling of proteins from endosomes to the late Golgi, and for mitosis after DNA damage induced checkpoint arrest; required for vacuolar protein sorting; members of the GARP complex are Vps51p-Vps52p-Vps53p-Vps54p; human ortholog is implicated in progressive cerebello-cerebral atrophy type 2 (PCCA2)
+S000030293	CDS					YJL029C		10	390853	388385	C		2011-02-03	1996-07-31	
+S000006661	tRNA_gene		tM(CAU)J1	EMT5		chromosome 10	L000000555|L000003623	10	391115	391043	C		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
+S000029920	noncoding_exon					tM(CAU)J1		10	391115	391043	C		2011-02-03	2000-05-19	
+S000003565	ORF	Verified	YJL028W			chromosome 10		10	391311	391646	W		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments
+S000030214	CDS					YJL028W		10	391311	391646	W		2011-02-03	1996-07-31	
+S000003564	ORF	Uncharacterized	YJL027C			chromosome 10		10	392249	391833	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000036407	CDS					YJL027C		10	392249	391833	C		2011-02-03	1996-07-31	
+S000003563	ORF	Verified	YJL026W	RNR2	ribonucleotide-diphosphate reductase subunit RNR2|CRT6	chromosome 10	L000001656	10	392404	393603	W	0	2011-02-03	1996-07-31	Ribonucleotide-diphosphate reductase (RNR), small subunit; the RNR complex catalyzes the rate-limiting step in dNTP synthesis and is regulated by DNA replication and DNA damage checkpoint pathways via localization of the small subunits; RNR2 has a paralog, RNR4, that arose from the whole genome duplication
+S000036365	CDS					YJL026W		10	392404	393603	W		2011-02-03	1996-07-31	
+S000028660	ORF	Dubious	YJL026C-A			chromosome 10		10	393287	393066	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YJL026W/RNR2
+S000032485	CDS					YJL026C-A		10	393287	393066	C		2011-02-03	2003-07-29	
+S000003562	ORF	Verified	YJL025W	RRN7		chromosome 10	L000001773	10	393967	395511	W		2011-02-03	1996-07-31	Component of the core factor (CF) rDNA transcription factor complex; CF is required for transcription of 35S rRNA genes by RNA polymerase I and is composed of Rrn6p, Rrn7p, and Rrn11p
+S000036283	CDS					YJL025W		10	393967	395511	W		2011-02-03	1996-07-31	
+S000003561	ORF	Verified	YJL024C	APS3	YKS7	chromosome 10	L000003174	10	396592	395931	C		2011-02-03	1996-07-31	Small subunit of the clathrin-associated adaptor complex AP-3; involved in vacuolar protein sorting; related to the sigma subunit of the mammalian clathrin AP-3 complex; suppressor of loss of casein kinase 1 function; protein abundance increases in response to DNA replication stress
+S000036076	CDS					YJL024C		10	396493	395931	C		2011-02-03	1996-07-31	
+S000036075	CDS					YJL024C		10	396592	396571	C		2011-02-03	1996-07-31	
+S000036077	intron					YJL024C		10	396570	396494	C		2011-02-03	1996-07-31	
+S000006583	tRNA_gene		tG(GCC)J1			chromosome 10	L000003622	10	396796	396726	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000030415	noncoding_exon					tG(GCC)J1		10	396796	396726	C		2011-02-03	2000-05-19	
+S000003559	ORF	Dubious	YJL022W			chromosome 10		10	398109	398417	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene PET130
+S000035121	CDS					YJL022W		10	398109	398417	W		2011-02-03	1996-07-31	
+S000003560	ORF	Verified	YJL023C	PET130		chromosome 10	L000003025	10	398398	397355	C		2011-02-03	1996-07-31	Protein required for respiratory growth; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000035183	CDS					YJL023C		10	398398	397355	C		2011-02-03	1996-07-31	
+S000028659	ORF	Dubious	YJL020W-A			chromosome 10		10	400981	401238	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YJL020C/BBC1
+S000032463	CDS					YJL020W-A		10	400981	401238	W		2011-02-03	2003-07-29	
+S000003557	ORF	Verified	YJL020C	BBC1	YJL021C|MTI1	chromosome 10		10	402410	398937	C		2011-02-03	2001-06-28|1996-07-31	Protein possibly involved in assembly of actin patches; interacts with an actin assembly factor Las17p and with the SH3 domains of Type I myosins Myo3p and Myo5p; localized predominantly to cortical actin patches
+S000033969	CDS					YJL020C		10	402410	398937	C		2011-02-03	2001-06-28|1996-07-31	
+S000003556	ORF	Verified	YJL019W	MPS3	YJL018W|NEP98	chromosome 10		10	402897	404945	W		2011-02-03	2003-01-02|1996-07-31	Nuclear envelope protein; required for SPB insertion, SPB duplication, Kar5p localization near the SPB and nuclear fusion; interacts with Mps2p to tether half-bridge to core SPB; N-terminal acetylation by Eco1p regulates its role in nuclear organization; localizes to the SPB half bridge and telomeres during meiosis; required with Ndj1p and Csm4p for meiotic bouquet formation and telomere-led rapid prophase movement; member of the SUN protein family (Sad1-UNC-84 homology)
+S000035368	CDS					YJL019W		10	402897	404945	W		2011-02-03	2003-01-02|1996-07-31	
+S000003553	ORF	Uncharacterized	YJL016W	TPH3	YJL017W	chromosome 10		10	405588	407273	W		2011-02-03	2003-09-29|1996-07-31	Putative protein of unknown function; GFP-fusion protein localizes to the cytoplasm; contains two adjacent PH-like domains; conserved in closely related Saccharomyces species
+S000034286	CDS					YJL016W		10	405588	407273	W		2011-02-03	2003-09-29|1996-07-31	
+S000003552	ORF	Dubious	YJL015C			chromosome 10		10	407426	407142	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame unlikely to encode a functional protein; expression if heat-inducible; located in promoter region of essential CCT3 gene encoding a subunit of the cytosolic chaperonin Cct ring complex, overlaps ORF YJL016W
+S000034109	CDS					YJL015C		10	407426	407142	C		2011-02-03	1996-07-31|2011-02-03	
+S000003551	ORF	Verified	YJL014W	CCT3	chaperonin-containing T-complex subunit CCT3|TCP3|BIN2	chromosome 10	L000002270	10	407558	409162	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo; capable of binding Q/N rich proteins and mediating their folding
+S000034079	CDS					YJL014W		10	407558	409162	W		2011-02-03	1996-07-31	
+S000003550	ORF	Verified	YJL013C	MAD3		chromosome 10	L000003179	10	411040	409493	C		2011-02-03	1996-07-31	Subunit of spindle-assembly checkpoint complex; involved in delaying anaphase onset in cells with defects in mitotic spindle assembly; pseudosubstrate inhibitor of APC(Cdc20), the anaphase promoting complex involved in securin (Pds1p) turnover; MAD3 has a paralog, BUB1, that arose from the whole genome duplication
+S000032025	CDS					YJL013C		10	411040	409493	C		2011-02-03	1996-07-31	
+S000003549	ORF	Verified	YJL012C	VTC4	YJL012C-A|PHM3	chromosome 10	S000007513	10	413399	411234	C		2011-02-03	2004-02-19|1996-07-31	Vacuolar membrane polyphosphate polymerase; subunit of the vacuolar transporter chaperone (VTC) complex involved in synthesis and transfer of polyP to the vacuole; regulates membrane trafficking; role in non-autophagic vacuolar fusion; protein abundance increases in response to DNA replication stress
+S000031895	CDS					YJL012C		10	413399	411234	C		2011-02-03	2004-02-19|1996-07-31	
+S000003548	ORF	Verified	YJL011C	RPC17	DNA-directed RNA polymerase III subunit RPC17|C17	chromosome 10		10	414770	414285	C		2011-02-03	1996-07-31|2011-02-03	RNA polymerase III subunit C17; physically interacts with C31, C11, and TFIIIB70; may be involved in the recruitment of pol III by the preinitiation complex; protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
+S000030894	CDS					YJL011C		10	414770	414285	C		2011-02-03	1996-07-31|2011-02-03	
+S000006625	tRNA_gene		tK(CUU)J			chromosome 10	L000003611	10	414966	415038	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000036030	noncoding_exon					tK(CUU)J		10	414966	415038	W		2011-02-03	2000-05-19	
+S000006773	tRNA_gene		tW(CCA)J			chromosome 10	L000003621	10	416036	415931	C		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
+S000033314	intron					tW(CCA)J		10	416000	415967	C		2011-02-03	2000-05-19	
+S000033313	noncoding_exon					tW(CCA)J		10	415966	415931	C		2011-02-03	2000-05-19	
+S000033312	noncoding_exon					tW(CCA)J		10	416036	416001	C		2011-02-03	2000-05-19	
+S000007047	long_terminal_repeat		YJLWtau3		YJRWtau3	chromosome 10		10	416266	416441	W		2011-02-03	2000-05-19	Ty4 LTR
+S000007029	long_terminal_repeat		YJLWdelta8			chromosome 10		10	416506	416650	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007030	long_terminal_repeat		YJLWdelta9			chromosome 10		10	416899	417026	W		2011-02-03	2000-05-19	Ty1 LTR
+S000028451	ARS		ARS1014		ARSX-417	chromosome 10		10	417195	417440			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
+S000003547	ORF	Verified	YJL010C	NOP9	RNA-binding RNA processing protein NOP9	chromosome 10		10	419562	417562	C		2011-02-03	1996-07-31	Essential subunit of U3-containing 90S preribosome; involved in production of 18S rRNA and assembly of small ribosomal subunit; also part of pre-40S ribosome and required for its export into cytoplasm; binds RNA and contains pumilio domain
+S000030801	CDS					YJL010C		10	419562	417562	C		2011-02-03	1996-07-31	
+S000003546	ORF	Dubious	YJL009W			chromosome 10		10	419855	420181	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps CCT8/YJL008C, a verified gene encoding a subunit of the cytosolic chaperonin Cct ring complex
+S000031233	CDS					YJL009W		10	419855	420181	W		2011-02-03	1996-07-31	
+S000003545	ORF	Verified	YJL008C	CCT8	chaperonin-containing T-complex subunit CCT8	chromosome 10	L000002764	10	421663	419957	C		2011-02-03	1996-07-31|2011-02-03	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo
+S000031107	CDS					YJL008C		10	421663	419957	C		2011-02-03	1996-07-31|2011-02-03	
+S000007038	long_terminal_repeat		YJLWtau4			chromosome 10		10	421946	422295	W		2011-02-03	2000-05-19|2011-02-03	Ty4 LTR
+S000007031	long_terminal_repeat		YJLWdelta10			chromosome 10		10	422601	422887	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006662	tRNA_gene		tM(CAU)J2	EMT3		chromosome 10	L000000553|L000003612	10	422937	423009	W		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
+S000029922	noncoding_exon					tM(CAU)J2		10	422937	423009	W		2011-02-03	2000-05-19	
+S000003544	ORF	Dubious	YJL007C			chromosome 10		10	423012	422698	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031008	CDS					YJL007C		10	423012	422698	C		2011-02-03	1996-07-31	
+S000003543	ORF	Verified	YJL006C	CTK2		chromosome 10	L000003011	10	424109	423138	C		2011-02-03	1996-07-31	Beta subunit of C-terminal domain kinase I (CTDK-I); which phosphorylates both RNA pol II subunit Rpo21p to affect transcription and pre-mRNA 3' end processing, and ribosomal protein Rps2p to increase translational fidelity; relocalizes to the cytosol in response to hypoxia
+S000030929	CDS					YJL006C		10	424109	423138	C		2011-02-03	1996-07-31	
+S000006650	tRNA_gene		tL(UAA)J	SUP51	SUP52	chromosome 10	L000002209|L000003620	10	424515	424432	C	0	2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; can mutate to suppress amber nonsense mutations
+S000037406	noncoding_exon					tL(UAA)J		10	424515	424432	C		2011-02-03	2000-05-19	
+S000003542	ORF	Verified	YJL005W	CYR1	adenylate cyclase|FIL1|TSM0185|SRA4|HSR1|CDC35	chromosome 10	L000000467	10	425157	431237	W	2	2011-02-03	1996-07-31	Adenylate cyclase; required for cAMP production and cAMP-dependent protein kinase signaling; the cAMP pathway controls a variety of cellular processes, including metabolism, cell cycle, stress response, stationary phase, and sporulation
+S000029993	CDS					YJL005W		10	425157	431237	W		2011-02-03	1996-07-31	
+S000003541	ORF	Verified	YJL004C	SYS1		chromosome 10	L000004153	10	432200	431589	C		2011-02-03	1996-07-31	Integral membrane protein of the Golgi; required for targeting of the Arf-like GTPase Arl3p to the Golgi; multicopy suppressor of ypt6 null mutation
+S000037910	CDS					YJL004C		10	432200	431589	C		2011-02-03	1996-07-31	
+S000003540	ORF	Verified	YJL003W	COX16		chromosome 10		10	432644	433000	W		2011-02-03	1996-07-31	Mitochondrial inner membrane protein; required for assembly of cytochrome c oxidase
+S000037880	CDS					YJL003W		10	432644	433000	W		2011-02-03	1996-07-31	
+S000003539	ORF	Verified	YJL002C	OST1	dolichyl-diphosphooligosaccharide--protein glycotransferase subunit OST1|NLT1	chromosome 10	L000002649	10	434651	433221	C		2011-02-03	1996-07-31	Alpha subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins
+S000035955	CDS					YJL002C		10	434651	433221	C		2011-02-03	1996-07-31	
+S000003538	ORF	Verified	YJL001W	PRE3	proteasome core particle subunit beta 1|CRL21	chromosome 10	L000000418|L000001485	10	435163	435926	W		2011-02-03	1996-07-31	Beta 1 subunit of the 20S proteasome; responsible for cleavage after acidic residues in peptides
+S000035909	CDS					YJL001W		10	435163	435227	W		2011-02-03	1996-07-31	
+S000035910	CDS					YJL001W		10	435344	435926	W		2011-02-03	1996-07-31	
+S000035911	intron					YJL001W		10	435228	435343	W		2011-02-03	1996-07-31	
+S000006471	centromere		CEN10	CEN10		chromosome 10	L000000303	10	436425	436307	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome X centromere
+S000077296	centromere_DNA_Element_I					CEN10		10	436425	436416	C		2011-02-03	2004-10-08	
+S000077297	centromere_DNA_Element_II					CEN10		10	436415	436332	C		2011-02-03	2004-10-08	
+S000077298	centromere_DNA_Element_III					CEN10		10	436331	436307	C		2011-02-03	2004-10-08	
+S000003761	ORF	Verified	YJR001W	AVT1		chromosome 10		10	436802	438610	W		2011-02-03	1996-07-31	Vacuolar transporter; imports large neutral amino acids into the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
+S000033093	CDS					YJR001W		10	436802	438610	W		2011-02-03	1996-07-31	
+S000003762	ORF	Verified	YJR002W	MPP10	rRNA-processing protein MPP10	chromosome 10	L000004335	10	438865	440646	W		2011-02-03	1996-07-31	Component of the SSU processome and 90S preribosome; required for pre-18S rRNA processing, interacts with and controls the stability of Imp3p and Imp4p, essential for viability; similar to human Mpp10p
+S000033184	CDS					YJR002W		10	438865	440646	W		2011-02-03	1996-07-31	
+S000003763	ORF	Uncharacterized	YJR003C	MRX12		chromosome 10		10	442553	440994	C		2011-02-03	1996-07-31|2006-05-09	Protein that associates with mitochondrial ribosome; detected in highly purified mitochondria in high-throughput studies; predicted to be involved in ribosome biogenesis
+S000033209	CDS					YJR003C		10	442553	440994	C		2011-02-03	1996-07-31|2006-05-09	
+S000028452	ARS		ARS1015			chromosome 10		10	442556	442965			2011-02-03	2002-12-16	Autonomously Replicating Sequence
+S000003764	ORF	Verified	YJR004C	SAG1	AG(ALPHA)1	chromosome 10	L000001796	10	444861	442909	C	2	2011-02-03	1996-07-31	Alpha-agglutinin of alpha-cells; binds to Aga1p during agglutination, N-terminal half is homologous to the immunoglobulin superfamily and contains binding site for a-agglutinin, C-terminal half is highly glycosylated and contains GPI anchor
+S000034030	CDS					YJR004C		10	444861	442909	C		2011-02-03	1996-07-31	
+S000003765	ORF	Verified	YJR005W	APL1	YAP80	chromosome 10	L000002495	10	445923	448025	W		2011-02-03	1996-07-31	Beta-adaptin; large subunit of the clathrin associated protein complex (AP-2); involved in vesicle mediated transport; similar to mammalian beta-chain of the clathrin associated protein complex
+S000034176	CDS					YJR005W		10	445923	448025	W		2011-02-03	1996-07-31	
+S000028523	ORF	Verified	YJR005C-A	LSO1		chromosome 10		10	448758	448477	C		2011-02-03	2003-07-29	Protein with a potential role in response to iron deprivation; transcription increases during iron deprivation and during treatment with 2-(6-benzyl-2-pyridyl)quinazoline (BPQ) and copper; regulated by Aft1p and, to a lesser extent, by Aft2p; originally identified as a syntenic homolog of an Ashbya gossypii gene; localizes to nucleus and cytoplasm, and nuclear localization is enhanced under iron-replete conditions
+S000030322	CDS					YJR005C-A		10	448758	448477	C		2011-02-03	2003-07-29	
+S000003766	ORF	Verified	YJR006W	POL31	DNA-directed DNA polymerase delta subunit POL31|HYS2|SDP5|HUS2	chromosome 10	L000002981	10	449202	450665	W		2011-02-03	1996-07-31	Subunit of DNA polymerase delta (polymerase III); essential for cell viability; involved in DNA replication and DNA repair; forms a complex with Rev3p, Rev7p and Pol32p; relocalizes to the cytosol in response to hypoxia
+S000035159	CDS					YJR006W		10	449202	450665	W		2011-02-03	1996-07-31	
+S000003767	ORF	Verified	YJR007W	SUI2	translation initiation factor eIF2 subunit alpha	chromosome 10	L000002178	10	451020	451934	W	2	2011-02-03	1996-07-31	Alpha subunit of the translation initiation factor eIF2; eIF2 is involved in identification of the start codon; phosphorylation of Ser51 is required for regulation of translation by inhibiting the exchange of GDP for GTP; protein abundance increases in response to DNA replication stress
+S000035254	CDS					YJR007W		10	451020	451934	W		2011-02-03	1996-07-31	
+S000003768	ORF	Verified	YJR008W	MHO1		chromosome 10		10	452430	453446	W		2011-02-03	1996-07-31	Protein of unknown function; inhibits haploid invasive growth when overexpressed; synthetically lethal with phospholipase C (PLC1); expression induced by mild heat-stress on a non-fermentable carbon source, upon entry into stationary phase and upon nitrogen deprivation; repressed by inosine and choline in an Opi1p-dependent manner; highly conserved from bacteria to human; Memo, the human homolog, is an ErbB2 interacting protein with an essential function in cell motility
+S000035336	CDS					YJR008W		10	452430	453446	W		2011-02-03	1996-07-31	
+S000028453	ARS		ARS1016			chromosome 10		10	454584	455555			2011-02-03	2002-12-16	Autonomously Replicating Sequence
+S000003769	ORF	Verified	YJR009C	TDH2	glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) TDH2|GAPDH|GLD2	chromosome 10	L000002273	10	454681	453683	C	2.95	2011-02-03	1996-07-31	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH), isozyme 2; involved in glycolysis and gluconeogenesis; tetramer that catalyzes reaction of glyceraldehyde-3-phosphate to 1,3 bis-phosphoglycerate; detected in cytoplasm and cell wall; protein abundance increases in response to DNA replication stress; GAPDH-derived antimicrobial peptides are active against a wide variety of wine-related yeasts and bateria; TDH2 has a paralog, TDH3, that arose from the whole genome duplication
+S000035380	CDS					YJR009C		10	454681	453683	C		2011-02-03	1996-07-31	
+S000003771	ORF	Verified	YJR010W	MET3	sulfate adenylyltransferase	chromosome 10	L000001078	10	456239	457774	W	3	2011-02-03	1996-07-31	ATP sulfurylase; catalyzes the primary step of intracellular sulfate activation, essential for assimilatory reduction of sulfate to sulfide, involved in methionine metabolism; human homolog PAPSS2 complements yeast null mutant
+S000031767	CDS					YJR010W		10	456239	457774	W		2011-02-03	1996-07-31	
+S000003770	ORF	Verified	YJR010C-A	SPC1	signal peptidase complex subunit SPC1	chromosome 10	L000003006	10	458361	458077	C		2011-02-03	1996-07-31	Subunit of the signal peptidase complex (SPC); SPC cleaves the signal sequence from proteins targeted to the endoplasmic reticulum (ER); homolog of the SPC12 subunit of mammalian signal peptidase complex; protein abundance increases in response to DNA replication stress
+S000037612	CDS					YJR010C-A		10	458361	458077	C		2011-02-03	1996-07-31	
+S000028454	ARS		ARS1017			chromosome 10		10	459337	459895			2011-02-03	2002-12-16	Autonomously Replicating Sequence
+S000003772	ORF	Uncharacterized	YJR011C			chromosome 10		10	459426	458641	C		2011-02-03	1996-07-31	Putative protein of unknown function; GFP-fusion protein expression is induced in response to the DNA-damaging agent MMS
+S000031827	CDS					YJR011C		10	459426	458641	C		2011-02-03	1996-07-31	
+S000003774	ORF	Verified	YJR013W	GPI14	glycosylphosphatidylinositol-alpha 1,4 mannosyltransferase I|PMH1	chromosome 10		10	460382	461593	W		2011-02-03	2004-02-12|1996-07-31	Glycosylphosphatidylinositol-alpha 1,4 mannosyltransferase I; involved in GPI anchor biosynthesis, requires Pbn1p for function; homolog of mammalian PIG-M
+S000037491	CDS					YJR013W		10	460382	461593	W		2011-02-03	2004-02-12|1996-07-31	
+S000003773	ORF	Uncharacterized	YJR012C			chromosome 10		10	460418	459795	C		2011-02-03	1996-07-31	Essential protein of unknown function; proposed involvement in transport based on mass spectrometry analysis of copurifying proteins; partially overlaps neighboring ORF, GPI14/YJR013W
+S000031960	CDS					YJR012C		10	460418	459795	C		2011-02-03	1996-07-31	
+S000003775	ORF	Verified	YJR014W	TMA22	RBF22	chromosome 10		10	461829	462425	W		2011-02-03	1996-07-31	Protein of unknown function; associates with ribosomes and has a putative RNA binding domain; interacts with Tma20p; similar to human GRAP and human DRP1, which interacts with human Tma20p homolog MCT-1; protein abundance increases in response to DNA replication stress
+S000037578	CDS					YJR014W		10	461829	462425	W		2011-02-03	1996-07-31	
+S000003776	ORF	Uncharacterized	YJR015W			chromosome 10		10	462721	464253	W		2011-02-03	1996-07-31	Putative protein of unknown function; localizes to endoplasmic reticulum and cytoplasm; predicted to encode a membrane transporter based on phylogenetic analysis; not an essential gene; YJR015W has a paralog, SNG1, that arose from the whole genome duplication
+S000037660	CDS					YJR015W		10	462721	464253	W		2011-02-03	1996-07-31	
+S000003777	ORF	Verified	YJR016C	ILV3	dihydroxy-acid dehydratase ILV3	chromosome 10	L000000859	10	466208	464451	C	10	2011-02-03	1996-07-31	Dihydroxyacid dehydratase; catalyzes third step in the common pathway leading to biosynthesis of branched-chain amino acids
+S000037686	CDS					YJR016C		10	466208	464451	C		2011-02-03	1996-07-31	
+S000003779	ORF	Dubious	YJR018W			chromosome 10		10	466786	467148	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030641	CDS					YJR018W		10	466786	467148	W		2011-02-03	1996-07-31	
+S000003778	ORF	Verified	YJR017C	ESS1	peptidylprolyl isomerase ESS1|PIN1|PTF1	chromosome 10	L000000587	10	467033	466521	C	17	2011-02-03	2003-09-22|1996-07-31	Peptidylprolyl-cis/trans-isomerase (PPIase); specific for phosphorylated S/T residues N-terminal to proline; regulates phosphorylation of RNAPII large subunit (Rpo21p) C-terminal domain (CTD) at Ser7; associates with phospho-Ser5 form of RNAPII in vivo; present along entire coding length of genes; represses initiation of CUTs; required for efficient termination of mRNA transcription, trimethylation of histone H3; human ortholog PIN1 can complement yeast null and ts mutants
+S000030503	CDS					YJR017C		10	467033	466521	C		2011-02-03	2003-09-22|1996-07-31	
+S000003781	ORF	Dubious	YJR020W			chromosome 10		10	468001	468333	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030190	CDS					YJR020W		10	468001	468333	W		2011-02-03	1996-07-31	
+S000003780	ORF	Verified	YJR019C	TES1	PTE1	chromosome 10	L000003343	10	468281	467232	C		2011-02-03	1996-07-31	Peroxisomal acyl-CoA thioesterase; likely to be involved in fatty acid oxidation rather than fatty acid synthesis; conserved protein also found in human peroxisomes; TES1 mRNA levels increase during growth on fatty acids
+S000030681	CDS					YJR019C		10	468281	467232	C		2011-02-03	1996-07-31	
+S000003782	ORF	Verified	YJR021C	REC107	MER2	chromosome 10	L000001606	10	469579	468555	C		2011-02-03	1996-07-31	Protein involved in early stages of meiotic recombination; involved in coordination between the initiation of recombination and the first division of meiosis; part of a complex (Rec107p-Mei4p-Rec114p) required for ds break formation
+S000030251	CDS					YJR021C		10	469183	468555	C		2011-02-03	1996-07-31	
+S000030250	CDS					YJR021C		10	469579	469264	C		2011-02-03	1996-07-31	
+S000030252	intron					YJR021C		10	469263	469184	C		2011-02-03	1996-07-31	
+S000003783	ORF	Verified	YJR022W	LSM8	U4/U6-U5 snRNP complex subunit LSM8	chromosome 10	L000004687	10	469784	470113	W		2011-02-03	2003-09-22|1996-07-31	Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and Lsm7p) that is part of spliceosomal U6 snRNP and is also implicated in processing of pre-tRNA, pre-snoRNA, and pre-rRNA
+S000033657	CDS					YJR022W		10	469784	470113	W		2011-02-03	2003-09-22|1996-07-31	
+S000003784	ORF	Dubious	YJR023C			chromosome 10		10	470205	469804	C		2011-02-03	1996-07-31	Putative protein of unknown function; open reading frame overlaps LSM8/YJR022W encoding an essential snRNP protein required for RNA processing and splicing
+S000033704	CDS					YJR023C		10	470205	469804	C		2011-02-03	1996-07-31	
+S000003785	ORF	Verified	YJR024C	MDE1	methylthioribulose 1-phosphate dehydratase MDE1	chromosome 10		10	470964	470230	C		2011-02-03	1996-07-31	5'-methylthioribulose-1-phosphate dehydratase; acts in the methionine salvage pathway; potential Smt3p sumoylation substrate; expression downregulated by caspofungin and deletion mutant is caspofungin resistant
+S000033856	CDS					YJR024C		10	470964	470230	C		2011-02-03	1996-07-31	
+S000003786	ORF	Verified	YJR025C	BNA1	3-hydroxyanthranilate 3,4-dioxygenase|HAD1	chromosome 10	L000003490	10	471671	471138	C		2011-02-03	1996-07-31	3-hydroxyanthranilic acid dioxygenase; required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
+S000033981	CDS					YJR025C		10	471671	471138	C		2011-02-03	1996-07-31	
+S000007040	long_terminal_repeat		YJRWdelta11			chromosome 10		10	472463	472800	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007048	LTR_retrotransposon		YJRWTy1-1		Ty1	chromosome 10		10	472463	478384	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000003787	transposable_element_gene		YJR026W		gag protein	chromosome 10		10	472760	474082	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000034898	CDS					YJR026W		10	472760	474082	W		2011-02-03	1996-07-31	
+S000003788	transposable_element_gene		YJR027W		gag-pol fusion protein	chromosome 10		10	472760	478028	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000035049	CDS					YJR027W		10	472760	474061	W		2011-02-03	1996-07-31	
+S000035050	CDS					YJR027W		10	474063	478028	W		2011-02-03	1996-07-31	
+S000035051	plus_1_translational_frameshift					YJR027W		10	474062	474062	W		2011-02-03	1996-07-31	
+S000007041	long_terminal_repeat		YJRWdelta12			chromosome 10		10	478051	478384	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007049	LTR_retrotransposon		YJRWTy1-2		Ty1	chromosome 10		10	478051	483972	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000003789	transposable_element_gene		YJR028W		gag protein	chromosome 10		10	478344	479666	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000035151	CDS					YJR028W		10	478344	479666	W		2011-02-03	1996-07-31	
+S000003790	transposable_element_gene		YJR029W		gag-pol fusion protein	chromosome 10		10	478344	483612	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000036043	CDS					YJR029W		10	478344	479644	W		2011-02-03	1996-07-31	
+S000036044	CDS					YJR029W		10	479646	483612	W		2011-02-03	1996-07-31	
+S000036045	plus_1_translational_frameshift					YJR029W		10	479645	479645	W		2011-02-03	1996-07-31	
+S000007042	long_terminal_repeat		YJRWdelta13			chromosome 10		10	483635	483972	W		2011-02-03	2000-05-19	Ty1 LTR
+S000003791	ORF	Uncharacterized	YJR030C	RBH2	RBH2	chromosome 10		10	486196	483959	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression repressed in carbon limited vs carbon replete chemostat cultures; non-essential gene; contains a PH-like domain; RBH2 has a paralog, RBH1, that arose from the whole genome duplication
+S000034642	CDS					YJR030C		10	486196	483959	C		2011-02-03	1996-07-31	
+S000003792	ORF	Verified	YJR031C	GEA1	Arf family guanine nucleotide exchange factor GEA1	chromosome 10	L000004312	10	490812	486586	C		2011-02-03	1996-07-31	Guanine nucleotide exchange factor for ADP ribosylation factors (ARFs); involved in vesicular transport between the Golgi and ER, Golgi organization, and actin cytoskeleton organization; GEA1 has a paralog, GEA2, that arose from the whole genome duplication
+S000034771	CDS					YJR031C		10	490812	486586	C		2011-02-03	1996-07-31	
+S000003793	ORF	Verified	YJR032W	CPR7	peptidylprolyl isomerase CPR7	chromosome 10	L000003230	10	491081	492262	W		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; binds to Hsp82p and contributes to chaperone activity; plays a role in determining prion variants
+S000035830	CDS					YJR032W		10	491081	492262	W		2011-02-03	1996-07-31	
+S000003794	ORF	Verified	YJR033C	RAV1	SOI3	chromosome 10	S000029472|L000002969	10	496451	492378	C		2011-02-03	1996-07-31	Subunit of RAVE complex (Rav1p, Rav2p, Skp1p); the RAVE complex promotes assembly of the V-ATPase holoenzyme; required for transport between the early and late endosome/PVC and for localization of TGN membrane proteins; potential Cdc28p substrate
+S000035875	CDS					YJR033C		10	496451	492378	C		2011-02-03	1996-07-31	
+S000003795	ORF	Verified	YJR034W	PET191		chromosome 10	L000001400	10	496683	497009	W		2011-02-03	1996-07-31	Protein required for assembly of cytochrome c oxidase; exists as an oligomer; described as both an integral mitochondrial inner membrane protein facing the intermembrane space (IMS) and as a soluble IMS protein; contains a twin Cx9C motif; imported into the IMS via the MIA import machinery
+S000037813	CDS					YJR034W		10	496683	497009	W		2011-02-03	1996-07-31	
+S000003796	ORF	Verified	YJR035W	RAD26	DNA-dependent ATPase RAD26	chromosome 10	L000001569	10	497355	500612	W		2011-02-03	1996-07-31	Protein involved in transcription-coupled nucleotide excision repair; repairs UV-induced DNA lesions; recruitment to DNA lesions is dependent on an elongating RNA polymerase II; homolog of human CSB protein
+S000037907	CDS					YJR035W		10	497355	500612	W		2011-02-03	1996-07-31	
+S000003798	ORF	Dubious	YJR037W			chromosome 10		10	503102	503485	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene HUL4/YJR036C; deletion mutant has decreased spore survival in Drosophila feces
+S000030927	CDS					YJR037W		10	503102	503485	W		2011-02-03	1996-07-31	
+S000003797	ORF	Verified	YJR036C	HUL4	putative E3 ubiquitin-protein ligase HUL4	chromosome 10		10	503391	500713	C		2011-02-03	1996-07-31	Protein with similarity to hect domain E3 ubiquitin-protein ligases; not essential for viability; found in association with Trf4 in TRAMP complex
+S000029850	CDS					YJR036C		10	503391	500713	C		2011-02-03	1996-07-31	
+S000003800	ORF	Uncharacterized	YJR039W			chromosome 10		10	503936	507301	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000031105	CDS					YJR039W		10	503936	507301	W		2011-02-03	1996-07-31	
+S000003799	ORF	Dubious	YJR038C			chromosome 10		10	504072	503710	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030967	CDS					YJR038C		10	504072	503710	C		2011-02-03	1996-07-31	
+S000003801	ORF	Verified	YJR040W	GEF1	CLC	chromosome 10	L000000701	10	507746	510085	W		2011-02-03	1996-07-31	Voltage-gated chloride channel; localized to the golgi, the endosomal system, and plasma membrane; involved in cation homeostasis; highly homologous to vertebrate voltage-gated chloride channels; modulates TBSV model (+) RNA virus replication by regulating copper metabolism
+S000030664	CDS					YJR040W		10	507746	510085	W		2011-02-03	1996-07-31	
+S000003802	ORF	Verified	YJR041C	URB2	NPA2	chromosome 10		10	513763	510239	C		2011-02-03	1996-07-31	Protein required for normal metabolism of the rRNA primary transcript; nucleolar protein; proposed to be involved in ribosome biogenesis
+S000030713	CDS					YJR041C		10	513763	510239	C		2011-02-03	1996-07-31	
+S000003803	ORF	Verified	YJR042W	NUP85	RAT9	chromosome 10	L000003023	10	514055	516289	W		2011-02-03	1996-07-31	Subunit of the Nup84p subcomplex of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport and NPC biogenesis and is involved in establishment of a normal nucleocytoplasmic concentration gradient of the GTPase Gsp1p; also plays roles in several processes that may require localization of genes or chromosomes at the nuclear periphery, including double-strand break repair, transcription and chromatin silencing; homologous to human NUP85 aka NUP75
+S000030892	CDS					YJR042W		10	514055	516289	W		2011-02-03	1996-07-31	
+S000003804	ORF	Verified	YJR043C	POL32	DNA polymerase delta subunit POL32|REV5	chromosome 10	L000004337|S000029416|L000001617	10	517513	516461	C		2011-02-03	1996-07-31	Third subunit of DNA polymerase delta; involved in chromosomal DNA replication; required for error-prone DNA synthesis in the presence of DNA damage and processivity; forms a complex with Rev3p, Rev7p and Pol31p; interacts with Hys2p, PCNA (Pol30p), and Pol1p
+S000031802	CDS					YJR043C		10	517513	516461	C		2011-02-03	1996-07-31	
+S000006663	tRNA_gene		tM(CAU)J3	IMT3		chromosome 10	L000003619	10	517884	517813	C		2011-02-03	2000-05-19	Methionine initiator tRNA (tRNA-Met); predicted by tRNAscan-SE analysis; one of four initiator methionine tRNAs in yeast that are functional for translation
+S000029924	noncoding_exon					tM(CAU)J3		10	517884	517813	C		2011-02-03	2000-05-19	
+S000007043	long_terminal_repeat		YJRWdelta14			chromosome 10		10	517959	518099	W		2011-02-03	2000-05-19	Ty1 LTR
+S000003805	ORF	Verified	YJR044C	VPS55		chromosome 10		10	519185	518763	C		2011-02-03	1996-07-31	Late endosomal protein involved in late endosome to vacuole transport; functional homolog of human obesity receptor gene-related protein (OB-RGRP)
+S000031950	CDS					YJR044C		10	519185	518763	C		2011-02-03	1996-07-31	
+S000003806	ORF	Verified	YJR045C	SSC1	Hsp70 family ATPase SSC1|mtHSP70|ENS1	chromosome 10	L000000561	10	521602	519638	C		2011-02-03	1996-07-31	Hsp70 family ATPase; constituent of the import motor component of the Translocase of the Inner Mitochondrial membrane (TIM23 complex); involved in protein translocation and folding; subunit of SceI endonuclease; SSC1 has a paralog, ECM10, that arose from the whole genome duplication
+S000032104	CDS					YJR045C		10	521602	519638	C		2011-02-03	1996-07-31	
+S000003807	ORF	Verified	YJR046W	TAH11	CDT1|SID2	chromosome 10	L000004733	10	522048	523862	W		2011-02-03	1996-07-31	DNA replication licensing factor; required for pre-replication complex assembly
+S000034108	CDS					YJR046W		10	522048	523862	W		2011-02-03	1996-07-31	
+S000006727	tRNA_gene		tS(AGA)J			chromosome 10	L000003618	10	524093	524012	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000032380	noncoding_exon					tS(AGA)J		10	524093	524012	C		2011-02-03	2000-05-19	
+S000003808	ORF	Verified	YJR047C	ANB1	translation elongation factor eIF-5A|eIF-5A|eIF5A|TIF51B|HYP1	chromosome 10	L000000085|L000000846|L000002308	10	525381	524908	C		2011-02-03	1996-07-31	Translation elongation factor eIF-5A; previously thought to function in translation initiation; undergoes an essential hypusination modification; expressed under anaerobic conditions; ANB1 has a paralog, HYP2, that arose from the whole genome duplication; human EIF5A complements the inviability of the yeast hyp2 anb1 double null mutant
+S000034179	CDS					YJR047C		10	525381	524908	C		2011-02-03	1996-07-31	
+S000003809	ORF	Verified	YJR048W	CYC1	cytochrome c isoform 1	chromosome 10	L000000448	10	526335	526664	W	34	2011-02-03	1996-07-31	Cytochrome c, isoform 1; also known as iso-1-cytochrome c; electron carrier of mitochondrial intermembrane space that transfers electrons from ubiquinone-cytochrome c oxidoreductase to cytochrome c oxidase during cellular respiration; CYC1 has a paralog, CYC7, that arose from the whole genome duplication; human homolog CYC1 can complement yeast null mutant; mutations in human CYC1 cause insulin-responsive hyperglycemia
+S000034309	CDS					YJR048W		10	526335	526664	W		2011-02-03	1996-07-31	
+S000003810	ORF	Verified	YJR049C	UTR1	NADH/NAD(+) kinase	chromosome 10	L000002680	10	528476	526884	C		2011-02-03	1996-07-31	ATP-NADH kinase; phosphorylates both NAD and NADH; active as a hexamer; enhances the activity of ferric reductase (Fre1p); UTR1 has a paralog, YEF1, that arose from the whole genome duplication
+S000034337	CDS					YJR049C		10	528476	526884	C		2011-02-03	1996-07-31	
+S000003811	ORF	Verified	YJR050W	ISY1	NTC30|UTR3	chromosome 10	L000002730	10	528697	529404	W		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); NTC contains Prp19p and stabilizes U6 snRNA in catalytic forms of spliceosome containing U2, U5, and U6 snRNAs; interacts with Prp16p to modulate splicing fidelity; isy1 syf2 cells have defective spindles 
+S000033850	CDS					YJR050W		10	528697	529404	W		2011-02-03	1996-07-31	
+S000003812	ORF	Verified	YJR051W	OSM1	fumarate reductase|FRDS2	chromosome 10	L000001317	10	529861	531366	W	34	2011-02-03	1996-07-31	Fumarate reductase, catalyzes the reduction of fumarate to succinate; required for the reoxidation of intracellular NADH under anaerobic conditions; mutations cause osmotic sensitivity; has two translation start sites, one at the annotated start codon which produces an ER-targeted form required for anaerobic growth, and one at codon 32 which produces a mitochondrially-targeted form; OSM1 has a paralog, FRD1, that arose from the whole genome duplication
+S000033966	CDS					YJR051W		10	529861	531366	W		2011-02-03	1996-07-31	
+S000007032	long_terminal_repeat		YJRCdelta15		YJLWdelta15	chromosome 10		10	531675	531516	C		2011-02-03	2000-05-19|2007-04-04	Ty1 LTR
+S000006584	tRNA_gene		tG(GCC)J2	SUF23		chromosome 10	L000003613|S000029541|L000002170	10	531828	531898	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly); can mutate to suppress +1 frameshift mutations
+S000030417	noncoding_exon					tG(GCC)J2		10	531828	531898	W		2011-02-03	2000-05-19	
+S000003813	ORF	Verified	YJR052W	RAD7	UV-damaged DNA-binding protein RAD7	chromosome 10	L000001561	10	532062	533759	W	35	2011-02-03	1996-07-31	Nucleotide excision repair (NER) protein; binds damaged DNA during NER; binds DNA in an ATP-dependent manner (with Rad16p) during NER; required for repair of non-transcribed chromatin; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex
+S000034844	CDS					YJR052W		10	532062	533759	W		2011-02-03	1996-07-31	
+S000003814	ORF	Verified	YJR053W	BFA1	IBD1	chromosome 10		10	534027	535751	W		2011-02-03	1996-07-31	Subunit of a two-component GTPase-activating protein, Bfa1p-Bub2p; contributes to GAP activity, inactivating Tem1 by stimulating GTP hydrolysis following damage or misalignment of the mitotic spindle; functions as a guanine-nucleotide exchange inhibitor (GDI) for Tem1p; involved in multiple cell cycle checkpoint pathways that control mitotic exit; required when telomeres are damaged, but not for all types of chromosomal DNA damage; phosphorylated by the Polo-like kinase Cdc5p
+S000034983	CDS					YJR053W		10	534027	535751	W		2011-02-03	1996-07-31	
+S000003815	ORF	Verified	YJR054W	KCH1	ERM6	chromosome 10		10	536056	537549	W		2011-02-03	1996-07-31	Potassium transporter that mediates K+ influx; activates high-affinity Ca2+ influx system (HACS) during mating pheromone response; expression up-regulated in response to alpha factor; localized to sites of polarized growth; member of a fungal-specific gene family; potential Cdc28p substrate; KCH1 has a paralog, PRM6, that arose from the whole genome duplication
+S000035180	CDS					YJR054W		10	536056	537549	W		2011-02-03	1996-07-31	
+S000007033	long_terminal_repeat		YJRCdelta16		YJLWdelta16	chromosome 10		10	538041	537741	C		2011-02-03	2000-05-19|2007-04-04	Ty1 LTR
+S000007044	long_terminal_repeat		YJRWdelta17			chromosome 10		10	538103	538434	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006707	tRNA_gene		tR(CCU)J	HSX1		chromosome 10		10	538555	538626	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; low abundance tRNA required for growth on nonfermentable carbon sources at high temperatures, for synthesis of heat shock protein Ssc1p, and for Ty1 retrotransposition through the regulation of translational frameshifting
+S000032860	noncoding_exon					tR(CCU)J		10	538555	538626	W		2011-02-03	2000-05-19	
+S000003816	ORF	Verified	YJR055W	HIT1		chromosome 10	L000000786	10	538772	539266	W		2011-02-03	1996-07-31	Protein involved in C/D snoRNP assembly; regulates abundance of Rsa1p; required for growth at high temperature; similar to human ZNHIT3
+S000036066	CDS					YJR055W		10	538772	539266	W		2011-02-03	1996-07-31	
+S000028455	ARS		ARS1018		ARSX-540	chromosome 10		10	540546	540780			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
+S000007045	long_terminal_repeat		YJRWdelta18			chromosome 10		10	540766	541087	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007034	long_terminal_repeat		YJRCdelta19		YJLWdelta19	chromosome 10		10	541427	541095	C		2011-02-03	2000-05-19|2007-04-04	Ty1 LTR
+S000006539	tRNA_gene		tD(GUC)J4			chromosome 10	L000003615	10	541508	541579	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000030795	noncoding_exon					tD(GUC)J4		10	541508	541579	W		2011-02-03	2000-05-19	
+S000003817	ORF	Verified	YJR056C			chromosome 10		10	542502	541792	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus; relative distribution to the nucleus increases upon DNA replication stress
+S000036154	CDS					YJR056C		10	542502	541792	C		2011-02-03	1996-07-31	
+S000006782	tRNA_gene		tY(GUA)J2	SUP4		chromosome 10	L000003617|L000002183	10	543044	542956	C	36	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000032087	intron					tY(GUA)J2		10	543005	542992	C		2011-02-03	2000-05-19	
+S000032086	noncoding_exon					tY(GUA)J2		10	542991	542956	C		2011-02-03	2000-05-19	
+S000032085	noncoding_exon					tY(GUA)J2		10	543044	543006	C		2011-02-03	2000-05-19	
+S000007046	long_terminal_repeat		YJRWdelta20			chromosome 10		10	543448	543770	W		2011-02-03	2000-05-19	Ty1 LTR
+S000003818	ORF	Verified	YJR057W	CDC8	bifunctional thymidylate/uridylate kinase	chromosome 10	L000000248	10	544062	544712	W	36	2011-02-03	1996-07-31	Thymidylate and uridylate kinase; functions in de novo biosynthesis of pyrimidine deoxyribonucleotides; converts dTMP to dTDP and dUMP to dUTP; essential for mitotic and meiotic DNA replication; homologous to S. pombe tmp1; human homolog DTYMK can complement yeast cdc8 null mutant
+S000036320	CDS					YJR057W		10	544062	544712	W		2011-02-03	1996-07-31	
+S000003819	ORF	Verified	YJR058C	APS2	YAP17	chromosome 10	L000002492	10	545175	544732	C		2011-02-03	1996-07-31	Small subunit of the clathrin-associated adaptor complex AP-2; AP-2 is involved in protein sorting at the plasma membrane; related to the sigma subunit of the mammalian plasma membrane clathrin-associated protein (AP-2) complex
+S000036359	CDS					YJR058C		10	545175	544732	C		2011-02-03	1996-07-31	
+S000003820	ORF	Verified	YJR059W	PTK2	protein kinase PTK2|STK2	chromosome 10	L000003492	10	545787	548243	W		2011-02-03	1996-07-31	Serine/threonine protein kinase; involved in regulation of ion transport across plasma membrane; carboxyl terminus is essential for glucose-dependent Pma1p activation via phosphorylation of Pma1p-Ser899; enhances spermine uptake; PTK2 has a paralog, PTK1, that arose from the whole genome duplication
+S000030117	CDS					YJR059W		10	545787	548243	W		2011-02-03	1996-07-31	
+S000003821	ORF	Verified	YJR060W	CBF1	GFII|CP1|CPF1|CEP1	chromosome 10	L000000311|L000000401	10	548759	549814	W	40	2011-02-03	1996-07-31	Basic helix-loop-helix (bHLH) protein; forms homodimer to bind E-box consensus sequence CACGTG present at MET gene promoters and centromere DNA element I (CDEI); affects nucleosome positioning at this motif; associates with other transcription factors such as Met4p and Isw1p to mediate transcriptional activation or repression; associates with kinetochore proteins, required for chromosome segregation; protein abundance increases in response to DNA replication stress
+S000037892	CDS					YJR060W		10	548759	549814	W		2011-02-03	1996-07-31	
+S000003822	ORF	Uncharacterized	YJR061W			chromosome 10		10	550511	553318	W		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene; transcription repressed by Rm101p; YJR061W has a paralog, MNN4, that arose from the whole genome duplication
+S000029930	CDS					YJR061W		10	550511	553318	W		2011-02-03	1996-07-31	
+S000003823	ORF	Verified	YJR062C	NTA1	amidase|DEA1	chromosome 10	L000001279	10	554849	553476	C		2011-02-03	1996-07-31	Amidase; removes the amide group from N-terminal asparagine and glutamine residues to generate proteins with N-terminal aspartate and glutamate residues that are targets of ubiquitin-mediated degradation
+S000029976	CDS					YJR062C		10	554849	553476	C		2011-02-03	1996-07-31	
+S000003824	ORF	Verified	YJR063W	RPA12	DNA-directed RNA polymerase I core subunit RPA12|A12.2|RRN4	chromosome 10	L000001672	10	555195	555572	W		2011-02-03	1996-07-31	RNA polymerase I subunit A12.2; contains two zinc binding domains, and the N terminal domain is responsible for anchoring to the RNA pol I complex; physically interacts with transcriptional activator Msn4p, to regulate transcription of AYR1, a gene involved in lipid metabolism
+S000031049	CDS					YJR063W		10	555195	555572	W		2011-02-03	1996-07-31	
+S000003825	ORF	Verified	YJR064W	CCT5	chaperonin-containing T-complex subunit CCT5|TCP5	chromosome 10	L000002717	10	555914	557602	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo
+S000031152	CDS					YJR064W		10	555914	557602	W		2011-02-03	1996-07-31	
+S000003826	ORF	Verified	YJR065C	ARP3	actin-related protein 3|ACT4	chromosome 10	L000003198	10	559158	557809	C		2011-02-03	1996-07-31	Essential component of the Arp2/3 complex; Arp2/3 is a highly conserved actin nucleation center required for the motility and integrity of actin patches; involved in endocytosis and membrane growth and polarity
+S000031207	CDS					YJR065C		10	559158	557809	C		2011-02-03	1996-07-31	
+S000003827	ORF	Verified	YJR066W	TOR1	phosphatidylinositol kinase-related protein kinase TOR1|DRR1	chromosome 10	L000002322	10	559416	566828	W	44.84	2011-02-03	1996-07-31	PIK-related protein kinase and rapamycin target; subunit of TORC1, a complex that controls growth in response to nutrients by regulating translation, transcription, ribosome biogenesis, nutrient transport and autophagy; involved in meiosis; TOR1 has a paralog, TOR2, that arose from the whole genome duplication
+S000032272	CDS					YJR066W		10	559416	566828	W		2011-02-03	1996-07-31	
+S000003828	ORF	Verified	YJR067C	YAE1		chromosome 10	L000004159	10	567444	567019	C		2011-02-03	1996-07-31	Protein that forms a complex with Lto1p and Rli1p; essential for growth under standard (aerobic) conditions but not under anaerobic conditions; may have a role in protection of ribosomal assembly and function from damage due to reactive oxygen species
+S000032323	CDS					YJR067C		10	567444	567019	C		2011-02-03	1996-07-31	
+S000003829	ORF	Verified	YJR068W	RFC2	replication factor C subunit 2	chromosome 10	L000001623	10	567643	568704	W		2011-02-03	1996-07-31	Subunit of heteropentameric Replication factor C (RF-C); RF-C is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon
+S000032475	CDS					YJR068W		10	567643	568704	W		2011-02-03	1996-07-31	
+S000003830	ORF	Verified	YJR069C	HAM1	nucleoside triphosphate pyrophosphohydrolase HAM1	chromosome 10	L000003233	10	569399	568806	C		2011-02-03	1996-07-31	Nucleoside triphosphate pyrophosphohydrolase; active against various substrates including ITP, dITP and XTP; mediates exclusion of non canonical purines, pyrimidines from dNTP pools; functions with YJL055W to mediate resistance to 5-FU; specifically reduces the incorporation of 5-FU into RNA without affecting uptake or incorporation of uracil into RNA; protein abundance increases in response to DNA replication stress; yeast HAM1 can complement knockdown of human homolog ITPA
+S000034432	CDS					YJR069C		10	569399	568806	C		2011-02-03	1996-07-31	
+S000003832	ORF	Dubious	YJR071W			chromosome 10		10	570405	570773	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033295	CDS					YJR071W		10	570405	570773	W		2011-02-03	1996-07-31	
+S000003831	ORF	Verified	YJR070C	LIA1	MMD1	chromosome 10		10	570598	569621	C		2011-02-03	1996-07-31	Deoxyhypusine hydroxylase; HEAT-repeat containing metalloenzyme that catalyzes hypusine formation; binds to and is required for the modification of Hyp2p (eIF5A); complements S. pombe mmd1 mutants defective in mitochondrial positioning; protein abundance increases in response to DNA replication stress
+S000033205	CDS					YJR070C		10	570598	569621	C		2011-02-03	1996-07-31	
+S000003833	ORF	Verified	YJR072C	NPA3	GTPase NPA3|GPN1|EPA1	chromosome 10		10	572124	570967	C		2011-02-03	1996-07-31	Member of the conserved GPN-loop GTPase family; has a role in transport of RNA polymerase II to the nucleus; exhibits GTP-dependent binding to PolII; has ATPase activity; involved in sister chromatid cohesion; phosphorylated by the Pcl1p-Pho85p kinase complex; human homolog XAB1 interacts with human RNA polymerase II; protein abundance increases in response to DNA replication stress
+S000034114	CDS					YJR072C		10	572124	570967	C		2011-02-03	1996-07-31	
+S000003834	ORF	Verified	YJR073C	OPI3	bifunctional phosphatidyl-N-methylethanolamine N-methyltransferase/phosphatidyl-N-dimethylethanolamine N-methyltransferase|PEM2	chromosome 10	L000001304	10	572935	572315	C		2011-02-03	1996-07-31	Methylene-fatty-acyl-phospholipid synthase; catalyzes the last two steps in phosphatidylcholine biosynthesis; also known as phospholipid methyltransferase
+S000034233	CDS					YJR073C		10	572935	572315	C		2011-02-03	1996-07-31	
+S000003835	ORF	Verified	YJR074W	MOG1	Ran GTPase-binding protein MOG1	chromosome 10	L000004615	10	573095	573751	W		2011-02-03	1996-07-31	Conserved nuclear protein that interacts with GTP-Gsp1p; stimulates nucleotide release from Gsp1p; involved in nuclear protein import; nucleotide release is inhibited by Yrb1p
+S000034411	CDS					YJR074W		10	573095	573751	W		2011-02-03	1996-07-31	
+S000003836	ORF	Verified	YJR075W	HOC1	alpha-1,6-mannosyltransferase	chromosome 10	L000003274	10	573981	575171	W		2011-02-03	1996-07-31	Alpha-1,6-mannosyltransferase; involved in cell wall mannan biosynthesis; subunit of a Golgi-localized complex that also contains Anp1p, Mnn9p, Mnn11p, and Mnn10p; identified as a suppressor of a cell lysis sensitive pkc1-371 allele
+S000035455	CDS					YJR075W		10	573981	575171	W		2011-02-03	1996-07-31	
+S000003837	ORF	Verified	YJR076C	CDC11	septin CDC11|PSL9	chromosome 10	L000000251	10	576601	575354	C	54	2011-02-03	1996-07-31	Component of the septin ring that is required for cytokinesis; present at the ends of rod-like septin hetero-oligomers; C-terminal extension is important for recruitment of Bni5p to the mother-bud neck, which in turn is required for Myo1p recruitment and cytokinesis; septin rings at the mother-bud neck act as scaffolds for recruiting cell division factors and as barriers to prevent diffusion of specific proteins between mother and daughter cells
+S000035494	CDS					YJR076C		10	576601	575354	C		2011-02-03	1996-07-31	
+S000003838	ORF	Verified	YJR077C	MIR1	PTP	chromosome 10	L000001114	10	578190	577255	C		2011-02-03	1996-07-31	Mitochondrial phosphate carrier; imports inorganic phosphate into mitochondria; functionally redundant with Pic2p but more abundant than Pic2p under normal conditions; phosphorylated
+S000035596	CDS					YJR077C		10	578190	577255	C		2011-02-03	1996-07-31	
+S000003839	ORF	Verified	YJR078W	BNA2	dioxygenase BNA2	chromosome 10		10	578860	580221	W		2011-02-03	1996-07-31	Tryptophan 2,3-dioxygenase or indoleamine 2,3-dioxygenase; required for de novo biosynthesis of NAD from tryptophan via kynurenine; interacts genetically with telomere capping gene CDC13; regulated by Hst1p and Aftp
+S000036561	CDS					YJR078W		10	578860	580221	W		2011-02-03	1996-07-31	
+S000003840	ORF	Uncharacterized	YJR079W			chromosome 10		10	580205	581239	W		2011-02-03	1996-07-31	Putative protein of unknown function; mutation results in impaired mitochondrial respiration
+S000036624	CDS					YJR079W		10	580205	580347	W		2011-02-03	1996-07-31	
+S000036625	CDS					YJR079W		10	581053	581239	W		2011-02-03	1996-07-31	
+S000036626	intron					YJR079W		10	580348	581052	W		2011-02-03	1996-07-31	
+S000003841	ORF	Verified	YJR080C	AIM24	FMP26	chromosome 10		10	581616	580432	C		2011-02-03	1996-07-31	Protein with a role in determining mitochondrial architecture; inner membrane protein that interacts physically and genetically with the MICOS complex and is required for its integrity
+S000037402	CDS					YJR080C		10	581616	580432	C		2011-02-03	1996-07-31	
+S000003842	ORF	Verified	YJR082C	EAF6		chromosome 10		10	582255	581914	C		2011-02-03	1996-07-31	Subunit of the NuA4 acetyltransferase complex; this complex acetylates histone H4 and NuA3 acetyltransferase complex that acetylates histone H3
+S000030287	CDS					YJR082C		10	582255	581914	C		2011-02-03	1996-07-31	
+S000003843	ORF	Verified	YJR083C	ACF4		chromosome 10		10	583537	582608	C		2011-02-03	1996-07-31	Protein of unknown function; computational analysis of large-scale protein-protein interaction data suggests a possible role in actin cytoskeleton organization; potential Cdc28p substrate
+S000030434	CDS					YJR083C		10	583537	582608	C		2011-02-03	1996-07-31	
+S000003844	ORF	Verified	YJR084W		CSN12	chromosome 10	S000007581	10	583733	585004	W		2011-02-03	1996-07-31	Protein that forms a complex with Thp3p; may have a role in transcription elongation and/or mRNA splicing; identified as a COP9 signalosome component but phenotype and interactions suggest it may not be involved with the signalosome
+S000031409	CDS					YJR084W		10	583733	585004	W		2011-02-03	1996-07-31	
+S000003845	ORF	Verified	YJR085C			chromosome 10		10	585437	585120	C		2011-02-03	1996-07-31	Protein of unknown function; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress
+S000031477	CDS					YJR085C		10	585437	585120	C		2011-02-03	1996-07-31	
+S000003846	ORF	Verified	YJR086W	STE18		chromosome 10	L000002122	10	586068	586400	W	59	2011-02-03	1996-07-31	G protein gamma subunit; forms a dimer with Ste4p to activate the mating signaling pathway, forms a heterotrimer with Gpa1p and Ste4p to dampen signaling; C-terminus is palmitoylated and farnesylated, which are required for normal signaling
+S000031665	CDS					YJR086W		10	586068	586400	W		2011-02-03	1996-07-31	
+S000003847	ORF	Dubious	YJR087W			chromosome 10		10	586400	586750	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified genes STE18 and ECM2
+S000032646	CDS					YJR087W		10	586400	586750	W		2011-02-03	1996-07-31	
+S000003848	ORF	Verified	YJR088C	EMC2		chromosome 10		10	587373	586495	C		2011-02-03	1996-07-31	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; homologous to worm Y57G7A.10/EMC-2, fly CG17556, human TTC35
+S000032686	CDS					YJR088C		10	587373	586495	C		2011-02-03	1996-07-31	
+S000003849	ORF	Verified	YJR089W	BIR1		chromosome 10	L000004754	10	587718	590582	W		2011-02-03	1996-07-31	Subunit of chromosomal passenger complex (CPC); CPC is comprised of Ipl1p-Sli15p-Bir1p-Nbl1p and regulates chromosome segregation; required for chromosome bi-orientation and for spindle assembly checkpoint activation upon reduced sister kinetochore tension; relative distribution to shortened microtubules increases upon DNA replication stress; sumoylated in an Mms21p-dependent manner; human survivin homolog
+S000032816	CDS					YJR089W		10	587718	590582	W		2011-02-03	1996-07-31	
+S000003850	ORF	Verified	YJR090C	GRR1	SCF ubiquitin ligase complex subunit GRR1|SDC1|SSU2|COT2|CAT80	chromosome 10	L000000730	10	594327	590872	C	60	2011-02-03	1996-07-31	F-box protein component of an SCF ubiquitin-ligase complex; modular substrate specificity factor which associates with core SCF (Cdc53p, Skp1p and Hrt1p/Rbx1p) to form the SCF(Grr1) complex; SCF(Grr1) acts as a ubiquitin-protein ligase directing ubiquitination of substrates such as: Gic2p, Mks1p, Mth1p, Cln1p, Cln2p and Cln3p; involved in carbon catabolite repression, glucose-dependent divalent cation transport, glucose transport, morphogenesis, and sulfite detoxification
+S000032905	CDS					YJR090C		10	594327	590872	C		2011-02-03	1996-07-31	
+S000003851	ORF	Verified	YJR091C	JSN1	PUF1	chromosome 10	L000002964	10	598336	595061	C		2011-02-03	1996-07-31	Member of the Puf family of RNA-binding proteins; interacts with mRNAs encoding membrane-associated proteins; involved in localizing the Arp2/3 complex to mitochondria; overexpression causes increased sensitivity to benomyl; JSN1 has a paralog, PUF2, that arose from the whole genome duplication
+S000033011	CDS					YJR091C		10	598336	595061	C		2011-02-03	1996-07-31	
+S000003852	ORF	Verified	YJR092W	BUD4		chromosome 10	L000000201	10	598735	603078	W		2011-02-03	2004-04-20|1996-07-31|1997-07-27|2008-06-04	Anillin-like protein involved in bud-site selection; required for the axial budding pattern; required for the formation and disassembly of the double septin ring structure, and generally for septin organization; functions as a platform linking the cytokinesis tag septins to the axial landmark through its multiple domains; in vivo substrate of Cdc28p/Clb2p
+S000033797	CDS					YJR092W		10	598735	603078	W		2011-02-03	2004-04-20|1996-07-31|1997-07-27|2008-06-04	
+S000003853	ORF	Verified	YJR093C	FIP1	cleavage polyadenylation factor subunit FIP1	chromosome 10	L000002775	10	604203	603220	C		2011-02-03	1996-07-31	Subunit of cleavage polyadenylation factor (CPF); interacts directly with poly(A) polymerase (Pap1p) to regulate its activity; bridging factor that links Pap1p and the CPF complex via Yth1p
+S000033863	CDS					YJR093C		10	604203	603220	C		2011-02-03	1996-07-31	
+S000003854	ORF	Verified	YJR094C	IME1	transcription factor IME1	chromosome 10	L000000861	10	605651	604569	C		2011-02-03	1996-07-31	Master regulator of meiosis that is active only during meiotic events; activates transcription of early meiotic genes through interaction with Ume6p; degraded by the 26S proteasome following phosphorylation by Ime2p; transcription is negatively regulated in cis by the IRT1 long noncoding antisense RNA
+S000034019	CDS					YJR094C		10	605651	604569	C		2011-02-03	1996-07-31	
+S000178119	ncRNA_gene		IRT1	IRT1	SUT643	chromosome 10		10	607424	605936	C		2014-11-18	2014-11-18	Long noncoding RNA that governs mating-type control of gametogenesis; located in the IME1 promoter; in haploids, expression of IME1, the central inducer of gametogenesis, is inhibited in cis by transcription of IRT1, which recruits the Set2p histone methyltransferase and the Set3p histone deacetylase complex to establish repressive chromatin at the IME1 promoter
+S000178120	noncoding_exon					IRT1		10	607424	605936	C		2014-11-18	2014-11-18	
+S000003855	ORF	Verified	YJR094W-A	RPL43B	eL43|ribosomal 60S subunit protein L43B|L43e|L43B	chromosome 10	L000004470	10	608305	608858	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L43B; homologous to mammalian ribosomal protein L37A, no bacterial homolog; RPL43B has a paralog, RPL43A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000034757	CDS					YJR094W-A		10	608305	608306	W		2011-02-03	1996-07-31	
+S000034758	CDS					YJR094W-A		10	608582	608858	W		2011-02-03	1996-07-31	
+S000034759	intron					YJR094W-A		10	608307	608581	W		2011-02-03	1996-07-31	
+S000003856	ORF	Verified	YJR095W	SFC1	ACR1	chromosome 10	L000000023	10	609773	610741	W		2011-02-03	1996-07-31	Mitochondrial succinate-fumarate transporter; transports succinate into and fumarate out of the mitochondrion; required for ethanol and acetate utilization
+S000034990	CDS					YJR095W		10	609773	610741	W		2011-02-03	1996-07-31	
+S000003857	ORF	Verified	YJR096W		aldo-keto reductase superfamily protein	chromosome 10		10	611195	612043	W		2011-02-03	1996-07-31	Xylose and arabinose reductase; member of the aldo-keto reductase (AKR) family; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
+S000035147	CDS					YJR096W		10	611195	612043	W		2011-02-03	1996-07-31	
+S000003858	ORF	Verified	YJR097W	JJJ3	DPH4	chromosome 10		10	612413	612931	W		2011-02-03	1996-07-31	Protein of unknown function; contains a CSL Zn finger and a DnaJ-domain; involved in diphthamide biosynthesis; ortholog human Dph4
+S000035313	CDS					YJR097W		10	612413	612931	W		2011-02-03	1996-07-31	
+S000028456	ARS		ARS1019			chromosome 10		10	612846	613278			2011-02-03	2002-12-16	Autonomously Replicating Sequence
+S000003859	ORF	Uncharacterized	YJR098C			chromosome 10		10	615156	613186	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000036139	CDS					YJR098C		10	615156	613186	C		2011-02-03	1996-07-31|2011-02-03	
+S000003860	ORF	Verified	YJR099W	YUH1	ubiquitin-specific protease YUH1	chromosome 10	L000002565	10	615576	616286	W	57	2011-02-03	1996-07-31	Ubiquitin C-terminal hydrolase; cleaves ubiquitin-protein fusions to generate monomeric ubiquitin; hydrolyzes the peptide bond at the C-terminus of ubiquitin; also the major processing enzyme for the ubiquitin-like protein Rub1p
+S000036337	CDS					YJR099W		10	615576	616286	W		2011-02-03	1996-07-31	
+S000003861	ORF	Verified	YJR100C	AIM25	SLM35	chromosome 10		10	617334	616351	C		2011-02-03	1996-07-31	Mitochondria protein of unknown function; interacts genetically with TOR1 to regulate chronological lifespan, and the response to both heat shock and oxidative stress; involved in maintaining the integrity of the mitochondrial network; negative regulator of mitophagy flux; non-tagged protein is detected in purified mitochondria in high-throughput studies; null mutant is viable and displays an elevated frequency of mitochondrial genome loss; similar to murine NOR1
+S000033573	CDS					YJR100C		10	617334	616351	C		2011-02-03	1996-07-31	
+S000006654	tRNA_gene		tL(UAG)J			chromosome 10	L000003616	10	617919	618019	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000035855	intron					tL(UAG)J		10	617957	617975	W		2011-02-03	2000-05-19	
+S000035853	noncoding_exon					tL(UAG)J		10	617919	617956	W		2011-02-03	2000-05-19	
+S000035854	noncoding_exon					tL(UAG)J		10	617976	618019	W		2011-02-03	2000-05-19	
+S000003862	ORF	Verified	YJR101W	RSM26	mitochondrial 37S ribosomal protein RSM26	chromosome 10		10	618234	619034	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000034505	CDS					YJR101W		10	618234	619034	W		2011-02-03	1996-07-31	
+S000003863	ORF	Verified	YJR102C	VPS25	ESCRT-II subunit protein VPS25|VPL12|VPT25	chromosome 10		10	619765	619157	C		2011-02-03	1996-07-31	Component of the ESCRT-II complex; ESCRT-II is involved in ubiquitin-dependent sorting of proteins into the endosome
+S000034557	CDS					YJR102C		10	619765	619157	C		2011-02-03	1996-07-31	
+S000003864	ORF	Verified	YJR103W	URA8	CTP synthase URA8	chromosome 10	L000002437	10	620754	622490	W		2011-02-03	1996-07-31|2011-02-03	Minor CTP synthase isozyme (see also URA7); catalyzes the ATP-dependent transfer of the amide nitrogen from glutamine to UTP, forming CTP, the final step in de novo biosynthesis of pyrimidines; involved in phospholipid biosynthesis; capable of forming cytoplasmic filaments termed cytoophidium, especially during conditions of glucose depletion; URA8 has a paralog, URA7, that arose from the whole genome duplication
+S000034718	CDS					YJR103W		10	620754	622490	W		2011-02-03	1996-07-31|2011-02-03	
+S000003865	ORF	Verified	YJR104C	SOD1	superoxide dismutase SOD1|CRS4	chromosome 10	L000001978	10	623014	622550	C		2011-02-03	1996-07-31	Cytosolic copper-zinc superoxide dismutase; detoxifies superoxide; stabilizes Yck1p and Yck2p kinases in glucose to repress respiration; phosphorylated by Dun1p, enters nucleus under oxidative stress to promote transcription of stress response genes; human ortholog SOD1 implicated in ALS complements a null allele; abundance increases under DNA replication stress and during exposure to boric acid; localization to mitochondrial intermembrane space is modulated by MICOS complex
+S000035647	CDS					YJR104C		10	623014	622550	C		2011-02-03	1996-07-31	
+S000003866	ORF	Verified	YJR105W	ADO1	adenosine kinase	chromosome 10		10	623581	624603	W		2011-02-03	1996-07-31	Adenosine kinase; required for the utilization of S-adenosylmethionine (AdoMet); may be involved in recycling adenosine produced through the methyl cycle
+S000035831	CDS					YJR105W		10	623581	624603	W		2011-02-03	1996-07-31	
+S000003867	ORF	Verified	YJR106W	ECM27		chromosome 10	L000003898	10	624838	627015	W		2011-02-03	1996-07-31|2011-02-03	Protein involved in calcium homeostasis and exit from quiescence; required for proper trehalose levels during quiescence; may play a role in cell wall biosynthesis, mutants are hypersensitive to antifungal, Papulacandin B; null mutants have increased plasmid loss; interacts with Pdr5p
+S000035951	CDS					YJR106W		10	624838	627015	W		2011-02-03	1996-07-31|2011-02-03	
+S000003868	ORF	Uncharacterized	YJR107W	LIH1	putative lipase	chromosome 10		10	627340	628326	W		2011-02-03	1996-07-31|2011-02-03	Putative lipase
+S000037815	CDS					YJR107W		10	627340	628326	W		2011-02-03	1996-07-31|2011-02-03	
+S000003869	ORF	Verified	YJR108W	ABM1		chromosome 10		10	628712	629083	W		2011-02-03	1996-07-31	Protein of unknown function; required for normal microtubule organization
+S000037909	CDS					YJR108W		10	628712	629083	W		2011-02-03	1996-07-31	
+S000003870	ORF	Verified	YJR109C	CPA2	carbamoyl-phosphate synthase (glutamine-hydrolyzing) CPA2	chromosome 10	L000000400	10	632941	629585	C		2011-02-03	1996-07-31	Large subunit of carbamoyl phosphate synthetase; carbamoyl phosphate synthetase catalyzes a step in the synthesis of citrulline, an arginine precursor
+S000029885	CDS					YJR109C		10	632941	629585	C		2011-02-03	1996-07-31	
+S000003871	ORF	Verified	YJR110W	YMR1	phosphatidylinositol-3-phosphatase YMR1	chromosome 10		10	633615	635681	W		2011-02-03	1996-07-31	Phosphatidylinositol 3-phosphate (PI3P) phosphatase; involved in various protein sorting pathways, including CVT targeting and endosome to vacuole transport; has similarity to the conserved myotubularin dual specificity phosphatase family
+S000037677	CDS					YJR110W		10	633615	635681	W		2011-02-03	1996-07-31	
+S000003872	ORF	Verified	YJR111C	PXP2		chromosome 10		10	636706	635855	C		2011-02-03	1996-07-31	Peroxisomal matrix protein with naturally active promoter; well-conserved in fungi; localized to peroxisomes under physiological growth conditions; levels of some amino acids are altered upon both knockout and overexpression, suggesting potential involvement of Pxp2p in amino acid metabolism or related cellular metabolic processes (needs further study); GFP-fusion protein displays inherent dual localization with large proportion localizing to cytosol
+S000037709	CDS					YJR111C		10	636706	635855	C		2011-02-03	1996-07-31	
+S000003873	ORF	Verified	YJR112W	NNF1	MIND complex subunit NNF1	chromosome 10	L000003072	10	637030	637635	W		2011-02-03	1996-07-31	Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; required for accurate chromosome segregation; complex consists of Mtw1p Including Nnf1p-Nsl1p-Dsn1p (MIND)
+S000037783	CDS					YJR112W		10	637030	637635	W		2011-02-03	1996-07-31	
+S000028513	ORF	Uncharacterized	YJR112W-A			chromosome 10		10	637790	638168	W		2011-02-03	2003-07-29	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; identified based on homology to Ashbya gossypii
+S000030277	CDS					YJR112W-A		10	637790	637809	W		2011-02-03	2003-07-29	
+S000030278	CDS					YJR112W-A		10	637859	638168	W		2011-02-03	2003-07-29	
+S000030279	intron					YJR112W-A		10	637810	637858	W		2011-02-03	2003-07-29	
+S000003875	ORF	Dubious	YJR114W		SRF2	chromosome 10		10	638659	639051	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RSM7/YJR113C
+S000030784	CDS					YJR114W		10	638659	639051	W		2011-02-03	1996-07-31	
+S000003874	ORF	Verified	YJR113C	RSM7	mitochondrial 37S ribosomal protein RSM7	chromosome 10		10	638975	638232	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S7 ribosomal protein
+S000030623	CDS					YJR113C		10	638975	638232	C		2011-02-03	1996-07-31	
+S000003876	ORF	Uncharacterized	YJR115W			chromosome 10		10	639942	640451	W		2011-02-03	1996-07-31	Putative protein of unknown function; YJR115W has a paralog, ECM13, that arose from the whole genome duplication
+S000030893	CDS					YJR115W		10	639942	640451	W		2011-02-03	1996-07-31	
+S000003877	ORF	Uncharacterized	YJR116W	TDA4		chromosome 10		10	640825	641664	W		2011-02-03	1996-07-31	Putative protein of unknown function; null mutant is sensitive to expression of the top1-T722A allele
+S000031858	CDS					YJR116W		10	640825	641664	W		2011-02-03	1996-07-31	
+S000003878	ORF	Verified	YJR117W	STE24	zinc metalloprotease|PIO2|AFC1	chromosome 10	L000003457	10	642007	643368	W		2011-02-03	1996-07-31	Highly conserved zinc metalloprotease; functions in two steps of a-factor maturation, C-terminal CAAX proteolysis and the first step of N-terminal proteolytic processing; cleaves both isoprenylated and non-prenylated oligopeptides; contains multiple transmembrane spans; human homolog ZMPSTE24 implicated in mandibuloacral dysplasia (MAD), and can complement yeast null mutant
+S000032024	CDS					YJR117W		10	642007	643368	W		2011-02-03	1996-07-31	
+S000003879	ORF	Verified	YJR118C	ILM1		chromosome 10		10	644101	643490	C		2011-02-03	1996-07-31	Protein of unknown function; may be involved in mitochondrial DNA maintenance; required for slowed DNA synthesis-induced filamentous growth
+S000032105	CDS					YJR118C		10	644101	643490	C		2011-02-03	1996-07-31	
+S000003880	ORF	Verified	YJR119C	JHD2	histone demethylase|KDM5	chromosome 10		10	646490	644304	C		2011-02-03	1996-07-31	JmjC domain family histone demethylase; promotes global demethylation of H3K4 and repression of noncoding intergenic transcription during sporulation; removes methyl groups added by Set1p methyltransferase; negatively regulated by H3K14 acetylation; protein levels regulated by Not4p polyubiquitin-mediated degradation; regulates sporulation timing by extending period of active transcription in opposition to programmed global transcriptional quiescence; regulates rDNA silencing
+S000034072	CDS					YJR119C		10	646490	644304	C		2011-02-03	1996-07-31	
+S000003881	ORF	Verified	YJR120W			chromosome 10		10	647126	647476	W		2011-02-03	1996-07-31	Protein of unknown function; essential for growth under anaerobic conditions; mutation causes decreased expression of ATP2, impaired respiration, defective sterol uptake, and altered levels/localization of ABC transporters Aus1p and Pdr11p
+S000032979	CDS					YJR120W		10	647126	647476	W		2011-02-03	1996-07-31	
+S000003882	ORF	Verified	YJR121W	ATP2	F1F0 ATP synthase subunit beta	chromosome 10	L000000142	10	647607	649142	W		2011-02-03	1996-07-31	Beta subunit of the F1 sector of mitochondrial F1F0 ATP synthase; which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; F1 translationally regulates ATP6 and ATP8 expression to achieve a balanced output of ATP synthase genes encoded in nucleus and mitochondria; phosphorylated
+S000033071	CDS					YJR121W		10	647607	649142	W		2011-02-03	1996-07-31	
+S000003883	ORF	Verified	YJR122W	IBA57	CAF17	chromosome 10	L000003419	10	649776	651269	W		2011-02-03	1996-07-31	Protein involved in incorporating iron-sulfur clusters into proteins; mitochondrial matrix protein; involved in the incorporation of iron-sulfur clusters into mitochondrial aconitase-type proteins; activates the radical-SAM family members Bio2p and Lip5p; interacts with Ccr4p in the two-hybrid system
+S000033750	CDS					YJR122W		10	649776	651269	W		2011-02-03	1996-07-31	
+S000003884	ORF	Verified	YJR123W	RPS5	uS7|ribosomal 40S subunit protein S5|S7|rp14|YS8|S5|S2	chromosome 10	L000002821	10	651901	652578	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; least basic of non-acidic ribosomal proteins; phosphorylated in vivo; essential for viability; homologous to mammalian ribosomal protein S5 and bacterial S7
+S000033852	CDS					YJR123W		10	651901	652578	W		2011-02-03	1996-07-31	
+S000003885	ORF	Uncharacterized	YJR124C			chromosome 10		10	654238	652892	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression induced under calcium shortage
+S000033876	CDS					YJR124C		10	654238	652892	C		2011-02-03	1996-07-31	
+S000028457	ARS		ARS1020		ARSX-654	chromosome 10		10	654375	654614			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
+S000003886	ORF	Verified	YJR125C	ENT3		chromosome 10		10	655963	654737	C		2011-02-03	1996-07-31	Protein containing an N-terminal epsin-like domain; involved in clathrin recruitment and traffic between the Golgi and endosomes; associates with the clathrin adaptor Gga2p
+S000034017	CDS					YJR125C		10	655963	654737	C		2011-02-03	1996-07-31	
+S000003887	ORF	Verified	YJR126C	VPS70	putative zinc metalloprotease	chromosome 10		10	658689	656254	C		2011-02-03	1996-07-31	Protein of unknown function involved in vacuolar protein sorting; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
+S000034920	CDS					YJR126C		10	658689	656254	C		2011-02-03	1996-07-31	
+S000003889	ORF	Dubious	YJR128W			chromosome 10		10	662921	663280	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RSF2
+S000036069	CDS					YJR128W		10	662921	663280	W		2011-02-03	1996-07-31	
+S000003888	ORF	Verified	YJR127C	RSF2	ZMS1	chromosome 10	L000002569	10	663059	658917	C		2011-02-03	1996-07-31	Zinc-finger protein; involved in transcriptional control of both nuclear and mitochondrial genes, many of which specify products required for glycerol-based growth, respiration, and other functions; RSF2 has a paralog, TDA9, that arose from the whole genome duplication; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000035071	CDS					YJR127C		10	663059	658917	C		2011-02-03	1996-07-31	
+S000006492	snoRNA_gene		snR3	SNR3		chromosome 10	L000001958	10	663749	663942	W		2011-02-03	2000-05-19|2007-05-08	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U2129, U2133, and U2264
+S000034301	noncoding_exon					snR3		10	663749	663942	W		2011-02-03	2000-05-19|2007-05-08	
+S000003890	ORF	Verified	YJR129C	EFM3	protein-lysine N-methyltransferase	chromosome 10		10	665019	664000	C		2011-02-03	1996-07-31|2011-02-03	S-adenosylmethionine-dependent methyltransferase; seven-beta-strand lysine methyltransferase which trimethylates translation elongation factor EF2 (Eft1p and Eft2p) at lysine 509; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; ortholog of human gene FAM86A
+S000036155	CDS					YJR129C		10	665019	664000	C		2011-02-03	1996-07-31|2011-02-03	
+S000003891	ORF	Verified	YJR130C	STR2	cystathionine gamma-synthase	chromosome 10		10	667137	665218	C		2011-02-03	1996-07-31	Cystathionine gamma-synthase, converts cysteine into cystathionine; STR2 has a paralog, YML082W, that arose from the whole genome duplication
+S000036945	CDS					YJR130C		10	667137	665218	C		2011-02-03	1996-07-31	
+S000003892	ORF	Verified	YJR131W	MNS1	mannosyl-oligosaccharide 1,2-alpha-mannosidase	chromosome 10	L000001130	10	667644	669293	W		2011-02-03	1996-07-31	Alpha-1,2-mannosidase; involved in ER-associated protein degradation (ERAD); catalyzes the removal of one mannose residue from a glycosylated protein, converting the modification from Man9GlcNAc to Man8GlcNAc; catalyzes the last step in glycoprotein maturation in the ER and is critical for ER protein degradation
+S000037068	CDS					YJR131W		10	667644	669293	W		2011-02-03	1996-07-31	
+S000003893	ORF	Verified	YJR132W	NMD5	KAP119	chromosome 10	L000002939	10	669522	672668	W		2011-02-03	1996-07-31|2011-02-03	Karyopherin; a carrier protein involved in nuclear import of proteins; importin beta homolog
+S000037153	CDS					YJR132W		10	669522	672668	W		2011-02-03	1996-07-31|2011-02-03	
+S000003894	ORF	Verified	YJR133W	XPT1	xanthine phosphoribosyltransferase	chromosome 10		10	672991	673620	W		2011-02-03	1996-07-31	Xanthine-guanine phosphoribosyl transferase; required for xanthine utilization and for optimal utilization of guanine
+S000037899	CDS					YJR133W		10	672991	673620	W		2011-02-03	1996-07-31	
+S000003895	ORF	Verified	YJR134C	SGM1		chromosome 10		10	675852	673729	C		2011-02-03	1996-07-31	Protein of unknown function; required for wild-type growth rate on galactose and mannose; localizes to COPI coated vesicles and the Golgi apparatus
+S000029858	CDS					YJR134C		10	675852	673729	C		2011-02-03	1996-07-31	
+S000003896	ORF	Verified	YJR135C	MCM22		chromosome 10	L000003999	10	676778	676059	C		2011-02-03	1996-07-31	Outer kinetochore protein and component of the Ctf3 subcomplex; binds to centromeric DNA in a Ctf19p-dependent manner; involved in chromosome segregation and minichromosome maintenance; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-K and fission yeast sim4
+S000030000	CDS					YJR135C		10	676778	676059	C		2011-02-03	1996-07-31	
+S000007348	ORF	Verified	YJR135W-A	TIM8	protein transporter TIM8	chromosome 10		10	676971	677234	W		2011-02-03	1999-07-17	Mitochondrial intermembrane space protein; forms a complex with Tim13p that delivers a subset of hydrophobic proteins to the TIM22 complex for inner membrane insertion; homolog of human TIMM8A, implicated in Mohr-Tranebjaerg syndrome, also known as deafness-dystonia-optic neuronopathy (DDON) syndrome; human TIMM8A can complement yeast null mutant
+S000032075	CDS					YJR135W-A		10	676971	677234	W		2011-02-03	1999-07-17	
+S000003897	ORF	Verified	YJR136C	TTI2		chromosome 10		10	678706	677441	C		2011-02-03	1996-07-31	Subunit of the ASTRA complex, involved in chromatin remodeling; telomere length regulator involved in the stability or biogenesis of PIKKs such as TORC1; involved in the cellular stress response; similar to S. pombe Tti2p; may interact with Rsm23p; GFP-fusion protein localizes to the cytoplasm
+S000030982	CDS					YJR136C		10	678706	677441	C		2011-02-03	1996-07-31	
+S000003898	ORF	Verified	YJR137C	MET5	sulfite reductase (NADPH) subunit beta|ECM17	chromosome 10	L000001080|L000003892	10	683285	678957	C	84	2011-02-03	1996-07-31	Sulfite reductase beta subunit; involved in amino acid biosynthesis, transcription repressed by methionine
+S000031082	CDS					YJR137C		10	683285	678957	C		2011-02-03	1996-07-31	
+S000007553	ARS		ARS1021		ARS121	chromosome 10		10	684009	684098			2014-11-18	2000-10-17|2014-11-18	Autonomously Replicating Sequence
+S000003899	ORF	Verified	YJR138W	IML1	SEA1	chromosome 10		10	684567	689321	W		2011-02-03	1996-07-31|2011-02-03	GTPase-activating protein (GAP) subunit of the Iml1p/SEACIT complex; SEACIT (Iml1p-Npr2p-Npr3p) is a subcomplex of the SEA complex, a coatomer-related complex that associates dynamically with the vacuole; Iml1p functions in the SEACIT complex as a GAP for the Rag family GTPase Gtr1p (EGOC subunit), resulting in the inhibition of TORC1 signaling in response to amino acid deprivation; the Iml1p/SEACIT complex is required for non-nitrogen-starvation (NNS)-induced autophagy
+S000031284	CDS					YJR138W		10	684567	689321	W		2011-02-03	1996-07-31|2011-02-03	
+S000003900	ORF	Verified	YJR139C	HOM6	homoserine dehydrogenase|THR6	chromosome 10	L000000801	10	690524	689445	C	87	2011-02-03	1996-07-31	Homoserine dehydrogenase (L-homoserine:NADP oxidoreductase); dimeric enzyme that catalyzes the third step in the common pathway for methionine and threonine biosynthesis; enzyme has nucleotide-binding, dimerization and catalytic regions
+S000032214	CDS					YJR139C		10	690524	689445	C		2011-02-03	1996-07-31	
+S000028666	ORF	Dubious	YJR140W-A			chromosome 10		10	690961	691110	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene HIR3; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032491	CDS					YJR140W-A		10	690961	691110	W		2011-02-03	2003-07-29	
+S000003901	ORF	Verified	YJR140C	HIR3	HPC1	chromosome 10	L000003127	10	695696	690750	C		2011-02-03	1996-07-31	Subunit of the HIR complex; a nucleosome assembly complex involved in regulation of histone gene transcription; involved in position-dependent gene silencing and nucleosome reassembly; ortholog of human CABIN1 protein
+S000032216	CDS					YJR140C		10	695696	690750	C		2011-02-03	1996-07-31	
+S000003902	ORF	Uncharacterized	YJR141W	IPA1	putative polyadenylation protein	chromosome 10		10	695906	696949	W		2011-02-03	1996-07-31	Essential protein of unknown function
+S000033127	CDS					YJR141W		10	695906	696949	W		2011-02-03	1996-07-31	
+S000003903	ORF	Verified	YJR142W			chromosome 10		10	697141	698169	W		2011-02-03	1996-07-31	8-oxo-dGTP diphosphatase of the Nudix hydrolase family; converts diphosphates of damaged forms of thiamin to monophosphates; GST fusion protein is a Dbf2p-Mob1p phosphorylation target in a proteome chip analysis; synthetic lethal with PH085 deletion; plays a role in restricting Ty1 transposition
+S000033186	CDS					YJR142W		10	697141	698169	W		2011-02-03	1996-07-31	
+S000003904	ORF	Verified	YJR143C	PMT4	dolichyl-phosphate-mannose-protein mannosyltransferase	chromosome 10	L000002623	10	700614	698326	C		2011-02-03	1996-07-31	Protein O-mannosyltransferase; transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues; appears to form homodimers in vivo and does not complex with other Pmt proteins; target for new antifungals
+S000033214	CDS					YJR143C		10	700614	698326	C		2011-02-03	1996-07-31	
+S000003905	ORF	Verified	YJR144W	MGM101	MGM9	chromosome 10	L000001104	10	700882	701691	W		2011-02-03	1996-07-31	Protein with a role in mitochondrial DNA recombinational repair; also involved in interstrand cross-link repair; binds to and catalyzes the annealing of single-stranded mtDNA; oligomerizes to form rings and filaments; related to Rad52-type recombination proteins, with limited overall similarity but sharing conserved functionally important residues; component of the mitochondrial nucleoid, required for the repair of oxidative mtDNA damage and mitochondrial genome maintenance
+S000033297	CDS					YJR144W		10	700882	701691	W		2011-02-03	1996-07-31	
+S000003906	ORF	Verified	YJR145C	RPS4A	eS4|ribosomal 40S subunit protein S4A|S4e|rp5|YS6|S7A|S4A	chromosome 10	L000001751	10	703068	702027	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; mutation affects 20S pre-rRNA processing; homologous to mammalian ribosomal protein S4, no bacterial homolog; RPS4A has a paralog, RPS4B, that arose from the whole genome duplication
+S000034116	CDS					YJR145C		10	702798	702027	C		2011-02-03	1996-07-31	
+S000034115	CDS					YJR145C		10	703068	703055	C		2011-02-03	1996-07-31	
+S000034117	intron					YJR145C		10	703054	702799	C		2011-02-03	1996-07-31	
+S000003907	ORF	Uncharacterized	YJR146W			chromosome 10		10	703885	704238	W		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; partially overlaps HMS2
+S000034307	CDS					YJR146W		10	703885	704238	W		2011-02-03	1996-07-31	
+S000003908	ORF	Verified	YJR147W	HMS2		chromosome 10	L000004442	10	704196	705272	W		2011-02-03	1996-07-31	Protein with similarity to heat shock transcription factors; overexpression suppresses the pseudohyphal filamentation defect of a diploid mep1 mep2 homozygous null mutant; HMS2 has a paralog, SKN7, that arose from the whole genome duplication
+S000034417	CDS					YJR147W		10	704196	705272	W		2011-02-03	1996-07-31	
+S000003909	ORF	Verified	YJR148W	BAT2	branched-chain-amino-acid transaminase BAT2|ECA40|TWT2	chromosome 10	L000003082	10	705744	706874	W		2011-02-03	1996-07-31	Cytosolic branched-chain amino acid (BCAA) aminotransferase; preferentially involved in BCAA catabolism; homolog of murine ECA39; highly expressed during stationary phase and repressed during logarithmic phase; BAT2 has a paralog, BAT1, that arose from the whole genome duplication
+S000035457	CDS					YJR148W		10	705744	706874	W		2011-02-03	1996-07-31	
+S000003910	ORF	Uncharacterized	YJR149W		putative nitronate monooxygenase	chromosome 10		10	707160	708374	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000035545	CDS					YJR149W		10	707160	708374	W		2011-02-03	1996-07-31|2011-02-03	
+S000003911	ORF	Verified	YJR150C	DAN1	CCW13	chromosome 10	L000003381	10	709707	708811	C		2011-02-03	1996-07-31|2011-02-03	Cell wall mannoprotein; has similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
+S000036513	CDS					YJR150C		10	709707	708811	C		2011-02-03	1996-07-31|2011-02-03	
+S000028458	ARS		ARS1022		ARSX-712	chromosome 10		10	711896	712142			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
+S000003912	ORF	Verified	YJR151C	DAN4		chromosome 10		10	715740	712255	C		2011-02-03	1996-07-31|2011-02-03	Cell wall mannoprotein; has similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
+S000036600	CDS					YJR151C		10	715740	712255	C		2011-02-03	1996-07-31|2011-02-03	
+S000028557	ORF	Uncharacterized	YJR151W-A			chromosome 10		10	717580	717630	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR; predicted to have a role in transcription based on computational "guilt by association" analysis
+S000031243	CDS					YJR151W-A		10	717580	717630	W		2011-02-03	2003-07-29	
+S000003913	ORF	Verified	YJR152W	DAL5	allantoate permease|UREP1	chromosome 10	L000000478	10	719666	721297	W	97	2011-02-03	1996-07-31	Allantoate permease; ureidosuccinate permease; also transports dipeptides, though with lower affinity than for allantoate and ureidosuccinate; expression is constitutive but sensitive to nitrogen catabolite repression
+S000037362	CDS					YJR152W		10	719666	721297	W		2011-02-03	1996-07-31	
+S000003914	ORF	Verified	YJR153W	PGU1	PSM1|PGL1	chromosome 10	L000004371|L000004261	10	722815	723900	W		2011-02-03	1996-07-31	Endo-polygalacturonase; pectolytic enzyme that hydrolyzes the alpha-1,4-glycosidic bonds in the rhamnogalacturonan chains in pectins
+S000037481	CDS					YJR153W		10	722815	723900	W		2011-02-03	1996-07-31	
+S000003915	ORF	Uncharacterized	YJR154W			chromosome 10		10	725784	726824	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000030205	CDS					YJR154W		10	725784	726824	W		2011-02-03	1996-07-31	
+S000003916	ORF	Verified	YJR155W	AAD10	putative aryl-alcohol dehydrogenase	chromosome 10	L000004639	10	727405	728271	W		2011-02-03	1996-07-31	Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
+S000030387	CDS					YJR155W		10	727405	728271	W		2011-02-03	1996-07-31	
+S000003917	ORF	Verified	YJR156C	THI11	4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase	chromosome 10	L000003222	10	729596	728574	C		2011-02-03	1996-07-31	Protein involved in synthesis of the thiamine precursor HMP; member of a subtelomeric gene family including THI5, THI11, THI12, and THI13; hydroxymethylpyrimidine is also known as HMP
+S000030438	CDS					YJR156C		10	729596	728574	C		2011-02-03	1996-07-31	
+S000028459	ARS		ARS1023			chromosome 10		10	729983	730513			2011-02-03	2002-12-16	Autonomously Replicating Sequence
+S000003918	ORF	Dubious	YJR157W			chromosome 10		10	730515	730877	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031435	CDS					YJR157W		10	730515	730877	W		2011-02-03	1996-07-31	
+S000003919	ORF	Verified	YJR158W	HXT16	HLT3|hexose transporter HXT16	chromosome 10	L000003264	10	732440	734143	W		2011-02-03	1996-07-31	Putative transmembrane polyol transporter; supports growth on and uptake of sorbitol with moderate affinity and mannitol with lower affinity when overexpressed in a strain deleted for hexose family members; minor hexose transport activity when overexpressed in a similar strain; similarity to hexose transporters; expression is repressed by high levels of glucose
+S000031532	CDS					YJR158W		10	732440	734143	W		2011-02-03	1996-07-31	
+S000003920	ORF	Verified	YJR159W	SOR1	L-iditol 2-dehydrogenase SOR1|SDH1	chromosome 10	L000002753	10	736044	737117	W		2011-02-03	1996-07-31	Sorbitol dehydrogenase; protein sequence is 99% identical to the Sor2p sorbitol dehydrogenase; expression is induced in the presence of sorbitol or xylose
+S000031666	CDS					YJR159W		10	736044	737117	W		2011-02-03	1996-07-31	
+S000028460	ARS		ARS1024		ARSX-737	chromosome 10		10	737034	737275			2011-02-03	2002-12-16|2006-09-07	Autonomously Replicating Sequence
+S000003921	ORF	Verified	YJR160C	MPH3	alpha-glucoside permease	chromosome 10		10	739816	738008	C		2011-02-03	1996-07-31	Alpha-glucoside permease; transports maltose, maltotriose, alpha-methylglucoside, and turanose; identical to Mph2p; encoded in a subtelomeric position in a region likely to have undergone duplication
+S000031772	CDS					YJR160C		10	739816	738008	C		2011-02-03	1996-07-31	
+S000003922	ORF	Verified	YJR161C	COS5		chromosome 10	L000004063	10	743999	742848	C		2011-02-03	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000031918	CDS					YJR161C		10	743999	742848	C		2011-02-03	1996-07-31	
+S000028461	ARS		ARS1025			chromosome 10		10	744408	745008			2011-02-03	2002-12-16	Autonomously Replicating Sequence
+S000178126	ARS_consensus_sequence					ARS1025		10	744632	744648	W		2014-11-18	2014-11-18	
+S000028974	telomere		TEL10R			chromosome 10		10	744902	745751	W	100	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome X; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
+S000028975	telomeric_repeat					TEL10R		10	745663	745751	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome X
+S000028976	X_element					TEL10R		10	744902	745361	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome X; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YJR162C
+S000028977	X_element_combinatorial_repeat					TEL10R		10	745362	745662	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr X; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000003923	ORF	Dubious	YJR162C			chromosome 10		10	745261	744911	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032831	CDS					YJR162C		10	745261	744911	C		2011-02-03	1996-07-31	
+S000001708	ORF	Dubious	YKL225W			chromosome 11		11	451	798	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032685	CDS					YKL225W		11	451	798	W		2011-02-03	1996-07-31	
+S000028906	telomere		TEL11L			chromosome 11		11	807	1	C	-162	2011-02-03	2003-09-09|2011-02-03	Telomeric region on the left arm of Chromosome XI; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
+S000028907	telomeric_repeat					TEL11L		11	67	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome XI
+S000028908	X_element					TEL11L		11	807	347	C		2011-02-03	2003-09-09|2011-02-03	Telomeric X element Core sequence on the left arm of Chromosome XI; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YKL225W
+S000028909	X_element_combinatorial_repeat					TEL11L		11	346	68	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XI; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000001707	ORF	Verified	YKL224C	PAU16	seripauperin PAU16	chromosome 11		11	2181	1810	C		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole
+S000031625	CDS					YKL224C		11	2181	1810	C		2011-02-03	1996-07-31	
+S000001706	ORF	Dubious	YKL223W			chromosome 11		11	2389	2721	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031556	CDS					YKL223W		11	2389	2721	W		2011-02-03	1996-07-31	
+S000001705	ORF	Verified	YKL222C			chromosome 11		11	5620	3503	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; similar to transcriptional regulators from the zinc cluster (binuclear cluster) family; null mutant is sensitive to caffeine
+S000031466	CDS					YKL222C		11	5620	3503	C		2011-02-03	1996-07-31	
+S000001704	ORF	Verified	YKL221W	MCH2		chromosome 11		11	6107	7528	W		2011-02-03	1996-07-31|2011-02-03	Protein with similarity to mammalian monocarboxylate permeases; monocarboxylate permeases are involved in transport of monocarboxylic acids across the plasma membrane but mutant is not deficient in monocarboxylate transport
+S000031419	CDS					YKL221W		11	6107	7528	W		2011-02-03	1996-07-31|2011-02-03	
+S000130137	ARS		ARS1102		ARSXI-8	chromosome 11		11	7528	8309			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000001703	ORF	Verified	YKL220C	FRE2	ferric/cupric-chelate reductase	chromosome 11	L000002805	11	11226	9091	C		2011-02-03	1996-07-31	Ferric reductase and cupric reductase; reduces siderophore-bound iron and oxidized copper prior to uptake by transporters; expression induced by low iron levels but not by low copper levels
+S000031305	CDS					YKL220C		11	11226	9091	C		2011-02-03	1996-07-31	
+S000001702	ORF	Verified	YKL219W	COS9		chromosome 11	L000004067	11	14485	15708	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000030515	CDS					YKL219W		11	14485	15708	W		1996-07-31	1996-07-31	
+S000001701	ORF	Verified	YKL218C	SRY1	threo-3-hydroxy-L-aspartate ammonia-lyase SRY1	chromosome 11	S000007485	11	18339	17359	C		1996-07-31	1996-07-31	3-hydroxyaspartate dehydratase; deaminates L-threo-3-hydroxyaspartate to form oxaloacetate and ammonia; required in the presence of hydroxyaspartate; highly similar to mouse serine racemase (Srr) but has no serine racemase activity
+S000037646	CDS					YKL218C		11	18339	17359	C		1996-07-31	1996-07-31	
+S000001700	ORF	Verified	YKL217W	JEN1		chromosome 11	L000002666	11	22234	24084	W		1996-07-31	1996-07-31	Monocarboxylate/proton symporter of the plasma membrane; transport activity is dependent on the pH gradient across the membrane; mediates high-affinity uptake of carbon sources lactate, pyuvate, and acetate, and also of the micronutrient selenite, whose structure mimics that of monocarboxylates; expression and localization are tightly regulated, with transcription repression, mRNA degradation, and protein endocytosis and degradation all occurring in the presence of glucose
+S000037602	CDS					YKL217W		11	22234	24084	W		1996-07-31	1996-07-31	
+S000001699	ORF	Verified	YKL216W	URA1	dihydroorotate dehydrogenase	chromosome 11	L000002430	11	25215	26159	W	-159.7	2011-02-03	1996-07-31	Dihydroorotate dehydrogenase; catalyzes the fourth enzymatic step in the de novo biosynthesis of pyrimidines, converting dihydroorotic acid into orotic acid
+S000037467	CDS					YKL216W		11	25215	26159	W		2011-02-03	1996-07-31	
+S000001698	ORF	Verified	YKL215C	OXP1	5-oxoprolinase	chromosome 11		11	30687	26827	C		2011-02-03	1996-07-31	5-oxoprolinase; enzyme is ATP-dependent and functions as a dimer; similar to mouse Oplah gene; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; protein abundance increases in response to DNA replication stress
+S000036677	CDS					YKL215C		11	30687	26827	C		2011-02-03	1996-07-31	
+S000001697	ORF	Verified	YKL214C	YRA2		chromosome 11		11	31693	31082	C		2011-02-03	1996-07-31	Member of the REF (RNA and export factor binding proteins) family; when overexpressed, can substitute for the function of Yra1p in export of poly(A)+ mRNA from the nucleus
+S000036577	CDS					YKL214C		11	31693	31082	C		2011-02-03	1996-07-31	
+S000001696	ORF	Verified	YKL213C	DOA1	ZZZ4|UFD3	chromosome 11	L000002961	11	34107	31960	C		2011-02-03	1996-07-31	WD repeat protein required for ubiquitin-mediated protein degradation; ubiquitin binding cofactor that complexes with Cdc48p; required for ribophagy; controls cellular ubiquitin concentration; promotes efficient NHEJ in postdiauxic/stationary phase; facilitates N-terminus-dependent proteolysis of centromeric histone H3 (Cse4p) for faithful chromosome segregation; protein increases in abundance and relocalizes from nucleus to nuclear periphery upon DNA replication stress
+S000036488	CDS					YKL213C		11	34107	31960	C		2011-02-03	1996-07-31	
+S000001695	ORF	Verified	YKL212W	SAC1	phosphatidylinositol-3-phosphatase SAC1|RSD1	chromosome 11	L000001790	11	34543	36414	W	-153.8	2011-02-03	1996-07-31	Phosphatidylinositol phosphate (PtdInsP) phosphatase; involved in hydrolysis of PtdIns[4]P in the early and medial Golgi; regulated by interaction with Vps74p; ER localized transmembrane protein which cycles through the Golgi; involved in protein trafficking and processing, secretion, and cell wall maintenance; regulates sphingolipid biosynthesis through the modulation of PtdIns(4)P metabolism
+S000036459	CDS					YKL212W		11	34543	36414	W		2011-02-03	1996-07-31	
+S000001694	ORF	Verified	YKL211C	TRP3	bifunctional anthranilate synthase/indole-3-glycerol-phosphate synthase	chromosome 11	L000002354	11	38153	36699	C	-153.8	2011-02-03	1996-07-31	Indole-3-glycerol-phosphate synthase; forms bifunctional hetero-oligomeric anthranilate synthase:indole-3-glycerol phosphate synthase enzyme complex with Trp2p
+S000035520	CDS					YKL211C		11	38153	36699	C		2011-02-03	1996-07-31	
+S000006455	snoRNA_gene		snR64	SNR64		chromosome 11	L000004533	11	38811	38911	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C2337
+S000030843	noncoding_exon					snR64		11	38811	38911	W		2011-02-03	2000-05-19	
+S000001693	ORF	Verified	YKL210W	UBA1	E1 ubiquitin-activating protein UBA1	chromosome 11	L000002405	11	39163	42237	W	-153.3	2011-02-03	1996-07-31	Ubiquitin activating enzyme (E1); involved in ubiquitin-mediated protein degradation and essential for viability; protein abundance increases in response to DNA replication stress
+S000035493	CDS					YKL210W		11	39163	42237	W		2011-02-03	1996-07-31	
+S000001692	ORF	Verified	YKL209C	STE6	ATP-binding cassette a-factor transporter STE6	chromosome 11	L000002116	11	46295	42423	C	-152.3	2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; required for the export of a-factor, catalyzes ATP hydrolysis coupled to a-factor transport; contains 12 transmembrane domains and two ATP binding domains; expressed only in MATa cells; human homolog ABCB1 mediates multidrug resistance in many chemotherapy-resistant tumors by effluxing toxic compounds from the cell
+S000035512	CDS					YKL209C		11	46295	42423	C		2011-02-03	1996-07-31	
+S000006748	tRNA_gene		tT(CGU)K	TRT2		chromosome 11	L000003644	11	46806	46735	C		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis; correct folding and efficient aminoacylation require Lhp1p
+S000032223	noncoding_exon					tT(CGU)K		11	46806	46735	C		2011-02-03	2000-05-19	
+S000001691	ORF	Verified	YKL208W	CBT1	SOC1	chromosome 11	L000004295|S000029465|L000004597	11	47157	47972	W		2011-02-03	1996-07-31	Protein involved in 5' RNA end processing; substrates include mitochondrial COB, 15S_rRNA, and RPM1 transcripts; may also have a role in 3' end processing of the COB pre-mRNA; displays genetic interaction with cell cycle-regulated kinase Dbf2p
+S000034559	CDS					YKL208W		11	47157	47972	W		2011-02-03	1996-07-31	
+S000001690	ORF	Verified	YKL207W	EMC3	AIM27|LRC3	chromosome 11		11	48194	48955	W		2011-02-03	2004-02-13|1996-07-31|2006-05-08	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; required for respiratory growth; null mutant displays induction of the unfolded protein response; homologous to worm Y62E10A.10/EMC-3, fly CG6750, human TMEM111
+S000034425	CDS					YKL207W		11	48194	48955	W		2011-02-03	2004-02-13|1996-07-31|2006-05-08	
+S000001689	ORF	Verified	YKL206C	ADD66	POC2|PBA2	chromosome 11		11	49809	49006	C		2011-02-03	1996-07-31	Protein involved in 20S proteasome assembly; forms a heterodimer with Pba1p that binds to proteasome precursors; interaction with Pba1p-Add66p may affect function of the mature proteasome and its role in maintaining respiratory metabolism; similar to human PAC2 constituent of the PAC1-PAC2 complex involved in proteasome assembly
+S000034304	CDS					YKL206C		11	49809	49006	C		2011-02-03	1996-07-31	
+S000001688	ORF	Verified	YKL205W	LOS1	Ran GTPase-binding protein LOS1	chromosome 11	L000000950	11	50051	53353	W	-149.7	2011-02-03	1996-07-31	Nuclear pore protein; involved in nuclear export of pre-tRNA and in re-export of mature tRNAs after their retrograde import from the cytoplasm; deletion mutation extends replicative lifespan, as does exclusion of Los1p from the nucleus in response to caloric restriction
+S000034266	CDS					YKL205W		11	50051	53353	W		2011-02-03	1996-07-31	
+S000001687	ORF	Verified	YKL204W	EAP1		chromosome 11		11	53704	55602	W		2011-02-03	1996-07-31	eIF4E-associated protein, competes with eIF4G for binding to eIF4E; accelerates mRNA degradation by promoting decapping, facilitated by interaction with eIF4E; essential for Puf5p mediated repression; associates with Puf5p and Dhh1p; inhibits cap-dependent translation; functions independently of eIF4E to maintain genetic stability; plays a role in cell growth, implicated in the TOR signaling cascade
+S000033363	CDS					YKL204W		11	53704	55602	W		2011-02-03	1996-07-31	
+S000118401	ARS		ARS1103		ARSXI-56	chromosome 11		11	55671	55917			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178127	ARS_consensus_sequence					ARS1103		11	55867	55851	C		2014-11-18	2014-11-18	
+S000001686	ORF	Verified	YKL203C	TOR2	phosphatidylinositol kinase-related protein kinase TOR2|DRR2	chromosome 11	L000002323	11	63359	55935	C	-152.3	2011-02-03	2004-02-13|1996-07-31	PIK-related protein kinase and rapamycin target; subunit of TORC1, a complex that regulates growth in response to nutrients and TORC2, a complex that regulates cell-cycle dependent polarization of the actin cytoskeleton; involved in meiosis; TOR2 has a paralog, TOR1, that arose from the whole genome duplication
+S000033266	CDS					YKL203C		11	63359	55935	C		2011-02-03	2004-02-13|1996-07-31	
+S000001685	ORF	Dubious	YKL202W			chromosome 11		11	63821	64402	W		2011-02-03	2001-05-31|1996-07-31|1999-03-12	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033230	CDS					YKL202W		11	63821	64402	W		2011-02-03	2001-05-31|1996-07-31|1999-03-12	
+S000001684	ORF	Verified	YKL201C	MNN4	YKL200C	chromosome 11	L000001128	11	67466	63930	C	-132.6	2011-02-03	2001-05-31|1996-07-31|1999-03-12	Putative positive regulator of mannosylphosphate transferase Mnn6p; involved in mannosylphosphorylation of N-linked oligosaccharides; expression increases in late-logarithmic and stationary growth phases; coding sequence contains length polymorphisms in different strains; MNN4 has a paralog, YJR061W, that arose from the whole genome duplication
+S000032315	CDS					YKL201C		11	67466	63930	C		2011-02-03	2001-05-31|1999-03-12|1996-07-31	
+S000001681	ORF	Verified	YKL198C	PTK1	putative serine/threonine protein kinase PTK1|POT1|YKT9|YKL199C|STK1|KKT8	chromosome 11	L000003491	11	70220	68232	C		2011-02-03	2003-01-08|1999-03-12|1996-07-31|2011-02-03	Putative serine/threonine protein kinase; regulates spermine uptake; involved in polyamine transport; possible mitochondrial protein; PTK1 has a paralog, PTK2, that arose from the whole genome duplication
+S000034854	CDS					YKL198C		11	70220	68232	C		2011-02-03	2003-01-08|1996-07-31|1999-03-12|2011-02-03	
+S000001680	ORF	Verified	YKL197C	PEX1	AAA family ATPase peroxin 1|PAS1	chromosome 11	L000001337	11	73865	70734	C		2011-02-03	1996-07-31	AAA-peroxin; heterodimerizes with AAA-peroxin Pex6p and participates in the recycling of peroxisomal signal receptor Pex5p from the peroxisomal membrane to the cystosol; induced by oleic acid and upregulated during anaerobiosis; mutations in human PEX1 can lead to severe peroxisomal disorders and early death
+S000033983	CDS					YKL197C		11	73865	70734	C		2011-02-03	1996-07-31	
+S000007055	long_terminal_repeat		YKLWdelta1			chromosome 11		11	74236	74518	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006671	tRNA_gene		tN(GUU)K			chromosome 11	L000003629	11	74624	74697	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000030740	noncoding_exon					tN(GUU)K		11	74624	74697	W		2011-02-03	2000-05-19	
+S000001679	ORF	Verified	YKL196C	YKT6	palmitoyltransferase YKT6	chromosome 11	L000004163	11	75534	74932	C		2011-02-03	1996-07-31	Vesicle membrane protein (v-SNARE) with acyltransferase activity; involved in trafficking to and within the Golgi, endocytic trafficking to the vacuole, and vacuolar fusion; membrane localization due to prenylation at the carboxy-terminus; human homolog YKT6 can complement yeast ykt6 mutant
+S000033862	CDS					YKL196C		11	75534	74932	C		2011-02-03	1996-07-31	
+S000001678	ORF	Verified	YKL195W	MIA40	TIM40|FMP15	chromosome 11		11	75821	77032	W		2011-02-03	2003-09-22|1996-07-31	Import and assembly protein in mitochondrial intermembrane space; component of MIA pathway which mediates import and oxidative folding of substrates including small proteins containing twin cysteine motifs; acts in concert with Erv1p, which oxidizes the cysteine residues of Mia40p to comprise a disulfide relay system that catalyzes import; also mediates folding of Atp23p via a chaperone-like activity; forms a dimer that binds iron-sulfur cluster in vitro
+S000033827	CDS					YKL195W		11	75821	77032	W		2011-02-03	2003-09-22|1996-07-31	
+S000001677	ORF	Verified	YKL194C	MST1	threonine--tRNA ligase MST1	chromosome 11	L000001207	11	78646	77258	C		2011-02-03	1996-07-31	Mitochondrial threonyl-tRNA synthetase; aminoacylates both the canonical threonine tRNA tT(UGU)Q1 and the unusual threonine tRNA tT(UAG)Q2 in vitro; lacks a typical editing domain, but has pre-transfer editing activity stimulated by the unusual tRNA-Thr
+S000030386	CDS					YKL194C		11	78646	77258	C		2011-02-03	1996-07-31	
+S000001676	ORF	Verified	YKL193C	SDS22	type 1 protein phosphatase-activating protein SDS22|EGP1	chromosome 11	L000002590	11	79882	78866	C		2011-02-03	1996-07-31	Regulatory subunit of the type 1 protein phosphatase (PP1) Glc7p; whether it functions as a positive or negative regulator of Glc7p is controversial; involved in the regulation of Glc7p nuclear localization and function
+S000030304	CDS					YKL193C		11	79882	78866	C		2011-02-03	1996-07-31	
+S000001675	ORF	Verified	YKL192C	ACP1	acyl carrier protein	chromosome 11	L000004843	11	80537	80160	C		2011-02-03	1996-07-31	Mitochondrial matrix acyl carrier protein; involved in biosynthesis of octanoate, which is a precursor to lipoic acid; activated by phosphopantetheinylation catalyzed by Ppt2p
+S000030104	CDS					YKL192C		11	80537	80160	C		2011-02-03	1996-07-31	
+S000001674	ORF	Verified	YKL191W	DPH2		chromosome 11	L000000522	11	81035	82639	W		2011-02-03	1996-07-31	Protein required for synthesis of diphthamide; required along with Dph1p, Kti11p, Jjj3p, and Dph5p; diphthamide is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); may act in a complex with Dph1p and Kti11p
+S000030067	CDS					YKL191W		11	81035	82639	W		2011-02-03	1996-07-31	
+S000001673	ORF	Verified	YKL190W	CNB1	calcineurin regulatory subunit B|YCN2|CRV1	chromosome 11	L000000371	11	82947	83550	W		2011-02-03	1996-07-31	Calcineurin B; regulatory subunit of calcineurin, a Ca++/calmodulin-regulated type 2B protein phosphatase which regulates Crz1p (stress-response transcription factor); other calcineurin subunit encoded by CNA1 and/or CMP1; regulates function of Aly1p alpha-arrestin; myristoylation by Nmt1p reduces calcineurin activity in response to submaximal Ca signals, is needed to prevent constitutive phosphatase activity; protein abundance increases in response to DNA replication stress
+S000029989	CDS					YKL190W		11	82947	82998	W		2011-02-03	1996-07-31	
+S000029990	CDS					YKL190W		11	83075	83550	W		2011-02-03	1996-07-31	
+S000029991	intron					YKL190W		11	82999	83074	W		2011-02-03	1996-07-31	
+S000007050	long_terminal_repeat		YKLCdelta2			chromosome 11		11	84115	83808	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006651	tRNA_gene		tL(UAA)K			chromosome 11	L000003630	11	84208	84291	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000037408	noncoding_exon					tL(UAA)K		11	84208	84291	W		2011-02-03	2000-05-19	
+S000001672	ORF	Verified	YKL189W	HYM1		chromosome 11	L000004365	11	84704	85903	W		2011-02-03	1996-07-31	Component of the RAM signaling network; is involved in regulation of Ace2p activity and cellular morphogenesis, interacts with Kic1p and Sog2p, localizes to sites of polarized growth during budding and during the mating response
+S000030561	CDS					YKL189W		11	84704	85903	W		2011-02-03	1996-07-31	
+S000001671	ORF	Verified	YKL188C	PXA2	ATP-binding cassette long-chain fatty acid transporter PXA2|PAT1	chromosome 11	L000003538	11	88786	86225	C		2011-02-03	1996-07-31	Subunit of heterodimeric peroxisomal ABC transport complex, with Pxa1p; required for import of long-chain fatty acids into peroxisomes; similar to human adrenoleukodystrophy transportesr ABCD1 and ABCD2, and ALD-related proteins; mutations in ABCD1 cause X-linked adrenoleukodystrophy (X-ALD), a peroxisomal disorder; human ABCD1 and ABCD2 can each partially complement yeast pxa1 pxa2 double null mutant
+S000030413	CDS					YKL188C		11	88786	86225	C		2011-02-03	1996-07-31	
+S000130138	ARS		ARS1104		ARSXI-89	chromosome 11		11	88789	89287			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000001670	ORF	Verified	YKL187C	FAT3		chromosome 11		11	91536	89284	C		2011-02-03	1996-07-31	Protein required for fatty acid uptake; protein abundance increases in cortical patches in response to oleate exposure; the authentic, non-tagged protein is detected in a phosphorylated state in highly purified mitochondria in high-throughput studies; FAT3 has a paralog, YLR413W, that arose from the whole genome duplication
+S000037608	CDS					YKL187C		11	91536	89284	C		2011-02-03	1996-07-31	
+S000001669	ORF	Verified	YKL186C	MTR2		chromosome 11	L000002934	11	93298	92744	C		2011-02-03	1996-07-31	mRNA transport regulator; essential nuclear protein; Mex67p and Mtr2p form a mRNA export complex which binds to RNA
+S000037550	CDS					YKL186C		11	93298	92744	C		2011-02-03	1996-07-31	
+S000122106	five_prime_UTR_intron					YKL186C		11	93465	93312	C		2011-02-03	2007-04-04	
+S000001668	ORF	Verified	YKL185W	ASH1	DNA-binding transcription repressor ASH1	chromosome 11	L000003058	11	94499	96265	W		2011-02-03	1996-07-31	Component of the Rpd3L histone deacetylase complex; zinc-finger inhibitor of HO transcription; mRNA is localized and translated in the distal tip of anaphase cells, resulting in accumulation of Ash1p in daughter cell nuclei and inhibition of HO expression; potential Cdc28p substrate
+S000037492	CDS					YKL185W		11	94499	96265	W		2011-02-03	1996-07-31	
+S000001667	ORF	Verified	YKL184W	SPE1	ornithine decarboxylase SPE1|SPE10|ORD1	chromosome 11	L000001307|L000001993|L000001995	11	96757	98157	W	-130.3	2011-02-03	1996-07-31	Ornithine decarboxylase; catalyzes the first step in polyamine biosynthesis; degraded in a proteasome-dependent manner in the presence of excess polyamines; deletion decreases lifespan, and increases necrotic cell death and ROS generation
+S000032037	CDS					YKL184W		11	96757	98157	W		2011-02-03	1996-07-31	
+S000119035	ARS		ARS1125		ARSXI-98|ARS1104.5	chromosome 11		11	98364	98523			2014-11-18	2014-11-18|2006-10-03	Autonomously Replicating Sequence
+S000178128	ARS_consensus_sequence					ARS1125		11	98385	98401	W		2014-11-18	2014-11-18	
+S000028558	ORF	Uncharacterized	YKL183C-A			chromosome 11		11	98607	98395	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031244	CDS					YKL183C-A		11	98607	98395	C		2011-02-03	2003-07-29	
+S000001666	ORF	Verified	YKL183W	LOT5		chromosome 11		11	98721	99641	W		2011-02-03	1996-07-31	Protein of unknown function; gene expression increases in cultures shifted to a lower temperature; protein abundance increases in response to DNA replication stress
+S000031917	CDS					YKL183W		11	98721	99641	W		2011-02-03	1996-07-31	
+S000001665	ORF	Verified	YKL182W	FAS1	tetrafunctional fatty acid synthase subunit FAS1	chromosome 11	L000000601	11	100671	106826	W	-116.7	2011-02-03	1996-07-31	Beta subunit of fatty acid synthetase; complex catalyzes the synthesis of long-chain saturated fatty acids; contains acetyltransacylase, dehydratase, enoyl reductase, malonyl transacylase, and palmitoyl transacylase activities
+S000031771	CDS					YKL182W		11	100671	106826	W		2011-02-03	1996-07-31	
+S000001664	ORF	Verified	YKL181W	PRS1	ribose phosphate diphosphokinase subunit PRS1|PRP1	chromosome 11	L000001494	11	107316	108599	W		2011-02-03	1996-07-31	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase; synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; plays a key role in cell wall integrity (CWI) pathway; one of five related enzymes, which are active as heteromultimeric complexes; missense mutations in human homolog PRPS1 are associated with neuropathic Arts syndrome and Charcot-Marie Tooth (CMTX5) disease
+S000029853	CDS					YKL181W		11	107316	108599	W		2011-02-03	1996-07-31	
+S000001663	ORF	Verified	YKL180W	RPL17A	uL22|ribosomal 60S subunit protein L17A|L22|YL17|L20A|L17A|RPL17	chromosome 11	L000001715	11	109269	110129	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L17A; required for processing of 27SB pre-rRNA and formation of stable 66S assembly intermediates; copurifies with the Dam1 complex (aka DASH complex); homologous to mammalian ribosomal protein L17 and bacterial L22; RPL17A has a paralog, RPL17B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000036148	CDS					YKL180W		11	109269	109577	W		2011-02-03	1996-07-31	
+S000036149	CDS					YKL180W		11	109884	110129	W		2011-02-03	1996-07-31	
+S000036150	intron					YKL180W		11	109578	109883	W		2011-02-03	1996-07-31	
+S000001662	ORF	Verified	YKL179C	COY1		chromosome 11		11	112503	110464	C		2011-02-03	1996-07-31	Golgi membrane protein with similarity to mammalian CASP; genetic interactions with GOS1 (encoding a Golgi snare protein) suggest a role in Golgi function
+S000035207	CDS					YKL179C		11	112503	110464	C		2011-02-03	1996-07-31	
+S000001660	ORF	Dubious	YKL177W			chromosome 11		11	114356	114694	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene STE3
+S000034192	CDS					YKL177W		11	114356	114694	W		2011-02-03	1996-07-31	
+S000001661	ORF	Verified	YKL178C	STE3	DAF2	chromosome 11	L000002113	11	114627	113215	C		2011-02-03	1996-07-31	Receptor for a factor pheromone; couples to MAP kinase cascade to mediate pheromone response; transcribed in alpha cells and required for mating by alpha cells, ligand bound receptors endocytosed and recycled to the plasma membrane; GPCR
+S000035096	CDS					YKL178C		11	114627	113215	C		2011-02-03	1996-07-31	
+S000001659	ORF	Verified	YKL176C	LST4		chromosome 11	L000004354	11	117986	115500	C		2011-02-03	1996-07-31	Subunit of the Lst4p-Lst7p GTPase activating protein complex for Gtr2p; stimulates the GTPase activity of Rag family GTPase Gtr2p, within the context of the Gtr1p-Gtr2p heterodimer, after amino acid stimulation; required for activation of TORC1 in response to amino acid stimulation; recruited to the vacuolar membrane during amino acid starvation and released from the membrane by TORC1; required for the transport of amino acid permease Gap1p from the Golgi to the cell surface
+S000034038	CDS					YKL176C		11	117986	115500	C		2011-02-03	1996-07-31	
+S000001658	ORF	Verified	YKL175W	ZRT3	Zn(2+) transporter ZRT3	chromosome 11		11	118793	120304	W		2011-02-03	1996-07-31	Vacuolar membrane zinc transporter; transports zinc from storage in the vacuole to the cytoplasm when needed; transcription is induced under conditions of zinc deficiency
+S000033999	CDS					YKL175W		11	118793	120304	W		2011-02-03	1996-07-31	
+S000001657	ORF	Verified	YKL174C	TPO5		chromosome 11		11	122236	120380	C		2011-02-03	1996-07-31	Protein involved in excretion of putrescine and spermidine; putative polyamine transporter in the Golgi or post-Golgi vesicles
+S000033149	CDS					YKL174C		11	122236	120380	C		2011-02-03	1996-07-31	
+S000001656	ORF	Verified	YKL173W	SNU114	U5 snRNP GTPase SNU114|GIN10	chromosome 11	L000003541	11	122517	125543	W		2011-02-03	1996-07-31	GTPase component of U5 snRNP involved in mRNA splicing via spliceosome; binds directly to U5 snRNA; proposed to be involved in conformational changes of the spliceosome; similarity to ribosomal translocation factor EF-2
+S000033113	CDS					YKL173W		11	122517	125543	W		2011-02-03	1996-07-31	
+S000001655	ORF	Verified	YKL172W	EBP2		chromosome 11	L000004646	11	125759	127042	W		2011-02-03	1996-07-31	Required for 25S rRNA maturation and 60S ribosomal subunit assembly; localizes to the nucleolus and in foci along nuclear periphery; constituent of 66S pre-ribosomal particles; cooperates with Rrs1p and Mps3p to mediate telomere clustering by binding Sir4p, but is not involved in telomere tethering
+S000033024	CDS					YKL172W		11	125759	127042	W		2011-02-03	1996-07-31	
+S000001654	ORF	Verified	YKL171W	NNK1	protein kinase NNK1	chromosome 11		11	127475	130261	W		2011-02-03	1996-07-31	Protein kinase; implicated in proteasome function; interacts with TORC1, Ure2 and Gdh2; overexpression leads to hypersensitivity to rapamycin and nuclear accumulation of Gln3; epitope-tagged protein localizes to the cytoplasm
+S000032097	CDS					YKL171W		11	127475	130261	W		2011-02-03	1996-07-31	
+S000001653	ORF	Verified	YKL170W	MRPL38	mitochondrial 54S ribosomal protein YmL38/YmL34|YmL38|YmL34|MRPL34	chromosome 11	S000029310|L000002693|L000001173	11	130634	131050	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; appears as two protein spots (YmL34 and YmL38) on two-dimensional SDS gels; protein abundance increases in response to DNA replication stress
+S000031979	CDS					YKL170W		11	130634	131050	W		2011-02-03	1996-07-31	
+S000001652	ORF	Dubious	YKL169C			chromosome 11		11	131068	130685	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene MRPL38
+S000030884	CDS					YKL169C		11	131068	130685	C		2011-02-03	1996-07-31	
+S000001651	ORF	Verified	YKL168C	KKQ8	putative serine/threonine protein kinase KKQ8	chromosome 11	L000004097	11	133462	131288	C		2011-02-03	1996-07-31|2006-05-08	Putative serine/threonine protein kinase with unknown cellular role; KKQ8 has a paralog, HAL5, that arose from the whole genome duplication
+S000030812	CDS					YKL168C		11	133462	131288	C		2011-02-03	1996-07-31|2006-05-08	
+S000001650	ORF	Verified	YKL167C	MRP49	mitochondrial 54S ribosomal protein MRP49	chromosome 11	L000001159	11	134134	133721	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; not essential for mitochondrial translation
+S000037870	CDS					YKL167C		11	134134	133721	C		2011-02-03	1996-07-31	
+S000001649	ORF	Verified	YKL166C	TPK3	cAMP-dependent protein kinase catalytic subunit TPK3	chromosome 11	L000002327	11	135705	134509	C		2011-02-03	1996-07-31	cAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; partially redundant with Tpk1p and Tpk2p; localizes to P-bodies during stationary phase; TPK3 has a paralog, TPK1, that arose from the whole genome duplication
+S000037767	CDS					YKL166C		11	135705	134509	C		2011-02-03	1996-07-31	
+S000007617	ORF	Dubious	YKL165C-A			chromosome 11		11	136023	135790	C		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037215	CDS					YKL165C-A		11	136023	135790	C		2011-02-03	2001-02-26	
+S000001648	ORF	Verified	YKL165C	MCD4	mannose-ethanolamine phosphotransferase MCD4|FSR2|SSU21|ZRG16	chromosome 11	L000003913|S000029172|L000003584	11	140691	137932	C		2011-02-03	1996-07-31	Protein involved in GPI anchor synthesis; multimembrane-spanning protein that localizes to the endoplasmic reticulum; highly conserved among eukaryotes; GPI stands for glycosylphosphatidylinositol
+S000037706	CDS					YKL165C		11	140691	137932	C		2011-02-03	1996-07-31	
+S000006558	tRNA_gene		tE(UUC)K			chromosome 11	L000003643	11	141089	141018	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000036005	noncoding_exon					tE(UUC)K		11	141089	141018	C		2011-02-03	2000-05-19	
+S000001647	ORF	Verified	YKL164C	PIR1	beta-1,3-glucan linked protein|CCW6	chromosome 11	L000001441	11	142819	141794	C		2011-02-03	1996-07-31	O-glycosylated protein required for cell wall stability; attached to the cell wall via beta-1,3-glucan; mediates mitochondrial translocation of Apn1p; expression regulated by the cell integrity pathway and by Swi5p during the cell cycle; PIR1 has a paralog, YJL160C, that arose from the whole genome duplication
+S000036944	CDS					YKL164C		11	142819	141794	C		2011-02-03	1996-07-31	
+S000001646	ORF	Verified	YKL163W	PIR3	beta-1,3-glucan linked protein|CCW8	chromosome 11	L000001443	11	144401	145378	W		2011-02-03	1996-07-31	O-glycosylated covalently-bound cell wall protein; required for cell wall stability; expression is cell cycle regulated, peaking in M/G1 and also subject to regulation by the cell integrity pathway; coding sequence contains length polymorphisms in different strains; PIR3 has a paralog, HSP150, that arose from the whole genome duplication
+S000036912	CDS					YKL163W		11	144401	145378	W		2011-02-03	1996-07-31	
+S000007244	ORF	Dubious	YKL162C-A			chromosome 11		11	146074	145922	C		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032863	CDS					YKL162C-A		11	146074	145922	C		2011-02-03	1999-07-17	
+S000001645	ORF	Uncharacterized	YKL162C			chromosome 11		11	148838	147630	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion
+S000036809	CDS					YKL162C		11	148838	147630	C		2011-02-03	1996-07-31	
+S000001644	ORF	Verified	YKL161C	KDX1	putative protein kinase KDX1|MLP1	chromosome 11		11	150687	149386	C		2011-02-03	1996-07-31	Protein kinase; implicated in Slt2p mitogen-activated (MAP) kinase signaling pathway; interacts with numerous components in the mating pheromone and CWI MAPK pathways; associates with Rlm1p; KDX1 has a paralog, SLT2, that arose from the whole genome duplication
+S000035941	CDS					YKL161C		11	150687	149386	C		2011-02-03	1996-07-31	
+S000118402	ARS		ARS1106		ARSXI-153	chromosome 11		11	153020	153135			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178129	ARS_consensus_sequence					ARS1106		11	153122	153106	C		2014-11-18	2014-11-18	
+S000001643	ORF	Verified	YKL160W	ELF1		chromosome 11		11	153269	153706	W		2011-02-03	1996-07-31	Transcription elongation factor with a conserved zinc finger domain; implicated in the maintenance of proper chromatin structure in actively transcribed regions; deletion inhibits Brome mosaic virus (BMV) gene expression
+S000035865	CDS					YKL160W		11	153269	153706	W		2011-02-03	1996-07-31	
+S000001642	ORF	Verified	YKL159C	RCN1		chromosome 11	S000007456	11	154451	153816	C		2011-02-03	1996-07-31	Protein involved in calcineurin regulation during calcium signaling; has similarity to H. sapiens DSCR1 which is found in the Down Syndrome candidate region
+S000034776	CDS					YKL159C		11	154451	153816	C		2011-02-03	1996-07-31	
+S000001640	ORF	Verified	YKL157W	APE2	metallo-aminopeptidase|YKL158W|LAP1	chromosome 11	S000001641|L000000092	11	154991	158232	W	-124.8	2011-02-03	2000-07-14|1996-07-31|2011-02-03	Aminopeptidase yscII; may have a role in obtaining leucine from dipeptide substrates; APE2 has a paralog, AAP1, that arose from the whole genome duplication
+S000033809	CDS					YKL157W		11	154991	155271	W		2011-02-03	2000-07-14|1996-07-31	
+S000033810	CDS					YKL157W		11	155655	158232	W		2011-02-03	2000-07-14|2011-02-03	
+S000033811	intron					YKL157W		11	155272	155654	W		2011-02-03	2000-07-14	
+S000001639	ORF	Verified	YKL156W	RPS27A	eS27|ribosomal 40S subunit protein S27A|S27e|rp61|YS20|S27A	chromosome 11	L000002712	11	158613	159212	W		2011-02-03	1996-07-31|2011-02-03	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S27, no bacterial homolog; RPS27A has a paralog, RPS27B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000033664	CDS					YKL156W		11	158613	158615	W		2011-02-03	1996-07-31	
+S000033665	CDS					YKL156W		11	158967	159212	W		2011-02-03	1996-07-31	
+S000033666	intron					YKL156W		11	158616	158966	W		2011-02-03	1996-07-31|2011-02-03	
+S000028668	ORF	Dubious	YKL156C-A			chromosome 11		11	159091	158975	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene RPS27A; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032493	CDS					YKL156C-A		11	159091	158975	C		2011-02-03	2003-07-29	
+S000001638	ORF	Verified	YKL155C	RSM22	mitochondrial 37S ribosomal protein RSM22	chromosome 11		11	161342	159456	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; also predicted to be an S-adenosylmethionine-dependent RNA methyltransferase
+S000033531	CDS					YKL155C		11	161342	159456	C		2011-02-03	1996-07-31	
+S000001637	ORF	Verified	YKL154W	SRP102	Signal recognition particle receptor subunit beta	chromosome 11		11	161601	162335	W		2011-02-03	1996-07-31	Signal recognition particle (SRP) receptor beta subunit; involved in SRP-dependent protein targeting; anchors the alpha subunit, Srp101p to the ER membrane
+S000033491	CDS					YKL154W		11	161601	162335	W		2011-02-03	1996-07-31	
+S000006716	tRNA_gene		tR(UCU)K			chromosome 11	L000003642	11	162558	162487	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000037862	noncoding_exon					tR(UCU)K		11	162558	162487	C		2011-02-03	2000-05-19	
+S000007056	long_terminal_repeat		YKLWdelta3			chromosome 11		11	162831	163169	W		2011-02-03	2000-05-19	Ty1 LTR
+S000001636	ORF	Dubious	YKL153W			chromosome 11		11	163600	164109	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcription of both YLK153W and the overlapping essential gene GPM1 is reduced in the gcr1 null mutant
+S000032752	CDS					YKL153W		11	163600	164109	W		2011-02-03	1996-07-31	
+S000001635	ORF	Verified	YKL152C	GPM1	phosphoglycerate mutase GPM1	chromosome 11	L000000726	11	164385	163642	C		2011-02-03	1996-07-31	Tetrameric phosphoglycerate mutase; mediates the conversion of 3-phosphoglycerate to 2-phosphoglycerate during glycolysis and the reverse reaction during gluconeogenesis
+S000032605	CDS					YKL152C		11	164385	163642	C		2011-02-03	1996-07-31	
+S000001634	ORF	Verified	YKL151C	NNR2	NADHX dehydratase	chromosome 11		11	165930	164917	C		2011-02-03	1996-07-31	Widely-conserved NADHX dehydratase; converts (S)-NADHX to NADH in ATP-dependent manner; YKL151C promoter contains STREs (stress response elements) and expression is induced by heat shock or methyl methanesulfonate; downstream intergenic region drives antisense expression and mediates coordinated regulation of YKL151C and GPM1 phosphoglycerate mutase; protein abundance increases in response to DNA replication stress; homolog of Carkd in mammals and C-terminus of YjeF in E.coli
+S000031623	CDS					YKL151C		11	165930	164917	C		2011-02-03	1996-07-31	
+S000001633	ORF	Verified	YKL150W	MCR1	cytochrome-b5 reductase	chromosome 11	L000003134	11	166544	167452	W		2011-02-03	1996-07-31	Mitochondrial NADH-cytochrome b5 reductase; involved in ergosterol biosynthesis
+S000031554	CDS					YKL150W		11	166544	167452	W		2011-02-03	1996-07-31	
+S000122105	five_prime_UTR_intron					YKL150W		11	166400	166487	W		2011-02-03	2007-04-04	
+S000001632	ORF	Verified	YKL149C	DBR1	RNA lariat debranching enzyme|PRP26	chromosome 11	L000000495	11	168829	167612	C	-106.4	2011-02-03	1996-07-31	RNA lariat debranching enzyme; catalyzes debranching of lariat introns formed during pre-mRNA splicing; required for efficient Ty1 transposition; knockdown of human homolog Dbr1 rescues toxicity of RNA-binding proteins TDP-43 and FUS which are implicated in amyotrophic lateral sclerosis (ALS), suggests potential therapeutic target for ALS and related TDP-43 proteinopathies; human homolog DBR1 can complement yeast dbr1 null mutant
+S000031536	CDS					YKL149C		11	168829	167612	C		2011-02-03	1996-07-31	
+S000001631	ORF	Verified	YKL148C	SDH1	succinate dehydrogenase flavoprotein subunit SDH1|SDHA	chromosome 11	L000001823	11	171129	169207	C		2011-02-03	1996-07-31	Flavoprotein subunit of succinate dehydrogenase; couples the oxidation of succinate to the transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; FAD binding to Sdh1p is required for the assembly of the succinate dehydrogenase subunits; mutations in human ortholog SDHA are associated with Leigh syndrome
+S000030671	CDS					YKL148C		11	171129	169207	C		2011-02-03	1996-07-31	
+S000001629	ORF	Verified	YKL146W	AVT3		chromosome 11		11	171783	173861	W		2011-02-03	1996-07-31	Vacuolar transporter; exports large neutral amino acids from the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
+S000030513	CDS					YKL146W		11	171783	173861	W		2011-02-03	1996-07-31	
+S000001630	ORF	Dubious	YKL147C			chromosome 11		11	172168	171551	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified gene AVT3
+S000030585	CDS					YKL147C		11	172168	171551	C		2011-02-03	1996-07-31	
+S000001628	ORF	Verified	YKL145W	RPT1	proteasome regulatory particle base subunit RPT1|YTA3|CIM5	chromosome 11	L000002557	11	174213	175616	W		2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; required for optimal CDC20 transcription; interacts with Rpn12p and Ubr1p; mutant has aneuploidy tolerance
+S000030368	CDS					YKL145W		11	174213	175616	W		2011-02-03	1996-07-31	
+S000028841	ORF	Dubious	YKL145W-A			chromosome 11		11	174958	175050	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified essential gene RPT1; identified by expression profiling and mass spectrometry
+S000034526	CDS					YKL145W-A		11	174958	175050	W		2011-02-03	2003-07-29	
+S000001627	ORF	Verified	YKL144C	RPC25	DNA-directed RNA polymerase III subunit RPC25|C25|YKL1	chromosome 11	L000002427	11	176481	175843	C		2011-02-03	1996-07-31	RNA polymerase III subunit C25; required for transcription initiation; forms a heterodimer with Rpc17p; paralog of Rpb7p
+S000037515	CDS					YKL144C		11	176481	175843	C		2011-02-03	1996-07-31	
+S000001626	ORF	Verified	YKL143W	LTV1	YKL2	chromosome 11	L000000962	11	176781	178172	W		2011-02-03	1996-07-31	Component of the GSE complex; GSE is required for proper sorting of amino acid permease Gap1p; required for ribosomal small subunit export from nucleus; required for growth at low temperature
+S000037465	CDS					YKL143W		11	176781	178172	W		2011-02-03	1996-07-31	
+S000001625	ORF	Verified	YKL142W	MRP8	YKL3	chromosome 11	L000001156	11	178515	179174	W		2011-02-03	1996-07-31	Protein of unknown function; undergoes sumoylation; transcription induced under cell wall stress; protein levels are reduced under anaerobic conditions; protein abundance increases in response to DNA replication stress; originally thought to be a mitochondrial ribosomal protein based on sequence analysis
+S000036742	CDS					YKL142W		11	178515	179174	W		2011-02-03	1996-07-31	
+S000001624	ORF	Verified	YKL141W	SDH3	succinate dehydrogenase cytochrome b subunit SDH3|YKL4|CYB3	chromosome 11	L000001825	11	179667	180263	W		2011-02-03	1996-07-31	Subunit of succinate dehydrogenase and of TIM22 translocase; functions as cytochrome b subunit of succinate dehydrogenase, which couples oxidation of succinate to transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; also required for mitochondrial inner membrane protein import as part of the TIM22 complex; SDH3 has a paralog, SHH3, that arose from the whole genome duplication
+S000036643	CDS					YKL141W		11	179667	180263	W		2011-02-03	1996-07-31	
+S000001623	ORF	Verified	YKL140W	TGL1	YKL5	chromosome 11	L000002293	11	180779	182425	W		2011-02-03	1996-07-31	Steryl ester hydrolase; one of three gene products (Yeh1p, Yeh2p, Tgl1p) responsible for steryl ester hydrolase activity and involved in sterol homeostasis; localized to lipid particle membranes
+S000036522	CDS					YKL140W		11	180779	182425	W		2011-02-03	1996-07-31	
+S000001622	ORF	Verified	YKL139W	CTK1	cyclin-dependent serine/threonine protein kinase CTK1	chromosome 11	L000000432	11	182958	184544	W		2011-02-03	1996-07-31	Catalytic (alpha) subunit of C-terminal domain kinase I (CTDK-I); phosphorylates both RNA pol II subunit Rpo21p to affect transcription and pre-mRNA 3' end processing, and ribosomal protein Rps2p to increase translational fidelity; required for H3K36 trimethylation but not dimethylation by Set2p; suggested stimulatory role in 80S formation during translation initiation; similar to the Drosophila dCDK12 and human CDK12 and probably CDK13
+S000036668	CDS					YKL139W		11	182958	184544	W		2011-02-03	1996-07-31	
+S000028421	ORF	Verified	YKL138C-A	HSK3		chromosome 11	S000028418	11	185012	184803	C		2011-02-03	2002-06-20	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
+S000029957	CDS					YKL138C-A		11	185012	184803	C		2011-02-03	2002-06-20	
+S000001621	ORF	Verified	YKL138C	MRPL31	mitochondrial 54S ribosomal protein YmL31|YmL31	chromosome 11	L000001168|L000002529	11	185681	185286	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000035696	CDS					YKL138C		11	185681	185286	C		2011-02-03	1996-07-31	
+S000001620	ORF	Verified	YKL137W	CMC1		chromosome 11		11	185957	186292	W		2011-02-03	1996-07-31|2005-12-15	Copper-binding protein of the mitochondrial intermembrane space; evolutionarily conserved; may be involved in delivering copper from the matrix to the cytochrome c oxidase complex; contains a twin CX9C motif
+S000035632	CDS					YKL137W		11	185957	186292	W		2011-02-03	1996-07-31|2005-12-15	
+S000001619	ORF	Dubious	YKL136W			chromosome 11		11	186416	186814	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF APL2/YKL135C
+S000035555	CDS					YKL136W		11	186416	186814	W		2011-02-03	1996-07-31	
+S000001618	ORF	Verified	YKL135C	APL2		chromosome 11	L000000094	11	188640	186460	C		2011-02-03	1996-07-31	Beta-adaptin subunit of the clathrin-associated protein (AP-1) complex; binds clathrin; involved in clathrin-dependent Golgi protein sorting; protein abundance increases in response to DNA replication stress
+S000034478	CDS					YKL135C		11	188640	186460	C		2011-02-03	1996-07-31	
+S000001617	ORF	Verified	YKL134C	OCT1	metalloendopeptidase	chromosome 11	L000004860	11	191442	189124	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial intermediate peptidase; cleaves destabilizing N-terminal residues of a subset of proteins upon import, after their cleavage by mitochondrial processing peptidase (Mas1p-Mas2p); may contribute to mitochondrial iron homeostasis
+S000034401	CDS					YKL134C		11	191442	189124	C		2011-02-03	1996-07-31|2011-02-03	
+S000001616	ORF	Uncharacterized	YKL133C			chromosome 11		11	193070	191679	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; not required for growth of cells lacking the mitochondrial genome; SWAT-GFP and mCherry fusion proteins localize to the mitochondria; YKL133C has a paralog, MGR3, that arose from the whole genome duplication
+S000034300	CDS					YKL133C		11	193070	191679	C		2011-02-03	1996-07-31|2011-02-03	
+S000001614	ORF	Dubious	YKL131W			chromosome 11		11	194478	194999	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033359	CDS					YKL131W		11	194478	194999	W		2011-02-03	1996-07-31	
+S000001615	ORF	Verified	YKL132C	RMA1	putative tetrahydrofolate synthase	chromosome 11		11	194866	193574	C		2011-02-03	1996-07-31	Putative dihydrofolate synthetase; similar to E. coli folylpolyglutamate synthetase/dihydrofolate synthetase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; RMA1 has a paralog, FOL3, that arose from the whole genome duplication
+S000033390	CDS					YKL132C		11	194866	193574	C		2011-02-03	1996-07-31	
+S000001613	ORF	Verified	YKL130C	SHE2		chromosome 11	L000004571	11	196028	195288	C		2011-02-03	1996-07-31	RNA-binding protein that binds specific mRNAs and interacts with She3p; part of the mRNA localization machinery that restricts accumulation of certain proteins to the bud; binds to ER-derived membranes and targets mRNAs to cortical ER
+S000033257	CDS					YKL130C		11	196028	195288	C		2011-02-03	1996-07-31	
+S000119036	ARS		ARS1126		ARSXI-196|ARS1106.3	chromosome 11		11	196042	196287			2011-02-03	2006-10-03	Autonomously Replicating Sequence
+S000001612	ORF	Verified	YKL129C	MYO3	myosin 3	chromosome 11	L000002889	11	200167	196349	C		2011-02-03	1996-07-31|2011-02-03	One of two type I myosins; localizes to actin cortical patches; deletion of MYO3 has little effect on growth, but myo3 myo5 double deletion causes severe defects in growth and actin cytoskeleton organization; MYO3 has a paralog, MYO5, that arose from the whole genome duplication
+S000032500	CDS					YKL129C		11	200167	196349	C		2011-02-03	1996-07-31|2011-02-03	
+S000001611	ORF	Verified	YKL128C	PMU1	putative phosphomutase	chromosome 11	L000003276	11	201771	200884	C		2011-02-03	1996-07-31	Putative phosphomutase; contains a region homologous to the active site of phosphomutases; overexpression suppresses the histidine auxotrophy of an ade3 ade16 ade17 triple mutant and the temperature sensitivity of a tps2 mutant
+S000032407	CDS					YKL128C		11	201771	200884	C		2011-02-03	1996-07-31	
+S000007054	long_terminal_repeat		YKLCsigma1			chromosome 11		11	202983	202644	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006626	tRNA_gene		tK(CUU)K			chromosome 11	L000003631	11	202999	203071	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000036035	noncoding_exon					tK(CUU)K		11	202999	203071	W		2011-02-03	2000-05-19	
+S000001610	ORF	Verified	YKL127W	PGM1	phosphoglucomutase PGM1	chromosome 11	L000001412	11	203541	205253	W	-108.4	2011-02-03	1996-07-31	Phosphoglucomutase, minor isoform; catalyzes the conversion from glucose-1-phosphate to glucose-6-phosphate, which is a key step in hexose metabolism; PGM1 has a paralog, PGM2, that arose from the whole genome duplication
+S000032331	CDS					YKL127W		11	203541	205253	W		2011-02-03	1996-07-31	
+S000001609	ORF	Verified	YKL126W	YPK1	serine/threonine protein kinase YPK1|SLI2	chromosome 11	L000002541	11	205707	207749	W	-97.7	2011-02-03	1996-07-31	S/T protein kinase; phosphorylates, downregulates flippase activator Fpk1p; inactivates Orm1p and Orm2p by phosphorylation in response to compromised sphingolipid synthesis; involved in the TORC-dependent phosphorylation of ribosomal proteins Rps6a/b (S6); mutations affect receptor-mediated endocytosis and sphingolipid-mediated and cell integrity signaling pathways; human homolog SGK1 can complement a null mutant; human homolog SGK2 can complement a ypk1 ypk2 double mutant
+S000031322	CDS					YKL126W		11	205707	207749	W		2011-02-03	1996-07-31	
+S000001608	ORF	Verified	YKL125W	RRN3	rDNA-binding RNA polymerase I transcriptional factor	chromosome 11	L000003362	11	208247	210130	W		2011-02-03	1996-07-31	Protein required for transcription of rDNA by RNA polymerase I; transcription factor independent of DNA template; involved in recruitment of RNA polymerase I to rDNA; structure reveals unique HEAT repeat fold and a surface serine patch; phosphorylation of serine patch impairs cell growth and reduces RNA polymerase I binding in vitro and RNA polymerase I recruitment to the rDNA gene in vivo
+S000031219	CDS					YKL125W		11	208247	210130	W		2011-02-03	1996-07-31	
+S000001607	ORF	Verified	YKL124W	SSH4	MLF4	chromosome 11	L000002951	11	210593	212332	W		2011-02-03	1996-07-31	Specificity factor required for Rsp5p-dependent ubiquitination; also required for sorting of cargo proteins at the multivesicular body; identified as a high-copy suppressor of a SHR3 deletion, increasing steady-state levels of amino acid permeases
+S000031112	CDS					YKL124W		11	210593	212332	W		2011-02-03	1996-07-31	
+S000001606	ORF	Dubious	YKL123W			chromosome 11		11	212043	212423	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SSH4
+S000030083	CDS					YKL123W		11	212043	212423	W		2011-02-03	1996-07-31	
+S000001605	ORF	Verified	YKL122C	SRP21	signal recognition particle subunit SRP21	chromosome 11	L000002062	11	212998	212495	C		2011-02-03	1996-07-31	Subunit of the signal recognition particle (SRP); SRP functions in protein targeting to the endoplasmic reticulum membrane; not found in mammalian SRP; forms a pre-SRP structure in the nucleolus that is translocated to the cytoplasm
+S000029913	CDS					YKL122C		11	212998	212495	C		2011-02-03	1996-07-31	
+S000119037	ARS		ARS1127		ARSXI-213|ARS1106.7	chromosome 11		11	213439	213743			2011-02-03	2006-10-03	Autonomously Replicating Sequence
+S000001604	ORF	Uncharacterized	YKL121W	DGR2		chromosome 11		11	214142	216700	W		2011-02-03	1996-07-31	Protein of unknown function; null mutant is resistant to 2-deoxy-D-glucose and displays abnormally elongated buds; DGR2 has a paralog, YMR102C, that arose from the whole genome duplication
+S000029872	CDS					YKL121W		11	214142	216700	W		2011-02-03	1996-07-31	
+S000001603	ORF	Verified	YKL120W	OAC1		chromosome 11	S000007413	11	217344	218318	W		2011-02-03	1996-07-31	Mitochondrial inner membrane transporter; transports oxaloacetate, sulfate, thiosulfate, and isopropylmalate; member of the mitochondrial carrier family
+S000037208	CDS					YKL120W		11	217344	218318	W		2011-02-03	1996-07-31	
+S000001601	ORF	Dubious	YKL118W			chromosome 11		11	219126	219437	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene VPH2
+S000036185	CDS					YKL118W		11	219126	219437	W		2011-02-03	1996-07-31	
+S000001602	ORF	Verified	YKL119C	VPH2	VMA12|CLS10	chromosome 11	L000002468	11	219217	218570	C		2011-02-03	1996-07-31	Integral membrane protein required for V-ATPase function; not an actual component of the vacuolar H+-ATPase (V-ATPase) complex; functions in the assembly of the V-ATPase; localized to the endoplasmic reticulum (ER); involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner
+S000036236	CDS					YKL119C		11	219217	218570	C		2011-02-03	1996-07-31	
+S000007051	long_terminal_repeat		YKLCdelta4			chromosome 11		11	219723	219395	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006515	tRNA_gene		tA(AGC)K1			chromosome 11	L000003632	11	219895	219967	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000036246	noncoding_exon					tA(AGC)K1		11	219895	219967	W		2011-02-03	2000-05-19	
+S000001600	ORF	Verified	YKL117W	SBA1	Hsp90 cochaperone SBA1|CST18	chromosome 11	L000004284|L000002999|S000029122	11	220324	220974	W		2011-02-03	1996-07-31	Co-chaperone that binds and regulates Hsp90 family chaperones; plays a role in determining prion variants; important for pp60v-src activity in yeast; homologous to the mammalian p23 proteins, and like p23 can regulate telomerase activity; protein abundance increases in response to DNA replication stress
+S000035238	CDS					YKL117W		11	220324	220974	W		2011-02-03	1996-07-31	
+S000001599	ORF	Verified	YKL116C	PRR1	serine/threonine protein kinase PRR1	chromosome 11		11	222900	221344	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; inhibits pheromone induced signaling downstream of MAPK, possibly at the level of the Ste12p transcription factor
+S000034995	CDS					YKL116C		11	222900	221344	C		2011-02-03	1996-07-31	
+S000001598	ORF	Dubious	YKL115C			chromosome 11		11	223285	222893	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene PRR1
+S000034081	CDS					YKL115C		11	223285	222893	C		2011-02-03	1996-07-31	
+S000001597	ORF	Verified	YKL114C	APN1	DNA-(apurinic or apyrimidinic site) lyase APN1	chromosome 11	L000000096	11	224455	223352	C		2011-02-03	1996-07-31	Major apurinic/apyrimidinic endonuclease; 3'-repair diesterase; involved in repair of DNA damage by oxidation and alkylating agents; also functions as a 3'-5' exonuclease to repair 7,8-dihydro-8-oxodeoxyguanosine; genetically interacts with NTG1 to maintain mitochondrial genome integrity
+S000033938	CDS					YKL114C		11	224455	223352	C		2011-02-03	1996-07-31	
+S000001596	ORF	Verified	YKL113C	RAD27	multifunctional nuclease RAD27|FEN1|RTH1|ERC11	chromosome 11	L000002742|L000000565	11	225875	224727	C		2011-02-03	1996-07-31	5' to 3' exonuclease, 5' flap endonuclease; required for Okazaki fragment processing and maturation, for long-patch base-excision repair and large loop repair (LLR), ribonucleotide excision repair; member of the S. pombe RAD2/FEN1 family; relocalizes to the cytosol in response to hypoxia
+S000033801	CDS					YKL113C		11	225875	224727	C		2011-02-03	1996-07-31	
+S000001595	ORF	Verified	YKL112W	ABF1	GFI|SBF-B|DNA-binding protein ABF1|SBF1|REB2|OBF1|BAF1	chromosome 11	L000000159	11	226570	228765	W		2011-02-03	1996-07-31	DNA binding protein with possible chromatin-reorganizing activity; involved in transcriptional activation, gene silencing, and DNA replication and repair
+S000033734	CDS					YKL112W		11	226570	228765	W		2011-02-03	1996-07-31	
+S000001594	ORF	Dubious	YKL111C			chromosome 11		11	228799	228464	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified essential gene ABF1
+S000032984	CDS					YKL111C		11	228799	228464	C		2011-02-03	1996-07-31	
+S000001593	ORF	Verified	YKL110C	KTI12	TOT4	chromosome 11	L000000923	11	229880	228939	C		2011-02-03	1996-07-31	Protein that plays a role in modification of tRNA wobble nucleosides; protein plays role in tRNA wobble nucleoside modification with Elongator complex; involved in sensitivity to G1 arrest induced by zymocin; interacts with chromatin throughout the genome; also interacts with Cdc19p
+S000032867	CDS					YKL110C		11	229880	228939	C		2011-02-03	1996-07-31	
+S000001592	ORF	Verified	YKL109W	HAP4	transcription factor HAP4	chromosome 11	L000000754	11	232227	233891	W		2011-02-03	1996-07-31	Transcription factor; subunit of the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex, a transcriptional activator and global regulator of respiratory gene expression; provides the principal activation function of the complex; involved in diauxic shift
+S000032773	CDS					YKL109W		11	232227	233891	W		2011-02-03	1996-07-31	
+S000001591	ORF	Verified	YKL108W	SLD2	DRC1	chromosome 11	L000004708	11	234426	235787	W		2011-02-03	1996-07-31	Single-stranded DNA origin-binding and annealing protein; required for initiation of DNA replication; phosphorylated in S phase by cyclin-dependent kinases (Cdks), promoting origin binding, DNA replication and Dpb11p complex formation; component of the preloading complex; binds the Mcm2-7p complex to prevent inappropriate Mcm2-7p interaction with the GINS complex in G1; required for S phase checkpoint; relative distribution to the nucleus increases upon DNA replication stress
+S000032698	CDS					YKL108W		11	234426	235787	W		2011-02-03	1996-07-31	
+S000001590	ORF	Uncharacterized	YKL107W		putative short-chain dehydrogenase/reductase	chromosome 11		11	236141	237070	W		2011-02-03	1996-07-31	Putative short-chain dehydrogenase/reductase; proposed to be a palmitoylated membrane protein
+S000032626	CDS					YKL107W		11	236141	237070	W		2011-02-03	1996-07-31	
+S000007616	ORF	Uncharacterized	YKL106C-A			chromosome 11		11	237266	237147	C		2011-02-03	2001-02-26	Putative protein of unknown function; identified by homology to uncharacterized proteins in other fungi
+S000037214	CDS					YKL106C-A		11	237266	237147	C		2011-02-03	2001-02-26	
+S000001589	ORF	Verified	YKL106W	AAT1	aspartate transaminase AAT1	chromosome 11	L000000009	11	237536	238891	W		2011-02-03	1996-07-31	Mitochondrial aspartate aminotransferase; catalyzes the conversion of oxaloacetate to aspartate in aspartate and asparagine biosynthesis
+S000031616	CDS					YKL106W		11	237536	238891	W		2011-02-03	1996-07-31	
+S000001588	ORF	Verified	YKL105C	SEG2		chromosome 11		11	242583	239185	C		2011-02-03	1996-07-31	Eisosome component; likely plays only a minor role in eisosome assembly; shown to interact with Seg1p by affinity purification and mass spec; SWAT-GFP and mCherry fusion proteins localize to the cell periphery; similar to A. gossypii SEG gene which is important for stabilizing eisosomes; SEG2 has a paralog, SEG1, that arose from the whole genome duplication
+S000031413	CDS					YKL105C		11	242583	239185	C		2011-02-03	1996-07-31	
+S000001587	ORF	Verified	YKL104C	GFA1	glutamine--fructose-6-phosphate transaminase (isomerizing) GFA1	chromosome 11	L000000702	11	245373	243220	C		2011-02-03	1996-07-31	Glutamine-fructose-6-phosphate amidotransferase; catalyzes the formation of glucosamine-6-P and glutamate from fructose-6-P and glutamine in the first step of chitin biosynthesis; GFA1 has a paralogous region, comprising ORFs YMR084W-YMR085W, that arose from the whole genome duplication
+S000030506	CDS					YKL104C		11	245373	243220	C		2011-02-03	1996-07-31	
+S000001586	ORF	Verified	YKL103C	APE1	metalloaminopeptidase APE1|LAP4|API|YSC1	chromosome 11	L000000930	11	247682	246138	C	-138	2011-02-03	1996-07-31	Vacuolar aminopeptidase yscI; zinc metalloproteinase that belongs to the peptidase family M18; often used as a marker protein in studies of autophagy and cytosol to vacuole targeting (CVT) pathway; protein increases in abundance and relative distribution to cytoplasmic foci increases upon DNA replication stress
+S000030363	CDS					YKL103C		11	247682	246138	C		2011-02-03	1996-07-31	
+S000001585	ORF	Dubious	YKL102C			chromosome 11		11	248367	248062	C		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; deletion confers sensitivity to citric acid; predicted protein would include a thiol-disulfide oxidoreductase active site
+S000030203	CDS					YKL102C		11	248367	248062	C		2011-02-03	1996-07-31	
+S000001584	ORF	Verified	YKL101W	HSL1	protein kinase HSL1|ELM2|NIK1	chromosome 11	L000003129|L000002839	11	248920	253476	W		2011-02-03	1996-07-31|2011-02-03	Nim1p-related protein kinase; septin-binding kinase that localizes to the bud neck septin ring and regulates the morphogenesis checkpoint; phosphorylates Hsl7p and cooperates with Elm1p to recruit Hsl7p to the mother-bud neck, as a prerequisite for the subsequent recruitment, phosphorylation, and degradation of Swe1p; autophosphorylation enhances interactions with Hsl7p
+S000037537	CDS					YKL101W		11	248920	253476	W		2011-02-03	1996-07-31|2011-02-03	
+S000028840	ORF	Dubious	YKL100W-A			chromosome 11		11	254159	254248	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034525	CDS					YKL100W-A		11	254159	254248	W		2011-02-03	2003-07-29	
+S000001583	ORF	Verified	YKL100C	YPF1	aspartic endopeptidase	chromosome 11		11	255460	253697	C		2011-02-03	1996-07-31	Intramembrane aspartyl protease of the perinuclear ER membrane; acts in a branch of ER-associated degradation (ERAD) that degrades functional proteins rather than misfolded proteins; regulates abundance of high-affinity plasma membrane transporters, such as Ctr1p and Zrt1p, during the starvation response; has a presenilin fold; member of the GxGD family of intramembrane proteases; closest human homolog is signal peptide peptidase (SPP)
+S000037360	CDS					YKL100C		11	255460	253697	C		2011-02-03	1996-07-31	
+S000001582	ORF	Verified	YKL099C	UTP11	rRNA-processing protein UTP11	chromosome 11		11	256472	255720	C		2011-02-03	1996-07-31|2005-12-15	Subunit of U3-containing Small Subunit (SSU) processome complex; involved in production of 18S rRNA and assembly of small ribosomal subunit
+S000031999	CDS					YKL099C		11	256472	255720	C		2011-02-03	1996-07-31|2005-12-15	
+S000001581	ORF	Verified	YKL098W	MTC2		chromosome 11		11	256770	257843	W		2011-02-03	1996-07-31	Protein of unknown function; mtc2 is synthetically sick with cdc13-1
+S000031070	CDS					YKL098W		11	256770	257843	W		2011-02-03	1996-07-31	
+S000001580	ORF	Dubious	YKL097C			chromosome 11		11	258913	258503	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species
+S000030940	CDS					YKL097C		11	258913	258503	C		2011-02-03	1996-07-31	
+S000028667	ORF	Uncharacterized	YKL096C-B			chromosome 11		11	259222	259073	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032492	CDS					YKL096C-B		11	259222	259073	C		2011-02-03	2003-07-29	
+S000001956	ORF	Verified	YKL096W-A	CWP2	YKL097W-A|LPR1	chromosome 11	L000000952|L000002857	11	259253	259531	W		2011-02-03	1996-07-31	Covalently linked cell wall mannoprotein; major constituent of the cell wall; plays a role in stabilizing the cell wall; involved in low pH resistance; precursor is GPI-anchored
+S000037786	CDS					YKL096W-A		11	259253	259531	W		2011-02-03	1996-07-31	
+S000001579	ORF	Verified	YKL096W	CWP1	YJU1	chromosome 11	L000000446|L000002512	11	261132	261851	W		2011-02-03	1996-07-31	Cell wall mannoprotein that localizes to birth scars of daughter cells; linked to a beta-1,3- and beta-1,6-glucan heteropolymer through a phosphodiester bond; required for propionic acid resistance
+S000030917	CDS					YKL096W		11	261132	261851	W		2011-02-03	1996-07-31	
+S000001578	ORF	Verified	YKL095W	YJU2	mRNA splicing protein YJU2|CWC16	chromosome 11	L000002513	11	262277	263113	W		2011-02-03	1996-07-31	Essential protein required for pre-mRNA splicing; associates transiently with the spliceosomal NTC ("nineteen complex") and acts after Prp2p to promote the first catalytic reaction of splicing
+S000030823	CDS					YKL095W		11	262277	263113	W		2011-02-03	1996-07-31	
+S000001577	ORF	Verified	YKL094W	YJU3	acylglycerol lipase	chromosome 11	L000002514	11	263349	264290	W		2011-02-03	1996-07-31	Monoglyceride lipase (MGL); functional ortholog of mammalian MGL, localizes to lipid particles and membranes, also member of the eukaryotic serine hydrolase family
+S000037906	CDS					YKL094W		11	263349	264290	W		2011-02-03	1996-07-31	
+S000001576	ORF	Verified	YKL093W	MBR1		chromosome 11	L000001033	11	264789	265808	W		2011-02-03	1996-07-31	Protein involved in mitochondrial functions and stress response; overexpression suppresses growth defects of hap2, hap3, and hap4 mutants; MBR1 has a paralog, ISF1, that arose from the whole genome duplication
+S000037808	CDS					YKL093W		11	264789	265808	W		2011-02-03	1996-07-31	
+S000001575	ORF	Verified	YKL092C	BUD2	ERC25|CLA2	chromosome 11	L000000199	11	269459	266145	C		2011-02-03	1996-07-31	GTPase activating factor for Rsr1p/Bud1p; plays a role in spindle position checkpoint distinct from its role in bud site selection; required for both axial and bipolar budding patterns; mutants exhibit random budding in all cell types; contains two PH-like domains
+S000037705	CDS					YKL092C		11	269459	266145	C		2011-02-03	1996-07-31	
+S000001574	ORF	Verified	YKL091C		phosphatidylinositol/phosphatidylcholine-binding protein|SFH1	chromosome 11		11	270650	269718	C		2011-02-03	1996-07-31	Putative phosphatidylinositol/phosphatidylcholine transfer protein; possibly involved in lipid metabolism; localizes to the nucleus; contains a CRAL/TRIO domain and binds several lipids in a large-scale study; YKL091C has a paralog, SEC14, that arose from the whole genome duplication
+S000036936	CDS					YKL091C		11	270650	269718	C		2011-02-03	1996-07-31	
+S000001573	ORF	Verified	YKL090W	CUE2		chromosome 11		11	271878	273209	W		2011-02-03	1996-07-31	Protein of unknown function; has two CUE domains that bind ubiquitin, which may facilitate intramolecular monoubiquitination
+S000036908	CDS					YKL090W		11	271878	273209	W		2011-02-03	1996-07-31	
+S000001572	ORF	Verified	YKL089W	MIF2		chromosome 11	L000001109	11	273394	275043	W	-43	2011-02-03	1996-07-31	Protein required for structural integrity of elongating spindles; localizes to the kinetochore; interacts with histones H2A, H2B, and H4; phosphorylated by Ipl1p; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-C and fission yeast cnp3
+S000036033	CDS					YKL089W		11	273394	275043	W		2011-02-03	1996-07-31	
+S000001571	ORF	Verified	YKL088W	CAB3	phosphopantothenoylcysteine decarboxylase complex subunit CAB3	chromosome 11		11	275283	276998	W		2011-02-03	1996-07-31	Subunit of PPCDC and CoA-SPC complexes involved in CoA biosynthesis; subunits of the phosphopantothenoylcysteine decarboxylase (PPCDC) complex are: Cab3p, Sis2p, Vhs3p, while the subunits of the CoA-synthesizing protein complex (CoA-SPC) are: Cab2p, Cab3p, Cab4p, and Cab5p as well as Sis2p and Vhs3p; null mutant lethality is complemented by E. coli coaBC
+S000035891	CDS					YKL088W		11	275283	276998	W		2011-02-03	1996-07-31	
+S000001570	ORF	Verified	YKL087C	CYT2	cytochrome c1 heme lyase CYT2|CC1HL	chromosome 11	L000000473	11	277863	277189	C		2011-02-03	1996-07-31	Cytochrome c1 heme lyase; involved in maturation of cytochrome c1, which is a subunit of the mitochondrial ubiquinol-cytochrome-c reductase; links heme covalently to apocytochrome c1; human homolog HCCS can complement yeast cyt2 null mutant
+S000034890	CDS					YKL087C		11	277863	277189	C		2011-02-03	1996-07-31	
+S000001569	ORF	Verified	YKL086W	SRX1	sulfiredoxin	chromosome 11		11	278281	278664	W		2011-02-03	1996-07-31	Sulfiredoxin; contributes to oxidative stress resistance by reducing cysteine-sulfinic acid groups in the peroxiredoxin Tsa1p, which is formed upon exposure to oxidants; conserved in higher eukaryotes; protein abundance increases in response to DNA replication stress
+S000034838	CDS					YKL086W		11	278281	278664	W		2011-02-03	1996-07-31	
+S000001568	ORF	Verified	YKL085W	MDH1	malate dehydrogenase MDH1	chromosome 11	L000001045	11	279123	280127	W		2011-02-03	1996-07-31	Mitochondrial malate dehydrogenase; catalyzes interconversion of malate and oxaloacetate; involved in the tricarboxylic acid (TCA) cycle; phosphorylated
+S000034670	CDS					YKL085W		11	279123	280127	W		2011-02-03	1996-07-31	
+S000001567	ORF	Verified	YKL084W	HOT13		chromosome 11		11	280509	280859	W		2011-02-03	1996-07-31	Zinc-binding mitochondrial intermembrane space (IMS) protein; involved in a disulfide relay system for IMS import of cysteine-containing proteins; binds Mia40p and stimulates its Erv1p-dependent oxidation, probably by sequestering zinc
+S000033808	CDS					YKL084W		11	280509	280859	W		2011-02-03	1996-07-31	
+S000001566	ORF	Dubious	YKL083W			chromosome 11		11	280921	281535	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified essential gene RRP14
+S000033660	CDS					YKL083W		11	280921	281535	W		2011-02-03	1996-07-31	
+S000001565	ORF	Verified	YKL082C	RRP14	ribosome biosynthesis protein RRP14	chromosome 11		11	282329	281025	C		2011-02-03	1996-07-31	Essential protein, constituent of 66S pre-ribosomal particles; interacts with proteins involved in ribosomal biogenesis and cell polarity; member of the SURF-6 family
+S000033529	CDS					YKL082C		11	282329	281025	C		2011-02-03	1996-07-31	
+S000001564	ORF	Verified	YKL081W	TEF4	translation elongation factor EF1B gamma|EFC1	chromosome 11	L000002280	11	282891	284455	W		2011-02-03	1996-07-31	Gamma subunit of translational elongation factor eEF1B; stimulates the binding of aminoacyl-tRNA (AA-tRNA) to ribosomes by releasing eEF1A (Tef1p/Tef2p) from the ribosomal complex
+S000033487	CDS					YKL081W		11	282891	283095	W		2011-02-03	1996-07-31	
+S000033488	CDS					YKL081W		11	283422	284455	W		2011-02-03	1996-07-31	
+S000033489	intron					YKL081W		11	283096	283421	W		2011-02-03	1996-07-31	
+S000007301	snoRNA_gene		snR38	SNR38		chromosome 11	L000003053	11	283185	283279	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position G2815
+S000036768	noncoding_exon					snR38		11	283185	283279	W		2011-02-03	2000-05-19	
+S000001563	ORF	Verified	YKL080W	VMA5	H(+)-transporting V1 sector ATPase subunit C|VAT3|CSL5	chromosome 11	L000002460	11	285030	286208	W		2011-02-03	1996-07-31	Subunit C of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; required for the V1 domain to assemble onto the vacuolar membrane; the V1 peripheral membrane domain of vacuolar H+-ATPase (V-ATPase) has eight subunits
+S000032748	CDS					YKL080W		11	285030	286208	W		2011-02-03	1996-07-31	
+S000001562	ORF	Verified	YKL079W	SMY1		chromosome 11	L000001940	11	286603	288573	W		2011-02-03	1996-07-31	Kinesin-like myosin passenger-protein; interacts with Myo2p and enhances its interaction with Sec4p during transport of secretory vesicles; controls actin cable structure and dynamics
+S000031903	CDS					YKL079W		11	286603	288573	W		2011-02-03	1996-07-31	
+S000001561	ORF	Verified	YKL078W	DHR2	RNA helicase	chromosome 11		11	288845	291052	W		2011-02-03	1996-07-31	Predominantly nucleolar DEAH-box ATP-dependent RNA helicase; required for 18S rRNA synthesis
+S000031760	CDS					YKL078W		11	288845	291052	W		2011-02-03	1996-07-31	
+S000001560	ORF	Uncharacterized	YKL077W			chromosome 11		11	291453	292631	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole
+S000031669	CDS					YKL077W		11	291453	292631	W		2011-02-03	1996-07-31	
+S000001559	ORF	Dubious	YKL076C	PSY1		chromosome 11		11	293221	292838	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 69% of ORF overlaps the uncharacterized ORF YKL075C
+S000031531	CDS					YKL076C		11	293221	292838	C		2011-02-03	1996-07-31	
+S000001558	ORF	Uncharacterized	YKL075C			chromosome 11		11	294308	292956	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; proposed to be involved in resistance to streptozotocin and camptothecin
+S000030667	CDS					YKL075C		11	294308	292956	C		2011-02-03	1996-07-31	
+S000001557	ORF	Verified	YKL074C	MUD2		chromosome 11	L000002794	11	296193	294610	C		2011-02-03	1996-07-31	Protein involved in early pre-mRNA splicing; component of the pre-mRNA-U1 snRNP complex, the commitment complex; interacts with Msl5p/BBP splicing factor and Sub2p; similar to metazoan splicing factor U2AF65
+S000030581	CDS					YKL074C		11	296193	294610	C		2011-02-03	1996-07-31	
+S000001556	ORF	Verified	YKL073W	LHS1	Hsp70 family chaperone LHS1|SSI1|CER1	chromosome 11	L000004102	11	296430	299075	W		2011-02-03	1996-07-31	Molecular chaperone of the endoplasmic reticulum lumen; involved in polypeptide translocation and folding; nucleotide exchange factor for the ER lumenal Hsp70 chaperone Kar2p; regulated by the unfolded protein response pathway
+S000030511	CDS					YKL073W		11	296430	299075	W		2011-02-03	1996-07-31	
+S000001555	ORF	Verified	YKL072W	STB6		chromosome 11	L000003369	11	299582	301882	W		2011-02-03	1996-07-31	Protein that binds Sin3p in a two-hybrid assay; STB6 has a paralog, STB2, that arose from the whole genome duplication
+S000030364	CDS					YKL072W		11	299582	301882	W		2011-02-03	1996-07-31	
+S000007052	long_terminal_repeat		YKLCdelta5			chromosome 11		11	302625	302334	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006774	tRNA_gene		tW(CCA)K			chromosome 11	L000003633	11	302918	303023	W		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
+S000033327	intron					tW(CCA)K		11	302954	302987	W		2011-02-03	2000-05-19	
+S000033325	noncoding_exon					tW(CCA)K		11	302918	302953	W		2011-02-03	2000-05-19	
+S000033326	noncoding_exon					tW(CCA)K		11	302988	303023	W		2011-02-03	2000-05-19	
+S000001554	ORF	Uncharacterized	YKL071W			chromosome 11		11	305114	305884	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression induced in cells treated with the mycotoxin patulin, and also the quinone methide triterpene celastrol; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000037597	CDS					YKL071W		11	305114	305884	W		2011-02-03	1996-07-31	
+S000001553	ORF	Uncharacterized	YKL070W			chromosome 11		11	306211	306720	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression induced in cells treated with mycotoxins patulin or citrinin; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000037452	CDS					YKL070W		11	306211	306720	W		2011-02-03	1996-07-31	
+S000001552	ORF	Verified	YKL069W		L-methionine (R)-S-oxide reductase|fRMsr|YKG9	chromosome 11		11	307285	307827	W		2011-02-03	1996-07-31	Methionine-R-sulfoxide reductase; reduces the R enantiomer of free Met-SO, in contrast to Ycl033Cp which reduces Met-R-SO in a peptide linkage; has a role in protection against oxidative stress; relative distribution to the nucleus increases upon DNA replication stress
+S000036847	CDS					YKL069W		11	307285	307827	W		2011-02-03	1996-07-31	
+S000006760	tRNA_gene		tV(AAC)K1			chromosome 11	L000003641	11	308217	308144	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000037869	noncoding_exon					tV(AAC)K1		11	308217	308144	C		2011-02-03	2000-05-19	
+S000028524	ORF	Uncharacterized	YKL068W-A			chromosome 11		11	309206	309442	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by homology to Ashbya gossypii
+S000030323	CDS					YKL068W-A		11	309206	309442	W		2011-02-03	2003-07-29	
+S000001551	ORF	Verified	YKL068W	NUP100	FG-nucleoporin NUP100|[NUP100+]|NSP100	chromosome 11	L000001292	11	310199	313078	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier and is involved in gene tethering at the nuclear periphery; NUP100 has a paralog, NUP116, that arose from the whole genome duplication
+S000036782	CDS					YKL068W		11	310199	313078	W		2011-02-03	1996-07-31	
+S000006598	tRNA_gene		tH(GUG)K			chromosome 11	L000003640	11	313472	313401	C		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
+S000033889	noncoding_exon					tH(GUG)K		11	313472	313401	C		2011-02-03	2000-05-19	
+S000007053	long_terminal_repeat		YKLCdelta6			chromosome 11		11	313919	313602	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007057	long_terminal_repeat		YKLWdelta7			chromosome 11		11	314193	314524	W		2011-02-03	2000-05-19	Ty1 LTR
+S000001550	ORF	Verified	YKL067W	YNK1	nucleoside diphosphate kinase|NDK1	chromosome 11	L000002536	11	314812	315273	W		2011-02-03	1996-07-31	Nucleoside diphosphate kinase; catalyzes the transfer of gamma phosphates from nucleoside triphosphates, usually ATP, to nucleoside diphosphates by a mechanism that involves formation of an autophosphorylated enzyme intermediate; protein abundance increases in response to DNA replication stress
+S000036722	CDS					YKL067W		11	314812	315273	W		2011-02-03	1996-07-31	
+S000001549	ORF	Dubious	YKL066W			chromosome 11		11	315281	315724	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified gene YNK1
+S000036665	CDS					YKL066W		11	315281	315724	W		2011-02-03	1996-07-31	
+S000113563	ORF	Uncharacterized	YKL065W-A			chromosome 11		11	315954	316175	W		2011-02-03	2005-11-17	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum (ER) while mCherry fusion localizes to both the ER and vacuole
+S000113565	CDS					YKL065W-A		11	315954	316175	W		2011-02-03	2005-11-17	
+S000001548	ORF	Verified	YKL065C	YET1		chromosome 11	L000003484	11	317057	316437	C		2011-02-03	1996-07-31|2011-02-03	Endoplasmic reticulum transmembrane protein; may interact with ribosomes, based on co-purification experiments; homolog of human BAP31 protein; YET1 has a paralog, YET2, that arose from the whole genome duplication
+S000035692	CDS					YKL065C		11	317057	316437	C		2011-02-03	1996-07-31|2011-02-03	
+S000001547	ORF	Verified	YKL064W	MNR2	putative Mg(2+) transporter MNR2	chromosome 11	L000003203	11	317764	320673	W		2011-02-03	1996-07-31	Vacuolar membrane protein required for magnesium homeostasis; putative magnesium transporter; has similarity to Alr1p and Alr2p, which mediate influx of Mg2+ and other divalent cations; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs)
+S000035630	CDS					YKL064W		11	317764	320673	W		2011-02-03	1996-07-31	
+S000001546	ORF	Uncharacterized	YKL063C			chromosome 11		11	321518	321015	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the Golgi
+S000035510	CDS					YKL063C		11	321518	321015	C		2011-02-03	1996-07-31	
+S000001545	ORF	Verified	YKL062W	MSN4	stress-responsive transcriptional activator MSN4	chromosome 11	L000001199	11	323228	325120	W		2011-02-03	1996-07-31	Stress-responsive transcriptional activator; activated in stochastic pulses of nuclear localization in response to various stress conditions; binds DNA at stress response elements of responsive genes, inducing gene expression; involved in diauxic shift
+S000034556	CDS					YKL062W		11	323228	325120	W		2011-02-03	1996-07-31	
+S000001544	ORF	Verified	YKL061W	BLI1		chromosome 11		11	325771	326112	W		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; interacts with Msb3p; green fluorescent protein (GFP)-fusion protein localizes to the endosome
+S000034423	CDS					YKL061W		11	325771	326112	W		2011-02-03	1996-07-31	
+S000001543	ORF	Verified	YKL060C	FBA1	fructose-bisphosphate aldolase FBA1|LOT1	chromosome 11	L000000604	11	327487	326408	C		2011-02-03	1996-07-31	Fructose 1,6-bisphosphate aldolase; required for glycolysis and gluconeogenesis; catalyzes conversion of fructose 1,6 bisphosphate to glyceraldehyde-3-P and dihydroxyacetone-P; locates to mitochondrial outer surface upon oxidative stress; N-terminally propionylated in vivo
+S000034296	CDS					YKL060C		11	327487	326408	C		2011-02-03	1996-07-31	
+S000001542	ORF	Verified	YKL059C	MPE1	cleavage polyadenylation factor subunit MPE1	chromosome 11		11	329443	328118	C		2011-02-03	1996-07-31	Essential conserved subunit of CPF cleavage and polyadenylation factor; plays a role in 3' end formation of mRNA via the specific cleavage and polyadenylation of pre-mRNA; contains a ubiquitin-like (UBL) domain, a RNA-binding zinc knuckle motif and a RING finger domain; both the zinc knuckle and RING finger are required for pre-mRNA binding; possible role in ubiquitination of Pap1p; relocalizes to the cytosol in response to hypoxia
+S000033369	CDS					YKL059C		11	329443	328118	C		2011-02-03	1996-07-31	
+S000118403	ARS		ARS1109		ARSXI-329	chromosome 11		11	329682	329930			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000001541	ORF	Verified	YKL058W	TOA2	transcription initiation factor IIA subunit gamma	chromosome 11	L000002317	11	330166	330534	W		2011-02-03	1996-07-31	TFIIA small subunit; involved in transcriptional activation, acts as antirepressor or as coactivator; required, along with Toa1p, for ribosomal protein gene transcription in vivo; homologous to smallest subunit of human and Drosophila TFIIA; protein abundance increases in response to DNA replication stress
+S000033347	CDS					YKL058W		11	330166	330534	W		2011-02-03	1996-07-31	
+S000001540	ORF	Verified	YKL057C	NUP120	RAT2	chromosome 11	L000003138	11	333969	330856	C		2011-02-03	1996-07-31	Subunit of the Nup84p subcomplex of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport and NPC biogenesis and is involved in establishment of a normal nucleocytoplasmic concentration gradient of the GTPase Gsp1p; also plays roles in several processes that may require localization of genes or chromosomes at the nuclear periphery, including double-strand break repair, transcription and chromatin silencing; homologous to human NUP160
+S000032581	CDS					YKL057C		11	333969	330856	C		2011-02-03	1996-07-31	
+S000001539	ORF	Verified	YKL056C	TMA19	MMI1|RBF18	chromosome 11		11	334915	334412	C		2011-02-03	1996-07-31	Protein that associates with ribosomes; homolog of translationally controlled tumor protein; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and relocates to the mitochondrial outer surface upon oxidative stress
+S000032498	CDS					YKL056C		11	334915	334412	C		2011-02-03	1996-07-31	
+S000001538	ORF	Verified	YKL055C	OAR1	3-oxoacyl-[acyl-carrier-protein] reductase (NADPH)	chromosome 11		11	336157	335321	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial 3-oxoacyl-[acyl-carrier-protein] reductase; may comprise a type II mitochondrial fatty acid synthase along with Mct1p; human homolog CBR4 complements yeast null mutant
+S000032402	CDS					YKL055C		11	336157	335321	C		2011-02-03	1996-07-31|2011-02-03	
+S000001537	ORF	Verified	YKL054C	DEF1	DNA damage-responsive RNA polymerase-degradation factor DEF1|VID31	chromosome 11		11	338753	336537	C		2011-02-03	1996-07-31	RNAPII degradation factor; forms a complex with Rad26p in chromatin, enables ubiquitination and proteolysis of RNAPII present in an elongation complex; mutant is deficient in Zip1p loading onto chromosomes during meiosis
+S000031390	CDS					YKL054C		11	338753	336537	C		2011-02-03	1996-07-31	
+S000007243	ORF	Verified	YKL053C-A	MDM35		chromosome 11		11	339442	339182	C		2011-02-03	1999-07-17	Mitochondrial intermembrane space protein; forms complex with Ups2p that transfers phosphatidylserine from outer membrane to inner membrane for phosphatidylethanolamine synthesis; mutation affects mitochondrial distribution and morphology; contains twin cysteine-x9-cysteine motifs; protein abundance increases in response to DNA replication stress
+S000032996	CDS					YKL053C-A		11	339442	339182	C		2011-02-03	1999-07-17	
+S000001536	ORF	Dubious	YKL053W			chromosome 11		11	339572	339946	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF ASK1
+S000031321	CDS					YKL053W		11	339572	339946	W		2011-02-03	1996-07-31	
+S000001535	ORF	Verified	YKL052C	ASK1		chromosome 11		11	340546	339668	C		2011-02-03	1996-07-31|2008-06-03	Essential subunit of the Dam1 complex (aka DASH complex); couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; phosphorylated during the cell cycle by cyclin-dependent kinases; sumoylated in an Mms21p-dependent manner; protein abundance increases in response to DNA replication stress
+S000031156	CDS					YKL052C		11	340546	339668	C		2011-02-03	1996-07-31|2008-06-03	
+S000001534	ORF	Verified	YKL051W	SFK1		chromosome 11		11	341312	342373	W		2011-02-03	1996-07-31	Plasma membrane protein that may act to generate normal levels of PI4P; may act together with or upstream of Stt4p; at least partially mediates proper localization of Stt4p to the plasma membrane
+S000031104	CDS					YKL051W		11	341312	342373	W		2011-02-03	1996-07-31	
+S000001533	ORF	Verified	YKL050C			chromosome 11		11	345620	342852	C		2011-02-03	1996-07-31	Protein of unknown function; the YKL050W protein is a target of the SCFCdc4 ubiquitin ligase complex and YKL050W transcription is regulated by Azf1p; YKL050C has a paralog, EIS1, that arose from the whole genome duplication
+S000030029	CDS					YKL050C		11	345620	342852	C		2011-02-03	1996-07-31	
+S000001532	ORF	Verified	YKL049C	CSE4	centromeric DNA-binding histone H3-like protein CSE4|CSL2	chromosome 11	L000002719	11	346764	346075	C		2011-02-03	2003-01-10|1996-07-31|2003-01-08	Histone H3-like centromere protein; associated with promoters, accessible chromatin, RNAPII-bound regions; phosphorylated Cse4p associates with centromeres; required for proper kinetochore function; levels regulated by E3 ubiquitin ligase Psh1p; phosphorylation may destabilize defective kinetochores to promote bi-orientation; ubiquitination of N-terminus regulates proteolysis for faithful chromosome segregation; yeast CSE4 can complement mutations in human homolog CENPA
+S000037076	CDS					YKL049C		11	346764	346075	C		2011-02-03	2003-01-10|1996-07-31|2003-01-08	
+S000001531	ORF	Verified	YKL048C	ELM1	serine/threonine protein kinase ELM1|LDB9	chromosome 11	L000000548	11	349136	347214	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; regulates the orientation checkpoint, the morphogenesis checkpoint and the metabolic switch from fermentative to oxidative metabolism by phosphorylating the activation loop of Kin4p, Hsl1p and Snf4p respectively; cooperates with Hsl7p in recruiting Hsl1p to the septin ring, a prerequisite for subsequent recruitment, phosphorylation, and degradation of Swe1p; forms part of the bud neck ring; regulates cytokinesis
+S000036436	CDS					YKL048C		11	349136	347214	C		2011-02-03	1996-07-31	
+S000001530	ORF	Verified	YKL047W	ANR2		chromosome 11	S000114863	11	349463	351013	W		2011-02-03	1996-07-31	Protein of unknown function; may have a role in lipid metabolism, based on localization to lipid droplets; predicted to be palmitoylated
+S000036411	CDS					YKL047W		11	349463	351013	W		2011-02-03	1996-07-31	
+S000001529	ORF	Verified	YKL046C	DCW1	putative mannan endo-1,6-alpha-mannosidase	chromosome 11		11	352624	351275	C		2011-02-03	1996-07-31	Putative mannosidase; GPI-anchored membrane protein required for cell wall biosynthesis in bud formation;homologous to Dfg5p
+S000036235	CDS					YKL046C		11	352624	351275	C		2011-02-03	1996-07-31	
+S000001528	ORF	Verified	YKL045W	PRI2	DNA primase subunit PRI2	chromosome 11	L000001490	11	353493	355079	W		2011-02-03	1996-07-31	Subunit of DNA primase; DNA primase is required for DNA synthesis and double-strand break repair
+S000036183	CDS					YKL045W		11	353493	355079	W		2011-02-03	1996-07-31	
+S000001527	ORF	Verified	YKL044W	MMO1		chromosome 11		11	356322	356642	W		2011-02-03	1996-07-31	Protein of unknown function; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the mitochondria; mRNA identified as translated by ribosome profiling data; MMO1 is a non-essential gene
+S000035237	CDS					YKL044W		11	356322	356642	W		2011-02-03	1996-07-31	
+S000001526	ORF	Verified	YKL043W	PHD1		chromosome 11	L000001417	11	356748	357848	W		2011-02-03	1996-07-31	Transcriptional activator that enhances pseudohyphal growth; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; regulates expression of FLO11, an adhesin required for pseudohyphal filament formation; similar to StuA, an A. nidulans developmental regulator; potential Cdc28p substrate; PHD1 has a paralog, SOK2, that arose from the whole genome duplication
+S000035082	CDS					YKL043W		11	356748	357848	W		2011-02-03	1996-07-31	
+S000001525	ORF	Verified	YKL042W	SPC42		chromosome 11	L000004148	11	358475	359566	W		2011-02-03	1996-07-31	Central plaque component of spindle pole body (SPB); involved in SPB duplication, may facilitate attachment of the SPB to the nuclear membrane
+S000034904	CDS					YKL042W		11	358475	359566	W		2011-02-03	1996-07-31	
+S000001524	ORF	Verified	YKL041W	VPS24	ESCRT-III subunit protein VPS24|VPL26|DID3	chromosome 11	L000004158	11	360143	360817	W		2011-02-03	1996-07-31	One of four subunits of the ESCRT-III complex; forms an endosomal sorting complex required for transport III (ESCRT-III) subcomplex with Did4p; involved in the sorting of transmembrane proteins into the multivesicular body (MVB) pathway
+S000034024	CDS					YKL041W		11	360143	360817	W		2011-02-03	1996-07-31	
+S000001523	ORF	Verified	YKL040C	NFU1	NUB1	chromosome 11	L000004771	11	361828	361058	C		2011-02-03	1996-07-31	Protein involved in Fe-S cluster transfer to mitochondrial clients; protects [4Fe-4S] clusters from damage due to oxidative stress; acts along with Bol3 at a late step in the transfer of [4Fe-4S] clusters from the ISA complex to client proteins; Fe-S loaded homodimer at steady state; similar to NifU, a bacterial protein required for Fe/S cluster maturation; ortholog of the human NFU1, mutations of which are associated with Multiple Mitochondria Dysfunctions Syndrome (MMDS1)
+S000033793	CDS					YKL040C		11	361828	361058	C		2011-02-03	1996-07-31	
+S000001522	ORF	Verified	YKL039W	PTM1		chromosome 11	L000001524	11	362622	364193	W		2011-02-03	1996-07-31|2005-12-15	Protein of unknown function; copurifies with late Golgi vesicles containing the v-SNARE Tlg2p; PTM1 has a paralog, YHL017W, that arose from the whole genome duplication
+S000035013	CDS					YKL039W		11	362622	364193	W		2011-02-03	1996-07-31|2005-12-15	
+S000006460	snoRNA_gene		snR69	SNR69		chromosome 11	L000004538	11	364776	364876	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C2948
+S000030857	noncoding_exon					snR69		11	364776	364876	W		2011-02-03	2000-05-19	
+S000001521	ORF	Verified	YKL038W	RGT1		chromosome 11	L000003482	11	365605	369117	W		2011-02-03	1996-07-31	Glucose-responsive transcription factor; regulates expression of several glucose transporter (HXT) genes in response to glucose; binds to promoters and acts both as a transcriptional activator and repressor; recruits Tup1p/Cyc8p to target gene promoters; RGT1 has a paralog, EDS1, that arose from the whole genome duplication
+S000034833	CDS					YKL038W		11	365605	369117	W		2011-02-03	1996-07-31	
+S000001520	ORF	Verified	YKL037W	AIM26		chromosome 11		11	369365	369721	W		2011-02-03	1996-07-31	Protein of unknown function; null mutant is viable and displays elevated frequency of mitochondrial genome loss; null mutation confers sensitivity to tunicamycin and DTT
+S000032888	CDS					YKL037W		11	369365	369721	W		2011-02-03	1996-07-31	
+S000001518	ORF	Verified	YKL035W	UGP1	UTP glucose-1-phosphate uridylyltransferase	chromosome 11	L000003118	11	369891	371390	W		2011-02-03	1996-07-31	UDP-glucose pyrophosphorylase (UGPase); catalyses the reversible formation of UDP-Glc from glucose 1-phosphate and UTP, involved in a wide variety of metabolic pathways, expression modulated by Pho85p through Pho4p; involved in PKA-mediated oxidative stress resistance and long-term survival in stationary phase; UGP1 has a paralog, YHL012W, that arose from the whole genome duplication
+S000032697	CDS					YKL035W		11	369891	371390	W		2011-02-03	1996-07-31	
+S000001519	ORF	Dubious	YKL036C			chromosome 11		11	369920	369528	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the essential gene UGP1 gene and uncharacterized ORF YKL037W
+S000032729	CDS					YKL036C		11	369920	369528	C		2011-02-03	1996-07-31	
+S000001517	ORF	Verified	YKL034W	TUL1	ubiquitin-protein ligase TUL1	chromosome 11		11	371829	374105	W		2011-02-03	1996-07-31	Subunit of the DSC ubiquitin ligase complex; golgi-localized RING-finger ubiquitin ligase (E3) involved in sorting polar transmembrane domain containing membrane proteins to multivesicular bodies for delivery to the vacuole; proposed involvement in the quality control of misfolded TMD containing proteins; ortholog of fission yeast dsc1
+S000032625	CDS					YKL034W		11	371829	374105	W		2011-02-03	1996-07-31	
+S000007242	ORF	Uncharacterized	YKL033W-A		putative hydrolase	chromosome 11		11	374505	375215	W		2011-02-03	2004-02-13|1999-07-17	Putative protein of unknown function; similar to uncharacterized proteins from other fungi
+S000036238	CDS					YKL033W-A		11	374505	375215	W		2011-02-03	2004-02-13|1999-07-17	
+S000001516	ORF	Verified	YKL033W	TTI1	FMP47	chromosome 11		11	375456	378572	W		2011-02-03	1996-07-31	Subunit of the ASTRA complex, involved in chromatin remodeling; telomere length regulator involved in the stability or biogenesis of PIKKs such as TORC1; similar to S. pombe Tti1p; detected in highly purified mitochondria in high-throughput studies
+S000031614	CDS					YKL033W		11	375456	378572	W		2011-02-03	1996-07-31	
+S000006761	tRNA_gene		tV(AAC)K2			chromosome 11	L000003634	11	379680	379753	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000037883	noncoding_exon					tV(AAC)K2		11	379680	379753	W		2011-02-03	2000-05-19	
+S000001515	ORF	Verified	YKL032C	IXR1	DNA-binding transcription repressor IXR1|ORD1	chromosome 11	L000000881	11	381858	380065	C		2011-02-03	1996-07-31	Transcriptional repressor that regulates hypoxic genes during normoxia; involved in the aerobic repression of genes such as COX5b, TIR1, and HEM13; binds DNA intrastrand cross-links formed by cisplatin; HMG (high mobility group box) domain containing protein which binds and bends cisplatin-modified DNA, blocking excision repair; IXR1 has a paralog, ABF2, that arose from the whole genome duplication
+S000031407	CDS					YKL032C		11	381858	380065	C		2011-02-03	1996-07-31	
+S000001514	ORF	Dubious	YKL031W			chromosome 11		11	382072	382485	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species
+S000031365	CDS					YKL031W		11	382072	382485	W		2011-02-03	1996-07-31	
+S000001513	ORF	Dubious	YKL030W			chromosome 11		11	382498	383103	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; partially overlaps the verified gene MAE1
+S000030446	CDS					YKL030W		11	382498	383103	W		2011-02-03	1996-07-31	
+S000001512	ORF	Verified	YKL029C	MAE1	malate dehydrogenase (oxaloacetate-decarboxylating)	chromosome 11	L000003506	11	384725	382716	C		2011-02-03	1996-07-31	Mitochondrial malic enzyme; catalyzes the oxidative decarboxylation of malate to pyruvate, which is a key intermediate in sugar metabolism and a precursor for synthesis of several amino acids
+S000030570	CDS					YKL029C		11	384725	382716	C		2011-02-03	1996-07-31	
+S000001511	ORF	Verified	YKL028W	TFA1	transcription factor TFIIE subunit TFA1	chromosome 11	L000002595	11	385758	387206	W		2011-02-03	1996-07-31	TFIIE large subunit; involved in recruitment of RNA polymerase II to the promoter, activation of TFIIH, and promoter opening
+S000036771	CDS					YKL028W		11	385758	387206	W		2011-02-03	1996-07-31	
+S000001510	ORF	Verified	YKL027W	TCD2	tRNA threonylcarbamoyladenosine dehydratase	chromosome 11		11	387562	388905	W		2011-02-03	1996-07-31	tRNA threonylcarbamoyladenosine dehydratase; required for the ct6A tRNA base modification, where an adenosine at position 37 is modified to form a cyclized active ester with an oxazolone ring; localized to the mitochondrial outer membrane; TCD2 has a paralog, TCD1, that arose from the whole genome duplication
+S000036685	CDS					YKL027W		11	387562	388905	W		2011-02-03	1996-07-31	
+S000118404	ARS		ARS1112		ARSXI-389	chromosome 11		11	388970	389264			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000001509	ORF	Verified	YKL026C	GPX1	glutathione peroxidase GPX1	chromosome 11		11	389883	389380	C		2011-02-03	1996-07-31	Phospholipid hydroperoxide glutathione peroxidase; induced by glucose starvation that protects cells from phospholipid hydroperoxides and nonphospholipid peroxides during oxidative stress; GPX1 has a paralog, HYR1, that arose from the whole genome duplication
+S000036560	CDS					YKL026C		11	389883	389380	C		2011-02-03	1996-07-31	
+S000001508	ORF	Verified	YKL025C	PAN3	ECM35	chromosome 11	L000003340	11	392279	390240	C		2011-02-03	1996-07-31	Essential subunit of the Pan2p-Pan3p poly(A)-ribonuclease complex; poly (A) mRNA binding subunit which recruits mRNA to the complex; the Pan2p-Pan3p complex controls poly(A) tail length and regulates the stoichiometry and activity of postreplication repair complexes
+S000035620	CDS					YKL025C		11	392279	390240	C		2011-02-03	1996-07-31	
+S000001507	ORF	Verified	YKL024C	URA6	bifunctional uridylate/adenylate kinase|SOC8	chromosome 11	L000002435	11	393140	392526	C	18	2011-02-03	1996-07-31	Uridylate kinase; catalyzes the seventh enzymatic step in the de novo biosynthesis of pyrimidines, converting uridine monophosphate (UMP) into uridine-5'-diphosphate (UDP)
+S000035543	CDS					YKL024C		11	393140	392526	C		2011-02-03	1996-07-31	
+S000113559	ORF	Uncharacterized	YKL023C-A			chromosome 11		11	393373	393146	C		2011-02-03	2005-11-17	Putative protein of unknown function
+S000113560	CDS					YKL023C-A		11	393373	393146	C		2011-02-03	2005-11-17	
+S000001506	ORF	Uncharacterized	YKL023W			chromosome 11		11	393721	394554	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; predicted by computational methods to be involved in mRNA degradation; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000035506	CDS					YKL023W		11	393721	394554	W		2011-02-03	1996-07-31|2011-02-03	
+S000001505	ORF	Verified	YKL022C	CDC16	anaphase promoting complex subunit CDC16	chromosome 11	L000000256	11	397248	394726	C	-15	2011-02-03	1996-07-31	Subunit of the anaphase-promoting complex/cyclosome (APC/C); which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; required for sporulation; relocalizes to the cytosol in response to hypoxia
+S000034410	CDS					YKL022C		11	397248	394726	C		2011-02-03	1996-07-31	
+S000001504	ORF	Verified	YKL021C	MAK11		chromosome 11	L000000984	11	398750	397344	C	-16	2011-02-03	1996-07-31	Protein involved in an early step of 60S ribosomal subunit biogenesis; essential for cell growth and replication of killer M1 dsRNA virus; contains four beta-transducin repeats
+S000034298	CDS					YKL021C		11	398750	397344	C		2011-02-03	1996-07-31	
+S000001503	ORF	Verified	YKL020C	SPT23		chromosome 11	L000002041	11	402080	398832	C		2011-02-03	1996-07-31	ER membrane protein involved in regulation of OLE1 transcription; inactive ER form dimerizes and one subunit is then activated by ubiquitin/proteasome-dependent processing followed by nuclear targeting; SPT23 has a paralog, MGA2, that arose from the whole genome duplication
+S000034167	CDS					YKL020C		11	402080	398832	C		2011-02-03	1996-07-31	
+S000001502	ORF	Verified	YKL019W	RAM2	bifunctional protein farnesyltransferase/protein geranylgeranyltransferase	chromosome 11	L000001580	11	402568	403518	W		2011-02-03	1996-07-31	Alpha subunit of farnesyltransferase and geranylgeranyltransferase-I; farnesyltransferase (Ram2p-Ram1p heterodimer) catalyzes the addition of 15-carbon isoprenoid farnesyl to substrate proteins containing a CAAX consensus motif; type I geranylgeranyltransferase (Ram2p-Cdc43p heterodimer) catalyzes the addition of the 20-carbon isoprenoid geranylgeranyl to substrate proteins containing a CaaL consensus motif; required for membrane localization of Ras proteins and a-factor
+S000034702	CDS					YKL019W		11	402568	403518	W		2011-02-03	1996-07-31	
+S000007615	ORF	Uncharacterized	YKL018C-A			chromosome 11		11	403879	403580	C		2011-02-03	2001-02-26	Putative protein of unknown function; identified by homology; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000037213	CDS					YKL018C-A		11	403879	403580	C		2011-02-03	2001-02-26	
+S000001501	ORF	Verified	YKL018W	SWD2	WD-repeat containing protein SWD2|SAF37|CPS35	chromosome 11		11	404102	405091	W		2011-02-03	1996-07-31	Subunit of the COMPASS (Set1C) histone H3K4 methyltransferase complex; required for Set1C stability and optimal activity; COMPASS methylates histone H3 on lys 4 and is involved in telomeric silencing; subunit of CPF (cleavage and polyadenylation factor), a complex involved in RNAP II transcription termination
+S000034635	CDS					YKL018W		11	404102	405091	W		2011-02-03	1996-07-31	
+S000001500	ORF	Verified	YKL017C	HCS1	ATP-dependent 5'-3' DNA helicase HCS1|DIP1	chromosome 11	L000003087|L000004272	11	407241	405190	C		2011-02-03	1996-07-31	Hexameric DNA polymerase alpha-associated DNA helicase A; involved in lagging strand DNA synthesis; contains single-stranded DNA stimulated ATPase and dATPase activities; replication protein A stimulates helicase and ATPase activities
+S000034495	CDS					YKL017C		11	407241	405190	C		2011-02-03	1996-07-31	
+S000001499	ORF	Verified	YKL016C	ATP7	F1F0 ATP synthase subunit d	chromosome 11	L000000146	11	407989	407465	C		2011-02-03	1996-07-31	Subunit d of the stator stalk of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis
+S000032473	CDS					YKL016C		11	407989	407465	C		2011-02-03	1996-07-31	
+S000001498	ORF	Verified	YKL015W	PUT3		chromosome 11	L000001537|L000001528	11	408544	411483	W	-5	2011-02-03	1996-07-31	Transcriptional activator; binds specific gene recruitment sequences and is required for DNA zip code-mediated targeting of genes to nuclear periphery; regulates proline utilization genes, constitutively binds PUT1 and PUT2 promoters as a dimer, undergoes conformational change to form active state; binds other promoters only under activating conditions; differentially phosphorylated in presence of different nitrogen sources; has a Zn(2)-Cys(6) binuclear cluster domain
+S000032428	CDS					YKL015W		11	408544	411483	W		2011-02-03	1996-07-31	
+S000001497	ORF	Verified	YKL014C	URB1	NPA1	chromosome 11		11	416913	411619	C		2011-02-03	1996-07-31	Protein required for the normal accumulation of 25S and 5.8S rRNAs; nucleolar protein; associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit
+S000032267	CDS					YKL014C		11	416913	411619	C		2011-02-03	1996-07-31	
+S000118405	ARS		ARS1113		ARSXI-417	chromosome 11		11	417185	417417			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000001496	ORF	Verified	YKL013C	ARC19		chromosome 11	L000004034	11	418023	417508	C		2011-02-03	1996-07-31	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches; mutation is functionally complemented by human ARPC4
+S000031281	CDS					YKL013C		11	418023	417508	C		2011-02-03	1996-07-31	
+S000001495	ORF	Verified	YKL012W	PRP40		chromosome 11	L000003078	11	418310	420061	W		2011-02-03	1996-07-31	U1 snRNP protein involved in splicing; interacts with the branchpoint-binding protein during the formation of the second commitment complex
+S000031220	CDS					YKL012W		11	418310	420061	W		2011-02-03	1996-07-31	
+S000001494	ORF	Verified	YKL011C	CCE1	cruciform cutting endonuclease|MGT1	chromosome 11	L000000236	11	421216	420155	C	-2	2011-02-03	1996-07-31	Mitochondrial cruciform cutting endonuclease; cleaves Holliday junctions formed during recombination of mitochondrial DNA; CCE1 has a paralog, MRS1, that arose from the whole genome duplication
+S000031036	CDS					YKL011C		11	421216	420155	C		2011-02-03	1996-07-31	
+S000001493	ORF	Verified	YKL010C	UFD4	putative ubiquitin-protein ligase UFD4	chromosome 11	L000003509	11	425875	421424	C		2011-02-03	1996-07-31	Ubiquitin-protein ligase (E3); interacts with Rpt4p and Rpt6p, two subunits of the 19S particle of the 26S proteasome; cytoplasmic E3 involved in the degradation of ubiquitin fusion proteins; relative distribution to the nucleus increases upon DNA replication stress
+S000030049	CDS					YKL010C		11	425875	421424	C		2011-02-03	1996-07-31	
+S000001492	ORF	Verified	YKL009W	MRT4		chromosome 11	L000004450	11	426242	426952	W		2011-02-03	1996-07-31	Protein involved in mRNA turnover and ribosome assembly; required at post-transcriptional step for efficient retrotransposition; localizes to the nucleolus
+S000030485	CDS					YKL009W		11	426242	426952	W		2011-02-03	1996-07-31	
+S000001491	ORF	Verified	YKL008C	LAC1	sphingosine N-acyltransferase LAC1|DGT1	chromosome 11		11	428551	427295	C		2011-02-03	1996-07-31	Ceramide synthase component; involved in synthesis of ceramide from C26(acyl)-coenzyme A and dihydrosphingosine or phytosphingosine, functionally equivalent to Lag1p; LAC1 has a paralog, LAG1, that arose from the whole genome duplication
+S000030290	CDS					YKL008C		11	428551	427295	C		2011-02-03	1996-07-31	
+S000001490	ORF	Verified	YKL007W	CAP1		chromosome 11	L000000214	11	429302	430108	W	-2	2011-02-03	1996-07-31	Alpha subunit of the capping protein heterodimer (Cap1p and Cap2p); capping protein (CP) binds to the barbed ends of actin filaments preventing further polymerization; localized predominantly to cortical actin patches; protein increases in abundance and relocalizes from bud neck to plasma membrane upon DNA replication stress
+S000030183	CDS					YKL007W		11	429302	430108	W		2011-02-03	1996-07-31	
+S000002101	ORF	Verified	YKL006C-A	SFT1		chromosome 11	L000002949	11	430632	430198	C		2011-02-03	1996-07-31	Intra-Golgi v-SNARE; required for transport of proteins between an early and a later Golgi compartment
+S000037319	CDS					YKL006C-A		11	430455	430198	C		2011-02-03	1996-07-31	
+S000037318	CDS					YKL006C-A		11	430632	430597	C		2011-02-03	1996-07-31	
+S000037320	intron					YKL006C-A		11	430596	430456	C		2011-02-03	1996-07-31	
+S000114301	snoRNA_gene		snR87	SNR87		chromosome 11		11	431138	431030	C		2011-02-03	2006-03-02	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position A436
+S000114518	noncoding_exon					snR87		11	431138	431030	C		2011-02-03	2006-03-02	
+S000001489	ORF	Verified	YKL006W	RPL14A	eL14|ribosomal 60S subunit protein L14A|L14e|L14A	chromosome 11	L000002706	11	431906	432720	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L14A; N-terminally acetylated; homologous to mammalian ribosomal protein L14, no bacterial homolog; RPL14A has a paralog, RPL14B, that arose from the whole genome duplication
+S000030075	CDS					YKL006W		11	431906	432034	W		2011-02-03	1996-07-31	
+S000030076	CDS					YKL006W		11	432433	432720	W		2011-02-03	1996-07-31	
+S000030077	intron					YKL006W		11	432035	432432	W		2011-02-03	1996-07-31	
+S000001488	ORF	Verified	YKL005C	BYE1		chromosome 11		11	434877	433093	C		2011-02-03	1996-07-31	Negative regulator of transcription elongation; contains a TFIIS-like domain that associates with chromatin and a PHD domain that interacts with H3K4me3; multicopy suppressor of temperature-sensitive ess1 mutations, binds RNA polymerase II large subunit
+S000036319	CDS					YKL005C		11	434877	433093	C		2011-02-03	1996-07-31	
+S000001487	ORF	Verified	YKL004W	AUR1	inositol phosphorylceramide synthase	chromosome 11	L000002767	11	435580	436785	W		2011-02-03	1996-07-31	Phosphatidylinositol:ceramide phosphoinositol transferase; required for sphingolipid synthesis; can mutate to confer aureobasidin A resistance; also known as IPC synthase
+S000036280	CDS					YKL004W		11	435580	436785	W		2011-02-03	1996-07-31	
+S000001486	ORF	Verified	YKL003C	MRP17	mitochondrial 37S ribosomal protein YmS16	chromosome 11	L000002616	11	437492	437097	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; MRP17 exhibits genetic interactions with PET122, encoding a COX3-specific translational activator
+S000036065	CDS					YKL003C		11	437492	437097	C		2011-02-03	1996-07-31	
+S000001485	ORF	Verified	YKL002W	DID4	ESCRT-III subunit protein DID4|VPS14|CHM2|VPS2|VPT14|VPL2|REN1|GRD7	chromosome 11	L000002955	11	437778	438544	W		2011-02-03	2000-07-22|1996-07-31	Class E Vps protein of the ESCRT-III complex; required for sorting of integral membrane proteins into lumenal vesicles of multivesicular bodies, and for delivery of newly synthesized vacuolar enzymes to the vacuole, involved in endocytosis
+S000035271	CDS					YKL002W		11	437778	437837	W		2011-02-03	2000-07-22|1996-07-31	
+S000035272	CDS					YKL002W		11	437906	438544	W		2011-02-03	2000-07-22	
+S000035273	intron					YKL002W		11	437838	437905	W		2011-02-03	2000-07-22	
+S000001484	ORF	Verified	YKL001C	MET14	adenylyl-sulfate kinase	chromosome 11	L000001086	11	439385	438777	C	.8	2011-02-03	1996-07-31	Adenylylsulfate kinase; required for sulfate assimilation and involved in methionine metabolism; human homolog PAPSS2 complements yeast null mutant
+S000034979	CDS					YKL001C		11	439385	438777	C		2011-02-03	1996-07-31	
+S000006472	centromere		CEN11	CEN11		chromosome 11	L000000304	11	440246	440129	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome XI centromere
+S000077299	centromere_DNA_Element_I					CEN11		11	440246	440237	C		2011-02-03	2004-10-08	
+S000077300	centromere_DNA_Element_II					CEN11		11	440236	440154	C		2011-02-03	2004-10-08	
+S000077301	centromere_DNA_Element_III					CEN11		11	440153	440129	C		2011-02-03	2004-10-08	
+S000001709	ORF	Verified	YKR001C	VPS1	dynamin-like GTPase VPS1|VPT26|VPL1|SPO15|LAM1|GRD1	chromosome 11	L000002006	11	442722	440608	C	-1	2011-02-03	1996-07-31	Dynamin-like GTPase required for vacuolar sorting; also involved in actin cytoskeleton organization, endocytosis, late Golgi-retention of some proteins, regulation of peroxisome biogenesis
+S000030382	CDS					YKR001C		11	442722	440608	C		2011-02-03	1996-07-31	
+S000001710	ORF	Verified	YKR002W	PAP1	polynucleotide adenylyltransferase PAP1	chromosome 11	L000001336	11	443232	444938	W	-1	2011-02-03	1996-07-31	Poly(A) polymerase; one of three factors required for mRNA 3'-end polyadenylation, forms multiprotein complex with polyadenylation factor I (PF I), also required for mRNA nuclear export; may also polyadenylate rRNAs; required for gene looping
+S000033778	CDS					YKR002W		11	443232	444938	W		2011-02-03	1996-07-31	
+S000001711	ORF	Verified	YKR003W	OSH6	oxysterol-binding protein OSH6	chromosome 11		11	445381	446727	W		2011-02-03	1996-07-31	Member of an oxysterol-binding protein family; family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability; GFP-fusion protein localizes to the cell periphery; overexpression extends lifespan by promoting vacuolar fusion; OSH6 has a paralog, OSH7, that arose from the whole genome duplication
+S000033901	CDS					YKR003W		11	445381	446727	W		2011-02-03	1996-07-31	
+S000118406	ARS		ARS1114		ARSXI-448	chromosome 11		11	448020	448254			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000001712	ORF	Verified	YKR004C	ECM9	YKR004C-A	chromosome 11	L000003884	11	448036	446799	C		2011-02-03	2003-09-27|1996-07-31	Non-essential protein of unknown function
+S000033974	CDS					YKR004C		11	447706	446799	C		2011-02-03	2003-09-27	
+S000033973	CDS					YKR004C		11	448036	447811	C		2011-02-03	2003-09-27|1996-07-31	
+S000033975	intron					YKR004C		11	447810	447707	C		2011-02-03	2003-09-27	
+S000001713	ORF	Uncharacterized	YKR005C			chromosome 11		11	450167	448521	C		2011-02-03	1996-07-31|2007-09-05	Putative protein of unknown function
+S000123939	CDS					YKR005C		11	449951	448521	C		2011-02-03	2007-09-05	
+S000034843	CDS					YKR005C		11	450167	450021	C		2011-02-03	1996-07-31|2007-09-05	
+S000123938	intron					YKR005C		11	450020	449952	C		2011-02-03	2007-09-05	
+S000001714	ORF	Verified	YKR006C	MRPL13	mitochondrial 54S ribosomal protein YmL13|YmL13|YK105	chromosome 11	L000001164|L000002526	11	451217	450423	C		2011-02-03	2003-09-22|1996-07-31	Mitochondrial ribosomal protein of the large subunit; not essential for mitochondrial translation
+S000034952	CDS					YKR006C		11	451217	450423	C		2011-02-03	2003-09-22|1996-07-31	
+S000001715	ORF	Verified	YKR007W	MEH1	GSE2|EGO1	chromosome 11		11	451434	451988	W		2011-02-03	1996-07-31	Component of the EGO and GSE complexes; EGO is involved in the regulation of microautophagy and GSE is required for proper sorting of amino acid permease Gap1p; loss results in a defect in vacuolar acidification
+S000035149	CDS					YKR007W		11	451434	451988	W		2011-02-03	1996-07-31	
+S000001716	ORF	Verified	YKR008W	RSC4		chromosome 11	L000004026	11	452201	454078	W		2011-02-03	1996-07-31|2011-02-03	Component of the RSC chromatin remodeling complex; found in close proximity to nucleosomal DNA; displaced from the surface of nucleosomal DNA after chromatin remodeling; acetylated (K25) by Gcn5p, altering replication stress tolerance; contains tandem bromodomains that recognize histone H3 acetylated on K14 (H3K14ac) by Gcn5p
+S000036038	CDS					YKR008W		11	452201	454078	W		2011-02-03	1996-07-31|2011-02-03	
+S000001717	ORF	Verified	YKR009C	FOX2	bifunctional hydroxyacyl-CoA dehydrogenase/enoyl-CoA hydratase FOX2|POX2	chromosome 11	L000000622	11	457054	454352	C		2011-02-03	1996-07-31	3-hydroxyacyl-CoA dehydrogenase and enoyl-CoA hydratase; multifunctional enzyme of the peroxisomal fatty acid beta-oxidation pathway; mutation is functionally complemented by human HSD17B4
+S000036079	CDS					YKR009C		11	457054	454352	C		2011-02-03	1996-07-31	
+S000007058	long_terminal_repeat		YKRCdelta8			chromosome 11		11	458471	458140	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006642	tRNA_gene		tL(CAA)K			chromosome 11	L000003635	11	458557	458670	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000033792	intron					tL(CAA)K		11	458595	458626	W		2011-02-03	2000-05-19	
+S000033790	noncoding_exon					tL(CAA)K		11	458557	458594	W		2011-02-03	2000-05-19	
+S000033791	noncoding_exon					tL(CAA)K		11	458627	458670	W		2011-02-03	2000-05-19	
+S000001718	ORF	Verified	YKR010C	TOF2		chromosome 11	L000004245	11	461239	458924	C		2011-02-03	1996-07-31	Protein required for rDNA silencing and mitotic rDNA condensation; stimulates Cdc14p phosphatase activity and biphasic release to promote rDNA repeat segregation; required for condensin recruitment to the replication fork barrier site; TOF2 has a paralog, NET1, that arose from the whole genome duplication
+S000034767	CDS					YKR010C		11	461239	458924	C		2011-02-03	1996-07-31	
+S000001719	ORF	Verified	YKR011C		TOS5	chromosome 11		11	462696	461635	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; protein abundance increases in response to DNA replication stress
+S000035735	CDS					YKR011C		11	462696	461635	C		2011-02-03	1996-07-31	
+S000130139	ARS		ARS1115		ARSXI-463	chromosome 11		11	462699	463742			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000001721	ORF	Verified	YKR013W	PRY2	sterol-binding protein|YFW12	chromosome 11	L000003217	11	463959	464948	W		2011-02-03	1996-07-31	Sterol binding protein involved in the export of acetylated sterols; secreted glycoprotein and member of the CAP protein superfamily (cysteine-rich secretory proteins (CRISP), antigen 5, and pathogenesis related 1 proteins); sterol export function is redundant with that of PRY1; may be involved in detoxification of hydrophobic compounds; PRY2 has a paralog, PRY1, that arose from the whole genome duplication
+S000037809	CDS					YKR013W		11	463959	464948	W		2011-02-03	1996-07-31	
+S000001720	ORF	Dubious	YKR012C			chromosome 11		11	464116	463739	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene PRY2
+S000035867	CDS					YKR012C		11	464116	463739	C		2011-02-03	1996-07-31|2011-02-03	
+S000001722	ORF	Verified	YKR014C	YPT52	Rab family GTPase YPT52	chromosome 11	L000002546	11	466071	465367	C		2011-02-03	1996-07-31	Endosomal Rab family GTPase; required for vacuolar protein sorting, endocytosis and multivesicular body (MVB) biogenesis and sorting; required for localization of the CORVET complex to endosomes; involved in autophagy and ionic stress tolerance; similar to Vps21p and Ypt53p; mammalian Rab5 homolog; protein abundance increases in response to DNA replication stress
+S000037843	CDS					YKR014C		11	466071	465367	C		2011-02-03	1996-07-31	
+S000001723	ORF	Uncharacterized	YKR015C			chromosome 11		11	468667	466961	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000029849	CDS					YKR015C		11	468667	466961	C		2011-02-03	1996-07-31	
+S000001724	ORF	Verified	YKR016W	MIC60	FCJ1|AIM28|FMP13	chromosome 11		11	469717	471339	W		2011-02-03	1996-07-31	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; Mic60p is also involved in import of intermembrane space (IMS) proteins, probably by positioning Mia40p relative to the TOM complex to receive incoming proteins; ortholog of mammalian mitofilin
+S000030918	CDS					YKR016W		11	469717	471339	W		2011-02-03	1996-07-31	
+S000001725	ORF	Verified	YKR017C	HEL1	E3 ubiquitin-protein ligase HEL1	chromosome 11		11	473349	471694	C		2011-02-03	1996-07-31	RING finger ubiquitin ligase (E3); involved in ubiquitination and degradation of excess histones; interacts with Ubc4p and Rad53p; null mutant sensitive to hydroxyurea (HU)
+S000030959	CDS					YKR017C		11	473349	471694	C		2011-02-03	1996-07-31	
+S000001726	ORF	Verified	YKR018C			chromosome 11		11	475900	473723	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; protein abundance increases in response to DNA replication stress; YKR018C has a paralog, IML2, that arose from the whole genome duplication
+S000031035	CDS					YKR018C		11	475900	473723	C		2011-02-03	1996-07-31	
+S000001727	ORF	Verified	YKR019C	IRS4		chromosome 11	L000004394	11	478063	476216	C		2011-02-03	1996-07-31	EH domain-containing protein; involved in regulating phosphatidylinositol 4,5-bisphosphate levels and autophagy; Irs4p and Tax4p bind and activate the PtdIns phosphatase Inp51p; Irs4p and Tax4p are involved in localizing Atg17p to the PAS; IRS4 has a paralog, TAX4, that arose from the whole genome duplication
+S000031136	CDS					YKR019C		11	478063	476216	C		2011-02-03	1996-07-31	
+S000001728	ORF	Verified	YKR020W	VPS51	VPS67|API3|WHI6	chromosome 11		11	478338	478832	W		2011-02-03	1996-07-31	Component of the GARP (Golgi-associated retrograde protein) complex; GARP is required for the recycling of proteins from endosomes to the late Golgi, and for mitosis after DNA damage induced checkpoint arrest; links the (VFT/GARP) complex to the SNARE Tlg1p; members of the GARP complex are Vps51p-Vps52p-Vps53p-Vps54p
+S000030781	CDS					YKR020W		11	478338	478832	W		2011-02-03	1996-07-31	
+S000001729	ORF	Verified	YKR021W	ALY1	ART6	chromosome 11		11	479234	481981	W		2011-02-03	1996-07-31|2011-02-03	Alpha arrestin, substrate of calcineurin; controls nutrient-mediated intracellular sorting of permease Gap1p; interacts with AP-1 subunit Apl4p; dephosphorylation of Aly1p required for the endocytosis of Dip5p; may regulate endocytosis of plasma membrane proteins by recruiting ubiquitin ligase Rsp5p to plasma membrane targets; ALY1 has a paralog, ALY2, that arose from the whole genome duplication
+S000030869	CDS					YKR021W		11	479234	481981	W		2011-02-03	1996-07-31|2011-02-03	
+S000001730	ORF	Verified	YKR022C	NTR2		chromosome 11		11	483139	482171	C		2011-02-03	1996-07-31	Essential protein that forms a dimer with Ntr1p; also forms a trimer, with Ntr2p and the DExD/H-box RNA helicase Prp43p, that is involved in spliceosome disassembly
+S000031793	CDS					YKR022C		11	483139	482171	C		2011-02-03	1996-07-31	
+S000001731	ORF	Uncharacterized	YKR023W			chromosome 11		11	483419	485011	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000032021	CDS					YKR023W		11	483419	485011	W		2011-02-03	1996-07-31	
+S000001732	ORF	Verified	YKR024C	DBP7	putative ATP-dependent RNA helicase	chromosome 11	L000004205	11	487372	485144	C		2011-02-03	1996-07-31	Putative ATP-dependent RNA helicase of the DEAD-box family; involved in ribosomal biogenesis; required at post-transcriptional step for efficient retrotransposition; essential for growth under anaerobic conditions
+S000032100	CDS					YKR024C		11	487372	485144	C		2011-02-03	1996-07-31	
+S000001733	ORF	Verified	YKR025W	RPC37	DNA-directed RNA polymerase III subunit C37|C37	chromosome 11		11	487770	488618	W		2011-02-03	1996-07-31	RNA polymerase III subunit C37
+S000034103	CDS					YKR025W		11	487770	488618	W		2011-02-03	1996-07-31	
+S000001734	ORF	Verified	YKR026C	GCN3	translation initiation factor eIF2B subunit alpha|AAS2	chromosome 11	L000000682	11	489655	488738	C	7	2011-02-03	1996-07-31	Alpha subunit of translation initiation factor eIF2B; guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; positive regulator of GCN4 expression; assembles into filaments with Gcd2p, Gcd6p, Gcd7p, and Sui2p as cells approach stationary phase and under cytosolic acidification and starvation conditions; human homolog EIF2B1 can complement yeast null mutant
+S000034170	CDS					YKR026C		11	489655	488738	C		2011-02-03	1996-07-31	
+S000007059	long_terminal_repeat		YKRCdelta9			chromosome 11		11	490416	490286	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007062	long_terminal_repeat		YKRWdelta10			chromosome 11		11	490464	490787	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006703	tRNA_gene		tR(ACG)K			chromosome 11	L000003636	11	490968	491040	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000030411	noncoding_exon					tR(ACG)K		11	490968	491040	W		2011-02-03	2000-05-19	
+S000001735	ORF	Verified	YKR027W	BCH2	FMP50	chromosome 11		11	491364	493661	W		2011-02-03	1996-07-31	Member of the ChAPs (Chs5p-Arf1p-binding proteins) family; part of the exomer complex with Chs5p to mediate export of specific cargo proteins, including Chs3p, from the Golgi to the plasma membrane; BCH2 has a paralog, CHS6, that arose from the whole genome duplication
+S000034303	CDS					YKR027W		11	491364	493661	W		2011-02-03	1996-07-31	
+S000001736	ORF	Verified	YKR028W	SAP190		chromosome 11	L000002600	11	494257	497358	W		2011-02-03	1996-07-31|2011-02-03	Protein that forms a complex with the Sit4p protein phosphatase; required for Sit4p function; member of a family of similar proteins including Sap4p, Sap155p, and Sap185p; SAP190 has a paralog, SAP185, that arose from the whole genome duplication
+S000034368	CDS					YKR028W		11	494257	497358	W		2011-02-03	1996-07-31|2011-02-03	
+S000001737	ORF	Verified	YKR029C	SET3	histone-binding protein SET3	chromosome 11		11	499833	497578	C		2011-02-03	1996-07-31	Defining member of the SET3 histone deacetylase complex; which is a meiosis-specific repressor of sporulation genes; necessary for efficient transcription by RNAPII; one of two yeast proteins that contains both SET and PHD domains; SET3 has a paralog, SET4, that arose from the whole genome duplication
+S000035298	CDS					YKR029C		11	499833	497578	C		2011-02-03	1996-07-31	
+S000001738	ORF	Verified	YKR030W	GMH1	MSG1	chromosome 11		11	500282	501103	W		2011-02-03	1996-07-31	Golgi membrane protein of unknown function; interacts with Gea1p and Gea2p; required for localization of Gea2p; computational analysis suggests a possible role in either cell wall synthesis or protein-vacuolar targeting
+S000033925	CDS					YKR030W		11	500282	501103	W		2011-02-03	1996-07-31	
+S000001739	ORF	Verified	YKR031C	SPO14	phospholipase D|PLD1	chromosome 11	L000002005|L000002946	11	506395	501344	C	18	2011-02-03	1996-07-31	Phospholipase D; catalyzes the hydrolysis of phosphatidylcholine, producing choline and phosphatidic acid; involved in Sec14p-independent secretion; required for meiosis and spore formation; differently regulated in secretion and meiosis; participates in transcription initiation and/or early elongation of specific genes; interacts with "foot domain" of RNA polymerase II; deletion results in abnormal CTD-Ser5 phosphorylation of RNA polymerase II at specific promoter regions
+S000034013	CDS					YKR031C		11	506395	501344	C		2011-02-03	1996-07-31	
+S000001740	ORF	Dubious	YKR032W			chromosome 11		11	506517	506831	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034971	CDS					YKR032W		11	506517	506831	W		2011-02-03	1996-07-31	
+S000001742	ORF	Verified	YKR034W	DAL80	UGA43	chromosome 11	L000000480	11	506898	507707	W	14	2011-02-03	1996-07-31	Negative regulator of genes in multiple nitrogen degradation pathways; expression is regulated by nitrogen levels and by Gln3p; member of the GATA-binding family, forms homodimers and heterodimers with Gzf3p; DAL80 has a paralog, GZF3, that arose from the whole genome duplication
+S000036062	CDS					YKR034W		11	506898	507707	W		2011-02-03	1996-07-31	
+S000001741	ORF	Dubious	YKR033C			chromosome 11		11	507304	506879	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene DAL80
+S000035067	CDS					YKR033C		11	507304	506879	C		2011-02-03	1996-07-31	
+S000006435	ORF	Verified	YKR035W-A	DID2	VPL30|VPS46|CHM1|FTI1	chromosome 11	L000004496	11	507939	508553	W		2011-02-03	1999-07-17	Class E protein of the vacuolar protein-sorting (Vps) pathway; binds Vps4p and directs it to dissociate ESCRT-III complexes; forms a functional and physical complex with Ist1p; human ortholog may be altered in breast tumors
+S000034954	CDS					YKR035W-A		11	507939	508553	W		2011-02-03	1999-07-17	
+S000001743	ORF	Dubious	YKR035C	OPI8		chromosome 11		11	508561	507920	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene DID2/YKR035W-A
+S000036116	CDS					YKR035C		11	508561	507920	C		2011-02-03	1996-07-31	
+S000001744	ORF	Verified	YKR036C	CAF4		chromosome 11	L000003417	11	510633	508702	C		2011-02-03	1996-07-31|2006-05-08|2011-02-03	WD40 repeat-containing protein associated with the CCR4-NOT complex; interacts in a Ccr4p-dependent manner with Ssn2p; also interacts with Fis1p, Mdv1p and Dnm1p and plays a role in mitochondrial fission; CAF4 has a paralog, MDV1, that arose from the whole genome duplication
+S000036256	CDS					YKR036C		11	510633	508702	C		2011-02-03	1996-07-31|2006-05-08|2011-02-03	
+S000001745	ORF	Verified	YKR037C	SPC34		chromosome 11	L000004696	11	511797	510910	C		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; also localized to nuclear side of spindle pole body
+S000036356	CDS					YKR037C		11	511797	510910	C		2011-02-03	1996-07-31	
+S000001746	ORF	Verified	YKR038C	KAE1	tRNA N6-adenosine threonylcarbamoyltransferase	chromosome 11		11	513159	511999	C		2011-02-03	2003-09-22|1996-07-31	Highly conserved ATPase of HSP70/DnaK family; essential functional component of the EKC/KEOPS complex, with Bud32p, Cgi121p, Pcc1p, and Gon7p; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription
+S000036434	CDS					YKR038C		11	513159	511999	C		2011-02-03	2003-09-22|1996-07-31	
+S000006540	tRNA_gene		tD(GUC)K			chromosome 11	L000003639	11	513403	513332	C		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000037688	noncoding_exon					tD(GUC)K		11	513403	513332	C		2011-02-03	2000-05-19	
+S000007060	long_terminal_repeat		YKRCdelta11			chromosome 11		11	513846	513532	C		2011-02-03	2000-05-19	Ty1 LTR
+S000001747	ORF	Verified	YKR039W	GAP1	amino acid permease GAP1	chromosome 11	L000000667	11	515063	516871	W	27	2011-02-03	1996-07-31	General amino acid permease; Gap1p senses the presence of amino acid substrates to regulate localization to the plasma membrane when needed; essential for invasive growth
+S000030283	CDS					YKR039W		11	515063	516871	W		2011-02-03	1996-07-31	
+S000118407	ARS		ARS1116		ARSXI-517	chromosome 11		11	517017	517265			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000007061	long_terminal_repeat		YKRCdelta12			chromosome 11		11	517784	517453	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006516	tRNA_gene		tA(AGC)K2			chromosome 11	L000003637	11	517988	518060	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000036249	noncoding_exon					tA(AGC)K2		11	517988	518060	W		2011-02-03	2000-05-19	
+S000001749	ORF	Verified	YKR041W			chromosome 11		11	518198	518950	W		2011-02-03	1996-07-31	Protein of unknown function; localizes to the mitotic spindle; overexpression of YKR041W affects endocytic protein trafficking
+S000030043	CDS					YKR041W		11	518198	518950	W		2011-02-03	1996-07-31	
+S000001748	ORF	Dubious	YKR040C			chromosome 11		11	518566	518063	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YKR041W
+S000029852	CDS					YKR040C		11	518566	518063	C		2011-02-03	1996-07-31	
+S000001750	ORF	Verified	YKR042W	UTH1	SUN family protein UTH1	chromosome 11	L000002766	11	519527	520624	W		2011-02-03	1996-07-31|2005-11-03	Mitochondrial inner membrane protein; role in mitophagy is disputed; implicated in cell wall biogenesis, the oxidative stress response, life span during starvation, and cell death; SUN family member; UTH1 has a paralog, NCA3, that arose from the whole genome duplication
+S000031030	CDS					YKR042W		11	519527	520624	W		2011-02-03	1996-07-31|2005-11-03	
+S000001751	ORF	Verified	YKR043C	SHB17	sedoheptulose-bisphosphatase	chromosome 11		11	521712	520897	C		2011-02-03	1996-07-31	Sedoheptulose bisphosphatase involved in riboneogenesis; dephosphorylates sedoheptulose 1,7-bisphosphate, which is converted via the nonoxidative pentose phosphate pathway to ribose-5-phosphate; facilitates the conversion of glycolytic intermediates to pentose phosphate units; also has fructose 1,6-bisphosphatase activity but this is probably not biologically relevant, since deletion does not affect FBP levels; GFP-fusion protein localizes to the cytoplasm and nucleus
+S000031078	CDS					YKR043C		11	521712	520897	C		2011-02-03	1996-07-31	
+S000001752	ORF	Verified	YKR044W	UIP5		chromosome 11		11	522015	523346	W		2011-02-03	1996-07-31	Protein of unknown function that interacts with Ulp1p; a Ubl (ubiquitin-like protein)-specific protease for Smt3p protein conjugates
+S000031276	CDS					YKR044W		11	522015	523346	W		2011-02-03	1996-07-31	
+S000001753	ORF	Uncharacterized	YKR045C			chromosome 11		11	523969	523418	C		2011-02-03	2003-09-22|1996-07-31	Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm
+S000032206	CDS					YKR045C		11	523969	523418	C		2011-02-03	2003-09-22|1996-07-31	
+S000001754	ORF	Verified	YKR046C	PET10		chromosome 11		11	525074	524223	C		2011-02-03	1996-07-31	Protein of unknown function that localizes to lipid particles; localization suggests a role in lipid metabolism; expression pattern suggests a role in respiratory growth; computational analysis of large-scale protein-protein interaction data suggests a role in ATP/ADP exchange
+S000032320	CDS					YKR046C		11	525074	524223	C		2011-02-03	1996-07-31	
+S000001755	ORF	Dubious	YKR047W			chromosome 11		11	525257	525562	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene NAP1
+S000032471	CDS					YKR047W		11	525257	525562	W		2011-02-03	1996-07-31	
+S000001756	ORF	Verified	YKR048C	NAP1	histone chaperone NAP1	chromosome 11	L000001232	11	526640	525387	C		2011-02-03	1996-07-31	Histone chaperone; involved in histone exchange by removing and replacing histone H2A-H2B dimers or histone variant dimers from assembled nucleosomes; involved in the transport of H2A and H2B histones to the nucleus; required for the regulation of microtubule dynamics during mitosis; interacts with mitotic cyclin Clb2p; controls bud morphogenesis; phosphorylated by CK2; protein abundance increases in response to DNA replication stress
+S000034427	CDS					YKR048C		11	526640	525387	C		2011-02-03	1996-07-31	
+S000001757	ORF	Verified	YKR049C	FMP46	putative redox protein	chromosome 11		11	527231	526830	C		2011-02-03	1996-07-31	Putative redox protein containing a thioredoxin fold; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000034545	CDS					YKR049C		11	527231	526830	C		2011-02-03	1996-07-31	
+S000001758	ORF	Verified	YKR050W	TRK2	RPD2	chromosome 11	L000002335	11	527815	530484	W	15	2011-02-03	1996-07-31	Component of the Trk1p-Trk2p potassium transport system; contributes to K(+) supply and maintenance of plasma-membrane potential; TRK2 has a paralog, TRK1, that arose from the whole genome duplication
+S000033289	CDS					YKR050W		11	527815	530484	W		2011-02-03	1996-07-31	
+S000001759	ORF	Uncharacterized	YKR051W			chromosome 11		11	530946	532202	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000034162	CDS					YKR051W		11	530946	532202	W		2011-02-03	1996-07-31	
+S000001760	ORF	Verified	YKR052C	MRS4	Fe(2+) transporter	chromosome 11	L000001180	11	533464	532550	C		2011-02-03	1996-07-31	Iron transporter of the mitochondrial carrier family; mediates Fe2+ transport across the inner mitochondrial membrane; active under low-iron conditions; may transport other cations; protein abundance increases in response to DNA replication stress; MRS4 has a paralog, MRS3, that arose from the whole genome duplication
+S000034228	CDS					YKR052C		11	533464	532550	C		2011-02-03	1996-07-31	
+S000001761	ORF	Verified	YKR053C	YSR3	sphinganine kinase YSR3|LBP2	chromosome 11	L000004404	11	535281	534067	C		2011-02-03	1996-07-31	Dihydrosphingosine 1-phosphate phosphatase; membrane protein involved in sphingolipid metabolism; YSR3 has a paralog, LCB3, that arose from the whole genome duplication
+S000034357	CDS					YKR053C		11	535281	534067	C		2011-02-03	1996-07-31	
+S000001762	ORF	Verified	YKR054C	DYN1	dynein heavy chain|PAC6|DHC1	chromosome 11	L000000538	11	547925	535647	C	24.6	2011-02-03	1996-07-31	Cytoplasmic heavy chain dynein; microtubule motor protein; member of the AAA+ protein family, required for anaphase spindle elongation; involved in spindle assembly, chromosome movement, and spindle orientation during cell division, targeted to microtubule tips by Pac1p; motility along microtubules inhibited by She1p
+S000035346	CDS					YKR054C		11	547925	535647	C		2011-02-03	1996-07-31	
+S000001763	ORF	Verified	YKR055W	RHO4	Rho family GTPase RHO4	chromosome 11	L000001633	11	548216	549091	W		2011-02-03	1996-07-31	Non-essential small GTPase; member of the Rho/Rac subfamily of Ras-like proteins; likely to be involved in the establishment of cell polarity; has long N-terminal extension that plays an important role in Rho4p function and is shared with Rho4 homologs in other yeasts and filamentous fungi
+S000035541	CDS					YKR055W		11	548216	549091	W		2011-02-03	1996-07-31	
+S000001764	ORF	Verified	YKR056W	TRM2	RNC1|NUD1|NUC2	chromosome 11	L000001652|L000001284	11	549448	551367	W		2011-02-03	2004-02-13|1996-07-31	tRNA methyltransferase; 5-methylates the uridine residue at position 54 of tRNAs and may also have a role in tRNA stabilization or maturation; endo-exonuclease with a role in DNA repair
+S000035618	CDS					YKR056W		11	549448	551367	W		2011-02-03	2004-02-13|1996-07-31	
+S000001765	ORF	Verified	YKR057W	RPS21A	eS21|ribosomal 40S subunit protein S21A|S21e|YS25|S26A|S21A|RPS25	chromosome 11	L000001761	11	551657	552242	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S21, no bacterial homolog; RPS21A has a paralog, RPS21B, that arose from the whole genome duplication
+S000036538	CDS					YKR057W		11	551657	551680	W		2011-02-03	1996-07-31	
+S000036539	CDS					YKR057W		11	552003	552242	W		2011-02-03	1996-07-31	
+S000036540	intron					YKR057W		11	551681	552002	W		2011-02-03	1996-07-31	
+S000001766	ORF	Verified	YKR058W	GLG1	glycogenin glucosyltransferase GLG1	chromosome 11	L000002878	11	552770	554620	W		2011-02-03	1996-07-31|2005-12-01	Glycogenin glucosyltransferase; self-glucosylating initiator of glycogen synthesis, also glucosylates n-dodecyl-beta-D-maltoside; SWAT-GFP and mCherry fusion proteins localize to the cell periphery and vacuole respectively; similar to mammalian glycogenin; GLG1 has a paralog, GLG2, that arose from the whole genome duplication
+S000036619	CDS					YKR058W		11	552770	554620	W		2011-02-03	1996-07-31|2005-12-01	
+S000001767	ORF	Verified	YKR059W	TIF1	translation initiation factor eIF4A|eIF4A	chromosome 11	L000002302	11	554987	556174	W	22	2011-02-03	1996-07-31	Translation initiation factor eIF4A; DEA(D/H)-box RNA helicase that couples ATPase activity to RNA binding and unwinding; forms a dumbbell structure of two compact domains connected by a linker; interacts with eIF4G; protein abundance increases in response to DNA replication stress; TIF1 has a paralog, TIF2, that arose from the whole genome duplication
+S000036719	CDS					YKR059W		11	554987	556174	W		2011-02-03	1996-07-31	
+S000001768	ORF	Verified	YKR060W	UTP30		chromosome 11		11	556518	557342	W		2011-02-03	1996-07-31	Putative subunit of U3-containing 90S preribosome complex; complex is involved in production of 18S rRNA and assembly of small ribosomal subunit
+S000030161	CDS					YKR060W		11	556518	557342	W		2011-02-03	1996-07-31	
+S000001769	ORF	Verified	YKR061W	KTR2	mannosyltransferase KTR2	chromosome 11	L000000925	11	557677	558954	W		2011-02-03	1996-07-31	Mannosyltransferase involved in N-linked protein glycosylation; member of the KRE2/MNT1 mannosyltransferase family; KTR2 has a paralog, YUR1, that arose from the whole genome duplication
+S000030356	CDS					YKR061W		11	557677	558954	W		2011-02-03	1996-07-31	
+S000006502	snoRNA_gene		snR42	SNR42		chromosome 11	L000003409	11	559366	559016	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2975
+S000030613	noncoding_exon					snR42		11	559366	559016	C		2011-02-03	2000-05-19	
+S000001770	ORF	Verified	YKR062W	TFA2	transcription factor TFIIE subunit TFA2	chromosome 11	L000002596	11	559666	560652	W		2011-02-03	1996-07-31	TFIIE small subunit; involved in RNA polymerase II transcription initiation
+S000030483	CDS					YKR062W		11	559666	560652	W		2011-02-03	1996-07-31	
+S000001771	ORF	Verified	YKR063C	LAS1	rRNA-processing protein LAS1	chromosome 11	L000000931	11	562297	560789	C		2011-02-03	1996-07-31	Endonuclease involved in pre-rRNA processing at both ends of ITS2; functions with Grc3p in a conserved mechanism to modulate rRNA processing and ribosome biogenesis; may coordinate the action of the Rat1p-Rai1p exoRNAse; required for the G1/S cell cycle transition; human ortholog is Las1L; mutants require the SSD1-v allele for viability
+S000030551	CDS					YKR063C		11	562297	560789	C		2011-02-03	1996-07-31	
+S000001772	ORF	Verified	YKR064W	OAF3		chromosome 11		11	562547	565138	W		2011-02-03	1996-07-31	Putative transcriptional repressor with Zn(2)-Cys(6) finger; negatively regulates transcription in response to oleate levels, based on mutant phenotype and localization to oleate-responsive promoters; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; forms nuclear foci upon DNA replication stress
+S000031527	CDS					YKR064W		11	562547	565138	W		2011-02-03	1996-07-31	
+S000001773	ORF	Verified	YKR065C	PAM17	FMP18	chromosome 11		11	565892	565299	C		2011-02-03	1996-07-31	Constituent of the TIM23 complex; proposed alternatively to be a component of the import motor (PAM complex) or to interact with and modulate the core TIM23 (Translocase of the Inner mitochondrial Membrane) complex; protein abundance increases in response to DNA replication stress
+S000031607	CDS					YKR065C		11	565892	565299	C		2011-02-03	1996-07-31	
+S000001774	ORF	Verified	YKR066C	CCP1	cytochrome-c peroxidase	chromosome 11	L000000238	11	567198	566113	C		2011-02-03	1996-07-31	Mitochondrial cytochrome-c peroxidase; degrades reactive oxygen species in mitochondria, involved in the response to oxidative stress
+S000032588	CDS					YKR066C		11	567198	566113	C		2011-02-03	1996-07-31	
+S000001775	ORF	Verified	YKR067W	GPT2	bifunctional glycerol-3-phosphate/glycerone-phosphate O-acyltransferase GPT2|GAT1	chromosome 11		11	567918	570149	W		2011-02-03	1996-07-31	Glycerol-3-phosphate/dihydroxyacetone phosphate sn-1 acyltransferase; located in lipid particles and the ER; involved in the stepwise acylation of glycerol-3-phosphate and dihydroxyacetone in lipid biosynthesis; the most conserved motifs and functionally relevant residues are oriented towards the ER lumen
+S000032727	CDS					YKR067W		11	567918	570149	W		2011-02-03	1996-07-31	
+S000001776	ORF	Verified	YKR068C	BET3	TRAPP complex core subunit BET3	chromosome 11	L000004057	11	570909	570328	C		2011-02-03	1996-07-31	Core component of transport protein particle (TRAPP) complexes I-III; TRAPP complexes are related multimeric guanine nucleotide-exchange factors for the GTPase Ypt1, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII); hydrophilic homodimeric protein that acts in conjunction with SNARE proteins in targeting and fusion of ER to Golgi transport vesicles
+S000032759	CDS					YKR068C		11	570909	570328	C		2011-02-03	1996-07-31	
+S000001777	ORF	Verified	YKR069W	MET1	uroporphyrinogen-III C-methyltransferase|MET20	chromosome 11	L000001089	11	571612	573393	W		2011-02-03	1996-07-31	S-adenosyl-L-methionine uroporphyrinogen III transmethylase; involved in the biosynthesis of siroheme, a prosthetic group used by sulfite reductase; required for sulfate assimilation and methionine biosynthesis
+S000032921	CDS					YKR069W		11	571612	573393	W		2011-02-03	1996-07-31	
+S000001778	ORF	Uncharacterized	YKR070W			chromosome 11		11	573574	574632	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000033052	CDS					YKR070W		11	573574	574632	W		2011-02-03	1996-07-31	
+S000001779	ORF	Verified	YKR071C	DRE2	electron carrier DRE2	chromosome 11		11	575980	574934	C		2011-02-03	1996-07-31	Component of the cytosolic Fe-S protein assembly (CIA) machinery; contains an Fe-S cluster that receives electrons from NADPH via the action of Tah18p in an early step in the CIA pathway; ortholog of human Ciapin1; protein abundance increases in response to DNA replication stress; inviability of the null mutant is functionally complemented by human CIAPIN1
+S000033101	CDS					YKR071C		11	575980	574934	C		2011-02-03	1996-07-31	
+S000001780	ORF	Verified	YKR072C	SIS2	phosphopantothenoylcysteine decarboxylase complex subunit SIS2|HAL3	chromosome 11	L000001899	11	578123	576435	C	57	2011-02-03	1996-07-31	Negative regulatory subunit of protein phosphatase 1 (Ppz1p); involved in coenzyme A biosynthesis; subunit of phosphopantothenoylcysteine decarboxylase (PPCDC: Cab3p, Sis2p, Vhs3p) complex and the CoA-Synthesizing Protein Complex (CoA-SPC: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p); SIS2 has a paralog, VHS3, that arose from the whole genome duplication
+S000033861	CDS					YKR072C		11	578123	576435	C		2011-02-03	1996-07-31	
+S000001781	ORF	Dubious	YKR073C			chromosome 11		11	578507	578187	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033995	CDS					YKR073C		11	578507	578187	C		2011-02-03	1996-07-31	
+S000006632	tRNA_gene		tK(UUU)K			chromosome 11	L000003638	11	578965	579060	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034204	intron					tK(UUU)K		11	579002	579024	W		2011-02-03	2000-05-19	
+S000034202	noncoding_exon					tK(UUU)K		11	578965	579001	W		2011-02-03	2000-05-19	
+S000034203	noncoding_exon					tK(UUU)K		11	579025	579060	W		2011-02-03	2000-05-19	
+S000001782	ORF	Verified	YKR074W	AIM29		chromosome 11		11	579209	579676	W		2011-02-03	1996-07-31	Protein of unknown function; epitope-tagged protein localizes to the cytoplasm; YKR074W is not an essential gene; null mutant displays elevated frequency of mitochondrial genome loss
+S000034957	CDS					YKR074W		11	579209	579676	W		2011-02-03	1996-07-31	
+S000028669	ORF	Dubious	YKR075W-A			chromosome 11		11	580212	580481	W		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a protein; completely overlaps the uncharacterized gene YKR075C; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032494	CDS					YKR075W-A		11	580212	580481	W		2011-02-03	2003-07-29	
+S000001783	ORF	Uncharacterized	YKR075C			chromosome 11		11	580750	579827	C		2011-02-03	1996-07-31	Protein of unknown function; similar to Reg1p; expression regulated by glucose and Rgt1p; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; YKR075C has a paralog, YOR062C, that arose from the whole genome duplication
+S000035052	CDS					YKR075C		11	580750	579827	C		2011-02-03	1996-07-31	
+S000118408	ARS		ARS1118		ARSXI-582	chromosome 11		11	581833	582070			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000001784	ORF	Verified	YKR076W	ECM4	S-glutathionyl-(chloro)hydroquinone reductase|GTO2	chromosome 11	L000003880	11	582283	583395	W		2011-02-03	1996-07-31	S-glutathionyl-(chloro)hydroquinone reductase (GS-HQR); glutathione transferase involved in cell-surface biosynthesis and architecture; catalyzes glutathione (GSH)-dependent reduction of GS-trichloro-p-hydroquinone to trichloro-p-hydroquinone; expression upregulated upon exposure to genotoxic agents, such as methyl methanesulfonate, cisplatin and bleomycin; not an essential gene; similar to YGR154C; green fluorescent protein (GFP)-fusion protein localizes to cytoplasm
+S000035311	CDS					YKR076W		11	582283	583395	W		2011-02-03	1996-07-31	
+S000001785	ORF	Verified	YKR077W	MSA2		chromosome 11		11	583653	584744	W		2011-02-03	1996-07-31	Putative transcriptional activator; interacts with G1-specific transcription factor MBF and G1-specific promoters; MSA2 has a paralog, MSA1, that arose from the whole genome duplication
+S000036232	CDS					YKR077W		11	583653	584744	W		2011-02-03	1996-07-31	
+S000001786	ORF	Verified	YKR078W			chromosome 11		11	584952	586709	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; potential Cdc28p substrate; contains a Phox homology (PX) domain and specifically binds phosphatidylinositol 3-phosphate (PtdIns-3-P); YKR078W has a paralog, VPS5, that arose from the whole genome duplication
+S000036335	CDS					YKR078W		11	584952	586709	W		2011-02-03	1996-07-31	
+S000001787	ORF	Verified	YKR079C	TRZ1	tRNase Z	chromosome 11		11	589305	586789	C		2011-02-03	1996-07-31	tRNA 3'-end processing endonuclease tRNase Z; also localized to mitochondria and interacts genetically with Rex2 exonuclease; homolog of the human candidate prostate cancer susceptibility gene ELAC2
+S000036383	CDS					YKR079C		11	589305	586789	C		2011-02-03	1996-07-31	
+S000001788	ORF	Verified	YKR080W	MTD1	methylenetetrahydrofolate dehydrogenase (NAD(+))	chromosome 11	L000001210	11	590395	591357	W		2011-02-03	1996-07-31	NAD-dependent 5,10-methylenetetrahydrafolate dehydrogenase; plays a catalytic role in oxidation of cytoplasmic one-carbon units; expression is regulated by Bas1p and Bas2p, repressed by adenine, and may be induced by inositol and choline
+S000029910	CDS					YKR080W		11	590395	591357	W		2011-02-03	1996-07-31	
+S000001789	ORF	Verified	YKR081C	RPF2	rRNA-binding ribosome biosynthesis protein RPF2	chromosome 11		11	592540	591506	C		2011-02-03	1996-07-31	Essential protein involved in rRNA maturation and ribosomal assembly; involved in the processing of pre-rRNA and the assembly of the 60S ribosomal subunit; interacts with ribosomal protein L11; localizes predominantly to the nucleolus; constituent of 66S pre-ribosomal particles
+S000029955	CDS					YKR081C		11	592540	591506	C		2011-02-03	1996-07-31	
+S000001790	ORF	Verified	YKR082W	NUP133	RAT3	chromosome 11	L000002620	11	592825	596298	W		2011-02-03	1996-07-31	Subunit of Nup84p subcomplex of nuclear pore complex (NPC); contributes to nucleocytoplasmic transport, NPC biogenesis; is involved in establishment of a normal nucleocytoplasmic concentration gradient of GTPase Gsp1p; also plays roles in several processes that may require localization of genes or chromosomes at nuclear periphery, including double-strand break repair, transcription and chromatin silencing; relocalizes to cytosol in response to hypoxia; homolog of human NUP133
+S000030187	CDS					YKR082W		11	592825	596298	W		2011-02-03	1996-07-31	
+S000001791	ORF	Verified	YKR083C	DAD2	HSK1	chromosome 11		11	596822	596421	C		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
+S000031089	CDS					YKR083C		11	596822	596421	C		2011-02-03	1996-07-31	
+S000001792	ORF	Verified	YKR084C	HBS1	ribosome dissociation factor GTPase HBS1	chromosome 11	L000000756	11	598890	597055	C		2011-02-03	1996-07-31	GTPase with similarity to translation release factors; together with binding partner Dom34p, facilitates ribosomal subunit dissociation and peptidyl-tRNA release when translation is stalled, particularly in 3' UTRs; genetically implicated in mRNA no-go decay; HBS1 has a paralog, SKI7, that arose from the whole genome duplication
+S000031204	CDS					YKR084C		11	598890	597055	C		2011-02-03	1996-07-31	
+S000001793	ORF	Verified	YKR085C	MRPL20	mitochondrial 54S ribosomal protein YmL20|YmL20	chromosome 11	L000002527|L000001166	11	599681	599094	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000031317	CDS					YKR085C		11	599681	599094	C		2011-02-03	1996-07-31	
+S000001794	ORF	Verified	YKR086W	PRP16	DEAH-box RNA helicase PRP16|PRP23|RNA16	chromosome 11	L000001504	11	599857	603072	W		2011-02-03	1996-07-31	DEAH-box RNA helicase involved in second catalytic step of splicing and in exon ligation; exhibits ATP-dependent RNA unwinding activity; mediates the release of Yju2p and Cwc25p in the second step; in the absence of ATP, stabilizes the binding of Cwc25p to the spliceosome in the first catalytic step; missense mutation in human ortholog DHX38 associated with early-onset retinitis pigmentosa
+S000032379	CDS					YKR086W		11	599857	603072	W		2011-02-03	1996-07-31	
+S000001795	ORF	Verified	YKR087C	OMA1	metalloendopeptidase	chromosome 11		11	604232	603195	C		2011-02-03	2004-07-23|1996-07-31	Metalloendopeptidase of the mitochondrial inner membrane; important for adaptive responses to various homeostatic insults, preservation of normal mitochondrial function under damage-eliciting conditions, and stability of respiratory supercomplexes; involved in turnover of membrane-embedded proteins; mediates degradation of Cox1p in coa2 mutant cells; zebrafish ortholog has a role in organ development and mouse ortholog is also required for respiratory supercomplex stability
+S000032444	CDS					YKR087C		11	604232	603195	C		2011-02-03	2004-07-23|1996-07-31	
+S000001796	ORF	Verified	YKR088C	TVP38		chromosome 11		11	605418	604405	C		2011-02-03	1996-07-31	Integral membrane protein; localized to late Golgi vesicles along with the v-SNARE Tlg2p; required for asymmetric localization of Kar9p during mitosis; GFP-fusion protein localizes to the cytoplasm in a punctate pattern
+S000032545	CDS					YKR088C		11	605418	604405	C		2011-02-03	1996-07-31	
+S000001797	ORF	Verified	YKR089C	TGL4	STC1	chromosome 11		11	608365	605633	C		2011-02-03	1996-07-31	Multifunctional lipase/hydrolase/phospholipase; triacylglycerol lipase, steryl ester hydrolase, and Ca2+-independent phospholipase A2; catalyzes acyl-CoA dependent acylation of LPA to PA; required with Tgl3p for timely bud formation; phosphorylated and activated by Cdc28p; TGL4 has a paralog, TGL5, that arose from the whole genome duplication
+S000032624	CDS					YKR089C		11	608365	605633	C		2011-02-03	1996-07-31	
+S000001798	ORF	Verified	YKR090W	PXL1		chromosome 11		11	608946	611066	W		2011-02-03	1996-07-31|2011-02-03	Protein that localizes to sites of polarized growth; required for selection and/or maintenance of polarized growth sites, may modulate signaling by the GTPases Cdc42p and Rho1p; contains LIM domains and has similarity to metazoan paxillin; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000033373	CDS					YKR090W		11	608946	611066	W		2011-02-03	1996-07-31|2011-02-03	
+S000001799	ORF	Verified	YKR091W	SRL3	DNA-binding protein SRL3|WHI7	chromosome 11	L000004671	11	611525	612265	W		2011-02-03	2004-07-23|1996-07-31	GTB motif (G1/S transcription factor binding) containing protein; binds SBF-regulated promoters in hydroxyurea-treated cells; when overexpressed, suppresses the lethality of a rad53 null mutation; potential Cdc28p substrate; SRL3 has a paralog, WHI5, that arose from the whole genome duplication
+S000034294	CDS					YKR091W		11	611525	612265	W		2011-02-03	2004-07-23|1996-07-31	
+S000118409	ARS		ARS1120		ARSXI-612	chromosome 11		11	612378	612463			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000001800	ORF	Verified	YKR092C	SRP40		chromosome 11	L000002063	11	613885	612665	C		2011-02-03	1996-07-31	Nucleolar serine-rich protein; role in preribosome assembly or transport; may function as a chaperone of small nucleolar ribonucleoprotein particles (snoRNPs); immunologically and structurally to rat Nopp140
+S000034345	CDS					YKR092C		11	613885	612665	C		2011-02-03	1996-07-31	
+S000001801	ORF	Verified	YKR093W	PTR2		chromosome 11	L000001527	11	615730	617535	W		2011-02-03	1996-07-31	Integral membrane peptide transporter; mediates transport of di- and tri-peptides; conserved protein that contains 12 transmembrane domains; PTR2 expression is regulated by the N-end rule pathway via repression by Cup9p
+S000034474	CDS					YKR093W		11	615730	617535	W		2011-02-03	1996-07-31	
+S000001802	ORF	Verified	YKR094C	RPL40B	eL40|ubiquitin-ribosomal 60S subunit protein L40B fusion protein|L40e|L40B|UB12|CEP52B|UBI2	chromosome 11	L000002412|L000000314	11	618750	617996	C		2011-02-03	1996-07-31|2011-02-03	Ubiquitin-ribosomal 60S subunit protein L40B fusion protein; cleaved to yield ubiquitin and ribosomal protein L40B; ubiquitin may facilitate assembly of the ribosomal protein into ribosomes; homologous to mammalian ribosomal protein L40, no bacterial homolog; RPL40B has a paralog, RPL40A, that arose from the whole genome duplication
+S000034523	CDS					YKR094C		11	618374	617996	C		2011-02-03	1996-07-31	
+S000034522	CDS					YKR094C		11	618750	618743	C		2011-02-03	1996-07-31	
+S000034524	intron					YKR094C		11	618742	618375	C		2011-02-03	1996-07-31|2011-02-03	
+S000001803	ORF	Verified	YKR095W	MLP1	MPL1	chromosome 11	L000001141|L000001122	11	619805	625432	W	80.3	2011-02-03	1996-07-31	Myosin-like protein associated with the nuclear envelope; nuclear basket protein that connects the nuclear pore complex with the nuclear interior; involved with Tel1p in telomere length control; involved with Pml1p and Pml39p in nuclear retention of unspliced mRNAs; MLP1 has a paralog, MLP2, that arose from the whole genome duplication
+S000035599	CDS					YKR095W		11	619805	625432	W		2011-02-03	1996-07-31	
+S000028512	ORF	Verified	YKR095W-A	PCC1	chromatin DNA-binding EKC/KEOPS complex subunit PCC1	chromosome 11		11	625864	626205	W		2011-02-03	2004-01-28|2003-07-29	Component of the EKC/KEOPS protein complex; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription; other complex members are Kae1p, Gon7p, Bud32p, and Cgi121p
+S000030270	CDS					YKR095W-A		11	625864	625901	W		2011-02-03	2004-01-28|2003-07-29	
+S000030272	CDS					YKR095W-A		11	625977	626205	W		2011-02-03	2004-01-28	
+S000030273	intron					YKR095W-A		11	625902	625976	W		2011-02-03	2004-01-28|2003-07-29	
+S000001804	ORF	Verified	YKR096W	ESL2		chromosome 11		11	626793	630380	W		2011-02-03	1996-07-31	hEST1A/B (SMG5/6)-like protein; contributes to environment-sensing adaptive gene expression responses; Esl2p and Esl1p contain a 14-3-3-like domain and a putative PilT N-terminus ribonuclease domain; interacts with Pex14p; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; ESL2 has a paralog, ESL1, that arose from the whole genome duplication
+S000035688	CDS					YKR096W		11	626793	630380	W		2011-02-03	1996-07-31	
+S000001805	ORF	Verified	YKR097W	PCK1	phosphoenolpyruvate carboxykinase PCK1|PPC1|JPM2	chromosome 11	L000001350	11	631152	632801	W	73.2	2011-02-03	1996-07-31	Phosphoenolpyruvate carboxykinase; key enzyme in gluconeogenesis, catalyzes early reaction in carbohydrate biosynthesis, glucose represses transcription and accelerates mRNA degradation, regulated by Mcm1p and Cat8p, located in the cytosol
+S000036623	CDS					YKR097W		11	631152	632801	W		2011-02-03	1996-07-31	
+S000001806	ORF	Verified	YKR098C	UBP11	ubiquitin-specific protease UBP11	chromosome 11	L000003171	11	635179	633026	C		2011-02-03	1996-07-31	Ubiquitin-specific protease; cleaves ubiquitin from ubiquitinated proteins; UBP11 has a paralog, UBP7, that arose from the whole genome duplication
+S000036658	CDS					YKR098C		11	635179	633026	C		2011-02-03	1996-07-31	
+S000001807	ORF	Verified	YKR099W	BAS1		chromosome 11	L000000161	11	635851	638286	W	82	2011-02-03	1996-07-31	Myb-related transcription factor; involved in regulating basal and induced expression of genes of the purine and histidine biosynthesis pathways; also involved in regulation of meiotic recombination at specific genes
+S000036756	CDS					YKR099W		11	635851	638286	W		2011-02-03	1996-07-31	
+S000001808	ORF	Verified	YKR100C	SKG1	YKR099C-A	chromosome 11		11	639968	638901	C		2011-02-03	2004-02-13|1996-07-31	Transmembrane protein with a role in cell wall polymer composition; localizes on inner surface of plasma membrane at bud and in daughter cell; SKG1 has a paralog, AIM20, that arose from the whole genome duplication
+S000033006	CDS					YKR100C		11	639968	638901	C		2011-02-03	2004-02-13|1996-07-31	
+S000001809	ORF	Verified	YKR101W	SIR1		chromosome 11	L000001894	11	640540	642504	W	84	2011-02-03	1996-07-31|2009-02-20	Protein involved in silencing at mating-type loci HML and HMR; recruitment to silent chromatin requires interactions with Orc1p and with Sir4p, through a common Sir1p domain; binds to centromeric chromatin
+S000033721	CDS					YKR101W		11	640540	642504	W		2011-02-03	1996-07-31|2009-02-20	
+S000118410	ARS		ARS1123		ARSXI-642	chromosome 11		11	642727	642973			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000001810	ORF	Verified	YKR102W	FLO10		chromosome 11	L000004081	11	646356	649865	W		2011-02-03	1996-07-31	Member of the FLO family of cell wall flocculation proteins; not expressed in most lab strains; overproduction induces flocculation that can be inhibited by mannose, sucrose, or glucose; overproduction also promotes haploid invasive growth and diploid filamentous growth
+S000033847	CDS					YKR102W		11	646356	649865	W		2011-02-03	1996-07-31	
+S000001811	ORF	Verified	YKR103W	NFT1	putative multidrug transporter NFT1	chromosome 11		11	653080	656736	W		2011-02-03	1996-07-31	Putative transporter of the MRP subfamily; adjacent ORFs YKR103W and YKR104W are merged in different strain backgrounds; MRP stands for multidrug resistance-associated protein
+S000033929	CDS					YKR103W		11	653080	656736	W		2011-02-03	1996-07-31	
+S000001812	ORF	Verified	YKR104W		NFT1	chromosome 11		11	656836	657756	W		2011-02-03	1996-07-31	Putative transporter of the MRP subfamily; contains a stop codon in S288C; adjacent ORFs YKR103W and YKR104W are merged in different strain backgrounds; MRP stands for multidrug resistance-associated protein
+S000034837	CDS					YKR104W		11	656836	657756	W		2011-02-03	1996-07-31	
+S000001813	ORF	Verified	YKR105C	VBA5	basic amino acid transporter	chromosome 11		11	660464	658716	C		2011-02-03	1996-07-31	Plasma membrane protein of the Major Facilitator Superfamily (MFS); involved in amino acid uptake and drug sensitivity; VBA5 has a paralog, VBA3, that arose from a segmental duplication
+S000034879	CDS					YKR105C		11	660464	658716	C		2011-02-03	1996-07-31	
+S000001814	ORF	Verified	YKR106W	GEX2	glutathione exchanger	chromosome 11		11	661442	663289	W		2011-02-03	1996-07-31	Proton:glutathione antiporter; localized to the vacuolar and plasma membranes; expressed at a very low level; potential role in resistance to oxidative stress and modulation of the PKA pathway; GEX2 has a paralog, GEX1, that arose from a segmental duplication
+S000035177	CDS					YKR106W		11	661442	663289	W		2011-02-03	1996-07-31	
+S000007063	long_terminal_repeat		YKRWomega1			chromosome 11		11	665430	665668	W		2011-02-03	2000-05-19	Ty5 LTR
+S000028978	telomere		TEL11R			chromosome 11		11	665904	666816	W	89	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XI; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
+S000028979	telomeric_repeat					TEL11R		11	666609	666816	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome XI
+S000028980	X_element					TEL11R		11	665904	666364	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XI; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028981	X_element_combinatorial_repeat					TEL11R		11	666365	666608	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XI; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000029411	gene_group		RDN1	RDN1		chromosome 12	L000001595	12				105			Ribosomal DNA (rDNA); an approximately 1-2 Mb region on the right arm of chr. XII consisting of 100-200 tandem copies of a 9.1 kb repeat which contains the genes for 5S, 5.8S, 25S and 18S rRNAs (represented by the RDN37, RDN25, RDN18, RDN58, and RDN5 loci); a specific histone modification (H3K56ac) regulates RNA polymerase I transcription of the ribosomal DNA
+S000028673	ORF	Dubious	YLL067W-A			chromosome 12		12	843	1325	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps YLL067C
+S000032519	CDS					YLL067W-A		12	843	1325	W		2003-07-29	2003-07-29	
+S000003990	ORF	Uncharacterized	YLL067C		Y' element ATP-dependent helicase	chromosome 12		12	4301	585	C		1996-07-31	1996-07-31	Putative Y' element ATP-dependent helicase
+S000034997	CDS					YLL067C		12	3915	585	C		1996-07-31	1996-07-31	
+S000034996	CDS					YLL067C		12	4301	4015	C		1996-07-31	1996-07-31	
+S000034998	intron					YLL067C		12	4014	3916	C		1996-07-31	1996-07-31	
+S000028672	ORF	Uncharacterized	YLL066W-B			chromosome 12		12	5605	5775	W		2003-07-29	2003-07-29	Putative protein of unknown function; overexpression causes a cell cycle delay or arrest
+S000032518	CDS					YLL066W-B		12	5605	5775	W		2003-07-29	2003-07-29	
+S000028671	ORF	Dubious	YLL066W-A			chromosome 12		12	6486	6968	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized ORF YLL066C
+S000032517	CDS					YLL066W-A		12	6486	6968	W		2003-07-29	2003-07-29	
+S000003989	ORF	Uncharacterized	YLL066C		Y' element ATP-dependent helicase	chromosome 12		12	9836	6120	C		1996-07-31	1996-07-31	Putative Y' element ATP-dependent helicase; YLL066C is not an essential gene
+S000034882	CDS					YLL066C		12	9450	6120	C		1996-07-31	1996-07-31	
+S000034881	CDS					YLL066C		12	9836	9550	C		1996-07-31	1996-07-31	
+S000034883	intron					YLL066C		12	9549	9451	C		1996-07-31	1996-07-31	
+S000003988	ORF	Dubious	YLL065W		GIN11	chromosome 12	L000002674	12	11726	12076	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps chromosome XII telomeric element core sequences
+S000034819	CDS					YLL065W		12	11726	12076	W		1996-07-31	1996-07-31	
+S000028910	telomere		TEL12L			chromosome 12		12	12085	1	C	-33	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XII; composed of an X element core sequence, X element combinatorial repeats, and three distinct regions of telomeric repeats separated by two short Y' elements
+S000028911	telomeric_repeat					TEL12L		12	75	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome XII
+S000028912	telomeric_repeat					TEL12L		12	5723	5662	C		2003-09-09	2003-09-09	Middle stretch of telomeric repeats on the left arm of Chromosome XII
+S000028913	telomeric_repeat					TEL12L		12	11358	11197	C		2003-09-09	2003-09-09	Internal telomeric repeats on the left arm of Chromosome XII
+S000028914	X_element					TEL12L		12	12085	11626	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XII; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YLL065W
+S000028915	X_element_combinatorial_repeat					TEL12L		12	11625	11359	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000028916	Y_prime_element					TEL12L		12	5661	76	C		2003-09-09	2003-09-09	Short telomeric Y' element on the left arm of Chromosome XII; more end-proximal of two two short telomeric Y' elements; contains an ARS consensus sequence, a region of 36-bp repeats, and two ORFs YLL067C and YLL067W-A
+S000028917	Y_prime_element					TEL12L		12	11196	5724	C		2003-09-09	2003-09-09	Short Y' element in the left telomere of Chromosome XII; more centromere-proximal of two short Y' elements; contains an ARS consensus sequence, a region of 36-bp repeats, and two ORFs YLL066C and YLL066W-A
+S000003987	ORF	Verified	YLL064C	PAU18	seripauperin PAU18	chromosome 12		12	13445	13083	C		1996-07-31	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; identical to Pau6p
+S000034617	CDS					YLL064C		12	13445	13083	C		1996-07-31	1996-07-31	
+S000003986	ORF	Verified	YLL063C	AYT1	acetyltransferase	chromosome 12	L000004544	12	16072	14648	C		1996-07-31	1996-07-31	Acetyltransferase; catalyzes trichothecene 3-O-acetylation, suggesting a possible role in trichothecene biosynthesis
+S000033720	CDS					YLL063C		12	16072	14648	C		1996-07-31	1996-07-31	
+S000003985	ORF	Verified	YLL062C	MHT1	S-adenosylmethionine-homocysteine S-methyltransferase MHT1	chromosome 12		12	17613	16639	C		1996-07-31	1996-07-31	S-methylmethionine-homocysteine methyltransferase; functions along with Sam4p in the conversion of S-adenosylmethionine (AdoMet) to methionine to control the methionine/AdoMet ratio
+S000033626	CDS					YLL062C		12	17613	16639	C		1996-07-31	1996-07-31	
+S000003984	ORF	Verified	YLL061W	MMP1	S-methylmethionine permease MMP1	chromosome 12	L000004869	12	17956	19707	W		1996-07-31	1996-07-31	High-affinity S-methylmethionine permease; required for utilization of S-methylmethionine as a sulfur source; has similarity to S-adenosylmethionine permease Sam3p
+S000033583	CDS					YLL061W		12	17956	19707	W		1996-07-31	1996-07-31	
+S000003983	ORF	Verified	YLL060C	GTT2	glutathione transferase GTT2	chromosome 12	L000004613	12	21839	21138	C		1996-07-31	1996-07-31	Glutathione S-transferase capable of homodimerization; functional overlap with Gtt2p, Grx1p, and Grx2p; protein abundance increases in response to DNA replication stress
+S000032819	CDS					YLL060C		12	21839	21138	C		1996-07-31	1996-07-31	
+S000003982	ORF	Dubious	YLL059C			chromosome 12		12	22980	22474	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032747	CDS					YLL059C		12	22980	22474	C		1996-07-31	1996-07-31	
+S000003981	ORF	Uncharacterized	YLL058W		cystathionine gamma-synthase	chromosome 12		12	23569	25296	W		1996-07-31	1996-07-31	Putative protein of unknown function with similarity to Str2p; Str2p is a cystathionine gamma-synthase important in sulfur metabolism; YLL058W is not an essential gene
+S000031898	CDS					YLL058W		12	23569	25296	W		1996-07-31	1996-07-31	
+S000003980	ORF	Verified	YLL057C	JLP1	sulfonate dioxygenase	chromosome 12		12	26994	25756	C		1996-07-31	1996-07-31	Fe(II)-dependent sulfonate/alpha-ketoglutarate dioxygenase; involved in sulfonate catabolism for use as a sulfur source; contains sequence that resembles a J domain (typified by the E. coli DnaJ protein); induced by sulphur starvation
+S000031705	CDS					YLL057C		12	26994	25756	C		1996-07-31	1996-07-31	
+S000003979	ORF	Uncharacterized	YLL056C			chromosome 12		12	28305	27409	C		1996-07-31	1996-07-31	Putative protein of unknown function; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p and genes involved in pleiotropic drug resistance (PDR); expression is induced in cells treated with the mycotoxin patulin; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000031618	CDS					YLL056C		12	28305	27409	C		1996-07-31	1996-07-31	
+S000003978	ORF	Verified	YLL055W	YCT1		chromosome 12		12	30109	31704	W		1996-07-31	1996-07-31	High-affinity cysteine-specific transporter; has similarity to the Dal5p family of transporters; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YCT1 is not an essential gene
+S000031573	CDS					YLL055W		12	30109	31704	W		1996-07-31	1996-07-31	
+S000130180	ARS		ARS1202			chromosome 12		12	30209	31384			2009-05-08	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000003977	ORF	Uncharacterized	YLL054C			chromosome 12		12	35204	32673	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function with similarity to Pip2p; an oleate-specific transcriptional activator of peroxisome proliferation; YLL054C is not an essential gene
+S000030665	CDS					YLL054C		12	35204	32673	C		2011-02-03	1996-07-31|2011-02-03	
+S000003976	ORF	Uncharacterized	YLL053C			chromosome 12		12	35961	35503	C		2011-02-03	1996-07-31	Putative protein; in the Sigma 1278B strain background YLL053C is contiguous with AQY2 which encodes an aquaporin
+S000030554	CDS					YLL053C		12	35961	35503	C		2011-02-03	1996-07-31	
+S000003975	ORF	Verified	YLL052C	AQY2		chromosome 12	L000004844	12	36361	35912	C		2011-02-03	1996-07-31	Water channel that mediates water transport across cell membranes; only expressed in proliferating cells; controlled by osmotic signals; may be involved in freeze tolerance; disrupted by a stop codon in many S. cerevisiae strains
+S000030412	CDS					YLL052C		12	36361	35912	C		2011-02-03	1996-07-31	
+S000003974	ORF	Verified	YLL051C	FRE6	putative ferric-chelate reductase	chromosome 12	L000003558	12	39471	37333	C		2011-02-03	1996-07-31	Putative ferric reductase with similarity to Fre2p; expression induced by low iron levels
+S000037644	CDS					YLL051C		12	39471	37333	C		2011-02-03	1996-07-31	
+S000003973	ORF	Verified	YLL050C	COF1	cofilin	chromosome 12	L000000377	12	40414	39804	C		2011-02-03	1996-07-31	Cofilin, involved in pH-dependent actin filament depolarization; binds both actin monomers and filaments and severs filaments; involved in the selective sorting, export of the secretory cargo from the late golgi; genetically interacts with pmr1; thought to be regulated by phosphorylation at SER4; ubiquitous and essential in eukaryotes
+S000037511	CDS					YLL050C		12	40221	39804	C		2011-02-03	1996-07-31	
+S000037510	CDS					YLL050C		12	40414	40401	C		2011-02-03	1996-07-31	
+S000037512	intron					YLL050C		12	40400	40222	C		2011-02-03	1996-07-31	
+S000003972	ORF	Verified	YLL049W	LDB18		chromosome 12		12	40666	41205	W		2011-02-03	1996-07-31	Component of the dynactin complex; dynactin is required for dynein activity; null mutant exhibits defects in nuclear migration and spindle orientation and has reduced affinity for alcian blue dye; has homology to mammalian dynactin subunit p24
+S000037568	CDS					YLL049W		12	40666	41205	W		2011-02-03	1996-07-31	
+S000003971	ORF	Verified	YLL048C	YBT1	bile acid-transporting ATPase YBT1|BAT1	chromosome 12	L000004345	12	46265	41280	C		2011-02-03	1996-07-31	Transporter of the ATP-binding cassette (ABC) family; involved in bile acid transport; negative regulator of vacuole fusion; regulates release of lumenal Ca2+ stores; similar to mammalian bile transporters; YBT1 has a paralog, VMR1, that arose from the whole genome duplication
+S000036801	CDS					YLL048C		12	46265	41280	C		2011-02-03	1996-07-31	
+S000003970	ORF	Dubious	YLL047W			chromosome 12		12	46672	47055	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene RNP1
+S000036777	CDS					YLL047W		12	46672	47055	W		2011-02-03	1996-07-31	
+S000003969	ORF	Verified	YLL046C	RNP1		chromosome 12	L000001654	12	47463	46714	C		2011-02-03	1996-07-31	Ribonucleoprotein that contains two RNA recognition motifs (RRM); RNP1 has a paralog, SBP1, that arose from the whole genome duplication
+S000036697	CDS					YLL046C		12	47463	46714	C		2011-02-03	1996-07-31	
+S000003967	ORF	Dubious	YLL044W			chromosome 12		12	48216	48662	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcription of both YLL044W and the overlapping gene RPL8B is reduced in the gcr1 null mutant
+S000035737	CDS					YLL044W		12	48216	48662	W		2011-02-03	1996-07-31	
+S000003968	ORF	Verified	YLL045C	RPL8B	eL8|ribosomal 60S subunit protein L8B|L8e|rp6|YL5|L8B|L4B|SCL41|KRB1	chromosome 12	L000000911|L000001705	12	48629	47859	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L8B; required for processing of 27SA3 pre-rRNA to 27SB pre-rRNA during assembly of large ribosomal subunit; depletion leads to a turnover of pre-rRNA; L8 binds to Domain I of 25S and 5.8 S rRNAs; mutation results in decreased amounts of free 60S subunits; homologous to mammalian ribosomal protein L7A, no bacterial homolog; RPL8B has a paralog, RPL8A, that arose from the whole genome duplication
+S000036622	CDS					YLL045C		12	48629	47859	C		2011-02-03	1996-07-31	
+S000003966	ORF	Verified	YLL043W	FPS1		chromosome 12	L000000625	12	49938	51947	W		2011-02-03	1996-07-31	Aquaglyceroporin, plasma membrane channel; involved in efflux of glycerol and xylitol, and in uptake of acetic acid, arsenite, and antimonite; key factor in maintaining redox balance by mediating passive diffusion of glycerol; phosphorylated by Hog1p MAPK under acetate stress; deletion improves xylose fermentation; regulated by Rgc1p and Ask10p, which are regulated by Hog1p phosphorylation under osmotic stress; phosphorylation by Ypk1p required to maintain an open state
+S000035628	CDS					YLL043W		12	49938	51947	W		2011-02-03	1996-07-31	
+S000003965	ORF	Verified	YLL042C	ATG10	E2-like conjugating enzyme|APG10	chromosome 12	L000004785	12	52590	52087	C		2011-02-03	1996-07-31	Conserved E2-like conjugating enzyme; mediates formation of the Atg12p-Atg5p conjugate, which is a critical step in autophagy
+S000035508	CDS					YLL042C		12	52590	52087	C		2011-02-03	1996-07-31	
+S000003964	ORF	Verified	YLL041C	SDH2	succinate dehydrogenase iron-sulfur protein subunit SDH2|SDHB|ACN17	chromosome 12	L000001824	12	53931	53131	C		2011-02-03	1996-07-31	Iron-sulfur protein subunit of succinate dehydrogenase; the complex couples the oxidation of succinate to the transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; other members are Sdh1p, Sdh3p, and Sdh4p
+S000034473	CDS					YLL041C		12	53931	53131	C		2011-02-03	1996-07-31	
+S000003963	ORF	Verified	YLL040C	VPS13	membrane morphogenesis protein VPS13|VPT2|SOI1	chromosome 12	L000003510|L000002967	12	63645	54211	C		2011-02-03	1996-07-31	Protein involved in prospore membrane morphogenesis; peripheral membrane protein that localizes to the prospore membrane and at numerous membrane contact sites; involved in sporulation, vacuolar protein sorting, prospore membrane formation during sporulation, and protein-Golgi retention; required for mitochondrial integrity; contains a PH-like domain; homologous to human CHAC and COH1 which are involved in Chorea-acanthocytosis and Cohen syndrome, respectively
+S000034394	CDS					YLL040C		12	63645	54211	C		2011-02-03	1996-07-31	
+S000003962	ORF	Verified	YLL039C	UBI4	ubiquitin|UB14|SCD2	chromosome 12	L000002414	12	65207	64062	C		2011-02-03	1996-07-31	Ubiquitin; becomes conjugated to proteins, marking them for selective degradation via the ubiquitin-26S proteasome system; essential for the cellular stress response; encoded as a polyubiquitin precursor comprised of 5 head-to-tail repeats; protein abundance increases in response to DNA replication stress
+S000033435	CDS					YLL039C		12	65207	64062	C		2011-02-03	1996-07-31	
+S000003961	ORF	Verified	YLL038C	ENT4		chromosome 12		12	66518	65775	C		2011-02-03	1996-07-31	Protein of unknown function; contains an N-terminal epsin-like domain; proposed to be involved in the trafficking of Arn1p in the absence of ferrichrome
+S000033366	CDS					YLL038C		12	66518	65775	C		2011-02-03	1996-07-31	
+S000003960	ORF	Dubious	YLL037W			chromosome 12		12	66562	66942	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 3' end of essential PRP19 gene encoding an RNA splicing factor
+S000033343	CDS					YLL037W		12	66562	66942	W		2011-02-03	1996-07-31	
+S000003959	ORF	Verified	YLL036C	PRP19	E3 ubiquitin-protein ligase PRP19|PSO4	chromosome 12	L000001506	12	68256	66745	C		2011-02-03	1996-07-31	Splicing factor associated with the spliceosome; contains a U-box, a motif found in a class of ubiquitin ligases, and a WD40 domain; relocalizes to the cytosol in response to hypoxia
+S000032580	CDS					YLL036C		12	68256	66745	C		2011-02-03	1996-07-31	
+S000003958	ORF	Verified	YLL035W	GRC3	polynucleotide 5'-hydroxyl-kinase	chromosome 12		12	68580	70478	W		2011-02-03	1996-07-31	Polynucleotide kinase present on rDNA; required for efficient transcription termination by RNA polymerase I; functions with Las1p in a conserved mechanism to modulate rRNA processing and ribosome biogenesis; required for cell growth; mRNA is cell-cycle regulated
+S000032549	CDS					YLL035W		12	68580	70478	W		2011-02-03	1996-07-31	
+S000003957	ORF	Verified	YLL034C	RIX7	putative AAA family ATPase RIX7	chromosome 12		12	73146	70633	C		2011-02-03	1996-07-31	Putative ATPase of the AAA family; required for export of pre-ribosomal large subunits from the nucleus; distributed between the nucleolus, nucleoplasm, and nuclear periphery depending on growth conditions
+S000032376	CDS					YLL034C		12	73146	70633	C		2011-02-03	1996-07-31	
+S000003956	ORF	Verified	YLL033W	IRC19	RRG4|GON2	chromosome 12		12	73409	74101	W		2011-02-03	1996-07-31	Protein of unknown function; YLL033W is not an essential gene but mutant is defective in spore formation; null mutant displays increased levels of spontaneous Rad52p foci
+S000032327	CDS					YLL033W		12	73409	74101	W		2011-02-03	1996-07-31	
+S000003955	ORF	Verified	YLL032C			chromosome 12		12	76747	74270	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLL032C is not an essential gene
+S000031283	CDS					YLL032C		12	76747	74270	C		2011-02-03	1996-07-31	
+S000003954	ORF	Verified	YLL031C	GPI13	mannose-ethanolamine phosphotransferase GPI13|MPC1	chromosome 12		12	80205	77152	C		2011-02-03	1996-07-31	ER membrane localized phosphoryltransferase; adds phosphoethanolamine onto the third mannose residue of the glycosylphosphatidylinositol (GPI) anchor precursor; similar to human PIG-O protein
+S000031131	CDS					YLL031C		12	80205	77152	C		2011-02-03	1996-07-31	
+S000003953	ORF	Dubious	YLL030C	RRT7		chromosome 12		12	80697	80356	C		2011-02-03	1996-07-31	Protein of unknown function; identified in a screen for mutants with increased levels of rDNA transcription; dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
+S000030186	CDS					YLL030C		12	80697	80356	C		2011-02-03	1996-07-31	
+S000003952	ORF	Verified	YLL029W	FRA1	RUP2	chromosome 12		12	81461	83710	W		2011-02-03	1996-07-31	Protein involved in negative regulation of iron regulon transcription; forms an iron independent complex with Fra2p, Grx3p, and Grx4p; cytosolic; mutant fails to repress transcription of iron regulon and is defective in spore formation
+S000037209	CDS					YLL029W		12	81461	83710	W		2011-02-03	1996-07-31	
+S000003951	ORF	Verified	YLL028W	TPO1		chromosome 12		12	84804	86564	W		2011-02-03	1996-07-31	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; recognizes spermine, putrescine, and spermidine; catalyzes uptake of polyamines at alkaline pH and excretion at acidic pH; during oxidative stress exports spermine, spermidine from the cell, which controls timing of expression of stress-responsive genes; phosphorylation enhances activity and sorting to the plasma membrane
+S000037134	CDS					YLL028W		12	84804	86564	W		2011-02-03	1996-07-31	
+S000003950	ORF	Verified	YLL027W	ISA1	Fe-binding Fe/S cluster assembly protein ISA1	chromosome 12	L000004953	12	87403	88155	W		2011-02-03	1996-07-31	Protein required for maturation of mitochondrial [4Fe-4S] proteins; functions in a complex with Isa2p and possibly Iba57p; isa1 deletion causes loss of mitochondrial DNA and respiratory deficiency; depletion reduces growth on nonfermentable carbon sources; functional ortholog of bacterial A-type ISC proteins; human ISCA1 can complement isa1 null mutant
+S000036472	CDS					YLL027W		12	87403	88155	W		2011-02-03	1996-07-31	
+S000003949	ORF	Verified	YLL026W	HSP104	chaperone ATPase HSP104	chromosome 12	L000000823	12	88623	91349	W		2011-02-03	1996-07-31	Disaggregase; heat shock protein that cooperates with Ydj1p (Hsp40) and Ssa1p (Hsp70) to refold and reactivate previously denatured, aggregated proteins; responsive to stresses including: heat, ethanol, and sodium arsenite; involved in [PSI+] propagation; protein becomes more abundant and forms cytoplasmic foci in response to DNA replication stress; potentiated Hsp104p variants decrease TDP-43 proteotoxicity by eliminating its cytoplasmic aggregation
+S000036386	CDS					YLL026W		12	88623	91349	W		2011-02-03	1996-07-31	
+S000118469	ARS		ARS1206		ARSXII-91	chromosome 12		12	91419	91660			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178130	ARS_consensus_sequence					ARS1206		12	91466	91482	W		2014-11-18	2014-11-18	
+S000007064	long_terminal_repeat		YLLCdelta1			chromosome 12		12	92381	92050	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006683	tRNA_gene		tP(UGG)L			chromosome 12	L000003645	12	92548	92650	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
+S000036013	intron					tP(UGG)L		12	92584	92614	W		2011-02-03	2000-05-19	
+S000036011	noncoding_exon					tP(UGG)L		12	92548	92583	W		2011-02-03	2000-05-19	
+S000036012	noncoding_exon					tP(UGG)L		12	92615	92650	W		2011-02-03	2000-05-19	
+S000003948	ORF	Verified	YLL025W	PAU17	seripauperin PAU17	chromosome 12		12	94747	95121	W		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole; YLL025W is not an essential gene
+S000036278	CDS					YLL025W		12	94747	95121	W		2011-02-03	1996-07-31	
+S000003947	ORF	Verified	YLL024C	SSA2	Hsp70 family chaperone SSA2|YG102	chromosome 12	L000002070	12	97485	95566	C		2011-02-03	1996-07-31	HSP70 family ATP-binding protein; involved in protein folding, vacuolar import of proteins; required for ubiquitin-dependent degradation of short-lived proteins; associated with chaperonin-containing T-complex; 98% identical to paralog Ssa1p with distinct functional specificity in propagation of yeast [URE3] prions and vacuolar-mediated degradation of gluconeogenesis enzymes; binds tRNA, has role in tRNA nuclear import during starvation
+S000035290	CDS					YLL024C		12	97485	95566	C		2011-02-03	1996-07-31	
+S000003946	ORF	Verified	YLL023C	POM33	nucleoporin POM33	chromosome 12		12	98836	97997	C		2011-02-03	1996-07-31	Transmembrane nucleoporin; involved in nuclear pore complex (NPC) distribution, assembly or stabilization; highly conserved across species, orthologous to human TMEM33 and paralogous to Per33p; protein abundance increases in response to DNA replication stress
+S000035143	CDS					YLL023C		12	98836	97997	C		2011-02-03	1996-07-31	
+S000003945	ORF	Verified	YLL022C	HIF1		chromosome 12	L000004439	12	100201	99044	C		2011-02-03	1996-07-31	Non-essential component of the HAT-B histone acetyltransferase complex; localized to the nucleus; has a role in telomeric silencing; other members are Hat1p and Hat2p
+S000034956	CDS					YLL022C		12	100201	99044	C		2011-02-03	1996-07-31	
+S000003944	ORF	Verified	YLL021W	SPA2	PPF1|PEA1|FUS6	chromosome 12	L000001989	12	100947	105347	W	-28	2011-02-03	1996-07-31	Component of the polarisome; functions in actin cytoskeletal organization during polarized growth; acts as a scaffold for Mkk1p and Mpk1p cell wall integrity signaling components; potential Cdc28p substrate; coding sequence contains length polymorphisms in different strains; SPA2 has a paralog, SPH1, that arose from the whole genome duplication
+S000034900	CDS					YLL021W		12	100947	105347	W		2011-02-03	1996-07-31	
+S000003943	ORF	Dubious	YLL020C			chromosome 12		12	105861	105556	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene KNS1
+S000033932	CDS					YLL020C		12	105861	105556	C		2011-02-03	1996-07-31	
+S000028670	ORF	Dubious	YLL019W-A			chromosome 12		12	106908	107000	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene KNS1
+S000032516	CDS					YLL019W-A		12	106908	107000	W		2011-02-03	2003-07-29	
+S000003942	ORF	Verified	YLL019C	KNS1	serine/threonine protein kinase KNS1|L124	chromosome 12	L000000910	12	107899	105686	C	-28	2011-02-03	1996-07-31	Protein kinase involved in negative regulation of PolIII transcription; effector kinase of the TOR signaling pathway and phosphorylates Rpc53p to regulate ribosome and tRNA biosynthesis; member of the LAMMER family of protein kinases, which are serine/threonine kinases also capable of phosphorylating tyrosine residues; capable of autophosphorylation
+S000035019	CDS					YLL019C		12	107899	105686	C		2011-02-03	1996-07-31	
+S000007245	ORF	Verified	YLL018C-A	COX19		chromosome 12	L000004848	12	108972	108676	C		2011-02-03	1999-07-17	Protein required for cytochrome c oxidase assembly; located in the cytosol and mitochondrial intermembrane space; putative copper metallochaperone that delivers copper to cytochrome c oxidase; contains twin cysteine-x9-cysteine motifs
+S000037730	CDS					YLL018C-A		12	108972	108676	C		2011-02-03	1999-07-17	
+S000003941	ORF	Verified	YLL018C	DPS1	aspartate--tRNA ligase DPS1|AspRS	chromosome 12	L000002834	12	111575	109902	C		2011-02-03	1996-07-31	Aspartyl-tRNA synthetase, primarily cytoplasmic; homodimeric enzyme that catalyzes the specific aspartylation of tRNA(Asp); class II aminoacyl tRNA synthetase; binding to its own mRNA may confer autoregulation; shares five highly conserved amino acids with human that when mutated cause leukoencephalopathy characterized by hypomyelination with brain stem and spinal cord involvement and leg spasticity (HBSL)
+S000034907	CDS					YLL018C		12	111575	109902	C		2011-02-03	1996-07-31	
+S000003940	pseudogene		YLL017W		Ras family guanine nucleotide exchange factor SDC25|SDC25	chromosome 12	L000002822|L000003262	12	112234	112545	W		2011-02-03	1996-07-31	Non-essential Ras guanine nucleotide exchange factor (GEF); localized to the membrane; expressed in poor nutrient conditions and on nonfermentable carbon sources; contains a stop codon in S288C, full-length gene includes YLL016W; SDC25 has a paralog, CDC25, that arose from the whole genome duplication
+S000034831	CDS					YLL017W		12	112234	112545	W		2011-02-03	1996-07-31	
+S000003939	pseudogene		YLL016W	SDC25	Ras family guanine nucleotide exchange factor SDC25	chromosome 12		12	112847	115993	W	-3	2011-02-03	1996-07-31	Non-essential Ras guanine nucleotide exchange factor (GEF); localized to the membrane; expressed in poor nutrient conditions and on nonfermentable carbon sources; contains a stop codon in S288C, full-length gene includes YLL017W; SDC25 has a paralog, CDC25, that arose from the whole genome duplication
+S000032886	CDS					YLL016W		12	112847	115993	W		2011-02-03	1996-07-31	
+S000003938	ORF	Verified	YLL015W	BPT1	ATP-binding cassette bilirubin transporter BPT1	chromosome 12		12	116432	121111	W		2011-02-03	1996-07-31	ABC type transmembrane transporter of MRP/CFTR family; found in vacuolar membrane, involved in the transport of unconjugated bilirubin and in heavy metal detoxification via glutathione conjugates, along with Ycf1p
+S000032769	CDS					YLL015W		12	116432	121111	W		2011-02-03	1996-07-31	
+S000003937	ORF	Verified	YLL014W	EMC6		chromosome 12		12	121322	121648	W		2011-02-03	1996-07-31	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; homologous to worm F33D4.7/EMC-6, fly CG11781, human TMEM93
+S000032696	CDS					YLL014W		12	121322	121648	W		2011-02-03	1996-07-31	
+S000003936	ORF	Verified	YLL013C	PUF3	mRNA-binding protein PUF3	chromosome 12		12	124714	122075	C		2011-02-03	1996-07-31	Protein of the mitochondrial outer surface; links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation of mRNAs for select nuclear-encoded mitochondrial proteins
+S000031656	CDS					YLL013C		12	124714	122075	C		2011-02-03	1996-07-31	
+S000003935	ORF	Verified	YLL012W	YEH1	sterol esterase	chromosome 12		12	125534	127255	W		2011-02-03	1996-07-31	Steryl ester hydrolase; one of three gene products (Yeh1p, Yeh2p, Tgl1p) responsible for steryl ester hydrolase activity and involved in sterol homeostasis; localized to lipid particle membranes; YEH1 has a paralog, YEH2, that arose from the whole genome duplication
+S000031612	CDS					YLL012W		12	125534	127255	W		2011-02-03	1996-07-31	
+S000003934	ORF	Verified	YLL011W	SOF1	rRNA-processing protein SOF1	chromosome 12	L000001981	12	127523	128992	W		2011-02-03	1996-07-31	Protein required for biogenesis of 40S (small) ribosomal subunit; has similarity to the beta subunit of trimeric G-proteins and the splicing factor Prp4p; essential gene
+S000031493	CDS					YLL011W		12	127523	128992	W		2011-02-03	1996-07-31	
+S000003933	ORF	Verified	YLL010C	PSR1	phosphatase	chromosome 12		12	130613	129330	C		2011-02-03	1996-07-31	Plasma membrane associated protein phosphatase; involved in the general stress response; required along with binding partner Whi2p for full activation of STRE-mediated gene expression, possibly through dephosphorylation of Msn2p; PSR1 has a paralog, PSR2, that arose from the whole genome duplication
+S000030481	CDS					YLL010C		12	130613	129330	C		2011-02-03	1996-07-31	
+S000003932	ORF	Verified	YLL009C	COX17	copper metallochaperone COX17	chromosome 12	L000003085	12	131414	131205	C		2011-02-03	1996-07-31	Copper metallochaperone that transfers copper to Sco1p and Cox11p; eventual delivery to cytochrome c oxidase; contains twin cysteine-x9-cysteine motifs; interacts with the MICOS complex, and interaction is promoted by copper ions; human homolog COX17 partially complements yeast null mutant
+S000030695	CDS					YLL009C		12	131414	131205	C		2011-02-03	1996-07-31	
+S000003931	ORF	Verified	YLL008W	DRS1	putative ATP-dependent RNA helicase	chromosome 12	L000000525	12	131729	133987	W		2011-02-03	1996-07-31	Nucleolar DEAD-box protein required for ribosome assembly and function; including synthesis of 60S ribosomal subunits; constituent of 66S pre-ribosomal particles
+S000030652	CDS					YLL008W		12	131729	133987	W		2011-02-03	1996-07-31	
+S000003930	ORF	Verified	YLL007C	LMO1		chromosome 12		12	136299	134302	C		2011-02-03	1996-07-31	Homolog of mammalian ELMO (Engulfment and celL MOtility); upstream component for regulation through the small GTPase Rho5p; may form a complex with Dck1p that acts as a GEF for Rho5p; cytoplasmic protein that relocates to mitochondria under oxidative stress; implicated in mitophagy; not an essential protein
+S000036717	CDS					YLL007C		12	136299	134302	C		2011-02-03	1996-07-31	
+S000028560	ORF	Uncharacterized	YLL006W-A			chromosome 12		12	136345	136521	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031266	CDS					YLL006W-A		12	136345	136521	W		2011-02-03	2003-07-29	
+S000003929	ORF	Verified	YLL006W	MMM1	ERMES complex subunit MMM1|YME6	chromosome 12	L000001124	12	136586	137866	W		2011-02-03	1996-07-31	ER integral membrane protein, ERMES complex subunit; ERMES links the ER to mitochondria and may promote inter-organellar calcium and phospholipid exchange as well as coordinating mitochondrial DNA replication and growth; required for mitophagy; ERMES complex is often co-localized with peroxisomes and with concentrated areas of pyruvate dehydrogenase
+S000036667	CDS					YLL006W		12	136586	137866	W		2011-02-03	1996-07-31	
+S000130181	ARS		ARS1207			chromosome 12		12	138185	139164			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000003928	ORF	Verified	YLL005C	SPO75		chromosome 12	S000007654	12	140546	137940	C		2011-02-03	1996-07-31	Meiosis-specific protein of unknown function; required for spore wall formation during sporulation; dispensable for both nuclear divisions during meiosis
+S000036535	CDS					YLL005C		12	140546	137940	C		2011-02-03	1996-07-31	
+S000003927	ORF	Verified	YLL004W	ORC3	origin recognition complex subunit 3	chromosome 12	L000003074	12	141073	142923	W		2011-02-03	1996-07-31	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing
+S000036499	CDS					YLL004W		12	141073	142923	W		2011-02-03	1996-07-31	
+S000003926	ORF	Verified	YLL003W	SFI1		chromosome 12	L000003991	12	143201	146041	W		2011-02-03	1996-07-31	Centrin (Cdc31p)-binding protein required for SPB duplication; localizes to the half-bridge of the spindle pole body (SPB); required for progression through G(2)-M transition; phosphorylated by Cdc28p-Clb2p and by Cdc5p; dephosphorylated by Cdc14p; has similarity to Xenopus laevis XCAP-C
+S000035597	CDS					YLL003W		12	143201	146041	W		2011-02-03	1996-07-31	
+S000003925	ORF	Verified	YLL002W	RTT109	H3 histone acetyltransferase RTT109|KAT11|REM50|KIM2	chromosome 12	L000003932	12	146291	147601	W		2011-02-03	1996-07-31	Histone acetyltransferase; critical for cell survival in presence of DNA damage during S phase, required for recovery after DSB repair; acetylates H3K56, H3K9; H3K56 acetylation activity required for expression homeostasis, buffering of mRNA synthesis rate against changes in gene dosage during S phase; involved in non-homologous end joining and regulation of Ty1 transposition; prevents hyper-amplification of rDNA; interacts physically with Vps75p
+S000035504	CDS					YLL002W		12	146291	147601	W		2011-02-03	1996-07-31	
+S000003924	ORF	Verified	YLL001W	DNM1	dynamin-related GTPase DNM1	chromosome 12	L000002645	12	147890	150163	W		2011-02-03	1996-07-31	Dynamin-related GTPase involved in mitochondrial organization; required for mitochondrial fission and inheritance; self assembles on the cytoplasmic face of mitochondrial tubules at sites where division will occur; participates in endocytosis and regulates peroxisome fission along with Vps1p; mutants in the human ortholog DNM1L, which mediates mitochondrial fission, peroxisomal division, autophagy, and mitophagy, are associated with slowly progressive infantile encephalopathy
+S000035377	CDS					YLL001W		12	147890	150163	W		2011-02-03	1996-07-31	
+S000006473	centromere		CEN12	CEN12		chromosome 12	L000000305	12	150947	150828	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome XII centromere
+S000077287	centromere_DNA_Element_I					CEN12		12	150947	150938	C		2011-02-03	2004-10-08	
+S000077288	centromere_DNA_Element_II					CEN12		12	150937	150853	C		2011-02-03	2004-10-08	
+S000077289	centromere_DNA_Element_III					CEN12		12	150852	150828	C		2011-02-03	2004-10-08	
+S000114848	ARS		ARS1208	ARS1208	ARSXII-151|CEN12 ARS	chromosome 12		12	150947	151389			2011-02-03	2006-04-13	Autonomously Replicating Sequence
+S000178131	ARS_consensus_sequence					ARS1208		12	151078	151094	W		2014-11-18	2014-11-18	
+S000003991	ORF	Uncharacterized	YLR001C			chromosome 12		12	153977	151389	C		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; predicted to be palmitoylated
+S000031754	CDS					YLR001C		12	153977	151389	C		2011-02-03	1996-07-31	
+S000003992	ORF	Verified	YLR002C	NOC3		chromosome 12		12	156334	154343	C		2011-02-03	1996-07-31	Subunit of a nuclear complex with Noc2p and pre-replicative complexes; the Noc2p-Noc3p complex binds to 66S ribosomal precursors to mediate their maturation and intranuclear transport; binds to chromatin at active replication origins, and is required for pre-RC formation and maintenance during DNA replication licensing
+S000031944	CDS					YLR002C		12	156334	154343	C		2011-02-03	1996-07-31	
+S000118470	ARS		ARS1209		ARSXII-157	chromosome 12		12	156648	156884			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000003993	ORF	Verified	YLR003C	CMS1		chromosome 12		12	157730	156855	C		2011-02-03	1996-07-31	Putative subunit of the 90S preribosome processome complex; overexpression rescues supressor mutant of mcm10; null mutant is viable; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000032071	CDS					YLR003C		12	157730	156855	C		2011-02-03	1996-07-31	
+S000003994	ORF	Verified	YLR004C	THI73		chromosome 12		12	159505	157934	C		2011-02-03	1996-07-31	Putative plasma membrane permease; proposed to be involved in carboxylic acid uptake and repressed by thiamine; substrate of Dbf2p/Mob1p kinase; transcription is altered if mitochondrial dysfunction occurs
+S000034068	CDS					YLR004C		12	159505	157934	C		2011-02-03	1996-07-31	
+S000003995	ORF	Verified	YLR005W	SSL1	TFIIH/NER complex subunit SSL1	chromosome 12	L000002085	12	160049	161434	W		2011-02-03	1996-07-31	Subunit of the core form of RNA polymerase transcription factor TFIIH; has both protein kinase and DNA-dependent ATPase/helicase activities; essential for transcription and nucleotide excision repair; interacts with Tfb4p
+S000034240	CDS					YLR005W		12	160049	161434	W		2011-02-03	1996-07-31	
+S000003996	ORF	Verified	YLR006C	SSK1	mitogen-activated protein kinase kinase kinase SSK1	chromosome 12	L000002084	12	163893	161755	C		2011-02-03	1996-07-31	Cytoplasmic phosphorelay intermediate osmosensor and regulator; part of a two-component signal transducer that mediates osmosensing via a phosphorelay mechanism; required for mitophagy; dephosphorylated form is degraded by the ubiquitin-proteasome system; potential Cdc28p substrate
+S000034274	CDS					YLR006C		12	163893	161755	C		2011-02-03	1996-07-31	
+S000003997	ORF	Verified	YLR007W	NSE1	Smc5-Smc6 complex subunit NSE1	chromosome 12		12	164392	165402	W		2011-02-03	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair
+S000034350	CDS					YLR007W		12	164392	165402	W		2011-02-03	1996-07-31	
+S000003998	ORF	Verified	YLR008C	PAM18	TIM14	chromosome 12		12	166083	165577	C		2011-02-03	1996-07-31	Subunit of the import motor (PAM complex); the PAM complex is a  component of the Translocase of the Inner Mitochondrial membrane (TIM23 complex); essential J-protein cochaperone that stimulates Ssc1p ATPase activity to drive import; inhibited by Pam16p
+S000034382	CDS					YLR008C		12	166083	165577	C		2011-02-03	1996-07-31	
+S000003999	ORF	Verified	YLR009W	RLP24	ATPase-activating ribosome biosynthesis protein	chromosome 12		12	166537	167136	W		2011-02-03	1996-07-31	Essential protein required for ribosomal large subunit biogenesis; associated with pre-60S ribosomal subunits; stimulates the ATPase activity of Afg2p, which is required for release of Rlp24p from the pre-60S particle; has similarity to Rpl24Ap and Rpl24Bp
+S000035399	CDS					YLR009W		12	166537	167136	W		2011-02-03	1996-07-31	
+S000004000	ORF	Verified	YLR010C	TEN1		chromosome 12		12	167802	167320	C		2011-02-03	1996-07-31	Protein that regulates telomeric length; protects telomeric ends in a complex with Cdc13p and Stn1p; similar to human Ten1 which is critical for the telomeric function of the CST (Cdc13p-Stn1p-Ten1p) complex
+S000034009	CDS					YLR010C		12	167802	167320	C		2011-02-03	1996-07-31	
+S000006728	tRNA_gene		tS(AGA)L			chromosome 12	L000003665	12	168025	167944	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000032403	noncoding_exon					tS(AGA)L		12	168025	167944	C		2011-02-03	2000-05-19	
+S000007079	long_terminal_repeat		YLRCsigma1			chromosome 12		12	168380	168043	C		2011-02-03	2000-05-19	Ty3 LTR
+S000004001	ORF	Verified	YLR011W	LOT6	flavin-dependent quinone reductase	chromosome 12		12	169103	169678	W		2011-02-03	1996-07-31	FMN-dependent NAD(P)H:quinone reductase; role in apoptosis-like cell death; may be involved in quinone detoxification; expression elevated at low temperature; sequesters the Cin5p transcription factor in the cytoplasm in complex with the proteasome under reducing conditions
+S000034963	CDS					YLR011W		12	169103	169678	W		2011-02-03	1996-07-31	
+S000004002	ORF	Uncharacterized	YLR012C			chromosome 12		12	170281	169982	C		2011-02-03	2003-09-22|1996-07-31	Putative protein of unknown function; YLR012C is not an essential gene
+S000035029	CDS					YLR012C		12	170281	169982	C		2011-02-03	2003-09-22|1996-07-31	
+S000004003	ORF	Verified	YLR013W	GAT3		chromosome 12	S000007451	12	171339	171764	W		2011-02-03	1996-07-31	Protein containing GATA family zinc finger motifs; involved in spore wall assembly; sequence similarity to GAT4, and the double mutant gat3 gat4 exhibits reduced dityrosine fluorescence relative to the single mutants
+S000035278	CDS					YLR013W		12	171339	171764	W		2011-02-03	1996-07-31	
+S000004004	ORF	Verified	YLR014C	PPR1		chromosome 12	L000001475	12	174982	172268	C	8	2011-02-03	1996-07-31	Zinc finger transcription factor; contains a Zn(2)-Cys(6) binuclear cluster domain, positively regulates transcription of URA1, URA3, URA4, and URA10, which are involved in de novo pyrimidine biosynthesis, in response to pyrimidine starvation; activity may be modulated by interaction with Tup1p
+S000036111	CDS					YLR014C		12	174982	172268	C		2011-02-03	1996-07-31	
+S000004005	ORF	Verified	YLR015W	BRE2	CPS60	chromosome 12		12	175227	176744	W		2011-02-03	1996-07-31	Subunit of COMPASS (Set1C) complex; COMPASS methylates Lys4 of histone H3 and functions in silencing at telomeres; has a C-terminal Sdc1 Dpy-30 Interaction (SDI) domain that mediates binding to Sdc1p; similar to trithorax-group protein ASH2L
+S000036291	CDS					YLR015W		12	175227	176744	W		2011-02-03	1996-07-31	
+S000004006	ORF	Verified	YLR016C	PML1		chromosome 12		12	177416	176802	C		2011-02-03	1996-07-31	Subunit of the RES complex; RES complex is required for nuclear retention of unspliced pre-mRNAs; acts in the same pathway as Pml39p and Mlp1p
+S000036355	CDS					YLR016C		12	177416	176802	C		2011-02-03	1996-07-31	
+S000004007	ORF	Verified	YLR017W	MEU1	S-methyl-5-thioadenosine phosphorylase	chromosome 12	L000004106	12	177608	178621	W		2011-02-03	1996-07-31	Methylthioadenosine phosphorylase (MTAP); catalyzes the initial step in the methionine salvage pathway; affects polyamine biosynthesis through regulation of ornithine decarboxylase (Spe1p) activity; regulates ADH2 gene expression
+S000030114	CDS					YLR017W		12	177608	178621	W		2011-02-03	1996-07-31	
+S000004008	ORF	Verified	YLR018C	POM34		chromosome 12		12	179606	178707	C		2011-02-03	1996-07-31	Subunit of the transmembrane ring of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport, NPC biogenesis and spindle pole body duplication
+S000030160	CDS					YLR018C		12	179606	178707	C		2011-02-03	1996-07-31	
+S000004009	ORF	Verified	YLR019W	PSR2	putative phosphatase	chromosome 12		12	180288	181481	W		2011-02-03	1996-07-31	Plasma membrane phosphatase involved in the general stress response; required with Psr1p and Whi2p for full activation of STRE-mediated gene expression, possibly through dephosphorylation of Msn2p; PSR2 has a paralog, PSR1, that arose from the whole genome duplication
+S000030375	CDS					YLR019W		12	180288	181481	W		2011-02-03	1996-07-31	
+S000004010	ORF	Verified	YLR020C	YEH2	sterol esterase	chromosome 12		12	183405	181789	C		2011-02-03	1996-07-31	Steryl ester hydrolase; catalyzes steryl ester hydrolysis at the plasma membrane; involved in sterol metabolism; YEH2 has a paralog, YEH1, that arose from the whole genome duplication
+S000029961	CDS					YLR020C		12	183405	181789	C		2011-02-03	1996-07-31	
+S000004011	ORF	Verified	YLR021W	IRC25	DMP2|PBA3|POC3	chromosome 12		12	183623	184162	W		2011-02-03	1996-07-31	Component of a heterodimeric Poc4p-Irc25p chaperone; involved in assembly of alpha subunits into the 20S proteasome; may regulate formation of proteasome isoforms with alternative subunits under different conditions; upregulates proteasome assembly in response to the unfolded protein response activated by mistargeting of proteins (UPRam)
+S000031024	CDS					YLR021W		12	183623	184162	W		2011-02-03	1996-07-31	
+S000004012	ORF	Verified	YLR022C	SDO1	guanine nucleotide exchange factor SDO1	chromosome 12	S000029721	12	184926	184174	C		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for Ria1p; essential protein involved in ribosome maturation; with Ria1p, promotes release of Tif6p from 60S ribosomal subunits in the cytoplasm so that they can assemble with 40S subunits to generate mature ribosomes; ortholog of the human protein (SBDS) responsible for autosomal recessive Shwachman-Bodian-Diamond Syndrome; highly conserved across archaea and eukaryotes
+S000031066	CDS					YLR022C		12	184926	184174	C		2011-02-03	1996-07-31	
+S000004013	ORF	Verified	YLR023C	IZH3		chromosome 12		12	187129	185498	C		2011-02-03	1996-07-31	Membrane protein involved in zinc ion homeostasis; member of the four-protein IZH family, expression induced by zinc deficiency; deletion reduces sensitivity to elevated zinc and shortens lag phase, overexpression reduces Zap1p activity
+S000031203	CDS					YLR023C		12	187129	185498	C		2011-02-03	1996-07-31	
+S000004014	ORF	Verified	YLR024C	UBR2	putative ubiquitin-protein ligase UBR2	chromosome 12		12	193281	187663	C		2011-02-03	1996-07-31|2011-02-03	Cytoplasmic ubiquitin-protein ligase (E3); component of the Mub1p-Ubr2p-Rad6p ubiquitin ligase complex required for the ubiquitination and degradation of Rpn4p; mediates formation of the ternary complex
+S000032202	CDS					YLR024C		12	193281	187663	C		2011-02-03	1996-07-31|2011-02-03	
+S000004015	ORF	Verified	YLR025W	SNF7	ESCRT-III subunit protein SNF7|VPL5|RNS4|VPS32|DID1	chromosome 12	L000001950	12	194452	195174	W	11.4	2011-02-03	1996-07-31	One of four subunits of the ESCRT-III complex; involved in the sorting of transmembrane proteins into the multivesicular body (MVB) pathway; recruited from the cytoplasm to endosomal membranes; ESCRT-III stands for endosomal sorting complex required for transport III
+S000032371	CDS					YLR025W		12	194452	195174	W		2011-02-03	1996-07-31	
+S000004016	ORF	Verified	YLR026C	SED5	t-SNARE syntaxin	chromosome 12	L000001861	12	196472	195450	C		2011-02-03	1996-07-31	cis-Golgi t-SNARE syntaxin; required for vesicular transport between the ER and the Golgi complex; binds at least 9 SNARE proteins
+S000032400	CDS					YLR026C		12	196472	195450	C		2011-02-03	1996-07-31	
+S000004017	ORF	Verified	YLR027C	AAT2	aspartate transaminase AAT2|ASP5	chromosome 12	L000000131|L000002677	12	198085	196829	C	17	2011-02-03	2003-09-22|1996-07-31	Cytosolic aspartate aminotransferase involved in nitrogen metabolism; localizes to peroxisomes in oleate-grown cells
+S000032507	CDS					YLR027C		12	198085	196829	C		2011-02-03	2003-09-22|1996-07-31	
+S000007497	snoRNA_gene		snR30	SNR30		chromosome 12	L000001968	12	198784	199389	W		2011-02-03	2000-05-19|2007-05-09	H/ACA box small nucleolar RNA (snoRNA); essential gene required for cleavage of 35S primary rRNA transcript to release the precursor to the 18S rRNA
+S000036751	noncoding_exon					snR30		12	198784	199389	W		2011-02-03	2000-05-19|2007-05-09	
+S000004018	ORF	Verified	YLR028C	ADE16	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE16	chromosome 12	L000003305	12	201315	199540	C		2011-02-03	1997-07-30|1996-07-31	Enzyme of 'de novo' purine biosynthesis; contains both 5-aminoimidazole-4-carboxamide ribonucleotide transformylase and inosine monophosphate cyclohydrolase activities; ADE16 has a paralog, ADE17, that arose from the whole genome duplication; ade16 ade17 mutants require adenine and histidine
+S000034542	CDS					YLR028C		12	201315	199540	C		2011-02-03	1997-07-30|1996-07-31	
+S000004019	ORF	Verified	YLR029C	RPL15A	eL15|ribosomal 60S subunit protein L15A|L15e|rp15R|YL10|L15A|L13A|RPL10A	chromosome 12	L000002705|L000001710	12	202590	201976	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L15A; binds to 5.8 S rRNA; homologous to mammalian ribosomal protein L15, no bacterial homolog; RPL15A has a paralog, RPL15B, that arose from the whole genome duplication
+S000034631	CDS					YLR029C		12	202590	201976	C		2011-02-03	1996-07-31	
+S000004020	ORF	Uncharacterized	YLR030W			chromosome 12		12	203290	204081	W		2011-02-03	1996-07-31	Putative protein of unknown function; S288C contains an in-frame stop codon between ORFs YLR030W and YLR031W
+S000034152	CDS					YLR030W		12	203290	204081	W		2011-02-03	1996-07-31	
+S000004021	ORF	Uncharacterized	YLR031W			chromosome 12		12	204225	204785	W		2011-02-03	1996-07-31	Putative protein of unknown function; S288C contains an in-frame stop codon between ORFs YLR030W and YLR031W; YLR031W has a paralog, YMR124W, that arose from the whole genome duplication
+S000034277	CDS					YLR031W		12	204225	204785	W		2011-02-03	1996-07-31	
+S000004022	ORF	Verified	YLR032W	RAD5	DNA helicase RAD5|SNM2|REV2	chromosome 12	L000001559	12	204991	208500	W	22	2011-02-03	1996-07-31	DNA helicase/Ubiquitin ligase; involved in error-free DNA damage tolerance (DDT), replication fork regression during postreplication repair by template switching, error-prone translesion synthesis; promotes synthesis of free and PCNA-bound polyubiquitin chains by Ubc13p-Mms2p; forms nuclear foci upon DNA replication stress; associates with native telomeres, cooperates with homologous recombination in senescent cells; human homolog HLTF can complement yeast null mutant
+S000034393	CDS					YLR032W		12	204991	208500	W		2011-02-03	1996-07-31	
+S000004023	ORF	Verified	YLR033W	RSC58		chromosome 12		12	208761	210269	W		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; RSC functions in transcriptional regulation and elongation, chromosome stability, and establishing sister chromatid cohesion; involved in telomere maintenance
+S000035450	CDS					YLR033W		12	208761	210269	W		2011-02-03	1996-07-31	
+S000004024	ORF	Verified	YLR034C	SMF3	putative divalent metal ion transporter SMF3	chromosome 12		12	211933	210512	C		2011-02-03	1996-07-31|2011-02-03	Putative divalent metal ion transporter involved in iron homeostasis; transcriptionally regulated by metal ions; member of the Nramp family of metal transport proteins; protein abundance increases in response to DNA replication stress
+S000035485	CDS					YLR034C		12	211933	210512	C		2011-02-03	1996-07-31|2011-02-03	
+S000004025	ORF	Verified	YLR035C	MLH2	mismatch repair protein MLH2	chromosome 12		12	214456	212369	C		2011-02-03	1996-07-31	Protein involved in mismatch repair and meiotic recombination; only certain frameshift intermediates are mismatch repair substrates; forms a complex with Mlh1p
+S000035575	CDS					YLR035C		12	214456	212369	C		2011-02-03	1996-07-31	
+S000006524	tRNA_gene		tA(UGC)L			chromosome 12	L000003664	12	214955	214883	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
+S000034887	noncoding_exon					tA(UGC)L		12	214955	214883	C		2011-02-03	2000-05-19	
+S000007065	long_terminal_repeat		YLRCdelta2			chromosome 12		12	215417	215080	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007225	transposable_element_gene		YLR035C-A		gag-pol fusion protein	chromosome 12		12	218907	215440	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); YLR035C-A is part of a mutant retrotransposon
+S000034784	CDS					YLR035C-A		12	218907	215440	C		2011-02-03	1999-07-17	
+S000007066	long_terminal_repeat		YLRCdelta3			chromosome 12		12	221005	220668	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007083	long_terminal_repeat		YLRWdelta4			chromosome 12		12	221006	221266	W		2011-02-03	2000-05-19	Ty1 LTR
+S000004026	ORF	Uncharacterized	YLR036C			chromosome 12		12	222132	221521	C		2011-02-03	1996-07-31	Putative protein predicted to have transmembrane domains; interacts with HSP90 by yeast two-hybrid analysis; YLR036C is not an essential protein
+S000035633	CDS					YLR036C		12	222132	221521	C		2011-02-03	1996-07-31	
+S000178132	ARS		ARS1210			chromosome 12		12	222220	222676			2014-11-18	2014-11-18	Autonomously replicating sequence
+S000004027	ORF	Verified	YLR037C	PAU23	seripauperin PAU23|DAN2	chromosome 12		12	223059	222685	C		2011-02-03	1996-07-31	Cell wall mannoprotein; has similarity to Tir1p, Tir2p, Tir3p, and Tir4p; member of the seripauperin multigene family encoded mainly in subtelomeric regions; expressed under anaerobic conditions, completely repressed during aerobic growth
+S000036588	CDS					YLR037C		12	223059	222685	C		2011-02-03	1996-07-31	
+S000004028	ORF	Verified	YLR038C	COX12	cytochrome c oxidase subunit VIb	chromosome 12	L000000396	12	225172	224921	C		2011-02-03	1996-07-31	Subunit VIb of cytochrome c oxidase; cytochrome c oxidase is also known as respiratory Complex IV and is the terminal member of the mitochondrial inner membrane electron transport chain; required for assembly of cytochrome c oxidase but not required for activity after assembly; phosphorylated; easily released from the intermembrane space, suggesting a loose association with Complex IV
+S000036657	CDS					YLR038C		12	225172	224921	C		2011-02-03	1996-07-31	
+S000004029	ORF	Verified	YLR039C	RIC1		chromosome 12	L000001638	12	228596	225426	C		2011-02-03	1996-07-31	Protein involved in retrograde transport to the cis-Golgi network; forms heterodimer with Rgp1p that acts as a GTP exchange factor for Ypt6p; involved in transcription of rRNA and ribosomal protein genes
+S000036750	CDS					YLR039C		12	228596	225426	C		2011-02-03	1996-07-31	
+S000004031	ORF	Dubious	YLR041W			chromosome 12		12	229377	229697	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YLR040C
+S000030478	CDS					YLR041W		12	229377	229697	W		2011-02-03	1996-07-31	
+S000004030	ORF	Verified	YLR040C	AFB1		chromosome 12		12	229582	228908	C		2011-02-03	1996-07-31	MATalpha-specific a-factor blocker; contributes to mating efficiency under certain conditions; localizes to the cell wall; predicted to be a GPI-attached protein; upregulated by Mcm1p-Alpha1p transcription factor; partially overlaps the dubious ORF YLR041W
+S000030256	CDS					YLR040C		12	229582	228908	C		2011-02-03	1996-07-31	
+S000004032	ORF	Verified	YLR042C			chromosome 12		12	230451	229966	C		2011-02-03	1996-07-31	Cell wall protein of unknown function; localizes to the cytoplasm; deletion improves xylose fermentation in industrially engineered strains; YLR042C is not an essential gene
+S000030545	CDS					YLR042C		12	230451	229966	C		2011-02-03	1996-07-31	
+S000118471	ARS		ARS1211		ARSXII-231	chromosome 12		12	231179	231421			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178133	ARS_consensus_sequence					ARS1211		12	231250	231266	W		2014-11-18	2014-11-18	
+S000004033	ORF	Verified	YLR043C	TRX1	thioredoxin TRX1|LMA1	chromosome 12	L000002357	12	232013	231702	C	-7	2011-02-03	1996-07-31	Cytoplasmic thioredoxin isoenzyme; part of thioredoxin system which protects cells against oxidative and reductive stress; forms LMA1 complex with Pbi2p; acts as a cofactor for Tsa1p; required for ER-Golgi transport and vacuole inheritance; with Trx2p, facilitates mitochondrial import of small Tims Tim9p, Tim10p, Tim13p by maintaining them in reduced form; abundance increases iunder DNA replication stress; TRX1 has a paralog, TRX2, that arose from the whole genome duplication
+S000031467	CDS					YLR043C		12	232013	231702	C		2011-02-03	1996-07-31	
+S000004034	ORF	Verified	YLR044C	PDC1	indolepyruvate decarboxylase 1	chromosome 12	L000001354	12	234081	232390	C	-7	2011-02-03	1996-07-31	Major of three pyruvate decarboxylase isozymes; key enzyme in alcoholic fermentation; decarboxylates pyruvate to acetaldehyde; involved in amino acid catabolism; subject to glucose-, ethanol-, and autoregulation; activated by phosphorylation in response to glucose levels; N-terminally propionylated in vivo
+S000031581	CDS					YLR044C		12	234081	232390	C		2011-02-03	1996-07-31	
+S000004035	ORF	Verified	YLR045C	STU2		chromosome 12	L000003019	12	237703	235037	C		2011-02-03	1996-07-31	Microtubule-associated protein (MAP) of the XMAP215/Dis1 family; regulates microtubule dynamics during spindle orientation and metaphase chromosome alignment; interacts with spindle pole body component Spc72p
+S000032584	CDS					YLR045C		12	237703	235037	C		2011-02-03	1996-07-31	
+S000004036	ORF	Uncharacterized	YLR046C		RLA1	chromosome 12		12	238813	238001	C		2011-02-03	1996-07-31	Putative membrane protein; member of the fungal lipid-translocating exporter (LTE) family of proteins; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance; YLR046C has a paralog, RTA1, that arose from the whole genome duplication
+S000032679	CDS					YLR046C		12	238813	238001	C		2011-02-03	1996-07-31	
+S000004037	ORF	Verified	YLR047C	FRE8	putative ferric-chelate reductase	chromosome 12		12	241407	239347	C		2011-02-03	1996-07-31	Protein with sequence similarity to iron/copper reductases; involved in iron homeostasis; deletion mutant has iron deficiency/accumulation growth defects; expression increased in the absence of copper-responsive transcription factor Mac1p
+S000032758	CDS					YLR047C		12	241407	239347	C		2011-02-03	1996-07-31	
+S000004038	ORF	Verified	YLR048W	RPS0B	uS2|ribosomal 40S subunit protein S0B|S2|S0B|YST2|NAB1B	chromosome 12	L000002908	12	242232	243349	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; RPS0B has a paralog, RPS0A, that arose from the whole genome duplication; required for maturation of 18S rRNA along with Rps0Ap; deletion of either RPS0 gene reduces growth rate, deletion of both genes is lethal; homologous to human ribosomal protein SA and bacterial S2
+S000032917	CDS					YLR048W		12	242232	242321	W		2011-02-03	1996-07-31	
+S000032918	CDS					YLR048W		12	242681	243349	W		2011-02-03	1996-07-31	
+S000032919	intron					YLR048W		12	242322	242680	W		2011-02-03	1996-07-31	
+S000004039	ORF	Uncharacterized	YLR049C			chromosome 12		12	245172	243886	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000034828	CDS					YLR049C		12	245172	243886	C		2011-02-03	1996-07-31	
+S000004040	ORF	Uncharacterized	YLR050C			chromosome 12		12	246072	245587	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YLR050C is not an essential gene
+S000033086	CDS					YLR050C		12	246072	245587	C		2011-02-03	1996-07-31	
+S000004041	ORF	Verified	YLR051C	FCF2		chromosome 12		12	246977	246324	C		2011-02-03	1996-07-31	Nucleolar protein involved in the early steps of 35S rRNA processing; interacts with Faf1p; member of a transcriptionally co-regulated set of genes called the RRB regulon; essential gene
+S000033845	CDS					YLR051C		12	246977	246324	C		2011-02-03	1996-07-31	
+S000004042	ORF	Verified	YLR052W	IES3		chromosome 12		12	247201	247953	W		2011-02-03	1996-07-31	Subunit of the INO80 chromatin remodeling complex
+S000034056	CDS					YLR052W		12	247201	247953	W		2011-02-03	1996-07-31	
+S000004043	ORF	Uncharacterized	YLR053C			chromosome 12		12	248426	248100	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000034893	CDS					YLR053C		12	248426	248100	C		2011-02-03	1996-07-31	
+S000004044	ORF	Verified	YLR054C	OSW2		chromosome 12		12	250978	248717	C		2011-02-03	2003-09-27|1996-07-31	Protein of unknown function reputedly involved in spore wall assembly
+S000035045	CDS					YLR054C		12	250860	248717	C		2011-02-03	2003-09-27|1996-07-31	
+S000035044	CDS					YLR054C		12	250978	250948	C		2011-02-03	2003-09-27	
+S000035046	intron					YLR054C		12	250947	250861	C		2011-02-03	2003-09-27	
+S000004045	ORF	Verified	YLR055C	SPT8	SAGA complex subunit SPT8	chromosome 12	L000002034	12	253080	251272	C	30	2011-02-03	1996-07-31	Subunit of the SAGA transcriptional regulatory complex; not present in SAGA-like complex SLIK/SALSA; required for SAGA-mediated inhibition at some promoters
+S000035199	CDS					YLR055C		12	253080	251272	C		2011-02-03	1996-07-31	
+S000004046	ORF	Verified	YLR056W	ERG3	C-5 sterol desaturase|PSO6|SYR1	chromosome 12	L000000570|L000004043	12	253861	254958	W		2011-02-03	1996-07-31	C-5 sterol desaturase; glycoprotein that catalyzes the introduction of a C-5(6) double bond into episterol, a precursor in ergosterol biosynthesis; transcriptionally down-regulated when ergosterol is in excess; mutants are viable, but cannot grow on non-fermentable carbon sources; substrate of HRD ubiquitin ligase; mutation is functionally complemented by human SC5D
+S000036224	CDS					YLR056W		12	253861	254958	W		2011-02-03	1996-07-31	
+S000004047	ORF	Verified	YLR057W	MNL2	putative mannosidase MNL2	chromosome 12		12	255306	257855	W		2011-02-03	1996-07-31	Putative mannosidase involved in ER-associated protein degradation; localizes to the endoplasmic reticulum; sequence similarity with seven-hairpin glycosidase (GH47) family members, such as Mns1p and Mnl1p, that hydrolyze 1,2-linked alpha-D-mannose residues; non-essential gene
+S000036328	CDS					YLR057W		12	255306	257855	W		2011-02-03	1996-07-31	
+S000004048	ORF	Verified	YLR058C	SHM2	glycine hydroxymethyltransferase SHM2|SHMT2	chromosome 12	L000001882	12	259401	257992	C		2011-02-03	1996-07-31	Cytosolic serine hydroxymethyltransferase; converts serine to glycine plus 5,10 methylenetetrahydrofolate; major isoform involved in generating precursors for purine, pyrimidine, amino acid, and lipid biosynthesis
+S000036381	CDS					YLR058C		12	259401	257992	C		2011-02-03	1996-07-31	
+S000004049	ORF	Verified	YLR059C	REX2	YNT20	chromosome 12	L000003035	12	260547	259738	C		2011-02-03	1996-07-31	3'-5' RNA exonuclease; involved in 3'-end processing of U4 and U5 snRNAs, 5S and 5.8S rRNAs, and RNase P and RNase MRP RNA; localized to mitochondria and null suppresses escape of mtDNA to nucleus in yme1 yme2 mutants; RNase D exonuclease
+S000036443	CDS					YLR059C		12	260547	259738	C		2011-02-03	1996-07-31	
+S000004050	ORF	Verified	YLR060W	FRS1	phenylalanine--tRNA ligase subunit beta	chromosome 12	L000000629	12	260979	262766	W		2011-02-03	1996-07-31	Beta subunit of cytoplasmic phenylalanyl-tRNA synthetase; forms a tetramer with Frs2p to generate active enzyme; able to hydrolyze mis-aminoacylated tRNA-Phe, which could contribute to translational quality control
+S000030011	CDS					YLR060W		12	260979	262766	W		2011-02-03	1996-07-31	
+S000004051	ORF	Verified	YLR061W	RPL22A	eL22|ribosomal 60S subunit protein L22A|L22e|rp4|l1c|YL31|L22A	chromosome 12	L000004460	12	263194	263948	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L22A; required for translation of long 5' UTR of IME1 mRNA and meiotic entry; required for the oxidative stress response, pseudohyphal and invasive growth; homologous to mammalian ribosomal protein L22, no bacterial homolog; RPL22A has a paralog, RPL22B, that arose from the whole genome duplication
+S000030138	CDS					YLR061W		12	263194	263205	W		2011-02-03	1996-07-31	
+S000030139	CDS					YLR061W		12	263595	263948	W		2011-02-03	1996-07-31	
+S000030140	intron					YLR061W		12	263206	263594	W		2011-02-03	1996-07-31	
+S000004052	ORF	Dubious	YLR062C	BUD28		chromosome 12		12	263954	263577	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 98% of ORF overlaps the verified gene RPL22A; diploid mutant displays a weak budding pattern phenotype in a systematic assay
+S000031086	CDS					YLR062C		12	263954	263577	C		2011-02-03	1996-07-31	
+S000004053	ORF	Verified	YLR063W	BMT6	25S rRNA (uracil2843-N3)-methyltransferase	chromosome 12		12	264157	265254	W		2011-02-03	1996-07-31	Methyltransferase required for m3U2843 methylation of the 25S rRNA; S-adenosylmethionine-dependent; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLR063W is not an essential gene
+S000031280	CDS					YLR063W		12	264157	265254	W		2011-02-03	1996-07-31	
+S000004054	ORF	Verified	YLR064W	PER33		chromosome 12		12	265456	266277	W		2011-02-03	1996-07-31	Protein that localizes to the endoplasmic reticulum; also associates with the nuclear pore complex; deletion extends chronological lifespan; highly conserved across species, orthologous to human TMEM33 and paralogous to Pom33p; protein abundance increases in response to DNA replication stress
+S000031356	CDS					YLR064W		12	265456	266277	W		2011-02-03	1996-07-31	
+S000004055	ORF	Verified	YLR065C	ENV10	SND2	chromosome 12		12	266918	266373	C		2011-02-03	1996-07-31	Protein involved in SRP-independent targeting of substrates to the ER; component of an alternative ER targeting pathway that has partial functional redundancy with the GET pathway; preference for substrates with downstream transmembrane domains; interacts with Snd1p, Pho88p/Snd3p, and Sec61p-translocon subunits; can compensate for loss of SRP; role in the late endosome-vacuole interface; putative role in secretory protein quality control
+S000031430	CDS					YLR065C		12	266918	266373	C		2011-02-03	1996-07-31	
+S000004056	ORF	Verified	YLR066W	SPC3	signal peptidase complex subunit SPC3	chromosome 12	L000003542|S000029502|L000002875	12	267169	267723	W		2011-02-03	1996-07-31	Subunit of signal peptidase complex; complex catalyzes cleavage of N-terminal signal sequences of proteins targeted to the secretory pathway; homologous to mammalian SPC22/23; other members of the complex are Spc1p, Spc2p, and Sec11p
+S000032483	CDS					YLR066W		12	267169	267723	W		2011-02-03	1996-07-31	
+S000004057	ORF	Verified	YLR067C	PET309		chromosome 12	L000001401	12	270710	267813	C		2011-02-03	1996-07-31	Specific translational activator for the COX1 mRNA; binds to the COX1 mRNA; also influences stability of intron-containing COX1 primary transcripts; localizes to the mitochondrial inner membrane; contains 12 pentatricopeptide repeats (PPRs)
+S000032544	CDS					YLR067C		12	270710	267813	C		2011-02-03	1996-07-31	
+S000004058	ORF	Verified	YLR068W	FYV7		chromosome 12		12	271008	271463	W		2011-02-03	1996-07-31	Essential protein required for maturation of 18S rRNA; required for survival upon exposure to K1 killer toxin
+S000032669	CDS					YLR068W		12	271008	271463	W		2011-02-03	1996-07-31	
+S000004059	ORF	Verified	YLR069C	MEF1		chromosome 12	L000001057	12	273915	271630	C		2011-02-03	1996-07-31	Mitochondrial elongation factor involved in translational elongation
+S000033337	CDS					YLR069C		12	273915	271630	C		2011-02-03	1996-07-31	
+S000004060	ORF	Verified	YLR070C	XYL2	D-xylulose reductase XYL2	chromosome 12		12	275211	274141	C		2011-02-03	1996-07-31	Xylitol dehydrogenase; converts xylitol to D-xylulose; expression induced by xylose, even though this pentose sugar is not well utilized by S. cerevisiae; null mutant has cell wall defect
+S000033430	CDS					YLR070C		12	275211	274141	C		2011-02-03	1996-07-31	
+S000004061	ORF	Verified	YLR071C	RGR1	MED14	chromosome 12	L000001629	12	278626	275378	C	70	2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for glucose repression, HO repression, RME1 repression and sporulation
+S000034340	CDS					YLR071C		12	278626	275378	C		2011-02-03	1996-07-31	
+S000004062	ORF	Verified	YLR072W	LAM6	LTC1	chromosome 12		12	278862	280943	W		2011-02-03	1996-07-31	Sterol transporter that transfers sterols between membranes; may regulate and coordinate formation of contact sites between organelles; localizes to ER-mitochondrial contact sites in a Tom70p- and Tom71p-dependent manner; mitochondrial localization requires GRAM domain; also localizes to ER-vacuole contact sites, in a Vac8p-dependent manner; has GRAM and StART-like (VASt) domains; one of six StART-like domain-containing proteins in yeast; conserved across eukaryotes
+S000034470	CDS					YLR072W		12	278862	280943	W		2011-02-03	1996-07-31	
+S000004063	ORF	Verified	YLR073C	RFU1		chromosome 12		12	281621	281019	C		2011-02-03	1996-07-31	Protein that inhibits Doa4p deubiquitinating activity; contributes to ubiquitin homeostasis by regulating the conversion of free ubiquitin chains to ubiquitin monomers by Doa4p; GFP-fusion protein localizes to endosomes
+S000034520	CDS					YLR073C		12	281621	281019	C		2011-02-03	1996-07-31	
+S000004064	ORF	Verified	YLR074C	BUD20		chromosome 12		12	282456	281956	C		2011-02-03	1996-07-31	C2H2-type zinc finger protein required for ribosome assembly; shuttling factor which associates with pre-60S particles in the nucleus, accompanying them to the cytoplasm; cytoplasmic dissociation of Bud20p requires Drg1p; N-terminus harbors a nuclear localization signal (NLS) and a nuclear export signal (NES); cytoplasmic Bud20p is reimported by Kap123-dependent pathway; involved in bud-site selection; diploid mutants display a random budding pattern; similar to human ZNF593
+S000035544	CDS					YLR074C		12	282456	281956	C		2011-02-03	1996-07-31	
+S000004065	ORF	Verified	YLR075W	RPL10	uL16|ribosomal 60S subunit protein L10|L16|L10|QSR1|GRC5	chromosome 12	L000000727	12	282927	283592	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L10; homologous to mammalian ribosomal protein L10 and bacterial L16; responsible for joining the 40S and 60S subunits; regulates translation initiation; similar to members of the QM gene family; protein abundance increases under DNA replication stress; mutations in human homolog implicated in T-cell acute lymphoblastic leukemia and also autism spectrum disorders (ASD); human RPL10 can complement yeast null mutant
+S000035684	CDS					YLR075W		12	282927	283592	W		2011-02-03	1996-07-31	
+S000004066	ORF	Dubious	YLR076C			chromosome 12		12	283607	283185	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the essential gene RPL10 which encodes the ribosomal protein L10
+S000035729	CDS					YLR076C		12	283607	283185	C		2011-02-03	1996-07-31	
+S000004067	ORF	Verified	YLR077W	FMP25	BCA1	chromosome 12		12	283872	285623	W		2011-02-03	1996-07-31	Protein required for assembly of respiratory complex III; mitochondrial inner membrane protein; required for an early step in assembly of respiratory complex III (cytochrome bc1 complex); mRNA is targeted to mitochondria
+S000036693	CDS					YLR077W		12	283872	285623	W		2011-02-03	1996-07-31	
+S000004068	ORF	Verified	YLR078C	BOS1	SEC32	chromosome 12	L000000192	12	286559	285736	C		2011-02-03	1996-07-31	v-SNARE (vesicle specific SNAP receptor); localized to the endoplasmic reticulum membrane and necessary for vesicular transport from the ER to the Golgi; required for efficient nuclear fusion during mating
+S000036710	CDS					YLR078C		12	286467	285736	C		2011-02-03	1996-07-31	
+S000036709	CDS					YLR078C		12	286559	286557	C		2011-02-03	1996-07-31	
+S000036711	intron					YLR078C		12	286556	286468	C		2011-02-03	1996-07-31	
+S000004069	ORF	Verified	YLR079W	SIC1	BYC1|cyclin-dependent protein serine/threonine kinase inhibiting protein SIC1|SDB25	chromosome 12	L000001886|L000001822	12	286820	287674	W		2011-02-03	1996-07-31	Cyclin-dependent kinase inhibitor (CKI); inhibitor of Cdc28-Clb kinase complexes that controls G1/S phase transition, preventing premature S phase and ensuring genomic integrity; phosphorylated by Clb5/6-Cdk1 and Cln1/2-Cdk1 kinase which regulate timing of Sic1p degradation; phosphorylation targets Sic1p for SCF(CDC4)-dependent turnover; functional homolog of mammalian Kip1
+S000036800	CDS					YLR079W		12	286820	287674	W		2011-02-03	1996-07-31	
+S000004070	ORF	Verified	YLR080W	EMP46		chromosome 12		12	287916	289250	W		2011-02-03	1996-07-31	Integral membrane component of ER-derived COPII-coated vesicles; functions in ER to Golgi transport; EMP46 has a paralog, EMP47, that arose from the whole genome duplication
+S000037384	CDS					YLR080W		12	287916	289250	W		2011-02-03	1996-07-31	
+S000118472	ARS		ARS1212		ARSXII-289	chromosome 12		12	289315	289444			2014-11-18	2014-11-18|2006-08-30	Late-firing chromosomal replication origin
+S000178134	ARS_consensus_sequence					ARS1212		12	289422	289406	C		2014-11-18	2014-11-18	
+S000004071	ORF	Verified	YLR081W	GAL2	galactose permease GAL2	chromosome 12	L000000659	12	290212	291936	W	44	2011-02-03	1996-07-31	Galactose permease; required for utilization of galactose; also able to transport glucose
+S000037506	CDS					YLR081W		12	290212	291936	W		2011-02-03	1996-07-31	
+S000004072	ORF	Verified	YLR082C	SRL2		chromosome 12	L000004670	12	293572	292394	C		2011-02-03	1996-07-31	Protein of unknown function; overexpression suppresses the lethality caused by a rad53 null mutation
+S000037548	CDS					YLR082C		12	293572	292394	C		2011-02-03	1996-07-31	
+S000004073	ORF	Verified	YLR083C	EMP70	TMN1|p24a	chromosome 12	L000000550	12	296094	294091	C		2011-02-03	1996-07-31	Protein with a role in cellular adhesion and filamentous growth; also endosome-to-vacuole sorting; similar to Tmn3p; member of Transmembrane Nine family of proteins with 9 transmembrane segments; EMP70 has a paralog, TMN2, that arose from the whole genome duplication
+S000030358	CDS					YLR083C		12	296094	294091	C		2011-02-03	1996-07-31	
+S000004074	ORF	Verified	YLR084C	RAX2		chromosome 12		12	300251	296589	C		2011-02-03	1996-07-31	N-glycosylated protein; involved in the maintenance of bud site selection during bipolar budding; localization requires Rax1p; RAX2 mRNA stability is regulated by Mpt5p
+S000030482	CDS					YLR084C		12	300251	296589	C		2011-02-03	1996-07-31	
+S000004075	ORF	Verified	YLR085C	ARP6		chromosome 12	L000003435	12	301989	300673	C		2011-02-03	1996-07-31	Actin-related protein that binds nucleosomes; a component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A
+S000030596	CDS					YLR085C		12	301989	300673	C		2011-02-03	1996-07-31	
+S000004076	ORF	Verified	YLR086W	SMC4	condensin subunit SMC4	chromosome 12	L000003472	12	302243	306499	W		2011-02-03	1996-07-31	Subunit of the condensin complex; condensin reorganizes chromosomes during both mitosis and meiosis; forms a subcomplex with Smc2p that has ATP-hydrolyzing and DNA-binding activity, but other condensin subunits are required for chromatin binding; required for tRNA gene clustering at the nucleolus; potential Cdc28p substrate
+S000031513	CDS					YLR086W		12	302243	306499	W		2011-02-03	1996-07-31	
+S000004077	ORF	Verified	YLR087C	CSF1		chromosome 12		12	315731	306855	C		2011-02-03	1996-07-31	Protein required for fermentation at low temperature; plays a role in the maturation of secretory proteins; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000031547	CDS					YLR087C		12	315731	306855	C		2011-02-03	1996-07-31	
+S000004078	ORF	Verified	YLR088W	GAA1	GPI-anchor transamidase subunit GAA1|END2	chromosome 12	L000000557	12	316107	317951	W		2011-02-03	1996-07-31	Subunit of the GPI:protein transamidase complex; removes the GPI-anchoring signal and attaches GPI (glycosylphosphatidylinositol) to proteins in the ER; human homolog GPAA1 can complement growth defects of yeast thermosensitive mutant at restrictive temperature
+S000031702	CDS					YLR088W		12	316107	317951	W		2011-02-03	1996-07-31	
+S000004079	ORF	Verified	YLR089C	ALT1	alanine transaminase ALT1	chromosome 12		12	320015	318237	C		2011-02-03	1996-07-31	Alanine transaminase (glutamic pyruvic transaminase); involved in alanine biosynthesis and catabolism; TOR1-independent role in determining chronological lifespan; expression is induced in the presence of alanine; repression is mediated by Nrg1p; ALT1 has a paralog, ALT2, that arose from the whole genome duplication; Alt2p is catalytically inactive
+S000031709	CDS					YLR089C		12	320015	318237	C		2011-02-03	1996-07-31	
+S000004080	ORF	Verified	YLR090W	XDJ1		chromosome 12	L000002487	12	320701	322080	W		2011-02-03	1996-07-31	Chaperone with a role in facilitating mitochondrial protein import; ascomycete-specific member of the DnaJ-like family, closely related to Ydj1p; predicted to be C-terminally prenylated; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000032708	CDS					YLR090W		12	320701	322080	W		2011-02-03	1996-07-31	
+S000004081	ORF	Verified	YLR091W	GEP5	RRG5	chromosome 12		12	322297	323178	W		2011-02-03	1996-07-31	Protein of unknown function; required for mitochondrial genome maintenance; detected in highly purified mitochondria in high-throughput studies; null mutant has decreased levels of cardiolipin and phosphatidylethanolamine
+S000032790	CDS					YLR091W		12	322297	323178	W		2011-02-03	1996-07-31	
+S000004082	ORF	Verified	YLR092W	SUL2	sulfate permease	chromosome 12	L000003473	12	323544	326225	W		2011-02-03	1996-07-31	High affinity sulfate permease; sulfate uptake is mediated by specific sulfate transporters Sul1p and Sul2p, which control the concentration of endogenous activated sulfate intermediates
+S000033523	CDS					YLR092W		12	323544	326225	W		2011-02-03	1996-07-31	
+S000004083	ORF	Verified	YLR093C	NYV1	MAM2	chromosome 12	L000004690	12	327415	326513	C		2011-02-03	2000-07-14|1996-07-31	v-SNARE component of the vacuolar SNARE complex; involved in vesicle fusion; inhibits ATP-dependent Ca(2+) transport activity of Pmc1p in the vacuolar membrane
+S000033559	CDS					YLR093C		12	327258	326513	C		2011-02-03	2000-07-14|1996-07-31	
+S000033558	CDS					YLR093C		12	327415	327400	C		2011-02-03	2000-07-14	
+S000033560	intron					YLR093C		12	327399	327259	C		2011-02-03	2000-07-14	
+S000004084	ORF	Verified	YLR094C	GIS3		chromosome 12	L000004863	12	329238	327730	C		2011-02-03	1996-07-31	Protein of unknown function
+S000033649	CDS					YLR094C		12	329238	327730	C		2011-02-03	1996-07-31	
+S000004085	ORF	Verified	YLR095C	IOC2		chromosome 12		12	332115	329677	C		2011-02-03	1996-07-31	Subunit of the Isw1b complex; exhibits nucleosome-stimulated ATPase activity and acts within coding regions to coordinate transcription elongation with termination and processing; contains a PHD finger motif; other complex members are Isw1p and Ioc4p
+S000033765	CDS					YLR095C		12	332115	329677	C		2011-02-03	1996-07-31	
+S000004086	ORF	Verified	YLR096W	KIN2	serine/threonine protein kinase KIN2	chromosome 12	L000000902	12	332590	336033	W		2011-02-03	1996-07-31	Serine/threonine protein kinase involved in regulation of exocytosis; localizes to the cytoplasmic face of the plasma membrane; KIN2 has a paralog, KIN1, that arose from the whole genome duplication
+S000034747	CDS					YLR096W		12	332590	336033	W		2011-02-03	1996-07-31	
+S000004087	ORF	Verified	YLR097C	HRT3	SCF ubiquitin ligase complex subunit HRT3	chromosome 12		12	337265	336231	C		2011-02-03	1996-07-31	Putative SCF-ubiquitin ligase F-box protein; based on both genetic and physical interactions and sequence similarity; identified in association with Cdc53p, Skp1p and Ubi4 in large and small-scale studies
+S000034800	CDS					YLR097C		12	337265	336231	C		2011-02-03	1996-07-31	
+S000004088	ORF	Verified	YLR098C	CHA4	SIL3|SIL2	chromosome 12	L000002854	12	339473	337527	C		2011-02-03	1996-07-31	DNA binding transcriptional activator; mediates serine/threonine activation of the catabolic L-serine (L-threonine) deaminase (CHA1); Zinc-finger protein with Zn[2]-Cys[6] fungal-type binuclear cluster domain
+S000034932	CDS					YLR098C		12	339473	337527	C		2011-02-03	1996-07-31	
+S000004089	ORF	Verified	YLR099C	ICT1	lysophosphatidic acid acyltransferase ICT1	chromosome 12		12	340928	339744	C		2011-02-03	1996-07-31	Lysophosphatidic acid acyltransferase; responsible for enhanced phospholipid synthesis during organic solvent stress; null displays increased sensitivity to Calcofluor white; highly expressed during organic solvent stress; ICT1 has a paralog, ECM18, that arose from the whole genome duplication; human ABHD5 can complement ict1 null mutant
+S000035852	CDS					YLR099C		12	340928	339744	C		2011-02-03	1996-07-31	
+S000007618	ORF	Verified	YLR099W-A	MIM2		chromosome 12		12	341325	341588	W		2011-02-03	2001-02-26	Mitochondrial protein required for outer membrane protein import; involved in import of the subset of proteins with multiple alpha-helical transmembrane segments, including Ugo1p, Tom20p, and Fzo1p; component of a large protein complex in the outer membrane that includes Mim1p; not essential in W303 strain background
+S000037216	CDS					YLR099W-A		12	341325	341588	W		2011-02-03	2001-02-26	
+S000004090	ORF	Verified	YLR100W	ERG27	3-keto-steroid reductase	chromosome 12		12	341810	342853	W		2011-02-03	1996-07-31	3-keto sterol reductase; catalyzes the last of three steps required to remove two C-4 methyl groups from an intermediate in ergosterol biosynthesis; mutants are sterol auxotrophs; mutation is functionally complemented by human HSD17B7
+S000033168	CDS					YLR100W		12	341810	342853	W		2011-02-03	1996-07-31	
+S000004091	ORF	Dubious	YLR101C			chromosome 12		12	342961	342566	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified, essential ORF ERG27/YLR100W
+S000033199	CDS					YLR101C		12	342961	342566	C		2011-02-03	1996-07-31	
+S000178135	ARS		ARS1212.5			chromosome 12		12	343577	344032			2014-11-18	2014-11-18	Strong autonomously replicating sequence
+S000178136	ARS_consensus_sequence					ARS1212.5		12	343855	343871	W		2014-11-18	2014-11-18	
+S000004092	ORF	Verified	YLR102C	APC9	anaphase promoting complex subunit 9	chromosome 12	L000004321	12	343767	342970	C		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition
+S000033261	CDS					YLR102C		12	343767	342970	C		2011-02-03	1996-07-31	
+S000004093	ORF	Verified	YLR103C	CDC45	DNA replication initiation factor CDC45|SLD4	chromosome 12	L000003380	12	345941	343989	C		2011-02-03	1996-07-31	DNA replication initiation factor; recruited to MCM pre-RC complexes at replication origins; promotes release of MCM from Mcm10p, recruits elongation machinery; binds tightly to ssDNA, which disrupts interaction with the MCM helicase and stalls it during replication stress; mutants in human homolog may cause velocardiofacial and DiGeorge syndromes
+S000033319	CDS					YLR103C		12	345941	343989	C		2011-02-03	1996-07-31	
+S000004094	ORF	Uncharacterized	YLR104W	LCL2		chromosome 12		12	346585	346980	W		2011-02-03	1996-07-31	Putative protein of unknown function; mutant is deficient in cell wall mannosylphosphate and has long chronological lifespan; genetic interactions suggest a role in ER-associated protein degradation (ERAD); SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
+S000034290	CDS					YLR104W		12	346585	346980	W		2011-02-03	1996-07-31	
+S000004095	ORF	Verified	YLR105C	SEN2	tRNA splicing endonuclease subunit SEN2	chromosome 12	L000001863	12	348180	347047	C		2011-02-03	1996-07-31	Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease (Sen complex) is composed of Sen2p, Sen15p, Sen34p, and Sen54p; Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface; Sen2p contains the active site for tRNA 5' splice site cleavage and has similarity to Sen34p and to Archaeal tRNA splicing endonuclease;
+S000034355	CDS					YLR105C		12	348180	347047	C		2011-02-03	1996-07-31	
+S000007313	snoRNA_gene		snR79	SNR79	Z9	chromosome 12	L000004807	12	348510	348427	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position C1007
+S000031838	noncoding_exon					snR79		12	348510	348427	C		2011-02-03	2000-05-19	
+S000004096	ORF	Verified	YLR106C	MDN1	AAA family ATPase midasin|REA1	chromosome 12	S000028419	12	363738	349006	C		2011-02-03	1996-07-31	Huge dynein-related AAA-type ATPase (midasin); forms extended pre-60S particle with the Rix1 complex (Rix1p-Ipi1p-Ipi3p); acts in removal of ribosomal biogenesis factors at successive steps of pre-60S assembly and export from nucleus
+S000035344	CDS					YLR106C		12	363738	349006	C		2011-02-03	1996-07-31	
+S000004097	ORF	Verified	YLR107W	REX3	RNA exonuclease	chromosome 12		12	364116	365330	W		2011-02-03	1996-07-31	RNA exonuclease; required for maturation of the RNA component of RNase MRP; functions redundantly with Rnh70p and Rex2p in processing of U5 snRNA and RNase P RNA; member of RNase D family of exonucleases
+S000035537	CDS					YLR107W		12	364116	365330	W		2011-02-03	1996-07-31	
+S000007067	long_terminal_repeat		YLRCdelta5			chromosome 12		12	366144	365810	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006494	snRNA_gene		snR6	SNR6	U6	chromosome 12	L000001961	12	366235	366346	W		2011-02-03	2000-05-19	U6 spliceosomal RNA (U6 snRNA); mediates catalysis of pre-mRNA splicing by the spliceosome; interacts with U4; homology to U6 snRNA, interacts with snr14
+S000034320	noncoding_exon					snR6		12	366235	366346	W		2011-02-03	2000-05-19	
+S000004098	ORF	Verified	YLR108C			chromosome 12		12	368124	366667	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YLR108C is not an esssential gene; protein abundance increases in response to DNA replication stress; YLR108C has a paralog, YDR132C, that arose from the whole genome duplication
+S000035581	CDS					YLR108C		12	368124	366667	C		2011-02-03	1996-07-31	
+S000004099	ORF	Verified	YLR109W	AHP1	thioredoxin peroxidase AHP1|cTPxIII	chromosome 12	S000007480	12	368781	369311	W		2011-02-03	1996-07-31	Thiol-specific peroxiredoxin; reduces hydroperoxides to protect against oxidative damage; function in vivo requires covalent conjugation to Urm1p
+S000036533	CDS					YLR109W		12	368781	369311	W		2011-02-03	1996-07-31	
+S000004100	ORF	Verified	YLR110C	CCW12		chromosome 12		12	370098	369697	C		2011-02-03	1996-07-31	Cell wall mannoprotein; plays a role in maintenance of newly synthesized areas of cell wall; localizes to periphery of small buds, septum region of larger buds, and shmoo tip; CCW12 has a paralog, YDR134C, that arose from the whole genome duplication
+S000037291	CDS					YLR110C		12	370098	369697	C		2011-02-03	1996-07-31	
+S000004101	ORF	Dubious	YLR111W			chromosome 12		12	370391	370723	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037464	CDS					YLR111W		12	370391	370723	W		2011-02-03	1996-07-31	
+S000004102	ORF	Dubious	YLR112W			chromosome 12		12	370791	371210	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030153	CDS					YLR112W		12	370791	371210	W		2011-02-03	1996-07-31	
+S000004103	ORF	Verified	YLR113W	HOG1	mitogen-activated protein kinase HOG1|SSK3	chromosome 12	L000000797	12	371620	372927	W		2011-02-03	1996-07-31	Mitogen-activated protein kinase involved in osmoregulation; controls global reallocation of RNAPII during osmotic shock; mediates recruitment/activation of RNAPII at Hot1p-dependent promoters; binds calmodulin; stimulates antisense transcription to activate CDC28; defines novel S-phase checkpoint with Mrc1p that prevent replication/transcription conflicts; nuclear form represses pseudohyphal growth; autophosphorylates; protein abundance increases under DNA replication stress
+S000030351	CDS					YLR113W		12	371620	372927	W		2011-02-03	1996-07-31	
+S000118473	ARS		ARS1213		ARSXII-373	chromosome 12		12	373254	373332			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000007095	long_terminal_repeat		YLRWsigma2			chromosome 12		12	373999	374338	W		2011-02-03	2000-05-19	Ty3 LTR
+S000006704	tRNA_gene		tR(ACG)L			chromosome 12	L000003646	12	374355	374427	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000030443	noncoding_exon					tR(ACG)L		12	374355	374427	W		2011-02-03	2000-05-19	
+S000004104	ORF	Verified	YLR114C	AVL9		chromosome 12	S000029049|S000029007	12	377238	374944	C		2011-02-03	1996-07-31	Conserved protein involved in exocytic transport from the Golgi; mutation is synthetically lethal with apl2 vps1 double mutation; member of a protein superfamily with orthologs in diverse organisms; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000030429	CDS					YLR114C		12	377238	374944	C		2011-02-03	1996-07-31	
+S000004105	ORF	Verified	YLR115W	CFT2	cleavage polyadenylation factor subunit CFT2|YDH1	chromosome 12	L000003599	12	377985	380564	W		2011-02-03	1996-07-31	Subunit of the mRNA cleavage and polyadenlylation factor (CPF); required for pre-mRNA cleavage, polyadenylation and poly(A) site recognition, 43% similarity with the mammalian CPSF-100 protein.
+S000031398	CDS					YLR115W		12	377985	380564	W		2011-02-03	1996-07-31	
+S000004106	ORF	Verified	YLR116W	MSL5	mRNA splicing protein MSL5|BBP	chromosome 12	L000004109	12	380822	382252	W		2011-02-03	1996-07-31	Component of commitment complex; which defines first step in splicing pathway; essential protein that interacts with Mud2p and Prp40p, forming a bridge between the intron ends; also involved in nuclear retention of pre-mRNA; relocalizes to the cytosol in response to hypoxia
+S000031525	CDS					YLR116W		12	380822	382252	W		2011-02-03	1996-07-31	
+S000004107	ORF	Verified	YLR117C	CLF1	NTC77|SYF3	chromosome 12	L000004628	12	384534	382471	C		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; homolog of Drosophila crooked neck protein; interacts with U1 snRNP proteins
+S000031606	CDS					YLR117C		12	384534	382471	C		2011-02-03	1996-07-31	
+S000130182	ARS		ARS1214			chromosome 12		12	384534	384725			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000004108	ORF	Verified	YLR118C		palmitoyl-(protein) hydrolase|APT1	chromosome 12		12	385408	384725	C		2011-02-03	1996-07-31	Acyl-protein thioesterase responsible for depalmitoylation of Gpa1p; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and nucleus and is induced in response to the DNA-damaging agent MMS
+S000032586	CDS					YLR118C		12	385408	384725	C		2011-02-03	1996-07-31	
+S000004109	ORF	Verified	YLR119W	SRN2	ESCRT-I subunit protein SRN2|VPL16|VPS37|SRN10	chromosome 12	L000003103	12	385534	386175	W		2011-02-03	1996-07-31	Component of the ESCRT-I complex; ESCRT-I is involved in ubiquitin-dependent sorting of proteins into the endosome; suppressor of rna1-1 mutation; may be involved in RNA export from nucleus
+S000032725	CDS					YLR119W		12	385534	386175	W		2011-02-03	1996-07-31	
+S000004110	ORF	Verified	YLR120C	YPS1	aspartyl protease|YAP3	chromosome 12	L000002491	12	388220	386511	C		2011-02-03	1996-07-31	Aspartic protease; hyperglycosylated member of the yapsin family of proteases, attached to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor; involved in nutrient limitation-induced cleavage of the extracellular inhibitory domain of signaling mucin Msb2p, resulting in activation of the filamentous growth MAPK pathway; involved with other yapsins in the cell wall integrity response; role in KEX2-independent processing of the alpha factor precursor
+S000032796	CDS					YLR120C		12	388220	386511	C		2011-02-03	1996-07-31	
+S000028674	ORF	Dubious	YLR120W-A			chromosome 12		12	388672	388773	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YLR121C
+S000032521	CDS					YLR120W-A		12	388672	388773	W		2011-02-03	2003-07-29	
+S000004111	ORF	Verified	YLR121C	YPS3	aspartyl protease|YPS4	chromosome 12	L000004383	12	390270	388744	C		2011-02-03	1996-07-31	Aspartic protease; member of the yapsin family of proteases involved in cell wall growth and maintenance; attached to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor
+S000032903	CDS					YLR121C		12	390270	388744	C		2011-02-03	1996-07-31	
+S000004112	ORF	Dubious	YLR122C			chromosome 12		12	391331	390954	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR123C
+S000033010	CDS					YLR122C		12	391331	390954	C		2011-02-03	1996-07-31	
+S000004113	ORF	Dubious	YLR123C			chromosome 12		12	391407	391078	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR122C; contains characteristic aminoacyl-tRNA motif
+S000033100	CDS					YLR123C		12	391407	391078	C		2011-02-03	1996-07-31	
+S000004114	ORF	Dubious	YLR124W			chromosome 12		12	391600	391944	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033902	CDS					YLR124W		12	391600	391944	W		2011-02-03	1996-07-31	
+S000004115	ORF	Uncharacterized	YLR125W			chromosome 12		12	393484	393894	W		2011-02-03	1996-07-31	Putative protein of unknown function; mutant has decreased Ty3 transposition; YLR125W is not an essential gene
+S000034058	CDS					YLR125W		12	393484	393894	W		2011-02-03	1996-07-31	
+S000004116	ORF	Verified	YLR126C		putative amidotransferase	chromosome 12		12	395520	394765	C		2011-02-03	1996-07-31	Putative glutamine amidotransferase; has Aft1p-binding motif in the promoter; may be involved in copper and iron homeostasis; YLR126C is not an essential protein; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
+S000034899	CDS					YLR126C		12	395520	394765	C		2011-02-03	1996-07-31	
+S000004117	ORF	Verified	YLR127C	APC2	anaphase promoting complex subunit 2|TID2|RSI1	chromosome 12	L000003970|L000004348	12	398319	395758	C		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; component of the catalytic core of the APC/C; has similarity to cullin Cdc53p
+S000035048	CDS					YLR127C		12	398319	395758	C		2011-02-03	1996-07-31	
+S000004118	ORF	Verified	YLR128W	DCN1	NEDD8 ligase DCN1	chromosome 12		12	398530	399433	W		2011-02-03	1996-07-31	Scaffold-type E3 ligase; required for cullin neddylation and ubiquitin ligase activation; contains a ubiquitin-binding domain (UBA) for ubiquitin and Nedd8 (Rub1p) interaction and a PONY domain involved in cullin binding and neddylation
+S000035287	CDS					YLR128W		12	398530	398532	W		2011-02-03	1996-07-31	
+S000035288	CDS					YLR128W		12	398627	399433	W		2011-02-03	1996-07-31	
+S000035289	intron					YLR128W		12	398533	398626	W		2011-02-03	1996-07-31	
+S000004119	ORF	Verified	YLR129W	DIP2	snoRNA-binding rRNA-processing protein DIP2|UTP12	chromosome 12	L000003088	12	399657	402488	W		2011-02-03	1996-07-31	Nucleolar protein; specifically associated with the U3 snoRNA, part of the large ribonucleoprotein complex known as the small subunit (SSU) processome, required for 18S rRNA biogenesis, part of the active pre-rRNA processing complex
+S000036230	CDS					YLR129W		12	399657	402488	W		2011-02-03	1996-07-31	
+S000004120	ORF	Verified	YLR130C	ZRT2	low-affinity Zn(2+) transporter ZRT2	chromosome 12	L000004167	12	404062	402794	C		2011-02-03	1996-07-31	Low-affinity zinc transporter of the plasma membrane; transcription is induced under low-zinc conditions by the Zap1p transcription factor
+S000037080	CDS					YLR130C		12	404062	402794	C		2011-02-03	1996-07-31	
+S000004121	ORF	Verified	YLR131C	ACE2	DNA-binding transcription factor ACE2	chromosome 12	L000000020	12	406822	404510	C		2011-02-03	1996-07-31	Transcription factor required for septum destruction after cytokinesis; phosphorylation by Cbk1p blocks nuclear exit during M/G1 transition, causing localization to daughter cell nuclei, and also increases Ace2p activity; phosphorylation by Cdc28p and Pho85p prevents nuclear import during cell cycle phases other than cytokinesis; part of RAM network that regulates cellular polarity and morphogenesis; ACE2 has a paralog, SWI5, that arose from the whole genome duplication
+S000037197	CDS					YLR131C		12	406822	404510	C		2011-02-03	1996-07-31	
+S000004122	ORF	Verified	YLR132C	USB1	phosphoric diester hydrolase	chromosome 12		12	408155	407283	C		2011-02-03	1996-07-31	Putative poly(U)-specific 3'-to-5' RNA exonuclease; involved in 3'-end processing of U6 snRNA removing uridines and generating a terminal 2′,3′ cyclic phosphate; essential protein that localizes to the nucleus and mitochondria; overexpression suppresses the respiratory defects of oxa1 and mtf2 mutants; homolog of S.pombe gene, mpn1 and human gene, hUSB1; mutations in hUSB1 are associated with a rare genodermatosis, poikiloderma with neutropenia (OMIM 604173)
+S000037305	CDS					YLR132C		12	408155	407283	C		2011-02-03	1996-07-31	
+S000004123	ORF	Verified	YLR133W	CKI1	bifunctional choline kinase/ethanolamine kinase CKI1	chromosome 12	L000000346	12	408445	410193	W		2011-02-03	1996-07-31	Choline kinase; catalyzes the first step in phosphatidylcholine synthesis via the CDP-choline (Kennedy pathway); exhibits some ethanolamine kinase activity contributing to phosphatidylethanolamine synthesis via the CDP-ethanolamine pathway; CKI1 has a paralog, EKI1, that arose from the whole genome duplication
+S000030014	CDS					YLR133W		12	408445	410193	W		2011-02-03	1996-07-31	
+S000004124	ORF	Verified	YLR134W	PDC5	indolepyruvate decarboxylase 5	chromosome 12	L000001356	12	410723	412414	W		2011-02-03	1996-07-31	Minor isoform of pyruvate decarboxylase; key enzyme in alcoholic fermentation, decarboxylates pyruvate to acetaldehyde, regulation is glucose- and ethanol-dependent, repressed by thiamine, involved in amino acid catabolism
+S000030184	CDS					YLR134W		12	410723	412414	W		2011-02-03	1996-07-31	
+S000118474	ARS		ARS1215		ARSXII-413	chromosome 12		12	412686	412893			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000004125	ORF	Verified	YLR135W	SLX4		chromosome 12		12	413281	415527	W		2011-02-03	1996-07-31	Endonuclease involved in processing DNA; acts during recombination, repair; promotes template switching during break-induced replication (BIR), causing non-reciprocal translocations (NRTs); cleaves branched structures in complex with Slx1p; involved in interstrand cross-link repair, Rad1p/Rad10p-dependent removal of 3'-nonhomologous tails during DSBR via single-strand annealing; relative distribution to nuclear foci increases upon DNA replication stress; FANCP-related factor
+S000031127	CDS					YLR135W		12	413281	415527	W		2011-02-03	1996-07-31	
+S000004126	ORF	Verified	YLR136C	TIS11	CTH2	chromosome 12	L000002895	12	416658	415801	C		2011-02-03	1996-07-31	mRNA-binding protein expressed during iron starvation; binds to a sequence element in the 3'-untranslated regions of specific mRNAs to mediate their degradation; involved in iron homeostasis; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; TIS11 has a paralog, CTH1, that arose from the whole genome duplication
+S000031183	CDS					YLR136C		12	416658	415801	C		2011-02-03	1996-07-31	
+S000004127	ORF	Verified	YLR137W	RKM5	S-adenosylmethionine-dependent methyltransferase	chromosome 12		12	417006	418109	W		2011-02-03	1996-07-31	Protein lysine methyltransferase; monomethylates Lys-46 of the ribosomal large subunit Rpl1a/Rpl1b; member of the seven beta-strand methyltransferase superfamily; orthologs only found among fungal species
+S000031387	CDS					YLR137W		12	417006	418109	W		2011-02-03	1996-07-31	
+S000004128	ORF	Verified	YLR138W	NHA1		chromosome 12	L000004113	12	418437	421394	W		2011-02-03	1996-07-31	Na+/H+ antiporter; involved in sodium and potassium efflux through the plasma membrane; required for alkali cation tolerance at acidic pH
+S000032374	CDS					YLR138W		12	418437	421394	W		2011-02-03	1996-07-31	
+S000004129	ORF	Verified	YLR139C	SLS1		chromosome 12	L000002656	12	423473	421542	C		2011-02-03	1996-07-31	Mitochondrial membrane protein; coordinates expression of mitochondrially-encoded genes; may facilitate delivery of mRNA to membrane-bound translation machinery
+S000032442	CDS					YLR139C		12	423473	421542	C		2011-02-03	1996-07-31	
+S000004130	ORF	Dubious	YLR140W			chromosome 12		12	423474	423800	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps essential RRN5 gene which encodes a member of the UAF transcription factor involved in transcription of rDNA by RNA polymerase I
+S000033242	CDS					YLR140W		12	423474	423800	W		2011-02-03	1996-07-31	
+S000004131	ORF	Verified	YLR141W	RRN5		chromosome 12	L000003261	12	423683	424774	W		2011-02-03	1996-07-31	Protein involved in transcription of rDNA by RNA polymerase I; transcription factor, member of UAF (upstream activation factor) family along with Rrn9p and Rrn10p
+S000033304	CDS					YLR141W		12	423683	424774	W		2011-02-03	1996-07-31	
+S000004132	ORF	Verified	YLR142W	PUT1	proline dehydrogenase	chromosome 12	L000001535	12	425186	426616	W	73	2011-02-03	1996-07-31	Proline oxidase; nuclear-encoded mitochondrial protein involved in utilization of proline as sole nitrogen source; PUT1 transcription is induced by Put3p in the presence of proline and the absence of a preferred nitrogen source
+S000033371	CDS					YLR142W		12	425186	426616	W		2011-02-03	1996-07-31	
+S000006541	tRNA_gene		tD(GUC)L1			chromosome 12	L000003647	12	427132	427203	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000031841	noncoding_exon					tD(GUC)L1		12	427132	427203	W		2011-02-03	2000-05-19	
+S000004133	ORF	Verified	YLR143W	DPH6	diphthine--ammonia ligase	chromosome 12		12	427329	429386	W		2011-02-03	1996-07-31	Diphthamide synthetase; catalyzes the last amidation step of diphthamide biosynthesis using ammonium and ATP; evolutionarily conserved in eukaryotes; dph6 mutants exhibit diphthine accumulation and resistance to sordarin, which is indicative of defects in diphthamide formation on EF2; green fluorescent protein (GFP)-tagged protein localizes to the cytoplasm; DPH6/YLR143W is not an essential gene
+S000034284	CDS					YLR143W		12	427329	429386	W		2011-02-03	1996-07-31	
+S000004134	ORF	Verified	YLR144C	ACF2	PCA1|ENG2	chromosome 12	L000004011	12	432016	429677	C		2011-02-03	1996-07-31	Intracellular beta-1,3-endoglucanase; expression is induced during sporulation; may have a role in cortical actin cytoskeleton assembly; protein abundance increases in response to DNA replication stress
+S000034344	CDS					YLR144C		12	432016	429677	C		2011-02-03	1996-07-31	
+S000004135	ORF	Verified	YLR145W	RMP1		chromosome 12		12	432168	432773	W		2011-02-03	1996-07-31	Subunit of RNase MRP; RNase MRP processes pre-rRNA and has a role in cell cycle-regulated degradation of daughter cell-specific mRNAs; unlike most subunits, not shared between RNase MRP and nuclear RNase P
+S000034472	CDS					YLR145W		12	432168	432773	W		2011-02-03	1996-07-31	
+S000004136	ORF	Verified	YLR146C	SPE4	spermine synthase	chromosome 12	L000004341	12	433725	432823	C		2011-02-03	1996-07-31	Spermine synthase; required for the biosynthesis of spermine and also involved in biosynthesis of pantothenic acid
+S000034521	CDS					YLR146C		12	433725	432823	C		2011-02-03	1996-07-31	
+S000113566	ORF	Uncharacterized	YLR146W-A			chromosome 12		12	433870	434058	W		2011-02-03	2005-11-17	Putative protein of unknown function
+S000113567	CDS					YLR146W-A		12	433870	434058	W		2011-02-03	2005-11-17	
+S000004137	ORF	Verified	YLR147C	SMD3	mRNA splicing protein SMD3|Sm D3|SLT16	chromosome 12	L000001929	12	434463	434158	C		2011-02-03	1996-07-31	Core Sm protein Sm D3; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Sme1p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm D3
+S000035546	CDS					YLR147C		12	434463	434158	C		2011-02-03	1996-07-31	
+S000004138	ORF	Verified	YLR148W	PEP3	tethering complex subunit PEP3|VPT18|VPS18|VAM8	chromosome 12	L000001374|L000002473	12	434641	437397	W	91	2011-02-03	1996-07-31	Component of CORVET membrane tethering complex; vacuolar peripheral membrane protein that promotes vesicular docking/fusion reactions in conjunction with SNARE proteins, required for vacuolar biogenesis
+S000035686	CDS					YLR148W		12	434641	437397	W		2011-02-03	1996-07-31	
+S000004139	ORF	Verified	YLR149C			chromosome 12		12	439823	437631	C		2011-02-03	1996-07-31	Protein of unknown function; overexpression causes a cell cycle delay or arrest; null mutation results in a decrease in plasma membrane electron transport; YLR149C is not an essential gene; protein abundance increases in response to DNA replication stress
+S000035734	CDS					YLR149C		12	439823	437631	C		2011-02-03	1996-07-31	
+S000007619	ORF	Dubious	YLR149C-A			chromosome 12		12	440456	440370	C		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037217	CDS					YLR149C-A		12	440456	440370	C		2011-02-03	2001-02-26	
+S000004140	ORF	Verified	YLR150W	STM1	MPT4	chromosome 12	L000002574	12	440467	441288	W		2011-02-03	1996-07-31	Protein required for optimal translation under nutrient stress; perturbs association of Yef3p with ribosomes; involved in TOR signaling; binds G4 quadruplex and purine motif triplex nucleic acid; helps maintain telomere structure; protein abundance increases in response to DNA replication stress; serves as a ribosome preservation factor both during quiescence and recovery
+S000036485	CDS					YLR150W		12	440467	441288	W		2011-02-03	1996-07-31	
+S000004141	ORF	Verified	YLR151C	PCD1	8-oxo-dGTP diphosphatase	chromosome 12		12	442737	441715	C		2011-02-03	1996-07-31	8-oxo-dGTP diphosphatase; prevents spontaneous mutagenesis via sanitization of oxidized purine nucleoside triphosphates; can also act as peroxisomal pyrophosphatase with specificity for coenzyme A and CoA derivatives, may function to remove potentially toxic oxidized CoA disulfide from peroxisomes to maintain the capacity for beta-oxidation of fatty acids; nudix hydrolase family member; similar E. coli MutT and human, rat and mouse MTH1
+S000036493	CDS					YLR151C		12	442737	441715	C		2011-02-03	1996-07-31	
+S000004142	ORF	Uncharacterized	YLR152C			chromosome 12		12	444688	442958	C		2011-02-03	1996-07-31	Putative protein of unknown function; YLR152C is not an essential gene
+S000036614	CDS					YLR152C		12	444688	442958	C		2011-02-03	1996-07-31	
+S000004143	ORF	Verified	YLR153C	ACS2	acetate--CoA ligase ACS2	chromosome 12	L000003111	12	447575	445524	C		2011-02-03	1996-07-31	Acetyl-coA synthetase isoform; along with Acs1p, acetyl-coA synthetase isoform is the nuclear source of acetyl-coA for histone acetylation; mutants affect global transcription; required for growth on glucose; expressed under anaerobic conditions
+S000036713	CDS					YLR153C		12	447575	445524	C		2011-02-03	1996-07-31	
+S000004144	ORF	Verified	YLR154C	RNH203	Rnh2C	chromosome 12		12	448314	447982	C		2011-02-03	1996-07-31	Ribonuclease H2 subunit; required for RNase H2 activity; role in ribonucleotide excision repair; related to human AGS3 that causes Aicardi-Goutieres syndrome
+S000037436	CDS					YLR154C		12	448314	447982	C		2011-02-03	1996-07-31	
+S000006699	tRNA_gene		tQ(UUG)L			chromosome 12	L000003663	12	448721	448650	C		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000032585	noncoding_exon					tQ(UUG)L		12	448721	448650	C		2011-02-03	2000-05-19	
+S000007084	long_terminal_repeat		YLRWdelta6			chromosome 12		12	448842	449028	W		2011-02-03	2000-05-19	Ty1 LTR
+S000118475	ARS		ARS1216		ARSXII-451	chromosome 12		12	450485	450725			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178137	ARS_consensus_sequence					ARS1216		12	450506	450522	W		2014-11-18	2014-11-18	
+S000029718	rRNA_gene		ETS2-1	ETS2-1	3' ETS	chromosome 12		12	451785	451575	C		2011-02-03	2004-03-04	Non-coding region located adjacent to and downstream of RDN25; transcribed as part of the 35S rRNA precursor transcript; contains the primary rRNA transcription termination site at +93 and a secondary termination site between +211 and +250
+S000036854	external_transcribed_spacer_region					ETS2-1		12	451785	451575	C		2011-02-03	2004-03-04	
+S000028675	ORF	Dubious	YLR154W-A		YLR154W-C	chromosome 12		12	452438	452623	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; encoded within the 25S rRNA gene on the opposite strand
+S000032525	CDS					YLR154W-A		12	452438	452623	W		2011-02-03	2003-07-29	
+S000028563	ORF	Dubious	YLR154W-B			chromosome 12		12	454392	454556	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; encoded within the 25S rRNA gene on the opposite strand
+S000031269	CDS					YLR154W-B		12	454392	454556	W		2011-02-03	2003-07-29	
+S000028422	ORF	Verified	YLR154W-C	TAR1	YLR154W-A	chromosome 12	S000007646	12	454696	455070	W		2011-02-03	2002-06-20	Protein potentially involved in regulation of respiratory metabolism; located in the mitochondria; interacts genetically with RPO41 and physically with Coq5p; encoded within the 25S rRNA gene on the opposite strand
+S000029958	CDS					YLR154W-C		12	454696	455070	W		2011-02-03	2002-06-20	
+S000006484	rRNA_gene		RDN25-1	RDN25-1	26S rRNA|RDN25	chromosome 12		12	455181	451786	C		2011-02-03	2000-05-19	25S ribosomal RNA (25S rRNA); component of the large (60S) ribosomal subunit; encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript; formed by endonucleolytic cleavage at the C2 site of internal transcribed spacer 2 (ITS2)
+S000032318	noncoding_exon					RDN25-1		12	455181	451786	C		2011-02-03	2000-05-19	
+S000029716	rRNA_gene		ITS2-1	ITS2-1	ITS2	chromosome 12		12	455413	455182	C		2011-02-03	2004-03-04	Non-coding region between RDN58 and RDN25; transcribed as part of the 35S rRNA precursor transcript; forms a stem-loop structure that is required for processing of the precursor transcript
+S000036852	internal_transcribed_spacer_region					ITS2-1		12	455413	455182	C		2011-02-03	2004-03-04	
+S000028676	ORF	Dubious	YLR154W-E			chromosome 12		12	455433	455636	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; encoded within the 35S rRNA gene on the opposite strand
+S000032527	CDS					YLR154W-E		12	455433	455636	W		2011-02-03	2003-07-29	
+S000006488	rRNA_gene		RDN58-1	RDN58-1	RDN58	chromosome 12		12	455571	455414	C		2011-02-03	2000-05-19	5.8S ribosomal RNA (5.8S rRNA); component of the large (60S) ribosomal subunit; encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript; 3' end formation involves processing by the exosome complex while 5' end is generated by Kem1p and Rat1p
+S000033911	noncoding_exon					RDN58-1		12	455571	455414	C		2011-02-03	2000-05-19	
+S000028843	ORF	Dubious	YLR154W-F			chromosome 12		12	455883	456023	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; encoded within the 35S rRNA gene on the opposite strand
+S000034528	CDS					YLR154W-F		12	455883	456023	W		2011-02-03	2003-07-29	
+S000029715	rRNA_gene		ITS1-1	ITS1-1	ITS1	chromosome 12		12	455932	455572	C		2011-02-03	2004-03-04	Non-coding region between RDN58 and RDN18; transcribed as part of the 35S rRNA precursor transcript; excision during transcript maturation is coupled with processing of the 3' external transcribed spacer (3'ETS)
+S000036841	internal_transcribed_spacer_region					ITS1-1		12	455932	455572	C		2011-02-03	2004-03-04	
+S000006482	rRNA_gene		RDN18-1	RDN18-1	RDN18	chromosome 12		12	457732	455933	C		2011-02-03	2000-05-19	18S ribosomal RNA (18S rRNA); component of the small (40S) ribosomal subunit; involved in codon recognition by tRNAs or the release factor eRF1 (Sup45p); encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript
+S000033329	noncoding_exon					RDN18-1		12	457732	455933	C		2011-02-03	2000-05-19	
+S000006486	rRNA_gene		RDN37-1	RDN37-1	RDN37	chromosome 12		12	458432	451575	C		2011-02-03	1997-07-30	35S ribosomal RNA (35S rRNA) transcript; encoded by the RDN1 locus; processed into the 25S, 18S and 5.8S rRNAs (represented by the RDN25, RDN18, and RDN58 loci)
+S000032929	external_transcribed_spacer_region					RDN37-1		12	451785	451575	C		2011-02-03	2000-05-19	
+S000032923	external_transcribed_spacer_region					RDN37-1		12	458432	457733	C		2011-02-03	2000-05-19	
+S000032927	internal_transcribed_spacer_region					RDN37-1		12	455413	455182	C		2011-02-03	2000-05-19	
+S000032925	internal_transcribed_spacer_region					RDN37-1		12	455932	455572	C		2011-02-03	2000-05-19	
+S000032928	noncoding_exon					RDN37-1		12	455181	451786	C		2011-02-03	2000-05-19	
+S000032926	noncoding_exon					RDN37-1		12	455571	455414	C		2011-02-03	2000-05-19	
+S000032924	noncoding_exon					RDN37-1		12	457732	455933	C		2011-02-03	2000-05-19	
+S000029717	rRNA_gene		ETS1-1	ETS1-1	5' ETS	chromosome 12		12	458432	457733	C		2011-02-03	2004-03-04	Non-coding region located immediately upstream of RDN18; transcribed as part of the 35S rRNA precursor transcript; contains an essential U3 snoRNA binding site required for maturation of 18S rRNA
+S000036853	external_transcribed_spacer_region					ETS1-1		12	458432	457733	C		2011-02-03	2004-03-04	
+S000120636	ARS		ARS1200-1		ARSXII-459|ARS1216.5|rDNA ARS	chromosome 12		12	458991	459097			2011-02-03	2007-02-06	Chromosomal origin of bidirectional DNA replication; an rDNA ARS is presumed to be present in each tandem rDNA repeat, but fewer than one-third of the rDNA ARSs are actually used as replication origins in a given S phase
+S000120639	ARS_consensus_sequence					ARS1200-1		12	459088	459078	C		2011-02-03	2007-02-06	
+S000029329	rRNA_gene		NTS2-1	NTS2-1		chromosome 12	L000003944	12	459675	458433	C		2011-02-03	2003-12-09	Nontranscribed region of the rDNA repeat; located between RND5 and the 5'ETS; contains RNA polymerase I termination site
+S000032460	non_transcribed_region					NTS2-1		12	459675	458433	C		2011-02-03	2003-12-09	
+S000006479	rRNA_gene		RDN5-1	RDN5-1	MOF9|RDN5	chromosome 12	L000004821|S000029304	12	459676	459796	W		2011-02-03	2000-05-19	5S ribosomal RNA (5S rRNA); only complete sequence of 6 repeated RDN5 alleles; able to support viability when provided as sole form of 5S rRNA; component of the large (60S) ribosomal subunit; localized to the nucleolus via interaction with Rpl5p; may play a role in translational frame fidelity; transcription is mediated by PolIII and activated by TFIIIA and TFIIIE
+S000031406	noncoding_exon					RDN5-1		12	459676	459796	W		2011-02-03	2000-05-19	
+S000029714	rRNA_gene		NTS1-2	NTS1-2	NTS1	chromosome 12		12	460711	459797	C		2011-02-03	2004-03-04	Non-transcribed region of the rDNA repeat between the 3' ETS and RDN5; required for rDNA repeat expansion
+S000036840	non_transcribed_region					NTS1-2		12	460711	459797	C		2011-02-03	2004-03-04	
+S000029713	rRNA_gene		ETS2-2	ETS2-2	3' ETS	chromosome 12		12	460922	460712	C		2011-02-03	2004-03-04	Non-coding region located adjacent to RDN25; transcribed as part of the 35S rRNA precursor transcript; contains the primary rRNA transcription termination site at +93 and a secondary termination site between +211 and +250
+S000036839	external_transcribed_spacer_region					ETS2-2		12	460922	460712	C		2011-02-03	2004-03-04	
+S000028561	ORF	Uncharacterized	YLR154C-G			chromosome 12		12	462671	462522	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; this ORF is contained within RDN25-2 and RDN37-2
+S000031267	CDS					YLR154C-G		12	462671	462522	C		2011-02-03	2003-07-29	
+S000006485	rRNA_gene		RDN25-2	RDN25-2	26S rRNA|RDN25	chromosome 12		12	464318	460923	C		2011-02-03	2000-05-19	25S ribosomal RNA (25S rRNA); component of the large (60S) ribosomal subunit; encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript; formed by endonucleolytic cleavage at the C2 site of internal transcribed spacer 2 (ITS2)
+S000032336	noncoding_exon					RDN25-2		12	464318	460923	C		2011-02-03	2000-05-19	
+S000029712	rRNA_gene		ITS2-2	ITS2-2	ITS2	chromosome 12		12	464550	464319	C		2011-02-03	2004-03-04	Non-coding region between RDN58 and RDN25; transcribed as part of the 35S rRNA precursor transcript; forms a stem-loop structure required for processing of the precursor transcript
+S000036837	internal_transcribed_spacer_region					ITS2-2		12	464550	464319	C		2011-02-03	2004-03-04	
+S000006489	rRNA_gene		RDN58-2	RDN58-2	RDN58	chromosome 12		12	464708	464551	C		2011-02-03	2000-05-19	5.8S ribosomal RNA (5.8S rRNA); component of the large (60S) ribosomal subunit; encoded in the rDNA repeat (RDN1)
+S000033912	noncoding_exon					RDN58-2		12	464708	464551	C		2011-02-03	2000-05-19	
+S000029709	rRNA_gene		ITS1-2	ITS1-2	ITS1	chromosome 12		12	465069	464709	C		2011-02-03	2004-03-04	Non-coding region between RDN58 and RDN18; transcribed as part of the 35S rRNA precursor transcript; excision during transcript maturation is coupled with processing of the 3' external transcribed spacer (3' ETS)
+S000036833	internal_transcribed_spacer_region					ITS1-2		12	465069	464709	C		2011-02-03	2004-03-04	
+S000006483	rRNA_gene		RDN18-2	RDN18-2	RDN18	chromosome 12		12	466869	465070	C		2011-02-03	2000-05-19	18S ribosomal RNA (18S rRNA); component of the small (40S) ribosomal subunit; involved in codon recognition by tRNAs or the release factor eRF1 (Sup45p); encoded in the rDNA repeat (RDN1) as part of the 35S primary transcript
+S000033332	noncoding_exon					RDN18-2		12	466869	465070	C		2011-02-03	2000-05-19	
+S000006487	rRNA_gene		RDN37-2	RDN37-2	RDN37	chromosome 12		12	467569	460712	C		2011-02-03	1997-07-30	35S ribosomal RNA (35S rRNA) transcript; encoded by the RDN1 locus; processed into the 25S, 18S and 5.8S rRNAs (represented by the RDN25, RDN18, and RDN58 loci)
+S000032939	external_transcribed_spacer_region					RDN37-2		12	460922	460712	C		2011-02-03	2000-05-19	
+S000032933	external_transcribed_spacer_region					RDN37-2		12	467569	466870	C		2011-02-03	2000-05-19	
+S000032937	internal_transcribed_spacer_region					RDN37-2		12	464550	464319	C		2011-02-03	2000-05-19	
+S000032935	internal_transcribed_spacer_region					RDN37-2		12	465069	464709	C		2011-02-03	2000-05-19	
+S000032938	noncoding_exon					RDN37-2		12	464318	460923	C		2011-02-03	2000-05-19	
+S000032936	noncoding_exon					RDN37-2		12	464708	464551	C		2011-02-03	2000-05-19	
+S000032934	noncoding_exon					RDN37-2		12	466869	465070	C		2011-02-03	2000-05-19	
+S000029707	rRNA_gene		ETS1-2	ETS1-2	5' ETS	chromosome 12		12	467569	466870	C		2011-02-03	2004-03-04	Non-coding region located immediately upstream of RDN18; transcribed as part of the 35S rRNA precursor transcript; contains an essential U3 snoRNA binding site required for maturation of 18S rRNA
+S000036830	external_transcribed_spacer_region					ETS1-2		12	467569	466870	C		2011-02-03	2004-03-04	
+S000120655	ARS		ARS1200-2		ARSXII-468|rDNA ARS	chromosome 12		12	468128	468234			2011-02-03	2007-02-06	Chromosomal origin of bidirectional DNA replication; an rDNA ARS is presumed to be present in each tandem rDNA repeat, but fewer than one-third of the rDNA ARSs are actually used as replication origins in a given S phase
+S000120656	ARS_consensus_sequence					ARS1200-2		12	468225	468215	C		2011-02-03	2007-02-06	
+S000029706	rRNA_gene		NTS2-2	NTS2-2	NTS2	chromosome 12		12	468812	467570	C		2011-02-03	2004-03-04	Non-transcribed region of the rDNA repeat; located between RDN5 and the 5' ETS
+S000036829	non_transcribed_region					NTS2-2		12	468812	467570	C		2011-02-03	2004-03-04	
+S000006480	rRNA_gene		RDN5-2	RDN5-2	RDN5	chromosome 12		12	468813	468931	W		2011-02-03	1997-07-30	Variant 5S ribosomal rRNA (5S rRNA) gene; located within the RDN1 locus; unable to support cell viability when provided as sole source of 5S rRNA; identical in sequence to variant alleles RDN5-3, RDN5-4, and RDN5-5
+S000031412	noncoding_exon					RDN5-2		12	468813	468931	W		2011-02-03	2000-05-19	
+S000028562	ORF	Uncharacterized	YLR154C-H			chromosome 12		12	468958	468827	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; this ORF partially overlaps RDN5-2; YLR154C-H has a paralog, YLR157C-C, that arose from a segmental duplication
+S000031268	CDS					YLR154C-H		12	468958	468827	C		2011-02-03	2003-07-29	
+S000004145	ORF	Verified	YLR155C	ASP3-1	asparaginase ASP3-1|ASP3	chromosome 12	L000000130	12	470405	469317	C		2011-02-03	1996-07-31	Cell-wall L-asparaginase II involved in asparagine catabolism; expression induced during nitrogen starvation; ORF contains a short non-coding RNA that enhances expression of full-length gene; likely arose in via horizontal gene transfer from the wine yeast Wickerhamomyces anomalus or a close relative; reference strain S288C has four copies of ASP3; ASP3-1 has a paralog, ASP3-3, that arose from a segmental duplication
+S000037563	CDS					YLR155C		12	470405	469317	C		2011-02-03	1996-07-31	
+S000004146	ORF	Uncharacterized	YLR156W			chromosome 12		12	472113	472457	W		2011-02-03	1996-07-31	Putative protein of unknown function; exhibits a two-hybrid interaction with Jsn1p in a large-scale analysis; YLR156W has a paralog, YLR159W, that arose from a segmental duplication
+S000030409	CDS					YLR156W		12	472113	472457	W		2011-02-03	1996-07-31	
+S000006481	rRNA_gene		RDN5-3	RDN5-3	RDN5	chromosome 12		12	472465	472583	W		2011-02-03	1997-07-30	Variant 5S ribosomal RNA (5S rRNA) gene; located at a site distal to the RDN1 locus; unable to support cell viability when provided as sole source of 5S rRNA; identical in sequence to variant alleles RDN5-2, RDN5-4, and RDN5-5
+S000031417	noncoding_exon					RDN5-3		12	472465	472583	W		2011-02-03	2000-05-19	
+S000028564	ORF	Uncharacterized	YLR156C-A			chromosome 12		12	472610	472479	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; partially overlaps RND5-3; YLR156C-A has a paralog, YLR159C-A, that arose from a segmental duplication
+S000031270	CDS					YLR156C-A		12	472610	472479	C		2011-02-03	2003-07-29	
+S000004147	ORF	Verified	YLR157C	ASP3-2	asparaginase ASP3-2|ASP3	chromosome 12		12	474057	472969	C		2011-02-03	1996-07-31	Cell-wall L-asparaginase II involved in asparagine catabolism; expression induced during nitrogen starvation; ORF contains a short non-coding RNA that enhances expression of full-length gene; likely arose in via horizontal gene transfer from the wine yeast Wickerhamomyces anomalus or a close relative; reference strain S288C has four copies of ASP3; ASP3-2 has a paralog, ASP3-4, that arose from a segmental duplication
+S000030487	CDS					YLR157C		12	474057	472969	C		2011-02-03	1996-07-31	
+S000028677	ORF	Uncharacterized	YLR157W-D		YLR157W-A	chromosome 12		12	475764	475976	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; YLR157W-D has a paralog, YLR161W, that arose from a segmental duplication
+S000032531	CDS					YLR157W-D		12	475764	475976	W		2011-02-03	2003-07-29	
+S000007068	long_terminal_repeat		YLRCdelta7			chromosome 12		12	476310	475976	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007374	transposable_element_gene		YLR157C-B		gag-pol fusion protein	chromosome 12		12	481601	476333	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000035905	CDS					YLR157C-B		12	480295	476333	C		2011-02-03	1999-07-17	
+S000035904	CDS					YLR157C-B		12	481601	480297	C		2011-02-03	1999-07-17	
+S000035906	plus_1_translational_frameshift					YLR157C-B		12	480296	480296	C		2011-02-03	1999-07-17	
+S000007373	transposable_element_gene		YLR157C-A		gag protein	chromosome 12		12	481601	480279	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000035900	CDS					YLR157C-A		12	481601	480279	C		2011-02-03	1999-07-17	
+S000028678	ORF	Uncharacterized	YLR157W-E		YLR157W-B|YLR157W-C	chromosome 12		12	481873	482037	W		2011-02-03	2003-07-29	Putative protein of unknown function identified by gene-trapping; microarray-based expression analysis, and genome-wide homology searching; partially overlaps a Ty1 element
+S000032535	CDS					YLR157W-E		12	481873	482037	W		2011-02-03	2003-07-29	
+S000007081	LTR_retrotransposon		YLRCTy1-1		Ty1	chromosome 12		12	481897	475976	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007069	long_terminal_repeat		YLRCdelta8			chromosome 12		12	481897	481563	C		2011-02-03	2000-05-19	Ty1 LTR
+S000029708	rRNA_gene		RDN5-4	RDN5-4	RDN5	chromosome 12		12	482045	482163	W		2011-02-03	2004-03-04	Variant 5S ribosomal rRNA (5S rRNA) gene; located at a site distal to the RDN1 locus; unable to support cell viability when provided as sole source of 5S rRNA; identical in sequence to variant alleles RDN5-2, RDN5-3, and RDN5-5
+S000036831	noncoding_exon					RDN5-4		12	482045	482163	W		2011-02-03	2004-03-04	
+S000028565	ORF	Uncharacterized	YLR157C-C			chromosome 12		12	482190	482059	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; this ORF partially overlaps RDN5-4; YLR157C-C has a paralog, YLR154C-H, that arose from a segmental duplication
+S000031271	CDS					YLR157C-C		12	482190	482059	C		2011-02-03	2003-07-29	
+S000004148	ORF	Verified	YLR158C	ASP3-3	asparaginase ASP3-3|ASP3	chromosome 12		12	483637	482549	C		2011-02-03	1996-07-31	Cell-wall L-asparaginase II involved in asparagine catabolism; expression induced during nitrogen starvation; ORF contains a short non-coding RNA that enhances expression of full-length gene; likely arose in via horizontal gene transfer from the wine yeast Wickerhamomyces anomalus or a close relative; reference strain S288C has four copies of ASP3; ASP3-3 has a paralog, ASP3-1, that arose from a segmental duplication
+S000030598	CDS					YLR158C		12	483637	482549	C		2011-02-03	1996-07-31	
+S000004149	ORF	Uncharacterized	YLR159W			chromosome 12		12	485345	485689	W		2011-02-03	1996-07-31	Putative protein of unknown function; YLR156W, YLR159W, and YLR161W are three identical open reading frames in S288C encoded near the ribosomal DNA region of chromosome 12; YLR159W has a paralog, YLR156W, that arose from a segmental duplication
+S000031528	CDS					YLR159W		12	485345	485689	W		2011-02-03	1996-07-31	
+S000029710	rRNA_gene		RDN5-5	RDN5-5	RDN5	chromosome 12		12	485697	485815	W		2011-02-03	2004-03-04	Variant 5S ribosomal rRNA (5S rRNA) gene; located at a site distal to the RDN1 locus; unable to support cell viability when provided as sole source of 5S rRNA; identical in sequence to variant alleles RDN5-2, RDN5-3, and RDN5-4
+S000036834	noncoding_exon					RDN5-5		12	485697	485815	W		2011-02-03	2004-03-04	
+S000028566	ORF	Uncharacterized	YLR159C-A			chromosome 12		12	485842	485711	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; partially overlaps RND5-5; YLR159C-A has a paralog, YLR156C-A, that arose from a segmental duplication
+S000031272	CDS					YLR159C-A		12	485842	485711	C		2011-02-03	2003-07-29	
+S000004150	ORF	Verified	YLR160C	ASP3-4	asparaginase ASP3-4|ASP3	chromosome 12		12	487289	486201	C		2011-02-03	1996-07-31	Cell-wall L-asparaginase II involved in asparagine catabolism; expression induced during nitrogen starvation; ORF contains a short non-coding RNA that enhances expression of full-length gene; likely arose in via horizontal gene transfer from the wine yeast Wickerhamomyces anomalus or a close relative; reference strain S288C has four copies of ASP3; ASP3-4 has a paralog, ASP3-2, that arose from a segmental duplication
+S000031490	CDS					YLR160C		12	487289	486201	C		2011-02-03	1996-07-31	
+S000004151	ORF	Uncharacterized	YLR161W			chromosome 12		12	488997	489341	W		2011-02-03	1996-07-31	Putative protein of unknown function; YLR156W, YLR159W, and YLR161W are three identical open reading frames in S288C encoded near the ribosomal DNA region of chromosome 12; YLR161W has a paralog, YLR157W-D, that arose from a segmental duplication
+S000031592	CDS					YLR161W		12	488997	489341	W		2011-02-03	1996-07-31	
+S000029711	rRNA_gene		RDN5-6	RDN5-6	RDN5	chromosome 12		12	489349	489469	W		2011-02-03	2004-03-04	Variant 5S ribosomal rRNA (5S rRNA) gene; located at a site distal to the RDN1 locus
+S000036835	noncoding_exon					RDN5-6		12	489349	489469	W		2011-02-03	2004-03-04	
+S000004152	ORF	Verified	YLR162W			chromosome 12		12	489573	489929	W		2011-02-03	1996-07-31	Protein of unknown function; overexpression confers resistance to the antimicrobial peptide MiAMP1 and causes growth arrest, apoptosis, and increased sensitivity to cobalt chloride
+S000032571	CDS					YLR162W		12	489573	489929	W		2011-02-03	1996-07-31	
+S000028567	ORF	Uncharacterized	YLR162W-A	RRT15		chromosome 12		12	490406	490594	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology comparisons and RT-PCR; identified in a screen for mutants with decreased levels of rDNA transcription
+S000031273	CDS					YLR162W-A		12	490406	490594	W		2011-02-03	2003-07-29	
+S000028844	ORF	Dubious	YLR163W-A			chromosome 12		12	492812	492925	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034529	CDS					YLR163W-A		12	492812	492925	W		2011-02-03	2003-07-29	
+S000004153	ORF	Verified	YLR163C	MAS1	MIF1	chromosome 12	L000001026|L000001108	12	493254	491866	C		2011-02-03	1996-07-31	Beta subunit of the mitochondrial processing protease (MPP); essential processing enzyme that cleaves the N-terminal targeting sequences from mitochondrially imported proteins
+S000032649	CDS					YLR163C		12	493254	491866	C		2011-02-03	1996-07-31	
+S000004154	ORF	Verified	YLR164W	SHH4	protein SHH4	chromosome 12		12	493883	494389	W		2011-02-03	1996-07-31	Putative alternate subunit of succinate dehydrogenase (SDH); mitochondrial inner membrane protein; genetic interaction with SDH4 suggests that Shh4p can function as a functional SDH subunit; a fraction copurifies with SDH subunit Sdh3p; expression induced by nitrogen limitation in a GLN3, GAT1-dependent manner; Shh4p has greater similarity to human SDHD (subunit D of SDH, implicated in paraganglioma) than does its paralog Sdh4p
+S000032792	CDS					YLR164W		12	493883	494389	W		2011-02-03	1996-07-31	
+S000004155	ORF	Verified	YLR165C	PUS5	pseudouridine synthase PUS5	chromosome 12		12	495258	494494	C		2011-02-03	1996-07-31	Pseudouridine synthase; catalyzes only the formation of pseudouridine (Psi)-2819 in mitochondrial 21S rRNA; not essential for viability
+S000032861	CDS					YLR165C		12	495258	494494	C		2011-02-03	1996-07-31	
+S000004156	ORF	Verified	YLR166C	SEC10	exocyst subunit SEC10	chromosome 12	L000003428	12	498044	495429	C		2011-02-03	1996-07-31	Essential 100kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion
+S000033562	CDS					YLR166C		12	498044	495429	C		2011-02-03	1996-07-31	
+S000004157	ORF	Verified	YLR167W	RPS31	eS31|ubiquitin-ribosomal 40S subunit protein S31 fusion protein|S31e|UB13|YS24|S37|S31|UBI3|RPS37	chromosome 12	L000001768|L000002413	12	498947	499405	W		2011-02-03	1996-07-31	Fusion protein cleaved to yield ribosomal protein S31 and ubiquitin; ubiquitin may facilitate assembly of the ribosomal protein into ribosomes; interacts genetically with translation factor eIF2B; homologous to mammalian ribosomal protein S27A, no bacterial homolog
+S000033714	CDS					YLR167W		12	498947	499405	W		2011-02-03	1996-07-31	
+S000004158	ORF	Verified	YLR168C	UPS2	GEP1|AIM30|MSF1|MSF1'	chromosome 12		12	500270	499578	C		2011-02-03	1996-07-31	Mitochondrial intermembrane space protein; involved in phospholipid metabolism; forms complex with Mdm35p that transfers phosphatidylserine from outer membrane to inner membrane for phosphatidylethanolamine synthesis; null mutant has defects in mitochondrial morphology; similar to Ups1p, Ups3p and to human PRELI; UPS2 has a paralog, UPS3, that arose from the whole genome duplication
+S000033771	CDS					YLR168C		12	500270	499578	C		2011-02-03	1996-07-31	
+S000004159	ORF	Dubious	YLR169W			chromosome 12		12	500335	500688	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034750	CDS					YLR169W		12	500335	500688	W		2011-02-03	1996-07-31	
+S000004161	ORF	Dubious	YLR171W			chromosome 12		12	500733	501122	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035908	CDS					YLR171W		12	500733	501122	W		2011-02-03	1996-07-31	
+S000004160	ORF	Verified	YLR170C	APS1	YAP19	chromosome 12	L000002493	12	501049	500579	C		2011-02-03	1996-07-31	Small subunit of the clathrin-associated adaptor complex AP-1; AP-1 is involved in protein sorting at the trans-Golgi network; homolog of the sigma subunit of the mammalian clathrin AP-1 complex
+S000035745	CDS					YLR170C		12	501049	500579	C		2011-02-03	1996-07-31	
+S000004162	ORF	Verified	YLR172C	DPH5	diphthine synthase	chromosome 12	L000000523	12	502162	501260	C		2011-02-03	1996-07-31	Methyltransferase required for synthesis of diphthamide; diphthamide is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); not essential for viability; GFP-Dph5p fusion protein localizes to the cytoplasm
+S000035977	CDS					YLR172C		12	502162	501260	C		2011-02-03	1996-07-31	
+S000004163	ORF	Uncharacterized	YLR173W			chromosome 12		12	502421	504247	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000036883	CDS					YLR173W		12	502421	504247	W		2011-02-03	1996-07-31	
+S000004164	ORF	Verified	YLR174W	IDP2	isocitrate dehydrogenase (NADP(+)) IDP2	chromosome 12	L000002737	12	504591	505829	W		2011-02-03	1996-07-31	Cytosolic NADP-specific isocitrate dehydrogenase; catalyzes oxidation of isocitrate to alpha-ketoglutarate; levels are elevated during growth on non-fermentable carbon sources and reduced during growth on glucose; IDP2 has a paralog, IDP3, that arose from the whole genome duplication
+S000036934	CDS					YLR174W		12	504591	505829	W		2011-02-03	1996-07-31	
+S000004165	ORF	Verified	YLR175W	CBF5	pseudouridine synthase CBF5	chromosome 12	L000000223	12	506134	507585	W		2011-02-03	1996-07-31	Pseudouridine synthase catalytic subunit of box H/ACA snoRNPs; acts on large and small rRNAs, on snRNA U2, and on some mRNAs; mutations in human ortholog dyskerin cause the disorder dyskeratosis congenita; small nucleolar ribonucleoprotein particles are also known as snoRNPs
+S000037702	CDS					YLR175W		12	506134	507585	W		2011-02-03	1996-07-31	
+S000004166	ORF	Verified	YLR176C	RFX1	CRT1	chromosome 12	L000004129	12	510232	507797	C		2011-02-03	1996-07-31	Major transcriptional repressor of DNA-damage-regulated genes; recruits repressors Tup1p and Cyc8p to their promoters; involved in DNA damage and replication checkpoint pathway; similar to a family of mammalian DNA binding RFX1-4 proteins
+S000037720	CDS					YLR176C		12	510232	507797	C		2011-02-03	1996-07-31	
+S000004167	ORF	Uncharacterized	YLR177W			chromosome 12		12	511054	512940	W		2011-02-03	1996-07-31	Putative protein of unknown function; phosphorylated by Dbf2p-Mob1p in vitro; some strains contain microsatellite polymophisms at this locus; not an essential gene; YLR177W has a paralog, PSP1, that arose from the whole genome duplication
+S000037859	CDS					YLR177W		12	511054	512940	W		2011-02-03	1996-07-31	
+S000118476	ARS		ARS1217		ARSXII-513	chromosome 12		12	512867	513115			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178138	ARS_consensus_sequence					ARS1217		12	513086	513070	C		2014-11-18	2014-11-18	
+S000004168	ORF	Verified	YLR178C	TFS1	DKA1	chromosome 12	L000002291	12	513821	513162	C	124	2011-02-03	1996-07-31	Inhibitor of carboxypeptidase Y (Prc1p), and Ras GAP (Ira2p); phosphatidylethanolamine-binding protein (PEBP) family member and ortholog of hPEBP1/RKIP, a natural metastasis suppressor; targets to vacuolar membranes during stationary phase; acetylated by NatB N-terminal acetyltransferase; protein abundance increases in response to DNA replication stress
+S000037879	CDS					YLR178C		12	513821	513162	C		2011-02-03	1996-07-31	
+S000004169	ORF	Verified	YLR179C			chromosome 12		12	514713	514108	C		2011-02-03	1996-07-31	Protein of unknown function with similarity to Tfs1p; transcription is activated by paralogous proteins Yrm1p and Yrr1p along with proteins involved in multidrug resistance; GFP-tagged protein localizes to the cytoplasm and nucleus
+S000030817	CDS					YLR179C		12	514713	514108	C		2011-02-03	1996-07-31	
+S000004170	ORF	Verified	YLR180W	SAM1	methionine adenosyltransferase SAM1|ETH10	chromosome 12	L000001798	12	515262	516410	W		2011-02-03	1996-07-31	S-adenosylmethionine synthetase; catalyzes transfer of the adenosyl group of ATP to the sulfur atom of methionine; SAM1 has a paralog, SAM2, that arose from the whole genome duplication
+S000031889	CDS					YLR180W		12	515262	516410	W		2011-02-03	1996-07-31	
+S000004171	ORF	Verified	YLR181C	VTA1		chromosome 12		12	517670	516678	C		2011-02-03	1996-07-31	Multivesicular body (MVB) protein; involved in endosomal protein sorting; regulates Vps4p activity by promoting its oligomerization; has an N-terminal Vps60- and Did2- binding domain, a linker region, and a C-terminal Vps4p binding domain
+S000031945	CDS					YLR181C		12	517670	516678	C		2011-02-03	1996-07-31	
+S000004172	ORF	Verified	YLR182W	SWI6	transcriptional regulator SWI6|SDS11|PSL8	chromosome 12	L000002254	12	517940	520351	W		2011-02-03	1996-07-31	Transcription cofactor; forms complexes with Swi4p and Mbp1p to regulate transcription at the G1/S transition; involved in meiotic gene expression; also binds Stb1p to regulate transcription at START; cell wall stress induces phosphorylation by Mpk1p, which regulates Swi6p localization; required for the unfolded protein response, independently of its known transcriptional coactivators
+S000032961	CDS					YLR182W		12	517940	520351	W		2011-02-03	1996-07-31	
+S000004173	ORF	Verified	YLR183C	TOS4		chromosome 12		12	522012	520543	C		2011-02-03	1996-07-31	Putative transcription factor, contains Forkhead Associated domain; binds chromatin; involved in expression homeostasis, buffering of mRNA synthesis rate against gene dosage changes during S phase; target of SBF transcription factor; expression is periodic and peaks in G1; involved in DNA replication checkpoint response; interacts with Rpd3 and Set3 histone deacetylase complexes; APCC(Cdh1) substrate; relative distribution to nucleus increases upon DNA replication stress
+S000032995	CDS					YLR183C		12	522012	520543	C		2011-02-03	1996-07-31	
+S000004174	ORF	Dubious	YLR184W			chromosome 12		12	522106	522453	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033139	CDS					YLR184W		12	522106	522453	W		2011-02-03	1996-07-31	
+S000004175	ORF	Verified	YLR185W	RPL37A	eL37|ribosomal 60S subunit protein L37A|L37e|YL35|L43|L37A	chromosome 12	L000002884	12	522663	523288	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L37A; required for processing of 27SB pre-rRNA and formation of stable 66S assembly intermediates; homologous to mammalian ribosomal protein L37, no bacterial homolog; RPL37A has a paralog, RPL37B, that arose from the whole genome duplication
+S000033905	CDS					YLR185W		12	522663	522669	W		2011-02-03	1996-07-31	
+S000033906	CDS					YLR185W		12	523029	523288	W		2011-02-03	1996-07-31	
+S000033907	intron					YLR185W		12	522670	523028	W		2011-02-03	1996-07-31	
+S000004176	ORF	Verified	YLR186W	EMG1	18S rRNA pseudouridine methyltransferase|NEP1	chromosome 12		12	523632	524390	W		2011-02-03	1996-07-31	Methyltransferase for rRNA; methylates pseudouridine 18S rRNA residue 1191; member of the SPOUT methyltransferase family; required for maturation of 18S rRNA and for 40S ribosomal subunit production independent of methyltransferase activity; forms homodimers; human ortholog is mutated in Bowen-Conradi syndrome, and equivalent yeast mutation affects Emg1p dimerization and localization but not methyltransferase activity; human EMG1 complements lethality of null and ts mutant
+S000034031	CDS					YLR186W		12	523632	524390	W		2011-02-03	1996-07-31	
+S000004177	ORF	Verified	YLR187W	SKG3		chromosome 12		12	524865	527945	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery, cytoplasm, bud, and bud neck; potential Cdc28p substrate; similar to Skg4p; relocalizes from bud neck to cytoplasm upon DNA replication stress; SKG3 has a paralog, CAF120, that arose from the whole genome duplication
+S000034134	CDS					YLR187W		12	524865	527945	W		2011-02-03	1996-07-31	
+S000004178	ORF	Verified	YLR188W	MDL1	ATP-binding cassette permease MDL1	chromosome 12	L000001049	12	528300	530387	W		2011-02-03	1996-07-31	Mitochondrial inner membrane half-type ABC transporter; mediates export of peptides generated upon proteolysis of mitochondrial proteins; plays a role in the regulation of cellular resistance to oxidative stress
+S000034239	CDS					YLR188W		12	528300	530387	W		2011-02-03	1996-07-31	
+S000004179	ORF	Verified	YLR189C	ATG26	UGT51	chromosome 12	L000004808	12	534393	530797	C		2011-02-03	1996-07-31	UDP-glucose:sterol glucosyltransferase; conserved enzyme involved in synthesis of sterol glucoside membrane lipids; in contrast to ATG26 from P. pastoris, S. cerevisiae ATG26 is not involved in autophagy
+S000035108	CDS					YLR189C		12	534393	530797	C		2011-02-03	1996-07-31	
+S000004180	ORF	Verified	YLR190W	MMR1		chromosome 12		12	535214	536689	W		2011-02-03	1996-07-31	Phosphorylated protein of the mitochondrial outer membrane; localizes only to mitochondria of the bud; interacts with Myo2p to mediate mitochondrial distribution to buds; mRNA is targeted to the bud via the transport system involving She2p
+S000036058	CDS					YLR190W		12	535214	536689	W		2011-02-03	1996-07-31	
+S000004181	ORF	Verified	YLR191W	PEX13	peroxin PEX13|PAS20	chromosome 12	L000003024	12	537272	538432	W		2011-02-03	1996-07-31	Peroxisomal importomer complex component; integral peroxisomal membrane protein required for docking and translocation of peroxisomal matrix proteins; interacts with the PTS1 signal recognition factor Pex5p and the PTS2 signal recognition factor Pex7p; forms a complex with Pex14p and Pex17p; human homolog PEX13 complements yeast null mutant
+S000036199	CDS					YLR191W		12	537272	538432	W		2011-02-03	1996-07-31	
+S000004182	ORF	Verified	YLR192C	HCR1	translation initiation factor eIF3 core subunit j	chromosome 12	S000007439	12	539589	538792	C		2011-02-03	1996-07-31	eIF3j component of translation initiation factor 3 (eIF3); dual function protein involved in translation initiation as a substoichiometric component (eIF3j) of eIF3; required for 20S pre-rRNA processing; required at post-transcriptional step for efficient retrotransposition; absence decreases Ty1 Gag:GFP protein levels; binds eIF3 subunits Rpg1p, Prt1p and 18S rRNA; eIF3 also involved in programmed stop codon read through; human homolog EIF3J can complement yeast hcr1 mutant
+S000036241	CDS					YLR192C		12	539589	538792	C		2011-02-03	1996-07-31	
+S000004183	ORF	Verified	YLR193C	UPS1		chromosome 12		12	540536	540009	C		2011-02-03	1996-07-31	Phosphatidic acid transfer protein; plays a role in phospholipid metabolism by transporting phosphatidic acid from the outer to the inner mitochondrial membrane; localizes to the mitochondrial intermembrane space; null mutant has altered cardiolipin and phosphatidic acid levels; ortholog of human PRELI
+S000031730	CDS					YLR193C		12	540536	540009	C		2011-02-03	1996-07-31	
+S000004184	ORF	Verified	YLR194C	NCW2		chromosome 12		12	541573	540809	C		2011-02-03	1996-07-31	Structural constituent of the cell wall; attached to the plasma membrane by a GPI-anchor; expression is upregulated in response to cell wall stress; null mutant is sensitive to the antifungal agent polyhexamethylene biguanide, resistant to zymolyase treatment and has increased chitin deposition
+S000031877	CDS					YLR194C		12	541573	540809	C		2011-02-03	1996-07-31	
+S000004185	ORF	Verified	YLR195C	NMT1	glycylpeptide N-tetradecanoyltransferase NMT1|CDC72	chromosome 12	L000001259	12	543304	541937	C	142	2011-02-03	1996-07-31	N-myristoyl transferase; catalyzes the cotranslational, covalent attachment of myristic acid to the N-terminal glycine residue of several proteins involved in cellular growth and signal transduction
+S000031996	CDS					YLR195C		12	543304	541937	C		2011-02-03	1996-07-31	
+S000004186	ORF	Verified	YLR196W	PWP1	rRNA-processing protein PWP1	chromosome 12	L000001539	12	543968	545698	W		2011-02-03	1996-07-31	Protein with WD-40 repeats involved in rRNA processing; associates with trans-acting ribosome biogenesis factors; similar to beta-transducin superfamily
+S000037527	CDS					YLR196W		12	543968	545698	W		2011-02-03	1996-07-31	
+S000004187	ORF	Verified	YLR197W	NOP56	snoRNP complex protein NOP56|SIK1	chromosome 12	L000002982	12	546097	547611	W		2011-02-03	1996-07-31	Essential evolutionarily-conserved nucleolar protein; component of the box C/D snoRNP complexes that direct 2'-O-methylation of pre-rRNA during its maturation; overexpression causes spindle orientation defects
+S000037605	CDS					YLR197W		12	546097	547611	W		2011-02-03	1996-07-31	
+S000004188	ORF	Dubious	YLR198C			chromosome 12		12	547645	547286	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene SIK1/YLR197W
+S000037636	CDS					YLR198C		12	547645	547286	C		2011-02-03	1996-07-31	
+S000004189	ORF	Verified	YLR199C	PBA1	POC1	chromosome 12		12	548769	547853	C		2011-02-03	2003-09-27|1996-07-31	Protein involved in 20S proteasome assembly; forms a heterodimer with Add66p that binds to proteasome precursors; interaction with Pba1p-Add66p may affect function of the mature proteasome and its role in maintaining respiratory metabolism; similar to human PAC1 constituent of the PAC1-PAC2 complex involved in proteasome assembly
+S000030462	CDS					YLR199C		12	548677	547853	C		2011-02-03	2003-09-27|1996-07-31	
+S000030461	CDS					YLR199C		12	548769	548764	C		2011-02-03	2003-09-27	
+S000030463	intron					YLR199C		12	548763	548678	C		2011-02-03	2003-09-27	
+S000004190	ORF	Verified	YLR200W	YKE2	tubulin-binding prefolding complex subunit YKE2|PFD6|GIM1	chromosome 12	L000002791	12	549012	549356	W		2011-02-03	1996-07-31	Subunit of the heterohexameric Gim/prefoldin protein complex; involved in the folding of alpha-tubulin, beta-tubulin, and actin; prefoldin complex also localizes to chromatin of actively transcribed genes in the nucleus and facilitates transcriptional elongation
+S000036300	CDS					YLR200W		12	549012	549356	W		2011-02-03	1996-07-31	
+S000004191	ORF	Verified	YLR201C	COQ9	ubiquinone biosynthesis protein COQ9|FMP53	chromosome 12		12	550293	549511	C		2011-02-03	1996-07-31	Protein required for ubiquinone biosynthesis and respiratory growth; localizes to matrix face of mitochondrial inner membrane in a large complex with ubiquinone biosynthetic enzymes; ubiquinone is also known as coenzyme Q; human homolog COQ9 can complement yeast coq9 null mutant
+S000036362	CDS					YLR201C		12	550293	549511	C		2011-02-03	1996-07-31	
+S000004192	ORF	Dubious	YLR202C			chromosome 12		12	550636	550194	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YLR201C; ORF contains a putative intron
+S000037015	CDS					YLR202C		12	550458	550194	C		2011-02-03	1996-07-31	
+S000037014	CDS					YLR202C		12	550636	550575	C		2011-02-03	1996-07-31	
+S000037016	intron					YLR202C		12	550574	550459	C		2011-02-03	1996-07-31	
+S000004193	ORF	Verified	YLR203C	MSS51		chromosome 12	L000001205	12	551960	550650	C	149	2011-02-03	1996-07-31	Specific translational activator for the mitochondrial COX1 mRNA; loosely associated with the matrix face of the mitochondrial inner membrane; localizes to vacuole membrane in response to H2O2; influences both COX1 mRNA translation and Cox1p assembly into cytochrome c oxidase; binds to heme B, which may be a mechanism for sensing oxygen levels in order to regulate cytochrome c oxidase biogenesis
+S000037086	CDS					YLR203C		12	551960	550650	C		2011-02-03	1996-07-31	
+S000004194	ORF	Verified	YLR204W	QRI5	COX24	chromosome 12	L000001551	12	552270	552605	W		2011-02-03	1996-07-31	Mitochondrial inner membrane protein; required for accumulation of spliced COX1 mRNA; may have an additional role in translation of COX1 mRNA
+S000037241	CDS					YLR204W		12	552270	552605	W		2011-02-03	1996-07-31	
+S000004195	ORF	Verified	YLR205C	HMX1		chromosome 12		12	553677	552724	C		2011-02-03	2004-02-05|1996-07-31	ER localized heme oxygenase; involved in heme degradation during iron starvation and in the oxidative stress response; expression is regulated by AFT1 and oxidative stress; relocates to the perinuclear region in the presence of oxidants
+S000037310	CDS					YLR205C		12	553677	552724	C		2011-02-03	2004-02-05|1996-07-31	
+S000004196	ORF	Verified	YLR206W	ENT2	epsin	chromosome 12		12	554578	556419	W		2011-02-03	1996-07-31	Epsin-like protein required for endocytosis and actin patch assembly; functionally redundant with Ent1p; contains clathrin-binding motif at C-terminus; ENT2 has a paralog, ENT1, that arose from the whole genome duplication
+S000030027	CDS					YLR206W		12	554578	556419	W		2011-02-03	1996-07-31	
+S000004197	ORF	Verified	YLR207W	HRD3	ubiquitin ligase complex subunit HRD3	chromosome 12	L000003040	12	556788	559289	W		2011-02-03	1996-07-31	ER membrane protein that plays a central role in ERAD; forms HRD complex with Hrd1p and ER-associated protein degradation (ERAD) determinants that engages in lumen to cytosol communication and coordination of ERAD events
+S000030185	CDS					YLR207W		12	556788	559289	W		2011-02-03	1996-07-31	
+S000004198	ORF	Verified	YLR208W	SEC13	GTPase-activating protein SEC13|ANU3	chromosome 12	L000001838	12	559551	560444	W		2011-02-03	1996-07-31	Structural component of 3 complexes; subunit of the Nup84p nuclear pore subcomplex that contributes to nucleocytoplasmic transport and NPC biogenesis; subunit of the COPII vesicle coat required for ER-to-Golgi transport; subunit of SEACAT, a subcomplex of the coatomer-related, vacuolar-associated SEA complex, that inhibits the TORC1 inhibitory role of SEACIT (Iml1p-Npr2p-Npr3p), a GAP for Gtr1p, thereby resulting in activation of TORC1 signaling; human SEC13 homolog
+S000031129	CDS					YLR208W		12	559551	560444	W		2011-02-03	1996-07-31	
+S000004199	ORF	Verified	YLR209C	PNP1	purine-nucleoside phosphorylase	chromosome 12		12	561732	560797	C		2011-02-03	1996-07-31	Purine nucleoside phosphorylase; specifically metabolizes inosine and guanosine nucleosides; involved in the nicotinamide riboside salvage pathway
+S000031185	CDS					YLR209C		12	561732	560797	C		2011-02-03	1996-07-31	
+S000004200	ORF	Verified	YLR210W	CLB4	B-type cyclin CLB4	chromosome 12	L000000352	12	562008	563390	W		2011-02-03	1996-07-31	B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the G2/M transition; may be involved in DNA replication and spindle assembly; accumulates during S phase and G2, then targeted for ubiquitin-mediated degradation; CLB4 has a paralog, CLB3, that arose from the whole genome duplication
+S000032220	CDS					YLR210W		12	562008	563390	W		2011-02-03	1996-07-31	
+S000004201	ORF	Verified	YLR211C	ATG38		chromosome 12		12	564531	563792	C		2011-02-03	2000-07-14|1996-07-31	Homodimeric subunit of autophagy-specific PtdIns-3-kinase complex I; required for the integrity of the active PtdIns-3-kinase complex I by maintaining an association between Vps15p-Vps34p and Atg14p-Vps30p subcomplexes; localizes to the pre-autophagosomal structure (PAS) in an Atg14p-dependent manner; ATG38 is non-essential but is required for macroautophagy
+S000032247	CDS					YLR211C		12	564454	563792	C		2011-02-03	2000-07-14|1996-07-31	
+S000032246	CDS					YLR211C		12	564531	564514	C		2011-02-03	2000-07-14	
+S000032248	intron					YLR211C		12	564513	564455	C		2011-02-03	2000-07-14	
+S000004202	ORF	Verified	YLR212C	TUB4	gamma-tubulin	chromosome 12	L000002751	12	566281	564860	C		2011-02-03	1996-07-31	Gamma-tubulin; involved in nucleating microtubules from both the cytoplasmic and nuclear faces of the spindle pole body; protein abundance increases in response to DNA replication stress
+S000032353	CDS					YLR212C		12	566281	564860	C		2011-02-03	1996-07-31	
+S000004203	ORF	Verified	YLR213C	CRR1	putative glycosylase	chromosome 12	S000007422	12	567922	566654	C		2011-02-03	1996-07-31	Putative glycoside hydrolase of the spore wall envelope; required for normal spore wall assembly, possibly for cross-linking between the glucan and chitosan layers; expressed during sporulation
+S000033218	CDS					YLR213C		12	567922	566654	C		2011-02-03	1996-07-31	
+S000004204	ORF	Verified	YLR214W	FRE1	ferric/cupric-chelate reductase	chromosome 12	L000000626	12	568567	570627	W		2011-02-03	1996-07-31	Ferric reductase and cupric reductase; reduces siderophore-bound iron and oxidized copper prior to uptake by transporters; expression induced by low copper and iron levels
+S000033306	CDS					YLR214W		12	568567	570627	W		2011-02-03	1996-07-31	
+S000004205	ORF	Verified	YLR215C	CDC123	cell proliferation protein CDC123	chromosome 12		12	571858	570776	C		2011-02-03	1996-07-31	Assembly factor for the eIF2 translation initiation factor complex; regulates translational initiation; conserved residues of this ATP-Grasp protein that bind to ATP-Mg2+ in the pombe ortholog are required for complex assembly in budding yeast; interaction with eIF2 subunit Gcd11p facilitates complex assembly and activity; required for the START transition and timely progression through G2; regulated by nutrient availability; human ortholog complements the yeast mutant
+S000033348	CDS					YLR215C		12	571858	570776	C		2011-02-03	1996-07-31	
+S000004207	ORF	Dubious	YLR217W			chromosome 12		12	572909	573232	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CPR6
+S000034392	CDS					YLR217W		12	572909	573232	W		2011-02-03	1996-07-31	
+S000004206	ORF	Verified	YLR216C	CPR6	peptidylprolyl isomerase CPR6|CYP40	chromosome 12	L000003229	12	573211	572096	C		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; plays a role in determining prion variants; binds to Hsp82p and contributes to chaperone activity; protein abundance increases in response to DNA replication stress
+S000033434	CDS					YLR216C		12	573211	572096	C		2011-02-03	1996-07-31	
+S000004208	ORF	Verified	YLR218C	COA4	CMC3	chromosome 12		12	573918	573466	C		2011-02-03	1996-07-31	Twin Cx(9)C protein involved in cytochrome c oxidase organization; organization includes assembly or stability; localizes to the mitochondrial intermembrane space via the Mia40p-Erv1p system; interacts genetically with CYC1 and with cytochrome c oxidase assembly factors
+S000034416	CDS					YLR218C		12	573918	573466	C		2011-02-03	1996-07-31	
+S000004209	ORF	Verified	YLR219W	MSC3		chromosome 12		12	574151	576337	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery; msc3 mutants are defective in directing meiotic recombination events to homologous chromatids; potential Cdc28p substrate; protein abundance increases in response to DNA replication stress
+S000035498	CDS					YLR219W		12	574151	576337	W		2011-02-03	1996-07-31	
+S000004210	ORF	Verified	YLR220W	CCC1		chromosome 12	L000000234	12	576825	577793	W		2011-02-03	1996-07-31	Vacuolar Fe2+/Mn2+ transporter; suppresses respiratory deficit of yfh1 mutants, which lack the ortholog of mammalian frataxin, by preventing mitochondrial iron accumulation; relative distribution to the vacuole decreases upon DNA replication stress
+S000035447	CDS					YLR220W		12	576825	577793	W		2011-02-03	1996-07-31	
+S000004211	ORF	Verified	YLR221C	RSA3		chromosome 12		12	579024	578362	C		2011-02-03	1996-07-31	Protein with a likely role in ribosomal maturation; required for accumulation of wild-type levels of large (60S) ribosomal subunits; binds to the helicase Dbp6p in pre-60S ribosomal particles in the nucleolus
+S000035470	CDS					YLR221C		12	579024	578362	C		2011-02-03	1996-07-31	
+S000004212	ORF	Verified	YLR222C	UTP13		chromosome 12		12	581771	579318	C		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
+S000035533	CDS					YLR222C		12	581771	579318	C		2011-02-03	1996-07-31	
+S000028568	ORF	Dubious	YLR222C-A			chromosome 12		12	582236	582006	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene IFH1
+S000031274	CDS					YLR222C-A		12	582236	582006	C		2011-02-03	2003-07-29	
+S000004213	ORF	Verified	YLR223C	IFH1		chromosome 12	L000001775	12	585490	582233	C		2011-02-03	1996-07-31	Coactivator, regulates transcription of ribosomal protein (RP) genes; recruited to RP gene promoters during optimal growth conditions via Fhl1p; subunit of CURI, a complex that coordinates RP production and pre-rRNA processing; regulated by acetylation and phosphorylation at different growth states via TORC1 signaling; IFH1 has a paralog, CRF1, that arose from the whole genome duplication
+S000036449	CDS					YLR223C		12	585490	582233	C		2011-02-03	1996-07-31	
+S000004214	ORF	Verified	YLR224W	UCC1		chromosome 12		12	586464	587573	W		2011-02-03	1996-07-31	F-box protein and component of SCF ubiquitin ligase complexes; involved in ubiquitin-dependent protein catabolism; readily monoubiquitinated in vitro by SCF-Ubc4 complexes; SCF-Ucc1 regulates level of Cit2 citrate synthase protein to maintain citrate homeostasis, acts as metabolic switch for glyoxylate cycle; UCC1 transcription is downregulated in cells grown on C2-compounds
+S000036572	CDS					YLR224W		12	586464	587573	W		2011-02-03	1996-07-31	
+S000004215	ORF	Uncharacterized	YLR225C			chromosome 12		12	588918	587695	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; not an essential gene; YLR225C has a paralog, YDR222W, that arose from the whole genome duplication
+S000036615	CDS					YLR225C		12	588918	587695	C		2011-02-03	1996-07-31	
+S000004216	ORF	Verified	YLR226W	BUR2	CST4	chromosome 12	L000002994|L000000205	12	589354	590541	W		2011-02-03	1996-07-31	Cyclin for the Sgv1p (Bur1p) protein kinase; Sgv1p and Bur2p comprise the CDK-cyclin BUR kinase complex which is involved in transcriptional regulation through its phosphorylation of the carboxy-terminal domain (CTD) of the largest subunit of RNA polymerase II (Rpo21p); BUR kinase is also involved in the recruitment of Spt6p to the CTD at the onset of transcription
+S000037389	CDS					YLR226W		12	589354	590541	W		2011-02-03	1996-07-31	
+S000004217	ORF	Verified	YLR227C	ADY4		chromosome 12	S000007652	12	592043	590562	C		2011-02-03	1996-07-31	Structural component of the meiotic outer plaque; outer plaque is a membrane-organizing center that assembles on the cytoplasmic face of the spindle pole body during meiosis II and triggers the formation of the prospore membrane
+S000037438	CDS					YLR227C		12	592043	590562	C		2011-02-03	1996-07-31	
+S000006655	tRNA_gene		tL(UAG)L1			chromosome 12	L000003662	12	592619	592519	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000035002	intron					tL(UAG)L1		12	592581	592563	C		2011-02-03	2000-05-19	
+S000035001	noncoding_exon					tL(UAG)L1		12	592562	592519	C		2011-02-03	2000-05-19	
+S000035000	noncoding_exon					tL(UAG)L1		12	592619	592582	C		2011-02-03	2000-05-19	
+S000007070	long_terminal_repeat		YLRCdelta9			chromosome 12		12	593035	592706	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007085	long_terminal_repeat		YLRWdelta10			chromosome 12		12	593145	593478	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007098	LTR_retrotransposon		YLRWTy1-2		Ty1	chromosome 12		12	593145	599062	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007375	transposable_element_gene		YLR227W-A		gag protein	chromosome 12		12	593438	594760	W		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000035724	CDS					YLR227W-A		12	593438	594760	W		2011-02-03	1996-07-31	
+S000007376	transposable_element_gene		YLR227W-B		gag-pol fusion protein	chromosome 12		12	593438	598706	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000035730	CDS					YLR227W-B		12	593438	594742	W		2011-02-03	1999-07-17	
+S000035731	CDS					YLR227W-B		12	594744	598706	W		2011-02-03	1999-07-17	
+S000035732	plus_1_translational_frameshift					YLR227W-B		12	594743	594743	W		2011-02-03	1999-07-17	
+S000007086	long_terminal_repeat		YLRWdelta11			chromosome 12		12	598729	599062	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007087	long_terminal_repeat		YLRWdelta12			chromosome 12		12	599268	599544	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007080	long_terminal_repeat		YLRCtau1			chromosome 12		12	599844	599570	C		2011-02-03	2000-05-19	Ty4 LTR
+S000004218	ORF	Verified	YLR228C	ECM22		chromosome 12	L000004375	12	602463	600019	C		2011-02-03	1996-07-31	Sterol regulatory element binding protein; regulates transcription of sterol biosynthetic genes upon sterol depletion, after relocating from intracellular membranes to perinuclear foci; redundant activator of filamentation with UPC2, up-regulating the expression of genes involved in filamentous growth; contains Zn[2]-Cys[6] binuclear cluster; ECM22 has a paralog, UPC2, that arose from the whole genome duplication
+S000037567	CDS					YLR228C		12	602463	600019	C		2011-02-03	1996-07-31	
+S000118477	ARS		ARS1218		ARSXII-603	chromosome 12		12	603024	603132			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178139	ARS_consensus_sequence					ARS1218		12	603110	603094	C		2014-11-18	2014-11-18	
+S000004220	ORF	Dubious	YLR230W			chromosome 12		12	604574	604879	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 5' end of essential CDC42/YLR229C gene which encodes a small Rho-like GTPase essential for establishment and maintenance of cell polarity
+S000030492	CDS					YLR230W		12	604574	604879	W		2011-02-03	1996-07-31	
+S000004219	ORF	Verified	YLR229C	CDC42	Rho family GTPase CDC42	chromosome 12	L000000276	12	604787	604212	C	165	2011-02-03	1996-07-31	Small rho-like GTPase; essential for establishment and maintenance of cell polarity; plays a role late in cell fusion via activation of key cell fusion regulator Fus2p; mutants have defects in the organization of actin and septins; human homolog CDC42 can complement yeast cdc42 mutant
+S000030359	CDS					YLR229C		12	604787	604212	C		2011-02-03	1996-07-31	
+S000006614	tRNA_gene		tI(UAU)L			chromosome 12	L000003661	12	605432	605300	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000035162	intron					tI(UAU)L		12	605395	605336	C		2011-02-03	2000-05-19	
+S000035161	noncoding_exon					tI(UAU)L		12	605335	605300	C		2011-02-03	2000-05-19	
+S000035160	noncoding_exon					tI(UAU)L		12	605432	605396	C		2011-02-03	2000-05-19	
+S000004222	ORF	Dubious	YLR232W			chromosome 12		12	606830	607177	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene BNA5
+S000031460	CDS					YLR232W		12	606830	607177	W		2011-02-03	1996-07-31	
+S000004221	ORF	Verified	YLR231C	BNA5	kynureninase	chromosome 12		12	607119	605758	C		2011-02-03	1996-07-31	Kynureninase; required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
+S000031316	CDS					YLR231C		12	607119	605758	C		2011-02-03	1996-07-31	
+S000004223	ORF	Verified	YLR233C	EST1		chromosome 12	L000000588	12	609524	607425	C		2011-02-03	1996-07-31	TLC1 RNA-associated factor involved in telomere length regulation; recruitment subunit of telomerase; has G-quadruplex promoting activity required for telomere elongation; role in activating telomere-bound Est2p-TLC1-RNA; EST1 has a paralog, EBS1, that arose from the whole genome duplication
+S000031492	CDS					YLR233C		12	609524	607425	C		2011-02-03	1996-07-31	
+S000004224	ORF	Verified	YLR234W	TOP3	DNA topoisomerase 3|EDR1	chromosome 12	L000002321	12	609783	611753	W	163	2011-02-03	1996-07-31	DNA Topoisomerase III; conserved protein that functions in a complex with Sgs1p and Rmi1p to relax single-stranded negatively-supercoiled DNA preferentially; DNA catenation/decatenation activity is stimulated by RPA and Sgs1p-Top3p-Rmi1p; involved in telomere stability and regulation of mitotic recombination
+S000031598	CDS					YLR234W		12	609783	611753	W		2011-02-03	1996-07-31	
+S000004225	ORF	Dubious	YLR235C			chromosome 12		12	611930	611532	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORFs TOP3/YLR234W and YLR236C
+S000031634	CDS					YLR235C		12	611930	611532	C		2011-02-03	1996-07-31	
+S000004226	ORF	Dubious	YLR236C			chromosome 12		12	612117	611794	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YLR235C
+S000032651	CDS					YLR236C		12	612117	611794	C		2011-02-03	1996-07-31	
+S000004227	ORF	Verified	YLR237W	THI7	thiamine transporter THI7|THI10	chromosome 12	L000003514	12	612367	614163	W		2011-02-03	1996-07-31	Plasma membrane transporter responsible for the uptake of thiamine; contributes to uptake of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranoside (acadesine); member of the major facilitator superfamily of transporters; mutation of human ortholog causes thiamine-responsive megaloblastic anemia
+S000032815	CDS					YLR237W		12	612367	614163	W		2011-02-03	1996-07-31	
+S000004228	ORF	Verified	YLR238W	FAR10		chromosome 12		12	614755	616191	W		2011-02-03	1996-07-31	Protein involved in recovery from arrest in response to pheromone; acts in a cell cycle arrest recovery pathway independent from Far1p; interacts with Far3p, Far7p, Far8p, Far9p, and Far11p; potential Cdc28p substrate; FAR10 has a paralog, VPS64, that arose from the whole genome duplication
+S000033527	CDS					YLR238W		12	614755	616191	W		2011-02-03	1996-07-31	
+S000004229	ORF	Verified	YLR239C	LIP2	lipoyl(octanoyl) transferase LIP2	chromosome 12		12	617318	616332	C		2011-02-03	1996-07-31	Lipoyl ligase; involved in the modification of mitochondrial enzymes by the attachment of lipoic acid groups
+S000033564	CDS					YLR239C		12	617318	616332	C		2011-02-03	1996-07-31	
+S000004230	ORF	Verified	YLR240W	VPS34	phosphatidylinositol 3-kinase VPS34|VPS7|STT8|VPT29|VPL7|PEP15|END12	chromosome 12	L000002476	12	617533	620160	W		2011-02-03	1996-07-31	Phosphatidylinositol (PI) 3-kinase that synthesizes PI-3-phosphate; forms membrane-associated signal transduction complex with Vps15p to regulate protein sorting; activated by the GTP-bound form of Gpa1p; a fraction is localized, with Vps15p, to nuclear pores at nucleus-vacuole junctions and may facilitate transcription elongation for genes positioned at the nuclear periphery
+S000034710	CDS					YLR240W		12	617533	620160	W		2011-02-03	1996-07-31	
+S000004231	ORF	Verified	YLR241W	CSC1		chromosome 12		12	620473	622821	W		2011-02-03	1996-07-31	Calcium permeable gated cation channel; may be involved in detoxification; similar to Arabidopsis CSC1
+S000035645	CDS					YLR241W		12	620473	622821	W		2011-02-03	1996-07-31	
+S000130183	ARS		ARS1219			chromosome 12		12	623198	623861			2011-02-03	2009-05-08	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
+S000004232	ORF	Verified	YLR242C	ARV1	sterol homeostasis protein ARV1	chromosome 12	L000003505	12	623883	622918	C		2011-02-03	1996-07-31	Cortical ER protein; implicated in the membrane insertion of tail-anchored C-terminal single transmembrane domain proteins; may function in transport of glycosylphosphatidylinositol intermediates into the ER lumen; required for normal intracellular sterol distribution; human ARV1, required for normal cholesterol and bile acid homeostasis, can complement yeast arv1 null mutant; human variant causing early onset epileptic encephalopathy is unable to rescue the yeast null
+S000035677	CDS					YLR242C		12	623883	622918	C		2011-02-03	1996-07-31	
+S000004233	ORF	Verified	YLR243W	GPN3	putative signal sequence-binding GTPase GPN3	chromosome 12		12	624203	625021	W		2011-02-03	1996-07-31	Putative GTPase with a role in biogenesis of RNA pol II and polIII; may be involved in assembly of RNA polymerases II and III and in their transport into the nucleus; may have a role in sister chromatid cohesion; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; contains a Gly-Pro-Asn motif in the G domain; similar to Npa3p and Gpn2p
+S000035796	CDS					YLR243W		12	624203	625021	W		2011-02-03	1996-07-31	
+S000004234	ORF	Verified	YLR244C	MAP1	methionine aminopeptidase MAP1	chromosome 12	L000001025	12	626331	625168	C		2011-02-03	1996-07-31	Methionine aminopeptidase; catalyzes the cotranslational removal of N-terminal methionine from nascent polypeptides; function is partially redundant with that of Map2p
+S000035829	CDS					YLR244C		12	626331	625168	C		2011-02-03	1996-07-31	
+S000004235	ORF	Verified	YLR245C	CDD1	cytidine deaminase	chromosome 12	L000004644	12	626930	626502	C		2011-02-03	1996-07-31	Cytidine deaminase; catalyzes the modification of cytidine to uridine in vitro but native RNA substrates have not been identified, localizes to both the nucleus and cytoplasm
+S000035981	CDS					YLR245C		12	626930	626502	C		2011-02-03	1996-07-31	
+S000004236	ORF	Verified	YLR246W	ERF2	palmitoyltransferase ERF2	chromosome 12		12	627118	628197	W		2011-02-03	1996-07-31	Subunit of a palmitoyltransferase; this complex adds a palmitoyl lipid moiety to heterolipidated substrates such as Ras1p and Ras2p through a thioester linkage; mutants partially mislocalize Ras2p to the vacuole; palmitoyltransferase is composed of Erf2p and Shr5p
+S000036884	CDS					YLR246W		12	627118	628197	W		2011-02-03	1996-07-31	
+S000006643	tRNA_gene		tL(CAA)L			chromosome 12	L000003648	12	628383	628497	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000033796	intron					tL(CAA)L		12	628421	628453	W		2011-02-03	2000-05-19	
+S000033794	noncoding_exon					tL(CAA)L		12	628383	628420	W		2011-02-03	2000-05-19	
+S000033795	noncoding_exon					tL(CAA)L		12	628454	628497	W		2011-02-03	2000-05-19	
+S000004237	ORF	Verified	YLR247C	IRC20	E3 ubiquitin-protein ligase IRC20	chromosome 12		12	633354	628684	C		2011-02-03	1996-07-31	E3 ubiquitin ligase and putative helicase; involved in synthesis-dependent strand annealing-mediated homologous recombination; ensures precise end-joining along with Srs2p in the Yku70p/Yku80p/Lig4p-dependent nonhomologous end joining (NHEJ) pathway; localizes to both the mitochondrion and the nucleus; contains a Snf2/Swi2 family ATPase/helicase and a RING finger domain; interacts with Cdc48p and Smt3p; null mutant displays increased levels of spontaneous Rad52p foci
+S000036895	CDS					YLR247C		12	633354	628684	C		2011-02-03	1996-07-31	
+S000004238	ORF	Verified	YLR248W	RCK2	serine/threonine protein kinase RCK2|CMK3|CLK1	chromosome 12	L000001593	12	634252	636084	W		2011-02-03	1996-07-31	Protein kinase involved in response to oxidative and osmotic stress; identified as suppressor of S. pombe cell cycle checkpoint mutations; similar to CaM (calmodulin) kinases; RCK2 has a paralog, RCK1, that arose from the whole genome duplication
+S000037704	CDS					YLR248W		12	634252	636084	W		2011-02-03	1996-07-31	
+S000004239	ORF	Verified	YLR249W	YEF3	translation elongation factor EF-3|EF-3|eEF3|TEF3	chromosome 12	L000002505	12	636780	639914	W		2011-02-03	1996-07-31	Translation elongation factor 3; contains two ABC cassettes; binds and hydrolyzes ATP; YEF3 has a paralog, HEF3, that arose from the whole genome duplication
+S000037766	CDS					YLR249W		12	636780	639914	W		2011-02-03	1996-07-31	
+S000004240	ORF	Verified	YLR250W	SSP120		chromosome 12	L000002091	12	640317	641021	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
+S000030689	CDS					YLR250W		12	640317	641021	W		2011-02-03	1996-07-31	
+S000004241	ORF	Verified	YLR251W	SYM1	ethanol metabolism protein	chromosome 12		12	641464	642057	W		2011-02-03	1996-07-31	Protein required for ethanol metabolism; induced by heat shock and localized to the inner mitochondrial membrane; homologous to mammalian peroxisomal membrane protein Mpv17; human homolog MPV17 is implicated in hepatocerebral mtDNA depletion syndromes (MDDS), and complements yeast null mutant
+S000030794	CDS					YLR251W		12	641464	642057	W		2011-02-03	1996-07-31	
+S000004242	ORF	Dubious	YLR252W			chromosome 12		12	641957	642262	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SYM1, a mitochondrial protein involved in ethanol metabolism
+S000030890	CDS					YLR252W		12	641957	642262	W		2011-02-03	1996-07-31	
+S000004243	ORF	Verified	YLR253W	MCP2	MRX13	chromosome 12		12	642627	644336	W		2011-02-03	1996-07-31	Mitochondrial protein of unknown function involved in lipid homeostasis; associates with mitochondrial ribosome; integral membrane protein that localizes to the mitochondrial inner membrane; involved in mitochondrial morphology; non-essential gene which interacts genetically with MDM10, and other members of the ERMES complex; transcription is periodic during the metabolic cycle; homologous to human aarF domain containing kinase, ADCK1
+S000031890	CDS					YLR253W		12	642627	644336	W		2011-02-03	1996-07-31	
+S000004244	ORF	Verified	YLR254C	NDL1		chromosome 12		12	644973	644404	C		2011-02-03	1996-07-31	Homolog of nuclear distribution factor NudE; NUDEL; interacts with Pac1p and regulates dynein targeting to microtubule plus ends
+S000031972	CDS					YLR254C		12	644973	644404	C		2011-02-03	1996-07-31	
+S000004245	ORF	Dubious	YLR255C			chromosome 12		12	645953	645600	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032077	CDS					YLR255C		12	645953	645600	C		2011-02-03	1996-07-31	
+S000004246	ORF	Verified	YLR256W	HAP1	CYP1	chromosome 12	L000002665	12	646415	650923	W		2011-02-03	1996-07-31	Zinc finger transcription factor; involved in the complex regulation of gene expression in response to levels of heme and oxygen; localizes to the mitochondrion as well as to the nucleus; the S288C sequence differs from other strain backgrounds due to a Ty1 insertion in the carboxy terminus
+S000033058	CDS					YLR256W		12	646415	650923	W		2011-02-03	1996-07-31	
+S000007088	long_terminal_repeat		YLRWdelta13			chromosome 12		12	650824	651157	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007099	LTR_retrotransposon		YLRWTy1-3		Ty1	chromosome 12		12	650824	656743	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007377	transposable_element_gene		YLR256W-A		gag protein	chromosome 12		12	651117	652439	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000035661	CDS					YLR256W-A		12	651117	652439	W		2011-02-03	1999-07-17	
+S000007089	long_terminal_repeat		YLRWdelta14			chromosome 12		12	656410	656743	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006517	tRNA_gene		tA(AGC)L			chromosome 12	L000003660	12	657006	656934	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000032303	noncoding_exon					tA(AGC)L		12	657006	656934	C		2011-02-03	2000-05-19	
+S000007096	long_terminal_repeat		YLRWsigma3			chromosome 12		12	657022	657365	W		2011-02-03	2000-05-19	Ty3 LTR
+S000007090	long_terminal_repeat		YLRWdelta15			chromosome 12		12	657449	657767	W		2011-02-03	2000-05-19	Ty1 LTR
+S000004247	ORF	Verified	YLR257W			chromosome 12		12	658826	659791	W		2011-02-03	1996-07-31	Protein of unknown function; protein abundance increases in response to DNA replication stress
+S000033141	CDS					YLR257W		12	658826	659791	W		2011-02-03	1996-07-31	
+S000118478	ARS		ARS1220		ARSXII-660	chromosome 12		12	659884	659935			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178140	ARS_consensus_sequence					ARS1220		12	659892	659908	W		2014-11-18	2014-11-18	
+S000004248	ORF	Verified	YLR258W	GSY2	glycogen (starch) synthase GSY2	chromosome 12	L000000740	12	660716	662833	W		2011-02-03	1996-07-31	Glycogen synthase; expression induced by glucose limitation, nitrogen starvation, heat shock, and stationary phase; activity regulated by cAMP-dependent, Snf1p and Pho85p kinases as well as by the Gac1p-Glc7p phosphatase; GSY2 has a paralog, GSY1, that arose from the whole genome duplication; relocalizes from cytoplasm to plasma membrane upon DNA replication stress
+S000033909	CDS					YLR258W		12	660716	662833	W		2011-02-03	1996-07-31	
+S000004249	ORF	Verified	YLR259C	HSP60	chaperone ATPase HSP60|MNA2|MIF4|CPN60	chromosome 12	L000000819	12	665002	663284	C		2011-02-03	1996-07-31	Tetradecameric mitochondrial chaperonin; required for ATP-dependent folding of precursor polypeptides and complex assembly; prevents aggregation and mediates protein refolding after heat shock; role in mtDNA transmission; phosphorylated
+S000033960	CDS					YLR259C		12	665002	663284	C		2011-02-03	1996-07-31	
+S000004250	ORF	Verified	YLR260W	LCB5	sphinganine kinase LCB5	chromosome 12	L000004329	12	665844	667907	W		2011-02-03	1996-07-31	Minor sphingoid long-chain base kinase; possibly involved in synthesis of long-chain base phosphates, which function as signaling molecules; LCB5 has a paralog, LCB4, that arose from the whole genome duplication
+S000035015	CDS					YLR260W		12	665844	667907	W		2011-02-03	1996-07-31	
+S000004251	ORF	Uncharacterized	YLR261C	VPS63		chromosome 12		12	668563	668237	C		2011-02-03	1996-07-31	Putative protein of unknown function; not conserved in closely related Saccharomyces species; 98% of ORF overlaps the verified gene YPT6; deletion causes a vacuolar protein sorting defect; decreased levels of protein in enolase deficient mutant
+S000035062	CDS					YLR261C		12	668563	668237	C		2011-02-03	1996-07-31	
+S000004252	ORF	Verified	YLR262C	YPT6	Rab family GTPase YPT6	chromosome 12	L000002896|L000002948	12	668891	668244	C		2011-02-03	1996-07-31	Rab family GTPase; required for endosome-to-Golgii, intra-Golgi retrograde, and retrograde Golgi-to-ER transport; temporarily at the Golgi, dissociating into the cytosol on arrival of the late Golgi GTPase Ypt32p; Golgi-localized form is GTP bound, while cytosolic form is GDP-bound; required for delivery of Atg9p to the phagophore assembly site during autophagy under heat stress, with Ypt6p for starvation induced autophagy and for the CVT pathway; homolog of mammalian Rab6
+S000035164	CDS					YLR262C		12	668891	668244	C		2011-02-03	1996-07-31	
+S000007246	ORF	Verified	YLR262C-A	TMA7	RBF7	chromosome 12		12	669662	669468	C		2011-02-03	1999-07-17	Protein of unknown that associates with ribosomes; null mutant exhibits translation defects, altered polyribosome profiles, and resistance to the translation inhibitor anisomcyin; protein abundance increases in response to DNA replication stress
+S000036510	CDS					YLR262C-A		12	669662	669468	C		2011-02-03	1999-07-17	
+S000004253	ORF	Verified	YLR263W	RED1		chromosome 12	L000001608	12	670340	672823	W		2011-02-03	1996-07-31	Protein component of the synaptonemal complex axial elements; involved in chromosome segregation during the first meiotic division; critical for coupling checkpoint signaling to SC formation; promotes interhomolog recombination by phosphorylating Hop1p; also interacts with Mec3p and Ddc1p
+S000036094	CDS					YLR263W		12	670340	672823	W		2011-02-03	1996-07-31	
+S000004254	ORF	Verified	YLR264W	RPS28B	eS28|ribosomal 40S subunit protein S28B|S28e|YS27|S33B|S28B|RPS33B	chromosome 12	L000002744	12	673131	673334	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S28, no bacterial homolog; has an extraribosomal function in autoregulation, in which Rps28Bp binds to a decapping complex via Edc3p, which then binds to RPS28B mRNA leading to its decapping and degradation; RPS28B has a paralog, RPS28A, that arose from the whole genome duplication
+S000036202	CDS					YLR264W		12	673131	673334	W		2011-02-03	1996-07-31	
+S000028808	ORF	Uncharacterized	YLR264C-A			chromosome 12		12	673944	673828	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000033593	CDS					YLR264C-A		12	673944	673828	C		2011-02-03	2003-07-29	
+S000004255	ORF	Verified	YLR265C	NEJ1	LIF2	chromosome 12		12	675455	674427	C		2011-02-03	1996-07-31	Protein involved in regulation of nonhomologous end joining; interacts with DNA ligase IV components Dnl4p and Lif1p; repressed by MAT heterozygosity; regulates cellular distribution of Lif1p
+S000036242	CDS					YLR265C		12	675455	674427	C		2011-02-03	1996-07-31	
+S000004256	ORF	Verified	YLR266C	PDR8		chromosome 12		12	677724	675619	C		2011-02-03	1996-07-31	Transcription factor; targets include ATP-binding cassette (ABC) transporters, major facilitator superfamily transporters, and other genes involved in the pleiotropic drug resistance (PDR) phenomenon; PDR8 has a paralog, YRR1, that arose from the whole genome duplication
+S000031731	CDS					YLR266C		12	677724	675619	C		2011-02-03	1996-07-31	
+S000004257	ORF	Uncharacterized	YLR267W	BOP2		chromosome 12	L000004722	12	678212	679924	W		2011-02-03	1996-07-31	Protein of unknown function
+S000031962	CDS					YLR267W		12	678212	679924	W		2011-02-03	1996-07-31	
+S000004258	ORF	Verified	YLR268W	SEC22	SNAP receptor SEC22|TS26|TSL26|SLY2	chromosome 12	L000001845|S000029606|L000002362	12	680200	680844	W		2011-02-03	1996-07-31	R-SNARE protein; assembles into SNARE complex with Bet1p, Bos1p and Sed5p; cycles between the ER and Golgi complex; involved in anterograde and retrograde transport between the ER and Golgi; synaptobrevin homolog
+S000037429	CDS					YLR268W		12	680200	680844	W		2011-02-03	1996-07-31	
+S000004260	ORF	Verified	YLR270W	DCS1	5'-(N(7)-methyl 5'-triphosphoguanosine)-(mRNA) diphosphatase|DcpS	chromosome 12		12	681186	682238	W		2011-02-03	1996-07-31	Non-essential hydrolase involved in mRNA decapping; activates Xrn1p; may function in a feedback mechanism to regulate deadenylation, contains pyrophosphatase activity and a HIT (histidine triad) motif; acts as inhibitor of neutral trehalase Nth1p; required for growth on glycerol medium; protein abundance increases in response to DNA replication stress; DCS1 has a paralog, DCS2, that arose from the whole genome duplication
+S000037138	CDS					YLR270W		12	681186	682238	W		2011-02-03	1996-07-31	
+S000004259	ORF	Dubious	YLR269C			chromosome 12		12	681216	680866	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037460	CDS					YLR269C		12	681216	680866	C		2011-02-03	1996-07-31	
+S000004261	ORF	Uncharacterized	YLR271W	CMG1		chromosome 12		12	682737	683561	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus and is induced in response to the DNA-damaging agent MMS
+S000037234	CDS					YLR271W		12	682737	683561	W		2011-02-03	1996-07-31	
+S000004262	ORF	Verified	YLR272C	YCS4	condensin subunit YCS4|LOC7	chromosome 12		12	687202	683672	C		2011-02-03	1996-07-31	Subunit of the condensin complex; required for establishment and maintenance of chromosome condensation, chromosome segregation, chromatin binding of condensin, tRNA gene clustering at the nucleolus, and silencing at the mating type locus; required for replication slow zone (RSZ) breakage following Mec1p inactivation
+S000037272	CDS					YLR272C		12	687202	683672	C		2011-02-03	1996-07-31	
+S000006762	tRNA_gene		tV(AAC)L			chromosome 12	L000003659	12	687932	687859	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000032966	noncoding_exon					tV(AAC)L		12	687932	687859	C		2011-02-03	2000-05-19	
+S000007071	long_terminal_repeat		YLRCdelta16			chromosome 12		12	688368	688119	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007091	long_terminal_repeat		YLRWdelta17			chromosome 12		12	688369	688664	W		2011-02-03	2000-05-19	Ty1 LTR
+S000004263	ORF	Verified	YLR273C	PIG1	protein phosphatase regulator PIG1	chromosome 12	L000001436	12	691029	689083	C		2011-02-03	1996-07-31	Putative targeting subunit for type-1 protein phosphatase Glc7p; tethers Glc7p to Gsy2p glycogen synthase; PIG1 has a paralog, GAC1, that arose from the whole genome duplication
+S000037347	CDS					YLR273C		12	691029	689083	C		2011-02-03	1996-07-31	
+S000004264	ORF	Verified	YLR274W	MCM5	MCM DNA helicase complex subunit MCM5|CDC46|BOB1	chromosome 12	L000000279	12	691555	693882	W		2011-02-03	1996-07-31	Component of the Mcm2-7 hexameric helicase complex; MCM complex is important for priming origins of DNA replication in G1 and becomes an active ATP-dependent helicase that promotes DNA melting and elongation when activated by Cdc7p-Dbf4p in S-phase
+S000030019	CDS					YLR274W		12	691555	693882	W		2011-02-03	1996-07-31	
+S000004265	ORF	Verified	YLR275W	SMD2	mRNA splicing protein SMD2|Sm D2	chromosome 12	L000004145	12	694378	694800	W		2011-02-03	1996-07-31	Core Sm protein Sm D2; part of heteroheptameric complex (with Smb1p, Smd1p, Smd3p, Sme1p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm D2
+S000030096	CDS					YLR275W		12	694378	694382	W		2011-02-03	1996-07-31	
+S000030097	CDS					YLR275W		12	694473	694800	W		2011-02-03	1996-07-31	
+S000030098	intron					YLR275W		12	694383	694472	W		2011-02-03	1996-07-31	
+S000004266	ORF	Verified	YLR276C	DBP9	ATP-dependent DNA/RNA helicase	chromosome 12	L000004249	12	696830	695046	C		2011-02-03	1996-07-31	DEAD-box protein required for 27S rRNA processing; exhibits DNA, RNA and DNA/RNA helicase activities; ATPase activity shows preference for DNA over RNA; DNA helicase activity abolished by mutation in RNA-binding domain
+S000030144	CDS					YLR276C		12	696830	695046	C		2011-02-03	1996-07-31	
+S000004267	ORF	Verified	YLR277C	YSH1	cleavage polyadenylation factor subunit YSH1|BRR5	chromosome 12	L000003344	12	699495	697156	C		2011-02-03	1996-07-31	Endoribonuclease; subunit of the mRNA cleavage and polyadenylation specificity complex; required for 3' processing, splicing, and transcriptional termination of mRNAs and snoRNAs; protein abundance increases in response to DNA replication stress; YSH1 has a paralog, SYC1, that arose from the whole genome duplication
+S000030344	CDS					YLR277C		12	699495	697156	C		2011-02-03	1996-07-31	
+S000004268	ORF	Uncharacterized	YLR278C			chromosome 12		12	704024	699999	C		2011-02-03	1996-07-31	Zinc-cluster protein; GFP-fusion protein localizes to the nucleus; mutant shows moderate growth defect on caffeine; has a prion-domain like fragment that increases frequency of [URE3]; YLR278C is not an essential gene
+S000033636	CDS					YLR278C		12	704024	699999	C		2011-02-03	1996-07-31	
+S000004269	ORF	Dubious	YLR279W			chromosome 12		12	704309	704698	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033857	CDS					YLR279W		12	704309	704698	W		2011-02-03	1996-07-31	
+S000004270	ORF	Dubious	YLR280C			chromosome 12		12	704833	704483	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033385	CDS					YLR280C		12	704833	704483	C		2011-02-03	1996-07-31	
+S000004271	ORF	Uncharacterized	YLR281C			chromosome 12		12	704960	704493	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YLR281C is not an essential gene
+S000033456	CDS					YLR281C		12	704960	704493	C		2011-02-03	1996-07-31	
+S000004273	ORF	Uncharacterized	YLR283W			chromosome 12		12	705186	706130	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YLR283W is not an essential gene
+S000034433	CDS					YLR283W		12	705186	706130	W		2011-02-03	1996-07-31	
+S000004272	ORF	Dubious	YLR282C			chromosome 12		12	705412	705071	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion mutation confers an increase in Ty1 transposition
+S000033516	CDS					YLR282C		12	705412	705071	C		2011-02-03	1996-07-31	
+S000004274	ORF	Verified	YLR284C	ECI1	dodecenoyl-CoA isomerase	chromosome 12	L000004206	12	707040	706198	C		2011-02-03	1996-07-31	Peroxisomal delta3,delta2-enoyl-CoA isomerase; hexameric protein that converts 3-hexenoyl-CoA to trans-2-hexenoyl-CoA, essential for the beta-oxidation of unsaturated fatty acids, oleate-induced; ECI1 has a paralog, DCI1, that arose from the whole genome duplication
+S000034471	CDS					YLR284C		12	707040	706198	C		2011-02-03	1996-07-31	
+S000004275	ORF	Verified	YLR285W	NNT1	EFM7|S-adenosylmethionine-dependent methyltransferase	chromosome 12		12	707360	708145	W		2011-02-03	1996-07-31	S-adenosylmethionine-dependent methyltransferase; novel N-terminal protein methyltransferase that trimethylates the N-terminal glycine residue (G2) and also dimethylates lysine (K3) on elongation factor eEF1A (Tef1p/Tef2p); has a role in rDNA silencing and in lifespan determination
+S000034643	CDS					YLR285W		12	707360	708145	W		2011-02-03	1996-07-31	
+S000028569	ORF	Uncharacterized	YLR285C-A			chromosome 12		12	708338	708168	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031275	CDS					YLR285C-A		12	708338	708168	C		2011-02-03	2003-07-29	
+S000028679	ORF	Dubious	YLR286W-A			chromosome 12		12	708562	708696	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene CTS1
+S000032537	CDS					YLR286W-A		12	708562	708696	W		2011-02-03	2003-07-29	
+S000004276	ORF	Verified	YLR286C	CTS1	SCW2	chromosome 12	L000000434|S000029435|L000004563	12	710136	708448	C		2011-02-03	1996-07-31	Endochitinase; required for cell separation after mitosis; transcriptional activation during the G1 phase of the cell cycle is mediated by transcription factor Ace2p
+S000034680	CDS					YLR286C		12	710136	708448	C		2011-02-03	1996-07-31	
+S000004277	ORF	Uncharacterized	YLR287C			chromosome 12		12	712058	710991	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLR287C is not an essential gene
+S000035680	CDS					YLR287C		12	712058	710991	C		2011-02-03	1996-07-31	
+S000004278	ORF	Verified	YLR287C-A	RPS30A	eS30|ribosomal 40S subunit protein S30A|S30e|S30A	chromosome 12	L000003183	12	713158	712537	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S30, no bacterial homolog; RPS30A has a paralog, RPS30B, that arose from the whole genome duplication
+S000030932	CDS					YLR287C-A		12	712725	712537	C		2011-02-03	1996-07-31	
+S000030931	CDS					YLR287C-A		12	713158	713156	C		2011-02-03	1996-07-31	
+S000030933	intron					YLR287C-A		12	713155	712726	C		2011-02-03	1996-07-31	
+S000004279	ORF	Verified	YLR288C	MEC3	PSO9|PIP3	chromosome 12	L000002907	12	714904	713480	C		2011-02-03	1996-07-31	DNA damage and meiotic pachytene checkpoint protein; subunit of a heterotrimeric complex (Rad17p-Mec3p-Ddc1p) that forms a sliding clamp, loaded onto partial duplex DNA by a clamp loader complex; homolog of human and S. pombe Hus1
+S000035804	CDS					YLR288C		12	714904	713480	C		2011-02-03	1996-07-31	
+S000004280	ORF	Verified	YLR289W	GUF1	GTPase GUF1	chromosome 12	L000002749	12	715089	717026	W		2011-02-03	1996-07-31	Mitochondrial matrix GTPase; associates with mitochondrial ribosomes; important for translation under temperature and nutrient stress; may have a role in translational fidelity; similar to bacterial LepA elongation factor
+S000037787	CDS					YLR289W		12	715089	717026	W		2011-02-03	1996-07-31	
+S000004281	ORF	Verified	YLR290C	COQ11	ubiquinone biosynthesis protein COQ11|MRX2	chromosome 12		12	717978	717145	C		2011-02-03	1996-07-31	Putative oxidoreductase, subunit of Coenzyme Q biosynthetic complexes; required for synthesis of wild-type levels of Coenzyme Q (ubiquinone); member of the short-chain dehydrogenase/reductase (SDR) superfamily; orthologous gene in some other fungi is fused to the COQ10 ortholog
+S000036802	CDS					YLR290C		12	717978	717145	C		2011-02-03	1996-07-31	
+S000004282	ORF	Verified	YLR291C	GCD7	translation initiation factor eIF2B subunit beta	chromosome 12	L000000675	12	719462	718317	C		2011-02-03	1996-07-31	Beta subunit of the translation initiation factor eIF2B; the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression; human homolog EIF2B2 can complement yeast mutant, allows growth down-regulation of yeast gene
+S000036871	CDS					YLR291C		12	719462	718317	C		2011-02-03	1996-07-31	
+S000004283	ORF	Verified	YLR292C	SEC72	Sec63 complex subunit SEC72|SIM2|SEC67	chromosome 12	L000001857	12	720370	719789	C		2011-02-03	1996-07-31	Non-essential subunit of Sec63 complex; with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER; other members are Sec63p, Sec62p, and Sec66p
+S000037611	CDS					YLR292C		12	720370	719789	C		2011-02-03	1996-07-31	
+S000130184	ARS		ARS1221			chromosome 12		12	720784	721418			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000004284	ORF	Verified	YLR293C	GSP1	Ran GTPase GSP1|CST17|CNR1	chromosome 12	L000000736	12	721430	720771	C		2011-02-03	1996-07-31	Ran GTPase; GTP binding protein (mammalian Ranp homolog) involved in the maintenance of nuclear organization, RNA processing and transport; regulated by Srm1p, Rna1p, Yrb1p, Yrb2p, Yrp4p, Yrb30p, Cse1p and Kap95p; GSP1 has a paralog, GSP2, that arose from the whole genome duplication
+S000037671	CDS					YLR293C		12	721430	720771	C		2011-02-03	1996-07-31	
+S000004285	ORF	Dubious	YLR294C			chromosome 12		12	722030	721701	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene ATP14
+S000037718	CDS					YLR294C		12	722030	721701	C		2011-02-03	1996-07-31	
+S000004286	ORF	Verified	YLR295C	ATP14	F1F0 ATP synthase subunit h	chromosome 12	L000003379	12	722373	721999	C		2011-02-03	1996-07-31	Subunit h of the F0 sector of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; protein abundance increases in response to DNA replication stress
+S000037778	CDS					YLR295C		12	722373	721999	C		2011-02-03	1996-07-31	
+S000004287	ORF	Dubious	YLR296W			chromosome 12		12	722978	723304	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030715	CDS					YLR296W		12	722978	723304	W		2011-02-03	1996-07-31	
+S000004288	ORF	Verified	YLR297W			chromosome 12		12	724044	724433	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; not an essential gene; induced by treatment with 8-methoxypsoralen and UVA irradiation; relocalizes from nucleus to vacuole upon DNA replication stress; YLR297W has a paralog, YOR186W, that arose from the whole genome duplication
+S000030831	CDS					YLR297W		12	724044	724433	W		2011-02-03	1996-07-31	
+S000004289	ORF	Verified	YLR298C	YHC1	U1C|U1-C	chromosome 12	L000004161	12	725416	724721	C		2011-02-03	1996-07-31	Component of the U1 snRNP complex required for pre-mRNA splicing; putative ortholog of human U1C protein, which is involved in formation of a complex between U1 snRNP and the pre-mRNA 5' splice site
+S000030863	CDS					YLR298C		12	725416	724721	C		2011-02-03	1996-07-31	
+S000004290	ORF	Verified	YLR299W	ECM38	gamma-glutamyltransferase|CIS2	chromosome 12	L000003905	12	726069	728051	W		2011-02-03	1996-07-31	Gamma-glutamyltranspeptidase; major glutathione-degrading enzyme; involved in detoxification of electrophilic xenobiotics; expression induced mainly by nitrogen starvation
+S000031951	CDS					YLR299W		12	726069	728051	W		2011-02-03	1996-07-31	
+S000028680	ORF	Dubious	YLR299C-A			chromosome 12		12	728003	727911	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene ECM38
+S000032551	CDS					YLR299C-A		12	728003	727911	C		2011-02-03	2003-07-29	
+S000004291	ORF	Verified	YLR300W	EXG1	glucan 1,3-beta-glucosidase|SCW6|BGL1	chromosome 12	L000000592|S000029437|L000004567	12	728955	730301	W	206	2011-02-03	1996-07-31	Major exo-1,3-beta-glucanase of the cell wall; involved in cell wall beta-glucan assembly; exists as three differentially glycosylated isoenzymes; EXG1 has a paralog, SPR1, that arose from the whole genome duplication
+S000030080	CDS					YLR300W		12	728955	730301	W		2011-02-03	1996-07-31	
+S000004292	ORF	Verified	YLR301W	HRI1		chromosome 12		12	730825	731559	W		2011-02-03	1996-07-31	Protein of unknown function that interacts with Sec72p and Hrr25p
+S000030226	CDS					YLR301W		12	730825	731559	W		2011-02-03	1996-07-31	
+S000007072	long_terminal_repeat		YLRCdelta18			chromosome 12		12	732000	731668	C		2011-02-03	2000-05-19	Ty2 LTR
+S000006656	tRNA_gene		tL(UAG)L2			chromosome 12	L000003649	12	732090	732190	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000035006	intron					tL(UAG)L2		12	732128	732146	W		2011-02-03	2000-05-19	
+S000035004	noncoding_exon					tL(UAG)L2		12	732090	732127	W		2011-02-03	2000-05-19	
+S000035005	noncoding_exon					tL(UAG)L2		12	732147	732190	W		2011-02-03	2000-05-19	
+S000004294	ORF	Verified	YLR303W	MET17	bifunctional cysteine synthase/O-acetylhomoserine aminocarboxypropyltransferase MET17|MET25|MET15	chromosome 12	L000001091|L000001088	12	732542	733876	W		2011-02-03	1996-07-31	O-acetyl homoserine-O-acetyl serine sulfhydrylase; required for Methionine and cysteine biosynthesis
+S000030497	CDS					YLR303W		12	732542	733876	W		2011-02-03	1996-07-31	
+S000004293	ORF	Dubious	YLR302C			chromosome 12		12	732553	732191	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030295	CDS					YLR302C		12	732553	732191	C		2011-02-03	1996-07-31	
+S000007073	long_terminal_repeat		YLRCdelta19			chromosome 12		12	734671	734501	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006607	tRNA_gene		tI(AAU)L1			chromosome 12	L000003650	12	734802	734875	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000033931	noncoding_exon					tI(AAU)L1		12	734802	734875	W		2011-02-03	2000-05-19	
+S000004295	ORF	Verified	YLR304C	ACO1	aconitate hydratase ACO1|GLU1	chromosome 12	L000000022	12	737548	735212	C		2011-02-03	1996-07-31	Aconitase; required for the tricarboxylic acid (TCA) cycle and also independently required for mitochondrial genome maintenance; component of the mitochondrial nucleoid; mutation leads to glutamate auxotrophy; human homolog ACO2 can complement yeast null mutant
+S000031331	CDS					YLR304C		12	737548	735212	C		2011-02-03	1996-07-31	
+S000004296	ORF	Verified	YLR305C	STT4	1-phosphatidylinositol 4-kinase STT4	chromosome 12	L000002137	12	743863	738161	C		2011-02-03	1996-07-31	Phosphatidylinositol-4-kinase; functions in the Pkc1p protein kinase pathway; required for normal vacuole morphology, cell wall integrity, and actin cytoskeleton organization
+S000031384	CDS					YLR305C		12	743863	738161	C		2011-02-03	1996-07-31	
+S000004297	ORF	Verified	YLR306W	UBC12	NEDD8-conjugating protein UBC12	chromosome 12	L000003386	12	744151	744851	W		2011-02-03	1996-07-31	Enzyme that mediates the conjugation of Rub1p; a ubiquitin-like protein, to other proteins; related to E2 ubiquitin-conjugating enzymes
+S000031518	CDS					YLR306W		12	744151	744153	W		2011-02-03	1996-07-31	
+S000031519	CDS					YLR306W		12	744288	744851	W		2011-02-03	1996-07-31	
+S000031520	intron					YLR306W		12	744154	744287	W		2011-02-03	1996-07-31	
+S000118479	ARS		ARS1223		ARSXII-745	chromosome 12		12	744943	745179			2011-02-03	2006-08-30	Autonomously Replicating Sequence; replication capacity dependent upon Sum1p
+S000178141	ARS_consensus_sequence					ARS1223		12	745116	745100	C		2014-11-18	2014-11-18	
+S000004298	ORF	Verified	YLR307W	CDA1	chitin deacetylase CDA1	chromosome 12	L000003112	12	745620	746525	W		2011-02-03	1996-07-31	Chitin deacetylase; together with Cda2p involved in the biosynthesis ascospore wall component, chitosan; required for proper rigidity of the ascospore wall
+S000031600	CDS					YLR307W		12	745620	746525	W		2011-02-03	1996-07-31	
+S000028525	ORF	Uncharacterized	YLR307C-A			chromosome 12		12	747111	746848	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000030327	CDS					YLR307C-A		12	747111	746848	C		2011-02-03	2003-07-29	
+S000004299	ORF	Verified	YLR308W	CDA2	chitin deacetylase CDA2	chromosome 12	L000003113	12	747937	748875	W		2011-02-03	1996-07-31	Chitin deacetylase; together with Cda1p involved in the biosynthesis ascospore wall component, chitosan; required for proper rigidity of the ascospore wall
+S000032597	CDS					YLR308W		12	747937	748875	W		2011-02-03	1996-07-31	
+S000004300	ORF	Verified	YLR309C	IMH1	SYS3	chromosome 12	L000003981	12	751769	749034	C		2011-02-03	1996-07-31|2011-02-03	Protein involved in vesicular transport; mediates transport between an endosomal compartment and the Golgi, contains a Golgi-localization (GRIP) domain that interacts with activated Arl1p-GTP to localize Imh1p to the Golgi
+S000032653	CDS					YLR309C		12	751769	749034	C		2011-02-03	1996-07-31|2011-02-03	
+S000004301	ORF	Verified	YLR310C	CDC25	Ras family guanine nucleotide exchange factor CDC25|CDC25'|CTN1	chromosome 12	L000000264|L000000263	12	756993	752224	C	213	2011-02-03	1996-07-31	Membrane bound guanine nucleotide exchange factor; also known as a GEF or GDP-release factor; indirectly regulates adenylate cyclase through activation of Ras1p and Ras2p by stimulating the exchange of GDP for GTP; required for progression through G1; thermosensitivity of the cdc25-5 mutant is functionally complemented by human RASGRF1 or by a fragment of human SOS1 comprising the CDC25-related catalytic domain
+S000032496	CDS					YLR310C		12	756993	752224	C		2011-02-03	1996-07-31	
+S000004302	ORF	Dubious	YLR311C			chromosome 12		12	757612	757265	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034499	CDS					YLR311C		12	757612	757265	C		2011-02-03	1996-07-31	
+S000004303	ORF	Verified	YLR312C	ATG39	QNQ1	chromosome 12		12	758833	757637	C		2011-02-03	1996-07-31	Autophagy receptor with a role in degradation of the ER and nucleus; involved specifically in autophagy of perinuclear endoplasmic reticulum in response to nitrogen starvation or rapamycin treatment; localizes to the perinuclear ER
+S000034606	CDS					YLR312C		12	758833	757637	C		2011-02-03	1996-07-31	
+S000004304	ORF	Verified	YLR312W-A	MRPL15	mitochondrial 54S ribosomal protein YmL15|YmL15	chromosome 12	L000002688	12	759480	760241	W		2011-02-03	2001-06-12|1997-07-01|2006-10-03	Mitochondrial ribosomal protein of the large subunit
+S000037404	CDS					YLR312W-A		12	759480	760241	W		2011-02-03	1997-07-01|2006-10-03	
+S000004305	ORF	Verified	YLR313C	SPH1	YLR312C-B	chromosome 12	L000004149	12	762342	760750	C		2011-02-03	2004-02-05|1996-07-31|2011-02-03	Protein involved in shmoo formation and bipolar bud site selection; localizes to sites of polarized growth in a cell cycle dependent- and Spa2p-dependent manner, interacts with MAPKKs Mkk1p, Mkk2p, and Ste7p; SPH1 has a paralog, SPA2, that arose from the whole genome duplication
+S000034673	CDS					YLR313C		12	762342	760750	C		2011-02-03	2004-02-05|1996-07-31|2011-02-03	
+S000004306	ORF	Verified	YLR314C	CDC3	septin CDC3	chromosome 12	L000000243	12	764137	762575	C	215	2004-02-05	1996-07-31|2011-02-03	Component of the septin ring that is required for cytokinesis; septins are GTP-binding proteins that assemble with other septins into rod-like complexes that can associate with other rods to form filament polymers; septin rings at the mother-bud neck act as scaffolds for recruiting factors needed for cell division and as barriers to prevent diffusion of specific proteins between mother and daughter cells
+S000034752	CDS					YLR314C		12	764137	762575	C		2004-02-05	1996-07-31|2011-02-03	
+S000004307	ORF	Verified	YLR315W	NKP2		chromosome 12		12	764808	765269	W		2004-02-05	1996-07-31	Central kinetochore protein and subunit of the Ctf19 complex; mutants have elevated rates of chromosome loss; orthologous to fission yeast kinetochore protein cnl2
+S000035712	CDS					YLR315W		12	764808	765269	W		2004-02-05	1996-07-31	
+S000004309	ORF	Dubious	YLR317W			chromosome 12		12	765655	766089	W		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; may be part of a bicistronic transcript with NKP2/YLR315W; overlaps the verified ORF TAD3/YLR316C
+S000035934	CDS					YLR317W		12	765655	766089	W		2004-02-05	1996-07-31	
+S000004308	ORF	Verified	YLR316C	TAD3		chromosome 12	S000007486	12	766358	765266	C		2004-02-05	2000-07-22|1996-07-31	Subunit of tRNA-specific adenosine-34 deaminase; forms a heterodimer with Tad2p that converts adenosine to inosine at the wobble position of several tRNAs
+S000035749	CDS					YLR316C		12	766073	765266	C		2004-02-05	2000-07-22|1996-07-31	
+S000035748	CDS					YLR316C		12	766181	766130	C		2004-02-05	2000-07-22	
+S000035747	CDS					YLR316C		12	766358	766250	C		2004-02-05	2000-07-22	
+S000035751	intron					YLR316C		12	766129	766074	C		2004-02-05	2000-07-22	
+S000035750	intron					YLR316C		12	766249	766182	C		2004-02-05	2000-07-22	
+S000004310	ORF	Verified	YLR318W	EST2	TERT	chromosome 12	L000003504	12	766542	769196	W		2004-02-05	1996-07-31|2011-02-03	Reverse transcriptase subunit of the telomerase holoenzyme; essential for telomerase core catalytic activity, involved in other aspects of telomerase assembly and function; mutations in human homolog are associated with aplastic anemia
+S000036808	CDS					YLR318W		12	766542	769196	W		2004-02-05	1996-07-31|2011-02-03	
+S000004311	ORF	Verified	YLR319C	BUD6	AIP3	chromosome 12	L000000071|L000002602	12	771684	769318	C	221	2004-02-05	1996-07-31	Actin- and formin-interacting protein; participates in actin cable assembly and organization as a nucleation-promoting factor (NPF) for formins Bni1p and Bnr1p; a triple helical coiled-coil domain in the C-terminal region interacts with Bni1p; involved in polarized cell growth; isolated as bipolar budding mutant; potential Cdc28p substrate
+S000036838	CDS					YLR319C		12	771684	769318	C		2004-02-05	1996-07-31	
+S000004312	ORF	Verified	YLR320W	MMS22	SLM2	chromosome 12		12	771940	776304	W		2004-02-05	1996-07-31	Subunit of E3 ubiquitin ligase complex involved in replication repair; stabilizes protein components of the replication fork, such as the fork-pausing complex and leading strand polymerase, preventing fork collapse and promoting efficient recovery during replication stress; required for accurate meiotic chromosome segregation
+S000036604	CDS					YLR320W		12	771940	776304	W		2004-02-05	1996-07-31	
+S000004314	ORF	Dubious	YLR322W	VPS65		chromosome 12		12	777628	777942	W		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 75% of ORF overlaps the verified gene SFH1; deletion causes a vacuolar protein sorting defect and blocks anaerobic growth
+S000036774	CDS					YLR322W		12	777628	777942	W		2004-02-05	1996-07-31	
+S000004313	ORF	Verified	YLR321C	SFH1		chromosome 12	L000003282	12	777864	776584	C		2004-02-05	1996-07-31	Component of the RSC chromatin remodeling complex; essential gene required for cell cycle progression and maintenance of proper ploidy; phosphorylated in the G1 phase of the cell cycle; Snf5p paralog; hSNF5 tumor suppressor ortholog
+S000036636	CDS					YLR321C		12	777864	776584	C		2004-02-05	1996-07-31	
+S000004315	ORF	Verified	YLR323C	CWC24	U2-type spliceosomal complex subunit CWC24	chromosome 12		12	778952	778173	C		2004-02-05	1996-07-31	General splicing factor; required for stable U2 snRNP binding to primary transcripts; essential for the first step of splicing; component of the pre-catalytic spliceosome complex containing Cef1p; similar to S. pombe Cwf24p
+S000030574	CDS					YLR323C		12	778952	778173	C		2004-02-05	1996-07-31	
+S000004316	ORF	Verified	YLR324W	PEX30	peroxisome biogenesis protein	chromosome 12		12	779215	780786	W		2004-02-05	1996-07-31	ER-resident protein involved in peroxisomal biogenesis; ER-localized protein that associates with peroxisomes; interacts with Pex29p and reticulons Rtn1p and Yop1p to regulate peroxisome biogenesis from the ER; role in peroxisomal-destined vesicular flow from the ER; partially redundant with Pex31p; may function at a step downstream of steps mediated by Pex28p and Pex29p; PEX30 has a paralog, PEX31, that arose from the whole genome duplication
+S000030797	CDS					YLR324W		12	779215	780786	W		2004-02-05	1996-07-31	
+S000004317	ORF	Verified	YLR325C	RPL38	eL38|ribosomal 60S subunit protein L38|L38e|L38	chromosome 12	L000004468	12	781379	781143	C		2004-02-05	1996-07-31	Ribosomal 60S subunit protein L38; homologous to mammalian ribosomal protein L38, no bacterial homolog
+S000030800	CDS					YLR325C		12	781379	781143	C		2004-02-05	1996-07-31	
+S000004318	ORF	Uncharacterized	YLR326W			chromosome 12		12	782174	782896	W		2004-02-05	1996-07-31	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cell periphery; predicted to be palmitoylated
+S000031891	CDS					YLR326W		12	782174	782896	W		2004-02-05	1996-07-31	
+S000004319	ORF	Verified	YLR327C	TMA10	RBF9|SFL2	chromosome 12		12	783387	783127	C		2004-02-05	1996-07-31	Protein of unknown function that associates with ribosomes; protein abundance increases in response to DNA replication stress; TMA10 has a paralog, STF2, that arose from the whole genome duplication
+S000031973	CDS					YLR327C		12	783387	783127	C		2004-02-05	1996-07-31	
+S000006732	tRNA_gene		tX(XXX)L		tS(GCU)L	chromosome 12	L000003651	12	784354	784453	W		2004-02-05	2000-05-19	tRNA of undetermined specificity, predicted by tRNAscan-SE analysis; very similar to serine tRNAs
+S000037471	intron					tX(XXX)L		12	784390	784409	W		2004-02-05	2000-05-19	
+S000037469	noncoding_exon					tX(XXX)L		12	784354	784389	W		2004-02-05	2000-05-19	
+S000037470	noncoding_exon					tX(XXX)L		12	784410	784453	W		2004-02-05	2000-05-19	
+S000004320	ORF	Verified	YLR328W	NMA1	nicotinamide-nucleotide adenylyltransferase NMA1	chromosome 12		12	784913	786118	W		2004-02-05	1996-07-31	Nicotinic acid mononucleotide adenylyltransferase; catalyzes the transfer of the adenylyl moiety of ATP to nicotinamide mononucleotide to form NAD; involved in pathways of NAD biosynthesis, including the de novo, NAD(+) salvage, and nicotinamide riboside salvage pathways; homolog of human NMNAT; NMA1 has a paralog, NMA2, that arose from the whole genome duplication
+S000032965	CDS					YLR328W		12	784913	786118	W		2004-02-05	1996-07-31	
+S000004321	ORF	Verified	YLR329W	REC102		chromosome 12	L000001604	12	786442	787333	W	235	2006-01-09	1996-07-31|2006-01-09	Protein involved in early stages of meiotic recombination; required for chromosome synapsis; forms a complex with Rec104p and Spo11p necessary during the initiation of recombination
+S000113993	CDS					YLR329W		12	786442	786615	W		2006-01-09	2006-01-09	
+S000033059	CDS					YLR329W		12	786713	787333	W		2006-01-09	1996-07-31|2006-01-09	
+S000113994	intron					YLR329W		12	786616	786712	W		2006-01-09	2006-01-09	
+S000004322	ORF	Verified	YLR330W	CHS5	CAL3	chromosome 12	L000000333	12	787664	789679	W		2004-02-05	1996-07-31	Component of the exomer complex; the exomer which also contains Csh6p, Bch1p, Bch2p, and Bud7, is involved in the export of select proteins, such as chitin synthase Chs3p, from the Golgi to the plasma membrane; interacts selectively with the activated, GTP-bound form of Arf1p; Chs5p is the only protein with a BRCT domain that is not localized to the nucleus
+S000032805	CDS					YLR330W		12	787664	789679	W		2004-02-05	1996-07-31	
+S000004324	ORF	Verified	YLR332W	MID2	KAI1	chromosome 12	L000001107|L000000885	12	790676	791806	W		2004-02-05	1996-07-31	O-glycosylated plasma membrane protein; acts as a sensor for cell wall integrity signaling and activates the pathway; interacts with Rom2p, a guanine nucleotide exchange factor for Rho1p, and with cell integrity pathway protein Zeo1p; MID2 has a paralog, MTL1, that arose from the whole genome duplication
+S000034864	CDS					YLR332W		12	790676	791806	W		2004-02-05	1996-07-31	
+S000004323	ORF	Dubious	YLR331C	JIP3		chromosome 12		12	791046	790669	C		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 98% of ORF overlaps the verified gene MID2
+S000032848	CDS					YLR331C		12	791046	790669	C		2004-02-05	1996-07-31	
+S000007097	long_terminal_repeat		YLRWsigma4			chromosome 12		12	793552	793870	W		2004-02-05	2000-05-19	Ty3 LTR
+S000006542	tRNA_gene		tD(GUC)L2			chromosome 12	L000003652	12	793918	793989	W		2004-02-05	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000031888	noncoding_exon					tD(GUC)L2		12	793918	793989	W		2004-02-05	2000-05-19	
+S000118480	ARS		ARS1226		ARSXII-794	chromosome 12		12	794100	794231			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178142	ARS_consensus_sequence					ARS1226		12	794208	794192	C		2014-11-18	2014-11-18	
+S000006452	snoRNA_gene		snR61	SNR61		chromosome 12	L000004530	12	794575	794486	C		2004-02-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A1133
+S000030825	noncoding_exon					snR61		12	794575	794486	C		2004-02-05	2000-05-19	
+S000006446	snoRNA_gene		snR55	SNR55		chromosome 12	L000004524	12	794794	794697	C		2004-02-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); predicted to guide 2'-O-methylation of small subunit (SSU) rRNA at position U1269
+S000030741	noncoding_exon					snR55		12	794794	794697	C		2004-02-05	2000-05-19	
+S000006448	snoRNA_gene		snR57	SNR57		chromosome 12	L000004526	12	795024	794937	C		2004-02-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position G1572
+S000030763	noncoding_exon					snR57		12	795024	794937	C		2004-02-05	2000-05-19	
+S000004325	ORF	Verified	YLR333C	RPS25B	eS25|ribosomal 40S subunit protein S25B|S25e|rp45|YS23|S31B|S25B	chromosome 12	L000001766	12	795899	795573	C		2004-02-05	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S25, no bacterial homolog; RPS25B has a paralog, RPS25A, that arose from the whole genome duplication
+S000034910	CDS					YLR333C		12	795899	795573	C		2004-02-05	1996-07-31	
+S000122107	five_prime_UTR_intron					YLR333C		12	796335	795913	C		2007-04-04	2007-04-04	
+S000007092	long_terminal_repeat		YLRWdelta20			chromosome 12		12	796899	797088	W		2004-02-05	2000-05-19	Ty1 LTR
+S000004326	ORF	Dubious	YLR334C			chromosome 12		12	797078	796698	C		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps a stand-alone long terminal repeat sequence whose presence indicates a retrotransposition event occurred here
+S000035063	CDS					YLR334C		12	797078	796698	C		2004-02-05	1996-07-31	
+S000006559	tRNA_gene		tE(UUC)L			chromosome 12	L000003653	12	797178	797249	W		2004-02-05	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
+S000036008	noncoding_exon					tE(UUC)L		12	797178	797249	W		2004-02-05	2000-05-19	
+S000004327	ORF	Verified	YLR335W	NUP2	nucleoporin NUP2	chromosome 12	L000001289	12	797430	799592	W		2004-02-05	1996-07-31	Nucleoporin involved in nucleocytoplasmic transport; binds to either the nucleoplasmic or cytoplasmic faces of the nuclear pore complex depending on Ran-GTP levels; also has a role in chromatin organization
+S000035216	CDS					YLR335W		12	797430	799592	W		2004-02-05	1996-07-31	
+S000004328	ORF	Verified	YLR336C	SGD1		chromosome 12	L000003498	12	802396	799697	C		2004-02-05	1996-07-31	Essential nuclear protein; required for biogenesis of the small ribosomal subunit; has a possible role in the osmoregulatory glycerol response; putative homolog of human NOM1 which is implicated in acute myeloid leukemia
+S000035257	CDS					YLR336C		12	802396	799697	C		2004-02-05	1996-07-31	
+S000004330	ORF	Dubious	YLR338W	OPI9		chromosome 12		12	804346	805203	W		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF VRP1/YLR337C
+S000031689	CDS					YLR338W		12	804346	805203	W		2004-02-05	1996-07-31	
+S000004329	ORF	Verified	YLR337C	VRP1	YLR337W|MDP2|END5	chromosome 12	L000001055|L000002481	12	805106	802653	C		2004-02-05	1996-07-31	Verprolin, proline-rich actin-associated protein; involved in cytoskeletal organization and cytokinesis; promotes actin nucleation and endocytosis; related to mammalian Wiskott-Aldrich syndrome protein (WASP)-interacting protein (WIP)
+S000036142	CDS					YLR337C		12	805106	802653	C		2004-02-05	1996-07-31	
+S000004332	ORF	Verified	YLR340W	RPP0	uL10|ribosomal protein P0|P0|L10E|A0|RPL10E	chromosome 12	L000002669	12	805887	806825	W		2004-02-05	1996-07-31	Conserved ribosomal protein P0 of the ribosomal stalk; involved in interaction between translational elongation factors and the ribosome; phosphorylated on serine 302; homologous to mammalian ribosomal protein LP0 and bacterial L10
+S000036299	CDS					YLR340W		12	805887	806825	W		2004-02-05	1996-07-31	
+S000004331	ORF	Dubious	YLR339C			chromosome 12		12	806335	805784	C		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the essential gene RPP0
+S000031733	CDS					YLR339C		12	806335	805784	C		2004-02-05	1996-07-31	
+S000004333	ORF	Verified	YLR341W	SPO77		chromosome 12		12	807385	808818	W		2004-02-05	1996-07-31	Meiosis-specific protein of unknown function; required for spore wall formation during sporulation and for timely prospore membrane closure along with SPS1; required with Sps1p for phosphorylation and turnover of Ssp1p; dispensable for both nuclear divisions during meiosis
+S000036414	CDS					YLR341W		12	807385	808818	W		2004-02-05	1996-07-31	
+S000004334	ORF	Verified	YLR342W	FKS1	1,3-beta-D-glucan synthase|PBR1|GSC1|ETG1|CWH53|CND1	chromosome 12	L000000445|L000000732	12	809997	815627	W		2004-02-05	1996-07-31	Catalytic subunit of 1,3-beta-D-glucan synthase; functionally redundant with alternate catalytic subunit Gsc2p; binds to regulatory subunit Rho1p; involved in cell wall synthesis and maintenance; localizes to sites of cell wall remodeling; FKS1 has a paralog, GSC2, that arose from the whole genome duplication
+S000036475	CDS					YLR342W		12	809997	815627	W		2004-02-05	1996-07-31	
+S000028571	ORF	Uncharacterized	YLR342W-A			chromosome 12		12	815810	815983	W		2003-07-29	2003-07-29	Putative protein of unknown function
+S000031299	CDS					YLR342W-A		12	815810	815983	W		2003-07-29	2003-07-29	
+S000004335	ORF	Verified	YLR343W	GAS2	1,3-beta-glucanosyltransferase	chromosome 12		12	816094	817761	W		2004-02-05	1996-07-31	1,3-beta-glucanosyltransferase; involved with Gas4p in spore wall assembly; has similarity to Gas1p
+S000037140	CDS					YLR343W		12	816094	817761	W		2004-02-05	1996-07-31	
+S000007074	long_terminal_repeat		YLRCdelta21			chromosome 12		12	818403	818073	C		2004-02-05	2000-05-19	Ty1 LTR
+S000006706	tRNA_gene		tR(CCG)L	TRR4		chromosome 12	L000003654	12	818609	818680	W		2004-02-05	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; single essential nuclear tRNA gene containing the tDNA-anticodon CCG (presumably CCG in the mature tRNA), decodes CGG codons into arginine, one of 19 nuclear tRNAs for arginine; correct folding and efficient aminoacylation require Lhp1p
+S000037079	noncoding_exon					tR(CCG)L		12	818609	818680	W		2004-02-05	2000-05-19	
+S000004336	ORF	Verified	YLR344W	RPL26A	uL24|ribosomal 60S subunit protein L26A|L24|YL33|L33A|L26A	chromosome 12	L000004461	12	819312	820142	W		2004-02-05	1996-07-31	Ribosomal 60S subunit protein L26A; binds to 5.8S rRNA; non-essential even when paralog is also deleted; deletion has minimal affections on ribosome biosynthesis; homologous to mammalian ribosomal protein L26 and bacterial L24; RPL26A has a paralog, RPL26B, that arose from the whole genome duplication
+S000037238	CDS					YLR344W		12	819312	819330	W		2004-02-05	1996-07-31	
+S000037239	CDS					YLR344W		12	819778	820142	W		2004-02-05	1996-07-31	
+S000037240	intron					YLR344W		12	819331	819777	W		2004-02-05	1996-07-31	
+S000004337	ORF	Uncharacterized	YLR345W		bifunctional fructose-2,6-bisphosphate 2-phosphatase/6-phosphofructo-2-kinase	chromosome 12		12	820511	822040	W		2004-02-05	1996-07-31	Similar to 6-phosphofructo-2-kinase enzymes; mRNA expression is repressed by the Rfx1p-Tup1p-Ssn6p repressor complex; YLR345W is not an essential gene
+S000037321	CDS					YLR345W		12	820511	822040	W		2004-02-05	1996-07-31	
+S000004338	ORF	Verified	YLR346C	CIS1		chromosome 12		12	822592	822287	C		2004-02-05	1996-07-31	Protein of unknown function found in mitochondria; expression is regulated by transcription factors involved in pleiotropic drug resistance, Pdr1p and Yrr1p; not an essential gene; YLR346C has a paralog, YGR035C, that arose from the whole genome duplication
+S000037348	CDS					YLR346C		12	822592	822287	C		2004-02-05	1996-07-31	
+S000028681	ORF	Dubious	YLR347W-A			chromosome 12		12	824789	824929	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified ORF KAP95/YLR347C
+S000032552	CDS					YLR347W-A		12	824789	824929	W		2011-02-03	2003-07-29	
+S000004339	ORF	Verified	YLR347C	KAP95	karyopherin beta|RSL1	chromosome 12	L000002781|L000002885	12	826413	823828	C		2011-02-03	1996-07-31	Karyopherin beta; forms a complex with Srp1p/Kap60p; interacts with nucleoporins to mediate nuclear import of NLS-containing cargo proteins via the nuclear pore complex; regulates PC biosynthesis; GDP-to-GTP exchange factor for Gsp1p
+S000029972	CDS					YLR347C		12	826413	823828	C		2011-02-03	1996-07-31	
+S000004341	ORF	Dubious	YLR349W			chromosome 12		12	827521	828027	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified ORF DIC1/YLR348C
+S000030302	CDS					YLR349W		12	827521	828027	W		2011-02-03	1996-07-31	
+S000004340	ORF	Verified	YLR348C	DIC1		chromosome 12	L000004327	12	827873	826977	C		2011-02-03	1996-07-31	Mitochondrial dicarboxylate carrier; integral membrane protein, catalyzes a dicarboxylate-phosphate exchange across the inner mitochondrial membrane, transports cytoplasmic dicarboxylates into the mitochondrial matrix
+S000030051	CDS					YLR348C		12	827873	826977	C		2011-02-03	1996-07-31	
+S000004342	ORF	Verified	YLR350W	ORM2	sphingolipid homeostasis protein ORM2	chromosome 12		12	828730	829380	W		2011-02-03	1996-07-31	Protein that mediates sphingolipid homeostasis; evolutionarily conserved, required for resistance to agents that induce unfolded protein response; Orm1p and Orm2p together control membrane biogenesis by coordinating lipid homeostasis with protein quality control; protein abundance increases in response to DNA replication stress; ORM2 has a paralog, ORM1, that arose from the whole genome duplication
+S000032574	CDS					YLR350W		12	828730	829380	W		2011-02-03	1996-07-31	
+S000004343	ORF	Verified	YLR351C	NIT3	putative hydrolase	chromosome 12	L000004213	12	830364	829489	C		2011-02-03	1996-07-31	Nit protein; one of two proteins in S. cerevisiae with similarity to the Nit domain of NitFhit from fly and worm and to the mouse and human Nit protein which interacts with the Fhit tumor suppressor; nitrilase superfamily member
+S000032619	CDS					YLR351C		12	830364	829489	C		2011-02-03	1996-07-31	
+S000004344	ORF	Uncharacterized	YLR352W			chromosome 12		12	831116	833539	W		2011-02-03	1996-07-31	Putative protein of unknown function with similarity to F-box proteins; interacts with Skp1p and Cdc53p; YLR352W is not an essential gene
+S000033355	CDS					YLR352W		12	831116	833539	W		2011-02-03	1996-07-31	
+S000004345	ORF	Verified	YLR353W	BUD8		chromosome 12	L000002759	12	834352	836163	W		2011-02-03	1996-07-31	Protein involved in bud-site selection; diploid mutants display a unipolar budding pattern instead of the wild-type bipolar pattern, and bud at the proximal pole; BUD8 has a paralog, BUD9, that arose from the whole genome duplication
+S000033422	CDS					YLR353W		12	834352	836163	W		2011-02-03	1996-07-31	
+S000004346	ORF	Verified	YLR354C	TAL1	sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate transaldolase TAL1	chromosome 12	L000002261	12	837357	836350	C		2011-02-03	1996-07-31	Transaldolase, enzyme in the non-oxidative pentose phosphate pathway; converts sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate to erythrose 4-phosphate and fructose 6-phosphate; TAL1 has a paralog, NQM1, that arose from the whole genome duplication
+S000033457	CDS					YLR354C		12	837357	836350	C		2011-02-03	1996-07-31	
+S000004347	ORF	Verified	YLR355C	ILV5	ketol-acid reductoisomerase	chromosome 12	L000000860	12	839253	838066	C	252	2011-02-03	1996-07-31	Acetohydroxyacid reductoisomerase and mtDNA binding protein; involved in branched-chain amino acid biosynthesis and maintenance of wild-type mitochondrial DNA; found in mitochondrial nucleoids
+S000033517	CDS					YLR355C		12	839253	838066	C		2011-02-03	1996-07-31	
+S000004348	ORF	Verified	YLR356W	ATG33		chromosome 12		12	840321	840914	W		2011-02-03	1996-07-31	Mitochondrial mitophagy-specific protein; required primarily for mitophagy induced at post-log phase; not required for other types of selective autophagy or macroautophagy; conserved within fungi, but not in higher eukaryotes; ATG33 has a paralog, SCM4, that arose from the whole genome duplication
+S000034434	CDS					YLR356W		12	840321	840914	W		2011-02-03	1996-07-31	
+S000004349	ORF	Verified	YLR357W	RSC2		chromosome 12	L000004025	12	841331	844000	W		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; required for expression of mid-late sporulation-specific genes; involved in telomere maintenance; RSC2 has a paralog, RSC1, that arose from the whole genome duplication
+S000034579	CDS					YLR357W		12	841331	844000	W		2011-02-03	1996-07-31	
+S000004350	ORF	Uncharacterized	YLR358C			chromosome 12		12	844050	843487	C		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; partially overlaps ORF RSC2/YLR357W
+S000034588	CDS					YLR358C		12	844050	843487	C		2011-02-03	1996-07-31	
+S000004351	ORF	Verified	YLR359W	ADE13	adenylosuccinase ADE13|BRA8|BRA1	chromosome 12	L000003938	12	844282	845730	W		2011-02-03	1996-07-31	Adenylosuccinate lyase; catalyzes two steps in the 'de novo' purine nucleotide biosynthetic pathway; expression is repressed by adenine and activated by Bas1p and Pho2p; mutations in human ortholog ADSL cause adenylosuccinase deficiency; human ADSL can complement yeast ADE13 null mutant
+S000035650	CDS					YLR359W		12	844282	845730	W		2011-02-03	1996-07-31	
+S000004352	ORF	Verified	YLR360W	VPS38	VPL17	chromosome 12	L000003511	12	846103	847422	W		2011-02-03	1996-07-31	Part of a Vps34p phosphatidylinositol 3-kinase complex; functions in carboxypeptidase Y (CPY) sorting; binds Vps30p and Vps34p to promote production of phosphatidylinositol 3-phosphate (PtdIns3P) which stimulates kinase activity; required for overflow degradation of misfolded proteins when ERAD is saturated
+S000036679	CDS					YLR360W		12	846103	847422	W		2011-02-03	1996-07-31	
+S000004353	ORF	Verified	YLR361C	DCR2	phosphoprotein phosphatase	chromosome 12		12	849124	847388	C		2011-02-03	1996-07-31	Protein phosphatase; involved in downregulation of the unfolded protein response (UPR), at least in part through dephosphorylation of Ire1p; dosage-dependent positive regulator of the G1/S phase transition through control of the timing of START; physically interacts with, dephosphorylates and destabilizes Sic1p; SWAT-GFP and mCherry fusion proteins localize to the vacuole
+S000036700	CDS					YLR361C		12	849124	847388	C		2011-02-03	1996-07-31	
+S000028845	ORF	Uncharacterized	YLR361C-A			chromosome 12		12	849679	849383	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000034530	CDS					YLR361C-A		12	849679	849383	C		2011-02-03	2003-07-29	
+S000004354	ORF	Verified	YLR362W	STE11	mitogen-activated protein kinase kinase kinase STE11	chromosome 12	L000002118	12	849866	852019	W	244	2011-02-03	1999-07-17|1996-07-31	Signal transducing MEK kinase; involved in pheromone response and pseudohyphal/invasive growth pathways where it phosphorylates Ste7p, and the high osmolarity response pathway, via phosphorylation of Pbs2p; regulated by Ste20p and Ste50p; protein abundance increases in response to DNA replication stress
+S000036796	CDS					YLR362W		12	849866	852019	W		2011-02-03	1999-07-17|1996-07-31	
+S000004355	ORF	Verified	YLR363C	NMD4		chromosome 12	L000002938	12	853151	852495	C		2011-02-03	1996-07-31	Protein that may be involved in nonsense-mediated mRNA decay; interacts with Nam7p, relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
+S000036803	CDS					YLR363C		12	853151	852495	C		2011-02-03	1996-07-31	
+S000007620	ORF	Verified	YLR363W-A			chromosome 12		12	853461	853718	W		2011-02-03	2001-02-26	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; relocalizes from nucleus to nucleolus upon DNA replication stress
+S000037218	CDS					YLR363W-A		12	853461	853718	W		2011-02-03	2001-02-26	
+S000004356	ORF	Verified	YLR364W	GRX8	glutathione-disulfide reductase GRX8	chromosome 12		12	854062	854391	W		2011-02-03	1996-07-31	Glutaredoxin that employs a dithiol mechanism of catalysis; monomeric; activity is low and null mutation does not affect sensitivity to oxidative stress; GFP-fusion protein localizes to the cytoplasm; expression strongly induced by arsenic
+S000037591	CDS					YLR364W		12	854062	854391	W		2011-02-03	1996-07-31	
+S000004357	ORF	Dubious	YLR365W			chromosome 12		12	855199	855531	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps dubious gene YLR364C-A; YLR365W is not an essential gene
+S000037651	CDS					YLR365W		12	855199	855531	W		2011-02-03	1996-07-31	
+S000004358	ORF	Dubious	YLR366W			chromosome 12		12	855538	855843	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR364C-A
+S000037710	CDS					YLR366W		12	855538	855843	W		2011-02-03	1996-07-31	
+S000028846	ORF	Dubious	YLR364C-A			chromosome 12		12	855645	855523	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR366W
+S000034531	CDS					YLR364C-A		12	855645	855523	C		2011-02-03	2003-07-29	
+S000004359	ORF	Verified	YLR367W	RPS22B	uS8|ribosomal 40S subunit protein S22B|S8|rp50|YS22|S24B|S22B	chromosome 12	L000003030	12	856442	857317	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S15A and bacterial S8; RPS22B has a paralog, RPS22A, that arose from the whole genome duplication
+S000037773	CDS					YLR367W		12	856442	856574	W		2011-02-03	1996-07-31	
+S000037774	CDS					YLR367W		12	857058	857317	W		2011-02-03	1996-07-31	
+S000122108	five_prime_UTR_intron					YLR367W		12	855878	856434	W		2011-02-03	2007-04-04	
+S000037775	intron					YLR367W		12	856575	857057	W		2011-02-03	1996-07-31	
+S000006504	snoRNA_gene		snR44	SNR44		chromosome 12	L000003411	12	856710	856920	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U1056 and small subunit (SSU) rRNA at position U106
+S000030616	noncoding_exon					snR44		12	856710	856920	W		2011-02-03	2000-05-19	
+S000004360	ORF	Verified	YLR368W	MDM30	SCF ubiquitin ligase complex subunit MDM30|DSG1	chromosome 12		12	857540	859336	W		2011-02-03	1996-07-31	F-box component of an SCF ubiquitin protein ligase complex; associates with and is required for Fzo1p ubiquitination and for mitochondria fusion; stimulates nuclear export of specific mRNAs; promotes ubiquitin-mediated degradation of Gal4p in some strains
+S000030625	CDS					YLR368W		12	857540	859336	W		2011-02-03	1996-07-31	
+S000004361	ORF	Verified	YLR369W	SSQ1	Hsp70 family ATPase SSQ1|SSH1|SSC2	chromosome 12	L000004573	12	859552	861525	W		2011-02-03	1996-07-31	Mitochondrial hsp70-type molecular chaperone; required for assembly of iron/sulfur clusters into proteins at a step after cluster synthesis, and for maturation of Yfh1p, which is a homolog of human frataxin implicated in Friedreich's ataxia
+S000030742	CDS					YLR369W		12	859552	861525	W		2011-02-03	1996-07-31	
+S000004362	ORF	Verified	YLR370C	ARC18		chromosome 12	L000004033	12	862254	861718	C		2011-02-03	1996-07-31	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches
+S000031542	CDS					YLR370C		12	862254	861718	C		2011-02-03	1996-07-31	
+S000004363	ORF	Verified	YLR371W	ROM2	Rho family guanine nucleotide exchange factor ROM2	chromosome 12	L000003182	12	862714	866784	W		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for Rho1p and Rho2p; mutations are synthetically lethal with mutations in rom1, which also encodes a GEF; Rom2p localization to the bud surface is dependent on Ack1p; ROM2 has a paralog, ROM1, that arose from the whole genome duplication
+S000031699	CDS					YLR371W		12	862714	866784	W		2011-02-03	1996-07-31	
+S000004364	ORF	Verified	YLR372W	ELO3	SUR4|fatty acid elongase ELO3|APA1|VBM1|SRE1	chromosome 12	L000002245	12	867354	868391	W		2011-02-03	1996-07-31	Elongase; involved in fatty acid and sphingolipid biosynthesis; synthesizes very long chain 20-26-carbon fatty acids from C18-CoA primers; involved in regulation of sphingolipid biosynthesis; lethality of the elo2 elo3 double null mutation is functionally complemented by human ELOVL1 and weakly complemented by human ELOVL3 or ELOV7
+S000031801	CDS					YLR372W		12	867354	868391	W		2011-02-03	1996-07-31	
+S000004365	ORF	Verified	YLR373C	VID22		chromosome 12		12	871367	868662	C		2011-02-03	1996-07-31	Glycosylated integral membrane protein localized to plasma membrane; plays a role in fructose-1,6-bisphosphatase (FBPase) degradation; involved in FBPase transport from the cytosol to Vid (vacuole import and degradation) vesicles; VID22 has a paralog, ENV11, that arose from the whole genome duplication
+S000031859	CDS					YLR373C		12	871367	868662	C		2011-02-03	1996-07-31	
+S000004367	ORF	Verified	YLR375W	STP3		chromosome 12	L000003371	12	871697	872728	W		2011-02-03	1996-07-31	Zinc-finger protein of unknown function; possibly involved in pre-tRNA splicing and in uptake of branched-chain amino acids; STP3 has a paralog, STP4, that arose from the whole genome duplication
+S000032922	CDS					YLR375W		12	871697	872728	W		2011-02-03	1996-07-31	
+S000004366	ORF	Dubious	YLR374C			chromosome 12		12	871842	871453	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF STP3/YLR375W
+S000032763	CDS					YLR374C		12	871842	871453	C		2011-02-03	1996-07-31	
+S000004368	ORF	Verified	YLR376C	PSY3		chromosome 12		12	873554	872826	C		2011-02-03	1996-07-31	Component of Shu complex (aka PCSS complex); Shu complex also includes Shu1, Csm2, Shu2, and promotes error-free DNA repair; promotes Rad51p filament assembly; Shu complex mediates inhibition of Srs2p function; Psy3p and Csm2p contain similar DNA-binding regions which work together to form a single DNA binding site; deletion of PSY3 results in a mutator phenotype; deletion increases sensitivity to anticancer drugs oxaliplatin and cisplatin but not mitomycin C
+S000032974	CDS					YLR376C		12	873554	872826	C		2011-02-03	1996-07-31	
+S000004369	ORF	Verified	YLR377C	FBP1	fructose 1,6-bisphosphate 1-phosphatase|ACN8	chromosome 12	L000000605	12	874792	873746	C		2011-02-03	1996-07-31	Fructose-1,6-bisphosphatase; key regulatory enzyme in the gluconeogenesis pathway, required for glucose metabolism; undergoes either proteasome-mediated or autophagy-mediated degradation depending on growth conditions; glucose starvation results in redistribution to the periplasm; interacts with Vid30p
+S000033041	CDS					YLR377C		12	874792	873746	C		2011-02-03	1996-07-31	
+S000006633	tRNA_gene		tK(UUU)L			chromosome 12	L000003655	12	875376	875471	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034214	intron					tK(UUU)L		12	875413	875435	W		2011-02-03	2000-05-19	
+S000034212	noncoding_exon					tK(UUU)L		12	875376	875412	W		2011-02-03	2000-05-19	
+S000034213	noncoding_exon					tK(UUU)L		12	875436	875471	W		2011-02-03	2000-05-19	
+S000004371	ORF	Dubious	YLR379W			chromosome 12		12	876922	877296	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the essential ORF SEC61/YLR378C
+S000033877	CDS					YLR379W		12	876922	877296	W		2011-02-03	1996-07-31	
+S000004370	ORF	Verified	YLR378C	SEC61	translocon subunit SEC61	chromosome 12	L000001852	12	877178	875736	C		2011-02-03	1996-07-31	Conserved ER protein translocation channel; essential subunit of Sec61 complex (Sec61p, Sbh1p, and Sss1p); forms channel for SRP-dependent protein import; with Sec63 complex allows SRP-independent protein import into ER; involved in posttranslational soluble protein import into the ER, ERAD of soluble substrates, and misfolded soluble protein export from the ER
+S000033713	CDS					YLR378C		12	877178	875736	C		2011-02-03	1996-07-31	
+S000004372	ORF	Verified	YLR380W	CSR1	SFH2	chromosome 12	S000007449	12	878282	879508	W		2004-02-05	1996-07-31	Phosphatidylinositol transfer protein; has a potential role in regulating lipid and fatty acid metabolism under heme-depleted conditions; interacts specifically with thioredoxin peroxidase; may have a role in oxidative stress resistance; protein abundance increases in response to DNA replication stress
+S000034850	CDS					YLR380W		12	878282	879508	W		2004-02-05	1996-07-31	
+S000004373	ORF	Verified	YLR381W	CTF3	CHL3	chromosome 12	L000000320	12	879723	881924	W		2004-02-05	1996-07-31	Outer kinetochore protein that forms a complex with Mcm16p and Mcm22p; may bind the kinetochore to spindle microtubules; required for the spindle assembly checkpoint; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-I and fission yeast mis6
+S000034982	CDS					YLR381W		12	879723	881924	W		2004-02-05	1996-07-31	
+S000004374	ORF	Verified	YLR382C	NAM2	leucine--tRNA ligase NAM2|LeuRS|MSL1	chromosome 12	L000001229	12	884751	882067	C	325	2004-02-05	1996-07-31	Mitochondrial leucyl-tRNA synthetase; also has direct role in splicing of several mitochondrial group I introns; indirectly required for mitochondrial genome maintenance; human homolog LARS2 can complement yeast null mutant, and is implicated in Perrault syndrome
+S000035844	CDS					YLR382C		12	884751	882067	C		2004-02-05	1996-07-31	
+S000004375	ORF	Verified	YLR383W	SMC6	DNA repair protein SMC6|RHC18	chromosome 12	L000004130	12	885288	888632	W		2004-02-05	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; homologous to S. pombe rad18
+S000036068	CDS					YLR383W		12	885288	888632	W		2004-02-05	1996-07-31	
+S000118987	ARS		ARS1238		ARSXII-889|ARS1227.5	chromosome 12		12	888570	888810			2006-10-02	2006-10-02	Autonomously Replicating Sequence
+S000178143	ARS_consensus_sequence					ARS1238		12	888741	888725	C		2014-11-18	2014-11-18	
+S000004376	ORF	Verified	YLR384C	IKI3	Elongator subunit IKI3|KTI7|TOT1|ELP1	chromosome 12	L000003563	12	892900	888851	C		2004-02-05	1996-07-31	Subunit of Elongator complex; Elongator is required for modification of wobble nucleosides in tRNA; maintains structural integrity of Elongator; homolog of human IKAP, mutations in which cause familial dysautonomia (FD)
+S000036126	CDS					YLR384C		12	892900	888851	C		2004-02-05	1996-07-31	
+S000004377	ORF	Verified	YLR385C	SWC7	AWS1	chromosome 12		12	893390	892992	C		2004-02-05	1996-07-31	Protein of unknown function; component of the Swr1p complex that incorporates Htz1p into chromatin
+S000036905	CDS					YLR385C		12	893390	892992	C		2004-02-05	1996-07-31	
+S000004378	ORF	Verified	YLR386W	VAC14		chromosome 12		12	893628	896270	W		2004-02-05	1996-07-31	Enzyme regulator; involved in synthesis of phosphatidylinositol 3,5-bisphosphate, in control of trafficking of some proteins to the vacuole lumen via the MVB, and in maintenance of vacuole size and acidity; binds negative (Fig4p) and positive (Fab1p) regulators of PtdIns(3,5)P(2) to control endolysosome function; similar to mammalian Vac14p
+S000037006	CDS					YLR386W		12	893628	896270	W		2004-02-05	1996-07-31	
+S000004379	ORF	Verified	YLR387C	REH1		chromosome 12		12	897672	896374	C		2004-02-05	1996-07-31	Cytoplasmic 60S subunit biogenesis factor; associates with pre-60S particles; similar to Rei1p and shares partially redundant function in cytoplasmic 60S subunit maturation; contains dispersed C2H2 zinc finger domains
+S000037044	CDS					YLR387C		12	897672	896374	C		2004-02-05	1996-07-31	
+S000004380	ORF	Verified	YLR388W	RPS29A	uS14|ribosomal 40S subunit protein S29A|S14|YS29|S36A|S29A|YS29A	chromosome 12	L000004482|S000029649|L000002549	12	898651	898821	W		2004-02-05	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S29 and bacterial S14; RPS29A has a paralog, RPS29B, that arose from the whole genome duplication
+S000037830	CDS					YLR388W		12	898651	898821	W		2004-02-05	1996-07-31	
+S000122109	five_prime_UTR_intron					YLR388W		12	898158	898645	W		2007-04-04	2007-04-04	
+S000006500	snoRNA_gene		snR34	SNR34		chromosome 12	L000001972	12	899180	899382	W		2007-05-10	2000-05-19|2007-05-10	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U2826 and U2880
+S000036763	noncoding_exon					snR34		12	899180	899382	W		2007-05-10	2000-05-19|2007-05-10	
+S000004381	ORF	Verified	YLR389C	STE23	metalloendopeptidase	chromosome 12	L000003081	12	902660	899577	C		2004-02-05	2004-02-05|1996-07-31	Metalloprotease; involved in N-terminal processing of pro-a-factor to mature form; expressed in both haploids and diploids; one of two yeast homologs of human insulin-degrading enzyme (hIDE); homolog Axl1p is also involved in processing of pro-a-factor
+S000037885	CDS					YLR389C		12	902660	899577	C		2004-02-05	2004-02-05|1996-07-31	
+S000004382	ORF	Verified	YLR390W	ECM19		chromosome 12	L000003894	12	903066	903404	W		2004-02-05	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000030926	CDS					YLR390W		12	903066	903404	W		2004-02-05	1996-07-31	
+S000006429	ORF	Verified	YLR390W-A	CCW14	ICWP|YLR391W|SSR1|YLR391W-A	chromosome 12	L000004428	12	903724	904440	W		2004-02-05	1997-07-30	Covalently linked cell wall glycoprotein; present in the inner layer of the cell wall
+S000037801	CDS					YLR390W-A		12	903724	904440	W		2004-02-05	1997-07-30	
+S000004384	ORF	Verified	YLR392C	ART10		chromosome 12		12	906305	904749	C		2004-02-05	1996-07-31	Protein of unknown function that contains 2 PY motifs; ubiquinated by Rsp5p; overexpression confers resistance to arsenite; green fluorescent protein (GFP)-fusion protein localizes it to the cytoplasm; non-essential gene
+S000031038	CDS					YLR392C		12	906305	904749	C		2004-02-05	1996-07-31	
+S000004385	ORF	Verified	YLR393W	ATP10		chromosome 12	L000000147	12	907079	907918	W		2004-02-05	1996-07-31	Assembly factor for the F0 sector of mitochondrial F1F0 ATP synthase; mitochondrial inner membrane protein; interacts genetically with ATP6
+S000032047	CDS					YLR393W		12	907079	907918	W		2004-02-05	1996-07-31	
+S000004386	ORF	Verified	YLR394W	CST9	SUMO ligase CST9|ZIP3	chromosome 12	L000002996	12	907950	909398	W		2004-02-05	1996-07-31	SUMO E3 ligase; required for synaptonemal complex formation; localizes to synapsis initiation sites on meiotic chromosomes; associates with centromeres early in meiosis, then with chromosome axes and finally with double-strand break sites that are engaged in repair by crossovers; potential Cdc28p substrate
+S000032126	CDS					YLR394W		12	907950	909398	W		2004-02-05	1996-07-31	
+S000004387	ORF	Verified	YLR395C	COX8	cytochrome c oxidase subunit VIII	chromosome 12	L000000392	12	909965	909729	C		2004-02-05	1996-07-31	Subunit VIII of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain
+S000032155	CDS					YLR395C		12	909965	909729	C		2004-02-05	1996-07-31	
+S000004388	ORF	Verified	YLR396C	VPS33	tethering complex ATP-binding subunit VPS33|VPT33|VPL25|VAM5|SLP1|PEP14|MET27|CLS14	chromosome 12	L000002475	12	912310	910235	C		2004-02-05	1996-07-31	ATP-binding protein that is a subunit of the HOPS and CORVET complexes; essential for protein sorting, vesicle docking, and fusion at the vacuole; binds to SNARE domains
+S000032235	CDS					YLR396C		12	912310	910235	C		2004-02-05	1996-07-31	
+S000004389	ORF	Verified	YLR397C	AFG2	AAA family ATPase AFG2|DRG1	chromosome 12	L000000056	12	914892	912550	C		2004-02-05	1996-07-31	ATPase of the CDC48/PAS1/SEC18 (AAA) family, forms a hexameric complex; is essential for pre-60S maturation and release of several preribosome maturation factors; releases Rlp24p from purified pre-60S particles in vitro; target of the ribosomal biosynthesis inhibitor diazaborine; may be involved in degradation of aberrant mRNAs
+S000032306	CDS					YLR397C		12	914892	912550	C		2004-02-05	1996-07-31	
+S000004390	ORF	Verified	YLR398C	SKI2	SKI complex RNA helicase subunit SKI2	chromosome 12	L000001903	12	919019	915156	C		2004-02-05	1996-07-31	Ski complex component and putative RNA helicase; mediates 3'-5' RNA degradation by the cytoplasmic exosome; null mutants have superkiller phenotype of increased viral dsRNAs and are synthetic lethal with mutations in 5'-3' mRNA decay; mutations in the human ortholog, SKIV2L, causes Syndromic diarrhea/Trichohepatoenteric (SD/THE) syndrome
+S000033167	CDS					YLR398C		12	919019	915156	C		2004-02-05	1996-07-31	
+S000130185	ARS		ARS1228			chromosome 12		12	919800	920994			2009-05-08	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000028682	ORF	Dubious	YLR399W-A			chromosome 12		12	920869	920973	W		2004-02-05	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the characterized ORF BDF1/YLR399C
+S000032553	CDS					YLR399W-A		12	920869	920973	W		2004-02-05	2003-07-29	
+S000004391	ORF	Verified	YLR399C	BDF1	chromatin-binding protein BDF1	chromosome 12	L000000165	12	921596	919536	C		2004-02-05	1996-07-31	Protein involved in transcription initiation; functions at TATA-containing promoters; associates with the basal transcription factor TFIID; contains two bromodomains; corresponds to the C-terminal region of mammalian TAF1; redundant with Bdf2p; BDF1 has a paralog, BDF2, that arose from the whole genome duplication
+S000033234	CDS					YLR399C		12	921596	919536	C		2004-02-05	1996-07-31	
+S000004392	ORF	Dubious	YLR400W			chromosome 12		12	922063	922536	W		2004-02-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031650	CDS					YLR400W		12	922063	922536	W		2004-02-05	1996-07-31	
+S000004393	ORF	Verified	YLR401C	DUS3	tRNA dihydrouridine synthase DUS3	chromosome 12		12	924448	922442	C		2006-01-09	1996-07-31|2006-01-09	Dihydrouridine synthase; member of a widespread family of conserved proteins including Smm1p, Dus1p, and Dus4p; contains a consensus oleate response element (ORE) in its promoter region; forms nuclear foci upon DNA replication stress
+S000031698	CDS					YLR401C		12	924448	922442	C		2006-01-09	1996-07-31|2006-01-09	
+S000004394	ORF	Dubious	YLR402W			chromosome 12		12	924889	925080	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032705	CDS					YLR402W		12	924889	925080	W		2011-02-03	1996-07-31|2011-02-03	
+S000004395	ORF	Verified	YLR403W	SFP1	zinc-coordinating transcription factor SFP1|[ISP+]|[ISP(+)]	chromosome 12	L000001872	12	925568	927619	W		2011-02-03	1996-07-31	Regulates transcription of ribosomal protein and biogenesis genes; regulates response to nutrients and stress, G2/M transitions during mitotic cell cycle and DNA-damage response, and modulates cell size; regulated by TORC1 and Mrs6p; sequence of zinc finger, ChIP localization data, and protein-binding microarray (PBM) data, and computational analyses suggest it binds DNA directly at highly active RP genes and indirectly through Rap1p at others; can form the [ISP+] prion
+S000032808	CDS					YLR403W		12	925568	927619	W		2011-02-03	1996-07-31	
+S000004396	ORF	Verified	YLR404W	SEI1	seipin|FLD1	chromosome 12		12	928743	929600	W		2011-02-03	1996-07-31	Seipin involved in lipid droplet (LD) assembly; controls lipid particle morphology, number, and size; promotes initiation of LD formation on the ER; ensures that LDs bud from the ER towards the cytosolic side of the membrane; forms a complex with Ldb16p at ER-LD contact sites, stabilizing these sites; null mutants have localized accumulation of phosphatidic acid (PA) marker proteins; BSCL2, human homolog implicated in congenital lipodystrophy, complements yeast null mutant
+S000032908	CDS					YLR404W		12	928743	929600	W		2011-02-03	1996-07-31	
+S000004397	ORF	Verified	YLR405W	DUS4	tRNA dihydrouridine synthase	chromosome 12		12	929789	930892	W		2011-02-03	1996-07-31	Dihydrouridine synthase; member of a widespread family of conserved proteins including Smm1p, Dus1p, and Dus3p
+S000034865	CDS					YLR405W		12	929789	930892	W		2011-02-03	1996-07-31	
+S000130186	ARS		ARS1230			chromosome 12		12	930891	931064			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000004398	ORF	Verified	YLR406C	RPL31B	eL31|ribosomal 60S subunit protein L31B|L31e|YL28|L34B|L31B	chromosome 12	L000004463	12	931755	931065	C		2011-02-03	1999-07-17|1996-07-31	Ribosomal 60S subunit protein L31B; associates with karyopherin Sxm1p; loss of both Rpl31p and Rpl39p confers lethality; homologous to mammalian ribosomal protein L31, no bacterial homolog; RPL31B has a paralog, RPL31A, that arose from the whole genome duplication
+S000034912	CDS					YLR406C		12	931349	931065	C		2011-02-03	1999-07-17|1996-07-31	
+S000034911	CDS					YLR406C		12	931755	931699	C		2011-02-03	1999-07-17|1996-07-31	
+S000034913	intron					YLR406C		12	931698	931350	C		2011-02-03	1999-07-17|1996-07-31	
+S000028683	ORF	Uncharacterized	YLR406C-A			chromosome 12		12	932355	932206	C		2011-02-03	2003-07-29	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
+S000032554	CDS					YLR406C-A		12	932355	932206	C		2011-02-03	2003-07-29	
+S000004399	ORF	Uncharacterized	YLR407W			chromosome 12		12	932967	933653	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; null mutant displays elongated buds and a large fraction of budded cells have only one nucleus
+S000035114	CDS					YLR407W		12	932967	933653	W		2011-02-03	1996-07-31|2011-02-03	
+S000004400	ORF	Verified	YLR408C	BLS1	BLB1	chromosome 12		12	934253	933885	C		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; green fluorescent protein (GFP)-fusion protein localizes to the endosome; YLR408C is not an essential gene
+S000035167	CDS					YLR408C		12	934253	933885	C		2011-02-03	1996-07-31	
+S000004401	ORF	Verified	YLR409C	UTP21	rRNA-processing protein UTP21	chromosome 12		12	937233	934414	C		2011-02-03	1996-07-31	Subunit of U3-containing 90S preribosome and SSU processome complexes; involved in production of 18S rRNA and assembly of small ribosomal subunit; synthetic defect with STI1 Hsp90 cochaperone; human homolog linked to glaucoma; Small Subunit processome is also known as SSU processome
+S000035261	CDS					YLR409C		12	937233	934414	C		2011-02-03	1996-07-31	
+S000004402	ORF	Verified	YLR410W	VIP1	inositol polyphosphate kinase VIP1	chromosome 12	L000004547	12	937541	940981	W		2011-02-03	1996-07-31	Inositol hexakisphosphate and inositol heptakisphosphate kinase; inositol heptakisphosphate (IP7) production is important for phosphate signaling; involved in cortical actin cytoskeleton function, and invasive pseudohyphal growth analogous to S. pombe asp1; inositol hexakisphosphate is also known as IP6
+S000035093	CDS					YLR410W		12	937541	940981	W		2011-02-03	1996-07-31	
+S000007093	long_terminal_repeat		YLRWdelta22			chromosome 12		12	941192	941523	W		2011-02-03	2000-05-19	Ty2 LTR
+S000007100	LTR_retrotransposon		YLRWTy2-1		Ty2	chromosome 12		12	941192	947150	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007379	transposable_element_gene		YLR410W-A		gag protein	chromosome 12		12	941483	942799	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000034166	CDS					YLR410W-A		12	941483	942799	W		2011-02-03	1999-07-17	
+S000007380	transposable_element_gene		YLR410W-B		gag-pol fusion protein	chromosome 12		12	941483	946796	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000034173	CDS					YLR410W-B		12	941483	942775	W		2011-02-03	1999-07-17	
+S000034174	CDS					YLR410W-B		12	942777	946796	W		2011-02-03	1999-07-17	
+S000034175	plus_1_translational_frameshift					YLR410W-B		12	942776	942776	W		2011-02-03	1999-07-17	
+S000007094	long_terminal_repeat		YLRWdelta23			chromosome 12		12	946819	947150	W		2011-02-03	2000-05-19	Ty2 LTR
+S000004403	ORF	Verified	YLR411W	CTR3	high-affinity Cu transporter CTR3	chromosome 12	L000003441	12	947253	947978	W		2011-02-03	1996-07-31	High-affinity copper transporter of the plasma membrane; acts as a trimer; gene is disrupted by a Ty2 transposon insertion in many laboratory strains of S. cerevisiae
+S000035281	CDS					YLR411W		12	947253	947978	W		2011-02-03	1996-07-31	
+S000004404	ORF	Verified	YLR412W	BER1		chromosome 12	S000116954	12	948368	949192	W		2011-02-03	1996-07-31	Protein involved in microtubule-related processes; GFP-fusion protein localizes to the cytoplasm and is induced in response to the DNA-damaging agent MMS; YLR412W is not an essential gene; similar to Arabidopsis SRR1 gene
+S000036189	CDS					YLR412W		12	948368	949192	W		2011-02-03	1996-07-31	
+S000028572	ORF	Uncharacterized	YLR412C-A			chromosome 12		12	950473	950267	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000031300	CDS					YLR412C-A		12	950473	950267	C		2011-02-03	2003-07-29	
+S000004405	ORF	Verified	YLR413W	INA1		chromosome 12		12	951156	953183	W		2011-02-03	1996-07-31	Protein of unknown function; not an essential gene; YLR413W has a paralog, FAT3, that arose from the whole genome duplication
+S000036302	CDS					YLR413W		12	951156	953183	W		2011-02-03	1996-07-31	
+S000004406	ORF	Verified	YLR414C	PUN1		chromosome 12		12	954144	953353	C		2011-02-03	1996-07-31	Plasma membrane protein with a role in cell wall integrity; co-localizes with Sur7p in punctate membrane patches; null mutant displays decreased thermotolerance; transcription induced upon cell wall damage and metal ion stress
+S000036366	CDS					YLR414C		12	954144	953353	C		2011-02-03	1996-07-31	
+S000004407	ORF	Uncharacterized	YLR415C			chromosome 12		12	954597	954259	C		2011-02-03	1996-07-31	Putative protein of unknown function; YLR415C is not an essential gene
+S000036440	CDS					YLR415C		12	954597	954259	C		2011-02-03	1996-07-31	
+S000004408	ORF	Dubious	YLR416C			chromosome 12		12	954889	954491	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037090	CDS					YLR416C		12	954889	954491	C		2011-02-03	1996-07-31	
+S000004409	ORF	Verified	YLR417W	VPS36	ESCRT-II subunit protein VPS36|VPL11|VAC3|GRD12	chromosome 12	L000002958	12	955010	956710	W		2011-02-03	1996-07-31	Component of the ESCRT-II complex; contains the GLUE (GRAM Like Ubiquitin binding in EAP45) domain which is involved in interactions with ESCRT-I and ubiquitin-dependent sorting of proteins into the endosome; plays a role in the formation of mutant huntingtin (Htt) aggregates in yeast
+S000037244	CDS					YLR417W		12	955010	956710	W		2011-02-03	1996-07-31	
+S000004410	ORF	Verified	YLR418C	CDC73		chromosome 12	L000002792	12	958095	956914	C		2011-02-03	1996-07-31	Component of the Paf1p complex; binds to and modulates the activity of RNA polymerases I and II; required for expression of certain genes, modification of some histones, and telomere maintenance; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay; protein abundance increases in response to DNA replication stress; human homolog, parafibromin, is a tumour suppressor linked to breast, renal and gastric cancers
+S000037277	CDS					YLR418C		12	958095	956914	C		2011-02-03	1996-07-31	
+S000004411	ORF	Uncharacterized	YLR419W		putative helicase	chromosome 12		12	958428	962735	W		2011-02-03	1996-07-31	Putative helicase with limited sequence similarity to human Rb protein; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YLR419W is not an essential gene
+S000037392	CDS					YLR419W		12	958428	962735	W		2011-02-03	1996-07-31	
+S000006652	tRNA_gene		tL(UAA)L			chromosome 12	L000003658	12	963055	962972	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000037412	noncoding_exon					tL(UAA)L		12	963055	962972	C		2011-02-03	2000-05-19	
+S000007075	long_terminal_repeat		YLRWdelta24		YLRCdelta24	chromosome 12		12	963230	963545	W		2011-02-03	2000-05-19|2007-04-03	Ty1 LTR
+S000004412	ORF	Verified	YLR420W	URA4	dihydroorotase	chromosome 12	L000002433	12	963785	964879	W	304	2011-02-03	1996-07-31	Dihydroorotase; catalyzes the third enzymatic step in the de novo biosynthesis of pyrimidines, converting carbamoyl-L-aspartate into dihydroorotate
+S000031350	CDS					YLR420W		12	963785	964879	W		2011-02-03	1996-07-31	
+S000004413	ORF	Verified	YLR421C	RPN13	proteasome regulatory particle lid subunit RPN13	chromosome 12		12	965560	965090	C		2011-02-03	1996-07-31	Subunit of the 19S regulatory particle of the 26S proteasome lid; acts as a ubiquitin receptor for the proteasome; null mutants accumulate ubiquitinated Gcn4p and display decreased 26S proteasome stability; protein abundance increases in response to DNA replication stress
+S000031396	CDS					YLR421C		12	965560	965090	C		2011-02-03	1996-07-31	
+S000004414	ORF	Verified	YLR422W	DCK1		chromosome 12		12	965897	971695	W		2011-02-03	1996-07-31	Dock family protein (Dedicator Of CytoKinesis), homolog of human DOCK1; upstream component for regulation through the small GTPase Rho5p; may form a complex with Lmo1p that acts as a GEF for Rho5p; interacts with Ino4p; cytoplasmic protein that relocates to mitochondria under oxidative stress; implicated in mitophagy; not an essential protein; DOCK proteins act as guanine nucleotide exchange factors
+S000032478	CDS					YLR422W		12	965897	971695	W		2011-02-03	1996-07-31	
+S000004415	ORF	Verified	YLR423C	ATG17	protein kinase regulatory subunit ATG17|APG17	chromosome 12		12	973170	971917	C		2011-02-03	1996-07-31	Scaffold protein responsible for phagophore assembly site organization; regulatory subunit of an autophagy-specific complex that includes Atg1p and Atg13p; stimulates Atg1p kinase activity; human ortholog RB1CC1/FIP200 interacts with p53, which inhibits autophagy in human cells
+S000032513	CDS					YLR423C		12	973170	971917	C		2011-02-03	1996-07-31	
+S000004416	ORF	Verified	YLR424W	SPP382	mRNA splicing protein SPP382|NTR1|CCF8	chromosome 12		12	973395	975521	W		2011-02-03	1996-07-31	Essential protein that forms a dimer with Ntr2p; also forms a trimer, with Ntr2p and Prp43p, that is involved in spliceosome disassembly; found also in a multisubunit complex with the splicing factor Clf1p; suppressor of prp38-1 mutation
+S000032667	CDS					YLR424W		12	973395	975521	W		2011-02-03	1996-07-31	
+S000006672	tRNA_gene		tN(GUU)L			chromosome 12	L000003657	12	976056	975983	C		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000030743	noncoding_exon					tN(GUU)L		12	976056	975983	C		2011-02-03	2000-05-19	
+S000007076	long_terminal_repeat		YLRCdelta25			chromosome 12		12	976589	976258	C		2011-02-03	2000-05-19	Ty2 LTR
+S000007082	LTR_retrotransposon		YLRCTy2-2		Ty2	chromosome 12		12	981700	976258	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
+S000007077	long_terminal_repeat		YLRCdelta26			chromosome 12		12	981700	981369	C		2011-02-03	2000-05-19	Ty2 LTR
+S000004417	ORF	Verified	YLR425W	TUS1	Rho family guanine nucleotide exchange factor TUS1|SOP10	chromosome 12	L000004619|L000004622	12	982894	986817	W		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) that modulates Rho1p activity; involved in the cell integrity signaling pathway; interacts with Rgl1p; localization of Tus1p to the bed neck is regulated by Rgl1p; multicopy suppressor of tor2 mutation and ypk1 ypk2 double mutation; potential Cdc28p substrate
+S000033357	CDS					YLR425W		12	982894	986817	W		2011-02-03	1996-07-31	
+S000004418	ORF	Uncharacterized	YLR426W	TDA5		chromosome 12		12	987062	988113	W		2011-02-03	1996-07-31	Putative protein of unknown function; detected in highly purified mitochondria in high-throughput studies; proposed to be involved in resistance to mechlorethamine and streptozotocin; null mutant sensitive to expression of top1-T722A allele
+S000033424	CDS					YLR426W		12	987062	987141	W		2011-02-03	1996-07-31	
+S000033425	CDS					YLR426W		12	987213	988113	W		2011-02-03	1996-07-31	
+S000033426	intron					YLR426W		12	987142	987212	W		2011-02-03	1996-07-31	
+S000004419	ORF	Verified	YLR427W	MAG2		chromosome 12		12	988428	990440	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; induced in response to mycotoxin patulin; ubiquitinated protein similar to the human ring finger motif protein RNF10; predicted to be involved in repair of alkylated DNA due to interaction with MAG1
+S000033509	CDS					YLR427W		12	988428	990440	W		2011-02-03	1996-07-31	
+S000004421	ORF	Verified	YLR429W	CRN1		chromosome 12	L000004279	12	990777	992732	W		2011-02-03	1996-07-31	Coronin; cortical actin cytoskeletal component that associates with the Arp2p/Arp3p complex to regulate its activity; plays a role in regulation of actin patch assembly
+S000034435	CDS					YLR429W		12	990777	992732	W		2011-02-03	1996-07-31	
+S000004420	ORF	Dubious	YLR428C			chromosome 12		12	990961	990617	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CRN1
+S000033519	CDS					YLR428C		12	990961	990617	C		2011-02-03	1996-07-31	
+S000004422	ORF	Verified	YLR430W	SEN1	putative DNA/RNA helicase SEN1|NRD2|CIK3	chromosome 12	L000001862	12	993434	1000129	W		2011-02-03	1996-07-31	ATP-dependent 5' to 3' RNA/DNA and DNA helicase; subunit of the exosome-associated Nrd1p complex that mediates 3' end formation of snRNAs, snoRNAs, CUTs and some mRNAs; helicase-independent role in transcription-coupled repair; coordinates replication with transcription, associating with moving forks and preventing errors that occur when forks encounter transcribed regions; homolog of Senataxin, implicated in Ataxia-Oculomotor Apraxia 2 and a dominant form of juvenile ALS
+S000035580	CDS					YLR430W		12	993434	1000129	W		2011-02-03	1996-07-31	
+S000004423	ORF	Verified	YLR431C	ATG23	CVT23	chromosome 12		12	1001703	1000342	C		2011-02-03	1996-07-31	Peripheral membrane protein required for autophagy and CVT; required for cytoplasm-to-vacuole targeting (Cvt) pathway and efficient macroautophagy; cycles between the phagophore assembly site (PAS) and non-PAS locations; forms a complex with Atg9p and Atg27p
+S000035614	CDS					YLR431C		12	1001703	1000342	C		2011-02-03	1996-07-31	
+S000004424	ORF	Verified	YLR432W	IMD3	IMP dehydrogenase IMD3	chromosome 12		12	1002557	1004128	W		2011-02-03	1996-07-31	Inosine monophosphate dehydrogenase; catalyzes the rate-limiting step in the de novo synthesis of GTP; member of a four-gene family in S. cerevisiae, constitutively expressed; IMD3 has a paralog, IMD4, that arose from the whole genome duplication
+S000035774	CDS					YLR432W		12	1002557	1004128	W		2011-02-03	1996-07-31	
+S000004425	ORF	Verified	YLR433C	CNA1	calcineurin catalytic subunit A|CMP1	chromosome 12	L000000370	12	1006008	1004347	C		2011-02-03	1996-07-31	Calcineurin A; one isoform (the other is Cmp2p) of the catalytic subunit of calcineurin, a Ca++/calmodulin-regulated protein phosphatase which regulates Crz1p (a stress-response transcription factor), the other calcineurin subunit is CNB1; regulates the function of Aly1p alpha-arrestin; CNA1 has a paralog, CMP2, that arose from the whole genome duplication
+S000036640	CDS					YLR433C		12	1006008	1004347	C		2011-02-03	1996-07-31	
+S000004427	ORF	Verified	YLR435W	TSR2		chromosome 12		12	1006378	1006995	W		2011-02-03	2003-09-22|1996-07-31	Protein with a potential role in pre-rRNA processing
+S000036797	CDS					YLR435W		12	1006378	1006995	W		2011-02-03	2003-09-22|1996-07-31	
+S000004426	ORF	Dubious	YLR434C			chromosome 12		12	1006408	1006025	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF TSR2/YLR435W
+S000036704	CDS					YLR434C		12	1006408	1006025	C		2011-02-03	1996-07-31	
+S000118481	ARS		ARS1232		ARSXII-1007	chromosome 12		12	1007186	1007475			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178144	ARS_consensus_sequence					ARS1232		12	1007235	1007251	W		2014-11-18	2014-11-18	
+S000004428	ORF	Verified	YLR436C	ECM30		chromosome 12	L000003900	12	1011245	1007421	C		2011-02-03	1996-07-31	Protein of unknown function; may play a role in cell wall biosynthesis, mutants have abormal relative levels of mannose and glucose and have Gap1p sorting and transport defects; (GFP)-fusion protein localizes to the cytoplasm
+S000036822	CDS					YLR436C		12	1011245	1007421	C		2011-02-03	1996-07-31	
+S000004429	ORF	Verified	YLR437C	DIF1		chromosome 12		12	1012023	1011622	C		2011-02-03	1996-07-31	Protein that regulates nuclear localization of Rnr2p and Rnr4p; phosphorylated by Dun1p in response to DNA damage and degraded; N-terminal half shows similarity to S. pombe Spd1 protein; DIF1 has a paralog, SML1, that arose from the whole genome duplication
+S000036873	CDS					YLR437C		12	1012023	1011622	C		2011-02-03	1996-07-31	
+S000004430	ORF	Verified	YLR438W	CAR2	ornithine-oxo-acid transaminase|cargB	chromosome 12	L000000217	12	1012501	1013775	W	330	2011-02-03	1996-07-31	L-ornithine transaminase (OTAse); catalyzes the second step of arginine degradation, expression is dually-regulated by allophanate induction and a specific arginine induction process; not nitrogen catabolite repression sensitive; protein abundance increases in response to DNA replication stress; human homolog OAT complements yeast null mutant
+S000037652	CDS					YLR438W		12	1012501	1013775	W		2011-02-03	1996-07-31	
+S000028684	ORF	Dubious	YLR437C-A			chromosome 12		12	1012686	1012459	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CAR2/YLR438W
+S000032558	CDS					YLR437C-A		12	1012686	1012459	C		2011-02-03	2003-07-29	
+S000118482	ARS		ARS1233		ARSXII-1014	chromosome 12		12	1013795	1014022			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178145	ARS_consensus_sequence					ARS1233		12	1013861	1013845	C		2014-11-18	2014-11-18	
+S000006434	ORF	Verified	YLR438C-A	LSM3	U4/U6-U5 snRNP complex subunit LSM3|USS2|SMX4	chromosome 12	L000004507	12	1014178	1013909	C		2011-02-03	1999-07-17	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; protein increases in abundance and relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
+S000037756	CDS					YLR438C-A		12	1014178	1013909	C		2011-02-03	1999-07-17	
+S000004431	ORF	Verified	YLR439W	MRPL4	mitochondrial 54S ribosomal protein YmL4|YmL4	chromosome 12	L000002523|L000001160	12	1014491	1015450	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; homolog of prokaryotic L29 ribosomal protein; located at the ribosomal tunnel exit
+S000037711	CDS					YLR439W		12	1014491	1015450	W		2011-02-03	1996-07-31	
+S000004432	ORF	Verified	YLR440C	SEC39	DSL3	chromosome 12		12	1017697	1015568	C		2011-02-03	1996-07-31	Component of the Dsl1p tethering complex; this complex interacts with ER SNAREs Sec20p and Use1p; mediates Sey1p-independent homotypic ER fusion; proposed to be involved in protein secretion; localizes to the ER and nuclear envelope
+S000030454	CDS					YLR440C		12	1017697	1015568	C		2011-02-03	1996-07-31	
+S000004433	ORF	Verified	YLR441C	RPS1A	eS1|ribosomal 40S subunit protein S1A|S1e|rp10A|S1A|RP10A	chromosome 12	L000001664	12	1018908	1018141	C		2011-02-03	1996-07-31	Ribosomal protein 10 (rp10) of the small (40S) subunit; homologous to mammalian ribosomal protein S3A, no bacterial homolog; RPS1A has a paralog, RPS1B, that arose from the whole genome duplication
+S000030594	CDS					YLR441C		12	1018908	1018141	C		2011-02-03	1996-07-31	
+S000004434	ORF	Verified	YLR442C	SIR3	chromatin-silencing protein SIR3|STE8|MAR2|CMT1	chromosome 12	L000001896	12	1022251	1019315	C	337	2011-02-03	1996-07-31	Silencing protein; interacts with Sir2p, Sir4p, and histone H3/H4 tails to establish transcriptionally silent chromatin; required for spreading of silenced chromatin; recruited to chromatin through interaction with Rap1p; C-terminus assumes variant winged helix-turn-helix (wH) fold that mediates homodimerization, which is critical for holo-SIR complex loading; required for telomere hypercluster formation in quiescent yeast cells; has paralog ORC1 from whole genome duplication
+S000030676	CDS					YLR442C		12	1022251	1019315	C		2011-02-03	1996-07-31	
+S000004435	ORF	Verified	YLR443W	ECM7	ZRG15	chromosome 12	L000003882	12	1022625	1023971	W		2011-02-03	1996-07-31	Putative integral membrane protein with a role in calcium uptake; non-essential protein; mutant has cell wall defects and Ca+ uptake deficiencies; transcription is induced under conditions of zinc deficiency
+S000031587	CDS					YLR443W		12	1022625	1023971	W		2011-02-03	1996-07-31	
+S000004436	ORF	Dubious	YLR444C			chromosome 12		12	1023988	1023686	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031628	CDS					YLR444C		12	1023988	1023686	C		2011-02-03	1996-07-31	
+S000118483	ARS		ARS1234		ARSXII-1024	chromosome 12		12	1024026	1024186			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000004437	ORF	Verified	YLR445W	GMC2		chromosome 12		12	1024189	1024837	W		2011-02-03	2004-02-03|1996-07-31	Protein involved in meiotic crossing over; component of the Synaptonemal Complex (SC) along with Ecm11p; required for the efficient loading of the SC transverse filament protein, Zip1p; promotes SUMOylation of Ecm11p; mutants are delayed in meiotic nuclear division and are defective in synaptonemal complex assembly; transcription is regulated by Ume6p and induced in response to alpha factor
+S000031804	CDS					YLR445W		12	1024189	1024572	W		2011-02-03	2004-02-03|1996-07-31	
+S000031805	CDS					YLR445W		12	1024655	1024837	W		2011-02-03	2004-02-03	
+S000031806	intron					YLR445W		12	1024573	1024654	W		2011-02-03	2004-02-03	
+S000004438	ORF	Uncharacterized	YLR446W		hexokinase	chromosome 12		12	1025214	1026515	W		2011-02-03	1996-07-31	Putative hexokinase; transcript is upregulated during sporulation and the unfolded protein response; YLR446W is not an essential gene
+S000031911	CDS					YLR446W		12	1025214	1026515	W		2011-02-03	1996-07-31	
+S000004439	ORF	Verified	YLR447C	VMA6	H(+)-transporting V0 sector ATPase subunit d	chromosome 12	L000002461	12	1027893	1026856	C		2011-02-03	1996-07-31	Subunit d of the V0 integral membrane domain of V-ATPase; part of the electrogenic proton pump found in the endomembrane system; required for V1 domain assembly on the vacuolar membrane; the V0 integral membrane domain of vacuolar H+-ATPase (V-ATPase) has five subunits
+S000032768	CDS					YLR447C		12	1027893	1026856	C		2011-02-03	1996-07-31	
+S000004440	ORF	Verified	YLR448W	RPL6B	eL6|ribosomal 60S subunit protein L6B|L6e|rp18|YL16|L6B|L17B	chromosome 12	L000001714	12	1028854	1029768	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L6B; binds 5.8S rRNA; homologous to mammalian ribosomal protein L6, no bacterial homolog; RPL6B has a paralog, RPL6A, that arose from the whole genome duplication
+S000032930	CDS					YLR448W		12	1028854	1028868	W		2011-02-03	1996-07-31	
+S000032931	CDS					YLR448W		12	1029253	1029768	W		2011-02-03	1996-07-31	
+S000032932	intron					YLR448W		12	1028869	1029252	W		2011-02-03	1996-07-31	
+S000004441	ORF	Verified	YLR449W	FPR4	peptidylprolyl isomerase FPR4	chromosome 12	L000004352	12	1030834	1032012	W		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (PPIase); nuclear proline isomerase; affects expression of multiple genes via its role in nucleosome assembly; catalyzes isomerization of proline residues in histones H3 and H4, which affects lysine methylation of those histones; PPIase domain acts as a transcriptional repressor when tethered to DNA by lexA, and repressor activity is dependent on PPIase activity; contains a nucleoplasmin-like fold and can form pentamers
+S000033009	CDS					YLR449W		12	1030834	1032012	W		2011-02-03	1996-07-31	
+S000004442	ORF	Verified	YLR450W	HMG2	hydroxymethylglutaryl-CoA reductase (NADPH) HMG2	chromosome 12	L000000790	12	1032627	1035764	W	343	2011-02-03	1996-07-31	HMG-CoA reductase; converts HMG-CoA to mevalonate, a rate-limiting step in sterol biosynthesis; one of two isozymes; overproduction induces assembly of peripheral ER membrane arrays and short nuclear-associated membrane stacks; forms foci at nuclear periphery upon DNA replication stress; HMG2 has a paralog, HMG1, that arose from the whole genome duplication; human homolog HMGCR can complement yeast hmg2 mutant
+S000033695	CDS					YLR450W		12	1032627	1035764	W		2011-02-03	1996-07-31	
+S000004443	ORF	Verified	YLR451W	LEU3	leucine-responsive transcriptional regulator LEU3	chromosome 12	L000000944	12	1036093	1038753	W	346	2011-02-03	1996-07-31	Zinc-knuckle transcription factor, repressor and activator; regulates genes involved in branched chain amino acid biosynthesis and ammonia assimilation; acts as a repressor in leucine-replete conditions and as an activator in the presence of alpha-isopropylmalate, an intermediate in leucine biosynthesis that accumulates during leucine starvation
+S000033823	CDS					YLR451W		12	1036093	1038753	W		2011-02-03	1996-07-31	
+S000004444	ORF	Verified	YLR452C	SST2	GTPase-activating protein SST2	chromosome 12	L000002093	12	1041366	1039270	C	344	2011-02-03	1996-07-31	GTPase-activating protein for Gpa1p; regulates desensitization to alpha factor pheromone; also required to prevent receptor-independent signaling of the mating pathway; member of the RGS (regulator of G-protein signaling) family
+S000034630	CDS					YLR452C		12	1041366	1039270	C		2011-02-03	1996-07-31	
+S000004445	ORF	Verified	YLR453C	RIF2		chromosome 12	L000003513	12	1042986	1041799	C		2011-02-03	1996-07-31	Protein that binds to the Rap1p C-terminus; acts synergistically with Rif1p to help control telomere length and establish telomeric silencing; deletion results in telomere elongation; RIF2 has a paralog, ORC4, that arose from the whole genome duplication
+S000034787	CDS					YLR453C		12	1042986	1041799	C		2011-02-03	1996-07-31	
+S000004446	ORF	Uncharacterized	YLR454W	FMP27		chromosome 12		12	1043998	1051884	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000034985	CDS					YLR454W		12	1043998	1051884	W		2011-02-03	1996-07-31	
+S000006608	tRNA_gene		tI(AAU)L2			chromosome 12	L000003656	12	1052144	1052071	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000033933	noncoding_exon					tI(AAU)L2		12	1052144	1052071	C		2011-02-03	2000-05-19	
+S000007078	long_terminal_repeat		YLRCdelta27			chromosome 12		12	1052632	1052303	C		2011-02-03	2000-05-19	Ty1 LTR
+S000004447	ORF	Verified	YLR455W	PDP3		chromosome 12		12	1053629	1054543	W		2011-02-03	1996-07-31	Component of the NuA3b histone acetyltransferase complex; regulates interaction between NuA3b and H3K36me3 at the transcribed regions of genes; contains PWWP domain; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO); protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
+S000035931	CDS					YLR455W		12	1053629	1054543	W		2011-02-03	1996-07-31	
+S000004448	ORF	Uncharacterized	YLR456W		pyridoxal 5'-phosphate synthase	chromosome 12		12	1055070	1055684	W		2011-02-03	1996-07-31	Protein of unknown function; predicted to encode a pyridoxal 5'-phosphate synthase based on sequence similarity but purified protein does not possess this activity, nor does it bind flavin mononucleotide (FMN); null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2; YLR456W has a paralog, YPR172W, that arose from the whole genome duplication
+S000036078	CDS					YLR456W		12	1055070	1055684	W		2011-02-03	1996-07-31	
+S000004450	ORF	Dubious	YLR458W			chromosome 12		12	1056455	1056835	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 5' end of essential NBP1/YLR457C gene required for mitosis
+S000036948	CDS					YLR458W		12	1056455	1056835	W		2011-02-03	1996-07-31	
+S000004449	ORF	Verified	YLR457C	NBP1		chromosome 12	L000001234	12	1056771	1055812	C		2011-02-03	1996-07-31	Spindle pole body (SPB) component; required for the insertion of the duplication plaque into the nuclear membrane during SPB duplication; essential for bipolar spindle formation; component of the Mps2p-Bbp1p complex; NBP1 has a paralog, YPR174C, that arose from the whole genome duplication
+S000036128	CDS					YLR457C		12	1056771	1055812	C		2011-02-03	1996-07-31	
+S000004451	ORF	Verified	YLR459W	GAB1	GPI-anchor transamidase subunit GAB1|CDC91	chromosome 12	L000000290	12	1057334	1058518	W		2011-02-03	1996-07-31	GPI transamidase subunit; involved in attachment of glycosylphosphatidylinositol (GPI) anchors to proteins; may have a role in recognition of the attachment signal or of the lipid portion of GPI
+S000037010	CDS					YLR459W		12	1057334	1058518	W		2011-02-03	1996-07-31	
+S000178146	ARS		ARS1235			chromosome 12		12	1059439	1059923			2014-11-18	2014-11-18	Autonomously replicating sequence
+S000178147	ARS_consensus_sequence					ARS1235		12	1059718	1059702	C		2014-11-18	2014-11-18	
+S000004452	ORF	Uncharacterized	YLR460C			chromosome 12		12	1060887	1059757	C		2011-02-03	1996-07-31	Member of the quinone oxidoreductase family; up-regulated in response to the fungicide mancozeb; possibly up-regulated by iodine
+S000037785	CDS					YLR460C		12	1060887	1059757	C		2011-02-03	1996-07-31	
+S000004453	ORF	Verified	YLR461W	PAU4	seripauperin PAU4	chromosome 12	L000002731	12	1062919	1063281	W		2011-02-03	1996-07-31	Member of the seripauperin multigene family; encoded mainly in subtelomeric regions; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole; active during alcoholic fermentation; regulated by anaerobiosis; negatively regulated by oxygen; repressed by heme
+S000029848	CDS					YLR461W		12	1062919	1063281	W		2011-02-03	1996-07-31	
+S000028982	telomere		TEL12R			chromosome 12		12	1064281	1078177	W	350	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XII; composed of an X element core sequence, X element combinatorial repeats, two distinct regions of telomeric repeats, and two long Y' elements
+S000028984	telomeric_repeat					TEL12R		12	1065031	1065155	W		2011-02-03	2003-09-09	Internal telomeric repeats on the right arm of Chromosome XII
+S000028983	telomeric_repeat					TEL12R		12	1071646	1071653	W		2011-02-03	2003-09-09	Internal telomeric repeats on the right arm of Chromosome XII
+S000028985	X_element					TEL12R		12	1064281	1064747	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028986	X_element_combinatorial_repeat					TEL12R		12	1064748	1065030	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000028988	Y_prime_element					TEL12R		12	1065156	1071645	W		2011-02-03	2003-09-09	Long telomeric Y' element on the right arm of Chromosome XII; more centromere-proximal of two long telomeric Y' elements; contains an ARS consensus sequence, a region of 36-bp repeats, 5 ORFs (YLR466W, YLR462W, YLR464W, YLR463C, YLR465C), and part of ORF YLR466C-B
+S000028987	Y_prime_element					TEL12R		12	1071654	1078177	W		2011-02-03	2003-09-09	Long telomeric Y' element on the right arm of Chromosome XII; more end-proximal of two long telomeric Y' elements; contains an ARS consensus sequence, a region of 36-bp repeats, ORFs YRF1-5/YLR467W and YLR467C-A, and part of ORF YLR466C-B
+S000004454	ORF	Uncharacterized	YLR462W			chromosome 12		12	1065956	1066564	W		2011-02-03	1996-07-31	Putative protein of unknown function with similarity to helicases; YLR462W is within the telomere on the right arm of chromosome XII
+S000030870	CDS					YLR462W		12	1065956	1066564	W		2011-02-03	1996-07-31	
+S000004456	ORF	Uncharacterized	YLR464W			chromosome 12		12	1066572	1067501	W		2011-02-03	1996-07-31	Putative protein of unknown function; intron is predicted but not detected experimentally; YLR464W overlaps the verified gene YRF1-4/YLR466W and two dubious ORFs YLR463C and YLR465C
+S000031004	CDS					YLR464W		12	1066572	1067084	W		2011-02-03	1996-07-31	
+S000031005	CDS					YLR464W		12	1067364	1067501	W		2011-02-03	1996-07-31	
+S000031006	intron					YLR464W		12	1067085	1067363	W		2011-02-03	1996-07-31	
+S000004455	ORF	Dubious	YLR463C			chromosome 12		12	1066816	1066265	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the uncharacterized ORFs YLR462W and YLR464W
+S000030903	CDS					YLR463C		12	1066816	1066265	C		2011-02-03	1996-07-31	
+S000004458	ORF	Verified	YLR466W	YRF1-4	Y' element ATP-dependent helicase protein 1 copy 4|YRF1	chromosome 12		12	1067087	1071235	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
+S000032053	CDS					YLR466W		12	1067087	1071235	W		2011-02-03	1996-07-31	
+S000004457	ORF	Dubious	YLR465C	BSC3		chromosome 12		12	1067353	1067045	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 100% of YLR465C overlaps the uncharacterized ORF YLR464W and 86% of YLR465C overlaps the verified gene YRF1-4
+S000031044	CDS					YLR465C		12	1067353	1067045	C		2011-02-03	1996-07-31	
+S000028685	ORF	Dubious	YLR466C-A			chromosome 12		12	1070869	1070387	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YRF1-4/YLR466W
+S000032560	CDS					YLR466C-A		12	1070869	1070387	C		2011-02-03	2003-07-29	
+S000028686	ORF	Dubious	YLR466C-B			chromosome 12		12	1071710	1071594	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032562	CDS					YLR466C-B		12	1071710	1071594	C		2011-02-03	2003-07-29	
+S000004459	ORF	Verified	YLR467W	YRF1-5	Y' element ATP-dependent helicase protein 1 copy 5|YRF1	chromosome 12		12	1072508	1077898	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
+S000032127	CDS					YLR467W		12	1072508	1077898	W		2011-02-03	1996-07-31	
+S000028687	ORF	Dubious	YLR467C-A			chromosome 12		12	1077532	1077050	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YRF1-4/YLR466W
+S000032565	CDS					YLR467C-A		12	1077532	1077050	C		2011-02-03	2003-07-29	
+S000028690	ORF	Dubious	YML133W-B			chromosome 13		13	827	1309	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized ORF YML133C
+S000032587	CDS					YML133W-B		13	827	1309	W		2003-07-29	2003-07-29	
+S000028689	ORF	Dubious	YML133W-A			chromosome 13		13	1610	2185	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized ORF YML133C
+S000032568	CDS					YML133W-A		13	1610	2185	W		2003-07-29	2003-07-29	
+S000004602	ORF	Uncharacterized	YML133C		Y' element ATP-dependent helicase	chromosome 13		13	4684	461	C		1996-07-31	1996-07-31	Putative Y' element ATP-dependent helicase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YML133C contains an intron
+S000033211	CDS					YML133C		13	3791	461	C		1996-07-31	1996-07-31	
+S000033210	CDS					YML133C		13	4684	3891	C		1996-07-31	1996-07-31	
+S000033212	intron					YML133C		13	3890	3792	C		1996-07-31	1996-07-31	
+S000028918	telomere		TEL13L			chromosome 13		13	6344	1	C	-102	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XIII; composed of an X element core sequence, X element combinatorial repeats, a short region of telomeric repeats, a short Y' element, and a short terminal region of telomeric repeats
+S000028919	telomeric_repeat					TEL13L		13	51	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome XIII
+S000028920	telomeric_repeat					TEL13L		13	5585	5538	C		2003-09-09	2003-09-09	Internal telomeric repeats on the left arm of Chromosome XIII
+S000028921	X_element					TEL13L		13	6344	5875	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XIII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028922	X_element_combinatorial_repeat					TEL13L		13	5874	5586	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XIII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000028923	Y_prime_element					TEL13L		13	5537	52	C		2003-09-09	2003-09-09	Telomeric short Y' element on the left arm of Chromosome XIII; contains an ARS consensus sequence, a region of 36-bp repeats, and three ORFs (YML133C, YML133W-A, YML133W-B)
+S000004601	ORF	Verified	YML132W	COS3		chromosome 13	L000004061	13	7244	8383	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000033185	CDS					YML132W		13	7244	8383	W		1996-07-31	1996-07-31	
+S000004600	ORF	Verified	YML131W			chromosome 13		13	10198	11295	W		2011-02-03	1996-07-31	Protein of unknown function; similar to medium chain dehydrogenase/reductases; expression induced by stresses including osmotic shock, DNA damaging agents, and other chemicals; GFP-fusion protein localizes to the cytoplasm; protein abundance increases in response to DNA replication stress
+S000033094	CDS					YML131W		13	10198	11295	W		2011-02-03	1996-07-31	
+S000004599	ORF	Verified	YML130C	ERO1	ER oxidoreductin	chromosome 13	L000004013	13	13174	11483	C		2011-02-03	1996-07-31	Thiol oxidase required for oxidative protein folding in the ER; essential for maintaining ER redox balance; feedback regulated via reduction and oxidation of regulatory bonds; reduced Pdi1p activates Ero1p by direct reduction of Ero1p regulatory bonds; depletion of thiol substrates and accumulation of oxidized Pdi1p results in inactivation of Ero1p by both Pdi1p-mediated oxidation and autonomous oxidation of Ero1p regulatory bonds; ero1-1 mutation complemented by human ERO1L
+S000032133	CDS					YML130C		13	13174	11483	C		2011-02-03	1996-07-31	
+S000004598	ORF	Verified	YML129C	COX14		chromosome 13	L000000398	13	14753	14541	C		2011-02-03	1996-07-31	Mitochondrial cytochrome c oxidase (complex IV) assembly factor; also involved in translational regulation of Cox1p and prevention of Cox1p aggregation before assembly; associates with complex IV assembly intermediates and complex III/complex IV supercomplexes; located in the mitochondrial membrane
+S000031027	CDS					YML129C		13	14753	14541	C		2011-02-03	1996-07-31	
+S000004597	ORF	Verified	YML128C	MSC1		chromosome 13		13	16676	15135	C		2011-02-03	1996-07-31	Protein of unknown function; mutant is defective in directing meiotic recombination events to homologous chromatids; the authentic, non-tagged protein is detected in highly purified mitochondria and is phosphorylated
+S000030934	CDS					YML128C		13	16676	15135	C		2011-02-03	1996-07-31	
+S000004596	ORF	Verified	YML127W	RSC9		chromosome 13		13	17064	18809	W		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; DNA-binding protein involved in the synthesis of rRNA and in transcriptional repression and activation of genes regulated by the Target of Rapamycin (TOR) pathway
+S000030913	CDS					YML127W		13	17064	18809	W		2011-02-03	1996-07-31	
+S000004595	ORF	Verified	YML126C	ERG13	hydroxymethylglutaryl-CoA synthase|HMGS	chromosome 13	L000004090	13	20535	19060	C		2011-02-03	1996-07-31	3-hydroxy-3-methylglutaryl-CoA (HMG-CoA) synthase; catalyzes the formation of HMG-CoA from acetyl-CoA and acetoacetyl-CoA; involved in the second step in mevalonate biosynthesis
+S000030789	CDS					YML126C		13	20535	19060	C		2011-02-03	1996-07-31	
+S000004594	ORF	Verified	YML125C	PGA3	cytochrome-b5 reductase|NQR1	chromosome 13		13	21699	20761	C		2011-02-03	1996-07-31	Putative cytochrome b5 reductase, localized to the plasma membrane; may be involved in regulation of lifespan; required for maturation of Gas1p and Pho8p, proposed to be involved in protein trafficking; PGA3 has a paralog, AIM33, that arose from the whole genome duplication
+S000037858	CDS					YML125C		13	21699	20761	C		2011-02-03	1996-07-31	
+S000004593	ORF	Verified	YML124C	TUB3	alpha-tubulin TUB3	chromosome 13	L000002389	13	23683	22048	C	-101	2011-02-03	1996-07-31	Alpha-tubulin; associates with beta-tubulin (Tub2p) to form tubulin dimer, which polymerizes to form microtubules; expressed at lower level than Tub1p; TUB3 has a paralog, TUB1, that arose from the whole genome duplication
+S000037763	CDS					YML124C		13	23360	22048	C		2011-02-03	1996-07-31	
+S000037762	CDS					YML124C		13	23683	23659	C		2011-02-03	1996-07-31	
+S000037764	intron					YML124C		13	23658	23361	C		2011-02-03	1996-07-31	
+S000004592	ORF	Verified	YML123C	PHO84	phosphate transporter PHO84|phoT	chromosome 13	L000001430	13	25800	24037	C	-100.5	2011-02-03	1996-07-31	High-affinity inorganic phosphate (Pi) transporter; also low-affinity manganese transporter; regulated by Pho4p and Spt7p; mutation confers resistance to arsenate; exit from the ER during maturation requires Pho86p; cells overexpressing Pho84p accumulate heavy metals but do not develop symptoms of metal toxicity
+S000037701	CDS					YML123C		13	25800	24037	C		2011-02-03	1996-07-31	
+S000004591	ORF	Uncharacterized	YML122C			chromosome 13		13	26418	26038	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YML122C is not an essential gene
+S000036933	CDS					YML122C		13	26418	26038	C		2011-02-03	1996-07-31	
+S000004590	ORF	Verified	YML121W	GTR1	Rag GTPase GTR1	chromosome 13	L000000742	13	26930	27862	W	-99.6	1996-07-31	1996-07-31	Subunit of a TORC1-stimulating GTPase complex; subunit of the heterodimeric Gtr1-Gtr2 GTPase complex that stimulates TORC1 in response to amino acid stimulation; tethered to the vacuolar membrane as part of the EGOC, a complex required for sorting of Gap1p and microautophagy; involved in phosphate transport and telomeric chromatin silencing; activated by the the Iml1p (GAP) subunit of the SEACIT complex; similar to human RagA and RagB
+S000036898	CDS					YML121W		13	26930	27862	W		1996-07-31	1996-07-31	
+S000004589	ORF	Verified	YML120C	NDI1	NADH-ubiquinone reductase (H(+)-translocating) NDI1	chromosome 13	L000001239	13	29807	28266	C		1996-07-31	1996-07-31	NADH:ubiquinone oxidoreductase; transfers electrons from NADH to ubiquinone in respiratory chain but does not pump protons, in contrast to higher eukaryotic multisubunit respiratory complex I; upon apoptotic stress, is activated in mitochondria by N-terminal cleavage, then translocates to cytoplasm to induce apoptosis; homolog of human AIFM2; yeast NDI1 complements several phenotypes of human cell line with mutated MT-ND4, implicated in Leber hereditary optic neuropathy
+S000036805	CDS					YML120C		13	29807	28266	C		1996-07-31	1996-07-31	
+S000004588	ORF	Uncharacterized	YML119W			chromosome 13		13	30611	31684	W		1996-07-31	1996-07-31	Putative protein of unknown function; YML119W is not an essential gene; potential Cdc28p substrate
+S000035884	CDS					YML119W		13	30611	31684	W		1996-07-31	1996-07-31	
+S000118365	ARS		ARS1303		ARSXIII-32	chromosome 13		13	31766	31835			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000004587	ORF	Verified	YML118W	NGL3	3'-5' poly(A) RNA exonuclease	chromosome 13		13	32334	33851	W		1996-07-31	1996-07-31	3'-5' exonuclease specific for poly-A RNAs; has a domain similar to a magnesium-dependent endonuclease motif in mRNA deadenylase Ccr4p; similar to Ngl1p; NGL3 has a paralog, NGL2, that arose from the whole genome duplication
+S000034970	CDS					YML118W		13	32334	33851	W		1996-07-31	1996-07-31	
+S000004585	ORF	Verified	YML117W	NAB6		chromosome 13		13	34243	37647	W		1996-07-31	1996-07-31	Putative RNA-binding protein; associates with mRNAs encoding cell wall proteins in high-throughput studies; deletion mutants display increased sensitivity to some cell wall disrupting agents; expression negatively regulated by cAMP
+S000034816	CDS					YML117W		13	34243	37647	W		1996-07-31	1996-07-31	
+S000004586	ORF	Dubious	YML116W-A		YML117W-A	chromosome 13		13	37472	37774	W		1996-07-31	1996-07-31	Putative protein of unknown function
+S000031380	CDS					YML116W-A		13	37472	37774	W		1996-07-31	1996-07-31	
+S000004584	ORF	Verified	YML116W	ATR1	borate transporter|SNQ1	chromosome 13	L000001956|L000002831	13	38196	39824	W		1996-07-31	1996-07-31	Multidrug efflux pump of the major facilitator superfamily; required for resistance to aminotriazole and 4-nitroquinoline-N-oxide; ATR1 has a paralog, YMR279C, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000034666	CDS					YML116W		13	38196	39824	W		1996-07-31	1996-07-31	
+S000130187	ARS		ARS1304			chromosome 13		13	39824	40187			2009-05-08	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000178150	ARS_consensus_sequence					ARS1304		13	40149	40133	C		2014-11-18	2014-11-18	
+S000004583	ORF	Verified	YML115C	VAN1	LDB13|VRG8|VRG7	chromosome 13	L000002453	13	41794	40187	C	38	1996-07-31	1996-07-31	Component of the mannan polymerase I; complex contains Van1p and Mnn9p and is involved in the first steps of mannan synthesis; mutants are vanadate-resistant
+S000033712	CDS					YML115C		13	41794	40187	C		1996-07-31	1996-07-31	
+S000004582	ORF	Verified	YML114C	TAF8	TafII65|TAF65	chromosome 13		13	43575	42043	C		1996-07-31	1996-07-31	TFIID subunit (65 kDa); involved in RNA polymerase II transcription initiation
+S000033619	CDS					YML114C		13	43575	42043	C		1996-07-31	1996-07-31	
+S000004581	ORF	Verified	YML113W	DAT1		chromosome 13	L000000485	13	44045	44791	W		1996-07-31	1996-07-31	DNA binding protein that recognizes oligo(dA).oligo(dT) tracts; Arg side chain in its N-terminal pentad Gly-Arg-Lys-Pro-Gly repeat is required for DNA-binding; relocalizes to the cytosol in response to hypoxia; not essential for viability
+S000033570	CDS					YML113W		13	44045	44791	W		1996-07-31	1996-07-31	
+S000004580	ORF	Verified	YML112W	CTK3		chromosome 13	L000003012	13	45063	45953	W		1996-07-31	1996-07-31	Gamma subunit of C-terminal domain kinase I; CTDK-I phosphorylates RNA polymerase II subunit Rpo21p to affect transcription and pre-mRNA 3' end processing, and also phosphorylates ribosomal protein Rps2p to increase translational fidelity; protein abundance increases in response to DNA replication stress
+S000032868	CDS					YML112W		13	45063	45953	W		1996-07-31	1996-07-31	
+S000004579	ORF	Verified	YML111W	BUL2	ubiquitin-ubiquitin ligase BUL2	chromosome 13	L000004755	13	46942	49704	W		1996-07-31	1996-07-31	Component of the Rsp5p E3-ubiquitin ligase complex; involved in intracellular amino acid permease sorting, functions in heat shock element mediated gene expression, essential for growth in stress conditions; BUL2 has a paralog, BUL1, that arose from the whole genome duplication
+S000032740	CDS					YML111W		13	46942	49704	W		1996-07-31	1996-07-31	
+S000004578	ORF	Verified	YML110C	COQ5	2-hexaprenyl-6-methoxy-1,4-benzoquinone methyltransferase|DBI56	chromosome 13	L000003398	13	50954	50031	C		1996-07-31	1996-07-31	2-hexaprenyl-6-methoxy-1,4-benzoquinone methyltransferase; involved in ubiquinone (Coenzyme Q) biosynthesis; localizes to the matrix face of the mitochondrial inner membrane in a large complex with other ubiquinone biosynthetic enzymes; respiratory defect of the null mutant is partially complemented by human COQ5
+S000032570	CDS					YML110C		13	50954	50031	C		1996-07-31	1996-07-31	
+S000004577	ORF	Verified	YML109W	ZDS2	CES4	chromosome 13	L000003287	13	51640	54468	W		1996-07-31	1996-07-31	Protein with a role in regulating Swe1p-dependent polarized growth; involved in maintenance of Cdc55p in the cytoplasm where it promotes mitotic entry; interacts with silencing proteins at the telomere; implicated in the mitotic exit network through regulation of Cdc14p localization; ZDS2 has a paralog, ZDS1, that arose from the whole genome duplication
+S000031758	CDS					YML109W		13	51640	54468	W		1996-07-31	1996-07-31	
+S000004576	ORF	Verified	YML108W			chromosome 13		13	54793	55110	W		1996-07-31	1996-07-31	Protein of unknown function; structure defines a new subfamily of the split beta-alpha-beta sandwiches; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YML108W is not an essential gene; relative distribution to the nucleus increases upon DNA replication stress
+S000031668	CDS					YML108W		13	54793	55110	W		1996-07-31	1996-07-31	
+S000004575	ORF	Verified	YML107C	PML39		chromosome 13		13	56269	55265	C		2003-09-22	2003-09-22|1996-07-31	Protein required for nuclear retention of unspliced pre-mRNAs; required along with Mlp1p and Pml1p; anchored to nuclear pore complex via Mlp1p and Mlp2p; found with the subset of nuclear pores farthest from the nucleolus; may interact with ribosomes
+S000031517	CDS					YML107C		13	56269	55265	C		2003-09-22	2003-09-22|1996-07-31	
+S000004574	ORF	Verified	YML106W	URA5	orotate phosphoribosyltransferase URA5|PYR5	chromosome 13	L000002434	13	56773	57453	W		1996-07-31	1996-07-31	Major orotate phosphoribosyltransferase (OPRTase) isozyme; catalyzes the fifth enzymatic step in de novo biosynthesis of pyrimidines, converting orotate into orotidine-5'-phosphate; URA5 has a paralog, URA10, that arose from the whole genome duplication
+S000030709	CDS					YML106W		13	56773	57453	W		1996-07-31	1996-07-31	
+S000004573	ORF	Verified	YML105C	SEC65	RNA-binding signal recognition particle subunit SEC65	chromosome 13	L000001855	13	58687	57866	C		1996-07-31	1996-07-31	Subunit of the signal recognition particle (SRP); involved in protein targeting to the ER; interacts with Srp54p; homolog of mammalian SRP19
+S000030552	CDS					YML105C		13	58687	57866	C		1996-07-31	1996-07-31	
+S000004572	ORF	Verified	YML104C	MDM1		chromosome 13	L000001051	13	62322	58939	C		1996-07-31	1996-07-31	PtdIns-3-P binding protein that tethers the ER to vacuoles at NVJs; anchored in the ER membrane at nucleus-vacuole junctions and binds phosphatidylinositol 3-phosphate (PtdIns-3-P) in the vacuolar membrane via its Phox homology (PX) domain; expressed predominantly in late G1 to early S phase of the cell cycle; mutation affects nuclear and mitochondrial transmission to daughter buds; similar to 4 human genes, one of which (SNX14) is associated with neurological disease
+S000030408	CDS					YML104C		13	62322	58939	C		1996-07-31	1996-07-31	
+S000004571	ORF	Verified	YML103C	NUP188		chromosome 13	L000003099	13	67549	62582	C		1996-07-31	1996-07-31	Subunit of the inner ring of the nuclear pore complex (NPC); contributes to NPC organization and nucleocytoplasmic transport; homologous to human NUP188
+S000037631	CDS					YML103C		13	67549	62582	C		1996-07-31	1996-07-31	
+S000081376	snoRNA_gene		snR85	SNR85		chromosome 13		13	67938	67768	C		2006-01-24	2006-01-24	H/ACA box small nucleolar RNA (snoRNA); predicted to guide pseudouridylation of small subunit (SSU) rRNA at position U1181
+S000114174	noncoding_exon					snR85		13	67938	67768	C		2006-01-24	2006-01-24	
+S000004570	ORF	Verified	YML102W	CAC2		chromosome 13	L000003389	13	68294	69700	W		1996-07-31	1996-07-31	Subunit of chromatin assembly factor I (CAF-1), with Rlf2p and Msi1p; chromatin assembly by CAF-1 is important for multiple processes including silencing at telomeres, mating type loci, and rDNA; maintenance of kinetochore structure, deactivation of the DNA damage checkpoint after DNA repair, chromatin dynamics during transcription; and repression of divergent transcription; relocalizes to the cytosol in response to hypoxia
+S000037576	CDS					YML102W		13	68294	69700	W		1996-07-31	1996-07-31	
+S000004569	ORF	Dubious	YML101C-A		YML102C-A	chromosome 13		13	69726	69409	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032439	CDS					YML101C-A		13	69726	69409	C		1996-07-31	1996-07-31	
+S000004568	ORF	Verified	YML101C	CUE4		chromosome 13		13	70088	69735	C		1996-07-31	1996-07-31	Protein of unknown function; has a CUE domain that binds ubiquitin, which may facilitate intramolecular monoubiquitination; CUE4 has a paralog, CUE1, that arose from the whole genome duplication
+S000037386	CDS					YML101C		13	70088	69735	C		1996-07-31	1996-07-31	
+S000028688	ORF	Uncharacterized	YML100W-A			chromosome 13		13	70138	70311	W		2003-07-29	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032567	CDS					YML100W-A		13	70138	70311	W		2003-07-29	2003-07-29	
+S000004566	ORF	Verified	YML100W	TSL1	trehalose 6-phosphate synthase/phosphatase complex subunit	chromosome 13	L000002361	13	70624	73920	W		1996-07-31	1996-07-31	Large subunit of trehalose 6-phosphate synthase/phosphatase complex; Tps1p-Tps2p complex converts uridine-5'-diphosphoglucose and glucose 6-phosphate to trehalose; contributes to survival to acute lethal heat stress; mutant has aneuploidy tolerance; protein abundance increases in response to DNA replication stress; TSL1 has a paralog, TPS3, that arose from the whole genome duplication
+S000036726	CDS					YML100W		13	70624	73920	W		1996-07-31	1996-07-31	
+S000004567	ORF	Dubious	YML099W-A		YML100W-A	chromosome 13		13	74229	74558	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF ARG81/YML099C
+S000037139	CDS					YML099W-A		13	74229	74558	W		1996-07-31	1996-07-31	
+S000004565	ORF	Verified	YML099C	ARG81	ARGRII|ARGR2	chromosome 13	L000000114|L000000113	13	77040	74398	C	-63	1996-07-31	1996-07-31	Zinc finger transcription factor involved in arginine-responsive genes; Zn(2)-Cys(6) binuclear cluster domain type; involved in the regulation of arginine-responsive genes; acts with Arg80p and Arg82p
+S000032192	CDS					YML099C		13	77040	74398	C		1996-07-31	1996-07-31	
+S000004564	ORF	Verified	YML098W	TAF13	TafII19|TAF19|FUN81	chromosome 13	L000000650	13	77267	77770	W	-63	1996-07-31	1996-07-31	TFIID subunit (19 kDa); involved in RNA polymerase II transcription initiation, similar to histone H4 with atypical histone fold motif of Spt3-like transcription factors
+S000032162	CDS					YML098W		13	77267	77770	W		1996-07-31	1996-07-31	
+S000004563	ORF	Verified	YML097C	VPS9	guanine nucleotide exchange factor VPS9|VPT9|VPL31	chromosome 13	L000002659	13	79690	78335	C		1996-07-31	1996-07-31	Guanine nucleotide exchange factor (GEF) and ubiquitin receptor; involved in vesicle-mediated vacuolar transport, including Golgi-endosome trafficking and sorting through the multivesicular body (MVB); stimulates the intrinsic guanine nucleotide exchange activity of Rab family members (Vps21p/Ypt52p/Ypt53p); partially redundant with GEF MUK1; required for localization of the CORVET complex to endosomes; similar to mammalian ras inhibitors; contains a Ub-interacting CUE domain
+S000031138	CDS					YML097C		13	79690	78335	C		1996-07-31	1996-07-31	
+S000004562	ORF	Uncharacterized	YML096W		putative asparagine synthase	chromosome 13		13	79909	81486	W		1996-07-31	1996-07-31	Putative protein with similarity to asparagine synthetases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YML096W is not an essential gene and partially overlaps the verified gene RAD10
+S000031103	CDS					YML096W		13	79909	81486	W		1996-07-31	1996-07-31	
+S000004560	ORF	Verified	YML095C	RAD10		chromosome 13	L000001563	13	82113	81481	C	48	1996-07-31	1996-07-31	Single-stranded DNA endonuclease (with Rad1p); cleaves single-stranded DNA during nucleotide excision repair and double-strand break repair; subunit of Nucleotide Excision Repair Factor 1 (NEF1); homolog of human ERCC1 protein
+S000030965	CDS					YML095C		13	82113	81481	C		1996-07-31	1996-07-31	
+S000004559	ORF	Verified	YML094W	GIM5	PFD5	chromosome 13	L000004370	13	82275	82849	W		1996-07-31	1996-07-31	Subunit of the heterohexameric cochaperone prefoldin complex; prefoldin binds specifically to cytosolic chaperonin and transfers target proteins to it; prefoldin complex also localizes to chromatin of actively transcribed genes in the nucleus and facilitates transcriptional elongation
+S000030920	CDS					YML094W		13	82275	82290	W		1996-07-31	1996-07-31	
+S000030921	CDS					YML094W		13	82374	82849	W		1996-07-31	1996-07-31	
+S000030922	intron					YML094W		13	82291	82373	W		1996-07-31	1996-07-31	
+S000004561	ORF	Dubious	YML094C-A		YML095C-A	chromosome 13		13	82620	82219	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene GIM5/YML094W; deletion confers sensitivity to GSAO
+S000032030	CDS					YML094C-A		13	82620	82219	C		1996-07-31	1996-07-31	
+S000004558	ORF	Verified	YML093W	UTP14		chromosome 13		13	83090	85789	W		1996-07-31	1996-07-31	Subunit of U3-containing Small Subunit (SSU) processome complex; involved in production of 18S rRNA and assembly of small ribosomal subunit
+S000029918	CDS					YML093W		13	83090	85789	W		1996-07-31	1996-07-31	
+S000004557	ORF	Verified	YML092C	PRE8	proteasome core particle subunit alpha 2	chromosome 13	L000002700	13	86739	85987	C		1996-07-31	1996-07-31	Alpha 2 subunit of the 20S proteasome
+S000037849	CDS					YML092C		13	86739	85987	C		1996-07-31	1996-07-31	
+S000004556	ORF	Verified	YML091C	RPM2	ribonuclease P	chromosome 13	L000001743	13	90731	87123	C		1996-07-31	1996-07-31	Protein subunit of mitochondrial RNase P; has roles in nuclear transcription, cytoplasmic and mitochondrial RNA processing, and mitochondrial translation; distributed to mitochondria, cytoplasmic processing bodies, and the nucleus
+S000036004	CDS					YML091C		13	90731	87123	C		1996-07-31	1996-07-31	
+S000004555	ORF	Dubious	YML090W			chromosome 13		13	90744	91130	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YML089C; exhibits growth defect on a non-fermentable (respiratory) carbon source
+S000035949	CDS					YML090W		13	90744	91130	W		1996-07-31	1996-07-31	
+S000004554	ORF	Dubious	YML089C			chromosome 13		13	91409	91041	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; expression induced by calcium shortage
+S000036274	CDS					YML089C		13	91409	91041	C		1996-07-31	1996-07-31	
+S000077071	ncRNA_gene		ZOD1	ZOD1		chromosome 13		13	91970	92027	W		2014-11-18	2014-11-18	tDNA relic, ancient tDNA for tRNA-Ile; weakly transcribed by RNA polymerase III; located upstream of UFO1; associated with components of the Pol III machinery: Tfc4p, Brf1p, Bdp1, and Rpc34p
+S000178148	noncoding_exon					ZOD1		13	91970	92027	W		2014-11-18	2014-11-18	
+S000004553	ORF	Verified	YML088W	UFO1	SCF ubiquitin ligase complex subunit UFO1	chromosome 13		13	92235	94241	W		1996-07-31	1996-07-31	F-box receptor protein; subunit of the Skp1-Cdc53-F-box receptor (SCF) E3 ubiquitin ligase complex; binds to phosphorylated Ho endonuclease, allowing its ubiquitination by SCF and subsequent degradation
+S000036233	CDS					YML088W		13	92235	94241	W		1996-07-31	1996-07-31	
+S000118366	ARS		ARS1305		ARSXIII-94	chromosome 13		13	94217	94463			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000004552	ORF	Verified	YML087C	AIM33	cytochrome-b5 reductase	chromosome 13		13	95369	94431	C		1996-07-31	1996-07-31	Protein of unknown function, highly conserved across species; homolog of human CYB5R4; null mutant displays reduced frequency of mitochondrial genome loss; AIM33 has a paralog, PGA3, that arose from the whole genome duplication
+S000036086	CDS					YML087C		13	95369	94431	C		1996-07-31	1996-07-31	
+S000004551	ORF	Verified	YML086C	ALO1	D-arabinono-1,4-lactone oxidase	chromosome 13	L000004264	13	97371	95791	C		1996-07-31	1996-07-31	D-Arabinono-1,4-lactone oxidase; catalyzes the final step in biosynthesis of dehydro-D-arabinono-1,4-lactone, which is protective against oxidative stress
+S000036007	CDS					YML086C		13	97371	95791	C		1996-07-31	1996-07-31	
+S000004550	ORF	Verified	YML085C	TUB1	alpha-tubulin TUB1	chromosome 13	L000002387	13	99400	97941	C	-62	1996-07-31	1996-07-31	Alpha-tubulin; associates with beta-tubulin (Tub2p) to form tubulin dimer, which polymerizes to form microtubules; relative distribution to nuclear foci increases upon DNA replication stress; TUB1 has a paralog, TUB3, that arose from the whole genome duplication
+S000035128	CDS					YML085C		13	99259	97941	C		1996-07-31	1996-07-31	
+S000035127	CDS					YML085C		13	99400	99376	C		1996-07-31	1996-07-31	
+S000035129	intron					YML085C		13	99375	99260	C		1996-07-31	1996-07-31	
+S000004549	ORF	Dubious	YML084W			chromosome 13		13	99489	99797	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035047	CDS					YML084W		13	99489	99797	W		1996-07-31	1996-07-31	
+S000004548	ORF	Verified	YML083C			chromosome 13		13	101050	99794	C		1996-07-31	1996-07-31	Protein of unknown function; transcriptionally regulated by Upc2p via an upstream sterol response element; strong increase in transcript abundance during anaerobic growth compared to aerobic growth; cells deleted for YML083C do not exhibit growth defects in anerobic or anaerobic conditions
+S000034849	CDS					YML083C		13	101050	99794	C		1996-07-31	1996-07-31	
+S000004547	ORF	Uncharacterized	YML082W		putative cystathionine gamma-synthase	chromosome 13		13	101862	103811	W		1996-07-31	1996-07-31	Putative protein predicted to have carbon-sulfur lyase activity; transcriptionally regulated by Upc2p via an upstream sterol response element; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and the cytoplasm; not an essential gene; YML082W has a paralog, STR2, that arose from the whole genome duplication
+S000034791	CDS					YML082W		13	101862	103811	W		1996-07-31	1996-07-31	
+S000007247	ORF	Verified	YML081C-A	ATP18	F1F0 ATP synthase subunit i	chromosome 13	L000004548	13	104162	103983	C		1997-07-17	1997-07-17	Subunit of the mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; termed subunit I or subunit j; does not correspond to known ATP synthase subunits in other organisms
+S000032427	CDS					YML081C-A		13	104162	103983	C		1997-07-17	1997-07-17	
+S000004546	ORF	Verified	YML081W	TDA9	AAF1	chromosome 13		13	104777	108532	W		1996-07-31	1996-07-31	Transcription factor that regulates acetate production; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; null mutant is sensitive to expression of the top1-T722A allele; not an essential gene; TDA9 has a paralog, RSF2, that arose from the whole genome duplication
+S000033928	CDS					YML081W		13	104777	108532	W		1996-07-31	1996-07-31	
+S000004545	ORF	Verified	YML080W	DUS1	tRNA dihydrouridine synthase	chromosome 13		13	108806	110077	W		1996-07-31	1996-07-31	Dihydrouridine synthase; member of a widespread family of conserved proteins including Smm1p, Dus3p, and Dus4p; modifies pre-tRNA(Phe) at U17
+S000033787	CDS					YML080W		13	108806	110077	W		1996-07-31	1996-07-31	
+S000004544	ORF	Uncharacterized	YML079W			chromosome 13		13	110247	110852	W		1996-07-31	1996-07-31	Non-essential protein of unknown function; has structural resemblance to plant storage and ligand binding proteins (canavalin, glycinin, auxin binding protein) and to some enzymes (epimerase, germin); localizes to the nucleus and cytoplasm
+S000031763	CDS					YML079W		13	110247	110852	W		1996-07-31	1996-07-31	
+S000004543	ORF	Verified	YML078W	CPR3	peptidylprolyl isomerase CPR3|CYP3	chromosome 13	L000000464|L000000402	13	111002	111550	W		1996-07-31	1996-07-31	Mitochondrial peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; involved in protein refolding after import into mitochondria
+S000031645	CDS					YML078W		13	111002	111550	W		1996-07-31	1996-07-31	
+S000004542	ORF	Verified	YML077W	BET5	TRAPP subunit BET5	chromosome 13	L000004608	13	111865	112344	W		1996-07-31	1996-07-31	Core component of transport protein particle (TRAPP) complexes I-III; TRAPP complexes are related multimeric guanine nucleotide-exchange factors for the GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII); human homology TRAPPC1 complements yeast null mutant
+S000031560	CDS					YML077W		13	111865	112344	W		1996-07-31	1996-07-31	
+S000004541	ORF	Verified	YML076C	WAR1		chromosome 13		13	115347	112513	C		1996-07-31	1996-07-31	Homodimeric Zn2Cys6 zinc finger transcription factor; binds to a weak acid response element to induce transcription of PDR12 and FUN34, encoding an acid transporter and a putative ammonia transporter, respectively
+S000030680	CDS					YML076C		13	115347	112513	C		1996-07-31	1996-07-31	
+S000004540	ORF	Verified	YML075C	HMG1	hydroxymethylglutaryl-CoA reductase (NADPH) HMG1	chromosome 13	L000000789	13	118898	115734	C	-50	1996-07-31	1996-07-31	HMG-CoA reductase; catalyzes conversion of HMG-CoA to mevalonate, which is a rate-limiting step in sterol biosynthesis; one of two isozymes; localizes to nuclear envelope; overproduction induces formation of karmellae; forms foci at nuclear periphery upon DNA replication stress; HMG1 has a paralog, HMG2, that arose from the whole genome duplication; human homolog HMGCR can complement yeast hmg1 mutant
+S000030566	CDS					YML075C		13	118898	115734	C		1996-07-31	1996-07-31	
+S000004539	ORF	Verified	YML074C	FPR3	peptidylprolyl isomerase FPR3|NPI46	chromosome 13	L000001268	13	121324	120089	C		1996-07-31	1996-07-31	Nucleolar peptidyl-prolyl cis-trans isomerase (PPIase); FK506 binding protein; affects expression of multiple genes via its role in nucleosome assembly; phosphorylated by casein kinase II (Cka1p-Cka2p-Ckb1p-Ckb2p) and dephosphorylated by Ptp1p; PPIase domain acts as a transcriptional repressor when tethered to DNA by lexA, and repressor activity is dependent on PPIase activity; FPR3 has a paralog, FPR4, that arose from the whole genome duplication
+S000030502	CDS					YML074C		13	121324	120089	C		1996-07-31	1996-07-31	
+S000004538	ORF	Verified	YML073C	RPL6A	eL6|ribosomal 60S subunit protein L6A|L6e|rp18|YL16|L6A|L17A|YL16A	chromosome 13	L000004165	13	124172	123227	C		1996-07-31	1996-07-31	Ribosomal 60S subunit protein L6A; N-terminally acetylated; binds 5.8S rRNA; homologous to mammalian ribosomal protein L6, no bacterial homolog; RPL6A has a paralog, RPL6B, that arose from the whole genome duplication
+S000037684	CDS					YML073C		13	123742	123227	C		1996-07-31	1996-07-31	
+S000037683	CDS					YML073C		13	124172	124158	C		1996-07-31	1996-07-31	
+S000037685	intron					YML073C		13	124157	123743	C		1996-07-31	1996-07-31	
+S000004537	ORF	Verified	YML072C	TCB3		chromosome 13		13	129367	124730	C		1996-07-31	1996-07-31	Cortical ER protein involved in ER-plasma membrane tethering; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to the plasma membrane (PM) and regulate PM phosphatidylinositol-4-phosphate (PI4P) levels by controlling access of Sac1p phosphatase to its substrate PI4P in the PM; localized to the bud via specific mRNA transport; non-tagged protein detected in a phosphorylated state in mitochondria; C-termini of Tcb1p, Tcb2p and Tcb3p interact
+S000037588	CDS					YML072C		13	129367	124730	C		1996-07-31	1996-07-31	
+S000004536	ORF	Verified	YML071C	COG8	Golgi transport complex subunit COG8|DOR1	chromosome 13		13	131572	129749	C		1996-07-31	1996-07-31	Component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
+S000037526	CDS					YML071C		13	131572	129749	C		1996-07-31	1996-07-31	
+S000006718	tRNA_gene		tR(UCU)M2			chromosome 13	L000003686	13	131896	131825	C		2000-05-19	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000031505	noncoding_exon					tR(UCU)M2		13	131896	131825	C		2000-05-19	2000-05-19	
+S000007101	long_terminal_repeat		YMLCdelta1			chromosome 13		13	132321	131989	C		2000-05-19	2000-05-19	Ty1 LTR
+S000004535	ORF	Verified	YML070W	DAK1	dihydroxyacetone kinase	chromosome 13	L000004203	13	133475	135229	W		1996-07-31	1996-07-31	Dihydroxyacetone kinase; required for detoxification of dihydroxyacetone (DHA); involved in stress adaptation
+S000037490	CDS					YML070W		13	133475	135229	W		1996-07-31	1996-07-31	
+S000004534	ORF	Verified	YML069W	POB3	FACT complex subunit POB3	chromosome 13	L000003326	13	135500	137158	W		1996-07-31	1996-07-31	Subunit of the heterodimeric FACT complex (Spt16p-Pob3p); FACT associates with chromatin via interaction with Nhp6Ap and Nhp6Bp, and reorganizes nucleosomes to facilitate access to DNA by RNA and DNA polymerases; protein abundance increases in response to DNA replication stress
+S000036481	CDS					YML069W		13	135500	137158	W		1996-07-31	1996-07-31	
+S000118367	ARS		ARS1307		ARSXIII-137	chromosome 13		13	137300	137548			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000178151	ARS_consensus_sequence					ARS1307		13	137321	137337	W		2014-11-18	2014-11-18	
+S000004533	ORF	Verified	YML068W	ITT1		chromosome 13		13	137550	138944	W		1996-07-31	1996-07-31	Protein that modulates the efficiency of translation termination; interacts with translation release factors eRF1 (Sup45p) and eRF3 (Sup35p) in vitro, contains a zinc finger domain characteristic of the TRIAD class of proteins
+S000036418	CDS					YML068W		13	137550	138944	W		1996-07-31	1996-07-31	
+S000004532	ORF	Verified	YML067C	ERV41		chromosome 13		13	140214	139063	C		1996-07-31	1996-07-31	Protein localized to COPII-coated vesicles; forms a complex with Erv46p; involved in the membrane fusion stage of transport; has homology to human ERGIC2 (PTX1) protein
+S000035439	CDS					YML067C		13	140090	139063	C		1996-07-31	1996-07-31	
+S000035438	CDS					YML067C		13	140214	140184	C		1996-07-31	1996-07-31	
+S000035440	intron					YML067C		13	140183	140091	C		1996-07-31	1996-07-31	
+S000004531	ORF	Verified	YML066C	SMA2		chromosome 13		13	141533	140424	C		1996-07-31	1996-07-31	Meiosis-specific prospore membrane protein; required to produce bending force necessary for proper assembly of the prospore membrane during sporulation
+S000035365	CDS					YML066C		13	141533	140424	C		1996-07-31	1996-07-31	
+S000004530	ORF	Verified	YML065W	ORC1	origin recognition complex subunit 1	chromosome 13	L000003162	13	142210	144954	W		1996-07-31	1996-07-31	Largest subunit of the origin recognition complex; involved in directing DNA replication by binding to replication origins; also involved in transcriptional silencing; exhibits ATPase activity; ORC1 has a paralog, SIR3, that arose from the whole genome duplication
+S000035334	CDS					YML065W		13	142210	144954	W		1996-07-31	1996-07-31	
+S000004529	ORF	Verified	YML064C	TEM1	Ras family GTPase TEM1	chromosome 13	L000002282	13	145876	145139	C		1996-07-31	1996-07-31	GTP-binding protein of the Ras superfamily; involved in termination of M-phase; controls actomyosin and septin dynamics during cytokinesis
+S000035202	CDS					YML064C		13	145876	145139	C		1996-07-31	1996-07-31	
+S000004528	ORF	Verified	YML063W	RPS1B	eS1|ribosomal 40S subunit protein S1B|S1e|rp10B|S1B|RP10B|PLC2	chromosome 13	L000001665	13	146482	147249	W		1996-07-31	1996-07-31	Ribosomal protein 10 (rp10) of the small (40S) subunit; homologous to mammalian ribosomal protein S3A, no bacterial homolog; RPS1B has a paralog, RPS1A, that arose from the whole genome duplication
+S000035158	CDS					YML063W		13	146482	147249	W		1996-07-31	1996-07-31	
+S000004527	ORF	Verified	YML062C	MFT1	MFT52	chromosome 13	L000001099	13	148683	147505	C		1996-07-31	1996-07-31	Subunit of the THO complex; THO is a nuclear complex comprised of Hpr1p, Mft1p, Rlr1p, and Thp2p, that is involved in transcription elongation and mitotic recombination; involved in telomere maintenance
+S000034129	CDS					YML062C		13	148683	147505	C		1996-07-31	1996-07-31	
+S000004526	ORF	Verified	YML061C	PIF1	DNA helicase PIF1|TST1	chromosome 13	L000001435	13	151532	148953	C		1996-07-31	1996-07-31	DNA helicase, potent G-quadruplex DNA binder/unwinder; possesses strand annealing activity; promotes DNA synthesis during break-induced replication; important for crossover recombination; translation from different start sites produces mitochondrial and nuclear forms; nuclear form is a catalytic inhibitor of telomerase; mitochondrial form involved in DNA repair and recombination; mutations affect Zn, Fe homeostasis; regulated by Rad53p-dependent phosphorylation in rho0 cells
+S000034029	CDS					YML061C		13	151532	148953	C		1996-07-31	1996-07-31	
+S000004525	ORF	Verified	YML060W	OGG1	8-oxoguanine glycosylase OGG1	chromosome 13	L000003339	13	151871	153001	W		1996-07-31	1996-07-31	Nuclear and mitochondrial glycosylase/lyase; specifically excises 7,8-dihydro-8-oxoguanine residues located opposite cytosine or thymine residues in DNA, repairs oxidative damage to mitochondrial DNA, contributes to UVA resistance
+S000033997	CDS					YML060W		13	151871	153001	W		1996-07-31	1996-07-31	
+S000004524	ORF	Verified	YML059C	NTE1	lysophospholipase	chromosome 13		13	158258	153219	C		1996-07-31	1996-07-31	Serine esterase; homolog of human neuropathy target esterase (NTE); Nte1p-mediated phosphatidylcholine turnover influences transcription factor Opi1p localization, affecting transcriptional regulation of phospholipid biosynthesis genes
+S000032143	CDS					YML059C		13	158258	153219	C		1996-07-31	1996-07-31	
+S000007472	ORF	Verified	YML058W-A	HUG1		chromosome 13	L000004561	13	158760	158966	W		1998-11-10	1998-11-10	Ribonucleotide reductase inhibitor; intrinsically disordered protein that binds to and inhibits Rnr2p; involved in the Mec1p-mediated checkpoint pathway; transcription is induced by genotoxic stress and by activation of the Rad53p pathway; protein abundance increases in response to DNA replication stress
+S000030950	CDS					YML058W-A		13	158760	158966	W		1998-11-10	1998-11-10	
+S000178152	ARS		ARS1307.5			chromosome 13		13	158887	159277			2014-11-18	2014-11-18	Autonomously replicating sequence
+S000178153	ARS_consensus_sequence					ARS1307.5		13	159046	159062	W		2014-11-18	2014-11-18	
+S000004523	ORF	Verified	YML058W	SML1	ribonucleotide reductase inhibiting protein SML1	chromosome 13	L000004580	13	159383	159697	W		1996-07-31	1996-07-31	Ribonucleotide reductase inhibitor; involved in regulating dNTP production; regulated by Mec1p and Rad53p during DNA damage and S phase; SML1 has a paralog, DIF1, that arose from the whole genome duplication
+S000032114	CDS					YML058W		13	159383	159697	W		1996-07-31	1996-07-31	
+S000004521	ORF	Verified	YML057W	CMP2	calcineurin catalytic subunit A|CNA2	chromosome 13	L000000368	13	160180	161994	W		1996-07-31	1996-07-31	Calcineurin A; one isoform (the other is Cna1p) of the catalytic subunit of calcineurin, a Ca++/calmodulin-regulated protein phosphatase which regulates Crz1p (a stress-response transcription factor), the other calcineurin subunit is CNB1; regulates the function of Aly1p alpha-arrestin; CMP2 has a paralog, CNA1, that arose from the whole genome duplication
+S000032034	CDS					YML057W		13	160180	161994	W		1996-07-31	1996-07-31	
+S000004522	ORF	Dubious	YML057C-A		YML058C-A	chromosome 13		13	160412	160023	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene CMP2/YML057W
+S000036471	CDS					YML057C-A		13	160412	160023	C		1996-07-31	1996-07-31	
+S000006445	snoRNA_gene		snR54	SNR54		chromosome 13	L000004523	13	163620	163535	C		2000-05-19	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position A974
+S000030738	noncoding_exon					snR54		13	163620	163535	C		2000-05-19	2000-05-19	
+S000004520	ORF	Verified	YML056C	IMD4	IMP dehydrogenase IMD4	chromosome 13		13	164176	162194	C		1996-07-31	1996-07-31	Inosine monophosphate dehydrogenase; catalyzes the rate-limiting step in the de novo synthesis of GTP; member of a four-gene family in S. cerevisiae, constitutively expressed; IMD4 has a paralog, IMD3, that arose from the whole genome duplication
+S000031022	CDS					YML056C		13	163308	162194	C		1996-07-31	1996-07-31	
+S000031021	CDS					YML056C		13	164176	163717	C		1996-07-31	1996-07-31	
+S000031023	intron					YML056C		13	163716	163309	C		1996-07-31	1996-07-31	
+S000004519	ORF	Verified	YML055W	SPC2	signal peptidase complex subunit SPC2|SPY1	chromosome 13	L000002874	13	164790	165326	W		1996-07-31	1996-07-31	Subunit of signal peptidase complex; complex catalyzes cleavage of N-terminal signal sequences of proteins targeted to the secretory pathway; homologous to mammalian SPC25; other members of the complex are Spc1p, Spc1p, and Sec11p
+S000030975	CDS					YML055W		13	164790	165326	W		1996-07-31	1996-07-31	
+S000004518	ORF	Verified	YML054C	CYB2	FCB2	chromosome 13	L000000447	13	167308	165533	C	-30	1996-07-31	1996-07-31	Cytochrome b2 (L-lactate cytochrome-c oxidoreductase); component of the mitochondrial intermembrane space, required for lactate utilization; expression is repressed by glucose and anaerobic conditions
+S000030874	CDS					YML054C		13	167308	165533	C		1996-07-31	1996-07-31	
+S000028573	ORF	Uncharacterized	YML054C-A			chromosome 13		13	167781	167623	C		2003-07-29	2003-07-29	Putative protein of unknown function
+S000031301	CDS					YML054C-A		13	167781	167623	C		2003-07-29	2003-07-29	
+S000007102	long_terminal_repeat		YMLCdelta2			chromosome 13		13	168681	168349	C		2000-05-19	2000-05-19	Ty2 LTR
+S000006783	tRNA_gene		tY(GUA)M1	SUP5		chromosome 13	L000003666|L000002184	13	168795	168883	W	-34	2000-05-19	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000032294	intron					tY(GUA)M1		13	168834	168847	W		2000-05-19	2000-05-19	
+S000032292	noncoding_exon					tY(GUA)M1		13	168795	168833	W		2000-05-19	2000-05-19	
+S000032293	noncoding_exon					tY(GUA)M1		13	168848	168883	W		2000-05-19	2000-05-19	
+S000004517	ORF	Uncharacterized	YML053C			chromosome 13		13	169754	169116	C		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus; overexpression causes a cell cycle delay or arrest; YML053C is not an essential gene
+S000030788	CDS					YML053C		13	169754	169116	C		1996-07-31	1996-07-31	
+S000004516	ORF	Verified	YML052W	SUR7		chromosome 13	L000004152	13	170402	171310	W		1996-07-31	1996-07-31	Plasma membrane protein, component of eisosomes; long-lived protein that remains stable in eisosomes of mother cells while other eisosome proteins, Pil1p and Lsp1p, turn over; may function to anchor the eisosome in place; sporulation and plasma membrane sphingolipid content are altered in mutants; localizes to furrow-like invaginations (MCC patches)
+S000037898	CDS					YML052W		13	170402	171310	W		1996-07-31	1996-07-31	
+S000004515	ORF	Verified	YML051W	GAL80	transcription regulator GAL80	chromosome 13	L000000665	13	171594	172901	W	-33	1996-07-31	1996-07-31	Transcriptional regulator involved in the repression of GAL genes; involved in the repression of GAL genes in the absence of galactose; inhibits transcriptional activation by Gal4p; inhibition relieved by Gal3p or Gal1p binding
+S000037805	CDS					YML051W		13	171594	172901	W		1996-07-31	1996-07-31	
+S000004514	ORF	Verified	YML050W	AIM32		chromosome 13		13	173139	174074	W		1996-07-31	1996-07-31	Protein of unknown function; null mutant is viable and displays elevated frequency of mitochondrial genome loss
+S000037724	CDS					YML050W		13	173139	174074	W		1996-07-31	1996-07-31	
+S000004513	ORF	Verified	YML049C	RSE1	U2 snRNP complex subunit RSE1	chromosome 13	L000004030	13	178305	174220	C		1996-07-31	1996-07-31	Protein involved in pre-mRNA splicing; component of the pre-spliceosome; associates with U2 snRNA; involved in ER to Golgi transport
+S000036229	CDS					YML049C		13	178305	174220	C		1996-07-31	1996-07-31	
+S000004511	ORF	Verified	YML048W	GSF2	ECM6	chromosome 13	L000003209	13	178426	179637	W		1996-07-31	1996-07-31	Endoplasmic reticulum (ER) localized integral membrane protein; may promote secretion of certain hexose transporters, including Gal2p; involved in glucose-dependent repression
+S000036176	CDS					YML048W		13	178426	179637	W		1996-07-31	1996-07-31	
+S000004512	ORF	Dubious	YML047W-A		YML048W-A	chromosome 13		13	179893	180258	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF PRM6/YML047C
+S000031724	CDS					YML047W-A		13	179893	180258	W		1996-07-31	1996-07-31	
+S000004510	ORF	Verified	YML047C	PRM6	pheromone-regulated K(+) transporter PRM6|KCH2	chromosome 13		13	181075	180017	C		1996-07-31	1996-07-31	Potassium transporter that mediates K+ influx; activates high-affinity Ca2+ influx system (HACS) during mating pheromone response; expression up-regulated in response to alpha factor; regulated by Ste12p during mating; localized to sites of polarized growth; member of a fungal-specific gene family; PRM6 has a paralog, KCH1, that arose from the whole genome duplication
+S000035933	CDS					YML047C		13	181075	180017	C		1996-07-31	1996-07-31	
+S000004509	ORF	Verified	YML046W	PRP39		chromosome 13	L000001511	13	181474	183363	W		1996-07-31	1996-07-31	U1 snRNP protein involved in splicing; contains multiple tetriatricopeptide repeats
+S000035883	CDS					YML046W		13	181474	183363	W		1996-07-31	1996-07-31	
+S000118368	ARS		ARS1308		ARSXIII-184	chromosome 13		13	183797	183887			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178154	ARS_consensus_sequence					ARS1308		13	183874	183858	C		2014-11-18	2014-11-18	
+S000006585	tRNA_gene		tG(GCC)M			chromosome 13	L000003685	13	183968	183898	C		2000-05-19	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000029832	noncoding_exon					tG(GCC)M		13	183968	183898	C		2000-05-19	2000-05-19	
+S000007103	long_terminal_repeat		YMLWdelta3			chromosome 13		13	184170	184501	W		2000-05-19	2000-05-19	Ty1 LTR
+S000007107	LTR_retrotransposon		YMLWTy1-1		Ty1	chromosome 13		13	184170	190083	W		2000-05-19	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007381	transposable_element_gene		YML045W-A		gag protein	chromosome 13		13	184461	185783	W		1996-07-31	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000036727	CDS					YML045W-A		13	184461	185783	W		1996-07-31	1996-07-31	
+S000004508	transposable_element_gene		YML045W		gag-pol fusion protein	chromosome 13		13	184461	189729	W		1996-07-31	1999-07-17|1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000034966	CDS					YML045W		13	184461	185765	W		1999-07-17	1999-07-17|1996-07-31	
+S000034967	CDS					YML045W		13	185767	189729	W		1999-07-17	1999-07-17|1996-07-31	
+S000034968	plus_1_translational_frameshift					YML045W		13	185766	185766	W		1999-07-17	1999-07-17|1996-07-31	
+S000007104	long_terminal_repeat		YMLWdelta4			chromosome 13		13	189752	190083	W		2000-05-19	2000-05-19	Ty1 LTR
+S000004507	ORF	Verified	YML043C	RRN11		chromosome 13	L000004133	13	191767	190244	C		1996-07-31	1996-07-31	Component of the core factor (CF) rDNA transcription factor complex; CF is required for transcription of 35S rRNA genes by RNA polymerase I and is composed of Rrn6p, Rrn7p, and Rrn11p
+S000033836	CDS					YML043C		13	191767	190244	C		1996-07-31	1996-07-31	
+S000004506	ORF	Verified	YML042W	CAT2	carnitine O-acetyltransferase CAT2|YCAT	chromosome 13	L000000218	13	192788	194800	W		1996-07-31	1996-07-31	Carnitine acetyl-CoA transferase; present in both mitochondria and peroxisomes; transfers activated acetyl groups to carnitine to form acetylcarnitine which can be shuttled across membranes
+S000033788	CDS					YML042W		13	192788	194800	W		1996-07-31	1996-07-31	
+S000004505	ORF	Verified	YML041C	VPS71	SWC6	chromosome 13		13	195755	194913	C		1996-07-31	1996-07-31	Nucleosome-binding component of the SWR1 complex; SWR1 exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; required for vacuolar protein sorting
+S000033617	CDS					YML041C		13	195755	194913	C		1996-07-31	1996-07-31	
+S000006684	tRNA_gene		tP(UGG)M	SUF7		chromosome 13	L000002155|L000003684	13	196170	196068	C	-32	2000-05-19	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin; can mutate to suppress +1 frameshift mutations in proline codons
+S000036019	intron					tP(UGG)M		13	196134	196104	C		2000-05-19	2000-05-19	
+S000036018	noncoding_exon					tP(UGG)M		13	196103	196068	C		2000-05-19	2000-05-19	
+S000036017	noncoding_exon					tP(UGG)M		13	196170	196135	C		2000-05-19	2000-05-19	
+S000007105	long_terminal_repeat		YMLWdelta5			chromosome 13		13	196332	196668	W		2000-05-19	2000-05-19	Ty1 LTR
+S000007108	LTR_retrotransposon		YMLWTy1-2		Ty1	chromosome 13		13	196332	202234	W		2000-05-19	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000004504	transposable_element_gene		YML040W		gag protein	chromosome 13		13	196628	197950	W		1996-07-31	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000033569	CDS					YML040W		13	196628	197950	W		1996-07-31	1996-07-31	
+S000004503	transposable_element_gene		YML039W		gag-pol fusion protein	chromosome 13	S000029016	13	196628	201896	W		1996-07-31	1999-07-17|1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000032892	CDS					YML039W		13	196628	197932	W		1999-07-17	1999-07-17|1996-07-31	
+S000032893	CDS					YML039W		13	197934	201896	W		1999-07-17	1999-07-17|1996-07-31	
+S000032894	plus_1_translational_frameshift					YML039W		13	197933	197933	W		1999-07-17	1999-07-17|1996-07-31	
+S000007106	long_terminal_repeat		YMLWdelta6			chromosome 13		13	201919	202234	W		2000-05-19	2000-05-19	Ty1 LTR
+S000004502	ORF	Verified	YML038C	YMD8		chromosome 13		13	204103	202775	C		1996-07-31	1996-07-31	Putative nucleotide sugar transporter; has similarity to Vrg4p
+S000032731	CDS					YML038C		13	204103	202775	C		1996-07-31	1996-07-31	
+S000004501	ORF	Uncharacterized	YML037C			chromosome 13		13	205408	204386	C		1996-07-31	1996-07-31	Putative protein of unknown function; has some characteristics of a transcriptional activator; may be a target of Dbf2p-Mob1p kinase; GFP-fusion protein co-localizes with clathrin-coated vesicles; YML037C is not an essential gene
+S000031852	CDS					YML037C		13	205408	204386	C		1996-07-31	1996-07-31	
+S000004500	ORF	Verified	YML036W	CGI121		chromosome 13		13	205642	206293	W		2007-07-10	1996-07-31|2007-07-10	Component of the EKC/KEOPS complex; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription; Cgi121p is dispensable for tRNA modification; other complex members are Bud32p, Kae1p, Pcc1p, and Gon7p
+S000031755	CDS					YML036W		13	205642	206097	W		2007-07-10	1996-07-31|2007-07-10	
+S000123281	CDS					YML036W		13	206204	206293	W		2007-07-10	2007-07-10	
+S000123280	intron					YML036W		13	206098	206203	W		2007-07-10	2007-07-10	
+S000004498	ORF	Verified	YML035C	AMD1	AMP deaminase|AMD3	chromosome 13	L000000082|L000002678	13	208860	206428	C		1996-07-31	1996-07-31	AMP deaminase; tetrameric enzyme that catalyzes the deamination of AMP to form IMP and ammonia; thought to be involved in regulation of intracellular purine (adenine, guanine, and inosine) nucleotide pools
+S000031615	CDS					YML035C		13	208860	206428	C		1996-07-31	1996-07-31	
+S000004497	ORF	Verified	YML034W	SRC1	HEH1|YML033W	chromosome 13	S000004496	13	209525	212155	W		1998-11-10	1998-11-10|1996-07-31	Inner nuclear membrane protein; highly enriched at telomeres and subtelomeric regions; functions in regulation of subtelomeric genes and is linked to TREX (transcription export) factors; SRC1 produces 2 splice variant proteins with different functions; alternative splicing of SRC1 pre-mRNA is promoted by Hub1p; mutant has aneuploidy tolerance; SEC1 has a paralog, HEH2, that arose from the whole genome duplication
+S000031569	CDS					YML034W		13	209525	211444	W		1998-11-10	1998-11-10|1996-07-31	
+S000031570	CDS					YML034W		13	211571	212155	W		1998-11-10	1998-11-10	
+S000031571	intron					YML034W		13	211445	211570	W		1998-11-10	1998-11-10	
+S000004499	ORF	Dubious	YML034C-A		YML035C-A	chromosome 13		13	209826	209428	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SRC1/YML034W
+S000031984	CDS					YML034C-A		13	209826	209428	C		1996-07-31	1996-07-31	
+S000004494	ORF	Verified	YML032C	RAD52	recombinase RAD52	chromosome 13	L000001572	13	213930	212515	C	-18	2003-01-07	2003-01-07|1996-07-31	Protein that stimulates strand exchange; stimulates strand exchange by facilitating Rad51p binding to single-stranded DNA; anneals complementary single-stranded DNA; involved in the repair of double-strand breaks in DNA during vegetative growth and meiosis and UV induced sister chromatid recombination
+S000030550	CDS					YML032C		13	213930	212515	C		2003-01-07	2003-01-07|1996-07-31	
+S000004493	ORF	Verified	YML031W	NDC1		chromosome 13	L000001237	13	214189	216156	W	-18	1996-07-31	1996-07-31	Subunit of the transmembrane ring of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport, NPC biogenesis and spindle pole body duplication; homologous to human NDC1
+S000030507	CDS					YML031W		13	214189	216156	W		1996-07-31	1996-07-31	
+S000028809	ORF	Dubious	YML031C-A		YML032C-A	chromosome 13	S000004495	13	214421	214086	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF NDC1/YML031W
+S000033595	CDS					YML031C-A		13	214421	214086	C		2003-07-29	2003-07-29	
+S000004492	ORF	Verified	YML030W	RCF1	AIM31	chromosome 13		13	216435	216914	W		1996-07-31	1996-07-31	Cytochrome c oxidase subunit; required for assembly of the Complex III-Complex IV supercomplex, and for assembly of Cox13p and Rcf2p into cytochrome c oxidase; similar to Rcf2p, and either Rcf1p or Rcf2p is required for late-stage assembly of the Cox12p and Cox13p subunits and for cytochrome c oxidase activity; required for growth under hypoxic conditions; member of the hypoxia induced gene family; C. elegans and human orthologs are functional in yeast
+S000030362	CDS					YML030W		13	216435	216914	W		1996-07-31	1996-07-31	
+S000004491	ORF	Verified	YML029W	USA1		chromosome 13	L000003225	13	217362	219878	W		1996-07-31	1996-07-31	Scaffold subunit of the Hrd1p ubiquitin ligase; also promotes ligase oligomerization; involved in ER-associated protein degradation (ERAD); interacts with the U1 snRNP-specific protein, Snp1p
+S000037625	CDS					YML029W		13	217362	219878	W		1996-07-31	1996-07-31	
+S000004490	ORF	Verified	YML028W	TSA1	thioredoxin peroxidase TSA1|cTPxI|TPX1|ZRG14	chromosome 13	L000002365	13	220138	220728	W		1996-07-31	1996-07-31	Thioredoxin peroxidase; acts as both ribosome-associated and free cytoplasmic antioxidant; self-associates to form high-molecular weight chaperone complex under oxidative stress; chaperone activity essential for growth in zinc deficiency; required for telomere length maintenance; binds and modulates Cdc19p activity; protein abundance increases, forms cytoplasmic foci during DNA replication stress; TSA1 has a paralog, TSA2, that arose from the whole genome duplication
+S000037561	CDS					YML028W		13	220138	220728	W		1996-07-31	1996-07-31	
+S000004489	ORF	Verified	YML027W	YOX1		chromosome 13	L000002540	13	221406	222563	W		1996-07-31	1996-07-31	Homeobox transcriptional repressor; binds to Mcm1p and to early cell cycle boxes (ECBs) in the promoters of cell cycle-regulated genes expressed in M/G1 phase; expression is cell cycle-regulated; phosphorylated by Cdc28p; relocalizes from nucleus to cytoplasm upon DNA replication stress; YOX1 has a paralog, YHP1, that arose from the whole genome duplication
+S000036828	CDS					YML027W		13	221406	222563	W		1996-07-31	1996-07-31	
+S000004488	ORF	Verified	YML026C	RPS18B	uS13|ribosomal 40S subunit protein S18B|S18B|S13	chromosome 13	L000004481	13	223828	222987	C		1996-07-31	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S18 and bacterial S13; RPS18B has a paralog, RPS18A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000036754	CDS					YML026C		13	223380	222987	C		1996-07-31	1996-07-31	
+S000036753	CDS					YML026C		13	223828	223782	C		1996-07-31	1996-07-31	
+S000036755	intron					YML026C		13	223781	223381	C		1996-07-31	1996-07-31	
+S000004487	ORF	Verified	YML025C	YML6	mitochondrial 54S ribosomal protein YmL6	chromosome 13		13	225365	224406	C		1996-07-31	1996-07-31	Mitochondrial ribosomal protein of the large subunit; has similarity to E. coli L4 ribosomal protein and human mitoribosomal MRP-L4 protein; essential for viability, unlike most other mitoribosomal proteins
+S000036690	CDS					YML025C		13	225239	224406	C		1996-07-31	1996-07-31	
+S000036689	CDS					YML025C		13	225365	225339	C		1996-07-31	1996-07-31	
+S000036691	intron					YML025C		13	225338	225240	C		1996-07-31	1996-07-31	
+S000004486	ORF	Verified	YML024W	RPS17A	eS17|ribosomal 40S subunit protein S17A|S17e|rp51A|S17A|RPL51A|RP51A	chromosome 13	L000001740|L000004479|L000001669	13	225889	226697	W		1996-07-31	1996-07-31	Ribosomal protein 51 (rp51) of the small (40s) subunit; homologous to mammalian ribosomal protein S17, no bacterial homolog; RPS17A has a paralog, RPS17B, that arose from the whole genome duplication
+S000036659	CDS					YML024W		13	225889	225891	W		1996-07-31	1996-07-31	
+S000036660	CDS					YML024W		13	226290	226697	W		1996-07-31	1996-07-31	
+S000036661	intron					YML024W		13	225892	226289	W		1996-07-31	1996-07-31	
+S000004485	ORF	Verified	YML023C	NSE5	Smc5-Smc6 complex subunit NSE5	chromosome 13		13	228664	226994	C		1996-07-31	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair
+S000035667	CDS					YML023C		13	228664	226994	C		1996-07-31	1996-07-31	
+S000004484	ORF	Verified	YML022W	APT1	adenine phosphoribosyltransferase APT1	chromosome 13	L000002641	13	228937	229500	W		1996-07-31	1996-07-31	Adenine phosphoribosyltransferase; catalyzes the formation of AMP from adenine and 5-phosphoribosylpyrophosphate; involved in the salvage pathway of purine nucleotide biosynthesis; APT1 has a paralog, APT2, that arose from the whole genome duplication
+S000035625	CDS					YML022W		13	228937	229500	W		1996-07-31	1996-07-31	
+S000004483	ORF	Verified	YML021C	UNG1	uracil-DNA glycosylase	chromosome 13	L000002428	13	230813	229734	C	-16	1996-07-31	1996-07-31	Uracil-DNA glycosylase; required for repair of uracil in DNA formed by spontaneous cytosine deamination; efficiently excises uracil from single-stranded DNA in vivo; not required for strand-specific mismatch repair; cell-cycle regulated, expressed in late G1; localizes to mitochondria and nucleus
+S000035496	CDS					YML021C		13	230813	229734	C		1996-07-31	1996-07-31	
+S000004482	ORF	Uncharacterized	YML020W			chromosome 13		13	231149	233143	W		1996-07-31	1996-07-31	Putative protein of unknown function
+S000034551	CDS					YML020W		13	231149	233143	W		1996-07-31	1996-07-31	
+S000004481	ORF	Verified	YML019W	OST6	dolichyl-diphosphooligosaccharide--protein glycotransferase	chromosome 13	L000004224	13	233457	234455	W		1996-07-31	1996-07-31	Subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins; similar to and partially functionally redundant with Ost3p
+S000033544	CDS					YML019W		13	233457	234455	W		1996-07-31	1996-07-31	
+S000004480	ORF	Verified	YML018C			chromosome 13		13	235952	234771	C		1996-07-31	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the membrane of the vacuole; physical interaction with Atg27p suggests a possible role in autophagy; YML018C is not an essential gene; relative distribution to the vacuolar membrane decreases upon DNA replication stress; YML018C has a paralog, THI74, that arose from the whole genome duplication
+S000033433	CDS					YML018C		13	235952	234771	C		1996-07-31	1996-07-31	
+S000004479	ORF	Verified	YML017W	PSP2	MRS15	chromosome 13	L000002882	13	236588	238731	W		2004-01-30	2004-01-30|1996-07-31|1999-07-17	Asn rich cytoplasmic protein that contains RGG motifs; high-copy suppressor of group II intron-splicing defects of a mutation in MRS2 and of a conditional mutation in POL1 (DNA polymerase alpha); possible role in mitochondrial mRNA splicing
+S000033400	CDS					YML017W		13	236588	236591	W		2004-01-30	2004-01-30|1999-07-17|1996-07-31	
+S000033401	CDS					YML017W		13	236954	238731	W		2004-01-30	2004-01-30	
+S000033402	intron					YML017W		13	236592	236953	W		2004-01-30	2004-01-30	
+S000004478	ORF	Verified	YML016C	PPZ1	salt homeostasis regulator	chromosome 13	L000001478	13	241536	239458	C		1996-07-31	1996-07-31	Serine/threonine protein phosphatase Z, isoform of Ppz2p; involved in regulation of potassium transport, which affects osmotic stability, cell cycle progression, and halotolerance
+S000032668	CDS					YML016C		13	241536	239458	C		1996-07-31	1996-07-31	
+S000004477	ORF	Verified	YML015C	TAF11	TafII40|TAF40	chromosome 13	L000003461	13	243029	241989	C		1996-07-31	1996-07-31	TFIID subunit (40 kDa); involved in RNA polymerase II transcription initiation, similar to histone H3 with atypical histone fold motif of Spt3-like transcription factors
+S000032578	CDS					YML015C		13	243029	241989	C		1996-07-31	1996-07-31	
+S000004476	ORF	Verified	YML014W	TRM9	tRNA (carboxymethyluridine(34)-5-O)-methyltransferase|KTI1	chromosome 13	S000028426	13	243225	244064	W		1996-07-31	1996-07-31	tRNA methyltransferase; catalyzes modification of wobble bases in tRNA anticodons to 2, 5-methoxycarbonylmethyluridine and 5-methoxycarbonylmethyl-2-thiouridine; may act as part of a complex with Trm112p; deletion mutation increases translational infidelity, including amino acid misincorporation and -1 frameshifting, and also confers resistance to zymocin; null mutant displays activation of stress responses
+S000032547	CDS					YML014W		13	243225	244064	W		1996-07-31	1996-07-31	
+S000004475	ORF	Verified	YML013W	UBX2	SEL1	chromosome 13		13	244149	245903	W		1996-07-31	1996-07-31	Bridging factor involved in ER-associated protein degradation (ERAD); bridges the cytosolic Cdc48p-Npl1p-Ufd1p ATPase complex and the membrane associated Ssm4p and Hrd1p ubiquitin ligase complexes; contains a UBX (ubiquitin regulatory X) domain and a ubiquitin-associated (UBA) domain; redistributes from the ER to lipid droplets during the diauxic shift and stationary phase; required for the maintenance of lipid homeostasis
+S000032448	CDS					YML013W		13	244149	245903	W		1996-07-31	1996-07-31	
+S000004474	ORF	Dubious	YML012C-A		YML013C-A	chromosome 13		13	245914	245537	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SEL1
+S000037094	CDS					YML012C-A		13	245914	245537	C		1996-07-31	1996-07-31	
+S000004473	ORF	Verified	YML012W	ERV25		chromosome 13	L000004076	13	246116	246751	W		1996-07-31	1996-07-31	Member of the p24 family involved in ER to Golgi transport; role in misfolded protein quality control; forms a heterotrimeric complex with Erp1, Erp2p, and Emp24,
+S000031434	CDS					YML012W		13	246116	246751	W		1996-07-31	1996-07-31	
+S000004472	ORF	Verified	YML011C	RAD33		chromosome 13		13	247428	246895	C		1996-07-31	1996-07-31	Protein involved in nucleotide excision repair; green fluorescent protein (GFP)-fusion protein localizes to the nucleus
+S000031265	CDS					YML011C		13	247428	246895	C		1996-07-31	1996-07-31	
+S000004470	ORF	Verified	YML010W	SPT5	transcription elongation factor SPT5	chromosome 13	L000002031	13	247677	250868	W	-5	1996-07-31	1996-07-31	Spt4p/5p (DSIF) transcription elongation factor complex subunit; the Spt4/5 complex binds to ssRNA in a sequence-specific manner, and in concert with RNAP I and II has multiple roles regulating transcriptional elongation, RNA processing, quality control, and transcription-coupled repair; interacts with DNA upstream of RNAPII and the non-template strand of the transcription bubble; Spt5p is the only transcription elongation factor conserved in all domains of life
+S000031213	CDS					YML010W		13	247677	250868	W		1996-07-31	1996-07-31	
+S000004471	ORF	Dubious	YML009W-B		YML010W-A	chromosome 13		13	250435	250911	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion mutation confers an increase in Ty1 transposition
+S000032788	CDS					YML009W-B		13	250435	250911	W		1996-07-31	1996-07-31	
+S000004469	ORF	Dubious	YML009C-A		YML010W-B|YML010C-B	chromosome 13		13	251001	250675	C		1997-07-01	1997-07-01	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORFs SPT5/YML010W and YML009W-B
+S000031473	CDS					YML009C-A		13	251001	250675	C		1997-07-01	1997-07-01	
+S000004468	ORF	Verified	YML009C	MRPL39	mitochondrial 54S ribosomal protein YmL39|YmL39	chromosome 13	L000002695	13	251516	251304	C		1996-07-31	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000037268	CDS					YML009C		13	251516	251304	C		1996-07-31	1996-07-31	
+S000004467	ORF	Verified	YML008C	ERG6	sterol 24-C-methyltransferase|VID1|SED6|LIS1|ISE1	chromosome 13	L000000572|S000029637|L000003110	13	252990	251839	C	2	1996-07-31	1996-07-31	Delta(24)-sterol C-methyltransferase; converts zymosterol to fecosterol in the ergosterol biosynthetic pathway by methylating position C-24; localized to lipid particles, the plasma membrane-associated endoplasmic reticulum, and the mitochondrial outer membrane
+S000037178	CDS					YML008C		13	252990	251839	C		1996-07-31	1996-07-31	
+S000007621	ORF	Uncharacterized	YML007C-A			chromosome 13		13	253272	253162	C		2001-02-26	2001-02-26	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria
+S000037219	CDS					YML007C-A		13	253272	253162	C		2001-02-26	2001-02-26	
+S000004466	ORF	Verified	YML007W	YAP1	PDR4|DNA-binding transcription factor YAP1|SNQ3|PAR1	chromosome 13	L000001364	13	253848	255800	W	-8	1996-07-31	1996-07-31	Basic leucine zipper (bZIP) transcription factor; required for oxidative stress tolerance; activated by H2O2 through the multistep formation of disulfide bonds and transit from the cytoplasm to the nucleus; Yap1p is degraded in the nucleus after the oxidative stress has passed; mediates resistance to cadmium; relative distribution to the nucleus increases upon DNA replication stress; YAP1 has a paralog, CAD1, that arose from the whole genome duplication
+S000037132	CDS					YML007W		13	253848	255800	W		1996-07-31	1996-07-31	
+S000004465	ORF	Verified	YML006C	GIS4		chromosome 13	L000004864	13	258416	256092	C		1996-07-31	1996-07-31	CAAX box containing protein of unknown function; proposed to be involved in the RAS/cAMP signaling pathway
+S000036417	CDS					YML006C		13	258416	256092	C		1996-07-31	1996-07-31	
+S000006729	tRNA_gene		tS(AGA)M			chromosome 13	L000003683	13	259239	259158	C		2000-05-19	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000032411	noncoding_exon					tS(AGA)M		13	259239	259158	C		2000-05-19	2000-05-19	
+S000004464	ORF	Verified	YML005W	TRM12	TYW2	chromosome 13		13	260221	261609	W		1996-07-31	1996-07-31	S-adenosylmethionine-dependent methyltransferase; required for wybutosine formation in phenylalanine-accepting tRNA; member of the seven beta-strand family
+S000036385	CDS					YML005W		13	260221	261609	W		1996-07-31	1996-07-31	
+S000004463	ORF	Verified	YML004C	GLO1	lactoylglutathione lyase GLO1	chromosome 13	L000000712	13	262685	261705	C		1996-07-31	1996-07-31	Monomeric glyoxalase I; catalyzes the detoxification of methylglyoxal (a by-product of glycolysis) via condensation with glutathione to produce S-D-lactoylglutathione; expression regulated by methylglyoxal levels and osmotic stress
+S000036221	CDS					YML004C		13	262685	261705	C		1996-07-31	1996-07-31	
+S000118369	ARS		ARS1309		ARSXIII-263	chromosome 13		13	263063	263296			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000178155	ARS_consensus_sequence					ARS1309		13	263126	263142	W		2014-11-18	2014-11-18	
+S000004462	ORF	Uncharacterized	YML003W			chromosome 13		13	263483	264355	W		1996-07-31	1996-07-31	Putative protein of unknown function
+S000036178	CDS					YML003W		13	263483	264355	W		1996-07-31	1996-07-31	
+S000004461	ORF	Uncharacterized	YML002W			chromosome 13		13	264541	266754	W		1996-07-31	1996-07-31	Putative protein of unknown function; expression induced by heat and by calcium shortage
+S000035235	CDS					YML002W		13	264541	266754	W		1996-07-31	1996-07-31	
+S000004460	ORF	Verified	YML001W	YPT7	Rab family GTPase YPT7|VAM4|AST4	chromosome 13	L000002544	13	267174	267800	W		1996-07-31	1996-07-31	Rab family GTPase; GTP-binding protein of the rab family; required for homotypic fusion event in vacuole inheritance, for endosome-endosome fusion; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs); interacts with the cargo selection/retromer complex for retrograde sorting; similar to mammalian Rab7
+S000035058	CDS					YML001W		13	267174	267800	W		1996-07-31	1996-07-31	
+S000006474	centromere		CEN13	CEN13		chromosome 13	L000000306	13	268031	268149	W	0	2004-10-08	2000-05-19|2004-10-08	Chromosome XIII centromere
+S000077278	centromere_DNA_Element_I					CEN13		13	268031	268040	W		2004-10-05	2004-10-05	
+S000077279	centromere_DNA_Element_II					CEN13		13	268041	268124	W		2004-10-05	2004-10-05	
+S000077280	centromere_DNA_Element_III					CEN13		13	268125	268149	W		2004-10-05	2004-10-05	
+S000004603	ORF	Verified	YMR001C	CDC5	polo kinase CDC5|PKX2|MSD2	chromosome 13	L000000245	13	271136	269019	C	-14	1996-07-31	1996-07-31	Polo-like kinase; controls targeting and activation of Rho1p at cell division site via Rho1p guanine nucleotide exchange factors; regulates Spc72p; also functions in adaptation to DNA damage during meiosis; regulates the shape of the nucleus and expansion of the nuclear envelope during mitosis; similar to Xenopus Plx1 and S. pombe Plo1p; human homologs PLK1, PLK3 can each complement yeast cdc5 thermosensitive mutants
+S000031052	CDS					YMR001C		13	271136	269019	C		1996-07-31	1996-07-31	
+S000028691	ORF	Uncharacterized	YMR001C-A			chromosome 13		13	271577	271347	C		2003-07-29	2003-07-29	Putative protein of unknown function
+S000032590	CDS					YMR001C-A		13	271577	271347	C		2003-07-29	2003-07-29	
+S000004604	ORF	Verified	YMR002W	MIX17	MIC17	chromosome 13		13	272193	272663	W		1996-07-31	1996-07-31	Mitochondrial intermembrane space protein; required for normal oxygen consumption; contains twin cysteine-x9-cysteine motifs; protein abundance increases in response to DNA replication stress
+S000031255	CDS					YMR002W		13	272193	272663	W		1996-07-31	1996-07-31	
+S000004605	ORF	Verified	YMR003W	AIM34		chromosome 13		13	273118	273714	W		1996-07-31	1996-07-31	Protein of unknown function; GFP-fusion protein localizes to the mitochondria; null mutant is viable and displays reduced frequency of mitochondrial genome loss
+S000032255	CDS					YMR003W		13	273118	273714	W		1996-07-31	1996-07-31	
+S000004606	ORF	Verified	YMR004W	MVP1		chromosome 13	L000001221	13	274017	275552	W		1996-07-31	1996-07-31	Protein required for sorting proteins to the vacuole; Mvp1p and Vps1p act in concert to promote membrane traffic to the vacuole; participates in transcription initiation and/or early elongation of specific genes; interacts with "foot domain" of RNA polymerase II; deletion results in abnormal CTD-Ser5 phosphorylation of RNA polymerase II at specific promoter regions; protein abundance increases in response to DNA replication stress
+S000032360	CDS					YMR004W		13	274017	275552	W		1996-07-31	1996-07-31	
+S000004607	ORF	Verified	YMR005W	TAF4	TafII48|MPT1|TSG2|TAF48	chromosome 13	L000001144	13	276045	277211	W		1996-07-31	1996-07-31	TFIID subunit (48 kDa); involved in RNA polymerase II transcription initiation; potential Cdc28p substrate
+S000032443	CDS					YMR005W		13	276045	277211	W		1996-07-31	1996-07-31	
+S000004608	ORF	Verified	YMR006C	PLB2	lysophospholipase	chromosome 13	L000004866	13	279681	277561	C		1996-07-31	1996-07-31	Phospholipase B (lysophospholipase) involved in lipid metabolism; displays transacylase activity in vitro; overproduction confers resistance to lysophosphatidylcholine
+S000032499	CDS					YMR006C		13	279681	277561	C		1996-07-31	1996-07-31	
+S000004609	ORF	Uncharacterized	YMR007W			chromosome 13		13	279960	280340	W		1996-07-31	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR007W is not an essential gene
+S000034599	CDS					YMR007W		13	279960	280340	W		1996-07-31	1996-07-31	
+S000004610	ORF	Verified	YMR008C	PLB1	lysophospholipase	chromosome 13	L000001447	13	282584	280590	C		1996-07-31	1996-07-31	Phospholipase B (lysophospholipase) involved in lipid metabolism; required for efficient acyl chain remodeling of newly synthesized phosphatidylethanolamine-derived phosphatidylcholine; required for deacylation of phosphatidylcholine and phosphatidylethanolamine but not phosphatidylinositol; PLB1 has a paralog, PLB3, that arose from the whole genome duplication
+S000034626	CDS					YMR008C		13	282584	280590	C		1996-07-31	1996-07-31	
+S000004611	ORF	Verified	YMR009W	ADI1	acireductone dioxygenase (Ni2+-requiring)	chromosome 13		13	284102	284641	W		2011-02-03	1996-07-31	Acireductone dioxygenease involved in methionine salvage pathway; transcribed as polycistronic mRNA with YMR010W and regulated post-transcriptionally by RNase III (Rnt1p) cleavage; ADI1 mRNA is induced in heat shock conditions; human ortholog ADI1 can complement yeast adi1 mutant
+S000034714	CDS					YMR009W		13	284102	284641	W		2011-02-03	1996-07-31	
+S000004612	ORF	Verified	YMR010W	ANY1		chromosome 13		13	285100	286317	W		2011-02-03	1996-07-31	Putative protein of unknown function; null allele suppresses the lethality of neo1 and dop1 null alleles, as well as the growth defect of a mon2 null allele, and the cold sensitivity of a drs2 null; proposed function as a phospholipid scramblase that reduces membrane asymmetry; PQ loop family member; localizes to the cytoplasm and endoplasmic reticulum in HTP studies; non-essential gene
+S000034268	CDS					YMR010W		13	285100	286317	W		2011-02-03	1996-07-31	
+S000118370	ARS		ARS1310		ARSXIII-287	chromosome 13		13	286835	286951			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000004613	ORF	Verified	YMR011W	HXT2	hexose transporter HXT2	chromosome 13	L000000836	13	288079	289704	W		2011-02-03	1996-07-31	High-affinity glucose transporter of the major facilitator superfamily; expression is induced by low levels of glucose and repressed by high levels of glucose
+S000034391	CDS					YMR011W		13	288079	289704	W		2011-02-03	1996-07-31	
+S000007117	long_terminal_repeat		YMRCtau1			chromosome 13		13	290224	290049	C		2011-02-03	2000-05-19	Ty4 LTR
+S000006560	tRNA_gene		tE(UUC)M			chromosome 13	L000003667	13	290801	290872	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000036015	noncoding_exon					tE(UUC)M		13	290801	290872	W		2011-02-03	2000-05-19	
+S000004614	ORF	Verified	YMR012W	CLU1	translation initiation factor 3 subunit CLU1|TIF31	chromosome 13	L000003531	13	291134	294967	W		2011-02-03	1996-07-31	Subunit of the eukaryotic translation initiation factor 3 (eIF3); component of unknown function; deletion causes defects in mitochondrial organization but not in growth or translation initiation; can rescue cytokinesis and mitochondrial organization defects of the Dictyostelium cluA- mutant; eIF3 is also involved in programmed stop codon readthrough
+S000035421	CDS					YMR012W		13	291134	294967	W		2011-02-03	1996-07-31	
+S000028847	ORF	Dubious	YMR013C-A			chromosome 13		13	296620	296471	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF SEC59/YML013C
+S000034532	CDS					YMR013C-A		13	296620	296471	C		2011-02-03	2003-07-29	
+S000004615	ORF	Verified	YMR013C	SEC59	dolichol kinase	chromosome 13	L000001851	13	296738	295179	C	3	2011-02-03	1996-07-31	Dolichol kinase; catalyzes the terminal step in dolichyl monophosphate (Dol-P) biosynthesis; required for viability and for normal rates of lipid intermediate synthesis and protein N-glycosylation
+S000035477	CDS					YMR013C		13	296738	295179	C		2011-02-03	1996-07-31	
+S000007312	snoRNA_gene		snR78	SNR78	Z8	chromosome 13	L000004806	13	297278	297364	W		2011-02-03	2000-05-19|2007-05-08	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2421
+S000031835	noncoding_exon					snR78		13	297278	297364	W		2011-02-03	2000-05-19|2007-05-08	
+S000007311	snoRNA_gene		snR77	SNR77	Z7	chromosome 13	L000004805	13	297506	297593	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position U578
+S000031791	noncoding_exon					snR77		13	297506	297593	W		2011-02-03	2000-05-19	
+S000007310	snoRNA_gene		snR76	SNR76	Z6	chromosome 13	L000004804	13	297725	297833	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C2197
+S000031789	noncoding_exon					snR76		13	297725	297833	W		2011-02-03	2000-05-19	
+S000007309	snoRNA_gene		snR75	SNR75	Z5	chromosome 13	L000004803	13	297918	298006	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position G2288
+S000031787	noncoding_exon					snR75		13	297918	298006	W		2011-02-03	2000-05-19	
+S000007308	snoRNA_gene		snR74	SNR74	Z4	chromosome 13	L000004802	13	298138	298225	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position A28
+S000031786	noncoding_exon					snR74		13	298138	298225	W		2011-02-03	2000-05-19	
+S000007307	snoRNA_gene		snR73	SNR73	Z3	chromosome 13	L000004801	13	298307	298412	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C2959
+S000031785	noncoding_exon					snR73		13	298307	298412	W		2011-02-03	2000-05-19	
+S000007622	ORF	Dubious	YMR013W-A			chromosome 13		13	298311	298391	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the characterized snoRNA gene snR73
+S000037220	CDS					YMR013W-A		13	298311	298391	W		2011-02-03	2001-02-26	
+S000007306	snoRNA_gene		snR72	SNR72	Z2	chromosome 13	L000004800	13	298554	298651	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A876
+S000031784	noncoding_exon					snR72		13	298554	298651	W		2011-02-03	2000-05-19	
+S000004616	ORF	Verified	YMR014W	BUD22		chromosome 13		13	298868	300427	W		2011-02-03	1996-07-31	Protein required for rRNA maturation and ribosomal subunit biogenesis; required for 18S rRNA maturation; also required for small ribosomal subunit biogenesis; cosediments with pre-ribosomal particles; mutation decreases efficiency of +1 Ty1 frameshifting and transposition, and affects budding pattern
+S000035607	CDS					YMR014W		13	298868	300427	W		2011-02-03	1996-07-31	
+S000004617	ORF	Verified	YMR015C	ERG5	C-22 sterol desaturase|CYP61	chromosome 13	L000003978	13	302485	300869	C		2011-02-03	1996-07-31	C-22 sterol desaturase; a cytochrome P450 enzyme that catalyzes the formation of the C-22(23) double bond in the sterol side chain in ergosterol biosynthesis; may be a target of azole antifungal drugs
+S000035627	CDS					YMR015C		13	302485	300869	C		2011-02-03	1996-07-31	
+S000004618	ORF	Verified	YMR016C	SOK2		chromosome 13	L000004147	13	305593	303236	C		2011-02-03	1996-07-31	Nuclear protein that negatively regulates pseudohyphal differentiation; plays a regulatory role in the cyclic AMP (cAMP)-dependent protein kinase (PKA) signal transduction pathway; relocalizes to the cytosol in response to hypoxia; SOK2 has a paralog, PHD1, that arose from the whole genome duplication
+S000036571	CDS					YMR016C		13	305593	303236	C		2011-02-03	1996-07-31	
+S000004619	ORF	Verified	YMR017W	SPO20	DBI9	chromosome 13	L000003397	13	307489	308682	W		2011-02-03	1996-07-31	Meiosis-specific subunit of the t-SNARE complex; required for prospore membrane formation during sporulation; similar to but not functionally redundant with Sec9p; binds to phosphatidic acid; SNAP-25 homolog
+S000036703	CDS					YMR017W		13	307489	308682	W		2011-02-03	1996-07-31	
+S000004620	ORF	Uncharacterized	YMR018W	PEX9		chromosome 13		13	310208	311752	W		2011-02-03	1996-07-31	Putative protein of unknown function with similarity to human PEX5Rp; transcription increases during colony development similar to genes involved in peroxisome biogenesis; YMR018W is not an essential gene; PEX5Rp is also known as peroxin protein 5 related protein
+S000030567	CDS					YMR018W		13	310208	311752	W		2011-02-03	1996-07-31	
+S000004621	ORF	Verified	YMR019W	STB4		chromosome 13	L000003367	13	312156	315005	W		2011-02-03	1996-07-31	Putative transcription factor; contains a Zn(II)2Cys6 zinc finger domain characteristic of DNA-binding proteins; computational analysis suggests a role in regulation of expression of genes encoding transporters; binds Sin3p in a two-hybrid assay;
+S000030693	CDS					YMR019W		13	312156	315005	W		2011-02-03	1996-07-31	
+S000004622	ORF	Verified	YMR020W	FMS1	polyamine oxidase	chromosome 13	L000003091	13	315377	316903	W		2011-02-03	1996-07-31	Polyamine oxidase; converts spermine to spermidine, which is required for the essential hypusination modification of translation factor eIF-5A; also involved in pantothenic acid biosynthesis
+S000030473	CDS					YMR020W		13	315377	316903	W		2011-02-03	1996-07-31	
+S000004623	ORF	Verified	YMR021C	MAC1	CUA1	chromosome 13	L000000973|L000001035	13	318418	317165	C		2011-02-03	1996-07-31	Copper-sensing transcription factor; involved in regulation of genes required for high affinity copper transport; required for regulation of yeast copper genes in response to DNA-damaging agents; undergoes changes in redox state in response to changing levels of copper or MMS
+S000030536	CDS					YMR021C		13	318418	317165	C		2011-02-03	1996-07-31	
+S000004624	ORF	Verified	YMR022W	UBC7	E2 ubiquitin-conjugating protein UBC7|DER2|QRI8	chromosome 13	L000001552	13	318680	319177	W		2011-02-03	1996-07-31	Ubiquitin conjugating enzyme; involved in the ER-associated protein degradation (ERAD) pathway and in the inner nuclear membrane-associated degradation (INMAD) pathway; requires Cue1p for recruitment to the ER membrane; proposed to be involved in chromatin assembly
+S000031503	CDS					YMR022W		13	318680	319177	W		2011-02-03	1996-07-31	
+S000004625	ORF	Verified	YMR023C	MSS1	PET53	chromosome 13	L000001201	13	321017	319437	C		2011-02-03	1996-07-31	Mitochondrial protein; forms a heterodimer complex with Mto1p that performs the 5-carboxymethylaminomethyl modification of the wobble uridine base in mitochondrial tRNAs; similar to human GTPBP3
+S000031572	CDS					YMR023C		13	321017	319437	C		2011-02-03	1996-07-31	
+S000006518	tRNA_gene		tA(AGC)M1			chromosome 13	L000003682	13	321219	321147	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000036429	noncoding_exon					tA(AGC)M1		13	321219	321147	C		2011-02-03	2000-05-19	
+S000004626	ORF	Verified	YMR024W	MRPL3	mitochondrial 54S ribosomal protein YmL3|YmL3	chromosome 13	L000002683	13	321875	323047	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; located in close proximity to the polypeptide exit channel of the ribosome; mutations in human homolog MRPL44 cause childhood cardiomyopathy; human MRPL44 deficiency results in inefficient assembly of the mitochondrial ribosome, and in tissue-specific respiratory chain deficiency, manifesting as either Complex I+Complex IV or Complex IV deficiency, depending on a cell type
+S000032636	CDS					YMR024W		13	321875	323047	W		2011-02-03	1996-07-31	
+S000004627	ORF	Verified	YMR025W	CSI1		chromosome 13	S000028416	13	323300	324187	W		2011-02-03	1996-07-31	Subunit of the Cop9 signalosome; which is required for deneddylation, or removal of the ubiquitin-like protein Rub1p from Cdc53p (cullin); involved in adaptation to pheromone signaling; functional equivalent of canonical Csn6 subunit of the COP9 signalosome
+S000032707	CDS					YMR025W		13	323300	324187	W		2011-02-03	1996-07-31	
+S000004628	ORF	Verified	YMR026C	PEX12	ubiquitin-protein ligase peroxin 12|PAS11	chromosome 13	L000004223|L000003964	13	325435	324236	C		2011-02-03	1996-07-31	C3HC4-type RING-finger peroxin and E3 ubiquitin ligase; required for peroxisome biogenesis and peroxisomal matrix protein import; forms translocation subcomplex with Pex2p and Pex10p; mutations in human homolog cause peroxisomal disorder
+S000032743	CDS					YMR026C		13	325435	324236	C		2011-02-03	1996-07-31	
+S000004629	ORF	Verified	YMR027W		putative methyltransferase	chromosome 13	L000004444	13	325877	327289	W		2011-02-03	1996-07-31	A metal-dependent phosphatase, part of the DUF89 protein family; dephosphorylates fructose-1-phosphate; human ortholog, C6orf211 is involved in response to DNA damage; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; YMR027W is not an essential gene
+S000032910	CDS					YMR027W		13	325877	327289	W		2011-02-03	1996-07-31	
+S000004630	ORF	Verified	YMR028W	TAP42		chromosome 13	L000002599	13	327482	328582	W		2011-02-03	1996-07-31	Essential protein involved in the TOR signaling pathway; physically associates with the protein phosphatase 2A and the SIT4 protein phosphatase catalytic subunits
+S000034867	CDS					YMR028W		13	327482	328582	W		2011-02-03	1996-07-31	
+S000004631	ORF	Verified	YMR029C	FAR8		chromosome 13		13	330231	328660	C		2011-02-03	1996-07-31	Protein involved in recovery from arrest in response to pheromone; acts in a cell cycle arrest recovery pathway independent from Far1p; interacts with Far3p, Far7p, Far9p, Far10p, and Far11p
+S000034915	CDS					YMR029C		13	330231	328660	C		2011-02-03	1996-07-31	
+S000004632	ORF	Verified	YMR030W	RSF1		chromosome 13		13	330793	331923	W		2011-02-03	1996-07-31	Protein required for respiratory growth; localized to both the nucleus and mitochondrion; may interact with transcription factors to mediate the transition to respiratory growth and activate transcription of nuclear and mitochondrial genes
+S000033894	CDS					YMR030W		13	330793	331923	W		2011-02-03	1996-07-31	
+S000004634	ORF	Dubious	YMR031W-A			chromosome 13		13	334709	335035	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant displays shortened telomeres; partially overlaps the uncharacterized ORF YMR031C
+S000036523	CDS					YMR031W-A		13	334709	335035	W		2011-02-03	1996-07-31	
+S000004633	ORF	Verified	YMR031C	EIS1		chromosome 13		13	334743	332212	C		2011-02-03	1996-07-31	Component of the eisosome required for proper eisosome assembly; similar to Uso1p; authentic, non-tagged protein is detected in a phosphorylated state in highly purified mitochondria in high-throughput studies; protein increases in abundance and relocalizes from plasma membrane to cytoplasm upon DNA replication stress; EIS1 has a paralog, YKL050C, that arose from the whole genome duplication
+S000033984	CDS					YMR031C		13	334743	332212	C		2011-02-03	1996-07-31	
+S000004635	ORF	Verified	YMR032W	HOF1	formin-binding protein HOF1|CYK2	chromosome 13	L000004406	13	335298	337307	W		2011-02-03	1996-07-31	Protein that regulates actin cytoskeleton organization; required for cytokinesis, actin cable organization, and secretory vesicle trafficking; localized to bud neck; phosphorylated by Dbf2p; regulates actomyosin ring dynamics and septin localization; contains an SH3 domain; N terminus controls cell size and levels of actin cables, while C terminus controls actin cable organization via direct regulation of the formin Bnr1p
+S000034951	CDS					YMR032W		13	335298	337307	W		2011-02-03	1996-07-31	
+S000028574	ORF	Uncharacterized	YMR030W-A			chromosome 13		13	337313	337603	W		2011-02-03	2003-07-29	Putative protein of unknown function; mCherry fusion protein localizes to the cytosol
+S000031303	CDS					YMR030W-A		13	337313	337603	W		2011-02-03	2003-07-29	
+S000004636	ORF	Verified	YMR033W	ARP9	RSC12|SWP59	chromosome 13	L000003438	13	337788	339277	W		2011-02-03	1996-07-31	Component of both the SWI/SNF and RSC chromatin remodeling complexes; actin-related protein involved in transcriptional regulation
+S000035135	CDS					YMR033W		13	337788	337817	W		2011-02-03	1996-07-31	
+S000035136	CDS					YMR033W		13	337904	339277	W		2011-02-03	1996-07-31	
+S000035137	intron					YMR033W		13	337818	337903	W		2011-02-03	1996-07-31	
+S000004637	ORF	Verified	YMR034C	RCH1		chromosome 13		13	340722	339418	C		2011-02-03	1996-07-31	Putative transporter; localizes to the plasma membrane in response to high levels of extracellular calcium; member of the SLC10 carrier family; identified in a transposon mutagenesis screen as a gene involved in azole resistance; YMR034C is not an essential gene
+S000035192	CDS					YMR034C		13	340722	339418	C		2011-02-03	1996-07-31	
+S000004638	ORF	Verified	YMR035W	IMP2	endopeptidase catalytic subunit	chromosome 13	L000002836	13	341142	341675	W		2011-02-03	1996-07-31	Catalytic subunit of mitochondrial inner membrane peptidase complex; required for maturation of mitochondrial proteins of the intermembrane space; complex contains two catalytic subunits (Imp1p and Imp2p that differ in substrate specificity), and Som1p
+S000036191	CDS					YMR035W		13	341142	341675	W		2011-02-03	1996-07-31	
+S000004639	ORF	Verified	YMR036C	MIH1	putative tyrosine protein phosphatase MIH1	chromosome 13	L000001111	13	343520	341856	C		2011-02-03	1996-07-31	Protein tyrosine phosphatase involved in cell cycle control; regulates the phosphorylation state of Cdc28p; homolog of S. pombe cdc25
+S000036273	CDS					YMR036C		13	343520	341856	C		2011-02-03	1996-07-31	
+S000004640	ORF	Verified	YMR037C	MSN2	stress-responsive transcriptional activator MSN2	chromosome 13	L000001198	13	346517	344403	C		2011-02-03	1996-07-31	Stress-responsive transcriptional activator; activated in stochastic pulses of nuclear localization in response to various stress conditions; binds DNA at stress response elements of responsive genes; relative distribution to nucleus increases upon DNA replication stress
+S000036377	CDS					YMR037C		13	346517	344403	C		2011-02-03	1996-07-31	
+S000004641	ORF	Verified	YMR038C	CCS1	copper chaperone CCS1|LYS7|CCS	chromosome 13	L000000968	13	348260	347511	C	30	2011-02-03	1996-07-31	Copper chaperone for superoxide dismutase Sod1p; involved in oxidative stress protection; Met-X-Cys-X2-Cys motif within N-terminus is involved in insertion of copper into Sod1p under conditions of copper deprivation; required for regulation of yeast copper genes in response to DNA-damaging agents; protein abundance increases in response to DNA replication stress; human homolog CCS can complement yeast ccs1 null mutant
+S000036442	CDS					YMR038C		13	348260	347511	C		2011-02-03	1996-07-31	
+S000004642	ORF	Verified	YMR039C	SUB1	chromatin-binding transcription coactivator SUB1|TSP1	chromosome 13	L000003936	13	349522	348644	C		2011-02-03	1996-07-31	Transcriptional regulator; facilitates elongation through factors that modify RNAP II; role in peroxide resistance involving Rad2p; role in nonhomologous end-joining (NHEJ) of ds breaks in plasmid DNA, but not chromosomal DNA; role in the hyperosmotic stress response through polymerase recruitment at RNAP II and RNAP III genes; negatively regulates sporulation; protein abundance increases in response to DNA replication stress; functionally complemented by human SUB1 (PC4)
+S000037092	CDS					YMR039C		13	349522	348644	C		2011-02-03	1996-07-31	
+S000004643	ORF	Verified	YMR040W	YET2		chromosome 13		13	350381	350863	W		2011-02-03	1996-07-31	Protein of unknown function that may interact with ribosomes; based on co-purification experiments; homolog of human BAP31 protein; YET2 has a paralog, YET1, that arose from the whole genome duplication
+S000030127	CDS					YMR040W		13	350381	350863	W		2011-02-03	1996-07-31	
+S000004644	ORF	Verified	YMR041C	ARA2	D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA2	chromosome 13		13	351973	350966	C		2011-02-03	1996-07-31	NAD-dependent arabinose dehydrogenase; involved in biosynthesis of dehydro-D-arabinono-1,4-lactone; similar to plant L-galactose dehydrogenase
+S000030237	CDS					YMR041C		13	351973	350966	C		2011-02-03	1996-07-31	
+S000006568	tRNA_gene		tF(GAA)M			chromosome 13	L000003668	13	352280	352370	W		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000035417	intron					tF(GAA)M		13	352317	352334	W		2011-02-03	2000-05-19	
+S000035415	noncoding_exon					tF(GAA)M		13	352280	352316	W		2011-02-03	2000-05-19	
+S000035416	noncoding_exon					tF(GAA)M		13	352335	352370	W		2011-02-03	2000-05-19	
+S000004645	ORF	Verified	YMR042W	ARG80	ARGRI|ARGR1	chromosome 13	L000000112	13	352603	353136	W	36	2011-02-03	1996-07-31	Transcription factor involved in regulating arginine-responsive genes; acts with Arg81p and Arg82p
+S000031259	CDS					YMR042W		13	352603	353136	W		2011-02-03	1996-07-31	
+S000004646	ORF	Verified	YMR043W	MCM1	transcription factor MCM1|FUN80	chromosome 13	L000001037	13	353871	354731	W	35	2011-02-03	1996-07-31	Transcription factor; involved in cell-type-specific transcription and pheromone response; plays a central role in the formation of both repressor and activator complexes; relocalizes to the cytosol in response to hypoxia
+S000031354	CDS					YMR043W		13	353871	354731	W		2011-02-03	1996-07-31	
+S000004647	ORF	Verified	YMR044W	IOC4		chromosome 13		13	355384	356811	W		2011-02-03	1996-07-31	Member of a complex (Isw1b) with Isw1p and Ioc2p; interacts directly with H3K36me3 nucleosomes through its PWWP domain to recruit the Isw1b complex to open reading frames in a Set2p-dependent manner; Isw1b exhibits nucleosome-stimulated ATPase activity and acts within coding regions to coordinate transcription elongation with termination and processing
+S000032363	CDS					YMR044W		13	355384	356811	W		2011-02-03	1996-07-31	
+S000007109	long_terminal_repeat		YMRCdelta7			chromosome 13		13	357336	357005	C		2011-02-03	2000-05-19	Ty1 LTR
+S000004648	transposable_element_gene		YMR045C		gag-pol fusion protein	chromosome 13		13	362627	357359	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000032431	CDS					YMR045C		13	361321	357359	C		2011-02-03	1999-07-17|1996-07-31	
+S000032430	CDS					YMR045C		13	362627	361323	C		2011-02-03	1999-07-17|1996-07-31	
+S000032432	plus_1_translational_frameshift					YMR045C		13	361322	361322	C		2011-02-03	1999-07-17|1996-07-31	
+S000004649	transposable_element_gene		YMR046C		gag protein	chromosome 13		13	362627	361305	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000032514	CDS					YMR046C		13	362627	361305	C		2011-02-03	1996-07-31	
+S000007248	ORF	Dubious	YMR046W-A			chromosome 13		13	362702	362830	W		2011-02-03	1997-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033646	CDS					YMR046W-A		13	362702	362830	W		2011-02-03	1997-07-17	
+S000007119	LTR_retrotransposon		YMRCTy1-3		Ty1	chromosome 13		13	362918	357005	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007110	long_terminal_repeat		YMRCdelta8			chromosome 13		13	362918	362587	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006599	tRNA_gene		tH(GUG)M			chromosome 13	L000003669	13	363064	363135	W		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
+S000033895	noncoding_exon					tH(GUG)M		13	363064	363135	W		2011-02-03	2000-05-19	
+S000004650	ORF	Verified	YMR047C	NUP116	FG-nucleoporin NUP116|NSP116	chromosome 13	L000001293	13	366705	363364	C		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier; forms a stable association with Nup82p, Gle2p and two other FG-nucleoporins (Nsp1p and Nup159p); NUP116 has a paralog, NUP100, that arose from the whole genome duplication
+S000032621	CDS					YMR047C		13	366705	363364	C		2011-02-03	1996-07-31	
+S000004651	ORF	Verified	YMR048W	CSM3		chromosome 13		13	366981	367934	W		2011-02-03	1996-07-31	Replication fork associated factor; required for stable replication fork pausing; component of the DNA replication checkpoint pathway; required for accurate chromosome segregation during meiosis; forms nuclear foci upon DNA replication stress
+S000033358	CDS					YMR048W		13	366981	367934	W		2011-02-03	1996-07-31	
+S000004652	ORF	Verified	YMR049C	ERB1		chromosome 13		13	370517	368094	C		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; forms a complex with Nop7p and Ytm1p that is required for maturation of the large ribosomal subunit; required for maturation of the 25S and 5.8S ribosomal RNAs; homologous to mammalian Bop1
+S000033387	CDS					YMR049C		13	370517	368094	C		2011-02-03	1996-07-31	
+S000118371	ARS		ARS1312		ARSXIII-371	chromosome 13		13	371001	371105			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178156	ARS_consensus_sequence					ARS1312		13	371019	371035	W		2014-11-18	2014-11-18	
+S000006763	tRNA_gene		tV(AAC)M1			chromosome 13	L000003681	13	372518	372445	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000030017	noncoding_exon					tV(AAC)M1		13	372518	372445	C		2011-02-03	2000-05-19	
+S000007111	long_terminal_repeat		YMRCdelta9			chromosome 13		13	373034	372697	C		2011-02-03	2000-05-19	Ty1 LTR
+S000004653	transposable_element_gene		YMR050C		gag-pol fusion protein	chromosome 13		13	378325	373057	C		2011-02-03	1999-07-17|1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000034328	CDS					YMR050C		13	377019	373057	C		2011-02-03	1999-07-17|1996-07-31	
+S000034327	CDS					YMR050C		13	378325	377021	C		2011-02-03	1999-07-17|1996-07-31	
+S000034329	plus_1_translational_frameshift					YMR050C		13	377020	377020	C		2011-02-03	1999-07-17|1996-07-31	
+S000004654	transposable_element_gene		YMR051C		gag protein	chromosome 13		13	378325	377003	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000034409	CDS					YMR051C		13	378325	377003	C		2011-02-03	1996-07-31	
+S000007120	LTR_retrotransposon		YMRCTy1-4		Ty1	chromosome 13		13	378622	372697	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007112	long_terminal_repeat		YMRCdelta10			chromosome 13		13	378622	378285	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007113	long_terminal_repeat		YMRCdelta11			chromosome 13		13	379061	378727	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007121	long_terminal_repeat		YMRWdelta12			chromosome 13		13	379072	379198	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006775	tRNA_gene		tW(CCA)M			chromosome 13	L000003680	13	379408	379303	C		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
+S000034112	intron					tW(CCA)M		13	379372	379339	C		2011-02-03	2000-05-19	
+S000034111	noncoding_exon					tW(CCA)M		13	379338	379303	C		2011-02-03	2000-05-19	
+S000034110	noncoding_exon					tW(CCA)M		13	379408	379373	C		2011-02-03	2000-05-19	
+S000004656	ORF	Verified	YMR052W	FAR3		chromosome 13	L000002919	13	379586	380200	W		2011-02-03	1996-07-31	Protein of unknown function; involved in recovery from cell cycle arrest in response to pheromone, in a Far1p-independent pathway; interacts with Far7p, Far8p, Far9p, Far10p, and Far11p; localizes to the endoplasmic reticulum; protein abundance increases in response to DNA replication stress
+S000035481	CDS					YMR052W		13	379586	380200	W		2011-02-03	1996-07-31	
+S000004655	ORF	Dubious	YMR052C-A			chromosome 13		13	380434	380069	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036215	CDS					YMR052C-A		13	380434	380069	C		2011-02-03	1996-07-31	
+S000004657	ORF	Verified	YMR053C	STB2		chromosome 13	L000002108	13	382898	380346	C		2011-02-03	1996-07-31	Protein that interacts with Sin3p in a two-hybrid assay; part of a large protein complex with Sin3p and Stb1p; STB2 has a paralog, STB6, that arose from the whole genome duplication
+S000035527	CDS					YMR053C		13	382898	380346	C		2011-02-03	1996-07-31	
+S000004658	ORF	Verified	YMR054W	STV1	H(+)-transporting V0 sector ATPase subunit a	chromosome 13	L000002139	13	383303	385975	W		2011-02-03	1996-07-31	Subunit a of the vacuolar-ATPase V0 domain; one of two isoforms (Stv1p and Vph1p); Stv1p is located in V-ATPase complexes of the Golgi and endosomes while Vph1p is located in V-ATPase complexes of the vacuole
+S000035660	CDS					YMR054W		13	383303	385975	W		2011-02-03	1996-07-31	
+S000004659	ORF	Verified	YMR055C	BUB2	PAC7	chromosome 13	L000000197	13	387021	386101	C		2011-02-03	1996-07-31	Mitotic exit network regulator; forms GTPase-activating Bfa1p-Bub2p complex that binds Tem1p and spindle pole bodies, blocks cell cycle progression before anaphase in response to spindle and kinetochore damage
+S000035699	CDS					YMR055C		13	387021	386101	C		2011-02-03	1996-07-31	
+S000004660	ORF	Verified	YMR056C	AAC1	ADP/ATP carrier protein AAC1	chromosome 13	L000000003	13	388244	387315	C		2011-02-03	1996-07-31	Mitochondrial inner membrane ADP/ATP translocator; exchanges cytosolic ADP for mitochondrially synthesized ATP; phosphorylated; Aac1p is a minor isoform while Pet9p is the major ADP/ATP translocator; relocalizes from mitochondrion to cytoplasm upon DNA replication stress
+S000036642	CDS					YMR056C		13	388244	387315	C		2011-02-03	1996-07-31	
+S000004661	ORF	Dubious	YMR057C			chromosome 13		13	388730	388359	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF AAC1
+S000036707	CDS					YMR057C		13	388730	388359	C		2011-02-03	1996-07-31	
+S000004662	ORF	Verified	YMR058W	FET3	ferroxidase FET3	chromosome 13	L000000610	13	388822	390732	W		2011-02-03	1996-07-31	Ferro-O2-oxidoreductase; multicopper oxidase that oxidizes ferrous (Fe2+) to ferric iron (Fe3+) for subsequent cellular uptake by transmembrane permease Ftr1p; required for high-affinity iron uptake and involved in mediating resistance to copper ion toxicity, belongs to class of integral membrane multicopper oxidases; protein abundance increases in response to DNA replication stress
+S000036798	CDS					YMR058W		13	388822	390732	W		2011-02-03	1996-07-31	
+S000004663	ORF	Verified	YMR059W	SEN15		chromosome 13	L000003972	13	391099	391485	W		2011-02-03	1996-07-31|2006-05-10	Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease (Sen complex) is composed of Sen2p, Sen15p, Sen34p, and Sen54p; Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface
+S000036866	CDS					YMR059W		13	391099	391485	W		2011-02-03	1996-07-31|2006-05-10	
+S000004664	ORF	Verified	YMR060C	SAM37	SAM complex subunit SAM37|TOM37|PET3027|MAS37	chromosome 13	L000002841|L000003251	13	392515	391532	C		2011-02-03	1996-07-31	Component of the Sorting and Assembly Machinery (SAM) complex; the SAM (or TOB) complex is located in the mitochondrial outer membrane; binds precursors of beta-barrel proteins and facilitates their outer membrane insertion; contributes to SAM complex stability
+S000037417	CDS					YMR060C		13	392515	391532	C		2011-02-03	1996-07-31	
+S000004665	ORF	Verified	YMR061W	RNA14	cleavage polyadenylation factor subunit RNA14	chromosome 13	L000001650	13	392755	394788	W		2011-02-03	1996-07-31	Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; bridges interaction between Rna15p and Hrp1p in the CF I complex; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; required for gene looping and maintenance of genome stability; relocalizes to the cytosol in response to hypoxia
+S000037628	CDS					YMR061W		13	392755	394788	W		2011-02-03	1996-07-31	
+S000004666	ORF	Verified	YMR062C	ARG7	glutamate N-acetyltransferase|ECM40	chromosome 13	L000003528	13	396379	395054	C		2011-02-03	1996-07-31	Mitochondrial ornithine acetyltransferase; catalyzes the fifth step in arginine biosynthesis; also possesses acetylglutamate synthase activity, regenerates acetylglutamate while forming ornithine
+S000037657	CDS					YMR062C		13	396379	395054	C		2011-02-03	1996-07-31	
+S000004667	ORF	Verified	YMR063W	RIM9		chromosome 13	L000003427	13	397077	397796	W		2011-02-03	1996-07-31	Plasma membrane protein of unknown function; involved in the proteolytic activation of Rim101p in response to alkaline pH; interacts with Rim21p and Dfg16p to form a pH-sensing complex in the Rim101 pathway and is required to maintain Rim21p levels; has similarity to A. nidulans PalI;
+S000030541	CDS					YMR063W		13	397077	397796	W		2011-02-03	1996-07-31	
+S000004668	ORF	Verified	YMR064W	AEP1	NCA1	chromosome 13	L000000053	13	397903	399459	W		2011-02-03	1996-07-31	Protein required for expression of the mitochondrial OLI1 gene; mitochondrial OLI1 gene encodes subunit 9 of F1-F0 ATP synthase
+S000030637	CDS					YMR064W		13	397903	399459	W		2011-02-03	1996-07-31	
+S000004669	ORF	Verified	YMR065W	KAR5	FIG3	chromosome 13	L000003315	13	399702	401216	W		2011-02-03	1996-07-31	Protein required for nuclear membrane fusion during karyogamy; localizes to the membrane with a soluble portion in the endoplasmic reticulum lumen, may form a complex with Jem1p and Kar2p; similar to zebrafish Brambleberry protein; expression of the gene is regulated by pheromone
+S000031502	CDS					YMR065W		13	399702	401216	W		2011-02-03	1996-07-31	
+S000004670	ORF	Verified	YMR066W	SOV1		chromosome 13	L000004620	13	401541	404237	W		2011-02-03	1996-07-31	Mitochondrial protein of unknown function
+S000031589	CDS					YMR066W		13	401541	404237	W		2011-02-03	1996-07-31	
+S000004671	ORF	Verified	YMR067C	UBX4	CUI1	chromosome 13		13	405573	404323	C		2011-02-03	1996-07-31	UBX domain-containing protein that interacts with Cdc48p; involved in degradation of polyubiquitinated proteins via the ERAD (ER-associated degradation) pathway; modulates the Cdc48p-Nplp-Ufd1p AAA ATPase complex during its role in delivery of misfolded proteins to the proteasome; protein abundance increases in response to DNA replication stress
+S000031655	CDS					YMR067C		13	405573	404323	C		2011-02-03	1996-07-31	
+S000004672	ORF	Verified	YMR068W	AVO2		chromosome 13		13	406304	407584	W		2011-02-03	1996-07-31	Component of a complex containing the Tor2p kinase and other proteins; complex may have a role in regulation of cell growth
+S000031807	CDS					YMR068W		13	406304	407584	W		2011-02-03	1996-07-31	
+S000004673	ORF	Verified	YMR069W	NAT4	NAA40	chromosome 13		13	407709	408566	W		2011-02-03	1996-07-31	N alpha-acetyl-transferase; involved in acetylation of the N-terminal residues of histones H4 and H2A
+S000032728	CDS					YMR069W		13	407709	408566	W		2011-02-03	1996-07-31	
+S000004674	ORF	Verified	YMR070W	MOT3	[MOT3]|[MOT3+]|ROX7	chromosome 13	L000002675	13	409154	410626	W	43	2011-02-03	1996-07-31	Transcriptional repressor, activator; role in cellular adjustment to osmotic stress including modulation of mating efficiency; involved in repression of subset of hypoxic genes by Rox1p, repression of several DAN/TIR genes during aerobic growth, ergosterol biosynthetic genes in response to hyperosmotic stress; contributes to recruitment of Tup1p-Cyc8p general repressor to promoters; relocalizes to cytosol under hypoxia; forms [MOT3+] prion under anaerobic conditions
+S000032777	CDS					YMR070W		13	409154	410626	W		2011-02-03	1996-07-31	
+S000004675	ORF	Verified	YMR071C	TVP18		chromosome 13		13	411265	410762	C		2011-02-03	1996-07-31	Integral membrane protein; localized to late Golgi vesicles along with the v-SNARE Tlg2p; may interact with ribosomes, based on co-purification experiments; may have a role in intracellular sterol transport
+S000032836	CDS					YMR071C		13	411265	410762	C		2011-02-03	1996-07-31	
+S000004676	ORF	Verified	YMR072W	ABF2	DNA-binding protein ABF2|mtTFA|HM|p19	chromosome 13	L000000012	13	411569	412120	W		2011-02-03	1996-07-31	Mitochondrial DNA-binding protein; involved in mitochondrial DNA replication and recombination, member of HMG1 DNA-binding protein family; activity may be regulated by protein kinase A phosphorylation; ABF2 has a paralog, IXR1, that arose from the whole genome duplication; human homolog TFAM can complement yeast abf2 mutant, rescuing the loss-of-mitochondrial DNA phenotype in a yeast abf2 strain
+S000033599	CDS					YMR072W		13	411569	412120	W		2011-02-03	1996-07-31	
+S000004677	ORF	Verified	YMR073C	IRC21		chromosome 13		13	412873	412268	C		2011-02-03	1996-07-31	Protein of unknown function; may be involved in resistance to carboplatin and cisplatin; null mutant displays increase in spontaneous Rad52p foci; contains a lipid-binding domain and binds cardiolipin in a large-scale study
+S000033642	CDS					YMR073C		13	412873	412268	C		2011-02-03	1996-07-31	
+S000004678	ORF	Verified	YMR074C	SDD2		chromosome 13		13	413473	413036	C		2011-02-03	1996-07-31	Protein with homology to human PDCD5; PDCD5 is involved in programmed cell death; N-terminal region forms a conserved triple-helix bundle structure; overproduction suppresses lethality due to expression of the dominant PET9 allele AAC2-A128P; overexpression promotes H2O2-induced apoptosis; YMR074C is not an essential gene; protein abundance increases in response to DNA replication stress
+S000033760	CDS					YMR074C		13	413473	413036	C		2011-02-03	1996-07-31	
+S000004680	ORF	Verified	YMR075W	RCO1		chromosome 13		13	413982	416036	W		2011-02-03	1996-07-31	Essential component of the Rpd3S histone deacetylase complex; interacts with Eaf3p
+S000034738	CDS					YMR075W		13	413982	416036	W		2011-02-03	1996-07-31	
+S000004679	ORF	Dubious	YMR075C-A			chromosome 13		13	416053	415688	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF RCO1/YMR075W
+S000033031	CDS					YMR075C-A		13	416053	415688	C		2011-02-03	1996-07-31	
+S000004681	ORF	Verified	YMR076C	PDS5		chromosome 13	L000003047	13	420029	416196	C		2011-02-03	1996-07-31	Cohesion maintenance factor; involved in sister chromatid condensation and cohesion; colocalizes with cohesin on chromosomes; performs its cohesin maintenance function in pre-anaphase cells by protecting the integrity of the cohesion complex; also required during meiosis; relocalizes to the cytosol in response to hypoxia
+S000034790	CDS					YMR076C		13	420029	416196	C		2011-02-03	1996-07-31	
+S000006764	tRNA_gene		tV(AAC)M2			chromosome 13	L000003679	13	420661	420588	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000030020	noncoding_exon					tV(AAC)M2		13	420661	420588	C		2011-02-03	2000-05-19	
+S000004682	ORF	Verified	YMR077C	VPS20	ESCRT-III subunit protein VPS20|VPL10|VPT20|CHM6	chromosome 13		13	422149	421484	C		2011-02-03	1996-07-31	Myristoylated subunit of the ESCRT-III complex; the endosomal sorting complex required for transport of transmembrane proteins into the multivesicular body pathway to the lysosomal/vacuolar lumen; cytoplasmic protein recruited to endosomal membranes
+S000034931	CDS					YMR077C		13	422149	421484	C		2011-02-03	1996-07-31	
+S000004683	ORF	Verified	YMR078C	CTF18	CHL12	chromosome 13	L000000431|L000000325	13	424728	422503	C		2011-02-03	1996-07-31	Subunit of a complex with Ctf8p; shares some subunits with Replication Factor C and is required for sister chromatid cohesion; may have overlapping functions with Rad24p in the DNA damage replication checkpoint
+S000035849	CDS					YMR078C		13	424728	422503	C		2011-02-03	1996-07-31	
+S000004684	ORF	Verified	YMR079W	SEC14	phosphatidylinositol/phosphatidylcholine transfer protein SEC14|PIT1	chromosome 13	L000001839	13	424989	426059	W		2011-02-03	1996-07-31	Phosphatidylinositol/phosphatidylcholine transfer protein; involved in regulating PtdIns, PtdCho, and ceramide metabolism, products of which regulate intracellular transport and UPR; has a role in localization of lipid raft proteins; functionally homologous to mammalian PITPs; SEC14 has a paralog, YKL091C, that arose from the whole genome duplication
+S000036083	CDS					YMR079W		13	424989	424997	W		2011-02-03	1996-07-31	
+S000036084	CDS					YMR079W		13	425154	426059	W		2011-02-03	1996-07-31	
+S000036085	intron					YMR079W		13	424998	425153	W		2011-02-03	1996-07-31	
+S000004685	ORF	Verified	YMR080C	NAM7	SUT2|ATP-dependent RNA helicase NAM7|SUP113|UPF1|MOF4|IFS2	chromosome 13	L000002429|S000029550|L000002232	13	429627	426712	C	60	2011-02-03	1996-07-31	ATP-dependent RNA helicase of the SFI superfamily; involved in nonsense mediated mRNA decay; required for efficient translation termination at nonsense codons and targeting of NMD substrates to P-bodies; binds to the small ribosomal subunit via an interaction with Rps26; forms cytoplasmic foci upon DNA replication stress
+S000036887	CDS					YMR080C		13	429627	426712	C		2011-02-03	1996-07-31	
+S000004686	ORF	Verified	YMR081C	ISF1	MBR3	chromosome 13	L000001034	13	431095	430079	C		2011-02-03	1996-07-31	Serine-rich, hydrophilic protein; overexpression suppresses growth defects of hap2, hap3, and hap4 mutants; expression is under glucose control; cotranscribed with NAM7 in a cyp1 mutant; ISF1 has a paralog, MBR1, that arose from the whole genome duplication
+S000036954	CDS					YMR081C		13	431095	430079	C		2011-02-03	1996-07-31	
+S000004687	ORF	Uncharacterized	YMR082C			chromosome 13		13	432125	431769	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR082C is not an essential gene
+S000037719	CDS					YMR082C		13	432125	431769	C		2011-02-03	1996-07-31	
+S000004688	ORF	Verified	YMR083W	ADH3	alcohol dehydrogenase ADH3	chromosome 13	L000000043	13	434788	435915	W	45	2011-02-03	1996-07-31	Mitochondrial alcohol dehydrogenase isozyme III; involved in the shuttling of mitochondrial NADH to the cytosol under anaerobic conditions and ethanol production
+S000037845	CDS					YMR083W		13	434788	435915	W		2011-02-03	1996-07-31	
+S000004689	ORF	Uncharacterized	YMR084W		putative glutamine--fructose-6-phosphate transaminase	chromosome 13		13	436628	437416	W		2011-02-03	1996-07-31	Putative protein of unknown function; YMR084W and adjacent ORF YMR085W are merged in related strains, and together are paralogous to glutamine-fructose-6-phosphate amidotransferase GFA1
+S000030786	CDS					YMR084W		13	436628	437416	W		2011-02-03	1996-07-31	
+S000004690	ORF	Uncharacterized	YMR085W			chromosome 13		13	437491	438789	W		2011-02-03	1996-07-31	Putative protein of unknown function; YMR085W and adjacent ORF YMR084W are merged in related strains, and together are paralogous to glutamine-fructose-6-phosphate amidotransferase GFA1
+S000030871	CDS					YMR085W		13	437491	438789	W		2011-02-03	1996-07-31	
+S000004692	ORF	Verified	YMR086W	SEG1		chromosome 13		13	439208	442090	W		2011-02-03	1996-07-31	Component of eisosome required for proper eisosome assembly; precedes Pil1p/Lsp1p during eisosome formation, controls eisosome length and shape; diffusely distributed, forms heterogeneous patches at plasma membrane in small buds, also found in medium and large buds; expression repressed by cAMP; similar to A. gossypii SEG gene and to S. pombe Sle1p, important for generating eisosomes; SEG1 has a paralog, SEG2, that arose from the whole genome duplication
+S000030930	CDS					YMR086W		13	439208	442090	W		2011-02-03	1996-07-31	
+S000004691	ORF	Dubious	YMR086C-A			chromosome 13		13	442364	442026	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037663	CDS					YMR086C-A		13	442364	442026	C		2011-02-03	1996-07-31	
+S000004693	ORF	Verified	YMR087W		putative ADP-ribose 1''-phosphate phosphatase	chromosome 13	S000154613	13	442527	443381	W		2011-02-03	1996-07-31	Putative ADP-ribose-1''-monophosphatase; converts ADP-ribose-1''-monophosphate to ADP-ribose; may have a role in tRNA splicing; contains an A1pp domain
+S000031010	CDS					YMR087W		13	442527	443381	W		2011-02-03	1996-07-31	
+S000004694	ORF	Verified	YMR088C	VBA1		chromosome 13		13	445102	443414	C		2011-02-03	1996-07-31	Permease of basic amino acids in the vacuolar membrane
+S000031056	CDS					YMR088C		13	445102	443414	C		2011-02-03	1996-07-31	
+S000004695	ORF	Verified	YMR089C	YTA12	m-AAA protease subunit YTA12|RCA1	chromosome 13	L000001591|L000002564	13	448086	445609	C		2011-02-03	1996-07-31	Mitochondrial inner membrane m-AAA protease component; mediates degradation of misfolded or unassembled proteins; also required for correct assembly of mitochondrial enzyme complexes; overexpression of human AFG3L2 complements respiratory defect of yeast afg3 yta12 double null mutation, but overexpression of disease-associated AFG3L2 variants does not; expression of both human SPG7 (paraplegin) and AFG3L2 complements yeast yta12 afg3 double mutation
+S000032008	CDS					YMR089C		13	448086	445609	C		2011-02-03	1996-07-31	
+S000004696	ORF	Uncharacterized	YMR090W			chromosome 13		13	449245	449928	W		2011-02-03	1996-07-31	Putative protein of unknown function; similar to DTDP-glucose 4,6-dehydratases; GFP-fusion protein localizes to the cytoplasm; up-regulated in response to the fungicide mancozeb; not essential for viability
+S000033126	CDS					YMR090W		13	449245	449928	W		2011-02-03	1996-07-31	
+S000004697	ORF	Verified	YMR091C	NPL6	RSC7	chromosome 13	L000001272	13	451365	450058	C		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; interacts with Rsc3p, Rsc30p, Ldb7p, and Htl1p to form a module important for a broad range of RSC functions
+S000033161	CDS					YMR091C		13	451365	450058	C		2011-02-03	1996-07-31	
+S000004698	ORF	Verified	YMR092C	AIP1		chromosome 13	L000000069	13	453479	451632	C		2011-02-03	1996-07-31	Actin cortical patch component; interacts with the actin depolymerizing factor cofilin; inhibits elongation of aged ADP-actin filaments decorated with cofilin to maintain a high level of assembly-competent actin species; required to restrict cofilin localization to cortical patches; putative regulator of cytokinesis; contains WD repeats; protein increases in abundance and relocalizes from cytoplasm to plasma membrane upon DNA replication stress
+S000033958	CDS					YMR092C		13	453479	451632	C		2011-02-03	1996-07-31	
+S000004699	ORF	Verified	YMR093W	UTP15	snoRNA-binding rRNA-processing protein UTP15	chromosome 13		13	454015	455556	W		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
+S000034125	CDS					YMR093W		13	454015	455556	W		2011-02-03	1996-07-31	
+S000004700	ORF	Verified	YMR094W	CTF13	CBF3C	chromosome 13	L000000429	13	455825	457261	W		2011-02-03	1996-07-31	Subunit of the CBF3 complex; CBF3 binds to the CDE III element of centromeres, bending the DNA upon binding, and may be involved in sister chromatid cohesion during mitosis
+S000034211	CDS					YMR094W		13	455825	457261	W		2011-02-03	1996-07-31	
+S000004701	ORF	Verified	YMR095C	SNO1	putative pyridoxal 5'-phosphate synthase	chromosome 13	L000003451	13	457959	457285	C		2011-02-03	1996-07-31	Protein of unconfirmed function; involved in pyridoxine metabolism; expression is induced during stationary phase; forms a putative glutamine amidotransferase complex with Snz1p, with Sno1p serving as the glutaminase
+S000035105	CDS					YMR095C		13	457959	457285	C		2011-02-03	1996-07-31	
+S000004702	ORF	Verified	YMR096W	SNZ1	pyridoxine biosynthesis protein SNZ1	chromosome 13	L000002575	13	458408	459301	W		2011-02-03	1996-07-31	Protein involved in vitamin B6 biosynthesis; member of a stationary phase-induced gene family; coregulated with SNO1; interacts with Sno1p and with Yhr198p, perhaps as a multiprotein complex containing other Snz and Sno proteins
+S000035303	CDS					YMR096W		13	458408	459301	W		2011-02-03	1996-07-31	
+S000004703	ORF	Verified	YMR097C	MTG1	putative GTPase MTG1	chromosome 13		13	460527	459424	C		2011-02-03	1996-07-31	Putative GTPase peripheral to the mitochondrial inner membrane; essential for respiratory competence, likely functions in assembly of the large ribosomal subunit, has homologs in plants and animals
+S000035321	CDS					YMR097C		13	460527	459424	C		2011-02-03	1996-07-31	
+S000004704	ORF	Verified	YMR098C	ATP25	LRC4	chromosome 13		13	462609	460771	C		2011-02-03	1996-07-31	Mitochondrial protein required for the stability of Oli1p (Atp9p) mRNA; also required for the Oli1p ring formation; YMR098C is not an essential gene
+S000035398	CDS					YMR098C		13	462609	460771	C		2011-02-03	1996-07-31	
+S000007114	long_terminal_repeat		YMRCdelta13			chromosome 13		13	463461	463128	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006543	tRNA_gene		tD(GUC)M			chromosome 13	L000003670	13	463554	463625	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000030421	noncoding_exon					tD(GUC)M		13	463554	463625	W		2011-02-03	2000-05-19	
+S000004705	ORF	Verified	YMR099C		glucose-6-phosphate 1-epimerase	chromosome 13		13	464827	463934	C		2011-02-03	1996-07-31	Glucose-6-phosphate 1-epimerase (hexose-6-phosphate mutarotase); likely involved in carbohydrate metabolism; GFP-fusion protein localizes to both the nucleus and cytoplasm and is induced in response to the DNA-damaging agent MMS
+S000035458	CDS					YMR099C		13	464827	463934	C		2011-02-03	1996-07-31	
+S000004706	ORF	Verified	YMR100W	MUB1		chromosome 13	L000004359	13	466300	468162	W		2011-02-03	1996-07-31	MYND domain-containing protein; component of the Mub1p-Ubr2p-Rad6p ubiquitin ligase complex, required for ubiquitination and degradation of Rpn4p; interacts with Ubr2p (E3) and indirectly with Rad6p (E2); short-lived protein degraded in a Ubr2p/Rad6p dependent manner; proposed to function as both a partner and substrate of the Ubr2p/Rad6p ubiquitin ligase; similar to the A. nidulans samB gene
+S000032955	CDS					YMR100W		13	466300	468162	W		2011-02-03	1996-07-31	
+S000118372	ARS		ARS1316		ARSXIII-468	chromosome 13		13	468179	468469			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178157	ARS_consensus_sequence					ARS1316		13	468236	468252	W		2014-11-18	2014-11-18	
+S000004707	ORF	Verified	YMR101C	SRT1	ditrans,polycis-polyprenyl diphosphate synthase	chromosome 13	L000004878	13	469476	468445	C		2011-02-03	1996-07-31	Forms the dehydrodolichyl diphosphate syntase (DDS) complex with NUS1; involved in synthesis of long-chain dolichols (19-22 isoprene units; as opposed to Rer2p which synthesizes shorter-chain dolichols); localizes to lipid bodies; transcription is induced during stationary phase
+S000032988	CDS					YMR101C		13	469476	468445	C		2011-02-03	1996-07-31	
+S000004708	ORF	Uncharacterized	YMR102C			chromosome 13		13	472352	469848	C		2011-02-03	1996-07-31	Protein of unknown function; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance; mutant shows increased resistance to azoles; not an essential gene; YMR102C has a paralog, DGR2, that arose from the whole genome duplication
+S000033083	CDS					YMR102C		13	472352	469848	C		2011-02-03	1996-07-31	
+S000004709	ORF	Uncharacterized	YMR103C			chromosome 13		13	473264	472902	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR103C is not an essential gene
+S000033841	CDS					YMR103C		13	473264	472902	C		2011-02-03	1996-07-31	
+S000004710	ORF	Verified	YMR104C	YPK2	putative protein kinase YPK2|YKR2	chromosome 13	L000002542	13	475453	473420	C		2011-02-03	1996-07-31	Protein kinase similar to S/T protein kinase Ypk1p; functionally redundant with YPK1 at the genetic level; participates in a signaling pathway required for optimal cell wall integrity; involved in the TORC-dependent phosphorylation of ribosomal proteins Rps6a/b (S6); human homolog SGK2 can complement a ypk1 ypk2 double mutant
+S000033988	CDS					YMR104C		13	475453	473420	C		2011-02-03	1996-07-31	
+S000004711	ORF	Verified	YMR105C	PGM2	phosphoglucomutase PGM2|GAL5	chromosome 13	L000001413	13	477606	475897	C		2011-02-03	1996-07-31	Phosphoglucomutase; catalyzes the conversion from glucose-1-phosphate to glucose-6-phosphate, which is a key step in hexose metabolism; functions as the acceptor for a Glc-phosphotransferase; protein abundance increases in response to DNA replication stress; PGM2 has a paralog, PGM1, that arose from the whole genome duplication
+S000034889	CDS					YMR105C		13	477606	475897	C		2011-02-03	1996-07-31	
+S000130188	ARS		ARS1317			chromosome 13		13	477606	478301			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000028692	ORF	Uncharacterized	YMR105W-A			chromosome 13		13	478064	478258	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000032592	CDS					YMR105W-A		13	478064	478258	W		2011-02-03	2003-07-29	
+S000004712	ORF	Verified	YMR106C	YKU80	ATP-dependent DNA helicase YKU80|HDF2	chromosome 13	L000004089	13	480190	478301	C		2011-02-03	1996-07-31	Subunit of telomeric Ku complex (Yku70p-Yku80p); involved in telomere length maintenance, structure and telomere position effect; required for localization of telomerase ribonucleoprotein via interaction with TLC1 guide RNA; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair; colocalizes with quiescent cell telomere hyperclusters
+S000035040	CDS					YMR106C		13	480190	478301	C		2011-02-03	1996-07-31	
+S000006627	tRNA_gene		tK(CUU)M			chromosome 13	L000003678	13	480693	480621	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000036046	noncoding_exon					tK(CUU)M		13	480693	480621	C		2011-02-03	2000-05-19	
+S000007115	long_terminal_repeat		YMRCdelta14			chromosome 13		13	481547	481214	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007122	long_terminal_repeat		YMRWdelta15			chromosome 13		13	481571	481808	W		2011-02-03	2000-05-19	Ty1 LTR
+S000004713	ORF	Verified	YMR107W	SPG4		chromosome 13		13	483014	483361	W		2011-02-03	1996-07-31	Protein required for high temperature survival during stationary phase; not required for growth on nonfermentable carbon sources
+S000035284	CDS					YMR107W		13	483014	483361	W		2011-02-03	1996-07-31	
+S000004714	ORF	Verified	YMR108W	ILV2	acetolactate synthase catalytic subunit|THI1|SMR1	chromosome 13	L000002296|L000002515|L000000858	13	484084	486147	W	66	2011-02-03	1996-07-31	Acetolactate synthase; catalyses the first common step in isoleucine and valine biosynthesis and is the target of several classes of inhibitors, localizes to the mitochondria; expression of the gene is under general amino acid control
+S000036218	CDS					YMR108W		13	484084	486147	W		2011-02-03	1996-07-31	
+S000004715	ORF	Verified	YMR109W	MYO5	myosin 5	chromosome 13	L000002935	13	486587	490246	W		2011-02-03	1996-07-31	One of two type I myosin motors; contains proline-rich tail homology 2 (TH2) and SH3 domains; MYO5 deletion has little effect on growth, but myo3 myo5 double deletion causes severe defects in growth and actin cytoskeleton organization; MYO5 has a paralog, MYO3, that arose from the whole genome duplication
+S000036305	CDS					YMR109W		13	486587	490246	W		2011-02-03	1996-07-31	
+S000004716	ORF	Verified	YMR110C	HFD1	hexadecenal dehydrogenase	chromosome 13		13	491992	490394	C		2011-02-03	1996-07-31	Dehydrogenase involved in ubiquinone and sphingolipid metabolism; oxidizes 4-hydroxybenzaldehyde into 4-hydroxybenzoic acid in ubiquinone biosynthesis; converts hexadecenal to hexadecenoic acid in sphingosine 1-phosphate breakdown pathway; located in the mitochondrial outer membrane and also in lipid particles; human homolog ALDH3A2, a fatty aldehyde dehydrogenase (FALDH) mutated in neurocutaneous disorder Sjogren-Larsson syndrome, can complement yeast hfd1 mutant
+S000037194	CDS					YMR110C		13	491992	490394	C		2011-02-03	1996-07-31	
+S000004717	ORF	Verified	YMR111C			chromosome 13		13	493792	492404	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YMR111C is not an essential gene; forms nuclear foci upon DNA replication stress
+S000037278	CDS					YMR111C		13	493792	492404	C		2011-02-03	1996-07-31	
+S000004718	ORF	Verified	YMR112C	MED11		chromosome 13	L000004634	13	494495	494100	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential protein
+S000029941	CDS					YMR112C		13	494495	494100	C		2011-02-03	1996-07-31	
+S000004719	ORF	Verified	YMR113W	FOL3	dihydrofolate synthase	chromosome 13		13	494999	496282	W		2011-02-03	1996-07-31	Dihydrofolate synthetase, involved in folic acid biosynthesis; catalyzes conversion of dihydropteroate to dihydrofolate in folate coenzyme biosynthesis; FOL3 has a paralog, RMA1, that arose from the whole genome duplication
+S000030131	CDS					YMR113W		13	494999	496282	W		2011-02-03	1996-07-31	
+S000004720	ORF	Verified	YMR114C		putative peptide hydrolase	chromosome 13		13	497449	496343	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; YMR114C is not an essential gene
+S000030240	CDS					YMR114C		13	497449	496343	C		2011-02-03	1996-07-31	
+S000004721	ORF	Verified	YMR115W	MGR3	FMP24	chromosome 13		13	497704	499209	W		2011-02-03	1996-07-31	Subunit of the mitochondrial (mt) i-AAA protease supercomplex; i-AAA degrades misfolded mitochondrial proteins; forms a subcomplex with Mgr1p that binds to substrates to facilitate proteolysis; required for growth of cells lacking mtDNA
+S000031261	CDS					YMR115W		13	497704	499209	W		2011-02-03	1996-07-31	
+S000007501	snoRNA_gene		snR24	SNR24	U24	chromosome 13	L000002911	13	500072	499984	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); commonly referred to as U24; guides 2'-O-methylation of large subunit (LSU) rRNA at positions C1437, C1449, and C1450
+S000036664	noncoding_exon					snR24		13	500072	499984	C		2011-02-03	2000-05-19	
+S000004722	ORF	Verified	YMR116C	ASC1	RACK1|guanine nucleotide-binding protein subunit beta|ASU9|NAD1|CPC2	chromosome 13	L000003529|L000000135|S000029045	13	500688	499456	C		2011-02-03	1996-07-31	G-protein beta subunit and guanine dissociation inhibitor for Gpa2p; ortholog of RACK1 that inhibits translation; core component of the small (40S) ribosomal subunit; required to prevent frameshifting at ribosomes stalled at repeated CGA codons; regulates P-body formation induced by replication stress; represses Gcn4p in the absence of amino acid starvation
+S000031294	CDS					YMR116C		13	499878	499456	C		2011-02-03	1996-07-31	
+S000031293	CDS					YMR116C		13	500688	500152	C		2011-02-03	1996-07-31	
+S000031295	intron					YMR116C		13	500151	499879	C		2011-02-03	1996-07-31	
+S000004723	ORF	Verified	YMR117C	SPC24	kinetochore-associated Ndc80 complex subunit SPC24	chromosome 13	L000004694	13	501891	501250	C		2011-02-03	1996-07-31	Component of the kinetochore-associated Ndc80 complex; involved in chromosome segregation, spindle checkpoint activity, and kinetochore clustering; evolutionarily conserved; other members include Ndc80p, Nuf2p, Spc24p, and Spc25p
+S000031427	CDS					YMR117C		13	501891	501250	C		2011-02-03	1996-07-31	
+S000004724	ORF	Uncharacterized	YMR118C	SHH3	protein SHH3	chromosome 13		13	502734	502144	C		2011-02-03	1996-07-31	Putative mitochondrial inner membrane protein of unknown function; although similar to paralogous Sdh3p, Shh3p is not a stoichiometric subunit of either succinate dehydrogenase or of the TIM22 translocase; SHH3 has a paralog, SDH3, that arose from the whole genome duplication
+S000032434	CDS					YMR118C		13	502734	502144	C		2011-02-03	1996-07-31	
+S000007123	long_terminal_repeat		YMRWdelta16			chromosome 13		13	503192	503389	W		2011-02-03	2000-05-19	Ty1 LTR
+S000130189	ARS		ARS1319			chromosome 13		13	503389	503771			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000007128	long_terminal_repeat		YMRWtau2			chromosome 13		13	503771	504141	W		2011-02-03	2000-05-19	Ty4 LTR
+S000007124	long_terminal_repeat		YMRWdelta17			chromosome 13		13	504346	504677	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006644	tRNA_gene		tL(CAA)M			chromosome 13	L000003671	13	504895	505008	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000033800	intron					tL(CAA)M		13	504933	504964	W		2011-02-03	2000-05-19	
+S000033798	noncoding_exon					tL(CAA)M		13	504895	504932	W		2011-02-03	2000-05-19	
+S000033799	noncoding_exon					tL(CAA)M		13	504965	505008	W		2011-02-03	2000-05-19	
+S000004725	ORF	Verified	YMR119W	ASI1	putative ubiquitin-protein ligase ASI1	chromosome 13		13	505333	507207	W		2011-02-03	1996-07-31	Subunit of the inner nuclear membrane Asi ubiquitin ligase complex; the Asi complex targets both misfolded proteins of the inner nuclear membrane-associated degradation (INMAD) pathway and regulators of sterol biosynthesis for ubiquitin-mediated degradation; acts with Asi2p and Asi3p to ensure the fidelity of SPS-sensor signaling by targeting latent unprocessed forms of Stp1p and Stp2p, maintaining the repressed state of gene expression in the absence of inducing amino acids
+S000032577	CDS					YMR119W		13	505333	507207	W		2011-02-03	1996-07-31	
+S000004726	ORF	Dubious	YMR119W-A			chromosome 13		13	506996	507370	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 3' end of ORF ASI1/YMR119W
+S000037793	CDS					YMR119W-A		13	506996	507370	W		2011-02-03	1996-07-31	
+S000004727	ORF	Verified	YMR120C	ADE17	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE17	chromosome 13	L000003306	13	509280	507502	C		2011-02-03	1996-07-31	Enzyme of 'de novo' purine biosynthesis; contains both 5-aminoimidazole-4-carboxamide ribonucleotide transformylase and inosine monophosphate cyclohydrolase activities; ADE17 has a paralog, ADE16, that arose from the whole genome duplication; ade16 ade17 mutants require adenine and histidine
+S000033275	CDS					YMR120C		13	509280	507502	C		2011-02-03	1996-07-31	
+S000004728	ORF	Verified	YMR121C	RPL15B	eL15|ribosomal 60S subunit protein L15B|L15e|rp15R|YL10|L15B|L13B	chromosome 13	L000004456	13	510348	509734	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L15B; binds to 5.8 S rRNA; homologous to mammalian ribosomal protein L15, no bacterial homolog; RPL15B has a paralog, RPL15A, that arose from the whole genome duplication; relocalizes from nucleus to nucleolus upon DNA replication stress
+S000033342	CDS					YMR121C		13	510348	509734	C		2011-02-03	1996-07-31	
+S000004729	ORF	Uncharacterized	YMR122C			chromosome 13		13	511075	510701	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR122C is not an essential gene
+S000033409	CDS					YMR122C		13	511075	510701	C		2011-02-03	1996-07-31	
+S000007524	ORF	Uncharacterized	YMR122W-A			chromosome 13		13	511315	511569	W		2011-02-03	2000-07-14	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and endoplasmic reticulum
+S000037063	CDS					YMR122W-A		13	511315	511569	W		2011-02-03	2000-07-14	
+S000004730	ORF	Verified	YMR123W	PKR1		chromosome 13		13	513593	513961	W		2011-02-03	1996-07-31	V-ATPase assembly factor; functions with other V-ATPase assembly factors in the ER to efficiently assemble the V-ATPase membrane sector (V0); protein abundance increases in response to DNA replication stress
+S000034386	CDS					YMR123W		13	513593	513961	W		2011-02-03	1996-07-31	
+S000004731	ORF	Verified	YMR124W	EPO1		chromosome 13		13	514456	517287	W		2011-02-03	1996-07-31	Protein involved in septin-ER tethering; interacts with ER membrane protein, Scs2p, and Shs1p, a septin ring component, at bud neck to create ER diffusion barrier; GFP-fusion protein localizes to the cell periphery, cytoplasm, bud, and bud neck; interacts with Crm1p in two-hybrid assay; YMR124W has a paralog, YLR031W, that arose from the whole genome duplication
+S000034454	CDS					YMR124W		13	514456	517287	W		2011-02-03	1996-07-31	
+S000004732	ORF	Verified	YMR125W	STO1	SUT1|CBP80|GCR3|CBC1	chromosome 13	L000002131	13	517539	520446	W	87	2011-02-03	1999-11-17|1996-07-31	Large subunit of the nuclear mRNA cap-binding protein complex; interacts with Npl3p to carry nuclear poly(A)+ mRNA to cytoplasm; also involved in nuclear mRNA degradation and telomere maintenance; orthologous to mammalian CBP80
+S000035482	CDS					YMR125W		13	517539	517563	W		2011-02-03	1999-11-17|1996-07-31	
+S000035483	CDS					YMR125W		13	517886	520446	W		2011-02-03	1999-11-17	
+S000035484	intron					YMR125W		13	517564	517885	W		2011-02-03	1999-11-17	
+S000004733	ORF	Uncharacterized	YMR126C	DLT1		chromosome 13		13	521789	520761	C		2011-02-03	1996-07-31	Protein of unknown function; mutant sensitive to 6-azauracil (6AU) and mycophenolic acid (MPA)
+S000035540	CDS					YMR126C		13	521789	520761	C		2011-02-03	1996-07-31	
+S000004734	ORF	Verified	YMR127C	SAS2	KAT8	chromosome 13	L000001802	13	523345	522329	C		2011-02-03	1996-07-31	Histone acetyltransferase (HAT) catalytic subunit of the SAS complex; acetylates free histones and nucleosomes and regulates transcriptional silencing; member of the MYSTacetyltransferase family; other members are Sas4p and Sas5p
+S000035616	CDS					YMR127C		13	523345	522329	C		2011-02-03	1996-07-31	
+S000004735	ORF	Verified	YMR128W	ECM16	ATP-dependent RNA helicase ECM16|DHR1	chromosome 13	L000003891	13	523696	527499	W		2011-02-03	1996-07-31	Essential DEAH-box ATP-dependent RNA helicase specific to U3 snoRNP; predominantly nucleolar in distribution; required for 18S rRNA synthesis
+S000035779	CDS					YMR128W		13	523696	527499	W		2011-02-03	1996-07-31	
+S000004736	ORF	Verified	YMR129W	POM152		chromosome 13	L000001464	13	527804	531817	W		2011-02-03	1996-07-31	Glycoprotein subunit of transmembrane ring of nuclear pore complex; contributes to nucleocytoplasmic transport, nuclear pore complex (NPC) biogenesis and spindle pole body duplication; homologous to human NUP210
+S000036687	CDS					YMR129W		13	527804	531817	W		2011-02-03	1996-07-31	
+S000004737	ORF	Uncharacterized	YMR130W			chromosome 13		13	532119	533027	W		2011-02-03	1996-07-31	Putative protein of unknown function; YMR130W is not an essential gene
+S000036551	CDS					YMR130W		13	532119	533027	W		2011-02-03	1996-07-31	
+S000004738	ORF	Verified	YMR131C	RRB1	ribosome biosynthesis protein RRB1	chromosome 13		13	534698	533163	C		2011-02-03	1996-07-31	Specific chaperone for ribosomal protein Rpl3p; binds to nascent Rpl3p during translation; essential gene
+S000036599	CDS					YMR131C		13	534698	533163	C		2011-02-03	1996-07-31	
+S000004739	ORF	Uncharacterized	YMR132C	JLP2		chromosome 13		13	535570	534944	C		2011-02-03	1996-07-31	Protein of unknown function; contains sequence that closely resembles a J domain (typified by the E. coli DnaJ protein)
+S000036706	CDS					YMR132C		13	535570	534944	C		2011-02-03	1996-07-31	
+S000118373	ARS		ARS1320		ARSXIII-536	chromosome 13		13	535597	535844			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178158	ARS_consensus_sequence					ARS1320		13	535770	535754	C		2014-11-18	2014-11-18	
+S000004740	ORF	Verified	YMR133W	REC114		chromosome 13	L000001607	13	536207	537609	W	91	2011-02-03	1999-07-17|1996-07-31	Protein involved in early stages of meiotic recombination; possibly involved in the coordination of recombination and meiotic division; mutations lead to premature initiation of the first meiotic division
+S000037485	CDS					YMR133W		13	536207	537448	W		2011-02-03	1999-07-17|1996-07-31	
+S000037486	CDS					YMR133W		13	537565	537609	W		2011-02-03	1999-07-17	
+S000037487	intron					YMR133W		13	537449	537564	W		2011-02-03	1999-07-17	
+S000004741	ORF	Verified	YMR134W	ERG29		chromosome 13		13	537838	538551	W		2011-02-03	1996-07-31	Protein of unknown function involved in ergosterol biosynthesis; conditional mutants produce less ergosterol, display impaired oxygen consumption, respiratory growth, mitochondrial iron utilization, and are more sensitive to oxidative stress; mutant bm-8 has a growth defect on iron-limited medium that is complemented by overexpression of Yfh1p; protein localizes to the cytoplasm, ER and nuclear envelope; highly conserved in ascomycetes
+S000037629	CDS					YMR134W		13	537838	538551	W		2011-02-03	1996-07-31	
+S000004743	ORF	Dubious	YMR135W-A			chromosome 13		13	539911	540444	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036832	CDS					YMR135W-A		13	539911	540444	W		2011-02-03	1996-07-31	
+S000004742	ORF	Verified	YMR135C	GID8	glucose-induced degradation complex subunit GID8|DCR1	chromosome 13		13	540056	538689	C		2011-02-03	1996-07-31	Subunit of GID Complex, binds strongly to central component Vid30p; GID Complex is involved in proteasome-dependent catabolite inactivation of fructose-1,6-bisphosphatase; recruits Rmd5p, Fyv10 and Vid28p to GID Complex; contains LisH, CTLH, and CRA domains that mediate binding to Vid30p (LisH) and Rmd5p and Vid28p (CTLH and CRA); dosage-dependent regulator of START
+S000030355	CDS					YMR135C		13	540056	538689	C		2011-02-03	1996-07-31	
+S000004744	ORF	Verified	YMR136W	GAT2		chromosome 13	S000007443	13	541199	542881	W		2011-02-03	1996-07-31	Protein containing GATA family zinc finger motifs; similar to Gln3p and Dal80p; expression repressed by leucine
+S000030544	CDS					YMR136W		13	541199	542881	W		2011-02-03	1996-07-31	
+S000130190	ARS		ARS1321			chromosome 13		13	542881	542978			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000004745	ORF	Verified	YMR137C	PSO2	SNM1	chromosome 13	L000001953	13	544963	542978	C		2011-02-03	1996-07-31	Nuclease required for DNA single- and double-strand break repair; acts at a post-incision step in repair of breaks that result from interstrand cross-links produced by a variety of mono- and bi-functional psoralen derivatives; induced by UV-irradiation; forms nuclear foci upon DNA replication stress
+S000030595	CDS					YMR137C		13	544963	542978	C		2011-02-03	1996-07-31	
+S000004746	ORF	Verified	YMR138W	CIN4	Arf family GTPase CIN4|UGX1|GTP1	chromosome 13	L000000338	13	545155	545730	W	86	2011-02-03	1996-07-31	GTP-binding protein involved in beta-tubulin (Tub2p) folding; isolated as mutant with increased chromosome loss and sensitivity to benomyl; regulated by the GTPase-activating protein, Cin2p, the human retinitis pigmentosa 2 (RP2) homolog
+S000031508	CDS					YMR138W		13	545155	545730	W		2011-02-03	1996-07-31	
+S000004747	ORF	Verified	YMR139W	RIM11	serine/threonine protein kinase RIM11|MDS1|GSK3	chromosome 13	L000001056	13	546125	547237	W		2011-02-03	1996-07-31	Protein kinase; required for signal transduction during entry into meiosis; promotes the formation of the Ime1p-Ume6p complex by phosphorylating Ime1p and Ume6p; shares similarity with mammalian glycogen synthase kinase 3-beta; protein abundance increases in response to DNA replication stress; RIM11 has a paralog, MRK1, that arose from the whole genome duplication
+S000031611	CDS					YMR139W		13	546125	547237	W		2011-02-03	1996-07-31	
+S000004748	ORF	Verified	YMR140W	SIP5		chromosome 13		13	547714	549183	W		2011-02-03	1996-07-31	Protein of unknown function; interacts with both the Reg1p/Glc7p phosphatase and the Snf1p kinase; forms cytoplasmic foci upon DNA replication stress
+S000031580	CDS					YMR140W		13	547714	549183	W		2011-02-03	1996-07-31	
+S000004749	ORF	Uncharacterized	YMR141C			chromosome 13		13	550044	549736	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR141C is not an essential gene
+S000031632	CDS					YMR141C		13	550044	549736	C		2011-02-03	1996-07-31	
+S000028575	ORF	Dubious	YMR141W-A			chromosome 13		13	550911	551135	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene RPL13B/YMR142C
+S000031304	CDS					YMR141W-A		13	550911	551135	W		2011-02-03	2003-07-29	
+S000004750	ORF	Verified	YMR142C	RPL13B	eL13|ribosomal 60S subunit protein L13B|L13e|L13B	chromosome 13	L000004455	13	551207	550206	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L13B; not essential for viability; homologous to mammalian ribosomal protein L13, no bacterial homolog; RPL13B has a paralog, RPL13A, that arose from the whole genome duplication
+S000032639	CDS					YMR142C		13	550801	550206	C		2011-02-03	1996-07-31	
+S000032638	CDS					YMR142C		13	551207	551204	C		2011-02-03	1996-07-31	
+S000032640	intron					YMR142C		13	551203	550802	C		2011-02-03	1996-07-31	
+S000004751	ORF	Verified	YMR143W	RPS16A	uS9|ribosomal 40S subunit protein S16A|S9|rp61R|S16A	chromosome 13	L000004477	13	551928	552903	W		2011-02-03	2000-07-22|1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S16 and bacterial S9; RPS16A has a paralog, RPS16B, that arose from the whole genome duplication
+S000032779	CDS					YMR143W		13	551928	551951	W		2011-02-03	2000-07-22|1996-07-31	
+S000032780	CDS					YMR143W		13	552496	552903	W		2011-02-03	1996-07-31	
+S000032781	intron					YMR143W		13	551952	552495	W		2011-02-03	2000-07-22|1996-07-31	
+S000004752	ORF	Uncharacterized	YMR144W	FDO1		chromosome 13		13	553362	554390	W		2011-02-03	1996-07-31	Protein involved in directionality of mating type switching; acts with Fkh1p to control which donor mating-type locus is inserted into MAT locus during mating type switching; localized to the nucleus; not an essential gene
+S000033505	CDS					YMR144W		13	553362	554390	W		2011-02-03	1996-07-31	
+S000130191	ARS		ARS1322			chromosome 13		13	553422	554331			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000004753	ORF	Verified	YMR145C	NDE1	NADH-ubiquinone reductase (H(+)-translocating) NDE1|NDH1	chromosome 13		13	556475	554793	C		2011-02-03	1996-07-31	Mitochondrial external NADH dehydrogenase; type II NAD(P)H:quinone oxidoreductase that catalyzes the oxidation of cytosolic NADH; Nde1p and Nde2p provide cytosolic NADH to the mitochondrial respiratory chain; NDE1 has a paralog, NDE2, that arose from the whole genome duplication
+S000033554	CDS					YMR145C		13	556475	554793	C		2011-02-03	1996-07-31	
+S000004754	ORF	Verified	YMR146C	TIF34	translation initiation factor eIF3 subunit i	chromosome 13	L000003329	13	558524	557481	C		2011-02-03	1996-07-31	eIF3i subunit of the eukaryotic translation initiation factor 3 (eIF3); subunit of the core complex of eIF3; essential for translation; stimulates rate of ribosomal scanning during translation reinitiation; eIF3 is also involved in programmed stop codon readthrough
+S000033644	CDS					YMR146C		13	558524	557481	C		2011-02-03	1996-07-31	
+S000004755	ORF	Uncharacterized	YMR147W			chromosome 13		13	559199	559870	W		2011-02-03	1996-07-31	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cell periphery
+S000033833	CDS					YMR147W		13	559199	559870	W		2011-02-03	1996-07-31	
+S000004756	ORF	Verified	YMR148W	OSW5		chromosome 13		13	560366	560812	W		2011-02-03	1996-07-31	Protein of unknown function with possible role in spore wall assembly; predicted to contain an N-terminal transmembrane domain; osw5 null mutant spores exhibit increased spore wall permeability and sensitivity to beta-glucanase digestion
+S000034741	CDS					YMR148W		13	560366	560812	W		2011-02-03	1996-07-31	
+S000004757	ORF	Verified	YMR149W	SWP1	dolichyl-diphosphooligosaccharide-protein glycotransferase	chromosome 13	L000002255	13	560996	561856	W		2011-02-03	1996-07-31	Delta subunit of the oligosaccharyl transferase glycoprotein complex; complex is required for N-linked glycosylation of proteins in the endoplasmic reticulum
+S000034875	CDS					YMR149W		13	560996	561856	W		2011-02-03	1996-07-31	
+S000004759	ORF	Dubious	YMR151W	YIM2		chromosome 13	L000002672	13	562506	562943	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 5% of ORF overlaps the verified gene IMP1
+S000036792	CDS					YMR151W		13	562506	562943	W		2011-02-03	1996-07-31	
+S000004758	ORF	Verified	YMR150C	IMP1	endopeptidase catalytic subunit IMP1|PET-TS2858	chromosome 13	L000000864	13	562528	561956	C	92	2011-02-03	1996-07-31	Catalytic subunit of mitochondrial inner membrane peptidase complex; required for maturation of mitochondrial proteins of the intermembrane space; complex contains two catalytic subunits (Imp1p and Imp2p that differ in substrate specificty) and Som1p
+S000035827	CDS					YMR150C		13	562528	561956	C		2011-02-03	1996-07-31	
+S000004760	ORF	Verified	YMR152W	YIM1		chromosome 13	L000002671	13	563096	564193	W		2011-02-03	1996-07-31	Protein of unknown function; null mutant displays sensitivity to DNA damaging agents; may have a role in lipid metabolism, based on localization to lipid droplets; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress
+S000036879	CDS					YMR152W		13	563096	564193	W		2011-02-03	1996-07-31	
+S000004762	ORF	Verified	YMR153W	NUP53	FG-nucleoporin NUP53	chromosome 13		13	564435	565862	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of nuclear pore complex (NPC); also part of the NPC nuclear basket; contributes directly to nucleocytoplasmic transport; involved in regulation of transcription and mitosis; induces membrane tubulation, which may contribute to nuclear pore assembly; NUP53 has a paralog, ASM4, that arose from the whole genome duplication
+S000036930	CDS					YMR153W		13	564435	565862	W		2011-02-03	1996-07-31	
+S000004761	ORF	Dubious	YMR153C-A			chromosome 13		13	565909	565574	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps 3' end of verified gene NUP53/YMR153W
+S000036598	CDS					YMR153C-A		13	565909	565574	C		2011-02-03	1996-07-31	
+S000004763	ORF	Verified	YMR154C	RIM13	CPL1	chromosome 13	L000004172	13	568182	565999	C		2011-02-03	1996-07-31	Calpain-like cysteine protease; involved in proteolytic activation of Rim101p in response to alkaline pH; localizes to punctate structures in alkaline conditions and in vps4 mutant; has similarity to A. nidulans palB
+S000036955	CDS					YMR154C		13	568182	565999	C		2011-02-03	1996-07-31	
+S000004764	ORF	Uncharacterized	YMR155W			chromosome 13		13	568551	570194	W		2011-02-03	1996-07-31	Putative protein of unknown function; identified as interacting with Hsp82p in a high-throughput two-hybrid screen
+S000037749	CDS					YMR155W		13	568551	570194	W		2011-02-03	1996-07-31	
+S000004765	ORF	Verified	YMR156C	TPP1	polynucleotide 3'-phosphatase	chromosome 13		13	571016	570300	C		2011-02-03	1996-07-31	DNA 3'-phosphatase; functions in repair of endogenous damage of double-stranded DNA, activity is specific for removal of 3' phosphates at strand breaks; similar to the l-2-haloacid dehalogenase superfamily; homolog of human polynucleotide kinase/3'-phosphatase
+S000037789	CDS					YMR156C		13	571016	570300	C		2011-02-03	1996-07-31	
+S000004766	ORF	Verified	YMR157C	AIM36	FMP39	chromosome 13		13	572044	571277	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant displays reduced respiratory growth and elevated frequency of mitochondrial genome loss; the authentic, non-tagged protein is detected in purified mitochondria in high-throughput studies
+S000037876	CDS					YMR157C		13	572044	571277	C		2011-02-03	1996-07-31	
+S000004767	ORF	Verified	YMR158W	MRPS8	mitochondrial 37S ribosomal protein MRPS8	chromosome 13		13	572248	572715	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000030873	CDS					YMR158W		13	572248	572715	W		2011-02-03	1996-07-31	
+S000006664	tRNA_gene		tM(CAU)M	EMT4		chromosome 13	L000003677|L000000554	13	572955	572883	C		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
+S000034574	noncoding_exon					tM(CAU)M		13	572955	572883	C		2011-02-03	2000-05-19	
+S000007249	ORF	Uncharacterized	YMR158C-A		YMR158C-B	chromosome 13		13	573331	573194	C		2011-02-03	1997-07-17	Putative protein of unknown function; may contain a lipid attachment site; YMR158C-A is not an essential gene
+S000030986	CDS					YMR158C-A		13	573331	573194	C		2011-02-03	1997-07-17	
+S000007116	long_terminal_repeat		YMRCdelta18			chromosome 13		13	573338	573112	C		2011-02-03	2000-05-19	Ty1 LTR
+S000004768	ORF	Dubious	YMR158W-B		YMR158W-A	chromosome 13		13	574471	574791	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene ATG16/YMR159C
+S000034209	CDS					YMR158W-B		13	574471	574791	W		2011-02-03	1996-07-31	
+S000004769	ORF	Verified	YMR159C	ATG16	APG15|APG16|CVT11|SAP18	chromosome 13	L000004135|L000004762|S000029036|L000004787	13	574928	574476	C		2011-02-03	1996-07-31	Conserved protein involved in autophagy; interacts with Atg12p-Atg5p conjugates to form Atg12p-Atg5p-Atg16p multimers, which binds to membranes and localizes to the pre-autophagosomal structure and are required for autophagy; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
+S000030904	CDS					YMR159C		13	574928	574476	C		2011-02-03	1996-07-31	
+S000004770	ORF	Verified	YMR160W			chromosome 13		13	575066	577516	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the membrane of the vacuole; mutant has enhanced sensitivity to overexpression of mutant huntingtin; YMR160W is not an essential gene; relative distribution within the vacuolar membrane changes upon DNA replication stress
+S000032016	CDS					YMR160W		13	575066	577516	W		2011-02-03	1996-07-31	
+S000004771	ORF	Verified	YMR161W	HLJ1	type I HSP40 co-chaperone HLJ1	chromosome 13	L000002962	13	577718	578392	W		2011-02-03	1996-07-31	Co-chaperone for Hsp40p; anchored in the ER membrane; with its homolog Ydj1p promotes ER-associated protein degradation (ERAD) of integral membrane substrates; similar to E. coli DnaJ
+S000032125	CDS					YMR161W		13	577718	578392	W		2011-02-03	1996-07-31	
+S000004772	ORF	Verified	YMR162C	DNF3	aminophospholipid-translocating P4-type ATPase DNF3	chromosome 13		13	583921	578951	C		2011-02-03	1996-07-31	Trans-golgi network aminophospholipid translocase (flippase); type 4 P-type ATPase; involved in phospholipid translocation, contributing to the maintenance of membrane lipid asymmetry in post-Golgi secretory vesicles; role in protein trafficking between the Golgi and endosomal system; localizes to the trans-Golgi network; localizes to the shmoo tip where it has a redundant role in the cellular response to mating pheromone
+S000032992	CDS					YMR162C		13	583921	578951	C		2011-02-03	1996-07-31	
+S000004773	ORF	Verified	YMR163C	INP2		chromosome 13		13	586388	584271	C		2011-02-03	1996-07-31	Peroxisome-specific receptor important for peroxisome inheritance; co-fractionates with peroxisome membranes and co-localizes with peroxisomes in vivo; physically interacts with the myosin V motor Myo2p; INP2 is not an essential gene
+S000033087	CDS					YMR163C		13	586388	584271	C		2011-02-03	1996-07-31	
+S000006765	tRNA_gene		tV(AAC)M3			chromosome 13	L000003676	13	586709	586636	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000030039	noncoding_exon					tV(AAC)M3		13	586709	586636	C		2011-02-03	2000-05-19	
+S000004774	ORF	Verified	YMR164C	MSS11		chromosome 13	L000003920	13	589550	587274	C		2011-02-03	1996-07-31	Transcription factor; involved in regulation of invasive growth and starch degradation; controls the activation of FLO11 and STA2 in response to nutritional signals; forms a heterodimer with Flo8p that interacts with the Swi/Snf complex during transcriptional activation of FLO1, FLO11, and STA1
+S000033162	CDS					YMR164C		13	589550	587274	C		2011-02-03	1996-07-31	
+S000004775	ORF	Verified	YMR165C	PAH1	phosphatidate phosphatase PAH1|SMP2	chromosome 13	L000001934	13	592628	590040	C		2011-02-03	1996-07-31	Mg2+-dependent phosphatidate (PA) phosphatase; dephosphorylates PA to yield diacylglycerol; regulates phospholipid synthesis, nuclear/ER membrane growth, lipid droplet formation, triacylglycerol synthesis, vacuolar homeostasis and cell wall integrity; phosphorylated by Pho85p/Pho80p, Cdc28p/Cyclin B, PKA, PKC, and CKII, regulating activity, localization, and proteosomal degradation; homolog of mammalian lipins 1 and 2; human homologs LPIN1, LPIN2, LPIN3 complement the null
+S000033959	CDS					YMR165C		13	592628	590040	C		2011-02-03	1996-07-31	
+S000004776	ORF	Verified	YMR166C	MME1		chromosome 13		13	594473	593367	C		2011-02-03	1996-07-31	Transporter of the mitochondrial inner membrane that exports magnesium; involved in mitochondrial Mg2+ homeostasis; has similarity to human mitochondrial ATP-Mg/Pi carriers
+S000034071	CDS					YMR166C		13	594473	593367	C		2011-02-03	1996-07-31	
+S000004777	ORF	Verified	YMR167W	MLH1	mismatch repair ATPase MLH1|PMS2	chromosome 13	L000001121	13	594886	597195	W		2011-02-03	1996-07-31	Protein required for mismatch repair in mitosis and meiosis; also required for crossing over during meiosis; forms a complex with Pms1p and Msh2p-Msh3p during mismatch repair; human homolog is associated with hereditary non-polyposis colon cancer
+S000034230	CDS					YMR167W		13	594886	597195	W		2011-02-03	1996-07-31	
+S000004778	ORF	Verified	YMR168C	CEP3	CSL1|CBF3B|CBF3	chromosome 13	L000000312|L000000222	13	599158	597332	C		2011-02-03	1996-07-31	Essential kinetochore protein; component of the CBF3 complex that binds the CDEIII region of the centromere; contains an N-terminal Zn2Cys6 type zinc finger domain, a C-terminal acidic domain, and a putative coiled coil dimerization domain
+S000035106	CDS					YMR168C		13	599158	597332	C		2011-02-03	1996-07-31	
+S000004779	ORF	Verified	YMR169C	ALD3	aldehyde dehydrogenase (NAD(+)) ALD3	chromosome 13	L000002992	13	600872	599352	C		2011-02-03	1996-07-31	Cytoplasmic aldehyde dehydrogenase; involved in beta-alanine synthesis; uses NAD+ as the preferred coenzyme; very similar to Ald2p; expression is induced by stress and repressed by glucose
+S000035214	CDS					YMR169C		13	600872	599352	C		2011-02-03	1996-07-31	
+S000004780	ORF	Verified	YMR170C	ALD2	aldehyde dehydrogenase (NAD(+)) ALD2	chromosome 13	L000003120|L000002991	13	603082	601562	C		2011-02-03	1996-07-31	Cytoplasmic aldehyde dehydrogenase; involved in ethanol oxidation and beta-alanine biosynthesis; uses NAD+ as the preferred coenzyme; expression is stress induced and glucose repressed; very similar to Ald3p
+S000036140	CDS					YMR170C		13	603082	601562	C		2011-02-03	1996-07-31	
+S000004781	ORF	Verified	YMR171C	EAR1		chromosome 13		13	605520	603868	C		2011-02-03	1996-07-31	Specificity factor required for Rsp5p-dependent ubiquitination; also required for sorting of specific cargo proteins at the multivesicular body; mRNA is targeted to the bud via the mRNA transport system involving She2p
+S000036240	CDS					YMR171C		13	605520	603868	C		2011-02-03	1996-07-31	
+S000004783	ORF	Verified	YMR172W	HOT1		chromosome 13	L000004957	13	605981	608140	W		2011-02-03	1996-07-31	Transcription factor for glycerol biosynthetic genes; required for the transient induction of glycerol biosynthetic genes GPD1 and GPP2 in response to high osmolarity; targets Hog1p to osmostress responsive promoters; has similarity to Msn1p and Gcr1p
+S000031822	CDS					YMR172W		13	605981	608140	W		2011-02-03	1996-07-31	
+S000004782	ORF	Dubious	YMR172C-A			chromosome 13		13	608211	607828	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps 3' end of ORF HOT1/YMR172W
+S000034962	CDS					YMR172C-A		13	608211	607828	C		2011-02-03	1996-07-31	
+S000004784	ORF	Verified	YMR173W	DDR48	DNA damage-responsive protein 48|FSP	chromosome 13	L000000498	13	608689	609981	W		2011-02-03	1996-07-31	DNA damage-responsive protein; expression is increased in response to heat-shock stress or treatments that produce DNA lesions; contains multiple repeats of the amino acid sequence NNNDSYGS; protein abundance increases in response to DNA replication stress
+S000031955	CDS					YMR173W		13	608689	609981	W		2011-02-03	1996-07-31	
+S000004785	ORF	Dubious	YMR173W-A			chromosome 13		13	608897	610081	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene DDR48/YML173W
+S000030427	CDS					YMR173W-A		13	608897	610081	W		2011-02-03	1996-07-31	
+S000004786	ORF	Verified	YMR174C	PAI3	IA3	chromosome 13	L000001332	13	610365	610159	C		2011-02-03	1996-07-31	Cytoplasmic proteinase A (Pep4p) inhibitor; dependent on Pbs2p and Hog1p protein kinases for osmotic induction; intrinsically unstructured, N-terminal half becomes ordered in the active site of proteinase A upon contact
+S000031994	CDS					YMR174C		13	610365	610159	C		2011-02-03	1996-07-31	
+S000004787	ORF	Verified	YMR175W	SIP18		chromosome 13	L000002670	13	611016	611255	W		2011-02-03	1996-07-31	Phospholipid-binding hydrophilin; essential to overcome desiccation-rehydration process; expression is induced by osmotic stress; SIP18 has a paralog, GRE1, that arose from the whole genome duplication
+S000037525	CDS					YMR175W		13	611016	611255	W		2011-02-03	1996-07-31	
+S000118374	ARS		ARS1323		ARSXIII-611	chromosome 13		13	611275	611489			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178159	ARS_consensus_sequence					ARS1323		13	611317	611333	W		2014-11-18	2014-11-18	
+S000028848	ORF	Uncharacterized	YMR175W-A			chromosome 13		13	611314	611508	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000034535	CDS					YMR175W-A		13	611314	611508	W		2011-02-03	2003-07-29	
+S000004788	ORF	Verified	YMR176W	ECM5		chromosome 13	L000003881	13	611740	615975	W		2011-02-03	1996-07-31	Subunit of the Snt2C complex; physically associates with Snt2p and Rpd3p; along with Snt2p, recruits Rpd3p to a small number of promoters; also colocalizes with Snt2p, independently of Rpd3p, to promoters of stress response genes in response to oxidative stress; contains ATP/GTP-binding site motif A; null mutant exhibits increased cellular volume, large drooping buds with elongated necks; relative distribution to the nucleus increases upon DNA replication stress
+S000037587	CDS					YMR176W		13	611740	615975	W		2011-02-03	1996-07-31	
+S000004789	ORF	Verified	YMR177W	MMT1	MFT1	chromosome 13	L000004107	13	616566	618098	W		2011-02-03	1996-07-31	Putative metal transporter involved in mitochondrial iron accumulation; MMT1 has a paralog, MMT2, that arose from the whole genome duplication
+S000037682	CDS					YMR177W		13	616566	618098	W		2011-02-03	1996-07-31	
+S000004790	ORF	Verified	YMR178W			chromosome 13		13	618479	619303	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and nucleus; YMR178W is not an essential gene; protein abundance increases in response to DNA replication stress
+S000030501	CDS					YMR178W		13	618479	619303	W		2011-02-03	1996-07-31	
+S000004791	ORF	Verified	YMR179W	SPT21		chromosome 13	L000002040	13	619858	622134	W		2011-02-03	1996-07-31	Protein with a role in transcriptional silencing; required for normal transcription at several loci including HTA2-HTB2 and HHF2-HHT2, but not required at the other histone loci; functionally related to Spt10p; localizes to nuclear foci that become diffuse upon DNA replication stress
+S000030565	CDS					YMR179W		13	619858	622134	W		2011-02-03	1996-07-31	
+S000004792	ORF	Verified	YMR180C	CTL1	polynucleotide 5'-phosphatase|CTH1	chromosome 13	S000007412	13	623213	622251	C		2011-02-03	1996-07-31	RNA 5'-triphosphatase, localizes to both the nucleus and cytoplasm; CTL1 has a paralog, CET1, that arose from the whole genome duplication
+S000037398	CDS					YMR180C		13	623213	622251	C		2011-02-03	1996-07-31	
+S000004793	ORF	Uncharacterized	YMR181C			chromosome 13		13	624080	623616	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA transcribed as part of a bicistronic transcript with a predicted transcriptional repressor RGM1/YMR182C; mRNA is destroyed by nonsense-mediated decay (NMD); not an essential gene; YMR181C has a paralog, YPL229W, that arose from the whole genome duplication
+S000030034	CDS					YMR181C		13	624080	623616	C		2011-02-03	1996-07-31	
+S000004794	ORF	Verified	YMR182C	RGM1		chromosome 13	L000001627	13	625167	624532	C		2011-02-03	1996-07-31	Putative zinc finger DNA binding transcription factor; contains two N-terminal C2H2 zinc fingers and C-terminal proline rich domain; overproduction impairs cell growth and induces expression of genes involved in monosaccharide catabolism and aldehyde metabolism; regulates expression of of Y' telomeric elements and subtelomeric COS genes; relocalizes to the cytosol in response to hypoxia; RGM1 has a paralog, USV1, that arose from the whole genome duplication
+S000030142	CDS					YMR182C		13	625167	624532	C		2011-02-03	1996-07-31	
+S000028693	ORF	Uncharacterized	YMR182W-A			chromosome 13		13	625811	625897	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000032593	CDS					YMR182W-A		13	625811	625897	W		2011-02-03	2003-07-29	
+S000028468	snoRNA_gene		snR83	SNR83	RUF3	chromosome 13		13	626349	626654	W		2011-02-03	2004-04-01	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of small subunit (SSU) rRNA at positions U1290 and U1415
+S000030105	noncoding_exon					snR83		13	626349	626654	W		2011-02-03	2004-04-01	
+S000004795	ORF	Verified	YMR183C	SSO2	syntaxin	chromosome 13	L000002090	13	627808	626921	C		2011-02-03	1996-07-31	Plasma membrane t-SNARE; involved in fusion of secretory vesicles at the plasma membrane; syntaxin homolog that is functionally redundant with Sso1p; SSO2 has a paralog, SSO1, that arose from the whole genome duplication
+S000030342	CDS					YMR183C		13	627808	626921	C		2011-02-03	1996-07-31	
+S000004796	ORF	Verified	YMR184W	ADD37		chromosome 13		13	628189	628785	W		2011-02-03	1996-07-31	Protein of unknown function; involved in ER-associated protein degradation; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and is induced in response to the DNA-damaging agent MMS; YMR184W is not an essential gene; protein abundance increases in response to DNA replication stress
+S000033702	CDS					YMR184W		13	628189	628785	W		2011-02-03	1996-07-31	
+S000004797	ORF	Verified	YMR185W	RTP1		chromosome 13		13	629025	631970	W		2011-02-03	1996-07-31	Protein required for the nuclear import and biogenesis of RNA pol II; conflicting evidence on whether null mutant is viable with elongated buds, or inviable; interacts with Rpb2, Rpb3, Nup116p, Nup100p and components of the R2TP complex (Rvb1p, Rvb2p, Pih1p); similar to human TMCO7 gene
+S000033842	CDS					YMR185W		13	629025	631970	W		2011-02-03	1996-07-31	
+S000004798	ORF	Verified	YMR186W	HSC82	Hsp90 family chaperone HSC82|HSP90	chromosome 13	L000000813	13	632355	634472	W		2011-02-03	1996-07-31	Cytoplasmic chaperone of the Hsp90 family; plays a role in determining prion variants; redundant in function and nearly identical with Hsp82p, and together they are essential; expressed constitutively at 10-fold higher basal levels than HSP82 and induced 2-3 fold by heat shock; contains two acid-rich unstructured regions that promote the solubility of chaperone-substrate complexes; HSC82 has a paralog, HSP82, that arose from the whole genome duplication
+S000033979	CDS					YMR186W		13	632355	634472	W		2011-02-03	1996-07-31	
+S000118375	ARS		ARS1324		ARSXIII-635	chromosome 13		13	634501	634588			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000004799	ORF	Uncharacterized	YMR187C			chromosome 13		13	635984	634689	C		2011-02-03	1996-07-31	Putative protein of unknown function; YMR187C is not an essential gene
+S000033992	CDS					YMR187C		13	635984	634689	C		2011-02-03	1996-07-31	
+S000004800	ORF	Verified	YMR188C	MRPS17	mitochondrial 37S ribosomal protein MRPS17	chromosome 13		13	637004	636291	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000034878	CDS					YMR188C		13	637004	636291	C		2011-02-03	1996-07-31	
+S000004801	ORF	Verified	YMR189W	GCV2	glycine decarboxylase subunit P|GSD2	chromosome 13	L000000734	13	637500	640604	W		2011-02-03	1996-07-31	P subunit of the mitochondrial glycine decarboxylase complex; glycine decarboxylase is required for the catabolism of glycine to 5,10-methylene-THF; expression is regulated by levels of 5,10-methylene-THF in the cytoplasm
+S000035091	CDS					YMR189W		13	637500	640604	W		2011-02-03	1996-07-31	
+S000004802	ORF	Verified	YMR190C	SGS1	ATP-dependent DNA helicase SGS1	chromosome 13	L000001877	13	645258	640915	C	115.6	2011-02-03	1996-07-31	RecQ family nucleolar DNA helicase; role in genome integrity maintenance, chromosome synapsis, meiotic joint molecule/crossover formation; stimulates activity of Top3p; rapidly lost in response to rapamycin in Rrd1p-dependent manner; forms nuclear foci upon DNA replication stress; yeast SGS1 complements mutations in human homolog BLM implicated in Bloom syndrome; also similar to human WRN implicated in Werner syndrome; human BLM and WRN can each complement yeast null mutant
+S000034467	CDS					YMR190C		13	645258	640915	C		2011-02-03	1996-07-31	
+S000004803	ORF	Verified	YMR191W	SPG5		chromosome 13		13	645656	646777	W		2011-02-03	2003-09-22|1996-07-31	Protein required for proteasome assembly during quiescence; binds to base of the proteasome regulartory particle; required for survival at high temperature during stationary phase; not required for growth on nonfermentable carbon sources
+S000034638	CDS					YMR191W		13	645656	646777	W		2011-02-03	2003-09-22|1996-07-31	
+S000004804	ORF	Verified	YMR192W	GYL1	APP2	chromosome 13		13	647118	649280	W		2011-02-03	1996-07-31	Putative GTPase activating protein (GAP) with a role in exocytosis; stimulates Gyp5p GAP activity on Ypt1p, colocalizes with Gyp5p at sites of polarized growth; interacts with Gyp5p, Rvs161p, and Rvs167p; involved in recruiting Rvs167p to the bud tip during polarized growth; increases in abundance and relocalizes from bud neck to cytoplasm upon DNA replication stress; GYL1 has a paralog, GYP5, that arose from the whole genome duplication
+S000034769	CDS					YMR192W		13	647118	649280	W		2011-02-03	1996-07-31	
+S000118376	ARS		ARS1325		ARSXIII-649	chromosome 13		13	649309	649552			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178160	ARS_consensus_sequence					ARS1325		13	649361	649377	W		2014-11-18	2014-11-18	
+S000004806	ORF	Verified	YMR193W	MRPL24	mitochondrial 54S ribosomal protein YmL24/YmL14|YmL14|YmL24|MRPL14	chromosome 13	L000002690	13	650036	650812	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; two mitochondrial ribosomal proteins, YmL14 and YmL24, have been assigned to the same gene
+S000035736	CDS					YMR193W		13	650036	650812	W		2011-02-03	1996-07-31	
+S000004807	ORF	Verified	YMR194W	RPL36A	eL36|ribosomal 60S subunit protein L36A|L36e|YL39|L39|L36A|RPL39B	chromosome 13	L000004467|L000003236	13	651145	651910	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L36A; N-terminally acetylated; binds to 5.8 S rRNA; homologous to mammalian ribosomal protein L36, no bacterial homolog; RPL36A has a paralog, RPL36B, that arose from the whole genome duplication
+S000035869	CDS					YMR194W		13	651145	651160	W		2011-02-03	1996-07-31	
+S000035870	CDS					YMR194W		13	651624	651910	W		2011-02-03	1996-07-31	
+S000035871	intron					YMR194W		13	651161	651623	W		2011-02-03	1996-07-31	
+S000004805	ORF	Dubious	YMR193C-A			chromosome 13		13	651458	651072	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035259	CDS					YMR193C-A		13	651458	651072	C		2011-02-03	1996-07-31	
+S000007293	snoRNA_gene		snR11	SNR11		chromosome 13	L000004943|L000002848	13	652275	652532	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2416
+S000036590	noncoding_exon					snR11		13	652275	652532	W		2011-02-03	2000-05-19	
+S000028514	ORF	Verified	YMR194C-B	CMC4		chromosome 13		13	652887	652594	C		2011-02-03	2003-07-29	Protein that localizes to the mitochondrial intermembrane space; localizes via the Mia40p-Erv1p system; contains twin cysteine-x(9)-cysteine motifs
+S000030281	CDS					YMR194C-B		13	652775	652594	C		2011-02-03	2003-07-29	
+S000030280	CDS					YMR194C-B		13	652887	652848	C		2011-02-03	2003-07-29	
+S000030282	intron					YMR194C-B		13	652847	652776	C		2011-02-03	2003-07-29	
+S000007250	ORF	Dubious	YMR194C-A			chromosome 13		13	653136	652912	C		2011-02-03	1997-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037816	CDS					YMR194C-A		13	653136	652912	C		2011-02-03	1997-07-17	
+S000004808	ORF	Verified	YMR195W	ICY1		chromosome 13	S000007527	13	654034	654417	W		2011-02-03	1996-07-31	Protein of unknown function; required for viability in rich media of cells lacking mitochondrial DNA; mutants have an invasive growth defect with elongated morphology; induced by amino acid starvation; ICY1 has a paralog, ICY2, that arose from the whole genome duplication
+S000036003	CDS					YMR195W		13	654034	654417	W		2011-02-03	1996-07-31	
+S000004809	ORF	Uncharacterized	YMR196W			chromosome 13		13	655076	658342	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YMR196W is not an essential gene
+S000037847	CDS					YMR196W		13	655076	658342	W		2011-02-03	1996-07-31	
+S000004810	ORF	Verified	YMR197C	VTI1	v-SNARE protein VTI1	chromosome 13	L000003598	13	659198	658545	C		2011-02-03	1996-07-31	Protein involved in cis-Golgi membrane traffic; v-SNARE that interacts with two t-SNARES, Sed5p and Pep12p; required for multiple vacuolar sorting pathways; human homolog VTI1A can complement yeast null mutant
+S000037881	CDS					YMR197C		13	659198	658545	C		2011-02-03	1996-07-31	
+S000004811	ORF	Verified	YMR198W	CIK1		chromosome 13	L000000335	13	659745	661529	W		2011-02-03	1996-07-31	Kinesin-associated protein; required for both karyogamy and mitotic spindle organization, interacts stably and specifically with Kar3p and may function to target this kinesin to a specific cellular role; locus encodes a long and short transcript with differing functions; CIK1 has a paralog, VIK1, that arose from the whole genome duplication
+S000029971	CDS					YMR198W		13	659745	661529	W		2011-02-03	1996-07-31	
+S000004812	ORF	Verified	YMR199W	CLN1	cyclin CLN1	chromosome 13	L000000357	13	662644	664284	W		2011-02-03	1996-07-31	G1 cyclin involved in regulation of the cell cycle; activates Cdc28p kinase to promote the G1 to S phase transition; late G1 specific expression depends on transcription factor complexes, MBF (Swi6p-Mbp1p) and SBF (Swi6p-Swi4p); CLN1 has a paralog, CLN2, that arose from the whole genome duplication; cell cycle arrest phenotype of the cln1 cln2 cln3 triple null mutant is complemented by any of human cyclins CCNA2, CCNB1, CCNC, CCND1, or CCNE1
+S000030961	CDS					YMR199W		13	662644	664284	W		2011-02-03	1996-07-31	
+S000004813	ORF	Verified	YMR200W	ROT1		chromosome 13	L000003404	13	664752	665522	W		2011-02-03	1996-07-31	Molecular chaperone involved in protein folding in ER; mutation causes defects in cell wall synthesis and lysis of autophagic bodies, suppresses tor2 mutations, and is synthetically lethal with kar2-1 and with rot2 mutations; involved in N-linked glycosylation and O-mannosylation; transmembrane helix Ser250 is essential for Rot1p to interact with other membrane components and exert its functional role, avoiding exposure of Ser H-bonding group at lipid-exposed surface
+S000035501	CDS					YMR200W		13	664752	665522	W		2011-02-03	1996-07-31	
+S000004814	ORF	Verified	YMR201C	RAD14		chromosome 13	L000001564	13	667044	665845	C		2011-02-03	1996-07-31	Protein that recognizes and binds damaged DNA during NER; subunit of Nucleotide Excision Repair Factor 1 (NEF1); contains zinc finger motif; homolog of human XPA protein; NER stands for nucleotide excision repair
+S000035530	CDS					YMR201C		13	666933	665845	C		2011-02-03	1996-07-31	
+S000035529	CDS					YMR201C		13	667044	667018	C		2011-02-03	1996-07-31	
+S000035531	intron					YMR201C		13	667017	666934	C		2011-02-03	1996-07-31	
+S000178149	matrix_attachment_site		ETC5	ETC5		chromosome 13		13	667324	667346	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; located within ncRNA RNA170 which lies between divergently transcribed genes RAD14 and ERG2
+S000114171	ncRNA_gene		RNA170	RNA170		chromosome 13	S000077076	13	667456	667288	C		2011-02-03	2006-01-23	RNA polymerase III transcribed RNA of unknown function; conserved in other yeast species
+S000114172	noncoding_exon					RNA170		13	667456	667288	C		2011-02-03	2006-01-23	
+S000004815	ORF	Verified	YMR202W	ERG2	C-8 sterol isomerase ERG2|END11	chromosome 13	L000000569|L000004560	13	667537	668205	W		2011-02-03	1996-07-31	C-8 sterol isomerase; catalyzes isomerization of delta-8 double bond to delta-7 position at an intermediate step in ergosterol biosynthesis; transcriptionally down-regulated when ergosterol is in excess; mutation is functionally complemented by human EBP
+S000036484	CDS					YMR202W		13	667537	668205	W		2011-02-03	1996-07-31	
+S000004816	ORF	Verified	YMR203W	TOM40	MOM38|ISP42	chromosome 13	L000000878	13	668492	669655	W		2011-02-03	1996-07-31	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import steps for all mitochondrially directed proteins; constitutes the core element of the protein conducting pore; pre-Tom40p is phosphorylated by PKA, which impairs its import into mitochondria under non-respiratory conditions
+S000036557	CDS					YMR203W		13	668492	669655	W		2011-02-03	1996-07-31	
+S000004817	ORF	Verified	YMR204C	INP1		chromosome 13		13	671325	670063	C		2011-02-03	1996-07-31	Peripheral membrane protein of peroxisomes; involved in peroxisomal inheritance; recruitment to peroxisomes is mediated by interaction with Pex3p at the peroxisomal membrane
+S000036611	CDS					YMR204C		13	671325	670063	C		2011-02-03	1996-07-31	
+S000004818	ORF	Verified	YMR205C	PFK2	6-phosphofructokinase subunit beta	chromosome 13	L000001405	13	674766	671887	C	132	2011-02-03	1996-07-31	Beta subunit of heterooctameric phosphofructokinase; involved in glycolysis; indispensable for anaerobic growth; activated by fructose-2,6-bisphosphate and AMP; mutation inhibits glucose induction of cell cycle-related genes
+S000036708	CDS					YMR205C		13	674766	671887	C		2011-02-03	1996-07-31	
+S000004819	ORF	Uncharacterized	YMR206W			chromosome 13		13	675896	676837	W		2011-02-03	1996-07-31	Putative protein of unknown function; not an essential gene; YMR206W has a paralog, YNR014W, that arose from the whole genome duplication
+S000037504	CDS					YMR206W		13	675896	676837	W		2011-02-03	1996-07-31	
+S000004820	ORF	Verified	YMR207C	HFA1	acetyl-CoA carboxylase HFA1	chromosome 13	L000000769	13	683564	677193	C		2011-02-03	1996-07-31	Mitochondrial acetyl-coenzyme A carboxylase; catalyzes production of malonyl-CoA in mitochondrial fatty acid biosynthesis; relocalizes from mitochondrion to cytoplasm upon DNA replication stress; genetic and comparative analysis suggests that translation begins at a non-canonical (Ile) start codon at -372 relative to the annotated start codon
+S000037547	CDS					YMR207C		13	683564	677193	C		2011-02-03	1996-07-31	
+S000004821	ORF	Verified	YMR208W	ERG12	mevalonate kinase|RAR1	chromosome 13	L000000578	13	684467	685798	W	176	2011-02-03	1996-07-31	Mevalonate kinase; acts in the biosynthesis of isoprenoids and sterols, including ergosterol, from mevalonate; human MVK functionally complements the lethality of the erg12 null mutation
+S000030406	CDS					YMR208W		13	684467	685798	W		2011-02-03	1996-07-31	
+S000004822	ORF	Uncharacterized	YMR209C			chromosome 13		13	687284	685911	C		2011-02-03	1996-07-31	Putative S-adenosylmethionine-dependent methyltransferase; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; YMR209C is not an essential gene
+S000030480	CDS					YMR209C		13	687284	685911	C		2011-02-03	1996-07-31	
+S000004823	ORF	Verified	YMR210W	MGL2	putative carboxylic ester hydrolase	chromosome 13		13	687516	688865	W		2011-02-03	1996-07-31	Monoacylglycerol lipase; palmitoyl monoacylglycerol is the preferred substrate; role in triacylglycerol catabolism; minor role in medium-chain fatty acid ethyl ester biosynthesis; contains an alpha/beta hydrolase domain and a typical lipase motif; has similarity to acyltransferases, Eeb1p and Eht1p, and human ABHD1
+S000031343	CDS					YMR210W		13	687516	688865	W		2011-02-03	1996-07-31	
+S000004824	ORF	Verified	YMR211W	DML1		chromosome 13		13	689083	690510	W		2011-02-03	1996-07-31	Essential protein involved in mtDNA inheritance; may also function in the partitioning of the mitochondrial organelle or in the segregation of chromosomes, exhibits regions similar to members of a GTPase family
+S000031451	CDS					YMR211W		13	689083	690510	W		2011-02-03	1996-07-31	
+S000004825	ORF	Verified	YMR212C	EFR3		chromosome 13		13	693043	690695	C		2011-02-03	1996-07-31	Protein required for Stt4-containing PI kinase complex localization; required for Stt4-containing phosphoinositide (PI) kinase patch assembly at the plasma membrane; recruited to the plasma membrane via a conserved basic patch near its N-terminus; exhibits synthetic lethal genetic interactions with PHO85; has sequence similarity to the Drosophila rolling blackout (RBO) gene
+S000031486	CDS					YMR212C		13	693043	690695	C		2011-02-03	1996-07-31	
+S000004826	ORF	Verified	YMR213W	CEF1	NTC85	chromosome 13	L000004270	13	693381	695153	W		2011-02-03	1996-07-31	Essential splicing factor; associated with Prp19p and the spliceosome, contains an N-terminal c-Myb DNA binding motif necessary for cell viability but not for Prp19p association, evolutionarily conserved and homologous to S. pombe Cdc5p
+S000031586	CDS					YMR213W		13	693381	695153	W		2011-02-03	1996-07-31	
+S000004827	ORF	Verified	YMR214W	SCJ1		chromosome 13	L000001811	13	695350	696483	W		2011-02-03	2003-09-22|1996-07-31	One of several homologs of bacterial chaperone DnaJ; located in the ER lumen where it cooperates with Kar2p to mediate maturation of proteins
+S000032566	CDS					YMR214W		13	695350	696483	W		2011-02-03	2003-09-22|1996-07-31	
+S000004828	ORF	Verified	YMR215W	GAS3	putative 1,3-beta-glucanosyltransferase	chromosome 13		13	696796	698370	W		2011-02-03	1996-07-31	Putative 1,3-beta-glucanosyltransferase; has similarity go other GAS family members; low abundance, possibly inactive member of the GAS family of GPI-containing proteins; localizes to the cell wall; mRNA induced during sporulation
+S000032695	CDS					YMR215W		13	696796	698370	W		2011-02-03	1996-07-31	
+S000004829	ORF	Verified	YMR216C	SKY1	serine/threonine protein kinase SKY1	chromosome 13	L000003941	13	701039	698811	C		2011-02-03	1996-07-31	SR protein kinase (SRPK); involved in regulating proteins involved in mRNA metabolism and cation homeostasis; similar to human SRPK1
+S000032724	CDS					YMR216C		13	701039	698811	C		2011-02-03	1996-07-31	
+S000004830	ORF	Verified	YMR217W	GUA1	GMP synthase (glutamine-hydrolyzing)	chromosome 13	L000000744	13	701790	703367	W		2011-02-03	1996-07-31	GMP synthase; highly conserved enzyme that catalyzes the second step in the biosynthesis of GMP from inosine 5'-phosphate (IMP); transcription is not subject to regulation by guanine but is negatively regulated by nutrient starvation; reduction-of-function mutation gua1-G388D causes changes in cellular guanine nucleotide pools, defects in general protein synthesis, and impaired translation of GCN4 mRNA
+S000033507	CDS					YMR217W		13	701790	703367	W		2011-02-03	1996-07-31	
+S000004831	ORF	Verified	YMR218C	TRS130	transport protein particle complex II subunit TRS130	chromosome 13	S000007468	13	706887	703579	C		2011-02-03	1996-07-31	Component of transport protein particle (TRAPP) complex II; TRAPPII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating intra-Golgi and endosome-Golgi traffic
+S000033556	CDS					YMR218C		13	706887	703579	C		2011-02-03	1996-07-31	
+S000004832	ORF	Verified	YMR219W	ESC1		chromosome 13	L000004422	13	707133	712109	W		2011-02-03	1996-07-31	Protein involved in telomeric silencing; required for quiescent cell telomere hypercluster localization at nuclear membrane vicinity; interacts with PAD4-domain of Sir4p
+S000033701	CDS					YMR219W		13	707133	712109	W		2011-02-03	1996-07-31	
+S000004833	ORF	Verified	YMR220W	ERG8	phosphomevalonate kinase	chromosome 13	L000000574	13	712316	713671	W		2011-02-03	1996-07-31	Phosphomevalonate kinase; an essential cytosolic enzyme that acts in the biosynthesis of isoprenoids and sterols, including ergosterol, from mevalonate
+S000035642	CDS					YMR220W		13	712316	713671	W		2011-02-03	1996-07-31	
+S000004834	ORF	Uncharacterized	YMR221C	FMP42		chromosome 13		13	715445	713931	C		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; physical interaction with Atg27p suggests a possible role in autophagy
+S000035674	CDS					YMR221C		13	715445	713931	C		2011-02-03	1996-07-31	
+S000004835	ORF	Verified	YMR222C	FSH2	putative serine hydrolase	chromosome 13		13	716309	715638	C		2011-02-03	1996-07-31	Putative serine hydrolase that localizes to the cytoplasm; sequence is similar to S. cerevisiae Fsh1p and Fsh3p and the human candidate tumor suppressor OVCA2
+S000035719	CDS					YMR222C		13	716309	715638	C		2011-02-03	1996-07-31	
+S000004836	ORF	Verified	YMR223W	UBP8	ubiquitin-specific protease UBP8	chromosome 13	L000004587	13	716715	718130	W		2011-02-03	1996-07-31	Ubiquitin-specific protease component of the SAGA acetylation complex; required for SAGA (Spt-Ada-Gcn5-Acetyltransferase)-mediated deubiquitination of histone H2B
+S000035903	CDS					YMR223W		13	716715	718130	W		2011-02-03	1996-07-31	
+S000004837	ORF	Verified	YMR224C	MRE11	MRX complex nuclease subunit|NGS1|XRS4|RAD58	chromosome 13	L000004732|L000001149|L000004275	13	720653	718575	C		2011-02-03	1996-07-31	Nuclease subunit of the MRX complex with Rad50p and Xrs2p; complex functions in repair of DNA double-strand breaks and in telomere stability; Mre11p associates with Ser/Thr-rich ORFs in premeiotic phase; nuclease activity required for MRX function; widely conserved; forms nuclear foci upon DNA replication stress
+S000035950	CDS					YMR224C		13	720653	718575	C		2011-02-03	1996-07-31	
+S000004838	ORF	Verified	YMR225C	MRPL44	mitochondrial 54S ribosomal protein YmL44|YmL44|YMR44	chromosome 13	L000002534	13	721403	720960	C	158	2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; protein abundance increases in response to DNA replication stress
+S000036820	CDS					YMR225C		13	721198	720960	C		2011-02-03	1996-07-31	
+S000036819	CDS					YMR225C		13	721403	721346	C		2011-02-03	1996-07-31	
+S000036821	intron					YMR225C		13	721345	721199	C		2011-02-03	1996-07-31	
+S000004839	ORF	Verified	YMR226C		oxidoreductase|TMA29	chromosome 13		13	722396	721593	C		2011-02-03	1996-07-31	NADP(+)-dependent serine dehydrogenase and carbonyl reductase; acts on serine, L-allo-threonine, and other 3-hydroxy acids; green fluorescent protein fusion protein localizes to the cytoplasm and nucleus; may interact with ribosomes, based on co-purification experiments
+S000036891	CDS					YMR226C		13	722396	721593	C		2011-02-03	1996-07-31	
+S000004840	ORF	Verified	YMR227C	TAF7	TafII67|TAF67	chromosome 13	L000003463	13	724385	722613	C		2011-02-03	1996-07-31	TFIID subunit (67 kDa); involved in RNA polymerase II transcription initiation
+S000036956	CDS					YMR227C		13	724385	722613	C		2011-02-03	1996-07-31	
+S000004841	ORF	Verified	YMR228W	MTF1	RNA polymerase specificity factor	chromosome 13	L000001211	13	724626	725651	W	157.9	2011-02-03	1996-07-31	Mitochondrial RNA polymerase specificity factor; has structural similarity to S-adenosylmethionine-dependent methyltransferases and functional similarity to bacterial sigma-factors; Mtf1p interacts with and stabilizes the Rpo41p-promoter complex, enhancing DNA bending and melting to facilitate pre-initiation open complex formation
+S000037761	CDS					YMR228W		13	724626	725651	W		2011-02-03	1996-07-31	
+S000004842	ORF	Verified	YMR229C	RRP5		chromosome 13	L000003232	13	731123	725934	C		2011-02-03	1996-07-31	RNA binding protein involved in synthesis of 18S and 5.8S rRNAs; component of ribosomal small subunit (SSU) processome and 90S preribosome; required for pre-rRNA packaging and compaction of processome into dense terminal balls; part of Mak21p-Noc2p-Rrp5p module that associates with nascent pre-rRNA during transcription with role in biogenesis of large ribosomal subunit; binds single stranded tracts of U's; relocalizes from nucleolus to nucleus upon DNA replication stress
+S000037792	CDS					YMR229C		13	731123	725934	C		2011-02-03	1996-07-31	
+S000004843	ORF	Verified	YMR230W	RPS10B	eS10|ribosomal 40S subunit protein S10B|S10e|S10B	chromosome 13	L000004476	13	732414	733141	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S10, no bacterial homolog; RPS10B has a paralog, RPS10A, that arose from the whole genome duplication; mutations in the human homolog associated with Diamond-Blackfan anemia
+S000030773	CDS					YMR230W		13	732414	732465	W		2011-02-03	1996-07-31	
+S000030774	CDS					YMR230W		13	732876	733141	W		2011-02-03	1996-07-31	
+S000030775	intron					YMR230W		13	732466	732875	W		2011-02-03	1996-07-31	
+S000028576	ORF	Uncharacterized	YMR230W-A			chromosome 13		13	733268	733456	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000031309	CDS					YMR230W-A		13	733268	733456	W		2011-02-03	2003-07-29	
+S000004844	ORF	Verified	YMR231W	PEP5	tethering complex subunit PEP5|VPT11|VPS11|VPL9|VAM1|END1	chromosome 13	L000001376|L000002957	13	733545	736634	W	152	2011-02-03	1996-07-31	Histone E3 ligase, component of CORVET membrane tethering complex; peripheral vacuolar membrane protein required for protein trafficking and vacuole biogenesis; interacts with Pep7p; involved in ubiquitination and degradation of excess histones
+S000030876	CDS					YMR231W		13	733545	736634	W		2011-02-03	1996-07-31	
+S000004845	ORF	Verified	YMR232W	FUS2		chromosome 13	L000000654	13	736926	738959	W	160	2011-02-03	1996-07-31	Cell fusion regulator; cytoplasmic protein localized to shmoo tip; required for alignment of parental nuclei before nuclear fusion during mating; contains a Dbl-homology domain; binds specifically with activated Cdc42p
+S000031887	CDS					YMR232W		13	736926	738959	W		2011-02-03	1996-07-31	
+S000004846	ORF	Verified	YMR233W	TRI1		chromosome 13		13	739185	739865	W		2011-02-03	1996-07-31	Non-essential sumoylated protein of unknown function; similar to components of human SWI/SNF complex including SMRD3; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm, nucleus and nucleolus; TRI1 has a paralog, UAF30, that arose from the whole genome duplication
+S000032018	CDS					YMR233W		13	739185	739865	W		2011-02-03	1996-07-31	
+S000004847	ORF	Verified	YMR234W	RNH1	RNA-DNA hybrid ribonuclease	chromosome 13	L000001653	13	740266	741312	W	160	2011-02-03	1996-07-31	Ribonuclease H1; able to bind double-stranded RNAs and RNA-DNA hybrids; associates with RNAse polymerase I.
+S000032129	CDS					YMR234W		13	740266	741312	W		2011-02-03	1996-07-31	
+S000004848	ORF	Verified	YMR235C	RNA1	GTPase-activating protein RNA1	chromosome 13	L000001649	13	742735	741512	C	159	2011-02-03	1996-07-31	GTPase activating protein (GAP) for Gsp1p; involved in nuclear transport
+S000032993	CDS					YMR235C		13	742735	741512	C		2011-02-03	1996-07-31	
+S000004849	ORF	Verified	YMR236W	TAF9	chromatin modification protein|TafII17|TAF17	chromosome 13	L000003459	13	742971	743444	W		2011-02-03	1996-07-31	Subunit (17 kDa) of TFIID and SAGA complexes; involved in RNA polymerase II transcription initiation and in chromatin modification, similar to histone H3
+S000033137	CDS					YMR236W		13	742971	743444	W		2011-02-03	1996-07-31	
+S000004850	ORF	Verified	YMR237W	BCH1	exomer complex subunit	chromosome 13		13	743749	745923	W		2011-02-03	1996-07-31	Member of the ChAPs family (Chs5p-Arf1p-binding proteins); members include Bch1p, Bch2p, Bud7p, and Chs6p; ChAPs family proteins form the exomer complex with Chs5p to mediate export of specific cargo proteins from the Golgi to the plasma membrane; interacts selectively with the activated, GTP-bound form of Arf1p; may interact with ribosomes; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress
+S000033208	CDS					YMR237W		13	743749	745923	W		2011-02-03	1996-07-31	
+S000004851	ORF	Verified	YMR238W	DFG5	putative mannan endo-1,6-alpha-mannosidase	chromosome 13	L000004072	13	746353	747729	W		2011-02-03	1996-07-31	Putative mannosidase; essential glycosylphosphatidylinositol (GPI)-anchored membrane protein required for cell wall biogenesis in bud formation, involved in filamentous growth, homologous to Dcw1p
+S000034028	CDS					YMR238W		13	746353	747729	W		2011-02-03	1996-07-31	
+S000006717	tRNA_gene		tR(UCU)M1			chromosome 13	L000003675	13	747963	747892	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000031501	noncoding_exon					tR(UCU)M1		13	747963	747892	C		2011-02-03	2000-05-19	
+S000004852	ORF	Verified	YMR239C	RNT1	ribonuclease III	chromosome 13	L000002844	13	749677	748262	C		2011-02-03	1996-07-31	Nuclear dsRNA-specific ribonuclease (RNase III); involved in rDNA transcription, rRNA processing and U2 snRNA 3' end formation by cleavage of a stem-loop structure at the 3' end of U2 snRNA; involved in polyadenylation-independent transcription termination; involved in the cell wall stress response, regulating the degradation of cell wall integrity and morphogenesis checkpoint genes
+S000034074	CDS					YMR239C		13	749677	748262	C		2011-02-03	1996-07-31	
+S000004853	ORF	Verified	YMR240C	CUS1	U2 snRNP complex subunit CUS1	chromosome 13	L000002833	13	751240	749930	C		2011-02-03	1996-07-31	Protein required for assembly of U2 snRNP into the spliceosome; forms a complex with Hsh49p and Hsh155p
+S000035059	CDS					YMR240C		13	751240	749930	C		2011-02-03	1996-07-31	
+S000004854	ORF	Verified	YMR241W	YHM2		chromosome 13	L000004516	13	751961	752905	W		2011-02-03	1996-07-31	Citrate and oxoglutarate carrier protein; exports citrate from and imports oxoglutarate into the mitochondrion, causing net export of NADPH reducing equivalents; also associates with mt nucleoids and has a role in replication and segregation of the mt genome
+S000035206	CDS					YMR241W		13	751961	752905	W		2011-02-03	1996-07-31	
+S000004855	ORF	Verified	YMR242C	RPL20A	eL20|ribosomal 60S subunit protein L20A|L20e|L20A|L18A|RPL18A2	chromosome 13	L000004458|L000003149	13	754220	753225	C		2011-02-03	2003-09-27|1996-07-31|2007-07-10	Ribosomal 60S subunit protein L20A; homologous to mammalian ribosomal protein L18A, no bacterial homolog; RPL20A has a paralog, RPL20B, that arose from the whole genome duplication
+S000035252	CDS					YMR242C		13	753742	753225	C		2011-02-03	2003-09-27	
+S000035251	CDS					YMR242C		13	754220	754220	C		2011-02-03	2003-09-27|1996-07-31|2007-07-10	
+S000035253	intron					YMR242C		13	754219	753743	C		2011-02-03	2003-09-27|2007-07-10	
+S000028694	ORF	Uncharacterized	YMR242W-A			chromosome 13		13	754297	754386	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000032596	CDS					YMR242W-A		13	754297	754386	W		2011-02-03	2003-07-29	
+S000004856	ORF	Verified	YMR243C	ZRC1	Zn(2+) transporter ZRC1|OSR1	chromosome 13	L000002570	13	756166	754838	C		2011-02-03	1996-07-31	Vacuolar membrane zinc transporter; transports zinc from cytosol to vacuole for storage; also has role in resistance to zinc shock resulting from sudden influx of zinc into cytoplasm; human ortholog SLC30A10 functions as a Mn transporter and mutations in SLC30A10 cause neurotoxic accumulation of Mn in liver and brain; ZRC1 has a paralog, COT1, that arose from the whole genome duplication
+S000036141	CDS					YMR243C		13	756166	754838	C		2011-02-03	1996-07-31	
+S000004858	ORF	Uncharacterized	YMR244W			chromosome 13		13	757250	758317	W		2011-02-03	1996-07-31	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
+S000031680	CDS					YMR244W		13	757250	758317	W		2011-02-03	1996-07-31	
+S000118377	ARS		ARS1327		ARSXIII-758	chromosome 13		13	758224	758471			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178161	ARS_consensus_sequence					ARS1327		13	758417	758401	C		2014-11-18	2014-11-18	
+S000004859	ORF	Dubious	YMR245W			chromosome 13		13	758563	759183	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031825	CDS					YMR245W		13	758563	759183	W		2011-02-03	1996-07-31	
+S000004857	ORF	Verified	YMR244C-A	COA6		chromosome 13		13	758831	758517	C		2011-02-03	1996-07-31	Protein involved in cytochrome c oxidase (Complex IV) assembly; involved in delivery of copper to Complex IV; also required for efficient formation of respiratory supercomplexes comprised of Complexes III and IV; localizes to the mitochondrial intermembrane space; ortholog implicated in cardiac defects in zebrafish and human; transcription is induced in response to the DNA-damaging agent MMS; protein abundance increases in response to DNA replication stress
+S000035790	CDS					YMR244C-A		13	758831	758517	C		2011-02-03	1996-07-31	
+S000004860	ORF	Verified	YMR246W	FAA4	long-chain fatty acid-CoA ligase FAA4	chromosome 13	L000002647	13	759807	761891	W		2011-02-03	1996-07-31	Long chain fatty acyl-CoA synthetase; activates fatty acids with a preference for C12:0-C16:0 chain lengths; role in the competitive import of long-chain fatty acids and sphingoid long-chain bases; role in stationary phase survival; localizes to lipid particles and the plasma membrane; role in sphingolipid-to-glycerolipid metabolism; forms cytoplasmic foci upon replication stress; faa1 faa4 double null complemented by any of human ACSBG1, ACSL1, 3, 4, 5, 6, SLC27A2, or 4
+S000031958	CDS					YMR246W		13	759807	761891	W		2011-02-03	1996-07-31	
+S000119075	snoRNA_gene		snR86	SNR86		chromosome 13		13	763113	762110	C		2011-02-03	2006-10-05	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2314
+S000119077	noncoding_exon					snR86		13	763113	762110	C		2011-02-03	2006-10-05	
+S000004861	ORF	Verified	YMR247C	RKR1	ubiquitin-protein ligase RKR1|LTN1	chromosome 13		13	768039	763351	C		2011-02-03	1996-07-31	RING domain E3 ubiquitin ligase; involved in ubiquitin-mediated degradation of non-stop proteins and translationally stalled ER membrane proteins; component of ribosome-bound RQC (ribosome quality control) complex; degrades products of mRNAs lacking a termination codon regardless of a poly(A) tail; functional connections to chromatin modification; homolog of mouse Listerin, mutations in which reported to cause neurodegeneration
+S000031995	CDS					YMR247C		13	768039	763351	C		2011-02-03	1996-07-31	
+S000006519	tRNA_gene		tA(AGC)M2			chromosome 13	L000003674	13	768441	768369	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000036431	noncoding_exon					tA(AGC)M2		13	768441	768369	C		2011-02-03	2000-05-19	
+S000007125	long_terminal_repeat		YMRWdelta19			chromosome 13		13	768548	768879	W		2011-02-03	2000-05-19	Ty2 LTR
+S000028849	ORF	Uncharacterized	YMR247W-A			chromosome 13		13	769283	769426	W		2011-02-03	2003-07-29	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
+S000034536	CDS					YMR247W-A		13	769283	769426	W		2011-02-03	2003-07-29	
+S000004862	ORF	Verified	YMR250W	GAD1	glutamate decarboxylase GAD1	chromosome 13	S000007509	13	770801	772558	W		2011-02-03	1996-07-31	Glutamate decarboxylase; converts glutamate into gamma-aminobutyric acid (GABA) during glutamate catabolism; involved in response to oxidative stress
+S000037211	CDS					YMR250W		13	770801	772558	W		2011-02-03	1996-07-31	
+S000118378	ARS		ARS1328		ARSXIII-773	chromosome 13		13	772631	772879			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000004863	ORF	Verified	YMR251W	GTO3	omega-class glutathione transferase	chromosome 13		13	772915	774015	W		2011-02-03	1996-07-31	Omega class glutathione transferase; putative cytosolic localization
+S000037313	CDS					YMR251W		13	772915	774015	W		2011-02-03	1996-07-31	
+S000004864	ORF	Verified	YMR251W-A	HOR7		chromosome 13	L000003980	13	774752	774931	W		2011-02-03	1996-07-31	Protein of unknown function; overexpression suppresses Ca2+ sensitivity of mutants lacking inositol phosphorylceramide mannosyltransferases Csg1p and Csh1p; transcription is induced under hyperosmotic stress and repressed by alpha factor; HOR7 has a paralog, DDR2, that arose from the whole genome duplication
+S000035256	CDS					YMR251W-A		13	774752	774931	W		2011-02-03	1996-07-31	
+S000004865	ORF	Uncharacterized	YMR252C			chromosome 13		13	775719	775315	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YMR252C is not an essential gene
+S000037324	CDS					YMR252C		13	775719	775315	C		2011-02-03	1996-07-31	
+S000004866	ORF	Uncharacterized	YMR253C			chromosome 13		13	777190	775946	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; YMR253C is not an essential gene
+S000037399	CDS					YMR253C		13	777190	775946	C		2011-02-03	1996-07-31	
+S000004867	ORF	Dubious	YMR254C			chromosome 13		13	777923	777615	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030036	CDS					YMR254C		13	777923	777615	C		2011-02-03	1996-07-31	
+S000004868	ORF	Verified	YMR255W	GFD1		chromosome 13	L000004632	13	778001	778567	W		2011-02-03	1996-07-31	Coiled-coiled protein of unknown function; identified as a high-copy suppressor of a dbp5 mutation; protein abundance increases in response to DNA replication stress
+S000030249	CDS					YMR255W		13	778001	778567	W		2011-02-03	1996-07-31	
+S000004869	ORF	Verified	YMR256C	COX7	cytochrome c oxidase subunit VII	chromosome 13	L000000391	13	779127	778945	C		2011-02-03	1996-07-31	Subunit VII of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain
+S000030343	CDS					YMR256C		13	779127	778945	C		2011-02-03	1996-07-31	
+S000004870	ORF	Verified	YMR257C	PET111		chromosome 13	L000001393	13	782031	779629	C	177	2011-02-03	1996-07-31	Mitochondrial translational activator specific for the COX2 mRNA; located in the mitochondrial inner membrane
+S000033634	CDS					YMR257C		13	782031	779629	C		2011-02-03	1996-07-31	
+S000004871	ORF	Verified	YMR258C	ROY1		chromosome 13		13	784281	782620	C		2011-02-03	1996-07-31	GTPase inhibitor with similarity to F-box proteins; inhibits Ypt52p GTPase activity by preventing Ypt52p from binding GTP; involved in regulating intracellular trafficking; physically interacts with Skp1p
+S000033770	CDS					YMR258C		13	784281	782620	C		2011-02-03	1996-07-31	
+S000004872	ORF	Verified	YMR259C	TRM732	tRNA methylation protein TRM732	chromosome 13		13	788883	784621	C		2011-02-03	1996-07-31	Protein involved in 2'-O-methylation of C32 of substrate tRNAs; interacts with 2'-O-ribose methyltransferase Trm7p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; non-essential gene; yeast null mutant can be functionally complemented by human THADA, mutations in which have been implicated in epithelial thyroid adenomas, type 2 diabetes, and polycystic ovary syndrome (PCOS)
+S000033886	CDS					YMR259C		13	788883	784621	C		2011-02-03	1996-07-31	
+S000004873	ORF	Verified	YMR260C	TIF11		chromosome 13	L000002306	13	789839	789378	C		2011-02-03	1996-07-31	Translation initiation factor eIF1A; essential protein that forms a complex with Sui1p (eIF1) and the 40S ribosomal subunit and scans for the start codon; C-terminus associates with Fun12p (eIF5B); N terminus interacts with eIF2 and eIF3
+S000033454	CDS					YMR260C		13	789839	789378	C		2011-02-03	1996-07-31	
+S000004874	ORF	Verified	YMR261C	TPS3	trehalose 6-phosphate synthase/phosphatase complex subunit	chromosome 13	L000002718	13	793369	790205	C		2011-02-03	1996-07-31	Regulatory subunit of trehalose-6-phosphate synthase/phosphatase; involved in synthesis of storage carbohydrate trehalose; expression is induced by stress conditions and repressed by the Ras-cAMP pathway; TPS3 has a paralog, TSL1, that arose from the whole genome duplication
+S000033514	CDS					YMR261C		13	793369	790205	C		2011-02-03	1996-07-31	
+S000004875	ORF	Uncharacterized	YMR262W		putative endodeoxyribonuclease	chromosome 13		13	793726	794667	W		2011-02-03	1996-07-31|2011-02-03	Protein of unknown function; interacts weakly with Knr4p; YMR262W is not an essential gene
+S000033607	CDS					YMR262W		13	793726	794667	W		2011-02-03	1996-07-31|2011-02-03	
+S000004876	ORF	Verified	YMR263W	SAP30		chromosome 13		13	794919	795524	W		2011-02-03	1996-07-31	Component of Rpd3L histone deacetylase complex; involved in silencing at telomeres, rDNA, and silent mating-type loci; involved in telomere maintenance
+S000034555	CDS					YMR263W		13	794919	795524	W		2011-02-03	1996-07-31	
+S000004877	ORF	Verified	YMR264W	CUE1	KIS4	chromosome 13	L000003518	13	795805	796416	W		2011-02-03	1996-07-31	Ubiquitin-binding protein; ER membrane protein that recruits and integrates the ubiquitin-conjugating enzyme Ubc7p into ER membrane-bound ubiquitin ligase complexes that function in the ER-associated degradation (ERAD) pathway for misfolded proteins; contains a CUE domain that binds ubiquitin to facilitate intramolecular monoubiquitination and to promote diubiquitin elongation, facilitating polyubiquitin chain formation
+S000034641	CDS					YMR264W		13	795805	796416	W		2011-02-03	1996-07-31	
+S000004878	ORF	Uncharacterized	YMR265C			chromosome 13		13	797925	796540	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000034679	CDS					YMR265C		13	797925	796540	C		2011-02-03	1996-07-31	
+S000004879	ORF	Verified	YMR266W	RSN1		chromosome 13		13	798518	801379	W		2011-02-03	1996-07-31	Membrane protein of unknown function; overexpression suppresses NaCl sensitivity of sro7 mutant cells by restoring sodium pump (Ena1p) localization to the plasma membrane
+S000035756	CDS					YMR266W		13	798518	801379	W		2011-02-03	1996-07-31	
+S000004880	ORF	Verified	YMR267W	PPA2	inorganic diphosphatase PPA2|IPP2	chromosome 13	L000001469	13	801772	802704	W		2011-02-03	1996-07-31	Mitochondrial inorganic pyrophosphatase; required for mitochondrial function and possibly involved in energy generation from inorganic pyrophosphate; human ortholog, PPA2, functionally complements the null mutant; mutations in human PPA2 cause a mitochondrial disease resulting in sudden unexpected cardiac arrest in infants
+S000035874	CDS					YMR267W		13	801772	802704	W		2011-02-03	1996-07-31	
+S000004881	ORF	Verified	YMR268C	PRP24	U6 snRNP complex subunit PRP24	chromosome 13	L000002842	13	804222	802888	C		2011-02-03	1996-07-31	Splicing factor that reanneals snRNPs during spliceosome recycling; reanneals U4 and U6 snRNPs
+S000035917	CDS					YMR268C		13	804222	802888	C		2011-02-03	1996-07-31	
+S000004882	ORF	Verified	YMR269W	TMA23	YMR268W-A	chromosome 13		13	804456	805091	W		2011-02-03	2004-02-27|1996-07-31	Nucleolar protein implicated in ribosome biogenesis; deletion extends chronological lifespan
+S000037848	CDS					YMR269W		13	804456	805091	W		2011-02-03	2004-02-27|1996-07-31	
+S000118379	ARS		ARS1329		ARSXIII-805	chromosome 13		13	805152	805282			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178162	ARS_consensus_sequence					ARS1329		13	805162	805178	W		2014-11-18	2014-11-18	
+S000004883	ORF	Verified	YMR270C	RRN9		chromosome 13	L000003278	13	806423	805326	C		2011-02-03	1996-07-31	Protein involved in promoting high level transcription of rDNA; subunit of UAF (upstream activation factor) for RNA polymerase I
+S000036870	CDS					YMR270C		13	806423	805326	C		2011-02-03	1996-07-31	
+S000004884	ORF	Verified	YMR271C	URA10	orotate phosphoribosyltransferase URA10	chromosome 13	L000002438	13	807548	806865	C		2011-02-03	1996-07-31	Minor orotate phosphoribosyltransferase (OPRTase) isozyme; catalyzes the fifth enzymatic step in the de novo biosynthesis of pyrimidines, converting orotate into orotidine-5'-phosphate; URA10 has a paralog, URA5, that arose from the whole genome duplication
+S000037601	CDS					YMR271C		13	807548	806865	C		2011-02-03	1996-07-31	
+S000006690	tRNA_gene		tQ(CUG)M	CDC65	SUP60|SUP70|DNA33	chromosome 13	L000000287|L000003673	13	808317	808246	C	187	2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; can mutate to cause constitutive pseudohyphal growth in homozygous diploids; required for localization of transcription factor Gln3p to the nucleus in response to nitrogen starvation or rapamycin treatment
+S000036125	noncoding_exon					tQ(CUG)M		13	808317	808246	C		2011-02-03	2000-05-19	
+S000007118	long_terminal_repeat		YMRCtau3			chromosome 13		13	808906	808537	C		2011-02-03	2000-05-19	Ty4 LTR
+S000007126	long_terminal_repeat		YMRWdelta20			chromosome 13		13	809000	809233	W		2011-02-03	2000-05-19	Ty1 LTR
+S000028695	ORF	Dubious	YMR272W-A			chromosome 13		13	810466	810579	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene SCS7/YMR272C
+S000032602	CDS					YMR272W-A		13	810466	810579	W		2011-02-03	2003-07-29	
+S000004885	ORF	Verified	YMR272C	SCS7	fatty acid alpha-hydroxylase|FAH1	chromosome 13	L000004408	13	810777	809623	C		2011-02-03	1996-07-31	Sphingolipid alpha-hydroxylase; functions in the alpha-hydroxylation of sphingolipid-associated very long chain fatty acids, has both cytochrome b5-like and hydroxylase/desaturase domains, not essential for growth
+S000037670	CDS					YMR272C		13	810777	809623	C		2011-02-03	1996-07-31	
+S000028696	ORF	Uncharacterized	YMR272W-B			chromosome 13		13	811089	811196	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole
+S000032604	CDS					YMR272W-B		13	811089	811196	W		2011-02-03	2003-07-29	
+S000004886	ORF	Verified	YMR273C	ZDS1	OSS1|NRC1|CKM1|CES1	chromosome 13	L000002813	13	813980	811233	C		2011-02-03	1996-07-31	Protein with a role in regulating Swe1p-dependent polarized growth; involved in maintaining Cdc55p in the cytoplasm where it promotes mitotic entry; involved in mitotic exit through Cdc14p regulation; interacts with silencing proteins at telomeres; has a role in Bcy1p localization; implicated in mRNA nuclear export; ZDS1 has a paralog, ZDS2, that arose from the whole genome duplication
+S000037717	CDS					YMR273C		13	813980	811233	C		2011-02-03	1996-07-31	
+S000004887	ORF	Verified	YMR274C	RCE1	CAAX prenyl protease	chromosome 13	L000004125	13	815311	814364	C		2011-02-03	1996-07-31	Type II CAAX prenyl protease; involved in the proteolysis and maturation of Ras and the a-factor mating pheromone
+S000037777	CDS					YMR274C		13	815311	814364	C		2011-02-03	1996-07-31	
+S000118380	ARS		ARS1330		ARSXIII-815	chromosome 13		13	815342	815567			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178163	ARS_consensus_sequence					ARS1330		13	815391	815407	W		2014-11-18	2014-11-18	
+S000004888	ORF	Verified	YMR275C	BUL1	ubiquitin-ubiquitin ligase BUL1|SMM2|RDS1|DAG1	chromosome 13	L000002733	13	818581	815651	C		2011-02-03	1996-07-31	Ubiquitin-binding component of the Rsp5p E3-ubiquitin ligase complex; disruption causes temperature-sensitive growth, overexpression causes missorting of amino acid permeases; BUL1 has a paralog, BUL2, that arose from the whole genome duplication
+S000030633	CDS					YMR275C		13	818581	815651	C		2011-02-03	1996-07-31	
+S000004889	ORF	Verified	YMR276W	DSK2		chromosome 13	L000002646	13	818827	819948	W		2011-02-03	1996-07-31	Nuclear-enriched ubiquitin-like polyubiquitin-binding protein; required for spindle pole body (SPB) duplication and for transit through the G2/M phase of the cell cycle; involved in proteolysis; interacts with the proteasome; protein abundance increases in response to DNA replication stress
+S000030830	CDS					YMR276W		13	818827	819948	W		2011-02-03	1996-07-31	
+S000004890	ORF	Verified	YMR277W	FCP1	protein serine/threonine phosphatase	chromosome 13	L000003350	13	820256	822454	W		2011-02-03	1996-07-31	Carboxy-terminal domain (CTD) phosphatase; essential for dephosphorylation of the repeated C-terminal domain of the RNA polymerase II large subunit (Rpo21p); relocalizes to the cytosol in response to hypoxia
+S000031799	CDS					YMR277W		13	820256	822454	W		2011-02-03	1996-07-31	
+S000004891	ORF	Verified	YMR278W	PRM15	PGM3|phosphoribomutase PRM15	chromosome 13		13	822763	824631	W		2011-02-03	1996-07-31	Phosphoribomutase; catalyzes interconversion of ribose-1-phosphate and ribose-5-phosphate; has some phosphoglucomutase activity but primary activity in vivo is phosphoribomutase; contributes to ribose recycling in the pentose phosphate pathway; transcription induced in response to stress; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; non-essential
+S000031949	CDS					YMR278W		13	822763	824631	W		2011-02-03	1996-07-31	
+S000004892	ORF	Verified	YMR279C			chromosome 13		13	826351	824729	C		2011-02-03	1996-07-31	Putative boron transporter involved in boron efflux and resistance; overexpression mutant but not null mutant displays boron tolerance phenotype; identified as a heat-induced gene in a high-throughout screen; YMR279C is not an essential gene; YMR279C has a paralog, ATR1, that arose from the whole genome duplication
+S000031988	CDS					YMR279C		13	826351	824729	C		2011-02-03	1996-07-31	
+S000004893	ORF	Verified	YMR280C	CAT8	DNA-binding transcription factor CAT8|MSP8|DIL1	chromosome 13	L000000220	13	831329	827028	C		2011-02-03	1996-07-31	Zinc cluster transcriptional activator; necessary for derepression of a variety of genes under non-fermentative growth conditions, active after diauxic shift, binds carbon source responsive elements; relative distribution to the nucleus increases upon DNA replication stress
+S000032751	CDS					YMR280C		13	831329	827028	C		2011-02-03	1996-07-31	
+S000004894	ORF	Verified	YMR281W	GPI12	N-acetylglucosaminylphosphatidylinositol deacetylase	chromosome 13	L000004952	13	832339	833253	W		2011-02-03	1996-07-31	ER membrane protein involved in the second step of GPI anchor assembly; the second step is the de-N-acetylation of the N-acetylglucosaminylphosphatidylinositol intermediate; functional homolog of human PIG-Lp; GPI stands for glycosylphosphatidylinositol
+S000032913	CDS					YMR281W		13	832339	833253	W		2011-02-03	1996-07-31	
+S000004895	ORF	Verified	YMR282C	AEP2	ATP13	chromosome 13	L000000054	13	835098	833356	C		2011-02-03	1996-07-31	Mitochondrial protein; likely involved in translation of the mitochondrial OLI1 mRNA; exhibits genetic interaction with the OLI1 mRNA 5'-untranslated leader
+S000032972	CDS					YMR282C		13	835098	833356	C		2011-02-03	1996-07-31	
+S000004896	ORF	Verified	YMR283C	RIT1	tRNA A64-2'-O-ribosylphosphate transferase	chromosome 13	L000001645	13	836867	835326	C		2011-02-03	1996-07-31	Initiator methionine 2'-O-ribosyl phosphate transferase; modifies the initiator methionine tRNA at position 64 to distinguish it from elongator methionine tRNA
+S000033039	CDS					YMR283C		13	836867	835326	C		2011-02-03	1996-07-31	
+S000007127	long_terminal_repeat		YMRWdelta21			chromosome 13		13	837450	837764	W		2011-02-03	2000-05-19	Ty1 LTR
+S000130192	ARS		ARS1331			chromosome 13		13	837764	837928			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000006784	tRNA_gene		tY(GUA)M2	SUP8		chromosome 13	L000003672|L000002187	13	837928	838016	W	193	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000032300	intron					tY(GUA)M2		13	837967	837980	W		2011-02-03	2000-05-19	
+S000032298	noncoding_exon					tY(GUA)M2		13	837928	837966	W		2011-02-03	2000-05-19	
+S000032299	noncoding_exon					tY(GUA)M2		13	837981	838016	W		2011-02-03	2000-05-19	
+S000004897	ORF	Verified	YMR284W	YKU70	ATP-dependent DNA helicase YKU70|KU70|NES24|HDF1	chromosome 13	L000000759	13	838187	839995	W		2011-02-03	1996-07-31	Subunit of the telomeric Ku complex (Yku70p-Yku80p); involved in telomere length maintenance, structure and telomere position effect; required for localization of telomerase ribonucleoprotein to nucleus via interaction with the TLC1 guide RNA; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair
+S000033764	CDS					YMR284W		13	838187	839995	W		2011-02-03	1996-07-31	
+S000004898	ORF	Verified	YMR285C	NGL2	RNA exonuclease	chromosome 13		13	841691	840144	C		2011-02-03	1996-07-31	Protein involved in 5.8S rRNA processing; Ccr4p-like RNase required for correct 3'-end formation of 5.8S rRNA at site E; similar to Ngl1p; NGL2 has a paralog, NGL3, that arose from the whole genome duplication
+S000033818	CDS					YMR285C		13	841691	840144	C		2011-02-03	1996-07-31	
+S000004899	ORF	Verified	YMR286W	MRPL33	mitochondrial 54S ribosomal protein YmL33|YmL33	chromosome 13	L000002530|L000001170	13	841942	842202	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000034015	CDS					YMR286W		13	841942	842202	W		2011-02-03	1996-07-31	
+S000004900	ORF	Verified	YMR287C	DSS1	MSU1	chromosome 13	L000001208	13	845345	842436	C		2011-02-03	1996-07-31	3'-5' exoribonuclease; component of the mitochondrial degradosome along with the ATP-dependent RNA helicase Suv3p; the degradosome associates with the ribosome and mediates turnover of aberrant or unprocessed RNAs
+S000034048	CDS					YMR287C		13	845345	842436	C		2011-02-03	1996-07-31	
+S000004901	ORF	Verified	YMR288W	HSH155	U2 snRNP complex subunit HSH155	chromosome 13		13	845571	848486	W		2011-02-03	1996-07-31	U2-snRNP associated splicing factor; forms extensive associations with the branch site-3' splice site-3' exon region upon prespliceosome formation; similarity to the mammalian U2 snRNP-associated splicing factor SAP155
+S000035070	CDS					YMR288W		13	845571	848486	W		2011-02-03	1996-07-31	
+S000004902	ORF	Verified	YMR289W	ABZ2	aminodeoxychorismate lyase ABZ2	chromosome 13		13	848685	849809	W		2011-02-03	1996-07-31	Aminodeoxychorismate lyase (4-amino-4-deoxychorismate lyase); catalyzes the third step in para-aminobenzoic acid biosynthesis; involved in folic acid biosynthesis
+S000035264	CDS					YMR289W		13	848685	849809	W		2011-02-03	1996-07-31	
+S000004904	ORF	Dubious	YMR290W-A			chromosome 13		13	851422	851769	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 5' end of essential HAS1/YMR290C gene which encodes an ATP-dependent RNA helicase
+S000037856	CDS					YMR290W-A		13	851422	851769	W		2011-02-03	1996-07-31|2011-02-03	
+S000004903	ORF	Verified	YMR290C	HAS1	ATP-dependent RNA helicase HAS1	chromosome 13	L000004179	13	851591	850074	C		2011-02-03	1996-07-31	ATP-dependent RNA helicase; involved in the biogenesis of 40S and 60S ribosome subunits; localizes to both the nuclear periphery and nucleolus; highly enriched in nuclear pore complex fractions; constituent of 66S pre-ribosomal particles
+S000036112	CDS					YMR290C		13	851591	850074	C		2011-02-03	1996-07-31	
+S000004905	ORF	Verified	YMR291W	TDA1	protein kinase TDA1	chromosome 13		13	852630	854390	W		2011-02-03	1996-07-31	Protein kinase of unknown cellular role; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; null mutant is sensitive to expression of the top1-T722A allele; not an essential gene; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000036939	CDS					YMR291W		13	852630	854390	W		2011-02-03	1996-07-31	
+S000004906	ORF	Verified	YMR292W	GOT1		chromosome 13	L000004951	13	854795	855293	W		2011-02-03	1996-07-31	Homodimeric protein that is packaged into COPII vesicles; cycles between the ER and Golgi; involved in secretory transport but not directly required for aspects of transport assayed in vitro; may influence membrane composition
+S000037002	CDS					YMR292W		13	854795	854816	W		2011-02-03	1996-07-31	
+S000037003	CDS					YMR292W		13	854899	855293	W		2011-02-03	1996-07-31	
+S000037004	intron					YMR292W		13	854817	854898	W		2011-02-03	1996-07-31	
+S000004907	ORF	Verified	YMR293C	HER2	QRS1|glutamyl-tRNA(Gln) amidotransferase subunit HER2|RRG6|GEP6|LRC6	chromosome 13	S000124020	13	856793	855399	C		2011-02-03	1996-07-31	Subunit of the trimeric GatFAB AmidoTransferase(AdT) complex; involved in the formation of Q-tRNAQ; required for remodeling of ER caused by Hmg2p overexpression; similar to bacterial GatA glutamyl-tRNA amidotransferase
+S000037041	CDS					YMR293C		13	856793	855399	C		2011-02-03	1996-07-31	
+S000004908	ORF	Verified	YMR294W	JNM1	PAC3|INS1	chromosome 13	L000000884	13	856966	858087	W		2011-02-03	1996-07-31	Component of the yeast dynactin complex; consisting of Nip100p, Jnm1p, and Arp1p; required for proper nuclear migration and spindle partitioning during mitotic anaphase B
+S000037827	CDS					YMR294W		13	856966	858087	W		2011-02-03	1996-07-31	
+S000004909	ORF	Dubious	YMR294W-A			chromosome 13		13	858209	858568	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; substantially overlaps YMR295C; deletion causes sensitivity to unfolded protein response-inducing agents
+S000031101	CDS					YMR294W-A		13	858209	858568	W		2011-02-03	1996-07-31	
+S000004910	ORF	Verified	YMR295C		IBI2	chromosome 13		13	858890	858297	C		2011-02-03	1996-07-31	Protein of unknown function that associates with ribosomes; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and bud; not an essential gene; protein abundance increases in response to DNA replication stress; YMR295C has a paralog, YGR273C, that arose from the whole genome duplication
+S000037861	CDS					YMR295C		13	858890	858297	C		2011-02-03	1996-07-31	
+S000004911	ORF	Verified	YMR296C	LCB1	serine C-palmitoyltransferase LCB1|TSC2|END8	chromosome 13	L000000934	13	860891	859215	C		2011-02-03	1996-07-31	Component of serine palmitoyltransferase; responsible along with Lcb2p for the first committed step in sphingolipid synthesis, which is the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine
+S000029901	CDS					YMR296C		13	860891	859215	C		2011-02-03	1996-07-31	
+S000004912	ORF	Verified	YMR297W	PRC1	CPY1|carboxypeptidase C PRC1|CPY|LBC1	chromosome 13	L000001481	13	861922	863520	W	210	2011-02-03	1996-07-31	Vacuolar carboxypeptidase Y (proteinase C, CPY); broad-specificity C-terminal exopeptidase involved in non-specific protein degradation in the vacuole; member of the serine carboxypeptidase family
+S000030979	CDS					YMR297W		13	861922	863520	W		2011-02-03	1996-07-31	
+S000004913	ORF	Verified	YMR298W	LIP1	sphingosine N-acyltransferase subunit LIP1	chromosome 13		13	863819	864271	W		2011-02-03	1996-07-31	Ceramide synthase subunit; single-span ER membrane protein associated with Lag1p and Lac1p and required for ceramide synthase activity, null mutant grows extremely slowly and is defective in ceramide synthesis
+S000031080	CDS					YMR298W		13	863819	864271	W		2011-02-03	1996-07-31	
+S000004914	ORF	Verified	YMR299C	DYN3	dynein light intermediate chain	chromosome 13		13	865350	864412	C		2011-02-03	1996-07-31|2011-02-03	Dynein light intermediate chain (LIC); localizes with dynein, null mutant is defective in nuclear migration
+S000031115	CDS					YMR299C		13	865350	864412	C		2011-02-03	1996-07-31|2011-02-03	
+S000004915	ORF	Verified	YMR300C	ADE4	amidophosphoribosyltransferase	chromosome 13	L000000034	13	867091	865559	C	213	2011-02-03	1996-07-31	Phosphoribosylpyrophosphate amidotransferase (PRPPAT); catalyzes first step of the 'de novo' purine nucleotide biosynthetic pathway; also known as amidophosphoribosyltransferase
+S000036627	CDS					YMR300C		13	867091	865559	C		2011-02-03	1996-07-31	
+S000004916	ORF	Verified	YMR301C	ATM1	ATP-binding cassette Fe/S cluster precursor transporter ATM1	chromosome 13	L000000140	13	869627	867555	C		2011-02-03	1996-07-31	Mitochondrial inner membrane ATP-binding cassette (ABC) transporter; exports mitochondrially synthesized precursors of iron-sulfur (Fe/S) clusters to the cytosol; human homolog ABCB7 can complement yeast null mutant
+S000036724	CDS					YMR301C		13	869627	867555	C		2011-02-03	1996-07-31	
+S000004917	ORF	Verified	YMR302C	YME2	PRP12|RNA12	chromosome 13	L000001503	13	872625	870073	C		2011-02-03	1996-07-31	Integral inner mitochondrial membrane protein; role in maintaining mitochondrial nucleoid structure and number; mutants exhibit an increased rate of mitochondrial DNA escape; shows some sequence similarity to exonucleases
+S000030571	CDS					YMR302C		13	872625	870073	C		2011-02-03	1996-07-31	
+S000004918	ORF	Verified	YMR303C	ADH2	alcohol dehydrogenase ADH2|ADR2	chromosome 13	L000000042|L000000051	13	874337	873291	C	216	2011-02-03	1996-07-31	Glucose-repressible alcohol dehydrogenase II; catalyzes the conversion of ethanol to acetaldehyde; involved in the production of certain carboxylate esters; regulated by ADR1
+S000030697	CDS					YMR303C		13	874337	873291	C		2011-02-03	1996-07-31	
+S000004920	ORF	Verified	YMR304W	UBP15	ubiquitin-specific protease UBP15	chromosome 13	L000004589	13	874987	878679	W		2011-02-03	1996-07-31	Ubiquitin-specific protease involved in protein deubiquitination; forms a complex with AAA peroxins Pex1p and Pex6p; deubiquitinates mono- and polyubiquitinated forms of Pex5p; deubiquitinates Clb5p, counteracting APC activity, and facilitating both Clb5p accumulation and S phase entry; physically interacts with anaphase-promoting complex/cyclosome (APC/C) activator, Cdh1p; catalytic activity regulated by an N-terminal TRAF-like domain and and C-terminal sequences
+S000030883	CDS					YMR304W		13	874987	878679	W		2011-02-03	1996-07-31	
+S000004919	ORF	Dubious	YMR304C-A			chromosome 13		13	879130	878780	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps 3' end of verified ORF SCW10/YMR305C
+S000037462	CDS					YMR304C-A		13	879130	878780	C		2011-02-03	1996-07-31	
+S000004921	ORF	Verified	YMR305C	SCW10	putative family 17 glucosidase	chromosome 13		13	880232	879063	C		2011-02-03	1996-07-31	Cell wall protein with similarity to glucanases; may play a role in conjugation during mating based on mutant phenotype and its regulation by Ste12p; SWC10 has a paralog, SCW4, that arose from the whole genome duplication
+S000031740	CDS					YMR305C		13	880232	879063	C		2011-02-03	1996-07-31	
+S000004923	ORF	Verified	YMR306W	FKS3	putative 1,3-beta-D-glucan synthase	chromosome 13	L000004080	13	881159	886516	W		2011-02-03	1996-07-31	Protein involved in spore wall assembly; has similarity to 1,3-beta-D-glucan synthase catalytic subunits Fks1p and Gsc2p; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000032042	CDS					YMR306W		13	881159	886516	W		2011-02-03	1996-07-31	
+S000004922	ORF	Dubious	YMR306C-A			chromosome 13		13	886572	886183	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps 3' end of ORF FKS3/YMR306W
+S000034582	CDS					YMR306C-A		13	886572	886183	C		2011-02-03	1996-07-31	
+S000004924	ORF	Verified	YMR307W	GAS1	1,3-beta-glucanosyltransferase GAS1|GGP1|CWH52	chromosome 13	L000000669	13	887003	888682	W		2011-02-03	1997-07-17	Beta-1,3-glucanosyltransferase; required for cell wall assembly and also has a role in transcriptional silencing; localizes to cell surface via a glycosylphosphatidylinositol (GPI) anchor; also found at nuclear periphery; genetic interactions with histone H3 lysine acetyltransferases GCN5 and SAS3 indicate previously unsuspected functions for Gas1 in DNA damage response and cell cycle regulation
+S000032131	CDS					YMR307W		13	887003	888682	W		2011-02-03	1997-07-17	
+S000028578	ORF	Dubious	YMR307C-A			chromosome 13		13	887925	887731	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene GAS1/YMR307W
+S000031312	CDS					YMR307C-A		13	887925	887731	C		2011-02-03	2003-07-29	
+S000004925	ORF	Verified	YMR308C	PSE1	KAP121	chromosome 13	L000001519	13	892221	888952	C		2011-02-03	1996-07-31	Karyopherin/importin that interacts with the nuclear pore complex; acts as the nuclear import receptor for specific proteins, including Pdr1p, Yap1p, Ste12p, and Aft1p
+S000032994	CDS					YMR308C		13	892221	888952	C		2011-02-03	1996-07-31	
+S000004926	ORF	Verified	YMR309C	NIP1	translation initiation factor eIF3 core subunit c	chromosome 13	L000001252	13	895426	892988	C		2011-02-03	1996-07-31	eIF3c subunit of the eukaryotic translation initiation factor 3 (eIF3); involved in the assembly of preinitiation complex and start codon selection; eIF3 is also involved in programmed stop codon readthrough
+S000033088	CDS					YMR309C		13	895426	892988	C		2011-02-03	1996-07-31	
+S000004927	ORF	Uncharacterized	YMR310C		putative methyltransferase	chromosome 13		13	896669	895716	C		2011-02-03	1996-07-31	Putative methyltransferase; predicted to be involved in ribosome biogenesis; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; not an essential gene; YMR310C has a paralog, YGR283C, that arose from the whole genome duplication
+S000032818	CDS					YMR310C		13	896669	895716	C		2011-02-03	1996-07-31	
+S000004928	ORF	Verified	YMR311C	GLC8		chromosome 13	L000000707	13	897603	896914	C		2011-02-03	1996-07-31	Regulatory subunit of protein phosphatase 1 (Glc7p); involved in glycogen metabolism and chromosome segregation; proposed to regulate Glc7p activity via conformational alteration; ortholog of the mammalian protein phosphatase inhibitor 2; protein abundance increases in response to DNA replication stress
+S000034823	CDS					YMR311C		13	897603	896914	C		2011-02-03	1996-07-31	
+S000118381	ARS		ARS1332		ARSXIII-898	chromosome 13		13	897935	897985			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178164	ARS_consensus_sequence					ARS1332		13	897977	897961	C		2014-11-18	2014-11-18	
+S000004929	ORF	Verified	YMR312W	ELP6	Elongator subunit ELP6|KTI4|TOT6|HAP3	chromosome 13		13	898405	899226	W		2011-02-03	1996-07-31	Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; required for Elongator structural integrity
+S000035014	CDS					YMR312W		13	898405	899226	W		2011-02-03	1996-07-31	
+S000004930	ORF	Verified	YMR313C	TGL3	bifunctional triglyceride lipase/lysophosphatidylethanolamine acyltransferase	chromosome 13		13	901307	899379	C		2011-02-03	1996-07-31	Bifunctional triacylglycerol lipase and LPE acyltransferase; major lipid particle-localized triacylglycerol (TAG) lipase; catalyzes acylation of lysophosphatidylethanolamine (LPE), a function which is essential for sporulation; protein level and stability of Tgl3p are markedly reduced in the absence of lipid droplets; required with Tgl4p for timely bud formation
+S000035060	CDS					YMR313C		13	901307	899379	C		2011-02-03	1996-07-31	
+S000004931	ORF	Verified	YMR314W	PRE5	proteasome core particle subunit alpha 6	chromosome 13	L000001487	13	901709	902413	W		2011-02-03	1996-07-31	Alpha 6 subunit of the 20S proteasome; protein abundance increases in response to DNA replication stress
+S000035211	CDS					YMR314W		13	901709	902413	W		2011-02-03	1996-07-31	
+S000004932	ORF	Verified	YMR315W			chromosome 13		13	902800	903849	W		2011-02-03	1996-07-31	Protein with NADP(H) oxidoreductase activity; transcription is regulated by Stb5p in response to NADPH depletion induced by diamide; promoter contains a putative Stb5p binding site; protein abundance increases in response to DNA replication stress
+S000036057	CDS					YMR315W		13	902800	903849	W		2011-02-03	1996-07-31	
+S000028697	ORF	Uncharacterized	YMR315W-A			chromosome 13		13	904286	904393	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000032606	CDS					YMR315W-A		13	904286	904393	W		2011-02-03	2003-07-29	
+S000004935	ORF	Verified	YMR316W	DIA1		chromosome 13		13	904825	905835	W		2011-02-03	1996-07-31	Protein of unknown function; involved in invasive and pseudohyphal growth; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
+S000036198	CDS					YMR316W		13	904825	905835	W		2011-02-03	1996-07-31	
+S000004933	ORF	Uncharacterized	YMR316C-A			chromosome 13		13	905973	905662	C		2011-02-03	1996-07-31	Protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; mRNA identified as translated by ribosome profiling data; overlaps the verified gene DIA1/YMR316W
+S000036747	CDS					YMR316C-A		13	905973	905662	C		2011-02-03	1996-07-31	
+S000004936	ORF	Uncharacterized	YMR317W			chromosome 13		13	907364	910786	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; has some similarity to sialidase from Trypanosoma; YMR317W is not an essential gene
+S000031682	CDS					YMR317W		13	907364	910786	W		2011-02-03	1996-07-31|2011-02-03	
+S000004934	ORF	Dubious	YMR316C-B			chromosome 13		13	907629	907321	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps 5' end of ORF YMR317W
+S000036748	CDS					YMR316C-B		13	907629	907321	C		2011-02-03	1996-07-31	
+S000004937	ORF	Verified	YMR318C	ADH6	NADP-dependent alcohol dehydrogenase|ADHVI	chromosome 13		13	912143	911061	C		2011-02-03	1996-07-31	NADPH-dependent medium chain alcohol dehydrogenase; has broad substrate specificity; member of the cinnamyl family of alcohol dehydrogenases; may be involved in fusel alcohol synthesis or in aldehyde tolerance; protein abundance increases in response to DNA replication stress
+S000031726	CDS					YMR318C		13	912143	911061	C		2011-02-03	1996-07-31	
+S000004938	ORF	Verified	YMR319C	FET4		chromosome 13	L000000611	13	914538	912880	C		2011-02-03	1996-07-31	Low-affinity Fe(II) transporter of the plasma membrane
+S000031875	CDS					YMR319C		13	914538	912880	C		2011-02-03	1996-07-31	
+S000004939	ORF	Uncharacterized	YMR320W			chromosome 13		13	916746	917051	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YMR320W is not an essential gene
+S000036413	CDS					YMR320W		13	916746	917051	W		2011-02-03	1996-07-31	
+S000004940	ORF	Uncharacterized	YMR321C			chromosome 13		13	917896	917579	C		2011-02-03	1996-07-31	Putative protein of unknown function; proposed to be a palmitoylated membrane protein; YMR321C has a paralog, SAM4, that arose from a single-locus duplication
+S000036437	CDS					YMR321C		13	917896	917579	C		2011-02-03	1996-07-31	
+S000130193	ARS		ARS1333			chromosome 13		13	917896	918366			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000004941	ORF	Verified	YMR322C	SNO4	glutathione-independent methylglyoxalase family protein|HSP34	chromosome 13		13	919079	918366	C		2011-02-03	1996-07-31	Possible chaperone and cysteine protease; required for transcriptional reprogramming during the diauxic shift and for survival in stationary phase; similar to bacterial Hsp31 and yeast Hsp31p, Hsp32p, and Hsp33p; DJ-1/ThiJ/PfpI superfamily member; predicted involvement in pyridoxine metabolism; induced by mild heat stress and copper deprivation
+S000037082	CDS					YMR322C		13	919079	918366	C		2011-02-03	1996-07-31	
+S000004942	ORF	Verified	YMR323W	ERR3	phosphopyruvate hydratase ERR3	chromosome 13		13	920088	921401	W		2011-02-03	1996-07-31	Enolase, a phosphopyruvate hydratase; catalyzes the conversion of 2-phosphoglycerate to phosphoenolpyruvate; complements the growth defect of an ENO1 ENO2 double mutant in glucose
+S000037230	CDS					YMR323W		13	920088	921401	W		2011-02-03	1996-07-31	
+S000004943	ORF	Dubious	YMR324C			chromosome 13		13	922444	922202	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcription is AZF1 dependent in glycerol-lactate medium and SLT2 dependent in response to the lipid hydroperoxides
+S000037270	CDS					YMR324C		13	922444	922202	C		2011-02-03	1996-07-31	
+S000004944	ORF	Verified	YMR325W	PAU19	seripauperin PAU19	chromosome 13		13	922641	923015	W		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions
+S000037375	CDS					YMR325W		13	922641	923015	W		2011-02-03	1996-07-31	
+S000130194	ARS		ARS1335			chromosome 13		13	923015	923494			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000028989	telomere		TEL13R			chromosome 13		13	923541	924431	W	219	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XIII; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
+S000028990	telomeric_repeat					TEL13R		13	924307	924431	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome XIII
+S000028991	X_element					TEL13R		13	923541	924005	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XIII; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YMR326C
+S000028992	X_element_combinatorial_repeat					TEL13R		13	924006	924306	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XIII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000004945	ORF	Dubious	YMR326C			chromosome 13		13	923802	923494	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the telomere on the right arm of chromosome 13
+S000037400	CDS					YMR326C		13	923802	923494	C		2011-02-03	1996-07-31	
+S000028704	ORF	Dubious	YNL339W-B			chromosome 14		14	734	1216	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032643	CDS					YNL339W-B		14	734	1216	W		2003-07-29	2003-07-29	
+S000028703	ORF	Dubious	YNL339W-A			chromosome 14		14	1517	2092	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032637	CDS					YNL339W-A		14	1517	2092	W		2003-07-29	2003-07-29	
+S000005283	ORF	Verified	YNL339C	YRF1-6	Y' element ATP-dependent helicase protein 1 copy 6|YRF1	chromosome 14		14	6098	371	C		1996-07-31	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
+S000031358	CDS					YNL339C		14	5931	371	C		1996-07-31	1996-07-31	
+S000031357	CDS					YNL339C		14	6098	6080	C		1996-07-31	1996-07-31	
+S000031359	intron					YNL339C		14	6079	5932	C		1996-07-31	1996-07-31	
+S000005282	ORF	Dubious	YNL338W			chromosome 14		14	6561	6719	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps TEL14L-XC, which is a telomeric X element core sequence on the left arm of chromosome XIV
+S000030505	CDS					YNL338W		14	6561	6719	W		1996-07-31	1996-07-31	
+S000005281	ORF	Dubious	YNL337W			chromosome 14		14	7165	7419	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030361	CDS					YNL337W		14	7165	7419	W		1996-07-31	1996-07-31	
+S000028924	telomere		TEL14L			chromosome 14		14	7428	1	C	-238	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XIV; composed of an X element core sequence, X element combinatorial repeats, a short stretch of telomeric repeats, and a long Y' element
+S000028925	telomeric_repeat					TEL14L		14	6691	6618	C		2003-09-09	2003-09-09	Internal telomeric repeats on the left arm of Chromosome XIV; spans ORF YNL338W
+S000028926	X_element					TEL14L		14	7428	6964	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XIV; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YNL337W
+S000028927	X_element_combinatorial_repeat					TEL14L		14	6963	6692	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XIV; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000028928	Y_prime_element					TEL14L		14	6617	1	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome XIV; contains an ARS consensus sequence, a region of 36-bp repeats, and three ORFs (YRF1-6/YNL339C, YNL339W-A, YNL339W-B)
+S000005280	ORF	Verified	YNL336W	COS1		chromosome 14	L000004060	14	8330	9475	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000030202	CDS					YNL336W		14	8330	9475	W		1996-07-31	1996-07-31	
+S000005279	ORF	Verified	YNL335W	DDI3	cyanamide hydratase	chromosome 14		14	11452	12129	W		1996-07-31	1996-07-31	Cyanamide hydratase that detoxifies cyanamide; member of the HD domain metalloprotein superfamily; expression is induced over 100-fold by cyanamide and by SN2-type DNA alkylating agents such as MMS and DMA; induction decreased in rad6 and rad18 mutants; gene and protein are identical to DDI2 and Ddi2p
+S000037479	CDS					YNL335W		14	11452	12129	W		1996-07-31	1996-07-31	
+S000005278	ORF	Verified	YNL334C	SNO2	putative pyridoxal 5'-phosphate synthase	chromosome 14	L000003452	14	12876	12208	C		1996-07-31	1996-07-31	Protein of unknown function; nearly identical to Sno3p; expression is induced before the diauxic shift and also in the absence of thiamin
+S000037293	CDS					YNL334C		14	12876	12208	C		1996-07-31	1996-07-31	
+S000005277	ORF	Verified	YNL333W	SNZ2	pyridoxine biosynthesis protein SNZ2	chromosome 14	L000002576	14	13267	14163	W		1996-07-31	1996-07-31	Member of a stationary phase-induced gene family; transcription of SNZ2 is induced prior to diauxic shift, and also in the absence of thiamin in a Thi2p-dependent manner; forms a coregulated gene pair with SNO2; interacts with Thi11p
+S000037255	CDS					YNL333W		14	13267	14163	W		1996-07-31	1996-07-31	
+S000005276	ORF	Verified	YNL332W	THI12	4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase	chromosome 14	L000003223	14	14832	15854	W		1996-07-31	1996-07-31	Protein involved in synthesis of the thiamine precursor HMP; member of a subtelomeric gene family including THI5, THI11, THI12, and THI13; hydroxymethylpyrimidine is also known as HMP
+S000036570	CDS					YNL332W		14	14832	15854	W		1996-07-31	1996-07-31	
+S000005275	ORF	Verified	YNL331C	AAD14	putative aryl-alcohol dehydrogenase	chromosome 14	L000004676	14	17248	16118	C		1996-07-31	1996-07-31	Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
+S000036424	CDS					YNL331C		14	17248	16118	C		1996-07-31	1996-07-31	
+S000005274	ORF	Verified	YNL330C	RPD3	histone deacetylase RPD3|MOF6|SDS6|SDI2|REC3	chromosome 14	L000001696|L000001603	14	19302	18001	C	-237	1996-07-31	1996-07-31	Histone deacetylase, component of both the Rpd3S and Rpd3L complexes; regulates transcription, silencing, autophagy and other processes by influencing chromatin remodeling; forms at least two different complexes which have distinct functions and members; Rpd3(L) recruitment to the subtelomeric region is regulated by interaction with the arginine methyltransferase, Hmt1p
+S000036315	CDS					YNL330C		14	19302	18001	C		1996-07-31	1996-07-31	
+S000005273	ORF	Verified	YNL329C	PEX6	AAA family ATPase peroxin 6|PAS8	chromosome 14	L000001341	14	22633	19541	C		1996-07-31	1996-07-31	AAA-peroxin; heterodimerizes with AAA-peroxin Pex1p and participates in the recycling of peroxisomal signal receptor Pex5p from the peroxisomal membrane to the cystosol; mutations in human PEX6 can lead to severe peroxisomal disorders and early death
+S000034361	CDS					YNL329C		14	22633	19541	C		1996-07-31	1996-07-31	
+S000005272	ORF	Verified	YNL328C	MDJ2		chromosome 14	L000004357	14	23274	22834	C		1996-07-31	1996-07-31	Constituent of the mitochondrial import motor; associated with the presequence translocase; function overlaps with that of Pam18p; stimulates the ATPase activity of Ssc1p to drive mitochondrial import; contains a J domain
+S000034238	CDS					YNL328C		14	23274	22834	C		1996-07-31	1996-07-31	
+S000005271	ORF	Verified	YNL327W	EGT2		chromosome 14	L000004074	14	24048	27173	W		2011-02-03	1996-07-31|2011-02-03	Glycosylphosphatidylinositol (GPI)-anchored cell wall endoglucanase; required for proper cell separation after cytokinesis; expression is activated by Swi5p and tightly regulated in a cell cycle-dependent manner
+S000034184	CDS					YNL327W		14	24048	27173	W		2011-02-03	1996-07-31|2011-02-03	
+S000005270	ORF	Verified	YNL326C	PFA3	palmitoyltransferase PFA3	chromosome 14		14	28347	27337	C		2011-02-03	1996-07-31	Palmitoyltransferase for Vac8p; required for vacuolar membrane fusion; contains an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; autoacylates; required for vacuolar integrity under stress conditions
+S000033265	CDS					YNL326C		14	28347	27337	C		2011-02-03	1996-07-31	
+S000118382	ARS		ARS1405		ARSXIV-29	chromosome 14		14	28469	28700			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178165	ARS_consensus_sequence					ARS1405		14	28654	28638	C		2014-11-18	2014-11-18	
+S000005268	ORF	Dubious	YNL324W			chromosome 14		14	31050	31445	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033183	CDS					YNL324W		14	31050	31445	W		2011-02-03	1996-07-31	
+S000005269	ORF	Verified	YNL325C	FIG4	phosphatidylinositol-3,5-bisphosphate 5-phosphatase	chromosome 14	L000003583	14	31378	28739	C		2011-02-03	1996-07-31	Phosphatidylinositol 3,5-bisphosphate (PtdIns[3,5]P) phosphatase; required for efficient mating and response to osmotic shock; physically associates with and regulated by Vac14p; contains a SAC1-like domain; homologous to human FIG4, which is associated with CMT4J, a form of Charcot-Marie-Tooth disorder
+S000033213	CDS					YNL325C		14	31378	28739	C		2011-02-03	1996-07-31	
+S000005267	ORF	Verified	YNL323W	LEM3	ROS3|BRE3	chromosome 14		14	31944	33188	W		2011-02-03	1996-07-31	Membrane protein of the plasma membrane and ER; interacts specifically in vivo with the phospholipid translocase (flippase) Dnf1p; involved in translocation of phospholipids and alkylphosphocholine drugs across the plasma membrane; null mutant requires tryptophan due to mislocalization of tryptophan permease Tat2p
+S000033125	CDS					YNL323W		14	31944	33188	W		2011-02-03	1996-07-31	
+S000005266	ORF	Verified	YNL322C	KRE1		chromosome 14	L000000912	14	34235	33294	C	-235	2011-02-03	1996-07-31	Cell wall glycoprotein involved in beta-glucan assembly; serves as a K1 killer toxin membrane receptor
+S000032211	CDS					YNL322C		14	34235	33294	C		2011-02-03	1996-07-31	
+S000005265	ORF	Verified	YNL321W	VNX1		chromosome 14		14	34696	37422	W		2011-02-03	1996-07-31	Calcium/H+ antiporter localized to the endoplasmic reticulum membrane; member of the calcium exchanger (CAX) family; potential Cdc28p substrate
+S000032167	CDS					YNL321W		14	34696	37422	W		2011-02-03	1996-07-31	
+S000005264	ORF	Uncharacterized	YNL320W			chromosome 14		14	37700	38554	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000032112	CDS					YNL320W		14	37700	38554	W		2011-02-03	1996-07-31	
+S000005263	ORF	Dubious	YNL319W			chromosome 14		14	38642	39082	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene HXT14
+S000031153	CDS					YNL319W		14	38642	39082	W		2011-02-03	1996-07-31	
+S000005262	ORF	Verified	YNL318C	HXT14		chromosome 14	L000002762	14	40329	38707	C		2011-02-03	1996-07-31	Protein with similarity to hexose transporter family members; expression is induced in low glucose and repressed in high glucose; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000030981	CDS					YNL318C		14	40329	38707	C		2011-02-03	1996-07-31	
+S000005261	ORF	Verified	YNL317W	PFS2	cleavage polyadenylation factor subunit PFS2	chromosome 14		14	40619	42016	W		2011-02-03	1996-07-31	Integral subunit of the pre-mRNA CPF complex; the cleavage and polyadenylation factor (CPF) complex plays an essential role in mRNA 3'-end formation by bridging different processing factors and thereby promoting the assembly of the processing complex
+S000030052	CDS					YNL317W		14	40619	42016	W		2011-02-03	1996-07-31	
+S000005260	ORF	Verified	YNL316C	PHA2	prephenate dehydratase PHA2	chromosome 14	L000001414	14	43075	42071	C	-227	2011-02-03	2003-09-22|1996-07-31	Prephenate dehydratase; catalyzes the conversion of prephanate to phenylpyruvate, which is a step in the phenylalanine biosynthesis pathway
+S000029856	CDS					YNL316C		14	43075	42071	C		2011-02-03	2003-09-22|1996-07-31	
+S000005259	ORF	Verified	YNL315C	ATP11		chromosome 14	L000000148	14	44280	43324	C		2011-02-03	1996-07-31	Molecular chaperone; required for the assembly of alpha and beta subunits into the F1 sector of mitochondrial F1F0 ATP synthase; N-terminally propionylated in vivo
+S000037828	CDS					YNL315C		14	44280	43324	C		2011-02-03	1996-07-31	
+S000005258	ORF	Verified	YNL314W	DAL82	DURM	chromosome 14	L000000482	14	44447	45214	W		2011-02-03	1996-07-31	Positive regulator of allophanate inducible genes; binds a dodecanucleotide sequence upstream of all genes that are induced by allophanate; contains an UISALL DNA-binding, a transcriptional activation, and a coiled-coil domain
+S000037152	CDS					YNL314W		14	44447	45214	W		2011-02-03	1996-07-31	
+S000005257	ORF	Verified	YNL313C	EMW1	tetratricopeptide repeat-containing protein EMW1	chromosome 14		14	48022	45308	C		2011-02-03	1996-07-31	Essential conserved protein with a role in cell wall integrity; contains six TPR (tetratricopeptide repeat) domains clustered in the C-terminal region; conditional mutant is suppressed by overexpression of GFA1; protein abundance increases in response to DNA replication stress
+S000037005	CDS					YNL313C		14	48022	45308	C		2011-02-03	1996-07-31	
+S000005256	ORF	Verified	YNL312W	RFA2	RPA32|RPA2|BUF1	chromosome 14	L000000203|L000001621	14	48287	49216	W		2011-02-03	1996-07-31	Subunit of heterotrimeric Replication Protein A (RPA); RPA is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination; RPA protects against inappropriate telomere recombination, and upon telomere uncapping, prevents cell proliferation by a checkpoint-independent pathway; in concert with Sgs1p-Top2p-Rmi1p, stimulates DNA catenation/decatenation activity of Top3p; protein abundance increases in response to DNA replication s
+S000036978	CDS					YNL312W		14	48287	48293	W		2011-02-03	1996-07-31	
+S000036979	CDS					YNL312W		14	48402	49216	W		2011-02-03	1996-07-31	
+S000036980	intron					YNL312W		14	48294	48401	W		2011-02-03	1996-07-31	
+S000005255	ORF	Verified	YNL311C	SKP2	putative SCF ubiquitin ligase complex subunit SKP2	chromosome 14		14	51688	49397	C		2011-02-03	1996-07-31	F-box protein of unknown function; predicted to be part of an SCF ubiquitin protease complex; involved in regulating protein levels of sulfur metabolism enzymes; may interact with ribosomes, based on co-purification experiments
+S000036212	CDS					YNL311C		14	51688	49397	C		2011-02-03	1996-07-31	
+S000005254	ORF	Verified	YNL310C	ZIM17	HEP1|TIM15|FMP28	chromosome 14		14	52431	51907	C		2011-02-03	1996-07-31|2006-05-10	Protein co-chaperone with a zinc finger motif; essential for protein import into mitochondria; may act with Pam18p to facilitate recognition and folding of imported proteins by Ssc1p (mtHSP70) in the mitochondrial matrix; required for the maintenance of Ssc1p solubility and assists in the functional interaction of Ssc1p with substrate proteins
+S000036042	CDS					YNL310C		14	52431	51907	C		2011-02-03	1996-07-31|2006-05-10	
+S000005253	ORF	Verified	YNL309W	STB1		chromosome 14	L000002107	14	52662	53924	W		2011-02-03	2003-09-22|1996-07-31	Protein with role in regulation of MBF-specific transcription at Start; phosphorylated by Cln-Cdc28p kinases in vitro; unphosphorylated form binds Swi6p, which is required for Stb1p function; expression is cell-cycle regulated; STB1 has a paralog, YOL131W, that arose from the whole genome duplication
+S000035181	CDS					YNL309W		14	52662	53924	W		2011-02-03	2003-09-22|1996-07-31	
+S000005252	ORF	Verified	YNL308C	KRI1		chromosome 14	S000007481	14	55897	54122	C		2011-02-03	1996-07-31	Essential nucleolar protein required for 40S ribosome biogenesis; associate with snR30; physically and functionally interacts with Krr1p
+S000034918	CDS					YNL308C		14	55897	54122	C		2011-02-03	1996-07-31	
+S000005251	ORF	Verified	YNL307C	MCK1	serine/threonine/tyrosine protein kinase MCK1|CMS1|YPK1	chromosome 14	L000001036|S000029094|L000000369	14	57573	56446	C		1996-07-31	1996-07-31	Dual-specificity ser/thr and tyrosine protein kinase; roles in chromosome segregation, meiotic entry, genome stability, phosphorylation-dependent protein degradation (Rcn1p and Cdc6p), inhibition of protein kinase A, transcriptional regulation, inhibition of RNA pol III, calcium stress and inhibition of Clb2p-Cdc28p after nuclear division; MCK1 has a paralog, YGK3, that arose from the whole genome duplication
+S000034016	CDS					YNL307C		14	57573	56446	C		1996-07-31	1996-07-31	
+S000005250	ORF	Verified	YNL306W	MRPS18	mitochondrial 37S ribosomal protein YmS18|YmS18	chromosome 14		14	58155	58808	W		1996-07-31	1996-07-31	Mitochondrial ribosomal protein of the small subunit; essential for viability, unlike most other mitoribosomal proteins
+S000033967	CDS					YNL306W		14	58155	58808	W		1996-07-31	1996-07-31	
+S000005249	ORF	Verified	YNL305C	BXI1	YBH3	chromosome 14		14	59791	58898	C		1996-07-31	1996-07-31	Protein involved in apoptosis; variously described as containing a BCL-2 homology (BH3) domain or as a member of the BAX inhibitor family; reported to promote apoptosis under some conditions and to inhibit it in others; localizes to ER and vacuole; may link the unfolded protein response to apoptosis via regulation of calcium-mediated signaling; translocates to mitochondria under apoptosis-inducing conditions in a process involving Mir1p and Cor1p
+S000033769	CDS					YNL305C		14	59791	58898	C		1996-07-31	1996-07-31	
+S000005248	ORF	Verified	YNL304W	YPT11	Rab family GTPase YPT11	chromosome 14		14	60297	61550	W		2005-11-07	1996-07-31|2005-11-07	Rab GTPase; Myo2p-binding protein implicated in mother-to-bud transport of cortical endoplasmic reticulum (ER), late Golgi, and mitochondria during cell division; function is regulated at multiple levels; abundance of active Ypt11p forms is controlled by phosphorylation status and degradation; normally a low-abundance protein whose ER localization is only detected when protein is highly over expressed
+S000033723	CDS					YNL304W		14	60297	61550	W		2005-11-07	1996-07-31|2005-11-07	
+S000005247	ORF	Dubious	YNL303W			chromosome 14		14	61510	61857	W		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033069	CDS					YNL303W		14	61510	61857	W		2005-11-07	1996-07-31	
+S000118383	ARS		ARS1406		ARSXIV-62	chromosome 14		14	61599	61895			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000178166	ARS_consensus_sequence					ARS1406		14	61694	61710	W		2014-11-18	2014-11-18	
+S000005246	ORF	Verified	YNL302C	RPS19B	eS19|ribosomal 40S subunit protein S19B|S19e|rp55B|YS16B|S19B|S16aB|RP55B	chromosome 14	L000002703|L000002725	14	62943	61958	C		2005-11-07	1996-07-31	Protein component of the small (40S) ribosomal subunit; required for assembly and maturation of pre-40 S particles; homologous to mammalian ribosomal protein S19, no bacterial homolog; mutations in human RPS19 are associated with Diamond Blackfan anemia; RPS19B has a paralog, RPS19A, that arose from the whole genome duplication
+S000032915	CDS					YNL302C		14	62372	61958	C		2005-11-07	1996-07-31	
+S000032914	CDS					YNL302C		14	62943	62924	C		2005-11-07	1996-07-31	
+S000032916	intron					YNL302C		14	62923	62373	C		2005-11-07	1996-07-31	
+S000005245	ORF	Verified	YNL301C	RPL18B	eL18|ribosomal 60S subunit protein L18B|L18e|rp28B|L18B|RP28B	chromosome 14	L000002702	14	64562	63570	C		2005-11-07	1996-07-31	Ribosomal 60S subunit protein L18B; homologous to mammalian ribosomal protein L18, no bacterial homolog; RPL18B has a paralog, RPL18A, that arose from the whole genome duplication
+S000032846	CDS					YNL301C		14	64018	63570	C		2005-11-07	1996-07-31	
+S000032845	CDS					YNL301C		14	64562	64451	C		2005-11-07	1996-07-31	
+S000032847	intron					YNL301C		14	64450	64019	C		2005-11-07	1996-07-31	
+S000005244	ORF	Uncharacterized	YNL300W	TOS6		chromosome 14		14	65744	66052	W		2005-11-07	1996-07-31	Glycosylphosphatidylinositol-dependent cell wall protein; expression is periodic and decreases in respone to ergosterol perturbation or upon entry into stationary phase; depletion increases resistance to lactic acid
+S000032776	CDS					YNL300W		14	65744	66052	W		2005-11-07	1996-07-31	
+S000005243	ORF	Verified	YNL299W	TRF5	non-canonical poly(A) polymerase TRF5	chromosome 14	L000003385	14	66517	68445	W		2005-11-07	1996-07-31|2005-11-03	Non-canonical poly(A) polymerase; involved in nuclear RNA degradation as a component of the TRAMP complex; catalyzes polyadenylation of hypomodified tRNAs, and snoRNA and rRNA precursors; overlapping but non-redundant functions with Pap2p
+S000035690	CDS					YNL299W		14	66517	68445	W		2005-11-07	1996-07-31|2005-11-03	
+S000005242	ORF	Verified	YNL298W	CLA4	serine/threonine protein kinase CLA4|ERC10	chromosome 14	L000000564|L000002643	14	68915	71443	W		2005-11-07	1996-07-31	Cdc42p-activated signal transducing kinase; member of the PAK (p21-activated kinase) family, along with Ste20p and Skm1p; involved in septin ring assembly, vacuole inheritance, cytokinesis, sterol uptake regulation; phosphorylates Cdc3p and Cdc10p; CLA4 has a paralog, SKM1, that arose from the whole genome duplication
+S000035601	CDS					YNL298W		14	68915	71443	W		2005-11-07	1996-07-31	
+S000005240	ORF	Dubious	YNL296W			chromosome 14		14	76273	76587	W		2005-11-07	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; deletion adversely affects sporulation; deletion mutant exhibits synthetic phenotype under expression of mutant huntingtin fragment, but gene does not have human ortholog
+S000034476	CDS					YNL296W		14	76273	76587	W		2005-11-07	1996-07-31	
+S000005241	ORF	Verified	YNL297C	MON2	YSL2	chromosome 14		14	76583	71673	C		2005-11-07	1996-07-31	Protein with a role in endocytosis and vacuole integrity; peripheral membrane protein; interacts with and negatively regulates Arl1p; localizes to the endosome; member of the Sec7p family of proteins
+S000034548	CDS					YNL297C		14	76583	71673	C		2005-11-07	1996-07-31	
+S000005239	ORF	Uncharacterized	YNL295W	MRX6		chromosome 14		14	76946	78520	W		2005-11-07	1996-07-31	Protein that associates with mitochondrial ribosome
+S000034395	CDS					YNL295W		14	76946	78520	W		2005-11-07	1996-07-31	
+S000005238	ORF	Verified	YNL294C	RIM21	PAL2	chromosome 14		14	80260	78659	C		2005-11-07	1996-07-31	pH sensor molecule, component of the RIM101 pathway; has a role in cell wall construction and alkaline pH response; is glycosylated and phosphorylated; interacts with Dfg16p and Rim9p to form a pH-sensing complex; localization to the plasma membrane is dependent on Dfg16p and Rim9p; has similarity to A. nidulans PalH
+S000033436	CDS					YNL294C		14	80260	78659	C		2005-11-07	1996-07-31	
+S000005237	ORF	Verified	YNL293W	MSB3	Rab GTPase-activating protein MSB3|GYP3	chromosome 14	L000003918	14	80640	82541	W		2005-11-07	1996-07-31	Rab GTPase-activating protein; regulates endocytosis via inactivation of Vps21p at endosomes and vacuole fusion via inactivation of Ypt7p at vacuoles; also acts on Ypt52p and Sec4p; localizes to plasma membrane, sites of polarized growth; relocalizes from bud neck to cytoplasm upon DNA replication stress; similar to TBC-domain Tre2 oncogene; MSB3 has a paralog, MSB4, that arose from the whole genome duplication; human homolog USP6NL can complement yeast msb3 msb4 double null
+S000033388	CDS					YNL293W		14	80640	82541	W		2005-11-07	1996-07-31	
+S000005236	ORF	Verified	YNL292W	PUS4	pseudouridine synthase PUS4	chromosome 14	L000003347	14	82806	84017	W		2005-11-07	1996-07-31	Pseudouridine synthase; catalyzes only the formation of pseudouridine-55 (Psi55), a highly conserved tRNA modification, in mitochondrial and cytoplasmic tRNAs; also responsible for pseudouracil modification of some mRNAs; PUS4 overexpression leads to translational derepression of GCN4 (Gcd- phenotype)
+S000033311	CDS					YNL292W		14	82806	84017	W		2005-11-07	1996-07-31	
+S000005235	ORF	Verified	YNL291C	MID1		chromosome 14	L000002584	14	85815	84169	C		2005-11-07	1996-07-31	N-glycosylated integral membrane protein of the ER and plasma membrane; functions as a stretch-activated Ca2+-permeable cation channel required for Ca2+ influx stimulated by pheromone; interacts with Cch1p; forms an oligomer
+S000033221	CDS					YNL291C		14	85815	84169	C		2005-11-07	1996-07-31	
+S000005234	ORF	Verified	YNL290W	RFC3	replication factor C subunit 3	chromosome 14	L000001624	14	86218	87240	W		2005-11-07	1996-07-31	Subunit of heteropentameric Replication factor C (RF-C); which is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon; relocalizes to the cytosol in response to hypoxia
+S000032410	CDS					YNL290W		14	86218	87240	W		2005-11-07	1996-07-31	
+S000005233	ORF	Verified	YNL289W	PCL1	HCS26	chromosome 14	L000002783	14	87897	88736	W		2005-11-07	1996-07-31	Cyclin, interacts with cyclin-dependent kinase Pho85p; member of the Pcl1,2-like subfamily, involved in the regulation of polarized growth and morphogenesis and progression through the cell cycle; is ubiquitinated by Dma1p; phosphorylation by Pho85p targets it for degradation; localizes to sites of polarized cell growth
+S000032399	CDS					YNL289W		14	87897	88736	W		2005-11-07	1996-07-31	
+S000007304	snoRNA_gene		snR40	SNR40		chromosome 14	L000003055	14	89210	89306	W		2005-11-07	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U898 and small subunit (SSU) rRNA at position G1271
+S000030610	noncoding_exon					snR40		14	89210	89306	W		2005-11-07	2000-05-19	
+S000118384	ARS		ARS1407		ARSXIV-90	chromosome 14		14	89531	89804			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000178167	ARS_consensus_sequence					ARS1407		14	89755	89739	C		2014-11-18	2014-11-18	
+S000005232	ORF	Verified	YNL288W	CAF40	CCR4-NOT core subunit CAF40	chromosome 14		14	90303	91424	W		2005-11-07	1996-07-31	Component of the CCR4-NOT transcriptional complex; evolutionarily conserved; involved in controlling mRNA initiation, elongation, and degradation; binds Cdc39p
+S000031389	CDS					YNL288W		14	90303	91424	W		2005-11-07	1996-07-31	
+S000005231	ORF	Verified	YNL287W	SEC21	coatomer subunit gamma	chromosome 14	L000001844	14	91994	94801	W		2005-11-07	1996-07-31	Gamma subunit of coatomer; coatomer is a heptameric protein complex that together with Arf1p forms the COPI coat; involved in ER to Golgi transport of selective cargo
+S000031285	CDS					YNL287W		14	91994	94801	W		2005-11-07	1996-07-31	
+S000005230	ORF	Verified	YNL286W	CUS2	U2 snRNP complex subunit CUS2	chromosome 14	L000003273	14	95223	96080	W		2005-11-07	1996-07-31	Putative checkpoint factor in transcription; binds to U2 snRNA and Prp11p; regulates toggling of the U2 snRNA stem II region between different structures; contains two RNA recognition motifs (RRMs)
+S000031155	CDS					YNL286W		14	95223	96080	W		2005-11-07	1996-07-31	
+S000005229	ORF	Dubious	YNL285W			chromosome 14		14	96173	96544	W		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030192	CDS					YNL285W		14	96173	96544	W		2005-11-07	1996-07-31	
+S000130140	ARS		ARS1409			chromosome 14		14	96247	96463			2009-05-06	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000006591	tRNA_gene		tG(UCC)N	SUF6		chromosome 14	L000003700|L000002154	14	96312	96241	C	-192	2005-11-07	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
+S000037566	noncoding_exon					tG(UCC)N		14	96312	96241	C		2005-11-07	2000-05-19	
+S000007140	long_terminal_repeat		YNLWtau1			chromosome 14		14	96451	96609	W		2005-11-07	2000-05-19	Ty4 LTR
+S000007129	long_terminal_repeat		YNLCdelta1			chromosome 14		14	96941	96610	C		2005-11-07	2000-05-19	Ty1 LTR
+S000007387	transposable_element_gene		YNL284C-B		gag-pol fusion protein	chromosome 14	S000029017	14	102232	96964	C		2005-11-07	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000031728	CDS					YNL284C-B		14	100926	96964	C		2005-11-07	1999-07-17	
+S000031727	CDS					YNL284C-B		14	102232	100928	C		2005-11-07	1999-07-17	
+S000031729	plus_1_translational_frameshift					YNL284C-B		14	100927	100927	C		2005-11-07	1999-07-17	
+S000007386	transposable_element_gene		YNL284C-A		gag protein	chromosome 14		14	102232	100910	C		2005-11-07	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000031717	CDS					YNL284C-A		14	102232	100910	C		2005-11-07	1999-07-17	
+S000007134	LTR_retrotransposon		YNLCTy1-1		Ty1	chromosome 14		14	102523	96610	C		2005-11-07	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007130	long_terminal_repeat		YNLCdelta2			chromosome 14		14	102523	102192	C		2005-11-07	2000-05-19	Ty1 LTR
+S000007133	long_terminal_repeat		YNLCsigma1			chromosome 14		14	102700	102632	C		2005-11-07	2000-05-19	Ty3 LTR
+S000006673	tRNA_gene		tN(GUU)N1			chromosome 14	L000003687	14	102716	102789	W		2005-11-07	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000035559	noncoding_exon					tN(GUU)N1		14	102716	102789	W		2005-11-07	2000-05-19	
+S000005228	ORF	Verified	YNL284C	MRPL10	mitochondrial 54S ribosomal protein YmL10/YmL18|YmL10|YmL18|MRPL18	chromosome 14	L000002689|S000029308|L000002685	14	104102	103134	C		2005-11-07	1996-07-31	Mitochondrial ribosomal protein of the large subunit; appears as two protein spots (YmL10 and YmL18) on two-dimensional SDS gels
+S000029964	CDS					YNL284C		14	104102	103134	C		2005-11-07	1996-07-31	
+S000006744	tRNA_gene		tT(AGU)N1			chromosome 14	L000003688	14	104805	104877	W		2005-11-07	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000037414	noncoding_exon					tT(AGU)N1		14	104805	104877	W		2005-11-07	2000-05-19	
+S000005227	ORF	Verified	YNL283C	WSC2	STA3	chromosome 14	L000004217	14	106695	105184	C		2005-11-07	1996-07-31	Sensor-transducer of the stress-activated PKC1-MPK1 signaling pathway; involved in maintenance of cell wall integrity and recovery from heat shock; required for the arrest of secretion response; WSC2 has a paralog, WSC3, that arose from the whole genome duplication
+S000037312	CDS					YNL283C		14	106695	105184	C		2005-11-07	1996-07-31	
+S000005226	ORF	Verified	YNL282W	POP3		chromosome 14	L000004338	14	107687	108274	W		2005-11-07	1996-07-31	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; relocalizes to the cytosol in response to hypoxia
+S000037263	CDS					YNL282W		14	107687	108274	W		2005-11-07	1996-07-31	
+S000005225	ORF	Verified	YNL281W	HCH1		chromosome 14	L000004817	14	108467	108928	W		2005-11-07	1996-07-31	Heat shock protein regulator; binds to Hsp90p and may stimulate ATPase activity; originally identified as a high-copy number suppressor of a HSP90 loss-of-function mutation; role in regulating Hsp90 inhibitor drug sensitivity; GFP-fusion protein localizes to the cytoplasm and nucleus; protein abundance increases in response to DNA replication stress
+S000037163	CDS					YNL281W		14	108467	108928	W		2005-11-07	1996-07-31	
+S000005224	ORF	Verified	YNL280C	ERG24	delta(14)-sterol reductase	chromosome 14	L000000580	14	110411	109095	C		2005-11-07	1996-07-31	C-14 sterol reductase; acts in ergosterol biosynthesis; mutants accumulate the abnormal sterol ignosterol (ergosta-8,14 dienol), and are viable under anaerobic growth conditions but inviable on rich medium under aerobic conditions
+S000037018	CDS					YNL280C		14	110411	109095	C		2005-11-07	1996-07-31	
+S000005223	ORF	Verified	YNL279W	PRM1	pheromone-regulated protein PRM1	chromosome 14		14	110917	112902	W		2005-11-07	1996-07-31	Pheromone-regulated multispanning membrane protein; involved in membrane fusion during mating; predicted to have 5 transmembrane segments and a coiled coil domain; localizes to the shmoo tip; regulated by Ste12p
+S000035312	CDS					YNL279W		14	110917	112902	W		2005-11-07	1996-07-31	
+S000005222	ORF	Verified	YNL278W	CAF120		chromosome 14		14	113271	116453	W		2005-11-07	1996-07-31	Part of the CCR4-NOT transcriptional regulatory complex; involved in controlling mRNA initiation, elongation, and degradation; contains a PH-like domain; CAF120 has a paralog, SKG3, that arose from the whole genome duplication
+S000035145	CDS					YNL278W		14	113271	116453	W		2005-11-07	1996-07-31	
+S000028852	ORF	Uncharacterized	YNL277W-A			chromosome 14		14	116679	116867	W		2005-11-07	2003-07-29	Putative protein of unknown function
+S000034565	CDS					YNL277W-A		14	116679	116867	W		2005-11-07	2003-07-29	
+S000005221	ORF	Verified	YNL277W	MET2	homoserine O-acetyltransferase	chromosome 14	L000001077	14	117349	118809	W	-187	2005-11-07	1996-07-31	L-homoserine-O-acetyltransferase; catalyzes the conversion of homoserine to O-acetyl homoserine which is the first step of the methionine biosynthetic pathway
+S000034987	CDS					YNL277W		14	117349	118809	W		2005-11-07	1996-07-31	
+S000005220	ORF	Dubious	YNL276C			chromosome 14		14	118826	118431	C		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene MET2/YNL277W
+S000033996	CDS					YNL276C		14	118826	118431	C		2005-11-07	1996-07-31	
+S000005219	ORF	Verified	YNL275W	BOR1		chromosome 14		14	119268	120998	W		2005-11-07	1996-07-31	Boron efflux transporter of the plasma membrane; binds HCO3-, I-, Br-, NO3- and Cl-; has similarity to the characterized boron efflux transporter A. thaliana BOR1
+S000033936	CDS					YNL275W		14	119268	120998	W		2005-11-07	1996-07-31	
+S000005218	ORF	Verified	YNL274C	GOR1	glyoxylate reductase	chromosome 14		14	122170	121118	C		2005-11-07	1996-07-31	Glyoxylate reductase; null mutation results in increased biomass after diauxic shift; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress
+S000033106	CDS					YNL274C		14	122170	121118	C		2005-11-07	1996-07-31	
+S000005217	ORF	Verified	YNL273W	TOF1		chromosome 14	L000004244	14	122883	126599	W		2005-11-07	1996-07-31	Subunit of a replication-pausing checkpoint complex; Tof1p-Mrc1p-Csm3p acts at the stalled replication fork to promote sister chromatid cohesion after DNA damage, facilitating gap repair of damaged DNA; interacts with the MCM helicase; relocalizes to the cytosol in response to hypoxia
+S000033053	CDS					YNL273W		14	122883	126599	W		2005-11-07	1996-07-31	
+S000130141	ARS		ARS1410			chromosome 14		14	126599	126805			2009-05-06	2009-05-06	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
+S000005216	ORF	Verified	YNL272C	SEC2	guanine nucleotide exchange factor SEC2	chromosome 14	L000001828	14	129084	126805	C	-176	2005-11-07	1996-07-31	Guanyl-nucleotide exchange factor for the small G-protein Sec4p; essential for post-Golgi vesicle transport and for autophagy; associates with the exocyst, via exocyst subunit Sec15p, on secretory vesicles
+S000032904	CDS					YNL272C		14	129084	126805	C		2005-11-07	1996-07-31	
+S000005215	ORF	Verified	YNL271C	BNI1	formin BNI1|SHE5|PPF3	chromosome 14	L000000190	14	135383	129522	C		2011-02-03	1996-07-31|2011-02-03	Formin; polarisome component; nucleates the formation of linear actin filaments, involved in cell processes such as budding and mitotic spindle orientation which require the formation of polarized actin cables; recruited to the division site in a Glc7p/Ref2p dependent manner following release of Bnr1p; functionally redundant with BNR1
+S000032829	CDS					YNL271C		14	135383	129522	C		2011-02-03	1996-07-31|2011-02-03	
+S000005214	ORF	Verified	YNL270C	ALP1	arginine permease ALP1|APL1	chromosome 14	L000000080	14	137661	135940	C		2011-02-03	1996-07-31	Arginine transporter; expression is normally very low and it is unclear what conditions would induce significant expression; ALP1 has a paralog, CAN1, that arose from the whole genome duplication
+S000031915	CDS					YNL270C		14	137661	135940	C		2011-02-03	1996-07-31	
+S000005213	ORF	Verified	YNL269W	BSC4		chromosome 14		14	137699	138094	W		2011-02-03	1996-07-31	Protein of unknown function; protein-coding gene that evolved de novo via a series of point mutations in noncoding sequence; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; readthrough is increased upon depletion of Sup35p; may be involved in DNA repair pathway during stationary phase and contribute to robustness of cells when shifted to a nutrient-poor environment
+S000032644	CDS					YNL269W		14	137699	138094	W		2011-02-03	1996-07-31	
+S000005212	ORF	Verified	YNL268W	LYP1	lysine permease	chromosome 14	L000000963	14	138550	140385	W		2011-02-03	1996-07-31	Lysine permease; one of three amino acid permeases (Alp1p, Can1p, Lyp1p) responsible for uptake of cationic amino acids
+S000031660	CDS					YNL268W		14	138550	140385	W		2011-02-03	1996-07-31	
+S000005211	ORF	Verified	YNL267W	PIK1	1-phosphatidylinositol 4-kinase|PIK120|PIK41	chromosome 14	L000001439|L000001438	14	140878	144078	W		2011-02-03	1996-07-31	Phosphatidylinositol 4-kinase; catalyzes first step in the biosynthesis of phosphatidylinositol-4,5-biphosphate; may control cytokinesis through the actin cytoskeleton; may control nonselective autophagy and mitophagy through trafficking of Atg9p
+S000031530	CDS					YNL267W		14	140878	144078	W		2011-02-03	1996-07-31	
+S000005210	ORF	Dubious	YNL266W			chromosome 14		14	144245	144664	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF IST1/YNL265C
+S000031404	CDS					YNL266W		14	144245	144664	W		2011-02-03	1996-07-31	
+S000005209	ORF	Verified	YNL265C	IST1		chromosome 14		14	145281	144280	C		2011-02-03	1996-07-31	Protein with positive role in the multivesicular body sorting pathway; functions and forms a complex with Did2p; recruitment to endosomes is mediated by the Vps2p-Vps24p subcomplex of ESCRT-III; also interacts with Vps4p
+S000030432	CDS					YNL265C		14	145149	144280	C		2011-02-03	1996-07-31	
+S000030431	CDS					YNL265C		14	145281	145255	C		2011-02-03	1996-07-31	
+S000030433	intron					YNL265C		14	145254	145150	C		2011-02-03	1996-07-31	
+S000005208	ORF	Verified	YNL264C	PDR17	phosphatidylinositol transporter|SFH4|ISS1	chromosome 14	L000004780	14	146615	145563	C		2011-02-03	1996-07-31	Phosphatidylinositol transfer protein (PITP); downregulates Plb1p-mediated turnover of phosphatidylcholine; forms a complex with Psd2p which appears essential for maintenance of vacuolar PE levels; found in the cytosol and microsomes; homologous to Pdr16p; deletion affects phospholipid composition
+S000030276	CDS					YNL264C		14	146615	145563	C		2011-02-03	1996-07-31	
+S000005207	ORF	Verified	YNL263C	YIF1		chromosome 14	L000004141|L000003364	14	147840	146896	C		2011-02-03	1996-07-31	Integral membrane protein; required for the fusion of ER-derived COPII transport vesicles with the Golgi; interacts with Yip1p and Yos1p; localizes to the Golgi, the ER, and COPII vesicles; homolog of human YIPF3
+S000037532	CDS					YNL263C		14	147840	146896	C		2011-02-03	1996-07-31	
+S000005206	ORF	Verified	YNL262W	POL2	DNA polymerase epsilon catalytic subunit|DUN2	chromosome 14	L000001461	14	148212	154880	W	-170	2011-02-03	1996-07-31	Catalytic subunit of DNA polymerase (II) epsilon; a chromosomal DNA replication polymerase that exhibits processivity and proofreading exonuclease activity; participates in leading-strand synthesis during DNA replication; also involved in DNA synthesis during DNA repair; interacts extensively with Mrc1p
+S000037477	CDS					YNL262W		14	148212	154880	W		2011-02-03	1996-07-31	
+S000005205	ORF	Verified	YNL261W	ORC5	origin recognition complex subunit 5	chromosome 14	L000002814	14	155100	156539	W		2011-02-03	1996-07-31	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing
+S000037358	CDS					YNL261W		14	155100	156539	W		2011-02-03	1996-07-31	
+S000005204	ORF	Verified	YNL260C	LTO1	ribosome biosynthesis protein LTO1	chromosome 14		14	157455	156859	C		2011-02-03	1996-07-31	Essential protein that forms a complex with Rli1p and Yae1p; ortholog of human ORAOV1, which is overexpressed in solid tumors; inviability of null mutant under standard conditions is complemented by overexpression of ORAOV1; essential for growth under standard (aerobic) conditions but not under anaerobic conditions; may have a role in protection of ribosomal assembly and function from damage due to reactive oxygen species
+S000036594	CDS					YNL260C		14	157455	156859	C		2011-02-03	1996-07-31	
+S000005203	ORF	Verified	YNL259C	ATX1	copper metallochaperone ATX1	chromosome 14	L000000155	14	157865	157644	C		2011-02-03	1996-07-31	Cytosolic copper metallochaperone; transports copper to the secretory vesicle copper transporter Ccc2p for eventual insertion into Fet3p, which is a multicopper oxidase required for high-affinity iron uptake; human homolog ATOX1 can complement yeast atx1 mutant; overexpression of human ATOX1 suppresses lysine auxotrophy of the yeast sod1 null mutant, as does overexpression of yeast ATX1
+S000035583	CDS					YNL259C		14	157865	157644	C		2011-02-03	1996-07-31	
+S000005202	ORF	Verified	YNL258C	DSL1	RNS1	chromosome 14	L000004950	14	160373	158109	C		2011-02-03	1996-07-31	Peripheral membrane protein needed for Golgi-to-ER retrograde traffic; mediates Sey1p-independent homotypic ER fusion; forms Dsl1 tethering complex with Sec39p and Tip20p that forms a stable complex with ER SNAREs Sec20p, Ufe1p and Use1p and is functionally conserved from yeast to mammalian cells; component of the ER target site that interacts with coatomer; interacts with different subunits of COPI vesicle coat; interacts with Cin5p; homolog of fly and human ZW10 gene
+S000035489	CDS					YNL258C		14	160373	158109	C		2011-02-03	1996-07-31	
+S000005201	ORF	Verified	YNL257C	SIP3	LAM3	chromosome 14	L000001892	14	164320	160631	C		2011-02-03	1996-07-31	Putative sterol transfer protein; has a probable role in retrograde transport of sterols from the plasma membrane to the ER; co-localizes to puncta in the cortical ER with Ysp2p; contains GRAM, StART-like (VASt) and two PH-like domains; one of 6 StART-like domain-containing proteins in yeast that may be involved in sterol transfer between intracellular membranes; conserved across eukaryotes; previously identified as a transcription cofactor that interacts with DNA-bound Snf1p
+S000035355	CDS					YNL257C		14	164320	160631	C		2011-02-03	1996-07-31	
+S000005200	ORF	Verified	YNL256W	FOL1	trifunctional dihydropteroate synthetase/dihydrohydroxymethylpterin pyrophosphokinase/dihydroneopterin aldolase FOL1	chromosome 14	L000000620	14	164623	167097	W	-170	2011-02-03	2003-09-22|1996-07-31	Multifunctional enzyme of the folic acid biosynthesis pathway; has dihydropteroate synthetase, dihydro-6-hydroxymethylpterin pyrophosphokinase, and dihydroneopterin aldolase activities
+S000034407	CDS					YNL256W		14	164623	167097	W		2011-02-03	2003-09-22|1996-07-31	
+S000005199	ORF	Verified	YNL255C	GIS2	mRNA-binding translational activator GIS2	chromosome 14	L000004862	14	167790	167329	C		2011-02-03	1996-07-31	Translational activator for mRNAs with internal ribosome entry sites; associates with polysomes and binds to a specific subset of mRNAs; localizes to RNA processing bodies (P bodies) and to stress granules; may have a role in translation regulation under stress conditions; ortholog of human ZNF9/CNBP, a gene involved in myotonic dystrophy type 2
+S000034231	CDS					YNL255C		14	167790	167329	C		2011-02-03	1996-07-31	
+S000005198	ORF	Verified	YNL254C	RTC4		chromosome 14		14	169248	168043	C		2011-02-03	1996-07-31	Protein of unknown function; null mutation suppresses cdc13-1 temperature sensitivity; (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
+S000034113	CDS					YNL254C		14	169248	168043	C		2011-02-03	1996-07-31	
+S000077373	ARS		ARS1411		ARSXIV-170	chromosome 14		14	169675	169753			2014-11-18	2014-11-18|2004-10-18|2006-09-07	ARS activated in late S phase
+S000178168	ARS_consensus_sequence					ARS1411		14	169748	169732	C		2014-11-18	2014-11-18	
+S000005197	ORF	Verified	YNL253W	TEX1		chromosome 14		14	170018	171286	W		2011-02-03	1996-07-31	Protein involved in mRNA export; component of the transcription export (TREX) complex
+S000033293	CDS					YNL253W		14	170018	171286	W		2011-02-03	1996-07-31	
+S000005196	ORF	Verified	YNL252C	MRPL17	mitochondrial 54S ribosomal protein YmL17/YmL30|YmL17|YmL30|MRPL30	chromosome 14	L000001703|L000002266|L000002692	14	172286	171441	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000033203	CDS					YNL252C		14	172286	171441	C		2011-02-03	1996-07-31	
+S000005195	ORF	Verified	YNL251C	NRD1	Nrd1 complex RNA-binding subunit	chromosome 14	L000002862	14	174315	172588	C		2011-02-03	1996-07-31	RNA-binding subunit of Nrd1 complex; complex interacts with exosome to mediate 3'-end formation of some mRNAs, snRNAs, snoRNAs, and CUTs; interacts with CTD of RNA pol II large subunit Rpo21p at phosphorylated Ser5 to direct transcription termination of non-polyadenylated transcripts; H3K4 trimethylation of transcribed regions by Set1p enhances recruitment of Nrd1p to those sites; role in regulation of mitochondrial abundance and cell size
+S000033151	CDS					YNL251C		14	174315	172588	C		2011-02-03	1996-07-31	
+S000005194	ORF	Verified	YNL250W	RAD50	MRX complex DNA-binding subunit	chromosome 14	L000001570	14	175410	179348	W	-170	2011-02-03	1996-07-31	Subunit of MRX complex with Mre11p and Xrs2p; complex is involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining; forms nuclear foci upon DNA replication stress
+S000033124	CDS					YNL250W		14	175410	179348	W		2011-02-03	1996-07-31	
+S000005193	ORF	Verified	YNL249C	MPA43		chromosome 14	L000003096	14	181022	179394	C		2011-02-03	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000032322	CDS					YNL249C		14	181022	179394	C		2011-02-03	1996-07-31	
+S000005192	ORF	Verified	YNL248C	RPA49	DNA-directed RNA polymerase I subunit RPA49|A49	chromosome 14	L000001673	14	182608	181361	C		2011-02-03	1996-07-31	RNA polymerase I subunit A49; essential for nucleolar assembly and for high polymerase loading rate; required for nucleolar localization of Rpa34p
+S000032212	CDS					YNL248C		14	182608	181361	C		2011-02-03	1996-07-31	
+S000005191	ORF	Verified	YNL247W		cysteine--tRNA ligase	chromosome 14		14	182875	185178	W		2011-02-03	1996-07-31	Cysteinyl-tRNA synthetase; may interact with ribosomes, based on co-purification experiments; human gene CARS allows growth of the yeast haploid null mutant after sporulation of a heterozygous diploid
+S000031279	CDS					YNL247W		14	182875	185178	W		2011-02-03	1996-07-31	
+S000005190	ORF	Verified	YNL246W	VPS75		chromosome 14		14	185460	186349	W		2011-02-03	1996-07-31	NAP family histone chaperone; binds to histones and Rtt109p, stimulating histone acetyltransferase activity; possesses nucleosome assembly activity in vitro; proposed role in vacuolar protein sorting and in double-strand break repair; protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
+S000031149	CDS					YNL246W		14	185460	185491	W		2011-02-03	1996-07-31	
+S000031150	CDS					YNL246W		14	185587	186349	W		2011-02-03	1996-07-31	
+S000031151	intron					YNL246W		14	185492	185586	W		2011-02-03	1996-07-31	
+S000005189	ORF	Verified	YNL245C	CWC25	U2-type spliceosomal complex subunit CWC25	chromosome 14		14	186885	186346	C		2011-02-03	1996-07-31	Splicing factor required for the first step of pre-mRNA splicing; binding to the spliceosome requires Prp2p and Yju2p; heat-stable protein; has similarity to S. pombe Cwf25p
+S000030978	CDS					YNL245C		14	186885	186346	C		2011-02-03	1996-07-31	
+S000005188	ORF	Verified	YNL244C	SUI1	translation initiation factor eIF1|RFR1|MOF2	chromosome 14	L000002177	14	187496	187170	C	-171	2011-02-03	1996-07-31	Translation initiation factor eIF1; component of a complex involved in recognition of the initiator codon; modulates translation accuracy at the initiation phase
+S000029973	CDS					YNL244C		14	187496	187170	C		2011-02-03	1996-07-31	
+S000005187	ORF	Verified	YNL243W	SLA2	MOP2|END4	chromosome 14	L000001913|L000002421	14	188051	190957	W		2011-02-03	1996-07-31|2011-02-03	Adaptor protein that links actin to clathrin and endocytosis; involved in membrane cytoskeleton assembly and cell polarization; present in the actin cortical patch of the emerging bud tip; dimer in vivo
+S000029929	CDS					YNL243W		14	188051	190957	W		2011-02-03	1996-07-31|2011-02-03	
+S000005186	ORF	Verified	YNL242W	ATG2	APG2|AUT8|SPO72	chromosome 14	L000004782	14	191324	196102	W		2011-02-03	1996-07-31	Peripheral membrane protein required for autophagic vesicle formation; also required for vesicle formation during pexophagy and the cytoplasm-to-vaucole targeting (Cvt) pathway; involved in Atg9p cycling between the phagophore assembly site and mitochondria; contains an APT1 domain that binds phosphatidylinositol-3-phosphate; essential for cell cycle progression from G2/M to G1 under nitrogen starvation; forms cytoplasmic foci upon DNA replication stress
+S000037889	CDS					YNL242W		14	191324	196102	W		2011-02-03	1996-07-31	
+S000077374	ARS		ARS1412		ARSXIV-196	chromosome 14		14	196134	196232			2014-11-18	2014-11-18|2004-10-18|2006-09-07	ARS activated in late S phase
+S000005185	ORF	Verified	YNL241C	ZWF1	glucose-6-phosphate dehydrogenase|POS10|MET19	chromosome 14	L000002572	14	197943	196426	C	-153	2011-02-03	1996-07-31	Glucose-6-phosphate dehydrogenase (G6PD); catalyzes the first step of the pentose phosphate pathway; involved in adapting to oxidative stress; protein abundance increases in response to DNA replication stress; homolog of human G6PD which is deficient in patients with hemolytic anemia; human G6PD can complement yeast zwf1 null mutant
+S000037074	CDS					YNL241C		14	197943	196426	C		2011-02-03	1996-07-31	
+S000005184	ORF	Verified	YNL240C	NAR1		chromosome 14		14	199977	198502	C		2011-02-03	1996-07-31	Subunit of the cytosolic iron-sulfur (FeS) protein assembly machinery; required for maturation of cytosolic and nuclear FeS proteins and for normal resistance to oxidative stress; deficiency results in shortened lifespan and sensitivity to paraquat; homologous to human Narf
+S000037001	CDS					YNL240C		14	199977	198502	C		2011-02-03	1996-07-31	
+S000005183	ORF	Verified	YNL239W	LAP3	bleomycin hydrolase|YCP1|GAL6|BLH1	chromosome 14	L000002502|L000000929	14	200569	201933	W	-152	2011-02-03	2003-01-07|1996-07-31	Cysteine aminopeptidase with homocysteine-thiolactonase activity; protects cells against homocysteine toxicity; has bleomycin hydrolase activity in vitro; transcription is regulated by galactose via Gal4p; orthologous to human BLMH
+S000036318	CDS					YNL239W		14	200569	201933	W		2011-02-03	2003-01-07|1996-07-31	
+S000005182	ORF	Verified	YNL238W	KEX2	kexin KEX2|yscF|SRB1|VMA45|QDS1	chromosome 14	L000000896	14	202428	204872	W	-147	2011-02-03	1996-07-31	Kexin, a subtilisin-like protease (proprotein convertase); a calcium-dependent serine protease involved in the activation of proproteins of the secretory pathway
+S000036210	CDS					YNL238W		14	202428	204872	W		2011-02-03	1996-07-31	
+S000005181	ORF	Verified	YNL237W	YTP1		chromosome 14	L000003036	14	205188	206567	W		2011-02-03	1996-07-31	Probable type-III integral membrane protein of unknown function; has regions of similarity to mitochondrial electron transport proteins
+S000036063	CDS					YNL237W		14	205188	206567	W		2011-02-03	1996-07-31	
+S000005180	ORF	Verified	YNL236W	SIN4	SSX3|MED16|RYE1|TSF3|SSN4|SSF5|SDI3|GAL22|BEL2	chromosome 14	L000001888|S000029516|L000002099	14	206930	209854	W	-145	2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; contributes to both postive and negative transcriptional regulation; dispensible for basal transcription
+S000035179	CDS					YNL236W		14	206930	209854	W		2011-02-03	1996-07-31	
+S000005179	ORF	Dubious	YNL235C			chromosome 14		14	209979	209548	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SIN4/YNL236W, a subunit of the mediator complex
+S000034886	CDS					YNL235C		14	209979	209548	C		2011-02-03	1996-07-31	
+S000005178	ORF	Verified	YNL234W			chromosome 14		14	210233	211513	W		2011-02-03	1996-07-31	Protein of unknown function with similarity to globins; has a functional heme-binding domain; mutant has aneuploidy tolerance; transcription induced by stress conditions; may be involved in glucose signaling or metabolism; regulated by Rgt1
+S000034841	CDS					YNL234W		14	210233	211513	W		2011-02-03	1996-07-31	
+S000005177	ORF	Verified	YNL233W	BNI4		chromosome 14	L000003517	14	211922	214600	W		2011-02-03	1996-07-31	Targeting subunit for Glc7p protein phosphatase; localized to the bud neck, required for localization of chitin synthase III to the bud neck via interaction with the chitin synthase III regulatory subunit Skt5p; phosphorylation by Slt2p and Kss1p involved in regulating Bni4p in septum assembly
+S000033930	CDS					YNL233W		14	211922	214600	W		2011-02-03	1996-07-31	
+S000005176	ORF	Verified	YNL232W	CSL4	exosome non-catalytic core subunit CSL4|SKI4	chromosome 14	L000001905|L000004677	14	214923	215801	W		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain an S1 RNA binding domain; human homolog EXOSC1 partially complements yeast csl4 null mutant, and can complement inviability of strain in which expression of CSL4 is repressed
+S000033848	CDS					YNL232W		14	214923	215801	W		2011-02-03	1996-07-31	
+S000005175	ORF	Verified	YNL231C	PDR16	phosphatidylinositol transporter|SFH3	chromosome 14	L000004779	14	217042	215987	C		2011-02-03	1996-07-31	Phosphatidylinositol transfer protein (PITP); controlled by the multiple drug resistance regulator Pdr1p; localizes to lipid particles and microsomes; controls levels of various lipids, may regulate lipid synthesis; homologous to Pdr17p; protein abundance increases in response to DNA replication stress
+S000033675	CDS					YNL231C		14	217042	215987	C		2011-02-03	1996-07-31	
+S000005174	ORF	Verified	YNL230C	ELA1	elongin A	chromosome 14	L000004956	14	218662	217523	C		2011-02-03	1996-07-31	Elongin A; F-box protein that forms a heterodimer with Elc1p and is required for ubiquitin-dependent degradation of the RNA Polymerase II subunit Rpo21p; subunit of the Elongin-Cullin-Socs (ECS) ligase complex
+S000033008	CDS					YNL230C		14	218662	217523	C		2011-02-03	1996-07-31	
+S000005173	ORF	Verified	YNL229C	URE2	[URE3]	chromosome 14	L000002439	14	220201	219137	C	-142	2011-02-03	1996-07-31	Nitrogen catabolite repression transcriptional regulator; inhibits GLN3 transcription in good nitrogen source; role in sequestering Gln3p and Gat1p to the cytoplasm; has glutathione peroxidase activity and can mutate to acquire GST activity; self-assembly under limited nitrogen conditions creates [URE3] prion and releases catabolite repression
+S000034177	CDS					YNL229C		14	220201	219137	C		2011-02-03	1996-07-31	
+S000005172	ORF	Dubious	YNL228W			chromosome 14		14	220645	221421	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF YNL227C/JJJ1
+S000034107	CDS					YNL228W		14	220645	221421	W		2011-02-03	1996-07-31	
+S000005170	ORF	Dubious	YNL226W			chromosome 14		14	222239	222649	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene JJJ1/YNL227C
+S000032023	CDS					YNL226W		14	222239	222649	W		2011-02-03	1996-07-31	
+S000005171	ORF	Verified	YNL227C	JJJ1		chromosome 14		14	222431	220659	C		2011-02-03	1996-07-31	Co-chaperone that stimulates the ATPase activity of Ssa1p; required for a late step of ribosome biogenesis; associated with the cytosolic large ribosomal subunit; contains a J-domain; mutation causes defects in fluid-phase endocytosis
+S000032103	CDS					YNL227C		14	222431	220659	C		2011-02-03	1996-07-31	
+S000005169	ORF	Verified	YNL225C	CNM67		chromosome 14	L000004012	14	224469	222724	C		2011-02-03	1996-07-31	Component of the spindle pole body outer plaque; required for spindle orientation and mitotic nuclear migration; CNM67 has a paralog, ADY3, that arose from the whole genome duplication
+S000031798	CDS					YNL225C		14	224469	222724	C		2011-02-03	1996-07-31	
+S000005168	ORF	Verified	YNL224C	SQS1	PFA1	chromosome 14		14	227099	224796	C		2011-02-03	1996-07-31	Protein that stimulates the ATPase and helicase activities of Prp43p; acts with Prp43p to stimulate 18s rRNA maturation by Nob1p; overexpression antagonizes the suppression of splicing defects by spp382 mutants; component of pre-ribosomal particles; relocalizes from nucleus to nucleolus upon DNA replication stress
+S000030829	CDS					YNL224C		14	227099	224796	C		2011-02-03	1996-07-31	
+S000005167	ORF	Verified	YNL223W	ATG4	cysteine protease ATG4|AUT2|APG4	chromosome 14	L000004606|L000004784	14	227370	228854	W		2011-02-03	2003-09-22|1996-07-31	Conserved cysteine protease required for autophagy; cleaves Atg8p to a form required for autophagosome and Cvt vesicle generation
+S000030783	CDS					YNL223W		14	227370	228854	W		2011-02-03	2003-09-22|1996-07-31	
+S000005166	ORF	Verified	YNL222W	SSU72	RNA polymerase II subunit A C-terminal domain phosphatase	chromosome 14	L000003154	14	229094	229714	W		2011-02-03	1996-07-31	Phosphatase and transcription/RNA-processing factor; associates with TFIIB and cleavage/polyadenylation factor Pta1p; exhibits phosphatase activity on serine-5 and serine-7 of the RNA polymerase II C-terminal domain; affects start site selection and transcriptional read through in vivo
+S000030662	CDS					YNL222W		14	229094	229714	W		2011-02-03	1996-07-31	
+S000007295	snRNA_gene		snR19	SNR19	U1	chromosome 14	L000001967	14	230672	230105	C		2011-02-03	2004-04-02	U1 spliceosomal RNA (U1 snRNA); snRNA U1 homolog
+S000036596	noncoding_exon					snR19		14	230672	230105	C		2011-02-03	2004-04-02	
+S000005165	ORF	Verified	YNL221C	POP1	ribonuclease P/MRP protein subunit POP1	chromosome 14	L000002587	14	233695	231068	C		2011-02-03	1996-07-31	Subunit of RNase MRP, nuclear RNase P and telomerase complexes; RNase MRP cleaves pre-rRNA, nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs, while telomerase replenishes telomeric DNA; binds to the RPR1 RNA subunit in RNase P
+S000037760	CDS					YNL221C		14	233695	231068	C		2011-02-03	1996-07-31	
+S000005164	ORF	Verified	YNL220W	ADE12	adenylosuccinate synthase|BRA9	chromosome 14	L000000039	14	234413	235714	W	-151	2011-02-03	1996-07-31	Adenylosuccinate synthase; catalyzes the first step in synthesis of adenosine monophosphate from inosine 5'monophosphate during purine nucleotide biosynthesis; exhibits binding to single-stranded autonomously replicating (ARS) core sequence
+S000037738	CDS					YNL220W		14	234413	235714	W		2011-02-03	1996-07-31	
+S000005163	ORF	Verified	YNL219C	ALG9	dolichyl-P-Man:Man(6)GlcNAc(2)-PP-dolichol alpha-1,2-mannosyltransferase	chromosome 14	L000003394	14	237663	235996	C		2011-02-03	1996-07-31	Mannosyltransferase, involved in N-linked glycosylation; catalyzes the transfer of both the seventh mannose residue on B-arm and ninth mannose residue on the C-arm from Dol-P-Man to lipid-linked oligosaccharides; human homolog ALG9 can complement yeast null mutant; mutation of human homolog causes type 1 congenital disorders of glycosylation
+S000029975	CDS					YNL219C		14	237663	235996	C		2011-02-03	1996-07-31	
+S000005162	ORF	Verified	YNL218W	MGS1	ssDNA-dependent ATPase MGS1	chromosome 14		14	238238	240001	W		2011-02-03	1996-07-31	Protein with DNA-dependent ATPase and ssDNA annealing activities; involved in maintenance of genome; interacts functionally with DNA polymerase delta; homolog of human Werner helicase interacting protein (WHIP); forms nuclear foci upon DNA replication stress
+S000029915	CDS					YNL218W		14	238238	240001	W		2011-02-03	1996-07-31	
+S000005161	ORF	Uncharacterized	YNL217W		putative serine/threonine-protein phosphatase	chromosome 14		14	240331	241311	W		2011-02-03	1996-07-31	Putative protein of unknown function; weak sequence similarity to bis (5'-nucleotidyl)-tetraphosphatases; (GFP)-fusion protein localizes to the vacuole; null mutant is highly sensitive to azaserine and resistant to sodium-O-vandate
+S000037905	CDS					YNL217W		14	240331	241311	W		2011-02-03	1996-07-31	
+S000005160	ORF	Verified	YNL216W	RAP1	DNA-binding transcription factor RAP1|TUF1|TBA1|GRF1	chromosome 14	L000001581	14	241689	244172	W	-148	2011-02-03	1996-07-31	Essential DNA-binding transcription regulator that binds many loci; involved in transcription activation, repression, chromatin silencing, telomere length maintenance; relocalizes to cytosol under hypoxia; conserved protein with N-terminal BRCT domain, central region with homology to Myb DNA binding domain, and C-terminal Rap1-specific protein-interaction domain (RCT domain); recruits Sir complex to telomeric DNA; present in quiescent cell telomere hyperclusters
+S000037812	CDS					YNL216W		14	241689	244172	W		2011-02-03	1996-07-31	
+S000005159	ORF	Verified	YNL215W	IES2		chromosome 14		14	244468	245430	W		2011-02-03	1996-07-31	Protein that associates with the INO80 chromatin remodeling complex; associates with the INO80 complex under low-salt conditions; essential for growth under anaerobic conditions; protein abundance increases in response to DNA replication stress
+S000035947	CDS					YNL215W		14	244468	245430	W		2011-02-03	1996-07-31	
+S000005158	ORF	Verified	YNL214W	PEX17	PAS9	chromosome 14	L000003963	14	245617	246216	W		2011-02-03	1996-07-31	Membrane peroxin of the peroxisomal importomer complex; complex facilitates the import of peroxisomal matrix proteins; required for peroxisome biogenesis
+S000035811	CDS					YNL214W		14	245617	246216	W		2011-02-03	1996-07-31	
+S000005157	ORF	Verified	YNL213C	RRG9		chromosome 14		14	247104	246460	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant lacks mitochondrial DNA and cannot grow on glycerol; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000034770	CDS					YNL213C		14	247104	246460	C		2011-02-03	1996-07-31	
+S000005156	ORF	Verified	YNL212W	VID27		chromosome 14		14	247461	249809	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; possibly involved in vacuolar protein degradation; not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase); null mutants exhibit normal growth; contains two PH-like domains
+S000034713	CDS					YNL212W		14	247461	249809	W		2011-02-03	1996-07-31	
+S000005155	ORF	Uncharacterized	YNL211C	MRX7		chromosome 14		14	250315	250055	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YNL211C is not an essential gene
+S000034553	CDS					YNL211C		14	250315	250055	C		2011-02-03	1996-07-31	
+S000077375	ARS		ARS1413			chromosome 14		14	250315	250931			2011-02-03	2004-10-18	Strong origin of replication activated in late S phase
+S000005154	ORF	Verified	YNL210W	MER1		chromosome 14	L000001074	14	250931	251743	W	-138	2011-02-03	1996-07-31	mRNA-binding protein required for meiosis-specific mRNA splicing; required for chromosome pairing and meiotic recombination; Mer1p regulon embraces four essential meiotic pre-mRNAs: REC107, HFM1, AMA1 and SPO22
+S000034504	CDS					YNL210W		14	250931	251743	W		2011-02-03	1996-07-31	
+S000005153	ORF	Verified	YNL209W	SSB2	Hsp70 family ATPase SSB2|YG103	chromosome 14	L000002715	14	252059	253900	W		2011-02-03	1996-07-31	Cytoplasmic ATPase that is a ribosome-associated molecular chaperone; functions with J-protein partner Zuo1p; may be involved in the folding of newly-synthesized polypeptide chains; member of the HSP70 family; SSB2 has a paralog, SSB1, that arose from the whole genome duplication
+S000035043	CDS					YNL209W		14	252059	253900	W		2011-02-03	1996-07-31	
+S000005152	ORF	Verified	YNL208W			chromosome 14		14	254418	255017	W		2011-02-03	2004-02-19|1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; authentic, non-tagged protein is detected in purified mitochondria in high-throughput studies; potential orthologs found in other fungi
+S000034895	CDS					YNL208W		14	254418	255017	W		2011-02-03	2004-02-19|1996-07-31	
+S000005151	ORF	Verified	YNL207W	RIO2	protein kinase RIO2	chromosome 14		14	255353	256630	W		2011-02-03	1996-07-31	Essential serine kinase involved in the processing of 20S pre-rRNA; involved in the processing of the 20S pre-rRNA into mature 18S rRNA; has similarity to Rio1p
+S000034789	CDS					YNL207W		14	255353	256630	W		2011-02-03	1996-07-31	
+S000005150	ORF	Verified	YNL206C	RTT106		chromosome 14		14	258155	256788	C		2011-02-03	1996-07-31	Histone chaperone; involved in regulation of chromatin structure in both transcribed and silenced chromosomal regions; affects transcriptional elongation; has a role in regulation of Ty1 transposition; interacts physically and functionally with Chromatin Assembly Factor-1 (CAF-1)
+S000033853	CDS					YNL206C		14	258155	256788	C		2011-02-03	1996-07-31	
+S000005149	ORF	Dubious	YNL205C			chromosome 14		14	258577	258155	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033703	CDS					YNL205C		14	258577	258155	C		2011-02-03	1996-07-31	
+S000005148	ORF	Verified	YNL204C	SPS18	SPX18	chromosome 14	L000002042	14	259277	258375	C		2011-02-03	1996-07-31	Protein of unknown function, contains a putative zinc-binding domain; expressed during sporulation; SPS18 has a paralog, GCS1, that arose from the whole genome duplication
+S000030383	CDS					YNL204C		14	259277	258375	C		2011-02-03	1996-07-31	
+S000005146	ORF	Verified	YNL202W	SPS19	SPX19	chromosome 14	L000002043	14	259578	260456	W		2011-02-03	1996-07-31|2006-05-10	Peroxisomal 2,4-dienoyl-CoA reductase; auxiliary enzyme of fatty acid beta-oxidation; homodimeric enzyme required for growth and sporulation on petroselineate medium; expression induced during late sporulation and in the presence of oleate
+S000030188	CDS					YNL202W		14	259578	260456	W		2011-02-03	1996-07-31|2006-05-10	
+S000005147	ORF	Dubious	YNL203C			chromosome 14		14	260050	259439	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030248	CDS					YNL203C		14	260050	259439	C		2011-02-03	1996-07-31	
+S000005145	ORF	Verified	YNL201C	PSY2		chromosome 14		14	263203	260627	C		2011-02-03	1996-07-31	Subunit of protein phosphatase PP4 complex; Pph3p and Psy2p form the active complex, Psy4p may provide additional substrate specificity; regulates recovery from the DNA damage checkpoint, the gene conversion- and single-strand annealing-mediated pathways of meiotic double-strand break repair and efficient Non-Homologous End-Joining (NHEJ) pathway; Pph3p and Psy2p localize to foci on meiotic chromosomes; putative homolog of mammalian R3
+S000030016	CDS					YNL201C		14	263203	260627	C		2011-02-03	1996-07-31	
+S000005144	ORF	Verified	YNL200C	NNR1	NADHX epimerase	chromosome 14		14	264453	263713	C		2011-02-03	1996-07-31	NADHX epimerase; catalyzes isomerization of (R)- and (S)-NADHX; homologous to AIBP in mammals and the N- terminal domain of YjeF in E.coli; enzyme is widespread in eukaryotes, prokaryotes and archaea; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000037373	CDS					YNL200C		14	264453	263713	C		2011-02-03	1996-07-31	
+S000005143	ORF	Verified	YNL199C	GCR2		chromosome 14	L000000691	14	266530	264926	C		2011-02-03	1996-07-31	Transcriptional activator of genes involved in glycolysis; interacts and functions with the DNA-binding protein Gcr1p
+S000032854	CDS					YNL199C		14	266530	264926	C		2011-02-03	1996-07-31	
+S000005142	ORF	Dubious	YNL198C			chromosome 14		14	266816	266514	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032762	CDS					YNL198C		14	266816	266514	C		2011-02-03	1996-07-31	
+S000005141	ORF	Verified	YNL197C	WHI3	mRNA-binding protein WHI3	chromosome 14	L000002486	14	269593	267608	C		2011-02-03	1996-07-31	RNA binding protein that sequesters CLN3 mRNA in cytoplasmic foci; regulates genes involved in the cell cycle, sister chromatid cohesion, and stress response; acts as a cytoplasmic retention factor for Cdc28p and associated cyclins; regulates cell fate and dose-dependently regulates the critical cell size required for passage through Start; Tpk1p (PKA) mediated phosphorylation (S568) inhibits Whi3p function, decreasing its interaction with CLN3 mRNA; regulates ploidy
+S000032683	CDS					YNL197C		14	269593	267608	C		2011-02-03	1996-07-31	
+S000005140	ORF	Verified	YNL196C	SLZ1		chromosome 14	L000004192	14	271171	270275	C		2011-02-03	1996-07-31	Sporulation-specific protein with a leucine zipper motif; subunit of the MIS complex which controls mRNA methylation during during the induction of sporulation
+S000032589	CDS					YNL196C		14	271171	270275	C		2011-02-03	1996-07-31	
+S000005139	ORF	Uncharacterized	YNL195C			chromosome 14		14	272308	271523	C		2011-02-03	2004-02-18|1996-07-31	Protein of unknown function; shares a promoter with YNL194C; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YNL195C has a paralog, HBT1, that arose from the whole genome duplication
+S000031608	CDS					YNL195C		14	272308	271523	C		2011-02-03	2004-02-18|1996-07-31	
+S000005138	ORF	Verified	YNL194C			chromosome 14		14	273615	272710	C		2011-02-03	1996-07-31	Integral membrane protein; required for sporulation and plasma membrane sphingolipid content; similar to SUR7; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; GFP-fusion protein is more abundant at MCCs (membrane compartment occupied by Can1) in the presence of glycerol and oleate; YNL194C has a paralog, FMP45, that arose from the whole genome duplication
+S000031471	CDS					YNL194C		14	273615	272710	C		2011-02-03	1996-07-31	
+S000005137	ORF	Uncharacterized	YNL193W			chromosome 14		14	274368	276044	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; exhibits a two-hybrid interaction with Yhr151cp in a large-scale analysis
+S000031402	CDS					YNL193W		14	274368	276044	W		2011-02-03	1996-07-31|2011-02-03	
+S000005136	ORF	Verified	YNL192W	CHS1	chitin synthase CHS1|USA4	chromosome 14	L000000329	14	276502	279897	W		2011-02-03	1996-07-31|2011-02-03	Chitin synthase I; requires activation from zymogenic form in order to catalyze the transfer of N-acetylglucosamine (GlcNAc) to chitin; required for repairing the chitin septum during cytokinesis; transcription activated by mating factor
+S000030484	CDS					YNL192W		14	276502	279897	W		2011-02-03	1996-07-31|2011-02-03	
+S000077376	ARS		ARS1414		ARSXIV-280	chromosome 14		14	279982	280071			2014-11-18	2014-11-18|2004-10-18|2006-09-07	ARS activated in mid-S phase
+S000178169	ARS_consensus_sequence					ARS1414		14	280063	280047	C		2014-11-18	2014-11-18	
+S000005135	ORF	Verified	YNL191W	DUG3	glutamine amidotransferase subunit DUG3	chromosome 14		14	280432	281505	W		2011-02-03	1996-07-31	Component of glutamine amidotransferase (GATase II); forms a complex with Dug2p to degrade glutathione (GSH) and other peptides containing a gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p)
+S000030357	CDS					YNL191W		14	280432	281505	W		2011-02-03	1996-07-31	
+S000005134	ORF	Verified	YNL190W			chromosome 14		14	282395	283009	W		2011-02-03	1996-07-31	Hydrophilin essential in desiccation-rehydration process; cell wall protein; contains a putative GPI-attachment site
+S000030164	CDS					YNL190W		14	282395	283009	W		2011-02-03	1996-07-31	
+S000005133	ORF	Verified	YNL189W	SRP1	karyopherin alpha|SCM1|KAP60	chromosome 14	L000002755|L000002780	14	284260	285888	W		2011-02-03	1996-07-31	Karyopherin alpha homolog; forms a dimer with karyopherin beta Kap95p to mediate import of nuclear proteins, binds the nuclear localization signal of the substrate during import; involved in cotranslational protein degradation; binds ribosome-bound nascent polypeptides; Srp1p and Sts1p couple proteasomes to nascent polypeptides emerging from the ribosome for cotranslational degradation
+S000036720	CDS					YNL189W		14	284260	285888	W		2011-02-03	1996-07-31	
+S000005132	ORF	Verified	YNL188W	KAR1		chromosome 14	L000000886	14	286308	287609	W	-208	2011-02-03	1996-07-31	Protein involved in karyogamy and spindle pole body duplication; involved in karyogamy during mating; involved in spindle pole body duplication during mitosis; localizes to the half-bridge of the spindle pole body; interacts with Spc72p during karyogamy; also interacts with Cdc31p; essential gene
+S000036621	CDS					YNL188W		14	286308	287609	W		2011-02-03	1996-07-31	
+S000005131	ORF	Verified	YNL187W	SWT21		chromosome 14		14	287994	289067	W		2011-02-03	1996-07-31	Protein involved in mRNA splicing; contains a consensus nuclear export signal (NES) sequence similar to the consensus sequence recognized by Crm1p; interacts genetically with Prp40p and Tgs1p; contains WD40 repeats
+S000036547	CDS					YNL187W		14	287994	289067	W		2011-02-03	1996-07-31	
+S000005130	ORF	Verified	YNL186W	UBP10	ubiquitin-specific protease UBP10|DOT4	chromosome 14	L000004391|L000004588	14	289498	291876	W		2011-02-03	1996-07-31|2011-02-03	Ubiquitin-specific protease, deubiquitinates Ub-protein moieties; interacts with proteins that function in rRNA production and ribosome biogenesis via its intrinsically disordered regions; stabilizes Rpa190p by deubiquitination; controls PCNA deubiquitylation; may regulate silencing by acting on Sir4p; involved in posttranscriptionally regulating Gap1p, possibly other transporters; localized to the nucleolus; null mutant phenotypes are functionally complemented by human USP36
+S000035619	CDS					YNL186W		14	289498	291876	W		2011-02-03	1996-07-31|2011-02-03	
+S000005129	ORF	Verified	YNL185C	MRPL19	mitochondrial 54S ribosomal protein YmL19|YmL19	chromosome 14		14	292669	292193	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000035486	CDS					YNL185C		14	292669	292193	C		2011-02-03	1996-07-31	
+S000005128	ORF	Uncharacterized	YNL184C			chromosome 14		14	292883	292557	C		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels
+S000035350	CDS					YNL184C		14	292883	292557	C		2011-02-03	1996-07-31	
+S000005127	ORF	Verified	YNL183C	NPR1	serine/threonine protein kinase NPR1	chromosome 14	L000001273	14	295509	293137	C		2011-02-03	1996-07-31	Protein kinase; stabilizes several plasma membrane amino acid transporters by antagonizing their ubiquitin-mediated degradation; phosphorylates Aly2p; negatively regulates Ldb19p-mediated endocytosis through phosphorylation of Ldb19p, which prevents its association with the plasma membrane; Npr1p activity is negatively regulated via phosphorylation by the TOR complex; NPR1 has a paralog, PRR2, that arose from the whole genome duplication
+S000034359	CDS					YNL183C		14	295509	293137	C		2011-02-03	1996-07-31	
+S000005126	ORF	Verified	YNL182C	IPI3	chromatin-binding/pre-rRNA-processing protein IPI3	chromosome 14		14	297627	295960	C		2011-02-03	1996-07-31	Component of the Rix1 complex and pre-replicative complexes (pre-RCs); required for processing of ITS2 sequences from 35S pre-rRNA; component of the pre-60S ribosomal particle with the dynein-related AAA-type ATPase Mdn1p; required for pre-RC formation and maintenance during DNA replication licensing; highly conserved protein which contains several WD40 motifs; IPI3 is an essential gene; other members include Rix1p, Ipi1p, and Ipi3p
+S000034229	CDS					YNL182C		14	297627	295960	C		2011-02-03	1996-07-31	
+S000005125	ORF	Uncharacterized	YNL181W	PBR1	putative oxidoreductase	chromosome 14		14	298335	299558	W		2011-02-03	1996-07-31|2011-02-03	Putative oxidoreductase; required for cell viability
+S000034164	CDS					YNL181W		14	298335	299558	W		2011-02-03	1996-07-31|2011-02-03	
+S000005124	ORF	Verified	YNL180C	RHO5	Rho family GTPase RHO5|YNS0	chromosome 14	L000004798	14	300649	299654	C		2011-02-03	1998-11-10|1996-07-31	Non-essential small GTPase of the Rho/Rac family of Ras-like proteins; RAC1 ortholog; regulated by phosphorylation and ubiquitination; likely involved in protein kinase C (Pkc1p)-dependent signal transduction pathway that controls cell integrity
+S000033264	CDS					YNL180C		14	300649	299654	C		2011-02-03	1998-11-10|1996-07-31	
+S000005123	ORF	Dubious	YNL179C		SRF6	chromosome 14		14	301103	300666	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; deletion in cyr1 mutant results in loss of stress resistance
+S000034571	CDS					YNL179C		14	301103	300666	C		2011-02-03	1996-07-31	
+S000005122	ORF	Verified	YNL178W	RPS3	uS3|ribosomal 40S subunit protein S3|rp13|YS3|S3|SUF14	chromosome 14	L000002161|L000001749	14	302680	303402	W	-125	2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; has apurinic/apyrimidinic (AP) endonuclease activity; essential for viability; nascent Rps3p is bound by specific chaperone Yar1p during translation; homologous to mammalian ribosomal protein S3 and bacterial S3
+S000034489	CDS					YNL178W		14	302680	303402	W		2011-02-03	1996-07-31	
+S000005121	ORF	Verified	YNL177C	MRPL22	mitochondrial 54S ribosomal protein YmL22|YmL22	chromosome 14		14	304615	303686	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial ribosomal protein of the large subunit
+S000032401	CDS					YNL177C		14	304615	303686	C		2011-02-03	1996-07-31|2011-02-03	
+S000005120	ORF	Verified	YNL176C	TDA7		chromosome 14		14	306980	305070	C		2011-02-03	1996-07-31|2011-02-03	Cell cycle-regulated gene of unknown function; promoter bound by Fkh2p; null mutant is sensitive to expression of the top1-T722A allele; TDA7 has a paralog, YDL211C, that arose from the whole genome duplication
+S000032321	CDS					YNL176C		14	306980	305070	C		2011-02-03	1996-07-31|2011-02-03	
+S000005118	ORF	Dubious	YNL174W			chromosome 14		14	308074	308646	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene NOP13/YNL175C
+S000031277	CDS					YNL174W		14	308074	308646	W		2011-02-03	1996-07-31	
+S000005119	ORF	Verified	YNL175C	NOP13		chromosome 14		14	308612	307401	C		2011-02-03	1996-07-31|2011-02-03	Nucleolar protein found in preribosomal complexes; contains an RNA recognition motif (RRM); relative distribution to the nucleolus increases upon DNA replication stress
+S000032207	CDS					YNL175C		14	308612	307401	C		2011-02-03	1996-07-31|2011-02-03	
+S000005117	ORF	Verified	YNL173C	MDG1		chromosome 14	L000001044	14	310057	308957	C		2011-02-03	1996-07-31	Plasma membrane protein; involved in G-protein mediated pheromone signaling pathway; overproduction suppresses bem1 mutations; MDG1 has a paralog, CRP1, that arose from the whole genome duplication
+S000031079	CDS					YNL173C		14	310057	308957	C		2011-02-03	1996-07-31	
+S000005116	ORF	Verified	YNL172W	APC1	anaphase promoting complex subunit 1	chromosome 14	L000004053	14	310636	315882	W		2011-02-03	1996-07-31|2011-02-03	Largest subunit of the Anaphase-Promoting Complex/Cyclosome; APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; component of the platform domain of the APC/C, based on structural analysis; localizes to nuclear foci that become diffuse upon DNA replication stress
+S000031033	CDS					YNL172W		14	310636	315882	W		2011-02-03	1996-07-31|2011-02-03	
+S000005114	ORF	Dubious	YNL170W			chromosome 14		14	315978	316373	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000029916	CDS					YNL170W		14	315978	316373	W		2011-02-03	1996-07-31	
+S000005115	ORF	Dubious	YNL171C			chromosome 14		14	315997	315629	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000029970	CDS					YNL171C		14	315997	315629	C		2011-02-03	1996-07-31	
+S000005113	ORF	Verified	YNL169C	PSD1	phosphatidylserine decarboxylase 1	chromosome 14	L000001518	14	317671	316169	C		2011-02-03	1996-07-31	Phosphatidylserine decarboxylase of the mitochondrial inner membrane; converts phosphatidylserine to phosphatidylethanolamine; regulates mitochondrial fusion and morphology by affecting lipid mixing in the mitochondrial membrane and by influencing the ratio of long to short forms of Mgm1p; partly exposed to the mitochondrial intermembrane space; autocatalytically processed
+S000030171	CDS					YNL169C		14	317671	316169	C		2011-02-03	1996-07-31	
+S000005112	ORF	Uncharacterized	YNL168C	FMP41		chromosome 14		14	318809	318030	C		2011-02-03	1996-07-31	Putative protein of unknown function; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000036435	CDS					YNL168C		14	318809	318030	C		2011-02-03	1996-07-31	
+S000005111	ORF	Verified	YNL167C	SKO1	ACR1	chromosome 14	L000001909	14	321359	319416	C	-110	2011-02-03	1996-07-31	Basic leucine zipper transcription factor of the ATF/CREB family; forms a complex with Tup1p and Cyc8p to both activate and repress transcription; cytosolic and nuclear protein involved in osmotic and oxidative stress responses
+S000036358	CDS					YNL167C		14	321359	319416	C		2011-02-03	1996-07-31	
+S000118385	ARS		ARS1415		ARSXIV-322	chromosome 14		14	321921	322213			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178170	ARS_consensus_sequence					ARS1415		14	322000	322016	W		2014-11-18	2014-11-18	
+S000005110	ORF	Verified	YNL166C	BNI5		chromosome 14		14	323565	322219	C		2011-02-03	1996-07-31	Linker protein responsible for recruitment of myosin to the bud neck; interacts with the C-terminal extensions of septins Cdc11p and Shs1p and binds Myo1p to promote cytokinesis
+S000036259	CDS					YNL166C		14	323565	322219	C		2011-02-03	1996-07-31	
+S000005109	ORF	Uncharacterized	YNL165W			chromosome 14		14	323832	325052	W		2011-02-03	1996-07-31	Putative protein of unknown function; YNL165W is not an essential gene
+S000036209	CDS					YNL165W		14	323832	325052	W		2011-02-03	1996-07-31	
+S000130142	ARS		ARS1416			chromosome 14		14	325054	325267			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000005108	ORF	Verified	YNL164C	IBD2		chromosome 14		14	326320	325265	C		2011-02-03	1996-07-31	Component of the BUB2-dependent spindle checkpoint pathway; interacts with Bfa1p and functions upstream of Bub2p and Bfa1p
+S000035227	CDS					YNL164C		14	326320	325265	C		2011-02-03	1996-07-31	
+S000005107	ORF	Verified	YNL163C	RIA1	GTPase RIA1|EFL1	chromosome 14		14	330073	326741	C		2011-02-03	1996-07-31	Cytoplasmic GTPase/eEF2-like factor involved in ribosomal biogenesis; with Sdo1p, a guanine nucleotide exchange factor (GEF), promotes release of Tif6p from 60S ribosomal subunits in the cytoplasm so that they can assemble with 40S subunits to generate mature ribosomes; required for quality control check of newly made large ribosomal subunits before they are released into the pool of translating ribosomes
+S000035069	CDS					YNL163C		14	330073	326741	C		2011-02-03	1996-07-31	
+S000007624	ORF	Uncharacterized	YNL162W-A			chromosome 14		14	330329	330547	W		2011-02-03	2001-02-26	Putative protein of unknown function; identified by homology
+S000037222	CDS					YNL162W-A		14	330329	330547	W		2011-02-03	2001-02-26	
+S000005106	ORF	Verified	YNL162W	RPL42A	eL42|ribosomal 60S subunit protein L42A|L44e|YL27|L42A|L41A	chromosome 14	L000001731	14	331322	332154	W		2011-02-03	1999-11-17|1996-07-31	Ribosomal 60S subunit protein L42A; homologous to mammalian ribosomal protein L36A, no bacterial homolog; RPL42A has a paralog, RPL42B, that arose from the whole genome duplication
+S000034972	CDS					YNL162W		14	331322	331325	W		2011-02-03	1996-07-31	
+S000034973	CDS					YNL162W		14	331838	332154	W		2011-02-03	1999-11-17|1996-07-31	
+S000034974	intron					YNL162W		14	331326	331837	W		2011-02-03	1999-11-17|1996-07-31	
+S000005105	ORF	Verified	YNL161W	CBK1	serine/threonine protein kinase CBK1	chromosome 14	L000004609	14	332597	334867	W		2011-02-03	1996-07-31	Serine/threonine protein kinase of the the RAM signaling network; Ndr/LATS family member; binds regulatory subunit Mob2p; involved in regulation of cellular morphogenesis, polarized growth, and septum destruction; phosphorylation by Cbk1p regulates localization and activity of Ace2p transcription factor and Ssd1p translational repressor; Cbk1p activity is regulated by both phosphorylation and specific localization; relocalizes to cytoplasm upon DNA replication stress
+S000034836	CDS					YNL161W		14	332597	334867	W		2011-02-03	1996-07-31	
+S000005104	ORF	Verified	YNL160W	YGP1		chromosome 14	L000002509	14	336545	337609	W		2011-02-03	1996-07-31	Cell wall-related secretory glycoprotein; induced by nutrient deprivation-associated growth arrest and upon entry into stationary phase; may be involved in adaptation prior to stationary phase entry; YGP1 has a paralog, SPS100, that arose from the whole genome duplication
+S000033927	CDS					YNL160W		14	336545	337609	W		2011-02-03	1996-07-31	
+S000005103	ORF	Verified	YNL159C	ASI2		chromosome 14		14	339347	338478	C		2011-02-03	1996-07-31	Subunit of the inner nuclear membrane Asi ubiquitin ligase complex; the Asi complex targets both misfolded proteins of the inner nuclear membrane-associated degradation (INMAD) pathway and inner for ubiquitin-mediated degradation; acts with Asi1p and Asi3p to ensure the fidelity of SPS-sensor signaling by targeting latent unprocessed forms of Stp1p and Stp2p, maintaining the repressed state of gene expression in the absence of inducing amino acids
+S000035302	CDS					YNL159C		14	339347	338478	C		2011-02-03	1996-07-31	
+S000005102	ORF	Verified	YNL158W	PGA1		chromosome 14		14	339612	340208	W		2011-02-03	1996-07-31	Essential component of GPI-mannosyltransferase II; complex is responsible for second mannose addition to GPI precursors as a partner of Gpi18p; required for maturation of Gas1p and Pho8p; has synthetic genetic interactions with secretory pathway genes
+S000034371	CDS					YNL158W		14	339612	340208	W		2011-02-03	1996-07-31	
+S000005101	ORF	Verified	YNL157W	IGO1	phosphatase regulator	chromosome 14		14	340352	340858	W		2011-02-03	1996-07-31	Protein required for initiation of G0 program; prevents degradation of nutrient-regulated mRNAs via the 5'-3' mRNA decay pathway; phosphorylated by Rim15p; GFP protein localizes to the cytoplasm and nucleus; IGO1 has a paralog, IGO2, that arose from the whole genome duplication
+S000034306	CDS					YNL157W		14	340352	340858	W		2011-02-03	1996-07-31	
+S000005100	ORF	Verified	YNL156C	NSG2		chromosome 14		14	341968	341069	C		2011-02-03	1996-07-31	Protein involved in regulation of sterol biosynthesis; specifically stabilizes Hmg2p, one of two HMG-CoA isoenzymes that catalyze the rate-limiting step in sterol biosynthesis; homolog of mammalian INSIG proteins; NSG2 has a paralog, NSG1, that arose from the whole genome duplication
+S000034171	CDS					YNL156C		14	341968	341069	C		2011-02-03	1996-07-31	
+S000005099	ORF	Verified	YNL155W	CUZ1		chromosome 14		14	342516	343340	W		2011-02-03	1996-07-31	Protein with a role in the ubiquitin-proteasome pathway; interacts with ubiquitinated protein, Cdc48p and the proteasomal regulatory particle; may protect cells from trivalent metalloid induced proteotoxicity; contains a PACE promoter element and is co-regulated with proteasome subunit genes; AN1-type zinc finger protein, with DHHC and ubiquitin-like domains (UBL); ortholog of ZFAND1, a human gene linked to cancer; protein abundance increases under DNA replication stress
+S000034106	CDS					YNL155W		14	342516	343340	W		2011-02-03	1996-07-31	
+S000005098	ORF	Verified	YNL154C	YCK2	serine/threonine protein kinase YCK2	chromosome 14	L000002501	14	345276	343636	C		2011-02-03	1996-07-31	Palmitoylated plasma membrane-bound casein kinase I (CK1) isoform; shares redundant functions with Yck1p in morphogenesis, proper septin assembly, endocytic trafficking, and glucose sensing; stabilized by Sod1p binding in the presence of glucose and oxygen, causing glucose repression of respiratory metabolism; involved in the phosphorylation and regulation of glucose sensor Rgt2p; YCK2 has a paralog, YCK1, that arose from the whole genome duplication
+S000032102	CDS					YNL154C		14	345276	343636	C		2011-02-03	1996-07-31	
+S000005097	ORF	Verified	YNL153C	GIM3	tubulin-binding prefolding complex subunit GIM3|PFD4	chromosome 14	L000004369	14	346058	345669	C		2011-02-03	1996-07-31	Subunit of the heterohexameric cochaperone prefoldin complex; prefoldin binds specifically to cytosolic chaperonin and transfers target proteins to it; prefoldin complex also localizes to chromatin of actively transcribed genes in the nucleus and facilitates transcriptional elongation
+S000031948	CDS					YNL153C		14	346058	345669	C		2011-02-03	1996-07-31	
+S000005096	ORF	Verified	YNL152W	INN1		chromosome 14		14	346313	347542	W		2011-02-03	1996-07-31	Essential protein that associates with contractile actomyosin ring; required for ingression of the plasma membrane into the bud neck during cytokinesis; C2 domain, a membrane targeting module, is required for function; activates chitin synthase activity of Chs2p during cytokinesis
+S000031853	CDS					YNL152W		14	346313	347542	W		2011-02-03	1996-07-31	
+S000005095	ORF	Verified	YNL151C	RPC31	DNA-directed RNA polymerase III subunit C31|C31|RPC8|ACP2	chromosome 14	L000001688	14	348521	347766	C	-237	2011-02-03	1996-07-31	RNA polymerase III subunit C31
+S000030811	CDS					YNL151C		14	348521	347766	C		2011-02-03	1996-07-31	
+S000005094	ORF	Dubious	YNL150W			chromosome 14		14	349251	349658	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; extensive overlap with PGA2/YNL149C, an uncharacterized gene with a proposed role in protein trafficking
+S000030782	CDS					YNL150W		14	349251	349658	W		2011-02-03	1996-07-31	
+S000005093	ORF	Verified	YNL149C	PGA2		chromosome 14		14	349756	349367	C		2011-02-03	1996-07-31	Essential protein required for maturation of Gas1p and Pho8p; involved in protein trafficking; GFP-fusion protein localizes to the ER and YFP-fusion protein to the nuclear envelope-ER network; null mutants have a cell separation defect
+S000031137	CDS					YNL149C		14	349756	349367	C		2011-02-03	1996-07-31	
+S000005092	ORF	Verified	YNL148C	ALF1		chromosome 14	L000003527	14	350671	349907	C		2011-02-03	1996-07-31	Alpha-tubulin folding protein; similar to mammalian cofactor B; Alf1p-GFP localizes to cytoplasmic microtubules; required for the folding of alpha-tubulin and may play an additional role in microtubule maintenance
+S000031037	CDS					YNL148C		14	350671	349907	C		2011-02-03	1996-07-31	
+S000005091	ORF	Verified	YNL147W	LSM7	Sm-like protein LSM7	chromosome 14	L000004686	14	350940	351383	W		2011-02-03	1996-07-31|2007-09-06	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress
+S000031001	CDS					YNL147W		14	350940	350957	W		2011-02-03	1996-07-31	
+S000031002	CDS					YNL147W		14	351054	351383	W		2011-02-03	1996-07-31|2007-09-06	
+S000031003	intron					YNL147W		14	350958	351053	W		2011-02-03	1996-07-31|2007-09-06	
+S000028851	ORF	Uncharacterized	YNL146C-A			chromosome 14		14	351580	351386	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000034564	CDS					YNL146C-A		14	351580	351386	C		2011-02-03	2003-07-29	
+S000005090	ORF	Uncharacterized	YNL146W			chromosome 14		14	351715	352017	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YNL146W is not an essential gene
+S000030919	CDS					YNL146W		14	351715	352017	W		2011-02-03	1996-07-31	
+S000005089	ORF	Verified	YNL145W	MFA2	mating pheromone a	chromosome 14	L000001097	14	352414	352530	W	-107.4	2011-02-03	1996-07-31	Mating pheromone a-factor; made by a cells; interacts with alpha cells to induce cell cycle arrest and other responses leading to mating; biogenesis involves C-terminal modification, N-terminal proteolysis, and export; also encoded by MFA1
+S000029912	CDS					YNL145W		14	352414	352530	W		2011-02-03	1996-07-31	
+S000028702	ORF	Dubious	YNL144W-A			chromosome 14		14	353061	353144	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YNL144C
+S000032635	CDS					YNL144W-A		14	353061	353144	W		2011-02-03	2003-07-29	
+S000005088	ORF	Uncharacterized	YNL144C			chromosome 14		14	355042	352820	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-tagged protein is detected in highly purified mitochondria in high-throughput studies; contains a PH domain and binds phosphatidylinositols and phosphatidylethanolamine in a large-scale study; YNL144C has a paralog, YHR131C, that arose from the whole genome duplication
+S000037844	CDS					YNL144C		14	355042	352820	C		2011-02-03	1996-07-31	
+S000005087	ORF	Uncharacterized	YNL143C			chromosome 14		14	357186	356794	C		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels
+S000036002	CDS					YNL143C		14	357186	356794	C		2011-02-03	1996-07-31	
+S000005086	ORF	Verified	YNL142W	MEP2	ammonium permease MEP2	chromosome 14	L000002583	14	357453	358952	W		2011-02-03	1996-07-31	Ammonium permease involved in regulation of pseudohyphal growth; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation
+S000035924	CDS					YNL142W		14	357453	358952	W		2011-02-03	1996-07-31	
+S000005085	ORF	Verified	YNL141W	AAH1	adenine deaminase	chromosome 14	L000004289	14	359596	360639	W		2011-02-03	1996-07-31	Adenine deaminase (adenine aminohydrolase); converts adenine to hypoxanthine; involved in purine salvage; transcriptionally regulated by nutrient levels and growth phase; Aah1p degraded upon entry into quiescence via SCF and the proteasome
+S000035807	CDS					YNL141W		14	359596	360639	W		2011-02-03	1996-07-31	
+S000005084	ORF	Uncharacterized	YNL140C			chromosome 14		14	361486	360917	C		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; partially overlaps THO2/YNL139C
+S000034768	CDS					YNL140C		14	361486	360917	C		2011-02-03	1996-07-31	
+S000005083	ORF	Verified	YNL139C	THO2	RLR1|LDB5|ZRG13	chromosome 14	L000002589	14	365717	360924	C		2011-02-03	1996-07-31	Subunit of the THO complex; THO is required for efficient transcription elongation and involved in transcriptional elongation-associated recombination; required for LacZ RNA expression from certain plasmids
+S000036082	CDS					YNL139C		14	365717	360924	C		2011-02-03	1996-07-31	
+S000028509	ORF	Verified	YNL138W-A	YSF3	U2 snRNP complex subunit YSF3|RCP10	chromosome 14		14	366033	366412	W		2011-02-03	2003-07-29	Component of the SF3b subcomplex of the U2 snRNP; essential protein required for splicing and for assembly of SF3b
+S000030223	CDS					YNL138W-A		14	366033	366035	W		2011-02-03	2003-07-29	
+S000030224	CDS					YNL138W-A		14	366158	366412	W		2011-02-03	2003-07-29	
+S000030225	intron					YNL138W-A		14	366036	366157	W		2011-02-03	2003-07-29	
+S000005082	ORF	Verified	YNL138W	SRV2	adenylate cyclase-binding protein|CAP	chromosome 14	L000002068	14	366741	368321	W	-101	2011-02-03	1996-07-31	CAP (cyclase-associated protein); N-terminus binds adenylate cyclase and facilitates activation by RAS; N-terminus forms novel hexameric star-shaped shuriken structures that directly catalyze cofilin-mediated severing of actin filaments; C-terminus binds and recycles cofilin bound, ADP-actin monomers, facilitating regulation of actin dynamics and cell morphogenesis; N- and C-termini can function as physically separate proteins; mCAP1 is the mouse homolog
+S000036041	CDS					YNL138W		14	366741	368321	W		2011-02-03	1996-07-31	
+S000005081	ORF	Verified	YNL137C	NAM9	mitochondrial 37S ribosomal protein NAM9|MNA6	chromosome 14	L000001231	14	370055	368595	C		2011-02-03	1996-07-31	Mitochondrial ribosomal component of the small subunit
+S000035090	CDS					YNL137C		14	370055	368595	C		2011-02-03	1996-07-31	
+S000005080	ORF	Verified	YNL136W	EAF7		chromosome 14		14	370368	371645	W		2011-02-03	1996-07-31	Subunit of the NuA4 histone acetyltransferase complex; NuA4 acetylates the N-terminal tails of histones H4 and H2A
+S000035041	CDS					YNL136W		14	370368	371645	W		2011-02-03	1996-07-31	
+S000005079	ORF	Verified	YNL135C	FPR1	peptidylprolyl isomerase FPR1|RBP1|FKB1	chromosome 14	L000000623	14	372226	371882	C	-105	2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (PPIase); binds to the drugs FK506 and rapamycin; also binds to the nonhistone chromatin binding protein Hmo1p and may regulate its assembly or function; N-terminally propionylated in vivo; mutation is functionally complemented by human FKBP1A
+S000034848	CDS					YNL135C		14	372226	371882	C		2011-02-03	1996-07-31	
+S000005078	ORF	Verified	YNL134C			chromosome 14		14	373581	372451	C		2011-02-03	1996-07-31	NADH-dependent aldehyde reductase, involved in detoxification of furfural; expression is up-regulated in the presence of furfural and 5-hydroxymethylfurfural, which are compounds generated during lignocellulosic biomass pre-treatment; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and nucleus; protein abundance increases in response to DNA replication stress
+S000033976	CDS					YNL134C		14	373581	372451	C		2011-02-03	1996-07-31	
+S000005077	ORF	Verified	YNL133C	FYV6		chromosome 14		14	374692	374171	C		2011-02-03	1996-07-31	Protein of unknown function; required for survival upon exposure to K1 killer toxin; proposed to regulate double-strand break repair via non-homologous end-joining
+S000033840	CDS					YNL133C		14	374692	374171	C		2011-02-03	1996-07-31	
+S000006569	tRNA_gene		tF(GAA)N			chromosome 14	L000003689	14	374869	374959	W		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000035429	intron					tF(GAA)N		14	374906	374923	W		2011-02-03	2000-05-19	
+S000035427	noncoding_exon					tF(GAA)N		14	374869	374905	W		2011-02-03	2000-05-19	
+S000035428	noncoding_exon					tF(GAA)N		14	374924	374959	W		2011-02-03	2000-05-19	
+S000005076	ORF	Verified	YNL132W	KRE33	ribosome biosynthesis protein KRE33|RRA1	chromosome 14		14	375321	378491	W		2011-02-03	1996-07-31	Protein required for biogenesis of the small ribosomal subunit; heterozygous mutant shows haploinsufficiency in K1 killer toxin resistance; essential gene; NAT10, the human homolog, implicated in several types of cancer and premature aging.
+S000033781	CDS					YNL132W		14	375321	378491	W		2011-02-03	1996-07-31	
+S000005075	ORF	Verified	YNL131W	TOM22	MOM22|MAS22|MAS17	chromosome 14	L000002582	14	378767	379225	W		2011-02-03	1996-07-31	Component of the TOM (Translocase of Outer Membrane) complex; responsible for initial import of mitochondrially directed proteins; mediates interaction between TOM and TIM complexes and acts as a receptor for precursor proteins
+S000033651	CDS					YNL131W		14	378767	379225	W		2011-02-03	1996-07-31	
+S000005074	ORF	Verified	YNL130C	CPT1	diacylglycerol cholinephosphotransferase	chromosome 14	L000000404	14	380831	379558	C		2011-02-03	2004-02-03|1996-07-31	Cholinephosphotransferase; required for phosphatidylcholine biosynthesis and for inositol-dependent regulation of EPT1 transcription; CPT1 has a paralog, EPT1, that arose from the whole genome duplication
+S000030245	CDS					YNL130C		14	380689	379558	C		2011-02-03	1996-07-31	
+S000030243	CDS					YNL130C		14	380831	380782	C		2011-02-03	2004-02-03|1996-07-31	
+S000030246	intron					YNL130C		14	380781	380690	C		2011-02-03	2004-02-03|1996-07-31	
+S000028579	ORF	Uncharacterized	YNL130C-A	DGR1		chromosome 14		14	381391	381245	C		2011-02-03	2003-07-29	Protein of unknown function; dgr1 null mutant is resistant to 2-deoxy-D-glucose
+S000031313	CDS					YNL130C-A		14	381391	381245	C		2011-02-03	2003-07-29	
+S000005073	ORF	Verified	YNL129W	NRK1	ribosylnicotinamide kinase	chromosome 14	S000029011|S000029327	14	381480	382202	W		2011-02-03	1996-07-31	Nicotinamide riboside kinase; catalyzes the phosphorylation of nicotinamide riboside and nicotinic acid riboside in salvage pathways for NAD+ biosynthesis
+S000031557	CDS					YNL129W		14	381480	382202	W		2011-02-03	1996-07-31	
+S000005072	ORF	Verified	YNL128W	TEP1	putative phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase	chromosome 14	L000003922	14	382359	383663	W		2011-02-03	1996-07-31|2011-02-03	PTEN homolog with no demonstrated inositol lipid phosphatase activity; plays a role in normal sporulation; homolog of human tumor suppressor gene PTEN/MMAC1/TEP1 and fission yeast ptn1
+S000030721	CDS					YNL128W		14	382359	383663	W		2011-02-03	1996-07-31|2011-02-03	
+S000005071	ORF	Verified	YNL127W	FAR11		chromosome 14		14	383987	386848	W		2011-02-03	1996-07-31	Protein involved in recovery from cell cycle arrest; acts in response to pheromone; also involved in regulation of intra-S DNA damage checkpoint and autophagy; is essential for dephosphorylation of Atg13p; interacts with Far3p, Far7p, Far8p, Far9p, Far10p and with the phosphatases Pph21p, Pph22p and Pph3p; has similarity to the N- and C-termini of N. crassa HAM-2; similar to human Fam40A and Fam40B
+S000030640	CDS					YNL127W		14	383987	386848	W		2011-02-03	1996-07-31	
+S000005070	ORF	Verified	YNL126W	SPC98		chromosome 14	L000003430	14	387227	389767	W		2011-02-03	1996-07-31	Component of the microtubule-nucleating Tub4p (gamma-tubulin) complex; interacts with Spc110p at the spindle pole body (SPB) inner plaque and with Spc72p at the SPB outer plaque
+S000030533	CDS					YNL126W		14	387227	389767	W		2011-02-03	1996-07-31	
+S000005069	ORF	Verified	YNL125C	ESBP6	MCH3	chromosome 14	L000004077	14	392167	390146	C		2011-02-03	1996-07-31	Protein with similarity to monocarboxylate permeases; appears not to be involved in transport of monocarboxylates such as lactate, pyruvate or acetate across the plasma membrane
+S000037681	CDS					YNL125C		14	392167	390146	C		2011-02-03	1996-07-31	
+S000005068	ORF	Verified	YNL124W	NAF1	RNA-binding snoRNP assembly protein	chromosome 14		14	392892	394370	W		2011-02-03	1996-07-31	RNA-binding protein required for the assembly of box H/ACA snoRNPs; thus required for pre-rRNA processing; forms a complex with Shq1p and interacts with H/ACA snoRNP components Nhp2p and Cbf5p; similar to Gar1p
+S000037659	CDS					YNL124W		14	392892	394370	W		2011-02-03	1996-07-31	
+S000005067	ORF	Verified	YNL123W	NMA111	YNM3	chromosome 14		14	394685	397678	W		2011-02-03	1996-07-31	Serine protease and general molecular chaperone; involved in response to heat stress and promotion of apoptosis; may contribute to lipid homeostasis; sequence similarity to the mammalian Omi/HtrA2 family of serine proteases
+S000037577	CDS					YNL123W		14	394685	397678	W		2011-02-03	1996-07-31	
+S000005066	ORF	Verified	YNL122C			chromosome 14		14	398370	398023	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; homologous to bacterial L35 and human MRPL35 ribosomal proteins
+S000037427	CDS					YNL122C		14	398370	398023	C		2011-02-03	1996-07-31	
+S000005065	ORF	Verified	YNL121C	TOM70	protein channel TOM70|OMP1|MOM72|MAS70	chromosome 14	L000001030|L000003141	14	400537	398684	C		2011-02-03	1996-07-31	Component of the TOM (translocase of outer membrane) complex; involved in the recognition and initial import steps for all mitochondrially directed proteins; acts as a receptor for incoming precursor proteins; TOM70 has a paralog, TOM71, that arose from the whole genome duplication
+S000031934	CDS					YNL121C		14	400537	398684	C		2011-02-03	1996-07-31	
+S000005063	ORF	Verified	YNL119W	NCS2	TUC2	chromosome 14		14	401040	402521	W		2011-02-03	1996-07-31	Protein required for uridine thiolation of Lys(UUU) and Glu(UUC) tRNAs; required for the thiolation of uridine at the wobble position of Lys(UUU) and Glu(UUC) tRNAs; has a role in urmylation and in invasive and pseudohyphal growth; inhibits replication of Brome mosaic virus in S. cerevisiae
+S000036308	CDS					YNL119W		14	401040	402521	W		2011-02-03	1996-07-31	
+S000005064	ORF	Dubious	YNL120C			chromosome 14		14	401518	401033	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion enhances replication of Brome mosaic virus in S. cerevisiae, but likely due to effects on the overlapping gene
+S000031820	CDS					YNL120C		14	401518	401033	C		2011-02-03	1996-07-31	
+S000005062	ORF	Verified	YNL118C	DCP2	decapping enzyme complex catalytic subunit|PSU1	chromosome 14	L000002866	14	405564	402652	C		2011-02-03	1996-07-31	Catalytic subunit of Dcp1p-Dcp2p decapping enzyme complex; removes 5' cap structure from mRNAs prior to their degradation; also enters nucleus and positively regulates transcription initiation; nudix hydrolase family member; forms cytoplasmic foci upon DNA replication stress; human homolog DCP2 complements yeast dcp2 thermosensitive mutant
+S000035360	CDS					YNL118C		14	405564	402652	C		2011-02-03	1996-07-31	
+S000005061	ORF	Verified	YNL117W	MLS1	malate synthase MLS1	chromosome 14	L000001123	14	406358	408022	W		2011-02-03	1996-07-31	Malate synthase, enzyme of the glyoxylate cycle; involved in utilization of non-fermentable carbon sources; expression is subject to carbon catabolite repression; localizes in peroxisomes during growth on oleic acid, otherwise cytosolic; can accept butyryl-CoA as acyl-CoA donor in addition to traditional substrate acetyl-CoA
+S000035332	CDS					YNL117W		14	406358	408022	W		2011-02-03	1996-07-31	
+S000005060	ORF	Verified	YNL116W	DMA2	ubiquitin-conjugating protein DMA2|CHF2	chromosome 14	S000029720	14	408341	409909	W		2011-02-03	1996-07-31	Ubiquitin-protein ligase (E3); controls septin dynamics and spindle position checkpoint (SPOC) with ligase Dma1p by regulating recruitment of Elm1p to bud neck; regulates levels of eIF2 subunit Gcd11p, as well as abundance, localization, and ubiquitination of Cdk inhibitory kinase Swe1p; ortholog of human RNF8, similar to human Chfr; contains FHA and RING finger domains; DMA2 has a paralog, DMA1, that arose from the whole genome duplication
+S000035249	CDS					YNL116W		14	408341	409909	W		2011-02-03	1996-07-31	
+S000005059	ORF	Uncharacterized	YNL115C			chromosome 14		14	412053	410119	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YNL115C is not an essential gene
+S000034227	CDS					YNL115C		14	412053	410119	C		2011-02-03	1996-07-31	
+S000118386	ARS		ARS1417		ARSXIV-412	chromosome 14		14	412267	412496			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000005057	ORF	Verified	YNL113W	RPC19	DNA-directed RNA polymerase core subunit RPC19|AC19	chromosome 14	L000001687	14	412771	413199	W		2011-02-03	1996-07-31	RNA polymerase subunit AC19; common to RNA polymerases I and III
+S000034093	CDS					YNL113W		14	412771	413199	W		2011-02-03	1996-07-31	
+S000005058	ORF	Dubious	YNL114C			chromosome 14		14	413055	412684	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF RPC19/YNL113W, an RNA polymerase subunit
+S000034126	CDS					YNL114C		14	413055	412684	C		2011-02-03	1996-07-31	
+S000005056	ORF	Verified	YNL112W	DBP2	DEAD-box ATP-dependent RNA helicase DBP2	chromosome 14	L000000493	14	413639	416281	W		2011-02-03	1996-07-31	ATP-dependent RNA helicase of the DEAD-box protein family; has strong preference for dsRNA; interacts with YRA1; required for assembly of Yra1p, Nab2p and Mex67p onto mRNA and formation of nuclear mRNP; involved in mRNA decay and rRNA processing; may be involved in suppression of transcription from cryptic initiation sites
+S000033962	CDS					YNL112W		14	413639	414911	W		2011-02-03	1996-07-31	
+S000033963	CDS					YNL112W		14	415914	416281	W		2011-02-03	1996-07-31	
+S000033964	intron					YNL112W		14	414912	415913	W		2011-02-03	1996-07-31	
+S000005055	ORF	Verified	YNL111C	CYB5		chromosome 14	L000002498	14	417302	416940	C		2011-02-03	1996-07-31	Cytochrome b5; involved in the sterol and lipid biosynthesis pathways; acts as an electron donor to support sterol C5-6 desaturation
+S000033131	CDS					YNL111C		14	417302	416940	C		2011-02-03	1996-07-31	
+S000005054	ORF	Verified	YNL110C	NOP15	rRNA-binding ribosome biosynthesis protein NOP15	chromosome 14		14	418488	417826	C		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; involved in 60S ribosomal subunit biogenesis; localizes to both nucleolus and cytoplasm
+S000033055	CDS					YNL110C		14	418488	417826	C		2011-02-03	1996-07-31	
+S000005053	ORF	Dubious	YNL109W			chromosome 14		14	418964	419509	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YNL108C
+S000032014	CDS					YNL109W		14	418964	419509	W		2011-02-03	1996-07-31	
+S000005052	ORF	Verified	YNL108C		HUF	chromosome 14		14	419826	419014	C		2011-02-03	1996-07-31	Protein phosphatase; similar to prokaryotic phosphotransfer enzymes; null mutant shows alterations in glucose metabolism; GFP-fusion protein localizes to the cytoplasm and nucleus; YNL108C has a paralog, TFC7, that arose from the whole genome duplication
+S000031012	CDS					YNL108C		14	419826	419014	C		2011-02-03	1996-07-31	
+S000005051	ORF	Verified	YNL107W	YAF9		chromosome 14	S000007495	14	420098	420778	W		2011-02-03	1996-07-31	Subunit of NuA4 histone H4 acetyltransferase and SWR1 complexes; may function to antagonize silencing near telomeres; interacts directly with Swc4p; has homology to human leukemogenic protein AF9; contains a YEATS domain
+S000030966	CDS					YNL107W		14	420098	420778	W		2011-02-03	1996-07-31	
+S000005049	ORF	Dubious	YNL105W	RRT16		chromosome 14		14	424155	424583	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene INP52; identified in a screen for mutants with decreased levels of rDNA transcription
+S000030822	CDS					YNL105W		14	424155	424583	W		2011-02-03	1996-07-31	
+S000005050	ORF	Verified	YNL106C	INP52	phosphatidylinositol-3-/phosphoinositide 5-phosphatase INP52|SJL2	chromosome 14	L000003985	14	424495	420944	C		2011-02-03	1996-07-31	Polyphosphatidylinositol phosphatase; dephosphorylates a number of phosphatidylinositol phosphates (PtdInsPs, PIPs) to PI; involved in endocytosis; hyperosmotic stress causes translocation to actin patches; synaptojanin-like protein with a Sac1 domain; INP52 has a paralog, INP53, that arose from the whole genome duplication
+S000030872	CDS					YNL106C		14	424495	420944	C		2011-02-03	1996-07-31	
+S000028701	ORF	Dubious	YNL103W-A			chromosome 14		14	426719	426808	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene MET4/YNL104C
+S000032634	CDS					YNL103W-A		14	426719	426808	W		2011-02-03	2003-07-29	
+S000005048	ORF	Verified	YNL104C	LEU4	2-isopropylmalate synthase LEU4	chromosome 14	L000000945	14	426754	424895	C	-76	2011-02-03	1996-07-31	Alpha-isopropylmalate synthase (2-isopropylmalate synthase); the main isozyme responsible for the first step in the leucine biosynthesis pathway; LEU4 has a paralog, LEU9, that arose from the whole genome duplication
+S000037846	CDS					YNL104C		14	426754	424895	C		2011-02-03	1996-07-31	
+S000005047	ORF	Verified	YNL103W	MET4		chromosome 14	L000001079	14	427735	429753	W	-76	2011-02-03	1996-07-31|2006-11-09	Leucine-zipper transcriptional activator; responsible for regulation of sulfur amino acid pathway; requires different combinations of auxiliary factors Cbf1p, Met28p, Met31p and Met32p; feedforward loop exists in the regulation of genes controlled by Met4p and Met32p; can be ubiquitinated by ubiquitin ligase SCF-Met30p, is either degraded or maintained in an inactive state; regulates degradation of its own DNA-binding cofactors by targeting them to SCF-Met30p
+S000037804	CDS					YNL103W		14	427735	429753	W		2011-02-03	1996-07-31|2006-11-09	
+S000005046	ORF	Verified	YNL102W	POL1	DNA-directed DNA polymerase alpha catalytic subunit POL1|HPR3|CRT5|CDC17	chromosome 14	L000000257	14	430087	434493	W	-74	2011-02-03	1996-07-31	Catalytic subunit of the DNA polymerase I alpha-primase complex; required for the initiation of DNA replication during mitotic DNA synthesis and premeiotic DNA synthesis
+S000037722	CDS					YNL102W		14	430087	434493	W		2011-02-03	1996-07-31	
+S000005045	ORF	Verified	YNL101W	AVT4		chromosome 14		14	434999	437140	W		2011-02-03	1996-07-31	Vacuolar transporter; exports large neutral amino acids from the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs)
+S000036962	CDS					YNL101W		14	434999	437140	W		2011-02-03	1996-07-31	
+S000005044	ORF	Verified	YNL100W	MIC27	AIM37|MCS27	chromosome 14		14	437613	438317	W		2011-02-03	1996-07-31	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; forms a subcomplex with Mic10p and Mic12p whose assembly and stability requires cardiolipin
+S000036897	CDS					YNL100W		14	437613	438317	W		2011-02-03	1996-07-31	
+S000005043	ORF	Verified	YNL099C	OCA1	putative tyrosine protein phosphatase OCA1	chromosome 14		14	439283	438567	C		2011-02-03	1996-07-31	Putative protein tyrosine phosphatase; required for cell cycle arrest in response to oxidative damage of DNA
+S000031337	CDS					YNL099C		14	439283	438567	C		2011-02-03	1996-07-31	
+S000005042	ORF	Verified	YNL098C	RAS2	Ras family GTPase RAS2|TSL7|GLC5|CYR3|CTN5	chromosome 14	L000001583	14	440570	439602	C	-71.5	2011-02-03	1996-07-31	GTP-binding protein; regulates nitrogen starvation response, sporulation, and filamentous growth; farnesylation and palmitoylation required for activity and localization to plasma membrane; homolog of mammalian Ras proto-oncogenes; RAS2 has a paralog, RAS1, that arose from the whole genome duplication
+S000030460	CDS					YNL098C		14	440570	439602	C		2011-02-03	1996-07-31	
+S000028699	ORF	Uncharacterized	YNL097C-B		YNL097C-A	chromosome 14		14	440919	440797	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000032611	CDS					YNL097C-B		14	440919	440797	C		2011-02-03	2003-07-29	
+S000028700	ORF	Dubious	YNL097W-A			chromosome 14		14	441431	441586	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene PHO23/YNL097C
+S000032629	CDS					YNL097W-A		14	441431	441586	W		2011-02-03	2003-07-29	
+S000005041	ORF	Verified	YNL097C	PHO23		chromosome 14	L000004300	14	442358	441366	C		2011-02-03	1996-07-31	Component of the Rpd3L histone deacetylase complex; involved in transcriptional regulation of PHO5; affects termination of snoRNAs and cryptic unstable transcripts (CUTs); C-terminus shares significant sequence identity with the human candidate tumor suppressor p33-ING1 and its isoform ING3
+S000030326	CDS					YNL097C		14	442358	441366	C		2011-02-03	1996-07-31	
+S000006645	tRNA_gene		tL(CAA)N			chromosome 14	L000003690	14	443006	443119	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000033817	intron					tL(CAA)N		14	443044	443075	W		2011-02-03	2000-05-19	
+S000033815	noncoding_exon					tL(CAA)N		14	443006	443043	W		2011-02-03	2000-05-19	
+S000033816	noncoding_exon					tL(CAA)N		14	443076	443119	W		2011-02-03	2000-05-19	
+S000005040	ORF	Verified	YNL096C	RPS7B	eS7|ribosomal 40S subunit protein S7B|S7e|rp30|S7B	chromosome 14	L000004473	14	444315	443398	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; interacts with Kti11p; deletion causes hypersensitivity to zymocin; homologous to mammalian ribosomal protein S7, no bacterial homolog; RPS7B has a paralog, RPS7A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000030167	CDS					YNL096C		14	443826	443398	C		2011-02-03	1996-07-31	
+S000030166	CDS					YNL096C		14	444315	444172	C		2011-02-03	1996-07-31	
+S000030168	intron					YNL096C		14	444171	443827	C		2011-02-03	1996-07-31	
+S000005039	ORF	Uncharacterized	YNL095C			chromosome 14		14	446840	444912	C		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to contain a transmembrane domain; not an essential gene; YNL095C has a paralog, ECM3, that arose from the whole genome duplication
+S000036433	CDS					YNL095C		14	446840	444912	C		2011-02-03	1996-07-31	
+S000005038	ORF	Verified	YNL094W	APP1	phosphatidate phosphatase APP1	chromosome 14		14	447611	449374	W		2011-02-03	1996-07-31	Phosphatidate phosphatase, converts phosphatidate to diacylglycerol; App1p, Pah1p, Dpp1p, and Lpp1p are responsible for all the phosphatidate phosphatase activity; component of cortical actin patches; interacts with components of endocytic pathway
+S000036404	CDS					YNL094W		14	447611	449374	W		2011-02-03	1996-07-31	
+S000118387	ARS		ARS1419		ARSXIV-450	chromosome 14		14	449429	449588			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178171	ARS_consensus_sequence					ARS1419		14	449534	449518	C		2014-11-18	2014-11-18	
+S000005037	ORF	Verified	YNL093W	YPT53	Rab family GTPase YPT53	chromosome 14	L000002547	14	449868	450530	W		2011-02-03	1996-07-31	Stress-induced Rab family GTPase; required for vacuolar protein sorting and endocytosis; involved in ionic stress tolerance; similar to Vps21p and Ypt52p; functional homolog of Vps21p; mammalian Rab5 homolog; YPT53 has a paralog, VPS21, that arose from the whole genome duplication
+S000036317	CDS					YNL093W		14	449868	450530	W		2011-02-03	1996-07-31	
+S000005036	ORF	Verified	YNL092W		S-adenosylmethionine-dependent methyltransferase	chromosome 14		14	450871	452073	W		2011-02-03	1996-07-31	S-adenosylmethionine-dependent protein methyltransferase; capable of automethylation; member of the seven beta-strand family; YNL092W is not an essential gene
+S000036208	CDS					YNL092W		14	450871	452073	W		2011-02-03	1996-07-31	
+S000005035	ORF	Verified	YNL091W	NST1		chromosome 14		14	452408	456130	W		2011-02-03	1996-07-31	Protein of unknown function; mediates sensitivity to salt stress; interacts physically with the splicing factor Msl1p and also displays genetic interaction with MSL1
+S000036061	CDS					YNL091W		14	452408	456130	W		2011-02-03	1996-07-31	
+S000005034	ORF	Verified	YNL090W	RHO2	Rho family GTPase RHO2	chromosome 14	L000001631	14	456565	457143	W		2011-02-03	1996-07-31	Non-essential small GTPase of the Rho/Rac family of Ras-like proteins; involved in the establishment of cell polarity and in microtubule assembly
+S000035133	CDS					YNL090W		14	456565	457143	W		2011-02-03	1996-07-31	
+S000005033	ORF	Dubious	YNL089C			chromosome 14		14	457169	456693	C		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; almost completely overlaps YNL090W/RHO2 which encodes a small GTPase of the Rho/Rac subfamily of Ras-like proteins
+S000035490	CDS					YNL089C		14	457169	456693	C		2011-02-03	1996-07-31	
+S000005032	ORF	Verified	YNL088W	TOP2	DNA topoisomerase 2|TRF3|TOR3	chromosome 14	L000002320	14	457704	461990	W	-70	2011-02-03	1996-07-31	Topoisomerase II; relieves torsional strain in DNA by cleaving and re-sealing phosphodiester backbone of both positively and negatively supercoiled DNA; cleaves complementary strands; localizes to axial cores in meiosis; required for replication slow zone (RSZ) breakage following Mec1p inactivation; human homolog TOP2A implicated in cancers, and can complement yeast null mutant
+S000035464	CDS					YNL088W		14	457704	461990	W		2011-02-03	1996-07-31	
+S000005031	ORF	Verified	YNL087W	TCB2	tricalbin	chromosome 14		14	462411	465947	W		2011-02-03	1996-07-31	ER protein involved in ER-plasma membrane tethering; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to plasma membrane (PM) and regulate PM phosphatidylinositol-4-phosphate (PI4P) levels by controlling access of Sac1p phosphatase to its substrate PI4P in the PM; contains 3 calcium and lipid binding domains; mRNA is targeted to bud; TCB2 has a paralog, TCB1, that arose from the whole genome duplication
+S000035400	CDS					YNL087W		14	462411	465947	W		2011-02-03	1996-07-31	
+S000005030	ORF	Verified	YNL086W	SNN1	BLS1	chromosome 14		14	466334	466642	W		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; interacts with Msb3p; green fluorescent protein (GFP)-fusion protein localizes to endosomes
+S000035333	CDS					YNL086W		14	466334	466642	W		2011-02-03	1996-07-31	
+S000005029	ORF	Verified	YNL085W	MKT1		chromosome 14	L000001120	14	467131	469623	W	-69	2011-02-03	1996-07-31	Protein similar to nucleases that forms a complex with Pbp1p; complex may mediate posttranscriptional regulation of HO; involved in propagation of M2 dsRNA satellite of L-A virus; allelic variation affects mitochondrial genome stability, drug resistance, and more; forms cytoplasmic foci upon DNA replication stress; localization to P-bodies under ethanol stress differs between strains
+S000034367	CDS					YNL085W		14	467131	469623	W		2011-02-03	1996-07-31	
+S000005028	ORF	Verified	YNL084C	END3		chromosome 14	L000000558	14	471102	470053	C		2011-02-03	1996-07-31	EH domain-containing protein involved in endocytosis; actin cytoskeletal organization and cell wall morphogenesis; forms a complex with Sla1p and Pan1p
+S000034279	CDS					YNL084C		14	471102	470053	C		2011-02-03	1996-07-31	
+S000005027	ORF	Verified	YNL083W	SAL1	Ca(2+)-binding ATP:ADP antiporter SAL1	chromosome 14		14	471377	472861	W		2011-02-03	2004-02-18|2010-01-05|1996-07-31	ADP/ATP transporter; member of the Ca2+-binding subfamily of mitochondrial carriers, with two EF-hand motifs; transport activity of either Sal1p or Pet9p is critical for viability; polymorphic in different S. cerevisiae strains
+S000034242	CDS					YNL083W		14	471377	472861	W		2011-02-03	2004-02-18|2010-01-05|1996-07-31	
+S000005026	ORF	Verified	YNL082W	PMS1	ATP-binding mismatch repair protein	chromosome 14	L000001457	14	473391	476012	W	-66	2011-02-03	2004-04-21|1996-07-31	ATP-binding protein required for mismatch repair; required for both mitosis and meiosis; functions as a heterodimer with Mlh1p; binds double- and single-stranded DNA via its N-terminal domain, similar to E. coli MutL
+S000034101	CDS					YNL082W		14	473391	476012	W		2011-02-03	2004-04-21|1996-07-31	
+S000005025	ORF	Verified	YNL081C	SWS2	putative mitochondrial 37S ribosomal protein SWS2	chromosome 14		14	476619	476188	C		2011-02-03	1996-07-31	Putative mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S13 ribosomal protein; participates in controlling sporulation efficiency; localizes to vacuole in response to H2O2
+S000032072	CDS					YNL081C		14	476619	476188	C		2011-02-03	1996-07-31	
+S000005024	ORF	Verified	YNL080C	EOS1		chromosome 14		14	478032	476932	C		2011-02-03	1996-07-31	Protein involved in N-glycosylation; deletion mutation confers sensitivity to exidative stress and shows synthetic lethality with mutations in the spindle checkpoint genes BUB3 and MAD1; YNL080C is not an essential gene
+S000031947	CDS					YNL080C		14	478032	476932	C		2011-02-03	1996-07-31	
+S000005023	ORF	Verified	YNL079C	TPM1	tropomyosin TPM1	chromosome 14	L000002328	14	479165	478566	C		2011-02-03	1996-07-31	Major isoform of tropomyosin; binds to and stabilizes actin cables and filaments, which direct polarized cell growth and the distribution of several organelles; acetylated by the NatB complex and acetylated form binds actin most efficiently; TPM1 has a paralog, TPM2, that arose from the whole genome duplication
+S000032271	CDS					YNL079C		14	479165	478566	C		2011-02-03	1996-07-31	
+S000005022	ORF	Verified	YNL078W	NIS1	JIP1	chromosome 14		14	479768	480991	W		2011-02-03	1996-07-31	Protein localized in the bud neck at G2/M phase; physically interacts with septins; possibly involved in a mitotic signaling network
+S000032241	CDS					YNL078W		14	479768	480991	W		2011-02-03	1996-07-31	
+S000005021	ORF	Verified	YNL077W	APJ1		chromosome 14		14	481391	482977	W		2011-02-03	1996-07-31	Chaperone with a role in SUMO-mediated protein degradation; member of the DnaJ-like family; conserved across eukaryotes; overexpression interferes with propagation of the [Psi+] prion; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; forms nuclear foci upon DNA replication stress
+S000032158	CDS					YNL077W		14	481391	482977	W		2011-02-03	1996-07-31	
+S000005020	ORF	Verified	YNL076W	MKS1	LYS80	chromosome 14	L000001119	14	483556	485310	W		2011-02-03	1996-07-31	Pleiotropic negative transcriptional regulator; involved in Ras-CAMP and lysine biosynthetic pathways and nitrogen regulation; involved in retrograde (RTG) mitochondria-to-nucleus signaling
+S000031187	CDS					YNL076W		14	483556	485310	W		2011-02-03	1996-07-31	
+S000005019	ORF	Verified	YNL075W	IMP4	snoRNA-binding rRNA-processing protein IMP4	chromosome 14	S000007424	14	485607	486479	W		2011-02-03	1996-07-31	Component of the SSU processome; SSU processome is required for pre-18S rRNA processing; interacts with Mpp10p; member of a superfamily of proteins that contain a sigma(70)-like motif and associate with RNAs
+S000031099	CDS					YNL075W		14	485607	486479	W		2011-02-03	1996-07-31	
+S000005018	ORF	Verified	YNL074C	MLF3	YMK1	chromosome 14	L000004166	14	488124	486766	C		2011-02-03	1996-07-31	Serine-rich protein of unknown function; predicted to be palmitoylated; overproduction suppresses growth inhibition caused by exposure to immunosuppressant leflunomide; MLF3 has a paralog, VHS2, that arose from the whole genome duplication
+S000030955	CDS					YNL074C		14	488124	486766	C		2011-02-03	1996-07-31	
+S000005017	ORF	Verified	YNL073W	MSK1	lysine--tRNA ligase MSK1	chromosome 14	L000001195	14	488386	490116	W		2011-02-03	1996-07-31	Mitochondrial lysine-tRNA synthetase; required for import of both aminoacylated and deacylated forms of tRNA(Lys) into mitochondria and for aminoacylation of mitochondrially encoded tRNA(Lys)
+S000030916	CDS					YNL073W		14	488386	490116	W		2011-02-03	1996-07-31	
+S000005016	ORF	Verified	YNL072W	RNH201	ribonuclease H2 catalytic subunit RNH201|Rnh2A|RNH35	chromosome 14	L000004047	14	490317	491240	W		2011-02-03	1996-07-31	Ribonuclease H2 catalytic subunit; removes RNA primers during Okazaki fragment synthesis and errant ribonucleotides misincorporated during DNA replication; role in ribonucleotide excision repair; homolog of RNAse HI; related to human AGS4 which causes Aicardi-Goutieres syndrome
+S000029909	CDS					YNL072W		14	490317	491240	W		2011-02-03	1996-07-31	
+S000005015	ORF	Verified	YNL071W	LAT1	dihydrolipoyllysine-residue acetyltransferase|PDA2|ODP2	chromosome 14	L000000932|L000003242	14	491523	492971	W		2011-02-03	1996-07-31	Dihydrolipoamide acetyltransferase component (E2) of the PDC; the pyruvate dehydrogenase complex (PDC) catalyzes the oxidative decarboxylation of pyruvate to acetyl-CoA
+S000037903	CDS					YNL071W		14	491523	492971	W		2011-02-03	1996-07-31	
+S000005014	ORF	Verified	YNL070W	TOM7	YOK22|MOM7	chromosome 14	L000003250	14	493366	493548	W		2011-02-03	1996-07-31	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import steps for all mitochondrially directed proteins; promotes assembly and stability of the TOM complex
+S000037807	CDS					YNL070W		14	493366	493548	W		2011-02-03	1996-07-31	
+S000005013	ORF	Verified	YNL069C	RPL16B	uL13|ribosomal 60S subunit protein L16B|L13|rp23|YL15|L21B|L16B|RP23	chromosome 14	L000003244	14	495001	493956	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L16B; N-terminally acetylated, binds 5.8 S rRNA; transcriptionally regulated by Rap1p; homologous to mammalian ribosomal protein L13A and bacterial L13; RPL16B has a paralog, RPL16A, that arose from the whole genome duplication
+S000036374	CDS					YNL069C		14	494524	493956	C		2011-02-03	1996-07-31	
+S000036373	CDS					YNL069C		14	495001	494974	C		2011-02-03	1996-07-31	
+S000036375	intron					YNL069C		14	494973	494525	C		2011-02-03	1996-07-31	
+S000005012	ORF	Verified	YNL068C	FKH2	forkhead family transcription factor FKH2	chromosome 14	L000002608	14	498289	495701	C		2011-02-03	1996-07-31	Forkhead family transcription factor; rate-limiting activator of replication origins; evolutionarily conserved regulator of lifespan; binds multiple chromosomal elements with distinct specificities, cell cycle dynamics; positively regulates transcriptional elongation; facilitates clustering, activation of early-firing replication origins; negative role in chromatin silencing at HML and HMR; major role in expression of G2/M phase genes; relocalizes to cytosol under hypoxia
+S000036272	CDS					YNL068C		14	498289	495701	C		2011-02-03	1996-07-31	
+S000007623	ORF	Dubious	YNL067W-A		YNL067W-B	chromosome 14		14	498538	498684	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037221	CDS					YNL067W-A		14	498538	498684	W		2011-02-03	2001-02-26	
+S000118388	ARS		ARS1420		ARSXIV-499	chromosome 14		14	498970	499154			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178172	ARS_consensus_sequence					ARS1420		14	499037	499053	W		2014-11-18	2014-11-18	
+S000028810	ORF	Uncharacterized	YNL067W-B		YNL067W-A	chromosome 14		14	499417	499557	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000033610	CDS					YNL067W-B		14	499417	499557	W		2011-02-03	2003-07-29	
+S000005011	ORF	Verified	YNL067W	RPL9B	uS4|uL6|ribosomal 60S subunit protein L9B|L6|rp24|YL11|L9B|L8B	chromosome 14	L000003165	14	499681	500256	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L9B; homologous to mammalian ribosomal protein L9 and bacterial L6; RPL9B has a paralog, RPL9A, that arose from a single-locus duplication
+S000036228	CDS					YNL067W		14	499681	500256	W		2011-02-03	1996-07-31	
+S000005010	ORF	Verified	YNL066W	SUN4	putative glucosidase SUN4|SCW3	chromosome 14	L000004564|L000004151	14	501515	502777	W		2011-02-03	1996-07-31	Cell wall protein related to glucanases; possibly involved in cell wall septation; member of the SUN family; SUN4 has a paralog, SIM1, that arose from the whole genome duplication
+S000036134	CDS					YNL066W		14	501515	502777	W		2011-02-03	1996-07-31	
+S000122110	five_prime_UTR_intron					YNL066W		14	501157	501502	W		2011-02-03	2007-04-04	
+S000005009	ORF	Verified	YNL065W	AQR1		chromosome 14		14	503724	505484	W		2011-02-03	1996-07-31	Plasma membrane transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; confers resistance to short-chain monocarboxylic acids and quinidine; involved in the excretion of excess amino acids; AQR1 has a paralog, QDR1, that arose from the whole genome duplication; relocalizes from plasma membrane to cytoplasm upon DNA replication stress
+S000036037	CDS					YNL065W		14	503724	505484	W		2011-02-03	1996-07-31	
+S000005008	ORF	Verified	YNL064C	YDJ1	MAB3|type I HSP40 co-chaperone YDJ1|HSP40|MAS5	chromosome 14	L000002503|L000003567|S000029274	14	507097	505868	C		2011-02-03	1996-07-31	Type I HSP40 co-chaperone; involved in regulation of HSP90 and HSP70 functions; acts as an adaptor that helps Rsp5p recognize cytosolic misfolded proteins for ubiquitination after heat shock; critical for determining cell size at Start as a function of growth rate; involved in protein translocation across membranes; member of the DnaJ family; chimeric protein in which human p58IPK J domain replaces yeast Ydj1p J domain can complement yeast ydj1 mutant
+S000035088	CDS					YNL064C		14	507097	505868	C		2011-02-03	1996-07-31	
+S000005007	ORF	Verified	YNL063W	MTQ1	S-adenosylmethionine-dependent methyltransferase	chromosome 14		14	507758	508702	W		2011-02-03	1996-07-31	S-adenosylmethionine-dependent methyltransferase; methylates translational release factor Mrf1p; similar to E.coli PrmC; is not an essential gene
+S000035039	CDS					YNL063W		14	507758	508702	W		2011-02-03	1996-07-31	
+S000005006	ORF	Verified	YNL062C	GCD10	tRNA 1-methyladenosine methyltransferase subunit GCD10|TRM6	chromosome 14	L000000676	14	510212	508776	C		2011-02-03	1996-07-31	Subunit of tRNA (1-methyladenosine) methyltransferase with Gcd14p; required for the modification of the adenine at position 58 in tRNAs, especially tRNAi-Met; first identified as a negative regulator of GCN4 expression
+S000034822	CDS					YNL062C		14	510212	508776	C		2011-02-03	1996-07-31	
+S000005005	ORF	Verified	YNL061W	NOP2	rRNA (cytosine-C5-)-methyltransferase NOP2|YNA1	chromosome 14	L000002535	14	510540	512396	W		2011-02-03	1996-07-31	rRNA m5C methyltransferase; methylates cytosine at position 2870 of 25S rRNA; has an essential function independent of rRNA methylation; contains seven beta-strand methyltransferase motif; essential for processing and maturation of 27S pre-rRNA and large ribosomal subunit biogenesis; localized to the nucleolus; constituent of 66S pre-ribosomal particles; rRNA methylation defect and lethality are functionally complemented by human NOP2, a gene upregulated in cancer
+S000034786	CDS					YNL061W		14	510540	512396	W		2011-02-03	1996-07-31	
+S000005004	ORF	Verified	YNL059C	ARP5		chromosome 14	L000003434	14	514935	512668	C		2011-02-03	1997-01-28	Nuclear actin-related protein involved in chromatin remodeling; component of chromatin-remodeling enzyme complexes; promotes nucleosome shifts in the 3 prime direction
+S000031814	CDS					YNL059C		14	514935	512668	C		2011-02-03	1997-01-28	
+S000005002	ORF	Dubious	YNL057W			chromosome 14		14	516403	516735	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031644	CDS					YNL057W		14	516403	516735	W		2011-02-03	1997-01-28	
+S000005003	ORF	Uncharacterized	YNL058C			chromosome 14		14	516713	515763	C		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to vacuole; not an essential gene; YNL058C has a paralog, PRM5, that arose from the whole genome duplication
+S000031675	CDS					YNL058C		14	516713	515763	C		2011-02-03	1997-01-28	
+S000005001	ORF	Verified	YNL056W	OCA2		chromosome 14		14	517249	517842	W		2011-02-03	1997-01-28	Protein of unknown function; similar to predicted tyrosine phosphatases Oca1p and Siw14p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YNL056W is not an essential gene
+S000031555	CDS					YNL056W		14	517249	517842	W		2011-02-03	1997-01-28	
+S000005000	ORF	Verified	YNL055C	POR1	porin POR1|VDAC|YVDAC1|OMP2	chromosome 14	L000001302	14	518845	517994	C		2011-02-03	1997-01-28	Mitochondrial porin (voltage-dependent anion channel); outer membrane protein required for maintenance of mitochondrial osmotic stability and mitochondrial membrane permeability; couples the glutathione pools of the intermembrane space (IMS) and the cytosol; interacts with Om45 and Om14 in the outer membrane; phosphorylated; protein abundance increases in response to DNA replication stress
+S000030679	CDS					YNL055C		14	518845	517994	C		2011-02-03	1997-01-28	
+S000007136	long_terminal_repeat		YNLWdelta3			chromosome 14		14	519163	519496	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007142	LTR_retrotransposon		YNLWTy1-2		Ty1	chromosome 14		14	519163	525062	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000006544	tRNA_gene		tD(GUC)N			chromosome 14	L000003699	14	519169	519099	C		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000030423	noncoding_exon					tD(GUC)N		14	519169	519099	C		2011-02-03	2000-05-19	
+S000007384	transposable_element_gene		YNL054W-A		gag protein	chromosome 14		14	519456	520778	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000033062	CDS					YNL054W-A		14	519456	520778	W		2011-02-03	1999-07-17	
+S000007385	transposable_element_gene		YNL054W-B		gag-pol fusion protein	chromosome 14		14	519456	524706	W		2011-02-03	1999-07-17	TyB Gag-Pol protein; proteolytically processed to make the Gag, reverse transcriptase (RT), protease (PR), and integrase (IN) proteins that are required for retrotransposition
+S000033063	CDS					YNL054W-B		14	519456	520760	W		2011-02-03	1999-07-17	
+S000033064	CDS					YNL054W-B		14	520762	524706	W		2011-02-03	1999-07-17	
+S000033065	plus_1_translational_frameshift					YNL054W-B		14	520761	520761	W		2011-02-03	1999-07-17	
+S000007137	long_terminal_repeat		YNLWdelta4			chromosome 14		14	524729	525062	W		2011-02-03	2000-05-19	Ty1 LTR
+S000004999	ORF	Verified	YNL054W	VAC7		chromosome 14	L000004051	14	526086	529583	W		2011-02-03	1997-01-28	Integral vacuolar membrane protein; involved in vacuole inheritance and morphology; activates Fab1p kinase activity under basal conditions and also after hyperosmotic shock
+S000030639	CDS					YNL054W		14	526086	529583	W		2011-02-03	1997-01-28	
+S000004998	ORF	Verified	YNL053W	MSG5	tyrosine/serine/threonine protein phosphatase MSG5	chromosome 14	L000001188	14	529942	531411	W		2011-02-03	1997-01-28	Dual-specificity protein phosphatase; exists in 2 isoforms; required for maintenance of a low level of signaling through the cell integrity pathway, adaptive response to pheromone; regulates and is regulated by Slt2p; dephosphorylates Fus3p; MSG5 has a paralog, SDP1, that arose from the whole genome duplication
+S000030532	CDS					YNL053W		14	529942	531411	W		2011-02-03	1997-01-28	
+S000004997	ORF	Verified	YNL052W	COX5A	cytochrome c oxidase subunit Va	chromosome 14	L000000388|L000000387	14	531725	532186	W		2011-02-03	1997-01-28	Subunit Va of cytochrome c oxidase; cytochrome c oxidase is the terminal member of the mitochondrial inner membrane electron transport chain; Cox5Ap is predominantly expressed during aerobic growth while its isoform Vb (Cox5Bp) is expressed during anaerobic growth; COX5A has a paralog, COX5B, that arose from the whole genome duplication
+S000030467	CDS					YNL052W		14	531725	532186	W		2011-02-03	1997-01-28	
+S000004996	ORF	Verified	YNL051W	COG5	Golgi transport complex subunit COG5|COD4|API4	chromosome 14		14	532659	533870	W		2011-02-03	1997-01-28	Component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
+S000037658	CDS					YNL051W		14	532659	533870	W		2011-02-03	1997-01-28	
+S000004995	ORF	Uncharacterized	YNL050C			chromosome 14		14	534982	534079	C		2011-02-03	1997-01-28	Putative protein of unknown function; YNL050c is not an essential gene
+S000037523	CDS					YNL050C		14	534874	534079	C		2011-02-03	1997-01-28	
+S000037522	CDS					YNL050C		14	534982	534966	C		2011-02-03	1997-01-28	
+S000037524	intron					YNL050C		14	534965	534875	C		2011-02-03	1997-01-28	
+S000004994	ORF	Verified	YNL049C	SFB2	COPII subunit SFB2|ISS1	chromosome 14	L000004658	14	537911	535281	C		2011-02-03	1997-01-28	Component of the Sec23p-Sfb2p heterodimer of the COPII vesicle coat; required for cargo selection during vesicle formation in ER to Golgi transport; homologous to Sfb3p; SFB2 has a paralog, SEC24, that arose from the whole genome duplication
+S000036531	CDS					YNL049C		14	537911	535281	C		2011-02-03	1997-01-28	
+S000004993	ORF	Verified	YNL048W	ALG11	alpha-1,2-mannosyltransferase ALG11	chromosome 14	L000003378	14	538173	539819	W		2011-02-03	1997-01-28	Alpha-1,2-mannosyltransferase; catalyzes sequential addition of the two terminal alpha 1,2-mannose residues to the Man5GlcNAc2-PP-dolichol intermediate during asparagine-linked glycosylation in the ER
+S000036480	CDS					YNL048W		14	538173	539819	W		2011-02-03	1997-01-28	
+S000004992	ORF	Verified	YNL047C	SLM2	phosphatidylinositol 4,5-bisphosphate-binding protein|LIT1	chromosome 14		14	541881	539911	C		2011-02-03	1997-01-28	Phosphoinositide PI4,5P(2) binding protein, forms a complex with Slm1p; acts downstream of Mss4p in a pathway regulating actin cytoskeleton organization in response to stress; TORC2 complex substrate and effector; SLM2 has a paralog, SLM1, that arose from the whole genome duplication
+S000036346	CDS					YNL047C		14	541881	539911	C		2011-02-03	1997-01-28	
+S000004991	ORF	Uncharacterized	YNL046W			chromosome 14		14	542304	542822	W		2011-02-03	1997-01-28	Putative protein of unknown function; expression depends on Swi5p; GFP-fusion protein localizes to the endoplasmic reticulum; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
+S000036307	CDS					YNL046W		14	542304	542822	W		2011-02-03	1997-01-28	
+S000004990	ORF	Verified	YNL045W	LAP2	bifunctional aminopeptidase/epoxide hydrolase	chromosome 14		14	542963	544978	W		2011-02-03	1997-01-28	Leucyl aminopeptidase yscIV with epoxide hydrolase activity; metalloenzyme containing one zinc atom; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; also known as leukotriene A4 hydrolase
+S000035413	CDS					YNL045W		14	542963	544978	W		2011-02-03	1997-01-28	
+S000004989	ORF	Verified	YNL044W	YIP3		chromosome 14	L000003269	14	545268	545877	W		2011-02-03	1999-11-17|1997-01-28	Protein localized to COPII vesicles; proposed to be involved in ER to Golgi transport; interacts with members of the Rab GTPase family and Yip1p; also interacts with Rtn1p
+S000035328	CDS					YNL044W		14	545268	545291	W		2011-02-03	1999-11-17	
+S000035329	CDS					YNL044W		14	545371	545877	W		2011-02-03	1999-11-17|1997-01-28	
+S000035330	intron					YNL044W		14	545292	545370	W		2011-02-03	1999-11-17	
+S000004988	ORF	Dubious	YNL043C			chromosome 14		14	545909	545589	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YIP3/YNL044W
+S000035201	CDS					YNL043C		14	545909	545589	C		2011-02-03	1997-01-28	
+S000118389	ARS		ARS1421		ARSXIV-546	chromosome 14		14	546072	546170			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178173	ARS_consensus_sequence					ARS1421		14	546146	546130	C		2014-11-18	2014-11-18	
+S000007138	long_terminal_repeat		YNLWsigma2			chromosome 14		14	546423	546714	W		2011-02-03	2000-05-19	Ty3 LTR
+S000007139	long_terminal_repeat		YNLWsigma3			chromosome 14		14	546738	547077	W		2011-02-03	2000-05-19	Ty3 LTR
+S000006685	tRNA_gene		tP(UGG)N1			chromosome 14	L000003691	14	547094	547196	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
+S000030970	intron					tP(UGG)N1		14	547130	547160	W		2011-02-03	2000-05-19	
+S000030968	noncoding_exon					tP(UGG)N1		14	547094	547129	W		2011-02-03	2000-05-19	
+S000030969	noncoding_exon					tP(UGG)N1		14	547161	547196	W		2011-02-03	2000-05-19	
+S000028850	ORF	Uncharacterized	YNL042W-B			chromosome 14		14	547113	547370	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000034563	CDS					YNL042W-B		14	547113	547370	W		2011-02-03	2003-07-29	
+S000004987	ORF	Verified	YNL042W	BOP3		chromosome 14	L000004723	14	548100	549290	W		2011-02-03	1997-01-28	Protein of unknown function; potential Cdc28p substrate; overproduction confers resistance to methylmercury
+S000035157	CDS					YNL042W		14	548100	549290	W		2011-02-03	1997-01-28	
+S000004986	ORF	Verified	YNL041C	COG6	Golgi transport complex subunit COG6|SEC37|COD2	chromosome 14		14	551987	549468	C		2011-02-03	1997-01-28	Component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
+S000034122	CDS					YNL041C		14	551987	549468	C		2011-02-03	1997-01-28	
+S000004985	ORF	Verified	YNL040W		putative alanine--tRNA ligase	chromosome 14		14	553380	554750	W		2011-02-03	1997-01-28	Protein of unknown function; has strong similarity to alanyl-tRNA synthases from Eubacteria; null mutant displays decreased translation rate and increased readthrough of premature stop codons; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YNL040W is not an essential gene
+S000034091	CDS					YNL040W		14	553380	554750	W		2011-02-03	1997-01-28	
+S000004984	ORF	Verified	YNL039W	BDP1	transcription factor TFIIIB subunit BDP1|TFC7|TFIIIB90|TFC5	chromosome 14	L000003032	14	555048	556832	W		2011-02-03	1997-01-28	Essential subunit of RNA polymerase III transcription factor (TFIIIB); TFIIIB is involved in transcription of genes encoding tRNAs, 5S rRNA, U6 snRNA, and other small RNAs
+S000032264	CDS					YNL039W		14	555048	556832	W		2011-02-03	1997-01-28	
+S000004983	ORF	Verified	YNL038W	GPI15	phosphatidylinositol N-acetylglucosaminyltransferase GPI15	chromosome 14		14	557020	557783	W		2011-02-03	2003-09-27|1997-01-28	Protein involved in the synthesis of GlcNAc-PI; GlcNAc-PI is the first intermediate in the synthesis of glycosylphosphatidylinositol (GPI) anchors; homologous to the human PIG-H protein; GlcNAc-PI stands for N-acetylglucosaminyl phosphatidylinositol
+S000032181	CDS					YNL038W		14	557020	557610	W		2011-02-03	2003-09-27|1997-01-28	
+S000032182	CDS					YNL038W		14	557685	557783	W		2011-02-03	2003-09-27	
+S000032183	intron					YNL038W		14	557611	557684	W		2011-02-03	2003-09-27	
+S000004982	ORF	Verified	YNL037C	IDH1	isocitrate dehydrogenase (NAD(+)) IDH1	chromosome 14	L000000849	14	559002	557920	C		2011-02-03	1997-01-28	Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase; complex catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle
+S000032073	CDS					YNL037C		14	559002	557920	C		2011-02-03	1997-01-28	
+S000004981	ORF	Verified	YNL036W	NCE103	carbonate dehydratase NCE103|NCE3	chromosome 14	L000003213	14	559814	560479	W		2011-02-03	1997-01-28	Carbonic anhydrase; metalloenzyme that catalyzes CO2 hydration to bicarbonate, which is an important metabolic substrate, and protons; not expressed under conditions of high CO2, such as inside a growing colony, but transcription is induced in response to low CO2 levels, such as on the colony surface in ambient air; poorly transcribed under aerobic conditions and at an undetectable level under anaerobic conditions; abundance increases in response to DNA replication stress
+S000032012	CDS					YNL036W		14	559814	560479	W		2011-02-03	1997-01-28	
+S000006745	tRNA_gene		tT(AGU)N2			chromosome 14	L000003698	14	560765	560693	C		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000037431	noncoding_exon					tT(AGU)N2		14	560765	560693	C		2011-02-03	2000-05-19	
+S000118390	ARS		ARS1422		ARSXIV-561	chromosome 14		14	561111	561388			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178174	ARS_consensus_sequence					ARS1422		14	561327	561311	C		2014-11-18	2014-11-18	
+S000007141	long_terminal_repeat		YNLWtau2			chromosome 14		14	561607	561977	W		2011-02-03	2000-05-19	Ty4 LTR
+S000007131	long_terminal_repeat		YNLCdelta5			chromosome 14		14	562364	562033	C		2011-02-03	2000-05-19	Ty2 LTR
+S000007135	LTR_retrotransposon		YNLCTy2-1		Ty2	chromosome 14		14	567660	562364	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
+S000007132	long_terminal_repeat		YNLCdelta6			chromosome 14		14	567992	567660	C		2011-02-03	2000-05-19	Ty2 LTR
+S000006686	tRNA_gene		tP(UGG)N2			chromosome 14	L000003692	14	568115	568217	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
+S000030974	intron					tP(UGG)N2		14	568151	568181	W		2011-02-03	2000-05-19	
+S000030972	noncoding_exon					tP(UGG)N2		14	568115	568150	W		2011-02-03	2000-05-19	
+S000030973	noncoding_exon					tP(UGG)N2		14	568182	568217	W		2011-02-03	2000-05-19	
+S000130143	ARS		ARS1423			chromosome 14		14	568219	568524			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000004980	ORF	Verified	YNL035C			chromosome 14		14	569691	568522	C		2011-02-03	1997-01-28	Nuclear protein of unknown function; relocalizes to the cytosol in response to hypoxia; contains WD-40 domains; not an essential gene; protein abundance increases in response to DNA replication stress
+S000031007	CDS					YNL035C		14	569691	568522	C		2011-02-03	1997-01-28	
+S000006609	tRNA_gene		tI(AAU)N1			chromosome 14	L000003697	14	569940	569867	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000034901	noncoding_exon					tI(AAU)N1		14	569940	569867	C		2011-02-03	2000-05-19	
+S000004979	ORF	Uncharacterized	YNL034W			chromosome 14		14	570477	572315	W		2011-02-03	1997-01-28	Putative protein of unknown function; not an essential gene; YNL034W has a paralog, YNL018C, that arose from a segmental duplication
+S000030964	CDS					YNL034W		14	570477	572315	W		2011-02-03	1997-01-28	
+S000004978	ORF	Uncharacterized	YNL033W			chromosome 14		14	572999	573853	W		2011-02-03	1997-01-28	Putative protein of unknown function; YNL033W has a paralog, YNL019C, that arose from a segmental duplication
+S000030908	CDS					YNL033W		14	572999	573853	W		2011-02-03	1997-01-28	
+S000004977	ORF	Verified	YNL032W	SIW14	putative tyrosine protein phosphatase SIW14|OCA3	chromosome 14	L000004216	14	574506	575351	W		2011-02-03	1997-01-28	Tyrosine phosphatase involved in actin organization and endocytosis; localized to the cytoplasm
+S000030820	CDS					YNL032W		14	574506	575351	W		2011-02-03	1997-01-28	
+S000004976	ORF	Verified	YNL031C	HHT2	histone H3	chromosome 14	L000000773	14	576050	575640	C		2011-02-03	1997-01-28	Histone H3; core histone protein required for chromatin assembly, part of heterochromatin-mediated telomeric and HM silencing; one of two identical histone H3 proteins (see HHT1); regulated by acetylation, methylation, and phosphorylation; H3K14 acetylation plays an important role in the unfolding of strongly positioned nucleosomes during repair of UV damage
+S000037842	CDS					YNL031C		14	576050	575640	C		2011-02-03	1997-01-28	
+S000004975	ORF	Verified	YNL030W	HHF2	histone H4	chromosome 14	L000000771	14	576727	577038	W		2011-02-03	1997-01-28	Histone H4; core histone protein required for chromatin assembly and chromosome function; one of two identical histone proteins (see also HHF1); contributes to telomeric silencing; N-terminal domain involved in maintaining genomic integrity
+S000037800	CDS					YNL030W		14	576727	577038	W		2011-02-03	1997-01-28	
+S000004973	ORF	Dubious	YNL028W			chromosome 14		14	578679	578996	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036923	CDS					YNL028W		14	578679	578996	W		2011-02-03	1997-01-28	
+S000004974	ORF	Verified	YNL029C	KTR5	putative mannosyltransferase	chromosome 14	L000004099	14	578773	577205	C		2011-02-03	1997-01-28	Putative mannosyltransferase involved in protein glycosylation; member of the KRE2/MNT1 mannosyltransferase family; KTR5 has a paralog, KTR7, that arose from the whole genome duplication
+S000036950	CDS					YNL029C		14	578773	577205	C		2011-02-03	1997-01-28	
+S000004972	ORF	Verified	YNL027W	CRZ1	DNA-binding transcription factor CRZ1|TCN1|HAL8	chromosome 14	L000004202	14	579580	581616	W		2011-02-03	1997-01-28	Transcription factor, activates transcription of stress response genes; nuclear localization is positively regulated by calcineurin-mediated dephosphorylation; rapidly localizes to the nucleus under blue light stress; can be activated in stochastic pulses of nuclear localization in response to calcium
+S000036172	CDS					YNL027W		14	579580	581616	W		2011-02-03	1997-01-28	
+S000004971	ORF	Verified	YNL026W	SAM50	SAM complex subunit SAM50|TOB55|OMP85	chromosome 14		14	581920	583374	W		2011-02-03	1997-01-28	Component of the Sorting and Assembly Machinery (SAM) complex; the SAM (or TOB) complex is located in the mitochondrial outer membrane; the complex binds precursors of beta-barrel proteins and facilitates their outer membrane insertion; homologous to bacterial Omp85
+S000035990	CDS					YNL026W		14	581920	583374	W		2011-02-03	1997-01-28	
+S000004970	ORF	Verified	YNL025C	SSN8	cyclin-dependent protein serine/threonine kinase regulator SSN8|CNC1|CycC|RYE2|UME3|SRB11|NUT9|GIG3	chromosome 14	L000002796	14	585291	584320	C		2011-02-03	1997-01-28	Cyclin-like component of the RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; forms a kinase-cyclin pair in the RNAPII holoenzyme with Ssn3p; required for both entry into and execution of the meiotic program; involved in glucose repression and telomere maintenance; cyclin homolog 35% identical to human cyclin C
+S000034989	CDS					YNL025C		14	585291	584320	C		2011-02-03	1997-01-28	
+S000007436	snoRNA_gene		NME1	NME1	RRP2	chromosome 14	L000001258	14	585587	585926	W		2011-02-03	2000-05-19	RNA component of RNase MRP; RNase MRP cleaves pre-rRNA and has a role in cell cycle-regulated degradation of daughter cell-specific mRNAs; human ortholog is implicated in cartilage-hair hypoplasia (CHH)
+S000032302	noncoding_exon					NME1		14	585587	585926	W		2011-02-03	2000-05-19	
+S000006457	snoRNA_gene		snR66	SNR66		chromosome 14	L000004535	14	586090	586175	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2417
+S000030852	noncoding_exon					snR66		14	586090	586175	W		2011-02-03	2000-05-19	
+S000028698	ORF	Verified	YNL024C-A	KSH1		chromosome 14		14	586820	586602	C		2011-02-03	2003-07-29	Essential protein suggested to function early in the secretory pathway; inviability is suppressed by overexpression of Golgi protein Tvp23p; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and cytosol respectively; ortholog of human Kish
+S000032608	CDS					YNL024C-A		14	586820	586602	C		2011-02-03	2003-07-29	
+S000004969	ORF	Uncharacterized	YNL024C	EFM6	putative protein-lysine N-methyltransferase	chromosome 14		14	587847	587107	C		2011-02-03	1997-01-28	Putative S-adenosylmethionine-dependent lysine methyltransferase; responsible for modifying Lys-390 in translational elongation factor EF-1 alpha (eEF1A); has seven beta-strand methyltransferase motif; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000034856	CDS					YNL024C		14	587847	587107	C		2011-02-03	1997-01-28	
+S000004968	ORF	Verified	YNL023C	FAP1		chromosome 14	L000004577	14	591160	588263	C		2011-02-03	1997-01-28	Protein that binds to Fpr1p; confers rapamycin resistance by competing with rapamycin for Fpr1p binding; accumulates in the nucleus upon treatment of cells with rapamycin; has similarity to D. melanogaster shuttle craft and human NFX1
+S000034736	CDS					YNL023C		14	591160	588263	C		2011-02-03	1997-01-28	
+S000004967	ORF	Verified	YNL022C	RCM1	rRNA (cytosine-C5-)-methyltransferase RCM1	chromosome 14		14	592899	591427	C		2011-02-03	1997-01-28	rRNA m5C methyltransferase; methylates cytosine at position 2278 of 25S rRNA while Nop2p methylates cytosine at position 2870; contains seven beta-strand methyltransferase motif; localized to the nucleolus; interacts with Trm112p; homolog of NSUN5A, a human gene which is deleted in Williams-Beuren Syndrome
+S000033831	CDS					YNL022C		14	592899	591427	C		2011-02-03	1997-01-28	
+S000004966	ORF	Verified	YNL021W	HDA1	histone deacetylase HDA1	chromosome 14	L000004088	14	593227	595347	W		2011-02-03	1997-01-28	Putative catalytic subunit of a class II histone deacetylase complex; role in azole resistance via Hsp90p, and in the heat shock response; Hda1p interacts with the Hda2p-Hda3p subcomplex to form an active tetramer; deletion increases histone H2B, H3 and H4 acetylation; other members of the HDA1 histone deacetylase complex are Hda2p and Hda3p
+S000033782	CDS					YNL021W		14	593227	595347	W		2011-02-03	1997-01-28	
+S000004965	ORF	Verified	YNL020C	ARK1	serine/threonine protein kinase ARK1	chromosome 14	L000004430	14	597539	595623	C		2011-02-03	1997-01-28	Serine/threonine protein kinase; involved in regulation of the cortical actin cytoskeleton; involved in control of endocytosis; ARK1 has a paralog, PRK1, that arose from the whole genome duplication
+S000033598	CDS					YNL020C		14	597539	595623	C		2011-02-03	1997-01-28	
+S000004964	ORF	Uncharacterized	YNL019C			chromosome 14		14	599230	598376	C		2011-02-03	1997-01-28	Putative protein of unknown function; expression induced during heat stress; YNL019C has a paralog, YNL033W, that arose from a segmental duplication
+S000032941	CDS					YNL019C		14	599230	598376	C		2011-02-03	1997-01-28	
+S000004963	ORF	Uncharacterized	YNL018C			chromosome 14		14	601774	599936	C		2011-02-03	1997-01-28	Putative protein of unknown function; YNL018C has a paralog, YNL034W, that arose from a segmental duplication
+S000032852	CDS					YNL018C		14	601774	599936	C		2011-02-03	1997-01-28	
+S000006610	tRNA_gene		tI(AAU)N2			chromosome 14	L000003693	14	602312	602385	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000034903	noncoding_exon					tI(AAU)N2		14	602312	602385	W		2011-02-03	2000-05-19	
+S000004962	ORF	Dubious	YNL017C			chromosome 14		14	602476	602138	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the tRNA ORF tI(AAU)N2
+S000031913	CDS					YNL017C		14	602476	602138	C		2011-02-03	1997-01-28	
+S000004961	ORF	Verified	YNL016W	PUB1	RNP1	chromosome 14	L000001529	14	602907	604268	W		2011-02-03	1997-01-28	Poly (A)+ RNA-binding protein; abundant mRNP-component protein that binds mRNA and is required for stability of many mRNAs; component of glucose deprivation induced stress granules, involved in P-body-dependent granule assembly; implicated in regulation of translation; carries Q/N-rich domain at C- terminus, identified as candidate prion; human homolog Tia1 is critical for normal synaptic plasticity; protein abundance increases in response to DNA replication stress
+S000031862	CDS					YNL016W		14	602907	604268	W		2011-02-03	1997-01-28	
+S000004960	ORF	Verified	YNL015W	PBI2	IB2|I2B|LMA1	chromosome 14	L000001344	14	605384	605611	W		2011-02-03	1997-01-28	Cytosolic inhibitor of vacuolar proteinase B (PRB1); required for efficient vacuole inheritance; with thioredoxin forms protein complex LMA1, which assists in priming SNARE molecules and promotes vacuole fusion; protein abundance increases in response to DNA replication stress
+S000031753	CDS					YNL015W		14	605384	605611	W		2011-02-03	1997-01-28	
+S000004959	ORF	Verified	YNL014W	HEF3	translation elongation factor EF-3|ZRG7	chromosome 14		14	606319	609453	W		2011-02-03	1997-01-28	Translational elongation factor EF-3; member of the ABC superfamily; stimulates EF-1 alpha-dependent binding of aminoacyl-tRNA by the ribosome; normally expressed in zinc deficient cells; HEF3 has a paralog, YEF3, that arose from the whole genome duplication
+S000031664	CDS					YNL014W		14	606319	609453	W		2011-02-03	1997-01-28	
+S000004958	ORF	Dubious	YNL013C			chromosome 14		14	609510	609133	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF HEF3/YNL014W
+S000031500	CDS					YNL013C		14	609510	609133	C		2011-02-03	1997-01-28	
+S000118391	ARS		ARS1424		ARSXIV-610	chromosome 14		14	609520	609607			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178175	ARS_consensus_sequence					ARS1424		14	609532	609548	W		2014-11-18	2014-11-18	
+S000004957	ORF	Verified	YNL012W	SPO1	putative carboxylic ester hydrolase	chromosome 14	L000001999	14	609686	611665	W	-1	2011-02-03	2000-07-14|1997-01-28	Meiosis-specific prospore protein; required for meiotic spindle pole body duplication and separation; required to produce bending force necessary for proper prospore membrane assembly during sporulation; has similarity to phospholipase B
+S000030704	CDS					YNL012W		14	609686	609790	W		2011-02-03	2000-07-14	
+S000030705	CDS					YNL012W		14	609875	611665	W		2011-02-03	2000-07-14|1997-01-28	
+S000030706	intron					YNL012W		14	609791	609874	W		2011-02-03	2000-07-14	
+S000004956	ORF	Uncharacterized	YNL011C			chromosome 14		14	613170	611836	C		2011-02-03	1997-01-28	Putative protein of unknown function; YNL011C is not an essential gene
+S000030538	CDS					YNL011C		14	613170	611836	C		2011-02-03	1997-01-28	
+S000004955	ORF	Uncharacterized	YNL010W		putative phosphoric monoester hydrolase	chromosome 14		14	613635	614360	W		2011-02-03	1997-01-28	Putative protein of unknown function; similar to phosphoserine phosphatases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; homozygous diploid mutant shows an increase in glycogen accumulation
+S000030490	CDS					YNL010W		14	613635	614360	W		2011-02-03	1997-01-28	
+S000004954	ORF	Verified	YNL009W	IDP3	isocitrate dehydrogenase (NADP(+)) IDP3	chromosome 14	L000003946	14	614821	616083	W		2011-02-03	1997-01-28	Peroxisomal NADP-dependent isocitrate dehydrogenase; catalyzes oxidation of isocitrate to alpha-ketoglutarate with the formation of NADP(H+), required for growth on unsaturated fatty acids; IDP3 has a paralog, IDP2, that arose from the whole genome duplication
+S000037693	CDS					YNL009W		14	614821	616083	W		2011-02-03	1997-01-28	
+S000130144	ARS		ARS1425			chromosome 14		14	616311	617125			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000004953	ORF	Verified	YNL008C	ASI3	putative ubiquitin-protein ligase ASI3	chromosome 14		14	618241	616211	C		2011-02-03	1997-01-28|2011-02-03	Subunit of the inner nuclear membrane Asi ubiquitin ligase complex; Asi complex targets both misfolded proteins of the inner nuclear membrane-associated degradation (INMAD) pathway and regulators of sterol biosynthesis for ubiquitin-mediated degradation; acts with Asi1p and Asi2p to ensure the fidelity of SPS-sensor signaling by targeting latent unprocessed forms of Stp1p and Stp2p, maintaining the repressed state of gene expression in the absence of inducing amino acids
+S000037593	CDS					YNL008C		14	618241	616211	C		2011-02-03	1997-01-28|2011-02-03	
+S000004952	ORF	Verified	YNL007C	SIS1	type II HSP40 co-chaperone SIS1	chromosome 14	L000001898	14	619565	618507	C	3	2011-02-03	1997-01-28	Type II HSP40 co-chaperone that interacts with the HSP70 protein Ssa1p; shuttles between cytosol and nucleus; mediates delivery of misfolded proteins into the nucleus for degradation; involved in proteasomal degradation of misfolded cytosolic proteins; protein abundance increases in response to DNA replication stress; polyQ aggregates sequester Sis1p and interfere with clearance of misfolded proteins; similar to bacterial DnaJ proteins and mammalian DnaJB1
+S000036851	CDS					YNL007C		14	619565	618507	C		2011-02-03	1997-01-28	
+S000004951	ORF	Verified	YNL006W	LST8	TOR complex subunit LST8	chromosome 14	L000004356	14	620067	620978	W		2011-02-03	1997-01-28	Protein required for the transport of Gap1p; required for the transport of amino acid permease Gap1p from the Golgi to the cell surface; component of the TOR signaling pathway; associates with both Tor1p and Tor2p; contains a WD-repeat
+S000036826	CDS					YNL006W		14	620067	620978	W		2011-02-03	1997-01-28	
+S000004950	ORF	Verified	YNL005C	MRP7	mitochondrial 54S ribosomal protein YmL2|YmL2|MRPL2	chromosome 14	L000002682|S000029309|L000001155|L000003239	14	622428	621313	C		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit
+S000036741	CDS					YNL005C		14	622428	621313	C		2011-02-03	1997-01-28	
+S000004949	ORF	Verified	YNL004W	HRB1	mRNA-binding protein|TOM34	chromosome 14	L000002318	14	622915	624621	W		2011-02-03	1997-01-28|2007-07-09	Poly(A+) RNA-binding protein; key surveillance factor for the selective export of spliced mRNAs from the nucleus to the cytoplasm; preference for intron-containing genes; similar to Npl3p; HRB1 has a paralog, GBP2, that arose from the whole genome duplication
+S000036718	CDS					YNL004W		14	622915	622944	W		2011-02-03	1997-01-28|2007-07-09	
+S000123273	CDS					YNL004W		14	623287	624621	W		2011-02-03	2007-07-09	
+S000123272	intron					YNL004W		14	622945	623286	W		2011-02-03	2007-07-09	
+S000004948	ORF	Verified	YNL003C	PET8	SAM5	chromosome 14	L000001385	14	625829	624975	C	3	2011-02-03	1997-01-28	S-adenosylmethionine transporter of the mitochondrial inner membrane; member of the mitochondrial carrier family; required for biotin biosynthesis and respiratory growth
+S000035777	CDS					YNL003C		14	625829	624975	C		2011-02-03	1997-01-28	
+S000004947	ORF	Verified	YNL002C	RLP7	RPL7	chromosome 14	L000001647	14	627142	626174	C		2011-02-03	1997-01-28	Nucleolar protein similar to large ribosomal subunit L7 proteins; constituent of 66S pre-ribosomal particles; plays an essential role in processing of precursors to the large ribosomal subunit RNAs; binds junction of ITS2 and ITS2-proximal stem between the 3' end of 5.8S rRNA and the 5' end of 25S rRNA
+S000035659	CDS					YNL002C		14	627142	626174	C		2011-02-03	1997-01-28	
+S000004946	ORF	Verified	YNL001W	DOM34	ribosome dissociation factor DOM34	chromosome 14	L000000517	14	627456	628616	W		2011-02-03	1997-01-28	Protein that facilitates ribosomal subunit dissociation; Dom34-Hbs1 complex and Rli1p have roles in dissociating inactive ribosomes to facilitate translation restart, particularly ribosomes stalled in 3' UTRs; required for RNA cleavage in no-go decay, but reports conflict on endonuclease activity; Pelota ortholog; protein abundance increases in response to DNA replication stress; DOM34 has a paralog, YCL001W-B, that arose from the whole genome duplication
+S000035621	CDS					YNL001W		14	627456	628616	W		2011-02-03	1997-01-28	
+S000006475	centromere		CEN14	CEN14		chromosome 14	L000000307	14	628758	628875	W	0	2011-02-03	2000-05-19|2004-10-08	Chromosome XIV centromere
+S000077302	centromere_DNA_Element_I					CEN14		14	628758	628767	W		2011-02-03	2004-10-08	
+S000077303	centromere_DNA_Element_II					CEN14		14	628768	628850	W		2011-02-03	2004-10-08	
+S000077304	centromere_DNA_Element_III					CEN14		14	628851	628875	W		2011-02-03	2004-10-08	
+S000005284	ORF	Verified	YNR001C	CIT1	citrate (Si)-synthase CIT1|LYS6|CS1	chromosome 14	L000000341	14	631061	629622	C		2011-02-03	1997-01-28	Citrate synthase; catalyzes the condensation of acetyl coenzyme A and oxaloacetate to form citrate; the rate-limiting enzyme of the TCA cycle; nuclear encoded mitochondrial protein; CIT1 has a paralog, CIT2, that arose from the whole genome duplication
+S000031441	CDS					YNR001C		14	631061	629622	C		2011-02-03	1997-01-28	
+S000007625	ORF	Dubious	YNR001W-A			chromosome 14		14	631263	631481	W		2011-02-03	2001-02-26	Dubious open reading frame unlikely to encode a functional protein; identified by homology
+S000037252	CDS					YNR001W-A		14	631263	631481	W		2011-02-03	2001-02-26	
+S000006679	tRNA_gene		tP(AGG)N	SUF10		chromosome 14	L000002158|L000003696	14	631917	631846	C	-3	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in proline codons
+S000033281	noncoding_exon					tP(AGG)N		14	631917	631846	C		2011-02-03	2000-05-19	
+S000007143	long_terminal_repeat		YNRCdelta7			chromosome 14		14	632114	631998	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007146	long_terminal_repeat		YNRCtau3			chromosome 14		14	632489	632119	C		2011-02-03	2000-05-19	Ty4 LTR
+S000006674	tRNA_gene		tN(GUU)N2			chromosome 14	L000003694	14	632599	632672	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000035574	noncoding_exon					tN(GUU)N2		14	632599	632672	W		2011-02-03	2000-05-19	
+S000005285	ORF	Verified	YNR002C	ATO2	putative ammonium permease ATO2|FUN34	chromosome 14	L000000647	14	633856	633008	C		2011-02-03	1997-01-28	Putative transmembrane protein involved in export of ammonia; ammonia is a starvation signal that promotes cell death in aging colonies; phosphorylated in mitochondria; member of the TC 9.B.33 YaaH family; homolog of Y. lipolytica Gpr1p; ATO2 has a paralog, ADY2, that arose from the whole genome duplication
+S000031565	CDS					YNR002C		14	633856	633008	C		2011-02-03	1997-01-28	
+S000028705	ORF	Dubious	YNR003W-A			chromosome 14		14	634420	634518	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene RPC34/YNR003C
+S000032645	CDS					YNR003W-A		14	634420	634518	W		2011-02-03	2003-07-29	
+S000005286	ORF	Verified	YNR003C	RPC34	DNA-directed RNA polymerase III subunit C34|C34	chromosome 14	L000001689	14	635297	634344	C	3	2011-02-03	1997-01-28	RNA polymerase III subunit C34; interacts with TFIIIB70 and is a key determinant in pol III recruitment by the preinitiation complex
+S000031697	CDS					YNR003C		14	635297	634344	C		2011-02-03	1997-01-28	
+S000118392	ARS		ARS1426		ARSXIV-636	chromosome 14		14	635664	635904			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178176	ARS_consensus_sequence					ARS1426		14	635831	635815	C		2014-11-18	2014-11-18	
+S000005287	ORF	Verified	YNR004W	SWM2		chromosome 14		14	635943	636383	W		2011-02-03	1997-01-28	Protein with a role in snRNA and snoRNA cap trimethylation; interacts with Tgs1p and shows similar phenotypes; required for trimethylation of the caps of spliceosomal snRNAs and the U3 snoRNA, and for efficient 3' end processing of U3 snoRNA; may act as a specificity factor for Tgs1p
+S000032703	CDS					YNR004W		14	635943	636383	W		2011-02-03	1997-01-28	
+S000005289	ORF	Verified	YNR006W	VPS27	ESCRT-0 subunit protein VPS27|DID7|VPT27|VPL23|SSV17|GRD11	chromosome 14	L000002790	14	636986	638854	W		2011-02-03	1997-01-28	Endosomal protein that forms a complex with Hse1p; required for recycling Golgi proteins, forming lumenal membranes and sorting ubiquitinated proteins destined for degradation; has Ubiquitin Interaction Motifs which bind ubiquitin (Ubi4p)
+S000032897	CDS					YNR006W		14	636986	638854	W		2011-02-03	1997-01-28	
+S000005288	ORF	Dubious	YNR005C			chromosome 14		14	637335	636931	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032733	CDS					YNR005C		14	637335	636931	C		2011-02-03	1997-01-28	
+S000005290	ORF	Verified	YNR007C	ATG3	AUT1|APG3	chromosome 14	L000004056|L000004783	14	640114	639182	C		2011-02-03	1997-01-28	E2-like enzyme; involved in autophagy and cytoplasm-to-vacuole targeting (Cvt) pathway; plays a role in formation of Atg8p-phosphatidylethanolamine conjugates, which are involved in membrane dynamics during autophagy and Cvt; interaction with Atg8p regulated by acetylation by NuA4 histone acetyltransferase Esa1p while attenuation of Atg3 acetylation is mediated by histone deacetylase Rpd3p; Atg12p-Atg5p conjugate enhances E2 activity of Atg3p by rearranging its catalytic site
+S000034825	CDS					YNR007C		14	640114	639182	C		2011-02-03	1997-01-28	
+S000005291	ORF	Verified	YNR008W	LRO1	phospholipid:diacylglycerol acyltransferase	chromosome 14	S000007453	14	640396	642381	W		2011-02-03	1997-01-28	Acyltransferase that catalyzes diacylglycerol esterification; one of several acyltransferases that contribute to triglyceride synthesis; Lro1p and Dga1p can O-acylate ceramides; putative homolog of human lecithin cholesterol acyltransferase
+S000035018	CDS					YNR008W		14	640396	642381	W		2011-02-03	1997-01-28	
+S000005292	ORF	Verified	YNR009W	NRM1		chromosome 14	S000080164	14	642690	643439	W		2011-02-03	1997-01-28	Transcriptional co-repressor of MBF-regulated gene expression; Nrm1p associates stably with promoters via MCB binding factor (MBF) to repress transcription upon exit from G1 phase
+S000035110	CDS					YNR009W		14	642690	643439	W		2011-02-03	1997-01-28	
+S000005293	ORF	Verified	YNR010W	CSE2	MED9	chromosome 14	L000000426	14	643744	644193	W		2011-02-03	1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; component of the Middle domain of mediator; required for regulation of RNA polymerase II activity; relocalizes to the cytosol in response to hypoxia
+S000034052	CDS					YNR010W		14	643744	644193	W		2011-02-03	1997-01-28	
+S000005294	ORF	Verified	YNR011C	PRP2	DEAH-box RNA-dependent ATPase PRP2|RNA2	chromosome 14	L000001495	14	646950	644320	C	8	2011-02-03	1997-01-28	RNA-dependent DExD/H-box ATPase; required for activation of spliceosome before first transesterification step in RNA splicing; implicated in rearranging and proofreading snRNA structure in catalytic activation of spliceosome; ortholog of human protein DHX16
+S000034087	CDS					YNR011C		14	646950	644320	C		2011-02-03	1997-01-28	
+S000005295	ORF	Verified	YNR012W	URK1	uridine kinase URK1	chromosome 14	L000002440	14	647432	648937	W		2011-02-03	1997-01-28	Uridine/cytidine kinase; component of the pyrimidine ribonucleotide salvage pathway that converts uridine into UMP and cytidine into CMP; involved in the pyrimidine deoxyribonucleotide salvage pathway, converting deoxycytidine into dCMP
+S000035092	CDS					YNR012W		14	647432	648937	W		2011-02-03	1997-01-28	
+S000005296	ORF	Verified	YNR013C	PHO91		chromosome 14		14	651712	649028	C		2011-02-03	1997-01-28	Low-affinity vacuolar phosphate transporter; exports phosphate from the vacuolar lumen to the cytosol; regulates phosphate and polyphosphate metabolism; acts upstream of Pho81p in regulation of the PHO pathway; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs); deletion of pho84, pho87, pho89, pho90, and pho91 causes synthetic lethality; transcription independent of Pi and Pho4p activity; overexpression results in vigorous growth
+S000035190	CDS					YNR013C		14	651712	649028	C		2011-02-03	1997-01-28	
+S000005297	ORF	Uncharacterized	YNR014W			chromosome 14		14	652465	653103	W		2011-02-03	1997-01-28	Putative protein of unknown function; expression is cell-cycle regulated, Azf1p-dependent, and heat-inducible; YNR014W has a paralog, YMR206W, that arose from the whole genome duplication
+S000036187	CDS					YNR014W		14	652465	653103	W		2011-02-03	1997-01-28	
+S000005298	ORF	Verified	YNR015W	SMM1	DUS2	chromosome 14	L000003407	14	653387	654541	W		2011-02-03	1997-01-28	Dihydrouridine synthase; member of a family of dihydrouridine synthases including Dus1p, Smm1p, Dus3p, and Dus4p; modifies uridine residues at position 20 of cytoplasmic tRNAs
+S000036301	CDS					YNR015W		14	653387	654541	W		2011-02-03	1997-01-28	
+S000005299	ORF	Verified	YNR016C	ACC1	acetyl-CoA carboxylase ACC1|MTR7|FAS3|ABP2	chromosome 14	L000000017|L000000014|L000000603	14	661374	654673	C		2011-02-03	1997-01-28	Acetyl-CoA carboxylase, biotin containing enzyme; catalyzes carboxylation of cytosolic acetyl-CoA to form malonyl-CoA and regulates histone acetylation by regulating the availablity of acetyl-CoA; required for de novo biosynthesis of long-chain fatty acids; ACC1 has a paralog, HFA1, that arose from the whole genome duplication
+S000036342	CDS					YNR016C		14	661374	654673	C		2011-02-03	1997-01-28	
+S000005300	ORF	Verified	YNR017W	TIM23	protein transporter TIM23|MAS6|MPI3|MIM23	chromosome 14	L000001140|L000001028	14	662913	663581	W		2011-02-03	1997-01-28	Essential component of the TIM23 complex; involved in protein import into mitochondrial matrix and inner membrane; with Tim17p, contributes to architecture and function of the import channel; TIM23 complex is short for the translocase of the inner mitochondrial membrane
+S000036476	CDS					YNR017W		14	662913	663581	W		2011-02-03	1997-01-28	
+S000005301	ORF	Verified	YNR018W	RCF2	AIM38	chromosome 14		14	664270	664944	W		2011-02-03	1997-01-28	Cytochrome c oxidase subunit; has a role in assembly of respiratory supercomplexes; similar to Rcf1p, and either Rcf1p or Rcf2p is required for late-stage assembly of the Cox12p and Cox13p subunits and for cytochrome c oxidase activity; associates with the cytochrome c oxidase - cytochrome bc1 supercomplex; null mutant accumulates reactive oxygen species; member of the conserved hypoxia induced gene family; C. elegans homolog is functional in yeast
+S000037162	CDS					YNR018W		14	664270	664944	W		2011-02-03	1997-01-28	
+S000005302	ORF	Verified	YNR019W	ARE2	sterol acyltransferase|SAT1	chromosome 14	L000003220|L000002769	14	665339	667267	W		2011-02-03	1997-01-28	Acyl-CoA:sterol acyltransferase; endoplasmic reticulum enzyme that contributes the major sterol esterification activity in the presence of oxygen; ARE2 has a paralog, ARE1, that arose from the whole genome duplication
+S000037242	CDS					YNR019W		14	665339	667267	W		2011-02-03	1997-01-28	
+S000005303	ORF	Verified	YNR020C	ATP23	putative metalloprotease	chromosome 14		14	668222	667410	C		2011-02-03	1997-01-28	Putative metalloprotease of the mitochondrial inner membrane; required for processing of Atp6p; has an additional role in assembly of the F0 sector of the F1F0 ATP synthase complex; substrate of the Mia40p-Erv1p disulfide relay system, and folding is assisted by Mia40p
+S000030232	CDS					YNR020C		14	668222	667410	C		2011-02-03	1997-01-28	
+S000005304	ORF	Uncharacterized	YNR021W			chromosome 14		14	668377	669591	W		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YNR021W is not an essential gene
+S000031253	CDS					YNR021W		14	668377	669591	W		2011-02-03	1997-01-28	
+S000005305	ORF	Verified	YNR022C	MRPL50	mitochondrial 54S ribosomal protein MRPL50	chromosome 14		14	670193	669774	C		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; not essential for mitochondrial translation
+S000031291	CDS					YNR022C		14	670193	669774	C		2011-02-03	1997-01-28	
+S000005306	ORF	Verified	YNR023W	SNF12	SWP73	chromosome 14	L000003408	14	670418	672118	W		2011-02-03	1997-01-28	73 kDa subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; relocates to the cytosol under hypoxic conditions; deletion mutants are temperature-sensitive; SNF12 has a paralog, RSC6, that arose from the whole genome duplication
+S000032359	CDS					YNR023W		14	670418	672118	W		2011-02-03	1997-01-28	
+S000005307	ORF	Verified	YNR024W	MPP6		chromosome 14		14	672409	672969	W		2011-02-03	1997-01-28	Nuclear exosome-associated RNA binding protein; involved in surveillance of pre-rRNAs and pre-mRNAs, and the degradation of cryptic non-coding RNAs (ncRNA); copurifies with ribosomes; relocalizes to the cytosol in response to hypoxia
+S000032477	CDS					YNR024W		14	672409	672969	W		2011-02-03	1997-01-28	
+S000005308	ORF	Dubious	YNR025C			chromosome 14		14	673061	672702	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion reduces expression of PIS1 gene encoding phosphatidylinositol synthase
+S000032509	CDS					YNR025C		14	673061	672702	C		2011-02-03	1997-01-28	
+S000005309	ORF	Verified	YNR026C	SEC12	Sar family guanine nucleotide exchange factor SEC12|SED2	chromosome 14	L000001837	14	674689	673274	C		2011-02-03	1997-01-28	Guanine nucleotide exchange factor (GEF); activates Sar1p by catalyzing the exchange of GDP for GTP; required for the initiation of COPII vesicle formation in ER to Golgi transport; glycosylated integral membrane protein of the ER; SEC12 has a paralog, SED4, that arose from the whole genome duplication
+S000032620	CDS					YNR026C		14	674689	673274	C		2011-02-03	1997-01-28	
+S000005310	ORF	Verified	YNR027W	BUD17	putative pyridoxal kinase BUD17	chromosome 14		14	674923	675876	W		2011-02-03	1997-01-28	Putative pyridoxal kinase; a key enzyme in vitamin B6 metabolism; involved in bud-site selection; diploid mutants display a random rather than a bipolar budding pattern; similarity to yeast BUD16 and human pyridoxal kinase (PDXK)
+S000033356	CDS					YNR027W		14	674923	675876	W		2011-02-03	1997-01-28	
+S000005311	ORF	Verified	YNR028W	CPR8	peptidylprolyl isomerase family protein CPR8	chromosome 14	L000004349	14	676177	677103	W		2011-02-03	1997-01-28	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; potential role in the secretory pathway; CPR8 has a paralog, CPR4, that arose from the whole genome duplication
+S000033423	CDS					YNR028W		14	676177	677103	W		2011-02-03	1997-01-28	
+S000005312	ORF	Uncharacterized	YNR029C			chromosome 14		14	678488	677199	C		2011-02-03	1997-01-28	Putative protein of unknown function; deletion confers reduced fitness in saline
+S000033458	CDS					YNR029C		14	678488	677199	C		2011-02-03	1997-01-28	
+S000005313	ORF	Verified	YNR030W	ALG12	dolichyl-P-Man:Man(7)GlcNAc(2)-PP-dolichol alpha-1,6-mannosyltransferase|ECM39	chromosome 14	L000003906	14	678799	680454	W		2011-02-03	1997-01-28	Alpha-1,6-mannosyltransferase localized to the ER; responsible for addition of alpha-1,6 mannose to dolichol-linked Man7GlcNAc2; acts in the dolichol pathway for N-glycosylation; human homolog ALG12 complements yeast null mutant
+S000034448	CDS					YNR030W		14	678799	680454	W		2011-02-03	1997-01-28	
+S000005314	ORF	Verified	YNR031C	SSK2	mitogen-activated protein kinase kinase kinase SSK2	chromosome 14	L000002826	14	685433	680694	C		2011-02-03	1997-01-28	MAP kinase kinase kinase of HOG1 mitogen-activated signaling pathway; interacts with Ssk1p, leading to autophosphorylation and activation of Ssk2p which phosphorylates Pbs2p; also mediates actin cytoskeleton recovery from osmotic stress; a HOG-independent function of Ssk2p mediates the calcium-sensitive phenotype of the ptp2 msg5 double disruptant; SSK2 has a paralog, SSK22, that arose from the whole genome duplication
+S000034513	CDS					YNR031C		14	685433	680694	C		2011-02-03	1997-01-28	
+S000005315	ORF	Verified	YNR032W	PPG1	putative serine/threonine-protein kinase PPG1	chromosome 14	L000001470	14	686010	687116	W		2011-02-03	1997-01-28	Putative serine/threonine protein phosphatase; putative phosphatase of the type 2A-like phosphatase family, required for glycogen accumulation; interacts with Tap42p, which binds to and regulates other protein phosphatases
+S000035579	CDS					YNR032W		14	686010	687116	W		2011-02-03	1997-01-28	
+S000007251	ORF	Verified	YNR032C-A	HUB1	ubiquitin-like protein HUB1	chromosome 14		14	687464	687243	C		2011-02-03	1999-07-17	Ubiquitin-like protein modifier; promotes alternative splicing of SRC1 pre-mRNA; binds non-covalently to the HIND domain of Snu66, may function in modification of Sph1p and Hbt1p, functionally complemented by the human or S. pombe ortholog; mechanism of Hub1p adduct formation not yet clear
+S000030977	CDS					YNR032C-A		14	687464	687243	C		2011-02-03	1999-07-17	
+S000005316	ORF	Verified	YNR033W	ABZ1	4-amino-4-deoxychorismate synthase	chromosome 14	L000000015	14	687635	689998	W		2011-02-03	1997-01-28	Para-aminobenzoate (PABA) synthase; has similarity to Escherichia coli PABA synthase components PabA and PabB; required for the synthesis of para-aminobenzoic acid, an important intermediate for folate and ubiquinone Q biosynthesis; protein abundance increases in response to DNA replication stress
+S000035655	CDS					YNR033W		14	687635	689998	W		2011-02-03	1997-01-28	
+S000005317	ORF	Verified	YNR034W	SOL1		chromosome 14	L000003102	14	690321	691286	W		2011-02-03	1997-01-28	Protein with a possible role in tRNA export; shows similarity to 6-phosphogluconolactonase non-catalytic domains but does not exhibit this enzymatic activity; homologous to Sol3p and Sol4p; SOL1 has a paralog, SOL2, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000035772	CDS					YNR034W		14	690321	691286	W		2011-02-03	1997-01-28	
+S000118393	ARS		ARS1427		ARSXIV-692	chromosome 14		14	691486	691730			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178177	ARS_consensus_sequence					ARS1427		14	691678	691662	C		2014-11-18	2014-11-18	
+S000007525	ORF	Verified	YNR034W-A	EGO4		chromosome 14		14	692561	692857	W		2011-02-03	2000-07-14	Protein of unknown function; expression is regulated by Msn2p/Msn4p; YNR034W-A has a paralog, YCR075W-A, that arose from the whole genome duplication
+S000037062	CDS					YNR034W-A		14	692561	692857	W		2011-02-03	2000-07-14	
+S000005318	ORF	Verified	YNR035C	ARC35	END9	chromosome 14	L000004558|L000004035	14	694047	693019	C		2011-02-03	1997-01-28	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches; required for cortical localization of calmodulin
+S000036635	CDS					YNR035C		14	694047	693019	C		2011-02-03	1997-01-28	
+S000005319	ORF	Verified	YNR036C	MRPS12	putative mitochondrial 37S ribosomal protein MRPS12	chromosome 14		14	694822	694361	C		2011-02-03	1997-01-28	Mitochondrial protein; may interact with ribosomes based on co-purification experiments; similar to E. coli and human mitochondrial S12 ribosomal proteins
+S000036702	CDS					YNR036C		14	694822	694361	C		2011-02-03	1997-01-28	
+S000005320	ORF	Verified	YNR037C	RSM19	mitochondrial 37S ribosomal protein RSM19	chromosome 14		14	695327	695052	C		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S19 ribosomal protein
+S000036762	CDS					YNR037C		14	695327	695052	C		2011-02-03	1997-01-28	
+S000005321	ORF	Verified	YNR038W	DBP6	putative ATP-dependent RNA helicase DBP6	chromosome 14	L000003940	14	695595	697484	W		2011-02-03	1997-01-28	Essential protein involved in ribosome biogenesis; putative ATP-dependent RNA helicase of the DEAD-box protein family; human homolog DDX51 complements yeast dbp6 mutant
+S000036850	CDS					YNR038W		14	695595	697484	W		2011-02-03	1997-01-28	
+S000005322	ORF	Verified	YNR039C	ZRG17	Zn(2+) transporter ZRG17	chromosome 14	S000007519	14	699431	697614	C		2011-02-03	1997-01-28	Endoplasmic reticulum zinc transporter; part of a heterodimeric transporter with Msc2p that transfers zinc from the cytosol to the ER lumen; member of the cation diffusion facilitator family of efflux pumps; zinc-regulated directly through Zap1p; transcription induced under conditions of zinc deficiency
+S000036872	CDS					YNR039C		14	699431	697614	C		2011-02-03	1997-01-28	
+S000005323	ORF	Uncharacterized	YNR040W			chromosome 14		14	699690	700460	W		2011-02-03	1997-01-28	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000037624	CDS					YNR040W		14	699690	700460	W		2011-02-03	1997-01-28	
+S000005325	ORF	Dubious	YNR042W			chromosome 14		14	701238	701666	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene COQ2
+S000030522	CDS					YNR042W		14	701238	701666	W		2011-02-03	1997-01-28	
+S000005324	ORF	Verified	YNR041C	COQ2	4-hydroxybenzoate octaprenyltransferase	chromosome 14	L000000379	14	701659	700541	C		2011-02-03	1997-01-28	Para hydroxybenzoate polyprenyl transferase; catalyzes the second step in ubiquinone (coenzyme Q) biosynthesis; human COQ2, mutations in which are implicated in an increased risk of mutiple-system atrophy, can complement a yeast coq2 null mutant
+S000037655	CDS					YNR041C		14	701659	700541	C		2011-02-03	1997-01-28	
+S000005326	ORF	Verified	YNR043W	MVD1	diphosphomevalonate decarboxylase MVD1|ERG19	chromosome 14	L000003136	14	701895	703085	W		2011-02-03	1997-01-28	Mevalonate pyrophosphate decarboxylase; essential enzyme involved in the biosynthesis of isoprenoids and sterols, including ergosterol; acts as a homodimer
+S000030635	CDS					YNR043W		14	701895	703085	W		2011-02-03	1997-01-28	
+S000005327	ORF	Verified	YNR044W	AGA1		chromosome 14	L000000061	14	703699	705876	W	42	2011-02-03	1997-01-28	Anchorage subunit of a-agglutinin of a-cells; highly O-glycosylated protein with N-terminal secretion signal and C-terminal signal for addition of GPI anchor to cell wall, linked to adhesion subunit Aga2p via two disulfide bonds; AGA1 has a paralog, FIG2, that arose from the whole genome duplication
+S000031496	CDS					YNR044W		14	703699	705876	W		2011-02-03	1997-01-28	
+S000005328	ORF	Verified	YNR045W	PET494		chromosome 14	L000001402	14	706139	707608	W	42	2011-02-03	1997-01-28	Mitochondrial translational activator specific for the COX3 mRNA; acts together with Pet54p and Pet122p; located in the mitochondrial inner membrane
+S000031585	CDS					YNR045W		14	706139	707608	W		2011-02-03	1997-01-28	
+S000005329	ORF	Verified	YNR046W	TRM112	RNA methylation protein TRM112	chromosome 14	S000079653	14	707788	708195	W		2011-02-03	1997-01-28	Protein involved in methylation of tRNA, rRNA, and translation factors; also involved in ribosome biogenesis; subunit of tRNA methyltransferase (MTase) complexes in combination with Trm9p and Trm11p; N7-methylates G1575 of 18S rRNA as complex with Bud23p; subunit of complex with Mtq2p that methylates Sup45p (eRF1) in the ternary complex eRF1-eRF3-GTP; relative distribution to the nucleus increases upon DNA replication stress; functional homolog of human TRMT112
+S000031700	CDS					YNR046W		14	707788	708195	W		2011-02-03	1997-01-28	
+S000005330	ORF	Verified	YNR047W	FPK1	serine/threonine protein kinase FPK1	chromosome 14		14	708523	711204	W		2011-02-03	1997-01-28	Ser/Thr protein kinase; phosphorylates several aminophospholipid translocase family members, regulating phospholipid translocation and membrane asymmetry; phosphorylates and inhibits upstream inhibitory kinase, Ypk1p; localizes to the cytoplasm, early endosome/TGN compartments and thplasma membrane; localizes to the shmoo tip where it has a redundant role in the cellular response to mating pheromone; FPK1 has a paralog, KIN82, that arose from the whole genome duplication
+S000031803	CDS					YNR047W		14	708523	711204	W		2011-02-03	1997-01-28	
+S000005331	ORF	Verified	YNR048W		putative aminophospholipid translocase regulatory protein|CRF1	chromosome 14		14	711630	712811	W		2011-02-03	1997-01-28	Potential noncatalytic subunit for phospholipid translocase Dnf3p; YNR048W has a paralog, CDC50, that arose from the whole genome duplication
+S000031910	CDS					YNR048W		14	711630	712811	W		2011-02-03	1997-01-28	
+S000005332	ORF	Verified	YNR049C	MSO1		chromosome 14	L000003070	14	713655	713023	C		2011-02-03	1997-01-28	Lipid-interacting protein in SNARE complex assembly machinery; acts at late step in secretion; interacts with membranes through two distinct binding sites; shows genetic and physical interactions with Sec1p; required for prospore membrane formation during sporulation; N-terminus closely associates with plasma membrane, C-terminus colocalizes with Sec4p on intracellular membranes; relocalizes from bud neck to nucleus upon DNA replication stress
+S000032764	CDS					YNR049C		14	713655	713023	C		2011-02-03	1997-01-28	
+S000005333	ORF	Verified	YNR050C	LYS9	saccharopine dehydrogenase (NADP+, L-glutamate-forming)|LYS13	chromosome 14	L000000969	14	715388	714048	C	44	2011-02-03	1997-01-28	Saccharopine dehydrogenase (NADP+, L-glutamate-forming); catalyzes the formation of saccharopine from alpha-aminoadipate 6-semialdehyde, the seventh step in lysine biosynthesis pathway; exhibits genetic and physical interactions with TRM112
+S000032832	CDS					YNR050C		14	715388	714048	C		2011-02-03	1997-01-28	
+S000007460	snoRNA_gene		snR49	SNR49		chromosome 14		14	716120	716284	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U990 and small subunit (SSU) rRNA at positions U120, U211, and U302
+S000030653	noncoding_exon					snR49		14	716120	716284	W		2011-02-03	2000-05-19	
+S000005334	ORF	Verified	YNR051C	BRE5		chromosome 14		14	718327	716780	C		2011-02-03	1997-01-28	Ubiquitin protease cofactor; forms deubiquitination complex with Ubp3p that coregulates anterograde and retrograde transport between the endoplasmic reticulum and Golgi compartments; null is sensitive to brefeldin A
+S000033539	CDS					YNR051C		14	718327	716780	C		2011-02-03	1997-01-28	
+S000005335	ORF	Verified	YNR052C	POP2	CCR4-NOT core DEDD family RNase subunit POP2|CAF1	chromosome 14	L000001465	14	720647	719346	C		2011-02-03	1997-01-28	RNase of the DEDD superfamily; subunit of the Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation
+S000033632	CDS					YNR052C		14	720647	719346	C		2011-02-03	1997-01-28	
+S000029463	snoRNA_gene		snR191	SNR191		chromosome 14	S000028465	14	722211	721938	C		2011-02-03	2003-12-09	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U2258 and U2260; encoded within the intron of NOG2/YNR053C
+S000034351	noncoding_exon					snR191		14	722211	721938	C		2011-02-03	2003-12-09	
+S000005336	ORF	Verified	YNR053C	NOG2	putative GTPase NOG2|NUG2	chromosome 14		14	723112	721120	C		2011-02-03	1997-01-28|2011-02-03	Putative GTPase; associates with pre-60S ribosomal subunits in the nucleolus and is required for their nuclear export and maturation; recruited by ribosomal proteins L17, L35, and L37 to assembling ribosomes after 27SB pre-rRNA is generated, immediately preceding removal of ITS2
+S000033758	CDS					YNR053C		14	721770	721120	C		2011-02-03	1997-01-28	
+S000033757	CDS					YNR053C		14	723112	722303	C		2011-02-03	1997-01-28	
+S000033759	intron					YNR053C		14	722302	721771	C		2011-02-03	1997-01-28|2011-02-03	
+S000005337	ORF	Verified	YNR054C	ESF2	RNA-binding ATPase activator ESF2|ABT1	chromosome 14		14	724306	723356	C		2011-02-03	1997-01-28	Essential nucleolar protein involved in pre-18S rRNA processing; binds to RNA and stimulates ATPase activity of Dbp8; involved in assembly of the small subunit (SSU) processome
+S000034628	CDS					YNR054C		14	724306	723356	C		2011-02-03	1997-01-28	
+S000006653	tRNA_gene		tL(UAA)N			chromosome 14	L000003695	14	726217	726134	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000037416	noncoding_exon					tL(UAA)N		14	726217	726134	C		2011-02-03	2000-05-19	
+S000007147	long_terminal_repeat		YNRWsigma4			chromosome 14		14	726234	726574	W		2011-02-03	2000-05-19	Ty3 LTR
+S000007144	long_terminal_repeat		YNRCdelta8			chromosome 14		14	726945	726614	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007145	long_terminal_repeat		YNRCdelta9			chromosome 14		14	727661	727363	C		2011-02-03	2000-05-19	Ty1 LTR
+S000005338	ORF	Verified	YNR055C	HOL1		chromosome 14	L000000798	14	730186	728426	C	48	2011-02-03	1997-01-28	Putative transporter in the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; mutations in membrane-spanning domains permit cation and histidinol uptake
+S000034785	CDS					YNR055C		14	730186	728426	C		2011-02-03	1997-01-28	
+S000005339	ORF	Verified	YNR056C	BIO5		chromosome 14	L000003530	14	733303	731618	C		2011-02-03	1997-01-28	Putative transmembrane protein involved in the biotin biosynthesis; responsible for uptake of 7-keto 8-aminopelargonic acid; BIO5 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis
+S000034927	CDS					YNR056C		14	733303	731618	C		2011-02-03	1997-01-28	
+S000005340	ORF	Verified	YNR057C	BIO4	dethiobiotin synthase	chromosome 14	L000003307	14	734069	733356	C		2011-02-03	1997-01-28	Dethiobiotin synthetase; catalyzes the third step in the biotin biosynthesis pathway; BIO4 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis; BIO3 and BIO4 were acquired by horizontal gene transfer (HGT) from bacteria; expression appears to be repressed at low iron levels
+S000035846	CDS					YNR057C		14	734069	733356	C		2011-02-03	1997-01-28	
+S000005341	ORF	Verified	YNR058W	BIO3	adenosylmethionine-8-amino-7-oxononanoate transaminase	chromosome 14	L000003176	14	734291	735733	W		2011-02-03	1997-01-28	7,8-diamino-pelargonic acid aminotransferase (DAPA); catalyzes the second step in the biotin biosynthesis pathway; BIO3 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis; BIO3 and BIO4 were acquired by horizontal gene transfer (HGT) from bacteria
+S000036073	CDS					YNR058W		14	734291	735733	W		2011-02-03	1997-01-28	
+S000005342	ORF	Verified	YNR059W	MNT4	putative alpha-1,3-mannosyltransferase	chromosome 14		14	736803	738545	W		2011-02-03	1997-01-28	Putative alpha-1,3-mannosyltransferase; not required for protein O-glycosylation; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000036222	CDS					YNR059W		14	736803	738545	W		2011-02-03	1997-01-28	
+S000005343	ORF	Verified	YNR060W	FRE4	ferric-chelate reductase	chromosome 14	L000003556	14	739951	742110	W		2011-02-03	1997-01-28	Ferric reductase; reduces a specific subset of siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels
+S000036976	CDS					YNR060W		14	739951	742110	W		2011-02-03	1997-01-28	
+S000005344	ORF	Verified	YNR061C			chromosome 14		14	743540	742881	C		2011-02-03	1997-01-28	Protein of unknown function; relocalizes from vacuole to cytoplasm upon DNA replication stress
+S000037708	CDS					YNR061C		14	743540	742881	C		2011-02-03	1997-01-28	
+S000005345	ORF	Uncharacterized	YNR062C			chromosome 14		14	745343	744360	C		2011-02-03	1997-01-28	Putative membrane protein of unknown function
+S000037784	CDS					YNR062C		14	745343	744360	C		2011-02-03	1997-01-28	
+S000005346	ORF	Uncharacterized	YNR063W			chromosome 14		14	746943	748766	W		2011-02-03	1997-01-28	Putative zinc-cluster protein of unknown function
+S000029847	CDS					YNR063W		14	746943	748766	W		2011-02-03	1997-01-28	
+S000005347	ORF	Verified	YNR064C		epoxide hydrolase	chromosome 14		14	750008	749136	C		2011-02-03	1997-01-28	Epoxide hydrolase; member of the alpha/beta hydrolase fold family; may have a role in detoxification of epoxides
+S000030815	CDS					YNR064C		14	750008	749136	C		2011-02-03	1997-01-28	
+S000005348	ORF	Uncharacterized	YNR065C		YSN1	chromosome 14		14	753700	750350	C		2011-02-03	1997-01-28	Protein of unknown function; protein-protein interactions suggest a possible role in actin patch formation; YNR065C is not an essential gene
+S000030902	CDS					YNR065C		14	753700	750350	C		2011-02-03	1997-01-28	
+S000005349	ORF	Uncharacterized	YNR066C			chromosome 14		14	755035	753725	C		2011-02-03	1997-01-28	Putative membrane-localized protein of unknown function
+S000030952	CDS					YNR066C		14	755035	753725	C		2011-02-03	1997-01-28	
+S000005350	ORF	Verified	YNR067C	DSE4	endo-1,3(4)-beta-glucanase|ENG1	chromosome 14		14	759099	755746	C		2011-02-03	1997-01-28	Daughter cell-specific secreted protein with similarity to glucanases; degrades cell wall from the daughter side causing daughter to separate from mother
+S000031043	CDS					YNR067C		14	759099	755746	C		2011-02-03	1997-01-28	
+S000005351	ORF	Uncharacterized	YNR068C		BUL3	chromosome 14		14	760885	760067	C		2011-02-03	1997-01-28	Putative protein of unknown function; exhibits homology to C-terminal end of Bul1p; expressed as a readthrough product of BSC5, the readthrough locus being termed BUL3; the BUL3 readthrough product is involved in ubiquitin-mediated sorting of plasma membrane proteins and interacts with WW domains of Rsp5p in vitro, but in a functionally different way than the non-readthrough form
+S000032003	CDS					YNR068C		14	760885	760067	C		2011-02-03	1997-01-28	
+S000005352	ORF	Verified	YNR069C	BSC5	BUL3	chromosome 14		14	762592	761123	C		2011-02-03	1997-01-28	Protein of unknown function; shows homology with N-terminal end of Bul1p; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; readthrough expression includes YNR068C and the locus for this readthrough is termed BUL3; Bul3p is involved in ubiquitin-mediated sorting of plasma membrane proteins; readthrough and shortened forms of Bul3p interact with Rsp5p differently in vitro
+S000032095	CDS					YNR069C		14	762592	761123	C		2011-02-03	1997-01-28	
+S000005353	ORF	Verified	YNR070W	PDR18	ATP-binding cassette multidrug transporter PDR18	chromosome 14		14	765375	769376	W		2011-02-03	1997-01-28|2011-02-03	Putative transporter of the ATP-binding cassette (ABC) family; role in plasma membrane sterol incorporation; implicated in pleiotropic drug resistance; provides resistance to ethanol stress and contributes to a decreased intracellular accumulation of ethanol; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000033201	CDS					YNR070W		14	765375	769376	W		2011-02-03	1997-01-28|2011-02-03	
+S000005354	ORF	Uncharacterized	YNR071C		aldose 1-epimerase superfamily protein	chromosome 14		14	771468	770440	C		2011-02-03	1997-01-28	Putative aldose 1-epimerase
+S000033956	CDS					YNR071C		14	771468	770440	C		2011-02-03	1997-01-28	
+S000005355	ORF	Verified	YNR072W	HXT17	HLT4|hexose transporter HXT17	chromosome 14	L000003265	14	772657	774351	W		2011-02-03	1997-01-28	Putative transmembrane polyol transporter; supports growth on and uptake of mannitol and sorbitol with moderate affinity when overexpressed in a strain deleted for hexose family members; minor hexose transport activity when overexpressed in a similar strain; induced by raffinose and galactose at pH 7.7 versus pH 4.7, repressed by high levels of glucose; HXT17 has a paralog, HXT13, that arose from a segmental duplication
+S000034105	CDS					YNR072W		14	772657	774351	W		2011-02-03	1997-01-28	
+S000005356	ORF	Verified	YNR073C	MAN2	putative mannitol dehydrogenase	chromosome 14		14	776300	774792	C		2011-02-03	1997-01-28	Mannitol dehydrogenase; MAN2 has a paralog, DSF1, that arose from a segmental duplication
+S000034161	CDS					YNR073C		14	776300	774792	C		2011-02-03	1997-01-28	
+S000005357	ORF	Verified	YNR074C	AIF1	CPD1	chromosome 14		14	778738	777602	C		2011-02-03	1997-01-28	Mitochondrial cell death effector; translocates to the nucleus in response to apoptotic stimuli, homolog of mammalian Apoptosis-Inducing Factor, putative reductase
+S000035101	CDS					YNR074C		14	778738	777602	C		2011-02-03	1997-01-28	
+S000005358	ORF	Verified	YNR075W	COS10		chromosome 14	L000004068	14	779916	781040	W		2011-02-03	1997-01-28	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000035300	CDS					YNR075W		14	779916	781040	W		2011-02-03	1997-01-28	
+S000028706	ORF	Uncharacterized	YNR075C-A			chromosome 14		14	781603	781511	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032648	CDS					YNR075C-A		14	781603	781511	C		2011-02-03	2003-07-29	
+S000005359	ORF	Verified	YNR076W	PAU6	seripauperin PAU6	chromosome 14	L000002880	14	781918	782280	W		2011-02-03	1997-01-28	Member of the seripauperin multigene family; encoded mainly in subtelomeric regions; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole; active during alcoholic fermentation; regulated by anaerobiosis; negatively regulated by oxygen; repressed by heme; identical to Pau18p
+S000035359	CDS					YNR076W		14	781918	782280	W		2011-02-03	1997-01-28	
+S000028993	telomere		TEL14R			chromosome 14		14	783278	784333	W	54	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XIV; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
+S000028994	telomeric_repeat					TEL14R		14	784038	784333	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome XIV
+S000028995	X_element					TEL14R		14	783278	783740	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XIV; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YNR077C
+S000028996	X_element_combinatorial_repeat					TEL14R		14	783741	784037	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XIV; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000005360	ORF	Uncharacterized	YNR077C			chromosome 14		14	783541	783287	C		2011-02-03	1997-01-28	Protein of unknown function, abundance changes with carbon source
+S000035391	CDS					YNR077C		14	783541	783287	C		2011-02-03	1997-01-28	
+S000028709	ORF	Uncharacterized	YOL166W-A			chromosome 15		15	585	740	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032654	CDS					YOL166W-A		15	585	740	W		2003-07-29	2003-07-29	
+S000028929	telomere		TEL15L			chromosome 15		15	847	1	C	-132	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XV; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
+S000028930	telomeric_repeat					TEL15L		15	117	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome XV
+S000028931	X_element					TEL15L		15	847	389	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XV; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YOL166W-A
+S000028932	X_element_combinatorial_repeat					TEL15L		15	388	118	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XV; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000005526	ORF	Dubious	YOL166C			chromosome 15		15	1338	1000	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036497	CDS					YOL166C		15	1338	1000	C		1996-07-31	1996-07-31	
+S000005525	ORF	Verified	YOL165C	AAD15	putative aryl-alcohol dehydrogenase	chromosome 15	L000004640	15	2078	1647	C		1996-07-31	1996-07-31	Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role; AAD15 has a paralog, AAD3, that arose from a segmental duplication; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
+S000035578	CDS					YOL165C		15	2078	1647	C		1996-07-31	1996-07-31	
+S000007148	long_terminal_repeat		YOLCdelta1			chromosome 15		15	3223	2894	C		2000-05-19	2000-05-19	Ty1 LTR
+S000007160	long_terminal_repeat		YOLWtau1			chromosome 15		15	3809	3986	W		2000-05-19	2000-05-19	Ty4 LTR
+S000028580	ORF	Uncharacterized	YOL164W-A			chromosome 15		15	4130	4312	W		2003-07-29	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031327	CDS					YOL164W-A		15	4130	4312	W		2003-07-29	2003-07-29	
+S000005524	ORF	Verified	YOL164W	BDS1	sulfuric ester hydrolase	chromosome 15		15	6175	8115	W		1996-07-31	1996-07-31	Bacterially-derived sulfatase; required for use of alkyl- and aryl-sulfates as sulfur sources
+S000035536	CDS					YOL164W		15	6175	8115	W		1996-07-31	1996-07-31	
+S000005523	ORF	Uncharacterized	YOL163W			chromosome 15		15	9597	10106	W		2011-02-03	1996-07-31	Putative protein of unknown function; member of the Dal5p subfamily of the major facilitator family
+S000035451	CDS					YOL163W		15	9597	10106	W		2011-02-03	1996-07-31	
+S000005522	ORF	Uncharacterized	YOL162W			chromosome 15		15	10119	10766	W		2011-02-03	1996-07-31	Putative protein of unknown function; member of the Dal5p subfamily of the major facilitator family
+S000034399	CDS					YOL162W		15	10119	10766	W		2011-02-03	1996-07-31	
+S000005521	ORF	Verified	YOL161C	PAU20	seripauperin PAU20	chromosome 15		15	11911	11549	C		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole; expression induced by low temperature and also by anaerobic conditions; induced during alcoholic fermentation
+S000034226	CDS					YOL161C		15	11911	11549	C		2011-02-03	1996-07-31	
+S000005520	ORF	Dubious	YOL160W			chromosome 15		15	14313	14654	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034155	CDS					YOL160W		15	14313	14654	W		2011-02-03	1996-07-31	
+S000007627	ORF	Verified	YOL159C-A			chromosome 15		15	15505	15233	C		2011-02-03	2001-02-26	Protein of unknown function; overexpression affects endocytic protein trafficking; identified by sequence comparison with hemiascomycetous yeast species
+S000037257	CDS					YOL159C-A		15	15505	15233	C		2011-02-03	2001-02-26	
+S000005519	ORF	Verified	YOL159C	CSS3		chromosome 15		15	17796	17281	C		2011-02-03	1996-07-31	Protein of unknown function, secreted when constitutively expressed; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cell periphery, SWAT-GFP fusion also localizes to the extracellular region, and mCherry fusion also localizes to the vacuole; deletion mutants are viable and have elevated levels of Ty1 retrotransposition and Ty1 cDNA
+S000034633	CDS					YOL159C		15	17796	17281	C		2011-02-03	1996-07-31	
+S000007149	long_terminal_repeat		YOLCdelta2			chromosome 15		15	18561	18302	C		2011-02-03	2000-05-19	Ty1 LTR
+S000005518	ORF	Verified	YOL158C	ENB1	ARN4	chromosome 15		15	21311	19491	C		2011-02-03	1996-07-31	Endosomal ferric enterobactin transporter; expressed under conditions of iron deprivation; member of the major facilitator superfamily; expression is regulated by Rcs1p and affected by chloroquine treatment
+S000034544	CDS					YOL158C		15	21311	19491	C		2011-02-03	1996-07-31	
+S000005517	ORF	Verified	YOL157C	IMA2	oligo-1,6-glucosidase IMA2	chromosome 15		15	24294	22525	C		2011-02-03	1996-07-31	Isomaltase (alpha-1,6-glucosidase/alpha-methylglucosidase); preferred specificity for isomaltose, alpha-methylglucoside, and palatinose, but also exhibits alpha-1,2 glucosidase activity on sucrose and kojibiose, and can cleave the 1,3-alpha linkage of nigerose and turanose and the alpha-1,5 linkage of leucrose in vitro; not required for isomaltose utilization, but Ima2p overexpression allows the ima1 null mutant to grow on isomaltose
+S000034426	CDS					YOL157C		15	24294	22525	C		2011-02-03	1996-07-31	
+S000005516	ORF	Verified	YOL156W	HXT11	hexose transporter HXT11|LGT3	chromosome 15	L000000947	15	25273	26976	W		2011-02-03	1996-07-31	Hexose transporter; capable of transporting a broad range of substrates including: glucose, fructose, mannose and galactose; polyol transporter that supports the growth on and uptake of xylitol with low affinity when overexpressed in a strain deleted for hexose family members; nearly identical in sequence to Hxt9p; has similarity to major facilitator superfamily (MFS) transporters; involved in pleiotropic drug resistance
+S000032470	CDS					YOL156W		15	25273	26976	W		2011-02-03	1996-07-31	
+S000028855	ORF	Uncharacterized	YOL155W-A			chromosome 15		15	27084	27218	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034568	CDS					YOL155W-A		15	27084	27218	W		2011-02-03	2003-07-29	
+S000005515	ORF	Verified	YOL155C	HPF1	mannoprotein	chromosome 15		15	31606	28703	C		2011-02-03	1996-07-31	Haze-protective mannoprotein; reduces the particle size of aggregated proteins in white wines
+S000032305	CDS					YOL155C		15	31606	28703	C		2011-02-03	1996-07-31	
+S000005514	ORF	Verified	YOL154W	ZPS1		chromosome 15		15	34658	35407	W		2011-02-03	1996-07-31	Putative GPI-anchored protein; transcription is induced under low-zinc conditions, as mediated by the Zap1p transcription factor, and at alkaline pH
+S000032261	CDS					YOL154W		15	34658	35407	W		2011-02-03	1996-07-31	
+S000118995	ARS		ARS1531		ARSXV-36|ARS1506.5	chromosome 15		15	35669	35904			2011-02-03	2006-10-02|2011-02-03	Autonomously Replicating Sequence
+S000178178	ARS_consensus_sequence					ARS1531		15	35713	35729	W		2014-11-18	2014-11-18	
+S000005513	blocked_reading_frame		YOL153C			chromosome 15		15	38567	36822	C		2011-02-03	1996-07-31	Blocked reading frame, contains two in-frame stops in translation; this ORF is conserved, without the stops, in Saccharomyces paradoxus, S. mikatae, and S. bayanus; RNA sequencing data indicate the presence of a transcription unit at this reading frame
+S000031205	CDS					YOL153C		15	38567	36822	C		2011-02-03	1996-07-31	
+S000005512	ORF	Verified	YOL152W	FRE7	putative ferric-chelate reductase	chromosome 15	L000003559	15	40748	42610	W		2011-02-03	1996-07-31|2006-01-05	Putative ferric reductase with similarity to Fre2p; expression induced by low copper levels
+S000031126	CDS					YOL152W		15	40748	42610	W		2011-02-03	1996-07-31|2006-01-05	
+S000005511	ORF	Verified	YOL151W	GRE2	methylglyoxal reductase (NADPH-dependent) GRE2	chromosome 15	L000004177	15	43694	44722	W		2011-02-03	1996-07-31	3-methylbutanal reductase and NADPH-dependent methylglyoxal reductase; stress induced (osmotic, ionic, oxidative, heat shock and heavy metals); regulated by the HOG pathway; restores resistance to glycolaldehyde by coupling reduction of glycolaldehyde to ethylene glycol and oxidation of NADPH to NADP+; protein abundance increases in response to DNA replication stress; methylglyoxal reductase (NADPH-dependent) is also known as D-lactaldehyde dehydrogenase
+S000031026	CDS					YOL151W		15	43694	44722	W		2011-02-03	1996-07-31	
+S000005510	ORF	Dubious	YOL150C			chromosome 15		15	44784	44473	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000029963	CDS					YOL150C		15	44784	44473	C		2011-02-03	1996-07-31	
+S000005509	ORF	Verified	YOL149W	DCP1	MRT2	chromosome 15	L000002960|L000003045|S000029311	15	44938	45633	W		2011-02-03	1996-07-31	Subunit of the Dcp1p-Dcp2p decapping enzyme complex; decapping complex removes the 5' cap structure from mRNAs prior to their degradation; enhances the activity of catalytic subunit Dcp2p; regulated by DEAD box protein Dhh1p; forms cytoplasmic foci upon DNA replication stress
+S000030376	CDS					YOL149W		15	44938	45633	W		2011-02-03	1996-07-31	
+S000005508	ORF	Verified	YOL148C	SPT20	ADA5	chromosome 15	L000002593	15	47574	45760	C		2011-02-03	1996-07-31	Subunit of the SAGA transcriptional regulatory complex; involved in maintaining the integrity of the complex; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay
+S000030163	CDS					YOL148C		15	47574	45760	C		2011-02-03	1996-07-31	
+S000005507	ORF	Verified	YOL147C	PEX11	PMP27|PMP24	chromosome 15	L000002650|L000004117	15	48643	47933	C		2011-02-03	1996-07-31	Peroxisomal protein required for medium-chain fatty acid oxidation; also required for peroxisome proliferation, possibly by inducing membrane curvature; localization regulated by phosphorylation; transcription regulated by Adr1p and Pip2p-Oaf1p
+S000036432	CDS					YOL147C		15	48643	47933	C		2011-02-03	1996-07-31	
+S000005506	ORF	Verified	YOL146W	PSF3	DNA replication protein PSF3	chromosome 15		15	48864	49448	W		2011-02-03	2003-09-22|1996-07-31	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p); complex is localized to DNA replication origins and implicated in assembly of the DNA replication machinery
+S000036403	CDS					YOL146W		15	48864	49448	W		2011-02-03	2003-09-22|1996-07-31	
+S000005505	ORF	Verified	YOL145C	CTR9	CDP1	chromosome 15	L000003477	15	52788	49555	C		2011-02-03	1996-07-31|2011-02-03	Component of the Paf1p complex involved in transcription elongation; binds to and modulates the activity of RNA polymerases I and II; required for expression of a subset of genes, including cyclin genes; involved in SER3 repression by helping to maintain SRG1 transcription-dependent nucleosome occupancy; contains TPR repeats
+S000036252	CDS					YOL145C		15	52788	49555	C		2011-02-03	1996-07-31|2011-02-03	
+S000005504	ORF	Verified	YOL144W	NOP8		chromosome 15	L000004849	15	53098	54552	W		2011-02-03	1996-07-31	Nucleolar protein required for 60S ribosomal subunit biogenesis
+S000036206	CDS					YOL144W		15	53098	54552	W		2011-02-03	1996-07-31	
+S000005503	ORF	Verified	YOL143C	RIB4	lumazine synthase RIB4	chromosome 15	L000003027	15	55104	54595	C		2011-02-03	1996-07-31	Lumazine synthase (DMRL synthase); catalyzes synthesis of immediate precursor to riboflavin; DMRL synthase stands for 6,7-dimethyl-8-ribityllumazine synthase
+S000035226	CDS					YOL143C		15	55104	54595	C		2011-02-03	1996-07-31	
+S000005502	ORF	Verified	YOL142W	RRP40	exosome non-catalytic core subunit RRP40|MTR14	chromosome 15	L000004799	15	55558	56280	W		2011-02-03	1996-07-31|2011-02-03	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain both S1 and KH RNA binding domains; has similarity to human hRrp40p (EXOSC3)
+S000035132	CDS					YOL142W		15	55558	56280	W		2011-02-03	1996-07-31|2011-02-03	
+S000005501	ORF	Verified	YOL141W	PPM2	tRNA methyltransferase PPM2|TYW4	chromosome 15		15	56452	58539	W		2011-02-03	1996-07-31|2011-02-03	AdoMet-dependent tRNA methyltransferase; also involved in methoxycarbonylation; required for the synthesis of wybutosine (yW), a modified guanosine found at the 3'-position adjacent to the anticodon of phe-tRNA; similarity to Ppm1p
+S000034965	CDS					YOL141W		15	56452	58539	W		2011-02-03	1996-07-31|2011-02-03	
+S000077073	matrix_attachment_site		ETC2	ETC2		chromosome 15		15	58541	58563	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; remains predominantly localized to the nuclear periphery throughout cell cycle; located between PPM2 and ARG8
+S000005500	ORF	Verified	YOL140W	ARG8	acetylornithine transaminase	chromosome 15	L000000111	15	58759	60030	W	-130	2006-01-05	1996-07-31	Acetylornithine aminotransferase; catalyzes the fourth step in the biosynthesis of the arginine precursor ornithine
+S000034835	CDS					YOL140W		15	58759	60030	W		2006-01-05	1996-07-31	
+S000005499	ORF	Verified	YOL139C	CDC33	translation initiation factor eIF4E|eIF4E|TIF45	chromosome 15	L000000270	15	61024	60383	C		2006-01-05	1996-07-31	mRNA cap binding protein and translation initiation factor eIF4E; the eIF4E-cap complex is responsible for mediating cap-dependent mRNA translation via interactions with translation initiation factor eIF4G (Tif4631p or Tif4632p); protein abundance increases in response to DNA replication stress; mutants are defective for adhesion and pseudohyphal growth; human homolog EIF4E can complement yeast cdc33 null mutant
+S000035358	CDS					YOL139C		15	61024	60383	C		2006-01-05	1996-07-31	
+S000005498	ORF	Verified	YOL138C	RTC1	SEA2	chromosome 15		15	65350	61325	C		2006-01-05	1996-07-31|2011-02-03	Subunit of SEACAT, a subcomplex of the SEA complex; Rtc1p, along with Mtc5p and Sea4p, redundantly inhibit the TORC1 inhibitory role of the Iml1p/SEACIT (Iml1p-Npr2p-Npr3p) subcomplex, a GAP for GTPase Gtr1p (EGOC subunit) in response to amino acid limitation, thereby resulting in activation of TORC1 signaling; SEA is a coatomer-related complex that associates dynamically with the vacuole; has N-terminal WD-40 repeats and a C-terminal RING motif; null suppresses cdc13-1
+S000035295	CDS					YOL138C		15	65350	61325	C		2006-01-05	1996-07-31|2011-02-03	
+S000005497	ORF	Verified	YOL137W	BSC6		chromosome 15		15	65621	67114	W		2006-01-05	1996-07-31	Protein of unknown function with 8 putative transmembrane segments; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression
+S000034363	CDS					YOL137W		15	65621	67114	W		2006-01-05	1996-07-31	
+S000005496	ORF	Verified	YOL136C	PFK27	6-phosphofructo-2-kinase|PFK-2	chromosome 15	L000003077	15	68754	67561	C		2006-01-05	1996-07-31	6-phosphofructo-2-kinase; catalyzes synthesis of fructose-2,6-bisphosphate; inhibited by phosphoenolpyruvate and sn-glycerol 3-phosphate, expression induced by glucose and sucrose, transcriptional regulation involves protein kinase A
+S000034276	CDS					YOL136C		15	68754	67561	C		2006-01-05	1996-07-31	
+S000005495	ORF	Verified	YOL135C	MED7	mediator complex subunit MED7	chromosome 15	L000003916	15	70044	69376	C		2006-01-05	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
+S000034163	CDS					YOL135C		15	70044	69376	C		2006-01-05	1996-07-31	
+S000005493	ORF	Verified	YOL133W	HRT1	SCF ubiquitin ligase complex subunit HRT1|HRT2|ROC1|RBX1	chromosome 15	L000004443	15	70325	70690	W		2006-01-05	1996-07-31	RING-H2 domain core subunit of multiple ubiquitin ligase complexes; subunit of Skp1-Cullin-F-box (SCF) that tethers the Cdc34p (E2) and Cdc53p (cullin) SCF subunits, and is required for degradation of Gic2p, Far1p, Sic1p and Cln2p; subunit of the Rtt101p-Mms1p-Mms22p ubiquitin ligase that stabilizes replication forks after DNA lesions; subunit of the Cul3p-Elc1p-Ela1p ubiquitin ligase involved in Rpb1p degradation as part of transcription-coupled repair
+S000032132	CDS					YOL133W		15	70325	70690	W		2006-01-05	1996-07-31	
+S000005494	ORF	Dubious	YOL134C			chromosome 15		15	70545	70156	C		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps HRT1, a verified gene that encodes an SCF ubiquitin ligase subunit
+S000034069	CDS					YOL134C		15	70545	70156	C		2006-01-05	1996-07-31	
+S000005492	ORF	Verified	YOL132W	GAS4	1,3-beta-glucanosyltransferase	chromosome 15		15	71300	72715	W		2006-01-05	1996-07-31	1,3-beta-glucanosyltransferase; involved with Gas2p in spore wall assembly; has similarity to Gas1p; localizes to the cell wall
+S000032019	CDS					YOL132W		15	71300	72715	W		2006-01-05	1996-07-31	
+S000118484	ARS		ARS1507		ARSXV-73	chromosome 15		15	72683	72753			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178179	ARS_consensus_sequence					ARS1507		15	72687	72703	W		2014-11-18	2014-11-18	
+S000005491	ORF	Uncharacterized	YOL131W			chromosome 15		15	73031	73357	W		2006-01-05	1996-07-31	Putative protein of unknown function; YOL131W has a paralog, STB1, that arose from the whole genome duplication
+S000031851	CDS					YOL131W		15	73031	73357	W		2006-01-05	1996-07-31	
+S000005490	ORF	Verified	YOL130W	ALR1	Mg(2+) transporter ALR1|SWC3	chromosome 15	L000002887	15	74400	76979	W		2006-01-05	1996-07-31	Plasma membrane Mg(2+) transporter; expression and turnover are regulated by Mg(2+) concentration; overexpression confers increased tolerance to Al(3+) and Ga(3+) ions; magnesium transport defect of the null mutant is functionally complemented by either of the human genes MAGT1 and TUSC3 that are not orthologous to ALR1
+S000030868	CDS					YOL130W		15	74400	76979	W		2006-01-05	1996-07-31	
+S000005489	ORF	Verified	YOL129W	VPS68		chromosome 15		15	77560	78114	W		2006-01-05	1996-07-31	Vacuolar membrane protein of unknown function; involved in vacuolar protein sorting; also detected in the mitochondria
+S000032156	CDS					YOL129W		15	77560	78114	W		2006-01-05	1996-07-31	
+S000005488	ORF	Verified	YOL128C	YGK3	serine/threonine protein kinase YGK3	chromosome 15		15	79479	78352	C		2006-01-05	1996-07-31	Protein kinase related to mammalian GSK-3 glycogen synthase kinases; GSK-3 homologs (Mck1p, Rim11p, Mrk1p, Ygk3p) are involved in control of Msn2p-dependent transcription of stress responsive genes and in protein degradation; YGK3 has a paralog, MCK1, that arose from the whole genome duplication
+S000031135	CDS					YOL128C		15	79479	78352	C		2006-01-05	1996-07-31	
+S000005487	ORF	Verified	YOL127W	RPL25	uL23|ribosomal 60S subunit protein L25|L23|rpl6L|YL25|L25	chromosome 15	L000001722	15	80348	81190	W		2006-01-05	1996-07-31	Ribosomal 60S subunit protein L25; primary rRNA-binding ribosomal protein component of large ribosomal subunit; binds to 25S rRNA via a conserved C-terminal motif; homologous to mammalian ribosomal protein L23A and bacterial L23
+S000031095	CDS					YOL127W		15	80348	80360	W		2006-01-05	1996-07-31	
+S000031096	CDS					YOL127W		15	80775	81190	W		2006-01-05	1996-07-31	
+S000031097	intron					YOL127W		15	80361	80774	W		2006-01-05	1996-07-31	
+S000005486	ORF	Verified	YOL126C	MDH2	malate dehydrogenase MDH2	chromosome 15	L000001046	15	82920	81787	C		2006-10-06	1996-07-31|2006-10-06	Cytoplasmic malate dehydrogenase; one of three isozymes that catalyze interconversion of malate and oxaloacetate; involved in the glyoxylate cycle and gluconeogenesis during growth on two-carbon compounds; interacts with Pck1p and Fbp1
+S000030943	CDS					YOL126C		15	82920	81787	C		2006-10-06	1996-07-31|2006-10-06	
+S000005485	ORF	Verified	YOL125W	TRM13	tRNA:m4X modification enzyme	chromosome 15		15	83834	85264	W		2006-01-05	1996-07-31|2011-02-03	2'-O-methyltransferase; responsible for modification of tRNA at position 4; C-terminal domain has similarity to Rossmann-fold (RFM) superfamily of RNA methyltransferases
+S000030912	CDS					YOL125W		15	83834	85264	W		2006-01-05	1996-07-31|2011-02-03	
+S000118485	ARS		ARS1508		ARSXV-85	chromosome 15		15	85270	85361			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178180	ARS_consensus_sequence					ARS1508		15	85360	85344	C		2014-11-18	2014-11-18	
+S000005484	ORF	Verified	YOL124C	TRM11	tRNA (guanine-N2-)-methyltransferase	chromosome 15	S000029604|S000028498	15	86757	85456	C		2006-01-05	1996-07-31	Catalytic subunit of adoMet-dependent tRNA methyltransferase complex; required for the methylation of the guanosine nucleotide at position 10 (m2G10) in tRNAs; contains a THUMP domain and a methyltransferase domain; another complex member is Trm112p
+S000029846	CDS					YOL124C		15	86757	85456	C		2006-01-05	1996-07-31	
+S000005483	ORF	Verified	YOL123W	HRP1	NAB5|NAB4	chromosome 15	L000003337|L000003022|L000003015	15	87844	89448	W		2006-01-05	1996-07-31	Subunit of cleavage factor I; cleavage factor I is a five-subunit complex required for the cleavage and polyadenylation of pre-mRNA 3' ends; RRM-containing heteronuclear RNA binding protein and hnRNPA/B family member that binds to poly (A) signal sequences; required for genome stability
+S000037901	CDS					YOL123W		15	87844	89448	W		2006-01-05	1996-07-31	
+S000005482	ORF	Verified	YOL122C	SMF1	divalent metal ion transporter SMF1|SBS1	chromosome 15	L000001931	15	91419	89692	C		2006-01-05	1996-07-31	Divalent metal ion transporter; broad specificity for di-valent and tri-valent metals; post-translationally regulated by levels of metal ions; member of the Nramp family of metal transport proteins
+S000036001	CDS					YOL122C		15	91419	89692	C		2006-01-05	1996-07-31	
+S000005481	ORF	Verified	YOL121C	RPS19A	eS19|ribosomal 40S subunit protein S19A|S19e|rp55a|YS16A|S19A|S16aA	chromosome 15	L000003299	15	92850	92026	C		2006-01-05	1996-07-31	Protein component of the small (40S) ribosomal subunit; required for assembly and maturation of pre-40 S particles; homologous to mammalian ribosomal protein S19, no bacterial homolog; mutations in human RPS19 are associated with Diamond Blackfan anemia; RPS19A has a paralog, RPS19B, that arose from the whole genome duplication
+S000035838	CDS					YOL121C		15	92440	92026	C		2006-01-05	1996-07-31	
+S000035837	CDS					YOL121C		15	92850	92831	C		2006-01-05	1996-07-31	
+S000035839	intron					YOL121C		15	92830	92441	C		2006-01-05	1996-07-31	
+S000005480	ORF	Verified	YOL120C	RPL18A	eL18|ribosomal 60S subunit protein L18A|L18e|rp28A|L18A|RP28A	chromosome 15	L000001668	15	94402	93395	C		2006-01-05	1996-07-31	Ribosomal 60S subunit protein L18A; intron of RPL18A pre-mRNA forms stem-loop structures that are a target for Rnt1p cleavage leading to degradation; homologous to mammalian ribosomal protein L18, no bacterial homolog; RPL18A has a paralog, RPL18B, that arose from the whole genome duplication
+S000035727	CDS					YOL120C		15	93843	93395	C		2006-01-05	1996-07-31	
+S000035726	CDS					YOL120C		15	94402	94291	C		2006-01-05	1996-07-31	
+S000035728	intron					YOL120C		15	94290	93844	C		2006-01-05	1996-07-31	
+S000005479	ORF	Verified	YOL119C	MCH4		chromosome 15		15	96361	94856	C		2006-01-05	1996-07-31	Protein with similarity to mammalian monocarboxylate permeases; monocarboxylate permeases are involved in transport of monocarboxylic acids across the plasma membrane but mutant is not deficient in monocarboxylate transport
+S000036182	CDS					YOL119C		15	96361	94856	C		2006-01-05	1996-07-31	
+S000005478	ORF	Dubious	YOL118C			chromosome 15		15	96916	96608	C		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036070	CDS					YOL118C		15	96916	96608	C		2006-01-05	1996-07-31	
+S000005477	ORF	Verified	YOL117W	RRI2	CSN10	chromosome 15	S000007579	15	97551	99488	W		2006-01-05	1996-07-31	Subunit of the COP9 signalosome (CSN) complex; this complex cleaves the ubiquitin-like protein Nedd8 from SCF ubiquitin ligases; plays a role in the mating pheromone response
+S000036034	CDS					YOL117W		15	97551	99488	W		2006-01-05	1996-07-31	
+S000005476	ORF	Verified	YOL116W	MSN1	PHD2|MSS10|HRB382|FUP1	chromosome 15	L000001197	15	99809	100957	W		2006-01-05	1996-07-31	Transcriptional activator; involved in regulation of invertase and glucoamylase expression, invasive growth and pseudohyphal differentiation, iron uptake, chromium accumulation, and response to osmotic stress; localizes to the nucleus; relative distribution to the nucleus increases upon DNA replication stress
+S000035148	CDS					YOL116W		15	99809	100957	W		2006-01-05	1996-07-31	
+S000005475	ORF	Verified	YOL115W	PAP2	non-canonical poly(A) polymerase PAP2|TRF4	chromosome 15	L000002953	15	101475	103229	W		2006-01-05	1996-07-31	Non-canonical poly(A) polymerase; involved in nuclear RNA degradation as a component of TRAMP; catalyzes polyadenylation of hypomodified tRNAs, and snoRNA and rRNA precursors; required for mRNA surveillance and maintenance of genome integrity, serving as a link between RNA and DNA metabolism; overlapping but non-redundant functions with Trf5p; relocalizes to cytosol in response to hypoxia
+S000035037	CDS					YOL115W		15	101475	103229	W		2006-01-05	1996-07-31	
+S000005474	ORF	Verified	YOL114C	PTH4		chromosome 15		15	103925	103317	C		2006-01-05	1996-07-31	Protein similar to the human peptidyl-tRNA hydrolase gene ICT1; associates with mitochondrial large subunit; may function in translation termination; YOL114C is not an essential gene
+S000034821	CDS					YOL114C		15	103925	103317	C		2006-01-05	1996-07-31	
+S000005473	ORF	Verified	YOL113W	SKM1	putative serine/threonine protein kinase SKM1	chromosome 15	L000004142	15	104326	106293	W		2006-01-05	1996-07-31	Member of the PAK family of serine/threonine protein kinases; similar to Ste20p; involved in down-regulation of sterol uptake; proposed to be a downstream effector of Cdc42p during polarized growth; SKM1 has a paralog, CLA4, that arose from the whole genome duplication
+S000034781	CDS					YOL113W		15	104326	106293	W		2006-01-05	1996-07-31	
+S000005472	ORF	Verified	YOL112W	MSB4	Rab GTPase-activating protein MSB4	chromosome 15	L000003919	15	106710	108188	W		2006-01-05	1996-07-31	GTPase-activating protein of the Ras superfamily; acts primarily on Sec4p, localizes to the bud site and bud tip; msb3 msb4 double mutation causes defects in secretion and actin organization; similar to the TBC-domain Tre2 oncogene; MSB4 has a paralog, MSB3, that arose from the whole genome duplication; human homolog USP6NL can complement yeast msb3 msb4 double null mutant
+S000033897	CDS					YOL112W		15	106710	108188	W		2006-01-05	1996-07-31	
+S000005471	ORF	Verified	YOL111C	MDY2	GET5|TMA24	chromosome 15		15	108896	108258	C		2006-01-05	1996-07-31	Protein involved in inserting tail-anchored proteins into ER membranes; forms a complex with Get4p; required for efficient mating; involved in shmoo formation and nuclear migration in the pre-zygote; associates with ribosomes
+S000033697	CDS					YOL111C		15	108896	108258	C		2006-01-05	1996-07-31	
+S000005470	ORF	Verified	YOL110W	SHR5	ERF4	chromosome 15	L000002592	15	109176	109889	W		2006-01-05	1996-07-31	Palmitoyltransferase subunit; this complex adds a palmitoyl lipid moiety to heterolipidated substrates such as Ras1p and Ras2p through a thioester linkage; palmitoylation is required for Ras2p membrane localization; Palmitoyltransferase is composed of Shr5p and Erf2
+S000033648	CDS					YOL110W		15	109176	109889	W		2006-01-05	1996-07-31	
+S000005469	ORF	Verified	YOL109W	ZEO1		chromosome 15	L000003927	15	110297	110638	W		2006-01-05	1996-07-31	Peripheral membrane protein of the plasma membrane; interacts with Mid2p; regulates the cell integrity pathway mediated by Pkc1p and Slt2p; the authentic protein is detected in a phosphorylated state in highly purified mitochondria
+S000031643	CDS					YOL109W		15	110297	110638	W		2006-01-05	1996-07-31	
+S000006592	tRNA_gene		tG(UCC)O	SUF1		chromosome 15	L000002149|L000003720	15	111033	110962	C	-110	2006-01-05	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
+S000037569	noncoding_exon					tG(UCC)O		15	111033	110962	C		2006-01-05	2000-05-19	
+S000005468	ORF	Verified	YOL108C	INO4		chromosome 15	L000000869	15	111886	111431	C		2006-01-05	1996-07-31	Transcription factor involved in phospholipid synthesis; required for derepression of inositol-choline-regulated genes involved in phospholipid synthesis; forms a complex, with Ino2p, that binds the inositol-choline-responsive element through a basic helix-loop-helix domain
+S000030752	CDS					YOL108C		15	111886	111431	C		2006-01-05	1996-07-31	
+S000005467	ORF	Uncharacterized	YOL107W			chromosome 15		15	112102	113130	W		2006-01-05	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and colocalizes in a punctate pattern with the early golgi/COPI vesicles; YOL107W is not an essential protein
+S000030688	CDS					YOL107W		15	112102	113130	W		2006-01-05	1996-07-31	
+S000005466	ORF	Dubious	YOL106W			chromosome 15		15	113226	113579	W		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030608	CDS					YOL106W		15	113226	113579	W		2006-01-05	1996-07-31	
+S000007150	long_terminal_repeat		YOLCdelta3			chromosome 15		15	113626	113294	C		2006-01-05	2000-05-19	Ty1 LTR
+S000006746	tRNA_gene		tT(AGU)O1			chromosome 15	L000003701	15	113802	113874	W		2006-01-05	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000037533	noncoding_exon					tT(AGU)O1		15	113802	113874	W		2006-01-05	2000-05-19	
+S000118486	ARS		ARS1509		ARSXV-114	chromosome 15		15	113885	113983			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178181	ARS_consensus_sequence					ARS1509		15	113894	113910	W		2014-11-18	2014-11-18	
+S000005465	ORF	Verified	YOL105C	WSC3		chromosome 15	L000004218	15	115808	114138	C		2006-01-05	1996-07-31	Sensor-transducer of the stress-activated PKC1-MPK1 signaling pathway; involved in maintenance of cell wall integrity; involved in response to heat shock and other stressors; regulates 1,3-beta-glucan synthesis; WSC3 has a paralog, WSC2, that arose from the whole genome duplication
+S000030500	CDS					YOL105C		15	115808	114138	C		2006-01-05	1996-07-31	
+S000005464	ORF	Verified	YOL104C	NDJ1	TAM1	chromosome 15	L000003266|L000003597	15	117454	116396	C		2006-01-05	1996-07-31	Protein that regulates meiotic SPB cohesion and telomere clustering; localizes to both spindle pole bodies (SPBs) and telomeres; required for bouquet formation, effective homolog pairing, ordered cross-over distribution, sister chromatid cohesion at meiotic telomeres, chromosomal segregation and telomere-led rapid prophase movement
+S000037679	CDS					YOL104C		15	117454	116396	C		2006-01-05	1996-07-31	
+S000007154	long_terminal_repeat		YOLWdelta4			chromosome 15		15	117703	118040	W		2006-01-05	2000-05-19	Ty1 LTR
+S000007161	LTR_retrotransposon		YOLWTy1-1		Ty1	chromosome 15		15	117703	123628	W		2006-01-05	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007349	transposable_element_gene		YOL103W-A		gag protein	chromosome 15		15	118000	119322	W		2006-01-05	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000030410	CDS					YOL103W-A		15	118000	119322	W		2006-01-05	1999-07-17	
+S000007350	transposable_element_gene		YOL103W-B		gag-pol fusion protein	chromosome 15	S000029018	15	118000	123268	W		2006-01-05	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000030418	CDS					YOL103W-B		15	118000	119304	W		2006-01-05	1999-07-17	
+S000030419	CDS					YOL103W-B		15	119306	123268	W		2006-01-05	1999-07-17	
+S000030420	plus_1_translational_frameshift					YOL103W-B		15	119305	119305	W		2006-01-05	1999-07-17	
+S000007155	long_terminal_repeat		YOLWdelta5			chromosome 15		15	123291	123628	W		2006-01-05	2000-05-19	Ty1 LTR
+S000005463	ORF	Verified	YOL103W	ITR2	myo-inositol transporter ITR2|HRB612	chromosome 15	L000000880	15	124001	125830	W		2006-01-05	2003-09-22|1996-07-31	Myo-inositol transporter; member of the sugar transporter superfamily; expressed constitutively; ITR2 has a paralog, ITR1, that arose from the whole genome duplication
+S000037640	CDS					YOL103W		15	124001	125830	W		2006-01-05	2003-09-22|1996-07-31	
+S000005462	ORF	Verified	YOL102C	TPT1	tRNA 2'-phosphotransferase	chromosome 15	L000003433	15	126689	125997	C		2006-01-05	1996-07-31	tRNA 2'-phosphotransferase that catalyzes final step in tRNA splicing: the transfer of the 2'-PO(4) from the splice junction to NAD(+) to form ADP-ribose 1''-2''cyclic phosphate and nicotinamide
+S000037519	CDS					YOL102C		15	126689	125997	C		2006-01-05	1996-07-31	
+S000005461	ORF	Verified	YOL101C	IZH4		chromosome 15		15	127920	126982	C		2006-01-05	1996-07-31	Membrane protein involved in zinc ion homeostasis; member of the four-protein IZH family; expression induced by fatty acids and altered zinc levels; deletion reduces sensitivity to excess zinc; possible role in sterol metabolism; protein increases in abundance and relocalizes from nucleus to ER upon DNA replication stress; IZH4 has a paralog, IZH1, that arose from the whole genome duplication
+S000037425	CDS					YOL101C		15	127920	126982	C		2006-01-05	1996-07-31	
+S000005460	ORF	Verified	YOL100W	PKH2	serine/threonine protein kinase PKH2	chromosome 15	L000004617	15	129237	132482	W		2006-01-05	1996-07-31	Serine/threonine protein kinase; involved in sphingolipid-mediated signaling pathway that controls endocytosis; activates Ypk1p and Ykr2p, components of signaling cascade required for maintenance of cell wall integrity; contains a PH-like domain; redundant with Pkh1p; PKH2 has a paralog, PKH1, that arose from the whole genome duplication
+S000032002	CDS					YOL100W		15	129237	132482	W		2006-01-05	1996-07-31	
+S000005459	ORF	Dubious	YOL099C			chromosome 15		15	132508	132017	C		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene PKH2/YOL100W; may interact with ribosomes
+S000030816	CDS					YOL099C		15	132508	132017	C		2006-01-05	1996-07-31	
+S000005458	ORF	Verified	YOL098C	SDD3		chromosome 15		15	135838	132725	C		2006-01-05	1996-07-31	Putative metalloprotease; overproduction suppresses lethality due to expression of the dominant PET9 allele AAC2-A128P
+S000030730	CDS					YOL098C		15	135838	132725	C		2006-01-05	1996-07-31	
+S000006449	snoRNA_gene		snR58	SNR58		chromosome 15	L000004527	15	136183	136088	C		2006-01-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position C663
+S000030765	noncoding_exon					snR58		15	136183	136088	C		2006-01-05	2000-05-19	
+S000028854	ORF	Uncharacterized	YOL097W-A			chromosome 15		15	136220	136405	W		2006-01-05	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034567	CDS					YOL097W-A		15	136220	136405	W		2006-01-05	2003-07-29	
+S000005457	ORF	Verified	YOL097C	WRS1	tryptophan--tRNA ligase WRS1|HRE342	chromosome 15	L000003253	15	137825	136527	C		2006-01-05	1996-07-31	Cytoplasmic tryptophanyl-tRNA synthetase; aminoacylates tryptophanyl-tRNA; human homolog WARS can complement yeast null mutant
+S000030577	CDS					YOL097C		15	137825	136527	C		2006-01-05	1996-07-31	
+S000005456	ORF	Verified	YOL096C	COQ3	hexaprenyldihydroxybenzoate methyltransferase	chromosome 15	L000000380	15	139045	138107	C		2006-01-05	2003-09-22|1996-07-31	O-methyltransferase; catalyzes two different O-methylation steps in ubiquinone (Coenzyme Q) biosynthesis; component of a mitochondrial ubiquinone-synthesizing complex; phosphoprotein
+S000036749	CDS					YOL096C		15	139045	138107	C		2006-01-05	2003-09-22|1996-07-31	
+S000005455	ORF	Verified	YOL095C	HMI1	ATP-dependent 3'-5' DNA helicase	chromosome 15	L000004614	15	141347	139227	C		2006-01-05	1996-07-31	Mitochondrial inner membrane localized ATP-dependent DNA helicase; required for the maintenance of the mitochondrial genome; not required for mitochondrial transcription; has homology to E. coli helicase uvrD
+S000036656	CDS					YOL095C		15	141347	139227	C		2006-01-05	1996-07-31	
+S000005454	ORF	Verified	YOL094C	RFC4	replication factor C subunit 4	chromosome 15	L000001625	15	142555	141584	C		2006-01-05	1996-07-31	Subunit of heteropentameric Replication factor C (RF-C); which is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon; relocalizes to the cytosol in response to hypoxia
+S000036576	CDS					YOL094C		15	142555	141584	C		2006-01-05	1996-07-31	
+S000005453	ORF	Verified	YOL093W	TRM10	tRNA (guanine(9)-N(1))-methyltransferase	chromosome 15		15	142815	143696	W		2006-01-05	1996-07-31	tRNA methyltransferase; methylates the N-1 position of guanine at position 9 in tRNAs; protein abundance increases in response to DNA replication stress; member of the SPOUT (SpoU-TrmD) methyltransferase family; human ortholog TRMT10A plays a role in the pathogenesis of microcephaly and early onset diabetes; an 18-mer originates from the TRM10 locus; genetic analysis shows the 18-mer is the translation regulator
+S000036530	CDS					YOL093W		15	142815	143696	W		2006-01-05	1996-07-31	
+S000005452	ORF	Verified	YOL092W	YPQ1	cationic amino acid transporter	chromosome 15		15	144204	145130	W		2006-01-05	1996-07-31	Putative vacuolar membrane transporter for cationic amino acids; likely contributes to amino acid homeostasis by exporting cationic amino acids from the vacuole; member of the PQ-loop family, with seven transmembrane domains; similar to mammalian PQLC2 vacuolar transporter; YPQ1 has a paralog, RTC2, that arose from the whole genome duplication
+S000035613	CDS					YOL092W		15	144204	145130	W		2006-01-05	1996-07-31	
+S000005451	ORF	Verified	YOL091W	SPO21	MPC70	chromosome 15	L000004853	15	145334	147163	W		2006-01-05	1996-07-31	Component of the meiotic outer plaque of the spindle pole body; involved in modifying the meiotic outer plaque that is required prior to prospore membrane formation; SPO21 has a paralog, YSW1, that arose from the whole genome duplication
+S000035535	CDS					YOL091W		15	145334	147163	W		2006-01-05	1996-07-31	
+S000005450	ORF	Verified	YOL090W	MSH2	mismatch repair ATPase MSH2|PMS5	chromosome 15	L000001190	15	147382	150276	W	-83.8	2006-01-05	1996-07-31	Protein that binds to DNA mismatches; forms heterodimers with Msh3p and Msh6p that bind to DNA mismatches to initiate the mismatch repair process; contains a Walker ATP-binding motif required for repair activity and involved in interstrand cross-link repair; Msh2p-Msh6p binds to and hydrolyzes ATP
+S000035449	CDS					YOL090W		15	147382	150276	W		2006-01-05	1996-07-31	
+S000005449	ORF	Verified	YOL089C	HAL9		chromosome 15	L000004704	15	153490	150398	C		2006-01-05	1996-07-31	Putative transcription factor containing a zinc finger; overexpression increases salt tolerance through increased expression of the ENA1 (Na+/Li+ extrusion pump) gene while gene disruption decreases both salt tolerance and ENA1 expression; HAL9 has a paralog, TBS1, that arose from the whole genome duplication
+S000035681	CDS					YOL089C		15	153490	150398	C		2006-01-05	1996-07-31	
+S000005448	ORF	Verified	YOL088C	MPD2	protein disulfide isomerase MPD2	chromosome 15	L000004182	15	154745	153912	C		2006-01-05	1996-07-31	Member of the protein disulfide isomerase (PDI) family; exhibits chaperone activity; overexpression suppresses the lethality of a pdi1 deletion but does not complement all Pdi1p functions; undergoes oxidation by Ero1p
+S000034755	CDS					YOL088C		15	154745	153912	C		2006-01-05	1996-07-31	
+S000005447	ORF	Verified	YOL087C	DUF1		chromosome 15		15	158637	155287	C		2006-01-05	1996-07-31	Ubiquitin-binding protein of unknown function; contains one WD40 repeat in a beta-propeller fold; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; homolog of human WDR48/UAF1, which is involved in regulating the Fanconi anemia pathway; deletion mutant is sensitive to various chemicals including phenanthroline, sanguinarine, and nordihydroguaiaretic acid
+S000034693	CDS					YOL087C		15	158637	155287	C		2006-01-05	1996-07-31	
+S000007626	ORF	Verified	YOL086W-A	MHF1		chromosome 15		15	159173	159445	W		2006-01-05	2001-02-26	Component of the heterotetrameric MHF histone-fold complex; in humans the MHF complex interacts with both DNA and Mph1p ortholog FANCM, a Fanconi anemia complementation group protein, to stabilize and remodel blocked replication forks and repair damaged DNA; mhf1 srs2 double mutants are MMS hypersensitive; ortholog of human centromere constitutive-associated network (CCAN) subunit CENP-S, also known as MHF1
+S000037254	CDS					YOL086W-A		15	159173	159445	W		2006-01-05	2001-02-26	
+S000005446	ORF	Verified	YOL086C	ADH1	alcohol dehydrogenase ADH1|ADC1	chromosome 15	L000000041	15	160594	159548	C	-86	2006-01-05	1996-07-31	Alcohol dehydrogenase; fermentative isozyme active as homo- or heterotetramers; required for the reduction of acetaldehyde to ethanol, the last step in the glycolytic pathway; ADH1 has a paralog, ADH5, that arose from the whole genome duplication
+S000034629	CDS					YOL086C		15	160594	159548	C		2006-01-05	1996-07-31	
+S000028708	ORF	Dubious	YOL085W-A			chromosome 15		15	161579	161791	W		2006-01-05	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YOL085C
+S000032652	CDS					YOL085W-A		15	161579	161791	W		2006-01-05	2003-07-29	
+S000005445	ORF	Uncharacterized	YOL085C			chromosome 15		15	162014	161673	C		2006-01-05	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YOL085C is not an essential gene; partially overlaps dubious ORF YOL085W-A
+S000034541	CDS					YOL085C		15	162014	161673	C		2006-01-05	1996-07-31	
+S000005444	ORF	Verified	YOL084W	PHM7		chromosome 15		15	162356	165331	W		2006-01-05	1996-07-31	Protein of unknown function; expression is regulated by phosphate levels; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and vacuole; protein abundance increases in response to DNA replication stress
+S000034487	CDS					YOL084W		15	162356	165331	W		2006-01-05	1996-07-31	
+S000005443	ORF	Verified	YOL083W	ATG34	ATG19-B	chromosome 15		15	165714	166952	W		2006-01-05	1996-07-31	Receptor protein involved in selective autophagy during starvation; specifically involved in the transport of cargo protein alpha-mannosidase (Ams1p); Atg19p paralog
+S000032467	CDS					YOL083W		15	165714	166952	W		2006-01-05	1996-07-31	
+S000028853	ORF	Dubious	YOL083C-A			chromosome 15		15	166601	166461	C		2006-01-05	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by expression profiling and mass spectrometry
+S000034566	CDS					YOL083C-A		15	166601	166461	C		2006-01-05	2003-07-29	
+S000118487	ARS		ARS1510		ARSXV-167	chromosome 15		15	166976	167221			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000178182	ARS_consensus_sequence					ARS1510		15	167002	167018	W		2014-11-18	2014-11-18	
+S000005442	ORF	Verified	YOL082W	ATG19	CVT19	chromosome 15		15	168727	169974	W		2006-01-05	1996-07-31	Receptor protein for the cytoplasm-to-vacuole targeting (Cvt) pathway; delivers cargo proteins aminopeptidase I (Ape1p) and alpha-mannosidase (Ams1p) to the phagophore assembly site for packaging into Cvt vesicles; interaction with Atg19p during the Cvt pathway requires phosphorylation by Hrr25p
+S000032367	CDS					YOL082W		15	168727	169974	W		2006-01-05	1996-07-31	
+S000005441	ORF	Verified	YOL081W	IRA2	Ras GTPase activating protein IRA2|GLC4|CCS1	chromosome 15	L000000874	15	171070	180309	W	-72	2006-01-05	1996-07-31	GTPase-activating protein; negatively regulates RAS by converting it from the GTP- to the GDP-bound inactive form, required for reducing cAMP levels under nutrient limiting conditions; IRA2 has a paralog, IRA1, that arose from the whole genome duplication; defects in human homolog NF1 are associated with neurofibromatosis
+S000032260	CDS					YOL081W		15	171070	180309	W		2006-01-05	1996-07-31	
+S000005439	ORF	Dubious	YOL079W			chromosome 15		15	181057	181455	W		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031476	CDS					YOL079W		15	181057	181455	W		2006-01-05	1996-07-31	
+S000005440	ORF	Verified	YOL080C	REX4	putative 3'-5' exonuclease	chromosome 15		15	181427	180558	C		2006-01-05	1996-07-31	Putative RNA exonuclease; possibly involved in pre-rRNA processing and ribosome assembly
+S000031202	CDS					YOL080C		15	181427	180558	C		2006-01-05	1996-07-31	
+S000005438	ORF	Verified	YOL078W	AVO1		chromosome 15		15	181682	185212	W		2006-01-05	1996-07-31	Component of a membrane-bound complex containing the Tor2p kinase; contains Tor2p kinase and other proteins; may have a role in regulation of cell growth
+S000031371	CDS					YOL078W		15	181682	185212	W		2006-01-05	1996-07-31	
+S000007339	ORF	Verified	YOL077W-A	ATP19	F1F0 ATP synthase subunit k	chromosome 15		15	185438	185644	W		2006-01-05	1999-07-17	Subunit k of the mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; associated only with the dimeric form of ATP synthase
+S000031206	CDS					YOL077W-A		15	185438	185644	W		2006-01-05	1999-07-17	
+S000005437	ORF	Verified	YOL077C	BRX1		chromosome 15		15	186723	185848	C		2006-01-05	1996-07-31|2011-02-03	Nucleolar protein; constituent of 66S pre-ribosomal particles; depletion leads to defects in rRNA processing and a block in the assembly of large ribosomal subunits; possesses a sigma(70)-like RNA-binding motif
+S000030456	CDS					YOL077C		15	186723	185848	C		2006-01-05	1996-07-31|2011-02-03	
+S000005436	ORF	Verified	YOL076W	MDM20	NAA25|DEC1	chromosome 15	L000002975	15	187024	189414	W		2006-01-05	1996-07-31	Non-catalytic subunit of the NatB N-terminal acetyltransferase; NatB catalyzes N-acetylation of proteins with specific N-terminal sequences; involved in mitochondrial inheritance and actin assembly
+S000030374	CDS					YOL076W		15	187024	189414	W		2006-01-05	1996-07-31	
+S000005435	ORF	Verified	YOL075C			chromosome 15		15	193542	189658	C		2006-01-05	1999-07-17|1996-07-31|2011-02-03	Putative ABC transporter
+S000030157	CDS					YOL075C		15	193542	189658	C		2006-01-05	1999-07-17|1996-07-31|2011-02-03	
+S000005434	ORF	Verified	YOL073C	DSC2		chromosome 15		15	194800	193832	C		2006-01-05	1996-07-31	Multi-transmembrane subunit of the DSC ubiquitin ligase complex; similar in sequence to rhomboid pseudoproteases Der1p and UBAC2 that function in ERAD; ortholog of fission yeast dsc2
+S000036354	CDS					YOL073C		15	194800	193832	C		2006-01-05	1996-07-31	
+S000005433	ORF	Verified	YOL072W	THP1	BUD29	chromosome 15		15	194970	196337	W		2006-01-05	1996-07-31	Nuclear pore-associated protein; component of TREX-2 complex (Sac3p-Thp1p-Sus1p-Cdc31p) involved in transcription elongation and mRNA export from the nucleus; involved in post-transcriptional tethering of active genes to the nuclear periphery and to non-nascent mRNP; contains a PAM domain implicated in protein-protein binding
+S000036289	CDS					YOL072W		15	194970	196337	W		2006-01-05	1996-07-31	
+S000005432	ORF	Verified	YOL071W	SDH5	EMI5|succinate dehydrogenase assembly factor SDH5	chromosome 15		15	196507	196995	W		2006-01-05	1996-07-31	Protein required for flavinylation of Sdh1p; binds to Sdh1p and promotes FAD cofactor attachment, which is necessary for succinate dehydrogenase (SDH) complex assembly and activity; mutations in human ortholog PGL2 are associated with neuroendocrine tumors (paraganglioma)
+S000036205	CDS					YOL071W		15	196507	196995	W		2006-01-05	1996-07-31	
+S000005431	ORF	Verified	YOL070C	NBA1		chromosome 15		15	198725	197220	C		2006-01-05	1996-07-31	Protein of unknown function; localizes to the bud neck and cytoplasm; interacts with Nap1p; may interact with ribosomes, based on co-purification experiments; potential Cdc28p substrate
+S000035224	CDS					YOL070C		15	198725	197220	C		2006-01-05	1996-07-31	
+S000005430	ORF	Verified	YOL069W	NUF2	kinetochore-associated Ndc80 complex subunit NUF2	chromosome 15	L000001286	15	198942	200297	W		2006-01-05	1996-07-31	Component of the kinetochore-associated Ndc80 complex; involved in chromosome segregation, spindle checkpoint activity, and kinetochore clustering; evolutionarily conserved; other members include Ndc80p, Nuf2p, Spc24p, and Spc25p
+S000035586	CDS					YOL069W		15	198942	200297	W		2006-01-05	1996-07-31	
+S000005429	ORF	Verified	YOL068C	HST1	histone deacetylase HST1	chromosome 15	L000000826	15	201879	200368	C		2006-01-05	1996-07-31	NAD(+)-dependent histone deacetylase; essential subunit of the Sum1p/Rfm1p/Hst1p complex required for ORC-dependent silencing and meiotic repression; non-essential subunit of the Set3C deacetylase complex; involved in telomere maintenance; HST1 has a paralog, SIR2, that arose from the whole genome duplication
+S000035472	CDS					YOL068C		15	201879	200368	C		2006-01-05	1996-07-31	
+S000005428	ORF	Verified	YOL067C	RTG1		chromosome 15	L000001783	15	202518	201985	C		2006-01-05	1996-07-31	Transcription factor (bHLH) involved in interorganelle communication; contributes to communication between mitochondria, peroxisomes, and nucleus; target of Hog1p; activated in stochastic pulses of nuclear localization
+S000035434	CDS					YOL067C		15	202518	201985	C		2006-01-05	1996-07-31	
+S000005427	ORF	Verified	YOL066C	RIB2	bifunctional DRAP deaminase/tRNA pseudouridine synthase RIB2|PUS8	chromosome 15	L000003026	15	204471	202696	C		2006-01-05	1996-07-31	Bifunctional DRAP deaminase tRNA:pseudouridine synthase; the deaminase catalyzes the third step in riboflavin biosynthesis and the synthase catalyzes formation of pseudouridine at position 32 in cytoplasmic tRNAs; RIB2 has a paralog, PUS9, that arose from the whole genome duplication
+S000035357	CDS					YOL066C		15	204471	202696	C		2006-01-05	1996-07-31	
+S000005426	ORF	Verified	YOL065C	INP54	phosphoinositide 5-phosphatase INP54	chromosome 15	L000004299	15	205885	204731	C		2006-01-05	1996-07-31	Phosphatidylinositol 4,5-bisphosphate 5-phosphatase; role in secretion; localizes to the endoplasmic reticulum via the C-terminal tail; lacks the Sac1 domain and proline-rich region found in the other 3 INP proteins
+S000034381	CDS					YOL065C		15	205885	204731	C		2006-01-05	1996-07-31	
+S000005425	ORF	Verified	YOL064C	MET22	3'(2'),5'-bisphosphate nucleotidase|HAL2	chromosome 15	L000001090	15	207176	206103	C		2006-01-05	1996-07-31	Bisphosphate-3'-nucleotidase; involved in salt tolerance and methionine biogenesis; dephosphorylates 3'-phosphoadenosine-5'-phosphate and 3'-phosphoadenosine-5'-phosphosulfate, intermediates of the sulfate assimilation pathway; human homolog BPNT1 complements yeast null mutant
+S000034318	CDS					YOL064C		15	207176	206103	C		2006-01-05	1996-07-31	
+S000005424	ORF	Verified	YOL063C	CRT10	HUS1	chromosome 15		15	210265	207392	C		2006-01-05	1996-07-31	Protein involved in transcriptional regulation of RNR2 and RNR3; expression of the gene is induced by DNA damage and null mutations confer increased resistance to hydroxyurea; N-terminal region has a leucine repeat and a WD40 repeat
+S000034270	CDS					YOL063C		15	210265	207392	C		2006-01-05	1996-07-31	
+S000005423	ORF	Verified	YOL062C	APM4	AMP1	chromosome 15	L000003288	15	211995	210520	C		2006-01-05	1996-07-31	Cargo-binding mu subunit of AP-2; AP-2 is a heterotetrameric endocytic cargo-binding adaptor that facilitates uptake of membrane proteins during clathrin-mediated endocytosis; Apm4p is required for AP-2 function and localization, and binds cell wall stress receptor Mid2p; AP-2 is required for cell polarity responses to pheromone, nutritional status and cell wall damage in S. cerevisiae, and for hyphal growth in C. albicans; AP-2 complex is conserved in mammals
+S000034160	CDS					YOL062C		15	211995	210520	C		2006-01-05	1996-07-31	
+S000005422	ORF	Verified	YOL061W	PRS5	ribose phosphate diphosphokinase subunit PRS5	chromosome 15	L000004120	15	212244	213734	W		2006-01-05	1996-07-31	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase; synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes; forms cytoplasmic foci upon DNA replication stress
+S000034100	CDS					YOL061W		15	212244	213734	W		2006-01-05	1996-07-31	
+S000005421	ORF	Verified	YOL060C	MAM3		chromosome 15		15	216137	214017	C		2006-01-05	1996-07-31	Protein required for normal mitochondrial morphology; has similarity to hemolysins
+S000032070	CDS					YOL060C		15	216137	214017	C		2006-01-05	1996-07-31	
+S000005420	ORF	Verified	YOL059W	GPD2	glycerol-3-phosphate dehydrogenase (NAD(+)) GPD2|GPD3	chromosome 15	L000000723|L000003160	15	217126	218448	W		2006-01-05	1996-07-31	NAD-dependent glycerol 3-phosphate dehydrogenase; expression is controlled by an oxygen-independent signaling pathway required to regulate metabolism under anoxic conditions; located in cytosol and mitochondria; constitutively active but is inactivated via phosphorylation by energy-stress responsive kinase SNF1; GPD2 has a paralog, GPD1, that arose from the whole genome duplication
+S000032438	CDS					YOL059W		15	217126	218448	W		2006-01-05	1996-07-31	
+S000005419	ORF	Verified	YOL058W	ARG1	argininosuccinate synthase|ARG10	chromosome 15	L000000107	15	219211	220473	W	-56	2011-02-03	1996-07-31|2011-02-03	Arginosuccinate synthetase; catalyzes the formation of L-argininosuccinate from citrulline and L-aspartate in the arginine biosynthesis pathway; potential Cdc28p substrate
+S000032317	CDS					YOL058W		15	219211	220473	W		2011-02-03	1996-07-31|2011-02-03	
+S000005418	ORF	Verified	YOL057W		dipeptidyl-peptidase III	chromosome 15		15	220767	222902	W		2011-02-03	1996-07-31	Dipeptidyl-peptidase III; cleaves dipeptides from the amino terminus of target proteins; highly active on synthetic substrate Arg-Arg-2-naphthylamide; mammalian ortholog may be a biomarker for some cancers
+S000032234	CDS					YOL057W		15	220767	222902	W		2011-02-03	1996-07-31	
+S000005417	ORF	Verified	YOL056W	GPM3	phosphoglycerate mutase family protein GPM3	chromosome 15	L000002980	15	223268	224179	W		2011-02-03	1996-07-31	Homolog of Gpm1p phosphoglycerate mutase; converts 3-phosphoglycerate to 2-phosphoglycerate in glycolysis; may be non-functional; GPM3 has a paralog, GPM2, that arose from the whole genome duplication
+S000032154	CDS					YOL056W		15	223268	224179	W		2011-02-03	1996-07-31	
+S000005416	ORF	Verified	YOL055C	THI20	trifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase/thiaminase	chromosome 15		15	226075	224420	C		2011-02-03	1996-07-31	Trifunctional enzyme of thiamine biosynthesis, degradation and salvage; has hydroxymethylpyrimidine (HMP) kinase, HMP-phosphate (HMP-P) kinase and thiaminase activities; member of a gene family with THI21 and THI22; HMP and HMP-P kinase activity redundant with Thi21p
+S000031133	CDS					YOL055C		15	226075	224420	C		2011-02-03	1996-07-31	
+S000006586	tRNA_gene		tG(GCC)O1			chromosome 15	L000003719	15	226681	226611	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000031599	noncoding_exon					tG(GCC)O1		15	226681	226611	C		2011-02-03	2000-05-19	
+S000007158	long_terminal_repeat		YOLWsigma1			chromosome 15		15	226696	227037	W		2011-02-03	2000-05-19	Ty3 LTR
+S000007156	long_terminal_repeat		YOLWdelta6			chromosome 15		15	227096	227293	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007151	long_terminal_repeat		YOLCdelta7			chromosome 15		15	228178	227851	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006675	tRNA_gene		tN(GUU)O1			chromosome 15	L000003702	15	228331	228404	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000035637	noncoding_exon					tN(GUU)O1		15	228331	228404	W		2011-02-03	2000-05-19	
+S000005415	ORF	Verified	YOL054W	PSH1	ubiquitin-protein ligase PSH1	chromosome 15		15	228614	229834	W		2011-02-03	1996-07-31	E3 ubiquitin ligase targeting centromere-binding protein Cse4p; mediates polyubiquitination and degradation of histone H3 variant Cse4p, preventing its mislocalization to euchromatin independent of Slx5p; ubiquitination of Cse4p may be antagonized by Scm3p
+S000031092	CDS					YOL054W		15	228614	229834	W		2011-02-03	1996-07-31	
+S000005414	ORF	Verified	YOL053W	AIM39		chromosome 15		15	230085	231272	W		2011-02-03	1996-07-31	Protein of unknown function; null mutant displays elevated frequency of mitochondrial genome loss
+S000030999	CDS					YOL053W		15	230085	231272	W		2011-02-03	1996-07-31	
+S000005413	ORF	Verified	YOL052C-A	DDR2	YOL053C-A|DDRA2	chromosome 15	L000003478	15	231755	231570	C		2011-02-03	1996-07-31	Multi-stress response protein; expression is activated by a variety of xenobiotic agents and environmental or physiological stresses; DDR2 has a paralog, HOR7, that arose from the whole genome duplication
+S000035236	CDS					YOL052C-A		15	231755	231570	C		2011-02-03	1996-07-31	
+S000005412	ORF	Verified	YOL052C	SPE2	adenosylmethionine decarboxylase SPE2	chromosome 15	L000001994	15	233636	232446	C	-58	2011-02-03	1996-07-31	S-adenosylmethionine decarboxylase; required for the biosynthesis of spermidine and spermine; cells lacking Spe2p require spermine or spermidine for growth in the presence of oxygen but not when grown anaerobically
+S000029956	CDS					YOL052C		15	233636	232446	C		2011-02-03	1996-07-31	
+S000081375	snoRNA_gene		snR81	SNR81		chromosome 15		15	234346	234546	W		2011-02-03	2006-01-24	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U1052, constitutive pseudouridylation of U2 snRNA (LSR1) at position 42, and stress-induced U2 pseudouridylation at position 93
+S000114173	noncoding_exon					snR81		15	234346	234546	W		2011-02-03	2006-01-24	
+S000005411	ORF	Verified	YOL051W	GAL11	MED15|ABE1|SPT13|SDS4|RAR3	chromosome 15	L000000664	15	234940	238185	W	-53	2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; affects transcription by acting as target of activators and repressors; forms part of the tail domain of mediator
+S000029897	CDS					YOL051W		15	234940	238185	W		2011-02-03	1996-07-31	
+S000005410	ORF	Dubious	YOL050C			chromosome 15		15	238202	237882	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps verified gene GAL11; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
+S000037840	CDS					YOL050C		15	238202	237882	C		2011-02-03	1996-07-31	
+S000005409	ORF	Verified	YOL049W	GSH2	glutathione synthase	chromosome 15	L000003548	15	238619	240094	W		2011-02-03	1996-07-31	Glutathione synthetase; catalyzes the ATP-dependent synthesis of glutathione (GSH) from gamma-glutamylcysteine and glycine; induced by oxidative stress and heat shock
+S000037056	CDS					YOL049W		15	238619	240094	W		2011-02-03	1996-07-31	
+S000005408	ORF	Verified	YOL048C	RRT8		chromosome 15		15	241310	240204	C		2011-02-03	2003-09-27|1996-07-31	Protein involved in spore wall assembly; shares similarity with Lds1p and Lds2p and a strain mutant for all 3 genes exhibits reduced dityrosine fluorescence relative to the single mutants; identified in a screen for mutants with increased levels of rDNA transcription; green fluorescent protein (GFP)-fusion protein localizes to lipid particles; protein abundance increases in response to DNA replication stress
+S000036368	CDS					YOL048C		15	240947	240204	C		2011-02-03	2003-09-27	
+S000036367	CDS					YOL048C		15	241310	241026	C		2011-02-03	2003-09-27|1996-07-31	
+S000036369	intron					YOL048C		15	241025	240948	C		2011-02-03	2003-09-27	
+S000005407	ORF	Verified	YOL047C	LDS2		chromosome 15		15	242747	241614	C		2011-02-03	2000-07-14|1996-07-31	Protein Involved in spore wall assembly; localizes to lipid droplets found on or outside of the prospore membrane; shares similarity with Lds1p and Rrt8p, and a strain mutant for all 3 genes exhibits reduced dityrosine fluorescence relative to the single mutants; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
+S000036270	CDS					YOL047C		15	242441	241614	C		2011-02-03	2000-07-14|1996-07-31	
+S000036269	CDS					YOL047C		15	242747	242505	C		2011-02-03	2000-07-14|1996-07-31	
+S000036271	intron					YOL047C		15	242504	242442	C		2011-02-03	2000-07-14|1996-07-31	
+S000005405	ORF	Verified	YOL045W	PSK2	serine/threonine protein kinase PSK2	chromosome 15		15	243497	246802	W		2011-02-03	1996-07-31	PAS-domain containing serine/threonine protein kinase; regulates sugar flux and translation in response to an unknown metabolite by phosphorylating Ugp1p and Gsy2p (sugar flux) and Caf20p, Tif11p and Sro9p (translation); PSK2 has a paralog, PSK1, that arose from the whole genome duplication
+S000036127	CDS					YOL045W		15	243497	246802	W		2011-02-03	1996-07-31	
+S000005406	ORF	Dubious	YOL046C			chromosome 15		15	244140	243466	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified gene PSK2/YOL045W
+S000036179	CDS					YOL046C		15	244140	243466	C		2011-02-03	1996-07-31	
+S000005404	ORF	Verified	YOL044W	PEX15	PAS21	chromosome 15	L000003971	15	247150	248301	W		2011-02-03	1996-07-31	Tail-anchored type II integral peroxisomal membrane protein; required for peroxisome biogenesis; cells lacking Pex15p mislocalize peroxisomal matrix proteins to cytosol; overexpression results in impaired peroxisome assembly
+S000036032	CDS					YOL044W		15	247150	248301	W		2011-02-03	1996-07-31	
+S000005403	ORF	Verified	YOL043C	NTG2	bifunctional N-glycosylase/AP lyase NTG2|SCR2	chromosome 15	L000004115	15	249534	248392	C		2011-02-03	1996-07-31	DNA N-glycosylase and apurinic/apyrimidinic (AP) lyase; involved in base excision repair, localizes to the nucleus; sumoylated; NTG2 has a paralog, NTG1, that arose from the whole genome duplication
+S000035085	CDS					YOL043C		15	249534	248392	C		2011-02-03	1996-07-31	
+S000005402	ORF	Verified	YOL042W	NGL1	RNA exonuclease	chromosome 15		15	249825	250916	W		2011-02-03	1996-07-31	Putative endonuclease; has a domain similar to a magnesium-dependent endonuclease motif in mRNA deadenylase Ccr4p; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000035032	CDS					YOL042W		15	249825	250916	W		2011-02-03	1996-07-31	
+S000005401	ORF	Verified	YOL041C	NOP12		chromosome 15	S000007491	15	252646	251267	C		2011-02-03	1996-07-31	Nucleolar protein involved in pre-25S rRNA processing; also involved in biogenesis of large 60S ribosomal subunit; contains an RNA recognition motif (RRM); binds to Ebp2; similar to Nop13p and Nsr1p
+S000034818	CDS					YOL041C		15	252646	251267	C		2011-02-03	1996-07-31	
+S000005400	ORF	Verified	YOL040C	RPS15	uS19|ribosomal 40S subunit protein S15|S19|rp52|S21|S15|RPS21	chromosome 15	L000002709|L000001759	15	253577	253149	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S15 and bacterial S19
+S000033943	CDS					YOL040C		15	253577	253149	C		2011-02-03	1996-07-31	
+S000005399	ORF	Verified	YOL039W	RPP2A	P2A|ribosomal protein P2A|RPLA2|RPL44	chromosome 15	L000001733|L000001735|L000002820	15	254297	254617	W		2011-02-03	1996-07-31	Ribosomal protein P2 alpha; a component of the ribosomal stalk, which is involved in the interaction between translational elongation factors and the ribosome; free (non-ribosomal) P2 stimulates the phosphorylation of the eIF2 alpha subunit (Sui2p) by Gcn2p; regulates the accumulation of P1 (Rpp1Ap and Rpp1Bp) in the cytoplasm
+S000032787	CDS					YOL039W		15	254297	254617	W		2011-02-03	1996-07-31	
+S000028812	ORF	Uncharacterized	YOL038C-A			chromosome 15		15	255021	254926	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by SAGE analysis
+S000033612	CDS					YOL038C-A		15	255021	254926	C		2011-02-03	2003-07-29	
+S000005398	ORF	Verified	YOL038W	PRE6	proteasome core particle subunit alpha 4	chromosome 15	L000001488	15	255337	256101	W		2011-02-03	1996-07-31	Alpha 4 subunit of the 20S proteasome; may replace alpha 3 subunit (Pre9p) under stress conditions to create a more active proteasomal isoform; GFP-fusion protein relocates from cytosol to the mitochondrial surface upon oxidative stress
+S000031873	CDS					YOL038W		15	255337	256101	W		2011-02-03	1996-07-31	
+S000005396	ORF	Uncharacterized	YOL036W			chromosome 15		15	256745	259030	W		2011-02-03	1996-07-31	Protein of unknown function; potential Cdc28p substrate; YOL036W has a paralog, YIR016W, that arose from the whole genome duplication
+S000031637	CDS					YOL036W		15	256745	259030	W		2011-02-03	1996-07-31	
+S000005397	ORF	Dubious	YOL037C			chromosome 15		15	257019	256666	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOL036W
+S000031673	CDS					YOL037C		15	257019	256666	C		2011-02-03	1996-07-31	
+S000005395	ORF	Dubious	YOL035C			chromosome 15		15	259105	258803	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030751	CDS					YOL035C		15	259105	258803	C		2011-02-03	1996-07-31	
+S000006441	snoRNA_gene		snR50	SNR50		chromosome 15	L000004519	15	259489	259578	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position G867
+S000030731	noncoding_exon					snR50		15	259489	259578	W		2011-02-03	2000-05-19	
+S000005394	ORF	Verified	YOL034W	SMC5	DNA repair ATPase SMC5	chromosome 15		15	259923	263204	W		2011-02-03	1996-07-31	Subunit of the SMC5-SMC6 complex; the SMC5-SMC6 complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; binds single-stranded DNA and has ATPase activity; supports nucleolar function; S. pombe homolog forms a heterodimer with S. pombe Rad18p that is involved in DNA repair
+S000030687	CDS					YOL034W		15	259923	263204	W		2011-02-03	1996-07-31	
+S000005393	ORF	Verified	YOL033W	MSE1	glutamate--tRNA ligase MSE1	chromosome 15	L000002617	15	263475	265085	W		2011-02-03	1996-07-31	Mitochondrial glutamyl-tRNA synthetase; predicted to be palmitoylated
+S000030607	CDS					YOL033W		15	263475	265085	W		2011-02-03	1996-07-31	
+S000005392	ORF	Verified	YOL032W	OPI10		chromosome 15		15	265429	266169	W		2011-02-03	1996-07-31	Protein with a possible role in phospholipid biosynthesis; null mutant displays an inositol-excreting phenotype that is suppressed by exogenous choline; protein abundance increases in response to DNA replication stress
+S000030531	CDS					YOL032W		15	265429	266169	W		2011-02-03	1996-07-31	
+S000005391	ORF	Verified	YOL031C	SIL1	SLS1	chromosome 15		15	267529	266264	C		2011-02-03	1996-07-31	Nucleotide exchange factor for the ER lumenal Hsp70 chaperone Kar2p; required for protein translocation into the endoplasmic reticulum (ER); homolog of Yarrowia lipolytica SLS1; GrpE-like protein
+S000037678	CDS					YOL031C		15	267529	266264	C		2011-02-03	1996-07-31	
+S000005390	ORF	Verified	YOL030W	GAS5	1,3-beta-glucanosyltransferase	chromosome 15		15	268187	269641	W		2011-02-03	1996-07-31	1,3-beta-glucanosyltransferase; has similarity to Gas1p; localizes to the cell wall
+S000037638	CDS					YOL030W		15	268187	269641	W		2011-02-03	1996-07-31	
+S000005389	ORF	Uncharacterized	YOL029C			chromosome 15		15	270420	269815	C		2011-02-03	1996-07-31	Putative protein of unknown function; identified as interacting with Hsc82p and Hsp82p in high-throughput two-hybrid screens
+S000036601	CDS					YOL029C		15	270420	269815	C		2011-02-03	1996-07-31	
+S000005388	ORF	Verified	YOL028C	YAP7		chromosome 15	L000004347	15	271370	270633	C		2011-02-03	1996-07-31	Putative basic leucine zipper (bZIP) transcription factor; YAP7 has a paralog, YAP5, that arose from the whole genome duplication
+S000036521	CDS					YOL028C		15	271370	270633	C		2011-02-03	1996-07-31	
+S000005387	ORF	Verified	YOL027C	MDM38	ribosome-binding protein MDM38|MKH1	chromosome 15		15	273724	272003	C		2011-02-03	1996-07-31	Mitochondrial protein; forms a complex with Mba1p to facilitate recruitment of mRNA-specific translational activators to ribosomes; roles in protein export and K+/H+ exchange; human ortholog Letm1 implicated in Wolf-Hirschhorn syndrome
+S000036426	CDS					YOL027C		15	273724	272003	C		2011-02-03	1996-07-31	
+S000005386	ORF	Verified	YOL026C	MIM1	TOM13	chromosome 15		15	274353	274012	C		2011-02-03	1996-07-31	Mitochondrial protein required for outer membrane protein import; cooperates with Tom70p to import the subset of proteins with multiple alpha-helical transmembrane segments, including Ugo1p, Tom20p, and others; present in a complex with Mim2p in the outer membrane that may create a local environment to facilitate membrane insertion of substrate proteins; also has a role in assembly of Tom20p into the TOM complex
+S000036344	CDS					YOL026C		15	274353	274012	C		2011-02-03	1996-07-31	
+S000006733	tRNA_gene		tS(GCU)O			chromosome 15	L000003703	15	274673	274773	W		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000037500	intron					tS(GCU)O		15	274710	274728	W		2011-02-03	2000-05-19	
+S000037498	noncoding_exon					tS(GCU)O		15	274673	274709	W		2011-02-03	2000-05-19	
+S000037499	noncoding_exon					tS(GCU)O		15	274729	274773	W		2011-02-03	2000-05-19	
+S000005385	ORF	Verified	YOL025W	LAG2	ECM36	chromosome 15	L000003402	15	274957	276939	W		2011-02-03	1996-07-31|1997-07-27	Protein that negatively regulates the SCF E3-ubiquitin ligase; regulates by interacting with and preventing neddyation of the cullin subunit, Cdc53p; longevity determinant that is preferentially expressed in young cells; similar to mammalian Cand1
+S000035469	CDS					YOL025W		15	274957	276939	W		2011-02-03	1997-07-27|1996-07-31	
+S000005384	ORF	Uncharacterized	YOL024W			chromosome 15		15	277086	277604	W		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to have thiol-disulfide oxidoreductase active site; YOL024W has a paralog, IGD1, that arose from the whole genome duplication
+S000035404	CDS					YOL024W		15	277086	277604	W		2011-02-03	1996-07-31	
+S000118488	ARS		ARS1511		ARSXV-278	chromosome 15		15	277530	277778			2011-02-03	2006-08-30	Autonomously Replicating Sequence; replication capacity dependent upon Sum1p
+S000178183	ARS_consensus_sequence					ARS1511		15	277733	277717	C		2014-11-18	2014-11-18	
+S000005383	ORF	Verified	YOL023W	IFM1	translation initiation factor 2	chromosome 15	L000000854	15	278056	280086	W		2011-02-03	1996-07-31	Mitochondrial translation initiation factor 2
+S000035326	CDS					YOL023W		15	278056	280086	W		2011-02-03	1996-07-31	
+S000005382	ORF	Verified	YOL022C	TSR4		chromosome 15		15	281498	280272	C		2011-02-03	1996-07-31|2011-02-03	Cytoplasmic protein required for correct processing of 20S pre-rRNA; protein required for processing of the 20S pre-rRNA at site D to generate mature 18S rRNA; essential gene in S288C background but not in CEN.PK2
+S000035200	CDS					YOL022C		15	281498	280272	C		2011-02-03	1996-07-31|2011-02-03	
+S000006587	tRNA_gene		tG(GCC)O2	SUF17		chromosome 15	L000002164|L000003704	15	282164	282234	W	-53	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
+S000031601	noncoding_exon					tG(GCC)O2		15	282164	282234	W		2011-02-03	2000-05-19	
+S000005381	ORF	Verified	YOL021C	DIS3	exosome catalytic subunit DIS3|MTR17|RRP44	chromosome 15	L000003486	15	285426	282421	C		2011-02-03	1996-07-31	Exosome core complex catalytic subunit; has both endonuclease and 3'-5' exonuclease activity; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; role in degradation of tRNAs; similar to E. coli RNase R and to human DIS3, which partially complements dis3-81 heat sensitivity; mutations in Dis3p analogous to human mutations implicated in multiple myeloma impair exosome function; protein abundance increases under to DNA replication stress
+S000034208	CDS					YOL021C		15	285426	282421	C		2011-02-03	1996-07-31	
+S000005380	ORF	Verified	YOL020W	TAT2	aromatic amino acid transmembrane transporter TAT2|TAP2|SCM2|SAB2|LTG3	chromosome 15	L000002263|L000000956|L000001813	15	286172	287950	W		2011-02-03	1996-07-31	High affinity tryptophan and tyrosine permease; overexpression confers FK506 and FTY720 resistance
+S000034169	CDS					YOL020W		15	286172	287950	W		2011-02-03	1996-07-31	
+S000006785	tRNA_gene		tY(GUA)O	SUP3		chromosome 15	L000003705|L000002182	15	288192	288280	W	-16	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000034708	intron					tY(GUA)O		15	288231	288244	W		2011-02-03	2000-05-19	
+S000034706	noncoding_exon					tY(GUA)O		15	288192	288230	W		2011-02-03	2000-05-19	
+S000034707	noncoding_exon					tY(GUA)O		15	288245	288280	W		2011-02-03	2000-05-19	
+S000028707	ORF	Uncharacterized	YOL019W-A			chromosome 15		15	288420	288572	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032650	CDS					YOL019W-A		15	288420	288572	W		2011-02-03	2003-07-29	
+S000005379	ORF	Uncharacterized	YOL019W		TOS7	chromosome 15		15	288898	290553	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and vacuole; YOL019W has a paralog, DCV1, that arose from the whole genome duplication
+S000033133	CDS					YOL019W		15	288898	290553	W		2011-02-03	1996-07-31	
+S000005378	ORF	Verified	YOL018C	TLG2		chromosome 15	L000004228	15	292074	290881	C		2011-02-03	1996-07-31	Syntaxin-like t-SNARE; forms a complex with Tlg1p and Vti1p and mediates fusion of endosome-derived vesicles with the late Golgi; required along with VPS45 for an early step of the constitutive CVT pathway; interactions with Vps45 prevents Tlg2p degradation, and facilitates t-SNARE complex formation; homologous to mammalian SNARE protein syntaxin 16 (Sx16)
+S000032218	CDS					YOL018C		15	292074	290881	C		2011-02-03	1996-07-31	
+S000005377	ORF	Verified	YOL017W	ESC8		chromosome 15		15	292529	294673	W		2011-02-03	1996-07-31	Protein involved in telomeric and mating-type locus silencing; interacts with Sir2p and also interacts with Gal11p, which is a component of the RNA pol II mediator complex; ESC8 has a paralog, IOC3, that arose from the whole genome duplication
+S000032174	CDS					YOL017W		15	292529	294673	W		2011-02-03	1996-07-31	
+S000005376	ORF	Verified	YOL016C	CMK2	calmodulin-dependent protein kinase CMK2	chromosome 15	L000000367	15	296120	294777	C		2011-02-03	1996-07-31	Calmodulin-dependent protein kinase; may play a role in stress response, many CA++/calmodulan dependent phosphorylation substrates demonstrated in vitro, amino acid sequence similar to mammalian Cam Kinase II; CMK2 has a paralog, CMK1, that arose from the whole genome duplication
+S000032049	CDS					YOL016C		15	296120	294777	C		2011-02-03	1996-07-31	
+S000005375	ORF	Verified	YOL015W	IRC10		chromosome 15		15	297078	298838	W		2011-02-03	1996-07-31	Protein of unknown function; subunit of the leading edge protein (LEP) complex (Ssp1-Ady3-Don1-Irc10) that forms a ring-like structure at the leading edge of the prospore membrane during meiosis II; null mutant displays increased levels of spontaneous Rad52p foci
+S000032011	CDS					YOL015W		15	297078	298838	W		2011-02-03	1996-07-31	
+S000005374	ORF	Uncharacterized	YOL014W			chromosome 15		15	299693	300067	W		2011-02-03	1996-07-31	Putative protein of unknown function; mCherry fusion protein localizes to the cytosol and nucleus
+S000031065	CDS					YOL014W		15	299693	300067	W		2011-02-03	1996-07-31	
+S000007252	ORF	Dubious	YOL013W-B		YOL013W-A	chromosome 15		15	300690	300980	W		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the long terminal repeat (LTR) of a Ty1 element
+S000033838	CDS					YOL013W-B		15	300690	300980	W		2011-02-03	1999-07-17	
+S000007152	long_terminal_repeat		YOLCdelta8			chromosome 15		15	301021	300683	C		2011-02-03	2000-05-19	Ty1 LTR
+S000028811	ORF	Uncharacterized	YOL013W-A		YOL013W-B	chromosome 15		15	301047	301238	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by SAGE
+S000033611	CDS					YOL013W-A		15	301047	301238	W		2011-02-03	2003-07-29	
+S000006687	tRNA_gene		tP(UGG)O1			chromosome 15	L000003706	15	301097	301198	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
+S000031042	intron					tP(UGG)O1		15	301133	301162	W		2011-02-03	2000-05-19	
+S000031040	noncoding_exon					tP(UGG)O1		15	301097	301132	W		2011-02-03	2000-05-19	
+S000031041	noncoding_exon					tP(UGG)O1		15	301163	301198	W		2011-02-03	2000-05-19	
+S000005373	ORF	Verified	YOL013C	HRD1	E3 ubiquitin-protein ligase HRD1|DER3	chromosome 15	L000002963	15	303035	301380	C		2011-02-03	1996-07-31	Ubiquitin-protein ligase involved in ER-associated degradation (ERAD) of misfolded proteins; upon autoubiquitination triggers retrotranslocation of misfolded proteins to cytosol for degradation; genetically linked to the unfolded protein response (UPR); regulated through association with Hrd3p; contains an H2 ring finger; likely plays a general role in targeting proteins that persistently associate with and potentially obstruct the ER-localized translocon
+S000030928	CDS					YOL013C		15	303035	301380	C		2011-02-03	1996-07-31	
+S000005372	ORF	Verified	YOL012C	HTZ1	histone H2AZ|H2AZ|H2A.F/Z|HTA3	chromosome 15	L000003930|L000004094	15	303983	303579	C		2011-02-03	1996-07-31	Histone variant H2AZ; exchanged for histone H2A in nucleosomes by the SWR1 complex; involved in transcriptional regulation through prevention of the spread of silent heterochromatin; Htz1p-containing nucleosomes facilitate RNA Pol II passage by affecting correct assembly and modification status of RNA Pol II elongation complexes and by favoring efficient nucleosome remodeling
+S000030851	CDS					YOL012C		15	303983	303579	C		2011-02-03	1996-07-31	
+S000005371	ORF	Verified	YOL011W	PLB3	lysophospholipase	chromosome 15	S000007426	15	305349	307409	W		2011-02-03	1996-07-31	Phospholipase B (lysophospholipase) involved in lipid metabolism; hydrolyzes phosphatidylinositol and phosphatidylserine and displays transacylase activity in vitro; PLB3 has a paralog, PLB1, that arose from the whole genome duplication
+S000030818	CDS					YOL011W		15	305349	307409	W		2011-02-03	1996-07-31	
+S000005370	ORF	Verified	YOL010W	RCL1	rRNA-processing endoribonuclease	chromosome 15		15	307938	309041	W		2011-02-03	1996-07-31	Endonuclease that cleaves pre-rRNA at site A2 for 18S rRNA biogenesis; subunit of U3-containing 90S preribosome processome complex involved in small ribosomal subunit assembly; stimulates Bms1p GTPase and U3 binding activity; similar to RNA cyclase-like proteins but no cyclase activity detected
+S000037888	CDS					YOL010W		15	307938	309041	W		2011-02-03	1996-07-31	
+S000130135	ARS		ARS1512		ARSXV-309	chromosome 15		15	309359	309925			2011-02-03	2009-05-05	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
+S000005369	ORF	Verified	YOL009C	MDM12	ERMES complex subunit MDM12	chromosome 15	L000002933	15	310139	309324	C		2011-02-03	1996-07-31	Mitochondrial outer membrane protein, ERMES complex subunit; required for transmission of mitochondria to daughter cells; required for mitophagy; may influence import and assembly of outer membrane beta-barrel proteins; ERMES complex is often co-localized with peroxisomes and with concentrated areas of pyruvate dehydrogenase
+S000037008	CDS					YOL009C		15	310139	309324	C		2011-02-03	1996-07-31	
+S000005368	ORF	Verified	YOL008W	COQ10	ubiquinone-binding protein COQ10	chromosome 15		15	310312	310935	W		2011-02-03	1996-07-31	Coenzyme Q (ubiquinone) binding protein; functions in the delivery of Q6 to its proper location for electron transport during respiration; START domain protein with homologs in bacteria and eukaryotes; respiratory growth defect of the null mutant is functionally complemented by human COQ10A
+S000036984	CDS					YOL008W		15	310312	310935	W		2011-02-03	1996-07-31	
+S000005367	ORF	Verified	YOL007C	CSI2		chromosome 15	L000004387	15	312367	311342	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)- fusion protein localizes to the mother side of the bud neck and the vacuole; YOL007C is not an essential gene
+S000036219	CDS					YOL007C		15	312367	311342	C		2011-02-03	1996-07-31	
+S000005366	ORF	Verified	YOL006C	TOP1	DNA topoisomerase 1|MAK17|MAK1	chromosome 15	L000002319	15	315387	313078	C	3	2011-02-03	1996-07-31	Topoisomerase I; nuclear enzyme that relieves torsional strain in DNA by cleaving and re-sealing the phosphodiester backbone; relaxes both positively and negatively supercoiled DNA; functions in replication, transcription, and recombination; role in processing ribonucleoside monophosphates in genomic DNA into irreversible single-strand breaks; enzymatic activity and interaction with Nsr1p are negatively regulated by polyphosphorylation
+S000036071	CDS					YOL006C		15	315387	313078	C		2011-02-03	1996-07-31	
+S000005365	ORF	Verified	YOL005C	RPB11	DNA-directed RNA polymerase II core subunit RPB11|B12.5	chromosome 15	L000001685	15	316175	315813	C		2011-02-03	1996-07-31	RNA polymerase II subunit B12.5; part of central core; similar to Rpc19p and bacterial alpha subunit
+S000035928	CDS					YOL005C		15	316175	315813	C		2011-02-03	1996-07-31	
+S000005364	ORF	Verified	YOL004W	SIN3	transcriptional regulator SIN3|UME4|SDS16|SDI1|RPD1|GAM2|CPE1	chromosome 15	L000001695	15	316938	321548	W	1	2011-02-03	1996-07-31	Component of both the Rpd3S and Rpd3L histone deacetylase complexes; involved in transcriptional repression and activation of diverse processes, including mating-type switching and meiosis; involved in the maintenance of chromosomal integrity
+S000035863	CDS					YOL004W		15	316938	321548	W		2011-02-03	1996-07-31	
+S000005363	ORF	Verified	YOL003C	PFA4	palmitoyltransferase PFA4	chromosome 15		15	322994	321858	C		2011-02-03	1996-07-31	Palmitoyltransferase with autoacylation activity; required for palmitoylation of amino acid permeases containing a C-terminal Phe-Trp-Cys site; required for modification of Chs3p; member of the DHHC family of putative palmitoyltransferases
+S000034853	CDS					YOL003C		15	322994	321858	C		2011-02-03	1996-07-31	
+S000005362	ORF	Verified	YOL002C	IZH2	PAQR-type receptor|PHO36	chromosome 15		15	324364	323411	C		2011-02-03	2003-01-09|1996-07-31	Plasma membrane receptor for plant antifungal osmotin; involved in zinc ion homeostasis, apoptosis; negatively regulates ZRT1 and other functionally divergent genes through CCCTC promoter motif (IzRE); modulates FET3 activity in iron-independent manner; affects gene expression by influencing balance of competition between Msn2p/Msn4p and Nrg1p/Nrg2p for binding to IzRE; transcription regulated by Zap1p, zinc, fatty acid levels; homolog of mammalian adiponectin receptor
+S000034704	CDS					YOL002C		15	324364	323411	C		2011-02-03	2003-01-09|1996-07-31	
+S000005361	ORF	Verified	YOL001W	PHO80	phoR|VAC5|TUP7|AGS3	chromosome 15	L000001426	15	325249	326130	W	-1	2011-02-03	1996-07-31	Cyclin; interacts with cyclin-dependent kinase Pho85p; regulates the response to nutrient levels and environmental conditions, including the response to phosphate limitation and stress-dependent calcium signaling
+S000034656	CDS					YOL001W		15	325249	326130	W		2011-02-03	1996-07-31	
+S000006476	centromere		CEN15	CEN15		chromosome 15	L000000308	15	326702	326584	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome XV centromere
+S000077290	centromere_DNA_Element_I					CEN15		15	326702	326693	C		2011-02-03	2004-10-08	
+S000077291	centromere_DNA_Element_II					CEN15		15	326692	326609	C		2011-02-03	2004-10-08	
+S000077292	centromere_DNA_Element_III					CEN15		15	326608	326584	C		2011-02-03	2004-10-08	
+S000005527	ORF	Verified	YOR001W	RRP6	exosome nuclease subunit RRP6	chromosome 15	L000003540	15	326832	329033	W		2011-02-03	1996-07-31	Nuclear exosome exonuclease component; has 3'-5' exonuclease activity that is regulated by Lrp1p; involved in RNA processing, maturation, surveillance, degradation, tethering, and export; role in sn/snoRNAs precursor degradation; forms a stable heterodimer with Lrp1p; has similarity to E. coli RNase D and to human PM-Sc1 100 (EXOSC10); mutant displays reduced transcription elongation in the G-less-based
+S000031325	CDS					YOR001W		15	326832	329033	W		2011-02-03	1996-07-31	
+S000005528	ORF	Verified	YOR002W	ALG6	dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol alpha-1,3-glucosyltransferase	chromosome 15	L000003977	15	329417	331051	W		2011-02-03	1996-07-31	Alpha 1,3 glucosyltransferase; involved in transfer of oligosaccharides from dolichyl pyrophosphate to asparagine residues of proteins during N-linked protein glycosylation; C998T transition in human ortholog ALG6 causes carbohydrate-deficient glycoprotein syndrome type-Ic; wild-type human ortholog ALG6 can partially complement yeast alg6 mutant
+S000032338	CDS					YOR002W		15	329417	331051	W		2011-02-03	1996-07-31	
+S000005529	ORF	Verified	YOR003W	YSP3	putative subtilisin-like protease YSP3	chromosome 15	L000002552	15	331455	332891	W		2011-02-03	1996-07-31	Putative precursor of the subtilisin-like protease III; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; YSP3 has a paralog, PRB1, that arose from the whole genome duplication
+S000032469	CDS					YOR003W		15	331455	332891	W		2011-02-03	1996-07-31	
+S000005530	ORF	Verified	YOR004W	UTP23	rRNA-binding ribosome biosynthesis protein UTP23	chromosome 15		15	333592	334356	W		2011-02-03	1996-07-31	Component of the small subunit processome; involved in 40S ribosomal subunit biogenesis; interacts with snR30 and is required for dissociation of snR30 from large pre-ribosomal particles; has homology to PINc domain protein Fcf1p, although the PINc domain of Utp23p is not required for function; essential protein
+S000032573	CDS					YOR004W		15	333592	334356	W		2011-02-03	1996-07-31	
+S000005531	ORF	Verified	YOR005C	DNL4	DNA ligase (ATP) DNL4|LIG4	chromosome 15	L000003479	15	337343	334509	C		2011-02-03	1996-07-31	DNA ligase required for nonhomologous end-joining (NHEJ); forms stable heterodimer with required cofactor Lif1p, interacts with Nej1p; involved in meiosis, not essential for vegetative growth; mutations in human ortholog lead to ligase IV syndrome and Dubowitz syndrome
+S000032618	CDS					YOR005C		15	337343	334509	C		2011-02-03	1996-07-31	
+S000118489	ARS		ARS1513		ARSXV-337	chromosome 15		15	337424	337491			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000005532	ORF	Verified	YOR006C	TSR3		chromosome 15		15	338621	337680	C		2011-02-03	1996-07-31	Protein required for 20S pre-rRNA processing; involved in processing of the 20S pre-rRNA at site D to generate mature 18S rRNA; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus; relative distribution to the nucleus increases upon DNA replication stress
+S000033336	CDS					YOR006C		15	338621	337680	C		2011-02-03	1996-07-31	
+S000005533	ORF	Verified	YOR007C	SGT2		chromosome 15	L000004506	15	339978	338938	C		2011-02-03	1996-07-31	Glutamine-rich cytoplasmic cochaperone; serves as a scaffold bringing together Get4, Get5p, and other TRC complex members that are required to mediate posttranslational insertion of tail-anchored proteins into the ER membrane; interacts with the prion domain of Sup35p; amyloid sensor; plays a role in targeting chaperones to prion aggregates; similar to human cochaperone SGT; forms cytoplasmic foci upon DNA replication stress
+S000033384	CDS					YOR007C		15	339978	338938	C		2011-02-03	1996-07-31	
+S000006705	tRNA_gene		tR(ACG)O			chromosome 15	L000003718	15	340371	340299	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000030451	noncoding_exon					tR(ACG)O		15	340371	340299	C		2011-02-03	2000-05-19	
+S000007153	long_terminal_repeat		YORCdelta9		YOLCdelta9	chromosome 15		15	340898	340598	C		2011-02-03	2000-05-19	Ty1 LTR
+S000005534	ORF	Verified	YOR008C	SLG1	WSC1|HCS77	chromosome 15	L000003080	15	342414	341278	C		2011-02-03	1996-07-31	Sensor-transducer of the stress-activated PKC1-MPK1 kinase pathway; involved in maintenance of cell wall integrity; required for mitophagy; involved in organization of the actin cytoskeleton; secretory pathway Wsc1p is required for the arrest of secretion response
+S000033455	CDS					YOR008C		15	342414	341278	C		2011-02-03	1996-07-31	
+S000006431	ORF	Uncharacterized	YOR008C-A			chromosome 15	L000003931	15	343081	342857	C		2011-02-03	1999-07-17	Putative protein of unknown function; includes a potential transmembrane domain; deletion results in slightly lengthened telomeres; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000034860	CDS					YOR008C-A		15	343081	342857	C		2011-02-03	1999-07-17	
+S000007628	ORF	Dubious	YOR008W-B			chromosome 15		15	343929	344030	W		2006-01-05	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037258	CDS					YOR008W-B		15	343929	344030	W		2006-01-05	2001-02-26	
+S000005535	ORF	Verified	YOR009W	TIR4		chromosome 15		15	344335	345798	W		2006-01-05	1996-07-31	Cell wall mannoprotein; expressed under anaerobic conditions and required for anaerobic growth; transcription is also induced by cold shock; member of the Srp1p/Tip1p family of serine-alanine-rich proteins
+S000033574	CDS					YOR009W		15	344335	345798	W		2006-01-05	1996-07-31	
+S000005536	ORF	Verified	YOR010C	TIR2	putative GPI-anchored mannoprotein|SRP2	chromosome 15	L000002312	15	346950	346195	C		2006-01-05	1996-07-31	Putative cell wall mannoprotein; member of the Srp1p/Tip1p family of serine-alanine-rich proteins; transcription is induced by cold shock and anaerobiosis; TIR2 has a paralog, TIR3, that arose from the whole genome duplication
+S000034479	CDS					YOR010C		15	346950	346195	C		2006-01-05	1996-07-31	
+S000005537	ORF	Verified	YOR011W	AUS1	ATP-binding cassette sterol transporter AUS1	chromosome 15		15	349679	353863	W		2006-01-05	1996-07-31	Plasma membrane sterol transporter of the ATP-binding cassette family; required, along with Pdr11p, for uptake of exogenous sterols and their incorporation into the plasma membrane; activity is stimulated by phosphatidylserine; sterol uptake is required for anaerobic growth because sterol biosynthesis requires oxygen; AUS1 has a paralog, PDR11, that arose from the whole genome duplication
+S000035557	CDS					YOR011W		15	349679	353863	W		2006-01-05	1996-07-31	
+S000006747	tRNA_gene		tT(AGU)O2			chromosome 15	L000003717	15	354113	354041	C		2006-01-05	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000037535	noncoding_exon					tT(AGU)O2		15	354113	354041	C		2006-01-05	2000-05-19	
+S000007159	long_terminal_repeat		YORWsigma2		YOLWsigma2	chromosome 15		15	354128	354466	W		2006-01-05	2000-05-19	Ty3 LTR
+S000007157	long_terminal_repeat		YORWdelta10		YOLWdelta10	chromosome 15		15	354681	354958	W		2006-01-05	2000-05-19	Ty1 LTR
+S000028581	ORF	Uncharacterized	YOR011W-A			chromosome 15		15	355652	355858	W		2006-01-05	2003-07-29	Putative protein of unknown function
+S000031328	CDS					YOR011W-A		15	355652	355858	W		2006-01-05	2003-07-29	
+S000005538	ORF	Uncharacterized	YOR012W			chromosome 15		15	356543	356956	W		2006-01-05	1996-07-31	Putative protein of unknown function
+S000035636	CDS					YOR012W		15	356543	356956	W		2006-01-05	1996-07-31	
+S000005539	ORF	Dubious	YOR013W	IRC11		chromosome 15		15	356751	357221	W		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YOR012C; null mutant displays increased levels of spontaneous Rad52 foci
+S000035766	CDS					YOR013W		15	356751	357221	W		2006-01-05	1996-07-31	
+S000005540	ORF	Verified	YOR014W	RTS1	protein phosphatase 2A regulatory subunit RTS1|SCS1	chromosome 15	L000001786	15	357674	359947	W		2006-01-05	1996-07-31	B-type regulatory subunit of protein phosphatase 2A (PP2A); Rts1p and Cdc55p are alternative regulatory subunits for PP2A catalytic subunits, Pph21p and Pph22p; PP2A-Rts1p protects cohesin when recruited by Sgo1p to the pericentromere; highly enriched at centromeres in the absence of Cdc55p; required for maintenance of septin ring organization during cytokinesis, for ring disassembly in G1 and for dephosphorylation of septin, Shs1p; homolog of the mammalian B' subunit of PP2A
+S000036675	CDS					YOR014W		15	357674	359947	W		2006-01-05	1996-07-31	
+S000005541	ORF	Uncharacterized	YOR015W			chromosome 15		15	359993	360352	W		2006-01-05	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YOR015W is not an essential gene
+S000036735	CDS					YOR015W		15	359993	360352	W		2006-01-05	1996-07-31	
+S000005542	ORF	Verified	YOR016C	ERP4		chromosome 15	L000004681	15	361084	360461	C		2006-01-05	1996-07-31	Member of the p24 family involved in ER to Golgi transport; similar to Emp24p and Erv25p; ERP4 has a paralog, ERP2, that arose from the whole genome duplication
+S000036758	CDS					YOR016C		15	361084	360461	C		2006-01-05	1996-07-31	
+S000005543	ORF	Verified	YOR017W	PET127		chromosome 15	L000001399	15	361412	363814	W	5.5	2006-01-05	1996-07-31	Protein with a role in 5'-end processing of mitochondrial RNAs; located in the mitochondrial membrane
+S000036848	CDS					YOR017W		15	361412	363814	W		2006-01-05	1996-07-31	
+S000005544	ORF	Verified	YOR018W	ROD1	ART4	chromosome 15	L000003079	15	364369	366882	W		2006-01-05	1996-07-31	Alpha-arrestin involved in ubiquitin-dependent endocytosis; activating dephosphorylation relays glucose signaling to transporter endocytosis; calcineurin dephosphorylation is required for Rsp5p-dependent internalization of agonist-occupied Ste2p, as part of signal desensitization; recruits Rsp5p to Ste2p via its 2 PPXY motifs; protein abundance increases in response to DNA replication stress; ROD1 has a paralog, ROG3, that arose from the whole genome duplication
+S000037590	CDS					YOR018W		15	364369	366882	W		2006-01-05	1996-07-31	
+S000005545	ORF	Verified	YOR019W			chromosome 15		15	368127	370319	W		2006-01-05	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; YOR019W has a paralog, JIP4, that arose from the whole genome duplication
+S000037647	CDS					YOR019W		15	368127	370319	W		2006-01-05	1996-07-31	
+S000005546	ORF	Verified	YOR020C	HSP10	CPN10	chromosome 15	L000000815	15	370844	370524	C		2006-01-05	1996-07-31	Mitochondrial matrix co-chaperonin; inhibits the ATPase activity of Hsp60p, a mitochondrial chaperonin; involved in protein folding and sorting in the mitochondria; 10 kD heat shock protein with similarity to E. coli groES
+S000037650	CDS					YOR020C		15	370844	370524	C		2006-01-05	1996-07-31	
+S000028526	ORF	Uncharacterized	YOR020W-A			chromosome 15		15	371685	371957	W		2006-01-05	2003-07-29	Putative protein of unknown function; conserved in A. gossypii; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000030330	CDS					YOR020W-A		15	371685	371957	W		2006-01-05	2003-07-29	
+S000005547	ORF	Verified	YOR021C	SFM1	protein-arginine N-methyltransferase SFM1	chromosome 15		15	373439	372798	C		2006-01-05	1996-07-31	SPOUT methyltransferase; catalyzes omega-monomethylation of Rps3p on Arg-146; not an essential gene; predicted to be involved in rRNA processing and ribosome biogenesis and in biopolymer catabolism
+S000030445	CDS					YOR021C		15	373439	372798	C		2006-01-05	1996-07-31	
+S000005548	ORF	Verified	YOR022C	DDL1	putative carboxylic ester hydrolase	chromosome 15		15	375857	373710	C		2006-01-05	1996-07-31	DDHD domain-containing phospholipase A1; mitochondrial matrix enzyme with sn-1-specific activity, hydrolyzing cardiolipin, PE, PC, PG and PA; implicated in remodeling of mitochondrial phospholipids; antagonistically regulated by Aft1p and Aft2p; in humans, mutations in DDHD1 and DDHD2 genes cause specific types of hereditary spastic paraplegia, while DDL1-defective yeast share similar phenotypes such as mitochondrial dysfunction and defects in lipid metabolism
+S000030587	CDS					YOR022C		15	375857	373710	C		2006-01-05	1996-07-31	
+S000005549	ORF	Verified	YOR023C	AHC1		chromosome 15		15	377712	376012	C		2006-01-05	1996-07-31	Subunit of the Ada histone acetyltransferase complex; required for structural integrity of the complex; Ahc2p and Ahc1p are unique to the ADA complex and not shared with the related SAGA and SLIK complexes; Ahc2p may tether Ahc1p to the complex
+S000030673	CDS					YOR023C		15	377712	376012	C		2006-01-05	1996-07-31	
+S000005550	ORF	Dubious	YOR024W		IRC12	chromosome 15		15	377847	378170	W		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031578	CDS					YOR024W		15	377847	378170	W		2006-01-05	1996-07-31	
+S000005551	ORF	Verified	YOR025W	HST3	NAD-dependent histone deacetylase HST3	chromosome 15	L000003042	15	378219	379562	W		2006-01-05	1996-07-31	Member of the Sir2 family of NAD(+)-dependent protein deacetylases; involved along with Hst4p in telomeric silencing, cell cycle progression, radiation resistance, genomic stability and short-chain fatty acid metabolism
+S000031696	CDS					YOR025W		15	378219	379562	W		2006-01-05	1996-07-31	
+S000005552	ORF	Verified	YOR026W	BUB3	PAC9	chromosome 15	L000000198	15	379781	380806	W		2006-01-05	1996-07-31	Kinetochore checkpoint WD40 repeat protein; localizes to kinetochores during prophase and metaphase, delays anaphase in the presence of unattached kinetochores; forms complexes with Mad1p-Bub1p and with Cdc20p, binds Mad2p and Mad3p; functions at kinetochore to activate APC/C-Cdc20p for normal mitotic progression
+S000031797	CDS					YOR026W		15	379781	380806	W		2006-01-05	1996-07-31	
+S000005553	ORF	Verified	YOR027W	STI1	Hsp90 cochaperone STI1	chromosome 15	L000002129	15	381053	382822	W		2006-01-05	1996-07-31	Hsp90 cochaperone; regulates spatial organization of amyloid-like proteins in the cytosol, thereby buffering the proteotoxicity caused by amyloid-like proteins; interacts with the Ssa group of the cytosolic Hsp70 chaperones and activates Ssa1p ATPase activity; interacts with Hsp90 chaperones and inhibits their ATPase activity; homolog of mammalian Hop
+S000031906	CDS					YOR027W		15	381053	382822	W		2006-01-05	1996-07-31	
+S000005554	ORF	Verified	YOR028C	CIN5	YAP4|HAL6	chromosome 15	L000000339|L000004263	15	384420	383533	C		2006-01-05	1996-07-31	Basic leucine zipper (bZIP) transcription factor of the yAP-1 family; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; mediates pleiotropic drug resistance and salt tolerance; nuclearly localized under oxidative stress and sequestered in the cytoplasm by Lot6p under reducing conditions; CIN5 has a paralog, YAP6, that arose from the whole genome duplication
+S000032760	CDS					YOR028C		15	384420	383533	C		2006-01-05	1996-07-31	
+S000005555	ORF	Uncharacterized	YOR029W			chromosome 15		15	384600	384935	W		2006-01-05	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YOR029W is not an essential gene
+S000032920	CDS					YOR029W		15	384600	384935	W		2006-01-05	1996-07-31	
+S000005556	ORF	Verified	YOR030W	DFG16	ZRG12|ECM41	chromosome 15	L000003877	15	386825	388684	W		2006-01-05	1996-07-31	Probable multiple transmembrane protein; involved in diploid invasive and pseudohyphal growth upon nitrogen starvation; is glycosylated and phosphorylated; interacts with Rim21p and Rim9p in the plasma membrane to form a pH-sensing complex in the Rim101 pathway and is required to maintain Rim21p levels; required for accumulation of processed Rim101p
+S000033591	CDS					YOR030W		15	386825	388684	W		2006-01-05	1996-07-31	
+S000005557	blocked_reading_frame		YOR031W	CRS5	metallothionein CRS5	chromosome 15	L000000421	15	389213	389422	W		2006-01-05	1996-07-31	Copper-binding metallothionein; required for wild-type copper resistance
+S000033679	CDS					YOR031W		15	389213	389422	W		2006-01-05	1996-07-31	
+S000005558	ORF	Verified	YOR032C	HMS1		chromosome 15	L000004441	15	391075	389771	C		2006-01-05	1996-07-31	bHLH protein with similarity to myc-family transcription factors; overexpression confers hyperfilamentous growth and suppresses the pseudohyphal filamentation defect of a diploid mep1 mep2 homozygous null mutant
+S000033735	CDS					YOR032C		15	391075	389771	C		2006-01-05	1996-07-31	
+S000028710	ORF	Uncharacterized	YOR032W-A			chromosome 15		15	392176	392376	W		2006-01-05	2003-07-29	Protein of unknown function; SWAT-GFP and seamless-GFP fusion proteins localize to the endoplasmic reticulum; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032675	CDS					YOR032W-A		15	392176	392376	W		2006-01-05	2003-07-29	
+S000005559	ORF	Verified	YOR033C	EXO1	Rad2 family nuclease EXO1|DHS1	chromosome 15	L000000505|L000003929	15	394524	392416	C		2006-01-05	1996-07-31	5'-3' exonuclease and flap-endonuclease; involved in recombination, double-strand break repair, MMS2 error-free branch of the post replication (PRR) pathway and DNA mismatch repair; role in telomere maintenance; member of the Rad2p nuclease family, with conserved N and I nuclease domains; relative distribution to the nucleus increases upon DNA replication stress; EXO1 has a paralog, DIN7, that arose from the whole genome duplication
+S000034621	CDS					YOR033C		15	394524	392416	C		2006-01-05	1996-07-31	
+S000005560	ORF	Verified	YOR034C	AKR2	putative palmitoyltransferase AKR2	chromosome 15	L000004052	15	397086	394837	C		2006-01-05	1996-07-31	Ankyrin repeat-containing protein; member of a family of putative palmitoyltransferases containing an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; possibly involved in constitutive endocytosis of Ste3p; AKR2 has a paralog, AKR1, that arose from the whole genome duplication
+S000034777	CDS					YOR034C		15	397086	394837	C		2006-01-05	1996-07-31	
+S000028856	ORF	Uncharacterized	YOR034C-A			chromosome 15		15	397668	397426	C		2006-01-05	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034569	CDS					YOR034C-A		15	397668	397426	C		2006-01-05	2003-07-29	
+S000005561	ORF	Verified	YOR035C	SHE4	DIM1	chromosome 15	L000004572	15	400104	397735	C		2006-01-05	1996-07-31	Protein containing a UCS (UNC-45/CRO1/SHE4) domain; binds to myosin motor domains to regulate myosin function; involved in endocytosis, polarization of the actin cytoskeleton, and asymmetric mRNA localization
+S000034897	CDS					YOR035C		15	400104	397735	C		2006-01-05	1996-07-31	
+S000005562	ORF	Verified	YOR036W	PEP12	SNAP receptor PEP12|VPT13|VPS6|VPL6	chromosome 15	L000001379	15	400348	401214	W	-5	2006-01-05	1996-07-31	Target membrane receptor (t-SNARE); for vesicular intermediates traveling between the Golgi apparatus and the vacuole; controls entry of biosynthetic, endocytic, and retrograde traffic into the prevacuolar compartment; syntaxin
+S000035899	CDS					YOR036W		15	400348	401214	W		2006-01-05	1996-07-31	
+S000005563	ORF	Verified	YOR037W	CYC2	oxidoreductase	chromosome 15	L000000449	15	401555	402655	W	12	2006-01-05	2003-09-22|1996-07-31	Mitochondrial peripheral inner membrane protein; contains a FAD cofactor in a domain exposed in the intermembrane space; exhibits redox activity in vitro; likely participates in ligation of heme to acytochromes c and c1 (Cyc1p and Cyt1p)
+S000036064	CDS					YOR037W		15	401555	402655	W		2006-01-05	2003-09-22|1996-07-31	
+S000005564	ORF	Verified	YOR038C	HIR2	SPT1	chromosome 15	L000000777	15	405388	402761	C		2006-01-05	1996-07-31	Subunit of HIR nucleosome assembly complex; involved in regulation of histone gene transcription; recruits Swi-Snf complexes to histone gene promoters; promotes heterochromatic gene silencing with Asf1p; relocalizes to the cytosol in response to hypoxia
+S000036118	CDS					YOR038C		15	405388	402761	C		2006-01-05	1996-07-31	
+S000005565	ORF	Verified	YOR039W	CKB2	casein kinase 2 regulatory subunit CKB2	chromosome 15	L000000345	15	405768	406544	W		2006-01-05	1996-07-31	Beta' regulatory subunit of casein kinase 2 (CK2); a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerase
+S000036946	CDS					YOR039W		15	405768	406544	W		2006-01-05	1996-07-31	
+S000005566	ORF	Verified	YOR040W	GLO4	hydroxyacylglutathione hydrolase GLO4	chromosome 15	L000003489	15	407064	407921	W		2006-01-05	1996-07-31	Mitochondrial glyoxalase II; catalyzes the hydrolysis of S-D-lactoylglutathione into glutathione and D-lactate; GLO4 has a paralog, GLO2, that arose from the whole genome duplication
+S000037742	CDS					YOR040W		15	407064	407921	W		2006-01-05	1996-07-31	
+S000007292	snoRNA_gene		snR9	SNR9		chromosome 15	L000001964	15	408134	407948	C		2006-01-05	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2340 and U2345
+S000034330	noncoding_exon					snR9		15	408134	407948	C		2006-01-05	2000-05-19	
+S000005568	ORF	Verified	YOR042W	CUE5	ubiquitin-binding protein CUE5	chromosome 15		15	408425	409660	W		2006-01-05	1996-07-31	Ubiquitin-binding protein; functions as ubiquitin-Atg8p adaptor in ubiquitin-dependent autophagy; serves as proteaphagy receptor for inactivated 26S proteasomes; contains CUE domain that binds ubiquitin, which may facilitate intramolecular monoubiquitination; CUE5 has a paralog, DON1, that arose from the whole genome duplication; human TOLLIP is a functional CUE-domain homolog, can complement yeast null mutant, rescuing hypersensitivity of cue5 null mutant cells to Htt-96Q
+S000029840	CDS					YOR042W		15	408425	409660	W		2006-01-05	1996-07-31	
+S000005567	ORF	Dubious	YOR041C		SRF5	chromosome 15		15	408789	408358	C		2006-01-05	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 85% of ORF overlaps the uncharacterized gene CUE5; deletion in cyr1 mutant results in loss of stress resistance
+S000037769	CDS					YOR041C		15	408789	408358	C		2006-01-05	1996-07-31	
+S000006453	snoRNA_gene		snR62	SNR62		chromosome 15	L000004531	15	409864	409765	C		2006-01-05	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U1888
+S000030839	noncoding_exon					snR62		15	409864	409765	C		2006-01-05	2000-05-19	
+S000005569	ORF	Verified	YOR043W	WHI2		chromosome 15	L000002485	15	410870	412330	W	9	2006-01-05	1996-07-31	Protein required for full activation of the general stress response; required with binding partner Psr1p, possibly through Msn2p dephosphorylation; regulates growth during the diauxic shift; negative regulator of G1 cyclin expression; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cell periphery
+S000030841	CDS					YOR043W		15	410870	412330	W		2006-01-05	1996-07-31	
+S000005570	ORF	Verified	YOR044W	IRC23		chromosome 15		15	413007	413480	W		2006-01-05	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion localizes to the ER; null mutant displays increased levels of spontaneous Rad52p foci; IRC23 has a paralog, BSC2, that arose from the whole genome duplication
+S000030924	CDS					YOR044W		15	413007	413480	W		2006-01-05	1996-07-31	
+S000005571	ORF	Verified	YOR045W	TOM6	MOM8B|ISP6	chromosome 15	L000000877	15	413852	414037	W		2006-01-05	1996-07-31	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import steps for all mitochondrially directed proteins; promotes assembly and stability of the TOM complex
+S000030996	CDS					YOR045W		15	413852	414037	W		2006-01-05	1996-07-31	
+S000005572	ORF	Verified	YOR046C	DBP5	ATP-dependent RNA helicase DBP5|RAT8	chromosome 15	L000003292	15	415907	414459	C		2011-02-03	1996-07-31	Cytoplasmic ATP-dependent RNA helicase of the DEAD-box family; involved in mRNA export from the nucleus, remodeling messenger ribonucleoprotein particles (mRNPs), with ATPase activity stimulated by Gle1p, IP6 and Nup159p; involved in translation termination along with Sup45p (eRF1); role in the cellular response to heat stress
+S000031032	CDS					YOR046C		15	415907	414459	C		2011-02-03	1996-07-31	
+S000005573	ORF	Verified	YOR047C	STD1	SFS3|MSN3	chromosome 15	L000002111	15	417681	416347	C		2011-02-03	1996-07-31	Protein involved in control of glucose-regulated gene expression; interacts with kinase Snf1p, glucose sensors Snf3p and Rgt2p, TATA-binding Spt15p; regulator of transcription factor Rgt1p; interactions with Pma1p appear to propagate [GAR+]; STD1 has a paralog, MTH1, that arose from the whole genome duplication
+S000032001	CDS					YOR047C		15	417681	416347	C		2011-02-03	1996-07-31	
+S000005574	ORF	Verified	YOR048C	RAT1	ssRNA exonuclease RAT1|XRN2|TAP1|HKE1	chromosome 15	L000001584	15	421650	418630	C	17.1	2011-02-03	1996-07-31	Nuclear 5' to 3' single-stranded RNA exonuclease; involved in RNA metabolism, including rRNA and snoRNA processing, as well as poly (A+) dependent and independent mRNA transcription termination; required for cotranscriptional pre-rRNA cleavage; displaces Cdk1p from elongating transcripts, especially as RNAPII reaches the poly(A) site, negatively regulates phosphorylation of the CTD of RNAPII, and inhibits RNAPII transcriptional elongation
+S000032091	CDS					YOR048C		15	421650	418630	C		2011-02-03	1996-07-31	
+S000005575	ORF	Verified	YOR049C	RSB1	phospholipid-translocating ATPase RSB1	chromosome 15		15	423732	422668	C		2011-02-03	1996-07-31	Putative sphingoid long-chain base (LCB) efflux transporter; integral membrane transporter that localizes to the plasma membrane and may transport long chain bases (LCBs) from the cytoplasmic side toward the extracytoplasmic side of the membrane; role in glycerophospholipid translocation; suppressor of the sphingoid LCB sensitivity of an LCB-lyase mutation
+S000032150	CDS					YOR049C		15	423732	422668	C		2011-02-03	1996-07-31	
+S000005576	ORF	Dubious	YOR050C		YOR29-01	chromosome 15		15	424617	424270	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant is viable
+S000033916	CDS					YOR050C		15	424617	424270	C		2011-02-03	1996-07-31	
+S000005577	ORF	Verified	YOR051C	ETT1	NRO1|YOR29-02	chromosome 15		15	426084	424846	C		2011-02-03	1996-07-31	Nuclear protein that inhibits replication of Brome mosaic virus; S. cerevisiae is a model system for studying replication of positive-strand RNA viruses in their natural hosts; deletion increases stop codon readthrough
+S000034062	CDS					YOR051C		15	426084	424846	C		2011-02-03	1996-07-31	
+S000005578	ORF	Verified	YOR052C	TMC1	YOR29-03	chromosome 15		15	427224	426772	C		2011-02-03	1996-07-31	AN1-type zinc finger protein, effector of proteotoxic stress response; stress-inducible transcriptional target of Rpn4p; induced by nitrogen limitation, weak acid, misfolded proteins; short-lived protein, degraded by proteasome; may protect cells from trivalent metalloid induced proteotoxicity; contains PACE promoter element; ortholog of human AIRAP, which stimulates proteasome activity in response to arsenic; protein abundance increases under DNA replication stress
+S000034154	CDS					YOR052C		15	427224	426772	C		2011-02-03	1996-07-31	
+S000005579	ORF	Dubious	YOR053W		YOR29-04	chromosome 15		15	427817	428158	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene VHS3/YOR054C
+S000035170	CDS					YOR053W		15	427817	428158	W		2011-02-03	1996-07-31	
+S000005581	ORF	Dubious	YOR055W		YOR29-06	chromosome 15		15	429478	429912	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035354	CDS					YOR055W		15	429478	429912	W		2011-02-03	1996-07-31	
+S000005580	ORF	Verified	YOR054C	VHS3	phosphopantothenoylcysteine decarboxylase complex subunit VHS3|YOR29-05	chromosome 15		15	429857	427833	C		2011-02-03	1996-07-31	Negative regulatory subunit of protein phosphatase 1 Ppz1p; involved in coenzyme A biosynthesis; subunit of the phosphopantothenoylcysteine decarboxylase (PPCDC; Cab3p, Sis2p, Vhs3p) complex and the CoA-Synthesizing Protein Complex (CoA-SPC: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p)
+S000035210	CDS					YOR054C		15	429857	427833	C		2011-02-03	1996-07-31	
+S000005582	ORF	Verified	YOR056C	NOB1	rRNA-binding endoribonuclease|YOR29-07	chromosome 15		15	431626	430247	C		2011-02-03	1996-07-31	Protein involved in proteasomal and 40S ribosomal subunit biogenesis; required for cleavage of the 20S pre-rRNA to generate the mature 18S rRNA; cleavage is activated by Fun12p, a GTPase and translation initiation factor; relocalizes from nucleus to nucleolus upon DNA replication stress
+S000035381	CDS					YOR056C		15	431626	430247	C		2011-02-03	1996-07-31	
+S000005583	ORF	Verified	YOR057W	SGT1	co-chaperone SGT1|YOR29-08	chromosome 15	L000003443|L000004087	15	432186	433373	W		2011-02-03	1996-07-31	Cochaperone protein; regulates activity of adenylyl cyclase Cyr1p; involved in kinetochore complex assembly; associates with the SCF (Skp1p/Cdc53p/F box protein) ubiquitin ligase complex; acts as a linker between Skp1p and HSP90 complexes; protein abundance increases in response to DNA replication stress
+S000036316	CDS					YOR057W		15	432186	433373	W		2011-02-03	1996-07-31	
+S000005584	ORF	Verified	YOR058C	ASE1	YOR29-09	chromosome 15	L000000125	15	436345	433688	C		2011-02-03	1996-07-31	Mitotic spindle midzone-localized microtubule bundling protein; microtubule-associated protein (MAP) family member; required for spindle elongation and stabilization; undergoes cell cycle-regulated degradation by anaphase promoting complex; potential Cdc28p substrate; relative distribution to microtubules decreases upon DNA replication stress
+S000036352	CDS					YOR058C		15	436345	433688	C		2011-02-03	1996-07-31	
+S000007162	long_terminal_repeat		YORCdelta11			chromosome 15		15	438483	438175	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006634	tRNA_gene		tK(UUU)O			chromosome 15	L000003707	15	438643	438738	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034218	intron					tK(UUU)O		15	438680	438702	W		2011-02-03	2000-05-19	
+S000034216	noncoding_exon					tK(UUU)O		15	438643	438679	W		2011-02-03	2000-05-19	
+S000034217	noncoding_exon					tK(UUU)O		15	438703	438738	W		2011-02-03	2000-05-19	
+S000005585	ORF	Verified	YOR059C	LPL1	putative hydrolase|YOR29-10	chromosome 15		15	440258	438906	C		2011-02-03	1996-07-31	Phospholipase; contains lipase specific GXSXG motif; maintains lipid droplet (LD) morphology; induced by transcription factor Rpn4p; protein abundance increases in response to DNA replication stress
+S000036452	CDS					YOR059C		15	440258	438906	C		2011-02-03	1996-07-31	
+S000005586	ORF	Verified	YOR060C	SLD7	YOR29-11	chromosome 15		15	441163	440390	C		2011-02-03	1996-07-31	Protein with a role in chromosomal DNA replication; interacts with Sld3p and reduces its affinity for Cdc45p; deletion mutant has aberrant mitochondria
+S000037458	CDS					YOR060C		15	441163	440390	C		2011-02-03	1996-07-31	
+S000005587	ORF	Verified	YOR061W	CKA2	casein kinase 2 catalytic subunit CKA2|YOR29-12	chromosome 15	L000000344	15	441534	442553	W		2011-02-03	1996-07-31	Alpha' catalytic subunit of casein kinase 2 (CK2); CK2 is a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerases; protein abundance increases in response to DNA replication stress; regulates Fkh1p-mediated donor preference during mating-type switching
+S000037585	CDS					YOR061W		15	441534	442553	W		2011-02-03	1996-07-31	
+S000005588	ORF	Uncharacterized	YOR062C		YOR29-13	chromosome 15		15	443531	442725	C		2011-02-03	1996-07-31	Protein of unknown function; similar to Reg1p; expression regulated by glucose and Rgt1p; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; YOR062C has a paralog, YKR075C, that arose from the whole genome duplication
+S000037610	CDS					YOR062C		15	443531	442725	C		2011-02-03	1996-07-31	
+S000005589	ORF	Verified	YOR063W	RPL3	uL3|ribosomal 60S subunit protein L3|rp1|YL1|L3|YOR29-14|TCM1|MAK8	chromosome 15		15	444686	445849	W	22	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L3; homologous to mammalian ribosomal protein L3 and bacterial L3; plays an important role in function of eIF5B in stimulating 3' end processing of 18S rRNA in context of 80S ribosomes that have not yet engaged in translation; involved in replication and maintenance of killer double stranded RNA virus
+S000030496	CDS					YOR063W		15	444686	445849	W		2011-02-03	1996-07-31	
+S000005590	ORF	Verified	YOR064C	YNG1	YOR29-15	chromosome 15	S000007517	15	446738	446079	C		2011-02-03	1996-07-31	Subunit of the NuA3 histone acetyltransferase complex; this complex acetylates histone H3; contains PHD finger domain that interacts with methylated histone H3; shares significant sequence identity with the human candidate tumor suppressor p33-ING1 in C-terminal region
+S000030526	CDS					YOR064C		15	446738	446079	C		2011-02-03	1996-07-31	
+S000005591	ORF	Verified	YOR065W	CYT1	ubiquinol--cytochrome-c reductase catalytic subunit CYT1|YOR29-16|CTC1	chromosome 15	L000000472	15	447439	448368	W		2011-02-03	1996-07-31	Cytochrome c1; component of the mitochondrial respiratory chain; expression is regulated by the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex
+S000030648	CDS					YOR065W		15	447439	448368	W		2011-02-03	1996-07-31	
+S000005592	ORF	Verified	YOR066W	MSA1	YOR29-17	chromosome 15		15	449436	451325	W		2011-02-03	1996-07-31	Activator of G1-specific transcription factors MBF and SBF; involved in regulation of the timing of G1-specific gene transcription and cell cycle initiation; localization is cell-cycle dependent and regulated by Cdc28p phosphorylation; MSA1 has a paralog, MSA2, that arose from the whole genome duplication
+S000030728	CDS					YOR066W		15	449436	451325	W		2011-02-03	1996-07-31	
+S000005593	ORF	Verified	YOR067C	ALG8	dolichyl-P-Glc:Glc1Man(9)GlcNAc(2)-PP-dolichol alpha-1,3-glucosyltransferase|YOR29-18	chromosome 15	L000000079	15	453462	451729	C		2011-02-03	1996-07-31	Glucosyl transferase; involved in N-linked glycosylation; adds glucose to the dolichol-linked oligosaccharide precursor prior to transfer to protein during lipid-linked oligosaccharide biosynthesis; similar to Alg6p; human homolog ALG8 can complement yeast null mutant
+S000030756	CDS					YOR067C		15	453462	451729	C		2011-02-03	1996-07-31	
+S000005595	ORF	Verified	YOR069W	VPS5	sorting nexin 1|YOR29-20|VPT5|PEP10|GRD2	chromosome 15	L000002920	15	453768	455795	W		2011-02-03	2004-04-21|1996-07-31	Nexin-1 homolog; required for localizing membrane proteins from a prevacuolar/late endosomal compartment back to late Golgi; structural component of retromer membrane coat complex; forms a retromer subcomplex with Vps17p; required for recruiting the retromer complex to the endosome membranes; VPS5 has a paralog, YKR078W, that arose from the whole genome duplication
+S000031779	CDS					YOR069W		15	453768	455795	W		2011-02-03	2004-04-21|1996-07-31	
+S000005594	ORF	Verified	YOR068C	VAM10	YOR29-19	chromosome 15		15	454213	453869	C		2011-02-03	1996-07-31	Protein involved in vacuole morphogenesis; acts at an early step of homotypic vacuole fusion that is required for vacuole tethering
+S000031602	CDS					YOR068C		15	454213	453869	C		2011-02-03	1996-07-31	
+S000005596	ORF	Verified	YOR070C	GYP1	YOR29-21	chromosome 15	L000004377	15	457820	455907	C		2011-02-03	1996-07-31	Cis-golgi GTPase-activating protein (GAP) for yeast Rabs; the Rab family members are Ypt1p (in vivo) and for Ypt1p, Sec4p, Ypt7p, and Ypt51p (in vitro); involved in vesicle docking and fusion
+S000033733	CDS					YOR070C		15	457820	455907	C		2011-02-03	1996-07-31	
+S000005597	ORF	Verified	YOR071C	NRT1	nicotinamide riboside transporter|THI71|YOR29-22	chromosome 15		15	461276	459480	C		2011-02-03	1996-07-31	High-affinity nicotinamide riboside transporter; also transports thiamine with low affinity; major transporter for 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranoside (acadesine) uptake; shares sequence similarity with Thi7p and Thi72p; proposed to be involved in 5-fluorocytosine sensitivity
+S000033867	CDS					YOR071C		15	461276	459480	C		2011-02-03	1996-07-31	
+S000005598	ORF	Dubious	YOR072W		YOR29-23	chromosome 15		15	461502	461816	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious gene YOR072W-A; diploid deletion strains are methotrexate, paraquat and wortmannin sensitive
+S000034814	CDS					YOR072W		15	461502	461816	W		2011-02-03	1996-07-31	
+S000028582	ORF	Dubious	YOR072W-A			chromosome 15		15	461791	462039	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOR072W; originally identified by fungal homology and RT-PCR
+S000031329	CDS					YOR072W-A		15	461791	462039	W		2011-02-03	2003-07-29	
+S000006688	tRNA_gene		tP(UGG)O2	SUF11		chromosome 15	L000002159|L000003708	15	464450	464551	W	30	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin; can mutate to suppress +1 frameshift mutations in proline codons
+S000031047	intron					tP(UGG)O2		15	464486	464515	W		2011-02-03	2000-05-19	
+S000031045	noncoding_exon					tP(UGG)O2		15	464450	464485	W		2011-02-03	2000-05-19	
+S000031046	noncoding_exon					tP(UGG)O2		15	464516	464551	W		2011-02-03	2000-05-19	
+S000028516	ORF	Uncharacterized	YOR072W-B			chromosome 15		15	464469	464630	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000030289	CDS					YOR072W-B		15	464469	464630	W		2011-02-03	2003-07-29	
+S000005599	ORF	Verified	YOR073W	SGO1	YOR29-24	chromosome 15		15	464771	466543	W		2011-02-03	1996-07-31	Component of the spindle checkpoint; involved in sensing lack of tension on mitotic chromosomes; protects centromeric Rec8p at meiosis I; required for accurate chromosomal segregation at meiosis II and for mitotic chromosome stability; recruits condensin to the pericentric region of chromosomes during meiosis; dissociates from pericentromeres when sister kinetochores are under tension
+S000034945	CDS					YOR073W		15	464771	466543	W		2011-02-03	1996-07-31	
+S000028583	ORF	Dubious	YOR073W-A			chromosome 15		15	467390	467623	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially/completely overlaps the verified ORF CDC21/YOR074C; identified by RT-PCR
+S000031330	CDS					YOR073W-A		15	467390	467623	W		2011-02-03	2003-07-29	
+S000005600	ORF	Verified	YOR074C	CDC21	thymidylate synthase|YOR29-25|TMP1|CRT9	chromosome 15	L000000260	15	467589	466675	C	32	2011-02-03	1996-07-31|2005-12-01	Thymidylate synthase; required for de novo biosynthesis of pyrimidine deoxyribonucleotides; expression is induced at G1/S; human homolog TYMSOS can complement yeast cdc21 temperature-sensitive mutant at restrictive temperature
+S000034991	CDS					YOR074C		15	467589	466675	C		2011-02-03	1996-07-31|2005-12-01	
+S000005601	ORF	Verified	YOR075W	UFE1	YOR29-26	chromosome 15	L000002637	15	468212	469252	W		2011-02-03	1996-07-31	t-SNARE protein required for retrograde vesicular traffic; involved in Sey1p-independent homotypic ER fusion; required for efficient nuclear fusion during mating; forms a complex with the SNAREs Sec22p, Sec20p and Use1p to mediate fusion of Golgi-derived vesicles at the ER
+S000035197	CDS					YOR075W		15	468212	469252	W		2011-02-03	1996-07-31	
+S000005602	ORF	Verified	YOR076C	SKI7	YOR29-27	chromosome 15		15	471620	469377	C		2011-02-03	1996-07-31	GTP-binding protein that couples the Ski complex and exosome; putative pseudo-translational GTPase involved in 3'-to-5' mRNA decay pathway; interacts with both the cytoplasmic exosome and the Ski complex; eRF3-like domain targets nonstop mRNA for degradation; null mutants have a superkiller phenotype; SKI7 has a paralog, HBS1, that arose from the whole genome duplication
+S000036014	CDS					YOR076C		15	471620	469377	C		2011-02-03	1996-07-31	
+S000005603	ORF	Verified	YOR077W	RTS2	YOR29-28	chromosome 15	L000001787	15	471899	472597	W		2011-02-03	1996-07-31	Basic zinc-finger protein; similar to human and mouse Kin17 proteins which are chromatin-associated proteins involved in UV response and DNA replication
+S000036174	CDS					YOR077W		15	471899	472597	W		2011-02-03	1996-07-31	
+S000005604	ORF	Verified	YOR078W	BUD21	YOR29-29|UTP16	chromosome 15		15	472725	473369	W		2011-02-03	1996-07-31	Component of small ribosomal subunit (SSU) processosome; this complex contains U3 snoRNA; required at post-transcriptional step for efficient retrotransposition; absence results in decreased Ty1 Gag:GFP protein levels; originally isolated as bud-site selection mutant that displays a random budding pattern
+S000036267	CDS					YOR078W		15	472725	473369	W		2011-02-03	1996-07-31	
+S000005605	ORF	Verified	YOR079C	ATX2	Mn(2+) transporter ATX2|YOR29-30	chromosome 15	L000003290	15	474416	473475	C		2011-02-03	1996-07-31	Golgi membrane protein involved in manganese homeostasis; overproduction suppresses the sod1 (copper, zinc superoxide dismutase) null mutation
+S000036294	CDS					YOR079C		15	474416	473475	C		2011-02-03	1996-07-31	
+S000005606	ORF	Verified	YOR080W	DIA2	DNA-binding SCF ubiquitin ligase subunit DIA2|YOR29-31	chromosome 15		15	474594	476792	W		2011-02-03	1996-07-31|2010-01-05	Origin-binding F-box protein; forms SCF ubiquitin ligase complex with Skp1p and Cdc53p; functions in ubiquitination of silent chromatin structural protein Sir4p; required to target Cdc6p for destruction during G1 phase; required for deactivation of Rad53 checkpoint kinase, completion of DNA replication during recovery from DNA damage, assembly of RSC complex, RSC-mediated transcription regulation, and nucleosome positioning; involved in invasive and pseudohyphal growth
+S000035995	CDS					YOR080W		15	474594	476792	W		2011-02-03	1996-07-31|2010-01-05	
+S000005607	ORF	Verified	YOR081C	TGL5	STC2	chromosome 15		15	479188	476939	C		2011-02-03	1996-07-31	Bifunctional triacylglycerol lipase and LPA acyltransferase; lipid particle-localized triacylglycerol (TAG) lipase involved in triacylglycerol mobilization; catalyzes acylation of lysophosphatidic acid (LPA); potential Cdc28p substrate; TGL5 has a paralog, TGL4, that arose from the whole genome duplication
+S000037799	CDS					YOR081C		15	479188	476939	C		2011-02-03	1996-07-31	
+S000005609	ORF	Verified	YOR083W	WHI5	transcriptional repressor WHI5	chromosome 15		15	479533	480420	W		2011-02-03	1996-07-31	Repressor of G1 transcription; binds to SCB binding factor (SBF) at SCB target promoters in early G1; dilution of Whi5p concentration during cell growth determines cell size; phosphorylation of Whi5p by the CDK, Cln3p/Cdc28p relieves repression and promoter binding by Whi5, and contributes to both the determination of critical cell size at START and cell fate; periodically expressed in G1
+S000029953	CDS					YOR083W		15	479533	480420	W		2011-02-03	1996-07-31	
+S000005608	ORF	Dubious	YOR082C			chromosome 15		15	479637	479296	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YOR083W
+S000037872	CDS					YOR082C		15	479637	479296	C		2011-02-03	1996-07-31	
+S000005610	ORF	Verified	YOR084W	LPX1	triglyceride lipase	chromosome 15		15	480587	481750	W		2011-02-03	1996-07-31	Peroxisomal matrix-localized lipase; required for normal peroxisome morphology; contains a peroxisomal targeting signal type 1 (PTS1) and a lipase motif; peroxisomal import requires the PTS1 receptor, Pex5p and self-interaction; transcriptionally activated by Yrm1p along with genes involved in multidrug resistance; oleic acid inducible
+S000030939	CDS					YOR084W		15	480587	481750	W		2011-02-03	1996-07-31	
+S000005611	ORF	Verified	YOR085W	OST3	dolichyl-diphosphooligosaccharide--protein glycotransferase OST3	chromosome 15	L000002943	15	482033	483085	W		2011-02-03	1996-07-31	Gamma subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins; Ost3p is important for N-glycosylation of a subset of proteins
+S000031015	CDS					YOR085W		15	482033	483085	W		2011-02-03	1996-07-31	
+S000005612	ORF	Verified	YOR086C	TCB1	tricalbin	chromosome 15		15	486779	483219	C		2011-02-03	1996-07-31	Lipid-binding ER protein involved in ER-plasma membrane tethering; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to plasma membrane and regulate PI4P levels by controlling access of Sac1p phosphatase to its substrate PI4P in PM; contains 3 calcium and lipid binding domains; non-tagged protein also localizes to mitochondria; C-termini of Tcb1p, Tcb2p and Tcb3p interact; TCB1 has a paralog, TCB2, that arose from the whole genome duplication
+S000031064	CDS					YOR086C		15	486779	483219	C		2011-02-03	1996-07-31	
+S000006676	tRNA_gene		tN(GUU)O2			chromosome 15	L000003709	15	487439	487512	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000035653	noncoding_exon					tN(GUU)O2		15	487439	487512	W		2011-02-03	2000-05-19	
+S000005613	ORF	Verified	YOR087W	YVC1	TRPY1|YOR088W	chromosome 15		15	487707	489734	W		2011-02-03	2003-01-09|1996-07-31	Vacuolar cation channel; mediates release of Ca(2+) from the vacuole in response to hyperosmotic shock
+S000031212	CDS					YOR087W		15	487707	489734	W		2011-02-03	2003-01-09|1996-07-31	
+S000007554	ARS		ARS1501		ARS1514|ARS245	chromosome 15		15	489683	489942			2014-11-18	2000-10-17|2014-11-18	Autonomously Replicating Sequence
+S000178184	ARS_consensus_sequence					ARS1501		15	489891	489907	W		2014-11-18	2014-11-18	
+S000005615	ORF	Verified	YOR089C	VPS21	Rab family GTPase VPS21|YPT51|YPT21|VPT12|VPS12	chromosome 15	L000002474	15	490828	490196	C		2011-02-03	1996-07-31	Endosomal Rab family GTPase; required for endocytic transport and sorting of vacuolar hydrolases; required for endosomal localization of the CORVET complex; required with YPT52 for MVB biogenesis and sorting; involved in autophagy and ionic stress tolerance; geranylgeranylation required for membrane association; protein abundance increases in response to DNA replication stress; mammalian Rab5 homolog; VPS21 has a paralog, YPT53, that arose from the whole genome duplication
+S000032213	CDS					YOR089C		15	490828	490196	C		2011-02-03	1996-07-31	
+S000005616	ORF	Verified	YOR090C	PTC5	type 2C protein phosphatase PTC5|PPP1	chromosome 15		15	492841	491123	C		2011-02-03	1996-07-31	Mitochondrial type 2C protein phosphatase (PP2C); involved in regulation of pyruvate dehydrogenase activity by dephosphorylating the serine 133 of the Pda1p subunit; localizes to the intermembrane space and is imported via the presequence pathway and processed by the inner membrane protease (Imp1p-Imp2p); acts in concert with kinases Pkp1p and Pkp2p and phosphatase Ptc6p
+S000031844	CDS					YOR090C		15	492841	491123	C		2011-02-03	1996-07-31	
+S000005617	ORF	Verified	YOR091W	TMA46	RBF46	chromosome 15		15	493433	494470	W		2011-02-03	1996-07-31|2005-12-01	Protein of unknown function that associates with translating ribosomes; interacts with GTPase Rbg1p
+S000032061	CDS					YOR091W		15	493433	494470	W		2011-02-03	1996-07-31|2005-12-01	
+S000005618	ORF	Verified	YOR092W	ECM3	putative ATPase ECM3|YOR3165W	chromosome 15	L000003879	15	495127	496968	W		2011-02-03	1996-07-31	Non-essential protein of unknown function; involved in signal transduction and the genotoxic response; induced rapidly in response to treatment with 8-methoxypsoralen and UVA irradiation; relocalizes from ER to cytoplasm upon DNA replication stress; ECM3 has a paralog, YNL095C, that arose from the whole genome duplication
+S000032141	CDS					YOR092W		15	495127	496968	W		2011-02-03	1996-07-31	
+S000005619	ORF	Uncharacterized	YOR093C	CMR2		chromosome 15		15	502452	497506	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion causes sensitivity to unfolded protein response-inducing agents
+S000034073	CDS					YOR093C		15	502452	497506	C		2011-02-03	1996-07-31	
+S000005620	ORF	Verified	YOR094W	ARF3	Arf family GTPase ARF3|ARL2	chromosome 15	L000000106	15	502795	503346	W		2011-02-03	1996-07-31	Glucose-repressible ADP-ribosylation factor; GTPase of Ras superfamily involved in regulating cell polarity and invasive growth; localizes to dynamic spots at plasma membrane and modulates PtdIns(4,5)P2 levels to facilitate endocytosis; required for localization of endocytic protein Lsb5p to correct cortical site in cells; also has mRNA binding activity; homolog of mammalian Arf6
+S000034255	CDS					YOR094W		15	502795	503346	W		2011-02-03	1996-07-31	
+S000005621	ORF	Verified	YOR095C	RKI1	ribose-5-phosphate isomerase RKI1	chromosome 15	L000003519	15	504328	503552	C		2011-02-03	1996-07-31	Ribose-5-phosphate ketol-isomerase; catalyzes the interconversion of ribose 5-phosphate and ribulose 5-phosphate in the pentose phosphate pathway; participates in pyridoxine biosynthesis
+S000034285	CDS					YOR095C		15	504328	503552	C		2011-02-03	1996-07-31	
+S000005622	ORF	Verified	YOR096W	RPS7A	eS7|ribosomal 40S subunit protein S7A|S7e|rp30|S7A|RPS30	chromosome 15	L000003300	15	505794	506767	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; interacts with Kti11p; deletion causes hypersensitivity to zymocin; homologous to mammalian ribosomal protein S7, no bacterial homolog; RPS7A has a paralog, RPS7B, that arose from the whole genome duplication
+S000034377	CDS					YOR096W		15	505794	505937	W		2011-02-03	1996-07-31	
+S000034378	CDS					YOR096W		15	506339	506767	W		2011-02-03	1996-07-31	
+S000034379	intron					YOR096W		15	505938	506338	W		2011-02-03	1996-07-31	
+S000005623	ORF	Uncharacterized	YOR097C			chromosome 15		15	507505	506978	C		2011-02-03	1996-07-31	Putative protein of unknown function; identified as interacting with Hsp82p in a high-throughput two-hybrid screen; YOR097C is not an essential gene
+S000035307	CDS					YOR097C		15	507505	506978	C		2011-02-03	1996-07-31	
+S000005624	ORF	Verified	YOR098C	NUP1	FG-nucleoporin NUP1	chromosome 15	L000001288	15	511178	507948	C		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of thenuclear pore complex (NPC) permeability barrier; possible karyopherin release factor that accelerates release of karyopherin-cargo complexes after transport across NPC; both NUP1 and NUP60 are homologous to human NUP153
+S000035367	CDS					YOR098C		15	511178	507948	C		2011-02-03	1996-07-31	
+S000005625	ORF	Verified	YOR099W	KTR1	alpha-1,2-mannosyltransferase KTR1	chromosome 15	L000000924	15	511825	513006	W	54	2011-02-03	1996-07-31	Alpha-1,2-mannosyltransferase; involved in O- and N-linked protein glycosylation; type II membrane protein; member of the KRE2/MNT1 mannosyltransferase family; relocalizes from vacuole to cytoplasm upon DNA replication stress
+S000035471	CDS					YOR099W		15	511825	513006	W		2011-02-03	1996-07-31	
+S000005626	ORF	Verified	YOR100C	CRC1	carnitine:acyl carnitine antiporter	chromosome 15	S000007462	15	514278	513295	C		2011-02-03	1996-07-31	Mitochondrial inner membrane carnitine transporter; required for carnitine-dependent transport of acetyl-CoA from peroxisomes to mitochondria during fatty acid beta-oxidation; human homolog SLC25A20 complements yeast null mutant
+S000032610	CDS					YOR100C		15	514278	513295	C		2011-02-03	1996-07-31	
+S000005627	ORF	Verified	YOR101W	RAS1	Ras family GTPase RAS1	chromosome 15	L000001582	15	515244	516173	W	53	2011-02-03	1996-07-31	GTPase involved in G-protein signaling in adenylate cyclase activation; plays a role in cell proliferation; localized to the plasma membrane; homolog of mammalian RAS proto-oncogenes; relative distribution to the nucleus increases upon DNA replication stress; RAS1 has a paralog, RAS2, that arose from the whole genome duplication
+S000032754	CDS					YOR101W		15	515244	516173	W		2011-02-03	1996-07-31	
+S000005628	ORF	Dubious	YOR102W			chromosome 15		15	516423	516773	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; extensively overlaps essential OST2 gene encoding a subunit of the ER lumen oligosaccharyltransferase complex
+S000033499	CDS					YOR102W		15	516423	516773	W		2011-02-03	1996-07-31	
+S000005629	ORF	Verified	YOR103C	OST2	dolichyl-diphosphooligosaccharide-protein glycotransferase	chromosome 15	L000002942	15	516841	516449	C		2011-02-03	2003-09-22|1996-07-31	Epsilon subunit of the oligosaccharyltransferase complex; located in the ER lumen; catalyzes asparagine-linked glycosylation of newly synthesized proteins
+S000033537	CDS					YOR103C		15	516841	516449	C		2011-02-03	2003-09-22|1996-07-31	
+S000005630	ORF	Verified	YOR104W	PIN2		chromosome 15		15	517642	518490	W		2011-02-03	1996-07-31	Exomer-dependent cargo protein; induces appearance of [PIN+] prion when overproduced; prion-like domain serves as a retention signal in the trans-Golgi network; predicted to be palmitoylated
+S000033687	CDS					YOR104W		15	517642	518490	W		2011-02-03	1996-07-31	
+S000005631	ORF	Uncharacterized	YOR105W			chromosome 15		15	518195	518521	W		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels
+S000033820	CDS					YOR105W		15	518195	518521	W		2011-02-03	1996-07-31	
+S000005632	ORF	Verified	YOR106W	VAM3	SNAP receptor VAM3|PTH1	chromosome 15	L000003267|L000003302	15	519121	519972	W		2011-02-03	1996-07-31	Syntaxin-like vacuolar t-SNARE; functions with Vam7p in vacuolar protein trafficking; mediates docking/fusion of late transport intermediates with the vacuole; has an acidic di-leucine sorting signal and C-terminal transmembrane region
+S000034700	CDS					YOR106W		15	519121	519972	W		2011-02-03	1996-07-31	
+S000005633	ORF	Verified	YOR107W	RGS2	GTPase-activating protein RGS2	chromosome 15		15	521353	522282	W		2011-02-03	1996-07-31	Negative regulator of glucose-induced cAMP signaling; directly activates the GTPase activity of the heterotrimeric G protein alpha subunit Gpa2p
+S000034847	CDS					YOR107W		15	521353	522282	W		2011-02-03	1996-07-31	
+S000005634	ORF	Verified	YOR108W	LEU9	2-isopropylmalate synthase LEU9	chromosome 15		15	523027	524841	W		2011-02-03	1996-07-31	Alpha-isopropylmalate synthase II (2-isopropylmalate synthase); catalyzes the first step in the leucine biosynthesis pathway; the minor isozyme, responsible for the residual alpha-IPMS activity detected in a leu4 null mutant; LEU9 has a paralog, LEU4, that arose from the whole genome duplication
+S000034978	CDS					YOR108W		15	523027	524841	W		2011-02-03	1996-07-31	
+S000028711	ORF	Dubious	YOR108C-A			chromosome 15		15	524814	524605	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032677	CDS					YOR108C-A		15	524814	524605	C		2011-02-03	2003-07-29	
+S000005635	ORF	Verified	YOR109W	INP53	phosphatidylinositol-3-/phosphoinositide 5-phosphatase INP53|SOP2|SJL3	chromosome 15	L000003984	15	525278	528601	W		2011-02-03	1996-07-31	Polyphosphatidylinositol phosphatase; dephosphorylates multiple phosphatidylinositol phosphates; involved in trans Golgi network-to-early endosome pathway; hyperosmotic stress causes translocation to actin patches; contains Sac1 and 5-ptase domains; INP53 has a paralog, INP52, that arose from the whole genome duplication
+S000035927	CDS					YOR109W		15	525278	528601	W		2011-02-03	1996-07-31	
+S000005636	ORF	Verified	YOR110W	TFC7	transcription factor TFIIIC subunit TFC7|tau 55	chromosome 15		15	528941	530248	W		2011-02-03	1996-07-31	RNA pol III transcription initiation factor complex (TFIIIC) subunit; part of the TauA globular domain of TFIIIC that binds DNA at the BoxA promoter sites of tRNA and similar genes; TFC7 has a paralog, YNL108C, that arose from the whole genome duplication
+S000036863	CDS					YOR110W		15	528941	530248	W		2011-02-03	1996-07-31	
+S000005637	ORF	Uncharacterized	YOR111W			chromosome 15		15	530429	531127	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000036919	CDS					YOR111W		15	530429	531127	W		2011-02-03	1996-07-31	
+S000005638	ORF	Verified	YOR112W	CEX1		chromosome 15		15	531508	533793	W		2011-02-03	1996-07-31	Component of nuclear aminoacylation-dependent tRNA export pathway; cytoplasmic; interacts with nuclear pore component Nup116p; copurifies with tRNA export receptors Los1p and Msn5p, as well as eIF-1a; required for activation of RAN GTPase Gsp1p and dissociation of receptor-tRNA-Gsp1p export complex; recruits Rna1p from cytoplasm to NPC, facilitates Rna1p activation of Gsp1p GTPase activity by enabling Rna1p to gain access to Gsp1p-GTP bound to export receptor tRNA complex
+S000036975	CDS					YOR112W		15	531508	533793	W		2011-02-03	1996-07-31	
+S000005639	ORF	Verified	YOR113W	AZF1		chromosome 15	L000000158	15	534075	536819	W		2011-02-03	1996-07-31	Zinc-finger transcription factor; involved in diauxic shift; in the presence of glucose, activates transcription of genes involved in growth and carbon metabolism; in nonfermentable carbon sources, activates transcription of genes involved in maintenance of cell wall integrity; relocalizes to the cytosol in response to hypoxia
+S000037745	CDS					YOR113W		15	534075	536819	W		2011-02-03	1996-07-31	
+S000005640	ORF	Uncharacterized	YOR114W			chromosome 15		15	537570	538454	W		2011-02-03	1996-07-31	Putative protein of unknown function; null mutant is viable
+S000037834	CDS					YOR114W		15	537570	538454	W		2011-02-03	1996-07-31	
+S000005641	ORF	Verified	YOR115C	TRS33		chromosome 15	S000007434	15	539465	538659	C		2011-02-03	1996-07-31	Core component of TRAPP complexes I, II and IV; transport protein particle (TRAPP) complexes are related multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII, and IV); proposed subunit of a novel complex, TRAPPIV, that may function redundantly with TRAPPIII as a GEF that activates Ypt1 during autophagy
+S000037875	CDS					YOR115C		15	539465	538659	C		2011-02-03	1996-07-31	
+S000005642	ORF	Verified	YOR116C	RPO31	DNA-directed RNA polymerase III core subunit RPO31|C160|RPC160|RPC1	chromosome 15	L000001746|L000001694	15	544145	539763	C	59	2011-02-03	1996-07-31	RNA polymerase III largest subunit C160; part of core enzyme; similar to bacterial beta-prime subunit and to RPA190 and RPO21
+S000030813	CDS					YOR116C		15	544145	539763	C		2011-02-03	1996-07-31	
+S000005643	ORF	Verified	YOR117W	RPT5	proteasome regulatory particle base subunit RPT5|YTA1	chromosome 15	L000002555	15	545029	546333	W		2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; recruited to the GAL1-10 promoter region upon induction of transcription; similar to human TBP1
+S000030925	CDS					YOR117W		15	545029	546333	W		2011-02-03	1996-07-31	
+S000005644	ORF	Verified	YOR118W	RTC5		chromosome 15		15	546857	548560	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; null mutation suppresses cdc13-1 temperature sensitivity
+S000030998	CDS					YOR118W		15	546857	548560	W		2011-02-03	1996-07-31	
+S000005645	ORF	Verified	YOR119C	RIO1	protein kinase RIO1|RRP10	chromosome 15	L000003989	15	550246	548792	C		2011-02-03	1996-07-31	Serine kinase involved in cell cycle regulation and rDNA integrity; associated with late pre-40S particles via its conserved C-terminal domain and participates in late 40S biogenesis; association with pre-40S particles regulated by its catalytic ATPase site and likely occurs after the release of Rio2p from these particles; involved in cell cycle progression and processing of the 20S pre-rRNA into mature 18S rRNA; phosphorylates Rpa43p in anaphase to remove Pol I from rDNA
+S000031034	CDS					YOR119C		15	550246	548792	C		2011-02-03	1996-07-31	
+S000005646	ORF	Verified	YOR120W	GCY1	glycerol 2-dehydrogenase (NADP(+)) GCY1|GCY	chromosome 15	L000000694	15	551114	552052	W		2011-02-03	1996-07-31	Glycerol dehydrogenase; involved in an alternative pathway for glycerol catabolism used under microaerobic conditions; also has mRNA binding activity; member of the aldo-keto reductase (AKR) family; human homolog AKR1B1 can complement yeast null mutant; protein abundance increases in response to DNA replication stress; GCY1 has a paralog, YPR1, that arose from the whole genome duplication
+S000033029	CDS					YOR120W		15	551114	552052	W		2011-02-03	1996-07-31	
+S000005647	ORF	Dubious	YOR121C			chromosome 15		15	552103	551798	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene GCY1/YOR120W
+S000033061	CDS					YOR121C		15	552103	551798	C		2011-02-03	1996-07-31	
+S000005648	ORF	Verified	YOR122C	PFY1	profilin|CLS5|PRF1	chromosome 15	L000001407	15	552887	552298	C	64	2011-02-03	1996-07-31	Profilin; binds actin, phosphatidylinositol 4,5-bisphosphate, and polyproline regions; involved in cytoskeleton organization; required for normal timing of actin polymerization in response to thermal stress; protein abundance increases in response to DNA replication stress; highly conserved protein; human PFN1 (profilin 1) complements temperature sensitive pfy1 mutants, PFN1 mutations are a rare cause of ALS
+S000033159	CDS					YOR122C		15	552665	552298	C		2011-02-03	1996-07-31	
+S000033158	CDS					YOR122C		15	552887	552875	C		2011-02-03	1996-07-31	
+S000033160	intron					YOR122C		15	552874	552666	C		2011-02-03	1996-07-31	
+S000005649	ORF	Verified	YOR123C	LEO1		chromosome 15	L000000936	15	554570	553176	C		2011-02-03	1996-07-31	Component of the Paf1 complex; which associates with RNA polymerase II and is involved in histone methylation; plays a role in regulating Ty1 transposition; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay
+S000033954	CDS					YOR123C		15	554570	553176	C		2011-02-03	1996-07-31	
+S000005650	ORF	Verified	YOR124C	UBP2	ubiquitin-specific protease UBP2	chromosome 15	L000002416	15	558642	554824	C		2011-02-03	1996-07-31	Ubiquitin-specific protease; removes ubiquitin from ubiquitinated proteins; controls K63 homeostasis during oxidative stress; deubiquitinates Rsp5p and is required for MVB sorting of membrane proteins; can cleave polyubiquitin and has isopeptidase activity
+S000034064	CDS					YOR124C		15	558642	554824	C		2011-02-03	1996-07-31	
+S000005651	ORF	Verified	YOR125C	CAT5	putative monooxygenase CAT5|COQ7	chromosome 15	L000000219	15	559731	559030	C		2011-02-03	2003-09-22|1996-07-31	Protein required for ubiquinone (Coenzyme Q) biosynthesis; localizes to the matrix face of the mitochondrial inner membrane in a large complex with ubiquinone biosynthetic enzymes; required for gluconeogenic gene activation
+S000034156	CDS					YOR125C		15	559731	559030	C		2011-02-03	2003-09-22|1996-07-31	
+S000005652	ORF	Verified	YOR126C	IAH1	isoamyl acetate-hydrolyzing esterase	chromosome 15	L000003383	15	560677	559961	C		2011-02-03	1996-07-31	Isoamyl acetate-hydrolyzing esterase; required in balance with alcohol acetyltransferase to maintain optimal amounts of isoamyl acetate, which is particularly important in sake brewing
+S000035099	CDS					YOR126C		15	560677	559961	C		2011-02-03	1996-07-31	
+S000005653	ORF	Verified	YOR127W	RGA1	THE1|DBM1	chromosome 15	L000002626	15	561170	564193	W		2011-02-03	1996-07-31	GTPase-activating protein for polarity-establishment protein Cdc42p; implicated in control of septin organization, pheromone response, and haploid invasive growth; relocalizes from bud neck to cytoplasm upon DNA replication stress; RGA1 has a paralog, RGA2, that arose from the whole genome duplication
+S000035296	CDS					YOR127W		15	561170	564193	W		2011-02-03	1996-07-31	
+S000005654	ORF	Verified	YOR128C	ADE2	phosphoribosylaminoimidazole carboxylase ADE2	chromosome 15	L000000032	15	566191	564476	C	64	2011-02-03	1996-07-31	Phosphoribosylaminoimidazole carboxylase; catalyzes a step in the 'de novo' purine nucleotide biosynthetic pathway; red pigment accumulates in mutant cells deprived of adenine
+S000035306	CDS					YOR128C		15	566191	564476	C		2011-02-03	1996-07-31	
+S000114843	ARS		ARS1516	ARS1516	ARSXV-567|ADE2 ARS	chromosome 15		15	566410	566643			2011-02-03	2006-04-12|2006-09-08	Autonomously Replicating Sequence
+S000005655	ORF	Verified	YOR129C	AFI1		chromosome 15		15	569558	566877	C		2011-02-03	1996-07-31	Arf3p polarization-specific docking factor; required for the polarized distribution of the ADP-ribosylation factor, Arf3p; participates in polarity development and maintenance of a normal haploid budding pattern; interacts with Cnm7p
+S000035385	CDS					YOR129C		15	569558	566877	C		2011-02-03	1996-07-31	
+S000005656	ORF	Verified	YOR130C	ORT1	ARG11	chromosome 15	L000003289	15	570807	569929	C		2011-02-03	1996-07-31|2011-02-03	Ornithine transporter of the mitochondrial inner membrane; exports ornithine from mitochondria as part of arginine biosynthesis; functionally complemented by human ortholog, SLC25A15, which is associated with hyperammonaemia-hyperornithinaemia-homocitrullinuria (HHH) syndrome, but HHH-associated variants fail to complement
+S000031722	CDS					YOR130C		15	570807	569929	C		2011-02-03	1996-07-31|2011-02-03	
+S000006545	tRNA_gene		tD(GUC)O			chromosome 15	L000003710	15	571958	572029	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000030425	noncoding_exon					tD(GUC)O		15	571958	572029	W		2011-02-03	2000-05-19	
+S000005657	ORF	Verified	YOR131C		putative haloacid dehalogenase-like hydrolase	chromosome 15		15	572838	572182	C		2011-02-03	1996-07-31	Putative haloacid dehalogenase-like hydrolase; non-essential gene; overexpression causes a cell cycle delay or arrest; protein abundance increases in response to DNA replication stress
+S000031872	CDS					YOR131C		15	572838	572182	C		2011-02-03	1996-07-31	
+S000005658	ORF	Verified	YOR132W	VPS17	retromer subunit VPS17|VPT3|PEP21	chromosome 15	L000002472|S000029642|L000002479	15	573175	574830	W		2011-02-03	1996-07-31	Subunit of the membrane-associated retromer complex; essential for endosome-to-Golgi retrograde protein transport; peripheral membrane protein that assembles onto the membrane with Vps5p to promote vesicle formation; required for recruiting the retromer complex to the endosome membranes
+S000037422	CDS					YOR132W		15	573175	574830	W		2011-02-03	1996-07-31	
+S000005659	ORF	Verified	YOR133W	EFT1	elongation factor 2	chromosome 15	L000000543	15	575098	577626	W		2011-02-03	1996-07-31	Elongation factor 2 (EF-2), also encoded by EFT2; catalyzes ribosomal translocation during protein synthesis; contains diphthamide, the unique posttranslationally modified histidine residue specifically ADP-ribosylated by diphtheria toxin; EFT1 has a paralog, EFT2, that arose from the whole genome duplication
+S000037496	CDS					YOR133W		15	575098	577626	W		2011-02-03	1996-07-31	
+S000005660	ORF	Verified	YOR134W	BAG7		chromosome 15	L000003395	15	578564	579793	W		2011-02-03	1996-07-31	Rho GTPase activating protein (RhoGAP); stimulates the intrinsic GTPase activity of Rho1p, which plays a bud growth by regulating actin cytoskeleton organization and cell wall biosynthesis, resulting in the downregulation of Rho1p; structurally and functionally related to Sac7p; BAG7 has a paralog, SAC7, that arose from the whole genome duplication
+S000037586	CDS					YOR134W		15	578564	579793	W		2011-02-03	1996-07-31	
+S000005662	ORF	Verified	YOR136W	IDH2	isocitrate dehydrogenase (NAD(+)) IDH2	chromosome 15	L000000850	15	580250	581359	W		2011-02-03	1996-07-31	Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase; complex catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle; phosphorylated
+S000030498	CDS					YOR136W		15	580250	581359	W		2011-02-03	1996-07-31	
+S000005661	ORF	Dubious	YOR135C	IRC14		chromosome 15		15	580500	580159	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YOR136W; null mutant displays increased levels of spontaneous Rad52 foci
+S000037633	CDS					YOR135C		15	580500	580159	C		2011-02-03	1996-07-31	
+S000005663	ORF	Verified	YOR137C	SIA1		chromosome 15		15	583681	581813	C		2011-02-03	1996-07-31	Protein of unassigned function; involved in activation of the Pma1p plasma membrane H+-ATPase by glucose; contains peptide signal for membrane localization
+S000030527	CDS					YOR137C		15	583681	581813	C		2011-02-03	1996-07-31	
+S000005664	ORF	Verified	YOR138C	RUP1		chromosome 15		15	586324	584309	C		2011-02-03	1996-07-31	Protein that regulates ubiquitination of Rsp5p; has a WW domain consensus motif of PPPSY (residues 131-135) that mediates binding of Rsp5p to Ubp2p; contains an UBA domain; relative distribution to the nucleus increases upon DNA replication stress
+S000030602	CDS					YOR138C		15	586324	584309	C		2011-02-03	1996-07-31	
+S000005666	ORF	Verified	YOR140W	SFL1		chromosome 15	L000001869	15	586981	589281	W		2011-02-03	1996-07-31|2011-02-03	Transcriptional repressor and activator; involved in repression of flocculation-related genes, and activation of stress responsive genes; has direct role in INO1 transcriptional memory; negatively regulated by cAMP-dependent protein kinase A subunit Tpk2p; premature stop codon (C1430T, Q477-stop) in SK1 background is linked to the aggressively invasive phenotype of SK1 relative to BY4741 (S288C)
+S000030239	CDS					YOR140W		15	586981	589281	W		2011-02-03	1996-07-31|2011-02-03	
+S000005665	ORF	Dubious	YOR139C			chromosome 15		15	587342	586950	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SFL1/YOR140W
+S000030683	CDS					YOR139C		15	587342	586950	C		2011-02-03	1996-07-31	
+S000005667	ORF	Verified	YOR141C	ARP8		chromosome 15	L000003437	15	592587	589942	C		2011-02-03	1996-07-31	Nuclear actin-related protein involved in chromatin remodeling; component of chromatin-remodeling enzyme complexes; has mRNA binding activity
+S000030308	CDS					YOR141C		15	592587	589942	C		2011-02-03	1996-07-31	
+S000005668	ORF	Verified	YOR142W	LSC1	succinate--CoA ligase (GDP-forming) subunit alpha	chromosome 15	L000004591	15	593057	594046	W		2011-02-03	1996-07-31	Alpha subunit of succinyl-CoA ligase; succinyl-CoA ligase is a mitochondrial enzyme of the TCA cycle that catalyzes the nucleotide-dependent conversion of succinyl-CoA to succinate; phosphorylated
+S000033682	CDS					YOR142W		15	593057	594046	W		2011-02-03	1996-07-31	
+S000006573	tRNA_gene		tG(CCC)O	SUF5		chromosome 15	L000002153|L000003716	15	594425	594354	C	76	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
+S000032361	noncoding_exon					tG(CCC)O		15	594425	594354	C		2011-02-03	2000-05-19	
+S000007169	long_terminal_repeat		YORWdelta12			chromosome 15		15	594512	594819	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007170	long_terminal_repeat		YORWdelta13			chromosome 15		15	594820	595151	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007182	LTR_retrotransposon		YORWTy1-2		Ty1	chromosome 15		15	594820	600733	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007351	transposable_element_gene		YOR142W-A		gag protein	chromosome 15		15	595112	596434	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000036110	CDS					YOR142W-A		15	595112	596434	W		2011-02-03	1999-07-17	
+S000007352	transposable_element_gene		YOR142W-B		gag-pol fusion protein	chromosome 15		15	595112	600380	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000036113	CDS					YOR142W-B		15	595112	596416	W		2011-02-03	1999-07-17	
+S000036114	CDS					YOR142W-B		15	596418	600380	W		2011-02-03	1999-07-17	
+S000036115	plus_1_translational_frameshift					YOR142W-B		15	596417	596417	W		2011-02-03	1999-07-17	
+S000007171	long_terminal_repeat		YORWdelta14			chromosome 15		15	600402	600733	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007643	ARS		ARS1502		ARS1517	chromosome 15		15	600886	600960			2011-02-03	2001-03-06	Autonomously Replicating Sequence
+S000005669	ORF	Verified	YOR143C	THI80	thiamine diphosphokinase	chromosome 15	L000002297	15	602342	601383	C		2011-02-03	1996-07-31	Thiamine pyrophosphokinase; phosphorylates thiamine to produce the coenzyme thiamine pyrophosphate (thiamine diphosphate)
+S000033738	CDS					YOR143C		15	602342	601383	C		2011-02-03	1996-07-31	
+S000005670	ORF	Verified	YOR144C	ELG1	RTT110	chromosome 15	S000007438	15	605092	602717	C		2011-02-03	1996-07-31	Subunit of an alternative replication factor C complex; important for DNA replication and genome integrity; suppresses spontaneous DNA damage; involved in homologous recombination-mediated repair and telomere homeostasis; required for PCNA (Pol30p) unloading during DNA replication
+S000033871	CDS					YOR144C		15	605092	602717	C		2011-02-03	1996-07-31	
+S000005672	ORF	Dubious	YOR146W			chromosome 15		15	605873	606178	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene PNO1/YOR145C
+S000034948	CDS					YOR146W		15	605873	606178	W		2011-02-03	1996-07-31	
+S000005671	ORF	Verified	YOR145C	PNO1	RRP20|DIM2	chromosome 15		15	606171	605347	C		2011-02-03	1996-07-31	Essential nucleolar protein required for pre-18S rRNA processing; interacts with Dim1p, an 18S rRNA dimethyltransferase, and also with Nob1p, which is involved in proteasome biogenesis; contains a KH domain
+S000033985	CDS					YOR145C		15	606171	605347	C		2011-02-03	1996-07-31	
+S000005673	ORF	Verified	YOR147W	MDM32		chromosome 15		15	606607	608475	W		2011-02-03	1996-07-31|2005-11-30	Mitochondrial inner membrane protein with similarity to Mdm31p; required for normal mitochondrial morphology and inheritance; interacts genetically with MMM1, MDM10, MDM12, and MDM34; variation between SK1 and S288C at residues 182 and 262 impacts invasive growth and mitochondrial network structure
+S000035083	CDS					YOR147W		15	606607	608475	W		2011-02-03	1996-07-31|2005-11-30	
+S000005674	ORF	Verified	YOR148C	SPP2		chromosome 15	L000002631	15	609197	608640	C		2011-02-03	1996-07-31	Essential protein that promotes the first step of splicing; required for the final stages of spliceosome maturation and activation; interacts with Prp2p, which may release Spp2p from the spliceosome following the first cleavage reaction; stimulates Prp2p ATPase activity
+S000035131	CDS					YOR148C		15	609197	608640	C		2011-02-03	1996-07-31	
+S000005675	ORF	Verified	YOR149C	SMP3	glycosylphosphatidylinositol-alpha 1,2 mannosyltransferase|SAP2|LAS2	chromosome 15	L000001935	15	611388	609838	C		2011-02-03	1996-07-31|2011-02-03	Alpha 1,2-mannosyltransferase; involved in glycosyl phosphatidyl inositol (GPI) biosynthesis; required for addition of the fourth, side branching mannose to the GPI core structure
+S000036016	CDS					YOR149C		15	611388	609838	C		2011-02-03	1996-07-31|2011-02-03	
+S000005676	ORF	Verified	YOR150W	MRPL23	mitochondrial 54S ribosomal protein YmL23|YmL23	chromosome 15		15	611999	612490	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; localizes to vacuole in response to H2O2
+S000034760	CDS					YOR150W		15	611999	612490	W		2011-02-03	1996-07-31	
+S000130136	ARS		ARS1518		ARSXV-618	chromosome 15		15	616670	617517			2011-02-03	2009-05-05	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000005677	ORF	Verified	YOR151C	RPB2	DNA-directed RNA polymerase II core subunit RPB2|B150|SOH2|SIT2|RPO22|RPB150	chromosome 15	L000001588|L000001676	15	616671	612997	C	80	2011-02-03	1996-07-31	RNA polymerase II second largest subunit B150; part of central core; similar to bacterial beta subunit
+S000035654	CDS					YOR151C		15	616671	612997	C		2011-02-03	1996-07-31	
+S000005678	ORF	Verified	YOR152C	ATG40		chromosome 15		15	618288	617518	C		2011-02-03	1996-07-31	Autophagy receptor with a role in endoplasmic reticulum degradation; involved specifically in autophagy of cortical and cytoplasmic ER in response to nitrogen starvation or rapamycin treatment; localizes to the cortical and cytoplasmic ER; similar to human FAM134B, which is also involved in ER autophagy and is associated with sensory neuropathy
+S000035770	CDS					YOR152C		15	618288	617518	C		2011-02-03	1996-07-31	
+S000005679	ORF	Verified	YOR153W	PDR5	ATP-binding cassette multidrug transporter PDR5|STS1|YDR1|LEM1	chromosome 15	L000001365|L000002136|L000002504	15	619840	624375	W	85	2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; multidrug transporter actively regulated by Pdr1p; also involved in steroid transport, cation resistance, and cellular detoxification during exponential growth; PDR5 has a paralog, PDR15, that arose from the whole genome duplication
+S000035997	CDS					YOR153W		15	619840	624375	W		2011-02-03	1996-07-31	
+S000005680	ORF	Verified	YOR154W	SLP1		chromosome 15		15	624729	626492	W		2011-02-03	1996-07-31	Glycosylated integral ER membrane protein of unknown function; forms an ER-membrane associated protein complex with Emp65p; member of the SUN-like family of proteins; genetic interactions suggest a role in folding of ER membrane proteins; required for nuclear envelope localization of Mps3p
+S000037835	CDS					YOR154W		15	624729	626492	W		2011-02-03	1996-07-31	
+S000005681	ORF	Verified	YOR155C	ISN1	IMP 5'-nucleotidase	chromosome 15		15	627980	626628	C		2011-02-03	1996-07-31	Inosine 5'-monophosphate (IMP)-specific 5'-nucleotidase; catalyzes the breakdown of IMP to inosine; responsible for production of nicotinamide riboside and nicotinic acid riboside; expression positively regulated by nicotinic acid and glucose availability; does not show similarity to known 5'-nucleotidases from other organisms
+S000037874	CDS					YOR155C		15	627980	626628	C		2011-02-03	1996-07-31	
+S000005682	ORF	Verified	YOR156C	NFI1	SUMO ligase NFI1|SIZ2	chromosome 15	L000002966	15	630540	628360	C		2011-02-03	1996-07-31	SUMO E3 ligase; catalyzes sumoylation of Yku70p/80p and Sir4p promoting telomere anchoring to the nuclear envelope and regulating telomerase activity; DNA-bound form catalyzes a DNA-damaged triggered sumoylation wave resulting in multisite modification of several DNA repair proteins, enhancing interactions between these proteins and accelerating repair; sumoylates Cse4p, a prerequisite for STUbL-mediated Ub-dependent degradation; role in telomere length maintenance
+S000029894	CDS					YOR156C		15	630540	628360	C		2011-02-03	1996-07-31	
+S000005683	ORF	Verified	YOR157C	PUP1	proteasome core particle subunit beta 2	chromosome 15	L000001530	15	631751	630966	C	84.6	2011-02-03	1996-07-31	Beta 2 subunit of the 20S proteasome; endopeptidase with trypsin-like activity that cleaves after basic residues; synthesized as a proprotein before being proteolytically processed for assembly into 20S particle; human homolog is subunit Z
+S000029992	CDS					YOR157C		15	631751	630966	C		2011-02-03	1996-07-31	
+S000005684	ORF	Verified	YOR158W	PET123	mitochondrial 37S ribosomal protein PET123	chromosome 15	L000001398	15	632164	633120	W	84.2	2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; PET123 exhibits genetic interactions with PET122, which encodes a COX3 mRNA-specific translational activator
+S000031031	CDS					YOR158W		15	632164	633120	W		2011-02-03	1996-07-31	
+S000005685	ORF	Verified	YOR159C	SME1	mRNA splicing protein SME1|Sm E|SmE	chromosome 15	L000004252	15	633566	633282	C		2011-02-03	1996-07-31	Core Sm protein Sm E; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Smd3p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm E
+S000031069	CDS					YOR159C		15	633566	633282	C		2011-02-03	1996-07-31	
+S000005686	ORF	Verified	YOR160W	MTR10	KAP111	chromosome 15	L000003296	15	633839	636757	W		2011-02-03	1996-07-31	Nuclear import receptor; mediates the nuclear localization of proteins involved in mRNA-nucleus export; promotes dissociation of mRNAs from the nucleus-cytoplasm mRNA shuttling protein Npl3p; required for retrograde import of mature tRNAs; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress
+S000030698	CDS					YOR160W		15	633839	636757	W		2011-02-03	1996-07-31	
+S000028713	ORF	Dubious	YOR161W-A			chromosome 15		15	637574	637654	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032680	CDS					YOR161W-A		15	637574	637654	W		2011-02-03	2003-07-29	
+S000028714	ORF	Dubious	YOR161W-B			chromosome 15		15	637975	638235	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032682	CDS					YOR161W-B		15	637975	638235	W		2011-02-03	2003-07-29	
+S000005687	ORF	Verified	YOR161C	PNS1		chromosome 15		15	638558	636939	C		2011-02-03	1996-07-31	Protein of unknown function; has similarity to Torpedo californica tCTL1p, which is postulated to be a choline transporter, neither null mutation nor overexpression affects choline transport
+S000030748	CDS					YOR161C		15	638558	636939	C		2011-02-03	1996-07-31	
+S000028712	ORF	Uncharacterized	YOR161C-C			chromosome 15		15	639267	639121	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032678	CDS					YOR161C-C		15	639267	639121	C		2011-02-03	2003-07-29	
+S000005688	ORF	Verified	YOR162C	YRR1	PDR2	chromosome 15	L000004200|S000029349|L000001362	15	641992	639560	C	89	2011-02-03	1996-07-31	Zn2-Cys6 zinc-finger transcription factor; activates genes involved in multidrug resistance; paralog of Yrm1p, acting on an overlapping set of target genes; YRR1 has a paralog, PDR8, that arose from the whole genome duplication
+S000030856	CDS					YOR162C		15	641992	639560	C		2011-02-03	1996-07-31	
+S000005689	ORF	Verified	YOR163W	DDP1	polyphosphatase DDP1	chromosome 15	S000007498	15	642741	643307	W		2011-02-03	1996-07-31	Polyphosphate phosphatase; hydrolyzes diphosphorylated inositol polyphosphates and diadenosine polyphosphates; high specificity for diadenosine hexa- and pentaphosphates; contains endopolyphosphatase activity with a high affinity for polyphosphates, an activity also observed for its human DIPP homologs; possesses mRNA decapping activity; nudix hydrolase family member; protein abundance increases in response to DNA replication stress
+S000031902	CDS					YOR163W		15	642741	643307	W		2011-02-03	1996-07-31	
+S000005690	ORF	Verified	YOR164C	GET4	ENV8	chromosome 15		15	644332	643394	C		2011-02-03	1996-07-31	Protein involved in inserting tail-anchored proteins into ER membranes; forms a complex with Mdy2p; highly conserved across species and homologous to human gene C7orf20
+S000031981	CDS					YOR164C		15	644332	643394	C		2011-02-03	1996-07-31	
+S000005691	ORF	Verified	YOR165W	SEY1	dynamin-like GTPase SEY1	chromosome 15		15	644566	646896	W		2011-02-03	1996-07-31	Dynamin-like GTPase that mediates homotypic ER fusion; has a role in ER morphology; interacts physically and genetically with Yop1p and Rtn1p; functional ortholog of the human atlastin ATL1, defects in which cause a form of the human disease hereditary spastic paraplegia; homolog of Arabidopsis RHD3
+S000034063	CDS					YOR165W		15	644566	646896	W		2011-02-03	1996-07-31	
+S000005692	ORF	Verified	YOR166C	SWT1	mRNA-processing endoribonuclease	chromosome 15		15	648502	647126	C		2011-02-03	1996-07-31	RNA endoribonuclease involved in perinuclear mRNP quality control; involved in perinuclear mRNP quality control via the turnover of aberrant, unprocessed pre-mRNAs; interacts with subunits of THO/TREX, TREX-2, and RNA polymerase II; contains a PIN (PilT N terminus) domain
+S000034075	CDS					YOR166C		15	648502	647126	C		2011-02-03	1996-07-31	
+S000005693	ORF	Verified	YOR167C	RPS28A	eS28|ribosomal 40S subunit protein S28A|S28e|YS27|S33A|S28A|RPS33A	chromosome 15	L000001767	15	649007	648804	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; has an extraribosomal function in regulation of RPS28B, in which Rps28Ap binds to a decapping complex via Edc3p, which then binds to RPS28B mRNA leading to its decapping and degradation; homologous to mammalian ribosomal protein S28, no bacterial homolog; RPS28A has a paralog, RPS28B, that arose from the whole genome duplication
+S000034207	CDS					YOR167C		15	649007	648804	C		2011-02-03	1996-07-31	
+S000005694	ORF	Verified	YOR168W	GLN4	glutamine--tRNA ligase	chromosome 15	L000000711	15	649303	651732	W	88	2011-02-03	1996-07-31	Glutamine tRNA synthetase; monomeric class I tRNA synthetase that catalyzes the specific glutaminylation of tRNA(Gln); N-terminal domain proposed to be involved in enzyme-tRNA interactions
+S000034317	CDS					YOR168W		15	649303	651732	W		2011-02-03	1996-07-31	
+S000005695	ORF	Dubious	YOR169C			chromosome 15		15	651840	651376	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene GLN4/YOR168W
+S000034343	CDS					YOR169C		15	651840	651376	C		2011-02-03	1996-07-31	
+S000005696	ORF	Dubious	YOR170W			chromosome 15		15	651858	652163	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene LCB4
+S000033855	CDS					YOR170W		15	651858	652163	W		2011-02-03	1996-07-31	
+S000005697	ORF	Verified	YOR171C	LCB4	sphinganine kinase LCB4	chromosome 15	L000004328	15	653884	652010	C		2011-02-03	1996-07-31	Sphingoid long-chain base kinase; responsible for synthesis of long-chain base phosphates, which function as signaling molecules, regulates synthesis of ceramide from exogenous long-chain bases, localizes to the Golgi and late endosomes; LCB4 has a paralog, LCB5, that arose from the whole genome duplication
+S000033881	CDS					YOR171C		15	653884	652010	C		2011-02-03	1996-07-31	
+S000005698	ORF	Verified	YOR172W	YRM1		chromosome 15		15	654210	656570	W		2011-02-03	1996-07-31	Zinc finger transcription factor involved in multidrug resistance; Zn(2)-Cys(6) zinc finger transcription factor; activates genes involved in multidrug resistance; paralog of Yrr1p, acting on an overlapping set of target genes
+S000034873	CDS					YOR172W		15	654210	656570	W		2011-02-03	1996-07-31	
+S000118490	ARS		ARS1519		ARSXV-657	chromosome 15		15	656701	656772			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000005699	ORF	Verified	YOR173W	DCS2	5'-(N(7)-methyl 5'-triphosphoguanosine)-(mRNA) diphosphatase	chromosome 15		15	657264	658325	W		2011-02-03	1996-07-31|2006-10-05	m(7)GpppX pyrophosphatase regulator; non-essential, stress induced regulatory protein; modulates m7G-oligoribonucleotide metabolism; inhibits Dcs1p; regulated by Msn2p, Msn4p, and the Ras-cAMP-cAPK signaling pathway; mutant has increased aneuploidy tolerance; DCS2 has a paralog, DCS1, that arose from the whole genome duplication
+S000035026	CDS					YOR173W		15	657264	658325	W		2011-02-03	1996-07-31|2006-10-05	
+S000005700	ORF	Verified	YOR174W	MED4		chromosome 15	L000003915	15	658747	659601	W		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
+S000035222	CDS					YOR174W		15	658747	659601	W		2011-02-03	1996-07-31	
+S000005701	ORF	Verified	YOR175C	ALE1	lysophospholipid acyltransferase|LCA1|LPT1|SLC4	chromosome 15		15	661674	659815	C		2011-02-03	1996-07-31	Broad-specificity lysophospholipid acyltransferase; part of MBOAT family of membrane-bound O-acyltransferases; key component of Lands cycle; may have role in fatty acid exchange at sn-2 position of mature glycerophospholipids
+S000035274	CDS					YOR175C		15	661674	659815	C		2011-02-03	1996-07-31	
+S000005702	ORF	Verified	YOR176W	HEM15	ferrochelatase HEM15	chromosome 15	L000000766	15	662401	663582	W		2011-02-03	1996-07-31	Ferrochelatase; a mitochondrial inner membrane protein, catalyzes insertion of ferrous iron into protoporphyrin IX, the eighth and final step in the heme biosynthetic pathway; human homolog FECH can complement yeast mutant and allow growth of haploid null after sporulation of a heterozygous diploid
+S000036250	CDS					YOR176W		15	662401	663582	W		2011-02-03	1996-07-31	
+S000006766	tRNA_gene		tV(AAC)O			chromosome 15	L000003715	15	663885	663812	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000032969	noncoding_exon					tV(AAC)O		15	663885	663812	C		2011-02-03	2000-05-19	
+S000007163	long_terminal_repeat		YORCdelta15			chromosome 15		15	664324	664003	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007172	long_terminal_repeat		YORWdelta16			chromosome 15		15	664325	664469	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007173	long_terminal_repeat		YORWdelta17			chromosome 15		15	664813	665145	W		2011-02-03	2000-05-19	Ty2 LTR
+S000005703	ORF	Verified	YOR177C	MPC54		chromosome 15		15	667179	665785	C		2011-02-03	1996-07-31	Component of the meiotic outer plaque; a membrane-organizing center which is assembled on the cytoplasmic face of the spindle pole body during meiosis II and triggers the formation of the prospore membrane; potential Cdc28p substrate
+S000036281	CDS					YOR177C		15	667179	665785	C		2011-02-03	1996-07-31	
+S000005704	ORF	Verified	YOR178C	GAC1	protein phosphatase regulator GAC1	chromosome 15	L000000657	15	670241	667860	C	113	2011-02-03	1996-07-31	Regulatory subunit for Glc7p type-1 protein phosphatase (PP1); tethers Glc7p to Gsy2p glycogen synthase, binds Hsf1p heat shock transcription factor, required for induction of some HSF-regulated genes under heat shock; GAC1 has a paralog, PIG1, that arose from the whole genome duplication
+S000036360	CDS					YOR178C		15	670241	667860	C		2011-02-03	1996-07-31	
+S000005705	ORF	Verified	YOR179C	SYC1	cleavage polyadenylation factor subunit SYC1	chromosome 15		15	672411	671845	C		2011-02-03	1996-07-31	Subunit of the APT subcomplex of cleavage and polyadenylation factor; may have a role in 3' end formation of both polyadenylated and non-polyadenylated RNAs; SYC1 has a paralog, YSH1, that arose from the whole genome duplication
+S000030078	CDS					YOR179C		15	672411	671845	C		2011-02-03	1996-07-31	
+S000005706	ORF	Verified	YOR180C	DCI1	putative dodecenoyl-CoA isomerase DCI1|ECI2	chromosome 15	L000004175	15	675167	674352	C		2011-02-03	1996-07-31	Peroxisomal protein; identification as a delta(3,5)-delta(2,4)-dienoyl-CoA isomerase involved in fatty acid metabolism is disputed; DCI1 has a paralog, ECI1, that arose from the whole genome duplication
+S000037854	CDS					YOR180C		15	675167	674352	C		2011-02-03	1996-07-31	
+S000005707	ORF	Verified	YOR181W	LAS17	actin-binding protein LAS17|BEE1	chromosome 15	L000003068|L000003581	15	675939	677840	W		2011-02-03	1996-07-31	Actin assembly factor; C-terminal WCA domain activates Arp2/3 complex-mediated nucleation of branched actin filaments, polyproline domain nucleates actin filaments independent of Arp2/3; mutants are defective in endocytosis, bud site selection, cytokinesis; human homolog WAS (Wiskott-Aldrich Syndrome) implicated in severe immunodeficiency; human WAS complements yeast null mutant, but only in presence of WIPF1, which mediates localization of WAS to cortical patches
+S000029943	CDS					YOR181W		15	675939	677840	W		2011-02-03	1996-07-31	
+S000005708	ORF	Verified	YOR182C	RPS30B	eS30|ribosomal 40S subunit protein S30B|S30e|S30B	chromosome 15	L000003497	15	678793	678191	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S30, no bacterial homolog; RPS30B has a paralog, RPS30A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000030004	CDS					YOR182C		15	678379	678191	C		2011-02-03	1996-07-31	
+S000030003	CDS					YOR182C		15	678793	678791	C		2011-02-03	1996-07-31	
+S000030005	intron					YOR182C		15	678790	678380	C		2011-02-03	1996-07-31	
+S000005709	ORF	Uncharacterized	YOR183W	FYV12		chromosome 15		15	678872	679261	W		2011-02-03	1996-07-31	Protein of unknown function; required for survival upon exposure to K1 killer toxin
+S000031055	CDS					YOR183W		15	678872	679261	W		2011-02-03	1996-07-31	
+S000005710	ORF	Verified	YOR184W	SER1	O-phospho-L-serine:2-oxoglutarate transaminase|ADE9	chromosome 15	L000001865	15	679357	680544	W	98.2	2011-02-03	1996-07-31	3-phosphoserine aminotransferase; catalyzes the formation of phosphoserine from 3-phosphohydroxypyruvate, required for serine and glycine biosynthesis; regulated by the general control of amino acid biosynthesis mediated by Gcn4p; protein abundance increases in response to DNA replication stress
+S000031176	CDS					YOR184W		15	679357	680544	W		2011-02-03	1996-07-31	
+S000007300	snoRNA_gene		snR36	SNR36		chromosome 15	L000001974	15	680866	680685	C		2011-02-03	2000-05-19|2007-05-10	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of small subunit (SSU) rRNA at position U1187
+S000036766	noncoding_exon					snR36		15	680866	680685	C		2011-02-03	2000-05-19|2007-05-10	
+S000005711	ORF	Verified	YOR185C	GSP2	Ran GTPase GSP2|CNR2	chromosome 15	L000000737	15	682106	681444	C	98.6	2011-02-03	1996-07-31	GTP binding protein (mammalian Ranp homolog); involved in the maintenance of nuclear organization, RNA processing and transport; interacts with Kap121p, Kap123p and Pdr6p (karyophilin betas); not required for viability; protein abundance increases in response to DNA replication stress; GSP2 has a paralog, GSP1, that arose from the whole genome duplication
+S000031246	CDS					YOR185C		15	682106	681444	C		2011-02-03	1996-07-31	
+S000005712	ORF	Uncharacterized	YOR186W			chromosome 15		15	683111	683545	W		2011-02-03	1996-07-31	Putative protein of unknown function; proper regulation of expression during heat stress is sphingolipid-dependent; mCherry fusion protein localizes to the vacuole; YOR186W has a paralog, YLR297W, that arose from the whole genome duplication
+S000032297	CDS					YOR186W		15	683111	683545	W		2011-02-03	1996-07-31	
+S000028715	ORF	Dubious	YOR186C-A			chromosome 15		15	683538	683329	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032684	CDS					YOR186C-A		15	683538	683329	C		2011-02-03	2003-07-29	
+S000005713	ORF	Verified	YOR187W	TUF1	translation elongation factor Tu|tufM	chromosome 15	L000002390	15	684030	685343	W		2011-02-03	1996-07-31	Mitochondrial translation elongation factor Tu (EF-Tu); involved in fundamental pathway of mtDNA homeostasis; comprises both GTPase and guanine nucleotide exchange factor activities, while these activities are found in separate proteins in S. pombe and humans; rare mutations in human mitochondrial elongation factor Tu (EFTu) associated with severe lactic acidosis, rapidly progressive fatal encephalopathy, severe infantile macrocystic leukodystrophy with micropolygyria
+S000032398	CDS					YOR187W		15	684030	685343	W		2011-02-03	1996-07-31	
+S000005714	ORF	Verified	YOR188W	MSB1		chromosome 15	L000001184	15	685767	689180	W	103	2011-02-03	1996-07-31	Protein of unknown function; may be involved in positive regulation of 1,3-beta-glucan synthesis and the Pkc1p-MAPK pathway; multicopy suppressor of temperature-sensitive mutations in CDC24 and CDC42, and of mutations in BEM4; potential Cdc28p substrate; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000032501	CDS					YOR188W		15	685767	689180	W		2011-02-03	1996-07-31	
+S000005715	ORF	Verified	YOR189W	IES4		chromosome 15		15	689624	689974	W		2011-02-03	1996-07-31	Component of the INO80 chromatiin remodeling complex; target of the Mec1p/Tel1p DNA damage signaling pathway; proposed to link chromatin remodeling to replication checkpoint responses
+S000034540	CDS					YOR189W		15	689624	689974	W		2011-02-03	1996-07-31	
+S000005716	ORF	Verified	YOR190W	SPR1	glucan 1,3-beta-glucosidase|SSG1	chromosome 15	L000002020|L000002083	15	690695	692032	W		2011-02-03	1996-07-31	Sporulation-specific exo-1,3-beta-glucanase; contributes to ascospore thermoresistance; SPR1 has a paralog, EXG1, that arose from the whole genome duplication
+S000033255	CDS					YOR190W		15	690695	692032	W		2011-02-03	1996-07-31	
+S000005717	ORF	Verified	YOR191W	ULS1	translocase ULS1|RIS1|TID4|DIS1	chromosome 15	L000004381	15	692475	697334	W		2011-02-03	1996-07-31	Swi2/Snf2-related translocase, SUMO-Targeted Ubiquitin Ligase (STUbL); required for maintenance of NHEJ inhibition at telomeres; functions at telomeres to translocate and ubiquitinylate poly-sumoylated Rap1p for proteosomal degradation; plays role in antagonizing silencing during mating-type switching; only known STUbL with a translocase activity; contains RING finger domain; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000033303	CDS					YOR191W		15	692475	697334	W		2011-02-03	1996-07-31	
+S000005718	ORF	Verified	YOR192C	THI72	thiamine transporter	chromosome 15		15	700567	698768	C		2011-02-03	1996-07-31	Transporter of thiamine or related compound; contributes to uptake of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranoside (acadesine); shares sequence similarity with Thi7p
+S000034124	CDS					YOR192C		15	700567	698768	C		2011-02-03	1996-07-31	
+S000007164	long_terminal_repeat		YORCdelta18			chromosome 15		15	703582	703429	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007174	long_terminal_repeat		YORWdelta19			chromosome 15		15	703612	703762	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007180	long_terminal_repeat		YORWtau2			chromosome 15		15	703772	704062	W		2011-02-03	2000-05-19	Ty4 LTR
+S000028857	ORF	Uncharacterized	YOR192C-C			chromosome 15		15	704224	703988	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034570	CDS					YOR192C-C		15	704224	703988	C		2011-02-03	2003-07-29	
+S000007165	long_terminal_repeat		YORCdelta20			chromosome 15		15	704395	704063	C		2011-02-03	2000-05-19	Ty2 LTR
+S000007354	transposable_element_gene		YOR192C-B		gag-pol fusion protein	chromosome 15	S000029019	15	709732	704419	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000034414	CDS					YOR192C-B		15	708438	704419	C		2011-02-03	1999-07-17	
+S000034413	CDS					YOR192C-B		15	709732	708440	C		2011-02-03	1999-07-17	
+S000034415	plus_1_translational_frameshift					YOR192C-B		15	708439	708439	C		2011-02-03	1999-07-17	
+S000007353	transposable_element_gene		YOR192C-A		gag protein	chromosome 15		15	709732	708416	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000034406	CDS					YOR192C-A		15	709732	708416	C		2011-02-03	1999-07-17	
+S000007168	LTR_retrotransposon		YORCTy2-1		Ty2	chromosome 15		15	710023	704063	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007166	long_terminal_repeat		YORCdelta21			chromosome 15		15	710023	709691	C		2011-02-03	2000-05-19	Ty2 LTR
+S000007181	long_terminal_repeat		YORWtau3			chromosome 15		15	710024	710107	W		2011-02-03	2000-05-19	Ty4 LTR
+S000006665	tRNA_gene		tM(CAU)O1	IMT1		chromosome 15	L000003711	15	710201	710272	W		2011-02-03	2000-05-19	Methionine initiator tRNA (tRNA-Met); predicted by tRNAscan-SE analysis; one of four initiator methionine tRNAs in yeast that are functional for translation
+S000032163	noncoding_exon					tM(CAU)O1		15	710201	710272	W		2011-02-03	2000-05-19	
+S000005719	ORF	Verified	YOR193W	PEX27		chromosome 15		15	710446	711576	W		2011-02-03	1996-07-31	Peripheral peroxisomal membrane protein; involved in controlling peroxisome size and number, interacts with Pex25p; PEX27 has a paralog, PEX25, that arose from the whole genome duplication
+S000034339	CDS					YOR193W		15	710446	711576	W		2011-02-03	1996-07-31	
+S000005720	ORF	Verified	YOR194C	TOA1	transcription initiation factor IIA large subunit	chromosome 15	L000002316	15	712543	711683	C		2011-02-03	1996-07-31	TFIIA large subunit; involved in transcriptional activation, acts as antirepressor or as coactivator; required, along with Toa2p, for ribosomal protein gene transcription in vivo; homologous to largest and second largest subunits of human and Drosophila TFIIA
+S000034366	CDS					YOR194C		15	712543	711683	C		2011-02-03	1996-07-31	
+S000005721	ORF	Verified	YOR195W	SLK19		chromosome 15	L000004340	15	712866	715331	W		2011-02-03	1996-07-31	Kinetochore-associated protein; required for chromosome segregation and kinetochore clustering; required for normal segregation of chromosomes in meiosis and mitosis; component of the FEAR regulatory network, which promotes Cdc14p release from the nucleolus during anaphase; potential Cdc28p substrate
+S000035480	CDS					YOR195W		15	712866	715331	W		2011-02-03	1996-07-31	
+S000005722	ORF	Verified	YOR196C	LIP5	putative lipoate synthase	chromosome 15	L000002613	15	716837	715593	C		2011-02-03	1996-07-31	Protein involved in biosynthesis of the coenzyme lipoic acid; has similarity to E. coli lipoic acid synthase
+S000035507	CDS					YOR196C		15	716837	715593	C		2011-02-03	1996-07-31	
+S000005723	ORF	Verified	YOR197W	MCA1	Ca(2+)-dependent cysteine protease MCA1|YCA1	chromosome 15		15	717086	718384	W		2011-02-03	1996-07-31|2006-05-11	Ca2+-dependent cysteine protease; may cleave specific substrates during the stress response; regulates apoptosis upon H2O2 treatment; required for clearance of insoluble protein aggregates during normal growth; implicated in cell cycle dynamics and lifespan extension; undergoes autocatalytic processing; similar to mammalian metacaspases, but exists as a monomer due to an extra pair of anti-parallel beta-strands that block potential dimerization
+S000035631	CDS					YOR197W		15	717086	718384	W		2011-02-03	1996-07-31|2006-05-11	
+S000005724	ORF	Verified	YOR198C	BFR1		chromosome 15	L000000174	15	720065	718653	C		2011-02-03	1996-07-31	Component of mRNP complexes associated with polyribosomes; involved in localization of mRNAs to P bodies; implicated in secretion and nuclear segregation; multicopy suppressor of BFA (Brefeldin A) sensitivity
+S000036502	CDS					YOR198C		15	720065	718653	C		2011-02-03	1996-07-31	
+S000005725	ORF	Dubious	YOR199W			chromosome 15		15	720181	720510	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036654	CDS					YOR199W		15	720181	720510	W		2011-02-03	1996-07-31	
+S000005726	ORF	Dubious	YOR200W			chromosome 15		15	720417	720815	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MRM1/YOR201c
+S000036053	CDS					YOR200W		15	720417	720815	W		2011-02-03	1996-07-31	
+S000005727	ORF	Verified	YOR201C	MRM1	PET56	chromosome 15	L000001392	15	721708	720470	C	112	2011-02-03	1996-07-31	Ribose methyltransferase; modifies a functionally critical, conserved nucleotide in mitochondrial 21S rRNA
+S000036099	CDS					YOR201C		15	721708	720470	C		2011-02-03	1996-07-31	
+S000005728	ORF	Verified	YOR202W	HIS3	imidazoleglycerol-phosphate dehydratase HIS3|HIS8|HIS10	chromosome 15	L000000780|S000029212|L000000785	15	721946	722608	W	112	2011-02-03	1996-07-31	Imidazoleglycerol-phosphate dehydratase; catalyzes the sixth step in histidine biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts; transcription is regulated by general amino acid control via Gcn4p
+S000029880	CDS					YOR202W		15	721946	722608	W		2011-02-03	1996-07-31	
+S000005729	ORF	Dubious	YOR203W			chromosome 15		15	722565	722918	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 5' end of essential DED1 gene required for translation initiation
+S000031781	CDS					YOR203W		15	722565	722918	W		2011-02-03	1996-07-31	
+S000005730	ORF	Verified	YOR204W	DED1	DEAD-box ATP-dependent RNA helicase DED1|SPP81	chromosome 15	L000000500	15	722911	724725	W	114	2011-02-03	1996-07-31	ATP-dependent DEAD (Asp-Glu-Ala-Asp)-box RNA helicase; required for translation initiation of all yeast mRNAs; binds to mRNA cap-associated factors, and binding stimulates Ded1p RNA-dependent ATPase activity; mutation in human homolog DBY is associated with male infertility; human homolog DDX3X complements ded1 null mutation; DED1 has a paralog, DBP1, that arose from the whole genome duplication
+S000031924	CDS					YOR204W		15	722911	724725	W		2011-02-03	1996-07-31	
+S000005731	ORF	Verified	YOR205C	GEP3	MTG3|AIM40|LRC5|FMP38	chromosome 15		15	727234	725564	C		2011-02-03	1996-07-31	Protein required for mitochondrial ribosome small subunit biogenesis; null mutant is defective in respiration and in maturation of 15S rRNA; protein is localized to the mitochondrial inner membrane; null mutant interacts synthetically with prohibitin (Phb1p)
+S000031991	CDS					YOR205C		15	727234	725564	C		2011-02-03	1996-07-31	
+S000005732	ORF	Verified	YOR206W	NOC2	mRNA-binding ribosome synthesis protein NOC2	chromosome 15		15	727512	729644	W		2011-02-03	1996-07-31	Protein involved in ribosome biogenesis; forms a nucleolar complex with Mak21p that binds to 90S and 66S pre-ribosomes; forms a nuclear complex with Noc3p that binds to 66S pre-ribosomes; both complexes mediate intranuclear transport of ribosomal precursors; acts as part of a Mak21p-Noc2p-Rrp5p module that associates with nascent pre-rRNA during transcription and has a role in bigenesis of the large ribosomal subunit
+S000037497	CDS					YOR206W		15	727512	729644	W		2011-02-03	1996-07-31	
+S000118491	ARS		ARS1521		ARSXV-730	chromosome 15		15	729740	729969			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178185	ARS_consensus_sequence					ARS1521		15	729795	729811	W		2014-11-18	2014-11-18	
+S000005733	ORF	Verified	YOR207C	RET1	DNA-directed RNA polymerase III core subunit RET1|C128|RPC128|RPC2|PDS2	chromosome 15	L000001614	15	733457	730008	C	117	2011-02-03	1996-07-31	Second-largest subunit of RNA polymerase III; RNA polymerase III is responsible for the transcription of tRNA and 5S RNA genes, and other low molecular weight RNAs
+S000037554	CDS					YOR207C		15	733457	730008	C		2011-02-03	1996-07-31	
+S000005734	ORF	Verified	YOR208W	PTP2	tyrosine protein phosphatase PTP2	chromosome 15	L000001526	15	733925	736177	W		2011-02-03	1996-07-31	Nuclear phosphotyrosine-specific phosphatase involved in osmosensing; involved in the inactivation of mitogen-activated protein kinase (MAPK) during osmolarity sensing; dephosporylates Hog1p MAPK and regulates its localization; with Msg5p co-regulates the calcium signaling pathway
+S000037667	CDS					YOR208W		15	733925	736177	W		2011-02-03	1996-07-31	
+S000005735	ORF	Verified	YOR209C	NPT1	nicotinate phosphoribosyltransferase	chromosome 15	L000001275	15	737726	736437	C		2011-02-03	1996-07-31	Nicotinate phosphoribosyltransferase; acts in the salvage pathway of NAD+ biosynthesis; required for silencing at rDNA and telomeres and has a role in silencing at mating-type loci; localized to the nucleus
+S000030426	CDS					YOR209C		15	737726	736437	C		2011-02-03	1996-07-31	
+S000005736	ORF	Verified	YOR210W	RPB10	DNA-directed RNA polymerase core subunit RPB10|ABC10-beta	chromosome 15	L000001684	15	738320	738532	W		2011-02-03	1996-07-31	RNA polymerase subunit ABC10-beta; common to RNA polymerases I, II, and III
+S000037369	CDS					YOR210W		15	738320	738532	W		2011-02-03	1996-07-31	
+S000005737	ORF	Verified	YOR211C	MGM1	dynamin-related GTPase MGM1|MNA1	chromosome 15	L000001103	15	741569	738924	C	123	2011-02-03	1996-07-31|2006-10-03	Mitochondrial GTPase, present in complex with Ugo1p and Fzo1p; required for mitochondrial morphology, fusion, and genome maintenance; promotes membrane bending; exists as long and short form with different distributions; ratio of long to short forms is regulated by Psd1p; homolog of human OPA1 involved in autosomal dominant optic atrophy
+S000037397	CDS					YOR211C		15	741569	738924	C		2011-02-03	1996-07-31|2006-10-03	
+S000005738	ORF	Verified	YOR212W	STE4	G protein subunit beta|HMD2	chromosome 15	L000002114	15	742910	744181	W	124	2011-02-03	1996-07-31	G protein beta subunit; forms a dimer with Ste18p to activate mating signaling pathway, forms heterotrimer with Gpa1p and Ste18p to dampen signaling; pheromone-induced phosphorylation plays critical role in chemotropism; may recruit Rho1p to polarized growth site during mating; contains WD40 repeats
+S000030085	CDS					YOR212W		15	742910	744181	W		2011-02-03	1996-07-31	
+S000005739	ORF	Verified	YOR213C	SAS5		chromosome 15	L000004215	15	745281	744535	C		2011-02-03	1996-07-31	Subunit of the SAS complex (Sas2p, Sas4p, Sas5p); acetylates free histones and nucleosomes and regulates transcriptional silencing; stimulates Sas2p HAT activity
+S000030141	CDS					YOR213C		15	745281	744535	C		2011-02-03	1996-07-31	
+S000005740	ORF	Verified	YOR214C	SPR2		chromosome 15	S000029500|L000002021	15	746303	745593	C		2011-02-03	1996-07-31	Putative spore wall protein; expression increases during sporulation; not an essential gene; YOR214C has a paralog, SPO19, that arose from the whole genome duplication
+S000030340	CDS					YOR214C		15	746303	745593	C		2011-02-03	1996-07-31	
+S000005741	ORF	Verified	YOR215C	AIM41		chromosome 15		15	747282	746725	C		2011-02-03	1996-07-31	Protein of unknown function; the authentic protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays reduced frequency of mitochondrial genome loss
+S000033625	CDS					YOR215C		15	747282	746725	C		2011-02-03	1996-07-31	
+S000005742	ORF	Verified	YOR216C	RUD3	GRP1	chromosome 15	L000004185	15	748979	747525	C		2011-02-03	1996-07-31	Golgi matrix protein; involved in the structural organization of the cis-Golgi; interacts genetically with COG3 and USO1
+S000033741	CDS					YOR216C		15	748979	747525	C		2011-02-03	1996-07-31	
+S000005743	ORF	Verified	YOR217W	RFC1	replication factor C subunit 1|CDC44	chromosome 15	L000000278	15	749301	751886	W		2011-02-03	1996-07-31	Subunit of heteropentameric Replication factor C (RF-C); RF-C is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon
+S000033941	CDS					YOR217W		15	749301	751886	W		2011-02-03	1996-07-31	
+S000005744	ORF	Dubious	YOR218C			chromosome 15		15	751895	751476	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene RFC1/YOR217W
+S000033989	CDS					YOR218C		15	751895	751476	C		2011-02-03	1996-07-31	
+S000005745	ORF	Verified	YOR219C	STE13	YCI1	chromosome 15	L000002120	15	755009	752214	C	129	2011-02-03	1996-07-31	Dipeptidyl aminopeptidase; Golgi integral membrane protein that cleaves on the carboxyl side of repeating -X-Ala- sequences, required for maturation of alpha factor, transcription is induced by a-factor
+S000034857	CDS					YOR219C		15	755009	752214	C		2011-02-03	1996-07-31	
+S000005746	ORF	Verified	YOR220W	RCN2	WSP1	chromosome 15		15	755328	756125	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; phosphorylated in response to alpha factor; protein abundance increases in response to DNA replication stress
+S000033604	CDS					YOR220W		15	755328	756125	W		2011-02-03	1996-07-31	
+S000005747	ORF	Verified	YOR221C	MCT1	[acyl-carrier-protein] S-malonyltransferase	chromosome 15		15	757558	756476	C		2011-02-03	1996-07-31|2005-12-01	Predicted malonyl-CoA:ACP transferase; putative component of a type-II mitochondrial fatty acid synthase that produces intermediates for phospholipid remodeling
+S000034462	CDS					YOR221C		15	757558	756476	C		2011-02-03	1996-07-31|2005-12-01	
+S000005748	ORF	Verified	YOR222W	ODC2	mitochondrial 2-oxodicarboxylate carrier	chromosome 15		15	758330	759253	W		2011-02-03	1996-07-31	Mitochondrial inner membrane transporter; 2-oxodicarboxylate transporter, exports 2-oxoadipate and 2-oxoglutarate from the mitochondrial matrix to the cytosol for use in lysine and glutamate biosynthesis and in lysine catabolism; ODC2 has a paralog, ODC1, that arose from the whole genome duplication
+S000034614	CDS					YOR222W		15	758330	759253	W		2011-02-03	1996-07-31	
+S000007299	snoRNA_gene		snR35	SNR35		chromosome 15	L000001973	15	759529	759326	C		2011-02-03	2000-05-19|2007-05-10	H/ACA box small nucleolar RNA (snoRNA); predicted to guide pseudouridylation of small subunit (SSU) rRNA at position 1191
+S000036764	noncoding_exon					snR35		15	759529	759326	C		2011-02-03	2000-05-19|2007-05-10	
+S000005749	ORF	Verified	YOR223W	DSC3		chromosome 15		15	759782	760660	W		2011-02-03	1996-07-31	Subunit of the DSC ubiquitin ligase complex; protein of unknown function that localizes to the ER and vacuole lumen; overexpression affects endocytic protein trafficking; ortholog of fission yeast dsc3
+S000034765	CDS					YOR223W		15	759782	760660	W		2011-02-03	1996-07-31	
+S000005750	ORF	Verified	YOR224C	RPB8	DNA-directed RNA polymerase core subunit RPB8|ABC14.5	chromosome 15	L000001682	15	761265	760825	C		2011-02-03	1996-07-31	RNA polymerase subunit ABC14.5; common to RNA polymerases I, II, and III
+S000035658	CDS					YOR224C		15	761265	760825	C		2011-02-03	1996-07-31	
+S000005751	ORF	Dubious	YOR225W			chromosome 15		15	761392	761721	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035836	CDS					YOR225W		15	761392	761721	W		2011-02-03	1996-07-31	
+S000005752	ORF	Verified	YOR226C	ISU2	putative iron-binding protein ISU2|NUA2	chromosome 15	L000004770	15	762084	761614	C		2011-02-03	1996-07-31	Mitochondrial protein required for iron-sulfur protein synthesis; performs scaffolding function during Fe/S cluster assembly; involved in Fe-S cluster assembly for both mitochondrial and cytosolic proteins; protein abundance increases under DNA replication stress; ISU2 has a paralog, ISU1, that arose from the whole genome duplication; isu1 isu2 double mutant is inviable; human homolog ISCU implicated in mitochondrial myopathy, can complement isu1 isu2 double mutant
+S000035907	CDS					YOR226C		15	762084	761614	C		2011-02-03	1996-07-31	
+S000005753	ORF	Verified	YOR227W	HER1		chromosome 15	S000124018	15	762825	766565	W		2011-02-03	1996-07-31	Protein of unknown function; required for proliferation or remodeling of the ER that is caused by overexpression of Hmg2p; may interact with ribosomes, based on co-purification experiments; HER1 has a paralog, GIP3, that arose from the whole genome duplication
+S000037838	CDS					YOR227W		15	762825	766565	W		2011-02-03	1996-07-31	
+S000118492	ARS		ARS1523		ARSXV-767	chromosome 15		15	766605	766788			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000005754	ORF	Verified	YOR228C	MCP1		chromosome 15		15	767777	766869	C		2011-02-03	1996-07-31	Mitochondrial protein of unknown function involved in lipid homeostasis; integral membrane protein that localizes to the mitochondrial outer membrane; involved in mitochondrial morphology; interacts genetically with MDM10, and other members of the ERMES complex; contains five predicted transmembrane domains
+S000037878	CDS					YOR228C		15	767777	766869	C		2011-02-03	1996-07-31	
+S000077078	matrix_attachment_site		ETC7	ETC7		chromosome 15		15	768106	768128	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; located between divergently transcribed genes MCP1 and WTM2
+S000005755	ORF	Verified	YOR229W	WTM2	transcriptional modulator	chromosome 15	L000003516	15	768409	769812	W		2011-02-03	1996-07-31	Transcriptional modulator; involved in regulation of meiosis, silencing, and expression of RNR genes; involved in response to replication stress; contains WD repeats; relocalizes to the cytosol in response to hypoxia; WTM2 has a paralog, UME1, that arose from the whole genome duplication
+S000029954	CDS					YOR229W		15	768409	769812	W		2011-02-03	1996-07-31	
+S000005756	ORF	Verified	YOR230W	WTM1	transcriptional modulator	chromosome 15	L000003515	15	770800	772113	W		2011-02-03	1996-07-31	Transcriptional modulator; involved in regulation of meiosis, silencing, and expression of RNR genes; required for nuclear localization of the ribonucleotide reductase small subunit Rnr2p and Rnr4p; contains WD repeats
+S000037695	CDS					YOR230W		15	770800	772113	W		2011-02-03	1996-07-31	
+S000005757	ORF	Verified	YOR231W	MKK1	mitogen-activated protein kinase kinase MKK1|SSP32	chromosome 15	L000001117	15	772601	774127	W		2011-02-03	1996-07-31	MAPKK involved in the protein kinase C signaling pathway; involved in control of cell integrity; upon activation by Bck1p phosphorylates downstream target, Slt2p; functionally redundant with Mkk2p; MKK1 has a paralog, MKK2, that arose from the whole genome duplication
+S000037755	CDS					YOR231W		15	772601	774127	W		2011-02-03	1996-07-31	
+S000028716	ORF	Dubious	YOR231C-A			chromosome 15		15	773363	773163	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032687	CDS					YOR231C-A		15	773363	773163	C		2011-02-03	2003-07-29	
+S000005758	ORF	Verified	YOR232W	MGE1	GRPE|YGE1	chromosome 15	L000000729|L000002638|L000001101	15	774573	775259	W		2011-02-03	1996-07-31	Mitochondrial matrix cochaperone; nucleotide release factor for Ssc1p in protein translocation and folding; also acts as cochaperone for Ssq1p in folding of Fe-S cluster proteins; acts as oxidative sensor to regulate mitochondrial Ssc1p; in presence of oxidative stress, dimeric Mge1p becomes a monomer and unable to regulate Ssc1p function; homolog of E. coli GrpE and human Mge1 (GRPEL1), which also responds to oxidative stress
+S000030589	CDS					YOR232W		15	774573	775259	W		2011-02-03	1996-07-31	
+S000005759	ORF	Verified	YOR233W	KIN4	putative serine/threonine protein kinase KIN4|KIN3|KIN31	chromosome 15	L000000904	15	775846	778248	W		2011-02-03	1996-07-31	Serine/threonine protein kinase; inhibits the mitotic exit network (MEN) when the spindle position checkpoint is activated; localized asymmetrically to mother cell cortex, spindle pole body and bud neck; KIN4 has a paralog, FRK1, that arose from the whole genome duplication
+S000030703	CDS					YOR233W		15	775846	778248	W		2011-02-03	1996-07-31	
+S000005760	ORF	Verified	YOR234C	RPL33B	eL33|ribosomal 60S subunit protein L33B|L33e|rp47|Yl37|L37B|L33B|RPL37B	chromosome 15	L000001729	15	779405	778555	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L33B; rpl33b null mutant exhibits normal growth while rpl33a rpl33b double null mutant is inviable; homologous to mammalian ribosomal protein L35A, no bacterial homolog; RPL33B has a paralog, RPL33A, that arose from the whole genome duplication
+S000030771	CDS					YOR234C		15	778859	778555	C		2011-02-03	1996-07-31	
+S000030770	CDS					YOR234C		15	779405	779387	C		2011-02-03	1996-07-31	
+S000030772	intron					YOR234C		15	779386	778860	C		2011-02-03	1996-07-31	
+S000005761	ORF	Dubious	YOR235W	IRC13		chromosome 15		15	779870	780184	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant displays increased levels of spontaneous Rad52 foci
+S000031752	CDS					YOR235W		15	779870	780184	W		2011-02-03	1996-07-31	
+S000007294	snoRNA_gene		snR17a	SNR17A	U3	chromosome 15	L000001966	15	780107	780596	W	136	2011-02-03	2000-05-19	Small nucleolar RNA (snoRNA) U3; part of Small ribosomal SubUnit (SSU) processosome; SNR17B also encodes snoRNA U3
+S000030175	intron					snR17a		15	780121	780277	W		2011-02-03	2000-05-19	
+S000030173	noncoding_exon					snR17a		15	780107	780120	W		2011-02-03	2000-05-19	
+S000030174	noncoding_exon					snR17a		15	780278	780596	W		2011-02-03	2000-05-19	
+S000005762	ORF	Verified	YOR236W	DFR1	dihydrofolate reductase	chromosome 15	L000000503	15	780906	781541	W	135	2011-02-03	1996-07-31	Dihydrofolate reductase involved in tetrahydrofolate biosynthesis; required for respiratory metabolism; mutation is functionally complemented by human DHFR
+S000031908	CDS					YOR236W		15	780906	781541	W		2011-02-03	1996-07-31	
+S000005763	ORF	Verified	YOR237W	HES1	oxysterol-binding protein related protein HES1|OSH5	chromosome 15	L000000767	15	781994	783298	W		2011-02-03	1996-07-31	Protein implicated in the regulation of ergosterol biosynthesis; one of a seven member gene family with a common essential function and non-essential unique functions; similar to human oxysterol binding protein (OSBP); SWAT-GFP and mCherry fusion proteins localize to the bud neck and vacuolar membrane; HES1 has a paralog, KES1, that arose from the whole genome duplication
+S000032069	CDS					YOR237W		15	781994	783298	W		2011-02-03	1996-07-31	
+S000118493	ARS		ARS1524		ARSXV-783	chromosome 15		15	783345	783563			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178186	ARS_consensus_sequence					ARS1524		15	783386	783402	W		2014-11-18	2014-11-18	
+S000005764	ORF	Uncharacterized	YOR238W			chromosome 15		15	783677	784588	W		2011-02-03	2003-09-22|1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000034067	CDS					YOR238W		15	783677	784588	W		2011-02-03	2003-09-22|1996-07-31	
+S000005765	ORF	Verified	YOR239W	ABP140	TRM140|YOR240W	chromosome 15		15	784857	786744	W		2011-02-03	2000-08-14|1996-07-31	AdoMet-dependent tRNA methyltransferase and actin binding protein; C-terminal domain is responsible for 3-methylcytidine modification of residue 32 of the tRNA anticodon loop of tRNA-Thr and tRNA-Ser and contains an S-adenosylmethionine (AdoMet) binding motif; N-terminal actin binding sequence interacts with actin filaments and localizes to actin patches and cables; N- and C-terminal domains are encoded in separate ORFs that are translated into one protein via a +1 frameshift
+S000034147	CDS					YOR239W		15	784857	785687	W		2011-02-03	2000-08-14|1996-07-31	
+S000034148	CDS					YOR239W		15	785689	786744	W		2011-02-03	2000-08-14	
+S000034149	plus_1_translational_frameshift					YOR239W		15	785688	785688	W		2011-02-03	2000-08-14	
+S000005767	ORF	Verified	YOR241W	MET7	tetrahydrofolate synthase|MET23	chromosome 15	L000001082	15	786995	788641	W	136	2011-02-03	1996-07-31	Folylpolyglutamate synthetase; catalyzes extension of the glutamate chains of the folate coenzymes, required for methionine synthesis and for maintenance of mitochondrial DNA; protein abundance increases in response to DNA replication stress
+S000033075	CDS					YOR241W		15	786995	788641	W		2011-02-03	1996-07-31	
+S000005768	ORF	Verified	YOR242C	SSP2		chromosome 15	L000004585	15	789857	788742	C		2011-02-03	1996-07-31	Sporulation specific protein that localizes to the spore wall; required for sporulation at a point after meiosis II and during spore wall formation; expression controlled by a tightly regulated middle-meiotic promoter that is activated by Ndt80p; translation of SSP2 mRNA is delayed, such that the mRNA is present as nuclear divisions are taking place but is not engaged by ribosomes until relatively late in meiotic development
+S000033690	CDS					YOR242C		15	789857	788742	C		2011-02-03	1996-07-31	
+S000005769	ORF	Verified	YOR243C	PUS7	pseudouridine synthase PUS7	chromosome 15		15	792241	790211	C		2011-02-03	1996-07-31	Pseudouridine synthase; catalyzes pseudouridylation at positions 35 and 56 in U2 snRNA, position 50 in 5S rRNA, position 13 in cytoplasmic tRNAs, and position 35 in pre-tRNA(Tyr); also pseudouridylates some mRNAs; relocates from nucleus to cytoplasm during heat shock and differentially modifies some mRNAs during heat shock; conserved in archaea, vertebrates, and some bacteria
+S000033806	CDS					YOR243C		15	792241	790211	C		2011-02-03	1996-07-31	
+S000005770	ORF	Verified	YOR244W	ESA1	NuA4 histone acetyltransferase complex catalytic subunit ESA1|KAT5|TAS1	chromosome 15	L000003952	15	792531	793868	W		2011-02-03	1996-07-31	Catalytic subunit of the histone acetyltransferase complex (NuA4); acetylates four conserved internal lysines of histone H4 N-terminal tail and can acetylate histone H2A; master regulator of cellular acetylation balance; required for cell cycle progression and transcriptional silencing at the rDNA locus and regulation of autophagy; human ortholog TIP60/KAT5 is implicated in cancer and other diseases, functionally complements lethality of the esa1 null mutation
+S000033978	CDS					YOR244W		15	792531	793868	W		2011-02-03	1996-07-31	
+S000005771	ORF	Verified	YOR245C	DGA1	diacylglycerol O-acyltransferase	chromosome 15		15	795332	794076	C		2011-02-03	1996-07-31	Diacylglycerol acyltransferase; catalyzes the terminal step of triacylglycerol (TAG) formation, acylates diacylglycerol using acyl-CoA as an acyl donor; Lro1p and Dga1p can O-acylate ceramides; localized to lipid particles
+S000034041	CDS					YOR245C		15	795332	794076	C		2011-02-03	1996-07-31	
+S000005772	ORF	Verified	YOR246C	ENV9		chromosome 15		15	796793	795801	C		2011-02-03	1996-07-31	Protein proposed to be involved in vacuolar functions; mutant shows defect in CPY processing and defects in vacuolar morphology; has similarity to oxidoreductases, found in lipid particles; required for replication of Brome mosaic virus in S. cerevisiae, a model system for studying replication of positive-strand RNA viruses in their natural hosts
+S000034930	CDS					YOR246C		15	796793	795801	C		2011-02-03	1996-07-31	
+S000005773	ORF	Verified	YOR247W	SRL1		chromosome 15	L000004669	15	797676	798308	W		2011-02-03	1996-07-31	Mannoprotein that exhibits a tight association with the cell wall; required for cell wall stability in the absence of GPI-anchored mannoproteins; has a high serine-threonine content; expression is induced in cell wall mutants; SRL1 has a paralog, SVS1, that arose from the whole genome duplication
+S000035223	CDS					YOR247W		15	797676	798308	W		2011-02-03	1996-07-31	
+S000005774	ORF	Dubious	YOR248W		TOS11	chromosome 15		15	798013	798315	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036109	CDS					YOR248W		15	798013	798315	W		2011-02-03	1996-07-31	
+S000005775	ORF	Verified	YOR249C	APC5	anaphase promoting complex subunit 5|RMC1	chromosome 15	L000004320	15	800731	798674	C		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; component of the platform domain of the APC/C, based on structural analysis; relative distribution to nuclear foci decreases upon DNA replication stress
+S000036169	CDS					YOR249C		15	800731	798674	C		2011-02-03	1996-07-31	
+S000005776	ORF	Verified	YOR250C	CLP1	cleavage polyadenylation factor subunit CLP1	chromosome 15	L000004201	15	802307	800970	C		2011-02-03	1996-07-31	Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; involved in both the endonucleolyitc cleavage and polyadenylation steps of mRNA 3'-end maturation and in gene looping which affects reinitiation of transcription
+S000036960	CDS					YOR250C		15	802307	800970	C		2011-02-03	1996-07-31	
+S000005777	ORF	Verified	YOR251C	TUM1	thiosulfate sulfurtransferase	chromosome 15		15	803464	802550	C		2011-02-03	1996-07-31	Rhodanese domain sulfur transferase; accepts persulfite from Nfs1p and transfers it to Uba4p in the pathway for 2-thiolation of the wobble uridine base of tRNAs; also stimulates sulfur transfer by Nfs1p; may be mitochondrially localized
+S000037035	CDS					YOR251C		15	803464	802550	C		2011-02-03	1996-07-31	
+S000005778	ORF	Verified	YOR252W	TMA16	RBF17	chromosome 15		15	803667	804203	W		2011-02-03	1996-07-31|2006-01-05	Protein of unknown function that associates with ribosomes
+S000037174	CDS					YOR252W		15	803667	804203	W		2011-02-03	1996-07-31|2006-01-05	
+S000005779	ORF	Verified	YOR253W	NAT5	peptide alpha-N-acetyltransferase subunit NAT5|NAA50|ROG2|ARD2	chromosome 15		15	804377	804907	W		2011-02-03	1996-07-31	Subunit of protein N-terminal acetyltransferase NatA; NatA is comprised of Nat1p, Ard1p, and Nat5p; N-terminally acetylates many proteins, which influences multiple processes such as the cell cycle, heat-shock resistance, mating, sporulation, and telomeric silencing
+S000029833	CDS					YOR253W		15	804377	804907	W		2011-02-03	1996-07-31	
+S000005780	ORF	Verified	YOR254C	SEC63	protein-transporting protein SEC63|PTL1	chromosome 15	L000001854|L000001269	15	807023	805032	C		2011-02-03	1996-07-31	Essential subunit of Sec63 complex; with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER; other members are Sec62p, Sec66p, and Sec72p
+S000029878	CDS					YOR254C		15	807023	805032	C		2011-02-03	1996-07-31	
+S000005781	ORF	Verified	YOR255W	OSW1		chromosome 15		15	807271	808107	W		2011-02-03	1996-07-31	Protein involved in sporulation; required for the construction of the outer spore wall layers; required for proper localization of Spo14p
+S000030954	CDS					YOR255W		15	807271	808107	W		2011-02-03	1996-07-31	
+S000005782	ORF	Verified	YOR256C	TRE2	putative zinc metalloprotease	chromosome 15		15	810683	808254	C		2006-01-05	1996-07-31|2011-02-03	Transferrin receptor-like protein; functions with Tre1p to regulate ubiquitination and vacuolar degradation of the metal transporter Smf1p; inviability of null mutant in systematic studies is due to proximity to CDC31; TRE2 has a paralog, TRE1, that arose from the whole genome duplication
+S000030990	CDS					YOR256C		15	810683	808254	C		2006-01-05	1996-07-31|2011-02-03	
+S000005783	ORF	Verified	YOR257W	CDC31	centrin|DSK1	chromosome 15	L000000269	15	811008	811493	W	147	2006-01-05	1996-07-31	Calcium-binding component of the spindle pole body (SPB) half-bridge; required for SPB duplication in mitosis and meiosis II; homolog of mammalian centrin; binds multiubiquitinated proteins and is involved in proteasomal protein degradation
+S000031201	CDS					YOR257W		15	811008	811493	W		2006-01-05	1996-07-31	
+S000005784	ORF	Verified	YOR258W	HNT3	DNA 5'-adenosine monophosphate hydrolase	chromosome 15		15	811671	812324	W		2006-01-05	1996-07-31	DNA 5' AMP hydrolase involved in DNA repair; member of the histidine triad (HIT) superfamily of nucleotide-binding proteins; homolog of Aprataxin, a Hint related protein that is mutated in individuals with ataxia with oculomotor apraxia; relative distribution to nuclear foci decreases upon DNA replication stress
+S000032199	CDS					YOR258W		15	811671	812324	W		2006-01-05	1996-07-31	
+S000005785	ORF	Verified	YOR259C	RPT4	proteasome regulatory particle base subunit RPT4|SUG2|PCS1|CRL13	chromosome 15	L000003423|L000003107|L000000413	15	813708	812395	C	143	2006-01-05	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in degradation of ubiquitinated substrates; contributes preferentially to ERAD; required for spindle pole body duplication; mainly nuclear localization
+S000032229	CDS					YOR259C		15	813708	812395	C		2006-01-05	1996-07-31	
+S000005786	ORF	Verified	YOR260W	GCD1	translation initiation factor eIF2B subunit gamma|TRA3	chromosome 15	L000000670	15	813984	815720	W	143	2006-01-05	1996-07-31	Gamma subunit of the translation initiation factor eIF2B; the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression
+S000032270	CDS					YOR260W		15	813984	815720	W		2006-01-05	1996-07-31	
+S000005787	ORF	Verified	YOR261C	RPN8	proteasome regulatory particle lid subunit RPN8	chromosome 15	L000004308	15	816931	815915	C		2006-01-05	1996-07-31	Essential non-ATPase regulatory subunit of the 26S proteasome; has similarity to the human p40 proteasomal subunit and to another S. cerevisiae regulatory subunit, Rpn11p
+S000032281	CDS					YOR261C		15	816931	815915	C		2006-01-05	1996-07-31	
+S000005788	ORF	Verified	YOR262W	GPN2	putative GTPase GPN2	chromosome 15		15	817292	818335	W		2011-02-03	1996-07-31	Putative GTPase with a role in biogenesis of RNA pol II and polIII; may be involved in assembly of RNA polymerases II and III and in their transport into the nucleus; contains a Gly-Pro-Asn motif in the G domain; similar to Npa3p and Gpn3p; highly conserved across species and homologous to human gene GPN2/ATPBD1B; required for establishment of sister chromatid cohesion
+S000033195	CDS					YOR262W		15	817292	818335	W		2011-02-03	1996-07-31	
+S000005790	ORF	Verified	YOR264W	DSE3		chromosome 15		15	818866	820158	W		2011-02-03	1996-07-31	Daughter cell-specific protein, may help establish daughter fate; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000033310	CDS					YOR264W		15	818866	820158	W		2011-02-03	1996-07-31	
+S000005789	ORF	Dubious	YOR263C			chromosome 15		15	819164	818757	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF DES3/YOR264W
+S000033220	CDS					YOR263C		15	819164	818757	C		2011-02-03	1996-07-31	
+S000005791	ORF	Verified	YOR265W	RBL2		chromosome 15	L000002910	15	820454	820774	W		2011-02-03	1996-07-31	Protein involved in microtubule morphogenesis; required for protection from excess free beta-tubulin; proposed to be involved the folding of beta-tubulin; similar to mouse beta-tubulin cofactor A; protein abundance increases in response to DNA replication stress
+S000034224	CDS					YOR265W		15	820454	820774	W		2011-02-03	1996-07-31	
+S000005792	ORF	Verified	YOR266W	PNT1		chromosome 15	L000001460	15	821023	822294	W		2011-02-03	1996-07-31	Mitochondrial integral inner membrane protein; involved in membrane insertion of C-terminus of Cox2p, interacts genetically and physically with Cox18p; deletion mutant sensitive to the anti-Pneumocystis carinii drug pentamidine
+S000034354	CDS					YOR266W		15	821023	822294	W		2011-02-03	1996-07-31	
+S000005793	ORF	Verified	YOR267C	HRK1	putative serine/threonine protein kinase HRK1	chromosome 15		15	824867	822588	C		2011-02-03	1996-07-31	Protein kinase; implicated in activation of the plasma membrane H(+)-ATPase Pma1p in response to glucose metabolism; plays a role in ion homeostasis; protein abundance increases in response to DNA replication stress
+S000034383	CDS					YOR267C		15	824867	822588	C		2011-02-03	1996-07-31	
+S000005794	ORF	Uncharacterized	YOR268C			chromosome 15		15	825932	825534	C		2011-02-03	1996-07-31	Putative protein of unknown function; sporulation is abnormal in homozygous diploid; SWAT-GFP fusion protein localizes to the nucleus; YOR268C is not an essential gene
+S000035396	CDS					YOR268C		15	825932	825534	C		2011-02-03	1996-07-31	
+S000005795	ORF	Verified	YOR269W	PAC1		chromosome 15	L000001328	15	826385	827869	W		2011-02-03	1996-07-31	Involved in nuclear migration, part of the dynein/dynactin pathway; targets dynein to microtubule tips, which is necessary for sliding of microtubules along bud cortex; serves at interface between dynein's ATPase site and its microtubule binding stalk, causing individual dynein motors to remain attached to microtubules for long periods; synthetic lethal with bni1; homolog of human LIS1, mutations in which cause the severe brain disorder lissencephaly
+S000035573	CDS					YOR269W		15	826385	827869	W		2011-02-03	1996-07-31	
+S000005796	ORF	Verified	YOR270C	VPH1	H(+)-transporting V0 sector ATPase subunit a	chromosome 15	L000002467	15	830574	828052	C		2011-02-03	1996-07-31	Subunit a of vacuolar-ATPase V0 domain; one of two isoforms (Vph1p and Stv1p); Vph1p is located in V-ATPase complexes of the vacuole while Stv1p is located in V-ATPase complexes of the Golgi and endosomes; relative distribution to the vacuolar membrane decreases upon DNA replication stress; human homolog ATP6V0A4 implicated in renal tubular acidosis, can complement yeast null mutant
+S000036537	CDS					YOR270C		15	830574	828052	C		2011-02-03	1996-07-31	
+S000005797	ORF	Uncharacterized	YOR271C	FSF1		chromosome 15		15	832042	831059	C		2011-02-03	1996-07-31	Putative protein; predicted to be an alpha-isopropylmalate carrier; belongs to the sideroblastic-associated protein family; non-tagged protein is detected in purified mitochondria; likely to play a role in iron homeostasis
+S000036610	CDS					YOR271C		15	832042	831059	C		2011-02-03	1996-07-31	
+S000006497	snoRNA_gene		snR8	SNR8		chromosome 15	L000001963	15	832332	832521	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U960 and U986
+S000034324	noncoding_exon					snR8		15	832332	832521	W		2011-02-03	2000-05-19	
+S000005798	ORF	Verified	YOR272W	YTM1	CST14	chromosome 15	L000003547|L000002998|S000029121	15	832813	834195	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; forms a complex with Nop7p and Erb1p that is required for maturation of the large ribosomal subunit; has seven C-terminal WD repeats
+S000037380	CDS					YOR272W		15	832813	834195	W		2011-02-03	1996-07-31	
+S000005799	ORF	Verified	YOR273C	TPO4		chromosome 15		15	836431	834452	C		2011-02-03	1996-07-31	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; recognizes spermine, putrescine, and spermidine; localizes to the plasma membrane
+S000037433	CDS					YOR273C		15	836431	834452	C		2011-02-03	1996-07-31	
+S000005800	ORF	Verified	YOR274W	MOD5	tRNA dimethylallyltransferase|[MOD+]	chromosome 15	L000001131	15	837674	838960	W		2011-02-03	1996-07-31	Delta 2-isopentenyl pyrophosphate:tRNA isopentenyl transferase; required for biosynthesis of isopentenyladenosine in mitochondrial and cytoplasmic tRNAs; also has a role in tRNA gene-mediated silencing; gene encodes two isozymic forms; converts to a prion form, prion conversion contributes to azole antifungal resistance by upregulating ergosterol biosynthesis; homolog of human TRIT1, a mutation in which is associated with severe combined respiratory chain defects
+S000030255	CDS					YOR274W		15	837674	838960	W		2011-02-03	1996-07-31	
+S000005801	ORF	Verified	YOR275C	RIM20		chromosome 15		15	841069	839084	C		2011-02-03	1996-07-31	Protein involved in proteolytic activation of Rim101p; part of response to alkaline pH; PalA/AIP1/Alix family member; interaction with the ESCRT-III subunit Snf7p suggests a relationship between pH response and multivesicular body formation
+S000030312	CDS					YOR275C		15	841069	839084	C		2011-02-03	1996-07-31	
+S000005802	ORF	Verified	YOR276W	CAF20	p20|CAP20|CAF2	chromosome 15	L000000208|L000003291	15	841333	841818	W		2011-02-03	1996-07-31	Phosphoprotein of the mRNA cap-binding complex; involved in translational control; repressor of cap-dependent translation initiation; competes with eIF4G for binding to eIF4E
+S000030543	CDS					YOR276W		15	841333	841818	W		2011-02-03	1996-07-31	
+S000005803	ORF	Dubious	YOR277C			chromosome 15		15	841823	841515	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified gene CAF20
+S000031370	CDS					YOR277C		15	841823	841515	C		2011-02-03	1996-07-31	
+S000007296	snoRNA_gene		snR31	SNR31		chromosome 15	L000001969	15	842182	841958	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of small subunit (SSU) rRNA at position U999
+S000036752	noncoding_exon					snR31		15	842182	841958	C		2011-02-03	2000-05-19	
+S000007291	snoRNA_gene		snR5	SNR5		chromosome 15	L000001960	15	842403	842606	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U1004 and U1124
+S000034319	noncoding_exon					snR5		15	842403	842606	W		2011-02-03	2000-05-19	
+S000005804	ORF	Verified	YOR278W	HEM4	uroporphyrinogen-III synthase HEM4|SLU2	chromosome 15	L000002903	15	842817	843644	W		2011-02-03	1996-07-31	Uroporphyrinogen III synthase; catalyzes the conversion of hydroxymethylbilane to uroporphyrinogen III, the fourth step in heme biosynthesis; deficiency in the human homolog can result in the disease congenital erythropoietic porphyria
+S000031577	CDS					YOR278W		15	842817	843644	W		2011-02-03	1996-07-31	
+S000005805	ORF	Verified	YOR279C	RFM1		chromosome 15		15	844630	843698	C		2011-02-03	1996-07-31	Component of the Sum1p-Rfm1p-Hst1p complex; Rfm1p tethers the Hst1p histone deacetylase to the DNA-binding protein Sum1p; complex is involved in transcriptional repression of middle sporulation genes and in initiation of DNA replication
+S000031617	CDS					YOR279C		15	844630	843698	C		2011-02-03	1996-07-31	
+S000005806	ORF	Verified	YOR280C	FSH3	putative serine hydrolase	chromosome 15		15	845792	844992	C		2011-02-03	1996-07-31	Putative serine hydrolase; likely target of Cyc8p-Tup1p-Rfx1p transcriptional regulation; sequence is similar to S. cerevisiae Fsh1p and Fsh2p and the human candidate tumor suppressor OVCA2
+S000031815	CDS					YOR280C		15	845792	844992	C		2011-02-03	1996-07-31	
+S000005808	ORF	Dubious	YOR282W			chromosome 15		15	847000	847320	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps essential, verified gene PLP2/YOR281C
+S000032900	CDS					YOR282W		15	847000	847320	W		2011-02-03	1996-07-31	
+S000005807	ORF	Verified	YOR281C	PLP2		chromosome 15		15	847129	846269	C		2011-02-03	1996-07-31	Protein that interacts with the CCT complex to stimulate actin folding; has similarity to phosducins; null mutant lethality is complemented by mouse phosducin-like protein MgcPhLP; CCT is short for chaperonin containing TCP-1; essential gene
+S000031925	CDS					YOR281C		15	847129	846269	C		2011-02-03	1996-07-31	
+S000005809	ORF	Verified	YOR283W		phosphoglycerate mutase	chromosome 15		15	847453	848145	W		2011-02-03	1996-07-31	Phosphatase with a broad substrate specificity; has some similarity to GPM1/YKL152C, a phosphoglycerate mutase; YOR283W is not an essential gene
+S000032989	CDS					YOR283W		15	847453	848145	W		2011-02-03	1996-07-31	
+S000005810	ORF	Verified	YOR284W	HUA2		chromosome 15		15	848478	849209	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; computational analysis of large-scale protein-protein interaction data suggests a possible role in actin patch assembly
+S000033085	CDS					YOR284W		15	848478	849209	W		2011-02-03	1996-07-31	
+S000005811	ORF	Verified	YOR285W	RDL1	thiosulfate sulfurtransferase RDL1	chromosome 15		15	849635	850054	W		2011-02-03	1996-07-31	Thiosulfate sulfurtransferase; contains a rhodanese-like domain; localized to the mitochondrial outer membrane; protein abundance increases in response to DNA replication stress; similar to the human TSTD gene
+S000033844	CDS					YOR285W		15	849635	850054	W		2011-02-03	1996-07-31	
+S000005812	ORF	Verified	YOR286W	RDL2	thiosulfate sulfurtransferase RDL2|AIM42|FMP31	chromosome 15		15	850280	850729	W		2011-02-03	1996-07-31	Protein with rhodanese activity; contains a rhodanese-like domain similar to Rdl1p, Uba4p, Tum1p, and Ych1p; overexpression causes a cell cycle delay; null mutant displays elevated frequency of mitochondrial genome loss
+S000033993	CDS					YOR286W		15	850280	850729	W		2011-02-03	1996-07-31	
+S000005813	ORF	Verified	YOR287C	RRP36	rRNA-processing protein RRP36	chromosome 15		15	851839	850937	C		2011-02-03	1996-07-31	Component of 90S preribosomes; involved in early cleavages of the 35S pre-rRNA and in production of the 40S ribosomal subunit
+S000034025	CDS					YOR287C		15	851839	850937	C		2011-02-03	1996-07-31	
+S000005814	ORF	Verified	YOR288C	MPD1	protein disulfide isomerase MPD1	chromosome 15	L000003038	15	853077	852121	C		2011-02-03	1996-07-31	Member of the protein disulfide isomerase (PDI) family; interacts with and inhibits the chaperone activity of Cne1p; MPD1 overexpression in a pdi1 null mutant suppresses defects in Pdi1p functions such as carboxypeptidase Y maturation
+S000034906	CDS					YOR288C		15	853077	852121	C		2011-02-03	1996-07-31	
+S000005815	ORF	Uncharacterized	YOR289W			chromosome 15		15	853357	854112	W		2011-02-03	1996-07-31	Putative protein of unknown function; transcription induced by the unfolded protein response; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
+S000035198	CDS					YOR289W		15	853357	854112	W		2011-02-03	1996-07-31	
+S000006525	tRNA_gene		tA(UGC)O			chromosome 15	L000003714	15	854259	854187	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
+S000034894	noncoding_exon					tA(UGC)O		15	854259	854187	C		2011-02-03	2000-05-19	
+S000007178	long_terminal_repeat		YORWsigma3			chromosome 15		15	854275	854614	W		2011-02-03	2000-05-19	Ty3 LTR
+S000005816	ORF	Verified	YOR290C	SNF2	SWI/SNF catalytic subunit SNF2|TYE3|SWI2|HAF1|GAM1	chromosome 15	L000001945	15	860258	855147	C		2011-02-03	1996-07-31	Catalytic subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; contains DNA-stimulated ATPase activity; functions interdependently in transcriptional activation with Snf5p and Snf6p
+S000036380	CDS					YOR290C		15	860258	855147	C		2011-02-03	1996-07-31	
+S000005817	ORF	Verified	YOR291W	YPK9	putative acid anhydride hydrolase	chromosome 15		15	861175	865593	W		2011-02-03	1996-07-31	Vacuolar protein with a possible role in sequestering heavy metals; has similarity to the type V P-type ATPase Spf1p; homolog of human ATP13A2 (PARK9), mutations in which are associated with Parkinson disease and Kufor-Rakeb syndrome
+S000037072	CDS					YOR291W		15	861175	865593	W		2011-02-03	1996-07-31	
+S000005818	ORF	Uncharacterized	YOR292C			chromosome 15		15	866582	865653	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; YOR292C is not an essential gene
+S000037114	CDS					YOR292C		15	866582	865653	C		2011-02-03	1996-07-31	
+S000005819	ORF	Verified	YOR293W	RPS10A	eS10|ribosomal 40S subunit protein S10A|S10e|S10A	chromosome 15	L000004475	15	867098	867852	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S10, no bacterial homolog; RPS10A has a paralog, RPS10B, that arose from the whole genome duplication; mutations in the human homolog associated with Diamond-Blackfan anemia
+S000037299	CDS					YOR293W		15	867098	867149	W		2011-02-03	1996-07-31	
+S000037300	CDS					YOR293W		15	867587	867852	W		2011-02-03	1996-07-31	
+S000037301	intron					YOR293W		15	867150	867586	W		2011-02-03	1996-07-31	
+S000028858	ORF	Uncharacterized	YOR293C-A			chromosome 15		15	868147	867998	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034572	CDS					YOR293C-A		15	868147	867998	C		2011-02-03	2003-07-29	
+S000005820	ORF	Verified	YOR294W	RRS1		chromosome 15		15	868340	868951	W		2011-02-03	1996-07-31	Essential protein that binds ribosomal protein L11; required for nuclear export of the 60S pre-ribosomal subunit during ribosome biogenesis; localizes to the nucleolus and in foci along nuclear periphery; cooperates with Ebp2p and Mps3p to mediate telomere clustering by binding Sir4p, but is not involved in telomere tethering; mouse homolog shows altered expression in Huntington's disease model mice
+S000029945	CDS					YOR294W		15	868340	868951	W		2011-02-03	1996-07-31	
+S000005821	ORF	Verified	YOR295W	UAF30		chromosome 15		15	869208	869894	W		2011-02-03	1996-07-31	Subunit of UAF (upstream activation factor) complex; UAF is an RNA polymerase I specific transcription stimulatory factor composed of Uaf30p, Rrn5p, Rrn9p, Rrn10p, histones H3 and H4; targeting factor for the UAF that facilitates activation of many rDNA genes; deletion decreases cellular growth rate; UAF30 has a paralog, TRI1, that arose from the whole genome duplication
+S000030055	CDS					YOR295W		15	869208	869894	W		2011-02-03	1996-07-31	
+S000005822	ORF	Uncharacterized	YOR296W			chromosome 15		15	870202	874071	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; expressed during copper starvation; YOR296W is not an essential gene
+S000031083	CDS					YOR296W		15	870202	874071	W		2011-02-03	1996-07-31	
+S000118494	ARS		ARS1526		ARSXV-874	chromosome 15		15	874251	874412			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000005823	ORF	Verified	YOR297C	TIM18		chromosome 15	S000007448	15	875321	874743	C		2011-02-03	1996-07-31|2011-02-03	Component of the mitochondrial TIM22 complex; involved in insertion of polytopic proteins into the inner membrane; may mediate assembly or stability of the complex
+S000031114	CDS					YOR297C		15	875321	874743	C		2011-02-03	1996-07-31|2011-02-03	
+S000005824	ORF	Verified	YOR298W	MUM3		chromosome 15		15	875599	877038	W		2011-02-03	1996-07-31	Protein of unknown function involved in outer spore wall organization; has similarity to the tafazzins superfamily of acyltransferases
+S000031297	CDS					YOR298W		15	875599	877038	W		2011-02-03	1996-07-31	
+S000007253	ORF	Verified	YOR298C-A	MBF1	SUF13	chromosome 15	L000002160|L000004688	15	877685	877230	C	165	2011-02-03	2004-02-12|1999-07-17	Transcriptional coactivator; bridges the DNA-binding region of Gcn4p and TATA-binding protein Spt15p; suppressor of frameshift mutations; protein abundance increases in response to DNA replication stress
+S000030828	CDS					YOR298C-A		15	877685	877230	C		2011-02-03	2004-02-12|1999-07-17	
+S000005825	ORF	Verified	YOR299W	BUD7	exomer complex subunit	chromosome 15	L000003554	15	878435	880675	W		2011-02-03	1996-07-31	Member of the ChAPs family (Chs5p-Arf1p-binding proteins); members include Bch1p, Bch2p, Bud7p, and Chs6p; ChAPs family proteins form the exomer complex with Chs5p to mediate export of specific cargo proteins, including Chs3p, from the Golgi to the plasma membrane; BUD7 has a paralog, BCH1, that arose from the whole genome duplication
+S000031429	CDS					YOR299W		15	878435	880675	W		2011-02-03	1996-07-31	
+S000005826	ORF	Dubious	YOR300W		HUF1	chromosome 15		15	880575	880883	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps with verified gene BUD7/YOR299W; mutation affects bipolar budding and bud site selection, though phenotype could be due to the mutation's effects on BUD7
+S000036845	CDS					YOR300W		15	880575	880883	W		2011-02-03	1996-07-31	
+S000005827	ORF	Verified	YOR301W	RAX1		chromosome 15		15	880965	882272	W		2011-02-03	1996-07-31	Protein involved in bud site selection during bipolar budding; localization requires Rax2p; has similarity to members of the insulin-related peptide superfamily
+S000037565	CDS					YOR301W		15	880965	882272	W		2011-02-03	1996-07-31	
+S000005828	ORF	Verified	YOR302W			chromosome 15		15	882765	882842	W		2011-02-03	1996-07-31	CPA1 uORF; Arginine attenuator peptide, regulates translation of the CPA1 mRNA
+S000037642	CDS					YOR302W		15	882765	882842	W		2011-02-03	1996-07-31	
+S000005829	ORF	Verified	YOR303W	CPA1	carbamoyl-phosphate synthase (glutamine-hydrolyzing) CPA1	chromosome 15	L000000399	15	882899	884134	W	161	2011-02-03	1996-07-31	Small subunit of carbamoyl phosphate synthetase; carbamoyl phosphate synthetase catalyzes a step in the synthesis of citrulline, an arginine precursor; translationally regulated by an attenuator peptide encoded by YOR302W within the CPA1 mRNA 5'-leader
+S000037697	CDS					YOR303W		15	882899	884134	W		2011-02-03	1996-07-31	
+S000005831	ORF	Verified	YOR304W	ISW2	DNA translocase	chromosome 15	L000004448	15	884514	887876	W		2011-02-03	1996-07-31	ATP-dependent DNA translocase involved in chromatin remodeling; ATPase component that, with Itc1p, forms a complex required for repression of a-specific genes, INO1, and early meiotic genes during mitotic growth; the Isw2 complex exhibits basal levels of chromatin binding throughout the genome as well as target-specific chromatin interactions; targeted by Ume6p- and Sua7p-dependent DNA looping to many loci genome-wide
+S000037758	CDS					YOR304W		15	884514	887876	W		2011-02-03	1996-07-31	
+S000005830	ORF	Verified	YOR304C-A	BIL1	EDO1	chromosome 15		15	888750	888520	C		2011-02-03	1997-07-01|1996-07-31	Protein that binds Bud6p and has a role in actin cable assembly; involved in the Bnr1p-dependent pathway of cable assembly; localizes to bud tip and bud neck
+S000032659	CDS					YOR304C-A		15	888750	888520	C		2011-02-03	1997-07-01|1996-07-31	
+S000005832	ORF	Verified	YOR305W	RRG7		chromosome 15		15	889022	889750	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO); YOR305W is not an essential gene
+S000030593	CDS					YOR305W		15	889022	889750	W		2011-02-03	1996-07-31	
+S000005833	ORF	Verified	YOR306C	MCH5		chromosome 15		15	891432	889867	C		2011-02-03	1996-07-31|2011-02-03	Plasma membrane riboflavin transporter; facilitates the uptake of vitamin B2; required for FAD-dependent processes; sequence similarity to mammalian monocarboxylate permeases, however mutants are not deficient in monocarboxylate transport
+S000030631	CDS					YOR306C		15	891432	889867	C		2011-02-03	1996-07-31|2011-02-03	
+S000005834	ORF	Verified	YOR307C	SLY41		chromosome 15	L000001925	15	894092	892731	C		2011-02-03	1996-07-31	Protein involved in ER-to-Golgi transport
+S000030776	CDS					YOR307C		15	894092	892731	C		2011-02-03	1996-07-31	
+S000005835	ORF	Verified	YOR308C	SNU66	U4/U6-U5 snRNP complex subunit SNU66	chromosome 15		15	896387	894624	C		2011-02-03	1996-07-31	Component of the U4/U6.U5 snRNP complex; involved in pre-mRNA splicing via spliceosome; also required for pre-5S rRNA processing and may act in concert with Rnh70p; has homology to human SART-1
+S000030861	CDS					YOR308C		15	896387	894624	C		2011-02-03	1996-07-31	
+S000005836	ORF	Dubious	YOR309C			chromosome 15		15	897078	896698	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene NOP58
+S000031849	CDS					YOR309C		15	897078	896698	C		2011-02-03	1996-07-31	
+S000005837	ORF	Verified	YOR310C	NOP58	RNA-processing protein NOP58|NOP5	chromosome 15	L000004000	15	898360	896825	C		2011-02-03	1996-07-31	Protein involved in producing mature rRNAs and snoRNAs; involved in pre-rRNA processing, 18S rRNA synthesis, and snoRNA synthesis; component of the small subunit processome complex, which is required for processing of pre-18S rRNA
+S000031855	CDS					YOR310C		15	898360	896825	C		2011-02-03	1996-07-31	
+S000005838	ORF	Verified	YOR311C	DGK1	diacylglycerol kinase|HSD1	chromosome 15		15	899928	899056	C		2011-02-03	1996-07-31	Diacylglycerol kinase; localized to the endoplasmic reticulum (ER); overproduction induces enlargement of ER-like membrane structures and suppresses a temperature-sensitive sly1 mutation; contains a CTP transferase domain
+S000032742	CDS					YOR311C		15	899928	899056	C		2011-02-03	1996-07-31	
+S000005839	ORF	Verified	YOR312C	RPL20B	eL20|ribosomal 60S subunit protein L20B|L20e|L20B|L18B|RPL18A1	chromosome 15	L000003148	15	901194	900250	C		2011-02-03	1996-07-31|2007-07-10	Ribosomal 60S subunit protein L20B; homologous to mammalian ribosomal protein L18A, no bacterial homolog; RPL20B has a paralog, RPL20A, that arose from the whole genome duplication
+S000032858	CDS					YOR312C		15	900767	900250	C		2011-02-03	1996-07-31	
+S000032857	CDS					YOR312C		15	901194	901194	C		2011-02-03	1996-07-31|2007-07-10	
+S000032859	intron					YOR312C		15	901193	900768	C		2011-02-03	1996-07-31|2007-07-10	
+S000005840	ORF	Verified	YOR313C	SPS4		chromosome 15	L000002026	15	902874	901858	C		2011-02-03	1996-07-31	Protein whose expression is induced during sporulation; not required for sporulation; heterologous expression in E. coli induces the SOS response that senses DNA damage
+S000032971	CDS					YOR313C		15	902874	901858	C		2011-02-03	1996-07-31	
+S000005841	ORF	Dubious	YOR314W			chromosome 15		15	903043	903372	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033076	CDS					YOR314W		15	903043	903372	W		2011-02-03	1996-07-31	
+S000007629	ORF	Dubious	YOR314W-A			chromosome 15		15	904458	904568	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037260	CDS					YOR314W-A		15	904458	904568	W		2011-02-03	2001-02-26	
+S000005842	ORF	Verified	YOR315W	SFG1		chromosome 15		15	904760	905800	W		2011-02-03	1996-07-31	Nuclear protein putative transcription factor; required for growth of superficial pseudohyphae (which do not invade the agar substrate) but not for invasive pseudohyphal growth; may act together with Phd1p; potential Cdc28p substrate
+S000033756	CDS					YOR315W		15	904760	905800	W		2011-02-03	1996-07-31	
+S000005843	ORF	Verified	YOR316C	COT1	metal cation transporter COT1	chromosome 15	L000000382	15	907555	906236	C		2011-02-03	1996-07-31	Vacuolar transporter that mediates zinc transport into the vacuole; overexpression confers resistance to cobalt and rhodium; protein abundance increases in response to DNA replication stress; COT1 has a paralog, ZRC1, that arose from the whole genome duplication
+S000033807	CDS					YOR316C		15	907555	906236	C		2011-02-03	1996-07-31	
+S000028584	ORF	Uncharacterized	YOR316C-A			chromosome 15		15	907935	907726	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031332	CDS					YOR316C-A		15	907935	907726	C		2011-02-03	2003-07-29	
+S000118495	ARS		ARS1528		ARSXV-908	chromosome 15		15	908296	908544			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178187	ARS_consensus_sequence					ARS1528		15	908306	908322	W		2014-11-18	2014-11-18	
+S000005844	ORF	Verified	YOR317W	FAA1	long-chain fatty acid-CoA ligase FAA1	chromosome 15	L000000594	15	909343	911445	W		2011-02-03	1996-07-31	Long chain fatty acyl-CoA synthetase; activates fatty acids with a preference for C12:0-C16:0 chain lengths; role in the competitive import of long-chain fatty acids and sphingoid long-chain bases; accounts for most acyl-CoA synthetase activity; localizes to lipid particles and the plasma membrane; role in sphingolipid-to-glycerolipid metabolism; forms ER foci upon replication stress; faa1 faa4 double null complemented by any of human ACSBG1, ACSL1, 3, 4, 5, 6, SLC27A2, or 4
+S000034010	CDS					YOR317W		15	909343	911445	W		2011-02-03	1996-07-31	
+S000005845	ORF	Dubious	YOR318C			chromosome 15		15	912436	911784	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcript is predicted to be spliced but there is no evidence that it is spliced in vivo
+S000034044	CDS					YOR318C		15	912085	911784	C		2011-02-03	1996-07-31	
+S000034043	CDS					YOR318C		15	912436	912433	C		2011-02-03	1996-07-31	
+S000034045	intron					YOR318C		15	912432	912086	C		2011-02-03	1996-07-31	
+S000005846	ORF	Verified	YOR319W	HSH49	U2 snRNP complex subunit HSH49	chromosome 15	L000003014	15	912822	913463	W		2011-02-03	1996-07-31	U2-snRNP associated splicing factor; similar to the mammalian splicing factor SAP49; proposed to function as a U2-snRNP assembly factor along with Hsh155p and binding partner Cus1p; contains two RNA recognition motifs (RRM)
+S000035030	CDS					YOR319W		15	912822	913463	W		2011-02-03	1996-07-31	
+S000005847	ORF	Verified	YOR320C	GNT1	glucose N-acetyltransferase	chromosome 15		15	915094	913619	C		2011-02-03	1996-07-31	N-acetylglucosaminyltransferase; capable of modification of N-linked glycans in the Golgi apparatus
+S000035936	CDS					YOR320C		15	915094	913619	C		2011-02-03	1996-07-31	
+S000005848	ORF	Verified	YOR321W	PMT3	dolichyl-phosphate-mannose-protein mannosyltransferase PMT3	chromosome 15	L000002622	15	916030	918291	W		2011-02-03	1996-07-31	Protein O-mannosyltransferase; transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues; acts in a complex with Pmt5p, can instead interact with Pmt1p in some conditions; antifungal drug target; PMT3 has a paralog, PMT2, that arose from the whole genome duplication
+S000036207	CDS					YOR321W		15	916030	918291	W		2011-02-03	1996-07-31	
+S000005849	ORF	Verified	YOR322C	LDB19	ART1	chromosome 15		15	921062	918606	C		2011-02-03	1996-07-31	Alpha-arrestin involved in ubiquitin-dependent endocytosis; regulates endocytosis of plasma membrane proteins by recruiting the ubiquitin ligase Rsp5p to its targets; involved in the basal internalization and turnover of alpha-factor receptor Ste2p; recruits ubiquitin ligase Rsp5p to Ste2p via its 2 PPXY motifs; inhibited by Npr1p-mediated phosphorylation, which affects translocation between the cytosol and the plasma membrane
+S000036901	CDS					YOR322C		15	921062	918606	C		2011-02-03	1996-07-31	
+S000005850	ORF	Verified	YOR323C	PRO2	glutamate-5-semialdehyde dehydrogenase	chromosome 15	L000001492	15	922905	921535	C	175	2011-02-03	1996-07-31	Gamma-glutamyl phosphate reductase; catalyzes the second step in proline biosynthesis
+S000036961	CDS					YOR323C		15	922905	921535	C		2011-02-03	1996-07-31	
+S000005852	ORF	Dubious	YOR325W			chromosome 15		15	924577	925050	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF FRT1
+S000037825	CDS					YOR325W		15	924577	925050	W		2011-02-03	1996-07-31	
+S000005851	ORF	Verified	YOR324C	FRT1	HPH1	chromosome 15		15	925040	923232	C		2011-02-03	1996-07-31	Tail-anchored ER membrane protein of unknown function; substrate of the phosphatase calcineurin; interacts with homolog Frt2p; promotes cell growth in stress conditions, possibly via a role in posttranslational translocation; FRT1 has a paralog, FRT2, that arose from the whole genome duplication
+S000037039	CDS					YOR324C		15	925040	923232	C		2011-02-03	1996-07-31	
+S000005853	ORF	Verified	YOR326W	MYO2	myosin 2|CDC66	chromosome 15	L000001223	15	925721	930445	W	174	2011-02-03	1996-07-31	Type V myosin motor involved in actin-based transport of cargos; required for the polarized delivery of secretory vesicles, the vacuole, late Golgi elements, peroxisomes, and the mitotic spindle; MYO2 has a paralog, MYO4, that arose from the whole genome duplication
+S000029839	CDS					YOR326W		15	925721	930445	W		2011-02-03	1996-07-31	
+S000005854	ORF	Verified	YOR327C	SNC2	SNAP receptor SNC2	chromosome 15	L000001943	15	931081	930734	C		2011-02-03	1996-07-31	Vesicle membrane receptor protein (v-SNARE); involved in the fusion between Golgi-derived secretory vesicles with the plasma membrane; Snc2p levels regulated by Vps45p; member of the synaptobrevin/VAMP family of R-type v-SNARE proteins; SNC2 has a paralog, SNC1, that arose from the whole genome duplication
+S000029884	CDS					YOR327C		15	931081	930734	C		2011-02-03	1996-07-31	
+S000005855	ORF	Verified	YOR328W	PDR10	ATP-binding cassette multidrug transporter PDR10	chromosome 15	L000002865	15	931803	936497	W		2011-02-03	1996-07-31	ATP-binding cassette (ABC) transporter; multidrug transporter involved in the pleiotropic drug resistance network; regulated by Pdr1p and Pdr3p
+S000030958	CDS					YOR328W		15	931803	936497	W		2011-02-03	1996-07-31	
+S000028585	ORF	Dubious	YOR329W-A			chromosome 15		15	939348	939557	W		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by fungal homology and RT-PCR
+S000031335	CDS					YOR329W-A		15	939348	939557	W		2011-02-03	2003-07-29	
+S000005856	ORF	Verified	YOR329C	SCD5	SCD7|FTB1	chromosome 15	L000001805|S000029433|L000001807	15	939349	936731	C		2011-02-03	1996-07-31	Protein required for normal actin organization and endocytosis; targeting subunit for protein phosphatase type 1; undergoes Crm1p-dependent nuclear-cytoplasmic shuttling; multicopy suppressor of clathrin deficiency
+S000030995	CDS					YOR329C		15	939349	936731	C		2011-02-03	1996-07-31	
+S000005857	ORF	Verified	YOR330C	MIP1	DNA-directed DNA polymerase gamma MIP1	chromosome 15	L000001113	15	943385	939621	C	181	2011-02-03	1996-07-31|2005-11-30	Mitochondrial DNA polymerase gamma; single subunit of mitochondrial DNA polymerase in yeast, in contrast to metazoan complex of catalytic and accessory subunits; polymorphic in yeast, petites occur more frequently in some lab strains; human ortholog POLG complements yeast mip1 mutant; mutations in human POLG associated with Alpers-Huttenlocher syndrome (AHS), progressive external ophthalmoplegia (PEO), parkinsonism, other mitochondrial diseases
+S000031997	CDS					YOR330C		15	943385	939621	C		2011-02-03	1996-07-31|2005-11-30	
+S000005859	ORF	Verified	YOR332W	VMA4	H(+)-transporting V1 sector ATPase subunit E	chromosome 15	L000002459	15	943656	944357	W		2011-02-03	1996-07-31	Subunit E of the V1 domain of the vacuolar H+-ATPase (V-ATPase); V-ATPase is an electrogenic proton pump found throughout the endomembrane system; V1 domain has eight subunits; required for the V1 domain to assemble onto the vacuolar membrane; protein abundance increases in response to DNA replication stress
+S000032201	CDS					YOR332W		15	943656	944357	W		2011-02-03	1996-07-31	
+S000005858	ORF	Dubious	YOR331C			chromosome 15		15	944122	943565	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene VMA4/YOR332W
+S000032076	CDS					YOR331C		15	944122	943565	C		2011-02-03	1996-07-31	
+S000005861	ORF	Verified	YOR334W	MRS2		chromosome 15	L000001178	15	944596	946008	W		2011-02-03	1996-07-31	Mitochondrial inner membrane Mg(2+) channel; required for maintenance of intramitochondrial Mg(2+) concentrations at the correct level to support splicing of group II introns; similar to bacterial CorA
+S000033146	CDS					YOR334W		15	944596	946008	W		2011-02-03	1996-07-31	
+S000005860	ORF	Dubious	YOR333C		SWF5	chromosome 15		15	944957	944541	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 5' end of MRS2 gene required for respiratory growth
+S000032222	CDS					YOR333C		15	944957	944541	C		2011-02-03	1996-07-31	
+S000028717	ORF	Dubious	YOR335W-A			chromosome 15		15	946568	946648	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene ALA1/YOR335C
+S000032688	CDS					YOR335W-A		15	946568	946648	W		2011-02-03	2003-07-29	
+S000005862	ORF	Verified	YOR335C	ALA1	alanine--tRNA ligase|CDC64	chromosome 15	L000000286|L000002757	15	949109	946233	C	188	2011-02-03	1996-07-31	Cytoplasmic and mitochondrial alanyl-tRNA synthetase; required for protein synthesis; point mutation (cdc64-1 allele) causes cell cycle arrest at G1; lethality of null mutation is functionally complemented by human homolog AARS; mutations in human homolog AARS are associated with autoimmune disease polymyositis/dermatomyositis
+S000033157	CDS					YOR335C		15	949109	946233	C		2011-02-03	1996-07-31	
+S000005863	ORF	Verified	YOR336W	KRE5		chromosome 15	L000000914	15	949773	953870	W		2011-02-03	1996-07-31	Protein required for beta-1,6 glucan biosynthesis; mutations result in aberrant morphology and severe growth defects
+S000033259	CDS					YOR336W		15	949773	953870	W		2011-02-03	1996-07-31	
+S000005864	ORF	Verified	YOR337W	TEA1		chromosome 15	L000003020	15	954344	956623	W	193	2011-02-03	1996-07-31	Ty1 enhancer activator involved in Ty enhancer-mediated transcription; required for full levels of Ty enhancer-mediated transcription; C6 zinc cluster DNA-binding protein
+S000033317	CDS					YOR337W		15	954344	956623	W		2011-02-03	1996-07-31	
+S000005865	ORF	Uncharacterized	YOR338W			chromosome 15		15	956898	957989	W		2011-02-03	1996-07-31	Putative protein of unknown function; YOR338W transcription is regulated by Azf1p and its transcript is a specific target of the G protein effector Scp160p; identified as being required for sporulation in a high-throughput mutant screen; YOR338W has a paralog, FUN19, that arose from the whole genome duplication
+S000034225	CDS					YOR338W		15	956898	957989	W		2011-02-03	1996-07-31	
+S000005866	ORF	Verified	YOR339C	UBC11	putative E2 ubiquitin-protein ligase UBC11	chromosome 15	L000004673	15	958832	958362	C		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme; most similar in sequence to Xenopus ubiquitin-conjugating enzyme E2-C, but not a true functional homolog of this E2; unlike E2-C, not required for the degradation of mitotic cyclin Clb2
+S000034261	CDS					YOR339C		15	958832	958362	C		2011-02-03	1996-07-31	
+S000005867	ORF	Verified	YOR340C	RPA43	DNA-directed RNA polymerase I subunit RPA43|A43	chromosome 15	L000003029	15	960182	959202	C		2011-02-03	1996-07-31	RNA polymerase I subunit A43
+S000035445	CDS					YOR340C		15	960182	959202	C		2011-02-03	1996-07-31	
+S000005868	ORF	Verified	YOR341W	RPA190	DNA-directed RNA polymerase I core subunit RPA190|A190|RRN1	chromosome 15	L000001675	15	960987	965981	W	192	2011-02-03	1996-07-31	RNA polymerase I largest subunit A190
+S000036421	CDS					YOR341W		15	960987	965981	W		2011-02-03	1996-07-31	
+S000005869	ORF	Verified	YOR342C			chromosome 15		15	967625	966666	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus; relocalizes from nucleus to cytoplasm upon DNA replication stress; YOR342C has a paralog, YAL037W, that arose from the whole genome duplication
+S000036448	CDS					YOR342C		15	967625	966666	C		2011-02-03	1996-07-31	
+S000005870	ORF	Dubious	YOR343C			chromosome 15		15	968474	968148	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036546	CDS					YOR343C		15	968474	968148	C		2011-02-03	1996-07-31	
+S000007179	long_terminal_repeat		YORWsigma4			chromosome 15		15	968991	969301	W		2011-02-03	2000-05-19	Ty3 LTR
+S000007175	long_terminal_repeat		YORWdelta22			chromosome 15		15	969293	969431	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007176	long_terminal_repeat		YORWdelta23			chromosome 15		15	970286	970617	W		2011-02-03	2000-05-19	Ty2 LTR
+S000007183	LTR_retrotransposon		YORWTy2-2		Ty2	chromosome 15		15	970286	976244	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007355	transposable_element_gene		YOR343W-A		gag protein|YOR343C-A	chromosome 15		15	970578	971894	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000036395	CDS					YOR343W-A		15	970578	971894	W		2011-02-03	1999-07-17	
+S000007356	transposable_element_gene		YOR343W-B		gag-pol fusion protein|YOR343C-B	chromosome 15		15	970578	975891	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000036396	CDS					YOR343W-B		15	970578	971871	W		2011-02-03	1999-07-17	
+S000036397	CDS					YOR343W-B		15	971873	975891	W		2011-02-03	1999-07-17	
+S000036398	plus_1_translational_frameshift					YOR343W-B		15	971872	971872	W		2011-02-03	1999-07-17	
+S000007177	long_terminal_repeat		YORWdelta24			chromosome 15		15	975913	976244	W		2011-02-03	2000-05-19	Ty2 LTR
+S000006666	tRNA_gene		tM(CAU)O2	EMT2		chromosome 15	L000000552|L000003712	15	976421	976493	W		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
+S000032168	noncoding_exon					tM(CAU)O2		15	976421	976493	W		2011-02-03	2000-05-19	
+S000005871	ORF	Verified	YOR344C	TYE7	SGC1	chromosome 15	L000002401	15	978069	977194	C	199	2011-02-03	1996-07-31	Serine-rich protein that contains a bHLH DNA binding motif; binds E-boxes of glycolytic genes and contributes to their activation; may function as a transcriptional activator in Ty1-mediated gene expression; bHLH stands for basic-helix-loop-helix
+S000036612	CDS					YOR344C		15	978069	977194	C		2011-02-03	1996-07-31	
+S000007167	long_terminal_repeat		YORCdelta25			chromosome 15		15	980590	980259	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006689	tRNA_gene		tP(UGG)O3			chromosome 15	L000003713	15	980683	980787	W		2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin
+S000031061	intron					tP(UGG)O3		15	980719	980751	W		2011-02-03	2000-05-19	
+S000031059	noncoding_exon					tP(UGG)O3		15	980683	980718	W		2011-02-03	2000-05-19	
+S000031060	noncoding_exon					tP(UGG)O3		15	980752	980787	W		2011-02-03	2000-05-19	
+S000118496	ARS		ARS1529		ARSXV-982	chromosome 15		15	981462	981697			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000005873	ORF	Verified	YOR346W	REV1	deoxycytidyl transferase	chromosome 15	L000001615	15	981828	984785	W		2011-02-03	1996-07-31	Deoxycytidyl transferase; involved in repair of abasic sites and adducted guanines in damaged DNA by translesion synthesis (TLS); forms a complex with the subunits of DNA polymerase zeta, Rev3p and Rev7p; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000037530	CDS					YOR346W		15	981828	984785	W		2011-02-03	1996-07-31	
+S000005872	ORF	Dubious	YOR345C			chromosome 15		15	982162	981812	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene REV1; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
+S000037325	CDS					YOR345C		15	982162	981812	C		2011-02-03	1996-07-31	
+S000005874	ORF	Verified	YOR347C	PYK2	pyruvate kinase PYK2	chromosome 15	L000004122	15	986462	984942	C		2011-02-03	1996-07-31	Pyruvate kinase; appears to be modulated by phosphorylation; transcription repressed by glucose, and Pyk2p may be active under low glycolytic flux; PYK2 has a paralog, CDC19, that arose from the whole genome duplication
+S000037542	CDS					YOR347C		15	986462	984942	C		2011-02-03	1996-07-31	
+S000005875	ORF	Verified	YOR348C	PUT4	proline permease PUT4	chromosome 15	L000001538	15	988782	986899	C		2011-02-03	1996-07-31	Proline permease; required for high-affinity transport of proline; also transports the toxic proline analog azetidine-2-carboxylate (AzC); PUT4 transcription is repressed in ammonia-grown cells
+S000030314	CDS					YOR348C		15	988782	986899	C		2011-02-03	1996-07-31	
+S000005876	ORF	Verified	YOR349W	CIN1		chromosome 15	L000000336	15	989789	992833	W	215	2011-02-03	1996-07-31	Tubulin folding factor D involved in beta-tubulin (Tub2p) folding; isolated as mutant with increased chromosome loss and sensitivity to benomyl
+S000030549	CDS					YOR349W		15	989789	992833	W		2011-02-03	1996-07-31	
+S000005877	ORF	Verified	YOR350C	MNE1		chromosome 15	L000003295	15	994855	992864	C		2011-02-03	1996-07-31	Protein involved in splicing Group I aI5-beta intron from COX1 mRNA; mitochondrial matrix protein
+S000030755	CDS					YOR350C		15	994855	992864	C		2011-02-03	1996-07-31	
+S000005878	ORF	Verified	YOR351C	MEK1	serine/threonine protein kinase MEK1|MRE4	chromosome 15	L000001062|L000001148	15	996511	995018	C	175	2011-02-03	1996-07-31	Meiosis-specific serine/threonine protein kinase; functions in meiotic checkpoint, promotes recombination between homologous chromosomes by suppressing double strand break repair between sister chromatids; stabilizes Hop1-Thr318 phosphorylation to promote interhomolog recombination and checkpoint responses during meiosis
+S000031597	CDS					YOR351C		15	996511	995018	C		2011-02-03	1996-07-31	
+S000005879	ORF	Verified	YOR352W	TFB6	TFIIH complex subunit TFB6	chromosome 15		15	997213	998244	W		2011-02-03	1996-07-31	Subunit of TFIIH complex; facilities dissociation of the Ssl2p helices from TFIIH; expression levels regulated by Arg5,6p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
+S000031766	CDS					YOR352W		15	997213	998244	W		2011-02-03	1996-07-31	
+S000005880	ORF	Verified	YOR353C	SOG2		chromosome 15		15	1000828	998453	C		2011-02-03	1996-07-31	Key component of the RAM signaling network; required for proper cell morphogenesis and cell separation after mitosis
+S000031817	CDS					YOR353C		15	1000828	998453	C		2011-02-03	1996-07-31	
+S000005881	ORF	Verified	YOR354C	MSC6		chromosome 15		15	1003225	1001147	C		2011-02-03	1996-07-31	Multicopy suppressor of HER2 involved in mitochondrial translation; mutant is defective in directing meiotic recombination events to homologous chromatids
+S000031931	CDS					YOR354C		15	1003225	1001147	C		2011-02-03	1996-07-31	
+S000005882	ORF	Verified	YOR355W	GDS1		chromosome 15	L000002580	15	1005137	1006705	W		2011-02-03	1996-07-31	Protein of unknown function; required for growth on glycerol as a carbon source; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000032902	CDS					YOR355W		15	1005137	1006705	W		2011-02-03	1996-07-31	
+S000005883	ORF	Verified	YOR356W	CIR2	putative electron-transferring-flavoprotein dehydrogenase	chromosome 15		15	1007221	1009116	W		2011-02-03	1996-07-31	Putative ortholog of human ETF-dH; found in a large supramolecular complex with other mitochondrial dehydrogenases; may have a role in oxidative stress response; ETF-dH is also known as electron transfer flavoprotein dehydrogenase
+S000032990	CDS					YOR356W		15	1007221	1009116	W		2011-02-03	1996-07-31	
+S000005884	ORF	Verified	YOR357C	SNX3	GRD19	chromosome 15	L000002931	15	1009712	1009224	C		2011-02-03	1996-07-31	Sorting nexin for late-Golgi enzymes; required to maintain late-Golgi resident enzymes in their proper location by recycling molecules from the prevacuolar compartment; contains a PX domain and sequence similarity to human Snx3p
+S000033017	CDS					YOR357C		15	1009712	1009224	C		2011-02-03	1996-07-31	
+S000005885	ORF	Verified	YOR358W	HAP5		chromosome 15	L000003021	15	1010161	1010889	W		2011-02-03	1996-07-31	Subunit of the Hap2p/3p/4p/5p CCAAT-binding complex; complex is heme-activated and glucose repressed; complex is a transcriptional activator and global regulator of respiratory gene expression; required for assembly and DNA binding activity of the complex
+S000033859	CDS					YOR358W		15	1010161	1010889	W		2011-02-03	1996-07-31	
+S000005886	ORF	Verified	YOR359W	VTS1		chromosome 15		15	1011189	1012760	W		2011-02-03	1996-07-31	Flap-structured DNA-binding and RNA-binding protein; stimulates deadenylation-dependent mRNA degradation mediated by the CCR4-NOT deadenylase complex; member of the Smaug (Smg) family of post-transcriptional regulators which bind RNA through a conserved sterile alpha motif (SAM) domain that interacts with Smg recognition element (SREs) containing transcripts; stimulates Dna2p endonuclease activity
+S000033994	CDS					YOR359W		15	1011189	1012760	W		2011-02-03	1996-07-31	
+S000005887	ORF	Verified	YOR360C	PDE2	3',5'-cyclic-nucleotide phosphodiesterase PDE2|SRA5	chromosome 15	L000002046	15	1014821	1013241	C	220	2011-02-03	1996-07-31	High-affinity cyclic AMP phosphodiesterase; component of the cAMP-dependent protein kinase signaling system, protects the cell from extracellular cAMP, contains readthrough motif surrounding termination codon
+S000036087	CDS					YOR360C		15	1014821	1013241	C		2011-02-03	1996-07-31	
+S000005888	ORF	Verified	YOR361C	PRT1	translation initiation factor eIF3 core subunit b|DNA26|CDC63	chromosome 15	L000001515	15	1017652	1015361	C	221	2011-02-03	1996-07-31	eIF3b subunit of the eukaryotic translation initiation factor 3 (eIF3); subunit of the core complex of eIF3; essential for translation; part of a subcomplex (Prt1p-Rpg1p-Nip1p) that stimulates binding of mRNA and tRNA(i)Met to ribosomes; eIF3 is also involved in programmed stop codon readthrough
+S000036186	CDS					YOR361C		15	1017652	1015361	C		2011-02-03	1996-07-31	
+S000005889	ORF	Verified	YOR362C	PRE10	proteasome core particle subunit alpha 7	chromosome 15	L000003146	15	1018746	1017880	C		2011-02-03	1996-07-31	Alpha 7 subunit of the 20S proteasome; protein abundance increases in response to DNA replication stress
+S000036287	CDS					YOR362C		15	1018746	1017880	C		2011-02-03	1996-07-31	
+S000005890	ORF	Verified	YOR363C	PIP2	oleate-activated transcription factor PIP2|OAF2	chromosome 15	L000003144	15	1023212	1020222	C		2011-02-03	1996-07-31	Autoregulatory, oleate-activated transcription factor; subunit of a heterodimeric complex with Oaf1p, which binds to oleate-response elements (ORE) in the promoter of genes involved in beta-oxidation of fatty acids, peroxisome organization and biogenesis, activating transcription in the presence of oleate; PIP2 has a paralog, OAF1, that arose from the whole genome duplication
+S000036382	CDS					YOR363C		15	1023212	1020222	C		2011-02-03	1996-07-31	
+S000005891	ORF	Dubious	YOR364W			chromosome 15		15	1023371	1023739	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOR365C
+S000037077	CDS					YOR364W		15	1023371	1023739	W		2011-02-03	1996-07-31	
+S000005893	ORF	Dubious	YOR366W			chromosome 15		15	1025256	1025609	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOR365C
+S000037303	CDS					YOR366W		15	1025256	1025609	W		2011-02-03	1996-07-31	
+S000005892	ORF	Uncharacterized	YOR365C		putative flavin adenine dinucleotide transporter	chromosome 15		15	1025572	1023461	C		2011-02-03	1996-07-31	Putative protein of unknown function; not an essential protein; YOR365C has a paralog, FLC2, that arose from the whole genome duplication
+S000037119	CDS					YOR365C		15	1025572	1023461	C		2011-02-03	1996-07-31	
+S000005894	ORF	Verified	YOR367W	SCP1		chromosome 15	L000004232	15	1026007	1026609	W		2011-02-03	1996-07-31	Component of yeast cortical actin cytoskeleton; binds and cross links actin filaments; originally identified by its homology to calponin (contains a calponin-like repeat) but the Scp1p domain structure is more similar to transgelin
+S000029952	CDS					YOR367W		15	1026007	1026609	W		2011-02-03	1996-07-31	
+S000005895	ORF	Verified	YOR368W	RAD17		chromosome 15	L000001566	15	1026843	1028048	W	214	2011-02-03	1996-07-31	Checkpoint protein; involved in the activation of the DNA damage and meiotic pachytene checkpoints; with Mec3p and Ddc1p, forms a clamp that is loaded onto partial duplex DNA; homolog of human and S. pombe Rad1 and U. maydis Rec1 proteins
+S000030058	CDS					YOR368W		15	1026843	1028048	W		2011-02-03	1996-07-31	
+S000005896	ORF	Verified	YOR369C	RPS12	eS12|ribosomal 40S subunit protein S12|S12e|S12	chromosome 15	L000002785	15	1028625	1028194	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S12, no bacterial homolog
+S000030088	CDS					YOR369C		15	1028625	1028194	C		2011-02-03	1996-07-31	
+S000005897	ORF	Verified	YOR370C	MRS6	GTPase-activating protein MRS6|MSI4	chromosome 15	L000001182|L000001194	15	1030994	1029183	C		2011-02-03	1996-07-31	Rab escort protein; forms a complex with the Ras-like small GTPase Ypt1p that is required for the prenylation of Ypt1p by protein geranylgeranyltransferase type II (Bet2p-Bet4p); sequence similarity to mammalian choroideraemia gene; relative distribution to the nucleus increases upon DNA replication stress
+S000031162	CDS					YOR370C		15	1030994	1029183	C		2011-02-03	1996-07-31	
+S000005898	ORF	Verified	YOR371C	GPB1	KRH2	chromosome 15		15	1034182	1031489	C		2011-02-03	1996-07-31	Multistep regulator of cAMP-PKA signaling; inhibits PKA downstream of Gpa2p and Cyr1p, thereby increasing cAMP dependency; promotes ubiquitin-dependent proteolysis of Ira2p; regulated by G-alpha protein Gpa2p; GPB1 has a paralog, GPB2, that arose from the whole genome duplication
+S000031222	CDS					YOR371C		15	1034182	1031489	C		2011-02-03	1996-07-31	
+S000005899	ORF	Verified	YOR372C	NDD1		chromosome 15		15	1036471	1034807	C		2011-02-03	1996-07-31	Transcriptional activator essential for nuclear division; localized to the nucleus; essential component of the mechanism that activates the expression of a set of late-S-phase-specific genes; turnover is tightly regulated during cell cycle and in response to DNA damage
+S000032194	CDS					YOR372C		15	1036471	1034807	C		2011-02-03	1996-07-31	
+S000005900	ORF	Verified	YOR373W	NUD1		chromosome 15	L000002752	15	1036834	1039389	W		2011-02-03	1996-07-31	Component of the spindle pole body outer plaque; acts through the mitotic exit network to specify asymmetric spindle pole body inheritance
+S000032346	CDS					YOR373W		15	1036834	1039389	W		2011-02-03	1996-07-31	
+S000005901	ORF	Verified	YOR374W	ALD4	aldehyde dehydrogenase (NADP(+)) ALD4|ALDH2|ALD7	chromosome 15	L000004220	15	1039840	1041399	W		2011-02-03	1996-07-31	Mitochondrial aldehyde dehydrogenase; required for growth on ethanol and conversion of acetaldehyde to acetate; phosphorylated; activity is K+ dependent; utilizes NADP+ or NAD+ equally as coenzymes; expression is glucose repressed; can substitute for cytosolic NADP-dependent aldehyde dehydrogenase when directed to the cytosol; human homolog ALDH2 can complement yeast ald4 mutant
+S000033216	CDS					YOR374W		15	1039840	1041399	W		2011-02-03	1996-07-31	
+S000005902	ORF	Verified	YOR375C	GDH1	glutamate dehydrogenase (NADP(+)) GDH1|DHE4|GDHA|GDH-A|URE1	chromosome 15	L000000696	15	1043042	1041678	C		2011-02-03	1996-07-31	NADP(+)-dependent glutamate dehydrogenase; synthesizes glutamate from ammonia and alpha-ketoglutarate; rate of alpha-ketoglutarate utilization differs from Gdh3p; expression regulated by nitrogen and carbon sources; GDH1 has a paralog, GDH3, that arose from the whole genome duplication
+S000033231	CDS					YOR375C		15	1043042	1041678	C		2011-02-03	1996-07-31	
+S000005903	ORF	Uncharacterized	YOR376W			chromosome 15		15	1043191	1043559	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YOR376W is not an essential gene
+S000033346	CDS					YOR376W		15	1043191	1043559	W		2011-02-03	1996-07-31	
+S000028586	ORF	Uncharacterized	YOR376W-A			chromosome 15		15	1045196	1045351	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031336	CDS					YOR376W-A		15	1045196	1045351	W		2011-02-03	2003-07-29	
+S000005904	ORF	Verified	YOR377W	ATF1	alcohol O-acetyltransferase	chromosome 15	L000000138	15	1046226	1047803	W		2011-02-03	1996-07-31	Alcohol acetyltransferase; responsible for the major part of volatile acetate ester production during fermentation; main enzyme involved in terpenyl acetate synthesis; potential roles in lipid and sterol metabolism
+S000033432	CDS					YOR377W		15	1046226	1047803	W		2011-02-03	1996-07-31	
+S000005905	ORF	Verified	YOR378W	AMF1		chromosome 15		15	1049511	1051058	W		2011-02-03	1996-07-31	Low affinity NH4+ transporter; member of the DHA2 family of drug:H+ anti porters; putative paralog of ATR1; but not required for boron tolerance; non-essential gene
+S000034342	CDS					YOR378W		15	1049511	1051058	W		2011-02-03	1996-07-31	
+S000005906	ORF	Dubious	YOR379C			chromosome 15		15	1051064	1050726	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOR378W
+S000034365	CDS					YOR379C		15	1051064	1050726	C		2011-02-03	1996-07-31	
+S000005907	ORF	Verified	YOR380W	RDR1		chromosome 15		15	1051290	1052930	W		2011-02-03	1996-07-31	Transcriptional repressor involved in regulating multidrug resistance; negatively regulates expression of the PDR5 gene; member of the Gal4p family of zinc cluster proteins
+S000035338	CDS					YOR380W		15	1051290	1052930	W		2011-02-03	1996-07-31	
+S000005908	ORF	Verified	YOR381W	FRE3	ferric-chelate reductase	chromosome 15	L000003555	15	1055545	1057680	W		2011-02-03	1996-07-31	Ferric reductase; reduces siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels
+S000035406	CDS					YOR381W		15	1055545	1057680	W		2011-02-03	1996-07-31	
+S000028587	ORF	Uncharacterized	YOR381W-A			chromosome 15		15	1058423	1058590	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031338	CDS					YOR381W-A		15	1058423	1058590	W		2011-02-03	2003-07-29	
+S000005909	ORF	Verified	YOR382W	FIT2		chromosome 15		15	1059531	1059992	W		2011-02-03	1996-07-31	Mannoprotein that is incorporated into the cell wall; incorporated via a glycosylphosphatidylinositol (GPI) anchor; involved in the retention of siderophore-iron in the cell wall 
+S000035468	CDS					YOR382W		15	1059531	1059992	W		2011-02-03	1996-07-31	
+S000005910	ORF	Verified	YOR383C	FIT3		chromosome 15		15	1061055	1060441	C		2011-02-03	1996-07-31	Mannoprotein that is incorporated into the cell wall; incorporated via a glycosylphosphatidylinositol (GPI) anchor; involved in the retention of siderophore-iron in the cell wall 
+S000035495	CDS					YOR383C		15	1061055	1060441	C		2011-02-03	1996-07-31	
+S000005911	ORF	Verified	YOR384W	FRE5	putative ferric-chelate reductase	chromosome 15	L000003557	15	1061564	1063648	W		2011-02-03	1996-07-31	Putative ferric reductase with similarity to Fre2p; expression induced by low iron levels; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000035594	CDS					YOR384W		15	1061564	1063648	W		2011-02-03	1996-07-31	
+S000005912	ORF	Uncharacterized	YOR385W			chromosome 15		15	1065043	1065915	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YOR385W is not an essential gene
+S000036492	CDS					YOR385W		15	1065043	1065915	W		2011-02-03	1996-07-31	
+S000005913	ORF	Verified	YOR386W	PHR1	deoxyribodipyrimidine photo-lyase PHR1	chromosome 15	L000001432	15	1066839	1068536	W	205	2011-02-03	1996-07-31	DNA photolyase involved in photoreactivation; repairs pyrimidine dimers in the presence of visible light; induced by DNA damage; regulated by transcriptional repressor Rph1p
+S000036613	CDS					YOR386W		15	1066839	1068536	W		2011-02-03	1996-07-31	
+S000005914	ORF	Uncharacterized	YOR387C			chromosome 15		15	1070241	1069621	C		2011-02-03	1996-07-31	Putative protein of unknown function; regulated by the metal-responsive Aft1p transcription factor; highly inducible in zinc-depleted conditions; localizes to the soluble fraction; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; YOR387C has a paralog, VEL1, that arose from a single-locus duplication
+S000036646	CDS					YOR387C		15	1070241	1069621	C		2011-02-03	1996-07-31	
+S000005915	ORF	Verified	YOR388C	FDH1	formate dehydrogenase (NAD+)	chromosome 15	L000004078	15	1072923	1071793	C		2011-02-03	1996-07-31	NAD(+)-dependent formate dehydrogenase; may protect cells from exogenous formate
+S000036744	CDS					YOR388C		15	1072923	1071793	C		2011-02-03	1996-07-31	
+S000005916	ORF	Uncharacterized	YOR389W			chromosome 15		15	1074213	1076087	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression regulated by copper levels
+S000037549	CDS					YOR389W		15	1074213	1076087	W		2011-02-03	1996-07-31	
+S000005917	ORF	Verified	YOR390W	FEX1	fluoride transporter	chromosome 15		15	1076784	1077911	W		2011-02-03	1996-07-31	Protein involved in fluoride export; nearly identical to FEX2, and deletion of both proteins results in a large increase in fluoride sensitivity compared with the single mutant; contains two FEX domains connected by a linker; part of a widespread family of conserved fluoride export proteins
+S000030291	CDS					YOR390W		15	1076784	1077911	W		2011-02-03	1996-07-31	
+S000005918	ORF	Verified	YOR391C	HSP33	glutathione-independent methylglyoxalase family protein	chromosome 15		15	1079258	1078545	C		2011-02-03	1996-07-31	Possible chaperone and cysteine protease; required for transcriptional reprogramming during the diauxic shift and for survival in stationary phase; similar to E. coli Hsp31 and S. cerevisiae Hsp31p, Hsp32p, and Sno4p; member of the DJ-1/ThiJ/PfpI superfamily, which includes human DJ-1 involved in Parkinson's disease and cancer
+S000030329	CDS					YOR391C		15	1079258	1078545	C		2011-02-03	1996-07-31	
+S000005919	ORF	Dubious	YOR392W			chromosome 15		15	1079282	1079725	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; gene expression induced by heat
+S000031315	CDS					YOR392W		15	1079282	1079725	W		2011-02-03	1996-07-31	
+S000005920	ORF	Verified	YOR393W	ERR1	phosphopyruvate hydratase ERR1	chromosome 15	L000002735	15	1080276	1081589	W		2011-02-03	1996-07-31	Putative phosphopyruvate hydratase
+S000031378	CDS					YOR393W		15	1080276	1081589	W		2011-02-03	1996-07-31	
+S000005921	ORF	Verified	YOR394W	PAU21	seripauperin PAU21	chromosome 15		15	1082718	1083212	W		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cytosol; identical to Pau22p; encodes two proteins that are translated from 2 different start codons
+S000031488	CDS					YOR394W		15	1082718	1083212	W		2011-02-03	1996-07-31	
+S000028997	telomere		TEL15R			chromosome 15		15	1083922	1091291	W	229	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome XV; composed of an X element core sequence, X element combinatorial repeats, a long Y' element, and a very short terminal stretch of telomeric repeats
+S000028998	telomeric_repeat					TEL15R		15	1091274	1091291	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome XV
+S000028999	X_element					TEL15R		15	1083922	1084367	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XV; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YOR394C-A
+S000029000	X_element_combinatorial_repeat					TEL15R		15	1084368	1084620	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr XV; contains repeats of the D, C, and B types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000029001	Y_prime_element					TEL15R		15	1084621	1091273	W		2011-02-03	2003-09-09	Telomeric long Y' element on the right arm of Chromosome XV; contains an ARS consensus sequence, a region of 36-bp repeats, and ORFs YOR396W and YOR396C-A
+S000028718	ORF	Uncharacterized	YOR394C-A			chromosome 15		15	1084369	1084202	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032689	CDS					YOR394C-A		15	1084369	1084202	C		2011-02-03	2003-07-29	
+S000007526	ORF	Uncharacterized	YOR396W	YRF1-8	Y' element ATP-dependent helicase protein 1 copy 8	chromosome 15		15	1085473	1090863	W		2011-02-03	2000-07-14|2007-02-07	One of several telomeric Y' element-encoded DNA helicases; known as Y'-Help1 (Y'-HELicase Protein 1)
+S000037061	CDS					YOR396W		15	1085473	1090863	W		2011-02-03	2000-07-14|2007-02-07	
+S000028719	ORF	Dubious	YOR396C-A			chromosome 15		15	1090497	1090015	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032691	CDS					YOR396C-A		15	1090497	1090015	C		2011-02-03	2003-07-29	
+S000028724	ORF	Dubious	YPL283W-B			chromosome 16		16	643	1125	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032709	CDS					YPL283W-B		16	643	1125	W		2003-07-29	2003-07-29	
+S000028723	ORF	Dubious	YPL283W-A			chromosome 16		16	1426	2001	W		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032706	CDS					YPL283W-A		16	1426	2001	W		2003-07-29	2003-07-29	
+S000006204	ORF	Verified	YPL283C	YRF1-7	Y' element ATP-dependent helicase protein 1 copy 7|YRF1	chromosome 16		16	6007	280	C		1996-07-31	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
+S000036889	CDS					YPL283C		16	5840	280	C		1996-07-31	1996-07-31	
+S000036888	CDS					YPL283C		16	6007	5989	C		1996-07-31	1996-07-31	
+S000036890	intron					YPL283C		16	5988	5841	C		1996-07-31	1996-07-31	
+S000028933	telomere		TEL16L			chromosome 16		16	7223	1	C	-169	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome XVI; annotated components include an X element core sequence, X element combinatorial repeats, and a long Y' element; TEL16L does have telomeric repeats (TEL16L-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
+S000028934	X_element					TEL16L		16	7223	6778	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome XVI; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028935	X_element_combinatorial_repeat					TEL16L		16	6777	6525	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr XVI; contains repeats of the D, C and B types; formerly called SubTelomeric Repeats
+S000028936	Y_prime_element					TEL16L		16	6524	1	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome XVI; contains an ARS consensus sequence, a region of 36-bp repeats, and ORFs YRF1-7/YPL283C, YPL283W-A, YPL283W-B
+S000006203	ORF	Verified	YPL282C	PAU22	seripauperin PAU22	chromosome 16		16	8427	7933	C		1996-07-31	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to just the vacuole; identical to Pau21p; encodes two proteins that are translated from two different start codons
+S000036818	CDS					YPL282C		16	8427	7933	C		1996-07-31	1996-07-31	
+S000006202	ORF	Verified	YPL281C	ERR2	phosphopyruvate hydratase ERR2	chromosome 16	L000004075	16	10870	9557	C		1996-07-31	1996-07-31	Enolase, a phosphopyruvate hydratase; catalyzes the conversion of 2-phosphoglycerate to phosphoenolpyruvate; complements the growth defect of an ENO1 ENO2 double mutant
+S000035948	CDS					YPL281C		16	10870	9557	C		1996-07-31	1996-07-31	
+S000006201	ORF	Verified	YPL280W	HSP32	glutathione-independent methylglyoxalase family protein	chromosome 16		16	11887	12600	W		1996-07-31	1996-07-31	Possible chaperone and cysteine protease; required for transcriptional reprogramming during the diauxic shift and for survival in stationary phase; similar to E. coli Hsp31 and S. cerevisiae Hsp31p, Hsp33p, and Sno4p; member of the DJ-1/ThiJ/PfpI superfamily, which includes human DJ-1 involved in Parkinson's disease and cancer
+S000035901	CDS					YPL280W		16	11887	12600	W		1996-07-31	1996-07-31	
+S000006200	ORF	Verified	YPL279C	FEX2	fluoride transporter	chromosome 16		16	14355	13228	C		1996-07-31	1996-07-31	Protein involved in fluoride export; nearly identical to FEX1, and deletion of both proteins results in a large increase in fluoride sensitivity compared with the single mutant; contains two FEX domains connected by a linker; part of a widespread family of conserved fluoride export proteins
+S000034797	CDS					YPL279C		16	14355	13228	C		1996-07-31	1996-07-31	
+S000006199	ORF	Uncharacterized	YPL278C			chromosome 16		16	15355	15053	C		1996-07-31	1996-07-31	Putative protein of unknown function; gene expression regulated by copper levels
+S000034632	CDS					YPL278C		16	15355	15053	C		1996-07-31	1996-07-31	
+S000006198	ORF	Uncharacterized	YPL277C			chromosome 16		16	16868	15405	C		1996-07-31	1996-07-31	Putative protein of unknown function; localized to the membranes; gene expression regulated by copper levels
+S000033762	CDS					YPL277C		16	16868	15405	C		1996-07-31	1996-07-31	
+S000006197	pseudogene		YPL276W		FDH2	chromosome 16		16	17948	18385	W		1996-07-31	1996-07-31	NAD(+)-dependent formate dehydrogenase; may protect cells from exogenous formate; YPL275W and YPL276W comprise a continuous open reading frame in some S. cerevisiae strains but not in the genomic reference strain S288C
+S000033699	CDS					YPL276W		16	17948	18385	W		1996-07-31	1996-07-31	
+S000006196	pseudogene		YPL275W	FDH2		chromosome 16		16	18369	19079	W		1996-07-31	1996-07-31	NAD(+)-dependent formate dehydrogenase; may protect cells from exogenous formate; YPL275W and YPL276W comprise a continuous open reading frame in some S. cerevisiae strains but not in the genomic reference strain S288C
+S000033615	CDS					YPL275W		16	18369	19079	W		1996-07-31	1996-07-31	
+S000130195	ARS		ARS1603			chromosome 16		16	18370	19069			2009-05-08	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000006195	ORF	Verified	YPL274W	SAM3	bifunctional polyamine/amino acid permease SAM3	chromosome 16	L000004875	16	22938	24701	W		1996-07-31	1996-07-31	High-affinity S-adenosylmethionine permease; required for utilization of S-adenosylmethionine as a sulfur source; has similarity to S-methylmethionine permease Mmp1p
+S000033506	CDS					YPL274W		16	22938	24701	W		1996-07-31	1996-07-31	
+S000006194	ORF	Verified	YPL273W	SAM4	S-adenosylmethionine-homocysteine S-methyltransferase SAM4	chromosome 16		16	25087	26064	W		1996-07-31	1996-07-31	S-adenosylmethionine-homocysteine methyltransferase; functions along with Mht1p in the conversion of S-adenosylmethionine (AdoMet) to methionine to control the methionine/AdoMet ratio; SAM4 has a paralog, YMR321C, that arose from a single-locus duplication
+S000032785	CDS					YPL273W		16	25087	26064	W		1996-07-31	1996-07-31	
+S000006193	ORF	Uncharacterized	YPL272C	PBI1		chromosome 16		16	28164	26611	C		1996-07-31	1996-07-31	Putative protein of unknown function; gene expression induced in response to ketoconazole; YPL272C is not an essential gene
+S000032642	CDS					YPL272C		16	28164	26611	C		1996-07-31	1996-07-31	
+S000006192	ORF	Verified	YPL271W	ATP15	F1F0 ATP synthase subunit epsilon|ATPEPSILON	chromosome 16	L000000151|L000000152	16	30079	30267	W		1996-07-31	1996-07-31	Epsilon subunit of the F1 sector of mitochondrial F1F0 ATP synthase; which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; F1 translationally regulates ATP6 and ATP8 expression to achieve a balanced output of ATP synthase genes encoded in nucleus and mitochondria; phosphorylated
+S000032564	CDS					YPL271W		16	30079	30267	W		1996-07-31	1996-07-31	
+S000006191	ORF	Verified	YPL270W	MDL2	ATP-binding cassette permease MDL2	chromosome 16	L000001050	16	30482	32803	W		2003-09-22	2003-09-22|1996-07-31	Mitochondrial inner membrane half-type ABC transporter; required for respiratory growth at high temperature; localizes to vacuole membrane in response to H2O2; similar to human TAP1 and TAP2 implicated in bare lymphocyte syndrome and Wegener-like granulomatosis
+S000031583	CDS					YPL270W		16	30482	32803	W		2003-09-22	2003-09-22|1996-07-31	
+S000006190	ORF	Verified	YPL269W	KAR9		chromosome 16	L000002932	16	33013	34947	W		1996-07-31	1996-07-31	Spindle positioning factor; orients astral microtubules, connecting them to actin cables at the cortex with Bim1p and Myo2, resulting in proper spindle positioning; targeted for StuBL-dependent degradation at kinetochores by Slx5p-Slx8p, ensuring chromosome transmission fidelity and correct spindle positioning; role in karyogamy; localizes to the shmoo tip, the growing bud-tip, the nucleus, the kinetochore, the spindle and microtubules; homolog of adenomatous polyposis coli
+S000031613	CDS					YPL269W		16	33013	34947	W		1996-07-31	1996-07-31	
+S000006189	ORF	Verified	YPL268W	PLC1	phosphatidylinositol phospholipase C	chromosome 16	L000001448	16	35236	37845	W	-167.2	1996-07-31	1996-07-31	Phospholipase C; hydrolyzes phosphatidylinositol 4,5-biphosphate (PIP2) to generate the signaling molecules inositol 1,4,5-triphosphate (IP3) and 1,2-diacylglycerol (DAG); involved in regulating many cellular processes; Plc1p and inositol polyphosphates are required for acetyl-CoA homeostasis which regulates global histone acetylation
+S000031510	CDS					YPL268W		16	35236	37845	W		1996-07-31	1996-07-31	
+S000006188	ORF	Verified	YPL267W	ACM1		chromosome 16		16	38169	38798	W		1996-07-31	1996-07-31	Pseudosubstrate inhibitor of the APC/C; suppresses APC/C [Cdh1]-mediated proteolysis of mitotic cyclins; associates with Cdh1p, Bmh1p and Bmh2p; cell cycle regulated protein; the anaphase-promoting complex/cyclosome is also known as APC/C
+S000030663	CDS					YPL267W		16	38169	38798	W		1996-07-31	1996-07-31	
+S000006187	ORF	Verified	YPL266W	DIM1	putative dimethyladenosine transferase|CDH1	chromosome 16	L000002579	16	39121	40077	W		1996-07-31	1996-07-31	Essential 18S rRNA dimethylase (dimethyladenosine transferase); responsible for conserved m6(2)Am6(2)A dimethylation in 3'-terminal loop of 18S rRNA, part of 90S and 40S pre-particles in nucleolus, involved in pre-ribosomal RNA processing; human homolog DIMT1 complements yeast dim1 mutant
+S000030548	CDS					YPL266W		16	39121	40077	W		1996-07-31	1996-07-31	
+S000006186	ORF	Verified	YPL265W	DIP5		chromosome 16	L000003178	16	41043	42869	W		1996-07-31	1996-07-31	Dicarboxylic amino acid permease; mediates high-affinity and high-capacity transport of L-glutamate and L-aspartate; also a transporter for Gln, Asn, Ser, Ala, and Gly; relocalizes from plasma membrane to vacuole upon DNA replication stress
+S000030403	CDS					YPL265W		16	41043	42869	W		1996-07-31	1996-07-31	
+S000118411	ARS		ARS1604		ARSXVI-43	chromosome 16		16	42977	43212			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000178190	ARS_consensus_sequence					ARS1604		16	43163	43147	C		2014-11-18	2014-11-18	
+S000006185	ORF	Uncharacterized	YPL264C			chromosome 16		16	44344	43283	C		1996-07-31	1996-07-31	Putative membrane protein of unknown function; physically interacts with Hsp82p; YPL264C is not an essential gene
+S000037545	CDS					YPL264C		16	44344	43283	C		1996-07-31	1996-07-31	
+S000006184	ORF	Verified	YPL263C	KEL3		chromosome 16		16	46506	44551	C		1996-07-31	1996-07-31	Cytoplasmic protein of unknown function
+S000037435	CDS					YPL263C		16	46506	44551	C		1996-07-31	1996-07-31	
+S000006183	ORF	Verified	YPL262W	FUM1	fumarase FUM1	chromosome 16	L000000632	16	47336	48802	W		1996-07-31	1996-07-31	Fumarase; converts fumaric acid to L-malic acid in the TCA cycle; cytosolic and mitochondrial distribution determined by the N-terminal targeting sequence, protein conformation, and status of glyoxylate shunt; phosphorylated in mitochondria
+S000037382	CDS					YPL262W		16	47336	48802	W		1996-07-31	1996-07-31	
+S000006181	ORF	Verified	YPL260W	CUB1		chromosome 16		16	49303	50958	W		1996-07-31	1996-07-31	Conserved fungal gene linked to DNA repair and proteasome function; putative substrate of cAMP-dependent protein kinase (PKA); green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YPL260W is not an essential gene; protein abundance increases in response to DNA replication stress
+S000036555	CDS					YPL260W		16	49303	50958	W		1996-07-31	1996-07-31	
+S000006182	ORF	Uncharacterized	YPL261C			chromosome 16		16	49304	48996	C		1996-07-31	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YPL261C is not an essential gene; partially overlaps verified ORF YPL260W
+S000036608	CDS					YPL261C		16	49304	48996	C		1996-07-31	1996-07-31	
+S000006180	ORF	Verified	YPL259C	APM1	YAP54	chromosome 16	L000002494	16	52671	51244	C		1996-07-31	1996-07-31	Mu1-like medium subunit of the AP-1 complex; binds clathrin; involved in clathrin-dependent Golgi protein sorting; the AP-1 complex is the clathrin-associated protein complex
+S000036655	CDS					YPL259C		16	52671	51244	C		1996-07-31	1996-07-31	
+S000006179	ORF	Verified	YPL258C	THI21	bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase	chromosome 16		16	55153	53498	C		1996-07-31	1996-07-31	Hydroxymethylpyrimidine (HMP) and HMP-phosphate kinase; involved in thiamine biosynthesis; member of a gene family with THI20 and THI22; functionally redundant with Thi20p
+S000035722	CDS					YPL258C		16	55153	53498	C		1996-07-31	1996-07-31	
+S000007184	long_terminal_repeat		YPLCdelta1			chromosome 16		16	55858	55657	C		2000-05-19	2000-05-19	Ty1 LTR
+S000006776	tRNA_gene		tW(CCA)P			chromosome 16	L000003737	16	56274	56169	C		2000-05-19	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
+S000034120	intron					tW(CCA)P		16	56238	56205	C		2000-05-19	2000-05-19	
+S000034119	noncoding_exon					tW(CCA)P		16	56204	56169	C		2000-05-19	2000-05-19	
+S000034118	noncoding_exon					tW(CCA)P		16	56274	56239	C		2000-05-19	2000-05-19	
+S000007198	long_terminal_repeat		YPLWsigma1			chromosome 16		16	56290	56358	W		2000-05-19	2000-05-19	Ty3 LTR
+S000007189	long_terminal_repeat		YPLWdelta2			chromosome 16		16	56409	56451	W		2000-05-19	2000-05-19	Ty1 LTR
+S000007190	long_terminal_repeat		YPLWdelta3			chromosome 16		16	56452	56788	W		2000-05-19	2000-05-19	Ty1 LTR
+S000007199	LTR_retrotransposon		YPLWTy1-1		Ty1	chromosome 16		16	56452	62375	W		2000-05-19	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007357	transposable_element_gene		YPL257W-A		gag protein	chromosome 16		16	56748	58070	W		1996-07-31	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000033164	CDS					YPL257W-A		16	56748	58070	W		1996-07-31	1996-07-31	
+S000007358	transposable_element_gene		YPL257W-B		gag-pol fusion protein	chromosome 16		16	56748	62016	W		1997-07-17	1997-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000033173	CDS					YPL257W-B		16	56748	58052	W		1997-07-17	1997-07-17	
+S000033174	CDS					YPL257W-B		16	58054	62016	W		1997-07-17	1997-07-17	
+S000033175	plus_1_translational_frameshift					YPL257W-B		16	58053	58053	W		1997-07-17	1997-07-17	
+S000007191	long_terminal_repeat		YPLWdelta4			chromosome 16		16	62039	62375	W		2000-05-19	2000-05-19	Ty1 LTR
+S000007192	long_terminal_repeat		YPLWdelta5			chromosome 16		16	62389	62720	W		2000-05-19	2000-05-19	Ty2 LTR
+S000007193	long_terminal_repeat		YPLWdelta6			chromosome 16		16	62724	63006	W		2000-05-19	2000-05-19	Ty1 LTR
+S000006178	ORF	Uncharacterized	YPL257W			chromosome 16		16	63279	63860	W		1996-07-31	1996-07-31	Putative protein of unknown function; homozygous diploid deletion strain exhibits low budding index; physically interacts with Hsp82p; YPL257W is not an essential gene
+S000035666	CDS					YPL257W		16	63279	63860	W		1996-07-31	1996-07-31	
+S000006177	ORF	Verified	YPL256C	CLN2	cyclin CLN2	chromosome 16	L000000358	16	66614	64977	C		1996-07-31	1996-07-31	G1 cyclin involved in regulation of the cell cycle; activates Cdc28p kinase to promote the G1 to S phase transition; late G1 specific expression depends on transcription factor complexes, MBF (Swi6p-Mbp1p) and SBF (Swi6p-Swi4p); CLN2 has a paralog, CLN1, that arose from the whole genome duplication; cell cycle arrest phenotype of the cln1 cln2 cln3 triple null mutant is complemented by any of human cyclins CCNA2, CCNB1, CCNC, CCND1, or CCNE1
+S000035542	CDS					YPL256C		16	66614	64977	C		1996-07-31	1996-07-31	
+S000006176	ORF	Verified	YPL255W	BBP1		chromosome 16	L000003060	16	67725	68882	W		1996-07-31	1996-07-31	Protein required for the spindle pole body (SPB) duplication; localizes at the cytoplasmic side of the central plaque periphery of the SPB; forms a complex with a nuclear envelope protein Mps2p and SPB components Spc29p and Kar1p; required for mitotic functions of Cdc5p
+S000035492	CDS					YPL255W		16	67725	68882	W		1996-07-31	1996-07-31	
+S000006175	ORF	Verified	YPL254W	HFI1	GAN1|SRM12|SUP110|ADA1	chromosome 16	L000003094	16	69485	70951	W		1996-07-31	1996-07-31	Adaptor protein required for structural integrity of the SAGA complex; a histone acetyltransferase-coactivator complex that is involved in global regulation of gene expression through acetylation and transcription functions
+S000034469	CDS					YPL254W		16	69485	70951	W		1996-07-31	1996-07-31	
+S000006174	ORF	Verified	YPL253C	VIK1		chromosome 16	L000004276	16	73006	71063	C		1996-07-31	1996-07-31	Protein that forms a kinesin-14 heterodimeric motor with Kar3p; localizes Kar3p at mitotic spindle poles; has a structure similar to a kinesin motor domain but lacks an ATP-binding site and is catalytically inactive; binds microtubules; required for sister chromatid cohesion; VIK1 has a paralog, CIK1, that arose from the whole genome duplication
+S000034335	CDS					YPL253C		16	73006	71063	C		1996-07-31	1996-07-31	
+S000118412	ARS		ARS1605		ARSXVI-73	chromosome 16		16	73032	73227			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000006172	ORF	Dubious	YPL251W			chromosome 16		16	73625	73927	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps 5' end of the verified, essential gene YAH1/YPL252C
+S000033368	CDS					YPL251W		16	73625	73927	W		1996-07-31	1996-07-31	
+S000006173	ORF	Verified	YPL252C	YAH1	adrenodoxin	chromosome 16	L000004699	16	73881	73363	C		1996-07-31	1996-07-31	Ferredoxin of the mitochondrial matrix; required for formation of cellular iron-sulfur proteins; involved in heme A biosynthesis; human homolog FDX1L can complement yeast by allowing growth during down-regulation of yeast YAH1
+S000033428	CDS					YPL252C		16	73881	73363	C		1996-07-31	1996-07-31	
+S000006171	ORF	Verified	YPL250C	ATG41	ICY2	chromosome 16	S000007528	16	74719	74309	C		1996-07-31	1996-07-31	Protein of unknown function; required for selective and nonselective autophagy, and mitophagy; regulates the rate of autophagosome formation; interacts with Atg9p, and has a similar peri-mitochondrial localization; elevated Gcn4p-dependent expression under autophagy-inducing conditions; mobilized into polysomes upon a shift from a fermentable to nonfermentable carbon source; potential Cdc28p substrate; ATG41 has a paralog, ICY1, that arose from the whole genome duplication
+S000033279	CDS					YPL250C		16	74719	74309	C		1996-07-31	1996-07-31	
+S000028589	ORF	Dubious	YPL250W-A			chromosome 16		16	75702	75989	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified ORF RPL36B/YPL249C-A; identified by fungal homology and RT-PCR
+S000031342	CDS					YPL250W-A		16	75702	75989	W		2003-07-29	2003-07-29	
+S000006438	ORF	Verified	YPL249C-A	RPL36B	eL36|ribosomal 60S subunit protein L36B|L36e|YL39|L39|L36B	chromosome 16	L000004515	16	76239	75699	C		1999-07-17	1999-07-17	Ribosomal 60S subunit protein L36B; binds to 5.8 S rRNA; homologous to mammalian ribosomal protein L36, no bacterial homolog; RPL36B has a paralog, RPL36A, that arose from the whole genome duplication
+S000032350	CDS					YPL249C-A		16	75985	75699	C		1997-07-17	1997-07-17	
+S000032349	CDS					YPL249C-A		16	76239	76224	C		1999-07-17	1999-07-17	
+S000032351	intron					YPL249C-A		16	76223	75986	C		1997-07-17	1997-07-17	
+S000006170	ORF	Verified	YPL249C	GYP5		chromosome 16		16	79353	76669	C		1996-07-31	1996-07-31	GTPase-activating protein (GAP) for yeast Rab family members; involved in ER to Golgi trafficking; exhibits GAP activity toward Ypt1p that is stimulated by Gyl1p, also acts on Sec4p; interacts with Gyl1p, Rvs161p and Rvs167p; involved in recruiting Rvs167p to the bud tip during polarized growth; relocalizes from bud neck to cytoplasm upon DNA replication stress; GYP5 has a paralog, GYL1, that arose from the whole genome duplication
+S000032543	CDS					YPL249C		16	79353	76669	C		1996-07-31	1996-07-31	
+S000006169	ORF	Verified	YPL248C	GAL4	galactose-responsive transcription factor GAL4|GAL81	chromosome 16	L000000661	16	82356	79711	C	-143	1996-07-31	1996-07-31	DNA-binding transcription factor required for activating GAL genes; responds to galactose; repressed by Gal80p and activated by Gal3p
+S000032436	CDS					YPL248C		16	82356	79711	C		1996-07-31	1996-07-31	
+S000006168	ORF	Uncharacterized	YPL247C			chromosome 16		16	84196	82625	C		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; similar to the petunia WD repeat protein an11; overexpression causes a cell cycle delay or arrest
+S000031428	CDS					YPL247C		16	84196	82625	C		1996-07-31	1996-07-31	
+S000006167	ORF	Verified	YPL246C	RBD2	putative rhomboid protease RBD2	chromosome 16		16	85297	84509	C		1996-07-31	1996-07-31	Possible rhomboid protease; has similarity to eukaryotic rhomboid proteases including Pcp1p
+S000031296	CDS					YPL246C		16	85297	84509	C		1996-07-31	1996-07-31	
+S000006166	ORF	Uncharacterized	YPL245W			chromosome 16		16	85586	86950	W		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the nucleus and the cytoplasm
+S000031264	CDS					YPL245W		16	85586	86950	W		1996-07-31	1996-07-31	
+S000006165	ORF	Verified	YPL244C	HUT1		chromosome 16		16	88033	87014	C		1996-07-31	1996-07-31	Protein with a role in UDP-galactose transport to the Golgi lumen; has similarity to human UDP-galactose transporter UGTrel1, exhibits a genetic interaction with S. cerevisiae ERO1
+S000031081	CDS					YPL244C		16	88033	87014	C		1996-07-31	1996-07-31	
+S000006164	ORF	Verified	YPL243W	SRP68	signal recognition particle subunit SRP68	chromosome 16	L000002065	16	88517	90316	W		1996-07-31	1996-07-31	Core component of the signal recognition particle (SRP) complex; SRP complex functions in targeting nascent secretory proteins to the endoplasmic reticulum (ER) membrane; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress
+S000030136	CDS					YPL243W		16	88517	90316	W		1996-07-31	1996-07-31	
+S000006163	ORF	Verified	YPL242C	IQG1	CYK1	chromosome 16	L000004180	16	95109	90622	C		1996-07-31	1996-07-31	Essential protein required for determination of budding pattern; promotes localization of axial markers Bud4p and Cdc12p and functionally interacts with Sec3p, localizes to the contractile ring during anaphase, member of the IQGAP family; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000029942	CDS					YPL242C		16	95109	90622	C		1996-07-31	1996-07-31	
+S000006162	ORF	Verified	YPL241C	CIN2	GTPase-activating protein CIN2	chromosome 16	L000000337	16	96258	95372	C	-143	1996-07-31	1996-07-31	GTPase-activating protein (GAP) for Cin4p; tubulin folding factor C involved in beta-tubulin (Tub2p) folding; mutants display increased chromosome loss and benomyl sensitivity; human homolog RP2 complements yeast null mutant
+S000037281	CDS					YPL241C		16	96153	95372	C		1996-07-31	1996-07-31	
+S000037280	CDS					YPL241C		16	96258	96234	C		1996-07-31	1996-07-31	
+S000037282	intron					YPL241C		16	96233	96154	C		1996-07-31	1996-07-31	
+S000006161	ORF	Verified	YPL240C	HSP82	Hsp90 family chaperone HSP82|HSP90	chromosome 16	L000000822	16	98625	96496	C	-137	1996-07-31	1996-07-31	Hsp90 chaperone; redundant in function with Hsc82p; required for pheromone signaling, negative regulation of Hsf1p; docks with Tom70p for mitochondrial preprotein delivery; promotes telomerase DNA binding, nucleotide addition; protein abundance increases in response to DNA replication stress; contains two acid-rich unstructured regions that promote solubility of chaperone-substrate complexes; HSP82 has a paralog, HSC82, that arose from the whole genome duplication
+S000037196	CDS					YPL240C		16	98625	96496	C		1996-07-31	1996-07-31	
+S000006160	ORF	Verified	YPL239W	YAR1		chromosome 16	L000002496	16	99484	100086	W		1996-07-31	1996-07-31	Ankyrin-repeat containing, nucleocytoplasmic shuttling chaperone; prevents aggregation of Rps3p in the cytoplasm, associates with nascent Rps3p during its translation in the cytoplasm and delivers it to the 90S in the nucleus; required for 40S ribosomal subunit export, biogenesis and adaptation to osmotic and oxidative stress; expression repressed by heat shock
+S000036306	CDS					YPL239W		16	99484	100086	W		1996-07-31	1996-07-31	
+S000006158	ORF	Verified	YPL237W	SUI3	translation initiation factor eIF2 subunit beta	chromosome 16	L000002179	16	100496	101353	W		1996-07-31	1996-07-31	Beta subunit of the translation initiation factor eIF2; involved in the identification of the start codon; proposed to be involved in mRNA binding
+S000035286	CDS					YPL237W		16	100496	101353	W		1996-07-31	1996-07-31	
+S000006159	ORF	Dubious	YPL238C			chromosome 16		16	100863	100474	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps 5' end of the verified essential gene SUI3/YPL237W
+S000036133	CDS					YPL238C		16	100863	100474	C		1996-07-31	1996-07-31	
+S000006157	ORF	Verified	YPL236C	ENV7	putative serine/threonine protein kinase ENV7	chromosome 16		16	102702	101608	C		1996-07-31	1996-07-31	Vacuolar membrane protein kinase; negatively regulates membrane fusion; associates with vacuolar membrane through palmitoylation of one or more cysteines in consensus sequence; vacuolar membrane association is essential to its kinase activity; mutant shows defect in CPY processing; ortholog of human serine/threonine kinase 16 (STK16)
+S000035042	CDS					YPL236C		16	102702	101608	C		1996-07-31	1996-07-31	
+S000006156	ORF	Verified	YPL235W	RVB2	RuvB family ATP-dependent DNA helicase reptin|TIP48|TIH2|TIP49B	chromosome 16	S000007484	16	103232	104647	W		1996-07-31	1996-07-31	ATP-dependent DNA helicase, also known as reptin; member of the AAA+ and RuvB protein families, similar to Rvb1p; conserved component of multiple complexes including the INO80 complex, the Swr1 complex, and the R2TP complex (Rvb1-Rvb2-Tah1-Pih1); involved in multiple processes such as chromatin remodeling, box C/D snoRNP assembly, and RNA polymerase II assembly
+S000034953	CDS					YPL235W		16	103232	104647	W		1996-07-31	1996-07-31	
+S000006155	ORF	Verified	YPL234C	VMA11	H(+)-transporting V0 sector ATPase subunit c'|TFP3|CLS9	chromosome 16	L000002290|L000002464	16	105440	104946	C		1996-07-31	1996-07-31	Vacuolar ATPase V0 domain subunit c'; involved in proton transport activity; hydrophobic integral membrane protein (proteolipid) containing four transmembrane segments; N and C termini are in the vacuolar lumen
+S000033991	CDS					YPL234C		16	105440	104946	C		1996-07-31	1996-07-31	
+S000006154	ORF	Verified	YPL233W	NSL1	MIND complex subunit NSL1	chromosome 16	L000004652	16	106172	106822	W		1996-07-31	1996-07-31	Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; required for accurate chromosome segregation; complex consists of Mtw1p Including Nnf1p-Nsl1p-Dsn1p (MIND)
+S000033898	CDS					YPL233W		16	106172	106822	W		1996-07-31	1996-07-31	
+S000006153	ORF	Verified	YPL232W	SSO1	syntaxin	chromosome 16	L000002089	16	107275	108147	W		1996-07-31	1996-07-31	Plasma membrane t-SNARE; involved in fusion of secretory vesicles at the plasma membrane and in vesicle fusion during sporulation; forms a complex with Sec9p that binds v-SNARE Snc2p; syntaxin homolog; functionally redundant with Sso2p; SSO1 has a paralog, SSO2, that arose from the whole genome duplication
+S000033777	CDS					YPL232W		16	107275	108147	W		1996-07-31	1996-07-31	
+S000006152	ORF	Verified	YPL231W	FAS2	trifunctional fatty acid synthase subunit FAS2	chromosome 16	L000000602	16	108652	114315	W	-125	1996-07-31	1996-07-31	Alpha subunit of fatty acid synthetase; complex catalyzes the synthesis of long-chain saturated fatty acids; contains the acyl-carrier protein domain and beta-ketoacyl reductase, beta-ketoacyl synthase and self-pantetheinylation activities
+S000033048	CDS					YPL231W		16	108652	114315	W		1996-07-31	1996-07-31	
+S000006151	ORF	Verified	YPL230W	USV1	NSF1	chromosome 16	L000004623	16	115312	116487	W		1996-07-31	1996-07-31	Putative transcription factor containing a C2H2 zinc finger; mutation affects transcriptional regulation of genes involved in growth on non-fermentable carbon sources, response to salt stress and cell wall biosynthesis; USV1 has a paralog, RGM1, that arose from the whole genome duplication
+S000032959	CDS					YPL230W		16	115312	116487	W		1996-07-31	1996-07-31	
+S000122111	five_prime_UTR_intron					YPL230W		16	115219	115293	W		2007-04-04	2007-04-04	
+S000118413	ARS		ARS1607		ARSXVI-117	chromosome 16		16	116566	116680			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178191	ARS_consensus_sequence					ARS1607		16	116593	116609	W		2014-11-18	2014-11-18	
+S000006150	ORF	Uncharacterized	YPL229W			chromosome 16		16	117067	117687	W		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; not an essential gene; YPL229W has a paralog, YMR181C, that arose from the whole genome duplication
+S000032811	CDS					YPL229W		16	117067	117687	W		1996-07-31	1996-07-31	
+S000006149	ORF	Verified	YPL228W	CET1	polynucleotide 5'-phosphatase|CES5	chromosome 16	L000004278	16	118382	120031	W		1996-07-31	1996-07-31	RNA 5'-triphosphatase involved in mRNA 5' capping; subunit of mRNA capping enzyme, which is a heterotetramer composed of a Cet1p homodimer and two molecules of guanylyltransferase Ceg1p; Cet1p also has a role in regulation of RNAPII pausing at promoter-proximal sites; interaction between Cet1p and Ceg1p is required for Ceg1p nuclear import; mammalian enzyme is single bifunctional polypeptide; human homolog RNGTT can complement yeast cet1 null mutant
+S000032710	CDS					YPL228W		16	118382	120031	W		1996-07-31	1996-07-31	
+S000006148	ORF	Verified	YPL227C	ALG5	dolichyl-phosphate beta-glucosyltransferase	chromosome 16	L000000077	16	121167	120163	C		1996-07-31	1996-07-31	UDP-glucose:dolichyl-phosphate glucosyltransferase; involved in asparagine-linked glycosylation in the endoplasmic reticulum; human ortholog ALG5 can partially complement yeast alg5 mutant
+S000032583	CDS					YPL227C		16	121167	120163	C		1996-07-31	1996-07-31	
+S000006147	ORF	Verified	YPL226W	NEW1		chromosome 16	S000007490	16	121767	125357	W		1996-07-31	1996-07-31	ATP binding cassette protein; cosediments with polysomes and is required for biogenesis of the small ribosomal subunit; Asn/Gln-rich rich region supports [NU+] prion formation and susceptibility to [PSI+] prion induction
+S000031654	CDS					YPL226W		16	121767	125357	W		1996-07-31	1996-07-31	
+S000006146	ORF	Verified	YPL225W			chromosome 16		16	126006	126446	W		1996-07-31	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; protein abundance increases in response to DNA replication stress
+S000031511	CDS					YPL225W		16	126006	126446	W		1996-07-31	1996-07-31	
+S000006145	ORF	Verified	YPL224C	MMT2	MFT2	chromosome 16	L000004108	16	128088	126634	C		2011-02-03	1996-07-31|2011-02-03	Putative metal transporter involved in mitochondrial iron accumulation; MMT2 has a paralog, MMT1, that arose from the whole genome duplication
+S000030540	CDS					YPL224C		16	128088	126634	C		2011-02-03	1996-07-31|2011-02-03	
+S000006144	ORF	Verified	YPL223C	GRE1		chromosome 16	L000004176	16	129138	128632	C		2011-02-03	1996-07-31	Hydrophilin essential in desiccation-rehydration process; stress induced (osmotic, ionic, oxidative, heat shock and heavy metals); regulated by the HOG pathway; GRE1 has a paralog, SIP18, that arose from the whole genome duplication
+S000030402	CDS					YPL223C		16	129138	128632	C		2011-02-03	1996-07-31	
+S000006143	ORF	Uncharacterized	YPL222W	FMP40		chromosome 16		16	130162	132228	W		2011-02-03	1996-07-31	Putative protein of unknown function; proposed to be involved in responding to environmental stresses; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000030350	CDS					YPL222W		16	130162	132228	W		2011-02-03	1996-07-31	
+S000028722	ORF	Dubious	YPL222C-A			chromosome 16		16	132115	131870	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032704	CDS					YPL222C-A		16	132115	131870	C		2011-02-03	2003-07-29	
+S000006142	ORF	Verified	YPL221W	FLC1	flavin adenine dinucleotide transporter|BOP1|HUF1	chromosome 16	L000004721	16	133043	135424	W		2011-02-03	1996-07-31	Flavin adenine dinucleotide transporter; required for uptake of FAD into endoplasmic reticulum; involved in cell wall maintenance; FLC1 has a paralog, FLC3, that arose from the whole genome duplication
+S000030150	CDS					YPL221W		16	133043	135424	W		2011-02-03	1996-07-31	
+S000006141	ORF	Verified	YPL220W	RPL1A	uL1|PUB2|ribosomal 60S subunit protein L1A|L1|L1A|SSM1	chromosome 16	L000002657	16	135790	136443	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L1A; N-terminally acetylated; homologous to mammalian ribosomal protein L10A and bacterial L1; RPL1A has a paralog, RPL1B, that arose from the whole genome duplication; rpl1a rpl1b double null mutation is lethal
+S000037448	CDS					YPL220W		16	135790	136443	W		2011-02-03	1996-07-31	
+S000006140	ORF	Verified	YPL219W	PCL8		chromosome 16	L000004040	16	136750	138228	W		2011-02-03	1996-07-31	Cyclin; interacts with Pho85p cyclin-dependent kinase (Cdk) to phosphorylate and regulate glycogen synthase, also activates Pho85p for Glc8p phosphorylation; PCL8 has a paralog, PCL10, that arose from the whole genome duplication
+S000036617	CDS					YPL219W		16	136750	138228	W		2011-02-03	1996-07-31	
+S000006139	ORF	Verified	YPL218W	SAR1	Arf family GTPase SAR1	chromosome 16	L000001801	16	138698	139409	W		2011-02-03	1996-07-31	ARF family GTPase; component of the COPII vesicle coat; required for transport vesicle formation during ER to Golgi protein transport; lowers membrane rigidity aiding vesicle formation; localizes to ER-mitochondrial contact sites where it enhances membrane curvature, thereby reducing contact size via its N-terminal amphipathic helix; regulates mitochondrial fission and fusion dynamics
+S000036527	CDS					YPL218W		16	138698	138725	W		2011-02-03	1996-07-31	
+S000036528	CDS					YPL218W		16	138865	139409	W		2011-02-03	1996-07-31	
+S000036529	intron					YPL218W		16	138726	138864	W		2011-02-03	1996-07-31	
+S000006138	ORF	Verified	YPL217C	BMS1	GTPase BMS1	chromosome 16		16	143171	139620	C		2011-02-03	1996-07-31	GTPase required for ribosomal subunit synthesis and rRNA processing; required for synthesis of 40S ribosomal subunits and for processing the 35S pre-rRNA at sites A0, A1, and A2; interacts with Rcl1p, which stimulates its GTPase and U3 snoRNA binding activities; has similarity to Tsr1p
+S000035571	CDS					YPL217C		16	143171	139620	C		2011-02-03	1996-07-31	
+S000006137	ORF	Uncharacterized	YPL216W			chromosome 16		16	143821	147129	W		2011-02-03	1996-07-31	Putative protein of unknown function; not an essential gene; YPL216W has a paralog, ITC1, that arose from the whole genome duplication
+S000035522	CDS					YPL216W		16	143821	147129	W		2011-02-03	1996-07-31	
+S000006136	ORF	Verified	YPL215W	CBP3		chromosome 16	L000000226	16	147416	148423	W		2011-02-03	1996-07-31	Mitochondrial protein required for assembly of cytochrome bc1 complex; forms a complex with Cbp6p that binds to mt ribosomes near the polypeptide tunnel exit and promotes efficient translation of the COB mRNA; Cbp3p-Cbp6p complex also interacts with newly synthesized cytochrome b (Cobp) and Cbp4p to promote assembly of Cobp into the cytochrome bc1 complex; Cbp3p-Cbp6p complex is sequestered if assembly of Complex III is blocked, downregulating COB mRNA translation
+S000035433	CDS					YPL215W		16	147416	148423	W		2011-02-03	1996-07-31	
+S000006135	ORF	Verified	YPL214C	THI6	bifunctional hydroxyethylthiazole kinase/thiamine-phosphate diphosphorylase	chromosome 16	L000002634	16	150191	148569	C		2011-02-03	1996-07-31	Thiamine-phosphate diphosphorylase and hydroxyethylthiazole kinase; required for thiamine biosynthesis; GFP-fusion protein localizes to the cytoplasm in a punctate pattern
+S000034353	CDS					YPL214C		16	150191	148569	C		2011-02-03	1996-07-31	
+S000006134	ORF	Verified	YPL213W	LEA1	U2 snRNP complex subunit LEA1	chromosome 16		16	150614	151330	W		2011-02-03	1996-07-31	Component of U2 snRNP complex; disruption causes reduced U2 snRNP levels; physically interacts with Msl1p; putative homolog of human U2A' snRNP protein
+S000034273	CDS					YPL213W		16	150614	151330	W		2011-02-03	1996-07-31	
+S000006133	ORF	Verified	YPL212C	PUS1	pseudouridine synthase PUS1	chromosome 16	L000003360	16	153149	151515	C		2011-02-03	1996-07-31	tRNA:pseudouridine synthase; introduces pseudouridines at positions 26-28, 34-36, 65, and 67 of tRNA; also acts on U2 snRNA; also pseudouridylates some mRNAs, and pseudouridylation level varies with growth phase; nuclear protein that appears to be involved in tRNA export; PUS1 has a paralog, PUS2, that arose from the whole genome duplication
+S000033309	CDS					YPL212C		16	153149	151515	C		2011-02-03	1996-07-31	
+S000006132	ORF	Verified	YPL211W	NIP7	ribosome biosynthesis protein NIP7	chromosome 16	L000004183	16	153495	154040	W		2011-02-03	1996-07-31	Nucleolar protein required for 60S ribosome subunit biogenesis; constituent of 66S pre-ribosomal particles; physically interacts with Nop8p and the exosome subunit Rrp43p
+S000033280	CDS					YPL211W		16	153495	154040	W		2011-02-03	1996-07-31	
+S000006131	ORF	Verified	YPL210C	SRP72	signal recognition particle subunit SRP72	chromosome 16	L000002066	16	156212	154290	C		2011-02-03	2003-09-22|1996-07-31	Core component of the signal recognition particle (SRP); the SRP is a ribonucleoprotein (RNP) complex that functions in targeting nascent secretory proteins to the endoplasmic reticulum (ER) membrane
+S000033194	CDS					YPL210C		16	156212	154290	C		2011-02-03	2003-09-22|1996-07-31	
+S000006130	ORF	Verified	YPL209C	IPL1	aurora kinase|PAC15	chromosome 16	L000000871	16	157593	156490	C	-116	2011-02-03	1996-07-31	Aurora kinase of chromosomal passenger complex; mediates release of mono-oriented kinetochores from microtubules in meiosis I, and kinetochore release from SPB clusters at meiotic exit; helps maintain condensed chromosomes during anaphase; required for SPB cohesion and prevention of multipolar spindle formation; promotes telomerase release at G2/M; Iocalizes to nuclear foci that diffuse upon DNA replication stress; required for inhibition of karyopherin Pse1p upon SAC arrest
+S000032505	CDS					YPL209C		16	157593	156490	C		2011-02-03	1996-07-31	
+S000006129	ORF	Verified	YPL208W	RKM1	protein-lysine N-methyltransferase	chromosome 16		16	157842	159593	W		2011-02-03	1996-07-31	SET-domain lysine-N-methyltransferase; catalyzes the formation of dimethyllysine residues on the large ribosomal subunit proteins L23 (Rpl23Ap and Rpl23Bp) and monomethyllysine residues on L18 (Rps18Ap and Rps18Bp)
+S000032466	CDS					YPL208W		16	157842	159593	W		2011-02-03	1996-07-31	
+S000006128	ORF	Verified	YPL207W	TYW1	putative tRNA 4-demethylwyosine synthase	chromosome 16		16	159909	162341	W		2011-02-03	1996-07-31	Iron-sulfer protein required for synthesis of Wybutosine modified tRNA; Wybutosine is a modified guanosine found at the 3'-position adjacent to the anticodon of phenylalanine tRNA which supports reading frame maintenance by stabilizing codon-anticodon interactions; induction by Yap5p in response to iron provides protection from high iron toxicity; overexpression results in increased cellular iron
+S000032365	CDS					YPL207W		16	159909	162341	W		2011-02-03	1996-07-31	
+S000130196	ARS		ARS1608			chromosome 16		16	162341	162632			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000006127	ORF	Verified	YPL206C	PGC1	phosphatidylglycerol phospholipase	chromosome 16		16	163597	162632	C		2011-02-03	1996-07-31	Phosphatidylglycerol phospholipase C; regulates phosphatidylglycerol (PG) accumulation via a phospholipase C-type degradation mechanism; PG levels affect mitochondrial function; contains glycerophosphodiester phosphodiesterase motifs
+S000032198	CDS					YPL206C		16	163597	162632	C		2011-02-03	1996-07-31	
+S000006126	ORF	Dubious	YPL205C			chromosome 16		16	164266	163922	C		2011-02-03	1996-07-31	Hypothetical protein; deletion of locus affects telomere length
+S000031200	CDS					YPL205C		16	164266	163922	C		2011-02-03	1996-07-31	
+S000006125	ORF	Verified	YPL204W	HRR25	serine/threonine protein kinase HRR25|KTI14	chromosome 16	L000000810	16	164276	165760	W		2011-02-03	1996-07-31	Conserved casein kinase; regulates diverse events including: vesicular traffic, DNA repair, the CVT pathway, monopolar attachment of sister kinetochores at meiosis I, and ribosomal subunit biogenesis; monopolin subunit; binds the RNAPII CTD; phosphorylates COPII coat subunits; interacts with Sit4p phosphatase; antagonizes calcineurin signaling, reducing nuclear accumulation of Crz1p; phosphorylates Dsn1p, the kinetochore receptor for monopolin; homolog of mammalian CK1delta
+S000031120	CDS					YPL204W		16	164276	165760	W		2011-02-03	1996-07-31	
+S000006124	ORF	Verified	YPL203W	TPK2	cAMP-dependent protein kinase catalytic subunit TPK2|PKA3|YKR1|PKA2	chromosome 16	L000001445	16	166256	167398	W	-120	2011-02-03	1996-07-31	cAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; partially redundant with Tpk1p and Tpk3p; localizes to P-bodies during stationary phase; relocalizes to the cytosol in response to hypoxia
+S000031020	CDS					YPL203W		16	166256	167398	W		2011-02-03	1996-07-31	
+S000006123	ORF	Verified	YPL202C	AFT2		chromosome 16		16	169338	168088	C		2011-02-03	1996-07-31	Iron-regulated transcriptional activator; activates genes involved in intracellular iron use and required for iron homeostasis and resistance to oxidative stress; AFT2 has a paralog, AFT1, that arose from the whole genome duplication
+S000029960	CDS					YPL202C		16	169338	168088	C		2011-02-03	1996-07-31	
+S000006122	ORF	Verified	YPL201C	YIG1		chromosome 16		16	171155	169770	C		2011-02-03	1996-07-31	Protein that interacts with glycerol 3-phosphatase; plays a role in anaerobic glycerol production; localizes to the nucleus and cytosol
+S000029831	CDS					YPL201C		16	171155	169770	C		2011-02-03	1996-07-31	
+S000006121	ORF	Verified	YPL200W	CSM4		chromosome 16		16	171484	171954	W		2011-02-03	1996-07-31	Protein required for accurate chromosome segregation during meiosis; involved in meiotic telomere clustering (bouquet formation) and telomere-led rapid prophase movements; functions with meiosis-specific telomere-binding protein Ndj1p; CSM4 has a paralog, MPS2, that arose from the whole genome duplication
+S000037884	CDS					YPL200W		16	171484	171954	W		2011-02-03	1996-07-31	
+S000006120	ORF	Uncharacterized	YPL199C			chromosome 16		16	172755	172033	C		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to be palmitoylated
+S000031860	CDS					YPL199C		16	172755	172033	C		2011-02-03	1996-07-31	
+S000006119	ORF	Verified	YPL198W	RPL7B	uL30|ribosomal 60S subunit protein L7B|YL8|L7B|L6B|L30|rp11	chromosome 16	L000003304	16	173152	174702	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L7B; required for processing of 27SA3 pre-rRNA to 27SB pre-rRNA during assembly of large ribosomal subunit; depletion leads to a turnover of pre-rRNA; contains a conserved C-terminal Nucleic acid Binding Domain (NDB2); binds to Domain II of 25S and 5.8S rRNAs; homologous to mammalian ribosomal protein L7 and bacterial L30; RPL7B has a paralog, RPL7A, that arose from the whole genome duplication
+S000031808	CDS					YPL198W		16	173152	173162	W		2011-02-03	1996-07-31	
+S000031809	CDS					YPL198W		16	173572	173665	W		2011-02-03	1996-07-31	
+S000031810	CDS					YPL198W		16	174073	174702	W		2011-02-03	1996-07-31	
+S000031811	intron					YPL198W		16	173163	173571	W		2011-02-03	1996-07-31	
+S000031812	intron					YPL198W		16	173666	174072	W		2011-02-03	1996-07-31	
+S000006450	snoRNA_gene		snR59	SNR59		chromosome 16	L000004528	16	173827	173904	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A807
+S000030766	noncoding_exon					snR59		16	173827	173904	W		2011-02-03	2000-05-19	
+S000006118	ORF	Dubious	YPL197C			chromosome 16		16	174756	174343	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the ribosomal gene RPL7B
+S000031658	CDS					YPL197C		16	174756	174343	C		2011-02-03	1996-07-31	
+S000006117	ORF	Verified	YPL196W	OXR1		chromosome 16		16	175043	175864	W		2011-02-03	1996-07-31	Protein of unknown function required for oxidative damage resistance; required for normal levels of resistance to oxidative damage; null mutants are sensitive to hydrogen peroxide; member of a conserved family of proteins found in eukaryotes
+S000031609	CDS					YPL196W		16	175043	175864	W		2011-02-03	1996-07-31	
+S000006116	ORF	Verified	YPL195W	APL5	YKS4	chromosome 16	L000003037	16	176223	179021	W		2011-02-03	1996-07-31	Delta adaptin-like subunit of the clathrin associated protein complex; functions in transport of alkaline phosphatase to the vacuole via the alternate pathway; suppressor of loss of casein kinase 1 function; the clathrin associated protein complex is also known as AP-3
+S000031504	CDS					YPL195W		16	176223	179021	W		2011-02-03	1996-07-31	
+S000006115	ORF	Verified	YPL194W	DDC1		chromosome 16	L000004256	16	179277	181115	W		2011-02-03	1996-07-31	DNA damage checkpoint protein; part of a PCNA-like complex required for DNA damage response, required for pachytene checkpoint to inhibit cell cycle in response to unrepaired recombination intermediates; potential Cdc28p substrate; forms nuclear foci upon DNA replication stress
+S000030638	CDS					YPL194W		16	179277	181115	W		2011-02-03	1996-07-31	
+S000006114	ORF	Verified	YPL193W	RSA1		chromosome 16	L000004919	16	181403	182548	W		2011-02-03	1996-07-31	Protein involved in the assembly of 60S ribosomal subunits; functionally interacts with Dbp6p; functions in a late nucleoplasmic step of the assembly
+S000030542	CDS					YPL193W		16	181403	182548	W		2011-02-03	1996-07-31	
+S000006113	ORF	Verified	YPL192C	PRM3	pheromone-regulated protein PRM3	chromosome 16		16	183056	182655	C		2011-02-03	1996-07-31	Protein required for nuclear envelope fusion during karyogamy; pheromone-regulated; peripheral protein of the nuclear membrane; interacts with Kar5p at the spindle pole body
+S000030353	CDS					YPL192C		16	183056	182655	C		2011-02-03	1996-07-31	
+S000006112	ORF	Verified	YPL191C			chromosome 16		16	184679	183597	C		2011-02-03	1996-07-31	Protein of unknown function; diploid deletion strain exhibits high budding index; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YPL191C has a paralog, YGL082W, that arose from the whole genome duplication
+S000037541	CDS					YPL191C		16	184679	183597	C		2011-02-03	1996-07-31	
+S000006111	ORF	Verified	YPL190C	NAB3	HMD1	chromosome 16	L000001228	16	187725	185317	C		2011-02-03	1996-07-31	RNA-binding protein, subunit of Nrd1 complex (Nrd1p-Nab3p-Sen1p); complex interacts with exosome to mediate 3'-end formation of some mRNAs, snRNAs, snoRNAs, and CUTs; required for termination of non-poly(A) transcripts and efficient splicing; Nrd1-Nab3 pathway appears to have a role in rapid suppression of some genes when cells are shifted to poor growth conditions, indicating role for Nrd1-Nab3 in regulating cellular response to nutrient availability
+S000037419	CDS					YPL190C		16	187725	185317	C		2011-02-03	1996-07-31	
+S000028527	ORF	Verified	YPL189C-A	COA2		chromosome 16		16	188513	188307	C		2011-02-03	2003-07-29	Cytochrome oxidase assembly factor; null mutation results in respiratory deficiency with specific loss of cytochrome oxidase activity; functions downstream of assembly factors Mss51p and Coa1p and interacts with assembly factor Shy1p
+S000030331	CDS					YPL189C-A		16	188513	188307	C		2011-02-03	2003-07-29	
+S000006110	ORF	Verified	YPL189W	GUP2	putative O-acyltransferase	chromosome 16		16	189154	190983	W		2011-02-03	1996-07-31	Probable membrane protein; possible role in proton symport of glycerol; member of the MBOAT family of putative membrane-bound O-acyltransferases; homolog of the mammalian Hedgehog pathway modulator HHAT; GUP2 has a paralog, GUP1, that arose from the whole genome duplication
+S000036867	CDS					YPL189W		16	189154	190983	W		2011-02-03	1996-07-31	
+S000006109	ORF	Verified	YPL188W	POS5	NADH kinase	chromosome 16	L000002651	16	191406	192650	W		2011-02-03	1996-07-31	Mitochondrial NADH kinase; phosphorylates NADH; also phosphorylates NAD(+) with lower specificity; required for the response to oxidative stress
+S000036799	CDS					YPL188W		16	191406	192650	W		2011-02-03	1996-07-31	
+S000006108	ORF	Verified	YPL187W	MF(ALPHA)1		chromosome 16	L000001094	16	193648	194145	W	-115	2011-02-03	1996-07-31	Mating pheromone alpha-factor, made by alpha cells; interacts with mating type a cells to induce cell cycle arrest and other responses leading to mating; also encoded by MF(ALPHA)2, although MF(ALPHA)1 produces most alpha-factor; binds copper(II) ions
+S000036743	CDS					YPL187W		16	193648	194145	W		2011-02-03	1996-07-31	
+S000006106	ORF	Dubious	YPL185W			chromosome 16		16	195253	195648	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene UIP4/YPL186C
+S000035778	CDS					YPL185W		16	195253	195648	W		2011-02-03	1996-07-31	
+S000006107	ORF	Verified	YPL186C	UIP4		chromosome 16		16	195426	194512	C		2011-02-03	1996-07-31	Protein that interacts with Ulp1p; a Ubl (ubiquitin-like protein)-specific protease for Smt3p protein conjugates; detected in a phosphorylated state in the mitochondrial outer membrane; also detected in ER and nuclear envelope
+S000036644	CDS					YPL186C		16	195426	194512	C		2011-02-03	1996-07-31	
+S000006105	ORF	Verified	YPL184C	MRN1	PTR69	chromosome 16		16	197788	195950	C		2011-02-03	1996-07-31	RNA-binding protein that may be involved in translational regulation; binds specific categories of mRNAs, including those that contain upstream open reading frames (uORFs) and internal ribosome entry sites (IRES); interacts genetically with chromatin remodelers and splicing factors, linking chromatin state, splicing and as a result mRNA maturation
+S000035615	CDS					YPL184C		16	197788	195950	C		2011-02-03	1996-07-31	
+S000007224	ORF	Verified	YPL183W-A	RTC6	putative mitochondrial 54S ribosomal protein RTC6|TAE4|GON5	chromosome 16		16	199095	199376	W		2011-02-03	1999-07-17	Protein involved in translation; mutants have defects in biogenesis of nuclear ribosomes; sequence similar to prokaryotic ribosomal protein L36, may be a mitochondrial ribosomal protein; protein abundance increases in response to DNA replication stress
+S000035617	CDS					YPL183W-A		16	199095	199376	W		2011-02-03	1999-07-17	
+S000006104	ORF	Verified	YPL183C	RTT10	TRM734|ERE2	chromosome 16		16	202536	199495	C		2011-02-03	1996-07-31	WD40 domain-containing protein involved in endosomal recycling; forms a complex with Rrt2p that functions in the retromer-mediated pathway for recycling internalized cell-surface proteins; interacts with Trm7p for 2'-O-methylation of N34 of substrate tRNAs; has a role in regulation of Ty1 transposition; human ortholog is WDR6
+S000035538	CDS					YPL183C		16	202536	199495	C		2011-02-03	1996-07-31	
+S000006102	ORF	Verified	YPL181W	CTI6	RXT1	chromosome 16		16	203421	204941	W		2011-02-03	1996-07-31	Component of the Rpd3L histone deacetylase complex; relieves transcriptional repression by binding to the Cyc8p-Tup1p corepressor and recruiting the SAGA complex to the repressed promoter; contains a PHD finger domain
+S000034453	CDS					YPL181W		16	203421	204941	W		2011-02-03	1996-07-31	
+S000006103	ORF	Dubious	YPL182C			chromosome 16		16	203689	203306	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CTI6/YPL181W
+S000034519	CDS					YPL182C		16	203689	203306	C		2011-02-03	1996-07-31	
+S000006101	ORF	Verified	YPL180W	TCO89		chromosome 16		16	205248	207647	W		2011-02-03	1996-07-31	Subunit of TORC1 (Tor1p or Tor2p-Kog1p-Lst8p-Tco89p); regulates global H3K56ac; TORC1 complex regulates growth in response to nutrient availability; cooperates with Ssd1p in the maintenance of cellular integrity; deletion strains are hypersensitive to rapamycin
+S000034375	CDS					YPL180W		16	205248	207647	W		2011-02-03	1996-07-31	
+S000006100	ORF	Verified	YPL179W	PPQ1	SAL6	chromosome 16	L000001797|L000001474	16	208157	209806	W		2011-02-03	1996-07-31	Protein phosphatase that regulates the mating response; negatively regulates the MAP kinase signaling cascade during mating; member of the serine/threonine phosphatase PP1 family
+S000033429	CDS					YPL179W		16	208157	209806	W		2011-02-03	1996-07-31	
+S000006561	tRNA_gene		tE(UUC)P			chromosome 16	L000003736	16	210263	210192	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
+S000036031	noncoding_exon					tE(UUC)P		16	210263	210192	C		2011-02-03	2000-05-19	
+S000007194	long_terminal_repeat		YPLWdelta7			chromosome 16		16	210451	210771	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007195	long_terminal_repeat		YPLWdelta8			chromosome 16		16	211577	211898	W		2011-02-03	2000-05-19	Ty2 LTR
+S000006099	ORF	Verified	YPL178W	CBC2	CBP20|SAE1|MUD13	chromosome 16	L000002891|L000004111	16	212158	212784	W		2011-02-03	1996-07-31	Small subunit of the heterodimeric cap binding complex with Sto1p; interacts with Npl3p, possibly to package mRNA for export from the nucleus; may have a role in telomere maintenance; contains an RNA-binding motif
+S000033362	CDS					YPL178W		16	212158	212784	W		2011-02-03	1996-07-31	
+S000006098	ORF	Verified	YPL177C	CUP9		chromosome 16	L000000442	16	213962	213042	C		2011-02-03	1996-07-31	Homeodomain-containing transcriptional repressor; regulates expression of PTR2, which encodes a major peptide transporter; imported peptides activate ubiquitin-dependent proteolysis, resulting in degradation of Cup9p and de-repression of PTR2 transcription; CUP9 has a paralog, TOS8, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000032622	CDS					YPL177C		16	213962	213042	C		2011-02-03	1996-07-31	
+S000006097	ORF	Verified	YPL176C	TRE1		chromosome 16		16	218363	216012	C		2011-02-03	1996-07-31	Transferrin receptor-like protein; plasma membrane protein that binds Bsd2p and regulates ubiquitination and vacuolar degradation of the metal transporter Smf1p; functionally redundant with Tre2p; TRE1 has a paralog, TRE2, that arose from the whole genome duplication
+S000032515	CDS					YPL176C		16	218363	216012	C		2011-02-03	1996-07-31	
+S000006096	ORF	Verified	YPL175W	SPT14	phosphatidylinositol N-acetylglucosaminyltransferase SPT14|GPI3|CWH6	chromosome 16	L000002036	16	218630	220088	W	-113	2011-02-03	2000-07-14|1996-07-31	UDP-glycosyltransferase subunit of the GPI-GnT complex; UDP-GlcNAc-binding and catalytic subunit of the enzyme that mediates the first step in glycosylphosphatidylinositol (GPI) biosynthesis, mutations cause defects in transcription and in biogenesis of cell wall proteins
+S000032480	CDS					YPL175W		16	218630	218646	W		2011-02-03	2000-07-14|1996-07-31	
+S000032481	CDS					YPL175W		16	218747	220088	W		2011-02-03	2000-07-14|1996-07-31	
+S000032482	intron					YPL175W		16	218647	218746	W		2011-02-03	2000-07-14|1996-07-31	
+S000130197	ARS		ARS1611			chromosome 16		16	220088	220167			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000006095	ORF	Verified	YPL174C	NIP100	PAC13	chromosome 16	L000001254	16	222773	220167	C		2011-02-03	1996-07-31	Large subunit of the dynactin complex; dynactin is involved in partitioning the mitotic spindle between mother and daughter cells; putative ortholog of mammalian p150(glued)
+S000031426	CDS					YPL174C		16	222773	220167	C		2011-02-03	1996-07-31	
+S000006094	ORF	Verified	YPL173W	MRPL40	mitochondrial 54S ribosomal protein YmL40|YmL40	chromosome 16	L000002696	16	223143	224036	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000031355	CDS					YPL173W		16	223143	224036	W		2011-02-03	1996-07-31	
+S000006093	ORF	Verified	YPL172C	COX10	protoheme IX farnesyltransferase	chromosome 16	L000000394	16	225741	224353	C		2011-02-03	1996-07-31	Heme A:farnesyltransferase; catalyzes first step in conversion of protoheme to heme A prosthetic group required for cytochrome c oxidase activity; human ortholog COX10 can complement yeast cox10 null mutant; human ortholog COX10 is associated with mitochondrial disorders
+S000031181	CDS					YPL172C		16	225741	224353	C		2011-02-03	1996-07-31	
+S000006092	ORF	Verified	YPL171C	OYE3	NADPH dehydrogenase|ZRG6	chromosome 16	L000001326	16	227371	226169	C		2011-02-03	1996-07-31	Conserved NADPH oxidoreductase containing flavin mononucleotide (FMN); homologous to Oye2p with different ligand binding and catalytic properties; has potential roles in oxidative stress response and programmed cell death
+S000030238	CDS					YPL171C		16	227371	226169	C		2011-02-03	1996-07-31	
+S000006091	ORF	Verified	YPL170W	DAP1		chromosome 16		16	228314	228772	W		2011-02-03	1996-07-31	Heme-binding protein; involved in regulation of cytochrome P450 protein Erg11p; damage response protein, related to mammalian membrane progesterone receptors; mutations lead to defects in telomeres, mitochondria, and sterol synthesis
+S000030129	CDS					YPL170W		16	228314	228772	W		2011-02-03	1996-07-31	
+S000006090	ORF	Verified	YPL169C	MEX67		chromosome 16	L000004314	16	230838	229039	C		2011-02-03	1996-07-31	Poly(A)RNA binding protein involved in nuclear mRNA export; component of the nuclear pore; ortholog of human TAP
+S000037096	CDS					YPL169C		16	230838	229039	C		2011-02-03	1996-07-31	
+S000006089	ORF	Uncharacterized	YPL168W	MRX4		chromosome 16		16	231217	232509	W		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; expression may be cell cycle-regulated
+S000036477	CDS					YPL168W		16	231217	232509	W		2011-02-03	1996-07-31	
+S000006088	ORF	Verified	YPL167C	REV3	PSO1	chromosome 16	L000001616	16	237107	232593	C	-102	2011-02-03	1996-07-31	Catalytic subunit of DNA polymerase zeta; involved in translesion synthesis during post-replication repair; required for mutagenesis induced by DNA damage; involved in double-strand break repair; forms a complex with Rev7p, Pol31p and Pol32p
+S000036379	CDS					YPL167C		16	237107	232593	C		2011-02-03	1996-07-31	
+S000006087	ORF	Verified	YPL166W	ATG29		chromosome 16		16	237338	237979	W		2011-02-03	1996-07-31	Autophagy-specific protein; required for recruiting other ATG proteins to the pre-autophagosomal structure (PAS); interacts with Atg17p and localizas to the PAS in a manner interdependent with Atg17p and Cis1p; not conserved; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
+S000036304	CDS					YPL166W		16	237338	237979	W		2011-02-03	1996-07-31	
+S000006086	ORF	Verified	YPL165C	SET6		chromosome 16		16	239077	237956	C		2011-02-03	1996-07-31	SET domain protein of unknown function; deletion heterozygote is sensitive to compounds that target ergosterol biosynthesis, may be involved in compound availability
+S000036129	CDS					YPL165C		16	239077	237956	C		2011-02-03	1996-07-31	
+S000006085	ORF	Verified	YPL164C	MLH3	mismatch repair protein MLH3	chromosome 16		16	241497	239350	C		2011-02-03	1996-07-31	Protein involved in DNA mismatch repair and meiotic recombination; involved in crossing-over during meiotic recombination; forms a complex with Mlh1p; mammalian homolog is implicated mammalian microsatellite instability
+S000035196	CDS					YPL164C		16	241497	239350	C		2011-02-03	1996-07-31	
+S000006084	ORF	Verified	YPL163C	SVS1		chromosome 16	L000002750	16	242700	241918	C		2011-02-03	1996-07-31	Cell wall and vacuolar protein; required for wild-type resistance to vanadate; SVS1 has a paralog, SRL1, that arose from the whole genome duplication
+S000035038	CDS					YPL163C		16	242700	241918	C		2011-02-03	1996-07-31	
+S000006083	ORF	Uncharacterized	YPL162C			chromosome 16		16	244027	243206	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the membrane of vacuole with cell cycle-correlated morphology
+S000034090	CDS					YPL162C		16	244027	243206	C		2011-02-03	1996-07-31	
+S000006082	ORF	Verified	YPL161C	BEM4	ROM7	chromosome 16	L000000170	16	246220	244319	C		2011-02-03	1996-07-31	Protein involved in establishment of cell polarity and bud emergence; interacts with the Rho1p small GTP-binding protein and with the Rho-type GTPase Cdc42p; involved in maintenance of proper telomere length
+S000033986	CDS					YPL161C		16	246220	244319	C		2011-02-03	1996-07-31	
+S000006081	ORF	Verified	YPL160W	CDC60	leucine--tRNA ligase CDC60|LeuRS	chromosome 16	L000000283	16	246990	250262	W	-65	2011-02-03	1996-07-31	Cytosolic leucyl tRNA synthetase; ligates leucine to the appropriate tRNA; human homolog LARS can complement yeast temperature-sensitive mutant at restrictive temperature
+S000033896	CDS					YPL160W		16	246990	250262	W		2011-02-03	1996-07-31	
+S000006080	ORF	Verified	YPL159C	PET20		chromosome 16		16	251668	250907	C		2011-02-03	1996-07-31	Mitochondrial protein; required for respiratory growth under some conditions and for stability of the mitochondrial genome
+S000034917	CDS					YPL159C		16	251668	250907	C		2011-02-03	1996-07-31	
+S000006079	ORF	Verified	YPL158C	AIM44	GPS1	chromosome 16		16	254310	252034	C		2011-02-03	1996-07-31	Protein that regulates Cdc42p and Rho1p; functions in the late steps of cytokinesis and cell separation; sustains Rho1p at the cell division site after actomyosin ring contraction; inhibits the activation of Cdc42-Cla4 at the cell division site to prevent budding inside the old bud neck; transcription is regulated by Swi5p; null mutant displays elevated frequency of mitochondrial genome loss; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000034827	CDS					YPL158C		16	254310	252034	C		2011-02-03	1996-07-31	
+S000006078	ORF	Verified	YPL157W	TGS1	RNA methyltransferase	chromosome 16		16	254814	255761	W		2011-02-03	1996-07-31	Trimethyl guanosine synthase, conserved nucleolar methyl transferase; converts the m(7)G cap structure of snRNAs, snoRNAs, and telomerase TLC1 RNA to m(2,2,7)G; also required for nucleolar assembly and splicing of meiotic pre-mRNAs; interacts with Swm2p, which may confer substrate specificity on Tgs1p
+S000032912	CDS					YPL157W		16	254814	255761	W		2011-02-03	1996-07-31	
+S000006077	ORF	Verified	YPL156C	PRM4	pheromone-regulated protein PRM4	chromosome 16		16	256767	255913	C		2011-02-03	1996-07-31	Pheromone-regulated protein proposed to be involved in mating; predicted to have 1 transmembrane segment; transcriptionally regulated by Ste12p during mating and by Cat8p during the diauxic shift
+S000032757	CDS					YPL156C		16	256767	255913	C		2011-02-03	1996-07-31	
+S000006076	ORF	Verified	YPL155C	KIP2		chromosome 16	L000000908	16	259336	257216	C		2011-02-03	1996-07-31	Kinesin-related motor protein involved in mitotic spindle positioning; stabilizes microtubules by targeting Bik1p to the plus end; functions as a microtubule polymerase and catastrophe inhibitor in vitro; Kip2p levels are controlled during the cell cycle
+S000032676	CDS					YPL155C		16	259336	257216	C		2011-02-03	1996-07-31	
+S000006075	ORF	Verified	YPL154C	PEP4	proteinase A|yscA|PRA1|PHO9	chromosome 16	L000001375	16	260931	259714	C	-95	2011-02-03	1996-07-31	Vacuolar aspartyl protease (proteinase A); required for posttranslational precursor maturation of vacuolar proteinases; important for protein turnover after oxidative damage; plays a protective role in acetic acid induced apoptosis; synthesized as a zymogen, self-activates
+S000031707	CDS					YPL154C		16	260931	259714	C		2011-02-03	1996-07-31	
+S000130198	ARS		ARS1612			chromosome 16		16	260931	261727			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000006074	ORF	Verified	YPL153C	RAD53	serine/threonine/tyrosine protein kinase RAD53|SPK1|MEC2|LSD1	chromosome 16	L000001573	16	264192	261727	C	-109	2011-02-03	1996-07-31	DNA damage response protein kinase; required for cell-cycle arrest, regulation of copper genes in response to DNA damage; phosphorylates nuclear pores to counteract gene gating, preventing aberrant transitions at forks approaching transcribed genes; activates downstream kinase Dun1p; differentially senses mtDNA depletion, mitochondrial ROS; relocalizes to cytosol under hypoxia; human homolog CHEK2 implicated in breast cancer can complement yeast null mutant
+S000031574	CDS					YPL153C		16	264192	261727	C		2011-02-03	1996-07-31	
+S000028721	ORF	Uncharacterized	YPL152W-A			chromosome 16		16	264602	264700	W		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032702	CDS					YPL152W-A		16	264602	264700	W		2011-02-03	2003-07-29	
+S000006073	ORF	Verified	YPL152W	RRD2	peptidylprolyl isomerase RRD2|YPA2	chromosome 16	L000004484	16	265028	266104	W		2011-02-03	1996-07-31	Peptidyl-prolyl cis/trans-isomerase; also activates the phosphotyrosyl phosphatase activity of protein phosphatase 2A (PP2A); regulates G1 phase progression, the osmoresponse, microtubule dynamics; subunit of the Tap42p-Pph21p-Rrd2p complex; protein abundance increases in response to DNA replication stress
+S000031507	CDS					YPL152W		16	265028	266104	W		2011-02-03	1996-07-31	
+S000006072	ORF	Verified	YPL151C	PRP46	mRNA splicing protein PRP46|NTC50	chromosome 16		16	267535	266180	C		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs
+S000030537	CDS					YPL151C		16	267535	266180	C		2011-02-03	1996-07-31	
+S000006071	ORF	Uncharacterized	YPL150W		non-specific serine/threonine protein kinase	chromosome 16		16	268188	270893	W		2011-02-03	1996-07-31	Protein kinase of unknown cellular role; binds phosphatidylinositols and cardiolipin in a large-scale study
+S000030474	CDS					YPL150W		16	268188	270893	W		2011-02-03	1996-07-31	
+S000006070	ORF	Verified	YPL149W	ATG5	APG5	chromosome 16	L000003303	16	271310	272194	W		2011-02-03	1996-07-31	Conserved protein involved in autophagy and the Cvt pathway; undergoes conjugation with Atg12p to form a complex involved in Atg8p lipidation; Atg5p-Atg12p conjugate enhances E2 activity of Atg3 by rearranging its catalytic site, also forms a complex with Atg16p; the Atg5-Atg12/Atg16 complex binds to membranes and is essential for autophagosome formation; also involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner
+S000030694	CDS					YPL149W		16	271310	272194	W		2011-02-03	1996-07-31	
+S000006069	ORF	Verified	YPL148C	PPT2	holo-[acyl-carrier-protein] synthase	chromosome 16	L000004400	16	272815	272294	C		2011-02-03	2003-09-22|1996-07-31	Phosphopantetheine:protein transferase (PPTase); activates mitochondrial acyl carrier protein (Acp1p) by phosphopantetheinylation
+S000036734	CDS					YPL148C		16	272815	272294	C		2011-02-03	2003-09-22|1996-07-31	
+S000006068	ORF	Verified	YPL147W	PXA1	ATP-binding cassette long-chain fatty acid transporter PXA1|SSH2|PAT2|PAL1|LPI1	chromosome 16	L000001541	16	273255	275867	W		2011-02-03	1996-07-31	Subunit of heterodimeric peroxisomal ABC transport complex, with Pxa2p; required for import of long-chain fatty acids into peroxisomes; similar to human adrenoleukodystrophy transporters ABCD1and ABCD2, and ALD-related proteins; mutations in ABCD1 cause X-linked adrenoleukodystrophy (X-ALD), a peroxisomal disorder; human ABCD1 and ABCD2 can each partially complement yeast pxa1 pxa2 double null mutant
+S000036715	CDS					YPL147W		16	273255	275867	W		2011-02-03	1996-07-31	
+S000006067	ORF	Verified	YPL146C	NOP53	RRP16	chromosome 16		16	277529	276162	C		2011-02-03	1996-07-31	Nucleolar protein; involved in biogenesis of the 60S subunit of the ribosome; interacts with rRNA processing factors Cbf5p and Nop2p and with the nucleolar proteins Nop17p and Nip7p; null mutant is viable but growth is severely impaired
+S000036573	CDS					YPL146C		16	277529	276162	C		2011-02-03	1996-07-31	
+S000006066	ORF	Verified	YPL145C	KES1	oxysterol-binding protein KES1|BSR3|OSH4|LPI3	chromosome 16	L000000894	16	279699	278395	C		2011-02-03	1996-07-31	One of seven members of the yeast oxysterol binding protein family; involved in negative regulation of Sec14p-dependent Golgi complex secretory functions, peripheral membrane protein that localizes to the Golgi complex; KES1 has a paralog, HES1, that arose from the whole genome duplication
+S000035629	CDS					YPL145C		16	279699	278395	C		2011-02-03	1996-07-31	
+S000006065	ORF	Verified	YPL144W	POC4	DMP1|PBA4	chromosome 16		16	280480	280926	W		2011-02-03	1996-07-31	Component of a heterodimeric Poc4p-Irc25p chaperone; involved in assembly of alpha subunits into the 20S proteasome; may regulate formation of proteasome isoforms with alternative subunits under different conditions; upregulates proteasome assembly in response to the unfolded protein response activated by mistargeting of proteins (UPRam)
+S000035609	CDS					YPL144W		16	280480	280926	W		2011-02-03	1996-07-31	
+S000007441	snoRNA_gene		snR17b	SNR17B	U3	chromosome 16	L000004247	16	281517	281056	C		2011-02-03	2000-05-19	Small nucleolar RNA (snoRNA) U3; part of small (ribosomal) subunit (SSU) processosome; SNR17A also encodes snoRNA U3
+S000030181	intron					snR17b		16	281503	281374	C		2011-02-03	2000-05-19	
+S000030180	noncoding_exon					snR17b		16	281373	281056	C		2011-02-03	2000-05-19	
+S000030179	noncoding_exon					snR17b		16	281517	281504	C		2011-02-03	2000-05-19	
+S000006064	ORF	Verified	YPL143W	RPL33A	eL33|ribosomal 60S subunit protein L33A|L33e|rp47|l37A|YL37|L33A|RPL37A	chromosome 16	L000001728	16	282122	282970	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L33A; N-terminally acetylated; rpl33a null mutant exhibits slow growth while rpl33a rpl33b double null mutant is inviable; homologous to mammalian ribosomal protein L35A, no bacterial homolog; RPL33A has a paralog, RPL33B, that arose from the whole genome duplication
+S000035517	CDS					YPL143W		16	282122	282140	W		2011-02-03	1996-07-31	
+S000035518	CDS					YPL143W		16	282666	282970	W		2011-02-03	1996-07-31	
+S000035519	intron					YPL143W		16	282141	282665	W		2011-02-03	1996-07-31	
+S000006063	ORF	Dubious	YPL142C			chromosome 16		16	283003	282686	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF RPL33A/YPL143W, a component of the large (60S) ribosomal subunit
+S000035342	CDS					YPL142C		16	283003	282686	C		2011-02-03	1996-07-31	
+S000006062	ORF	Verified	YPL141C	FRK1	protein kinase FRK1	chromosome 16		16	286061	283464	C		2011-02-03	1996-07-31	Protein kinase of unknown cellular role; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; interacts with rRNA transcription and ribosome biogenesis factors and the long chain fatty acyl-CoA synthetase Faa3p; FRK1 has a paralog, KIN4, that arose from the whole genome duplication
+S000034336	CDS					YPL141C		16	286061	283464	C		2011-02-03	1996-07-31	
+S000006061	ORF	Verified	YPL140C	MKK2	putative mitogen-activated protein kinase kinase MKK2|SSP33|LPI6	chromosome 16	L000001118	16	289034	287514	C		2011-02-03	1996-07-31	MAPKK involved in the protein kinase C signaling pathway; involved in control of cell integrity; upon activation by Bck1p phosphorylates downstream target, Slt2p; functionally redundant with Mkk1p; MKK2 has a paralog, MKK1, that arose from the whole genome duplication
+S000034223	CDS					YPL140C		16	289034	287514	C		2011-02-03	1996-07-31	
+S000118414	ARS		ARS1614		ARSXVI-290	chromosome 16		16	289485	289705			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178192	ARS_consensus_sequence					ARS1614		16	289530	289546	W		2014-11-18	2014-11-18	
+S000006060	ORF	Verified	YPL139C	UME1	WTM3	chromosome 16	L000003500	16	291051	289669	C		2011-02-03	1996-07-31	Component of both the Rpd3S and Rpd3L histone deacetylase complexes; negative regulator of meiosis; required for repression of a subset of meiotic genes during vegetative growth, binding of histone deacetylase Rpd3p required for activity, contains a NEE box and a WD repeat motif; homologous with Wtm1p; UME1 has a paralog, WTM2, that arose from the whole genome duplication
+S000034691	CDS					YPL139C		16	291051	289669	C		2011-02-03	1996-07-31	
+S000006059	ORF	Verified	YPL138C	SPP1	SAF41|CPS40	chromosome 16		16	292427	291366	C		2011-02-03	1996-07-31	Subunit of COMPASS (Set1C); a complex which methylates histone H3 on lysine 4 and is required in telomeric transcriptional silencing; promotes meiotic DSB formation by interacting with H3K4me3 and Rec107p, a protein required for Spo11p-catalyzed DSB formation located on chromosome axes; interacts with Orc2p; PHD finger domain protein similar to human CGBP, an unmethylated CpG binding protein; relocalizes to cytosol in response to hypoxia
+S000034627	CDS					YPL138C		16	292427	291366	C		2011-02-03	1996-07-31	
+S000006057	ORF	Dubious	YPL136W			chromosome 16		16	296286	296654	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene GIP3/YPL137C
+S000034466	CDS					YPL136W		16	296286	296654	W		2011-02-03	1996-07-31	
+S000006058	ORF	Verified	YPL137C	GIP3	protein phosphatase regulator GIP3	chromosome 16		16	296647	292817	C		2011-02-03	1996-07-31	Cytoplasmic protein that regulates protein phosphatase 1 Glc7p; overexpression relocalizes Glc7p from the nucleus and prevents chromosome segregation; may interact with ribosomes, based on co-purification experiments; GIP3 has a paralog, HER1, that arose from the whole genome duplication
+S000034539	CDS					YPL137C		16	296647	292817	C		2011-02-03	1996-07-31	
+S000006056	ORF	Verified	YPL135W	ISU1	iron-binding protein ISU1|NUA1	chromosome 16	L000004769	16	297553	298050	W		2011-02-03	1996-07-31	Conserved protein of the mitochondrial matrix; performs a scaffolding function during assembly of iron-sulfur clusters, interacts physically and functionally with yeast frataxin (Yfh1p); ISU1 has a paralog, ISU2, that arose from the whole genome duplication; isu1 isu2 double mutant is inviable; human homolog ISCU implicated in mitochondrial myopathy, can complement isu1 isu2 double mutant
+S000032464	CDS					YPL135W		16	297553	298050	W		2011-02-03	1996-07-31	
+S000028720	ORF	Dubious	YPL135C-A			chromosome 16		16	297851	297678	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032700	CDS					YPL135C-A		16	297851	297678	C		2011-02-03	2003-07-29	
+S000006055	ORF	Verified	YPL134C	ODC1	mitochondrial 2-oxodicarboxylate carrier	chromosome 16	S000007520	16	299503	298571	C		2011-02-03	1996-07-31	Mitochondrial inner membrane transporter; 2-oxodicarboxylate transporter, exports 2-oxoadipate and 2-oxoglutarate from the mitochondrial matrix to the cytosol for lysine and glutamate biosynthesis and lysine catabolism; suppresses, in multicopy, an fmc1 null mutation; ODC1 has a paralog, ODC2, that arose from the whole genome duplication
+S000032295	CDS					YPL134C		16	299503	298571	C		2011-02-03	1996-07-31	
+S000006054	ORF	Verified	YPL133C	RDS2		chromosome 16		16	301228	299888	C		2011-02-03	1996-07-31	Transcription factor involved in regulating gluconeogenesis; also involved in the regulation of glyoxylate cycle genes; member of the zinc cluster family of proteins; confers resistance to ketoconazole
+S000032197	CDS					YPL133C		16	301228	299888	C		2011-02-03	1996-07-31	
+S000006053	ORF	Verified	YPL132W	COX11	PSO7|LPI13	chromosome 16	L000000395|L000004044	16	301716	302618	W		2011-02-03	1996-07-31	Protein required for delivery of copper to Cox1p; mitochondrial inner membrane protein; association with mitochondrial ribosomes suggests that copper delivery may occur during translation of Cox1p
+S000031257	CDS					YPL132W		16	301716	302618	W		2011-02-03	1996-07-31	
+S000006052	ORF	Verified	YPL131W	RPL5	uL18|ribosomal 60S subunit protein L5|L18|YL3|L5|L1a|RPL1|LPI14	chromosome 16	L000001699	16	303121	304014	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L5; nascent Rpl5p is bound by specific chaperone Syo1p during translation; homologous to mammalian ribosomal protein L5 and bacterial L18; binds 5S rRNA and is required for 60S subunit assembly
+S000031118	CDS					YPL131W		16	303121	304014	W		2011-02-03	1996-07-31	
+S000006051	ORF	Verified	YPL130W	SPO19		chromosome 16		16	304387	305058	W		2011-02-03	1996-07-31	Meiosis-specific prospore protein; required to produce bending force necessary for proper assembly of the prospore membrane during sporulation; identified as a weak high-copy suppressor of the spo1-1 ts mutation; SPO19 has a paralog, YOR214C, that arose from the whole genome duplication
+S000031018	CDS					YPL130W		16	304387	305058	W		2011-02-03	1996-07-31	
+S000006050	ORF	Verified	YPL129W	TAF14	TATA-binding protein-associated factor TAF14|TafII30|ANC1|TFG3|TAF30|SWP29	chromosome 16	L000000086	16	305298	306137	W		2011-02-03	1996-07-31	Subunit of TFIID, TFIIF, INO80, SWI/SNF, and NuA3 complexes; involved in RNA polymerase II transcription initiation and in chromatin modification; contains a YEATS domain
+S000031306	CDS					YPL129W		16	305298	305306	W		2011-02-03	1996-07-31	
+S000031307	CDS					YPL129W		16	305412	306137	W		2011-02-03	1996-07-31	
+S000031308	intron					YPL129W		16	305307	305411	W		2011-02-03	1996-07-31	
+S000006049	ORF	Verified	YPL128C	TBF1	LPI16	chromosome 16	L000002264	16	308221	306533	C	-81.5	2011-02-03	1996-07-31	Telobox-containing general regulatory factor; binds TTAGGG repeats within subtelomeric anti-silencing regions (STARs), blocking silent chromatin propagation; binds majority of snoRNA gene promoters, required for full snoRNA expression; caps DSB flanked by long T2AG3 repeats and blocks checkpoint activation
+S000030320	CDS					YPL128C		16	308221	306533	C		2011-02-03	1996-07-31	
+S000006048	ORF	Verified	YPL127C	HHO1	histone H1	chromosome 16	L000003354	16	309604	308828	C		2011-02-03	1996-07-31	Histone H1, linker histone with roles in meiosis and sporulation; decreasing levels early in sporulation may promote meiosis, and increasing levels during sporulation facilitate compaction of spore chromatin; binds to promoters and within genes in mature spores; may be recruited by Ume6p to promoter regions, contributing to transcriptional repression outside of meiosis; suppresses DNA repair involving homologous recombination
+S000030125	CDS					YPL127C		16	309604	308828	C		2011-02-03	1996-07-31	
+S000006047	ORF	Verified	YPL126W	NAN1	UTP17	chromosome 16		16	310210	312900	W		2011-02-03	1996-07-31	U3 snoRNP protein; component of the small (ribosomal) subunit (SSU) processosome containing U3 snoRNA; required for the biogenesis of18S rRNA
+S000030112	CDS					YPL126W		16	310210	312900	W		2011-02-03	1996-07-31	
+S000006046	ORF	Verified	YPL125W	KAP120	LPH2	chromosome 16		16	313388	316486	W		2011-02-03	1996-07-31	Karyopherin responsible for the nuclear import of Rpf1p; Rpf1p is a ribosome maturation factor
+S000036402	CDS					YPL125W		16	313388	316486	W		2011-02-03	1996-07-31	
+S000006045	ORF	Verified	YPL124W	SPC29	NIP29|LPH3	chromosome 16	L000001253	16	316755	317516	W		2011-02-03	1996-07-31	Inner plaque spindle pole body (SPB) component; links the central plaque component Spc42p to the inner plaque component Spc110p; required for SPB duplication
+S000036286	CDS					YPL124W		16	316755	317516	W		2011-02-03	1996-07-31	
+S000006044	ORF	Verified	YPL123C	RNY1	ribonuclease T2	chromosome 16		16	318945	317641	C		2011-02-03	1996-07-31	Vacuolar RNase of the T(2) family; relocalizes to the cytosol where it cleaves tRNAs upon oxidative or stationary phase stress; required for tRNA-specific translational pausing suring oxidative stress; promotes apoptosis under stress conditions and this function is independent of Rny1p catalytic activity
+S000036104	CDS					YPL123C		16	318945	317641	C		2011-02-03	1996-07-31	
+S000006043	ORF	Verified	YPL122C	TFB2	TFIIH/NER complex subunit TFB2	chromosome 16	L000003495	16	320767	319226	C		2011-02-03	1996-07-31	Subunit of TFIIH and nucleotide excision repair factor 3 complexes; involved in transcription initiation, required for nucleotide excision repair, similar to 52 kDa subunit of human TFIIH
+S000035221	CDS					YPL122C		16	320767	319226	C		2011-02-03	1996-07-31	
+S000006042	ORF	Verified	YPL121C	MEI5	LPH6	chromosome 16	L000001061	16	321630	320962	C		2011-02-03	1996-07-31	Meiosis-specific protein involved in meiotic recombination; involved in DMC1-dependent meiotic recombination; forms heterodimer with Sae3p; proposed to be an assembly factor for Dmc1p
+S000035025	CDS					YPL121C		16	321630	320962	C		2011-02-03	1996-07-31	
+S000006041	ORF	Verified	YPL120W	VPS30	beclin 1|ATG6|VPT30|APG6	chromosome 16	L000003545	16	322071	323744	W		2011-02-03	1996-07-31	Subunit of phosphatidylinositol (PtdIns) 3-kinase complexes I and II; Complex I is essential in autophagy, Complex II is required for vacuolar protein sorting; required for overflow degradation of misfolded proteins when ERAD is saturated; C-terminus has novel globular fold essential for autophagy through the targeting of the PI3-kinase complex I to the pre-autophagosomal structure; ortholog of higher eukaryote gene Beclin 1; human BECN1 can complement yeast null mutant
+S000034961	CDS					YPL120W		16	322071	323744	W		2011-02-03	1996-07-31	
+S000028859	ORF	Uncharacterized	YPL119C-A			chromosome 16		16	324287	324024	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034573	CDS					YPL119C-A		16	324287	324024	C		2011-02-03	2003-07-29	
+S000006040	ORF	Verified	YPL119C	DBP1	putative DEAD-box ATP-dependent RNA helicase DBP1|LPH8	chromosome 16	L000000492	16	326264	324411	C		2011-02-03	1996-07-31	Putative ATP-dependent RNA helicase of the DEAD-box protein family; mutants show reduced stability of the 40S ribosomal subunit scanning through 5' untranslated regions of mRNAs; protein abundance increases in response to DNA replication stress; DBP1 has a paralog, DED1, that arose from the whole genome duplication
+S000035431	CDS					YPL119C		16	326264	324411	C		2011-02-03	1996-07-31	
+S000006039	ORF	Verified	YPL118W	MRP51	mitochondrial 37S ribosomal protein MRP51	chromosome 16	L000003325	16	326628	327662	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; MRP51 exhibits genetic interactions with mutations in the COX2 and COX3 mRNA 5'-untranslated leader sequences
+S000035395	CDS					YPL118W		16	326628	327662	W		2011-02-03	1996-07-31	
+S000006038	ORF	Verified	YPL117C	IDI1	isopentenyl-diphosphate delta-isomerase IDI1|LPH10|BOT2	chromosome 16	L000000851	16	328730	327864	C	-69.8	2011-02-03	1996-07-31	Isopentenyl diphosphate:dimethylallyl diphosphate isomerase; catalyzes an essential activation step in the isoprenoid biosynthetic pathway; required for viability; isopentenyl diphosphate:dimethylallyl diphosphate isomerase is also known as IPP isomerase
+S000034380	CDS					YPL117C		16	328730	327864	C		2011-02-03	1996-07-31	
+S000006037	ORF	Verified	YPL116W	HOS3	histone deacetylase	chromosome 16	L000004093	16	329606	331699	W		2011-02-03	1996-07-31	Trichostatin A-insensitive homodimeric histone deacetylase (HDAC); specificity in vitro for histones H3, H4, H2A, and H2B; similar to Hda1p, Rpd3p, Hos1p, and Hos2p; deletion results in increased histone acetylation at rDNA repeats
+S000034349	CDS					YPL116W		16	329606	331699	W		2011-02-03	1996-07-31	
+S000130199	ARS		ARS1617			chromosome 16		16	331699	332100			2011-02-03	2009-05-08	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
+S000006036	ORF	Verified	YPL115C	BEM3		chromosome 16	L000000169	16	335486	332100	C		2011-02-03	1996-07-31	Rho GTPase activating protein (RhoGAP); involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly
+S000034256	CDS					YPL115C		16	335486	332100	C		2011-02-03	1996-07-31	
+S000006035	ORF	Dubious	YPL114W			chromosome 16		16	335948	336367	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; largely overlaps ORF YPL113C; diploid deletion in BY4743 strain background exhibits high budding index
+S000034237	CDS					YPL114W		16	335948	336367	W		2011-02-03	1996-07-31	
+S000006034	ORF	Verified	YPL113C		glyoxylate reductase	chromosome 16		16	337143	335953	C		2011-02-03	1996-07-31	Glyoxylate reductase; acts on glyoxylate and hydroxypyruvate substrates; YPL113C is not an essential gene
+S000032142	CDS					YPL113C		16	337143	335953	C		2011-02-03	1996-07-31	
+S000006033	ORF	Verified	YPL112C	PEX25		chromosome 16		16	338620	337436	C		2011-02-03	1996-07-31	Peripheral peroxisomal membrane peroxin; required for the regulation of peroxisome size and maintenance, recruits GTPase Rho1p to peroxisomes, induced by oleate, interacts with Pex27p; PEX25 has a paralog, PEX27, that arose from the whole genome duplication
+S000032062	CDS					YPL112C		16	338620	337436	C		2011-02-03	1996-07-31	
+S000006667	tRNA_gene		tM(CAU)P	IMT2		chromosome 16	L000003735	16	338919	338848	C		2011-02-03	2000-05-19	Methionine initiator tRNA (tRNA-Met); predicted by tRNAscan-SE analysis; one of four initiator methionine tRNAs in yeast that are functional for translation
+S000034575	noncoding_exon					tM(CAU)P		16	338919	338848	C		2011-02-03	2000-05-19	
+S000006032	ORF	Verified	YPL111W	CAR1	arginase|cargA|LPH15	chromosome 16	L000000216	16	339944	340945	W	-75	2011-02-03	1996-07-31	Arginase, catabolizes arginine to ornithine and urea; expression responds to both induction by arginine and nitrogen catabolite repression; disruption decreases production of carcinogen ethyl carbamate during wine fermentation and also enhances freeze tolerance
+S000031989	CDS					YPL111W		16	339944	340945	W		2011-02-03	1996-07-31	
+S000006031	ORF	Verified	YPL110C	GDE1	glycerophosphocholine phosphodiesterase	chromosome 16		16	344739	341068	C		2011-02-03	1996-07-31	Glycerophosphocholine (GroPCho) phosphodiesterase; hydrolyzes GroPCho to choline and glycerolphosphate, for use as a phosphate source and as a precursor for phosphocholine synthesis; may interact with ribosomes
+S000031745	CDS					YPL110C		16	344739	341068	C		2011-02-03	1996-07-31	
+S000006030	ORF	Uncharacterized	YPL109C			chromosome 16		16	347389	345264	C		2011-02-03	2004-07-21|1996-07-31|2003-09-27	UbiB family protein; contains transmembrane domain and mitochondrial targeting sequence; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000032179	CDS					YPL109C		16	345444	345264	C		2011-02-03	2003-09-27	
+S000032178	CDS					YPL109C		16	347389	345597	C		2011-02-03	2004-07-21|1996-07-31|2003-09-27	
+S000032180	intron					YPL109C		16	345596	345445	C		2011-02-03	2003-09-27	
+S000006029	ORF	Uncharacterized	YPL108W			chromosome 16		16	348446	348952	W		2011-02-03	1996-07-31	Cytoplasmic protein of unknown function; non-essential gene that is induced in a GDH1 deleted strain with altered redox metabolism; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
+S000032152	CDS					YPL108W		16	348446	348952	W		2011-02-03	1996-07-31	
+S000006028	ORF	Uncharacterized	YPL107W			chromosome 16		16	349119	349865	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YPL107W is not an essential gene
+S000031186	CDS					YPL107W		16	349119	349865	W		2011-02-03	1996-07-31	
+S000006027	ORF	Verified	YPL106C	SSE1	adenyl-nucleotide exchange factor SSE1|MSI3|LPG3	chromosome 16	L000002078	16	352275	350194	C		2011-02-03	1996-07-31	ATPase component of heat shock protein Hsp90 chaperone complex; serves as nucleotide exchange factor to load ATP onto the SSA class of cytosolic Hsp70s; plays a role in prion propagation and determining prion variants; binds unfolded proteins; member of Hsp110 subclass of HSP70 proteins; deletion results in spindle elongation in S phase; SSE1 has a paralog, SSE2, that arose from the whole genome duplication
+S000031029	CDS					YPL106C		16	352275	350194	C		2011-02-03	1996-07-31	
+S000006026	ORF	Verified	YPL105C	SYH1	MYR1	chromosome 16		16	355412	352863	C		2011-02-03	1996-07-31	Protein of unknown function that influences nuclear pore distribution; co-purifies with ribosomes; contains a GYF domain, which bind proline-rich sequences; deletion extends chronological lifespan; SYH1 has a paralog, SMY2, that arose from the whole genome duplication
+S000030941	CDS					YPL105C		16	355412	352863	C		2011-02-03	1996-07-31	
+S000006025	ORF	Verified	YPL104W	MSD1	aspartate--tRNA ligase MSD1|LPG5	chromosome 16	L000001186	16	355700	357676	W		2011-02-03	1996-07-31	Mitochondrial aspartyl-tRNA synthetase; required for acylation of aspartyl-tRNA; yeast and bacterial aspartyl-, asparaginyl-, and lysyl-tRNA synthetases contain regions with high sequence similarity, suggesting a common ancestral gene
+S000030906	CDS					YPL104W		16	355700	357676	W		2011-02-03	1996-07-31	
+S000006024	ORF	Verified	YPL103C	FMP30	N-acetylphosphatidylethanolamine-hydrolyzing phospholipase D	chromosome 16		16	359406	358000	C		2011-02-03	1996-07-31	Protein with a role in maintaining mitochondrial morphology; also involved in maintaining normal cardiolipin levels; mitochondrial inner membrane protein; proposed to be involved in N-acylethanolamine metabolism; related to mammalian N-acylPE-specific phospholipase D
+S000029844	CDS					YPL103C		16	359406	358000	C		2011-02-03	1996-07-31	
+S000006022	ORF	Verified	YPL101W	ELP4	Elongator subunit ELP4|KTI9|TOT7|HAP1	chromosome 16		16	360209	361579	W		2011-02-03	1996-07-31	Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; required for Elongator structural integrity; null mutation is functionally complemented by human ELP4
+S000037803	CDS					YPL101W		16	360209	361579	W		2011-02-03	1996-07-31	
+S000006023	ORF	Dubious	YPL102C			chromosome 16		16	360305	360003	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; deletion mutation enhances replication of Brome mosaic virus in S. cerevisiae, but this is likely due to effects on the overlapping gene ELP4
+S000037833	CDS					YPL102C		16	360305	360003	C		2011-02-03	1996-07-31	
+S000006021	ORF	Verified	YPL100W	ATG21	HSV1|MAI1	chromosome 16		16	361872	363362	W		2011-02-03	1996-07-31	Phosphoinositide binding protein; required for vesicle formation in the cytoplasm-to-vacuole targeting (Cvt) pathway; binds both phosphatidylinositol (3,5)-bisphosphate and phosphatidylinositol 3-phosphate; WD-40 repeat protein
+S000035919	CDS					YPL100W		16	361872	363362	W		2011-02-03	1996-07-31	
+S000006020	ORF	Verified	YPL099C	INA17	AIM43|FMP14	chromosome 16		16	364068	363520	C		2011-02-03	1996-07-31	F1F0 ATPase synthase peripheral stalk assembly factor; subunit of the matrix-exposed inner mitochondrial membrane localized INA complex (Ina22p-Ina17p) involved in assembly of the F1F0 peripheral stalk; co-purifies with Ina22p and ATP synthase subunits; null mutant displays elevated frequency of mitochondrial genome loss and has a respiratory growth defect
+S000037350	CDS					YPL099C		16	364068	363520	C		2011-02-03	1996-07-31	
+S000006019	ORF	Verified	YPL098C	MGR2		chromosome 16		16	364727	364386	C		2011-02-03	1996-07-31	Subunit of the TIM23 translocase complex; acts to couple Tim21p with the core Tim23 translocase; provides quality control for insertion of membrane proteins by regulating their release into the inner membrane by the TIM23 complex; absolutely required for mitochondrial import of presequence-containing proteins at elevated temperature; required for viability of cells lacking the mitochondrial genome (petite-negative phenotype)
+S000037279	CDS					YPL098C		16	364727	364386	C		2011-02-03	1996-07-31	
+S000006018	ORF	Verified	YPL097W	MSY1	tyrosine--tRNA ligase MSY1	chromosome 16	L000002838	16	364952	366430	W		2011-02-03	1996-07-31	Mitochondrial tyrosyl-tRNA synthetase
+S000037246	CDS					YPL097W		16	364952	366430	W		2011-02-03	1996-07-31	
+S000028423	ORF	Verified	YPL096C-A	ERI1	RIN1	chromosome 16	S000028417	16	366735	366529	C		2011-02-03	2002-06-20	Endoplasmic reticulum membrane protein that binds and inhibits Ras2p; binds to and inhibits GTP-bound Ras2p at the endoplasmic reticulum (ER); component of the GPI-GnT complex which catalyzes the first step in GPI-anchor biosynthesis; probable homolog of mammalian PIG-Y protein
+S000029959	CDS					YPL096C-A		16	366735	366529	C		2011-02-03	2002-06-20	
+S000006017	ORF	Verified	YPL096W	PNG1	peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase	chromosome 16		16	366927	368018	W		2011-02-03	1996-07-31	Conserved peptide N-glycanase; deglycosylating enzyme that cleaves N-glycans that are attached to misfolded ERAD substrate glycoproteins prior to proteasome-dependent degradation; localizes to the cytoplasm and nucleus; activity is enhanced by interaction with Rad23p; human ortholog NGLY1 is associated with a syndrome characterized by developmental delays, epilepsy, absence of tears and liver disease
+S000037168	CDS					YPL096W		16	366927	368018	W		2011-02-03	1996-07-31	
+S000006016	ORF	Verified	YPL095C	EEB1	medium-chain fatty acid ethyl ester synthase/esterase	chromosome 16		16	369441	368071	C		2011-02-03	1996-07-31	Acyl-coenzymeA:ethanol O-acyltransferase; responsible for the major part of medium-chain fatty acid ethyl ester biosynthesis during fermentation; possesses short-chain esterase activity; may be involved in lipid metabolism and detoxification; EEB1 has a paralog, EHT1, that arose from the whole genome duplication
+S000036441	CDS					YPL095C		16	369441	368071	C		2011-02-03	1996-07-31	
+S000006015	ORF	Verified	YPL094C	SEC62	Sec63 complex subunit SEC62|LPG14	chromosome 16	L000001853	16	370663	369839	C		2011-02-03	2004-01-09|1996-07-31	Essential subunit of Sec63 complex; with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER; cotranslationally N-acetylated by NatA; other members are Sec63p, Sec66p, and Sec72p
+S000036372	CDS					YPL094C		16	370663	369839	C		2011-02-03	2004-01-09|1996-07-31	
+S000006014	ORF	Verified	YPL093W	NOG1	putative GTPase NOG1	chromosome 16		16	370978	372921	W		2011-02-03	1996-07-31	Putative GTPase; associates with free 60S ribosomal subunits in the nucleolus and is required for 60S ribosomal subunit biogenesis; constituent of 66S pre-ribosomal particles; member of the ODN family of nucleolar G-proteins
+S000036303	CDS					YPL093W		16	370978	372921	W		2011-02-03	1996-07-31	
+S000006013	ORF	Verified	YPL092W	SSU1	LPG16	chromosome 16	L000002094	16	373793	375169	W		2011-02-03	1996-07-31	Plasma membrane sulfite pump involved in sulfite metabolism; required for efficient sulfite efflux; major facilitator superfamily protein
+S000036190	CDS					YPL092W		16	373793	375169	W		2011-02-03	1996-07-31	
+S000006012	ORF	Verified	YPL091W	GLR1	glutathione-disulfide reductase GLR1|LPG17	chromosome 16	L000000714	16	375502	376953	W		2011-02-03	1996-07-31	Cytosolic and mitochondrial glutathione oxidoreductase; converts oxidized glutathione to reduced glutathione; cytosolic Glr1p is the main determinant of the glutathione redox state of the mitochondrial intermembrane space; mitochondrial Glr1p has a role in resistance to hyperoxia; protein abundance increases in response to DNA replication stress
+S000035283	CDS					YPL091W		16	375502	376953	W		2011-02-03	1996-07-31	
+S000006011	ORF	Verified	YPL090C	RPS6A	eS6|ribosomal 40S subunit protein S6A|S6e|rp9|YS4|S6A|S10A	chromosome 16	L000004472	16	378395	377291	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S6, no bacterial homolog; phosphorylated on S233 by Ypk3p in a TORC1-dependent manner, and on S232 in a TORC1/2-dependent manner by Ypk1/2/3p; RPS6A has a paralog, RPS6B, that arose from the whole genome duplication
+S000035035	CDS					YPL090C		16	377995	377291	C		2011-02-03	1996-07-31	
+S000035034	CDS					YPL090C		16	378395	378390	C		2011-02-03	1996-07-31	
+S000035036	intron					YPL090C		16	378389	377996	C		2011-02-03	1996-07-31	
+S000006010	ORF	Verified	YPL089C	RLM1		chromosome 16	L000003028	16	381150	379120	C		2011-02-03	1996-07-31	MADS-box transcription factor; component of the protein kinase C-mediated MAP kinase pathway involved in the maintenance of cell integrity; phosphorylated and activated by the MAP-kinase Slt2p; RLM1 has a paralog, SMP1, that arose from the whole genome duplication
+S000035262	CDS					YPL089C		16	381150	379120	C		2011-02-03	1996-07-31	
+S000006009	ORF	Uncharacterized	YPL088W		aldo-keto reductase superfamily protein	chromosome 16		16	381965	382993	W		2011-02-03	1996-07-31	Putative aryl alcohol dehydrogenase; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance
+S000035218	CDS					YPL088W		16	381965	382993	W		2011-02-03	1996-07-31	
+S000006008	ORF	Verified	YPL087W	YDC1	alkaline dihydroceramidase	chromosome 16		16	383455	384408	W		2011-02-03	1996-07-31	Alkaline dihydroceramidase, involved in sphingolipid metabolism; preferentially hydrolyzes dihydroceramide to a free fatty acid and dihydrosphingosine; has a minor reverse activity; YDC1 has a paralog, YPC1, that arose from the whole genome duplication
+S000035115	CDS					YPL087W		16	383455	384408	W		2011-02-03	1996-07-31	
+S000118415	ARS		ARS1618		ARSXVI-385	chromosome 16		16	384542	384789			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178193	ARS_consensus_sequence					ARS1618		16	384592	384608	W		2014-11-18	2014-11-18	
+S000006007	ORF	Verified	YPL086C	ELP3	Elongator subunit ELP3|KAT9|KTI8|TOT3|HPA1	chromosome 16	L000004378	16	386446	384773	C		2011-02-03	1996-07-31	Subunit of Elongator complex; Elongator is required for modification of wobble nucleosides in tRNA; exhibits histone acetyltransferase activity that is directed to histones H3 and H4; disruption confers resistance to K. lactis zymotoxin; human homolog ELP3 can partially complement yeast elp3 null mutant
+S000034914	CDS					YPL086C		16	386446	384773	C		2011-02-03	1996-07-31	
+S000006006	ORF	Verified	YPL085W	SEC16	LPF1	chromosome 16	L000003051	16	387067	393654	W		2011-02-03	1996-07-31	COPII vesicle coat protein required for ER transport vesicle budding; essential factor in endoplasmic reticulum exit site (ERES) formation, as well as in COPII-mediated ER-to-Golgi traffic; bound to periphery of ER membranes and may act to stabilize initial COPII complexes; interacts with Sec23p, Sec24p and Sec31p
+S000034866	CDS					YPL085W		16	387067	393654	W		2011-02-03	1996-07-31	
+S000006005	ORF	Verified	YPL084W	BRO1	NPI3|ASI6|VPS31|LPF2	chromosome 16	L000003061	16	394038	396572	W		2011-02-03	1996-07-31	Cytoplasmic class E vacuolar protein sorting (VPS) factor; coordinates deubiquitination in the multivesicular body (MVB) pathway by recruiting Doa4p to endosomes
+S000032909	CDS					YPL084W		16	394038	396572	W		2011-02-03	1996-07-31	
+S000006004	ORF	Verified	YPL083C	SEN54	tRNA splicing endonuclease subunit SEN54	chromosome 16	L000003974	16	398105	396702	C		2011-02-03	1996-07-31	Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease (Sen complex) is composed of Sen2p, Sen15p, Sen34p, and Sen54p; Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface
+S000032739	CDS					YPL083C		16	398105	396702	C		2011-02-03	1996-07-31	
+S000006003	ORF	Verified	YPL082C	MOT1	DNA-binding ATPase|END10|BTAF1|LPF4|BUR3	chromosome 16	L000001136|L000004559|S000029158	16	404083	398480	C		2011-02-03	1996-07-31	Essential protein involved in regulation of transcription; removes Spt15p (TBP) from DNA via its C-terminal ATPase activity; may have a role in ensuring that soluble TBP is available to bind TATA-less promoters; forms a complex with TBP that binds TATA DNA with high affinity but with altered specificity; the Mot1p-Spt15p-DNA ternary complex contains unbent DNA; coregulates transcription with Spt16p through assembly of preinitiation complex and organization of nucleosomes
+S000032674	CDS					YPL082C		16	404083	398480	C		2011-02-03	1996-07-31	
+S000006002	ORF	Verified	YPL081W	RPS9A	uS4|ribosomal 40S subunit protein S9A|rp21|YS11|S9A|S4|S13	chromosome 16	L000004474	16	404950	406044	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S9 and bacterial S4; RPS9A has a paralog, RPS9B, that arose from the whole genome duplication
+S000032631	CDS					YPL081W		16	404950	404956	W		2011-02-03	1996-07-31	
+S000032632	CDS					YPL081W		16	405458	406044	W		2011-02-03	1996-07-31	
+S000032633	intron					YPL081W		16	404957	405457	W		2011-02-03	1996-07-31	
+S000006001	ORF	Dubious	YPL080C			chromosome 16		16	406498	406172	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031568	CDS					YPL080C		16	406498	406172	C		2011-02-03	1996-07-31	
+S000006000	ORF	Verified	YPL079W	RPL21B	eL21|ribosomal 60S subunit protein L21B|L21e|L21B	chromosome 16	L000004459	16	406636	407539	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L21B; homologous to mammalian ribosomal protein L21, no bacterial homolog; RPL21B has a paralog, RPL21A, that arose from the whole genome duplication
+S000031935	CDS					YPL079W		16	406636	406646	W		2011-02-03	1996-07-31	
+S000031936	CDS					YPL079W		16	407068	407539	W		2011-02-03	1996-07-31	
+S000031937	intron					YPL079W		16	406647	407067	W		2011-02-03	1996-07-31	
+S000005999	ORF	Verified	YPL078C	ATP4	F1F0 ATP synthase subunit 4|LPF7	chromosome 16	L000000144	16	408744	408010	C		2011-02-03	1996-07-31	Subunit b of the stator stalk of mitochondrial F1F0 ATP synthase; ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; contributes to the oligomerization of the complex, which in turn determines the shape of inner membrane cristae; phosphorylated
+S000030814	CDS					YPL078C		16	408744	408010	C		2011-02-03	1996-07-31	
+S000005998	ORF	Uncharacterized	YPL077C			chromosome 16		16	410090	409368	C		2011-02-03	1996-07-31	Putative protein of unknown function; regulates PIS1 expression; mutant displays spore wall assembly defect in ether sensitivity screen; YPL077C is not an essential gene; YPL077C has a paralog, YBR197C, that arose from the whole genome duplication
+S000030729	CDS					YPL077C		16	410090	409368	C		2011-02-03	1996-07-31	
+S000005997	ORF	Verified	YPL076W	GPI2	phosphatidylinositol N-acetylglucosaminyltransferase|GCR4	chromosome 16	L000002807	16	410443	411285	W		2011-02-03	1996-07-31	Protein involved in the synthesis of GlcNAc-PI; GlcNAc-PI is the first intermediate in the synthesis of glycosylphosphatidylinositol (GPI) anchors; homologous to the human PIG-C protein; GlcNAc-PI stands for N-acetylglucosaminyl phosphatidylinositol
+S000030692	CDS					YPL076W		16	410443	411285	W		2011-02-03	1996-07-31	
+S000005996	ORF	Verified	YPL075W	GCR1	transcription regulator GCR1|SIT3|LPF10	chromosome 16	L000000690|S000029447|L000001900	16	412254	415362	W		2011-02-03	1997-10-20|1996-07-31	Transcriptional activator of genes involved in glycolysis; DNA-binding protein that interacts and functions with the transcriptional activator Gcr2p
+S000036778	CDS					YPL075W		16	412254	412261	W		2011-02-03	1997-10-20|1996-07-31	
+S000036779	CDS					YPL075W		16	413013	415362	W		2011-02-03	1997-10-20	
+S000036780	intron					YPL075W		16	412262	413012	W		2011-02-03	1997-10-20	
+S000005995	ORF	Verified	YPL074W	YTA6	putative AAA family ATPase YTA6	chromosome 16	L000002560	16	415763	418027	W		2011-02-03	1996-07-31	Putative ATPase of the CDC48/PAS1/SEC18 (AAA) family; localized to the cortex of mother cells but not to daughter cells; relocalizes from cytoplasm to plasma membrane foci upon DNA replication stress
+S000036699	CDS					YPL074W		16	415763	418027	W		2011-02-03	1996-07-31	
+S000118416	ARS		ARS1619		ARSXVI-418	chromosome 16		16	418138	418364			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178194	ARS_consensus_sequence					ARS1619		16	418178	418194	W		2014-11-18	2014-11-18	
+S000005993	ORF	Verified	YPL072W	UBP16	putative ubiquitin-specific protease UBP16	chromosome 16	L000004590	16	418512	420011	W		2011-02-03	1996-07-31	Deubiquitinating enzyme anchored to the outer mitochondrial membrane; probably not important for general mitochondrial functioning, but may perform a more specialized function at mitochondria
+S000036526	CDS					YPL072W		16	418512	420011	W		2011-02-03	1996-07-31	
+S000005994	ORF	Dubious	YPL073C			chromosome 16		16	418984	418499	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with verified gene UBP16/YPL072W; may interact with ribosome based on co-purification experiments
+S000036568	CDS					YPL073C		16	418984	418499	C		2011-02-03	1996-07-31	
+S000005992	ORF	Uncharacterized	YPL071C			chromosome 16		16	420518	420048	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
+S000035569	CDS					YPL071C		16	420518	420048	C		2011-02-03	1996-07-31	
+S000005991	ORF	Verified	YPL070W	MUK1	guanine nucleotide exchange factor MUK1	chromosome 16		16	420948	422786	W		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF); involved in vesicle-mediated vacuolar transport, including Golgi-endosome trafficking and sorting through the multivesicular body (MVB); specifically stimulates the intrinsic guanine nucleotide exchange activity of Rab family members (Vps21p/Ypt52p/Ypt53p); partially redundant with GEF VPS9; required for localization of the CORVET complex to endosomes; contains a VPS9 domain
+S000035514	CDS					YPL070W		16	420948	422786	W		2011-02-03	1996-07-31	
+S000130200	ARS		ARS1620			chromosome 16		16	422786	422885			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000005990	ORF	Verified	YPL069C	BTS1	farnesyltranstransferase	chromosome 16	L000003062	16	423892	422885	C		2011-02-03	1996-07-31	Geranylgeranyl diphosphate synthase (GGPS); increases the intracellular pool of geranylgeranyl diphosphate, suppressor of bet2 mutation that causes defective geranylgeranylation of small GTP-binding proteins that mediate vesicular traffic
+S000035752	CDS					YPL069C		16	423892	422885	C		2011-02-03	1996-07-31	
+S000005989	ORF	Uncharacterized	YPL068C			chromosome 16		16	425096	424215	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and is induced in response to the DNA-damaging agent MMS
+S000035679	CDS					YPL068C		16	425096	424215	C		2011-02-03	1996-07-31	
+S000005988	ORF	Uncharacterized	YPL067C			chromosome 16		16	425847	425251	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YPL067C is not an essential gene
+S000034754	CDS					YPL067C		16	425847	425251	C		2011-02-03	1996-07-31	
+S000005987	ORF	Verified	YPL066W	RGL1		chromosome 16		16	426233	427672	W		2011-02-03	1996-07-31	Regulator of Rho1p signaling, cofactor of Tus1p; required for the localization of Tus1p during all phases of cytokinesis; green fluorescent protein (GFP)-fusion protein localizes to the bud neck and cytoplasm; null mutant is viable and exhibits growth defect on a non-fermentable (respiratory) carbon source
+S000034712	CDS					YPL066W		16	426233	427672	W		2011-02-03	1996-07-31	
+S000005986	ORF	Verified	YPL065W	VPS28	ESCRT-I subunit protein VPS28|VPL13|VPT28	chromosome 16	L000003228	16	427927	428655	W		2011-02-03	1996-07-31	Component of the ESCRT-I complex; complex is involved in ubiquitin-dependent sorting of proteins into the endosome; conserved C-terminal domain interacts with ESCRT-III subunit Vps20p; other members include Stp22p, Srn2p, Vps28p, and Mvb12p
+S000034662	CDS					YPL065W		16	427927	428655	W		2011-02-03	1996-07-31	
+S000005985	ORF	Verified	YPL064C	CWC27	putative peptidylprolyl isomerase CWC27	chromosome 16		16	429616	428711	C		2011-02-03	1996-07-31	Component of a complex containing Cef1p; putatively involved in pre-mRNA splicing; has similarity to S. pombe Cwf27p; protein abundance increases in response to DNA replication stress
+S000034538	CDS					YPL064C		16	429616	428711	C		2011-02-03	1996-07-31	
+S000005984	ORF	Verified	YPL063W	TIM50	protein translocase subunit TIM50	chromosome 16		16	429939	431369	W		2011-02-03	1996-07-31	Essential component of the TIM23 complex; acts as receptor for the translocase of the inner mitochondrial membrane (TIM23) complex guiding incoming precursors from the TOM complex; may control the gating of the Tim23p-Tim17p channel
+S000034464	CDS					YPL063W		16	429939	431369	W		2011-02-03	1996-07-31	
+S000005983	ORF	Dubious	YPL062W			chromosome 16		16	431895	432299	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YPL062W is not an essential gene; homozygous diploid mutant shows a decrease in glycogen accumulation
+S000032441	CDS					YPL062W		16	431895	432299	W		2011-02-03	1996-07-31	
+S000005982	ORF	Verified	YPL061W	ALD6	aldehyde dehydrogenase (NADP(+)) ALD6|ALD1	chromosome 16	L000003206	16	432588	434090	W		2011-02-03	1996-07-31	Cytosolic aldehyde dehydrogenase; activated by Mg2+ and utilizes NADP+ as the preferred coenzyme; required for conversion of acetaldehyde to acetate; constitutively expressed; locates to the mitochondrial outer surface upon oxidative stress
+S000032358	CDS					YPL061W		16	432588	434090	W		2011-02-03	1996-07-31	
+S000005981	ORF	Verified	YPL060W	MFM1	LPE10	chromosome 16		16	434523	435764	W		2011-02-03	1996-07-31	Mitochondrial inner membrane magnesium transporter; involved in maintenance of mitochondrial magnesium concentrations and membrane potential; indirectly affects splicing of group II introns; functionally and structurally related to Mrs2p
+S000032240	CDS					YPL060W		16	434523	435764	W		2011-02-03	1996-07-31	
+S000006528	tRNA_gene		tC(GCA)P1			chromosome 16	L000003734	16	435964	435893	C		2011-02-03	2000-05-19	Cysteine tRNA (tRNA-Cys), predicted by tRNAscan-SE analysis
+S000037832	noncoding_exon					tC(GCA)P1		16	435964	435893	C		2011-02-03	2000-05-19	
+S000007196	long_terminal_repeat		YPLWdelta9			chromosome 16		16	436068	436249	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007185	long_terminal_repeat		YPLCdelta10			chromosome 16		16	436587	436250	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007197	long_terminal_repeat		YPLWdelta11			chromosome 16		16	436594	436731	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007186	long_terminal_repeat		YPLCtau1			chromosome 16		16	437260	436890	C		2011-02-03	2000-05-19	Ty4 LTR
+S000007388	transposable_element_gene		YPL060C-A			chromosome 16		16	442742	437333	C		2015-01-13	1999-07-17|2014-11-18|2015-01-13	TyA Gag protein; the main structural constituent of virus-like particles (VLPs); Gag processing produces capsid proteins
+S000178189	CDS					YPL060C-A		16	439427	437333	C		2015-01-13	2014-11-18|2015-01-13	
+S000036843	CDS					YPL060C-A		16	442742	439429	C		2015-01-13	1999-07-17|2015-01-13	
+S000178188	plus_1_translational_frameshift					YPL060C-A		16	439428	439428	C		2015-01-13	2014-11-18|2015-01-13	
+S000007188	LTR_retrotransposon		YPLCTy4-1		Ty4	chromosome 16		16	443112	436890	C		2011-02-03	2000-05-19	Ty4 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007187	long_terminal_repeat		YPLCtau2			chromosome 16		16	443112	442742	C		2011-02-03	2000-05-19	Ty4 LTR
+S000005980	ORF	Verified	YPL059W	GRX5	monothiol glutaredoxin GRX5	chromosome 16	S000007446	16	444579	445031	W		2011-02-03	1996-07-31	Glutathione-dependent oxidoreductase; mitochondrial matrix protein involved at an early step in the biogenesis of iron-sulfur centers along with Bol1p; hydroperoxide and superoxide-radical responsive; monothiol glutaredoxin subfamily member along with Grx3p and Grx4p
+S000031521	CDS					YPL059W		16	444579	445031	W		2011-02-03	1996-07-31	
+S000005979	ORF	Verified	YPL058C	PDR12	ATP-binding cassette multidrug transporter PDR12	chromosome 16	L000003205	16	450377	445842	C		2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; weak-acid-inducible multidrug transporter required for weak organic acid resistance; induced by sorbate and benzoate and regulated by War1p; mutants exhibit sorbate hypersensitivity
+S000031386	CDS					YPL058C		16	450377	445842	C		2011-02-03	1996-07-31	
+S000005978	ORF	Verified	YPL057C	SUR1	mannosylinositol phosphorylceramide synthase catalytic subunit SUR1|LPE15|CSG1|BCL21	chromosome 16	L000002243	16	453057	451909	C		2011-02-03	1996-07-31	Mannosylinositol phosphorylceramide (MIPC) synthase catalytic subunit; forms a complex with regulatory subunit Csg2p; function in sphingolipid biosynthesis is overlapping with that of Csh1p; SUR1 has a paralog, CSH1, that arose from the whole genome duplication
+S000031334	CDS					YPL057C		16	453057	451909	C		2011-02-03	1996-07-31	
+S000005977	ORF	Uncharacterized	YPL056C	LCL1		chromosome 16		16	453735	453430	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant is fluconazole resistant and has long chronological lifespan
+S000030453	CDS					YPL056C		16	453735	453430	C		2011-02-03	1996-07-31	
+S000005976	ORF	Verified	YPL055C	LGE1		chromosome 16		16	454990	453992	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant forms abnormally large cells, and homozygous diploid null mutant displays delayed premeiotic DNA synthesis and reduced efficiency of meiotic nuclear division
+S000030299	CDS					YPL055C		16	454990	453992	C		2011-02-03	1996-07-31	
+S000005975	ORF	Verified	YPL054W	LEE1		chromosome 16	L000002859	16	455759	456664	W		2011-02-03	1996-07-31	Zinc-finger protein of unknown function
+S000030275	CDS					YPL054W		16	455759	456664	W		2011-02-03	1996-07-31	
+S000119038	ARS		ARS1633		ARSXVI-457|ARS1620.5	chromosome 16		16	456563	456810			2011-02-03	2006-10-04	Autonomously Replicating Sequence
+S000005974	ORF	Verified	YPL053C	KTR6	putative mannosyltransferase|MNN6	chromosome 16	L000003131	16	458458	457118	C		2011-02-03	1996-07-31	Probable mannosylphosphate transferase; involved in the synthesis of core oligosaccharides in protein glycosylation pathway; member of the KRE2/MNT1 mannosyltransferase family; KTR6 has a paralog, KRE2, that arose from the whole genome duplication
+S000036430	CDS					YPL053C		16	458458	457118	C		2011-02-03	1996-07-31	
+S000005973	ORF	Verified	YPL052W	OAZ1	YPL052W-A	chromosome 16		16	458799	459678	W		2011-02-03	1996-07-31|2005-12-14	Regulator of ornithine decarboxylase Spe1p; antizyme that binds to Spe1p to stimulate ubiquitin-independent degradation by the proteasome; binding of polyamines to nascent Oaz1p during translation stimulates +1 ribosomal frameshifting, allowing translation of full-length Oaz1p
+S000036401	CDS					YPL052W		16	458799	459005	W		2011-02-03	1996-07-31|2005-12-14	
+S000113788	CDS					YPL052W		16	459007	459678	W		2011-02-03	2005-12-14	
+S000113787	plus_1_translational_frameshift					YPL052W		16	459006	459006	W		2011-02-03	2005-12-14	
+S000005972	ORF	Verified	YPL051W	ARL3	Arf family GTPase ARL3	chromosome 16	L000004809	16	459963	460559	W		2011-02-03	1996-07-31	ARF-like small GTPase of the RAS superfamily; required for recruitment of Arl1p, a GTPase that regulates membrane traffic, to the Golgi apparatus; NatC-catalyzed N-terminal acetylation regulates Golgi membrane association mediated by interaction with membrane receptor, Sys1p; similar to ADP-ribosylation factor and orthologous to mammalian ARFRP1
+S000036285	CDS					YPL051W		16	459963	460559	W		2011-02-03	1996-07-31	
+S000005971	ORF	Verified	YPL050C	MNN9	mannosyltransferase complex subunit MNN9	chromosome 16	L000001129	16	461966	460779	C		2011-02-03	1996-07-31	Subunit of Golgi mannosyltransferase complex; this complex mediates elongation of the polysaccharide mannan backbone; forms a separate complex with Van1p that is also involved in backbone elongation; this complex also contains Anp1p, Mnn10p, Mnn11p, and Hoc1p
+S000036103	CDS					YPL050C		16	461966	460779	C		2011-02-03	1996-07-31	
+S000005970	ORF	Verified	YPL049C	DIG1	RST1	chromosome 16	L000003122	16	463839	462481	C		2011-02-03	1996-07-31	MAP kinase-responsive inhibitor of the Ste12p transcription factor; involved in the regulation of mating-specific genes and the invasive growth pathway; related regulators Dig1p and Dig2p bind to Ste12p; DIG1 has a paralog, DIG2, that arose from the whole genome duplication
+S000036451	CDS					YPL049C		16	463839	462481	C		2011-02-03	1996-07-31	
+S000005969	ORF	Verified	YPL048W	CAM1	translation elongation factor EF1B gamma|CPBP|TEF3	chromosome 16	L000000212|L000002279	16	464401	465648	W	-27.3	2011-02-03	1996-07-31	One of two isoforms of the gamma subunit of eEF1B; stimulates the release of GDP from eEF1A (Tef1p/Tef2p) post association with the ribosomal complex with eEF1Balpha subunit; nuclear protein required for transcription of MXR1; binds the MXR1 promoter in the presence of other nuclear factors; binds calcium and phospholipids
+S000035577	CDS					YPL048W		16	464401	465648	W		2011-02-03	1996-07-31	
+S000005968	ORF	Verified	YPL047W	SGF11	SAGA histone acetyltransferase complex subunit SGF11	chromosome 16		16	465962	466261	W		2011-02-03	1996-07-31	Integral subunit of SAGA histone acetyltransferase complex; regulates transcription of a subset of SAGA-regulated genes, required for the Ubp8p association with SAGA and for H2B deubiquitylation
+S000035515	CDS					YPL047W		16	465962	466261	W		2011-02-03	1996-07-31	
+S000005967	ORF	Verified	YPL046C	ELC1	elongin C	chromosome 16	L000004351	16	466943	466644	C		2011-02-03	1996-07-31	Elongin C, conserved among eukaryotes; forms a complex with Cul3p that polyubiquitylates monoubiquitylated RNA polymerase II to trigger its proteolysis; plays a role in global genomic repair
+S000035426	CDS					YPL046C		16	466943	466644	C		2011-02-03	1996-07-31	
+S000005966	ORF	Verified	YPL045W	VPS16	tethering complex subunit VPS16|CVT15|VPT16|VAM9|SVL6	chromosome 16	L000002471|L000003119|L000004766|S000029128	16	467260	469656	W		2011-02-03	1996-07-31	Subunit of the HOPS and the CORVET complexes; part of the Class C Vps complex essential for membrane docking and fusion at Golgi-to-endosome and endosome-to-vacuole protein transport stages
+S000035390	CDS					YPL045W		16	467260	469656	W		2011-02-03	1996-07-31	
+S000005964	ORF	Verified	YPL043W	NOP4	mRNA-binding ribosome biosynthesis protein NOP4|NOP77	chromosome 16	L000001262|L000001263	16	469939	471996	W		2011-02-03	1996-07-31	Nucleolar protein; essential for processing and maturation of 27S pre-rRNA and large ribosomal subunit biogenesis; constituent of 66S pre-ribosomal particles; contains four RNA recognition motifs (RRMs)
+S000034348	CDS					YPL043W		16	469939	471996	W		2011-02-03	1996-07-31	
+S000005965	ORF	Dubious	YPL044C			chromosome 16		16	470474	469926	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene NOP4/YPL043W
+S000034376	CDS					YPL044C		16	470474	469926	C		2011-02-03	1996-07-31	
+S000005963	ORF	Verified	YPL042C	SSN3	cyclin-dependent serine/threonine protein kinase SSN3|URR1|SSX7|CDK8|RYE5|UME5|SRB10|NUT7|GIG2	chromosome 16	L000002795|S000029631|L000002443|S000029520|L000002103	16	474707	473040	C		2011-02-03	1996-07-31	Cyclin-dependent protein kinase; component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression
+S000034254	CDS					YPL042C		16	474707	473040	C		2011-02-03	1996-07-31	
+S000005962	ORF	Uncharacterized	YPL041C	MRX11		chromosome 16		16	475741	475118	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; SWAT-GFP and mCherry fusion proteins localize to the mitochondria; involved in maintenance of telomere length
+S000034145	CDS					YPL041C		16	475741	475118	C		2011-02-03	1996-07-31	
+S000005961	ORF	Verified	YPL040C	ISM1	isoleucine--tRNA ligase ISM1	chromosome 16	L000002648	16	479001	475993	C		2011-02-03	1996-07-31	Mitochondrial isoleucyl-tRNA synthetase; null mutant is deficient in respiratory growth; human homolog IARS2 implicated in mitochondrial diseases, can partially complement yeast null mutant
+S000032140	CDS					YPL040C		16	479001	475993	C		2011-02-03	1996-07-31	
+S000005960	ORF	Uncharacterized	YPL039W			chromosome 16		16	479225	480175	W		2011-02-03	1996-07-31	Putative protein of unknown function; YPL039W is not an essential gene
+S000033263	CDS					YPL039W		16	479225	480175	W		2011-02-03	1996-07-31	
+S000028588	ORF	Uncharacterized	YPL038W-A			chromosome 16		16	480182	480373	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031340	CDS					YPL038W-A		16	480182	480373	W		2011-02-03	2003-07-29	
+S000005959	ORF	Verified	YPL038W	MET31		chromosome 16	L000003469	16	480535	481068	W		2011-02-03	1996-07-31	Zinc-finger DNA-binding transcription factor; targets strong transcriptional activator Met4p to promoters of sulfur metabolic genes; involved in transcriptional regulation of the methionine biosynthetic genes; feedforward loop controlling expression of MET32 and the lack of such a loop for MET31 may account for the differential actions of Met31p and Met32p; MET31 has a paralog, MET32, that arose from the whole genome duplication
+S000032414	CDS					YPL038W		16	480535	481068	W		2011-02-03	1996-07-31	
+S000005958	ORF	Verified	YPL037C	EGD1		chromosome 16	L000000545	16	481901	481428	C		2011-02-03	1996-07-31	Subunit beta1 of the nascent polypeptide-associated complex (NAC); involved in protein targeting, associated with cytoplasmic ribosomes; enhances DNA binding of the Gal4p activator; homolog of human BTF3b; EGD1 has a paralog, BTT1, that arose from the whole genome duplication
+S000032253	CDS					YPL037C		16	481901	481428	C		2011-02-03	1996-07-31	
+S000005957	ORF	Verified	YPL036W	PMA2	H(+)-exporting P2-type ATPase PMA2	chromosome 16	L000001450	16	482843	485686	W		2011-02-03	1996-07-31	Plasma membrane H+-ATPase; isoform of Pma1p, involved in pumping protons out of the cell; regulator of cytoplasmic pH and plasma membrane potential
+S000032226	CDS					YPL036W		16	482843	485686	W		2011-02-03	1996-07-31	
+S000005955	ORF	Uncharacterized	YPL034W			chromosome 16		16	486712	487209	W		2011-02-03	1996-07-31	Putative protein of unknown function; YPL034W is not essential gene
+S000031184	CDS					YPL034W		16	486712	487209	W		2011-02-03	1996-07-31	
+S000005956	ORF	Dubious	YPL035C			chromosome 16		16	486911	486564	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YPL034W; YPL035C is not an essential gene
+S000031189	CDS					YPL035C		16	486911	486564	C		2011-02-03	1996-07-31	
+S000005954	ORF	Verified	YPL033C	SRL4		chromosome 16		16	488207	487362	C		2011-02-03	1996-07-31	Protein of unknown function; involved in regulation of dNTP production; null mutant suppresses the lethality of lcd1 and rad53 mutations; expression is induced by Kar4p
+S000031014	CDS					YPL033C		16	488207	487362	C		2011-02-03	1996-07-31	
+S000005953	ORF	Verified	YPL032C	SVL3		chromosome 16	L000004235	16	491364	488887	C		2011-02-03	1996-07-31	Protein of unknown function; mutant phenotype suggests a potential role in vacuolar function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery, cytoplasm, bud, and bud neck; relocalizes from bud neck to cytoplasm upon DNA replication stress; SVL3 has a paralog, PAM1, that arose from the whole genome duplication
+S000030938	CDS					YPL032C		16	491364	488887	C		2011-02-03	1996-07-31	
+S000005952	ORF	Verified	YPL031C	PHO85	cyclin-dependent serine/threonine-protein kinase PHO85|phoU|LDB15	chromosome 16	L000001431	16	493037	492018	C	-34	2011-02-03	1996-07-31	Cyclin-dependent kinase; has ten cyclin partners; involved in regulating the cellular response to nutrient levels and environmental conditions and progression through the cell cycle; human lissencephaly-associated homolog CDK5 functionally complements null mutation
+S000029949	CDS					YPL031C		16	492918	492018	C		2011-02-03	1996-07-31	
+S000029948	CDS					YPL031C		16	493037	493021	C		2011-02-03	1996-07-31	
+S000029950	intron					YPL031C		16	493020	492919	C		2011-02-03	1996-07-31	
+S000005951	ORF	Verified	YPL030W	TRM44	tRNA (uracil) methyltransferase	chromosome 16		16	493543	495246	W		2011-02-03	1996-07-31	tRNA(Ser) Um(44) 2'-O-methyltransferase; involved in maintaining levels of the tRNA-Ser species tS(CGA) and tS(UGA); conserved among metazoans and fungi but there does not appear to be a homolog in plants; TRM44 is a non-essential gene
+S000029895	CDS					YPL030W		16	493543	495246	W		2011-02-03	1996-07-31	
+S000005950	ORF	Verified	YPL029W	SUV3	ATP-dependent RNA helicase SUV3|LPB2	chromosome 16	L000002247	16	495506	497719	W		2011-02-03	1996-07-31	ATP-dependent RNA helicase; component of the mitochondrial degradosome along with the RNase Dss1p; the degradosome associates with the ribosome and mediates RNA turnover; also required during splicing of the COX1 AI5_beta intron; expression of a processed form of human homolog SUPV3L1 carrying an N-terminal deletion of 46 amino acids rescues yeast suv3 null mutant
+S000037169	CDS					YPL029W		16	495506	497719	W		2011-02-03	1996-07-31	
+S000005949	ORF	Verified	YPL028W	ERG10	acetyl-CoA C-acetyltransferase|TSM0115|LPB3	chromosome 16	L000000576	16	498096	499292	W	-22	2011-02-03	1996-07-31	Acetyl-CoA C-acetyltransferase (acetoacetyl-CoA thiolase); cytosolic enzyme that transfers an acetyl group from one acetyl-CoA molecule to another, forming acetoacetyl-CoA; involved in the first step in mevalonate biosynthesis; human ACAT1 functionally complements the growth defect caused by repression of ERG10 expression
+S000037054	CDS					YPL028W		16	498096	499292	W		2011-02-03	1996-07-31	
+S000005948	ORF	Verified	YPL027W	SMA1		chromosome 16		16	499665	500402	W		2011-02-03	1996-07-31	Protein of unknown function involved in prospore membrane assembly; involved in the assembly of the prospore membrane during sporulation; interacts with Spo14p
+S000036999	CDS					YPL027W		16	499665	500402	W		2011-02-03	1996-07-31	
+S000005947	ORF	Verified	YPL026C	SKS1	putative serine/threonine protein kinase SKS1|SHA3	chromosome 16	L000004139|L000002824	16	502183	500675	C		2011-02-03	1996-07-31	Putative serine/threonine protein kinase; involved in the adaptation to low concentrations of glucose independent of the SNF3 regulated pathway; SKS1 has a paralog, VHS1, that arose from the whole genome duplication
+S000036265	CDS					YPL026C		16	502183	500675	C		2011-02-03	1996-07-31	
+S000005946	ORF	Dubious	YPL025C			chromosome 16		16	503030	502473	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036171	CDS					YPL025C		16	503030	502473	C		2011-02-03	1996-07-31	
+S000005945	ORF	Verified	YPL024W	RMI1	NCE4	chromosome 16	L000004399	16	503517	504242	W		2011-02-03	1996-07-31	Subunit of the RecQ (Sgs1p) - Topo III (Top3p) complex; stimulates superhelical relaxing, DNA catenation/decatenation and ssDNA binding activities of Top3p; involved in response to DNA damage; functions in S phase-mediated cohesion establishment via a pathway involving the Ctf18-RFC complex and Mrc1p; stimulates Top3p DNA catenation/decatenation activity; null mutants display increased rates of recombination and delayed S phase
+S000036120	CDS					YPL024W		16	503517	504242	W		2011-02-03	1996-07-31	
+S000005944	ORF	Verified	YPL023C	MET12	methylenetetrahydrofolate reductase (NAD(P)H) MET12	chromosome 16	L000003571	16	506312	504339	C		2011-02-03	1996-07-31	Protein with MTHFR activity in vitro; null mutant has no phenotype and is prototrophic for methionine; MET13 encodes major isozyme of methylenetetrahydrofolate reductase (MTHFR)
+S000035195	CDS					YPL023C		16	506312	504339	C		2011-02-03	1996-07-31	
+S000005943	ORF	Verified	YPL022W	RAD1	RAD12|ssDNA endodeoxyribonuclease RAD1|LPB9	chromosome 16	L000001555	16	506697	509999	W	-18	2011-02-03	1996-07-31	Single-stranded DNA endonuclease (with Rad10p); cleaves single-stranded DNA during nucleotide excision repair and double-strand break repair; subunit of Nucleotide Excision Repair Factor 1 (NEF1); homolog of human XPF protein
+S000035144	CDS					YPL022W		16	506697	509999	W		2011-02-03	1996-07-31	
+S000005942	ORF	Verified	YPL021W	ECM23	SRD2	chromosome 16	L000003366	16	511101	511664	W		2011-02-03	1996-07-31	Non-essential protein of unconfirmed function; affects pre-rRNA processing, may act as a negative regulator of the transcription of genes involved in pseudohyphal growth; homologous to Srd1p
+S000035028	CDS					YPL021W		16	511101	511664	W		2011-02-03	1996-07-31	
+S000118417	ARS		ARS1621		ARSXVI-512	chromosome 16		16	511636	511793			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178195	ARS_consensus_sequence					ARS1621		16	511704	511720	W		2014-11-18	2014-11-18	
+S000005941	ORF	Verified	YPL020C	ULP1	SUMO protease ULP1|NIB1	chromosome 16	S000029323|L000001249	16	514178	512313	C		2011-02-03	1996-07-31	Protease that specifically cleaves Smt3p protein conjugates; required for cell cycle progression; associates with nucleoporins and may interact with septin rings during telophase; sequestered to the nucleolus under stress conditions
+S000034812	CDS					YPL020C		16	514178	512313	C		2011-02-03	1996-07-31	
+S000005940	ORF	Verified	YPL019C	VTC3	vacuolar transporter chaperone|PHM2	chromosome 16	S000007512	16	517018	514511	C		2011-02-03	1996-07-31	Regulatory subunit of the vacuolar transporter chaperone (VTC) complex; involved in membrane trafficking, vacuolar polyphosphate accumulation, microautophagy and non-autophagic vacuolar fusion; VTC3 has a paralog, VTC2, that arose from the whole genome duplication
+S000032833	CDS					YPL019C		16	517018	514511	C		2011-02-03	1996-07-31	
+S000005939	ORF	Verified	YPL018W	CTF19	MCM18	chromosome 16	L000003420	16	517651	518760	W		2011-02-03	1996-07-31	Outer kinetochore protein, needed for accurate chromosome segregation; component of kinetochore sub-complex COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) that functions as platform for kinetochore assembly; required for spindle assembly checkpoint; minimizes potentially deleterious centromere-proximal crossovers by preventing meiotic DNA break formation proximal to centromere; homolog of human centromere constitutive-associated network (CCAN) subunit CENP-P and fission yeast fta2
+S000031967	CDS					YPL018W		16	517651	518760	W		2011-02-03	1996-07-31	
+S000005938	ORF	Verified	YPL017C	IRC15		chromosome 16		16	520233	518734	C		2011-02-03	1996-07-31	Microtubule associated protein; regulates microtubule dynamics; required for accurate meiotic chromosome segregation; null mutant displays large budded cells due to delayed mitotic progression, increased levels of spontaneous Rad52 foci; IRC15 has a paralog, LPD1, that arose from the whole genome duplication
+S000031777	CDS					YPL017C		16	520233	518734	C		2011-02-03	1996-07-31	
+S000005937	ORF	Verified	YPL016W	SWI1	[SWI(+)]|[SWI+]|LPA1|GAM3|ADR6	chromosome 16	L000000052|L000002250	16	521014	524958	W		2011-02-03	1996-07-31|2011-02-03	Subunit of the SWI/SNF chromatin remodeling complex; regulates transcription by remodeling chromatin; required for transcription of many genes, including ADH1, ADH2, GAL1, HO, INO1 and SUC2; self-assembles to form [SWI+] prion and to alter expression pattern; human homolog ARID1A is a candidate tumor suppressor gene in breast cancer
+S000031725	CDS					YPL016W		16	521014	524958	W		2011-02-03	1996-07-31|2011-02-03	
+S000005936	ORF	Verified	YPL015C	HST2	histone deacetylase HST2	chromosome 16	L000003041	16	526883	525810	C		2011-02-03	1996-07-31	Cytoplasmic NAD(+)-dependent protein deacetylase; deacetylation targets are primarily cytoplasmic proteins; member of the silencing information regulator 2 (Sir2) family of NAD(+)-dependent protein deacetylases; modulates nucleolar (rDNA) and telomeric silencing; possesses NAD(+)-dependent histone deacetylase activity in vitro; contains a nuclear export signal (NES); function regulated by its nuclear export
+S000031593	CDS					YPL015C		16	526883	525810	C		2011-02-03	1996-07-31	
+S000005935	ORF	Verified	YPL014W	CIP1		chromosome 16		16	527547	528692	W		2011-02-03	1996-07-31	Cyclin-dependent kinase inhibitor; interacts with and inhibits the Cdc28p/Cln2p, G1/S phase cyclin-dependent kinase complex but not S-phase, or M-phase complexes; overexpression blocks cells in G1 phase and stabilizes the Cdc28p inhibitor Sic1p, while disruption accelerates the G1/S phase transition; phosphorylated during S phase in a Cdc28p-dependent manner; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus
+S000031551	CDS					YPL014W		16	527547	528692	W		2011-02-03	1996-07-31	
+S000005934	ORF	Verified	YPL013C	MRPS16	mitochondrial 37S ribosomal protein MRPS16	chromosome 16		16	529350	528985	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000030647	CDS					YPL013C		16	529350	528985	C		2011-02-03	1996-07-31	
+S000005933	ORF	Verified	YPL012W	RRP12	mRNA-binding protein RRP12	chromosome 16		16	529723	533409	W		2011-02-03	1996-07-31	Protein required for export of the ribosomal subunits; associates with the RNA components of the pre-ribosomes; has a role in nuclear import in association with Pse1p; also plays a role in the cell cycle and the DNA damage response; contains HEAT-repeats
+S000030606	CDS					YPL012W		16	529723	533409	W		2011-02-03	1996-07-31	
+S000005932	ORF	Verified	YPL011C	TAF3	TafII47|TAF47	chromosome 16	L000004154	16	534703	533642	C		2011-02-03	1996-07-31	TFIID subunit (47 kDa); involved in promoter binding and RNA polymerase II transcription initiation
+S000030495	CDS					YPL011C		16	534703	533642	C		2011-02-03	1996-07-31	
+S000005931	ORF	Verified	YPL010W	RET3	coatomer subunit zeta	chromosome 16	L000004128	16	535018	535587	W		2011-02-03	1996-07-31	Zeta subunit of the coatomer complex (COPI); COPI coats Golgi-derived transport vesicles; involved in retrograde transport between Golgi and ER
+S000030459	CDS					YPL010W		16	535018	535587	W		2011-02-03	1996-07-31	
+S000005930	ORF	Verified	YPL009C	RQC2	TAE2	chromosome 16		16	538936	535820	C		2011-02-03	1996-07-31	Component of RQC, which mediates nascent chain degradation; RQC (ribosome quality control complex) is a ribosome-bound complex required for degradation of polypeptides arising from stalled translation; recruits alanine- and threonine-charged tRNA to the A site and directs the elongation of nascent chains independently of mRNA or 40S subunits; monitors translation stress and signals this to Hsf1p
+S000037295	CDS					YPL009C		16	538936	535820	C		2011-02-03	1996-07-31	
+S000005929	ORF	Verified	YPL008W	CHL1	MCM12|LPA9|CTF1	chromosome 16	L000000318	16	539385	541970	W	-6	2011-02-03	1996-07-31	Probable DNA helicase; involved in sister-chromatid cohesion and genome integrity and interstrand cross-link repair; interacts with ECO1 and CTF18; mutants are defective in silencing, rDNA recombination, aging and the heat shock response; FANCJ-like helicase family member; mutations in the human homolog, DDX11/ChLR1, cause Warsaw breakage syndrome
+S000037256	CDS					YPL008W		16	539385	541970	W		2011-02-03	1996-07-31	
+S000005928	ORF	Verified	YPL007C	TFC8	transcription factor TFIIIC subunit TFC8|tau 60	chromosome 16		16	543848	542082	C		2011-02-03	1996-07-31	Subunit of RNA polymerase III transcription initiation factor complex; one of six subunits of RNA polymerase III transcription initiation factor complex (TFIIIC); part of TFIIIC TauB domain that binds BoxB promoter sites of tRNA and other genes; linker between TauB and TauA domains; human homolog is TFIIIC-90
+S000036517	CDS					YPL007C		16	543848	542082	C		2011-02-03	1996-07-31	
+S000005927	ORF	Verified	YPL006W	NCR1	sphingolipid transporter 	chromosome 16	L000003596	16	544631	548143	W		2011-02-03	1996-07-31	Vacuolar membrane protein; transits through the biosynthetic vacuolar protein sorting pathway, involved in sphingolipid metabolism; cells lacking Ncr1p exhibit high levels of long chain bases (LCB), similar to the accumulation of high amounts of lipids observed in patients with Neimann-Pick C, a disease caused by loss-of-function mutations in NPC1, the functional ortholog of Ncr1p
+S000036461	CDS					YPL006W		16	544631	548143	W		2011-02-03	1996-07-31	
+S000005926	ORF	Verified	YPL005W	AEP3		chromosome 16		16	548486	550306	W		2011-02-03	1996-07-31	Peripheral mitochondrial inner membrane protein; may facilitate use of unformylated tRNA-Met in mitochondrial translation initiation; stabilizes the bicistronic AAP1-ATP6 mRNA
+S000036393	CDS					YPL005W		16	548486	550306	W		2011-02-03	1996-07-31	
+S000005925	ORF	Verified	YPL004C	LSP1	lipid-binding protein LSP1	chromosome 16		16	551657	550632	C		2011-02-03	1996-07-31	Eisosome core component; eisosomes are large immobile patch structures at the cell cortex associated with endocytosis; phosphorylated on Thr233 upon Pkc1p hyperactivation in a Slt2p MAPK-dependent fashion; null mutants show activation of Pkc1p/Ypk1p stress resistance pathways; member of the BAR domain family
+S000035436	CDS					YPL004C		16	551657	550632	C		2011-02-03	1996-07-31	
+S000005924	ORF	Verified	YPL003W	ULA1	ENR2	chromosome 16	L000004374	16	552020	553408	W		2011-02-03	1996-07-31	Protein that activates Rub1p (NEDD8) before neddylation; acts together with Uba3p; may play a role in protein degradation
+S000035402	CDS					YPL003W		16	552020	553408	W		2011-02-03	1996-07-31	
+S000005923	ORF	Verified	YPL002C	SNF8	ESCRT-II subunit protein SNF8|VPL14|VPS22	chromosome 16	L000001951	16	554328	553627	C		2011-02-03	1996-07-31	Component of the ESCRT-II complex; ESCRT-II is involved in ubiquitin-dependent sorting of proteins into the endosome; appears to be functionally related to SNF7; involved in glucose derepression
+S000035294	CDS					YPL002C		16	554328	553627	C		2011-02-03	1996-07-31	
+S000005922	ORF	Verified	YPL001W	HAT1	histone acetyltransferase catalytic subunit HAT1|KAT1	chromosome 16	L000003002	16	554605	555729	W		2011-02-03	1996-07-31	Catalytic subunit of the Hat1p-Hat2p histone acetyltransferase complex; uses the cofactor acetyl coenzyme A to acetylate free nuclear and cytoplasmic histone H4; involved in telomeric silencing and DNA double-strand break repair
+S000035246	CDS					YPL001W		16	554605	555729	W		2011-02-03	1996-07-31	
+S000006477	centromere		CEN16	CEN16		chromosome 16	L000000309	16	555957	556073	W	0	2011-02-03	2000-05-19|2006-05-09	Chromosome XVI centromere
+S000077281	centromere_DNA_Element_I					CEN16		16	555957	555966	W		2011-02-03	2004-10-05	
+S000077282	centromere_DNA_Element_II					CEN16		16	555967	556048	W		2011-02-03	2004-10-05	
+S000077283	centromere_DNA_Element_III					CEN16		16	556049	556073	W		2011-02-03	2004-10-05	
+S000006205	ORF	Verified	YPR001W	CIT3	citrate (Si)-synthase CIT3	chromosome 16	L000002855	16	556377	557837	W		2011-02-03	1996-07-31	Dual specificity mitochondrial citrate and methylcitrate synthase; catalyzes the condensation of acetyl-CoA and oxaloacetate to form citrate and that of propionyl-CoA and oxaloacetate to form 2-methylcitrate
+S000030627	CDS					YPR001W		16	556377	557837	W		2011-02-03	1996-07-31	
+S000006206	ORF	Verified	YPR002W	PDH1	putative 2-methylcitrate dehydratase	chromosome 16		16	558385	559935	W		2011-02-03	1996-07-31	Putative 2-methylcitrate dehydratase; mitochondrial protein that participates in respiration; induced by diauxic shift; homologous to E. coli PrpD, may take part in the conversion of 2-methylcitrate to 2-methylisocitrate
+S000030711	CDS					YPR002W		16	558385	559935	W		2011-02-03	1996-07-31	
+S000006570	tRNA_gene		tF(GAA)P1			chromosome 16	L000003733	16	560289	560198	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000035230	intron					tF(GAA)P1		16	560252	560234	C		2011-02-03	2000-05-19	
+S000035229	noncoding_exon					tF(GAA)P1		16	560233	560198	C		2011-02-03	2000-05-19	
+S000035228	noncoding_exon					tF(GAA)P1		16	560289	560253	C		2011-02-03	2000-05-19	
+S000007210	long_terminal_repeat		YPRWdelta12			chromosome 16		16	560481	560812	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007254	ORF	Dubious	YPR002C-A			chromosome 16		16	560766	560569	C		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the Ty1 long terminal repeat, YPRWdelta12
+S000031182	CDS					YPR002C-A		16	560766	560569	C		2011-02-03	1999-07-17	
+S000006207	ORF	Uncharacterized	YPR003C			chromosome 16		16	563768	561504	C		2011-02-03	1996-07-31	Putative sulfate permease; physically interacts with Hsp82p; green fluorescent protein (GFP)-fusion protein localizes to the ER; YPR003C is not an essential gene
+S000031534	CDS					YPR003C		16	563768	561504	C		2011-02-03	1996-07-31	
+S000118418	ARS		ARS1622		ARSXVI-564	chromosome 16		16	563852	563967			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178196	ARS_consensus_sequence					ARS1622		16	563877	563893	W		2014-11-18	2014-11-18	
+S000006208	ORF	Verified	YPR004C	AIM45		chromosome 16		16	565041	564007	C		2011-02-03	1996-07-31	Putative ortholog of mammalian ETF-alpha; interacts with frataxin, Yfh1p; null mutant displays elevated frequency of mitochondrial genome loss; may have a role in oxidative stress response; ETF-alpha is an electron transfer flavoprotein complex subunit
+S000031622	CDS					YPR004C		16	565041	564007	C		2011-02-03	1996-07-31	
+S000119040	ARS		ARS1634		ARSXVI-565|ARS1622.5	chromosome 16		16	565052	565294			2011-02-03	2006-10-04	Autonomously Replicating Sequence
+S000006209	ORF	Verified	YPR005C	HAL1		chromosome 16	L000000750	16	566671	565787	C		2011-02-03	1996-07-31	Cytoplasmic protein involved in halotolerance; decreases intracellular Na+ (via Ena1p) and increases intracellular K+ by decreasing efflux; expression repressed by Ssn6p-Tup1p and Sko1p and induced by NaCl, KCl, and sorbitol through Gcn4p
+S000031706	CDS					YPR005C		16	566671	565787	C		2011-02-03	1996-07-31	
+S000006210	ORF	Verified	YPR006C	ICL2	methylisocitrate lyase ICL2	chromosome 16	L000004095	16	568996	567269	C		2011-02-03	1996-07-31	2-methylisocitrate lyase of the mitochondrial matrix; functions in the methylcitrate cycle to catalyze the conversion of 2-methylisocitrate to succinate and pyruvate; ICL2 transcription is repressed by glucose and induced by ethanol
+S000031857	CDS					YPR006C		16	568996	567269	C		2011-02-03	1996-07-31	
+S000006211	ORF	Verified	YPR007C	REC8	SPO69	chromosome 16	L000004667	16	571378	569336	C		2011-02-03	1996-07-31	Meiosis-specific component of the sister chromatid cohesion complex; alpha-kleisin family member that maintains cohesion between sister chromatids during meiosis I; maintains cohesion between centromeres of sister chromatids until meiosis II; independent of its role in sister chromatid cohesion, Rec8p promotes allelic collisions and prevents nonspecific chromosome interactions; homolog of S. pombe Rec8p
+S000032749	CDS					YPR007C		16	571378	569336	C		2011-02-03	1996-07-31	
+S000007200	long_terminal_repeat		YPRCdelta13			chromosome 16		16	572173	571845	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006588	tRNA_gene		tG(GCC)P1			chromosome 16	L000003721	16	572269	572339	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000031679	noncoding_exon					tG(GCC)P1		16	572269	572339	W		2011-02-03	2000-05-19	
+S000006212	ORF	Verified	YPR008W	HAA1		chromosome 16		16	573018	575102	W		2011-02-03	1996-07-31	Transcriptional activator involved in adaptation to weak acid stress; activates transcription of TPO2, YRO2, and other genes encoding membrane stress proteins; HAA1 has a paralog, CUP2, that arose from the whole genome duplication; relocalizes from cytoplasm to nucleus upon DNA replication stress
+S000032911	CDS					YPR008W		16	573018	575102	W		2011-02-03	1996-07-31	
+S000006213	ORF	Verified	YPR009W	SUT2		chromosome 16		16	576552	577358	W		2011-02-03	1996-07-31	Zn2Cys6 family transcription factor; positively regulates sterol uptake under anaerobic conditions with SUT1; represses filamentation-inducing genes during non-starvation conditions; positively regulates mating along with SUT1 by repressing the expression of genes (PRR2, NCE102 and RHO5) which function as mating inhibitors; multicopy suppressor of mutations that cause low activity of the cAMP/PKA pathway; SUT2 has a paralog, SUT1, that arose from the whole genome duplication
+S000033007	CDS					YPR009W		16	576552	577358	W		2011-02-03	1996-07-31	
+S000006214	ORF	Verified	YPR010C	RPA135	DNA-directed RNA polymerase I core subunit RPA135|A135|SRP3|RRN2|RPA2	chromosome 16	L000001674	16	581196	577585	C		2011-02-03	1996-07-31	RNA polymerase I second largest subunit A135
+S000033628	CDS					YPR010C		16	581196	577585	C		2011-02-03	1996-07-31	
+S000006628	tRNA_gene		tK(CUU)P			chromosome 16	L000003722	16	582062	582134	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000036081	noncoding_exon					tK(CUU)P		16	582062	582134	W		2011-02-03	2000-05-19	
+S000122558	ORF	Uncharacterized	YPR010C-A			chromosome 16		16	582734	582373	C		2011-02-03	2007-05-09	Putative protein of unknown function; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cytosol; conserved among Saccharomyces sensu stricto species
+S000122561	CDS					YPR010C-A		16	582558	582373	C		2011-02-03	2007-05-09	
+S000122559	CDS					YPR010C-A		16	582734	582702	C		2011-02-03	2007-05-09	
+S000122560	intron					YPR010C-A		16	582701	582559	C		2011-02-03	2007-05-09	
+S000006215	ORF	Verified	YPR011C			chromosome 16		16	584042	583062	C		2011-02-03	1996-07-31	Mitochondrial transporter; major substrates are adenosine 5'-phosphosulfate (APS) and 3'-phospho-adenosine 5'-phosphosulfate (PAPS); member of the mitochondrial carrier family; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000033732	CDS					YPR011C		16	584042	583062	C		2011-02-03	1996-07-31	
+S000006216	ORF	Dubious	YPR012W			chromosome 16		16	584309	584563	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YPR012W is not an essential gene
+S000034684	CDS					YPR012W		16	584309	584563	W		2011-02-03	1996-07-31	
+S000006217	ORF	Uncharacterized	YPR013C	CMR3		chromosome 16		16	585585	584632	C		2011-02-03	1996-07-31	Putative zinc finger protein; YPR013C is not an essential gene
+S000034773	CDS					YPR013C		16	585585	584632	C		2011-02-03	1996-07-31	
+S000006218	ORF	Dubious	YPR014C			chromosome 16		16	587518	587189	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YPR014C is not an essential gene
+S000034892	CDS					YPR014C		16	587518	587189	C		2011-02-03	1996-07-31	
+S000006219	ORF	Uncharacterized	YPR015C			chromosome 16		16	591026	590283	C		2011-02-03	1996-07-31	Putative zinc finger transcription factor; binds DNA in sequence-specific manner; overexpression causes a cell cycle delay or arrest
+S000035843	CDS					YPR015C		16	591026	590283	C		2011-02-03	1996-07-31	
+S000006220	ORF	Verified	YPR016C	TIF6	translation initiation factor 6|CDC95	chromosome 16	L000004376	16	593069	592332	C		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; has similarity to human translation initiation factor 6 (eIF6); may be involved in the biogenesis and or stability of 60S ribosomal subunits
+S000035939	CDS					YPR016C		16	593069	592332	C		2011-02-03	1996-07-31	
+S000007630	ORF	Dubious	YPR016W-A			chromosome 16		16	593096	593356	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037261	CDS					YPR016W-A		16	593096	593356	W		2011-02-03	2001-02-26	
+S000006221	ORF	Verified	YPR017C	DSS4	guanine nucleotide exchange factor DSS4	chromosome 16	L000000529	16	593917	593486	C		2011-02-03	1996-07-31	Guanine nucleotide dissociation stimulator for Sec4p; functions in the post-Golgi secretory pathway; binds zinc, found both on membranes and in the cytosol
+S000036108	CDS					YPR017C		16	593917	593486	C		2011-02-03	1996-07-31	
+S000006222	ORF	Verified	YPR018W	RLF2	CAC1	chromosome 16	L000003990	16	594476	596296	W		2011-02-03	1996-07-31	Largest subunit (p90) of the Chromatin Assembly Complex (CAF-1); chromatin assembly by CAF-1 is important for multiple processes including silencing at telomeres, mating type loci, and rDNA; maintenance of kinetochore structure; deactivation of the DNA damage checkpoint after DNA repair; chromatin dynamics during transcription; and repression of divergent noncoding transcription
+S000036938	CDS					YPR018W		16	594476	596296	W		2011-02-03	1996-07-31	
+S000006223	ORF	Verified	YPR019W	MCM4	MCM DNA helicase complex subunit MCM4|CDC54|HCD21	chromosome 16	L000002761	16	596750	599551	W		2011-02-03	1996-07-31	Essential helicase component of heterohexameric MCM2-7 complexes; MCM2-7 complexes bind pre-replication complexes on DNA and melt DNA prior to replication; forms an Mcm4p-6p-7p subcomplex; shows nuclear accumulation in G1; homolog of S. pombe Cdc21p
+S000036996	CDS					YPR019W		16	596750	599551	W		2011-02-03	1996-07-31	
+S000006224	ORF	Verified	YPR020W	ATP20	F1F0 ATP synthase subunit g	chromosome 16	L000004738	16	599870	600217	W		2011-02-03	1996-07-31	Subunit g of the mitochondrial F1F0 ATP synthase; reversibly phosphorylated on two residues; unphosphorylated form is required for dimerization of the ATP synthase complex, which in turn determines oligomerization of the complex and the shape of inner membrane cristae
+S000037811	CDS					YPR020W		16	599870	600217	W		2011-02-03	1996-07-31	
+S000006225	ORF	Verified	YPR021C	AGC1	amino acid transporter AGC1	chromosome 16		16	603357	600649	C		2011-02-03	1996-07-31	Mitochondrial amino acid transporter; acts both as a glutamate uniporter and as an aspartate-glutamate exchanger; involved in nitrogen metabolism and nitrogen compound biosynthesis; human homolog SLC25A13 complements yeast null mutant
+S000037867	CDS					YPR021C		16	603357	600649	C		2011-02-03	1996-07-31	
+S000006226	ORF	Verified	YPR022C	SDD4		chromosome 16		16	607312	603911	C		2011-02-03	1996-07-31	Putative transcription factor, as suggested by computational analysis; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus and is induced in response to the DNA-damaging agent MMS; overproduction of a truncation allele suppresses lethality due to expression of the dominant PET9 allele AAC2-A128P
+S000030796	CDS					YPR022C		16	607312	603911	C		2011-02-03	1996-07-31	
+S000006227	ORF	Verified	YPR023C	EAF3		chromosome 16		16	610031	608826	C		2011-02-03	1996-07-31	Component of the Rpd3S histone deacetylase complex; Esa1p-associated factor, nonessential component of the NuA4 acetyltransferase complex, homologous to Drosophila dosage compensation protein MSL3; plays a role in regulating Ty1 transposition
+S000030882	CDS					YPR023C		16	610031	608826	C		2011-02-03	1996-07-31	
+S000006228	ORF	Verified	YPR024W	YME1	i-AAA protease YME1|YTA11|OSD1	chromosome 16	L000002522	16	610481	612724	W		2011-02-03	1996-07-31	Catalytic subunit of i-AAA protease complex; complex is located in mitochondrial inner membrane; responsible for degradation of unfolded or misfolded mitochondrial gene products; serves as nonconventional translocation motor to pull PNPase into intermembrane space; also has role in intermembrane space protein folding; mutation causes elevated rate of mitochondrial turnover; human homolog YME1L1 can complement yeast null mutant
+S000030985	CDS					YPR024W		16	610481	612724	W		2011-02-03	1996-07-31	
+S000006229	ORF	Verified	YPR025C	CCL1	TFIIH complex kinase subunit CCL1	chromosome 16	L000000237	16	614558	613377	C		2011-02-03	1996-07-31	Cyclin associated with protein kinase Kin28p; Kin28p is the TFIIH-associated carboxy-terminal domain (CTD) kinase involved in transcription initiation at RNA polymerase II promoters; human homolog CCNH allows growth of yeast ccl1 temperature-sensitive mutant at restrictive temperature
+S000031028	CDS					YPR025C		16	614558	613377	C		2011-02-03	1996-07-31	
+S000006230	ORF	Verified	YPR026W	ATH1	alpha,alpha-trehalase ATH1	chromosome 16	L000003059	16	615379	619014	W		2011-02-03	1996-07-31	Acid trehalase required for utilization of extracellular trehalose; involved in intracellular trehalose degradation during growth recovery after saline stress
+S000032041	CDS					YPR026W		16	615379	619014	W		2011-02-03	1996-07-31	
+S000006231	ORF	Uncharacterized	YPR027C			chromosome 16		16	621258	620425	C		2011-02-03	1996-07-31	Putative protein of unknown function; SWAT-GFP and seamless-GFP fusion proteins localize to the endoplasmic reticulum, while the mCherry fusion protein localizes to the vacuole
+S000032081	CDS					YPR027C		16	621258	620425	C		2011-02-03	1996-07-31	
+S000006571	tRNA_gene		tF(GAA)P2			chromosome 16	L000003732	16	622631	622540	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000035233	intron					tF(GAA)P2		16	622594	622576	C		2011-02-03	2000-05-19	
+S000035232	noncoding_exon					tF(GAA)P2		16	622575	622540	C		2011-02-03	2000-05-19	
+S000035231	noncoding_exon					tF(GAA)P2		16	622631	622595	C		2011-02-03	2000-05-19	
+S000006232	ORF	Verified	YPR028W	YOP1	YIP2	chromosome 16	L000004674	16	623527	624202	W		2011-02-03	1996-07-31	Reticulon-interacting protein; ER integral membrane protein involved in the generation of tubular ER morphology; promotes membrane curvature; forms tubules in vitro; regulates the ER asymmetry-induced inheritance block during ER stress; role in ER-derived peroxisomal biogenesis; interacts with Yip1p to mediate membrane traffic and with Sey1p to maintain ER morphology; facilitates lipid exchange between the ER and mitochondria; forms ER foci upon DNA replication stress
+S000032203	CDS					YPR028W		16	623527	623577	W		2011-02-03	1996-07-31	
+S000032204	CDS					YPR028W		16	623711	624202	W		2011-02-03	1996-07-31	
+S000032205	intron					YPR028W		16	623578	623710	W		2011-02-03	1996-07-31	
+S000006233	ORF	Verified	YPR029C	APL4		chromosome 16	L000004054	16	626967	624469	C		2011-02-03	1996-07-31	Gamma-adaptin; large subunit of the clathrin-associated protein (AP-1) complex; binds clathrin; involved in vesicle mediated transport
+S000032228	CDS					YPR029C		16	626967	624469	C		2011-02-03	1996-07-31	
+S000006234	ORF	Verified	YPR030W	CSR2	ART8|MRG19	chromosome 16	S000007450	16	627880	631245	W		2011-02-03	1996-07-31	Nuclear ubiquitin protein ligase binding protein; may regulate utilization of nonfermentable carbon sources and endocytosis of plasma membrane proteins; overproduction suppresses chs5 spa2 lethality at high temp; ubiquitinated by Rsp5p, deubiquitinated by Ubp2p; CSR2 has a paralog, ECM21, that arose from the whole genome duplication
+S000034095	CDS					YPR030W		16	627880	631245	W		2011-02-03	1996-07-31	
+S000006235	ORF	Verified	YPR031W	NTO1		chromosome 16		16	631515	633761	W		2011-02-03	1996-07-31	Subunit of the NuA3 histone acetyltransferase complex; this complex acetylates histone H3; contains PHD finger domain that interacts with methylated histone H3
+S000034190	CDS					YPR031W		16	631515	633761	W		2011-02-03	1996-07-31	
+S000118419	ARS		ARS1623		ARSXVI-634	chromosome 16		16	633874	634122			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178197	ARS_consensus_sequence					ARS1623		16	633921	633937	W		2014-11-18	2014-11-18	
+S000006236	ORF	Verified	YPR032W	SRO7	Rab GTPase-binding protein SRO7|SOP1|SNI1	chromosome 16	L000003105|L000004193	16	634123	637224	W		2011-02-03	1996-07-31	Effector of Rab GTPase Sec4p; forms a complex with Sec4p and t-SNARE Sec9p; involved in exocytosis and docking and fusion of post-Golgi vesicles with plasma membrane; regulates cell proliferation and colony development via the Rho1-Tor1 pathway; homolog of Drosophila lgl tumor suppressor; SRO7 has a paralog, SRO77, that arose from the whole genome duplication
+S000035166	CDS					YPR032W		16	634123	637224	W		2011-02-03	1996-07-31	
+S000006237	ORF	Verified	YPR033C	HTS1	TS4572|histidine--tRNA ligase|TSM4572	chromosome 16	L000000832|S000029607|L000002364	16	639019	637379	C	26	2011-02-03	1996-07-31	Cytoplasmic and mitochondrial histidine tRNA synthetase; efficient mitochondrial localization requires both a presequence and an amino-terminal sequence; mutations in human ortholog HARS2 are associated with Perrault syndrome
+S000035204	CDS					YPR033C		16	639019	637379	C		2011-02-03	1996-07-31	
+S000006238	ORF	Verified	YPR034W	ARP7	RSC11|SWP61	chromosome 16	L000003436	16	639525	640958	W		2011-02-03	1996-07-31	Component of both the SWI/SNF and RSC chromatin remodeling complexes; actin-related protein involved in transcriptional regulation
+S000035348	CDS					YPR034W		16	639525	640958	W		2011-02-03	1996-07-31	
+S000006239	ORF	Verified	YPR035W	GLN1	glutamate--ammonia ligase	chromosome 16	L000000709	16	642208	643320	W	29	2011-02-03	1996-07-31|2011-02-03	Glutamine synthetase (GS); synthesizes glutamine from glutamate and ammonia; with Glt1p, forms the secondary pathway for glutamate biosynthesis from ammonia; expression regulated by nitrogen source and by amino acid limitation; forms filaments of back-to-back stacks of cylindrical homo-decamers at low pH, leading to enzymatic inactivation and storage during states of advanced cellular starvation; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
+S000035425	CDS					YPR035W		16	642208	643320	W		2011-02-03	1996-07-31|2011-02-03	
+S000006240	ORF	Verified	YPR036W	VMA13	H(+)-transporting V1 sector ATPase subunit H|CLS11	chromosome 16	L000002465	16	643836	645272	W		2011-02-03	1996-07-31	Subunit H of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; serves as an activator or a structural stabilizer of the V-ATPase; the V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase) has eight subunits
+S000036312	CDS					YPR036W		16	643836	645272	W		2011-02-03	1996-07-31	
+S000028425	ORF	Verified	YPR036W-A	SPO24		chromosome 16		16	645950	646153	W		2011-02-03	2002-07-25	Small (67 amino acids) protein involved in sporulation; localizes to the prospore membrane; phosphorylated during meiosis; a longer, 5'-extended mRNA is also transcribed beginning in mid-meiosis, regulated by two MSEs (middle sporulation elements), and includes an uORF of 15 codons in its 5'-UTR; evidence transcription is regulated by Pdr1p
+S000029999	CDS					YPR036W-A		16	645950	646153	W		2011-02-03	2002-07-25	
+S000006242	ORF	Dubious	YPR038W	IRC16		chromosome 16		16	646836	647195	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene YPR037C; null mutant displays increased levels of spontaneous Rad52p foci
+S000036501	CDS					YPR038W		16	646836	647195	W		2011-02-03	1996-07-31	
+S000006243	ORF	Dubious	YPR039W			chromosome 16		16	647012	647347	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified non essential genes ERV2/YPR037C and TIP41/YPR040W
+S000036592	CDS					YPR039W		16	647012	647347	W		2011-02-03	1996-07-31	
+S000006241	ORF	Verified	YPR037C	ERV2	flavin-linked sulfhydryl oxidase	chromosome 16		16	647038	646448	C		2011-02-03	1996-07-31	Flavin-linked sulfhydryl oxidase localized to the ER lumen; involved in disulfide bond formation within the endoplasmic reticulum (ER)
+S000036350	CDS					YPR037C		16	647038	646448	C		2011-02-03	1996-07-31	
+S000006244	ORF	Verified	YPR040W	TIP41		chromosome 16		16	647305	648375	W		2011-02-03	1996-07-31	Protein that interacts with Tap42p, which regulates PP2A; component of the TOR (target of rapamycin) signaling pathway; protein abundance increases in response to DNA replication stress
+S000037582	CDS					YPR040W		16	647305	648375	W		2011-02-03	1996-07-31	
+S000006245	ORF	Verified	YPR041W	TIF5	translation initiation factor eIF5|SUI5	chromosome 16	L000002305	16	648704	649921	W		2011-02-03	1996-07-31	Translation initiation factor eIF5; functions both as a GTPase-activating protein to mediate hydrolysis of ribosome-bound GTP and as a GDP dissociation inhibitor to prevent recycling of eIF2
+S000037662	CDS					YPR041W		16	648704	649921	W		2011-02-03	1996-07-31	
+S000006246	ORF	Verified	YPR042C	PUF2		chromosome 16		16	653662	650435	C		2011-02-03	1996-07-31	PUF family mRNA-binding protein; Pumilio homology domain confers RNA binding activity; preferentially binds mRNAs encoding membrane-associated proteins; binding site composed of two UAAU tetranucleotides, separated by a 3-nt linker; PUF2 has a paralog, JSN1, that arose from the whole genome duplication
+S000037689	CDS					YPR042C		16	653662	650435	C		2011-02-03	1996-07-31	
+S000006247	ORF	Verified	YPR043W	RPL43A	eL43|ribosomal 60S subunit protein L43A|L43e|L43A	chromosome 16	L000004469	16	654166	654847	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L43A; null mutation confers a dominant lethal phenotype; homologous to mammalian ribosomal protein L37A, no bacterial homolog; RPL43A has a paralog, RPL43B, that arose from the whole genome duplication
+S000030558	CDS					YPR043W		16	654166	654167	W		2011-02-03	1996-07-31	
+S000030559	CDS					YPR043W		16	654571	654847	W		2011-02-03	1996-07-31	
+S000030560	intron					YPR043W		16	654168	654570	W		2011-02-03	1996-07-31	
+S000006248	ORF	Dubious	YPR044C	OPI11		chromosome 16		16	654877	654524	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; largely overlaps verified gene RPL43A/YPR043W; deletion confers sensitivity to GSAO
+S000030601	CDS					YPR044C		16	654877	654524	C		2011-02-03	1996-07-31	
+S000006249	ORF	Verified	YPR045C	THP3	MNI2	chromosome 16		16	656552	655140	C		2011-02-03	1996-07-31	Protein that may have a role in transcription elongation; forms a complex with Csn12p that is recruited to transcribed genes; possibly involved in splicing based on pre-mRNA accumulation defect for many intron-containing genes
+S000030682	CDS					YPR045C		16	656552	655140	C		2011-02-03	1996-07-31	
+S000006250	ORF	Verified	YPR046W	MCM16		chromosome 16	L000003997	16	656799	657344	W		2011-02-03	1996-07-31	Component of the Ctf19 complex and the COMA subcomplex; involved in kinetochore-microtubule mediated chromosome segregation; binds to centromere DNA; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-H and fission yeast fta3
+S000031562	CDS					YPR046W		16	656799	657344	W		2011-02-03	1996-07-31	
+S000006251	ORF	Verified	YPR047W	MSF1	phenylalanine--tRNA ligase	chromosome 16	L000001187	16	657529	658938	W		2011-02-03	2003-09-22|1996-07-31	Mitochondrial phenylalanyl-tRNA synthetase; active as a monomer, unlike the cytoplasmic subunit which is active as a dimer complexed to a beta subunit dimer; similar to the alpha subunit of E. coli phenylalanyl-tRNA synthetase
+S000031671	CDS					YPR047W		16	657529	658938	W		2011-02-03	2003-09-22|1996-07-31	
+S000006252	ORF	Verified	YPR048W	TAH18	NAPDH-dependent diflavin reductase	chromosome 16	L000004734	16	659182	661053	W		2011-02-03	1996-07-31	Conserved NAPDH-dependent diflavin reductase; component of an early step in the cytosolic Fe-S protein assembly (CIA) machinery; transfers electrons from NADPH to the Fe-S cluster of Dre2p; plays a pro-death role under oxidative stress; Tah18p-dependent nitric oxide synthesis confers high-temperature stress tolerance; possible target for development of antifungal drugs
+S000031770	CDS					YPR048W		16	659182	661053	W		2011-02-03	1996-07-31	
+S000006253	ORF	Verified	YPR049C	ATG11	autophagy protein ATG11|CVT3|CVT9	chromosome 16	L000004760|L000004756|S000029130	16	664673	661137	C		2011-02-03	1996-07-31	Adapter protein for pexophagy and the Cvt targeting pathway; directs receptor-bound cargo to the phagophore assembly site (PAS) for packaging into vesicles; required for recruiting other proteins to the PAS; recruits Dnm1p to facilitate fission of mitochondria that are destined for removal by mitophagy
+S000031821	CDS					YPR049C		16	664673	661137	C		2011-02-03	1996-07-31	
+S000006255	ORF	Verified	YPR051W	MAK3	peptide alpha-N-acetyltransferase MAK3|NAA30	chromosome 16	L000000977	16	664960	665490	W	34	2011-02-03	1996-07-31	Catalytic subunit of the NatC type N-terminal acetyltransferase (NAT); involved in subcellular targeting of select N-terminally acetylated substrates to the Golgi apparatus (Arl3p and Grh1p) and the inner nuclear membrane (Trm1p); required for replication of dsRNA virus; human NatC ortholog, Naa60, functionally complements the null, requiring either auxiliary subunit Mak10p or co-expression of human ortholog, Naa35; Naa60, the human NatF gene, also complements the null allele
+S000034802	CDS					YPR051W		16	664960	665490	W		2011-02-03	1996-07-31	
+S000006254	ORF	Dubious	YPR050C			chromosome 16		16	665366	664953	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps verified ORF MAK3/YPR051W
+S000033860	CDS					YPR050C		16	665366	664953	C		2011-02-03	1996-07-31	
+S000006256	ORF	Verified	YPR052C	NHP6A	high-mobility group nucleosome-binding protein	chromosome 16	L000001244|L000001245	16	665974	665693	C		2011-02-03	1996-07-31	High-mobility group (HMG) protein; binds to and remodels nucleosomes; involved in recruiting FACT and other chromatin remodelling complexes to chromosomes; functionally redundant with Nhp6Bp; required for transcriptional initiation fidelity of some tRNA genes; homologous to mammalian HMGB1 and HMGB2; NHP6A has a paralog, NHP6B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000034851	CDS					YPR052C		16	665974	665693	C		2011-02-03	1996-07-31	
+S000006257	ORF	Uncharacterized	YPR053C			chromosome 16		16	666243	665788	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YPR053C is not an essential gene; partially overlaps verified ORF NHP6A/YPR052C
+S000034981	CDS					YPR053C		16	666243	665788	C		2011-02-03	1996-07-31	
+S000006258	ORF	Verified	YPR054W	SMK1	mitogen-activated protein kinase SMK1	chromosome 16	L000001933	16	666280	667446	W		2011-02-03	1996-07-31	Middle sporulation-specific mitogen-activated protein kinase (MAPK); required for production of the outer spore wall layers; negatively regulates activity of the glucan synthase subunit Gsc2p
+S000035191	CDS					YPR054W		16	666280	667446	W		2011-02-03	1996-07-31	
+S000006259	ORF	Verified	YPR055W	SEC8	exocyst subunit SEC8	chromosome 16	L000001834	16	667676	670873	W		2011-02-03	1996-07-31	Essential 121 kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion; involved in ER and Golgi inheritance in small buds; relocalizes away from bud neck upon DNA replication stress
+S000036048	CDS					YPR055W		16	667676	670873	W		2011-02-03	1996-07-31	
+S000006260	ORF	Verified	YPR056W	TFB4	TFIIH/NER complex subunit TFB4	chromosome 16	L000004156	16	671126	672142	W		2011-02-03	1996-07-31	Subunit of TFIIH complex; involved in transcription initiation, similar to 34 kDa subunit of human TFIIH; interacts with Ssl1p
+S000036167	CDS					YPR056W		16	671126	672142	W		2011-02-03	1996-07-31	
+S000006261	ORF	Verified	YPR057W	BRR1		chromosome 16	L000004059	16	672471	673496	W		2011-02-03	1996-07-31	snRNP protein component of spliceosomal snRNPs; required for pre-mRNA splicing and snRNP biogenesis; in null mutant newly-synthesized snRNAs are destabilized and 3'-end processing is slowed
+S000036258	CDS					YPR057W		16	672471	673496	W		2011-02-03	1996-07-31	
+S000006262	ORF	Verified	YPR058W	YMC1	organic acid transporter	chromosome 16	L000002520	16	673751	674674	W	39.7	2011-02-03	1996-07-31	Secondary mitochondrial inner membrane glycine transporter; required with HEM25 for the transport of glycine into mitochondria for the initiation of heme biosynthesis; proposed role in oleate metabolism and glutamate biosynthesis; member of the mitochondrial carrier (MCF) family; localizes to the vacuole in response to H2O2; YMC1 has a paralog, YMC2, that arose from the whole genome duplication
+S000036364	CDS					YPR058W		16	673751	674674	W		2011-02-03	1996-07-31	
+S000006263	ORF	Dubious	YPR059C			chromosome 16		16	674700	674314	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YMC1/YPR058W
+S000036983	CDS					YPR059C		16	674700	674314	C		2011-02-03	1996-07-31	
+S000006264	ORF	Verified	YPR060C	ARO7	chorismate mutase ARO7|TYR7|OSM2|HGS1	chromosome 16	L000000120	16	675631	674861	C	39.4	2011-02-03	1996-07-31	Chorismate mutase; catalyzes the conversion of chorismate to prephenate to initiate the tyrosine/phenylalanine-specific branch of aromatic amino acid biosynthesis
+S000037791	CDS					YPR060C		16	675631	674861	C		2011-02-03	1996-07-31	
+S000006265	ORF	Verified	YPR061C	JID1		chromosome 16		16	676882	675977	C		2011-02-03	1996-07-31	Probable Hsp40p co-chaperone; has a DnaJ-like domain and appears to be involved in ER-associated degradation of misfolded proteins containing a tightly folded cytoplasmic domain; inhibits replication of Brome mosaic virus in S. cerevisiae
+S000037866	CDS					YPR061C		16	676882	675977	C		2011-02-03	1996-07-31	
+S000006266	ORF	Verified	YPR062W	FCY1	cytosine deaminase|yCD	chromosome 16	L000003485	16	677165	677641	W		2011-02-03	1996-07-31	Cytosine deaminase; zinc metalloenzyme that catalyzes the hydrolytic deamination of cytosine to uracil; of biomedical interest because it also catalyzes the deamination of 5-fluorocytosine (5FC) to form anticancer drug 5-fluorouracil (5FU)
+S000029927	CDS					YPR062W		16	677165	677641	W		2011-02-03	1996-07-31	
+S000006267	ORF	Uncharacterized	YPR063C			chromosome 16		16	678320	677812	C		2011-02-03	1996-07-31	ER-localized protein of unknown function
+S000029984	CDS					YPR063C		16	678193	677812	C		2011-02-03	1996-07-31	
+S000029983	CDS					YPR063C		16	678320	678280	C		2011-02-03	1996-07-31	
+S000029985	intron					YPR063C		16	678279	678194	C		2011-02-03	1996-07-31	
+S000006268	ORF	Uncharacterized	YPR064W			chromosome 16		16	678951	679370	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YPR064W is not an essential gene
+S000031009	CDS					YPR064W		16	678951	679370	W		2011-02-03	1996-07-31	
+S000006269	ORF	Verified	YPR065W	ROX1	REO1	chromosome 16	L000001661	16	679693	680799	W		2011-02-03	1996-07-31	Heme-dependent repressor of hypoxic genes; mediates aerobic transcriptional repression of hypoxia induced genes such as COX5b and CYC7; repressor function regulated through decreased promoter occupancy in response to oxidative stress; contains an HMG domain that is responsible for DNA bending activity; involved in the hyperosmotic stress resistance
+S000031123	CDS					YPR065W		16	679693	680799	W		2011-02-03	1996-07-31	
+S000006270	ORF	Verified	YPR066W	UBA3	NEDD8-activating protein UBA3	chromosome 16	L000004373	16	681213	682112	W		2011-02-03	1996-07-31	Protein that activates Rub1p (NEDD8) before neddylation; acts together with Ula1p; may play a role in protein degradation; GFP-fusion protein localizes to the cytoplasm in a punctate pattern 
+S000031188	CDS					YPR066W		16	681213	682112	W		2011-02-03	1996-07-31	
+S000006271	ORF	Verified	YPR067W	ISA2		chromosome 16	L000004955	16	682220	682777	W		2011-02-03	1996-07-31	Protein required for maturation of mitochondrial [4Fe-4S] proteins; functions in a complex with Isa1p and possibly Iba57p; localizes to the mitochondrial intermembrane space, overexpression of ISA2 suppresses grx5 mutations
+S000032172	CDS					YPR067W		16	682220	682777	W		2011-02-03	1996-07-31	
+S000006272	ORF	Verified	YPR068C	HOS1	histone deacetylase|CST3	chromosome 16	L000004091|S000029124|L000002993	16	684353	682941	C		2011-02-03	1996-07-31	Class I histone deacetylase (HDAC) family member; deacetylates Smc3p on lysine residues at anaphase onset; has sequence similarity to Hda1p, Rpd3p, Hos2p, and Hos3p; interacts with the Tup1p-Ssn6p corepressor complex
+S000032210	CDS					YPR068C		16	684353	682941	C		2011-02-03	1996-07-31	
+S000118420	ARS		ARS1624		ARSXVI-684	chromosome 16		16	684389	684637			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178198	ARS_consensus_sequence					ARS1624		16	684405	684421	W		2014-11-18	2014-11-18	
+S000006273	ORF	Verified	YPR069C	SPE3	spermidine synthase	chromosome 16	L000003328	16	685437	684556	C		2011-02-03	1996-07-31	Spermidine synthase; involved in biosynthesis of spermidine and also in biosynthesis of pantothenic acid; spermidine is required for growth of wild-type cells
+S000032285	CDS					YPR069C		16	685437	684556	C		2011-02-03	1996-07-31	
+S000006274	ORF	Verified	YPR070W	MED1		chromosome 16		16	685898	687598	W		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
+S000032028	CDS					YPR070W		16	685898	687598	W		2011-02-03	1996-07-31	
+S000006275	ORF	Uncharacterized	YPR071W			chromosome 16		16	688172	688807	W		2011-02-03	1996-07-31	Putative membrane protein; YPR071W is not an essential gene; YPR071W has a paralog, YIL029C, that arose from a single-locus duplication
+S000032138	CDS					YPR071W		16	688172	688807	W		2011-02-03	1996-07-31	
+S000006736	tRNA_gene		tS(UGA)P	SUP16	SUQ5	chromosome 16	L000003723|S000029556|L000002242|L000002190	16	689565	689646	W	48	2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000034846	noncoding_exon					tS(UGA)P		16	689565	689646	W		2011-02-03	2000-05-19	
+S000006276	ORF	Verified	YPR072W	NOT5	CCR4-NOT core subunit NOT5	chromosome 16	L000004651	16	690107	691789	W		2011-02-03	1996-07-31	Component of the CCR4-NOT core complex, involved in mRNA decapping; involved intranscription initiation and elongation and in mRNA degradation; conserved lysine in human homolog of Not5p and Not3p is mutated in cancers
+S000034137	CDS					YPR072W		16	690107	691789	W		2011-02-03	1996-07-31	
+S000006277	ORF	Verified	YPR073C	LTP1	tyrosine protein phosphatase LTP1	chromosome 16	L000000957	16	692418	691933	C		2011-02-03	1996-07-31	Protein phosphotyrosine phosphatase of unknown cellular role; activated by adenine
+S000034196	CDS					YPR073C		16	692418	691933	C		2011-02-03	1996-07-31	
+S000006278	ORF	Verified	YPR074C	TKL1	transketolase TKL1	chromosome 16	L000002313	16	694838	692796	C		2011-02-03	1996-07-31	Transketolase; catalyzes conversion of xylulose-5-phosphate and ribose-5-phosphate to sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate in the pentose phosphate pathway; needed for synthesis of aromatic amino acids; TKL1 has a paralog, TKL2, that arose from the whole genome duplication
+S000034281	CDS					YPR074C		16	694838	692796	C		2011-02-03	1996-07-31	
+S000007631	ORF	Dubious	YPR074W-A			chromosome 16		16	695018	695188	W		2011-02-03	2001-02-26	Hypothetical protein identified by homology
+S000037262	CDS					YPR074W-A		16	695018	695188	W		2011-02-03	2001-02-26	
+S000118421	ARS		ARS1625		ARSXVI-696	chromosome 16		16	695461	695574			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178199	ARS_consensus_sequence					ARS1625		16	695465	695481	W		2014-11-18	2014-11-18	
+S000006280	ORF	Dubious	YPR076W			chromosome 16		16	696476	696850	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035349	CDS					YPR076W		16	696476	696850	W		2011-02-03	1996-07-31	
+S000006279	ORF	Verified	YPR075C	OPY2		chromosome 16	L000004017	16	696819	695737	C		2011-02-03	1996-07-31	Integral membrane protein that acts as a membrane anchor for Ste50p; involved in the signaling branch of the high-osmolarity glycerol (HOG) pathway and as a regulator of the filamentous growth pathway; overproduction blocks cell cycle arrest in the presence of mating pheromone; relocalizes from vacuole to plasma membrane upon DNA replication stress
+S000034338	CDS					YPR075C		16	696819	695737	C		2011-02-03	1996-07-31	
+S000006281	ORF	Dubious	YPR077C			chromosome 16		16	697502	697131	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; expression increased by deletion of NAP1
+S000035364	CDS					YPR077C		16	697502	697131	C		2011-02-03	1996-07-31	
+S000006282	ORF	Uncharacterized	YPR078C			chromosome 16		16	698265	697147	C		2011-02-03	1996-07-31	Putative protein of unknown function; possible role in DNA metabolism and/or in genome stability; expression is heat-inducible
+S000035444	CDS					YPR078C		16	698265	697147	C		2011-02-03	1996-07-31	
+S000006283	ORF	Verified	YPR079W	MRL1		chromosome 16		16	698869	700014	W		2011-02-03	1996-07-31	Membrane protein; has similarity to mammalian mannose-6-phosphate receptors; possibly functions as a sorting receptor in the delivery of vacuolar hydrolases; protein abundance increases in response to DNA replication stress
+S000035534	CDS					YPR079W		16	698869	700014	W		2011-02-03	1996-07-31	
+S000006284	ORF	Verified	YPR080W	TEF1	translation elongation factor EF-1 alpha|eEF1A|EF-1 alpha	chromosome 16	L000002277	16	700594	701970	W	46	2011-02-03	1996-07-31	Translational elongation factor EF-1 alpha; in the GTP-bound active form, binds to and delivers aminoacylated tRNA to the A-site of ribosomes for elongation of nascent polypeptides; associates with vacuolar Rho1p GTPase; may also have a role in tRNA re-export from the nucleus; TEF1 has a paralog, TEF2, that arose from the whole genome duplication
+S000035186	CDS					YPR080W		16	700594	701970	W		2011-02-03	1996-07-31	
+S000006285	ORF	Verified	YPR081C	GRS2	putative glycine--tRNA ligase	chromosome 16		16	703970	702114	C		2011-02-03	1996-07-31	Glycine-tRNA synthetase, not expressed under normal growth conditions; expression is induced under heat, oxidative, pH, or ethanol stress conditions; more stable than the major glycine-tRNA synthetase Grs1p at 37 deg C; GRS2 has a paralog, GRS1, that arose from the whole genome duplication
+S000035269	CDS					YPR081C		16	703970	702114	C		2011-02-03	1996-07-31	
+S000006286	ORF	Verified	YPR082C	DIB1	U4/U6-U5 snRNP complex subunit DIB1|SNU16	chromosome 16	L000004542	16	704656	704225	C		2011-02-03	1996-07-31	17-kDa component of the U4/U6aU5 tri-snRNP; plays an essential role in pre-mRNA splicing; human ortholog TXNL4A (the human U5-specific 15-kDa protein) complements yeast dib1 null mutant
+S000036157	CDS					YPR082C		16	704656	704225	C		2011-02-03	1996-07-31	
+S000006287	ORF	Verified	YPR083W	MDM36		chromosome 16		16	704854	706593	W		2011-02-03	1996-07-31	Mitochondrial protein; required for normal mitochondrial morphology and inheritance; component of the mitochondria-ER-cortex-ancor (MECA); interacts with Num1p to link the ER and mitochondria at the cell cortex; proposed involvement in the formation of Dnm1p and Num1p-containing cortical anchor complexes that promote mitochondrial fission
+S000036324	CDS					YPR083W		16	704854	706593	W		2011-02-03	1996-07-31	
+S000006288	ORF	Uncharacterized	YPR084W			chromosome 16		16	706972	708342	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000036408	CDS					YPR084W		16	706972	708342	W		2011-02-03	1996-07-31	
+S000006289	ORF	Verified	YPR085C	ASA1		chromosome 16		16	709828	708497	C		2011-02-03	2003-09-22|1996-07-31	Subunit of the ASTRA complex, involved in chromatin remodeling; telomere length regulator involved in the stability or biogenesis of PIKKs such as TORC1
+S000030072	CDS					YPR085C		16	709828	708497	C		2011-02-03	2003-09-22|1996-07-31	
+S000006290	ORF	Verified	YPR086W	SUA7	transcription factor TFIIB|TFIIB|SOH4	chromosome 16	L000002141	16	710101	711138	W		2011-02-03	1996-07-31	Transcription factor TFIIB; a general transcription factor required for transcription initiation and start site selection by RNA polymerase II
+S000030297	CDS					YPR086W		16	710101	711138	W		2011-02-03	1996-07-31	
+S000006291	ORF	Dubious	YPR087W	VPS69		chromosome 16		16	711354	711674	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 85% of ORF overlaps the verified gene SRP54; deletion causes a vacuolar protein sorting defect
+S000030448	CDS					YPR087W		16	711354	711674	W		2011-02-03	1996-07-31	
+S000006292	ORF	Verified	YPR088C	SRP54	RNA-binding signal recognition particle subunit SRP54|SRH1	chromosome 16	L000002064	16	713028	711403	C		2011-02-03	1996-07-31	Signal recognition particle (SRP) subunit (homolog of mammalian SRP54); contains the signal sequence-binding activity of SRP, interacts with the SRP RNA, and mediates binding of SRP to signal receptor; contains GTPase domain
+S000030479	CDS					YPR088C		16	713028	711403	C		2011-02-03	1996-07-31	
+S000006293	ORF	Uncharacterized	YPR089W		YPR090W	chromosome 16		16	713275	715941	W		2011-02-03	2003-09-29|1996-07-31	Protein of unknown function; exhibits genetic interaction with ERG11 and protein-protein interaction with Hsp82p
+S000031385	CDS					YPR089W		16	713275	715941	W		2011-02-03	2003-09-29|1996-07-31	
+S000006296	ORF	Dubious	YPR092W			chromosome 16		16	718379	718684	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032289	CDS					YPR092W		16	718379	718684	W		2011-02-03	1996-07-31	
+S000006295	ORF	Verified	YPR091C	NVJ2		chromosome 16		16	718468	716156	C		2011-02-03	1996-07-31	Lipid-binding ER protein, enriched at nucleus-vacuolar junctions (NVJ); may be involved in sterol metabolism or signaling at the NVJ; contains a synaptotagmin-like-mitochondrial-lipid binding protein (SMP) domain; binds phosphatidylinositols and other lipids in a large-scale study; may interact with ribosomes, based on co-purification experiments
+S000031211	CDS					YPR091C		16	718468	716156	C		2011-02-03	1996-07-31	
+S000006442	snoRNA_gene		snR51	SNR51		chromosome 16	L000004520	16	718806	718700	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2729 and small subunit (SSU) rRNA at position A100
+S000030732	noncoding_exon					snR51		16	718806	718700	C		2011-02-03	2000-05-19	
+S000006461	snoRNA_gene		snR70	SNR70		chromosome 16	L000004539	16	719050	718887	C		2011-02-03	2000-05-19|2007-05-09	C/D box small nucleolar RNA (snoRNA); predicted to guide 2'-O-methylation of small subunit (SSU) rRNA at position C1639
+S000031744	noncoding_exon					snR70		16	719050	718887	C		2011-02-03	2000-05-19|2007-05-09	
+S000007305	snoRNA_gene		snR41	SNR41		chromosome 16	L000003056	16	719242	719148	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at positions A541 and G1126
+S000030612	noncoding_exon					snR41		16	719242	719148	C		2011-02-03	2000-05-19	
+S000006297	ORF	Verified	YPR093C	ASR1	ubiquitin-protein ligase ASR1	chromosome 16		16	720424	719558	C		2011-02-03	2003-09-22|1996-07-31	Ubiquitin ligase that modifies and regulates RNA Pol II; involved in a putative alcohol-responsive signaling pathway; accumulates in the nucleus under alcohol stress; has a role in organization of septins and the actin cytoskeleton; contains a Ring/PHD finger domain similar to the mammalian rA9 protein
+S000032333	CDS					YPR093C		16	720424	719558	C		2011-02-03	2003-09-22|1996-07-31	
+S000006298	ORF	Verified	YPR094W	RDS3	U2 snRNP complex subunit RDS3	chromosome 16		16	720637	720960	W		2011-02-03	1996-07-31	Component of the SF3b subcomplex of the U2 snRNP; zinc cluster protein involved in pre-mRNA splicing and cycloheximide resistance
+S000032497	CDS					YPR094W		16	720637	720960	W		2011-02-03	1996-07-31	
+S000006299	ORF	Verified	YPR095C	SYT1	Arf family guanine nucleotide exchange factor SYT1	chromosome 16	L000004575	16	724717	721037	C		2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for Arf proteins; promotes activation of Arl1p, which recruits Imh1p to the Golgi; involved in vesicular transport; member of the Sec7-domain family; contains a PH domain
+S000034455	CDS					YPR095C		16	724717	721037	C		2011-02-03	1996-07-31	
+S000006300	ORF	Verified	YPR096C			chromosome 16		16	725144	724842	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments
+S000034576	CDS					YPR096C		16	725144	724842	C		2011-02-03	1996-07-31	
+S000006301	ORF	Verified	YPR097W			chromosome 16		16	725394	728615	W		2011-02-03	1996-07-31|2011-02-03	Protein that contains a PX domain and binds phosphoinositides; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; PX stands for Phox homology
+S000034675	CDS					YPR097W		16	725394	728615	W		2011-02-03	1996-07-31|2011-02-03	
+S000006302	ORF	Verified	YPR098C			chromosome 16		16	729528	728947	C		2011-02-03	2003-09-27|1996-07-31	Protein of unknown function; localized to the mitochondrial outer membrane
+S000034698	CDS					YPR098C		16	729385	728947	C		2011-02-03	2003-09-27	
+S000034697	CDS					YPR098C		16	729528	729482	C		2011-02-03	2003-09-27|1996-07-31	
+S000034699	intron					YPR098C		16	729481	729386	C		2011-02-03	2003-09-27	
+S000006304	ORF	Verified	YPR100W	MRPL51	mitochondrial 54S ribosomal protein MRPL51	chromosome 16		16	729791	730213	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000033115	CDS					YPR100W		16	729791	730213	W		2011-02-03	1996-07-31	
+S000006303	ORF	Dubious	YPR099C			chromosome 16		16	730113	729757	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene MRPL51/YPR100W
+S000035639	CDS					YPR099C		16	730113	729757	C		2011-02-03	1996-07-31	
+S000006305	ORF	Verified	YPR101W	SNT309	NTC25	chromosome 16	L000004269	16	730492	731019	W		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; interacts physically and genetically with Prp19p
+S000033189	CDS					YPR101W		16	730492	731019	W		2011-02-03	1996-07-31	
+S000006306	ORF	Verified	YPR102C	RPL11A	uL5|ribosomal 60S subunit protein L11A|rp39A|YL22|L5|L16B|L11A	chromosome 16	L000004453	16	731748	731224	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L11A; expressed at twice the level of Rpl11Bp; involved in ribosomal assembly; depletion causes degradation of 60S proteins and RNA; homologous to mammalian ribosomal protein L11 and bacterial L5; RPL11A has a paralog, RPL11B, that arose from the whole genome duplication
+S000033914	CDS					YPR102C		16	731748	731224	C		2011-02-03	1996-07-31	
+S000006307	ORF	Verified	YPR103W	PRE2	proteasome core particle subunit beta 5|SRR2|PRG1|DOA3	chromosome 16	L000001484	16	732349	733212	W		2011-02-03	1996-07-31	Beta 5 subunit of the 20S proteasome; responsible for the chymotryptic activity of the proteasome
+S000034099	CDS					YPR103W		16	732349	733212	W		2011-02-03	1996-07-31	
+S000006308	ORF	Verified	YPR104C	FHL1	SPP42	chromosome 16	L000000612	16	736433	733623	C		2011-02-03	1996-07-31	Regulator of ribosomal protein (RP) transcription; has forkhead associated domain that binds phosphorylated proteins; recruits coactivator Ifh1p or corepressor Crf1p to RP gene promoters; also has forkhead DNA-binding domain though in vitro DNA binding assays give inconsistent results; computational analyses suggest it binds DNA directly at highly active RP genes and indirectly through Rap1p motifs at others; suppresses RNA pol III and splicing factor prp4 mutants
+S000034142	CDS					YPR104C		16	736433	733623	C		2011-02-03	1996-07-31	
+S000006309	ORF	Verified	YPR105C	COG4	Golgi transport complex subunit COG4|SGF1|SEC38|COD1	chromosome 16	S000007660	16	739569	736984	C		2011-02-03	1996-07-31	Essential component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
+S000035097	CDS					YPR105C		16	739569	736984	C		2011-02-03	1996-07-31	
+S000006310	ORF	Verified	YPR106W	ISR1	putative protein kinase ISR1	chromosome 16	L000004210	16	740061	741392	W		2011-02-03	1996-07-31	Predicted protein kinase; overexpression causes sensitivity to staurosporine, which is a potent inhibitor of protein kinase C
+S000035292	CDS					YPR106W		16	740061	741392	W		2011-02-03	1996-07-31	
+S000006311	ORF	Verified	YPR107C	YTH1	cleavage polyadenylation factor RNA-binding subunit YTH1	chromosome 16	L000003546	16	742064	741438	C		2011-02-03	1996-07-31	Essential RNA-binding component of cleavage and polyadenylation factor; contains five zinc fingers; required for pre-mRNA 3'-end processing and polyadenylation; relocalizes to the cytosol in response to hypoxia
+S000035304	CDS					YPR107C		16	742064	741438	C		2011-02-03	1996-07-31	
+S000006312	ORF	Verified	YPR108W	RPN7	proteasome regulatory particle lid subunit RPN7	chromosome 16	L000004307	16	742454	743743	W		2011-02-03	1996-07-31	Essential non-ATPase regulatory subunit of the 26S proteasome; similar to another S. cerevisiae regulatory subunit, Rpn5p, as well as to mammalian proteasome subunits
+S000035430	CDS					YPR108W		16	742454	743743	W		2011-02-03	1996-07-31	
+S000028590	ORF	Uncharacterized	YPR108W-A			chromosome 16		16	744175	744387	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031362	CDS					YPR108W-A		16	744175	744387	W		2011-02-03	2003-07-29	
+S000006752	tRNA_gene		tT(UGU)P			chromosome 16	L000003724	16	744284	744355	W		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000036277	noncoding_exon					tT(UGU)P		16	744284	744355	W		2011-02-03	2000-05-19	
+S000006313	ORF	Uncharacterized	YPR109W			chromosome 16		16	744689	745573	W		2011-02-03	1996-07-31	Predicted membrane protein; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; diploid deletion strain has high budding index
+S000036314	CDS					YPR109W		16	744689	745573	W		2011-02-03	1996-07-31	
+S000006314	ORF	Verified	YPR110C	RPC40	DNA-directed RNA polymerase core subunit RPC40|RPC5	chromosome 16	L000001690|L000002890	16	746835	745828	C	72	2011-02-03	1996-07-31	RNA polymerase subunit AC40; common to RNA polymerase I and III; predominant determinant targeting Ty1 integration upstream of Pol III-transcribed genes
+S000031868	CDS					YPR110C		16	746835	745828	C		2011-02-03	1996-07-31	
+S000006315	ORF	Verified	YPR111W	DBF20	serine/threonine-protein kinase DBF20	chromosome 16	L000000490	16	747306	749000	W	66	2011-02-03	1999-07-17|1996-07-31	Ser/Thr kinase involved in late nuclear division; one of the mitotic exit network (MEN) proteins; necessary for the execution of cytokinesis; also plays a role in regulating the stability of SWI5 and CLB2 mRNAs; DBF20 has a paralog, DBF2, that arose from the whole genome duplication
+S000032040	CDS					YPR111W		16	747306	749000	W		2011-02-03	1999-07-17|1996-07-31	
+S000118422	ARS		ARS1626		ARSXVI-749	chromosome 16		16	749099	749345			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178200	ARS_consensus_sequence					ARS1626		16	749117	749133	W		2014-11-18	2014-11-18	
+S000006316	ORF	Verified	YPR112C	MRD1	RNA-binding ribosome biosynthesis protein MRD1	chromosome 16	S000007482	16	751919	749256	C		2011-02-03	1996-07-31	Essential conserved small ribosomal subunit (40s) synthesis factor; component of the 90S preribosome; required for production of 18S rRNA and small ribosomal subunit; contains five consensus RNA-binding domains and binds to the pre-rRNA at two sites within the 18S region
+S000037455	CDS					YPR112C		16	751919	749256	C		2011-02-03	1996-07-31	
+S000006317	ORF	Verified	YPR113W	PIS1	CDP-diacylglycerol--inositol 3-phosphatidyltransferase	chromosome 16	L000001444	16	752257	752919	W		2011-02-03	1996-07-31	Phosphatidylinositol synthase; required for biosynthesis of phosphatidylinositol, which is a precursor for polyphosphoinositides, sphingolipids, and glycolipid anchors for some of the plasma membrane proteins
+S000037583	CDS					YPR113W		16	752257	752919	W		2011-02-03	1996-07-31	
+S000006318	ORF	Uncharacterized	YPR114W			chromosome 16		16	753301	754248	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000037664	CDS					YPR114W		16	753301	754248	W		2011-02-03	1996-07-31	
+S000006319	ORF	Verified	YPR115W	RGC1	GCA1	chromosome 16		16	754877	758128	W		2011-02-03	1996-07-31	Putative regulator of the Fps1p glycerol channel; multiply phosphorylated by Hog1p under osmotic stress; contains a pleckstrin homology domain; forms homodimers and heterodimerizes with paralog Ask10p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000030470	CDS					YPR115W		16	754877	758128	W		2011-02-03	1996-07-31	
+S000006320	ORF	Verified	YPR116W	RRG8		chromosome 16		16	758648	759481	W		2011-02-03	1996-07-31	Protein of unknown function; required for mitochondrial genome maintenance; null mutation results in a decrease in plasma membrane electron transport
+S000030562	CDS					YPR116W		16	758648	759481	W		2011-02-03	1996-07-31	
+S000006321	ORF	Uncharacterized	YPR117W		BSH1	chromosome 16		16	760025	767494	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000030644	CDS					YPR117W		16	760025	767494	W		2011-02-03	1996-07-31	
+S000006322	ORF	Verified	YPR118W	MRI1	S-methyl-5-thioribose-1-phosphate isomerase MRI1	chromosome 16		16	767752	768987	W		2011-02-03	1996-07-31	5'-methylthioribose-1-phosphate isomerase; catalyzes the isomerization of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate in the methionine salvage pathway
+S000030727	CDS					YPR118W		16	767752	768987	W		2011-02-03	1996-07-31	
+S000006635	tRNA_gene		tK(UUU)P			chromosome 16	L000003731	16	769302	769207	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034222	intron					tK(UUU)P		16	769265	769243	C		2011-02-03	2000-05-19	
+S000034221	noncoding_exon					tK(UUU)P		16	769242	769207	C		2011-02-03	2000-05-19	
+S000034220	noncoding_exon					tK(UUU)P		16	769302	769266	C		2011-02-03	2000-05-19	
+S000007216	long_terminal_repeat		YPRWsigma2			chromosome 16		16	769319	769659	W		2011-02-03	2000-05-19	Ty3 LTR
+S000006323	ORF	Verified	YPR119W	CLB2	B-type cyclin CLB2	chromosome 16	L000000350	16	771653	773128	W		2011-02-03	1996-07-31	B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the transition from G2 to M phase; accumulates during G2 and M, then targeted via a destruction box motif for ubiquitin-mediated degradation by the proteasome; CLB2 has a paralog, CLB1, that arose from the whole genome duplication
+S000031564	CDS					YPR119W		16	771653	773128	W		2011-02-03	1996-07-31	
+S000006324	ORF	Verified	YPR120C	CLB5	B-type cyclin CLB5	chromosome 16	L000000353	16	775182	773875	C		2011-02-03	1996-07-31	B-type cyclin involved in DNA replication during S phase; activates Cdc28p to promote initiation of DNA synthesis; functions in formation of mitotic spindles along with Clb3p and Clb4p; most abundant during late G1 phase; CLB5 has a paralog, CLB6, that arose from the whole genome duplication
+S000030306	CDS					YPR120C		16	775182	773875	C		2011-02-03	1996-07-31	
+S000006529	tRNA_gene		tC(GCA)P2			chromosome 16	L000003730	16	775836	775765	C		2011-02-03	2000-05-19	Cysteine tRNA (tRNA-Cys), predicted by tRNAscan-SE analysis
+S000037837	noncoding_exon					tC(GCA)P2		16	775836	775765	C		2011-02-03	2000-05-19	
+S000007211	long_terminal_repeat		YPRWdelta14			chromosome 16		16	776093	776413	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007201	long_terminal_repeat		YPRCdelta15			chromosome 16		16	776796	776667	C		2011-02-03	2000-05-19	Ty1 LTR
+S000119041	ARS		ARS1635		ARSXVI-777|ARS1626.5	chromosome 16		16	776926	777156			2011-02-03	2006-10-04	Autonomously Replicating Sequence
+S000119042	ARS_consensus_sequence					ARS1635		16	777098	777084	C		2011-02-03	2006-10-04	
+S000007212	long_terminal_repeat		YPRWdelta16			chromosome 16		16	777832	778154	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006325	ORF	Verified	YPR121W	THI22	putative phosphomethylpyrimidine kinase	chromosome 16		16	778583	780301	W		2011-02-03	1996-07-31|2011-02-03	Protein with similarity to hydroxymethylpyrimidine phosphate kinases; member of a gene family with THI20 and THI21; not required for thiamine biosynthesis; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000033668	CDS					YPR121W		16	778583	780301	W		2011-02-03	1996-07-31|2011-02-03	
+S000006326	ORF	Verified	YPR122W	AXL1	STE22|FUS5	chromosome 16	L000002601	16	782045	785671	W		2011-02-03	1996-07-31	Haploid specific endoprotease of a-factor mating pheromone; performs one of two N-terminal cleavages during maturation of a-factor mating pheromone; required for axial budding pattern of haploid cells
+S000033830	CDS					YPR122W		16	782045	785671	W		2011-02-03	1996-07-31	
+S000006328	ORF	Verified	YPR124W	CTR1	high-affinity Cu transporter CTR1	chromosome 16	L000003063	16	786208	787428	W		2011-02-03	1996-07-31	High-affinity copper transporter of plasma membrane; mediates nearly all copper uptake under low copper conditions; transcriptionally induced at low copper levels and degraded at high copper levels; protein increases in abundance and relocalizes from nucleus to plasma membrane upon DNA replication stress; human homolog SLC31A1 can complement a yeast ctr1 ctr3 double deletion
+S000034806	CDS					YPR124W		16	786208	787428	W		2011-02-03	1996-07-31	
+S000006327	ORF	Dubious	YPR123C			chromosome 16		16	786575	786141	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially/completely overlaps the verified ORF CTR
+S000033865	CDS					YPR123C		16	786575	786141	C		2011-02-03	1996-07-31	
+S000006329	ORF	Verified	YPR125W	YLH47	MRS7	chromosome 16		16	787961	789325	W		2011-02-03	1996-07-31	Mitochondrial inner membrane protein; exposed to the mitochondrial matrix; associates with mitochondrial ribosomes; NOT required for respiratory growth; homolog of human Letm1, a protein implicated in Wolf-Hirschhorn syndrome
+S000034935	CDS					YPR125W		16	787961	789325	W		2011-02-03	1996-07-31	
+S000006330	ORF	Dubious	YPR126C			chromosome 16		16	789385	789077	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034988	CDS					YPR126C		16	789385	789077	C		2011-02-03	1996-07-31	
+S000006331	ORF	Verified	YPR127W		pyridoxine 4-dehydrogenase	chromosome 16		16	790083	791120	W		2011-02-03	1996-07-31	Putative pyridoxine 4-dehydrogenase; differentially expressed during alcoholic fermentation; expression activated by transcription factor YRM1/YOR172W; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
+S000035194	CDS					YPR127W		16	790083	791120	W		2011-02-03	1996-07-31	
+S000006332	ORF	Verified	YPR128C	ANT1		chromosome 16		16	792204	791218	C		2011-02-03	1996-07-31	Peroxisomal adenine nucleotide transporter; involved in beta-oxidation of medium-chain fatty acid; required for peroxisome proliferation
+S000036009	CDS					YPR128C		16	792204	791218	C		2011-02-03	1996-07-31	
+S000006333	ORF	Verified	YPR129W	SCD6	LSM13	chromosome 16	L000001806	16	792687	793736	W		2011-02-03	1996-07-31	Repressor of translation initiation; binds eIF4G through its RGG domain and inhibits recruitment of the preinitiation complex; also contains an Lsm domain; may have a role in RNA processing; overproduction suppresses null mutation in clathrin heavy chain gene CHC1; forms cytoplasmic foci upon DNA replication stress
+S000036168	CDS					YPR129W		16	792687	793736	W		2011-02-03	1996-07-31	
+S000006334	ORF	Dubious	YPR130C			chromosome 16		16	793781	793374	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035652	CDS					YPR130C		16	793781	793374	C		2011-02-03	1996-07-31	
+S000006335	ORF	Verified	YPR131C	NAT3	peptide alpha-N-acetyltransferase complex B subunit NAT3|RAD56|NAA20	chromosome 16	S000007464|S000029405|L000001576	16	794498	793911	C	84.8	2011-02-03	2003-05-23|1996-07-31	Catalytic subunit of the NatB N-terminal acetyltransferase; NatB catalyzes acetylation of the amino-terminal methionine residues of all proteins beginning with Met-Asp or Met-Glu and of some proteins beginning with Met-Asn or Met-Met
+S000035762	CDS					YPR131C		16	794498	793911	C		2011-02-03	2003-05-23|1996-07-31	
+S000006336	ORF	Verified	YPR132W	RPS23B	uS12|ribosomal 40S subunit protein S23B|rp37|YS14|S28B|S23B|S12	chromosome 16	L000001765	16	794965	795767	W		2011-02-03	1996-07-31	Ribosomal protein 28 (rp28) of the small (40S) ribosomal subunit; required for translational accuracy; homologous to mammalian ribosomal protein S23 and bacterial S12; RPS23B has a paralog, RPS23A, that arose from the whole genome duplication; deletion of both RPS23A and RPS23B is lethal
+S000035959	CDS					YPR132W		16	794965	795029	W		2011-02-03	1996-07-31	
+S000035960	CDS					YPR132W		16	795395	795767	W		2011-02-03	1996-07-31	
+S000035961	intron					YPR132W		16	795030	795394	W		2011-02-03	1996-07-31	
+S000006337	ORF	Verified	YPR133C	SPN1	IWS1	chromosome 16		16	797210	795978	C		2011-02-03	1996-07-31	Protein involved in RNA polymerase II transcription; is constitutively recruited to the CYC1 promoter and is required for recruitment of chromatin remodeling factors for the expression of CYC1 gene; interacts genetically or physically with RNAP II, TBP, TFIIS, and chromatin remodelling factors; central domain highly conserved throughout eukaryotes; mutations confer an Spt- phenotype
+S000037797	CDS					YPR133C		16	797210	795978	C		2011-02-03	1996-07-31	
+S000006433	ORF	Verified	YPR133W-A	TOM5	MOM8A	chromosome 16	L000003249	16	797557	797709	W		2011-02-03	1999-07-17	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import of all mitochondrially directed proteins; involved in transfer of precursors from the Tom70p and Tom20p receptors to the Tom40p pore
+S000036542	CDS					YPR133W-A		16	797557	797709	W		2011-02-03	1999-07-17	
+S000006338	ORF	Verified	YPR134W	MSS18		chromosome 16	L000001204	16	798051	798857	W		2011-02-03	1996-07-31	Nuclear encoded protein needed for splicing of mitochondrial intron; required for efficient splicing of mitochondrial COX1 aI5beta intron; mss18 mutations block cleavage of 5' exon - intron junction; phenotype of intronless strain suggests additional functions
+S000029836	CDS					YPR134W		16	798051	798857	W		2011-02-03	1996-07-31	
+S000006339	ORF	Verified	YPR135W	CTF4	chromatin-binding protein CTF4|POB1|CHL15	chromosome 16	L000000326	16	799234	802017	W	103	2011-02-03	1996-07-31	Chromatin-associated protein; required for sister chromatid cohesion; interacts with DNA polymerase alpha (Pol1p) and may link DNA synthesis to sister chromatid cohesion
+S000029940	CDS					YPR135W		16	799234	802017	W		2011-02-03	1996-07-31	
+S000006341	ORF	Verified	YPR137W	RRP9		chromosome 16	S000007466	16	802359	804080	W		2011-02-03	1996-07-31	Protein involved in pre-rRNA processing; associated with U3 snRNP; component of small ribosomal subunit (SSU) processosome; ortholog of the human U3-55k protein
+S000031011	CDS					YPR137W		16	802359	804080	W		2011-02-03	1996-07-31	
+S000006340	ORF	Dubious	YPR136C			chromosome 16		16	802837	802325	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF RRP9
+S000029987	CDS					YPR136C		16	802837	802325	C		2011-02-03	1996-07-31	
+S000007213	long_terminal_repeat		YPRWdelta17			chromosome 16		16	804511	804638	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007202	long_terminal_repeat		YPRCdelta18			chromosome 16		16	804978	804645	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007360	transposable_element_gene		YPR137C-B		gag-pol fusion protein	chromosome 16	S000029020	16	810269	805001	C		2011-02-03	1997-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000034188	CDS					YPR137C-B		16	808963	805001	C		2011-02-03	1997-07-17	
+S000034187	CDS					YPR137C-B		16	810269	808965	C		2011-02-03	1997-07-17	
+S000034189	plus_1_translational_frameshift					YPR137C-B		16	808964	808964	C		2011-02-03	1997-07-17	
+S000007359	transposable_element_gene		YPR137C-A		gag protein	chromosome 16		16	810269	808947	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000034186	CDS					YPR137C-A		16	810269	808947	C		2011-02-03	1996-07-31	
+S000007208	LTR_retrotransposon		YPRCTy1-2		Ty1	chromosome 16		16	810562	804645	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007203	long_terminal_repeat		YPRCdelta19			chromosome 16		16	810562	810229	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006677	tRNA_gene		tN(GUU)P			chromosome 16	L000003725	16	810676	810749	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000030747	noncoding_exon					tN(GUU)P		16	810676	810749	W		2011-02-03	2000-05-19	
+S000006342	ORF	Verified	YPR138C	MEP3	ammonium permease MEP3	chromosome 16	L000004105	16	812453	810984	C		2011-02-03	1996-07-31	Ammonium permease of high capacity and low affinity; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation ammonia permease; MEP3 has a paralog, MEP1, that arose from the whole genome duplication
+S000031048	CDS					YPR138C		16	812453	810984	C		2011-02-03	1996-07-31	
+S000006343	ORF	Verified	YPR139C	LOA1	lysophosphatidic acid acyltransferase LOA1|VPS66	chromosome 16		16	814058	813156	C		2011-02-03	1996-07-31	Lysophosphatidic acid acyltransferase; involved in triacelglyceride homeostasis and lipid droplet formation; localized to lipid droplets and the ER; specificity for oleoyl-CoA
+S000031180	CDS					YPR139C		16	814058	813156	C		2011-02-03	1996-07-31	
+S000006344	ORF	Verified	YPR140W	TAZ1	lysophosphatidylcholine acyltransferase	chromosome 16		16	814391	815536	W		2011-02-03	1996-07-31	Lyso-phosphatidylcholine acyltransferase; required for normal phospholipid content of mitochondrial membranes; major determinant of the final acyl chain composition of the mitochondrial-specific phospholipid cardiolipin; mutations in human ortholog tafazzin (TAZ) cause Barth syndrome, a rare X-linked disease characterized by skeletal and cardiomyopathy and bouts of cyclic neutropenia; a specific splice variant of human TAZ can complement yeast null mutant
+S000030806	CDS					YPR140W		16	814391	815536	W		2011-02-03	1996-07-31	
+S000006345	ORF	Verified	YPR141C	KAR3	OSR11	chromosome 16	L000000888	16	817923	815734	C	94.4	2011-02-03	1996-07-31	Minus-end-directed microtubule motor; functions in mitosis and meiosis, localizes to the spindle pole body and localization is dependent on functional Cik1p, required for nuclear fusion during mating; potential Cdc28p substrate
+S000030832	CDS					YPR141C		16	817923	815734	C		2011-02-03	1996-07-31	
+S000006347	ORF	Verified	YPR143W	RRP15		chromosome 16		16	818323	819075	W		2011-02-03	1996-07-31	Nucleolar protein; constituent of pre-60S ribosomal particles; required for proper processing of the 27S pre-rRNA at the A3 and B1 sites to yield mature 5.8S and 25S rRNAs
+S000032060	CDS					YPR143W		16	818323	819075	W		2011-02-03	1996-07-31	
+S000006346	ORF	Dubious	YPR142C			chromosome 16		16	818693	818130	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RRP15, which is required for ribosomal RNA processing
+S000031843	CDS					YPR142C		16	818693	818130	C		2011-02-03	1996-07-31	
+S000118423	ARS		ARS1627		ARSXVI-819	chromosome 16		16	819160	819399			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178201	ARS_consensus_sequence					ARS1627		16	819340	819324	C		2014-11-18	2014-11-18	
+S000006611	tRNA_gene		tI(AAU)P1			chromosome 16	L000003726	16	819529	819602	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000035185	noncoding_exon					tI(AAU)P1		16	819529	819602	W		2011-02-03	2000-05-19	
+S000006348	ORF	Verified	YPR144C	NOC4	ribosome biosynthesis protein NOC4|UTP19	chromosome 16		16	821423	819765	C		2011-02-03	1996-07-31	Nucleolar protein; forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits; relocalizes to the cytosol in response to hypoxia
+S000032106	CDS					YPR144C		16	821423	819765	C		2011-02-03	1996-07-31	
+S000006505	snoRNA_gene		snR45	SNR45		chromosome 16	L000003412	16	821732	821903	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA) but not shown to be active; no target site is predicted within the ribosomal RNAs
+S000030617	noncoding_exon					snR45		16	821732	821903	W		2011-02-03	2000-05-19	
+S000006349	ORF	Verified	YPR145W	ASN1	asparagine synthase (glutamine-hydrolyzing) 1	chromosome 16	L000002732	16	822620	824338	W		2011-02-03	1996-07-31	Asparagine synthetase; catalyzes the synthesis of L-asparagine from L-aspartate in the asparagine biosynthetic pathway; ASN1 has a paralog, ASN2, that arose from the whole genome duplication
+S000034141	CDS					YPR145W		16	822620	824338	W		2011-02-03	1996-07-31	
+S000113589	ORF	Uncharacterized	YPR145C-A			chromosome 16		16	824926	824690	C		2011-02-03	2005-11-21	Putative protein of unknown function
+S000113590	CDS					YPR145C-A		16	824926	824690	C		2011-02-03	2005-11-21	
+S000006350	ORF	Dubious	YPR146C			chromosome 16		16	825676	825347	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034200	CDS					YPR146C		16	825676	825347	C		2011-02-03	1996-07-31	
+S000006351	ORF	Verified	YPR147C			chromosome 16		16	826559	825645	C		2011-02-03	1996-07-31	Protein of unknown function; may have a role in lipid metabolism, based on localization to lipid droplets; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and is induced in response to the DNA-damaging agent MMS
+S000034283	CDS					YPR147C		16	826559	825645	C		2011-02-03	1996-07-31	
+S000006352	ORF	Verified	YPR148C			chromosome 16		16	828140	826833	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
+S000034341	CDS					YPR148C		16	828140	826833	C		2011-02-03	1996-07-31	
+S000006353	ORF	Verified	YPR149W	NCE102	NCE2	chromosome 16	L000003098	16	829918	830439	W		2011-02-03	1996-07-31	Protein of unknown function; contains transmembrane domains; involved in secretion of proteins that lack classical secretory signal sequences; component of the detergent-insoluble glycolipid-enriched complexes (DIGs); NCE102 has a paralog, FHN1, that arose from the whole genome duplication
+S000035352	CDS					YPR149W		16	829918	830439	W		2011-02-03	1996-07-31	
+S000006354	ORF	Dubious	YPR150W			chromosome 16		16	830999	831520	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SUE1/YPR151C
+S000033972	CDS					YPR150W		16	830999	831520	W		2011-02-03	1996-07-31	
+S000006355	ORF	Verified	YPR151C	SUE1		chromosome 16		16	831675	831055	C		2011-02-03	1996-07-31	Protein required for degradation of unstable forms of cytochrome c; located in the mitochondria
+S000034039	CDS					YPR151C		16	831675	831055	C		2011-02-03	1996-07-31	
+S000006356	ORF	Verified	YPR152C	URN1		chromosome 16		16	833458	832061	C		2011-02-03	1996-07-31	Protein of unknown function containing WW and FF domains; overexpression causes accumulation of cells in G1 phase
+S000034921	CDS					YPR152C		16	833458	832061	C		2011-02-03	1996-07-31	
+S000006357	ORF	Verified	YPR153W	MAY24		chromosome 16		16	833689	834245	W		2011-02-03	1996-07-31|2007-07-10	Protein of unknown function
+S000035217	CDS					YPR153W		16	833689	833693	W		2011-02-03	1996-07-31|2007-07-10	
+S000123277	CDS					YPR153W		16	833828	834245	W		2011-02-03	2007-07-10	
+S000123276	intron					YPR153W		16	833694	833827	W		2011-02-03	2007-07-10	
+S000006358	ORF	Verified	YPR154W	PIN3	LSB2	chromosome 16		16	834565	835212	W		2011-02-03	1996-07-31	Negative regulator of actin nucleation-promoting factor activity; interacts with Las17p, a homolog of human Wiskott-Aldrich Syndrome protein (WASP), via an N-terminal SH3 domain, and along with LSB1 cooperatively inhibits the nucleation of actin filaments; short-lived protein whose levels increase in response to thermal stress; induces the formation of the [PIN+] and [RNQ+] prions when overproduced; PIN3 has a paralog, LSB1, that arose from the whole genome duplication
+S000036101	CDS					YPR154W		16	834565	835212	W		2011-02-03	1996-07-31	
+S000006359	ORF	Verified	YPR155C	NCA2		chromosome 16	L000003161	16	837413	835563	C		2011-02-03	1996-07-31	Protein that regulates expression of Fo-F1 ATP synthase subunits; involved in the regulation of mitochondrial expression of subunits 6 (Atp6p) and 8 (Atp8p) of the Fo-F1 ATP synthase; functions with Nca3p
+S000036159	CDS					YPR155C		16	837413	835563	C		2011-02-03	1996-07-31	
+S000006360	ORF	Verified	YPR156C	TPO3	spermine transporter	chromosome 16		16	839777	837909	C		2011-02-03	1996-07-31	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; specific for spermine; localizes to the plasma membrane; TPO3 has a paralog, TPO2, that arose from the whole genome duplication
+S000036260	CDS					YPR156C		16	839777	837909	C		2011-02-03	1996-07-31	
+S000006361	ORF	Uncharacterized	YPR157W	TDA6		chromosome 16		16	841266	842669	W		2011-02-03	1996-07-31	Putative protein of unknown function; induced by treatment with 8-methoxypsoralen and UVA irradiation; null mutant is sensitive to expression of the top1-T722A allele; SWAT-GFP and mCherry fusion proteins localize to the cell periphery and vacuole; TDA6 has a paralog, VPS62, that arose from the whole genome duplication
+S000036428	CDS					YPR157W		16	841266	842669	W		2011-02-03	1996-07-31	
+S000118424	ARS		ARS1628		ARSXVI-843	chromosome 16		16	842653	842900			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178202	ARS_consensus_sequence					ARS1628		16	842708	842724	W		2014-11-18	2014-11-18	
+S000006362	ORF	Verified	YPR158W	CUR1		chromosome 16		16	843262	844020	W		2011-02-03	1996-07-31	Sorting factor, central regulator of spatial protein quality control; physically and functionally interacts with chaperones to promote sorting and deposition of misfolded proteins into cytosolic compartments; involved in destabilization of [URE3] prions; CUR1 has a paralog, BTN2, that arose from the whole genome duplication
+S000030121	CDS					YPR158W		16	843262	844020	W		2011-02-03	1996-07-31	
+S000007214	long_terminal_repeat		YPRWdelta20			chromosome 16		16	844412	844749	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007220	LTR_retrotransposon		YPRWTy1-3		Ty1	chromosome 16		16	844412	850340	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007363	transposable_element_gene		YPR158W-A		gag protein	chromosome 16		16	844709	846031	W		2011-02-03	1999-07-17|1996-07-31	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000037619	CDS					YPR158W-A		16	844709	846031	W		2011-02-03	1999-07-17	
+S000007364	transposable_element_gene		YPR158W-B		gag-pol fusion protein	chromosome 16		16	844709	849980	W		2011-02-03	1997-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000037621	CDS					YPR158W-B		16	844709	846013	W		2011-02-03	1997-07-17	
+S000037622	CDS					YPR158W-B		16	846015	849980	W		2011-02-03	1997-07-17	
+S000037623	plus_1_translational_frameshift					YPR158W-B		16	846014	846014	W		2011-02-03	1997-07-17	
+S000007215	long_terminal_repeat		YPRWdelta21			chromosome 16		16	850003	850340	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007204	long_terminal_repeat		YPRCdelta22			chromosome 16		16	850512	850357	C		2011-02-03	2000-05-19	Ty1 LTR
+S000130201	ARS		ARS1629			chromosome 16		16	850512	850629			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000007205	long_terminal_repeat		YPRCdelta23			chromosome 16		16	850966	850629	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007362	transposable_element_gene		YPR158C-D		gag-pol fusion protein	chromosome 16	S000029021	16	856257	850989	C		2011-02-03	1997-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000035820	CDS					YPR158C-D		16	854951	850989	C		2011-02-03	1997-07-17	
+S000035819	CDS					YPR158C-D		16	856257	854953	C		2011-02-03	1997-07-17	
+S000035821	plus_1_translational_frameshift					YPR158C-D		16	854952	854952	C		2011-02-03	1997-07-17	
+S000007361	transposable_element_gene		YPR158C-C		gag protein	chromosome 16		16	856257	854935	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000035816	CDS					YPR158C-C		16	856257	854935	C		2011-02-03	1999-07-17	
+S000007217	long_terminal_repeat		YPRWsigma3			chromosome 16		16	856545	856885	W		2011-02-03	2000-05-19	Ty3 LTR
+S000007209	LTR_retrotransposon		YPRCTy1-4		Ty1	chromosome 16		16	856554	850629	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007206	long_terminal_repeat		YPRCdelta24			chromosome 16		16	856554	856217	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006520	tRNA_gene		tA(AGC)P			chromosome 16	L000003727	16	856902	856974	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000032310	noncoding_exon					tA(AGC)P		16	856902	856974	W		2011-02-03	2000-05-19	
+S000006363	ORF	Verified	YPR159W	KRE6	beta-glucan synthesis-associated protein KRE6|CWH48	chromosome 16	L000000915	16	857583	859745	W	95.9	2011-02-03	1996-07-31	Type II integral membrane protein; required for beta-1,6 glucan biosynthesis; putative beta-glucan synthase; localizes to ER, plasma membrane, sites of polarized growth and secretory vesicles; functionally redundant with Skn1p; KRE6 has a paralog, SKN1, that arose from the whole genome duplication
+S000030298	CDS					YPR159W		16	857583	859745	W		2011-02-03	1996-07-31	
+S000006589	tRNA_gene		tG(GCC)P2			chromosome 16	L000003728	16	860379	860449	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000031683	noncoding_exon					tG(GCC)P2		16	860379	860449	W		2011-02-03	2000-05-19	
+S000028725	ORF	Uncharacterized	YPR159C-A			chromosome 16		16	860415	860314	C		2011-02-03	2003-07-29	Protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cytosol; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032712	CDS					YPR159C-A		16	860415	860314	C		2011-02-03	2003-07-29	
+S000006364	ORF	Verified	YPR160W	GPH1	glycogen phosphorylase	chromosome 16	L000000724	16	861306	864014	W		2011-02-03	1996-07-31	Glycogen phosphorylase required for the mobilization of glycogen; non-essential; regulated by cyclic AMP-mediated phosphorylation; phosphorylation by Cdc28p may coordinately regulate carbohydrate metabolism and the cell cycle; expression is regulated by stress-response elements and by the HOG MAP kinase pathway
+S000029939	CDS					YPR160W		16	861306	864014	W		2011-02-03	1996-07-31	
+S000028860	ORF	Dubious	YPR160W-A			chromosome 16		16	861934	862014	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by expression profiling and mass spectrometry
+S000034591	CDS					YPR160W-A		16	861934	862014	W		2011-02-03	2003-07-29	
+S000028726	ORF	Dubious	YPR160C-A			chromosome 16		16	862861	862577	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032715	CDS					YPR160C-A		16	862861	862577	C		2011-02-03	2003-07-29	
+S000006365	ORF	Verified	YPR161C	SGV1	cyclin-dependent serine/threonine protein kinase SGV1|BUR1	chromosome 16	L000001878	16	866422	864449	C		2011-02-03	1996-07-31	Cyclin (Bur2p)-dependent protein kinase; part of the BUR kinase complex which functions in transcriptional regulation; phosphorylates the carboxy-terminal domain (CTD) of Rpo21p and the C-terminal repeat domain of Spt5p; recruits Spt6p to the CTD at the onset of transcription; regulated by Cak1p; similar to metazoan CDK9 proteins
+S000030002	CDS					YPR161C		16	866422	864449	C		2011-02-03	1996-07-31	
+S000006366	ORF	Verified	YPR162C	ORC4	origin recognition complex subunit 4	chromosome 16	L000003075	16	868304	866715	C		2011-02-03	1996-07-31	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; ORC4 has a paralog, RIF2, that arose from the whole genome duplication
+S000030984	CDS					YPR162C		16	868304	866715	C		2011-02-03	1996-07-31	
+S000006367	ORF	Verified	YPR163C	TIF3	eIF4B|STM1|RBL3	chromosome 16	L000002304	16	869955	868645	C		2011-02-03	1996-07-31	Translation initiation factor eIF-4B; contains an RNA recognition motif and binds to single-stranded RNA; has RNA annealing activity; interacts with Rps20p at the head of the 40S ribosomal subunit and alters the structure of the mRNA entry channel
+S000031085	CDS					YPR163C		16	869955	868645	C		2011-02-03	1996-07-31	
+S000006368	ORF	Verified	YPR164W	MMS1	SLM6|RTT108	chromosome 16	L000003933	16	870703	874926	W		2011-02-03	1996-07-31	Subunit of E3 ubiquitin ligase complex involved in replication repair; stabilizes protein components of the replication fork such as the fork-pausing complex and leading strand polymerase, preventing fork collapse and promoting efficient recovery during replication stress; regulates Ty1 transposition; involved with Rtt101p in nonfunctional rRNA decay
+S000032195	CDS					YPR164W		16	870703	874926	W		2011-02-03	1996-07-31	
+S000006369	ORF	Verified	YPR165W	RHO1	Rho family GTPase RHO1	chromosome 16	L000001630	16	875368	875997	W		2011-02-03	1996-07-31	GTP-binding protein of the rho subfamily of Ras-like proteins; involved in establishment of cell polarity; regulates protein kinase C (Pkc1p) and the cell wall synthesizing enzyme 1,3-beta-glucan synthase (Fks1p and Gsc2p)
+S000032291	CDS					YPR165W		16	875368	875997	W		2011-02-03	1996-07-31	
+S000006370	ORF	Verified	YPR166C	MRP2	mitochondrial 37S ribosomal protein MRP2	chromosome 16	L000001153	16	876629	876282	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000032335	CDS					YPR166C		16	876629	876282	C		2011-02-03	1996-07-31	
+S000006371	ORF	Verified	YPR167C	MET16	phosphoadenylyl-sulfate reductase (thioredoxin)	chromosome 16	L000001087	16	877632	876847	C		2011-02-03	1996-07-31	3'-phosphoadenylsulfate reductase; reduces 3'-phosphoadenylyl sulfate to adenosine-3',5'-bisphosphate and free sulfite using reduced thioredoxin as cosubstrate, involved in sulfate assimilation and methionine metabolism
+S000032426	CDS					YPR167C		16	877632	876847	C		2011-02-03	1996-07-31	
+S000006372	ORF	Verified	YPR168W	NUT2	mediator complex subunit NUT2|MED10	chromosome 16	L000003447|L000004593	16	878076	878549	W		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for transcriptional activation and has a role in basal transcription; protein abundance increases in response to DNA replication stress
+S000034534	CDS					YPR168W		16	878076	878549	W		2011-02-03	1996-07-31	
+S000006373	ORF	Verified	YPR169W	JIP5		chromosome 16		16	878690	880168	W		2011-02-03	1996-07-31|2005-12-01	Protein required for biogenesis of the large ribosomal subunit; required for biogenesis of the large ribosomal subunit; interacts with proteins involved in RNA processing, ribosome biogenesis, ubiquitination and demethylation; similar to WDR55, a human WD repeat protein; essential gene
+S000034622	CDS					YPR169W		16	878690	880168	W		2011-02-03	1996-07-31|2005-12-01	
+S000006612	tRNA_gene		tI(AAU)P2			chromosome 16	L000003729	16	880369	880296	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000035187	noncoding_exon					tI(AAU)P2		16	880369	880296	C		2011-02-03	2000-05-19	
+S000007218	long_terminal_repeat		YPRWsigma4			chromosome 16		16	880386	880726	W		2011-02-03	2000-05-19	Ty3 LTR
+S000118425	ARS		ARS1630		ARSXVI-881	chromosome 16		16	880861	881108			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178203	ARS_consensus_sequence					ARS1630		16	880905	880921	W		2014-11-18	2014-11-18	
+S000007207	long_terminal_repeat		YPRCtau3			chromosome 16		16	881830	881487	C		2011-02-03	2000-05-19	Ty4 LTR
+S000028591	ORF	Dubious	YPR169W-A			chromosome 16		16	883239	883457	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps two other dubious ORFs: YPR170C and YPR170W-B
+S000031363	CDS					YPR169W-A		16	883239	883457	W		2011-02-03	2003-07-29	
+S000028515	ORF	Uncharacterized	YPR170W-B			chromosome 16		16	883239	883595	W		2011-02-03	2003-07-29	Putative protein of unknown function; conserved in fungi; SWAT-GFP fusion protein localizes to the vacuole membrane; partially overlaps the dubious genes YPR169W-A, YPR170W-A and YRP170C
+S000030284	CDS					YPR170W-B		16	883239	883387	W		2011-02-03	2003-07-29	
+S000030285	CDS					YPR170W-B		16	883487	883595	W		2011-02-03	2003-07-29	
+S000030286	intron					YPR170W-B		16	883388	883486	W		2011-02-03	2003-07-29	
+S000006374	ORF	Dubious	YPR170C			chromosome 16		16	883318	882983	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORFs YPR169W-A and YPR170W-B
+S000033271	CDS					YPR170C		16	883318	882983	C		2011-02-03	1996-07-31	
+S000028861	ORF	Dubious	YPR170W-A			chromosome 16		16	883378	883563	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by expression profiling and mass spectrometry
+S000034592	CDS					YPR170W-A		16	883378	883563	W		2011-02-03	2003-07-29	
+S000006375	ORF	Verified	YPR171W	BSP1		chromosome 16		16	883828	885558	W		2011-02-03	1996-07-31	Adapter that links synaptojanins to the cortical actin cytoskeleton; the synaptojanins are Inp52p and Inp53p 
+S000034199	CDS					YPR171W		16	883828	885558	W		2011-02-03	1996-07-31	
+S000006376	ORF	Uncharacterized	YPR172W		pyridoxal 5'-phosphate synthase	chromosome 16		16	885796	886398	W		2011-02-03	1996-07-31	Protein of unknown function; predicted to encode a pyridoxal 5'-phosphate synthase based on sequence similarity but purified protein does not possess this activity, nor does it bind flavin mononucleotide (FMN); transcriptionally activated by Yrm1p along with genes involved in multidrug resistance; YPR172W has a paralog, YLR456W, that arose from the whole genome duplication
+S000034326	CDS					YPR172W		16	885796	886398	W		2011-02-03	1996-07-31	
+S000006377	ORF	Verified	YPR173C	VPS4	AAA family ATPase VPS4|DID6|VPT10|VPL4|GRD13|END13|CSC1	chromosome 16	L000002956	16	887837	886524	C		2011-02-03	1996-07-31	AAA-ATPase involved in multivesicular body (MVB) protein sorting; ATP-bound Vps4p localizes to endosomes and catalyzes ESCRT-III disassembly and membrane release; ATPase activity is activated by Vta1p; regulates cellular sterol metabolism
+S000034362	CDS					YPR173C		16	887837	886524	C		2011-02-03	1996-07-31	
+S000006378	ORF	Verified	YPR174C			chromosome 16		16	888708	888043	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nuclear periphery; potential Cdc28p substrate; binds phosphatidylinositols and phosphatidylethanolamine in a large-scale study; relative distribution to foci at the nuclear periphery increases upon DNA replication stress; YPR174C has a paralog, NBP1, that arose from the whole genome duplication
+S000035379	CDS					YPR174C		16	888708	888043	C		2011-02-03	1996-07-31	
+S000006379	ORF	Verified	YPR175W	DPB2	DNA polymerase epsilon noncatalytic subunit	chromosome 16	L000000519	16	888974	891043	W		2011-02-03	2003-09-22|1996-07-31	Second largest subunit of DNA polymerase II (DNA polymerase epsilon); required for maintenance of fidelity of chromosomal replication; essential motif in C-terminus is required for formation of the four-subunit Pol epsilon; expression peaks at the G1/S phase boundary; Cdc28p substrate
+S000035567	CDS					YPR175W		16	888974	891043	W		2011-02-03	2003-09-22|1996-07-31	
+S000006380	ORF	Verified	YPR176C	BET2	Rab geranylgeranyltransferase BET2	chromosome 16	L000000172	16	892078	891101	C		2011-02-03	1996-07-31	Beta subunit of Type II geranylgeranyltransferase; required for vesicular transport between the endoplasmic reticulum and the Golgi; provides a membrane attachment moiety to Rab-like proteins Ypt1p and Sec4p; human homolog RABGGTB can complement yeast BET2 mutant
+S000035598	CDS					YPR176C		16	892078	891101	C		2011-02-03	1996-07-31	
+S000006382	ORF	Verified	YPR178W	PRP4	U4/U6-U5 snRNP complex subunit PRP4|RNA4	chromosome 16	L000001497	16	892332	893729	W		2011-02-03	1996-07-31	Splicing factor; component of the U4/U6-U5 snRNP complex
+S000036653	CDS					YPR178W		16	892332	893729	W		2011-02-03	1996-07-31	
+S000006381	ORF	Dubious	YPR177C			chromosome 16		16	892684	892313	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the 5' end of the essential PRP4 gene encoding a component of the U4/U6-U5 snRNP complex
+S000036500	CDS					YPR177C		16	892684	892313	C		2011-02-03	1996-07-31	
+S000006383	ORF	Verified	YPR179C	HDA3	PLO1	chromosome 16		16	895764	893797	C		2011-02-03	1996-07-31	Subunit of the HDA1 histone deacetylase complex; possibly tetrameric trichostatin A-sensitive class II histone deacetylase complex contains Hda1p homodimer and an Hda2p-Hda3p heterodimer; required for the activity of the complex; relocalizes to the cytosol in response to hypoxia; similar to Hda2p
+S000036672	CDS					YPR179C		16	895764	893797	C		2011-02-03	1996-07-31	
+S000006384	ORF	Verified	YPR180W	AOS1	E1 ubiquitin-activating protein AOS1|RHC31	chromosome 16	L000004031	16	895961	897004	W		2011-02-03	1996-07-31	Subunit of heterodimeric nuclear SUMO activating enzyme E1 with Uba2p; activates Smt3p (SUMO) before its conjugation to proteins (sumoylation), which may play a role in protein targeting; essential for viability; relocalizes to the cytosol in response to hypoxia
+S000030253	CDS					YPR180W		16	895961	897004	W		2011-02-03	1996-07-31	
+S000006385	ORF	Verified	YPR181C	SEC23	GTPase-activating protein SEC23	chromosome 16	L000001846|S000028412	16	899667	897361	C		2011-02-03	1996-07-31	GTPase-activating protein, stimulates the GTPase activity of Sar1p; component of the Sec23p-Sec24p heterodimer of the COPII vesicle coat, involved in ER to Golgi transport; substrate of Ubp3/Bre5 complex; ubiquitylated by Ub-ligase Rsp5p; proteasome-mediated degradation of Sec23p is regulated by Cdc48p
+S000030311	CDS					YPR181C		16	899667	897361	C		2011-02-03	1996-07-31	
+S000006386	ORF	Verified	YPR182W	SMX3	mRNA splicing protein SMX3|Sm F|SmF	chromosome 16	L000002786	16	900194	900454	W		2011-02-03	1996-07-31	Core Sm protein Sm F; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Smd3p, Sme1p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm F
+S000030535	CDS					YPR182W		16	900194	900454	W		2011-02-03	1996-07-31	
+S000006387	ORF	Verified	YPR183W	DPM1	dolichyl-phosphate beta-D-mannosyltransferase|SED3	chromosome 16	L000000524	16	900755	901558	W		2011-02-03	1996-07-31	Dolichol phosphate mannose (Dol-P-Man) synthase of ER membrane; catalyzes formation of Dol-P-Man from Dol-P and GDP-Man; required for biosynthesis of glycosyl phosphatidylinositol (GPI) membrane anchor, as well as O-mannosylation and protein N- and O-linked glycosylation; human homolog DPM1 can complement yeast mutant strains
+S000031445	CDS					YPR183W		16	900755	901558	W		2011-02-03	1996-07-31	
+S000006388	ORF	Verified	YPR184W	GDB1	bifunctional 4-alpha-glucanotransferase/amylo-alpha-1,6-glucosidase	chromosome 16		16	902044	906654	W		2011-02-03	1996-07-31	Glycogen debranching enzyme; contains glucanotranferase and alpha-1,6-amyloglucosidase activities; required for glycogen degradation; phosphorylated in mitochondria; activity is inhibited by Igd1p; protein abundance increases in response to DNA replication stress
+S000031566	CDS					YPR184W		16	902044	906654	W		2011-02-03	1996-07-31	
+S000006389	ORF	Verified	YPR185W	ATG13	serine/threonine protein kinase regulatory subunit ATG13|APG13	chromosome 16	L000003956	16	907218	909434	W		2011-02-03	1996-07-31	Regulatory subunit of the Atg1p signaling complex; stimulates Atg1p kinase activity; required for vesicle formation during autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; contains a HORMA domain required for autophagy and for recruitment of the phosphatidylinositol 3-kinase complex subunit Atg14p to the pre-autophagosomal structure
+S000031704	CDS					YPR185W		16	907218	909434	W		2011-02-03	1996-07-31	
+S000006390	ORF	Verified	YPR186C	PZF1	TFC2	chromosome 16	L000002286|L000001544	16	911022	909733	C		2011-02-03	1996-07-31	Transcription factor IIIA (TFIIIA); essential DNA binding protein required for transcription of 5S rRNA by RNA polymerase III; not involved in transcription of other RNAP III genes; nine conserved zinc fingers; may also bind 5S rRNA
+S000032601	CDS					YPR186C		16	911022	909733	C		2011-02-03	1996-07-31	
+S000006391	ORF	Verified	YPR187W	RPO26	DNA-directed RNA polymerase core subunit RPO26|ABC23|RPB6	chromosome 16	L000001745	16	911257	911800	W		2011-02-03	1996-07-31	RNA polymerase subunit ABC23; common to RNA polymerases I, II, and III; part of central core; similar to bacterial omega subunit
+S000032734	CDS					YPR187W		16	911257	911276	W		2011-02-03	1996-07-31	
+S000032735	CDS					YPR187W		16	911353	911800	W		2011-02-03	1996-07-31	
+S000032736	intron					YPR187W		16	911277	911352	W		2011-02-03	1996-07-31	
+S000006392	ORF	Verified	YPR188C	MLC2		chromosome 16	S000007532	16	912479	911988	C		2011-02-03	1996-07-31	Regulatory light chain for the type II myosin Myo1p; binds to an IQ motif of Myo1p, localization to the bud neck depends on Myo1p; involved in the disassembly of the Myo1p ring
+S000032770	CDS					YPR188C		16	912479	911988	C		2011-02-03	1996-07-31	
+S000006393	ORF	Verified	YPR189W	SKI3	SKI complex subunit tetratricopeptide repeat protein SKI3|SKI5	chromosome 16	L000001904	16	912664	916962	W		2011-02-03	1996-07-31	Ski complex component and TPR protein; mediates 3'-5' RNA degradation by the cytoplasmic exosome; null mutants have superkiller phenotype of increased viral dsRNAs and are synthetic lethal with mutations in 5'-3' mRNA decay; mutations in the human ortholog, TTC37, causes Syndromic diarrhea/Trichohepatoenteric (SD/THE) syndrome
+S000034826	CDS					YPR189W		16	912664	916962	W		2011-02-03	1996-07-31	
+S000006394	ORF	Verified	YPR190C	RPC82	DNA-directed RNA polymerase III subunit C82|RPC80|RPC3	chromosome 16	L000001693|S000029422|L000001692	16	919041	917077	C		2011-02-03	1996-07-31	RNA polymerase III subunit C82
+S000033015	CDS					YPR190C		16	919041	917077	C		2011-02-03	1996-07-31	
+S000006395	ORF	Verified	YPR191W	QCR2	ubiquinol--cytochrome-c reductase subunit 2|UCR2|COR2	chromosome 16	L000001545	16	919381	920487	W		2011-02-03	1996-07-31	Subunit 2 of ubiquinol cytochrome-c reductase (Complex III); Complex III is a component of the mitochondrial inner membrane electron transport chain; phosphorylated; transcription is regulated by Hap1p, Hap2p/Hap3p, and heme
+S000033835	CDS					YPR191W		16	919381	920487	W		2011-02-03	1996-07-31	
+S000006396	ORF	Verified	YPR192W	AQY1		chromosome 16	L000004720	16	921860	922777	W		2011-02-03	1996-07-31	Spore-specific water channel; mediates the transport of water across cell membranes, developmentally controlled; may play a role in spore maturation, probably by allowing water outflow, may be involved in freeze tolerance
+S000033980	CDS					YPR192W		16	921860	922777	W		2011-02-03	1996-07-31	
+S000006397	ORF	Verified	YPR193C	HPA2	histone acetyltransferase|KAT10	chromosome 16	L000004379	16	923379	922909	C		2011-02-03	1996-07-31	Tetrameric histone acetyltransferase; has similarity to Gcn5p, Hat1p, Elp3p, and Hpa3p; acetylates histones H3 and H4 in vitro and exhibits autoacetylation activity; also acetylates polyamines
+S000034022	CDS					YPR193C		16	923379	922909	C		2011-02-03	1996-07-31	
+S000006398	ORF	Verified	YPR194C	OPT2		chromosome 16		16	926937	924304	C		2011-02-03	1996-07-31	Oligopeptide transporter; localized to peroxisomes and affects glutathione redox homeostasis; also localizes to the plasma membrane (PM) and to the late Golgi, and has a role in maintenance of lipid asymmetry between the inner and outer leaflets of the PM; member of the OPT family, with potential orthologs in S. pombe and C. albicans; also plays a role in formation of mature vacuoles and in polarized cell growth
+S000034902	CDS					YPR194C		16	926937	924304	C		2011-02-03	1996-07-31	
+S000006399	ORF	Dubious	YPR195C			chromosome 16		16	928294	927965	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035080	CDS					YPR195C		16	928294	927965	C		2011-02-03	1996-07-31	
+S000006400	ORF	Uncharacterized	YPR196W		putative maltose-responsive transcription factor	chromosome 16		16	931376	932788	W		2011-02-03	1996-07-31	Putative maltose-responsive transcription factor
+S000036124	CDS					YPR196W		16	931376	932788	W		2011-02-03	1996-07-31	
+S000118426	ARS		ARS1631		ARSXVI-933	chromosome 16		16	932983	933229			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178204	ARS_consensus_sequence					ARS1631		16	933165	933149	C		2014-11-18	2014-11-18	
+S000007219	long_terminal_repeat		YPRWtau4			chromosome 16		16	933071	933404	W		2011-02-03	2000-05-19	Ty4 LTR
+S000006402	ORF	Verified	YPR198W	SGE1	NOR1	chromosome 16	L000001876	16	934034	935665	W	84.8	2011-02-03	1996-07-31	Plasma membrane multidrug transporter; member of the major facilitator superfamily; acts as an extrusion permease; partial multicopy suppressor of gal11 mutations
+S000036370	CDS					YPR198W		16	934034	935665	W		2011-02-03	1996-07-31	
+S000006401	ORF	Dubious	YPR197C			chromosome 16		16	934461	933898	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SGE1/YPR198W
+S000036181	CDS					YPR197C		16	934461	933898	C		2011-02-03	1996-07-31	
+S000006403	ORF	Verified	YPR199C	ARR1	ACR1|YAP8	chromosome 16	L000004292	16	939032	938148	C		2011-02-03	1996-07-31	Transcriptional activator of the basic leucine zipper (bZIP) family; required for transcription of genes involved in resistance to arsenic compounds; directly binds trivalent arsenic (As(III)) as does K. lactis ortholog, KIYAP8
+S000036409	CDS					YPR199C		16	939032	938148	C		2011-02-03	1996-07-31	
+S000006404	ORF	Verified	YPR200C	ARR2	ACR2	chromosome 16	L000004293|L000004290	16	939671	939279	C		2011-02-03	1996-07-31	Arsenate reductase required for arsenate resistance; converts arsenate to arsenite which can then be exported from cells by Arr3p
+S000034447	CDS					YPR200C		16	939671	939279	C		2011-02-03	1996-07-31	
+S000006405	ORF	Verified	YPR201W	ARR3	ACR3	chromosome 16	L000004323	16	939922	941136	W		2011-02-03	1996-07-31	Plasma membrane metalloid/H+ antiporter; member of bile/arsenite/riboflavin transporter (BART) superfamily; transports arsenite and antimonite; required for resistance to arsenic compounds; transcription is activated by Arr1p in the presence of arsenite
+S000034611	CDS					YPR201W		16	939922	941136	W		2011-02-03	1996-07-31	
+S000130202	ARS		ARS1632			chromosome 16		16	942084	943032			2011-02-03	2009-05-08	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000029002	telomere		TEL16R			chromosome 16		16	942396	948010	W	106	2011-02-03	2003-09-09|2011-02-03	Telomeric region on the right arm of Chromosome XVI; annotated components include an X element core sequence and a short Y' element; TEL16R does have telomeric repeats (TEL16R-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
+S000029003	X_element					TEL16R		16	942396	942771	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome XVI; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000029004	Y_prime_element					TEL16R		16	942810	948010	W		2011-02-03	2003-09-09|2011-02-03	Telomeric short Y' element on the right arm of Chromosome XVI; contains an ARS consensus sequence, a region of 36-bp repeats, and four ORFs YPR202W, YPR203W, YPR204W, and YPR204C-A
+S000006406	ORF	Uncharacterized	YPR202W			chromosome 16		16	943032	943896	W		2011-02-03	1996-07-31	Putative protein of unknown function; similar to telomere-encoded helicases; down-regulated at low calcium levels; YPR202W is not an essential gene; transcript is predicted to be spliced but there is no evidence that it is spliced in vivo
+S000034726	CDS					YPR202W		16	943032	943050	W		2011-02-03	1996-07-31	
+S000034727	CDS					YPR202W		16	943199	943896	W		2011-02-03	1996-07-31	
+S000034728	intron					YPR202W		16	943051	943198	W		2011-02-03	1996-07-31	
+S000006407	ORF	Uncharacterized	YPR203W			chromosome 16		16	943880	944188	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000035720	CDS					YPR203W		16	943880	944188	W		2011-02-03	1996-07-31	
+S000006408	ORF	Verified	YPR204W		Y' -Help1|Y' element ATP-dependent helicase	chromosome 16		16	944603	947701	W		2011-02-03	1996-07-31	DNA helicase encoded within the telomeric Y' element; Y' -helicase protein 1
+S000035834	CDS					YPR204W		16	944603	947701	W		2011-02-03	1996-07-31	
+S000028727	ORF	Dubious	YPR204C-A			chromosome 16		16	947338	946856	C		2011-02-03	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032717	CDS					YPR204C-A		16	947338	946856	C		2011-02-03	2003-07-29	
+S000007328	tRNA_gene		tP(UGG)Q			chromosome 17	L000004903	17	731	802	W		2000-05-19	2000-05-19	Mitochondrial proline tRNA (tRNA-Pro)
+S000036040	noncoding_exon					tP(UGG)Q		17	731	802	W		2000-05-19	2000-05-19	
+S000007257	ORF	Dubious	Q0010		ORF6	chromosome 17	L000004921	17	3952	4338	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF Q0017
+S000036184	CDS					Q0010		17	3952	4338	W		2000-05-19	2000-05-19	
+S000007258	ORF	Dubious	Q0017		ORF7	chromosome 17	L000004922	17	4254	4415	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF Q0010
+S000036188	CDS					Q0017		17	4254	4415	W		2000-05-19	2000-05-19	
+S000029667	origin_of_replication		ORI1	ORI1		chromosome 17	L000001308	17	4312	4012	C		2014-11-18	2014-11-18	Mitochondrial origin of replication
+S000007287	rRNA_gene		Q0020	15S_RRNA	14s rRNA|15S_RRNA_2	chromosome 17	L000004882	17	6546	8194	W		2000-05-19	2000-05-19	Ribosomal RNA of the small mitochondrial ribosomal subunit; MSU1 allele suppresses ochre stop mutations in mitochondrial protein-coding genes
+S000037488	noncoding_exon					Q0020		17	6546	8194	W		2000-05-19	2000-05-19	
+S000007337	tRNA_gene		tW(UCA)Q			chromosome 17	L000004912	17	9374	9447	W		2000-05-19	2000-05-19	Mitochondrial tRNA, annotated as tryptophanyl tRNA (tRNA-Trp); predicted by tRNAscan-SE analysis to have specificity for selenocysteine
+S000031464	noncoding_exon					tW(UCA)Q		17	9374	9447	W		2000-05-19	2000-05-19	
+S000007259	ORF	Dubious	Q0032		ORF8	chromosome 17	L000004923	17	11667	11957	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036376	CDS					Q0032		17	11667	11957	W		2000-05-19	2000-05-19	
+S000029331	origin_of_replication		ORI8	ORI8		chromosome 17	L000003958	17	12780	12510	C		2014-11-18	2014-11-18	Mitochondrial origin of replication
+S000007261	ORF	Verified	Q0050	AI1	intron-encoded reverse transcriptase aI1	chromosome 17	L000000066|L000004925	17	13818	16322	W		2000-05-19	2000-05-19	Reverse transcriptase required for splicing of the COX1 pre-mRNA; encoded by a mobile group II intron within the mitochondrial COX1 gene
+S000037112	CDS					Q0050		17	13818	16322	W		2000-05-19	2000-05-19	
+S000007262	ORF	Verified	Q0055	AI2	intron-encoded reverse transcriptase aI2	chromosome 17	L000004926|L000000067	17	13818	18830	W		2000-05-19	2000-05-19	Reverse transcriptase required for splicing of the COX1 pre-mRNA; encoded by a mobile group II intron within the mitochondrial COX1 gene
+S000037125	CDS					Q0055		17	13818	13986	W		2000-05-19	2000-05-19	
+S000037126	CDS					Q0055		17	16435	18830	W		2000-05-19	2000-05-19	
+S000037127	intron					Q0055		17	13987	16434	W		2000-05-19	2000-05-19	
+S000007263	ORF	Verified	Q0060	AI3	intron-encoded DNA endonuclease aI3|I-SceIII	chromosome 17	L000004927|L000000068	17	13818	19996	W		2000-05-19	2000-05-19|2006-01-12	Endonuclease I-SceIII; encoded by a mobile group I intron within the mitochondrial COX1 gene
+S000037203	CDS					Q0060		17	13818	13986	W		2000-05-19	2000-05-19	
+S000114045	CDS					Q0060		17	16435	16470	W		2006-01-12	2006-01-12	
+S000037204	CDS					Q0060		17	18954	19996	W		2000-05-19	2000-05-19	
+S000037205	intron					Q0060		17	13987	16434	W		2006-01-12	2000-05-19|2006-01-12	
+S000114046	intron					Q0060		17	16471	18953	W		2006-01-12	2006-01-12	
+S000007264	ORF	Verified	Q0065	AI4	intron-encoded DNA endonuclease aI4|I-SceII	chromosome 17	L000004928|L000004885	17	13818	21935	W		2000-05-19	2000-05-19|2006-01-12	Endonuclease I-SceII; encoded by a mobile group I intron within the mitochondrial COX1 gene; intron is normally spliced by the BI4p maturase but AI4p can mutate to acquire the same maturase activity
+S000037224	CDS					Q0065		17	13818	13986	W		2000-05-19	2000-05-19	
+S000114047	CDS					Q0065		17	16435	16470	W		2006-01-12	2006-01-12	
+S000037225	CDS					Q0065		17	18954	18991	W		2000-05-19	2000-05-19	
+S000037226	CDS					Q0065		17	20508	21935	W		2000-05-19	2000-05-19	
+S000037227	intron					Q0065		17	13987	16434	W		2006-01-12	2000-05-19|2006-01-12	
+S000114048	intron					Q0065		17	16471	18953	W		2006-01-12	2006-01-12	
+S000037228	intron					Q0065		17	18992	20507	W		2000-05-19	2000-05-19	
+S000007265	ORF	Verified	Q0070	AI5_ALPHA	intron-encoded DNA endonuclease aI5 alpha	chromosome 17	L000004929|L000004886	17	13818	23167	W		2000-05-19	2000-05-19	Endonuclease I-SceIV; involved in intron mobility; encoded by a mobile group I intron within the mitochondrial COX1 gene
+S000029861	CDS					Q0070		17	13818	13986	W		2000-05-19	2000-05-19	
+S000029862	CDS					Q0070		17	16435	16470	W		2000-05-19	2000-05-19	
+S000029863	CDS					Q0070		17	18954	18991	W		2000-05-19	2000-05-19	
+S000029864	CDS					Q0070		17	20508	20984	W		2000-05-19	2000-05-19	
+S000029865	CDS					Q0070		17	21995	23167	W		2000-05-19	2000-05-19	
+S000029866	intron					Q0070		17	13987	16434	W		2000-05-19	2000-05-19	
+S000029867	intron					Q0070		17	16471	18953	W		2000-05-19	2000-05-19	
+S000029868	intron					Q0070		17	18992	20507	W		2000-05-19	2000-05-19	
+S000029869	intron					Q0070		17	20985	21994	W		2000-05-19	2000-05-19	
+S000007260	ORF	Verified	Q0045	COX1	cytochrome c oxidase subunit 1|OXI3	chromosome 17	L000004924|L000000383|L000001321	17	13818	26701	W		2000-05-19	2000-05-19	Subunit I of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain; one of three mitochondrially-encoded subunits
+S000037020	CDS					Q0045		17	13818	13986	W		2000-05-19	2000-05-19	
+S000037021	CDS					Q0045		17	16435	16470	W		2000-05-19	2000-05-19	
+S000037022	CDS					Q0045		17	18954	18991	W		2000-05-19	2000-05-19	
+S000037023	CDS					Q0045		17	20508	20984	W		2000-05-19	2000-05-19	
+S000037024	CDS					Q0045		17	21995	22246	W		2000-05-19	2000-05-19	
+S000037025	CDS					Q0045		17	23612	23746	W		2000-05-19	2000-05-19	
+S000037026	CDS					Q0045		17	25318	25342	W		2000-05-19	2000-05-19	
+S000037027	CDS					Q0045		17	26229	26701	W		2000-05-19	2000-05-19	
+S000037028	intron					Q0045		17	13987	16434	W		2000-05-19	2000-05-19	
+S000037029	intron					Q0045		17	16471	18953	W		2000-05-19	2000-05-19	
+S000037030	intron					Q0045		17	18992	20507	W		2000-05-19	2000-05-19	
+S000037031	intron					Q0045		17	20985	21994	W		2000-05-19	2000-05-19	
+S000037032	intron					Q0045		17	22247	23611	W		2000-05-19	2000-05-19	
+S000037033	intron					Q0045		17	23747	25317	W		2000-05-19	2000-05-19	
+S000037034	intron					Q0045		17	25343	26228	W		2000-05-19	2000-05-19	
+S000007266	ORF	Uncharacterized	Q0075	AI5_BETA	intron-encoded DNA endonuclease aI5 beta	chromosome 17	L000004887|L000004930	17	24156	25255	W		2000-05-19	2000-05-19	Protein of unknown function; encoded within an intron of the mitochondrial COX1 gene; translational initiation codon is predicted to be ATA rather than ATG
+S000029881	CDS					Q0075		17	24156	24870	W		2000-05-19	2000-05-19	
+S000029882	CDS					Q0075		17	24906	25255	W		2000-05-19	2000-05-19	
+S000029883	intron					Q0075		17	24871	24905	W		2000-05-19	2000-05-19	
+S000007267	ORF	Verified	Q0080	ATP8	F1F0 ATP synthase subunit 8|AAP1	chromosome 17	L000004931|L000002723|L000002797	17	27666	27812	W		2000-05-19	2000-05-19	Subunit 8 of the F0 sector of mitochondrial F1F0 ATP synthase; encoded on the mitochondrial genome; ATP8 and ATP6 mRNAs are not translated in the absence of the F1 sector of ATPase
+S000029967	CDS					Q0080		17	27666	27812	W		2000-05-19	2000-05-19	
+S000007268	ORF	Verified	Q0085	ATP6	F1F0 ATP synthase subunit a|PHO1|OLI4|OLI2	chromosome 17	L000004932|L000001300|L000002722|L000001418|L000001299	17	28487	29266	W		2000-05-19	2000-05-19	Subunit a of the F0 sector of mitochondrial F1F0 ATP synthase; mitochondrially encoded; translation is specifically activated by Atp22p; ATP6 and ATP8 mRNAs are not translated in the absence of the F1 sector of ATPase; mutations in human ortholog MT-ATP6 are associated with neurodegenerative disorders such as Neurogenic Ataxia and Retinitis Pigmentosa (NARP), Leigh syndrome (LS), Charcot-Marie-Tooth (CMT), and ataxia telangiectasia
+S000029982	CDS					Q0085		17	28487	29266	W		2000-05-19	2000-05-19	
+S000029673	origin_of_replication		ORI7	ORI7		chromosome 17	L000001314	17	30220	30594	W		2014-11-18	2014-11-18	Mitochondrial origin of replication
+S000007269	ORF	Dubious	Q0092		ORF5	chromosome 17	L000004933	17	30874	31014	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030082	CDS					Q0092		17	30874	31014	W		2000-05-19	2000-05-19	
+S000029668	origin_of_replication		ORI2	ORI2		chromosome 17	L000001309	17	32231	32501	W		2014-11-18	2014-11-18	Mitochondrial origin of replication
+S000007318	tRNA_gene		tE(UUC)Q			chromosome 17	L000004893	17	35373	35444	W		2000-05-19	2000-05-19	Mitochondrial glutamate tRNA (tRNA-Glu); predicted by tRNAscan-SE analysis
+S000036036	noncoding_exon					tE(UUC)Q		17	35373	35444	W		2000-05-19	2000-05-19	
+S000007271	ORF	Verified	Q0110	BI2	cytochrome b mRNA maturase bI2	chromosome 17	L000004935|L000004888	17	36540	38579	W		2000-05-19	2000-05-19	Mitochondrial mRNA maturase with a role in splicing; encoded by both exon and intron sequences of partially processed COB mRNA
+S000031214	CDS					Q0110		17	36540	36954	W		2000-05-19	2000-05-19	
+S000031215	CDS					Q0110		17	37723	38579	W		2000-05-19	2000-05-19	
+S000031216	intron					Q0110		17	36955	37722	W		2000-05-19	2000-05-19	
+S000007272	ORF	Verified	Q0115	BI3	cytochrome b mRNA maturase bI3	chromosome 17	L000004936|L000000176	17	36540	40265	W		2000-05-19	2000-05-19	Mitochondrial mRNA maturase; forms a complex with Mrs1p to mediate splicing of the bI3 intron of the COB gene; encoded by both exon and intron sequences of partially processed COB mRNA
+S000031224	CDS					Q0115		17	36540	36954	W		2000-05-19	2000-05-19	
+S000031225	CDS					Q0115		17	37723	37736	W		2000-05-19	2000-05-19	
+S000031226	CDS					Q0115		17	39141	40265	W		2000-05-19	2000-05-19	
+S000031227	intron					Q0115		17	36955	37722	W		2000-05-19	2000-05-19	
+S000031228	intron					Q0115		17	37737	39140	W		2000-05-19	2000-05-19	
+S000007273	ORF	Verified	Q0120	BI4	intron-encoded RNA maturase bI4	chromosome 17	L000000177|L000004937	17	36540	42251	W		2000-05-19	2000-05-19	Mitochondrial mRNA maturase; forms a complex with Nam2p to mediate splicing of the bI4 intron of the COB gene; encoded by both exon and intron sequences of partially processed COB mRNA
+S000032184	CDS					Q0120		17	36540	36954	W		2000-05-19	2000-05-19	
+S000032185	CDS					Q0120		17	37723	37736	W		2000-05-19	2000-05-19	
+S000032186	CDS					Q0120		17	39141	39217	W		2000-05-19	2000-05-19	
+S000032187	CDS					Q0120		17	40841	42251	W		2000-05-19	2000-05-19	
+S000032188	intron					Q0120		17	36955	37722	W		2000-05-19	2000-05-19	
+S000032189	intron					Q0120		17	37737	39140	W		2000-05-19	2000-05-19	
+S000032190	intron					Q0120		17	39218	40840	W		2000-05-19	2000-05-19	
+S000007270	ORF	Verified	Q0105	COB	cytochrome b|CYTB|COB1	chromosome 17	L000004934|L000000376	17	36540	43647	W		2000-05-19	2000-05-19	Cytochrome b; mitochondrially encoded subunit of the ubiquinol-cytochrome c reductase complex which includes Cobp, Rip1p, Cyt1p, Cor1p, Qcr2p, Qcr6p, Qcr7p, Qcr8p, Qcr9p, and Qcr10p
+S000031165	CDS					Q0105		17	36540	36954	W		2000-05-19	2000-05-19	
+S000031166	CDS					Q0105		17	37723	37736	W		2000-05-19	2000-05-19	
+S000031167	CDS					Q0105		17	39141	39217	W		2000-05-19	2000-05-19	
+S000031168	CDS					Q0105		17	40841	41090	W		2000-05-19	2000-05-19	
+S000031169	CDS					Q0105		17	42508	42558	W		2000-05-19	2000-05-19	
+S000031170	CDS					Q0105		17	43297	43647	W		2000-05-19	2000-05-19	
+S000031171	intron					Q0105		17	36955	37722	W		2000-05-19	2000-05-19	
+S000031172	intron					Q0105		17	37737	39140	W		2000-05-19	2000-05-19	
+S000031173	intron					Q0105		17	39218	40840	W		2000-05-19	2000-05-19	
+S000031174	intron					Q0105		17	41091	42507	W		2000-05-19	2000-05-19	
+S000031175	intron					Q0105		17	42559	43296	W		2000-05-19	2000-05-19	
+S000029672	origin_of_replication		ORI6	ORI6		chromosome 17	L000001313	17	45227	47927	W		2014-11-18	2014-11-18	Mitochondrial origin of replication
+S000007274	ORF	Verified	Q0130	OLI1	F0 ATP synthase subunit c|OLI3|ATP9	chromosome 17	L000004938|L000001298|L000002724	17	46723	46953	W		2000-05-19	2000-05-19	F0-ATP synthase subunit c (ATPase-associated proteolipid); encoded on the mitochondrial genome; mutation confers oligomycin resistance; expression is specifically dependent on the nuclear genes AEP1 and AEP2
+S000032266	CDS					Q0130		17	46723	46953	W		2000-05-19	2000-05-19	
+S000007333	tRNA_gene		tS(UGA)Q2			chromosome 17	L000004908	17	48201	48290	W		2000-05-19	2000-05-19	Mitochondrial serine tRNA (tRNA-Ser); predicted by tRNAscan-SE analysis
+S000031361	noncoding_exon					tS(UGA)Q2		17	48201	48290	W		2000-05-19	2000-05-19	
+S000007275	ORF	Verified	Q0140	VAR1	mitochondrial 37S ribosomal protein VAR1|VARI	chromosome 17	L000004939|L000002456|L000002455	17	48901	50097	W		2000-05-19	2000-05-19	Mitochondrial ribosomal protein of the small subunit; mitochondrially-encoded; polymorphic in different strains due to variation in number of AAT (asparagine) codons; translated near the mitochondrial inner membrane; may have a role in loss of mitochondrial DNA under stress conditions
+S000032355	CDS					Q0140		17	48901	50097	W		2000-05-19	2000-05-19	
+S000007276	ORF	Dubious	Q0142		ORF9	chromosome 17	L000004940	17	51052	51228	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps dubious open reading frame Q0143
+S000032370	CDS					Q0142		17	51052	51228	W		2000-05-19	2000-05-19	
+S000007277	ORF	Dubious	Q0143		ORF10	chromosome 17	L000004941	17	51277	51429	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032373	CDS					Q0143		17	51277	51429	W		2000-05-19	2000-05-19	
+S000007278	ORF	Dubious	Q0144			chromosome 17	L000004942	17	54109	54438	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032378	CDS					Q0144		17	54109	54438	W		2000-05-19	2000-05-19	
+S000029669	origin_of_replication		ORI3	ORI3		chromosome 17	L000001310	17	54840	54567	C		2014-11-18	2014-11-18	Mitochondrial origin of replication
+S000029670	origin_of_replication		ORI4	ORI4		chromosome 17	L000001311	17	56832	56567	C		2014-11-18	2014-11-18	Mitochondrial origin of replication
+S000007288	rRNA_gene		Q0158	21S_RRNA	21S_rRNA_4|21S_rRNA_3	chromosome 17	L000004883	17	58009	62447	W		2000-05-19	2000-05-19	Mitochondrial 21S rRNA; intron encodes the I-SceI DNA endonuclease
+S000034078	intron					Q0158		17	60725	61867	W		2000-05-19	2000-05-19	
+S000034076	noncoding_exon					Q0158		17	58009	60724	W		2000-05-19	2000-05-19	
+S000034077	noncoding_exon					Q0158		17	61868	62447	W		2000-05-19	2000-05-19	
+S000007279	ORF	Verified	Q0160	SCEI	intron-encoded endonuclease I-SceI|I-SceIV|OMEGA	chromosome 17	L000004889|L000001858	17	61022	61729	W		2000-05-19	2000-05-19	I-SceI DNA endonuclease; encoded by the mitochondrial group I intron of the 21S_rRNA gene; mediates gene conversion that propagates the intron into intron-less copies of the 21S_rRNA gene
+S000033285	CDS					Q0160		17	61022	61729	W		2000-05-19	2000-05-19	
+S000007334	tRNA_gene		tT(UGU)Q1			chromosome 17	L000004909	17	63862	63937	W		2000-05-19	2000-05-19	Mitochondrial threonine tRNA (tRNA-Thr); predicted by tRNAscan-SE analysis
+S000033404	noncoding_exon					tT(UGU)Q1		17	63862	63937	W		2000-05-19	2000-05-19	
+S000007316	tRNA_gene		tC(GCA)Q			chromosome 17	L000004891	17	64415	64490	W		2000-05-19	2000-05-19	Mitochondrial cysteine tRNA (tRNA-Cys)
+S000035255	noncoding_exon					tC(GCA)Q		17	64415	64490	W		2000-05-19	2000-05-19	
+S000007321	tRNA_gene		tH(GUG)Q			chromosome 17	L000004896	17	64596	64670	W		2000-05-19	2000-05-19	Mitochondrial histidine tRNA (tRNA-His); predicted by tRNAscan-SE analysis
+S000033926	noncoding_exon					tH(GUG)Q		17	64596	64670	W		2000-05-19	2000-05-19	
+S000007280	ORF	Dubious	Q0182		ORF11	chromosome 17	L000004944	17	65770	66174	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034264	CDS					Q0182		17	65770	66174	W		2000-05-19	2000-05-19	
+S000007324	tRNA_gene		tL(UAA)Q			chromosome 17	L000004899	17	66095	66179	W		2000-05-19	2000-05-19	Mitochondrial leucine tRNA (tRNA-Leu); predicted by tRNAscan-SE analysis; required for mitochondrial translation and indirectly for maintenance of the mitochondrial genome; mutations in the orthologous human gene cause the neurological disease MELAS
+S000037434	noncoding_exon					tL(UAA)Q		17	66095	66179	W		2000-05-19	2000-05-19	
+S000007329	tRNA_gene		tQ(UUG)Q			chromosome 17	L000004904	17	66210	66285	W		2000-05-19	2000-05-19	Mitochondrial glutamine tRNA (tRNA-Gln); predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000032591	noncoding_exon					tQ(UUG)Q		17	66210	66285	W		2000-05-19	2000-05-19	
+S000007323	tRNA_gene		tK(UUU)Q			chromosome 17	L000004898	17	67061	67134	W		2000-05-19	2000-05-19	Mitochondrial lysine tRNA (tRNA-Lys); predicted by tRNAscan-SE analysis; modification of wobble base U34 is decreased at elevated temperatures, decreasing ability to decode AAG codons; this function is performed at high temperature by imported cytoplasmic tRNA-Lys with CUU anticodon
+S000034232	noncoding_exon					tK(UUU)Q		17	67061	67134	W		2000-05-19	2000-05-19	
+S000007331	tRNA_gene		tR(UCU)Q1			chromosome 17	L000004906	17	67309	67381	W		2000-05-19	2000-05-19	Mitochondrial arginine tRNA (tRNA-Arg); predicted by tRNAscan-SE analysis
+S000032809	noncoding_exon					tR(UCU)Q1		17	67309	67381	W		2000-05-19	2000-05-19	
+S000007320	tRNA_gene		tG(UCC)Q			chromosome 17	L000004895	17	67468	67542	W		2000-05-19	2000-05-19	Mitochondrial glycine tRNA (tRNA-Gly); predicted by tRNAscan-SE analysis
+S000037571	noncoding_exon					tG(UCC)Q		17	67468	67542	W		2000-05-19	2000-05-19	
+S000007317	tRNA_gene		tD(GUC)Q			chromosome 17	L000004892	17	68322	68396	W		2000-05-19	2000-05-19	Mitochondrial aspartate tRNA (tRNA-Asp); predicted by tRNAscan-SE analysis
+S000030428	noncoding_exon					tD(GUC)Q		17	68322	68396	W		2000-05-19	2000-05-19	
+S000007332	tRNA_gene		tS(GCU)Q1			chromosome 17	L000004907	17	69203	69288	W		2000-05-19	2000-05-19	Mitochondrial serine tRNA (tRNA-Ser); predicted by tRNAscan-SE analysis
+S000030614	noncoding_exon					tS(GCU)Q1		17	69203	69288	W		2000-05-19	2000-05-19	
+S000007330	tRNA_gene		tR(ACG)Q2			chromosome 17	L000004905	17	69289	69362	W		2000-05-19	2000-05-19	Mitochondrial arginine tRNA (tRNA-Arg); predicted by tRNAscan-SE analysis
+S000034929	noncoding_exon					tR(ACG)Q2		17	69289	69362	W		2000-05-19	2000-05-19	
+S000007315	tRNA_gene		tA(UGC)Q			chromosome 17	L000004890	17	69846	69921	W		2000-05-19	2000-05-19	Mitochondrial alanine tRNA (tRNA-Ala); predicted by tRNAscan-SE analysis
+S000034925	noncoding_exon					tA(UGC)Q		17	69846	69921	W		2000-05-19	2000-05-19	
+S000007322	tRNA_gene		tI(GAU)Q			chromosome 17	L000004897	17	70162	70237	W		2000-05-19	2000-05-19	Mitochondrial isoleucine tRNA (tRNA-Ile); predicted by tRNAscan-SE analysis; mutations in human ortholog are linked to conditions such as progressive encephalopathy, metabolic syndrome, and hypomagnesaemia
+S000036091	noncoding_exon					tI(GAU)Q		17	70162	70237	W		2000-05-19	2000-05-19	
+S000007338	tRNA_gene		tY(GUA)Q			chromosome 17	L000004913	17	70824	70907	W		2000-05-19	2000-05-19	Mitochondrial tyrosine tRNA (tRNA-Tyr)
+S000034742	noncoding_exon					tY(GUA)Q		17	70824	70907	W		2000-05-19	2000-05-19	
+S000007327	tRNA_gene		tN(GUU)Q			chromosome 17	L000004902	17	71433	71503	W		2000-05-19	2000-05-19	Mitochondrial asparagine tRNA (tRNA-Asn); predicted by tRNAscan-SE analysis
+S000030750	noncoding_exon					tN(GUU)Q		17	71433	71503	W		2000-05-19	2000-05-19	
+S000007325	tRNA_gene		tM(CAU)Q1			chromosome 17	L000004900	17	72630	72705	W		2000-05-19	2000-05-19	Mitochondrial methionine tRNA (tRNA-Met); predicted by tRNAscan-SE analysis
+S000032341	noncoding_exon					tM(CAU)Q1		17	72630	72705	W		2000-05-19	2000-05-19	
+S000007281	ORF	Verified	Q0250	COX2	cytochrome c oxidase subunit 2|OXII|OXI1	chromosome 17	L000004945|L000000384|L000001322|L000003004	17	73758	74513	W		2000-05-19	2000-05-19	Subunit II of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain; one of three mitochondrially-encoded subunits
+S000036455	CDS					Q0250		17	73758	74513	W		2000-05-19	2000-05-19	
+S000007282	ORF	Uncharacterized	Q0255		maturase-like protein|RF1|ORF1	chromosome 17	L000004946	17	74495	75984	W		2000-05-19	2000-05-19	Maturase-like protein
+S000036463	CDS					Q0255		17	74495	75622	W		2000-05-19	2000-05-19	
+S000036464	CDS					Q0255		17	75663	75872	W		2000-05-19	2000-05-19	
+S000036465	CDS					Q0255		17	75904	75984	W		2000-05-19	2000-05-19	
+S000036466	intron					Q0255		17	75623	75662	W		2000-05-19	2000-05-19	
+S000036467	intron					Q0255		17	75873	75903	W		2000-05-19	2000-05-19	
+S000007319	tRNA_gene		tF(GAA)Q			chromosome 17	L000004894	17	77431	77505	W		2000-05-19	2000-05-19	Mitochondrial phenylalanine tRNA (tRNA-Phe); predicted by tRNAscan-SE analysis
+S000035453	noncoding_exon					tF(GAA)Q		17	77431	77505	W		2000-05-19	2000-05-19	
+S000007335	tRNA_gene		tT(UAG)Q2		tT(XXX)Q2	chromosome 17	L000004910	17	78162	78089	C		2000-05-19	2000-05-19	Mitochondrial threonine tRNA (tRNA-Thr); decodes CUA codons as threonine rather than leucine; has an unusual enlarged 8-nt anticodon loop; may be evolutionarily derived from mitochondrial tRNA-His; conserved in some genera of budding yeasts
+S000032409	noncoding_exon					tT(UAG)Q2		17	78162	78089	C		2000-05-19	2000-05-19	
+S000007336	tRNA_gene		tV(UAC)Q			chromosome 17	L000004911	17	78533	78608	W		2000-05-19	2000-05-19	Mitochondrial valine tRNA (tRNA-Val); predicted by tRNAscan-SE analysis
+S000036325	noncoding_exon					tV(UAC)Q		17	78533	78608	W		2000-05-19	2000-05-19	
+S000007283	ORF	Verified	Q0275	COX3	cytochrome c oxidase subunit 3|OXI2	chromosome 17	L000004947|L000000385|L000001320	17	79213	80022	W		2000-05-19	2000-05-19	Subunit III of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain; one of three mitochondrially-encoded subunits
+S000036648	CDS					Q0275		17	79213	80022	W		2000-05-19	2000-05-19	
+S000029671	origin_of_replication		ORI5	ORI5		chromosome 17	L000001312	17	82329	82600	W		2014-11-18	2014-11-18	Mitochondrial origin of replication
+S000007326	tRNA_gene		tM(CAU)Q2			chromosome 17	L000004901	17	85035	85112	W		2000-05-19	2000-05-19	Mitochondrial formylated methionine tRNA (tRNA-fMet); predicted by tRNAscan-SE analysis
+S000032348	noncoding_exon					tM(CAU)Q2		17	85035	85112	W		2000-05-19	2000-05-19	
+S000029023	ncRNA_gene		Q0285	RPM1		chromosome 17	L000004810	17	85295	85777	W		2003-12-02	2003-12-02	RNA component of mitochondrial RNase P; mitochondrial RNase P also contains the protein subunit Rpm2p; RNase P removes 5' extensions from mitochondrial tRNA precursors; RPM1 is conserved in bacteria, fungi, and protozoa
+S000035976	noncoding_exon					Q0285		17	85295	85777	W		2003-12-02	2003-12-02	
+S000007284	ORF	Dubious	Q0297		ORF12	chromosome 17	L000004948	17	85554	85709	W		2000-05-19	2000-05-19	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene RPM1
+S000037483	CDS					Q0297		17	85554	85709	W		2000-05-19	2000-05-19	
+S000029683	gene_group		MAL3	MAL3		chromosome 2	L000001002	2				144			Multigene complex, polymeric locus for maltose fermentation; encodes the MAL33 trans-acting MAL-activator, MAL31 maltose permease, and MAL32 maltase
+S000178039	ARS		ARS200			chromosome 2		2	40	202			2014-11-18	2014-11-18	Autonomously replicating sequence
+S000028599	ORF	Dubious	YBL113W-A			chromosome 2		2	646	1128	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031383	CDS					YBL113W-A		2	646	1128	W		2003-07-29	2003-07-29	
+S000002153	ORF	Uncharacterized	YBL113C			chromosome 2		2	2658	280	C		1996-07-31	1996-07-31	Helicase-like protein encoded within the telomeric Y' element
+S000036166	CDS					YBL113C		2	2658	280	C		1996-07-31	1996-07-31	
+S000002152	ORF	Uncharacterized	YBL112C			chromosome 2		2	2899	2582	C		1996-07-31	1996-07-31	Putative protein of unknown function; YBL112C is contained within TEL02L
+S000035974	CDS					YBL112C		2	2899	2582	C		1996-07-31	1996-07-31	
+S000002151	ORF	Verified	YBL111C			chromosome 2		2	5009	2907	C		1996-07-31	1996-07-31	Helicase-like protein encoded within the telomeric Y' element; relocalizes from mitochondrion to cytoplasm upon DNA replication stress
+S000035858	CDS					YBL111C		2	4116	2907	C		1996-07-31	1996-07-31	
+S000035857	CDS					YBL111C		2	5009	4216	C		1996-07-31	1996-07-31	
+S000035859	intron					YBL111C		2	4215	4117	C		1996-07-31	1996-07-31	
+S000002150	ORF	Dubious	YBL109W			chromosome 2		2	5790	6125	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034042	CDS					YBL109W		2	5790	6125	W		1996-07-31	1996-07-31	
+S000178040	ARS		ARS201			chromosome 2		2	6498	6620			2014-11-18	2014-11-18	Autonomously replicating sequence
+S000028867	telomere		TEL02L			chromosome 2		2	6608	1	C	-80	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome II; annotated components include an X element core sequence, X element combinatorial repeats, and a short Y' element; TEL02L does have telomeric repeats (TEL02L-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
+S000028868	X_element					TEL02L		2	6608	6139	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome II; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028869	X_element_combinatorial_repeat					TEL02L		2	6138	5849	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr II; contains repeats of the D, C, B and A types, Tbf1p binding sites, and ORF YBL109W; formerly called SubTelomeric Repeats
+S000028870	Y_prime_element					TEL02L		2	5848	1	C		2003-09-09	2003-09-09	Telomeric short Y' element on the left arm of Chromosome II; contains an ARS consensus sequence, a region of 36-bp repeats, and four ORFs (YBL111C, YBL112C, YBL113C, YBL113W-A)
+S000007592	ORF	Verified	YBL108C-A	PAU9	seripauperin PAU9	chromosome 2		2	7733	7605	C		2001-02-26	2001-02-26	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000037104	CDS					YBL108C-A		2	7733	7605	C		2001-02-26	2001-02-26	
+S000000204	ORF	Dubious	YBL108W			chromosome 2		2	8177	8482	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033883	CDS					YBL108W		2	8177	8482	W		1996-07-31	1996-07-31	
+S000006798	long_terminal_repeat		YBLWdelta1			chromosome 2		2	8848	9092	W		2000-05-19	2000-05-19	Ty1 LTR
+S000006799	long_terminal_repeat		YBLWdelta2			chromosome 2		2	9093	9424	W		2000-05-19	2000-05-19	Ty2 LTR
+S000007229	ORF	Dubious	YBL107W-A			chromosome 2		2	9268	9372	W		1999-07-17	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the Ty2 LTR YBLWdelta2; YBL107W-A has a paralog, YER138W-A, that arose from a single-locus duplication
+S000036010	CDS					YBL107W-A		2	9268	9372	W		1999-07-17	1999-07-17	
+S000006800	long_terminal_repeat		YBLWdelta3			chromosome 2		2	9425	9518	W		2000-05-19	2000-05-19	Ty1 LTR
+S000006647	tRNA_gene		tL(UAA)B1			chromosome 2	L000003738	2	9583	9666	W		2000-05-19	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000035755	noncoding_exon					tL(UAA)B1		2	9583	9666	W		2000-05-19	2000-05-19	
+S000000203	ORF	Verified	YBL107C	MIX23	MIC23	chromosome 2		2	10551	9961	C		1996-07-31	1996-07-31	Mitochondrial intermembrane space protein of unknown function; imported via the MIA import machinery; contains an unusual twin cysteine motif (CX13C CX14C)
+S000033751	CDS					YBL107C		2	10551	9961	C		1996-07-31	1996-07-31	
+S000000202	ORF	Verified	YBL106C	SRO77	putative Rab GTPase-binding protein SRO77|SNI2|SOP2	chromosome 2	L000004194	2	13879	10847	C		1996-07-31	1996-07-31|2011-02-03	Protein with roles in exocytosis and cation homeostasis; functions in docking and fusion of post-Golgi vesicles with plasma membrane; regulates cell proliferation and colony development via the Rho1-Tor1 pathway; interacts with SNARE protein Sec9p; homolog of Drosophila lethal giant larvae tumor suppressor; SRO77 has a paralog, SRO7, that arose from the whole genome duplication
+S000033072	CDS					YBL106C		2	13879	10847	C		1996-07-31	1996-07-31|2011-02-03	
+S000000201	ORF	Verified	YBL105C	PKC1	protein kinase C|CLY7|CLY5|STT1|HPO2|CLY15	chromosome 2	L000001446|L000000362|S000029091	2	17696	14241	C	-79	1996-07-31	1996-07-31|2011-02-03	Protein serine/threonine kinase; essential for cell wall remodeling during growth; localized to sites of polarized growth and the mother-daughter bud neck; homolog of the alpha, beta, and gamma isoforms of mammalian protein kinase C (PKC)
+S000032980	CDS					YBL105C		2	17696	14241	C		1996-07-31	1996-07-31|2011-02-03	
+S000000200	ORF	Verified	YBL104C	SEA4	YBL103C-A	chromosome 2		2	21293	18177	C		2004-01-26	2004-01-26|1996-07-31	Subunit of SEACAT, a subcomplex of the SEA complex; Sea4p, along with Rtc1p and Mtc5p, redundantly inhibit the TORC1 inhibitory role of the Iml1p/SEACIT (Iml1p-Npr2p-Npr3p) subcomplex, a GAP for GTPase Gtr1p (EGOC subunit) in response to amino acid limitation, thereby resulting in activation of TORC1 signaling; SEA is a coatomer-related complex that associates dynamically with the vacuole; contains an N-terminal beta-propeller fold and a C-terminal RING motif
+S000032891	CDS					YBL104C		2	21293	18177	C		2004-01-26	2004-01-26|1996-07-31	
+S000000199	ORF	Verified	YBL103C	RTG3		chromosome 2	L000003152	2	23536	22076	C		2011-02-03	1997-07-27|1997-01-28	bHLH/Zip transcription factor for retrograde (RTG) and TOR pathways; forms a complex with another bHLH/Zip protein, Rtg1p, to activate the pathways; target of Hog1p
+S000032786	CDS					YBL103C		2	23536	22076	C		2011-02-03	1997-07-27|1997-01-28	
+S000000198	ORF	Verified	YBL102W	SFT2		chromosome 2	L000002950	2	24098	24745	W		2004-01-26	1997-01-28	Tetra-spanning membrane protein found mostly in the late Golgi; non-essential; can suppress some sed5 alleles; may be part of the transport machinery, but precise function is unknown; similar to mammalian syntaxin 5
+S000032738	CDS					YBL102W		2	24098	24745	W		2004-01-26	1997-01-28	
+S000000197	ORF	Verified	YBL101C	ECM21	ART2	chromosome 2	L000003896	2	28299	24946	C		2004-01-26	1998-09-13|1997-01-28	Protein involved in regulating endocytosis of plasma membrane proteins; identified as a substrate for ubiquitination by Rsp5p and deubiquitination by Ubp2p; promoter contains several Gcn4p binding elements; ECM21 has a paralog, CSR2, that arose from the whole genome duplication
+S000031747	CDS					YBL101C		2	28299	24946	C		2004-01-26	1998-09-13|1997-01-28	
+S000028598	ORF	Uncharacterized	YBL100W-C		YBL101W-C	chromosome 2		2	28427	28546	W		2004-01-26	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031381	CDS					YBL100W-C		2	28427	28546	W		2004-01-26	2003-07-29	
+S000118996	ARS		ARS230		ARSII-29|ARS201.5	chromosome 2		2	28942	29160			2011-02-03	2006-10-02	Autonomously Replicating Sequence
+S000006801	long_terminal_repeat		YBLWdelta4			chromosome 2		2	29644	29975	W		2011-02-03	2000-05-19	Ty2 LTR
+S000006809	LTR_retrotransposon		YBLWTy2-1		Ty2	chromosome 2		2	29644	35602	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000002148	transposable_element_gene		YBL100W-A		gag protein|TY2A_B|YBL101W-A	chromosome 2		2	29935	31251	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000032385	CDS					YBL100W-A		2	29935	31251	W		2011-02-03	1997-01-28	
+S000002149	transposable_element_gene		YBL100W-B		gag-pol fusion protein|TY2B_B|YBL101W-B	chromosome 2		2	29935	35248	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000032404	CDS					YBL100W-B		2	29935	31227	W		2011-02-03	1997-01-28	
+S000032405	CDS					YBL100W-B		2	31229	35248	W		2011-02-03	1997-01-28	
+S000032406	plus_1_translational_frameshift					YBL100W-B		2	31228	31228	W		2011-02-03	1997-01-28	
+S000006802	long_terminal_repeat		YBLWdelta5			chromosome 2		2	35271	35602	W		2011-02-03	2000-05-19	Ty2 LTR
+S000006803	long_terminal_repeat		YBLWdelta6			chromosome 2		2	35604	35796	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006807	long_terminal_repeat		YBLCtau1		YBLWtau1	chromosome 2		2	36221	35851	C		2011-02-03	2000-05-19|2007-04-05	Ty4 LTR
+S000006562	tRNA_gene		tF(GAA)B			chromosome 2	L000003739	2	36398	36488	W		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000035371	intron					tF(GAA)B		2	36435	36452	W		2011-02-03	2000-05-19	
+S000035369	noncoding_exon					tF(GAA)B		2	36398	36434	W		2011-02-03	2000-05-19	
+S000035370	noncoding_exon					tF(GAA)B		2	36453	36488	W		2011-02-03	2000-05-19	
+S000000195	ORF	Verified	YBL099W	ATP1	F1F0 ATP synthase subunit alpha	chromosome 2	L000000141	2	37053	38690	W		2011-02-03	1997-01-28|2011-02-03	Alpha subunit of the F1 sector of mitochondrial F1F0 ATP synthase; which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; F1 translationally regulates ATP6 and ATP8 expression to achieve a balanced output of ATP synthase genes encoded in nucleus and mitochondria; phosphorylated; N-terminally propionylated in vivo
+S000034558	CDS					YBL099W		2	37053	38690	W		2011-02-03	1997-01-28|2011-02-03	
+S000000196	ORF	Dubious	YBL100C			chromosome 2		2	37303	36989	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the 5' end of ATP1
+S000031662	CDS					YBL100C		2	37303	36989	C		2011-02-03	1997-01-28	
+S000000194	ORF	Verified	YBL098W	BNA4	kynurenine 3-monooxygenase	chromosome 2		2	39145	40527	W		2011-02-03	1997-01-28	Kynurenine 3-monooxygenase; required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p; putative therapeutic target for Huntington disease
+S000034424	CDS					YBL098W		2	39145	40527	W		2011-02-03	1997-01-28	
+S000000193	ORF	Verified	YBL097W	BRN1	condensin subunit BRN1	chromosome 2	L000004324	2	40831	43095	W		2011-02-03	2004-01-29|1997-01-28|2011-02-03	Subunit of the condensin complex; required for chromosome condensation and for clustering of tRNA genes at the nucleolus; may influence multiple aspects of chromosome transmission
+S000034364	CDS					YBL097W		2	40831	43095	W		2011-02-03	2004-01-29|1997-01-28|2011-02-03	
+S000000191	ORF	Uncharacterized	YBL095W	MRX3		chromosome 2		2	43277	44089	W		2011-02-03	1997-01-28	Protein that associates with mitochondrial ribosome; likely functions in cristae junction formation; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000033361	CDS					YBL095W		2	43277	44089	W		2011-02-03	1997-01-28	
+S000000192	ORF	Dubious	YBL096C			chromosome 2		2	43482	43174	C		2011-02-03	1997-01-28	Non-essential protein of unknown function
+S000033392	CDS					YBL096C		2	43482	43174	C		2011-02-03	1997-01-28	
+S000000190	ORF	Dubious	YBL094C			chromosome 2		2	44097	43765	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized ORF YBL095W
+S000033262	CDS					YBL094C		2	44097	43765	C		2011-02-03	1997-01-28	
+S000000189	ORF	Verified	YBL093C	ROX3	SSX2|MED19|SSN7|NUT3	chromosome 2	L000001662|S000029515|L000002098	2	44918	44256	C		2011-02-03	1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme
+S000032413	CDS					YBL093C		2	44918	44256	C		2011-02-03	1997-01-28	
+S000000188	ORF	Verified	YBL092W	RPL32	eL32|ribosomal 60S subunit protein L32|L32e|L32	chromosome 2	L000004464	2	45978	46370	W		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L32; overexpression disrupts telomeric silencing; homologous to mammalian ribosomal protein L32, no bacterial homolog
+S000032377	CDS					YBL092W		2	45978	46370	W		2011-02-03	1997-01-28	
+S000122091	five_prime_UTR_intron					YBL092W		2	45645	45977	W		2011-02-03	2007-04-04	
+S000007228	ORF	Verified	YBL091C-A	SCS22	phospholipid metabolism-regulating protein SCS22	chromosome 2		2	47180	46565	C		2011-02-03	2004-01-07|1999-07-17	Protein involved in regulation of phospholipid metabolism; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect the ER and plasma membrane (PM); regulates PM PI4P levels by controlling access of the Sac1p phosphatase to its substrate, PI4P; human VAP homolog; similar to D. melanogaster inturned protein; SWAT-GFP and mCherry fusion proteins localize to the cytosol; SCS22 has a paralog, SCS2, that arose from the whole genome duplication
+S000037851	CDS					YBL091C-A		2	47058	46565	C		2011-02-03	2004-01-07|1999-07-17	
+S000037850	CDS					YBL091C-A		2	47180	47147	C		2011-02-03	2004-01-07	
+S000037852	intron					YBL091C-A		2	47146	47059	C		2011-02-03	2004-01-07	
+S000000187	ORF	Verified	YBL091C	MAP2	methionine aminopeptidase	chromosome 2	L000003044	2	48628	47363	C		2011-02-03	1997-07-27|1997-01-28|2011-02-03	Methionine aminopeptidase; catalyzes the cotranslational removal of N-terminal methionine from nascent polypeptides; function is partially redundant with that of Map1p
+S000032224	CDS					YBL091C		2	48628	47363	C		2011-02-03	1997-07-27|1997-01-28|2011-02-03	
+S000000186	ORF	Verified	YBL090W	MRP21	mitochondrial 37S ribosomal protein MRP21|MRP50	chromosome 2	L000003275	2	48825	49358	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the small subunit; MRP21 exhibits genetic interactions with mutations in the COX2 and COX3 mRNA 5'-untranslated leader sequences
+S000032193	CDS					YBL090W		2	48825	49358	W		2011-02-03	1997-01-28	
+S000000185	ORF	Verified	YBL089W	AVT5	amino acid transporter	chromosome 2		2	49574	50953	W		2011-02-03	2003-09-22|1997-01-28	Putative transporter; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters; AVT5 has a paralog, AVT6, that arose from the whole genome duplication
+S000031223	CDS					YBL089W		2	49574	50953	W		2011-02-03	2003-09-22|1997-01-28	
+S000000184	ORF	Verified	YBL088C	TEL1	DNA-binding protein kinase TEL1	chromosome 2	L000002281	2	59382	51019	C	-60	2011-02-03	1997-01-28|2011-02-03	Protein kinase primarily involved in telomere length regulation; contributes to cell cycle checkpoint control in response to DNA damage; acts with Red1p and Mec1p to promote interhomolog recombination by phosphorylation of Hop1; functionally redundant with Mec1p; regulates P-body formation induced by replication stress; homolog of human ataxia-telangiectasia mutated (ATM) gene
+S000030193	CDS					YBL088C		2	59382	51019	C		2011-02-03	1997-01-28|2011-02-03	
+S000000183	ORF	Verified	YBL087C	RPL23A	uL14|ribosomal 60S subunit protein L23A|L14|YL32|L23A|L17aA	chromosome 2	L000001716	2	60739	59822	C		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L23A; homologous to mammalian ribosomal protein L23 and bacterial L14; RPL23A has a paralog, RPL23B, that arose from the whole genome duplication
+S000030032	CDS					YBL087C		2	60193	59822	C		2011-02-03	1997-01-28	
+S000030031	CDS					YBL087C		2	60739	60698	C		2011-02-03	1997-01-28	
+S000030033	intron					YBL087C		2	60697	60194	C		2011-02-03	1997-01-28	
+S000000182	ORF	Uncharacterized	YBL086C			chromosome 2		2	62602	61202	C		2011-02-03	1997-01-28	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery
+S000029917	CDS					YBL086C		2	62602	61202	C		2011-02-03	1997-01-28	
+S000118344	ARS		ARS202		ARSII-63	chromosome 2		2	63259	63381			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000000181	ORF	Verified	YBL085W	BOI1	BOB1|GIN7	chromosome 2	L000000191|L000000703	2	63876	66818	W		2011-02-03	1997-01-28	Protein implicated in polar growth; functionally redundant with Boi2p; interacts with bud-emergence protein Bem1p; contains an SH3 (src homology 3) domain and a PH (pleckstrin homology) domain; relocalizes from bud neck to cytoplasm upon DNA replication stress; BOI1 has a paralog, BOI2, that arose from the whole genome duplication
+S000029876	CDS					YBL085W		2	63876	66818	W		2011-02-03	1997-01-28	
+S000000180	ORF	Verified	YBL084C	CDC27	anaphase promoting complex subunit CDC27|SNB1|APC3	chromosome 2	L000000266	2	69445	67169	C	-58	2011-02-03	1997-01-28|2011-02-03	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition
+S000037167	CDS					YBL084C		2	69445	67169	C		2011-02-03	1997-01-28|2011-02-03	
+S000000179	ORF	Dubious	YBL083C			chromosome 2		2	70138	69713	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps verified ORF ALG3
+S000037052	CDS					YBL083C		2	70138	69713	C		2011-02-03	1997-01-28	
+S000000178	ORF	Verified	YBL082C	ALG3	dolichyl-P-Man:Man(5)GlcNAc(2)-PP-dolichol alpha-1,3-mannosyltransferase|RHK1	chromosome 2	L000002668	2	71127	69751	C		2011-02-03	1997-01-28	Dolichol-P-Man dependent alpha(1-3) mannosyltransferase; involved in synthesis of dolichol-linked oligosaccharide donor for N-linked glycosylation of proteins; G353A missense mutation in human ortholog ALG3 implicated in carbohydrate deficient glycoprotein syndrome type IV, which is characterized by microcephaly, severe epilepsy, minimal psychomotor development, partial deficiency of sialic acids in serum glycoproteins; wild-type human ALG3 can complement yeast alg3 mutant
+S000036997	CDS					YBL082C		2	71127	69751	C		2011-02-03	1997-01-28	
+S000000177	ORF	Uncharacterized	YBL081W			chromosome 2		2	71866	72972	W		2011-02-03	1997-01-28	Non-essential protein of unknown function; null mutation results in a decrease in plasma membrane electron transport
+S000036378	CDS					YBL081W		2	71866	72972	W		2011-02-03	1997-01-28	
+S000000176	ORF	Verified	YBL080C	PET112	glutamyl-tRNA(Gln) amidotransferase subunit PET112	chromosome 2	L000001394	2	74695	73070	C		2011-02-03	1997-01-28|2011-02-03	Subunit of the trimeric GatFAB AmidoTransferase(AdT) complex; involved in the formation of Q-tRNAQ; mutation is functionally complemented by the bacterial GatB ortholog
+S000036223	CDS					YBL080C		2	74695	73070	C		2011-02-03	1997-01-28|2011-02-03	
+S000000175	ORF	Verified	YBL079W	NUP170	NLE3	chromosome 2	L000001256|L000003140	2	75259	79767	W		2011-02-03	1997-01-28	Subunit of inner ring of nuclear pore complex (NPC); contributes to NPC assembly and nucleocytoplasmic transport; interacts with genomic regions that contain ribosomal protein and subtelomeric genes, where it functions in nucleosome positioning and as a repressor of transcription; both Nup170p and NUP157p are similar to human Nup155p; NUP170 has a paralog, NUP157, that arose from the whole genome duplication
+S000034905	CDS					YBL079W		2	75259	79767	W		2011-02-03	1997-01-28	
+S000000174	ORF	Verified	YBL078C	ATG8	ubiquitin-like protein ATG8|AUT7|CVT5|APG8	chromosome 2	L000004607|L000004604	2	80731	80378	C		2011-02-03	1997-01-28	Component of autophagosomes and Cvt vesicles; regulator of Atg1p, targets it to autophagosomes; binds the Atg1p-Atg13p complex, triggering its vacuolar degradation; unique ubiquitin-like protein whose conjugation target is lipid phosphatidylethanolamine (PE); Atg8p-PE is anchored to membranes, is involved in phagophore expansion, and may mediate membrane fusion during autophagosome formation; deconjugation of Atg8p-PE is required for efficient autophagosome biogenesis
+S000033940	CDS					YBL078C		2	80731	80378	C		2011-02-03	1997-01-28	
+S000000173	ORF	Dubious	YBL077W			chromosome 2		2	80897	81328	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene ILS1/YBL076C
+S000033872	CDS					YBL077W		2	80897	81328	W		2011-02-03	1997-01-28	
+S000000172	ORF	Verified	YBL076C	ILS1	isoleucine--tRNA ligase ILS1	chromosome 2	L000000856	2	84261	81043	C	-43	2011-02-03	1997-01-28	Cytoplasmic isoleucine-tRNA synthetase; target of the G1-specific inhibitor reveromycin A
+S000033054	CDS					YBL076C		2	84261	81043	C		2011-02-03	1997-01-28	
+S000000171	ORF	Verified	YBL075C	SSA3	Hsp70 family ATPase SSA3|YG106	chromosome 2	L000002071|L000000820	2	86448	84499	C		2011-02-03	1997-01-28	ATPase involved in protein folding and the response to stress; plays a role in SRP-dependent cotranslational protein-membrane targeting and translocation; member of the heat shock protein 70 (HSP70) family; localized to the cytoplasm; SSA3 has a paralog, SSA4, that arose from the whole genome duplication
+S000032985	CDS					YBL075C		2	86448	84499	C		2011-02-03	1997-01-28	
+S000000169	ORF	Dubious	YBL073W			chromosome 2		2	87646	87957	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the essential gene AAR2/YBL074C
+S000032838	CDS					YBL073W		2	87646	87957	W		2011-02-03	1997-01-28	
+S000000170	ORF	Verified	YBL074C	AAR2	U5 snRNP complex subunit AAR2	chromosome 2	L000000008	2	87789	86722	C		2011-02-03	1997-01-28	Component of the U5 snRNP complex; required for splicing of U3 precursors; originally described as a splicing factor specifically required for splicing pre-mRNA of the MATa1 cistron
+S000032869	CDS					YBL074C		2	87789	86722	C		2011-02-03	1997-01-28	
+S000006447	snoRNA_gene		snR56	SNR56		chromosome 2	L000004525	2	88190	88277	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position G1428
+S000030761	noncoding_exon					snR56		2	88190	88277	W		2011-02-03	2000-05-19	
+S000000168	ORF	Verified	YBL072C	RPS8A	eS8|ribosomal 40S subunit protein S8A|S8e|rp19|YS9|S8A|S14A	chromosome 2	L000001752|L000001753	2	89125	88523	C		2011-02-03	1997-01-28	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S8, no bacterial homolog; RPS8A has a paralog, RPS8B, that arose from the whole genome duplication
+S000031871	CDS					YBL072C		2	89125	88523	C		2011-02-03	1997-01-28	
+S000122090	five_prime_UTR_intron					YBL072C		2	89440	89133	C		2011-02-03	2007-04-04|2011-02-03	
+S000028597	ORF	Uncharacterized	YBL071C-B			chromosome 2		2	89556	89458	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031379	CDS					YBL071C-B		2	89556	89458	C		2011-02-03	2003-07-29	
+S000007587	ORF	Verified	YBL071W-A	KTI11	DPH3	chromosome 2		2	89978	90226	W		2011-02-03	2001-01-30	Zn-ribbon protein that co-purifies with Dph1 and Dph2; in a complex required for synthesis of diphthamide on translation factor eEF2 and with Elongator subunits Iki3p, Elp2p, and Elp3p; involved in modification of wobble nucleosides in tRNAs; forms a stable heterodimer with Ats1p
+S000037098	CDS					YBL071W-A		2	89978	90226	W		2011-02-03	2001-01-30	
+S000000167	ORF	Uncharacterized	YBL071C			chromosome 2		2	90531	90223	C		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YBL071C is not an essential gene
+S000031723	CDS					YBL071C		2	90531	90223	C		2011-02-03	1997-01-28	
+S000000165	ORF	Verified	YBL069W	AST1		chromosome 2	L000000133	2	90741	92030	W		2011-02-03	2001-05-29|1997-01-28	Lipid raft associated protein; interacts with the plasma membrane ATPase Pma1p and has a role in its targeting to the plasma membrane by influencing its incorporation into lipid rafts; sometimes classified in the medium-chain dehydrogenase/reductases (MDRs) superfamily; AST1 has a paralog, AST2, that arose from the whole genome duplication
+S000031495	CDS					YBL069W		2	90741	92030	W		2011-02-03	2001-05-29|1997-01-28	
+S000000166	ORF	Dubious	YBL070C			chromosome 2		2	90925	90605	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031635	CDS					YBL070C		2	90925	90605	C		2011-02-03	1997-01-28	
+S000028530	ORF	Dubious	YBL068W-A			chromosome 2		2	91794	92030	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by fungal homology and RT-PCR
+S000031139	CDS					YBL068W-A		2	91794	92030	W		2011-02-03	2003-07-29	
+S000000164	ORF	Verified	YBL068W	PRS4	ribose phosphate diphosphokinase subunit PRS4	chromosome 2	L000001513	2	92414	93394	W		2011-02-03	2003-09-22|1997-01-28|2011-02-03	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase, synthesizes PRPP; which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes; PRS4 has a paralog, PRS2, that arose from the whole genome duplication; a missense mutation in the conserved residue R196 of its human homolog PRPS1 is pathogenic
+S000031367	CDS					YBL068W		2	92414	93394	W		2011-02-03	2003-09-22|1997-01-28|2011-02-03	
+S000178041	ARS		ARS203			chromosome 2		2	93435	93519			2014-11-18	2014-11-18	Autonomously replicating sequence
+S000000163	ORF	Verified	YBL067C	UBP13	ubiquitin-specific protease UBP13	chromosome 2	L000003172	2	95882	93639	C		2011-02-03	2004-07-16|1997-01-28|1999-04-26|2011-02-03	Ubiquitin-specific protease that cleaves Ub-protein fusions; UBP13 has a paralog, UBP9, that arose from the whole genome duplication
+S000030367	CDS					YBL067C		2	95882	93639	C		2011-02-03	2004-07-16|1997-01-28|1999-04-26|2011-02-03	
+S000000161	ORF	Dubious	YBL065W			chromosome 2		2	99963	100307	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF SEF1/YBL066C; YBL065W is a non-essential gene
+S000037539	CDS					YBL065W		2	99963	100307	W		2011-02-03	1997-01-28	
+S000000162	ORF	Verified	YBL066C	SEF1		chromosome 2	L000003318	2	100115	96669	C		2011-02-03	2004-07-16|1999-04-26|1997-01-28	Putative transcription factor; has homolog in Kluyveromyces lactis
+S000030204	CDS					YBL066C		2	100115	96669	C		2011-02-03	2004-07-16|1997-01-28|1999-04-26	
+S000000160	ORF	Verified	YBL064C	PRX1	thioredoxin peroxidase PRX1	chromosome 2		2	101156	100371	C		2011-02-03	1997-01-28	Mitochondrial peroxiredoxin with thioredoxin peroxidase activity; has a role in reduction of hydroperoxides; reactivation requires Trr2p and glutathione; induced during respiratory growth and oxidative stress; phosphorylated; protein abundance increases in response to DNA replication stress
+S000037361	CDS					YBL064C		2	101156	100371	C		2011-02-03	1997-01-28	
+S000000159	ORF	Verified	YBL063W	KIP1	CIN9	chromosome 2	L000000907	2	101886	105221	W		2011-02-03	1997-01-28	Kinesin-related motor protein; required for mitotic spindle assembly, chromosome segregation, and 2 micron plasmid partitioning; functionally redundant with Cin8p for chromosomal but not plasmid functions
+S000037298	CDS					YBL063W		2	101886	105221	W		2011-02-03	1997-01-28	
+S000000158	ORF	Dubious	YBL062W			chromosome 2		2	105308	105688	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036607	CDS					YBL062W		2	105308	105688	W		2011-02-03	1997-01-28	
+S000000157	ORF	Verified	YBL061C	SKT5	CSD4|CHS4|CAL2	chromosome 2	L000001911|L000000332	2	107406	105316	C		2011-02-03	1997-01-28	Activator of Chs3p (chitin synthase III) during vegetative growth; recruits Chs3p to the bud neck via interaction with Bni4p; SKT5 has a paralog, SHC1, that arose from the whole genome duplication
+S000036460	CDS					YBL061C		2	107406	105316	C		2011-02-03	1997-01-28	
+S000000156	ORF	Verified	YBL060W	YEL1	Arf family guanine nucleotide exchange factor YEL1	chromosome 2		2	107932	109995	W		2011-02-03	1997-01-28	Guanine nucleotide exchange factor specific for Arf3p; localized to the bud neck and tip; required for localization of Arf3p to the bud neck and tip
+S000036446	CDS					YBL060W		2	107932	109995	W		2011-02-03	1997-01-28	
+S000007488	ORF	Verified	YBL059C-A	CMC2		chromosome 2		2	110539	110125	C		2011-02-03	2000-12-01	Protein involved in respiratory chain complex assembly or maintenance; protein of the mitochondrial intermembrane space; contains twin Cx9C motifs that can form coiled coil-helix-coiled-coil helix fold
+S000032274	CDS					YBL059C-A		2	110420	110125	C		2011-02-03	2000-12-01	
+S000032273	CDS					YBL059C-A		2	110539	110506	C		2011-02-03	2000-12-01	
+S000032275	intron					YBL059C-A		2	110505	110421	C		2011-02-03	2000-12-01	
+S000000155	ORF	Uncharacterized	YBL059W			chromosome 2		2	110594	111244	W		2011-02-03	1997-01-28	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YBL059W has a paralog, YER093C-A, that arose from the whole genome duplication
+S000035392	CDS					YBL059W		2	110594	110879	W		2011-02-03	1997-01-28	
+S000035393	CDS					YBL059W		2	110949	111244	W		2011-02-03	1997-01-28	
+S000035394	intron					YBL059W		2	110880	110948	W		2011-02-03	1997-01-28	
+S000000154	ORF	Verified	YBL058W	SHP1	protein phosphatase regulator SHP1|UBX1	chromosome 2	L000002746	2	111437	112708	W		2011-02-03	1997-01-28	UBX domain-containing substrate adaptor for Cdc48p; ubiquitin regulatory X domain-containing protein that acts as a substrate recruiting cofactor for Cdc48p; positively regulates Glc7p PPase activity to promote growth and mitotic progression in complex with Cdc48p; ubiquitinated protein interactor involved in ER-associated degradation (ERAD); regulated by nuclear Ub-dependent degradation (INMAD pathway) independent of the Asi and Doa10 complexes; homolog of human p47 (NSFL1C)
+S000034369	CDS					YBL058W		2	111437	112708	W		2011-02-03	1997-01-28	
+S000000153	ORF	Verified	YBL057C	PTH2	aminoacyl-tRNA hydrolase	chromosome 2		2	113427	112801	C		2011-02-03	1997-01-28|2011-02-03	One of two mitochondrially-localized peptidyl-tRNA hydrolases; negatively regulates the ubiquitin-proteasome pathway via interactions with ubiquitin-like ubiquitin-associated proteins; dispensable for cell growth; see also PTH1
+S000034185	CDS					YBL057C		2	113427	112801	C		2011-02-03	1997-01-28|2011-02-03	
+S000000152	ORF	Verified	YBL056W	PTC3	type 2C protein phosphatase PTC3	chromosome 2	L000003426	2	113762	115168	W		2011-02-03	1997-01-28|2011-02-03	Type 2C protein phosphatase (PP2C); dephosphorylates Hog1p (see also Ptc2p) to limit maximal kinase activity induced by osmotic stress; dephosphorylates T169 phosphorylated Cdc28p (see also Ptc2p); role in DNA damage checkpoint inactivation; PTC3 has a paralog, PTC2, that arose from the whole genome duplication
+S000034127	CDS					YBL056W		2	113762	115168	W		2011-02-03	1997-01-28|2011-02-03	
+S000000151	ORF	Verified	YBL055C		3'-5'-exodeoxyribonuclease|Tat-D	chromosome 2		2	116829	115573	C		2011-02-03	1997-01-28	3'-->5' exonuclease and endonuclease with a possible role in apoptosis; has similarity to mammalian and C. elegans apoptotic nucleases
+S000033245	CDS					YBL055C		2	116829	115573	C		2011-02-03	1997-01-28	
+S000000150	ORF	Verified	YBL054W	TOD6	PBF1	chromosome 2		2	117589	119166	W		2011-02-03	1997-01-28	PAC motif binding protein involved in rRNA and ribosome biogenesis; subunit of the RPD3L histone deacetylase complex; Myb-like HTH transcription factor; hypophosphorylated by rapamycin treatment in a Sch9p-dependent manner; activated in stochastic pulses of nuclear localization
+S000033217	CDS					YBL054W		2	117589	119166	W		2011-02-03	1997-01-28	
+S000000149	ORF	Dubious	YBL053W			chromosome 2		2	119335	119709	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033156	CDS					YBL053W		2	119335	119709	W		2011-02-03	1997-01-28	
+S000000148	ORF	Verified	YBL052C	SAS3	KAT6	chromosome 2	L000003280	2	121874	119379	C		2011-02-03	1997-01-28	Histone acetyltransferase catalytic subunit of NuA3 complex; acetylates histone H3, involved in transcriptional silencing; homolog of the mammalian MOZ proto-oncogene; mutant has aneuploidy tolerance; sas3gcn5 double mutation is lethal
+S000032250	CDS					YBL052C		2	121874	119379	C		2011-02-03	1997-01-28	
+S000000147	ORF	Verified	YBL051C	PIN4	MDT1	chromosome 2		2	124759	122753	C		2011-02-03	1997-01-28	Protein involved in G2/M phase progression and response to DNA damage; interacts with Rad53p; contains an RNA recognition motif, a nuclear localization signal, and several SQ/TQ cluster domains; hyperphosphorylated in response to DNA damage
+S000032171	CDS					YBL051C		2	124759	122753	C		2011-02-03	1997-01-28	
+S000000146	ORF	Verified	YBL050W	SEC17	RNS3	chromosome 2	L000001841	2	125125	126119	W		2011-02-03	1997-01-28	Alpha-SNAP cochaperone; SNARE-complex adaptor for Sec18 (NSF) during the disassembly of postfusion cis-SNARE complexes; stimulates the ATPase activity of Sec18p; peripheral membrane protein required for vesicular transport between ER and Golgi, the 'priming' step in homotypic vacuole fusion, and autophagy; similar to mammalian alpha-SNAP
+S000032144	CDS					YBL050W		2	125125	125154	W		2011-02-03	1997-01-28	
+S000032145	CDS					YBL050W		2	125271	126119	W		2011-02-03	1997-01-28	
+S000032146	intron					YBL050W		2	125155	125270	W		2011-02-03	1997-01-28	
+S000000145	ORF	Verified	YBL049W	MOH1		chromosome 2		2	126828	127244	W		2011-02-03	1997-01-28	Protein of unknown function, essential for stationary phase survival; not required for growth on nonfermentable carbon sources; possibly linked with vacuolar transport
+S000031247	CDS					YBL049W		2	126828	127244	W		2011-02-03	1997-01-28	
+S000000144	ORF	Dubious	YBL048W	RRT1		chromosome 2		2	127299	127610	W		2011-02-03	1997-01-28	Protein of unknown function; identified in a screen for mutants with increased levels of rDNA transcription; dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data
+S000031090	CDS					YBL048W		2	127299	127610	W		2011-02-03	1997-01-28	
+S000000143	ORF	Verified	YBL047C	EDE1	BUD15	chromosome 2		2	132040	127895	C		2011-02-03	1997-01-28	Scaffold protein involved in the formation of early endocytic sites; putative regulator of cytokinesis; homo-oligomerization is required for localization to and organization of endocytic sites; has a network of interactions with other endocytic proteins; binds membranes in a ubiquitin-dependent manner; may also bind ubiquitinated membrane-associated proteins; interacts with Cmk2 and functions upstream of CMK2 in regulating non-apoptotic cell death; homolog of mammalian Eps15
+S000030056	CDS					YBL047C		2	132040	127895	C		2011-02-03	1997-01-28	
+S000000142	ORF	Verified	YBL046W	PSY4	HSM6	chromosome 2		2	132424	133749	W		2011-02-03	1997-01-28	Regulatory subunit of protein phosphatase PP4; presence of Psy4p in the PP4 complex (along with catalytic subunit Pph3p and Psy2p) is required for dephosphorylation of the histone variant H2AX, but not for dephosphorylation of Rad53p, during recovery from the DNA damage checkpoint; localization is cell-cycle dependent and regulated by Cdc28p phosphorylation; required for cisplatin resistance; homolog of mammalian R2
+S000030008	CDS					YBL046W		2	132424	133749	W		2011-02-03	1997-01-28	
+S000000141	ORF	Verified	YBL045C	COR1	ubiquinol--cytochrome-c reductase subunit COR1|QCR1	chromosome 2	L000000381	2	135516	134143	C		2011-02-03	1997-01-28	Core subunit of the ubiquinol-cytochrome c reductase complex; the ubiquinol-cytochrome c reductase complex (bc1 complex) is a component of the mitochondrial inner membrane electron transport chain
+S000037896	CDS					YBL045C		2	135516	134143	C		2011-02-03	1997-01-28	
+S000000140	ORF	Uncharacterized	YBL044W			chromosome 2		2	135998	136366	W		2011-02-03	1997-01-28	Putative protein of unknown function; YBL044W is not an essential protein
+S000037855	CDS					YBL044W		2	135998	136366	W		2011-02-03	1997-01-28	
+S000000139	ORF	Verified	YBL043W	ECM13		chromosome 2	L000003888	2	136688	137461	W		2011-02-03	1997-01-28	Non-essential protein of unknown function; induced by treatment with 8-methoxypsoralen and UVA irradiation; ECM13 has a paralog, YJR115W, that arose from the whole genome duplication
+S000037081	CDS					YBL043W		2	136688	137461	W		2011-02-03	1997-01-28	
+S000000138	ORF	Verified	YBL042C	FUI1	uridine permease	chromosome 2	L000004437	2	140260	138341	C		2011-02-03	1997-01-28	High affinity uridine permease, localizes to the plasma membrane; also mediates low but significant transport of the cytotoxic nucleoside analog 5-fluorouridine; not involved in uracil transport; relative distribution to the vacuole increases upon DNA replication stress
+S000036981	CDS					YBL042C		2	140260	138341	C		2011-02-03	1997-01-28	
+S000000137	ORF	Verified	YBL041W	PRE7	proteasome core particle subunit beta 6|PRS3	chromosome 2	L000002699	2	141247	141972	W		2011-02-03	1997-01-28	Beta 6 subunit of the 20S proteasome
+S000036959	CDS					YBL041W		2	141247	141972	W		2011-02-03	1997-01-28	
+S000000136	ORF	Verified	YBL040C	ERD2		chromosome 2	L000000567	2	142868	142112	C		2011-02-03	1997-01-28	HDEL receptor; an integral membrane protein that binds to the HDEL motif in proteins destined for retention in the endoplasmic reticulum; has a role in maintenance of normal levels of ER-resident proteins
+S000036161	CDS					YBL040C		2	142749	142112	C		2011-02-03	1997-01-28	
+S000036160	CDS					YBL040C		2	142868	142847	C		2011-02-03	1997-01-28	
+S000036162	intron					YBL040C		2	142846	142750	C		2011-02-03	1997-01-28	
+S000028517	ORF	Uncharacterized	YBL039W-B		YBL039W-A	chromosome 2		2	143393	143572	W		2011-02-03	2003-07-29	Putative protein of unknown function; mCherry fusion protein localizes to the vacuole
+S000030292	CDS					YBL039W-B		2	143393	143572	W		2011-02-03	2003-07-29	
+S000178042	ARS		ARS206			chromosome 2		2	143658	143745			2014-11-18	2014-11-18	Autonomously replicating sequence
+S000028814	ORF	Dubious	YBL039C-A			chromosome 2		2	145031	144948	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF URA7; identified by expression profiling and mass spectrometry
+S000033616	CDS					YBL039C-A		2	145031	144948	C		2011-02-03	2003-07-29	
+S000000135	ORF	Verified	YBL039C	URA7	CTP synthase URA7	chromosome 2	L000002436	2	145728	143989	C		2011-02-03	1997-01-28	Major CTP synthase isozyme (see also URA8); catalyzes the ATP-dependent transfer of the amide nitrogen from glutamine to UTP, forming CTP, the final step in de novo biosynthesis of pyrimidines; involved in phospholipid biosynthesis; capable of forming cytoplasmic filaments termed cytoophidium, especially during conditions of glucose depletion; URA7 has a paralog, URA8, that arose from the whole genome duplication
+S000035182	CDS					YBL039C		2	145728	143989	C		2011-02-03	1997-01-28	
+S000000134	ORF	Verified	YBL038W	MRPL16	RML16|mitochondrial 54S ribosomal protein YmL47|YmL47	chromosome 2	L000001165	2	146187	146885	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; homologous to bacterial L16 ribosomal protein; synthetic lethality with hac1 mutation suggests a possible role in synthesis of precursors for protein glycosylation
+S000035077	CDS					YBL038W		2	146187	146885	W		2011-02-03	1997-01-28	
+S000000133	ORF	Verified	YBL037W	APL3		chromosome 2	L000003322	2	147209	150286	W		2011-02-03	1997-01-28	Alpha-adaptin; large subunit of the clathrin associated protein complex (AP-2); involved in vesicle mediated transport
+S000034928	CDS					YBL037W		2	147209	150286	W		2011-02-03	1997-01-28	
+S000000132	ORF	Verified	YBL036C			chromosome 2		2	151220	150447	C		2011-02-03	1997-01-28	Putative non-specific single-domain racemase; based on structural similarity; binds pyridoxal 5'-phosphate; expression of GFP-fusion protein induced in response to the DNA-damaging agent MMS
+S000033968	CDS					YBL036C		2	151220	150447	C		2011-02-03	1997-01-28	
+S000000131	ORF	Verified	YBL035C	POL12	DNA-directed DNA polymerase alpha subunit POL12	chromosome 2	L000002698	2	153610	151493	C		2011-02-03	1997-01-28	B subunit of DNA polymerase alpha-primase complex; required for initiation of DNA replication during mitotic and premeiotic DNA synthesis; also functions in telomere capping and length regulation
+S000033851	CDS					YBL035C		2	153610	151493	C		2011-02-03	1997-01-28	
+S000000130	ORF	Verified	YBL034C	STU1		chromosome 2	L000002138	2	158389	153848	C		2011-02-03	1997-01-28	Component of the mitotic spindle; binds to interpolar microtubules via its association with beta-tubulin (Tub2p); required for interpolar microtubules to provide an outward force on the spindle poles
+S000033728	CDS					YBL034C		2	158389	153848	C		2011-02-03	1997-01-28	
+S000000129	ORF	Verified	YBL033C	RIB1	GTP cyclohydrolase II	chromosome 2	L000001634	2	159693	158656	C		2011-02-03	1999-04-22|1997-01-28	GTP cyclohydrolase II; catalyzes the first step of the riboflavin biosynthesis pathway
+S000033070	CDS					YBL033C		2	159693	158656	C		2011-02-03	1999-04-22|1997-01-28	
+S000000128	ORF	Verified	YBL032W	HEK2	KHD1	chromosome 2		2	160184	161329	W		2011-02-03	1997-01-28	RNA binding protein involved in asymmetric localization of ASH1 mRNA; represses translation of ASH1 mRNA, an effect reversed by Yck1p-dependent phosphoryation; regulates telomere position effect and length; similarity to hnRNP-K
+S000033035	CDS					YBL032W		2	160184	161329	W		2011-02-03	1997-01-28	
+S000000127	ORF	Verified	YBL031W	SHE1		chromosome 2	L000002867	2	161699	162715	W		2011-02-03	1997-01-28	Mitotic spindle protein; interacts with components of the Dam1 (DASH) complex, its effector Sli15p, and microtubule-associated protein Bim1p; also localizes to nuclear microtubules and to the bud neck in a ring-shaped structure; inhibits dynein function
+S000032946	CDS					YBL031W		2	161699	162715	W		2011-02-03	1997-01-28	
+S000000126	ORF	Verified	YBL030C	PET9	ADP/ATP carrier protein PET9|OP1|ANC2|AAC2	chromosome 2	L000000004|L000001386|L000004346	2	163997	163041	C	-20	2011-02-03	1997-01-28	Major ADP/ATP carrier of the mitochondrial inner membrane; exchanges cytosolic ADP for mitochondrially synthesized ATP; also imports heme and ATP; required for viability in many lab strains that carry a sal1 mutation; PET9 has a paralog, AAC3, that arose from the whole genome duplication; human homolog SLC25A4 implicated in progressive external ophthalmoplegia can complement yeast null mutant
+S000032782	CDS					YBL030C		2	163997	163041	C		2011-02-03	1997-01-28	
+S000007591	ORF	Verified	YBL029C-A			chromosome 2	S000029022	2	164772	164488	C		2011-02-03	2001-02-26	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery; protein abundance increases in response to DNA replication stress; has potential orthologs in Saccharomyces species and in Yarrowia lipolytica
+S000037103	CDS					YBL029C-A		2	164772	164488	C		2011-02-03	2001-02-26	
+S000000125	ORF	Uncharacterized	YBL029W			chromosome 2		2	166134	167264	W		2011-02-03	1997-01-28	Non-essential protein of unknown function
+S000032107	CDS					YBL029W		2	166134	167264	W		2011-02-03	1997-01-28	
+S000000124	ORF	Verified	YBL028C			chromosome 2		2	167838	167518	C		2011-02-03	1997-01-28	Protein of unknown function that may interact with ribosomes; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus; predicted to be involved in ribosome biogenesis
+S000031894	CDS					YBL028C		2	167838	167518	C		2011-02-03	1997-01-28	
+S000000123	ORF	Verified	YBL027W	RPL19B	eL19|ribosomal 60S subunit protein L19B|L19e|rpl5L|YL14|L23B|L19B	chromosome 2	L000001719|L000001718	2	168423	169376	W		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L19B; rpl19a and rpl19b single null mutations result in slow growth, while the double null mutation is lethal; homologous to mammalian ribosomal protein L19, no bacterial homolog; RPL19B has a paralog, RPL19A, that arose from the whole genome duplication
+S000031846	CDS					YBL027W		2	168423	168424	W		2011-02-03	1997-01-28	
+S000031847	CDS					YBL027W		2	168809	169376	W		2011-02-03	1997-01-28	
+S000031848	intron					YBL027W		2	168425	168808	W		2011-02-03	1997-01-28	
+S000118345	ARS		ARS207		ARSII-170	chromosome 2		2	170173	170279			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178043	ARS_consensus_sequence					ARS207		2	170223	170207	C		2014-11-18	2014-11-18	
+S000000122	ORF	Verified	YBL026W	LSM2	Sm-like protein LSM2|SNP3|SMX5	chromosome 2	L000003168	2	170623	171038	W		2011-02-03	1997-01-28	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
+S000030858	CDS					YBL026W		2	170623	170676	W		2011-02-03	1997-01-28	
+S000030859	CDS					YBL026W		2	170805	171038	W		2011-02-03	1997-01-28	
+S000030860	intron					YBL026W		2	170677	170804	W		2011-02-03	1997-01-28	
+S000000121	ORF	Verified	YBL025W	RRN10		chromosome 2	L000003279	2	171481	171918	W		2011-02-03	1997-01-28	Protein involved in promoting high level transcription of rDNA; subunit of UAF (upstream activation factor) for RNA polymerase I
+S000030749	CDS					YBL025W		2	171481	171918	W		2011-02-03	1997-01-28	
+S000000120	ORF	Verified	YBL024W	NCL1	tRNA (cytosine-C5-)-methyltransferase|TRM4	chromosome 2		2	172534	174588	W		2011-02-03	1997-01-28	S-adenosyl-L-methionine-dependent tRNA: m5C-methyltransferase; methylates cytosine to m5C at several positions in tRNAs and intron-containing pre-tRNAs; increases proportion of tRNALeu(CAA) with m5C at wobble position in response to hydrogen peroxide, causing selective translation of mRNA from genes enriched in TTG codon; loss of NCL1 confers hypersensitivity to oxidative stress; similar to Nop2p and human proliferation associated nucleolar protein p120
+S000030630	CDS					YBL024W		2	172534	174588	W		2011-02-03	1997-01-28	
+S000000119	ORF	Verified	YBL023C	MCM2	MCM DNA helicase complex subunit MCM2	chromosome 2	L000001038	2	177526	174920	C	-31	2011-02-03	1997-01-28	Protein involved in DNA replication; component of the Mcm2-7 hexameric helicase complex that binds chromatin as a part of the pre-replicative complex; relative distribution to the nucleus increases upon DNA replication stress
+S000037739	CDS					YBL023C		2	177526	174920	C		2011-02-03	1997-01-28	
+S000000118	ORF	Verified	YBL022C	PIM1	ATP-dependent Lon protease PIM1|LON1	chromosome 2	L000000949|L000001440	2	181275	177874	C		2011-02-03	1997-01-28	ATP-dependent Lon protease; involved in degradation of misfolded proteins in mitochondria; required for biogenesis and maintenance of mitochondria
+S000037690	CDS					YBL022C		2	181275	177874	C		2011-02-03	1997-01-28	
+S000000117	ORF	Verified	YBL021C	HAP3		chromosome 2	L000000753	2	182094	181660	C		2011-02-03	1997-01-28	Subunit of the Hap2p/3p/4p/5p CCAAT-binding complex; complex is heme-activated and glucose-repressed; complex is a transcriptional activator and global regulator of respiratory gene expression; contains sequences contributing to both complex assembly and DNA binding
+S000037614	CDS					YBL021C		2	182094	181660	C		2011-02-03	1997-01-28	
+S000000116	ORF	Verified	YBL020W	RFT1	glycolipid translocation protein	chromosome 2	L000001626	2	182401	184125	W		2011-02-03	1997-01-28	Membrane protein required for translocation of Man5GlcNac2-PP-Dol; required for translocation of Man5GlcNac2-PP-Dol from the cytoplasmic side to the lumenal side of the ER membrane but is not the flippase; mutation is suppressed by expression of human p53 protein; essential gene
+S000037598	CDS					YBL020W		2	182401	184125	W		2011-02-03	1997-01-28	
+S000000115	ORF	Verified	YBL019W	APN2	DNA-(apurinic or apyrimidinic site) lyase APN2|ETH1	chromosome 2	L000004434	2	184353	185915	W		2011-02-03	1997-01-28	Class II abasic (AP) endonuclease involved in repair of DNA damage; homolog of human HAP1 and E. coli exoIII
+S000037877	CDS					YBL019W		2	184353	185915	W		2011-02-03	1997-01-28	
+S000000114	ORF	Verified	YBL018C	POP8	ribonuclease P	chromosome 2	L000004304	2	186474	185998	C		2011-02-03	1997-01-28	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; relocalizes to the cytosol in response to hypoxia
+S000035953	CDS					YBL018C		2	186352	185998	C		2011-02-03	1997-01-28	
+S000035952	CDS					YBL018C		2	186474	186428	C		2011-02-03	1997-01-28	
+S000035954	intron					YBL018C		2	186427	186353	C		2011-02-03	1997-01-28	
+S000000113	ORF	Verified	YBL017C	PEP1	type I sorting receptor|VPT1|VPS10	chromosome 2	L000001373	2	191583	186844	C	-8	2011-02-03	1997-01-28	Type I transmembrane sorting receptor for multiple vacuolar hydrolases; cycles between the late-Golgi and prevacuolar endosome-like compartments
+S000035832	CDS					YBL017C		2	191583	186844	C		2011-02-03	1997-01-28	
+S000000112	ORF	Verified	YBL016W	FUS3	mitogen-activated serine/threonine-protein kinase FUS3|DAC2	chromosome 2	L000000655	2	192451	193512	W	-5	2011-02-03	1997-01-28	Mitogen-activated serine/threonine protein kinase involved in mating; phosphoactivated by Ste7p; substrates include Ste12p, Far1p, Bni1p, Sst2p; inhibits invasive growth during mating by phosphorylating Tec1p, promoting its; inhibits recruitment of Ste5p, Cdc42p-mediated asymmetry and mating morphogenesis
+S000035775	CDS					YBL016W		2	192451	193512	W		2011-02-03	1997-01-28	
+S000000111	ORF	Verified	YBL015W	ACH1	acetyl-CoA hydrolase	chromosome 2	L000000021	2	194122	195702	W		2011-02-03	1997-01-28	Protein with CoA transferase activity; particularly for CoASH transfer from succinyl-CoA to acetate; has minor acetyl-CoA-hydrolase activity; phosphorylated; required for acetate utilization and for diploid pseudohyphal growth
+S000035656	CDS					YBL015W		2	194122	195702	W		2011-02-03	1997-01-28	
+S000006796	long_terminal_repeat		YBLCdelta7			chromosome 2		2	197320	197016	C		2011-02-03	2000-05-19|2007-04-05	Ty1 LTR
+S000006600	tRNA_gene		tI(AAU)B			chromosome 2	L000003740	2	197494	197567	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000030373	noncoding_exon					tI(AAU)B		2	197494	197567	W		2011-02-03	2000-05-19	
+S000006574	tRNA_gene		tG(GCC)B			chromosome 2	L000003750	2	197699	197629	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000037887	noncoding_exon					tG(GCC)B		2	197699	197629	C		2011-02-03	2000-05-19	
+S000006797	long_terminal_repeat		YBLWsigma1		YBLCsigma1	chromosome 2		2	197714	198054	W		2011-02-03	2000-05-19	Ty3 LTR
+S000118997	ARS		ARS231		ARSII-198|ARS207.5	chromosome 2		2	198313	198473			2014-11-18	2014-11-18|2006-10-02	Autonomously Replicating Sequence
+S000178044	ARS_consensus_sequence					ARS231		2	198385	198369	C		2014-11-18	2014-11-18	
+S000000110	ORF	Verified	YBL014C	RRN6		chromosome 2	L000001772	2	201748	199064	C		2011-02-03	1997-01-28|2011-02-03	Component of the core factor (CF) rDNA transcription factor complex; CF is required for transcription of 35S rRNA genes by RNA polymerase I and is composed of Rrn6p, Rrn7p, and Rrn11p
+S000034605	CDS					YBL014C		2	201748	199064	C		2011-02-03	1997-01-28|2011-02-03	
+S000000109	ORF	Verified	YBL013W	FMT1	methionyl-tRNA formyltransferase	chromosome 2		2	202056	203261	W		2011-02-03	2004-01-29|1997-01-28	Methionyl-tRNA formyltransferase; catalyzes the formylation of initiator Met-tRNA in mitochondria; potential Cdc28p substrate
+S000034585	CDS					YBL013W		2	202056	203261	W		2011-02-03	2004-01-29|1997-01-28	
+S000000107	ORF	Verified	YBL011W	SCT1	bifunctional glycerol-3-phosphate/glycerone-phosphate O-acyltransferase SCT1|GAT2	chromosome 2	L000001820	2	203538	205817	W		2011-02-03	1997-01-28	Glycerol 3-phosphate/dihydroxyacetone phosphate sn-1 acyltransferase; dual substrate-specific acyltransferase of the glycerolipid biosynthesis pathway; prefers 16-carbon fatty acids; similar to Gpt2p; gene is constitutively transcribed
+S000033576	CDS					YBL011W		2	203538	205817	W		2011-02-03	1997-01-28	
+S000000108	ORF	Dubious	YBL012C			chromosome 2		2	203807	203406	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033578	CDS					YBL012C		2	203807	203406	C		2011-02-03	1997-01-28	
+S000000106	ORF	Uncharacterized	YBL010C			chromosome 2		2	206949	206107	C		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein colocalizes with clathrin-coated vesicles
+S000033474	CDS					YBL010C		2	206949	206107	C		2011-02-03	1997-01-28	
+S000000105	ORF	Verified	YBL009W	ALK2	protein kinase ALK2	chromosome 2		2	207194	209224	W		2011-02-03	1997-01-28	Protein kinase; along with its paralog, ALK1, required for proper spindle positioning and nuclear segregation following mitotic arrest, proper organization of cell polarity factors in mitosis, proper localization of formins and polarity factors, and survival in cells that activate spindle assembly checkpoint; phosphorylated in response to DNA damage; ALK2 has a paralog, ALK1, that arose from the whole genome duplication; similar to mammalian haspins
+S000033987	CDS					YBL009W		2	207194	209224	W		2011-02-03	1997-01-28	
+S000028529	ORF	Uncharacterized	YBL008W-A			chromosome 2		2	209409	209648	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000030335	CDS					YBL008W-A		2	209409	209648	W		2011-02-03	2003-07-29	
+S000000104	ORF	Verified	YBL008W	HIR1		chromosome 2	L000000776	2	209653	212175	W		2011-02-03	1997-01-28|2011-02-03	Subunit of the HIR complex; HIR is a nucleosome assembly complex involved in regulation of histone gene transcription; contributes to nucleosome formation, heterochromatic gene silencing, and formation of functional kinetochores
+S000033882	CDS					YBL008W		2	209653	212175	W		2011-02-03	1997-01-28|2011-02-03	
+S000000103	ORF	Verified	YBL007C	SLA1	cytoskeletal protein-binding protein SLA1	chromosome 2	L000001912	2	216366	212632	C		2011-02-03	1997-01-28	Cytoskeletal protein binding protein; required for assembly of the cortical actin cytoskeleton; interacts with proteins regulating actin dynamics and proteins required for endocytosis; found in the nucleus and cell cortex; has 3 SH3 domains
+S000033661	CDS					YBL007C		2	216366	212632	C		2011-02-03	1997-01-28	
+S000028596	ORF	Dubious	YBL006W-A			chromosome 2		2	216711	216860	W		2011-02-03	2004-01-29|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene LDB7/YBL006C
+S000031377	CDS					YBL006W-A		2	216711	216860	W		2011-02-03	2004-01-29|2003-07-29	
+S000000102	ORF	Verified	YBL006C	LDB7	RSC14	chromosome 2		2	217129	216587	C		2011-02-03	2004-01-29|1997-01-28	Component of the RSC chromatin remodeling complex; interacts with Rsc3p, Rsc30p, Npl6p, and Htl1p to form a module important for a broad range of RSC functions
+S000030377	CDS					YBL006C		2	217129	216587	C		2011-02-03	2004-01-29|1997-01-28	
+S000000101	ORF	Verified	YBL005W	PDR3	drug-responsive transcription factor PDR3|TPE2|AMY2	chromosome 2	L000002985|L000001363	2	217470	220400	W	-10	2011-02-03	1997-01-28	Transcriptional activator of the pleiotropic drug resistance network; regulates expression of ATP-binding cassette (ABC) transporters through binding to cis-acting PDRE sites (PDR responsive elements); has a role in response to drugs and organic solvents; post-translationally up-regulated in cells lacking functional mitochondrial genome; involved in diauxic shift; relative distribution to nucleus increases upon DNA replication stress; APCC(Cdh1) substrate
+S000030309	CDS					YBL005W		2	217470	220400	W		2011-02-03	1997-01-28	
+S000006804	long_terminal_repeat		YBLWdelta8			chromosome 2		2	220895	221036	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006805	long_terminal_repeat		YBLWdelta9			chromosome 2		2	221037	221370	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006808	LTR_retrotransposon		YBLWTy1-1		Ty1	chromosome 2		2	221037	226952	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000002146	transposable_element_gene		YBL005W-A		gag protein	chromosome 2		2	221330	222652	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000032539	CDS					YBL005W-A		2	221330	222652	W		2011-02-03	1997-01-28	
+S000002147	transposable_element_gene		YBL005W-B		gag-pol fusion protein	chromosome 2		2	221330	226598	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000032555	CDS					YBL005W-B		2	221330	222634	W		2011-02-03	1997-01-28	
+S000032556	CDS					YBL005W-B		2	222636	226598	W		2011-02-03	1997-01-28	
+S000032557	plus_1_translational_frameshift					YBL005W-B		2	222635	222635	W		2011-02-03	1997-01-28	
+S000006806	long_terminal_repeat		YBLWdelta10			chromosome 2		2	226621	226952	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006720	tRNA_gene		tS(AGA)B			chromosome 2	L000003741	2	227075	227156	W		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000032344	noncoding_exon					tS(AGA)B		2	227075	227156	W		2011-02-03	2000-05-19	
+S000000100	ORF	Verified	YBL004W	UTP20		chromosome 2		2	227636	235117	W		2011-02-03	2001-05-29|1997-01-28	Component of the small-subunit (SSU) processome; SSU processome is involved in the biogenesis of the 18S rRNA
+S000030137	CDS					YBL004W		2	227636	235117	W		2011-02-03	2001-05-29|1997-01-28	
+S000000099	ORF	Verified	YBL003C	HTA2	histone H2A|H2A2	chromosome 2	L000000749|L000000828	2	235792	235394	C	.2	2011-02-03	1997-01-28	Histone H2A; core histone protein required for chromatin assembly and chromosome function; one of two nearly identical (see also HTA1) subtypes; DNA damage-dependent phosphorylation by Mec1p facilitates DNA repair; acetylated by Nat4p
+S000029974	CDS					YBL003C		2	235792	235394	C		2011-02-03	1997-01-28	
+S000000098	ORF	Verified	YBL002W	HTB2	histone H2B	chromosome 2	L000000830	2	236492	236887	W	.2	2011-02-03	1997-01-28	Histone H2B; core histone protein required for chromatin assembly and chromosome function; nearly identical to HTB1; Rad6p-Bre1p-Lge1p mediated ubiquitination regulates reassembly after DNA replication, transcriptional activation, meiotic DSB formation and H3 methylation
+S000037396	CDS					YBL002W		2	236492	236887	W		2011-02-03	1997-01-28	
+S000000097	ORF	Verified	YBL001C	ECM15		chromosome 2	L000003890	2	237467	237153	C		2011-02-03	1997-01-28	Non-essential protein of unknown function; likely exists as tetramer, may be regulated by the binding of small-molecule ligands (possibly sulfate ions), may have a role in yeast cell-wall biogenesis
+S000037284	CDS					YBL001C		2	237467	237153	C		2011-02-03	1997-01-28	
+S000118346	ARS		ARS208		ARSII-238	chromosome 2		2	237787	237900			2014-11-18	2014-11-18|2006-08-30|2011-02-03	Autonomously Replicating Sequence
+S000178045	ARS_consensus_sequence					ARS208		2	237835	237819	C		2014-11-18	2014-11-18	
+S000006464	centromere		CEN2	CEN2		chromosome 2	L000000295	2	238207	238323	W	0	2011-02-03	2000-05-19	Chromosome II centromere
+S000077260	centromere_DNA_Element_I					CEN2		2	238207	238216	W		2011-02-03	2004-10-04	
+S000077261	centromere_DNA_Element_II					CEN2		2	238217	238298	W		2011-02-03	2004-10-04	
+S000077262	centromere_DNA_Element_III					CEN2		2	238299	238323	W		2011-02-03	2004-10-04	
+S000000205	ORF	Verified	YBR001C	NTH2	alpha,alpha-trehalase NTH2	chromosome 2	L000001281	2	241283	238941	C		2011-02-03	1997-01-28	Putative neutral trehalase, required for thermotolerance; may mediate resistance to other cellular stresses; NTH2 has a paralog, NTH1, that arose from the whole genome duplication
+S000034705	CDS					YBR001C		2	241283	238941	C		2011-02-03	1997-01-28	
+S000000206	ORF	Verified	YBR002C	RER2	ditrans,polycis-polyprenyl diphosphate synthase	chromosome 2	L000004874	2	242568	241708	C		2011-02-03	1997-01-28	Forms the dehydrodolichyl diphosphate syntase (DDS) complex with NUS1; major enzyme of polyprenol synthesis in both the endoplasmic reticulum (ER) and in lipid droplets; participates in ER protein sorting; human ortholog DHDDS functionally complements the heat sensitive growth defect of a ts allele, and is associated with retinitis pigmentosa
+S000035641	CDS					YBR002C		2	242568	241708	C		2011-02-03	1997-01-28	
+S000000207	ORF	Verified	YBR003W	COQ1	trans-hexaprenyltranstransferase	chromosome 2	L000000378	2	242809	244230	W		2011-02-03	1997-01-28	Hexaprenyl pyrophosphate synthetase; catalyzes the first step in ubiquinone (coenzyme Q) biosynthesis
+S000035753	CDS					YBR003W		2	242809	244230	W		2011-02-03	1997-01-28	
+S000000208	ORF	Verified	YBR004C	GPI18	GPI-anchor transamidase GPI18|FMP44	chromosome 2		2	245667	244366	C		2011-02-03	1997-01-28|2011-02-03	Functional ortholog of human PIG-V; PIG-V is a mannosyltransferase that transfers the second mannose in glycosylphosphatidylinositol biosynthesis; the authentic, non-tagged protein was localized to mitochondria
+S000035794	CDS					YBR004C		2	245667	244366	C		2011-02-03	1997-01-28|2011-02-03	
+S000000209	ORF	Verified	YBR005W	RCR1	SSH6	chromosome 2		2	245906	246547	W		2011-02-03	1997-01-28	Protein of the ER membrane involved in cell wall chitin deposition; may function in the endosomal-vacuolar trafficking pathway, helping determine whether plasma membrane proteins are degraded or routed to the plasma membrane; RCR1 has a paralog, RCR2, that arose from the whole genome duplication
+S000035989	CDS					YBR005W		2	245906	246547	W		2011-02-03	1997-01-28	
+S000000210	ORF	Verified	YBR006W	UGA2	succinate-semialdehyde dehydrogenase (NAD(P)(+))|UGA5	chromosome 2	S000007516	2	247010	248503	W		2011-02-03	1999-04-26|1997-01-28	Succinate semialdehyde dehydrogenase; involved in the utilization of gamma-aminobutyrate (GABA) as a nitrogen source; part of the 4-aminobutyrate and glutamate degradation pathways; localized to the cytoplasm
+S000036842	CDS					YBR006W		2	247010	248503	W		2011-02-03	1999-04-26|1997-01-28	
+S000000211	ORF	Verified	YBR007C	DSF2		chromosome 2		2	251016	248806	C		2011-02-03	1997-01-28|2011-02-03	Deletion suppressor of mpt5 mutation; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000036880	CDS					YBR007C		2	251016	248806	C		2011-02-03	1997-01-28|2011-02-03	
+S000000212	ORF	Verified	YBR008C	FLR1		chromosome 2	L000003532	2	254209	252563	C		2011-02-03	1997-01-28	Plasma membrane transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; involved in efflux of fluconazole, diazaborine, benomyl, methotrexate, and other drugs; expression induced in cells treated with the mycotoxin patulin; relocalizes from nucleus to plasma membrane upon DNA replication stress
+S000036932	CDS					YBR008C		2	254209	252563	C		2011-02-03	1997-01-28	
+S000114517	ARS		ARS209	ARS209		chromosome 2		2	254998	255083			2014-11-18	2014-11-18|2006-03-02|2011-02-03	Autonomously Replicating Sequence; originally referred to as H4 ARS
+S000178046	ARS_consensus_sequence					ARS209		2	255041	255025	C		2014-11-18	2014-11-18	
+S000000213	ORF	Verified	YBR009C	HHF1	histone H4	chromosome 2	L000000770	2	255684	255373	C		2011-02-03	1997-01-28	Histone H4; core histone protein required for chromatin assembly and chromosome function; one of two identical histone proteins (see also HHF2); contributes to telomeric silencing; N-terminal domain involved in maintaining genomic integrity
+S000037700	CDS					YBR009C		2	255684	255373	C		2011-02-03	1997-01-28	
+S000000214	ORF	Verified	YBR010W	HHT1	histone H3|SIN2|BUR5	chromosome 2	L000000772	2	256331	256741	W		2011-02-03	1997-01-28	Histone H3; core histone protein required for chromatin assembly, part of heterochromatin-mediated telomeric and HM silencing; one of two identical histone H3 proteins (see HHT2); regulated by acetylation, methylation, and phosphorylation; H3K14 acetylation plays an important role in the unfolding of strongly positioned nucleosomes during repair of UV damage
+S000030575	CDS					YBR010W		2	256331	256741	W		2011-02-03	1997-01-28	
+S000000215	ORF	Verified	YBR011C	IPP1	inorganic diphosphatase IPP1|PPA1	chromosome 2	L000000872	2	257975	257112	C		2011-02-03	1997-01-28	Cytoplasmic inorganic pyrophosphatase (PPase); homodimer that catalyzes the rapid exchange of oxygens from Pi with water, highly expressed and essential for viability, active-site residues show identity to those from E. coli PPase
+S000030655	CDS					YBR011C		2	257975	257112	C		2011-02-03	1997-01-28	
+S000006810	long_terminal_repeat		YBRCdelta11			chromosome 2		2	258976	258670	C		2011-02-03	2000-05-19|2007-04-05	Ty1 LTR
+S000000216	ORF	Dubious	YBR012C			chromosome 2		2	259566	259147	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; expression induced by iron-regulated transcriptional activator Aft2p
+S000030768	CDS					YBR012C		2	259566	259147	C		2011-02-03	1997-01-28	
+S000006815	long_terminal_repeat		YBRWdelta12			chromosome 2		2	259578	259909	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006821	LTR_retrotransposon		YBRWTy1-2		Ty1	chromosome 2		2	259578	265494	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000002154	transposable_element_gene		YBR012W-A		gag protein	chromosome 2		2	259869	261191	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000031588	CDS					YBR012W-A		2	259869	261191	W		2011-02-03	1997-01-28	
+S000002155	transposable_element_gene		YBR012W-B		gag-pol fusion protein	chromosome 2		2	259869	265140	W		2011-02-03	1997-01-28	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000031594	CDS					YBR012W-B		2	259869	261173	W		2011-02-03	1997-01-28	
+S000031595	CDS					YBR012W-B		2	261175	265140	W		2011-02-03	1997-01-28	
+S000031596	plus_1_translational_frameshift					YBR012W-B		2	261174	261174	W		2011-02-03	1997-01-28	
+S000006816	long_terminal_repeat		YBRWdelta13			chromosome 2		2	265163	265494	W		2011-02-03	2000-05-19	Ty1 LTR
+S000000217	ORF	Uncharacterized	YBR013C			chromosome 2		2	265881	265492	C		2011-02-03	1997-01-28	Putative protein of unknown function; haploid deletion mutant exhibits synthetic phenotype with alpha-synuclein; SWAT-GFP fusion protein localizes to the endoplasmic reticulum while mCherry fusion protein localizes to both the endoplasmic reticulum and vacuole
+S000030875	CDS					YBR013C		2	265881	265492	C		2011-02-03	1997-01-28	
+S000006811	long_terminal_repeat		YBRCdelta14			chromosome 2		2	266256	266178	C		2007-04-05	2000-05-19|2007-04-05	Ty1 LTR
+S000006737	tRNA_gene		tT(AGU)B			chromosome 2	L000003742	2	266378	266450	W		2004-07-16	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000032147	noncoding_exon					tT(AGU)B		2	266378	266450	W		2004-07-16	2000-05-19	
+S000000218	ORF	Verified	YBR014C	GRX7	glutathione-disulfide reductase GRX7	chromosome 2		2	267336	266725	C		2004-07-16	1997-01-28	Cis-golgi localized monothiol glutaredoxin; more similar in activity to dithiol than other monothiol glutaredoxins; involved in the oxidative stress response; does not bind metal ions; GRX7 has a paralog, GRX6, that arose from the whole genome duplication
+S000031840	CDS					YBR014C		2	267336	266725	C		2004-07-16	1997-01-28	
+S000000219	ORF	Verified	YBR015C	MNN2	alpha-1,2-mannosyltransferase MNN2|LDB8|CRV4|TTP1	chromosome 2	L000002385	2	269503	267710	C		2004-07-16	1997-01-28	Alpha-1,2-mannosyltransferase; responsible for addition of the first alpha-1,2-linked mannose to form the branches on the mannan backbone of oligosaccharides, localizes to an early Golgi compartment
+S000032017	CDS					YBR015C		2	269503	267710	C		2004-07-16	1997-01-28	
+S000000220	ORF	Verified	YBR016W			chromosome 2		2	270247	270633	W		2004-07-16	1997-01-28	Tail-anchored plasma membrane protein with a conserved CYSTM module; predicted to be palmitoylated; has similarity to hydrophilins, which are involved in the adaptive response to hyperosmotic conditions; YBR016W has a paralog, YDL012C, that arose from the whole genome duplication
+S000032998	CDS					YBR016W		2	270247	270633	W		2004-07-16	1997-01-28	
+S000000221	ORF	Verified	YBR017C	KAP104		chromosome 2	L000003444	2	273703	270947	C		2004-07-16	1997-01-28	Transportin or cytosolic karyopherin beta 2; functions in the rg-nuclear localization signal-mediated nuclear import/reimport of mRNA-binding proteins Nab2p and Hrp1p; regulates asymmetric protein synthesis in daughter cells during mitosis
+S000033056	CDS					YBR017C		2	273703	270947	C		2004-07-16	1997-01-28	
+S000000222	ORF	Verified	YBR018C	GAL7	UDP-glucose:hexose-1-phosphate uridylyltransferase	chromosome 2	L000000662	2	275527	274427	C	7	2004-07-16	1997-01-28	Galactose-1-phosphate uridyl transferase; synthesizes glucose-1-phosphate and UDP-galactose from UDP-D-glucose and alpha-D-galactose-1-phosphate in the second step of galactose catabolism; human homolog UGP2 can complement yeast null mutant
+S000033134	CDS					YBR018C		2	275527	274427	C		2004-07-16	1997-01-28	
+S000000223	ORF	Verified	YBR019C	GAL10	bifunctional UDP-glucose 4-epimerase/aldose 1-epimerase	chromosome 2	L000000663	2	278352	276253	C	7	2004-07-16	1997-01-28	UDP-glucose-4-epimerase; catalyzes interconversion of UDP-galactose and UDP-D-glucose in galactose metabolism; also catalyzes conversion of alpha-D-glucose or alpha-D-galactose to their beta-anomers; human homolog GALE implicated in galactosemia, can complement yeast null mutant
+S000033206	CDS					YBR019C		2	278352	276253	C		2004-07-16	1997-01-28	
+S000000224	ORF	Verified	YBR020W	GAL1	galactokinase	chromosome 2	L000000658	2	279021	280607	W	7	2004-07-16	1997-01-28	Galactokinase; phosphorylates alpha-D-galactose to alpha-D-galactose-1-phosphate in the first step of galactose catabolism; expression regulated by Gal4p; human homolog GALK2 complements yeast null mutant; GAL1 has a paralog, GAL3, that arose from the whole genome duplication
+S000034916	CDS					YBR020W		2	279021	280607	W		2004-07-16	1997-01-28	
+S000000225	ORF	Verified	YBR021W	FUR4	uracil permease	chromosome 2	L000000652	2	281443	283344	W	8	2004-07-16	1997-01-28	Plasma membrane localized uracil permease; expression is tightly regulated by uracil levels and environmental cues; conformational alterations induced by unfolding or substrate binding result in Rsp5p-mediated ubiquitination and degradation
+S000035064	CDS					YBR021W		2	281443	283344	W		2004-07-16	1997-01-28	
+S000000226	ORF	Verified	YBR022W	POA1	ADP-ribose 1''-phosphate phosphatase	chromosome 2		2	283738	284271	W		2004-07-16	1997-01-28	Phosphatase that is highly specific for ADP-ribose 1''-phosphate; a tRNA splicing metabolite; may have a role in regulation of tRNA splicing
+S000035171	CDS					YBR022W		2	283738	284271	W		2004-07-16	1997-01-28	
+S000000227	ORF	Verified	YBR023C	CHS3	chitin synthase CHS3|KTI2|DIT101|CSD2|CAL1	chromosome 2	L000000331	2	287925	284428	C	9	2004-07-16	1997-01-28	Chitin synthase III; catalyzes the transfer of N-acetylglucosamine (GlcNAc) to chitin; required for synthesis of the majority of cell wall chitin, the chitin ring during bud emergence, and spore wall chitosan; contains overlapping di-leucine and di-acidic signals that mediate, respectively, intracellular trafficking by AP-1 and trafficking to plasma membrane by exomer complex; requires AP-3 complex for its intracellular retention
+S000035205	CDS					YBR023C		2	287925	284428	C		2004-07-16	1997-01-28	
+S000000228	ORF	Verified	YBR024W	SCO2	putative thioredoxin peroxidase SCO2	chromosome 2	L000001816	2	289445	290350	W		2004-07-16	1997-01-28	Protein anchored to mitochondrial inner membrane; may have a redundant function with Sco1p in delivery of copper to cytochrome c oxidase; interacts with Cox2p; SCO2 has a paralog, SCO1, that arose from the whole genome duplication
+S000036144	CDS					YBR024W		2	289445	290350	W		2004-07-16	1997-01-28	
+S000000229	ORF	Verified	YBR025C	OLA1	Obg-like ATPase	chromosome 2		2	291865	290681	C		2004-07-16	1997-01-28	P-loop ATPase with similarity to human OLA1 and bacterial YchF; identified as specifically interacting with the proteasome; null mutant displays increased translation rate and increased readthrough of premature stop codons; protein abundance increases in response to hydrogen peroxide and to DNA replication stress
+S000036196	CDS					YBR025C		2	291865	290681	C		2004-07-16	1997-01-28	
+S000000230	ORF	Verified	YBR026C	ETR1	MRF1'|MRF1	chromosome 2	L000002810	2	294019	292877	C		2004-07-16	1997-01-28	2-enoyl thioester reductase; member of the medium chain dehydrogenase/reductase family; localized to mitochondria, where it has a probable role in fatty acid synthesis; human MECR functionally complements the respiratory growth defect of the null mutant
+S000031678	CDS					YBR026C		2	294019	292877	C		2004-07-16	1997-01-28	
+S000000231	ORF	Uncharacterized	YBR027C			chromosome 2		2	294356	294024	C		2004-07-16	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YBR027C is not an essential gene
+S000031824	CDS					YBR027C		2	294356	294024	C		2004-07-16	1997-01-28	
+S000000232	ORF	Verified	YBR028C	YPK3	putative protein kinase YPK3	chromosome 2		2	296002	294425	C		2004-07-16	1997-01-28	AGC kinase; phosphorylated by cAMP-dependent protein kinase (PKA) in a TORC1-dependent manner; directly phosphorylated by TORC1; phosphorylates ribosomal protein Rps6a/b (S6), in a TORC-dependent manner; undergoes autophosphorylation
+S000031957	CDS					YBR028C		2	296002	294425	C		2004-07-16	1997-01-28	
+S000000233	ORF	Verified	YBR029C	CDS1	phosphatidate cytidylyltransferase|CDG1	chromosome 2	L000002673	2	297742	296369	C		2004-07-16	1997-01-28	Phosphatidate cytidylyltransferase (CDP-diglyceride synthetase); an enzyme that catalyzes that conversion of CTP + phosphate into diphosphate + CDP-diaclglyerol, a critical step in the synthesis of all major yeast phospholipids; human homolog CDS1 can complement yeast cds1 null mutant
+S000037428	CDS					YBR029C		2	297742	296369	C		2004-07-16	1997-01-28	
+S000000234	ORF	Verified	YBR030W	RKM3	protein-lysine N-methyltransferase	chromosome 2		2	298292	299950	W		2004-07-16	1997-01-28	Ribosomal lysine methyltransferase; specific for monomethylation of Rpl42ap and Rpl42bp (lysine 40); nuclear SET domain containing protein; relocalizes to the cytosol in response to hypoxia
+S000037095	CDS					YBR030W		2	298292	299950	W		2004-07-16	1997-01-28	
+S000000235	ORF	Verified	YBR031W	RPL4A	uL4|ribosomal 60S subunit protein L4A|L4|rp2|YL2|L4A|L2A	chromosome 2	L000001701	2	300166	301254	W		2004-07-16	1997-01-28	Ribosomal 60S subunit protein L4A; N-terminally acetylated; homologous to mammalian ribosomal protein L4 and bacterial L4; RPL4A has a paralog, RPL4B, that arose from the whole genome duplication
+S000037181	CDS					YBR031W		2	300166	301254	W		2004-07-16	1997-01-28	
+S000000236	ORF	Uncharacterized	YBR032W			chromosome 2		2	301519	301821	W		2004-07-16	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YBR032W is not an essential gene
+S000037283	CDS					YBR032W		2	301519	301821	W		2004-07-16	1997-01-28	
+S000000237	ORF	Uncharacterized	YBR033W	EDS1		chromosome 2		2	301944	304703	W		2004-07-16	1997-01-28	Putative zinc cluster protein, predicted to be a transcription factor; not an essential gene; EDS1 has a paralog, RGT1, that arose from the whole genome duplication
+S000037351	CDS					YBR033W		2	301944	304703	W		2004-07-16	1997-01-28	
+S000000238	ORF	Verified	YBR034C	HMT1	protein-arginine omega-N  methyltransferase HMT1|RMT1|ODP1|HCP1	chromosome 2	L000002808|L000001296	2	305976	304930	C		2004-07-16	1997-01-28	Nuclear SAM-dependent mono- and asymmetric methyltransferase; modifies hnRNPs, including Npl3p and Hrp1p, affecting their activity and nuclear export; methylates U1 snRNP protein Snp1p, ribosomal protein Rps2p, and histones H3 and H4; interacts genetically with genes encoding components of Rpd3(L) and this interaction is important for Rpd3 recruitment to the subtelomeric region
+S000037372	CDS					YBR034C		2	305976	304930	C		2004-07-16	1997-01-28	
+S000000239	ORF	Verified	YBR035C	PDX3	pyridoxamine-phosphate oxidase PDX3	chromosome 2	L000001371	2	306955	306269	C		2004-07-16	1997-01-28	Pyridoxine (pyridoxamine) phosphate oxidase; has homologs in E. coli and Myxococcus xanthus; transcription is under the general control of nitrogen metabolism
+S000030013	CDS					YBR035C		2	306955	306269	C		2004-07-16	1997-01-28	
+S000087162	snoRNA_gene		snR161	SNR161		chromosome 2		2	307345	307185	C		2005-11-10	2005-11-10	H/ACA small nucleolar RNA (snoRNA); guides pseudouridylation of small subunit (SSU) rRNA at positions U632 and U766
+S000087163	noncoding_exon					snR161		2	307345	307185	C		2005-11-10	2005-11-10	
+S000006657	telomerase_RNA_gene		TLC1	TLC1	TER1	chromosome 2	L000002315	2	307587	308887	W		2004-07-16	2000-05-19	RNA template component of telomerase; flexible scaffold that tethers telomerase holoenzyme protein subunits to the complex; contains template sequence that Est2p uses to add irregular repeats of TG(1-3) residues onto a DNA end; promoter regulated by the cell cycle dependent transcriptional activators Swi4p/Swi6p and Mbp1p/Swi6p
+S000033066	noncoding_exon					TLC1		2	307587	308887	W		2004-07-16	2000-05-19	
+S000000240	ORF	Verified	YBR036C	CSG2	mannosylinositol phosphorylceramide synthase regulatory subunit|CLS2	chromosome 2	L000002979|L000000427	2	310313	309081	C		2004-07-16	1997-01-28	Endoplasmic reticulum membrane protein; required for mannosylation of inositolphosphorylceramide and for growth at high calcium concentrations; protein abundance increases in response to DNA replication stress
+S000030091	CDS					YBR036C		2	310313	309081	C		2004-07-16	1997-01-28	
+S000000241	ORF	Verified	YBR037C	SCO1	Cu-binding protein SCO1|PET161	chromosome 2	L000001815	2	311452	310565	C		2011-02-03	1997-01-28	Copper-binding protein of mitochondrial inner membrane; required for cytochrome c oxidase activity and respiration; may function to deliver copper to cytochrome c oxidase; similar to thioredoxins; SCO1 has a paralog, SCO2, that arose from the whole genome duplication
+S000030247	CDS					YBR037C		2	311452	310565	C		2011-02-03	1997-01-28	
+S000000242	ORF	Verified	YBR038W	CHS2	chitin synthase CHS2	chromosome 2	L000000330	2	311898	314789	W		2011-02-03	1997-01-28	Chitin synthase II; catalyzes transfer of N-acetylglucosamine (GlcNAc) to chitin upon activation of zymogenic form; required for chitin synthesis in the primary septum during cytokinesis; localization regulated by Cdk1p during mitosis; phosphorylation by Dbf2p kinase regulates its dynamics and chitin synthesis during cytokinesis
+S000033656	CDS					YBR038W		2	311898	314789	W		2011-02-03	1997-01-28	
+S000000243	ORF	Verified	YBR039W	ATP3	F1F0 ATP synthase subunit gamma	chromosome 2	L000000143	2	315575	316510	W		2004-07-16	1997-01-28	Gamma subunit of the F1 sector of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis
+S000033784	CDS					YBR039W		2	315575	316510	W		2004-07-16	1997-01-28	
+S000000244	ORF	Verified	YBR040W	FIG1		chromosome 2	L000003311	2	316968	317864	W		2004-07-16	1997-01-28	Integral membrane protein required for efficient mating; may participate in or regulate the low affinity Ca2+ influx system, which affects intracellular signaling and cell-cell fusion during mating
+S000033389	CDS					YBR040W		2	316968	317864	W		2004-07-16	1997-01-28	
+S000000245	ORF	Verified	YBR041W	FAT1	long-chain fatty acid transporter FAT1	chromosome 2	L000003201	2	318266	320275	W		2004-07-16	2004-01-21|1997-01-28	Very long chain fatty acyl-CoA synthetase and fatty acid transporter; activates imported fatty acids with a preference for very long lengths (C20-C26); has a separate function in the transport of long chain fatty acids
+S000033461	CDS					YBR041W		2	318266	320275	W		2004-07-16	2004-01-21|1997-01-28	
+S000000246	ORF	Verified	YBR042C	CST26	putative acyltransferase|PSI1	chromosome 2		2	321609	320416	C		2004-07-16	1997-01-28	Acyltransferase; enzyme mainly responsible for the introduction of saturated very long chain fatty acids into neo-synthesized molecules of phosphatidylinositol; required for incorporation of stearic acid into phosphatidylinositol; affects chromosome stability when overexpressed; CST26 has a paralog, YDR018C, that arose from the whole genome duplication
+S000033482	CDS					YBR042C		2	321609	320416	C		2004-07-16	1997-01-28	
+S000000247	ORF	Verified	YBR043C	QDR3	AQR2	chromosome 2		2	323945	321876	C		2004-07-16	1997-01-28|2011-02-03	Multidrug transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; has a role in polyamine homeostasis; involved in spore wall asembly; sequence similarity to DTR1 and QDR1, and the triple mutant dtr1 qdr1 qdr3 exhibits reduced dityrosine fluorescence relative to the single mutants; expression is upregulated under polyamine stress; required for resistance to quinidine, barban, cisplatin, and bleomycin
+S000033571	CDS					YBR043C		2	323945	321876	C		2004-07-16	1997-01-28|2011-02-03	
+S000000248	ORF	Verified	YBR044C	TCM62		chromosome 2		2	326059	324341	C		2011-02-03	1997-01-28|2011-02-03	Protein involved in assembly of the succinate dehydrogenase complex; mitochondrial; putative chaperone
+S000033606	CDS					YBR044C		2	326059	324341	C		2011-02-03	1997-01-28|2011-02-03	
+S000118347	ARS		ARS211		ARSII-326	chromosome 2		2	326140	326375			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178047	ARS_consensus_sequence					ARS211		2	326153	326169	W		2014-11-18	2014-11-18	
+S000006769	tRNA_gene		tV(UAC)B			chromosome 2	L000003749	2	326865	326792	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000036275	noncoding_exon					tV(UAC)B		2	326865	326792	C		2011-02-03	2000-05-19	
+S000006817	long_terminal_repeat		YBRWdelta15			chromosome 2		2	327069	327394	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006818	long_terminal_repeat		YBRWdelta16			chromosome 2		2	327390	327704	W		2011-02-03	2000-05-19	Ty1 LTR
+S000000249	ORF	Verified	YBR045C	GIP1	protein phosphatase regulator GIP1	chromosome 2	L000003092	2	330092	328173	C		2011-02-03	1997-01-28|2011-02-03	Meiosis-specific regulatory subunit of the Glc7p protein phosphatase; regulates spore wall formation and septin organization, required for expression of some late meiotic genes and for normal localization of Glc7p
+S000034552	CDS					YBR045C		2	330092	328173	C		2011-02-03	1997-01-28|2011-02-03	
+S000000250	ORF	Verified	YBR046C	ZTA1	NADPH:quinone reductase	chromosome 2	L000004168	2	331511	330507	C		2011-02-03	1997-01-28	NADPH-dependent quinone reductase; GFP-tagged protein localizes to the cytoplasm and nucleus; has similarity to E. coli quinone oxidoreductase and to human zeta-crystallin
+S000034640	CDS					YBR046C		2	331511	330507	C		2011-02-03	1997-01-28	
+S000000251	ORF	Uncharacterized	YBR047W	FMP23		chromosome 2		2	331833	332360	W		2011-02-03	1997-01-28	Putative protein of unknown function; proposed to be involved in iron or copper homeostasis; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000035689	CDS					YBR047W		2	331833	332360	W		2011-02-03	1997-01-28	
+S000000252	ORF	Verified	YBR048W	RPS11B	uS17|ribosomal 40S subunit protein S11B|S17|rp41B|YS12|S18B|S11B	chromosome 2	L000001758	2	332831	333812	W		2011-02-03	1997-01-28	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S11 and bacterial S17; RPS11B has a paralog, RPS11A, that arose from the whole genome duplication
+S000035808	CDS					YBR048W		2	332831	332875	W		2011-02-03	1997-01-28	
+S000035809	CDS					YBR048W		2	333387	333812	W		2011-02-03	1997-01-28	
+S000035810	intron					YBR048W		2	332876	333386	W		2011-02-03	1997-01-28	
+S000000253	ORF	Verified	YBR049C	REB1	DNA-binding protein REB1|GRF2	chromosome 2	L000001601	2	336818	334386	C		2011-02-03	1997-01-28	RNA polymerase I enhancer binding protein; DNA binding protein that binds to genes transcribed by both RNA polymerase I and RNA polymerase II; required for termination of RNA polymerase I transcription; Reb1p bound to DNA acts to block RNA polymerase II readthrough transcription
+S000035873	CDS					YBR049C		2	336818	334386	C		2011-02-03	1997-01-28	
+S000000255	ORF	Dubious	YBR051W			chromosome 2		2	337988	338338	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the REG2/YBR050C regulatory subunit of the Glc7p type-1 protein phosphatase
+S000036875	CDS					YBR051W		2	337988	338338	W		2011-02-03	1997-01-28	
+S000000254	ORF	Verified	YBR050C	REG2	protein phosphatase regulator REG2	chromosome 2	L000004126	2	338199	337183	C		2011-02-03	1997-01-28	Regulatory subunit of the Glc7p type-1 protein phosphatase; involved with Reg1p, Glc7p, and Snf1p in regulation of glucose-repressible genes, also involved in glucose-induced proteolysis of maltose permease; REG2 has a paralog, REG1, that arose from the whole genome duplication
+S000036783	CDS					YBR050C		2	338199	337183	C		2011-02-03	1997-01-28	
+S000000256	ORF	Verified	YBR052C	RFS1	flavodoxin-like fold family protein	chromosome 2		2	339352	338720	C		2011-02-03	1997-01-28	Protein of unknown function; member of a flavodoxin-like fold protein family that includes Pst2p and Ycp4p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; RFS1 has a paralog, PST2, that arose from the whole genome duplication
+S000037575	CDS					YBR052C		2	339352	338720	C		2011-02-03	1997-01-28	
+S000000257	ORF	Uncharacterized	YBR053C			chromosome 2		2	340751	339675	C		2011-02-03	1997-01-28	Putative protein of unknown function; induced by cell wall perturbation
+S000037643	CDS					YBR053C		2	340751	339675	C		2011-02-03	1997-01-28	
+S000000258	ORF	Verified	YBR054W	YRO2		chromosome 2	L000002548	2	343101	344135	W		2011-02-03	1997-01-28	Protein with a putative role in response to acid stress; null mutant is sensitive to acetic acid; transcription is regulated by Haa1p and induced in the presence of acetic acid; protein observed in plasma membrane foci in the presence of acetic acid; the authentic, non-tagged protein is detected in a phosphorylated state in highly purified mitochondria in high-throughput studies
+S000037737	CDS					YBR054W		2	343101	344135	W		2011-02-03	1997-01-28	
+S000000259	ORF	Verified	YBR055C	PRP6	U4/U6-U5 snRNP complex subunit PRP6|TSM7269|RNA6	chromosome 2	L000001499	2	347301	344602	C	33	2011-02-03	1997-01-28	Splicing factor; component of the U4/U6-U5 snRNP complex
+S000037759	CDS					YBR055C		2	347301	344602	C		2011-02-03	1997-01-28	
+S000006648	tRNA_gene		tL(UAA)B2			chromosome 2	L000003743	2	347603	347686	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000035757	noncoding_exon					tL(UAA)B2		2	347603	347686	W		2011-02-03	2000-05-19	
+S000000260	ORF	Verified	YBR056W		17-beta-hydroxysteroid dehydrogenase-like protein	chromosome 2		2	347879	349384	W		2011-02-03	1997-01-28	Putative glycoside hydrolase of the mitochondrial intermembrane space
+S000030661	CDS					YBR056W		2	347879	349384	W		2011-02-03	1997-01-28	
+S000006819	long_terminal_repeat		YBRWdelta17			chromosome 2		2	350459	350751	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006691	tRNA_gene		tQ(UUG)B			chromosome 2	L000003744	2	350827	350898	W		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000031659	noncoding_exon					tQ(UUG)B		2	350827	350898	W		2011-02-03	2000-05-19	
+S000028736	ORF	Uncharacterized	YBR056W-A			chromosome 2		2	351255	351455	W		2011-02-03	2003-07-29	Protein of unknown function; mRNA identified as translated by ribosome profiling data; partially overlaps dubious ORF YBR056C-B; YBR056W-A has a paralog, YDR034W-B, that arose from the whole genome duplication
+S000033380	CDS					YBR056W-A		2	351255	351455	W		2011-02-03	2003-07-29	
+S000087087	ORF	Dubious	YBR056C-B			chromosome 2		2	351451	351293	C		2011-02-03	2005-11-08	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the dubious ORF YBR056W-A
+S000087088	CDS					YBR056C-B		2	351451	351293	C		2011-02-03	2005-11-08	
+S000000261	ORF	Verified	YBR057C	MUM2	SPOT8	chromosome 2	L000003595|L000002013	2	353293	352193	C	31	2011-02-03	1997-01-28	Protein essential for meiotic DNA replication and sporulation; cytoplasmic protein; subunit of the MIS complex which controls mRNA methylation during during the induction of sporulation; also interacts with Orc2p, which is a component of the origin recognition complex
+S000030712	CDS					YBR057C		2	353293	352193	C		2011-02-03	1997-01-28	
+S000000262	ORF	Verified	YBR058C	UBP14	ubiquitin-specific protease UBP14|GID6	chromosome 2	L000003173	2	356017	353672	C		2011-02-03	2003-09-22|1997-01-28	Ubiquitin-specific protease; specifically disassembles unanchored ubiquitin chains; involved in fructose-1,6-bisphosphatase (Fbp1p) degradation; similar to human isopeptidase T
+S000030826	CDS					YBR058C		2	356017	353672	C		2011-02-03	2003-09-22|1997-01-28	
+S000007521	ORF	Verified	YBR058C-A	TSC3		chromosome 2		2	356566	356324	C		2011-02-03	2000-06-19	Protein that stimulates the activity of serine palmitoyltransferase;  involved in sphingolipid biosynthesis; Lcb1p and Lcb2p are the two components of serine palmitoyltransferase
+S000036279	CDS					YBR058C-A		2	356566	356324	C		2011-02-03	2000-06-19	
+S000000263	ORF	Verified	YBR059C	AKL1	serine/threonine protein kinase AKL1	chromosome 2	S000007479	2	360187	356861	C		2011-02-03	1997-01-28	Ser-Thr protein kinase; member (with Ark1p and Prk1p) of the Ark kinase family; involved in endocytosis and actin cytoskeleton organization
+S000031795	CDS					YBR059C		2	360187	356861	C		2011-02-03	1997-01-28	
+S000000264	ORF	Verified	YBR060C	ORC2	origin recognition complex subunit 2|SIR5|RRR1	chromosome 2	L000001776	2	362514	360652	C		2011-02-03	1997-01-28	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; interacts with Spp1p and with trimethylated histone H3; phosphorylated by Cdc28p
+S000031761	CDS					YBR060C		2	362514	360652	C		2011-02-03	1997-01-28	
+S000000265	ORF	Verified	YBR061C	TRM7	tRNA methyltransferase TRM7	chromosome 2		2	365719	364787	C		2011-02-03	1997-01-28	2'-O-ribose methyltransferase; methylates the 2'-O-ribose of tRNA-Phe, tRNA-Trp, and tRNA-Leu at positions C32 and N34 of tRNA anticodon loop; crucial biological role likely modification of tRNA-Phe; interacts with Trm732p and Rtt10p in 2'-O-methylation of C32 and N34 substrate tRNAs, respectively; yeast null mutant can be functionally complemented by human FTSJ1, mutations in which have been implicated in nonsyndromic X-linked intellectual disability (NSXLID)
+S000031905	CDS					YBR061C		2	365719	364787	C		2011-02-03	1997-01-28	
+S000000266	ORF	Uncharacterized	YBR062C			chromosome 2		2	366600	365976	C		2011-02-03	2004-07-16|1997-01-28	Protein of unknown function that interacts with Msb2p; may play a role in activation of the filamentous growth pathway
+S000032827	CDS					YBR062C		2	366502	365976	C		2011-02-03	2004-07-16|1997-01-28	
+S000032826	CDS					YBR062C		2	366600	366585	C		2011-02-03	2004-07-16	
+S000032828	intron					YBR062C		2	366584	366503	C		2011-02-03	2004-07-16	
+S000000268	ORF	Dubious	YBR064W			chromosome 2		2	367763	368191	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YBR063C
+S000033067	CDS					YBR064W		2	367763	368191	W		2011-02-03	1997-01-28	
+S000000267	ORF	Uncharacterized	YBR063C			chromosome 2		2	368184	366970	C		2011-02-03	1997-01-28	Putative protein of unknown function; YBR063C is not an essential gene
+S000032899	CDS					YBR063C		2	368184	366970	C		2011-02-03	1997-01-28	
+S000000269	ORF	Verified	YBR065C	ECM2	SLT11	chromosome 2	L000003878	2	369678	368584	C		2011-02-03	1997-01-28	Pre-mRNA splicing factor; facilitates the cooperative formation of U2/U6 helix II in association with stem II in the spliceosome, function may be regulated by Slu7p
+S000033674	CDS					YBR065C		2	369678	368584	C		2011-02-03	1997-01-28	
+S000000270	ORF	Verified	YBR066C	NRG2		chromosome 2	L000004599	2	370699	370037	C		2011-02-03	1997-01-28	Transcriptional repressor; mediates glucose repression and negatively regulates filamentous growth; activated in stochastic pulses of nuclear localization in response to low glucose
+S000033763	CDS					YBR066C		2	370699	370037	C		2011-02-03	1997-01-28	
+S000000271	ORF	Verified	YBR067C	TIP1	putative lipase	chromosome 2	L000002311	2	372735	372103	C		2011-02-03	1997-01-28	Major cell wall mannoprotein with possible lipase activity; transcription is induced by heat- and cold-shock; member of the Srp1p/Tip1p family of serine-alanine-rich proteins
+S000033875	CDS					YBR067C		2	372735	372103	C		2011-02-03	1997-01-28	
+S000000272	ORF	Verified	YBR068C	BAP2	branched-chain amino acid permease BAP2	chromosome 2	L000003157	2	375690	373861	C		2011-02-03	1997-01-28|2011-02-03	High-affinity leucine permease; functions as a branched-chain amino acid permease involved in uptake of leucine, isoleucine and valine; contains 12 predicted transmembrane domains; BAP2 has a paralog, BAP3, that arose from the whole genome duplication
+S000034014	CDS					YBR068C		2	375690	373861	C		2011-02-03	1997-01-28|2011-02-03	
+S000000273	ORF	Verified	YBR069C	TAT1	amino acid transporter TAT1|VAP1|TAP1	chromosome 2	L000002454|L000002262	2	378433	376574	C		2011-02-03	1997-01-28	Amino acid transporter for valine, leucine, isoleucine, and tyrosine; low-affinity tryptophan and histidine transporter; overexpression confers FK506 and FTY720 resistance; protein abundance increases in response to DNA replication stress
+S000034884	CDS					YBR069C		2	378433	376574	C		2011-02-03	1997-01-28	
+S000130151	ARS		ARS212		ARSII-379	chromosome 2		2	379221	379912			2011-02-03	2009-05-07	Autonomously Replicating Sequence
+S000000274	ORF	Verified	YBR070C	ALG14	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase anchoring subunit ALG14	chromosome 2		2	379934	379221	C		2011-02-03	1997-01-28	Component of UDP-GlcNAc transferase; required for second step of dolichyl-linked oligosaccharide synthesis; anchors catalytic subunit Alg13p to ER membrane; similar to bacterial and human glycosyltransferases; both human homologs ALG13 and ALG14 are required to complement yeast alg14 mutant
+S000035895	CDS					YBR070C		2	379934	379221	C		2011-02-03	1997-01-28	
+S000000275	ORF	Verified	YBR071W			chromosome 2		2	380411	381046	W		2011-02-03	1997-01-28	Protein of unknown function found in the cytoplasm and bud neck; mRNA expression may be regulated by the cell cycle and/or cell wall stress; overexpression of YBR071W affects endocytic protein trafficking
+S000036135	CDS					YBR071W		2	380411	381046	W		2011-02-03	1997-01-28	
+S000000276	ORF	Verified	YBR072W	HSP26	chaperone protein HSP26	chromosome 2	L000000817	2	382030	382674	W		2011-02-03	1997-01-28	Small heat shock protein (sHSP) with chaperone activity; forms hollow, sphere-shaped oligomers that suppress unfolded proteins aggregation; long-lived protein that is preferentially retained in mother cells and forms cytoplasmic foci; oligomer activation requires heat-induced conformational change; also has mRNA binding activity
+S000036920	CDS					YBR072W		2	382030	382674	W		2011-02-03	1997-01-28	
+S000028532	ORF	Uncharacterized	YBR072C-A			chromosome 2		2	383021	382860	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031141	CDS					YBR072C-A		2	383021	382860	C		2011-02-03	2003-07-29	
+S000000277	ORF	Verified	YBR073W	RDH54	DNA-dependent ATPase RDH54|TID1	chromosome 2	L000002988|L000003224	2	383112	385988	W		2011-02-03	2003-09-22|1997-01-28|2009-05-07|2011-02-03	DNA-dependent ATPase; DNA recombination/repair translocase, supercoils DNA and promotes DNA strand opening; stimulates strand exchange by modifying dsDNA topology; involved in recombinational repair of DNA double-strand breaks (DSBs) during mitosis and meiosis; phosphorylated in Mec1p-, Rad53p-dependent way in response to one DSB; contributes to remodelling of nucleosomes; proposed to be involved in crossover interference; interacts with Dmc1p; stimulates Dmc1p and Rad51p
+S000036971	CDS					YBR073W		2	383112	385988	W		2011-02-03	2003-09-22|1997-01-28|2009-05-07|2011-02-03	
+S000000278	ORF	Verified	YBR074W	PFF1	YBR075W	chromosome 2		2	386286	389216	W		2011-02-03	2003-09-29|1997-01-28|2011-02-03	Multi-spanning vacuolar membrane protease; glycosylated transmembrane protein bearing homology to the M28 family of metalloproteases; has a lumenal-facing protease domain; proposed role in vacuole physiology
+S000037055	CDS					YBR074W		2	386286	389216	W		2011-02-03	2003-09-29|1997-01-28|2011-02-03	
+S000130152	ARS		ARS213		ARSII-390	chromosome 2		2	389212	390371			2011-02-03	2009-05-07|2011-02-03	Autonomously Replicating Sequence
+S000000280	ORF	Verified	YBR076W	ECM8		chromosome 2	L000003883	2	390227	391291	W		2011-02-03	1997-01-28|2011-02-03	Non-essential protein of unknown function
+S000037886	CDS					YBR076W		2	390227	391291	W		2011-02-03	1997-01-28|2011-02-03	
+S000028533	ORF	Dubious	YBR076C-A			chromosome 2		2	391617	391351	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene ECM8; identified by fungal homology and RT-PCR
+S000031142	CDS					YBR076C-A		2	391617	391351	C		2011-02-03	2003-07-29	
+S000000281	ORF	Verified	YBR077C	SLM4	GSE1|NIR1|EGO3	chromosome 2		2	392293	391805	C		2011-02-03	1997-01-28	Component of the EGO and GSE complexes; essential for integrity and function of EGO; EGO is involved in the regulation of microautophagy and GSE is required for proper sorting of amino acid permease Gap1p; gene exhibits synthetic genetic interaction with MSS4
+S000029854	CDS					YBR077C		2	392293	391805	C		2011-02-03	1997-01-28	
+S000000282	ORF	Verified	YBR078W	ECM33		chromosome 2	L000003902	2	393123	394742	W		2011-02-03	1997-01-28|2011-02-03	GPI-anchored protein of unknown function; possible role in apical bud growth; GPI-anchoring on the plasma membrane crucial to function; phosphorylated in mitochondria; similar to Sps2p; ECM33 has a paralog, PST1, that arose from the whole genome duplication
+S000030046	CDS					YBR078W		2	393123	393180	W		2011-02-03	1997-01-28	
+S000030047	CDS					YBR078W		2	393511	394742	W		2011-02-03	1997-01-28|2011-02-03	
+S000030048	intron					YBR078W		2	393181	393510	W		2011-02-03	1997-01-28	
+S000000283	ORF	Verified	YBR079C	RPG1	translation initiation factor eIF3 core subunit a|TIF32	chromosome 2	L000004268	2	398277	395383	C		2011-02-03	1997-01-28	eIF3a subunit of the eukaryotic translation initiation factor 3 (eIF3); subunit of the core complex of eIF3; essential for translation; part of a Prt1p-Rpg1p-Nip1p subcomplex that stimulates binding of mRNA and tRNA(i)Met to ribosomes; involved in translation reinitiation; eIF3 is also involved in programmed stop codon readthrough
+S000030963	CDS					YBR079C		2	398277	395383	C		2011-02-03	1997-01-28	
+S000000284	ORF	Verified	YBR080C	SEC18	AAA family ATPase SEC18|ANU4	chromosome 2	L000001842	2	400890	398614	C	48	2011-02-03	1997-01-28	AAA ATPase and SNARE disassembly chaperone; required for vesicular transport between ER and Golgi, the 'priming' step in homotypic vacuole fusion, autophagy, and protein secretion; releases Sec17p from SNAP complexes; has similarity to mammalian N-ethylmaleimide-sensitive factor (NSF)
+S000031072	CDS					YBR080C		2	400890	398614	C		2011-02-03	1997-01-28	
+S000000285	ORF	Verified	YBR081C	SPT7	SAGA histone acetyltransferase complex subunit SPT7|GIT2	chromosome 2	L000002033	2	405251	401253	C	46	2011-02-03	1997-01-28	Subunit of the SAGA transcriptional regulatory complex; involved in proper assembly of the complex; also present as a C-terminally truncated form in the SLIK/SALSA transcriptional regulatory complex
+S000032039	CDS					YBR081C		2	405251	401253	C		2011-02-03	1997-01-28	
+S000006708	tRNA_gene		tR(UCU)B			chromosome 2	L000003745	2	405878	405949	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA); decodes AGA codons into arginine; one of 19 nuclear tRNAs for arginine; part of dicistronic transcript with tD(GUC)B
+S000037831	noncoding_exon					tR(UCU)B		2	405878	405949	W		2011-02-03	2000-05-19	
+S000006530	tRNA_gene		tD(GUC)B			chromosome 2	L000003746	2	405960	406031	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000037666	noncoding_exon					tD(GUC)B		2	405960	406031	W		2011-02-03	2000-05-19	
+S000000286	ORF	Verified	YBR082C	UBC4	E2 ubiquitin-conjugating protein UBC4	chromosome 2	L000002407	2	407169	406628	C		2011-02-03	1997-01-28	Ubiquitin-conjugating enzyme (E2); key E2 partner with Ubc1p for the anaphase-promoting complex (APC); mediates degradation of abnormal or excess proteins, including calmodulin and histone H3; regulates levels of DNA Polymerase-{alpha} to promote efficient and accurate DNA replication; interacts with many SCF ubiquitin protein ligases; component of the cellular stress response; UBC4 has a paralog, UBC5, that arose from the whole genome duplication
+S000032123	CDS					YBR082C		2	407027	406628	C		2011-02-03	1997-01-28	
+S000032122	CDS					YBR082C		2	407169	407123	C		2011-02-03	1997-01-28	
+S000032124	intron					YBR082C		2	407122	407028	C		2011-02-03	1997-01-28	
+S000118348	ARS		ARS214		ARSII-408	chromosome 2		2	407953	408068			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178048	ARS_consensus_sequence					ARS214		2	408004	407988	C		2014-11-18	2014-11-18	
+S000000287	ORF	Verified	YBR083W	TEC1	ROC1	chromosome 2	L000002276|L000001658	2	409169	410629	W		2011-02-03	1997-01-28	Transcription factor targeting filamentation genes and Ty1 expression; Ste12p activation of most filamentation gene promoters depends on Tec1p and Tec1p transcriptional activity is dependent on its association with Ste12p; binds to TCS elements upstream of filamentation genes, which are regulated by Tec1p/Ste12p/Dig1p complex; competes with Dig2p for binding to Ste12p/Dig1p; positive regulator of chronological life span; TEA/ATTS DNA-binding domain family member
+S000032249	CDS					YBR083W		2	409169	410629	W		2011-02-03	1997-01-28	
+S000000288	ORF	Verified	YBR084W	MIS1	trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase MIS1	chromosome 2	L000001115	2	411054	413981	W		2011-02-03	1997-01-28	Mitochondrial C1-tetrahydrofolate synthase; involved in interconversion between different oxidation states of tetrahydrofolate (THF); provides activities of formyl-THF synthetase, methenyl-THF cyclohydrolase, and methylene-THF dehydrogenase
+S000033123	CDS					YBR084W		2	411054	413981	W		2011-02-03	1997-01-28	
+S000002156	ORF	Verified	YBR084C-A	RPL19A	eL19|ribosomal 60S subunit protein L19A|L19e|rpl5L|YL14|L23A|L19A	chromosome 2	L000001720	2	415261	414186	C		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L19A; rpl19a and rpl19b single null mutations result in slow growth, while the double null mutation is lethal; homologous to mammalian ribosomal protein L19, no bacterial homolog; RPL19A has a paralog, RPL19B, that arose from the whole genome duplication
+S000033730	CDS					YBR084C-A		2	414753	414186	C		2011-02-03	1997-01-28	
+S000033729	CDS					YBR084C-A		2	415261	415260	C		2011-02-03	1997-01-28	
+S000033731	intron					YBR084C-A		2	415259	414754	C		2011-02-03	1997-01-28	
+S000000289	ORF	Verified	YBR085W	AAC3	ADP/ATP carrier protein AAC3|ANC3	chromosome 2	L000000005	2	415983	416906	W		2011-02-03	1997-01-28	Mitochondrial inner membrane ADP/ATP translocator; exchanges cytosolic ADP for mitochondrially synthesized ATP; expressed under anaerobic conditions; similar to Aac1p; has roles in maintenance of viability and in respiration; AAC3 has a paralog, PET9, that arose from the whole genome duplication
+S000033180	CDS					YBR085W		2	415983	416906	W		2011-02-03	1997-01-28	
+S000118349	ARS		ARS215		ARSII-418	chromosome 2		2	417784	418079			2011-02-03	2006-08-30	Autonomously Replicating Sequence; replication origin of very weak function
+S000007522	ORF	Verified	YBR085C-A			chromosome 2		2	419164	418907	C		2011-02-03	2000-07-14	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus; protein abundance increases in response to DNA replication stress
+S000037060	CDS					YBR085C-A		2	419164	418907	C		2011-02-03	2000-07-14	
+S000000290	ORF	Verified	YBR086C	IST2		chromosome 2		2	423041	420201	C		2011-02-03	2003-01-03|1997-01-28	Cortical ER protein involved in ER-plasma membrane tethering; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to the plasma membrane (PM) and regulate PM phosphatidylinositol-4-phosphate (PI4P) levels by controlling access of Sac1p phosphatase to its substrate PI4P in the PM; localizes to the mother cell in small-budded cells and to the bud in medium- and large-budded cells; mRNA is transported to the bud tip by an actomyosin-driven process
+S000033202	CDS					YBR086C		2	423041	420201	C		2011-02-03	2003-01-03|1997-01-28	
+S000000291	ORF	Verified	YBR087W	RFC5	replication factor C subunit 5	chromosome 2	L000002843	2	423765	424829	W		2011-02-03	1997-01-28	Subunit of heteropentameric Replication factor C (RF-C); RF-C is a DNA binding protein and ATPase that acts as a clamp loader of the proliferating cell nuclear antigen (PCNA) processivity factor for DNA polymerases delta and epsilon
+S000033291	CDS					YBR087W		2	423765	424829	W		2011-02-03	1997-01-28	
+S000000293	ORF	Dubious	YBR089W			chromosome 2		2	425183	425782	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified gene POL30
+S000034297	CDS					YBR089W		2	425183	425782	W		2011-02-03	1997-01-28	
+S000000292	ORF	Verified	YBR088C	POL30	proliferating cell nuclear antigen|PCNA	chromosome 2	L000001463	2	425766	424990	C		2011-02-03	1997-01-28	Proliferating cell nuclear antigen (PCNA); functions as the sliding replication clamp for DNA polymerase delta; may function as a docking site for other proteins required for mitotic and meiotic chromosomal DNA replication and for DNA repair; PCNA ubiquitination at K164 plays a crucial role during Okazaki fragment processing
+S000033330	CDS					YBR088C		2	425766	424990	C		2011-02-03	1997-01-28	
+S000002157	ORF	Verified	YBR089C-A	NHP6B	high-mobility group nucleosome-binding protein|YBR090C-A	chromosome 2	L000001246	2	426489	426190	C		2011-02-03	1997-01-28|2011-02-03	High-mobility group (HMG) protein; binds to and remodels nucleosomes; involved in recruiting FACT and other chromatin remodelling complexes to the chromosomes; functionally redundant with Nhp6Ap; required for transcriptional initiation fidelity of some tRNA genes; homologous to mammalian HMGB1 and HMGB2; NHP6B has a paralog, NHP6A, that arose from the whole genome duplication
+S000031885	CDS					YBR089C-A		2	426489	426190	C		2011-02-03	1997-01-28|2011-02-03	
+S000122092	five_prime_UTR_intron					YBR089C-A		2	426873	426517	C		2011-02-03	2007-04-04	
+S000000294	ORF	Uncharacterized	YBR090C			chromosome 2		2	427058	426333	C		2011-02-03	1997-01-28|2011-02-03	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
+S000035423	CDS					YBR090C		2	426516	426333	C		2011-02-03	1997-01-28|2011-02-03	
+S000035422	CDS					YBR090C		2	427058	426874	C		2011-02-03	1997-01-28	
+S000035424	intron					YBR090C		2	426873	426517	C		2011-02-03	1997-01-28	
+S000000295	ORF	Verified	YBR091C	TIM12	MRS5	chromosome 2	L000001181	2	427484	427155	C		2011-02-03	1997-01-28	Essential protein of the inner mitochondrial membrane; peripherally localized; component of the TIM22 complex, which is a twin-pore translocase that mediates insertion of numerous multispanning inner membrane proteins
+S000036311	CDS					YBR091C		2	427484	427155	C		2011-02-03	1997-01-28	
+S000000296	ORF	Verified	YBR092C	PHO3	acid phosphatase PHO3|phoC	chromosome 2	L000001419	2	429101	427698	C	47	2011-02-03	1997-01-28	Constitutively expressed acid phosphatase similar to Pho5p; brought to the cell surface by transport vesicles; hydrolyzes thiamin phosphates in the periplasmic space, increasing cellular thiamin uptake; expression is repressed by thiamin
+S000036423	CDS					YBR092C		2	429101	427698	C		2011-02-03	1997-01-28	
+S000000297	ORF	Verified	YBR093C	PHO5	acid phosphatase PHO5|phoE	chromosome 2	L000001421	2	430951	429548	C	47	2011-02-03	1997-01-28	Repressible acid phosphatase; 1 of 3 repressible acid phosphatases that also mediates extracellular nucleotide-derived phosphate hydrolysis; secretory pathway derived cell surface glycoprotein; induced by phosphate starvation and coordinately regulated by PHO4 and PHO2
+S000036491	CDS					YBR093C		2	430951	429548	C		2011-02-03	1997-01-28	
+S000000298	ORF	Verified	YBR094W	PBY1	putative tubulin tyrosine ligase	chromosome 2		2	432036	434297	W		2011-02-03	1997-01-28|2011-02-03	Putative tubulin tyrosine ligase associated with P-bodies; may have a role in mRNA metabolism; yeast knockout collection strain identified as a pby1 null mutant is actually wild-type for PBY1 and deleted for mms4
+S000037253	CDS					YBR094W		2	432036	434297	W		2011-02-03	1997-01-28|2011-02-03	
+S000000299	ORF	Verified	YBR095C	RXT2	RAF60	chromosome 2		2	435698	434406	C		2011-02-03	2003-09-22|1997-01-28	Component of the histone deacetylase Rpd3L complex; possibly involved in cell fusion and invasive growth; relocalizes to the cytosol in response to hypoxia
+S000037292	CDS					YBR095C		2	435698	434406	C		2011-02-03	2003-09-22|1997-01-28	
+S000000300	ORF	Uncharacterized	YBR096W			chromosome 2		2	436021	436713	W		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the ER
+S000037475	CDS					YBR096W		2	436021	436713	W		2011-02-03	1997-01-28	
+S000000301	ORF	Verified	YBR097W	VPS15	ubiquitin-binding serine/threonine protein kinase VPS15|VPT15|VPS40|VPL19|VAC4|GRD8	chromosome 2	L000002470|L000002924|S000029641|L000002480	2	436951	441315	W		2011-02-03	1997-01-28|2011-02-03	Serine/threonine protein kinase involved in vacuolar protein sorting; functions as a membrane-associated complex with Vps34p; active form recruits Vps34p to the Golgi membrane; interacts with the GDP-bound form of Gpa1p; myristoylated; a fraction is localized, with Vps34p, to nuclear pores at nucleus-vacuole junctions and may facilitate transcription elongation for genes positioned at the nuclear periphery
+S000030201	CDS					YBR097W		2	436951	441315	W		2011-02-03	1997-01-28|2011-02-03	
+S000000302	ORF	Verified	YBR098W	MMS4	YBR100W|SLX2	chromosome 2		2	441515	443590	W		2011-02-03	2003-01-03|1997-01-28	Subunit of structure-specific Mms4p-Mus81p endonuclease; cleaves branched DNA; involved in recombination, DNA repair, and joint molecule formation/resolution during meiotic recombination; phosphorylation of the non-catalytic subunit Mms4p by Cdc28p and Cdc5p during mitotic cell cycle activates the function of Mms4p-Mus81p
+S000030360	CDS					YBR098W		2	441515	443590	W		2011-02-03	2003-01-03|1997-01-28	
+S000000303	ORF	Dubious	YBR099C			chromosome 2		2	443307	442924	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene MMS4
+S000030430	CDS					YBR099C		2	443307	442924	C		2011-02-03	1997-01-28	
+S000000305	ORF	Verified	YBR101C	FES1		chromosome 2		2	444693	443821	C		2011-02-03	1997-01-28	Hsp70 (Ssa1p) nucleotide exchange factor; required for the release of misfolded proteins from the Hsp70 system to the Ub-proteasome machinery for destruction; cytosolic homolog of Sil1p, which is the nucleotide exchange factor for BiP (Kar2p) in the endoplasmic reticulum; protein abundance increases in response to DNA replication stress
+S000036293	CDS					YBR101C		2	444693	443821	C		2011-02-03	1997-01-28	
+S000000306	ORF	Verified	YBR102C	EXO84	exocyst subunit EXO84|USA3	chromosome 2	S000007470|L000003227	2	447323	445062	C		2011-02-03	1997-01-28	Exocyst subunit with dual roles in exocytosis and spliceosome assembly; subunit of the the exocyst complex which mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane (PM) prior to SNARE-mediated fusion; required for exocyst assembly and targeting the complex to specific sites on the bud tip PM; associates the U1 snRNP; role in pre-mRNA splicing and prespliceosome formation; possible Cdc28 substrate
+S000036412	CDS					YBR102C		2	447323	445062	C		2011-02-03	1997-01-28	
+S000000307	ORF	Verified	YBR103W	SIF2	EMB1	chromosome 2		2	447709	449316	W		2011-02-03	1997-01-28	WD40 repeat-containing subunit of Set3C histone deacetylase complex; complex represses early/middle sporulation genes; antagonizes telomeric silencing; binds specifically to the Sir4p N-terminus
+S000037118	CDS					YBR103W		2	447709	449316	W		2011-02-03	1997-01-28	
+S000007593	ORF	Dubious	YBR103C-A			chromosome 2		2	449463	449320	C		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by homology to related yeast
+S000037105	CDS					YBR103C-A		2	449463	449320	C		2011-02-03	2001-02-26	
+S000000308	ORF	Verified	YBR104W	YMC2	organic acid transporter	chromosome 2	L000002521	2	449667	450656	W		2011-02-03	1997-01-28	Putative mitochondrial inner membrane transporter; proposed role in oleate metabolism and glutamate biosynthesis; member of the mitochondrial carrier (MCF) family; YMC2 has a paralog, YMC1, that arose from the whole genome duplication
+S000037195	CDS					YBR104W		2	449667	450656	W		2011-02-03	1997-01-28	
+S000000309	ORF	Verified	YBR105C	VID24	glucose-induced degradation complex subunit VID24|GID4	chromosome 2	L000004624	2	451969	450881	C		2011-02-03	1997-01-28	GID Complex regulatory subunit; binds GID Complex in response to glucose through interactions with complex member Vid28p; regulates fructose-1,6-bisphosphatase (FBPase) targeting to the vacuole; promotes proteasome-dependent catabolite degradation of FBPase; peripheral membrane protein located at Vid (vacuole import and degradation) vesicles
+S000037212	CDS					YBR105C		2	451969	450881	C		2011-02-03	1997-01-28	
+S000000310	ORF	Verified	YBR106W	PHO88	SND3	chromosome 2	L000003995	2	452658	453224	W		2011-02-03	1997-01-28	Protein involved in SRP-independent targeting of substrates to the ER; component of an alternative ER targeting pathway that has partial functional redundancy with the GET pathway; preference for substrates with downstream transmembrane domains; interacts with Snd1p, Env10p/Snd2p, and Sec61p-translocon subunits; can compensate for loss of SRP; role in phosphate transport, interacting with pho88, and in the maturation of secretory proteins
+S000037352	CDS					YBR106W		2	452658	453224	W		2011-02-03	1997-01-28	
+S000000311	ORF	Verified	YBR107C	IML3	MCM19	chromosome 2	L000004778	2	454530	453793	C		2011-02-03	1997-01-28	Outer kinetochore protein and component of the Ctf19 complex; involved in the establishment of pericentromeric cohesion during mitosis; prevents non-disjunction of sister chromatids during meiosis II; forms a stable complex with Chl4p; required for localization of Sgo1p to pericentric sites during meiosis I; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-L and fission yeast fta1
+S000037374	CDS					YBR107C		2	454530	453793	C		2011-02-03	1997-01-28	
+S000000312	ORF	Verified	YBR108W	AIM3		chromosome 2		2	454822	457665	W		2011-02-03	2004-07-09|1997-01-28|2011-02-03	Protein that inhibits barbed-end actin filament elongation; interacts with Rvs167p; null mutant is viable and displays elevated frequency of mitochondrial genome loss
+S000030057	CDS					YBR108W		2	454822	457665	W		2011-02-03	2004-07-09|1997-01-28|2011-02-03	
+S000000313	ORF	Verified	YBR109C	CMD1	calmodulin|CaM	chromosome 2	L000000365	2	458362	457919	C	53	2011-02-03	1997-01-28	Calmodulin; Ca2+ binding protein that regulates Ca2+ independent processes (mitosis, bud growth, actin organization, endocytosis, etc.) and Ca2+ dependent processes (stress-activated pathways), targets include Nuf1p, Myo2p and calcineurin; binds to the Hog1p MAPK in response to hyperosmotic stress; potentiates membrane tubulation and constriction mediated by the Rvs161p-Rvs167p complex; human CALM1 or CALM2 functionally complement repression induced inviability
+S000030094	CDS					YBR109C		2	458362	457919	C		2011-02-03	1997-01-28	
+S000028737	ORF	Dubious	YBR109W-A			chromosome 2		2	458608	458832	W		2011-02-03	2003-07-29	Putative protein of unknown function; questionable ORF from MIPS
+S000033381	CDS					YBR109W-A		2	458608	458832	W		2011-02-03	2003-07-29	
+S000000314	ORF	Verified	YBR110W	ALG1	chitobiosyldiphosphodolichol beta-1,4 mannosyltransferase	chromosome 2	L000000076	2	458872	460221	W	54	2011-02-03	1997-01-28	Mannosyltransferase; involved in asparagine-linked glycosylation in the endoplasmic reticulum (ER); essential for viability; human homolog ALG1 complements yeast null mutant
+S000032542	CDS					YBR110W		2	458872	460221	W		2011-02-03	1997-01-28	
+S000000315	ORF	Verified	YBR111C	YSA1	ADP-ribose diphosphatase|RMA2	chromosome 2	L000002551	2	461873	461178	C		2011-02-03	1997-01-28	Nudix hydrolase family member with ADP-ribose pyrophosphatase activity; shown to metabolize O-acetyl-ADP-ribose to AMP and acetylated ribose 5'-phosphate
+S000032550	CDS					YBR111C		2	461873	461178	C		2011-02-03	1997-01-28	
+S000028510	ORF	Verified	YBR111W-A	SUS1		chromosome 2		2	462139	462579	W		2011-02-03	2003-12-17|2003-07-29	Component of both the SAGA histone acetylase and TREX-2 complexes; interacts with RNA polymerase II; involved in mRNA export coupled transcription activation and elongation; involved in post-transcriptional tethering of active genes to the nuclear periphery and to non-nascent mRNP
+S000030260	CDS					YBR111W-A		2	462139	462209	W		2011-02-03	2003-12-17|2003-07-29	
+S000030261	CDS					YBR111W-A		2	462290	462429	W		2011-02-03	2003-12-17|2003-07-29	
+S000030263	CDS					YBR111W-A		2	462500	462579	W		2011-02-03	2003-12-17	
+S000030262	intron					YBR111W-A		2	462210	462289	W		2011-02-03	2003-12-17|2003-07-29	
+S000030264	intron					YBR111W-A		2	462430	462499	W		2011-02-03	2003-12-17	
+S000000317	ORF	Dubious	YBR113W			chromosome 2		2	465566	466048	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CYC8
+S000033391	CDS					YBR113W		2	465566	466048	W		2011-02-03	1997-01-28	
+S000000316	ORF	Verified	YBR112C	CYC8	transcription regulator CYC8|[OCT]|[OCT1+]|SSN6|CRT8	chromosome 2	L000000452	2	465770	462870	C	56	2011-02-03	1997-01-28	General transcriptional co-repressor; acts together with Tup1p; also acts as part of a transcriptional co-activator complex that recruits the SWI/SNF and SAGA complexes to promoters; can form the prion [OCT+]
+S000032660	CDS					YBR112C		2	465770	462870	C		2011-02-03	1997-01-28	
+S000000318	ORF	Verified	YBR114W	RAD16	DNA repair protein RAD16|PSO5	chromosome 2	L000004121|L000001565	2	467248	469620	W	58	2011-02-03	1997-01-28	Nucleotide excision repair (NER) protein; binds damaged DNA during NER; binds DNA in an ATP-dependent manner (with Rad7p) during NER; required for NER of non-transcribed chromatin; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex
+S000033462	CDS					YBR114W		2	467248	469620	W		2011-02-03	1997-01-28	
+S000000319	ORF	Verified	YBR115C	LYS2	L-aminoadipate-semialdehyde dehydrogenase	chromosome 2	L000000965	2	473926	469748	C	59	2011-02-03	1997-01-28	Alpha aminoadipate reductase; catalyzes the reduction of alpha-aminoadipate to alpha-aminoadipate 6-semialdehyde, which is the fifth step in biosynthesis of lysine; activation requires posttranslational phosphopantetheinylation by Lys5p
+S000033483	CDS					YBR115C		2	473926	469748	C		2011-02-03	1997-01-28	
+S000000320	ORF	Dubious	YBR116C			chromosome 2		2	474726	474199	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene TKL2
+S000033572	CDS					YBR116C		2	474726	474199	C		2011-02-03	1997-01-28	
+S000000321	ORF	Verified	YBR117C	TKL2	transketolase TKL2	chromosome 2	L000002314	2	476437	474392	C		2011-02-03	1997-01-28	Transketolase; catalyzes conversion of xylulose-5-phosphate and ribose-5-phosphate to sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate in the pentose phosphate pathway; needed for synthesis of aromatic amino acids; TKL2 has a paralog, TKL1, that arose from the whole genome duplication
+S000033608	CDS					YBR117C		2	476437	474392	C		2011-02-03	1997-01-28	
+S000000322	ORF	Verified	YBR118W	TEF2	translation elongation factor EF-1 alpha|eEF1A|EF-1 alpha	chromosome 2	L000002278	2	477671	479047	W	61	2011-02-03	1997-01-28	Translational elongation factor EF-1 alpha; in the GTP-bound active form, binds to and delivers aminoacylated tRNA to the A-site of ribosomes for elongation of nascent polypeptides; associates with vacuolar Rho1p GTPase; TEF2-RFP levels increase during replicative aging; may also have a role in tRNA re-export from the nucleus; TEF2 has a paralog, TEF1, that arose from the whole genome duplication
+S000034590	CDS					YBR118W		2	477671	479047	W		2011-02-03	1997-01-28	
+S000000323	ORF	Verified	YBR119W	MUD1	U1A|U1-A	chromosome 2	L000001217	2	479338	480323	W		2011-02-03	1997-01-28	U1 snRNP A protein; homolog of human U1-A; involved in nuclear mRNA splicing
+S000034715	CDS					YBR119W		2	479338	479345	W		2011-02-03	1997-01-28	
+S000034716	CDS					YBR119W		2	479435	480323	W		2011-02-03	1997-01-28	
+S000034717	intron					YBR119W		2	479346	479434	W		2011-02-03	1997-01-28	
+S000000324	ORF	Verified	YBR120C	CBP6		chromosome 2	L000000228	2	480923	480435	C		2011-02-03	1997-01-28	Mitochondrial protein required for translation of the COB mRNA; forms a complex with Cbp3p that binds to mt ribosomes near the polypeptide tunnel exit and promotes efficient translation of the COB mRNA; Cbp3p-Cbp6p complex also interacts with newly synthesized cytochrome b (Cobp) and Cbp4p to promote assembly of Cobp into the cytochrome bc1 complex; Cbp3p-Cbp6p complex is sequestered if assembly of Complex III is blocked, downregulating COB mRNA translation
+S000035739	CDS					YBR120C		2	480923	480435	C		2011-02-03	1997-01-28	
+S000028815	ORF	Dubious	YBR121C-A			chromosome 2		2	482484	482326	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely contained within the verified gene GRS1; identified by expression profiling and mass spectrometry
+S000033618	CDS					YBR121C-A		2	482484	482326	C		2011-02-03	2003-07-29	
+S000000325	ORF	Verified	YBR121C	GRS1	glycine--tRNA ligase	chromosome 2	L000000738|L000000731	2	483367	481364	C		2011-02-03	1997-01-28|2011-02-03	Cytoplasmic and mitochondrial glycyl-tRNA synthase; ligates glycine to the cognate anticodon-bearing tRNA; transcription termination factor that may interact with the 3'-end of pre-mRNA to promote 3'-end formation; GRS1 has a paralog, GRS2, that arose from the whole genome duplication; human homolog GARS implicated in Charcot-Marie-Tooth disease, can complement yeast null mutant
+S000036674	CDS					YBR121C		2	483367	481364	C		2011-02-03	1997-01-28|2011-02-03	
+S000000326	ORF	Verified	YBR122C	MRPL36	mitochondrial 54S ribosomal protein YmL36|YmL36	chromosome 2	L000002531|L000001171	2	484503	483970	C		2011-02-03	2003-09-22|1997-01-28	Mitochondrial ribosomal protein of the large subunit; overproduction suppresses mutations in the COX2 leader peptide-encoding region
+S000036725	CDS					YBR122C		2	484503	483970	C		2011-02-03	2003-09-22|1997-01-28	
+S000000328	ORF	Dubious	YBR124W			chromosome 2		2	486507	486866	W		2011-02-03	1997-01-28	Putative protein of unknown function
+S000037559	CDS					YBR124W		2	486507	486866	W		2011-02-03	1997-01-28	
+S000000327	ORF	Verified	YBR123C	TFC1	transcription factor TFIIIC subunit TFC1|tau 95	chromosome 2	L000002285	2	486691	484742	C		2011-02-03	1997-01-28	Subunit of RNA polymerase III transcription initiation factor complex; one of six subunits of the RNA polymerase III transcription initiation factor complex (TFIIIC); part of the TauA globular domain of TFIIIC that binds DNA at the BoxA promoter sites of tRNA and similar genes; human homolog is TFIIIC-63
+S000036794	CDS					YBR123C		2	486691	484742	C		2011-02-03	1997-01-28	
+S000118350	ARS		ARS216		ARSII-487	chromosome 2		2	486707	486954			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178049	ARS_consensus_sequence					ARS216		2	486859	486843	C		2014-11-18	2014-11-18	
+S000000329	ORF	Verified	YBR125C	PTC4	type 2C protein phosphatase PTC4|GCT1	chromosome 2		2	488380	487199	C		2011-02-03	1997-01-28	Cytoplasmic type 2C protein phosphatase (PP2C); identified as a high-copy number suppressor of cnb1 mpk1 synthetic lethality; overexpression decreases high-osmolarity induced Hog1p phosphorylation and kinase activity
+S000037589	CDS					YBR125C		2	488380	487199	C		2011-02-03	1997-01-28	
+S000000330	ORF	Verified	YBR126C	TPS1	alpha,alpha-trehalose-phosphate synthase (UDP-forming) TPS1|TSS1|GLC6|GGS1|FDP1|CIF1|BYP1	chromosome 2	L000002330	2	490392	488905	C	41	2011-02-03	1997-01-28	Synthase subunit of trehalose-6-P synthase/phosphatase complex; synthesizes the storage carbohydrate trehalose, which is critically important for survival of long-term desiccation; also found in a monomeric form; expression is induced by the stress response and repressed by the Ras-cAMP pathway; protein abundance increases in response to DNA replication stress and in response to prolonged exposure to boric acid
+S000037645	CDS					YBR126C		2	490392	488905	C		2011-02-03	1997-01-28	
+S000028600	ORF	Verified	YBR126W-A	MEO1		chromosome 2		2	490850	491056	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray analysis, and genome-wide homology searches; mRNA identified as translated by ribosome profiling data; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; partially overlaps the dubious ORF YBR126W-B
+S000031400	CDS					YBR126W-A		2	490850	491056	W		2011-02-03	2003-07-29	
+S000028738	ORF	Dubious	YBR126W-B			chromosome 2		2	490927	491070	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YBR126W-A; identified by SAGE
+S000033382	CDS					YBR126W-B		2	490927	491070	W		2011-02-03	2003-07-29	
+S000000331	ORF	Verified	YBR127C	VMA2	H(+)-transporting V1 sector ATPase subunit B|ATPSV|VAT2	chromosome 2	L000002458	2	492822	491269	C		2011-02-03	1997-01-28	Subunit B of V1 peripheral membrane domain of vacuolar H+-ATPase; electrogenic proton pump found throughout the endomembrane system; contains nucleotide binding sites; also detected in the cytoplasm; protein abundance increases in response to DNA replication stress; human homolog ATP6V1B1, implicated in autosomal-recessive distal renal tubular acidosis (RTA) with sensorineural deafness, complements yeast null mutant
+S000037698	CDS					YBR127C		2	492822	491269	C		2011-02-03	1997-01-28	
+S000000332	ORF	Verified	YBR128C	ATG14	APG14|CVT12	chromosome 2	L000004763|L000004641	2	494115	493081	C		2011-02-03	1997-01-28	Autophagy-specific subunit of phosphatidylinositol 3-kinase complex I; Atg14p targets complex I to the phagophore assembly site (PAS); required for localizing additional ATG proteins to the PAS; required for overflow degradation of misfolded proteins when ERAD is saturated; homolog of human Barkor; other members are Vps34, Vps15, and Vps30p
+S000037772	CDS					YBR128C		2	494115	493081	C		2011-02-03	1997-01-28	
+S000000333	ORF	Verified	YBR129C	OPY1		chromosome 2	L000004016	2	495339	494353	C		2011-02-03	1997-01-28	Protein of unknown function; overproduction blocks cell cycle arrest in the presence of mating pheromone; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000030622	CDS					YBR129C		2	495339	494353	C		2011-02-03	1997-01-28	
+S000000334	ORF	Verified	YBR130C	SHE3		chromosome 2	L000004189|L000002868	2	496869	495592	C		2011-02-03	1997-01-28	Protein adaptor between Myo4p and the She2p-mRNA complex; part of the mRNA localization machinery that restricts accumulation of certain proteins to the bud; also required for cortical ER inheritance
+S000030714	CDS					YBR130C		2	496869	495592	C		2011-02-03	1997-01-28	
+S000000335	ORF	Verified	YBR131W	CCZ1	CVT16	chromosome 2	L000004556|L000004776|S000029129	2	497163	499277	W		2011-02-03	1997-01-28	Subunit of a heterodimeric guanine nucleotide exchange factor (GEF); subunit of the Mon1-Ccz1 GEF complex, which stimulates nucleotide exchange and activation of Ypt7p, a Rab family GTPase involved in membrane tethering and fusion events at the late endosome and vacuole; GEF activity is stimulated by membrane association and anionic phospholipids; involved in localizing Ypt7p to the vacuolar membrane; required for macroautophagy, the CVT pathway and mitophagy
+S000031661	CDS					YBR131W		2	497163	499277	W		2011-02-03	1997-01-28	
+S000028601	ORF	Dubious	YBR131C-A			chromosome 2		2	497739	497650	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YBR131W; identified by gene-trapping, microarray analysis, and genome-wide homology searches
+S000031403	CDS					YBR131C-A		2	497739	497650	C		2011-02-03	2003-07-29	
+S000000336	ORF	Verified	YBR132C	AGP2		chromosome 2	L000003947	2	501442	499652	C		2011-02-03	1997-01-28	Plasma membrane regulator of polyamine and carnitine transport; has similarity to transporters but lacks transport activity; may act as a sensor that transduces environmental signals; has a positive or negative regulatory effect on transcription of many transporter genes
+S000031670	CDS					YBR132C		2	501442	499652	C		2011-02-03	1997-01-28	
+S000000338	ORF	Dubious	YBR134W			chromosome 2		2	504243	504644	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032775	CDS					YBR134W		2	504243	504644	W		2011-02-03	1997-01-28	
+S000000337	ORF	Verified	YBR133C	HSL7	protein arginine N-methyltransferase	chromosome 2	L000003130	2	504287	501804	C		2011-02-03	1997-01-28	Protein arginine N-methyltransferase; exhibits septin and Hsl1p-dependent localization to the bud neck in budded cells and periodic Hsl1p-dependent phosphorylation; required with Hsl1p, and Elm1p for the mother-bud neck recruitment, phosphorylation, and degradation of Swe1p; interacts directly with Swe1p; relocalizes away from bud neck upon DNA replication stress; human homolog PRMT5 can complement yeast hsl7 mutant
+S000031794	CDS					YBR133C		2	504287	501804	C		2011-02-03	1997-01-28	
+S000000339	ORF	Verified	YBR135W	CKS1	cyclin-dependent protein kinase regulatory subunit CKS1	chromosome 2	L000000347	2	504854	505306	W	73	2011-02-03	1997-01-28	Cyclin-dependent protein kinase regulatory subunit and adaptor; interacts with Cdc28p (aka Cdk1p); required for G1/S and G2/M phase transitions and budding; mediates phosphorylation and degradation of Sic1p; modulates proteolysis of M-phase targets through interactions with the proteasome; role in transcriptional regulation, recruiting proteasomal subunits to target gene promoters; human homologs CKS1B and CKS2 can each complement yeast cks1 null mutant
+S000032889	CDS					YBR135W		2	504854	505306	W		2011-02-03	1997-01-28	
+S000000340	ORF	Verified	YBR136W	MEC1	protein kinase MEC1|RAD31|SAD3|ESR1	chromosome 2	L000000586|S000029404|S000007656	2	505668	512774	W		2011-02-03	1997-01-28	Genome integrity checkpoint protein and PI kinase superfamily member; Mec1p and Dun1p function in same pathway to regulate dNTP pools and telomere length; signal transducer required for cell cycle arrest and transcriptional responses to damaged or unreplicated DNA; facilitates replication fork progression and regulates P-body formation under replication stress; promotes interhomolog recombination by phosphorylating Hop1p; associates with shortened, dysfunctional telomeres
+S000032977	CDS					YBR136W		2	505668	512774	W		2011-02-03	1997-01-28	
+S000000341	ORF	Verified	YBR137W			chromosome 2		2	513044	513583	W		2011-02-03	1997-01-28|2011-02-03	Protein with a role in ER delivery of tail-anchored membrane proteins; interacts with Sgt2p; binds to the TRC complex, which inserts proteins into the ER membrane; interacts with Msn5p karyopherin; YBR137W is not an essential gene
+S000033068	CDS					YBR137W		2	513044	513583	W		2011-02-03	1997-01-28|2011-02-03	
+S000000342	ORF	Uncharacterized	YBR138C		HDR1	chromosome 2	L000003401	2	515336	513762	C		2011-02-03	1997-01-28|2011-02-03	Cytoplasmic protein of unknown function; APCC(Cdh1) substrate; potentially phosphorylated by Cdc28p; YBR138C is not an essential gene
+S000033676	CDS					YBR138C		2	515336	513762	C		2011-02-03	1997-01-28|2011-02-03	
+S000000343	ORF	Verified	YBR139W		carboxypeptidase C	chromosome 2		2	515664	517190	W		2011-02-03	1997-01-28	Putative serine type carboxypeptidase; role in phytochelatin synthesis; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; expression induced by nitrogen limitation in a GLN3, GAT1-independent manner
+S000033849	CDS					YBR139W		2	515664	517190	W		2011-02-03	1997-01-28	
+S000178050	ARS		ARS217			chromosome 2		2	517185	517386			2014-11-18	2014-11-18	Autonomously replicating sequence
+S000178051	ARS_consensus_sequence					ARS217		2	517263	517247	C		2014-11-18	2014-11-18	
+S000000344	ORF	Verified	YBR140C	IRA1	GTPase-activating protein IRA1|PPD1|GLC1	chromosome 2	L000000704|L000000873	2	526628	517350	C	78	2011-02-03	1997-01-28	GTPase-activating protein; negatively regulates RAS by converting it from GTP- to the GDP-bound inactive form, required for reducing cAMP levels under nutrient limiting conditions, mediates membrane association of adenylate cyclase; mutations cause catalase T deficiency, defective glycogen synthesis and defective trehalose accumulation; IRA1 has a paralog, IRA2, that arose from the whole genome duplication; defects in human homolog NF1 are associated with neurofibromatosis
+S000034687	CDS					YBR140C		2	526628	517350	C		2011-02-03	1997-01-28	
+S000028602	ORF	Dubious	YBR141W-A			chromosome 2		2	527167	527262	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the uncharacterized ORF YBR141C; identified by gene-trapping, microarray analysis, and genome-wide homology searching
+S000031405	CDS					YBR141W-A		2	527167	527262	W		2011-02-03	2003-07-29	
+S000000345	ORF	Verified	YBR141C	BMT2	25S rRNA (adenine2142-N1)-methyltransferase	chromosome 2		2	528038	527025	C		2011-02-03	1997-01-28|2011-02-03	Nucleolar S-adenosylmethionine-dependent rRNA methyltransferase; methylates adenine (m1A) of the large subunit (LSU) rRNA at position 2142; belongs to Rossmann fold superfamily; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus; YBR141C is not an essential gene
+S000034839	CDS					YBR141C		2	528038	527025	C		2011-02-03	1997-01-28|2011-02-03	
+S000000346	ORF	Verified	YBR142W	MAK5	putative ATP-dependent RNA helicase	chromosome 2	L000000979	2	528317	530638	W	80	2011-02-03	1997-01-28	Essential nucleolar protein; putative DEAD-box RNA helicase required for maintenance of M1 dsRNA virus; involved in biogenesis of large (60S) ribosomal subunits
+S000035850	CDS					YBR142W		2	528317	530638	W		2011-02-03	1997-01-28	
+S000000347	ORF	Verified	YBR143C	SUP45	translation termination factor eRF1|eRF1|SUP47|SUP1|SAL4	chromosome 2	L000002258|L000002206|S000029305|L000001134	2	532182	530869	C	81	2011-02-03	1997-01-28	Polypeptide release factor (eRF1) in translation termination; mutant form acts as a recessive omnipotent suppressor; methylated by Mtq2p-Trm112p in ternary complex eRF1-eRF3-GTP; mutation of methylation site confers resistance to zymocin; has a role in cytokinesis through interaction with Mlc1p
+S000035896	CDS					YBR143C		2	532182	530869	C		2011-02-03	1997-01-28	
+S000000348	ORF	Dubious	YBR144C			chromosome 2		2	533549	533235	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YBR144C is not an essential gene
+S000036039	CDS					YBR144C		2	533549	533235	C		2011-02-03	1997-01-28	
+S000000349	ORF	Verified	YBR145W	ADH5	alcohol dehydrogenase ADH5	chromosome 2	L000000045	2	533762	534817	W		2011-02-03	1997-01-28	Alcohol dehydrogenase isoenzyme V; involved in ethanol production; ADH5 has a paralog, ADH1, that arose from the whole genome duplication
+S000036921	CDS					YBR145W		2	533762	534817	W		2011-02-03	1997-01-28	
+S000000350	ORF	Verified	YBR146W	MRPS9	mitochondrial 37S ribosomal protein MRPS9	chromosome 2	L000001175	2	535260	536096	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the small subunit
+S000036972	CDS					YBR146W		2	535260	536096	W		2011-02-03	1997-01-28	
+S000000351	ORF	Verified	YBR147W	RTC2	cationic amino acid transporter|YPQ3|RRT11	chromosome 2		2	536575	537465	W		2011-02-03	1997-01-28	Putative vacuolar membrane transporter for cationic amino acids; likely contributes to amino acid homeostasis by exporting cationic amino acids from the vacuole; positive regulation by Lys14p suggests that lysine may be the primary substrate; member of the PQ-loop family, with seven transmembrane domains; similar to mammalian PQLC2 vacuolar transporter; RTC2 has a paralog, YPQ1, that arose from the whole genome duplication
+S000037067	CDS					YBR147W		2	536575	537465	W		2011-02-03	1997-01-28	
+S000000352	ORF	Verified	YBR148W	YSW1		chromosome 2	L000002553	2	537876	539705	W		2011-02-03	1997-01-28	Protein required for normal prospore membrane formation; interacts with Gip1p, which is the meiosis-specific regulatory subunit of the Glc7p protein phosphatase; expressed specifically in spores and localizes to the prospore membrane; YSW1 has a paralog, SPO21, that arose from the whole genome duplication
+S000037151	CDS					YBR148W		2	537876	539705	W		2011-02-03	1997-01-28	
+S000000353	ORF	Verified	YBR149W	ARA1	D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1	chromosome 2	L000004642	2	539987	541021	W		2011-02-03	1997-01-28	NADP+ dependent arabinose dehydrogenase; involved in carbohydrate metabolism; purified as homodimer; naturally occurs with a N-terminus degradation product
+S000037890	CDS					YBR149W		2	539987	541021	W		2011-02-03	1997-01-28	
+S000000354	ORF	Verified	YBR150C	TBS1		chromosome 2		2	544493	541209	C		2011-02-03	1997-01-28	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; TBS1 has a paralog, HAL9, that arose from the whole genome duplication
+S000030836	CDS					YBR150C		2	544493	541209	C		2011-02-03	1997-01-28	
+S000000355	ORF	Verified	YBR151W	APD1		chromosome 2		2	545028	545978	W		2011-02-03	1997-01-28	Protein of unknown function; required for normal localization of actin patches and for normal tolerance of sodium ions and hydrogen peroxide; localizes to both cytoplasm and nucleus
+S000030957	CDS					YBR151W		2	545028	545978	W		2011-02-03	1997-01-28	
+S000000356	ORF	Verified	YBR152W	SPP381	U4/U6-U5 snRNP complex subunit SPP381	chromosome 2	L000004711	2	546376	547251	W		2011-02-03	1997-01-28	mRNA splicing factor, component of U4/U6.U5 tri-snRNP; interacts genetically and physically with Prp38p; relocalizes to the cytosol in response to hypoxia
+S000031058	CDS					YBR152W		2	546376	547251	W		2011-02-03	1997-01-28	
+S000000357	ORF	Verified	YBR153W	RIB7	2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate reductase	chromosome 2	L000001637	2	547460	548194	W		2011-02-03	1997-01-28	Diaminohydroxyphoshoribosylaminopyrimidine deaminase; catalyzes the second step of the riboflavin biosynthesis pathway
+S000032010	CDS					YBR153W		2	547460	548194	W		2011-02-03	1997-01-28	
+S000000358	ORF	Verified	YBR154C	RPB5	DNA-directed RNA polymerase core subunit RPB5|ABC27	chromosome 2	L000001590|L000001679	2	549009	548362	C		2011-02-03	1997-01-28	RNA polymerase subunit ABC27; common to RNA polymerases I, II, and III; contacts DNA and affects transactivation
+S000032044	CDS					YBR154C		2	549009	548362	C		2011-02-03	1997-01-28	
+S000077079	matrix_attachment_site		ETC8	ETC8		chromosome 2		2	549229	549251	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; located between divergently transcribed genes RPB5 and CNS1
+S000000359	ORF	Verified	YBR155W	CNS1	HSP70/90 family co-chaperone CNS1	chromosome 2	L000004495	2	549771	550928	W		2011-02-03	1997-01-28	TPR-containing co-chaperone; binds both Hsp82p (Hsp90) and Ssa1p (Hsp70); stimulates ATPase activity of Ssa1p; ts mutants reduce Hsp82p function, overexpression suppresses phenotypes of HSP82 ts allele and cpr7 deletion; human homolog TTC4 complements yeast cns1 mutant
+S000032166	CDS					YBR155W		2	549771	550928	W		2011-02-03	1997-01-28	
+S000000360	ORF	Verified	YBR156C	SLI15		chromosome 2	L000003320	2	553200	551104	C		2011-02-03	1997-01-28	Subunit of the conserved chromosomal passenger complex (CPC); complex regulates kinetochore-microtubule attachments, activation of the spindle tension checkpoint, and mitotic spindle disassembly; other complex members are Ipl1p, Bir1p, and Nbl1p
+S000032209	CDS					YBR156C		2	553200	551104	C		2011-02-03	1997-01-28	
+S000000361	ORF	Verified	YBR157C	ICS2		chromosome 2		2	554310	553543	C		2011-02-03	2004-01-21|1997-01-28	Protein of unknown function; null mutation does not confer any obvious defects in growth, spore germination, viability, or carbohydrate utilization
+S000032276	CDS					YBR157C		2	554310	553543	C		2011-02-03	2004-01-21|1997-01-28	
+S000000362	ORF	Verified	YBR158W	AMN1	CST13|ICS4	chromosome 2	L000002997	2	556549	558198	W		2011-02-03	1997-01-28	Protein required for daughter cell separation; multiple mitotic checkpoints, and chromosome stability; contains 12 degenerate leucine-rich repeat motifs; expression is induced by the Mitotic Exit Network (MEN)
+S000033182	CDS					YBR158W		2	556549	558198	W		2011-02-03	1997-01-28	
+S000000363	ORF	Verified	YBR159W	IFA38	ketoreductase	chromosome 2		2	558685	559728	W		2011-02-03	1997-01-28	Microsomal beta-keto-reductase; contains oleate response element (ORE) sequence in the promoter region; mutants exhibit reduced VLCFA synthesis, accumulate high levels of dihydrosphingosine, phytosphingosine and medium-chain ceramides
+S000033243	CDS					YBR159W		2	558685	559728	W		2011-02-03	1997-01-28	
+S000000364	ORF	Verified	YBR160W	CDC28	cyclin-dependent serine/threonine-protein kinase CDC28|SRM5|HSL5|CDK1	chromosome 2	L000000267	2	560078	560974	W	90	2011-02-03	1997-01-28	Cyclin-dependent kinase (CDK) catalytic subunit; master regulator of mitotic and meiotic cell cycles; alternately associates with G1, S, G2/M phase cyclins, which provide substrate specificity; regulates metabolism, basal transcription, chromosome dynamics, growth and morphogenesis; transcript induction in osmostress involves antisense RNA; human homologs CDK1, CDK2, CDK3 can complement yeast conditional cdc28 mutants; human CDK1, CDK2 can complement yeast cdc28 null mutant
+S000035243	CDS					YBR160W		2	560078	560974	W		2011-02-03	1997-01-28	
+S000000365	ORF	Verified	YBR161W	CSH1	mannosylinositol phosphorylceramide synthase catalytic subunit CSH1	chromosome 2		2	561634	562764	W		2011-02-03	1997-01-28	Mannosylinositol phosphorylceramide (MIPC) synthase catalytic subunit; forms a complex with regulatory subunit Csg2p; function in sphingolipid biosynthesis is overlapping with that of Sur1p; CSH1 has a paralog, SUR1, that arose from the whole genome duplication
+S000035322	CDS					YBR161W		2	561634	562764	W		2011-02-03	1997-01-28	
+S000000366	ORF	Verified	YBR162C	TOS1		chromosome 2		2	564570	563203	C		2011-02-03	1997-01-28	Covalently-bound cell wall protein of unknown function; identified as a cell cycle regulated SBF target gene; deletion mutants are highly resistant to treatment with beta-1,3-glucanase; has sequence similarity to YJL171C
+S000035351	CDS					YBR162C		2	564570	563203	C		2011-02-03	1997-01-28	
+S000002158	ORF	Verified	YBR162W-A	YSY6		chromosome 2	L000002554	2	565231	565428	W		2011-02-03	1997-01-28	Protein of unknown function; expression suppresses a secretory pathway mutation in E. coli; has similarity to the mammalian RAMP4 protein involved in secretion
+S000032375	CDS					YBR162W-A		2	565231	565428	W		2011-02-03	1997-01-28	
+S000000367	ORF	Verified	YBR163W	EXO5	DEM1	chromosome 2		2	565723	567480	W		2011-02-03	1997-01-28	Mitochondrial 5'-3' exonuclease and sliding exonuclease; required for mitochondrial genome maintenance; distantly related to the RecB nuclease domain of bacterial RecBCD recombinases; may be regulated by the transcription factor Ace2
+S000035461	CDS					YBR163W		2	565723	567480	W		2011-02-03	1997-01-28	
+S000000368	ORF	Verified	YBR164C	ARL1	Arf family GTPase ARL1|DLP2	chromosome 2	L000002832	2	568426	567875	C		2011-02-03	1997-01-28	Soluble GTPase with a role in regulation of membrane traffic; regulates potassium influx; role in membrane organization at trans-Golgi network; required for delivery of Atg9p to the phagophore assembly site during autophagy under high temperature stress; required with Ypt6p for starvation-induced autophagy; required for the CVT pathway under non-starvation conditions; G protein of the Ras superfamily, similar to ADP-ribosylation factor
+S000036313	CDS					YBR164C		2	568426	567875	C		2011-02-03	1997-01-28	
+S000000369	ORF	Verified	YBR165W	UBS1		chromosome 2	L000003544	2	568852	569685	W		2011-02-03	1997-01-28	Ubiquitin-conjugating enzyme suppressor that regulates Cdc34p; functions as a general positive regulator of Cdc34p activity; nuclear protein that may represent a link between nucleocytoplasmic transport and ubiquitin ligase activity
+S000036458	CDS					YBR165W		2	568852	569685	W		2011-02-03	1997-01-28	
+S000000370	ORF	Verified	YBR166C	TYR1	prephenate dehydrogenase (NADP(+))	chromosome 2	L000002359|L000002402	2	571200	569842	C	97	2011-02-03	1997-01-28	Prephenate dehydrogenase involved in tyrosine biosynthesis; expression is dependent on phenylalanine levels
+S000036504	CDS					YBR166C		2	571200	569842	C		2011-02-03	1997-01-28	
+S000000371	ORF	Verified	YBR167C	POP7	ribonuclease P/MRP protein subunit POP7|RPP2	chromosome 2	L000004303|L000004505	2	571890	571468	C		2011-02-03	1997-01-28	Subunit of RNase MRP, nuclear RNase P and telomerase; forms a soluble heterodimer with Pop6p that binds P3 domain of RNase MRP and RNase P RNAs; RNase MRP cleaves pre-rRNA, nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs, while telomerase replenishes telomeric DNA
+S000036597	CDS					YBR167C		2	571890	571468	C		2011-02-03	1997-01-28	
+S000000372	ORF	Verified	YBR168W	PEX32		chromosome 2		2	572371	573612	W		2011-02-03	1997-01-28	Peroxisomal integral membrane protein; involved in negative regulation of peroxisome size; partially functionally redundant with Pex31p; genetic interactions suggest action at a step downstream of steps mediated by Pex28p and Pex29p
+S000037359	CDS					YBR168W		2	572371	573612	W		2011-02-03	1997-01-28	
+S000000373	ORF	Verified	YBR169C	SSE2	adenyl-nucleotide exchange factor SSE2	chromosome 2	L000002079	2	575996	573915	C		2011-02-03	1997-01-28	Member of Hsp110 subclass of the heat shock protein 70 (HSP70) family; serves as nucleotide exchange factor to load ATP onto the SSA class of cytosolic Hsp70s; may be involved in protein folding; localized to the cytoplasm; SSE2 has a paralog, SSE1, that arose from the whole genome duplication
+S000037401	CDS					YBR169C		2	575996	573915	C		2011-02-03	1997-01-28	
+S000000374	ORF	Verified	YBR170C	NPL4	HRD4	chromosome 2	L000001271	2	578086	576344	C		2011-02-03	1997-01-28	Substrate-recruiting cofactor of the Cdc48p-Npl4p-Ufd1p segregase; assists Cdc48p in the dislocation of misfolded, polyubiquitinated ERAD substrates that are subsequently delivered to the proteasome for degradation; also involved in the regulated destruction of resident ER membrane proteins, such as HMG-CoA reductase (Hmg1/2p) and cytoplasmic proteins (Fbp1p); role in mobilizing membrane bound transcription factors by regulated ubiquitin/proteasome-dependent processing (RUP)
+S000030469	CDS					YBR170C		2	578086	576344	C		2011-02-03	1997-01-28	
+S000000375	ORF	Verified	YBR171W	SEC66	KAR7|Sec63 complex subunit SEC66|SEC71|HSS1	chromosome 2	L000001856	2	578364	578984	W		2011-02-03	1997-01-28	Non-essential subunit of Sec63 complex; with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER; other members are Sec63p, Sec62p, and Sec72p
+S000030603	CDS					YBR171W		2	578364	578984	W		2011-02-03	1997-01-28	
+S000000376	ORF	Verified	YBR172C	SMY2		chromosome 2	L000001941	2	581372	579150	C		2011-02-03	2003-09-22|1997-01-28	GYF domain protein; involved in COPII vesicle formation; interacts with the Sec23p/Sec24p subcomplex; overexpression suppresses the temperature sensitivity of a myo2 mutant; similar to S. pombe Mpd2; SMY2 has a paralog, SYH1, that arose from the whole genome duplication
+S000030643	CDS					YBR172C		2	581372	579150	C		2011-02-03	2003-09-22|1997-01-28	
+S000000377	ORF	Verified	YBR173C	UMP1	RNS2	chromosome 2	L000004429	2	582172	581726	C		2011-02-03	1997-01-28	Chaperone required for correct maturation of the 20S proteasome; short-lived chaperone; may inhibit premature dimerization of proteasome half-mers; degraded by proteasome upon completion of its assembly
+S000030726	CDS					YBR173C		2	582172	581726	C		2011-02-03	1997-01-28	
+S000000379	ORF	Verified	YBR175W	SWD3	SAF35|CPS30	chromosome 2		2	582408	583355	W		2011-02-03	1997-01-28	Essential subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3 on lysine 4 and is required in transcriptional silencing near telomeres; WD40 beta propeller superfamily member and ortholog of mammalian WDR5
+S000031715	CDS					YBR175W		2	582408	583355	W		2011-02-03	1997-01-28	
+S000000378	ORF	Dubious	YBR174C			chromosome 2		2	582652	582338	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YBR175W; null mutant is viable and sporulation defective
+S000031563	CDS					YBR174C		2	582652	582338	C		2011-02-03	1997-01-28	
+S000000380	ORF	Verified	YBR176W	ECM31	3-methyl-2-oxobutanoate hydroxymethyltransferase	chromosome 2	L000003901	2	583720	584658	W		2011-02-03	1997-01-28	Ketopantoate hydroxymethyltransferase; required for pantothenic acid biosynthesis, converts 2-oxoisovalerate into 2-dehydropantoate
+S000031869	CDS					YBR176W		2	583720	584658	W		2011-02-03	1997-01-28	
+S000000382	ORF	Dubious	YBR178W			chromosome 2		2	586071	586445	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR177C
+S000032865	CDS					YBR178W		2	586071	586445	W		2011-02-03	1997-01-28	
+S000000381	ORF	Verified	YBR177C	EHT1	medium-chain fatty acid ethyl ester synthase/esterase	chromosome 2		2	586162	584807	C		2011-02-03	1997-01-28	Acyl-coenzymeA:ethanol O-acyltransferase; plays a minor role in medium-chain fatty acid ethyl ester biosynthesis; possesses short-chain esterase activity; localizes to lipid particles and the mitochondrial outer membrane; EHT1 has a paralog, EEB1, that arose from the whole genome duplication
+S000031916	CDS					YBR177C		2	586162	584807	C		2011-02-03	1997-01-28	
+S000000383	ORF	Verified	YBR179C	FZO1	mitofusin	chromosome 2	L000004083	2	589114	586547	C		2011-02-03	1997-01-28	Mitofusin; integral membrane protein involved in mitochondrial outer membrane tethering and fusion; role in mitochondrial genome maintenance; efficient tethering and degradation of Fzo1p requires an intact N-terminal GTPase domain; targeted for destruction by the ubiquitin ligase SCF-Mdm30p and the cytosolic ubiquitin-proteasome system
+S000032906	CDS					YBR179C		2	589114	586547	C		2011-02-03	1997-01-28	
+S000000384	ORF	Verified	YBR180W	DTR1		chromosome 2		2	589741	591459	W		2011-02-03	1997-01-28	Putative dityrosine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; required for spore wall synthesis; sequence similarity to QDR1 and QDR3, and the triple mutant dtr1 qdr1 qdr3 exhibits reduced dityrosine fluorescence relative to the single mutants; expressed during sporulation
+S000035007	CDS					YBR180W		2	589741	591459	W		2011-02-03	1997-01-28	
+S000000385	ORF	Verified	YBR181C	RPS6B	eS6|ribosomal 40S subunit protein S6B|S6e|RPS102|RPS101|LPG18	chromosome 2	L000002721	2	592774	591712	C		2011-02-03	1997-01-28	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S6, no bacterial homolog; phosphorylated on S233 by Ypk3p in a TORC1-dependent manner, and on S232 in a TORC1/2-dependent manner by Ypk1/2/3p; RPS6B has a paralog, RPS6A, that arose from the whole genome duplication
+S000035075	CDS					YBR181C		2	592416	591712	C		2011-02-03	1997-01-28	
+S000035074	CDS					YBR181C		2	592774	592769	C		2011-02-03	1997-01-28	
+S000035076	intron					YBR181C		2	592768	592417	C		2011-02-03	1997-01-28	
+S000000386	ORF	Verified	YBR182C	SMP1		chromosome 2	L000004146	2	594864	593506	C		2011-02-03	1997-01-28	MADS-box transcription factor involved in osmotic stress response; SMP1 has a paralog, RLM1, that arose from the whole genome duplication
+S000035193	CDS					YBR182C		2	594864	593506	C		2011-02-03	1997-01-28	
+S000028603	ORF	Uncharacterized	YBR182C-A			chromosome 2		2	595555	595361	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031408	CDS					YBR182C-A		2	595555	595361	C		2011-02-03	2003-07-29	
+S000000387	ORF	Verified	YBR183W	YPC1	phytoceramidase	chromosome 2		2	596115	597065	W		2011-02-03	1997-01-28	Alkaline ceramidase; also has reverse (CoA-independent) ceramide synthase activity; catalyzes both breakdown and synthesis of phytoceramide; overexpression confers fumonisin B1 resistance; YPC1 has a paralog, YDC1, that arose from the whole genome duplication
+S000036119	CDS					YBR183W		2	596115	597065	W		2011-02-03	1997-01-28	
+S000000388	ORF	Uncharacterized	YBR184W			chromosome 2		2	597363	598934	W		2011-02-03	1997-01-28	Putative protein of unknown function; YBR184W is not an essential gene
+S000036220	CDS					YBR184W		2	597363	598934	W		2011-02-03	1997-01-28	
+S000000389	ORF	Verified	YBR185C	MBA1		chromosome 2	L000002809	2	599959	599123	C		2011-02-03	1997-01-28	Membrane-associated mitochondrial ribosome receptor; forms a complex with Mdm38p that may facilitate recruitment of mRNA-specific translational activators to ribosomes; possible role in protein export from the matrix to inner membrane
+S000036261	CDS					YBR185C		2	599959	599123	C		2011-02-03	1997-01-28	
+S000000390	ORF	Verified	YBR186W	PCH2		chromosome 2	L000004274	2	600553	602360	W		2011-02-03	2000-07-14|1997-01-28	Hexameric ring ATPase that remodels chromosome axis protein Hop1p; nucleolar component of the pachytene checkpoint, which prevents chromosome segregation when recombination and chromosome synapsis are defective; also represses meiotic interhomolog recombination in rDNA; required for meiotic double-stranded break formation
+S000036993	CDS					YBR186W		2	600553	602103	W		2011-02-03	2000-07-14|1997-01-28	
+S000036994	CDS					YBR186W		2	602217	602360	W		2011-02-03	2000-07-14	
+S000036995	intron					YBR186W		2	602104	602216	W		2011-02-03	2000-07-14	
+S000000391	ORF	Verified	YBR187W	GDT1	putative ribosome biosynthesis protein GDT1	chromosome 2		2	602634	603476	W		2011-02-03	1997-01-28	Calcium transporter localized to the cis- and medial-Golgi apparatus; required for protein glycosylation; GFP-fusion protein localizes to the vacuole; TMEM165, a human gene which causes Congenital Disorders of Glycosylation is orthologous and functionally complements the null allele; expression pattern and physical interactions suggest a possible role in ribosome biogenesis; expression reduced in a gcr1 null mutant
+S000037050	CDS					YBR187W		2	602634	603476	W		2011-02-03	1997-01-28	
+S000000392	ORF	Verified	YBR188C	NTC20		chromosome 2	L000004267	2	604107	603685	C		2011-02-03	1997-01-28	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs
+S000037089	CDS					YBR188C		2	604107	603685	C		2011-02-03	1997-01-28	
+S000000393	ORF	Verified	YBR189W	RPS9B	ribosomal 40S subunit protein S9B|rp21|YS11|S9B|S4|S13|SUP46|RPS13A	chromosome 2	L000002207|S000029306|L000001135	2	604508	605508	W	106	2011-02-03	1997-01-28	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S9 and bacterial S4; RPS9B has a paralog, RPS9A, that arose from the whole genome duplication
+S000037264	CDS					YBR189W		2	604508	604514	W		2011-02-03	1997-01-28	
+S000037265	CDS					YBR189W		2	604928	605508	W		2011-02-03	1997-01-28	
+S000037266	intron					YBR189W		2	604515	604927	W		2011-02-03	1997-01-28	
+S000000394	ORF	Dubious	YBR190W			chromosome 2		2	605966	606277	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ribosomal protein gene RPL21A/YBR191W
+S000029997	CDS					YBR190W		2	605966	606277	W		2011-02-03	1997-01-28	
+S000000395	ORF	Verified	YBR191W	RPL21A	eL21|ribosomal 60S subunit protein L21A|L21e|L21A|URP1	chromosome 2	L000002441	2	606270	607140	W		2011-02-03	1997-01-28	Ribosomal 60S subunit protein L21A; homologous to mammalian ribosomal protein L21, no bacterial homolog; RPL21A has a paralog, RPL21B, that arose from the whole genome duplication
+S000030992	CDS					YBR191W		2	606270	606280	W		2011-02-03	1997-01-28	
+S000030993	CDS					YBR191W		2	606669	607140	W		2011-02-03	1997-01-28	
+S000030994	intron					YBR191W		2	606281	606668	W		2011-02-03	1997-01-28	
+S000007594	ORF	Dubious	YBR191W-A			chromosome 2		2	607149	607223	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037106	CDS					YBR191W-A		2	607149	607223	W		2011-02-03	2001-02-26	
+S000000396	ORF	Verified	YBR192W	RIM2	PYT1	chromosome 2	L000001641	2	607652	608785	W		2011-02-03	1997-01-28	Mitochondrial pyrimidine nucleotide transporter; imports pyrimidine nucleoside triphosphates and exports pyrimidine nucleoside monophosphates; member of the mitochondrial carrier family
+S000031077	CDS					YBR192W		2	607652	608785	W		2011-02-03	1997-01-28	
+S000000397	ORF	Verified	YBR193C	MED8		chromosome 2	L000003917	2	609753	609082	C		2011-02-03	1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
+S000031128	CDS					YBR193C		2	609753	609082	C		2011-02-03	1997-01-28	
+S000000398	ORF	Verified	YBR194W	AIM4	SOY1	chromosome 2		2	610038	610409	W		2011-02-03	1997-01-28	Protein proposed to be associated with the nuclear pore complex; null mutant is viable, displays elevated frequency of mitochondrial genome loss and is sensitive to freeze-thaw stress
+S000032148	CDS					YBR194W		2	610038	610409	W		2011-02-03	1997-01-28	
+S000000399	ORF	Verified	YBR195C	MSI1	CAC3	chromosome 2	L000001193	2	611882	610614	C	89	2011-02-03	1997-01-28	Subunit of chromatin assembly factor I (CAF-1); chromatin assembly by CAF-1 affects multiple processes including silencing at telomeres, mating type loci, and rDNA; maintenance of kinetochore structure; deactivation of DNA damage checkpoint after DNA repair; chromatin dynamics during transcription; and repression of divergent noncoding transcription; Msi1p localizes to nucleus and cytoplasm and independently regulates the RAS/cAMP pathway via sequestration of Npr1p kinase
+S000032175	CDS					YBR195C		2	611882	610614	C		2011-02-03	1997-01-28	
+S000000400	ORF	Verified	YBR196C	PGI1	glucose-6-phosphate isomerase|CDC30	chromosome 2	L000001410|L000001409	2	613900	612236	C	89	2011-02-03	1997-01-28	Glycolytic enzyme phosphoglucose isomerase; catalyzes the interconversion of glucose-6-phosphate and fructose-6-phosphate; required for cell cycle progression and completion of the gluconeogenic events of sporulation
+S000032251	CDS					YBR196C		2	613900	612236	C		2011-02-03	1997-01-28	
+S000028534	ORF	Uncharacterized	YBR196C-A			chromosome 2		2	614173	614024	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031143	CDS					YBR196C-A		2	614173	614024	C		2011-02-03	2003-07-29	
+S000028816	ORF	Uncharacterized	YBR196C-B			chromosome 2		2	614630	614526	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000033621	CDS					YBR196C-B		2	614630	614526	C		2011-02-03	2003-07-29	
+S000000401	ORF	Verified	YBR197C			chromosome 2		2	615856	615203	C		2011-02-03	1997-01-28	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YBR197C is not an essential gene; relative distribution to the nucleus increases upon DNA replication stress; YBR197C has a paralog, YPL077C, that arose from the whole genome duplication
+S000032354	CDS					YBR197C		2	615856	615203	C		2011-02-03	1997-01-28	
+S000000402	ORF	Verified	YBR198C	TAF5	chromatin modification protein|TafII90|TAF90	chromosome 2	L000004155	2	618523	616127	C		2011-02-03	1997-01-28	Subunit (90 kDa) of TFIID and SAGA complexes; involved in RNA polymerase II transcription initiation and in chromatin modification
+S000033223	CDS					YBR198C		2	618523	616127	C		2011-02-03	1997-01-28	
+S000000403	ORF	Verified	YBR199W	KTR4	putative mannosyltransferase	chromosome 2	L000000927	2	618909	620303	W		2011-02-03	1997-01-28	Glycosyltransferase involved in protein glycosylation; transfers GDP-mannose to methyl-alpha-mannoside in vitro; member of the KRE2/MNT1 mannosyltransferase family of type II membrane proteins with a short cytoplasmic N-terminus, a membrane-spanning region and a highly conserved catalytic lumenal domain
+S000033316	CDS					YBR199W		2	618909	620303	W		2011-02-03	1997-01-28	
+S000000404	ORF	Verified	YBR200W	BEM1	phosphatidylinositol-3-phosphate-binding protein BEM1|SRO1	chromosome 2	L000000167	2	620872	622527	W	102	2011-02-03	1997-01-28	Protein containing SH3-domains; involved in establishing cell polarity and morphogenesis; functions as a scaffold protein for complexes that include Cdc24p, Ste5p, Ste20p, and Rsr1p
+S000030486	CDS					YBR200W		2	620872	622527	W		2011-02-03	1997-01-28	
+S000118351	ARS		ARS220		ARSII-623	chromosome 2		2	622671	622939			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000028535	ORF	Uncharacterized	YBR200W-A			chromosome 2		2	622983	623147	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031144	CDS					YBR200W-A		2	622983	623147	W		2011-02-03	2003-07-29	
+S000000405	ORF	Verified	YBR201W	DER1	derlin	chromosome 2	L000002800	2	623576	624211	W		2011-02-03	1999-04-26|1997-01-28	ER membrane protein that promotes export of misfolded polypeptides; required for ER-associated protein degradation of misfolded or unassembled proteins; initiates export of aberrant polypeptides from ER lumen by threading them into ER membrane and routing them to Hrd1p for ubiquitination; function normally requires N-terminal acetylation by NatB; N- and C- termini protrude into cytoplasm; similar to Dfm1p; homolog of mammalian derlin-1
+S000030597	CDS					YBR201W		2	623576	624211	W		2011-02-03	1999-04-26|1997-01-28	
+S000087085	ORF	Uncharacterized	YBR201C-A			chromosome 2		2	624696	624493	C		2011-02-03	2005-11-08	Putative protein of unknown function
+S000087086	CDS					YBR201C-A		2	624696	624493	C		2011-02-03	2005-11-08	
+S000000406	ORF	Verified	YBR202W	MCM7	mini-chromosome maintenance complex protein 7|CDC47	chromosome 2	L000002760	2	625772	628309	W		2011-02-03	1997-01-28|2011-02-03	Component of the Mcm2-7 hexameric helicase complex; MCM2-7 primes origins of DNA replication in G1 and becomes an active ATP-dependent helicase that promotes DNA melting and elongation in S-phase; forms an Mcm4p-6p-7p subcomplex
+S000030677	CDS					YBR202W		2	625772	628309	W		2011-02-03	1997-01-28|2011-02-03	
+S000000407	ORF	Verified	YBR203W	COS111		chromosome 2		2	629168	631942	W		2011-02-03	1997-01-28|2011-02-03	Protein required for antifungal drug ciclopirox olamine resistance; not related to the subtelomerically-encoded COS family; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000031550	CDS					YBR203W		2	629168	631942	W		2011-02-03	1997-01-28|2011-02-03	
+S000130153	ARS		ARS221		ARSII-632	chromosome 2		2	631939	632251			2011-02-03	2009-05-07|2011-02-03	Autonomously Replicating Sequence
+S000178052	ARS_consensus_sequence					ARS221		2	632005	632021	W		2014-11-18	2014-11-18	
+S000000408	ORF	Verified	YBR204C	LDH1	triacylglycerol lipase	chromosome 2		2	633381	632254	C		2011-02-03	1997-01-28|2011-02-03	Serine hydrolase; exhibits active esterase plus weak triacylglycerol lipase activities; proposed role in lipid homeostasis, regulating phospholipid and non-polar lipid levels and required for mobilization of LD-stored lipids; localizes to the lipid droplet (LD) surface; contains a classical serine containing catalytic triad (GxSxG motif)
+S000031575	CDS					YBR204C		2	633381	632254	C		2011-02-03	1997-01-28|2011-02-03	
+S000000409	ORF	Verified	YBR205W	KTR3	mannosyltransferase KTR3	chromosome 2	L000000926	2	633622	634836	W		2011-02-03	1997-01-28	Putative alpha-1,2-mannosyltransferase; involved in O- and N-linked protein glycosylation; member of the KRE2/MNT1 mannosyltransferase family; Svp26p mediates uptake of Ktr3p into COPII vesicles; relocalizes from nucleus to vacuole upon DNA replication stress
+S000031710	CDS					YBR205W		2	633622	634836	W		2011-02-03	1997-01-28	
+S000000410	ORF	Dubious	YBR206W			chromosome 2		2	634601	634924	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene KTR3
+S000031861	CDS					YBR206W		2	634601	634924	W		2011-02-03	1997-01-28	
+S000000411	ORF	Verified	YBR207W	FTH1		chromosome 2	L000003065	2	635146	636543	W		2011-02-03	1997-01-28|2011-02-03	Putative high affinity iron transporter; involved in transport of intravacuolar stores of iron; forms complex with Fet5p; expression is regulated by iron; proposed to play indirect role in endocytosis; protein abundance increases in response to DNA replication stress
+S000032783	CDS					YBR207W		2	635146	636543	W		2011-02-03	1997-01-28|2011-02-03	
+S000000412	ORF	Verified	YBR208C	DUR1,2	bifunctional urea carboxylase/allophanate hydrolase|DUR80	chromosome 2	L000000532|L000000533|L000000536	2	642210	636703	C	112	2011-02-03	1997-01-28	Urea amidolyase; contains both urea carboxylase and allophanate hydrolase activities, degrades urea to CO2 and NH3; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation; protein abundance increases in response to DNA replication stress
+S000032849	CDS					YBR208C		2	642210	636703	C		2011-02-03	1997-01-28	
+S000000413	ORF	Dubious	YBR209W			chromosome 2		2	642583	642900	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YBR209W is not an essential gene
+S000032978	CDS					YBR209W		2	642583	642900	W		2011-02-03	1997-01-28	
+S000006526	tRNA_gene		tC(GCA)B			chromosome 2	L000003748	2	643078	643007	C		2011-02-03	2000-05-19	Cysteine tRNA (tRNA-Cys), predicted by tRNAscan-SE analysis
+S000035208	noncoding_exon					tC(GCA)B		2	643078	643007	C		2011-02-03	2000-05-19	
+S000006820	long_terminal_repeat		YBRCtau2		YBRWtau2	chromosome 2		2	643858	643488	C		2011-02-03	2000-05-19|2007-04-05	Ty4 LTR
+S000006812	long_terminal_repeat		YBRWdelta18		YBRCdelta18	chromosome 2		2	643859	644002	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006813	long_terminal_repeat		YBRCdelta19			chromosome 2		2	644603	644362	C		2011-02-03	2000-05-19|2007-04-05	Ty1 LTR
+S000006548	tRNA_gene		tE(UUC)B			chromosome 2	L000003747	2	645167	645238	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000035972	noncoding_exon					tE(UUC)B		2	645167	645238	W		2011-02-03	2000-05-19	
+S000000414	ORF	Verified	YBR210W	ERV15		chromosome 2		2	645550	645978	W		2011-02-03	1997-01-28	Protein involved in export of proteins from the endoplasmic reticulum; ERV15 has a paralog, ERV14, that arose from the whole genome duplication
+S000033653	CDS					YBR210W		2	645550	645978	W		2011-02-03	1997-01-28	
+S000000415	ORF	Verified	YBR211C	AME1	ARP100	chromosome 2	L000004725	2	647132	646158	C		2011-02-03	1997-01-28	Essential kinetochore protein associated with microtubules and SPBs; component of the kinetochore sub-complex COMA (Ctf19p, Okp1p, Mcm21p, Ame1p); involved in spindle checkpoint maintenance; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-U and fission yeast Mis17; relative distribution to the nucleus increases upon DNA replication stress
+S000033678	CDS					YBR211C		2	647132	646158	C		2011-02-03	1997-01-28	
+S000000416	ORF	Verified	YBR212W	NGR1	RBP1	chromosome 2	L000001242	2	647886	649904	W		2011-02-03	1997-01-28	RNA binding protein that negatively regulates growth rate; interacts with the 3' UTR of the mitochondrial porin (POR1) mRNA and enhances its degradation; overexpression impairs mitochondrial function; interacts with Dhh1p to mediate POR1 mRNA decay; expressed in stationary phase
+S000034651	CDS					YBR212W		2	647886	649904	W		2011-02-03	1997-01-28	
+S000000417	ORF	Verified	YBR213W	MET8	bifunctional precorrin-2 dehydrogenase/sirohydrochlorin ferrochelatase MET8	chromosome 2	L000001083	2	650368	651192	W	119	2011-02-03	1997-01-28	Bifunctional dehydrogenase and ferrochelatase; involved in the biosynthesis of siroheme, a prosthetic group used by sulfite reductase; required for sulfate assimilation and methionine biosynthesis
+S000034801	CDS					YBR213W		2	650368	651192	W		2011-02-03	1997-01-28	
+S000000418	ORF	Verified	YBR214W	SDS24		chromosome 2	L000004811	2	651415	652998	W		2011-02-03	1997-01-28	Protein involved in cell separation during budding; one of two S. cerevisiae homologs (Sds23p and Sds24p) of the S. pombe Sds23 protein, which is implicated in APC/cyclosome regulation; may play an indirect role in fluid-phase endocytosis; protein abundance increases in response to DNA replication stress; SDS24 has a paralog, SDS23, that arose from the whole genome duplication
+S000034936	CDS					YBR214W		2	651415	652998	W		2011-02-03	1997-01-28	
+S000000419	ORF	Verified	YBR215W	HPC2		chromosome 2	L000000804	2	653356	655317	W		2011-02-03	1997-01-28|2007-07-09	Subunit of the HIR complex; HIR is a nucleosome assembly complex involved in regulation of histone gene transcription; mutants display synthetic defects with subunits of FACT, a complex that allows passage of RNA Pol II through nucleosomes
+S000035856	CDS					YBR215W		2	653356	653368	W		2011-02-03	1997-01-28|2007-07-09	
+S000123275	CDS					YBR215W		2	653453	655317	W		2011-02-03	2007-07-09	
+S000123274	intron					YBR215W		2	653369	653452	W		2011-02-03	2007-07-09	
+S000000420	ORF	Verified	YBR216C	YBP1		chromosome 2		2	657600	655576	C		2011-02-03	1997-01-28	Protein involved in cellular response to oxidative stress; required for oxidation of specific cysteine residues of transcription factor Yap1p, resulting in nuclear localization of Yap1p in response to stress; YBP1 has a paralog, YBP2, that arose from the whole genome duplication
+S000035897	CDS					YBR216C		2	657600	655576	C		2011-02-03	1997-01-28	
+S000000421	ORF	Verified	YBR217W	ATG12	APG12	chromosome 2	L000004702	2	657832	658392	W		2011-02-03	1997-01-28	Ubiquitin-like modifier involved in autophagy and the Cvt pathway; conserved; conjugated to Atg5p to form a complex involved in Atg8p lipidation; Atg5p-Atg12p conjugate enhances E2 activity of Atg3p by rearranging its catalytic site, also forms a complex with Atg16p; the Atg5-Atg12/Atg16 complex binds to membranes and is essential for autophagosome formation
+S000036158	CDS					YBR217W		2	657832	658392	W		2011-02-03	1997-01-28	
+S000000422	ORF	Verified	YBR218C	PYC2	pyruvate carboxylase 2	chromosome 2	L000001543	2	662249	658707	C		2011-02-03	1997-01-28	Pyruvate carboxylase isoform; cytoplasmic enzyme that converts pyruvate to oxaloacetate; differentially regulated than isoform Pyc1p; mutations in the human homolog are associated with lactic acidosis; PYC2 has a paralog, PYC1, that arose from the whole genome duplication
+S000036216	CDS					YBR218C		2	662249	658707	C		2011-02-03	1997-01-28	
+S000000423	ORF	Uncharacterized	YBR219C			chromosome 2		2	663303	662499	C		2011-02-03	1997-01-28	Putative protein of unknown function; YBR219C is not an essential gene
+S000036941	CDS					YBR219C		2	662581	662499	C		2011-02-03	1997-01-28	
+S000036940	CDS					YBR219C		2	663303	663003	C		2011-02-03	1997-01-28	
+S000036942	intron					YBR219C		2	663002	662582	C		2011-02-03	1997-01-28	
+S000000424	ORF	Uncharacterized	YBR220C			chromosome 2		2	664677	662995	C		2011-02-03	1997-01-28	Putative protein of unknown function; YBR220C is not an essential gene
+S000037728	CDS					YBR220C		2	664677	662995	C		2011-02-03	1997-01-28	
+S000000425	ORF	Verified	YBR221C	PDB1	pyruvate dehydrogenase (acetyl-transferring) subunit E1 beta	chromosome 2	L000001353	2	666253	665153	C		2011-02-03	1997-01-28	E1 beta subunit of the pyruvate dehydrogenase (PDH) complex; PDH is an evolutionarily conserved multi-protein complex found in mitochondria
+S000037817	CDS					YBR221C		2	666253	665153	C		2011-02-03	1997-01-28	
+S000028817	ORF	Uncharacterized	YBR221W-A			chromosome 2		2	666538	666642	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000033623	CDS					YBR221W-A		2	666538	666642	W		2011-02-03	2003-07-29	
+S000000426	ORF	Verified	YBR222C	PCS60	FAT2	chromosome 2	L000003238	2	668351	666720	C		2011-02-03	1997-01-28	Oxalyl-CoA synthetase; capable of catalyzing conversion of oxalate to oxalyl-CoA; catalyzes first step in pathway of oxalate degradation that functions to protect yeast from inhibitory effects of oxalate; peroxisomal protein that binds mRNA; localizes to both peroxisomal peripheral membrane and matrix, expression is highly inducible by oleic acid; similar to E. coli long chain acyl-CoA synthetase
+S000029826	CDS					YBR222C		2	668351	666720	C		2011-02-03	1997-01-28	
+S000028604	ORF	Dubious	YBR223W-A			chromosome 2		2	668721	668840	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps YBR223C; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031411	CDS					YBR223W-A		2	668721	668840	W		2011-02-03	2003-07-29	
+S000000428	ORF	Dubious	YBR224W			chromosome 2		2	670125	670640	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene TDP1
+S000030960	CDS					YBR224W		2	670125	670640	W		2011-02-03	1997-01-28	
+S000000427	ORF	Verified	YBR223C	TDP1	tyrosyl-DNA phosphodiesterase 1	chromosome 2	S000007461	2	670297	668663	C		2011-02-03	1997-01-28	Tyrosyl-DNA phosphodiesterase I; hydrolyzes 3' and 5'-phosphotyrosyl bonds; involved in the repair of DNA lesions created by topo I and topo II; mutations in the human homolog, TDP1, result in the a neurodegenerative disease, spinocerebellar ataxia with axonal neuropathy (SCAN1); yeast cells and human rhabdomyosarcoma lines that overexpress TDP1 both exhibit elevated dosage chromosomal instability (dCIN)
+S000030837	CDS					YBR223C		2	670297	668663	C		2011-02-03	1997-01-28	
+S000000429	ORF	Uncharacterized	YBR225W			chromosome 2		2	670627	673329	W		2011-02-03	1997-01-28	Putative protein of unknown function; non-essential gene identified in a screen for mutants affected in mannosylphophorylation of cell wall components
+S000031063	CDS					YBR225W		2	670627	673329	W		2011-02-03	1997-01-28	
+S000000430	ORF	Dubious	YBR226C			chromosome 2		2	673565	673155	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YBR225W
+S000031074	CDS					YBR226C		2	673565	673155	C		2011-02-03	1997-01-28	
+S000000431	ORF	Verified	YBR227C	MCX1		chromosome 2		2	675134	673572	C		2011-02-03	1997-01-28	Non-proteolytic ATPase of the AAA family; stimulates incorporation of the pyridoxal phosphate cofactor into Hem1p (5-aminolevulinic acid synthase); localized to the mitochondrial matrix; ortholog of vertebrate CLPX, which promotes erythropoiesis
+S000032046	CDS					YBR227C		2	675134	673572	C		2011-02-03	1997-01-28	
+S000000432	ORF	Verified	YBR228W	SLX1	endonuclease	chromosome 2		2	675313	676227	W		2011-02-03	1997-01-28	Endonuclease involved in DNA recombination and repair; subunit of a complex, with Slx4p, that hydrolyzes 5' branches from duplex DNA in response to stalled or converging replication forks; function overlaps with that of Sgs1p-Top3p
+S000032169	CDS					YBR228W		2	675313	676227	W		2011-02-03	1997-01-28	
+S000000433	ORF	Verified	YBR229C	ROT2	glucan 1,3-alpha-glucosidase ROT2|GLS2	chromosome 2	L000003405	2	679221	676357	C		2011-02-03	1997-01-28	Glucosidase II catalytic subunit; required to trim the final glucose in N-linked glycans; required for normal cell wall synthesis; mutations in rot2 suppress tor2 mutations, and are synthetically lethal with rot1 mutations
+S000032215	CDS					YBR229C		2	679221	676357	C		2011-02-03	1997-01-28	
+S000000434	ORF	Verified	YBR230C	OM14		chromosome 2		2	680050	679549	C		2011-02-03	1997-01-28	Mitochondrial outer membrane receptor for cytosolic ribosomes; integral protein of the outer membrane that interacts with the nascent chain-associated complex (NAC) bound to ribosomes, contributing to co-translational mitochondrial import; interacts with porin (Por1p) and Om45p; abundance is decreased in cells grown in glucose relative to other carbon sources
+S000034001	CDS					YBR230C		2	679942	679549	C		2011-02-03	1997-01-28	
+S000034000	CDS					YBR230C		2	680050	680040	C		2011-02-03	1997-01-28	
+S000034002	intron					YBR230C		2	680039	679943	C		2011-02-03	1997-01-28	
+S000029722	ORF	Uncharacterized	YBR230W-A			chromosome 2		2	680362	680562	W		2011-02-03	2004-04-01	Putative protein of unknown function; YBR230W-A has a paralog, COQ8, that arose from the whole genome duplication
+S000036857	CDS					YBR230W-A		2	680362	680562	W		2011-02-03	2004-04-01	
+S000006478	snRNA_gene		LSR1	LSR1	U2|snR20	chromosome 2	L000000954	2	681862	680688	C		2011-02-03	2000-05-19|2006-10-04	U2 spliceosomal RNA (U2 snRNA), component of the spliceosome; pairs with the branchpoint sequence; functionally equivalent to mammalian U2 snRNA; stress-induced pseudouridylations at positions 56 and 93 may contribute to regulation of splicing
+S000030971	noncoding_exon					LSR1		2	681862	680688	C		2011-02-03	2000-05-19|2006-10-04	
+S000000435	ORF	Verified	YBR231C	SWC5	AOR1	chromosome 2	L000004001	2	683090	682179	C		2011-02-03	1997-01-28	Component of the SWR1 complex; complex exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
+S000034102	CDS					YBR231C		2	683090	682179	C		2011-02-03	1997-01-28	
+S000000437	ORF	Verified	YBR233W	PBP2	HEK1	chromosome 2	L000004512	2	683428	684669	W		2011-02-03	1997-01-28	RNA binding protein; has similarity to mammalian heterogeneous nuclear RNP K protein, involved in the regulation of telomere position effect and telomere length; relative distribution to the nucleus increases upon DNA replication stress
+S000035244	CDS					YBR233W		2	683428	684669	W		2011-02-03	1997-01-28	
+S000000436	ORF	Dubious	YBR232C			chromosome 2		2	683732	683373	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034194	CDS					YBR232C		2	683732	683373	C		2011-02-03	1997-01-28	
+S000007595	ORF	Verified	YBR233W-A	DAD3		chromosome 2		2	684977	685261	W		2011-02-03	2001-02-26	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
+S000037141	CDS					YBR233W-A		2	684977	685261	W		2011-02-03	2001-02-26	
+S000000438	ORF	Verified	YBR234C	ARC40		chromosome 2	L000004788	2	686592	685438	C		2011-02-03	1997-01-28	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches
+S000035293	CDS					YBR234C		2	686592	685438	C		2011-02-03	1997-01-28	
+S000000439	ORF	Verified	YBR235W	VHC1		chromosome 2		2	686901	690263	W		2011-02-03	1997-01-28	Vacuolar membrane cation-chloride cotransporter (CCC); likely mediates K+ and Cl- cotransport into the vacuole; has a role in potassium homeostasis and salt tolerance; localizes to sites of contact between the vacuole and mitochondria (vCLAMPs); similar to mammalian electroneutral Na(+)-(K+)-C1- cotransporter family
+S000035401	CDS					YBR235W		2	686901	690263	W		2011-02-03	1997-01-28	
+S000000440	ORF	Verified	YBR236C	ABD1	mRNA (guanine-N7)-methyltransferase	chromosome 2	L000000011	2	691693	690383	C		2011-02-03	1997-01-28	Methyltransferase; catalyzes the transfer of a methyl group from S-adenosylmethionine to the GpppN terminus of capped mRNA; nuclear protein that relocalizes to the cytosol in response to hypoxia
+S000035435	CDS					YBR236C		2	691693	690383	C		2011-02-03	1997-01-28	
+S000000441	ORF	Verified	YBR237W	PRP5	DEAD-box RNA helicase PRP5|RNA5	chromosome 2	L000001498	2	691969	694518	W	138	2011-02-03	1997-01-28	RNA helicase in the DEAD-box family; necessary for prespliceosome formation, bridges U1 and U2 snRNPs and enables stable U2 snRNP association with intron RNA
+S000036392	CDS					YBR237W		2	691969	694518	W		2011-02-03	1997-01-28	
+S000000442	ORF	Verified	YBR238C			chromosome 2		2	697302	695107	C		2011-02-03	1997-01-28	Mitochondrial membrane protein; not required for respiratory growth but causes a synthetic respiratory defect in combination with rmd9 mutations; transcriptionally up-regulated by TOR; deletion increases life span; YBR238C has a paralog, RMD9, that arose from the whole genome duplication
+S000036425	CDS					YBR238C		2	697302	695107	C		2011-02-03	1997-01-28	
+S000000443	ORF	Verified	YBR239C	ERT1		chromosome 2		2	699943	698354	C		2011-02-03	1997-01-28	Transcriptional regulator; involved in regulation of gluconeogenesis and fermentable carbon utilization; GFP-fusion protein localizes to cytoplasm, nucleus; null mutation affects periodicity of transcriptional and metabolic oscillation; plays role in restricting Ty1 transposition; member of the zinc cluster family of proteins, similar to Rds2p
+S000036512	CDS					YBR239C		2	699943	698354	C		2011-02-03	1997-01-28	
+S000000444	ORF	Verified	YBR240C	THI2	phoF|PHO6	chromosome 2	L000003526	2	701842	700490	C		2011-02-03	1997-01-28	Transcriptional activator of thiamine biosynthetic genes; interacts with regulatory factor Thi3p to control expression of thiamine biosynthetic genes with respect to thiamine availability; acts together with Pdc2p to respond to thiaminediphosphate demand, possibly as related to carbon source availability; zinc finger protein of the Zn(II)2Cys6 type
+S000037494	CDS					YBR240C		2	701842	700490	C		2011-02-03	1997-01-28	
+S000000445	ORF	Uncharacterized	YBR241C			chromosome 2		2	704055	702589	C		2011-02-03	1997-01-28	Putative transporter, member of the sugar porter family; green fluorescent protein (GFP)-fusion protein localizes to the vacuolar membrane; YBR241C is not an essential gene; YBR241C has a paralog, VPS73, that arose from the whole genome duplication
+S000037584	CDS					YBR241C		2	704055	702589	C		2011-02-03	1997-01-28	
+S000118352	ARS		ARS222		ARSII-704	chromosome 2		2	704296	704566			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000000446	ORF	Uncharacterized	YBR242W			chromosome 2	L000004757	2	704670	705386	W		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YBR242W is not an essential gene; YBR242W has a paralog, YGL101W, that arose from the whole genome duplication
+S000030457	CDS					YBR242W		2	704670	705386	W		2011-02-03	1997-01-28	
+S000000447	ORF	Verified	YBR243C	ALG7	UDP-N-acetylglucosamine--dolichyl-phosphate N-acetylglucosaminephosphotransferase|TUR1	chromosome 2	L000000078	2	706793	705447	C		2011-02-03	1997-01-28	UDP-N-acetyl-glucosamine-1-P transferase; transfers Glc-Nac-P from UDP-GlcNac to Dol-P in the ER in the first step of the dolichol pathway of protein asparagine-linked glycosylation; inhibited by tunicamycin; human homolog DPAGT1 can complement yeast ALG7 mutant
+S000030493	CDS					YBR243C		2	706793	705447	C		2011-02-03	1997-01-28	
+S000000448	ORF	Verified	YBR244W	GPX2	glutathione peroxidase GPX2|AMI1	chromosome 2		2	707528	708016	W		2011-02-03	1997-01-28	Phospholipid hydroperoxide glutathione peroxidase; protects cells from phospholipid hydroperoxides and nonphospholipid peroxides during oxidative stress; induced by glucose starvation; protein abundance increases in response to DNA replication stress
+S000030605	CDS					YBR244W		2	707528	708016	W		2011-02-03	1997-01-28	
+S000000449	ORF	Verified	YBR245C	ISW1	chromatin-remodeling ATPase ISW1|SGN2	chromosome 2	L000004447	2	711539	708150	C		2011-02-03	1997-01-28	ATPase subunit of imitation-switch (ISWI) class chromatin remodelers; with Ioc3p forms Isw1a complex involved in repression of transcription initiation; with Ioc2p and Ioc4p forms Isw1b complex involved in regulation of transcription elongation; Isw1b recruited to ORFs by H3K36 methylation and acts with Chd1p to prevent trans-histone exchange over coding regions; Isw1p import into nucleus depends on C-terminal bipartite nuclear targeting signal KRIR X19 KKAK
+S000030646	CDS					YBR245C		2	711539	708150	C		2011-02-03	1997-01-28	
+S000000450	ORF	Verified	YBR246W	RRT2	DPH7|diphthamide synthase|ERE1	chromosome 2		2	711591	712754	W		2011-02-03	1997-01-28	Methylesterase performing penultimate step of diphthamide biosynthesis; hydrolyzes methylated diphthine to produce diphthine and allows Dph6-catalyzed amidation reaction to occur; deletion leads to resistance to sordarin and accumulation of methylatediphthine; WD40 domain-containing protein; involved in endosomal recycling; forms complex with Rtt10p that functions in retromer-mediated pathway for recycling internalized cell-surface proteins
+S000030760	CDS					YBR246W		2	711591	712754	W		2011-02-03	1997-01-28	
+S000000451	ORF	Verified	YBR247C	ENP1	snoRNA-binding rRNA-processing protein ENP1|MEG1	chromosome 2	L000003200|L000001059	2	714455	713004	C		2011-02-03	1997-01-28	Protein associated with U3 and U14 snoRNAs; required for pre-rRNA processing and 40S ribosomal subunit synthesis; localized in the nucleus and concentrated in the nucleolus; human BYSL functionally complements the heat sensitivity of an enp1 ts mutant
+S000031591	CDS					YBR247C		2	714455	713004	C		2011-02-03	1997-01-28	
+S000000452	ORF	Verified	YBR248C	HIS7	imidazoleglycerol-phosphate synthase	chromosome 2	L000000784	2	716465	714807	C	146	2011-02-03	1997-01-28	Imidazole glycerol phosphate synthase; glutamine amidotransferase:cyclase that catalyzes the fifth step of histidine biosynthesis and also produces 5-aminoimidazole-4-carboxamide ribotide (AICAR), a purine precursor
+S000031672	CDS					YBR248C		2	716465	714807	C		2011-02-03	1997-01-28	
+S000000453	ORF	Verified	YBR249C	ARO4	3-deoxy-7-phosphoheptulonate synthase ARO4	chromosome 2	L000000119	2	717994	716882	C		2011-02-03	1997-01-28	3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) synthase; catalyzes the first step in aromatic amino acid biosynthesis and is feedback-inhibited by tyrosine or high concentrations of phenylalanine or tryptophan; relative distribution to the nucleus increases upon DNA replication stress
+S000031774	CDS					YBR249C		2	717994	716882	C		2011-02-03	1997-01-28	
+S000000454	ORF	Verified	YBR250W	SPO23		chromosome 2		2	719033	720604	W		2011-02-03	1997-01-28	Protein of unknown function; associates with meiosis-specific protein Spo1p
+S000033891	CDS					YBR250W		2	719033	720604	W		2011-02-03	1997-01-28	
+S000000455	ORF	Verified	YBR251W	MRPS5	mitochondrial 37S ribosomal protein MRPS5	chromosome 2	L000001174	2	721390	722313	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the small subunit
+S000034780	CDS					YBR251W		2	721390	722313	W		2011-02-03	1997-01-28	
+S000000456	ORF	Verified	YBR252W	DUT1	bifunctional dITP/dUTP diphosphatase	chromosome 2	L000000537	2	722611	723054	W		2011-02-03	1997-01-28	Deoxyuridine triphosphate diphosphatase (dUTPase); catalyzes hydrolysis of dUTP to dUMP and PPi, thereby preventing incorporation of uracil into DNA during replication; critical for the maintenance of genetic stability; also has diphosphatase activity on deoxyinosine triphosphate; human homolog DUT allows growth of yeast haploid dut1 null mutant after sporulation of heterozygous diploid
+S000034888	CDS					YBR252W		2	722611	723054	W		2011-02-03	1997-01-28	
+S000000457	ORF	Verified	YBR253W	SRB6	MED22	chromosome 2	L000002053	2	723270	723635	W		2011-02-03	1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
+S000035009	CDS					YBR253W		2	723270	723635	W		2011-02-03	1997-01-28	
+S000000458	ORF	Verified	YBR254C	TRS20	TRAPP subunit TRS20	chromosome 2	S000007431	2	724263	723736	C		2011-02-03	1997-01-28	Core component of transport protein particle (TRAPP) complexes I-III; TRAPPs are multimeric guanine nucleotide-exchange factors for GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII); mutation leads to defects in endocytic recycling, block in sporulation/meiosis; mutations in human homolog TRAPPC2 cause spondyloepiphyseal dysplasia tarda, TRAPPC2 can complement yeast null mutant
+S000035081	CDS					YBR254C		2	724263	723736	C		2011-02-03	1997-01-28	
+S000000459	ORF	Verified	YBR255W	MTC4		chromosome 2		2	724456	726540	W		2011-02-03	1997-01-28	Protein of unknown function; required for normal growth rate at 15 degrees C; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; mtc4 is synthetically sick with cdc13-1
+S000036028	CDS					YBR255W		2	724456	726540	W		2011-02-03	1997-01-28	
+S000007649	ORF	Uncharacterized	YBR255C-A	RCF3		chromosome 2		2	727074	726618	C		2011-02-03	2003-12-17|2001-06-26	Putative protein of unknown function; may interact with respiratory chain complexes III (ubiquinol-cytochrome c reductase) or IV (cytochrome c oxidase); identified by sequence comparison with hemiascomycetous yeast species
+S000037335	CDS					YBR255C-A		2	726917	726618	C		2011-02-03	2003-12-17|2001-06-26	
+S000037334	CDS					YBR255C-A		2	727074	727012	C		2011-02-03	2003-12-17|2001-06-26	
+S000037336	intron					YBR255C-A		2	727011	726918	C		2011-02-03	2003-12-17|2001-06-26	
+S000000460	ORF	Verified	YBR256C	RIB5	riboflavin synthase	chromosome 2	L000001636	2	728102	727386	C	150	2011-02-03	1997-01-28	Riboflavin synthase; catalyzes the last step of the riboflavin biosynthesis pathway
+S000036049	CDS					YBR256C		2	728102	727386	C		2011-02-03	1997-01-28	
+S000000461	ORF	Verified	YBR257W	POP4	RNase P/RNase MRP complex subunit	chromosome 2	L000003537	2	728885	729724	W		2011-02-03	1997-01-28	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; binds to the RPR1 RNA subunit in RNase P
+S000036225	CDS					YBR257W		2	728885	729724	W		2011-02-03	1997-01-28	
+S000000462	ORF	Verified	YBR258C	SHG1	CPS15	chromosome 2		2	730162	729734	C		2011-02-03	1997-01-28	Subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3 on lysine 4 and is required in transcriptional silencing near telomeres
+S000036263	CDS					YBR258C		2	730162	729734	C		2011-02-03	1997-01-28	
+S000000463	ORF	Verified	YBR259W			chromosome 2		2	730387	732453	W		2011-02-03	1997-01-28	Protein of unknown function; YBR259W is not an essential gene; forms cytoplasmic foci upon DNA replication stress
+S000036998	CDS					YBR259W		2	730387	732453	W		2011-02-03	1997-01-28	
+S000000464	ORF	Verified	YBR260C	RGD1		chromosome 2		2	734639	732639	C		2011-02-03	1997-01-28	GTPase-activating protein (RhoGAP) for Rho3p and Rho4p; possibly involved in control of actin cytoskeleton organization
+S000035993	CDS					YBR260C		2	734639	732639	C		2011-02-03	1997-01-28	
+S000000465	ORF	Verified	YBR261C	TAE1	N-terminal protein methyltransferase|NTM1	chromosome 2		2	735530	734832	C		2011-02-03	1997-01-28	AdoMet-dependent proline methyltransferase; catalyzes the dimethylation of ribosomal proteins Rpl12 and Rps25 at N-terminal proline residues; has a role in protein synthesis; fusion protein localizes to the cytoplasm
+S000037822	CDS					YBR261C		2	735530	734832	C		2011-02-03	1997-01-28	
+S000000466	ORF	Verified	YBR262C	MIC12	AIM5|MCS12|FMP51	chromosome 2		2	736040	735720	C		2011-02-03	1997-01-28	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; forms a subcomplex with Mic10p and Mic27p whose assembly and stability requires cardiolipin
+S000029843	CDS					YBR262C		2	736040	735720	C		2011-02-03	1997-01-28	
+S000000467	ORF	Verified	YBR263W	SHM1	glycine hydroxymethyltransferase SHM1|TMP3|SHMT1	chromosome 2	L000001883	2	736264	737736	W		2011-02-03	2003-09-22|1997-01-28	Mitochondrial serine hydroxymethyltransferase; converts serine to glycine plus 5,10 methylenetetrahydrofolate; involved in generating precursors for purine, pyrimidine, amino acid, and lipid biosynthesis; reverse reaction generates serine
+S000030905	CDS					YBR263W		2	736264	737736	W		2011-02-03	2003-09-22|1997-01-28	
+S000000468	ORF	Verified	YBR264C	YPT10	Rab family GTPase YPT10	chromosome 2		2	738369	737770	C		2011-02-03	2003-09-22|1997-01-28	Rab family GTP-binding protein; contains the PEST signal sequence specific for proteolytic enzymes; may be involved in vesicular transport; overexpression leads to accumulation of Golgi-like cisternae with budding vesicles
+S000030937	CDS					YBR264C		2	738369	737770	C		2011-02-03	2003-09-22|1997-01-28	
+S000000469	ORF	Verified	YBR265W	TSC10	3-dehydrosphinganine reductase	chromosome 2		2	738582	739544	W		2011-02-03	1997-01-28|2011-02-03	3-ketosphinganine reductase; catalyzes the second step in phytosphingosine synthesis; essential for growth in the absence of exogenous dihydrosphingosine or phytosphingosine; localized to lipid droplets; member of short chain dehydrogenase/reductase protein family
+S000031091	CDS					YBR265W		2	738582	739544	W		2011-02-03	1997-01-28|2011-02-03	
+S000000471	ORF	Verified	YBR267W	REI1		chromosome 2		2	739841	741022	W		2011-02-03	1999-04-26|1997-01-28|2011-02-03	Cytoplasmic pre-60S factor; required for the correct recycling of shuttling factors Alb1, Arx1 and Tif6 at the end of the ribosomal large subunit biogenesis; involved in bud growth in the mitotic signaling network
+S000032151	CDS					YBR267W		2	739841	741022	W		2011-02-03	1999-04-26|1997-01-28|2011-02-03	
+S000000470	ORF	Dubious	YBR266C	SLM6		chromosome 2		2	740388	739936	C		2011-02-03	1999-04-26|1997-01-28|2011-02-03	Protein with a potential role in actin cytoskeleton organization; gene exhibits synthetic genetic interaction with MSS4 encoding phosphatidylinositol 4-phosphate kinase
+S000031132	CDS					YBR266C		2	740388	739936	C		2011-02-03	1999-04-26|1997-01-28|2011-02-03	
+S000000472	ORF	Verified	YBR268W	MRPL37	mitochondrial 54S ribosomal protein YmL37|YmL37	chromosome 2	L000001172	2	741299	741616	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit
+S000032225	CDS					YBR268W		2	741299	741616	W		2011-02-03	1997-01-28	
+S000118353	ARS		ARS224		ARSII-742	chromosome 2		2	741681	741797			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178053	ARS_consensus_sequence					ARS224		2	741742	741726	C		2014-11-18	2014-11-18	
+S000000473	ORF	Verified	YBR269C	SDH8	FMP21	chromosome 2		2	742576	742160	C		2011-02-03	2004-01-09|1997-01-28	Protein required for assembly of succinate dehydrogenase; interacts with flavinylated Sdh1p and may function as a chaperone for free Sdh1p, protecting its FAD cofactor from redox reactions before assembly of the complex; soluble protein of the mitochondrial matrix; respiratory defect of null mutant is functionally complemented by Drosophila and human orthologs
+S000032252	CDS					YBR269C		2	742576	742160	C		2011-02-03	2004-01-09|1997-01-28	
+S000000474	ORF	Verified	YBR270C	BIT2		chromosome 2		2	744398	742761	C		2011-02-03	1997-01-28|2011-02-03	Subunit of TORC2 membrane-associated complex; involved in regulation of actin cytoskeletal dynamics during polarized growth and cell wall integrity; interacts with Slm1p and Slm2p, homologous PH domain-containing TORC2 substrates; BIT2 has a paralog, BIT61, that arose from the whole genome duplication
+S000031901	CDS					YBR270C		2	744398	742761	C		2011-02-03	1997-01-28|2011-02-03	
+S000000475	ORF	Verified	YBR271W	EFM2	S-adenosylmethionine-dependent methyltransferase	chromosome 2		2	744852	746111	W		2011-02-03	1997-01-28	S-adenosylmethionine-dependent methyltransferase; seven-beta-strand lysine methyltransferase which dimethylates translation elongation factor EF2 (Eft1p and Eft2p) at lysine 613 and methylates EF3 (Yef3p) at lysine 187; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; involved in regulation of translational termination; predicted involvement in ribosome biogenesis
+S000032109	CDS					YBR271W		2	744852	746111	W		2011-02-03	1997-01-28	
+S000000476	ORF	Verified	YBR272C	HSM3		chromosome 2	L000004729	2	747803	746361	C		2011-02-03	1997-01-28	Evolutionarily conserved 19S regulatory particle assembly-chaperone; involved in the assembly of the base subcomplex of the 19S proteasomal regulatory particle (RP); involved in DNA mismatch repair during slow growth; weak similarity to Msh1p; structural study suggests Hsm3p is a scaffold protein for Rpt1p-Rpt2p complex formation; ortholog of human 19S subunit S5b
+S000032139	CDS					YBR272C		2	747803	746361	C		2011-02-03	1997-01-28	
+S000000477	ORF	Verified	YBR273C	UBX7	CUI3	chromosome 2		2	749371	748061	C		2011-02-03	1997-01-28	UBX (ubiquitin regulatory X) domain-containing protein; interacts with Cdc48p; UBX7 has a paralog, UBX6, that arose from the whole genome duplication
+S000034143	CDS					YBR273C		2	749371	748061	C		2011-02-03	1997-01-28	
+S000000478	ORF	Verified	YBR274W	CHK1	serine/threonine protein kinase CHK1	chromosome 2	L000004861	2	749594	751177	W		2011-02-03	1997-01-28	Serine/threonine kinase and DNA damage checkpoint effector; mediates cell cycle arrest via phosphorylation of Pds1p; phosphorylated by checkpoint signal transducer Mec1p; homolog of S. pombe and mammalian Chk1 checkpoint kinase
+S000034288	CDS					YBR274W		2	749594	751177	W		2011-02-03	1997-01-28	
+S000000479	ORF	Verified	YBR275C	RIF1	DNA-binding protein RIF1	chromosome 2	L000001639	2	757106	751356	C		2011-02-03	1997-01-28|2011-02-03	Protein that binds to the Rap1p C-terminus; acts synergistically with Rif2p to help control telomere length and establish telomeric silencing; involved in control of DNA replication; contributes to resection of DNA double strand breaks (DSBs); deletion results in telomere elongation
+S000034316	CDS					YBR275C		2	757106	751356	C		2011-02-03	1997-01-28|2011-02-03	
+S000118354	ARS		ARS225		ARSII-757	chromosome 2		2	757437	757667			2011-02-03	2006-08-30	Autonomously Replicating Sequence; replication origin of very weak function
+S000000480	ORF	Verified	YBR276C	PPS1	tyrosine/serine/threonine protein phosphatase PPS1	chromosome 2	L000003522	2	760043	757620	C		2011-02-03	1997-01-28	Protein phosphatase; has specificity for serine, threonine, and tyrosine residues; has a role in the DNA synthesis phase of the cell cycle
+S000034373	CDS					YBR276C		2	760043	757620	C		2011-02-03	1997-01-28	
+S000000482	ORF	Verified	YBR278W	DPB3	DNA polymerase epsilon noncatalytic subunit	chromosome 2	L000000520	2	760294	760899	W		2011-02-03	1997-01-28	Third-largest subunit of DNA polymerase II (DNA polymerase epsilon); required to maintain fidelity of chromosomal replication and also for inheritance of telomeric silencing; stabilizes the interaction of Pol epsilon with primer-template DNA, positively affecting the processivity of the polymerase and exonuclease activities of Pol epsilon; mRNA abundance peaks at the G1/S boundary of the cell cycle; DPB3 has a paralog, DLS1, that arose from the whole genome duplication
+S000035459	CDS					YBR278W		2	760294	760899	W		2011-02-03	1997-01-28	
+S000000481	ORF	Dubious	YBR277C			chromosome 2		2	760616	760215	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR278W
+S000035356	CDS					YBR277C		2	760616	760215	C		2011-02-03	1997-01-28	
+S000000483	ORF	Verified	YBR279W	PAF1		chromosome 2	L000002621	2	761257	762594	W		2011-02-03	1997-01-28	Component of the Paf1p complex involved in transcription elongation; binds to and modulates the activity of RNA polymerases I and II; required for expression of a subset of genes, including cell cycle-regulated genes; involved in SER3 repression by helping to maintain SRG1 transcription-dependent nucleosome occupancy; homolog of human PD2/hPAF1
+S000035503	CDS					YBR279W		2	761257	762594	W		2011-02-03	1997-01-28	
+S000000484	ORF	Verified	YBR280C	SAF1	SCF ubiquitin ligase complex subunit SAF1	chromosome 2		2	764697	762784	C		2011-02-03	2003-09-22|1997-01-28	F-Box protein involved in proteasome-dependent degradation of Aah1p; involved in proteasome-dependent degradation of Aah1p during entry of cells into quiescence; interacts with Skp1
+S000035024	CDS					YBR280C		2	764697	762784	C		2011-02-03	2003-09-22|1997-01-28	
+S000000485	ORF	Verified	YBR281C	DUG2	glutamine amidotransferase subunit DUG2	chromosome 2		2	767606	764970	C		2011-02-03	1997-01-28	Component of glutamine amidotransferase (GATase II); forms a complex with Dug3p to degrade glutathione (GSH) and other peptides containing a gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p)
+S000035219	CDS					YBR281C		2	767606	764970	C		2011-02-03	1997-01-28	
+S000000486	ORF	Verified	YBR282W	MRPL27	mitochondrial 54S ribosomal protein YmL27|YmL27	chromosome 2	L000002528|L000001167	2	768240	768680	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; homolog of human Bcl-2 interacting protein BMRP
+S000036203	CDS					YBR282W		2	768240	768680	W		2011-02-03	1997-01-28	
+S000000487	ORF	Verified	YBR283C	SSH1		chromosome 2	L000003994	2	770415	768943	C		2011-02-03	1997-01-28	Subunit of the Ssh1 translocon complex; Sec61p homolog involved in co-translational pathway of protein translocation; not essential
+S000036248	CDS					YBR283C		2	770415	768943	C		2011-02-03	1997-01-28	
+S000000488	ORF	Uncharacterized	YBR284W		metallo-dependent hydrolase superfamily protein	chromosome 2		2	771239	773632	W		2011-02-03	1997-01-28	Putative metallo-dependent hydrolase superfamily protein; similar to AMP deaminases but lacks key catalytic residues and does not rescue purine nucleotide metabolic defect of quadruple aah1 ade8 amd1 his1 mutant; null mutant exhibits longer telomeres, altered Ty mobility, decreased resistance to rapamycin and wortmannin; induced in response to hydrostatic pressure; not an essential gene; YBR284W has a paralog, YJL070C, that arose from the whole genome duplication
+S000036400	CDS					YBR284W		2	771239	773632	W		2011-02-03	1997-01-28	
+S000000489	ORF	Uncharacterized	YBR285W			chromosome 2		2	773922	774356	W		2011-02-03	1997-01-28|2011-02-03	Putative protein of unknown function; YBR285W is not an essential gene
+S000030111	CDS					YBR285W		2	773922	774356	W		2011-02-03	1997-01-28|2011-02-03	
+S000000490	ORF	Verified	YBR286W	APE3	APY1	chromosome 2	L000000093	2	774700	776313	W		2011-02-03	1997-01-28|2005-11-07	Vacuolar aminopeptidase Y; processed to mature form by Prb1p
+S000030229	CDS					YBR286W		2	774700	776313	W		2011-02-03	1997-01-28|2005-11-07	
+S000000491	ORF	Uncharacterized	YBR287W		ZSP1	chromosome 2		2	776571	777854	W		2011-02-03	1997-01-28	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the ER; YBR287W is not an essential gene
+S000030366	CDS					YBR287W		2	776571	777854	W		2011-02-03	1997-01-28	
+S000000492	ORF	Verified	YBR288C	APM3	YKS6	chromosome 2	L000002758	2	779463	778012	C		2011-02-03	1997-01-28|2011-02-03	Mu3-like subunit of the clathrin associated protein complex (AP-3); functions in transport of alkaline phosphatase to the vacuole via the alternate pathway
+S000030452	CDS					YBR288C		2	779463	778012	C		2011-02-03	1997-01-28|2011-02-03	
+S000000493	ORF	Verified	YBR289W	SNF5	TYE4|SWI10|HAF4	chromosome 2	L000001948	2	779667	782384	W		2011-02-03	1997-01-28|2011-02-03	Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; functions interdependently in transcriptional activation with Snf2p and Snf6p; relocates to the cytosol under hypoxic conditions
+S000031369	CDS					YBR289W		2	779667	782384	W		2011-02-03	1997-01-28|2011-02-03	
+S000000494	ORF	Verified	YBR290W	BSD2		chromosome 2	L000000194	2	782591	783556	W		2011-02-03	1997-01-28	Heavy metal ion homeostasis protein; facilitates trafficking of Smf1p and Smf2p metal transporters to vacuole where they are degraded; acts as an adaptor protein with Rsp5p in the regulated endocytosis of Smf1p and is itself ubiquitylated by Rsp5p; controls metal ion transport, prevents metal hyperaccumulation, functions in copper detoxification
+S000031117	CDS					YBR290W		2	782591	783556	W		2011-02-03	1997-01-28	
+S000000495	ORF	Verified	YBR291C	CTP1		chromosome 2	L000003310	2	784572	783673	C		2011-02-03	1997-01-28	Mitochondrial inner membrane citrate transporter; member of the mitochondrial carrier family
+S000031161	CDS					YBR291C		2	784572	783673	C		2011-02-03	1997-01-28	
+S000000496	ORF	Dubious	YBR292C			chromosome 2		2	785073	784702	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YBR292C is not an essential gene
+S000032196	CDS					YBR292C		2	785073	784702	C		2011-02-03	1997-01-28	
+S000000497	ORF	Verified	YBR293W	VBA2		chromosome 2		2	787006	788430	W		2011-02-03	1997-01-28	Permease of basic amino acids in the vacuolar membrane
+S000032357	CDS					YBR293W		2	787006	788430	W		2011-02-03	1997-01-28	
+S000000498	ORF	Verified	YBR294W	SUL1	sulfate permease|SFP2	chromosome 2	L000002180	2	789235	791814	W		2011-02-03	1999-04-26|1997-01-28	High affinity sulfate permease of the SulP anion transporter family; sulfate uptake is mediated by specific sulfate transporters Sul1p and Sul2p, which control the concentration of endogenous activated sulfate intermediates
+S000032440	CDS					YBR294W		2	789235	791814	W		2011-02-03	1999-04-26|1997-01-28	
+S000118355	ARS		ARS228		ARSII-792	chromosome 2		2	792218	792310			2014-11-18	2014-11-18|2006-08-30|2011-02-03	Autonomously Replicating Sequence
+S000000499	ORF	Verified	YBR295W	PCA1	cation-transporting P-type ATPase PCA1|PAY2|CAD2	chromosome 2	L000001347|L000000207	2	792849	796499	W	161	2011-02-03	1997-01-28|2011-02-03	Cadmium transporting P-type ATPase; may also have a role in copper and iron homeostasis; stabilized by Cd binding, which prevents ubiquitination; S288C and other lab strains contain a G970R mutation which eliminates Cd transport function
+S000034460	CDS					YBR295W		2	792849	796499	W		2011-02-03	1997-01-28|2011-02-03	
+S000000500	ORF	Verified	YBR296C	PHO89	ITN1	chromosome 2		2	798522	796798	C		2011-02-03	1997-01-28	Plasma membrane Na+/Pi cotransporter; active in early growth phase; similar to phosphate transporters of Neurospora crassa; transcription regulated by inorganic phosphate concentrations and Pho4p; mutations in related human transporter genes hPit1 and hPit2 are associated with hyperphosphatemia-induced calcification of vascular tissue and familial idiopathic basal ganglia calcification
+S000034537	CDS					YBR296C		2	798522	796798	C		2011-02-03	1997-01-28	
+S000028605	ORF	Uncharacterized	YBR296C-A			chromosome 2		2	800242	800123	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031414	CDS					YBR296C-A		2	800242	800123	C		2011-02-03	2003-07-29	
+S000000501	ORF	Verified	YBR297W	MAL33	transcription factor MAL33|MALR|MAL3R	chromosome 2	L000001016	2	800523	801929	W		2011-02-03	1997-01-28	MAL-activator protein; part of complex locus MAL3; nonfunctional in genomic reference strain S288C
+S000034658	CDS					YBR297W		2	800523	801929	W		2011-02-03	1997-01-28	
+S000000502	ORF	Verified	YBR298C	MAL31	maltose permease|MALT|MAL3T	chromosome 2	L000001014	2	804475	802631	C		2011-02-03	1997-01-28	Maltose permease; high-affinity maltose transporter (alpha-glucoside transporter); encoded in the MAL3 complex locus; member of the 12 transmembrane domain superfamily of sugar transporters; functional in genomic reference strain S288C
+S000034677	CDS					YBR298C		2	804475	802631	C		2011-02-03	1997-01-28	
+S000028606	ORF	Uncharacterized	YBR298C-A			chromosome 2		2	805256	805035	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031416	CDS					YBR298C-A		2	805256	805035	C		2011-02-03	2003-07-29	
+S000000503	ORF	Verified	YBR299W	MAL32	alpha-glucosidase MAL32|MALS|MAL3S	chromosome 2	L000001015	2	805351	807105	W		2011-02-03	1997-01-28	Maltase (alpha-D-glucosidase); inducible protein involved in maltose catabolism; encoded in the MAL3 complex locus; functional in genomic reference strain S288C; hydrolyzes the disaccharides maltose, turanose, maltotriose, and sucrose
+S000035668	CDS					YBR299W		2	805351	807105	W		2011-02-03	1997-01-28	
+S000000505	ORF	Verified	YBR301W	PAU24	seripauperin PAU24|DAN3	chromosome 2		2	809057	809419	W		2011-02-03	1997-01-28	Cell wall mannoprotein; has similarity to Tir1p, Tir2p, Tir3p, and Tir4p; member of the seripauperin multigene family encoded mainly in subtelomeric regions; expressed under anaerobic conditions, completely repressed during aerobic growth
+S000033172	CDS					YBR301W		2	809057	809419	W		2011-02-03	1997-01-28	
+S000000504	ORF	Dubious	YBR300C			chromosome 2		2	809097	808600	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR301W; YBR300C is not an essential gene
+S000033026	CDS					YBR300C		2	809097	808600	C		2011-02-03	1997-01-28	
+S000000506	ORF	Verified	YBR302C	COS2		chromosome 2	L000004716	2	811479	810340	C		2011-02-03	1997-01-28	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000033196	CDS					YBR302C		2	811479	810340	C		2011-02-03	1997-01-28	
+S000028940	telomere		TEL02R			chromosome 2		2	812379	813184	W	166	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome II; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
+S000028941	telomeric_repeat					TEL02R		2	813138	813184	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome II
+S000028942	X_element					TEL02R		2	812379	812848	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome II; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028943	X_element_combinatorial_repeat					TEL02R		2	812849	813137	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr II; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000029654	ORF	Verified	R0010W	FLP1		2-micron	L000000619	2-micron	252	1523	W		2006-10-06	2004-02-11	Site-specific recombinase encoded on the 2-micron plasmid; required for 2-micron plasmid propagation as part of a plasmid amplification system that compensates for any copy number decreases caused by missegregation events
+S000119086	CDS					R0010W		2-micron	252	1523	W		2006-10-06	2004-02-11	
+S000029675	ORF	Verified	R0020C	REP1		2-micron	L000001611	2-micron	3008	1887	C		2006-10-06	2004-02-11	Master regulator that regulates transcript levels of the FLP1 gene; acts in concert with Rep2p to regulate transcript levels of the FLP1 gene that promotes plasmid copy amplification and 2-micron plasmid-inheritance; also autoregulates levels of its own transcript; both Rep1p and Rep2p are sumoylated which is important for function
+S000119087	CDS					R0020C		2-micron	3008	1887	C		2006-10-06	2004-02-11	
+S000029674	ORF	Verified	R0030W	RAF1		2-micron	S000007507	2-micron	3271	3816	W		2006-10-06	2004-02-11	Anti-repressor that increases 2 micron plasmid copy number; increases 2 micron plasmid copy number by relieving repression of the FLP1 site-specific recombinase caused by the Rep1-Rep2p trascription regulator; also itself repressed by the Rep1p-Rep2p complex
+S000119088	CDS					R0030W		2-micron	3271	3816	W		2006-10-06	2004-02-11	
+S000029676	ORF	Verified	R0040C	REP2		2-micron	L000001612	2-micron	6198	5308	C		2006-10-06	2004-02-11	Master regulator that regulates transcript levels of the FLP1 gene; acts in concert with Rep1p to regulate transcript levels of the FLP1 gene that promotes plasmid copy amplification and 2-micron plasmid-inheritance; also autoregulates levels of its own transcript; required for Rep1p stability; both Rep1p and Rep2p are sumoylated which is important for function
+S000119089	CDS					R0040C		2-micron	6198	5308	C		2006-10-06	2004-02-11	
+S000028476	ARS		ARS300	ARS300		chromosome 3		3	989	1068			2014-11-18	2003-03-31|2014-11-18	Autonomously Replicating Sequence
+S000030118	ARS_consensus_sequence					ARS300		3	1060	1050	C		2003-03-31	2003-03-31	
+S000028871	telomere		TEL03L			chromosome 3		3	1098	1	C	-50	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome III; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
+S000028872	telomeric_repeat					TEL03L		3	360	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome III
+S000028873	X_element					TEL03L		3	1098	640	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome III; contains an ARS consensus sequence and an Abf1p binding site
+S000028874	X_element_combinatorial_repeat					TEL03L		3	639	361	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr III; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000006828	long_terminal_repeat		YCLWomega1			chromosome 3		3	1179	1429	W		2000-09-13	2000-05-19	Ty5 LTR
+S000006831	LTR_retrotransposon		YCLWTy5-1		Ty5	chromosome 3		3	1179	4322	W		2000-09-13	2000-05-19	Ty5 element, LTR retrotransposon of the Copia (Pseudoviridae) group; this is the only near-full length Ty5 retrotransposon in S288C and it is non-functional
+S000000581	ORF	Dubious	YCL076W			chromosome 3		3	1392	2135	W		2000-09-13	2000-09-13|1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034360	CDS					YCL076W		3	1392	2135	W		2000-09-13	2000-09-13|1997-01-28	
+S000000580	pseudogene		YCL075W			chromosome 3		3	2126	2566	W		2000-09-13	1997-01-28	Pseudogene: encodes fragment of Ty Pol protein
+S000033443	CDS					YCL075W		3	2126	2566	W		2000-09-13	1997-01-28	
+S000000579	pseudogene		YCL074W			chromosome 3		3	2824	3750	W		2000-09-13	2000-09-13|1997-01-28	Pseudogene: encodes fragment of Ty Pol protein
+S000033352	CDS					YCL074W		3	2824	3750	W		2000-09-13	2000-09-13|1997-01-28	
+S000006829	long_terminal_repeat		YCLWomega2			chromosome 3		3	4073	4322	W		2000-09-13	2000-05-19	Ty5 LTR
+S000000575	ORF	Verified	YCL073C	GEX1	glutathione exchanger	chromosome 3		3	8326	6479	C		2000-09-13	2000-09-13|1997-01-28	Proton:glutathione antiporter; localized to the vacuolar and plasma membranes; imports glutathione from the vacuole and exports it through the plasma membrane; has a role in resistance to oxidative stress and modulation of the PKA pathway; GEX1 has a paralog, GEX2, that arose from a segmental duplication
+S000033250	CDS					YCL073C		3	8326	6479	C		2000-09-13	2000-09-13|1997-01-28	
+S000000574	ORF	Verified	YCL069W	VBA3	basic amino acid transporter	chromosome 3		3	9706	11082	W		2000-09-13	1997-01-28	Permease of basic amino acids in the vacuolar membrane; VBA3 has a paralog, VBA5, that arose from a segmental duplication
+S000031320	CDS					YCL069W		3	9706	11082	W		2000-09-13	1997-01-28	
+S000028477	ARS		ARS301	ARS301	HML-E ARS	chromosome 3		3	11146	11401			2003-03-31	2003-03-31	Inactive replication origin linked to the silent mating type locus HML; functions as a transcriptional silencer
+S000030120	ARS_consensus_sequence					ARS301		3	11257	11267	W		2003-03-31	2003-03-31	
+S000029214	silent_mating_type_cassette_array	silenced_gene	HML	HML		chromosome 3	L000000791	3	11146	14849	W	-49	2007-12-10	2007-12-10	Mating type cassette - left; unexpressed complete copy of the mating-type genes, silenced by the Sir2 histone deacetylase and its associated SIR1, SIR3 and SIR4 proteins; mating-type switching involves replacement of the Ya or Yalpha sequences present at the MAT locus with either the a or alpha genes located at one of the HM loci in a process stimulated by the HO endonuclease; sequence replacement occurs by gene conversion, leaving the donor unaltered
+S000124942	W_region					HML		3	11509	12238	W		2007-12-10	2007-12-10	
+S000124943	X_region					HML		3	12239	12943	W		2007-12-10	2007-12-10	
+S000124944	Y_region					HML		3	12944	13690	W		2007-12-10	2007-12-10	
+S000124945	Z1_region					HML		3	13691	13929	W		2007-12-10	2007-12-10	
+S000124946	Z2_region					HML		3	13930	14017	W		2007-12-10	2007-12-10	
+S000000573	ORF	Uncharacterized	YCL068C			chromosome 3		3	12285	11503	C		2000-09-13	2000-09-13|1997-01-28	Putative protein of unknown function
+S000031134	CDS					YCL068C		3	12285	11503	C		2000-09-13	2000-09-13|1997-01-28	
+S000000572	ORF	Verified|silenced_gene	YCL067C	HMLALPHA2	homeodomain mating type protein alpha2|ALPHA2	chromosome 3		3	13018	12386	C		2000-09-13	1997-01-28	Silenced copy of ALPHA2 at HML; homeobox-domain protein that associates with Mcm1p in haploid cells to repress a-specific gene expression and interacts with a1p in diploid cells to repress haploid-specific gene expression
+S000030191	CDS					YCL067C		3	13018	12386	C		2000-09-13	1997-01-28	
+S000000571	ORF	Verified|silenced_gene	YCL066W	HMLALPHA1	transcriptional co-activator mating type protein alpha|ALPHA1	chromosome 3		3	13282	13809	W		2000-09-13	1997-01-28	Silenced copy of ALPHA1 at HML; ALPHA1 encodes a transcriptional coactivator involved in the regulation of mating-type alpha-specific gene expression
+S000030081	CDS					YCL066W		3	13282	13809	W		2000-09-13	1997-01-28	
+S000000570	ORF	Dubious	YCL065W			chromosome 3		3	13751	14119	W		2000-09-13	2000-09-13|1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps HMLALPHA1
+S000029969	CDS					YCL065W		3	13751	14119	W		2000-09-13	2000-09-13|1997-01-28	
+S000028478	ARS		ARS302	ARS302	HML-I ARS	chromosome 3		3	14575	14849			2003-03-31	2003-03-31	Inactive replication origin linked to the silent mating type locus HML; functions as a transcriptional silencer
+S000030152	ARS_consensus_sequence					ARS302		3	14701	14711	W		2003-03-31	2003-03-31	
+S000028479	ARS		ARS303	ARS303		chromosome 3		3	14871	15213			2003-03-31	2003-03-31	Autonomously Replicating Sequence on Chromosome III; inactive as replication origin at native locus near HML
+S000030154	ARS_consensus_sequence					ARS303		3	15196	15186	C		2003-03-31	2003-03-31	
+S000028480	ARS		ARS320	ARS320		chromosome 3		3	15214	16274			2003-03-31	2003-03-31	Autonomously Replicating Sequence on Chromosome III; inactive as replication origin at native locus near HML
+S000030156	ARS_consensus_sequence					ARS320		3	15298	15308	W		2003-03-31	2003-03-31	
+S000000569	ORF	Verified	YCL064C	CHA1	L-serine/L-threonine ammonia-lyase CHA1	chromosome 3	L000000316	3	16880	15798	C	-46	2000-09-13	2000-09-13|1997-01-28	Catabolic L-serine (L-threonine) deaminase; catalyzes the degradation of both L-serine and L-threonine; required to use serine or threonine as the sole nitrogen source, transcriptionally induced by serine and threonine
+S000037243	CDS					YCL064C		3	16880	15798	C		2000-09-13	2000-09-13|1997-01-28	
+S000000568	ORF	Verified	YCL063W	VAC17	YCL062W	chromosome 3		3	17290	18561	W		2000-09-13	2000-09-13|1997-01-28	Phosphoprotein involved in vacuole inheritance; degraded in late M phase of the cell cycle; acts as a vacuole-specific receptor for myosin Myo2p; involved in regulation of asymmetric inheritance of aggregated/misfolded proteins and age reset
+S000037206	CDS					YCL063W		3	17290	18561	W		2000-09-13	2000-09-13|1997-01-28	
+S000000566	ORF	Verified	YCL061C	MRC1	chromatin-modulating protein MRC1|YCL060C	chromosome 3		3	22106	18816	C		2000-09-13	2000-09-13|1997-01-28	S-phase checkpoint protein required for DNA replication; couples DNA helicase and polymerase; interacts with and stabilizes Pol2p at stalled replication forks during stress, where it forms a pausing complex with Tof1p and is phosphorylated by Mec1p; defines a novel S-phase checkpoint with Hog1p that coordinates DNA replication and transcription upon osmostress; protects uncapped telomeres; Dia2p-dependent degradation mediates checkpoint recovery; mammalian claspin homolog
+S000036990	CDS					YCL061C		3	22106	18816	C		2000-09-13	2000-09-13|1997-01-28	
+S000000564	ORF	Verified	YCL059C	KRR1	ribosome biosynthesis protein KRR1	chromosome 3	L000004098	3	23379	22429	C		2000-09-13	1997-01-28	Nucleolar protein required for rRNA synthesis and ribosomal assembly; required for the synthesis of 18S rRNA and for the assembly of 40S ribosomal subunit; essential gene
+S000034984	CDS					YCL059C		3	23379	22429	C		2000-09-13	1997-01-28	
+S000028518	ORF	Verified	YCL058W-A	ADF1		chromosome 3		3	23584	23925	W		2006-01-11	2003-07-29|2006-01-11	Transcriptional repressor encoded by the FYV5 antisense strand; negatively regulates transcription of FYV5 by binding to the promoter on the sense strand
+S000030294	CDS					YCL058W-A		3	23584	23925	W		2006-01-11	2003-07-29|2006-01-11	
+S000000563	ORF	Verified	YCL058C	FYV5	MDF1	chromosome 3		3	23981	23523	C		2000-09-13	1997-01-28	Protein involved in regulation of the mating pathway; binds with Matalpha2p to promoters of haploid-specific genes; required for survival upon exposure to K1 killer toxin; involved in ion homeostasis
+S000034080	CDS					YCL058C		3	23981	23523	C		2000-09-13	1997-01-28	
+S000007547	ORF	Verified	YCL057C-A	MIC10	MOS1|MCS10|MIO10	chromosome 3		3	24325	24032	C		2000-09-14	2000-09-14	Conserved component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; forms a subcomplex with Mic12p and Mic27p whose assembly and stability requires cardiolipin; homo-oligomers cause membrane bending; ortholog of human MINOS1
+S000037065	CDS					YCL057C-A		3	24325	24032	C		2000-09-14	2000-09-14	
+S000000562	ORF	Verified	YCL057W	PRD1	metalloendopeptidase	chromosome 3	L000003155	3	24768	26906	W		2000-09-13	1997-01-28	Zinc metalloendopeptidase; found in the cytoplasm and intermembrane space of mitochondria; with Cym1p, involved in degradation of mitochondrial proteins and of presequence peptides cleaved from imported proteins; protein abundance increases in response to DNA replication stress
+S000034023	CDS					YCL057W		3	24768	26906	W		2000-09-13	1997-01-28	
+S000000561	ORF	Verified	YCL056C	PEX34		chromosome 3		3	27359	26925	C		2000-09-13	1997-01-28	Protein that regulates peroxisome populations; peroxisomal integral membrane protein; interacts with Pex11p, Pex25p, and Pex27p to control both constitutive peroxisome division and peroxisome morphology and abundance during peroxisome proliferation
+S000033789	CDS					YCL056C		3	27359	26925	C		2000-09-13	1997-01-28	
+S000000560	ORF	Verified	YCL055W	KAR4		chromosome 3	L000003481	3	27929	28936	W		2000-09-13	1997-01-28	Transcription factor required for response to pheromones; also required during meiosis; exists in two forms, a slower-migrating form more abundant during vegetative growth and a faster-migrating form induced by pheromone
+S000033110	CDS					YCL055W		3	27929	28936	W		2000-09-13	1997-01-28	
+S000028481	ARS		ARS304	ARS304		chromosome 3		3	30200	30657			2003-03-31	2003-03-31	Autonomously Replicating Sequence on Chromosome III
+S000030159	ARS_consensus_sequence					ARS304		3	30439	30429	C		2003-03-31	2003-03-31	
+S000178054	ORF	Uncharacterized	YCL054W-A	RDT1		chromosome 3		3	30910	30996	W		2014-11-18	2014-11-18	Short open reading frame, shows evidence of translation; may be new protein-coding gene that originated de novo from noncoding sequence; same allele found in at least 33 other S. cerevisiae strains; at least 3 strains have a second allele with three nucleotide substitutions leading to two amino acid differences
+S000178055	CDS					YCL054W-A		3	30910	30996	W		2014-11-18	2014-11-18	
+S000000559	ORF	Verified	YCL054W	SPB1	27S pre-rRNA (guanosine2922-2'-O)-methyltransferase	chromosome 3	L000001990	3	31449	33974	W		2000-09-13	1999-07-17|1997-01-28	AdoMet-dependent methyltransferase; involved in rRNA processing and 60S ribosomal subunit maturation; methylates G2922 in the tRNA docking site of the large subunit rRNA and in the absence of snR52, U2921; suppressor of PAB1 mutants
+S000033016	CDS					YCL054W		3	31449	33974	W		2000-09-13	1999-07-17|1997-01-28	
+S000000557	ORF	Verified	YCL052C	PBN1		chromosome 3	L000003219	3	35393	34143	C		2000-09-13	1997-01-28	Component of glycosylphosphatidylinositol-mannosyltransferase I; essential component; required for the autocatalytic post-translational processing of the protease B precursor Prb1p; localizes to ER in lumenal orientation; homolog of mammalian PIG-X
+S000031965	CDS					YCL052C		3	35393	34143	C		2000-09-13	1997-01-28	
+S000000556	ORF	Verified	YCL051W	LRE1		chromosome 3	L000003355	3	35865	37616	W		2000-09-13	2000-09-13|1997-01-28	Protein involved in control of cell wall structure and stress response; direct inhibitor of the nuclear Dbf2 related (NDR) kinase Cbk1p-Mob2p; overproduction confers resistance to cell-wall degrading enzymes; exhibits genetic interactions with genes involved in the cell wall integrity pathway; LRE1 has a paralog, HLR1, that arose from the whole genome duplication
+S000031923	CDS					YCL051W		3	35865	37616	W		2000-09-13	2000-09-13|1997-01-28	
+S000000555	ORF	Verified	YCL050C	APA1	bifunctional AP-4-A phosphorylase/ADP sulfurylase|DTP1	chromosome 3	L000000090	3	38801	37836	C	-33	2000-09-13	2000-09-13|1997-01-28	AP4A phosphorylase; bifunctional diadenosine 5',5'''-P1,P4-tetraphosphate phosphorylase and ADP sulfurylase involved in catabolism of bis(5'-nucleosidyl) tetraphosphates; catalyzes phosphorolysis of dinucleoside oligophosphates, cleaving substrates' alpha/beta-anhydride bond and introducing Pi into the beta-position of the corresponding NDP formed; protein abundance increases under DNA replication stress; APA1 has a paralog, APA2, that arose from the whole genome duplication
+S000031713	CDS					YCL050C		3	38801	37836	C		2000-09-13	2000-09-13|1997-01-28	
+S000028482	ARS		ARS305	ARS305		chromosome 3		3	39508	39595			2014-11-18	2003-03-31|2014-11-18	Efficient early-firing replication origin on Chromosome III
+S000030162	ARS_consensus_sequence					ARS305		3	39589	39579	C		2003-03-31	2003-03-31	
+S000000554	ORF	Uncharacterized	YCL049C			chromosome 3		3	40724	39786	C		2000-09-13	2000-09-13|1997-01-28	Protein of unknown function; localizes to membrane fraction; YCL049C is not an essential gene
+S000031529	CDS					YCL049C		3	40724	39786	C		2000-09-13	2000-09-13|1997-01-28	
+S000087203	ORF	Uncharacterized	YCL048W-A			chromosome 3		3	41488	41727	W		2005-11-14	2005-11-14	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cell periphery and vacuole; YCL048W-A has a paralog, YDR524C-B, that arose from the whole genome duplication
+S000087204	CDS					YCL048W-A		3	41488	41727	W		2005-11-14	2005-11-14	
+S000000553	ORF	Verified	YCL048W	SPS22		chromosome 3		3	42165	43556	W		2000-09-13	1997-01-28	Protein of unknown function; SPS22 has a paralog, SPS2, that arose from the whole genome duplication; redundant with Sps2p for the organization of the beta-glucan layer of the spore wall
+S000031494	CDS					YCL048W		3	42165	43556	W		2000-09-13	1997-01-28	
+S000000552	ORF	Verified	YCL047C	POF1	nicotinamide-nucleotide adenylyltransferase	chromosome 3		3	44437	43661	C		2000-09-13	1997-01-28	Nicotinamide mononucleotide-specific adenylyltransferase (NMNAT); catalyzes the conversion of nicotinamide mononucleotide (NMN) to nicotinamide adenine dinucleotide (NAD+); role in the nicotinamide riboside (NR) salvage pathway of NAD+ biosynthesis; involved in NR and NAD+ homeostasis; ATPase involved in protein quality control and filamentation pathways; interacts physically with Kss1p and suppresses the filamentation defect of a kss1 deletion
+S000030504	CDS					YCL047C		3	44437	43661	C		2000-09-13	1997-01-28	
+S000000551	ORF	Dubious	YCL046W			chromosome 3		3	46640	46963	W		2000-09-13	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YCL045C
+S000030444	CDS					YCL046W		3	46640	46963	W		2000-09-13	1997-01-28	
+S000000550	ORF	Verified	YCL045C	EMC1		chromosome 3		3	46905	44623	C		2000-09-13	1997-01-28	Member of conserved endoplasmic reticulum membrane complex; involved in efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; interacts with Gal80p; homologous to worm H17B01.4/EMC-1, fly CG2943, and human KIAA0090
+S000030200	CDS					YCL045C		3	46905	44623	C		2000-09-13	1997-01-28	
+S000000549	ORF	Verified	YCL044C	MGR1		chromosome 3		3	48364	47111	C		2000-09-13	1997-01-28	Subunit of the mitochondrial (mt) i-AAA protease supercomplex; i-AAA degrades misfolded mitochondrial proteins; forms a subcomplex with Mgr3p that binds to substrates to facilitate proteolysis; required for growth of cells lacking mtDNA
+S000037468	CDS					YCL044C		3	48364	47111	C		2000-09-13	1997-01-28	
+S000000548	ORF	Verified	YCL043C	PDI1	protein disulfide isomerase PDI1|TRG1|MFP1	chromosome 3	L000001360	3	50221	48653	C		2000-09-13	1997-01-28	Protein disulfide isomerase; multifunctional oxidoreductase of the ER lumen, essential for disulfide bond formation in secretory and cell-surface proteins, processing of non-native disulfide bonds; Ero1p activator; complexes with exomannosidase, Mnl1p to facilitate the recognition of misfolded glycoproteins and the trimming of glycan Man8GlcNAc2 to Man7GlcNAc2 on substrates, thereby accelerating ERAD; PDI1 has a paralog, EUG1, that arose from the whole genome duplication
+S000037357	CDS					YCL043C		3	50221	48653	C		2000-09-13	1997-01-28	
+S000000547	ORF	Uncharacterized	YCL042W			chromosome 3		3	50584	50943	W		2000-09-13	2000-09-13|1997-01-28	Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm
+S000037297	CDS					YCL042W		3	50584	50943	W		2000-09-13	2000-09-13|1997-01-28	
+S000000546	ORF	Dubious	YCL041C			chromosome 3		3	50627	50133	C		2000-09-13	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps both the verified gene PDI1/YCL043C and the uncharacterized gene YCL042W
+S000036569	CDS					YCL041C		3	50627	50133	C		2000-09-13	1997-01-28	
+S000000545	ORF	Verified	YCL040W	GLK1	glucokinase|HOR3	chromosome 3	L000000708	3	50838	52340	W	-47	2000-09-13	1997-01-28	Glucokinase; catalyzes the phosphorylation of glucose at C6 in the first irreversible step of glucose metabolism; one of three glucose phosphorylating enzymes; expression regulated by non-fermentable carbon sources; GLK1 has a paralog, EMI2, that arose from the whole genome duplication
+S000036534	CDS					YCL040W		3	50838	52340	W		2000-09-13	1997-01-28	
+S000000544	ORF	Verified	YCL039W	GID7	glucose-induced degradation complex subunit GID7|MOH2	chromosome 3		3	52645	54882	W		2000-09-13	1999-07-17|1997-01-28	Subunit of GID Complex that binds directly to central component Vid30p; GID complex is involved in proteasome-dependent catabolite inactivation of fructose-1,6-bisphosphatase; Gid7p contains six WD40 repeats; computational analysis suggests that Gid7p and Moh1p have similar functions
+S000035505	CDS					YCL039W		3	52645	54882	W		2000-09-13	1999-07-17|1997-01-28	
+S000000543	ORF	Verified	YCL038C	ATG22	AUT4	chromosome 3	L000004750	3	56527	54941	C		2000-09-13	1997-01-28	Vacuolar integral membrane protein required for efflux of amino acids; required for efflux of amino acids during autophagic body breakdown in the vacuole; null mutation causes a gradual loss of viability during starvation
+S000034405	CDS					YCL038C		3	56527	54941	C		2000-09-13	1997-01-28	
+S000000542	ORF	Verified	YCL037C	SRO9		chromosome 3	L000003106	3	58678	57374	C		2003-09-22	2003-09-22|1997-01-28	Cytoplasmic RNA-binding protein; shuttles between nucleus and cytoplasm and is exported from the nucleus in an mRNA export-dependent manner; associates with translating ribosomes; involved in heme regulation of Hap1p as a component of the HMC complex, also involved in the organization of actin filaments; contains a La motif; SRO9 has a paralog, SLF1, that arose from the whole genome duplication
+S000034295	CDS					YCL037C		3	58678	57374	C		2003-09-22	2003-09-22|1997-01-28	
+S000000541	ORF	Verified	YCL036W	GFD2	YCD6	chromosome 3	L000004631	3	59026	60726	W		2000-09-13	1997-01-28	Protein of unknown function; identified as a high-copy suppressor of a dbp5 mutation; GFD2 has a paralog, YDR514C, that arose from the whole genome duplication
+S000034257	CDS					YCL036W		3	59026	60726	W		2000-09-13	1997-01-28	
+S000000540	ORF	Verified	YCL035C	GRX1	dithiol glutaredoxin GRX1	chromosome 3		3	61173	60841	C		2000-09-13	1997-01-28	Glutathione-dependent disulfide oxidoreductase; hydroperoxide and superoxide-radical responsive, heat-stable, with active site cysteine pair; protects cells from oxidative damage; GRX1 has a paralog, GRX2, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000033290	CDS					YCL035C		3	61173	60841	C		2000-09-13	1997-01-28	
+S000000539	ORF	Verified	YCL034W	LSB5		chromosome 3		3	61658	62722	W		2000-09-13	2000-09-13|1997-01-28	Protein involved in membrane-trafficking events at plasma membrane; interacts with actin regulators Sla1p and Las17p, ubiquitin, Arf3p to couple actin dynamics to membrane trafficking processes; similar structure to GGA family of proteins with N-terminal VHS domain and GAT domain; binds Las17p, which is homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly, actin polymerization; may mediate disassembly of Pan1 complex from endocytic coat
+S000033272	CDS					YCL034W		3	61658	62722	W		2000-09-13	2000-09-13|1997-01-28	
+S000000538	ORF	Verified	YCL033C	MXR2	MSRB	chromosome 3		3	63282	62776	C		2000-09-13	1997-01-28	Methionine-R-sulfoxide reductase; involved in the response to oxidative stress; protects iron-sulfur clusters from oxidative inactivation along with MXR1; involved in the regulation of lifespan
+S000033176	CDS					YCL033C		3	63282	62776	C		2000-09-13	1997-01-28	
+S000000537	ORF	Verified	YCL032W	STE50		chromosome 3	L000002125	3	63441	64481	W	-22	2000-09-13	1997-01-28	Adaptor protein for various signaling pathways; involved in mating response, invasive/filamentous growth, osmotolerance; acts as an adaptor that links G protein-associated Cdc42p-Ste20p complex to the effector Ste11p to modulate signal transduction
+S000033154	CDS					YCL032W		3	63441	64481	W		2000-09-13	1997-01-28	
+S000000536	ORF	Verified	YCL031C	RRP7		chromosome 3	L000004251	3	65568	64675	C		2000-09-13	1997-01-28	Essential protein involved in rRNA processing and ribosome biogenesis; protein abundance increases in response to DNA replication stress
+S000032244	CDS					YCL031C		3	65568	64675	C		2000-09-13	1997-01-28	
+S000000535	ORF	Verified	YCL030C	HIS4	trifunctional histidinol dehydrogenase/phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP diphosphatase	chromosome 3	L000000781	3	68333	65934	C	-22	2000-09-13	2000-09-13|1997-01-28	Multifunctional enzyme containing phosphoribosyl-ATP pyrophosphatase; phosphoribosyl-AMP cyclohydrolase, and histidinol dehydrogenase activities; catalyzes the second, third, ninth and tenth steps in histidine biosynthesis
+S000032161	CDS					YCL030C		3	68333	65934	C		2000-09-13	2000-09-13|1997-01-28	
+S000000534	ORF	Verified	YCL029C	BIK1	PAC14|ARM5	chromosome 3	L000000178	3	69921	68599	C	-21	2000-09-13	2000-09-13|1997-01-28	Microtubule-associated protein; component of the interface between microtubules and kinetochore, involved in sister chromatid separation; essential in polyploid cells but not in haploid or diploid cells; ortholog of mammalian CLIP-170
+S000031278	CDS					YCL029C		3	69921	68599	C		2000-09-13	2000-09-13|1997-01-28	
+S000000533	ORF	Verified	YCL028W	RNQ1	prion domain-containing protein RNQ1|[PIN(+)]	chromosome 3	S000007471	3	70150	71367	W		2000-09-13	2000-09-13|1997-01-28	[PIN(+)] prion; an infectious protein conformation that is generally an ordered protein aggregate
+S000031217	CDS					YCL028W		3	70150	71367	W		2000-09-13	2000-09-13|1997-01-28	
+S000000532	ORF	Verified	YCL027W	FUS1		chromosome 3	L000000653	3	71803	73341	W	-21	2000-09-13	2000-09-13|1997-01-28	Membrane protein localized to the shmoo tip; required for cell fusion; expression regulated by mating pheromone; proposed to coordinate signaling, fusion, and polarization events required for fusion; potential Cdc28p substrate
+S000031087	CDS					YCL027W		3	71803	73341	W		2000-09-13	2000-09-13|1997-01-28	
+S000007548	ORF	Verified	YCL026C-B	HBN1	putative nitroreductase|YCL027C-A	chromosome 3		3	73986	73405	C		2000-09-14	2000-09-14	Protein of unknown function; similar to bacterial nitroreductases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; protein becomes insoluble upon intracellular iron depletion; protein abundance increases in response to DNA replication stress
+S000037064	CDS					YCL026C-B		3	73986	73405	C		2000-09-14	2000-09-14	
+S000028483	ARS		ARS306	ARS306		chromosome 3		3	74458	74677			2003-03-31	2003-03-31	Early-firing autonomously replicating sequence on Chromosome III
+S000030165	ARS_consensus_sequence					ARS306		3	74521	74531	W		2003-03-31	2003-03-31	
+S000000589	ORF	Verified	YCL026C-A	FRM2	type II nitroreductase|YCLX08C	chromosome 3	L000004082	3	75285	74704	C		2000-09-13	2000-09-13|1997-01-28	Type II nitroreductase, using NADH as reductant; mutants are defective in fatty acid mediated repression of genes involved in fatty acid biosynthesis indicative of a role in lipid signaling; involved in the oxidative stress response; transcription induction by cadmium and selenite indicates a possible role in the metal stress response; expression induced in cells treated with the mycotoxin patulin
+S000032741	CDS					YCL026C-A		3	75285	74704	C		2000-09-13	2000-09-13|1997-01-28	
+S000000530	ORF	Verified	YCL025C	AGP1	amino acid transporter AGP1|YCC5	chromosome 3	L000003271	3	77919	76018	C		2006-01-12	2000-09-13|1997-01-28|2006-01-12	Low-affinity amino acid permease with broad substrate range; involved in uptake of asparagine, glutamine, and other amino acids; expression regulated by SPS plasma membrane amino acid sensor system (Ssy1p-Ptr3p-Ssy5p); AGP1 has a paralog, GNP1, that arose from the whole genome duplication
+S000029928	CDS					YCL025C		3	77919	76018	C		2006-01-12	2000-09-13|1997-01-28|2006-01-12	
+S000000529	ORF	Verified	YCL024W	KCC4	serine/threonine protein kinase	chromosome 3		3	79162	82275	W		2006-01-12	2000-09-13|1997-01-28	Protein kinase of the bud neck involved in the septin checkpoint; associates with septin proteins, negatively regulates Swe1p by phosphorylation, shows structural homology to bud neck kinases Gin4p and Hsl1p; KCC4 has a paralog, GIN4, that arose from the whole genome duplication
+S000029873	CDS					YCL024W		3	79162	82275	W		2006-01-12	2000-09-13|1997-01-28	
+S000000528	ORF	Dubious	YCL023C			chromosome 3		3	79296	78949	C		2006-01-12	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF KCC4
+S000037128	CDS					YCL023C		3	79296	78949	C		2006-01-12	1997-01-28	
+S000000527	ORF	Dubious	YCL022C			chromosome 3		3	82085	81570	C		2006-01-12	2000-09-13|1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene KCC4/YCL024W
+S000037053	CDS					YCL022C		3	82085	81570	C		2006-01-12	2000-09-13|1997-01-28	
+S000006549	tRNA_gene		tE(UUC)C			chromosome 3	L000003760	3	82533	82462	C		2006-01-12	2000-05-19	Glutamine tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000035973	noncoding_exon					tE(UUC)C		3	82533	82462	C		2006-01-12	2000-05-19	
+S000126593	long_terminal_repeat		YCLWdelta15			chromosome 3		3	82700	83036	W		2008-06-04	2008-06-04	Ty1 LTR
+S000006822	long_terminal_repeat		YCLCdelta1			chromosome 3		3	83194	83055	C		2007-04-02	2000-05-19|2007-04-02	Ty1 LTR
+S000007549	ORF	Uncharacterized	YCL021W-A			chromosome 3		3	83620	83997	W		2006-01-12	2000-09-14	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the vacuole
+S000037066	CDS					YCL021W-A		3	83620	83997	W		2006-01-12	2000-09-14	
+S000006823	long_terminal_repeat		YCLWdelta2a			chromosome 3		3	84069	84294	W		2006-01-12	2000-05-19	Ty1 LTR
+S000006825	long_terminal_repeat		YCLWdelta3			chromosome 3		3	84295	84626	W		2006-01-12	2000-05-19	Ty1 LTR
+S000006824	long_terminal_repeat		YCLWdelta2b			chromosome 3		3	84630	84718	W		2006-01-12	2000-05-19	Ty1 LTR
+S000006826	long_terminal_repeat		YCLWdelta4			chromosome 3		3	84811	85142	W		2006-01-12	2000-05-19	Ty2 LTR
+S000006830	LTR_retrotransposon		YCLWTy2-1		Ty2	chromosome 3		3	84811	90769	W		2006-01-12	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000000525	transposable_element_gene		YCL020W		gag protein	chromosome 3		3	85102	86418	W		2006-01-12	2000-09-13|1997-01-28	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000036953	CDS					YCL020W		3	85102	86418	W		2006-01-12	2000-09-13|1997-01-28	
+S000000524	transposable_element_gene		YCL019W		gag-pol fusion protein	chromosome 3		3	85102	90415	W		2006-01-12	2000-12-01|1997-01-28	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000036163	CDS					YCL019W		3	85102	86391	W		2006-01-12	2000-12-01	
+S000036164	CDS					YCL019W		3	86393	90415	W		2006-01-12	2000-12-01|1997-01-28	
+S000036165	plus_1_translational_frameshift					YCL019W		3	86392	86392	W		2006-01-12	2000-12-01	
+S000006827	long_terminal_repeat		YCLWdelta5			chromosome 3		3	90438	90769	W		2006-01-12	2000-05-19	Ty2 LTR
+S000006637	tRNA_gene		tL(CAA)C	SUP53		chromosome 3	L000002210|L000003751	3	90859	90972	W	-10	2006-01-12	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; can mutate to suppress amber nonsense mutations
+S000033768	intron					tL(CAA)C		3	90897	90928	W		2006-01-12	2000-05-19	
+S000033766	noncoding_exon					tL(CAA)C		3	90859	90896	W		2006-01-12	2000-05-19	
+S000033767	noncoding_exon					tL(CAA)C		3	90929	90972	W		2006-01-12	2000-05-19	
+S000000523	ORF	Verified	YCL018W	LEU2	3-isopropylmalate dehydrogenase	chromosome 3	L000000943	3	91324	92418	W	-5	2006-01-12	2000-09-13|1997-01-28	Beta-isopropylmalate dehydrogenase (IMDH); catalyzes the third step in the leucine biosynthesis pathway; can additionally catalyze the conversion of beta-ethylmalate into alpha-ketovalerate
+S000035270	CDS					YCL018W		3	91324	92418	W		2006-01-12	2000-09-13|1997-01-28	
+S000000522	ORF	Verified	YCL017C	NFS1	SPL1	chromosome 3	L000001240	3	94270	92777	C		2006-01-12	2000-09-13|1997-01-28	Cysteine desulfurase; involved in iron-sulfur cluster (Fe/S) biogenesis and in thio-modification of mitochondrial and cytoplasmic tRNAs; essential protein located predominantly in mitochondria
+S000034976	CDS					YCL017C		3	94270	92777	C		2006-01-12	2000-09-13|1997-01-28	
+S000000521	ORF	Verified	YCL016C	DCC1		chromosome 3		3	95763	94621	C		2006-01-12	2000-09-13|1997-01-28	Subunit of a complex with Ctf8p and Ctf18p; shares some components with Replication Factor C; required for sister chromatid cohesion and telomere length maintenance
+S000034840	CDS					YCL016C		3	95763	94621	C		2006-01-12	2000-09-13|1997-01-28	
+S000000520	ORF	Verified	YCL014W	BUD3	YCL012W	chromosome 3	L000000200	3	96281	101191	W	-9	2006-01-12	2000-09-13|1997-01-28	Guanine nucleotide exchange factor (GEF) for Cdc42p; activates Cdc42p in early G1, accounting for the first stage of biphasic activation, with Cdc24p accounting for the second stage in late G1; involved in the Cdc42p-mediated assembly of the axial landmark that dictates the site for the next round of budding, resulting in the axial budding pattern observed in haploids; localizes with septins to the bud neck contractile ring in mitosis
+S000033879	CDS					YCL014W		3	96281	101191	W		2006-01-12	2000-09-13|1997-01-28	
+S000029705	ORF	Verified	YCL012C		YCL011C-A	chromosome 3		3	101788	101317	C		2006-01-12	2004-02-20|2011-02-03	Protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively; orthologs are present in S. bayanus, S. paradoxus and Ashbya gossypii; YCL012C is not an essential gene
+S000036814	CDS					YCL012C		3	101633	101317	C		2006-01-12	2004-02-20	
+S000036813	CDS					YCL012C		3	101788	101701	C		2006-01-12	2004-02-20	
+S000036815	intron					YCL012C		3	101700	101634	C		2006-01-12	2004-02-20|2011-02-03	
+S000000517	ORF	Verified	YCL011C	GBP2	single-stranded telomeric DNA-binding/mRNA-binding protein|RLF6	chromosome 3	L000002609|L000003049	3	103358	102075	C		2006-01-12	1997-01-28	Poly(A+) RNA-binding protein; key surveillance factor for the selective export of spliced mRNAs from the nucleus to the cytoplasm; preference for intron-containing genes; similar to Npl3p; also binds single-stranded telomeric repeat sequence in vitro; relocalizes to the cytosol in response to hypoxia; GBP2 has a paralog, HRB1, that arose from the whole genome duplication
+S000032976	CDS					YCL011C		3	103358	102075	C		2006-01-12	1997-01-28	
+S000000516	ORF	Verified	YCL010C	SGF29		chromosome 3		3	104350	103571	C		2006-01-12	1999-07-17|1997-01-28	Component of the HAT/Core module of the SAGA, SLIK, and ADA complexes; HAT/Core module also contains Gcn5p, Ngg1p, and Ada2p; binds methylated histone H3K4; involved in transcriptional regulation through SAGA and TBP recruitment to target promoters and H3 acetylation
+S000032887	CDS					YCL010C		3	104350	103571	C		2006-01-12	1999-07-17|1997-01-28	
+S000000515	ORF	Verified	YCL009C	ILV6	acetolactate synthase regulatory subunit	chromosome 3	L000004096	3	105548	104619	C		2006-01-12	1999-07-17|1997-01-28	Regulatory subunit of acetolactate synthase; acetolactate synthase catalyzes the first step of branched-chain amino acid biosynthesis; enhances activity of the Ilv2p catalytic subunit, localizes to mitochondria
+S000032134	CDS					YCL009C		3	105548	104619	C		2006-01-12	1999-07-17|1997-01-28	
+S000000514	ORF	Verified	YCL008C	STP22	ubiquitin-binding ESCRT-I subunit protein STP22|AGS1|VPL15|VPS23	chromosome 3	L000003975|S000029031|L000000064	3	106853	105696	C		2006-01-12	2004-02-18|2000-09-13|1997-01-28	Component of the ESCRT-I complex; ESCRT-I is involved in ubiquitin-dependent sorting of proteins into the endosome; prevents polyubiquitination of the arrestin-related protein Rim8p, thereby directing its monoubiquitination by Rsp5p; homologous to the mouse and human Tsg101 tumor susceptibility gene; mutants exhibit a Class E Vps phenotype;
+S000032022	CDS					YCL008C		3	106853	105696	C		2006-01-12	2004-02-18|1997-01-28|2000-09-13	
+S000028508	ORF	Verified	YCL005W-A	VMA9	H(+)-transporting V0 sector ATPase subunit e|LDB10|CWH36	chromosome 3		3	107023	107417	W		2006-01-12	2003-07-29	Vacuolar H+ ATPase subunit e of the V-ATPase V0 subcomplex; essential for vacuolar acidification; interacts with the V-ATPase assembly factor Vma21p in the ER; involved in V0 biogenesis
+S000030218	CDS					YCL005W-A		3	107023	107033	W		2006-01-12	2003-07-29	
+S000030219	CDS					YCL005W-A		3	107111	107191	W		2006-01-12	2003-07-29	
+S000030220	CDS					YCL005W-A		3	107288	107417	W		2006-01-12	2003-07-29	
+S000030221	intron					YCL005W-A		3	107034	107110	W		2006-01-12	2003-07-29	
+S000030222	intron					YCL005W-A		3	107192	107287	W		2006-01-12	2003-07-29	
+S000000513	ORF	Dubious	YCL007C		CWH36	chromosome 3	L000002918	3	107366	106974	C		2006-01-12	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps verified ORF YCL005W-A; mutations in YCL007C were thought to confer sensitivity to calcofluor white, but this phenotype was later shown to be due to the defect in YCL005W-A
+S000031856	CDS					YCL007C		3	107366	106974	C		2006-01-12	1997-01-28	
+S000006503	snoRNA_gene		snR43	SNR43		chromosome 3	L000003410	3	107712	107504	C		2006-01-12	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U966 and of 5.8S rRNA at position 73
+S000030615	noncoding_exon					snR43		3	107712	107504	C		2006-01-12	2000-05-19	
+S000000511	ORF	Verified	YCL005W	LDB16		chromosome 3		3	108021	108791	W		2006-01-12	2000-09-13|1997-01-28	Protein involved in lipid droplet (LD) assembly; forms a complex with Sei1p at ER-LD contact sites, stabilizing contact sites; ensures that LDs bud from the ER towards the cytosolic side of the membrane; null mutants have decreased net negative cell surface charge and localized accumulation of phosphatidic acid (PA) marker proteins; GFP-fusion protein expression is induced in response to MMS; null mutant can be complemented by the human seipin, BSCL2
+S000030833	CDS					YCL005W		3	108021	108791	W		2006-01-12	2000-09-13|1997-01-28	
+S000028484	ARS		ARS307	ARS307		chromosome 3		3	108727	109060			2014-11-18	2003-03-31|2014-11-18	Autonomously Replicating Sequence on Chromosome III
+S000030169	ARS_consensus_sequence					ARS307		3	108970	108960	C		2006-01-12	2003-03-31	
+S000000510	ORF	Verified	YCL004W	PGS1	CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase|YCL003W|PEL1	chromosome 3	L000001372	3	109105	110670	W		2006-01-12	2000-02-10|1997-01-28	Phosphatidylglycerolphosphate synthase; catalyzes the synthesis of phosphatidylglycerolphosphate from CDP-diacylglycerol and sn-glycerol 3-phosphate in the first committed and rate-limiting step of cardiolipin biosynthesis
+S000030745	CDS					YCL004W		3	109105	110670	W		2006-01-12	2000-02-10|1997-01-28	
+S000000508	ORF	Uncharacterized	YCL002C			chromosome 3		3	111675	110808	C		2011-02-03	2003-09-27|1997-01-28|2000-09-13|2011-02-03	Putative protein of unknown function; YCL002C is not an essential gene
+S000037735	CDS					YCL002C		3	111557	110808	C		2011-02-03	2003-09-27|1997-01-28|2000-09-13|2011-02-03	
+S000037734	CDS					YCL002C		3	111675	111634	C		2011-02-03	2003-09-27	
+S000037736	intron					YCL002C		3	111633	111558	C		2011-02-03	2003-09-27	
+S000000507	ORF	Verified	YCL001W	RER1	protein retrieval receptor	chromosome 3	L000001613	3	111916	112482	W		2011-02-03	1999-07-17|1997-01-28	Protein involved in retention of membrane proteins; including Sec12p, in the ER; localized to Golgi; functions as a retrieval receptor in returning membrane proteins to the ER
+S000037714	CDS					YCL001W		3	111916	112482	W		2011-02-03	1999-07-17|1997-01-28	
+S000007221	ORF	Uncharacterized	YCL001W-A			chromosome 3		3	113080	113541	W		2011-02-03	1999-07-17	Putative protein of unknown function; YCL001W-A gene has similarity to DOM34 and is present in a region duplicated between chromosomes XIV and III
+S000034577	CDS					YCL001W-A		3	113080	113541	W		2011-02-03	1999-07-17	
+S000007596	ORF	Uncharacterized	YCL001W-B			chromosome 3		3	113770	114024	W		2011-02-03	2001-02-26	Putative protein of unknown function; present in a region duplicated between chromosomes XIV and III; YCL001W-B has a paralog, DOM34, that arose from the whole genome duplication
+S000037142	CDS					YCL001W-B		3	113770	114024	W		2011-02-03	2001-02-26	
+S000028485	ARS		ARS308	ARS308		chromosome 3		3	114321	114939			2011-02-03	2003-03-31	Autonomously Replicating Sequence on Chromosome III
+S000006465	centromere		CEN3	CEN3		chromosome 3	L000000296	3	114385	114501	W	0	2011-02-03	2000-05-19	Chromosome III centromere
+S000077263	centromere_DNA_Element_I					CEN3		3	114385	114394	W		2011-02-03	2004-10-04	
+S000077264	centromere_DNA_Element_II					CEN3		3	114395	114476	W		2011-02-03	2004-10-04	
+S000077265	centromere_DNA_Element_III					CEN3		3	114477	114501	W		2011-02-03	2004-10-04	
+S000000594	ORF	Uncharacterized	YCR001W			chromosome 3		3	115685	115999	W		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YCR001W is not an essential gene
+S000035168	CDS					YCR001W		3	115685	115999	W		2011-02-03	1997-01-28	
+S000000595	ORF	Verified	YCR002C	CDC10	septin CDC10	chromosome 3	L000000250	3	118348	117380	C	-.75	2011-02-03	1997-01-28	Component of the septin ring, required for cytokinesis; septins are GTP-binding proteins that assemble into rod-like hetero-oligomers that can associate to form filaments; septin rings at the mother-bud neck act as scaffolds for recruiting cell division factors and as barriers to prevent diffusion of specific proteins between mother and daughter cells; N-terminus interacts with phosphatidylinositol-4,5-bisphosphate; protein abundance increases under DNA damage stress
+S000035178	CDS					YCR002C		3	118348	117380	C		2011-02-03	1997-01-28	
+S000000596	ORF	Verified	YCR003W	MRPL32	mitochondrial 54S ribosomal protein YmL32|YmL32	chromosome 3	L000001169	3	118620	119171	W		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; protein abundance increases in response to DNA replication stress
+S000036143	CDS					YCR003W		3	118620	119171	W		2011-02-03	1997-01-28	
+S000000597	ORF	Verified	YCR004C	YCP4	flavodoxin-like fold family protein	chromosome 3	L000004160	3	120318	119575	C		2011-02-03	1997-01-28	Protein of unknown function; has sequence and structural similarity to flavodoxins; predicted to be palmitoylated; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000036195	CDS					YCR004C		3	120318	119575	C		2011-02-03	1997-01-28	
+S000000598	ORF	Verified	YCR005C	CIT2	citrate (Si)-synthase CIT2	chromosome 3	L000000342	3	122328	120946	C		2011-02-03	2000-09-13|1997-01-28	Citrate synthase, peroxisomal isozyme involved in glyoxylate cycle; catalyzes condensation of acetyl coenzyme A and oxaloacetate to form citrate; expression is controlled by Rtg1p and Rtg2p transcription factors; SCF-Ucc1 regulates level of Cit2p to maintain citrate homeostasis; oxaloacetate-dependent positive feedback loop inhibits Cit2p ubiquitination; CIT2 has a paralog, CIT1, that arose from the whole genome duplication
+S000031674	CDS					YCR005C		3	122328	120946	C		2011-02-03	2000-09-13|1997-01-28	
+S000000599	ORF	Uncharacterized	YCR006C			chromosome 3		3	123003	122530	C		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YCR006C is not an essential gene
+S000031816	CDS					YCR006C		3	123003	122530	C		2011-02-03	1997-01-28	
+S000006678	tRNA_gene		tP(AGG)C	SUF2		chromosome 3	L000002150|L000003759	3	123648	123577	C	2	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in proline codons
+S000033260	noncoding_exon					tP(AGG)C		3	123648	123577	C		2011-02-03	2000-05-19	
+S000006832	long_terminal_repeat		YCRCdelta6			chromosome 3		3	124465	124134	C		2011-02-03	2000-05-19|2007-04-02	Ty1 LTR
+S000000600	ORF	Uncharacterized	YCR007C		DUP240 family protein	chromosome 3		3	126730	126011	C		2011-02-03	1997-01-28	Putative integral membrane protein; member of DUP240 gene family; SWAT-GFP and mCherry fusion proteins localize to the cell periphery and vacuole; YCR007C is not an essential gene
+S000031932	CDS					YCR007C		3	126730	126011	C		2011-02-03	1997-01-28	
+S000006668	tRNA_gene		tN(GUU)C			chromosome 3	L000003752	3	127716	127789	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000030674	noncoding_exon					tN(GUU)C		3	127716	127789	W		2011-02-03	2000-05-19	
+S000000601	ORF	Verified	YCR008W	SAT4	serine/threonine protein kinase SAT4|HAL4	chromosome 3	L000004136	3	128470	130281	W		2011-02-03	1997-01-28	Ser/Thr protein kinase involved in salt tolerance; funtions in regulation of Trk1p-Trk2p potassium transporter; overexpression affects the Fe-S and lipoamide containing proteins in the mitochondrion; required for lipoylation of Lat1p, Kgd2p and Gcv3p; partially redundant with Hal5p; has similarity to Npr1p; localizes to the cytoplasm and mitochondrion
+S000037489	CDS					YCR008W		3	128470	130281	W		2011-02-03	1997-01-28	
+S000000602	ORF	Verified	YCR009C	RVS161	amphiphysin-like protein RVS161|SPE161|FUS7|END6	chromosome 3	L000001788	3	131542	130745	C	1	2011-02-03	1997-01-28	Amphiphysin-like lipid raft protein; N-BAR domain protein that interacts with Rvs167p and regulates polarization of the actin cytoskeleton, endocytosis, cell polarity, cell fusion and viability following starvation or osmotic stress
+S000037521	CDS					YCR009C		3	131542	130745	C		2011-02-03	1997-01-28	
+S000028486	ARS		ARS309	ARS309		chromosome 3		3	132043	132120			2014-11-18	2003-03-31|2014-11-18	Autonomously Replicating Sequence on Chromosome III
+S000030172	ARS_consensus_sequence					ARS309		3	132046	132056	W		2011-02-03	2003-03-31	
+S000000603	ORF	Verified	YCR010C	ADY2	ATO1	chromosome 3		3	133124	132273	C		2011-02-03	1997-01-28	Acetate transporter required for normal sporulation; phosphorylated in mitochondria; ADY2 has a paralog, ATO2, that arose from the whole genome duplication
+S000037136	CDS					YCR010C		3	133124	132273	C		2011-02-03	1997-01-28	
+S000000604	ORF	Verified	YCR011C	ADP1	putative ATP-dependent permease ADP1	chromosome 3	L000000049	3	136873	133724	C	1	2011-02-03	2000-09-13|1997-01-28	Putative ATP-dependent permease of the ABC transporter family
+S000037210	CDS					YCR011C		3	136873	133724	C		2011-02-03	2000-09-13|1997-01-28	
+S000000605	ORF	Verified	YCR012W	PGK1	phosphoglycerate kinase	chromosome 3	L000001411	3	137746	138996	W	2	2011-02-03	2000-09-13|1997-01-28	3-phosphoglycerate kinase; catalyzes transfer of high-energy phosphoryl groups from the acyl phosphate of 1,3-bisphosphoglycerate to ADP to produce ATP; key enzyme in glycolysis and gluconeogenesis
+S000037349	CDS					YCR012W		3	137746	138996	W		2011-02-03	2000-09-13|1997-01-28	
+S000000606	ORF	Dubious	YCR013C			chromosome 3		3	139049	138402	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcription of both YCR013C and the overlapping essential gene PGK1 is reduced in a gcr1 null mutant
+S000037371	CDS					YCR013C		3	139049	138402	C		2011-02-03	1997-01-28	
+S000000607	ORF	Verified	YCR014C	POL4	DNA-directed DNA polymerase IV|POLX	chromosome 3	L000001462	3	140933	139185	C		2011-02-03	2000-09-13|1997-01-28	DNA polymerase IV; undergoes pair-wise interactions with Dnl4p-Lif1p and Rad27p to mediate repair of DNA double-strand breaks by non-homologous end joining (NHEJ); homologous to mammalian DNA polymerase beta
+S000029998	CDS					YCR014C		3	140933	139185	C		2011-02-03	2000-09-13|1997-01-28	
+S000000608	ORF	Verified	YCR015C	CTO1		chromosome 3		3	142170	141217	C		2011-02-03	2000-09-13|1997-01-28	Protein required for cold tolerance; involved in phosphate uptake; YCR015C is not an essential gene
+S000030089	CDS					YCR015C		3	142170	141217	C		2011-02-03	2000-09-13|1997-01-28	
+S000007298	snoRNA_gene		snR33	SNR33		chromosome 3	L000001971	3	142546	142364	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U1042
+S000036761	noncoding_exon					snR33		3	142546	142364	C		2011-02-03	2000-05-19	
+S000006575	tRNA_gene		tG(GCC)C	SUF16		chromosome 3	L000002163|L000003758	3	142771	142701	C	3	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis;can mutate to suppress +1 frameshift mutations in glycine codons
+S000037891	noncoding_exon					tG(GCC)C		3	142771	142701	C		2011-02-03	2000-05-19	
+S000006833	long_terminal_repeat		YCRCdelta7			chromosome 3		3	143080	142758	C		2011-02-03	2000-05-19|2007-04-02	Ty1 LTR
+S000000609	ORF	Uncharacterized	YCR016W			chromosome 3		3	143634	144506	W		2011-02-03	2000-09-13|1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus and nucleus; predicted to be involved in ribosome biogenesis
+S000030347	CDS					YCR016W		3	143634	144506	W		2011-02-03	2000-09-13|1997-01-28	
+S000000610	ORF	Verified	YCR017C	CWH43		chromosome 3		3	147634	144773	C		2011-02-03	2000-09-13|1997-01-28	GPI lipid remodelase; responsible for introducing ceramides into GPI anchors having a C26:0 fatty acid in sn-2 of the glycerol moiety; can also use lyso-GPI protein anchors and various base resistant lipids as substrates; contains 14-16 transmembrane segments and several putative glycosylation and phosphorylation sites; null mutation is synthetically lethal with pkc1 deletion
+S000030381	CDS					YCR017C		3	147634	144773	C		2011-02-03	2000-09-13|1997-01-28	
+S000000611	ORF	Verified	YCR018C	SRD1		chromosome 3	L000002054	3	148903	148238	C	9	2011-02-03	2000-09-13|1997-01-28	Protein involved in the processing of pre-rRNA to mature rRNA; contains a C2/C2 zinc finger motif; srd1 mutation suppresses defects caused by the rrp1-1 mutation
+S000033700	CDS					YCR018C		3	148903	148238	C		2011-02-03	2000-09-13|1997-01-28	
+S000006835	long_terminal_repeat		YCRWdelta8			chromosome 3		3	149482	149809	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006658	tRNA_gene		tM(CAU)C			chromosome 3	L000003753	3	149920	149991	W		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), predicted by tRNAscan-SE analysis
+S000034498	noncoding_exon					tM(CAU)C		3	149920	149991	W		2011-02-03	2000-05-19	
+S000006836	long_terminal_repeat		YCRWdelta9			chromosome 3		3	150220	150551	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007429	long_terminal_repeat		YCRCtau1			chromosome 3		3	151055	150695	C		2011-02-03	2000-05-19|2008-03-05	Ty4 LTR
+S000006615	tRNA_gene		tK(CUU)C			chromosome 3	L000003757	3	151356	151284	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000035985	noncoding_exon					tK(CUU)C		3	151356	151284	C		2011-02-03	2000-05-19	
+S000006837	long_terminal_repeat		YCRWdelta10			chromosome 3		3	151521	151851	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007230	ORF	Dubious	YCR018C-A			chromosome 3		3	151862	151608	C		2011-02-03	1999-07-17	Putative protein of unknown function; encoded opposite a Ty1 LTR
+S000036351	CDS					YCR018C-A		3	151862	151608	C		2011-02-03	1999-07-17	
+S000000612	ORF	Verified	YCR019W	MAK32		chromosome 3	L000000999	3	152837	153928	W		2011-02-03	1997-01-28	Protein necessary for stability of L-A dsRNA-containing particles
+S000033899	CDS					YCR019W		3	152837	153928	W		2011-02-03	1997-01-28	
+S000000613	ORF	Verified	YCR020C	PET18	HIT2	chromosome 3	L000001390	3	154659	154012	C	17	2011-02-03	1997-01-28	Protein of unknown function; has weak similarity to proteins involved in thiamin metabolism; expression is induced in the absence of thiamin
+S000033420	CDS					YCR020C		3	154659	154012	C		2011-02-03	1997-01-28	
+S000000614	ORF	Verified	YCR020C-A	MAK31	NAA38|SMX1|LSM9	chromosome 3	L000000998	3	155096	154830	C		2011-02-03	1997-01-28	Non-catalytic subunit of N-terminal acetyltransferase of the NatC type; required for replication of dsRNA virus; member of the Sm protein family
+S000031333	CDS					YCR020C-A		3	155096	154830	C		2011-02-03	1997-01-28	
+S000006439	ORF	Verified	YCR020W-B	HTL1		chromosome 3	L000004545	3	155320	155556	W		2011-02-03	1999-07-17	Component of the RSC chromatin remodeling complex; RSC functions in transcriptional regulation and elongation, chromosome stability, and establishing sister chromatid cohesion; involved in telomere maintenance
+S000033349	CDS					YCR020W-B		3	155320	155556	W		2011-02-03	1999-07-17	
+S000000615	ORF	Verified	YCR021C	HSP30	YRO1	chromosome 3	L000000818	3	157107	156109	C		2011-02-03	1997-01-28	Negative regulator of the H(+)-ATPase Pma1p; stress-responsive protein; hydrophobic plasma membrane localized; induced by heat shock, ethanol treatment, weak organic acid, glucose limitation, and entry into stationary phase
+S000033481	CDS					YCR021C		3	157107	156109	C		2011-02-03	1997-01-28	
+S000000616	ORF	Uncharacterized	YCR022C			chromosome 3		3	157765	157421	C		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YCR022C is not an essential gene
+S000033548	CDS					YCR022C		3	157765	157421	C		2011-02-03	1997-01-28	
+S000000617	ORF	Verified	YCR023C			chromosome 3		3	160373	158538	C		2011-02-03	2000-09-13|1997-01-28	Vacuolar membrane protein of unknown function; member of the multidrug resistance family; YCR023C is not an essential gene
+S000033605	CDS					YCR023C		3	160373	158538	C		2011-02-03	2000-09-13|1997-01-28	
+S000000618	ORF	Verified	YCR024C	SLM5	asparagine--tRNA ligase SLM5	chromosome 3		3	162222	160744	C		2011-02-03	2000-09-13|1997-01-28	Mitochondrial asparaginyl-tRNA synthetase
+S000034549	CDS					YCR024C		3	162222	160744	C		2011-02-03	2000-09-13|1997-01-28	
+S000028818	ORF	Uncharacterized	YCR024C-B			chromosome 3		3	162865	162599	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000033627	CDS					YCR024C-B		3	162865	162599	C		2011-02-03	2003-07-29	
+S000000619	ORF	Verified	YCR024C-A	PMP1	proteolipid ATPase	chromosome 3	L000001453	3	163067	162945	C		2011-02-03	1997-01-28	Regulatory subunit for the plasma membrane H(+)-ATPase Pma1p; small single-membrane span proteolipid; forms unique helix and positively charged cytoplasmic domain that is able to specifically segregate phosphatidylserines; PMP1 has a paralog, PMP2, that arose from the whole genome duplication
+S000030035	CDS					YCR024C-A		3	163067	162945	C		2011-02-03	1997-01-28	
+S000000620	ORF	Dubious	YCR025C			chromosome 3		3	163856	163446	C		2011-02-03	2000-09-13|1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YCR025C is not an essential gene
+S000034636	CDS					YCR025C		3	163856	163446	C		2011-02-03	2000-09-13|1997-01-28	
+S000000621	ORF	Verified	YCR026C	NPP1	nucleotide diphosphatase/phosphodiesterase NPP1	chromosome 3		3	166339	164111	C		2011-02-03	2000-09-13|1997-01-28	Nucleotide pyrophosphatase/phosphodiesterase; mediates extracellular nucleotide phosphate hydrolysis along with Npp2p and Pho5p; activity and expression enhanced during conditions of phosphate starvation; involved in spore wall assembly; NPP1 has a paralog, NPP2, that arose from the whole genome duplication, and an npp1 npp2 double mutant exhibits reduced dityrosine fluorescence relative to the single mutants
+S000034766	CDS					YCR026C		3	166339	164111	C		2011-02-03	2000-09-13|1997-01-28	
+S000028487	ARS		ARS310	ARS310		chromosome 3		3	166503	167348			2011-02-03	2003-03-31	Compound autonomously replicating sequence on Chromosome III
+S000030176	ARS_consensus_sequence					ARS310		3	166663	166673	W		2011-02-03	2003-03-31	
+S000030177	ARS_consensus_sequence					ARS310		3	166710	166700	C		2011-02-03	2003-03-31	
+S000030178	ARS_consensus_sequence					ARS310		3	166766	166756	C		2011-02-03	2003-03-31	
+S000000622	ORF	Verified	YCR027C	RHB1	putative GTPase RHB1|RSG1	chromosome 3	S000007419	3	167999	167370	C		2011-02-03	2000-09-13|1997-01-28	Putative Rheb-related GTPase; involved in regulating canavanine resistance and arginine uptake; member of the Ras superfamily of G-proteins
+S000035733	CDS					YCR027C		3	167999	167370	C		2011-02-03	2000-09-13|1997-01-28	
+S000006692	tRNA_gene		tQ(UUG)C			chromosome 3	L000003756	3	168372	168301	C		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000031663	noncoding_exon					tQ(UUG)C		3	168372	168301	C		2011-02-03	2000-05-19	
+S000006838	long_terminal_repeat		YCRWdelta11			chromosome 3		3	169573	169888	W		2011-02-03	2000-05-19	Ty1 LTR
+S000000623	ORF	Verified	YCR028C	FEN2		chromosome 3	L000004079	3	172424	170886	C		2011-02-03	2000-09-13|1997-01-28	Plasma membrane H+-pantothenate symporter; confers sensitivity to the antifungal agent fenpropimorph; relocalizes from vacuole to cytoplasm upon DNA replication stress
+S000035840	CDS					YCR028C		3	172424	170886	C		2011-02-03	2000-09-13|1997-01-28	
+S000007222	ORF	Verified	YCR028C-A	RIM1		chromosome 3	L000001640	3	173440	172950	C		2011-02-03	2000-09-13|1999-07-17	ssDNA-binding protein essential for mitochondrial genome maintenance; involved in mitochondrial DNA replication; stimulates utilization by Mip1p DNA polymerase of RNA primers synthesized by Rpo41p
+S000030988	CDS					YCR028C-A		3	173115	172950	C		2011-02-03	2000-09-13|1999-07-17	
+S000030987	CDS					YCR028C-A		3	173440	173199	C		2011-02-03	2000-09-13|1999-07-17	
+S000030989	intron					YCR028C-A		3	173198	173116	C		2011-02-03	2000-09-13|1999-07-17	
+S000000626	ORF	Verified	YCR030C	SYP1	YCR029C-A	chromosome 3		3	176438	173826	C		2011-02-03	2000-09-13|1997-01-28|1999-07-17	Negative regulator of WASP-Arp23 complex; involved in endocytic site formation; directly inhibits Las17p stimulation of Arp23 complex-mediated actin assembly in vitro; may regulate assembly and disassembly of the septin ring; colocalizes and interacts with septin subunits; potential role in actin cytoskeletal organization
+S000036846	CDS					YCR030C		3	176438	173826	C		2011-02-03	2000-09-13|1999-07-17|1997-01-28	
+S000006456	snoRNA_gene		snR65	SNR65		chromosome 3	L000004534	3	177183	177282	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2347
+S000030850	noncoding_exon					snR65		3	177183	177282	W		2011-02-03	2000-05-19	
+S000000627	ORF	Verified	YCR031C	RPS14A	uS11|ribosomal 40S subunit protein S14A|S11|rp59A|S14A|RPL59|CRY1	chromosome 3	L000000423	3	178220	177500	C	26	2011-02-03	2000-09-13|1997-01-28	Protein component of the small (40S) ribosomal subunit; required for ribosome assembly and 20S pre-rRNA processing; mutations confer cryptopleurine resistance; homologous to mammalian ribosomal protein S14 and bacterial S11; RPS14A has a paralog, RPS14B, that arose from the whole genome duplication
+S000037573	CDS					YCR031C		3	177906	177500	C		2011-02-03	2000-09-13|1997-01-28	
+S000037572	CDS					YCR031C		3	178220	178214	C		2011-02-03	2000-09-13|1997-01-28	
+S000037574	intron					YCR031C		3	178213	177907	C		2011-02-03	2000-09-13|1997-01-28	
+S000007314	snoRNA_gene		snR189	SNR189		chromosome 3	L000001976	3	178798	178610	C		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2735 and small subunit (SSU) rRNA at position U466
+S000030325	noncoding_exon					snR189		3	178798	178610	C		2011-02-03	2000-05-19	
+S000000628	ORF	Verified	YCR032W	BPH1		chromosome 3	L000003507	3	179520	186023	W		2011-02-03	2000-09-13|1997-01-28	Protein homologous to Chediak-Higashi syndrome and Beige proteins; both of which are implicated in disease syndromes in human and mouse, respectively, due to defective lysosomal trafficking; mutant phenotype and genetic interactions suggest a role in protein sorting
+S000037675	CDS					YCR032W		3	179520	186023	W		2011-02-03	2000-09-13|1997-01-28	
+S000000629	ORF	Verified	YCR033W	SNT1		chromosome 3		3	186489	190169	W		2011-02-03	2000-09-13|1997-01-28	Subunit of the Set3C deacetylase complex; interacts directly with the Set3C subunit, Sif2p; putative DNA-binding protein; mutant has increased aneuploidy tolerance; relocalizes to the cytosol in response to hypoxia
+S000037732	CDS					YCR033W		3	186489	190169	W		2011-02-03	2000-09-13|1997-01-28	
+S000000630	ORF	Verified	YCR034W	ELO2	fatty acid elongase ELO2|FEN1|VBM2|GNS1	chromosome 3	L000003126|L000000608	3	190592	191635	W	24	2011-02-03	1997-01-28	Fatty acid elongase, involved in sphingolipid biosynthesis; acts on fatty acids of up to 24 carbons in length; mutations have regulatory effects on 1,3-beta-glucan synthase, vacuolar ATPase, and the secretory pathway; ELO2 has a paralog, ELO1, that arose from the whole genome duplication; lethality of the elo2 elo3 double null mutation is functionally complemented by human ELOVL1 and weakly complemented by human ELOVL3 or ELOV7
+S000037781	CDS					YCR034W		3	190592	191635	W		2011-02-03	1997-01-28	
+S000000631	ORF	Verified	YCR035C	RRP43	exosome non-catalytic core subunit RRP43	chromosome 3	L000003552	3	193018	191834	C		2011-02-03	2000-09-13|1997-01-28	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp43p (OIP2, EXOSC8); protein abundance increases in response to DNA replication stress
+S000030620	CDS					YCR035C		3	193018	191834	C		2011-02-03	2000-09-13|1997-01-28	
+S000000632	ORF	Verified	YCR036W	RBK1	putative ribokinase	chromosome 3	L000001587	3	193297	194298	W	29	2011-02-03	2000-09-13|1997-01-28	Putative ribokinase
+S000030780	CDS					YCR036W		3	193297	194298	W		2011-02-03	2000-09-13|1997-01-28	
+S000028488	ARS		ARS313	ARS313	ARSIII-194	chromosome 3		3	194308	194367			2014-11-18	2003-03-31|2014-11-18|2006-09-06	Autonomously Replicating Sequence on Chromosome III
+S000000633	ORF	Verified	YCR037C	PHO87	SPX domain-containing inorganic phosphate transporter	chromosome 3	L000002740	3	197185	194414	C		2011-02-03	2000-09-13|1997-01-28	Low-affinity inorganic phosphate (Pi) transporter; acts upstream of Pho81p in regulation of the PHO pathway; expression is independent of Pi concentration and Pho4p activity; contains 12 membrane-spanning segments; PHO87 has a paralog, PHO90, that arose from the whole genome duplication
+S000030810	CDS					YCR037C		3	197185	194414	C		2011-02-03	2000-09-13|1997-01-28	
+S000028489	ARS		ARS314	ARS314	ARSIII-198	chromosome 3		3	197460	197598			2014-11-18	2003-03-31|2014-11-18|2006-09-06	Autonomously Replicating Sequence on Chromosome III; active in <10% of cell cycles
+S000178056	ARS_consensus_sequence					ARS314		3	197552	197536	C		2014-11-18	2014-11-18	
+S000029699	mating_type_region		MATALPHA	MATALPHA	MAT	chromosome 3	L000001031	3	198671	201177	W	30	2011-02-03	2007-12-10	Mating type locus; note that the systematic sequence in SGD contains MATalpha sequences
+S000124947	W_region					MATALPHA		3	198671	199400	W		2011-02-03	2007-12-10	
+S000124948	X_region					MATALPHA		3	199401	200103	W		2011-02-03	2007-12-10	
+S000124949	Y_region					MATALPHA		3	200104	200850	W		2011-02-03	2007-12-10	
+S000124950	Z1_region					MATALPHA		3	200851	201089	W		2011-02-03	2007-12-10	
+S000124951	Z2_region					MATALPHA		3	201090	201177	W		2011-02-03	2007-12-10	
+S000007597	ORF	Dubious	YCR038W-A			chromosome 3		3	199293	199418	W		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene BUD5/YCR038C; identified by homology with hemiascomycetous yeast species
+S000037143	CDS					YCR038W-A		3	199293	199418	W		2011-02-03	2001-02-26	
+S000000634	ORF	Verified	YCR038C	BUD5	Ras family guanine nucleotide exchange factor BUD5	chromosome 3	L000000202	3	199549	197621	C	30	2011-02-03	2000-09-13|1997-01-28	GTP/GDP exchange factor for Rsr1p (Bud1p); required for both axial and bipolar budding patterns; mutants exhibit random budding in all cell types
+S000031792	CDS					YCR038C		3	199549	197621	C		2011-02-03	2000-09-13|1997-01-28	
+S000000635	ORF	Verified	YCR039C	MATALPHA2	homeodomain mating type protein alpha2|ALPHA2	chromosome 3	L000002973	3	200178	199546	C		2011-02-03	1997-01-28	Homeobox-domain protein; with Mcm1p, represses a-specific genes in haploids; acts with A1p to repress transcription of haploid-specific genes in diploids; one of two genes encoded by the MATalpha mating type cassette
+S000031946	CDS					YCR039C		3	200178	199546	C		2011-02-03	1997-01-28	
+S000000636	ORF	Verified	YCR040W	MATALPHA1	transcriptional co-activator mating type protein alpha|ALPHA1	chromosome 3	L000002972	3	200442	200969	W		2011-02-03	1997-01-28	Transcriptional co-activator that regulates mating-type-specific genes; targets the transcription factor Mcm1p to the promoters of alpha-specific genes; one of two genes encoded by the MATalpha mating type cassette
+S000032771	CDS					YCR040W		3	200442	200969	W		2011-02-03	1997-01-28	
+S000000637	ORF	Verified	YCR041W			chromosome 3		3	200911	201243	W		2011-02-03	1997-01-28	Protein of unknown function; overexpression suppresses the high-frequency loss of mini-chromosomes, probably by increasing the rate of proper chromosome segregation; translated gene product of YCR041W, but not its transcript, is responsible for suppression; suppression ability of YCR041W is completely dependent on silencing protein Sir4p
+S000032864	CDS					YCR041W		3	200911	201243	W		2011-02-03	1997-01-28	
+S000000638	ORF	Verified	YCR042C	TAF2	TafII150|TSM1|TAF150	chromosome 3	L000002367	3	205397	201174	C	31	2011-02-03	1997-01-28	TFIID subunit (150 kDa); involved in RNA polymerase II transcription initiation
+S000032896	CDS					YCR042C		3	205397	201174	C		2011-02-03	1997-01-28	
+S000000639	ORF	Uncharacterized	YCR043C			chromosome 3		3	206644	206261	C		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the Golgi apparatus; YCR043C is not an essential gene
+S000033005	CDS					YCR043C		3	206644	206261	C		2011-02-03	1997-01-28	
+S000000640	ORF	Verified	YCR044C	PER1	COS16	chromosome 3		3	207950	206877	C		2011-02-03	1997-01-28	Protein of the endoplasmic reticulum; required for GPI-phospholipase A2 activity that remodels the GPI anchor as a prerequisite for association of GPI-anchored proteins with lipid rafts; functionally complemented by human ortholog PERLD1
+S000033673	CDS					YCR044C		3	207950	206877	C		2011-02-03	1997-01-28	
+S000028607	ORF	Dubious	YCR045W-A			chromosome 3		3	208751	209101	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with YCR045C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
+S000031418	CDS					YCR045W-A		3	208751	209101	W		2011-02-03	2003-07-29	
+S000000641	ORF	Verified	YCR045C	RRT12	OSW3	chromosome 3		3	209610	208135	C		2011-02-03	1997-01-28	Probable subtilisin-family protease; role in formation of the dityrosine layer of spore walls; localizes to the spore wall and also the nuclear envelope and ER region in mature spores
+S000033761	CDS					YCR045C		3	209610	208135	C		2011-02-03	1997-01-28	
+S000000642	ORF	Verified	YCR046C	IMG1	mitochondrial 54S ribosomal protein IMG1	chromosome 3	L000004445	3	210423	209914	C		2011-02-03	1997-01-28	Mitochondrial ribosomal protein of the large subunit; required for respiration and for maintenance of the mitochondrial genome
+S000033858	CDS					YCR046C		3	210423	209914	C		2011-02-03	1997-01-28	
+S000028608	ORF	Dubious	YCR047W-A			chromosome 3		3	211301	211507	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with YCR047C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
+S000031420	CDS					YCR047W-A		3	211301	211507	W		2011-02-03	2003-07-29	
+S000000643	ORF	Verified	YCR047C	BUD23	18S rRNA (guanine1575-N7)-methyltransferase	chromosome 3		3	211545	210718	C		2011-02-03	1997-01-28	Methyltransferase that methylates residue G1575 of 18S rRNA; required for rRNA processing and nuclear export of 40S ribosomal subunits independently of methylation activity; diploid mutant displays random budding pattern; functional homolog of human WBSCR22
+S000034011	CDS					YCR047C		3	211545	210718	C		2011-02-03	1997-01-28	
+S000000644	ORF	Verified	YCR048W	ARE1	sterol acyltransferase|SAT2	chromosome 3	L000003221|L000002768	3	211929	213761	W		2011-02-03	1997-01-28	Acyl-CoA:sterol acyltransferase; endoplasmic reticulum enzyme that contributes the major sterol esterification activity in the absence of oxygen; ARE1 has a paralog, ARE2, that arose from the whole genome duplication
+S000034969	CDS					YCR048W		3	211929	213761	W		2011-02-03	1997-01-28	
+S000000645	ORF	Dubious	YCR049C			chromosome 3		3	212317	211871	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035033	CDS					YCR049C		3	212317	211871	C		2011-02-03	1997-01-28	
+S000000646	ORF	Uncharacterized	YCR050C			chromosome 3		3	213772	213464	C		2011-02-03	1997-01-28	Non-essential protein of unknown function; deletion mutant is synthetically sick or lethal with alpha-synuclein
+S000036029	CDS					YCR050C		3	213772	213464	C		2011-02-03	1997-01-28	
+S000000647	ORF	Uncharacterized	YCR051W			chromosome 3		3	214071	214739	W		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; contains ankyrin (Ank) repeats; YCR051W is not an essential gene
+S000036913	CDS					YCR051W		3	214071	214739	W		2011-02-03	1997-01-28	
+S000000648	ORF	Verified	YCR052W	RSC6		chromosome 3	L000003151	3	214994	216445	W		2011-02-03	1997-01-28	Component of the RSC chromatin remodeling complex; essential for mitotic growth; RSC6 has a paralog, SNF12, that arose from the whole genome duplication
+S000036966	CDS					YCR052W		3	214994	216445	W		2011-02-03	1997-01-28	
+S000000649	ORF	Verified	YCR053W	THR4	threonine synthase THR4	chromosome 3	L000002300	3	216697	218241	W	51	2011-02-03	1997-01-28	Threonine synthase; conserved protein that catalyzes formation of threonine from O-phosphohomoserine; expression is regulated by the GCN4-mediated general amino acid control pathway
+S000037048	CDS					YCR053W		3	216697	218241	W		2011-02-03	1997-01-28	
+S000000650	ORF	Verified	YCR054C	CTR86		chromosome 3	L000004071	3	220067	218376	C		2011-02-03	1997-01-28	Essential protein of unknown function; with orthologs in Ashbya gossypii and Candida albicans; similar to human ATXN10, mutations in which cause spinocerebellar ataxia type 10; codon usage corresponds to that observed for yeast genes expressed at low levels; relative distribution to the nucleus increases upon DNA replication stress
+S000037070	CDS					YCR054C		3	220067	218376	C		2011-02-03	1997-01-28	
+S000000653	ORF	Verified	YCR057C	PWP2	snoRNA-binding rRNA-processing protein PWP2|UTP1|YCR058C|YCR055C	chromosome 3	L000001540	3	223228	220457	C		2011-02-03	2000-09-13|1997-01-28	Conserved 90S pre-ribosomal component; essential for proper endonucleolytic cleavage of the 35 S rRNA precursor at A0, A1, and A2 sites; contains eight WD-repeats; PWP2 deletion leads to defects in cell cycle and bud morphogenesis
+S000029966	CDS					YCR057C		3	223228	220457	C		2011-02-03	2000-09-13|1997-01-28	
+S000000655	ORF	Verified	YCR059C	YIH1		chromosome 3		3	224230	223454	C		2011-02-03	1997-01-28	Negative regulator of eIF2 kinase Gcn2p; competes with Gcn2p for binding to Gcn1p; may contribute to regulation of translation in response to starvation via regulation of Gcn2p; binds to monomeric actin and to ribosomes and polyribosomes; ortholog of mammalian IMPACT
+S000031068	CDS					YCR059C		3	224230	223454	C		2011-02-03	1997-01-28	
+S000000656	ORF	Verified	YCR060W	TAH1		chromosome 3		3	224399	224734	W		2011-02-03	1997-01-28	Component of conserved R2TP complex (Rvb1-Rvb2-Tah1-Pih1); R2TP complex interacts with Hsp90 (Hsp82p and Hsc82p) to mediate assembly of large protein complexes such as box C/D snoRNPs and RNA polymerase II; contains a single TPR domain with at least two TPR motifs; plays a role in determining prion variants
+S000032111	CDS					YCR060W		3	224399	224734	W		2011-02-03	1997-01-28	
+S000028490	ARS		ARS315	ARS315	ARSIII-225	chromosome 3		3	224816	225061			2011-02-03	2003-03-31|2006-09-06	Highly-active autonomously replicating sequence; initiates replication in ~90% of cell cycles
+S000178057	ARS_consensus_sequence					ARS315		3	224853	224869	W		2014-11-18	2014-11-18	
+S000000657	ORF	Uncharacterized	YCR061W		YCR062W	chromosome 3		3	225563	227458	W		2011-02-03	2000-09-14|1997-01-28	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; induced by treatment with 8-methoxypsoralen and UVA irradiation
+S000032157	CDS					YCR061W		3	225563	227458	W		2011-02-03	2000-09-14|1997-01-28	
+S000006730	tRNA_gene		tS(CGA)C	SUP61		chromosome 3	L000002215|L000003754	3	227942	228042	W	68	2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis; i6A37 modification is catalyzed by Mod5p; can mutate to suppress amber or ochre nonsense mutations; suppressor mutant alleles are recessive lethal and can only be maintained when an additional wild-type copy of the gene is present, because SUP61 encodes the only tRNA species that can decode UCG codons
+S000029830	intron					tS(CGA)C		3	227979	227997	W		2011-02-03	2000-05-19	
+S000029828	noncoding_exon					tS(CGA)C		3	227942	227978	W		2011-02-03	2000-05-19	
+S000029829	noncoding_exon					tS(CGA)C		3	227998	228042	W		2011-02-03	2000-05-19	
+S000000659	ORF	Verified	YCR063W	BUD31	U2 snRNP complex subunit BUD31|CWC14	chromosome 3		3	228318	228791	W		2011-02-03	1997-01-28	Component of the SF3b subcomplex of the U2 snRNP; increases efficiency of first and second step pre-mRNA splicing; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern; facilitates passage through G1/S Start, but is not required for G2/M transition or exit from mitosis
+S000033121	CDS					YCR063W		3	228318	228791	W		2011-02-03	1997-01-28	
+S000000660	ORF	Dubious	YCR064C			chromosome 3		3	228505	228095	C		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene BUD31
+S000033148	CDS					YCR064C		3	228505	228095	C		2011-02-03	1997-01-28	
+S000000661	ORF	Verified	YCR065W	HCM1		chromosome 3	L000000757	3	229310	231004	W		2011-02-03	2000-09-13|1997-01-28	Forkhead transcription factor; drives S-phase activation of genes involved in chromosome segregation, spindle dynamics, budding; also activates genes involved in respiration, use of alternative energy sources (like proline), NAD synthesis, oxidative stress resistance; key factor in early adaptation to nutrient deficiency and diauxic shift; suppressor of calmodulin mutants with specific SPB assembly defects; ortholog of C. elegans lifespan regulator PHA-4
+S000033238	CDS					YCR065W		3	229310	231004	W		2011-02-03	2000-09-13|1997-01-28	
+S000000662	ORF	Verified	YCR066W	RAD18	E3 ubiquitin-protein ligase RAD18	chromosome 3	L000001567	3	231500	232963	W	67	2011-02-03	1997-01-28	E3 ubiquitin ligase; forms heterodimer with Rad6p to monoubiquitinate PCNA-K164; heterodimer binds single-stranded DNA and has single-stranded DNA dependent ATPase activity; required for postreplication repair; SUMO-targeted ubiquitin ligase (STUbl) that contains a SUMO-interacting motif (SIM) which stimulates its ubiquitin ligase activity towards the sumoylated form of PCNA
+S000033283	CDS					YCR066W		3	231500	232963	W		2011-02-03	1997-01-28	
+S000000663	ORF	Verified	YCR067C	SED4		chromosome 3	L000001860	3	236322	233125	C		2011-02-03	1997-01-28	Integral ER membrane protein that stimulates Sar1p GTPase activity; involved in COPII vesicle budding through disassociation of coat proteins from membranes onto liposomes; binds Sec16p; SED4 has a paralog, SEC12, that arose from the whole genome duplication
+S000033324	CDS					YCR067C		3	236322	233125	C		2011-02-03	1997-01-28	
+S000000664	ORF	Verified	YCR068W	ATG15	triglyceride lipase ATG15|CVT17|AUT5	chromosome 3	L000004767|L000004751	3	237214	238776	W		2011-02-03	2000-09-13|1997-01-28	Phospholipase; preferentially hydrolyses phosphatidylserine, with minor activity against cardiolipin and phosphatidylethanolamine; required for lysis of autophagic and CVT bodies; targeted to intravacuolar vesicles during autophagy via the multivesicular body (MVB) pathway; required for the maintenance of lipid droplet quantity after the diauxic shift; regulates lipolysis; expression regulated by Yap1p during autophagy
+S000034292	CDS					YCR068W		3	237214	238776	W		2011-02-03	2000-09-13|1997-01-28	
+S000000665	ORF	Verified	YCR069W	CPR4	peptidylprolyl isomerase family protein CPR4|SCC3|YCR070W|CYP4	chromosome 3	L000001804	3	239055	240011	W		2011-02-03	1997-01-28	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; has a potential role in the secretory pathway; CPR4 has a paralog, CPR8, that arose from the whole genome duplication
+S000034404	CDS					YCR069W		3	239055	240011	W		2011-02-03	1997-01-28	
+S000000667	ORF	Verified	YCR071C	IMG2	mitochondrial 54S ribosomal protein IMG2	chromosome 3	L000004446	3	240543	240103	C		2011-02-03	2000-09-13|1997-01-28	Mitochondrial ribosomal protein of the large subunit; conserved in metazoa, with similarity to human mitochondrial ribosomal protein MRPL49
+S000036422	CDS					YCR071C		3	240543	240103	C		2011-02-03	2000-09-13|1997-01-28	
+S000000668	ORF	Verified	YCR072C	RSA4		chromosome 3		3	242352	240805	C		2011-02-03	2000-09-13|1997-01-28	WD-repeat protein involved in ribosome biogenesis; may interact with ribosomes; required for maturation and efficient intra-nuclear transport or pre-60S ribosomal subunits, localizes to the nucleolus
+S000036487	CDS					YCR072C		3	242352	240805	C		2011-02-03	2000-09-13|1997-01-28	
+S000000669	ORF	Verified	YCR073C	SSK22	mitogen-activated protein kinase kinase kinase SSK22	chromosome 3	L000002827	3	246583	242588	C		2011-02-03	2000-09-13|1997-01-28	MAP kinase kinase kinase of HOG1 mitogen-activated signaling pathway; functionally redundant with Ssk2p; interacts with and is activated by Ssk1p; phosphorylates Pbs2p; SSK22 has a paralog, SSK2, that arose from the whole genome duplication
+S000036585	CDS					YCR073C		3	246583	242588	C		2011-02-03	2000-09-13|1997-01-28	
+S000000718	ORF	Verified	YCR073W-A	SOL2	YCRX13W	chromosome 3	L000003116	3	246963	247910	W		2011-02-03	2000-09-13|1997-01-28	Protein with a possible role in tRNA export; shows similarity to 6-phosphogluconolactonase non-catalytic domains but does not exhibit this enzymatic activity; homologous to Sol3p and Sol4p; SOL2 has a paralog, SOL1, that arose from the whole genome duplication
+S000032484	CDS					YCR073W-A		3	246963	247910	W		2011-02-03	2000-09-13|1997-01-28	
+S000000671	ORF	Verified	YCR075C	ERS1	cystinosin-like protein ERS1	chromosome 3	L000000582	3	248815	248033	C		2011-02-03	1997-01-28	Protein involved in cystine transport; localizes to the vacuole, plasma membrane and endosome; similarity to human cystinosin, a H(+)-driven transporter involved in L-cystine export from lysosomes and implicated in the disease cystinosis; contains seven transmembrane domains; mutation is functionally complemented by human CTNS
+S000037388	CDS					YCR075C		3	248815	248033	C		2011-02-03	1997-01-28	
+S000028519	ORF	Verified	YCR075W-A	EGO2		chromosome 3		3	248975	249202	W		2011-02-03	2003-07-29	Component of the EGO and GSE complexes; identified by homology to Ashbya gossypii; YCR075W-A has a paralog, YNR034W-A, that arose from the whole genome duplication
+S000030296	CDS					YCR075W-A		3	248975	249202	W		2011-02-03	2003-07-29	
+S000000672	ORF	Verified	YCR076C	FUB1		chromosome 3		3	250045	249293	C		2011-02-03	1997-01-28	Proteasome-binding protein; interacts physically with multiple subunits of the 20S proteasome and genetically with genes encoding 20S core particle and 19S regulatory particle subunits; exhibits boundary activity which blocks the propagation of heterochromatic silencing; contains a PI31 proteasome regulator domain and sequence similarity with human PSMF1, a proteasome inhibitor; not an essential gene
+S000037531	CDS					YCR076C		3	250045	249293	C		2011-02-03	1997-01-28	
+S000000673	ORF	Verified	YCR077C	PAT1	MRT1	chromosome 3	L000001183|L000003214	3	252628	250238	C		2011-02-03	2000-09-13|1997-01-28|2011-02-03	Deadenylation-dependent mRNA-decapping factor; also required for faithful chromosome transmission, maintenance of rDNA locus stability, and protection of mRNA 3'-UTRs from trimming; associated with topoisomerase II; binds to mRNAs under glucose starvation, most often in the 3' UTR; functionally linked to Pab1p; forms cytoplasmic foci upon DNA replication stress; phosphorylation by PKA inhibits P body foci formation
+S000030274	CDS					YCR077C		3	252628	250238	C		2011-02-03	2000-09-13|1997-01-28|2011-02-03	
+S000002133	ORF	Verified	YCR079W	PTC6	type 2C protein phosphatase PTC6|PPP2|AUP1	chromosome 3		3	252845	254173	W		2011-02-03	2000-09-13|1997-01-28	Mitochondrial type 2C protein phosphatase (PP2C); has similarity to mammalian PP1Ks; involved in mitophagy; null mutant is sensitive to rapamycin and has decreased phosphorylation of the Pda1 subunit of pyruvate dehydrogenase
+S000031401	CDS					YCR079W		3	252845	254173	W		2011-02-03	2000-09-13|1997-01-28	
+S000000677	ORF	Verified	YCR081W	SRB8	MED12|YCR080W|SSN5|NUT6|GIG1	chromosome 3	L000003007	3	254371	258654	W		2011-02-03	2000-09-13|1997-01-28	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; involved in glucose repression
+S000031712	CDS					YCR081W		3	254371	258654	W		2011-02-03	2000-09-13|1997-01-28	
+S000028609	ORF	Dubious	YCR081C-A			chromosome 3		3	258651	258415	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with SRB8/YCR081W; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
+S000031422	CDS					YCR081C-A		3	258651	258415	C		2011-02-03	2003-07-29	
+S000000678	ORF	Verified	YCR082W	AHC2		chromosome 3		3	258883	259269	W		2011-02-03	1997-01-28	Component of the ADA histone acetyltransferase complex; Ahc2p and Ahc1p are unique to the ADA complex and not shared with the related SAGA and SLIK complexes; may tether Ahc1p to the complex
+S000031866	CDS					YCR082W		3	258883	259269	W		2011-02-03	1997-01-28	
+S000000679	ORF	Verified	YCR083W	TRX3		chromosome 3		3	259578	259961	W		2011-02-03	1997-01-28	Mitochondrial thioredoxin; highly conserved oxidoreductase required to maintain the redox homeostasis of the cell, forms the mitochondrial thioredoxin system with Trr2p, redox state is maintained by both Trr2p and Glr1p
+S000031961	CDS					YCR083W		3	259578	259961	W		2011-02-03	1997-01-28	
+S000000680	ORF	Verified	YCR084C	TUP1	chromatin-silencing transcriptional regulator TUP1|UMR7|SFL2|ROX4|FLK1|CYC9|CRT4|AMM1|AER2|AAR1	chromosome 3	L000002391	3	262452	260311	C	77	2011-02-03	1997-01-28	General repressor of transcription; forms complex with Cyc8p, involved in the establishment of repressive chromatin structure through interactions with histones H3 and H4, appears to enhance expression of some genes
+S000032798	CDS					YCR084C		3	262452	260311	C		2011-02-03	1997-01-28	
+S000000681	ORF	Uncharacterized	YCR085W			chromosome 3		3	262916	263269	W		2011-02-03	1997-01-28	Putative protein of unknown function; conserved among S. cerevisiae strains; YCR085W is not an essential gene
+S000032982	CDS					YCR085W		3	262916	263269	W		2011-02-03	1997-01-28	
+S000000682	ORF	Verified	YCR086W	CSM1		chromosome 3	S000007653	3	263392	263964	W		2011-02-03	1997-01-28	Nucleolar protein that mediates homolog segregation during meiosis I; forms a complex with Lrs4p and then Mam1p at kinetochores; required for condensin recruitment to the replication fork barrier site and rDNA repeat segregation
+S000033051	CDS					YCR086W		3	263392	263964	W		2011-02-03	1997-01-28	
+S000000683	ORF	Dubious	YCR087W			chromosome 3		3	263976	264491	W		2011-02-03	1997-01-28	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized gene YCR087C-A; YCR087W is not an essential gene
+S000033786	CDS					YCR087W		3	263976	264491	W		2011-02-03	1997-01-28	
+S000007223	ORF	Uncharacterized	YCR087C-A		LUG1	chromosome 3		3	264467	264006	C		2011-02-03	1999-07-17	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus; YCR087C-A is not an essential gene
+S000034092	CDS					YCR087C-A		3	264467	264006	C		2011-02-03	1999-07-17	
+S000000684	ORF	Verified	YCR088W	ABP1		chromosome 3	L000000013	3	265068	266846	W	80	2011-02-03	1997-01-28	Actin-binding protein of the cortical actin cytoskeleton; important for activation of the Arp2/3 complex that plays a key role actin in cytoskeleton organization; inhibits barbed-end actin filament elongation; phosphorylation within its Proline-Rich Regio, mediated by Cdc28p and Pho85p, protects Abp1p from proteolysis mediated by its own PEST sequences; mammalian homolog of HIP-55 (hematopoietic progenitor kinase 1 [HPK1]-interacting protein of 55 kDa)
+S000033904	CDS					YCR088W		3	265068	266846	W		2011-02-03	1997-01-28	
+S000000685	ORF	Verified	YCR089W	FIG2		chromosome 3	L000003312	3	267434	272263	W		2011-02-03	2000-09-13|1997-01-28	Cell wall adhesin, expressed specifically during mating; may be involved in maintenance of cell wall integrity during mating; FIG2 has a paralog, AGA1, that arose from the whole genome duplication
+S000034060	CDS					YCR089W		3	267434	272263	W		2011-02-03	2000-09-13|1997-01-28	
+S000028491	ARS		ARS316	ARS316	ARSIII-273	chromosome 3		3	272852	273095			2011-02-03	2003-03-31|2006-09-06	Inefficient autonomously replicating sequence; active in ~25% of cell cycles
+S000178058	ARS_consensus_sequence					ARS316		3	273024	273008	C		2014-11-18	2014-11-18	
+S000000686	ORF	Uncharacterized	YCR090C			chromosome 3		3	272863	272315	C		2011-02-03	1997-01-28	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YCR090C is not an essential gene
+S000036138	CDS					YCR090C		3	272863	272315	C		2011-02-03	1997-01-28	
+S000000687	ORF	Verified	YCR091W	KIN82	putative serine/threonine protein kinase KIN82|FPK2	chromosome 3	L000000906	3	274404	276566	W		2011-02-03	2000-09-13|1997-01-28|2011-02-03	Putative serine/threonine protein kinase; implicated in the regulation of phospholipid asymmetry through the activation of phospholipid translocases (flippases); involved in the phosphorylation of upstream inhibitory kinase Ypk1p along with Fpk1p; has a redundant role in the cellular response to mating pheromone; KIN82 has a paralog, FPK1, that arose from the whole genome duplication
+S000036298	CDS					YCR091W		3	274404	276566	W		2011-02-03	2000-09-13|1997-01-28|2011-02-03	
+S000000688	ORF	Verified	YCR092C	MSH3	mismatch repair protein MSH3	chromosome 3	L000001191	3	279820	276764	C		2011-02-03	2007-09-06|1997-01-28	Mismatch repair protein; forms dimers with Msh2p that mediate repair of insertion or deletion mutations and removal of nonhomologous DNA ends, contains a PCNA (Pol30p) binding motif required for genome stability
+S000036361	CDS					YCR092C		3	279820	276764	C		2011-02-03	1997-01-28|2007-09-06	
+S000000689	ORF	Verified	YCR093W	CDC39	CCR4-NOT core subunit CDC39|SMD6|ROS1|NOT1	chromosome 3	L000000274	3	280117	286443	W	91	2011-02-03	2000-09-13|1997-01-28	Subunit of the CCR4-NOT1 core complex; this complex has multiple roles in the regulation of mRNA levels including regulation of transcription and destabilization of mRNA by deadenylation; basal transcription factor that increases initiation and elongation; activates the ATPase activity of Dhh1p, resulting in processing body disassembly
+S000037049	CDS					YCR093W		3	280117	286443	W		2011-02-03	2000-09-13|1997-01-28	
+S000000690	ORF	Verified	YCR094W	CDC50	aminophospholipid translocase regulatory protein CDC50	chromosome 3	L000004326	3	286762	287937	W		2011-02-03	1997-01-28	Endosomal protein that interacts with phospholipid flippase Drs2p; interaction with Cdc50p is essential for Drs2p catalytic activity; mutations affect cell polarity and polarized growth; similar to Lem3p; CDC50 has a paralog, YNR048W, that arose from the whole genome duplication
+S000037156	CDS					YCR094W		3	286762	287937	W		2011-02-03	1997-01-28	
+S000000691	ORF	Uncharacterized	YCR095C	OCA4		chromosome 3		3	289258	288170	C		2011-02-03	1997-01-28	Cytoplasmic protein required for replication of Brome mosaic virus; S. cerevisiae is a model system for studying replication of positive-strand RNA viruses in their natural hosts
+S000037199	CDS					YCR095C		3	289258	288170	C		2011-02-03	1997-01-28	
+S000029724	ORF	Uncharacterized	YCR095W-A			chromosome 3		3	289639	289797	W		2011-02-03	2004-08-27	Putative protein of unknown function
+S000036860	CDS					YCR095W-A		3	289639	289797	W		2011-02-03	2004-08-27	
+S000006839	long_terminal_repeat		YCRWdelta12			chromosome 3		3	291373	291712	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006841	long_terminal_repeat		YCRWomega3			chromosome 3		3	291922	292167	W		2011-02-03	2000-05-19	Ty5 LTR
+S000029655	silent_mating_type_cassette_array	silenced_gene	HMR	HMR		chromosome 3	L000000792	3	292388	295034	W	94	2011-02-03	2007-12-10	Mating-type cassette - right; unexpressed complete copy of the mating-type genes, silenced by the Sir2 histone deacetylase and its associated SIR1, SIR3 and SIR4 proteins; mating-type switching involves replacement of the Ya or Yalpha sequences present at the MAT locus with either the a or alpha genes located at one of the HM loci in a process stimulated by the HO endonuclease; sequence replacement occurs by gene conversion, leaving the donor unaltered
+S000124952	X_region					HMR		3	293032	293736	W		2011-02-03	2007-12-10	
+S000124953	Y_region					HMR		3	293737	294378	W		2011-02-03	2007-12-10	
+S000124954	Z1_region					HMR		3	294379	294617	W		2011-02-03	2007-12-10	
+S000028492	ARS		ARS317	ARS317	HMR-E ARS	chromosome 3		3	292638	292694			2014-11-18	2003-03-31|2014-11-18	ARS that fires extremely inefficiently and late during S phase; fires late and inefficiently compared to other origins in the genome; active in only a small fraction of cell cycles
+S000121225	ARS_consensus_sequence					ARS317		3	292684	292674	C		2011-02-03	2007-03-06	
+S000000692	ORF	Verified|silenced_gene	YCR096C	HMRA2	homeodomain  mating type protein a2|A2	chromosome 3		3	293538	293179	C		2011-02-03	1997-01-28	Silenced copy of a2 at HMR; similarity to Alpha2p; required along with a1p for inhibiting expression of the HO endonuclease in a/alpha HO/HO diploid cells with an active mating-type interconversion system
+S000037309	CDS					YCR096C		3	293538	293179	C		2011-02-03	1997-01-28	
+S000000694	ORF	Verified|silenced_gene	YCR097W	HMRA1	YCR097WB	chromosome 3	S000007657	3	293835	294321	W		2011-02-03	1997-01-28	Silenced copy of a1 at HMR; homeobox corepressor that interacts with Alpha2p to repress haploid-specific gene transcription in diploid cells
+S000030021	CDS					YCR097W		3	293835	293939	W		2011-02-03	1997-01-28	
+S000030022	CDS					YCR097W		3	293994	294239	W		2011-02-03	1997-01-28	
+S000030023	CDS					YCR097W		3	294292	294321	W		2011-02-03	1997-01-28	
+S000030024	intron					YCR097W		3	293940	293993	W		2011-02-03	1997-01-28	
+S000030025	intron					YCR097W		3	294240	294291	W		2011-02-03	1997-01-28	
+S000007632	ORF	Dubious	YCR097W-A			chromosome 3		3	294439	294705	W		2011-02-03	2000-07-12	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by homology to a hemiascomycetous yeast protein
+S000036353	CDS					YCR097W-A		3	294439	294705	W		2011-02-03	2000-07-12	
+S000028493	ARS		ARS318	ARS318	HMR-I ARS	chromosome 3		3	294820	294901			2014-11-18	2003-03-31|2014-11-18	ARS that becomes active if the nearby ARS317/HMR-E silencer is deleted; active in only a small fraction of cell cycles
+S000030213	ARS_consensus_sequence					ARS318		3	294824	294834	W		2011-02-03	2003-03-31|2009-02-19	
+S000006840	long_terminal_repeat		YCRWdelta13			chromosome 3		3	295003	295330	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006738	tRNA_gene		tT(AGU)C			chromosome 3	L000003755	3	295484	295556	W		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000032149	noncoding_exon					tT(AGU)C		3	295484	295556	W		2011-02-03	2000-05-19	
+S000006834	long_terminal_repeat		YCRCdelta14			chromosome 3		3	296190	295958	C		2011-02-03	2000-05-19|2007-04-02	Ty1 LTR
+S000000695	ORF	Verified	YCR098C	GIT1		chromosome 3	L000003211	3	298605	297049	C		2011-02-03	1997-01-28	Plasma membrane permease; mediates uptake of glycerophosphoinositol and glycerophosphocholine as sources of the nutrients inositol and phosphate; expression and transport rate are regulated by phosphate and inositol availability
+S000030063	CDS					YCR098C		3	298605	297049	C		2011-02-03	1997-01-28	
+S000000696	ORF	Uncharacterized	YCR099C			chromosome 3		3	301299	300832	C		2011-02-03	1997-01-28	Putative protein of unknown function
+S000031088	CDS					YCR099C		3	301299	300832	C		2011-02-03	1997-01-28	
+S000000697	ORF	Uncharacterized	YCR100C			chromosome 3		3	302221	301271	C		2011-02-03	1997-01-28	Putative protein of unknown function
+S000036663	CDS					YCR100C		3	302221	301271	C		2011-02-03	1997-01-28	
+S000000698	ORF	Uncharacterized	YCR101C			chromosome 3		3	303030	302482	C		2011-02-03	1997-01-28	Putative protein of unknown function; localizes to the membrane fraction; YCR101C is not an essential gene
+S000036721	CDS					YCR101C		3	303030	302482	C		2011-02-03	1997-01-28	
+S000000699	ORF	Uncharacterized	YCR102C			chromosome 3		3	305467	304361	C		2011-02-03	1997-01-28	Putative protein of unknown function; involved in copper metabolism; similar to C. carbonum toxD gene; member of the quinone oxidoreductase family
+S000036781	CDS					YCR102C		3	305467	304361	C		2011-02-03	1997-01-28	
+S000007231	ORF	Dubious	YCR102W-A			chromosome 3		3	306735	306932	W		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037829	CDS					YCR102W-A		3	306735	306932	W		2011-02-03	1999-07-17	
+S000000701	ORF	Verified	YCR104W	PAU3	seripauperin PAU3	chromosome 3	L000002739	3	307801	308175	W		2011-02-03	1997-01-28	Member of the seripauperin multigene family; encoded mainly in subtelomeric region; active during alcoholic fermentation; regulated by anaerobiosis; negatively regulated by oxygen; repressed by heme 
+S000037613	CDS					YCR104W		3	307801	308175	W		2011-02-03	1997-01-28	
+S000000702	ORF	Verified	YCR105W	ADH7	NADP-dependent alcohol dehydrogenase|ADHVII	chromosome 3		3	309070	310155	W		2011-02-03	1997-01-28	NADPH-dependent medium chain alcohol dehydrogenase; has broad substrate specificity; member of the cinnamyl family of alcohol dehydrogenases; may be involved in fusel alcohol synthesis or in aldehyde tolerance
+S000037676	CDS					YCR105W		3	309070	310155	W		2011-02-03	1997-01-28	
+S000000703	ORF	Verified	YCR106W	RDS1		chromosome 3		3	310958	313456	W		2011-02-03	1997-01-28	Putative zinc cluster transcription factor; involved in conferring resistance to cycloheximide
+S000037733	CDS					YCR106W		3	310958	313456	W		2011-02-03	1997-01-28	
+S000000704	ORF	Verified	YCR107W	AAD3	putative aryl-alcohol dehydrogenase	chromosome 3	L000004636	3	313890	314981	W		2011-02-03	2000-09-13|1997-01-28	Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role; AAD3 has a paralog, AAD15, that arose from a segmental duplication; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
+S000037782	CDS					YCR107W		3	313890	314981	W		2011-02-03	2000-09-13|1997-01-28	
+S000028944	telomere		TEL03R			chromosome 3		3	315783	316620	W	102	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome III; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
+S000028945	telomeric_repeat					TEL03R		3	316522	316620	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome III
+S000028946	X_element					TEL03R		3	315783	316239	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome III; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YCR108C
+S000028947	X_element_combinatorial_repeat					TEL03R		3	316240	316521	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr III; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000028494	ARS		ARS319	ARS319		chromosome 3		3	315807	315879			2014-11-18	2003-03-31|2014-11-18	Highly-active subtelomeric autonomously replicating sequence; initiates replication in ~90% of cell cycles
+S000030215	ARS_consensus_sequence					ARS319		3	315821	315831	W		2011-02-03	2003-03-31	
+S000028536	ORF	Uncharacterized	YCR108C			chromosome 3		3	316188	315997	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031145	CDS					YCR108C		3	316188	315997	C		2011-02-03	2003-07-29	
+S000121226	ARS		ARS400		ARSIV-1	chromosome 4		4	137	1392			2007-03-06	2007-03-06	Autonomously Replicating Sequence
+S000178059	ARS_consensus_sequence					ARS400		4	869	853	C		2014-11-18	2014-11-18	
+S000028875	telomere		TEL04L			chromosome 4		4	904	1	C	-153	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome IV; composed of an X element core sequence, X element combinatorial repeats, and a terminal stretch of telomeric repeats
+S000028876	telomeric_repeat					TEL04L		4	154	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome IV
+S000028877	X_element					TEL04L		4	904	435	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome IV; spans 469 bp and contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028878	X_element_combinatorial_repeat					TEL04L		4	434	155	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr IV; spans 279 bp and contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000002407	ORF	Verified	YDL248W	COS7		chromosome 4	L000004065	4	1802	2953	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000036145	CDS					YDL248W		4	1802	2953	W		1996-07-31	1996-07-31	
+S000007602	ORF	Dubious	YDL247W-A			chromosome 4		4	3762	3836	W		2001-02-26	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by sequence comparison with hemiascomycetous yeast species
+S000037148	CDS					YDL247W-A		4	3762	3836	W		2001-02-26	2001-02-26	
+S000002406	ORF	Verified	YDL247W	MPH2	alpha-glucoside permease	chromosome 4		4	5985	7814	W		1996-07-31	1996-07-31	Alpha-glucoside permease; transports maltose, maltotriose, alpha-methylglucoside, and turanose; almost identical to Mph3p; encoded in a subtelomeric position in a region likely to have undergone duplication
+S000035265	CDS					YDL247W		4	5985	7814	W		1996-07-31	1996-07-31	
+S000002405	ORF	Verified	YDL246C	SOR2	L-iditol 2-dehydrogenase SOR2	chromosome 4		4	9756	8683	C		1996-07-31	1996-07-31	Sorbitol dehydrogenase; protein sequence is 99% identical to the Sor1p sorbitol dehydrogenase
+S000035109	CDS					YDL246C		4	9756	8683	C		1996-07-31	1996-07-31	
+S000002404	ORF	Verified	YDL245C	HXT15	HLT2|hexose transporter HXT15	chromosome 4	L000002986	4	13360	11657	C		1996-07-31	1996-07-31	Putative transmembrane polyol transporter; supports growth on and uptake of mannitol, sorbitol and xylitol with moderate affinity when overexpressed in a strain deleted for hexose family members; minor hexose transport activity when overexpressed in a similar strain; similarity to hexose transporters; expression is induced by low levels of glucose and repressed by high levels of glucose
+S000035017	CDS					YDL245C		4	13360	11657	C		1996-07-31	1996-07-31	
+S000118427	ARS		ARS403		ARSIV-16	chromosome 4		4	15493	15739			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000178060	ARS_consensus_sequence					ARS403		4	15682	15666	C		2014-11-18	2014-11-18	
+S000002403	ORF	Verified	YDL244W	THI13	4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase	chromosome 4	S000007414	4	16204	17226	W		1996-07-31	1996-07-31	Protein involved in synthesis of the thiamine precursor HMP; member of a subtelomeric gene family including THI5, THI11, THI12, and THI13; hydroxymethylpyrimidine is also known as HMP
+S000034919	CDS					YDL244W		4	16204	17226	W		1996-07-31	1996-07-31	
+S000002402	ORF	Verified	YDL243C	AAD4	putative aryl-alcohol dehydrogenase	chromosome 4	L000004637	4	18566	17577	C		1996-07-31	1996-07-31	Putative aryl-alcohol dehydrogenase; involved in oxidative stress response; similar to P. chrysosporium aryl-alcohol dehydrogenase; expression induced in cells treated with the mycotoxin patulin; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family
+S000032895	CDS					YDL243C		4	18566	17577	C		1996-07-31	1996-07-31	
+S000002401	ORF	Dubious	YDL242W			chromosome 4		4	18959	19312	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032853	CDS					YDL242W		4	18959	19312	W		1996-07-31	1996-07-31	
+S000002400	ORF	Uncharacterized	YDL241W			chromosome 4		4	20635	21006	W		1996-07-31	1996-07-31	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; YDL241W is not an essential gene
+S000032761	CDS					YDL241W		4	20635	21006	W		1996-07-31	1996-07-31	
+S000007601	ORF	Dubious	YDL240C-A			chromosome 4		4	22608	22471	C		2001-02-26	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by sequence comparison with hemiascomycetous yeast species
+S000037147	CDS					YDL240C-A		4	22608	22471	C		2001-02-26	2001-02-26	
+S000002399	ORF	Verified	YDL240W	LRG1		chromosome 4	L000000953	4	22823	25876	W		1996-07-31	1996-07-31|2011-02-03	GTPase-activating protein (GAP); contains Rho1p-specific GAP activity, interacting with activated forms of Rho1p; functions along with Sac7p as a negative regulator of the Pkc1p-mediated cell wall integrity signaling pathway; negative regulator of cell wall 1,3-beta-glucan biosynthesis; required for efficient cell fusion; contains a RhoGAP domain and three Lin-11-Isl1-Mec-3 (LIM) domains
+S000032681	CDS					YDL240W		4	22823	25876	W		1996-07-31	1996-07-31|2011-02-03	
+S000002398	ORF	Verified	YDL239C	ADY3		chromosome 4		4	28775	26403	C		1996-07-31	1996-07-31|2011-02-03	Protein required for spore wall formation; subunit of the leading edge protein (LEP) complex (Ssp1-Ady3-Don1-Irc10) that forms a ring-like structure at the leading edge of the prospore membrane during meiosis II; mediates assembly of the LEP complex, formation of the ring-like structure via interaction with spindle pole body components and prospore membrane maturation; potentially phosphorylated by Cdc28p; ADY3 has a paralog, CNM67, that arose from the whole
+S000032048	CDS					YDL239C		4	28775	26403	C		1996-07-31	1996-07-31|2011-02-03	
+S000002397	ORF	Verified	YDL238C	GUD1	guanine deaminase	chromosome 4		4	30454	28985	C		1996-07-31	1996-07-31	Guanine deaminase; a catabolic enzyme of the guanine salvage pathway producing xanthine and ammonia from guanine; activity is low in exponentially-growing cultures but expression is increased in post-diauxic and stationary-phase cultures
+S000031892	CDS					YDL238C		4	30454	28985	C		1996-07-31	1996-07-31	
+S000002396	ORF	Verified	YDL237W	AIM6	LRC1	chromosome 4		4	30657	31829	W		1996-07-31	1996-07-31|2011-02-03	Protein of unknown function; required for respiratory growth; YDL237W is not an essential gene
+S000031783	CDS					YDL237W		4	30657	31829	W		1996-07-31	1996-07-31|2011-02-03	
+S000002395	ORF	Verified	YDL236W	PHO13	4-nitrophenylphosphatase	chromosome 4	L000001425	4	32296	33234	W		1996-07-31	1996-07-31	Conserved phosphatase acting as a metabolite repair enzyme; shows specific dephosphorylating activity on two side-products of central carbohydrate metabolism, 2-phosphoglycolate and 4-phosphoerythronate; alkaline phosphatase specific for p-nitrophenyl phosphate; also has protein phosphatase activity; human ortholog PGP shows similar substrate specificity, deletion causes similar metabolite accumulation phenotypes, suggesting conserved role in eliminating glycolytic byproducts
+S000030827	CDS					YDL236W		4	32296	33234	W		1996-07-31	1996-07-31	
+S000002394	ORF	Verified	YDL235C	YPD1		chromosome 4	L000003285	4	33918	33415	C		1996-07-31	1996-07-31	Osmotic stress-responsive phosphorelay intermediate sensor protein; phosphorylated by the plasma membrane sensor Sln1p in response to osmotic stress and then in turn phosphorylates the response regulators Ssk1p in the cytosol and Skn7p in the nucleus
+S000030691	CDS					YDL235C		4	33918	33415	C		1996-07-31	1996-07-31	
+S000002393	ORF	Verified	YDL234C	GYP7		chromosome 4	L000003067	4	36477	34237	C		2011-02-03	1996-07-31	GTPase-activating protein for yeast Rab family members; members include Ypt7p (most effective), Ypt1p, Ypt31p, and Ypt32p (in vitro); involved in vesicle mediated protein trafficking; contains a PH-like domain
+S000036775	CDS					YDL234C		4	36477	34237	C		2011-02-03	1996-07-31	
+S000002392	ORF	Uncharacterized	YDL233W	MFG1		chromosome 4		4	36797	38173	W		2011-02-03	1996-07-31	Regulator of filamentous growth; interacts with FLO11 promoter and regulates FLO11 expression; binds to transcription factors Flo8p and Mss11p; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YDL233W is not an essential gene
+S000036757	CDS					YDL233W		4	36797	38173	W		2011-02-03	1996-07-31	
+S000002391	ORF	Verified	YDL232W	OST4	olichyl-diphosphooligosaccharide--protein glycotransferase OST4	chromosome 4	L000003180	4	38487	38597	W		2011-02-03	1996-07-31	Subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes protein asparagine-linked glycosylation; type I membrane protein required for incorporation of Ost3p or Ost6p into the OST complex
+S000036662	CDS					YDL232W		4	38487	38597	W		2011-02-03	1996-07-31	
+S000002390	ORF	Verified	YDL231C	BRE4		chromosome 4		4	42244	38867	C		2011-02-03	1996-07-31	Zinc finger protein containing five transmembrane domains; null mutant exhibits strongly fragmented vacuoles and sensitivity to brefeldin A, a drug which is known to affect intracellular transport
+S000036514	CDS					YDL231C		4	42244	38867	C		2011-02-03	1996-07-31	
+S000002389	ORF	Verified	YDL230W	PTP1	tyrosine protein phosphatase PTP1	chromosome 4	L000001525	4	42700	43707	W		2011-02-03	1996-07-31	Phosphotyrosine-specific protein phosphatase; dephosphorylates a broad range of substrates in vivo, including Fpr3p; localized to the cytoplasm and the mitochondria; proposed to be a negative regulator of filamentation
+S000036498	CDS					YDL230W		4	42700	43707	W		2011-02-03	1996-07-31	
+S000002388	ORF	Verified	YDL229W	SSB1	Hsp70 family ATPase SSB1|YG101	chromosome 4	L000002073|L000002508	4	44065	45906	W	-129	2011-02-03	1996-07-31	Cytoplasmic ATPase that is a ribosome-associated molecular chaperone; functions with J-protein partner Zuo1p; may be involved in folding of newly-made polypeptide chains; member of the HSP70 family; interacts with phosphatase subunit Reg1p; SSB1 has a paralog, SSB2, that arose from the whole genome duplication
+S000035996	CDS					YDL229W		4	44065	45906	W		2011-02-03	1996-07-31	
+S000002387	ORF	Dubious	YDL228C			chromosome 4		4	45918	45277	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps the verified gene SSB1
+S000035797	CDS					YDL228C		4	45918	45277	C		2011-02-03	1996-07-31	
+S000114787	ARS		ARS404	ARS404	HO ARS	chromosome 4		4	46185	46237			2014-11-18	2014-11-18|2006-04-10	Autonomously Replicating Sequence
+S000121227	ARS_consensus_sequence					ARS404		4	46230	46214	C		2014-11-18	2014-11-18|2007-03-06	
+S000002386	ORF	Verified	YDL227C	HO		chromosome 4	L000000796	4	48031	46271	C	-130	2011-02-03	1996-07-31	Site-specific endonuclease; required for gene conversion at the MAT locus (homothallic switching) through the generation of a ds DNA break; expression restricted to mother cells in late G1 as controlled by Swi4p-Swi6p, Swi5p, and Ash1p
+S000035713	CDS					YDL227C		4	48031	46271	C		2011-02-03	1996-07-31	
+S000002385	ORF	Verified	YDL226C	GCS1		chromosome 4	L000000693	4	52173	51115	C		2011-02-03	1996-07-31	ADP-ribosylation factor GTPase activating protein (ARF GAP); involved in ER-Golgi transport; required for prospore membrane formation; regulates phospholipase Spo14p; shares functional similarity with Glo3p; GCS1 has a paralog, SPS18, that arose from the whole genome duplication
+S000035648	CDS					YDL226C		4	52173	51115	C		2011-02-03	1996-07-31	
+S000002384	ORF	Verified	YDL225W	SHS1	septin SHS1|SEP7	chromosome 4		4	52445	54100	W		2011-02-03	1996-07-31	Component of the septin ring that is required for cytokinesis; present at the ends of rod-like septin hetero-oligomers; C-terminal extension is important for recruitment of Bni5p to the mother-bud neck, which in turn is required for Myo1p recruitment and cytokinesis; undergoes sumoylation and phosphorylation during mitosis; protein abundance increases in response to DNA replication stress
+S000035638	CDS					YDL225W		4	52445	54100	W		2011-02-03	1996-07-31	
+S000002383	ORF	Verified	YDL224C	WHI4		chromosome 4	L000004493	4	56346	54397	C		2011-02-03	1996-07-31	Putative RNA binding protein; regulates the cell size requirement for passage through Start and commitment to cell division; WHI4 has a paralog, WHI3, that arose from the whole genome duplication
+S000034657	CDS					YDL224C		4	56346	54397	C		2011-02-03	1996-07-31	
+S000002382	ORF	Verified	YDL223C	HBT1		chromosome 4	S000007655	4	60405	57265	C		2011-02-03	1996-07-31	Shmoo tip protein, substrate of Hub1p ubiquitin-like protein; mutants are defective for mating projection formation, thereby implicating Hbt1p in polarized cell morphogenesis; HBT1 has a paralog, YNL195C, that arose from the whole genome duplication
+S000034598	CDS					YDL223C		4	60405	57265	C		2011-02-03	1996-07-31	
+S000002381	ORF	Verified	YDL222C	FMP45		chromosome 4		4	61801	60872	C		2011-02-03	1996-07-31	Integral membrane protein localized to mitochondria; required for sporulation and maintaining sphingolipid content; similar to SUR7; FMP45 has a paralog, YNL194C, that arose from the whole genome duplication
+S000034458	CDS					YDL222C		4	61801	60872	C		2011-02-03	1996-07-31	
+S000002380	ORF	Dubious	YDL221W			chromosome 4		4	62011	62562	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the 3' end of essential gene CDC13
+S000034428	CDS					YDL221W		4	62011	62562	W		2011-02-03	1996-07-31	
+S000002379	ORF	Verified	YDL220C	CDC13	telomere-binding protein CDC13|EST4	chromosome 4	L000000253	4	65018	62244	C	-122	2011-02-03	1996-07-31	Single stranded DNA-binding protein found at TG1-3 telomere G-tails; key roles in regulation of telomerase, telomere end protection, conventional telomere replication; regulates telomere replication through recruitment of specific sub-complexes, essential function is telomere capping; forms homodimer via N-terminus; disruption of dimerization leads to short telomeres; autophagy and proteasome are involved in Cdc13p degradation; differentially phosphorylated through cell cycle
+S000032343	CDS					YDL220C		4	65018	62244	C		2011-02-03	1996-07-31	
+S000002378	ORF	Verified	YDL219W	DTD1	D-tyrosyl-tRNA(Tyr) deacylase	chromosome 4		4	65242	65765	W		2011-02-03	1996-07-31	D-Tyr-tRNA(Tyr) deacylase; functions in protein translation, may affect nonsense suppression via alteration of the protein synthesis machinery; ubiquitous among eukaryotes
+S000032532	CDS					YDL219W		4	65242	65306	W		2011-02-03	1996-07-31	
+S000032533	CDS					YDL219W		4	65378	65765	W		2011-02-03	1996-07-31	
+S000032534	intron					YDL219W		4	65307	65377	W		2011-02-03	1996-07-31	
+S000002377	ORF	Uncharacterized	YDL218W			chromosome 4		4	66493	67446	W		2011-02-03	1996-07-31	Putative protein of unknown function; YDL218W transcription is regulated by Azf1p and induced by starvation and aerobic conditions; expression also induced in cells treated with the mycotoxin patulin
+S000031549	CDS					YDL218W		4	66493	67446	W		2011-02-03	1996-07-31	
+S000002376	ORF	Verified	YDL217C	TIM22	translocation channel protein TIM22	chromosome 4	L000004157	4	68606	67983	C		2011-02-03	1996-07-31	Essential core component of the mitochondrial TIM22 complex; involved in insertion of polytopic proteins into the inner membrane; forms the channel through which proteins are imported
+S000031465	CDS					YDL217C		4	68606	67983	C		2011-02-03	1996-07-31	
+S000002375	ORF	Verified	YDL216C	RRI1	COP9 signalosome catalytic subunit RRI1|JAB1|CSN5	chromosome 4	S000007574	4	70319	68997	C		2011-02-03	1996-07-31|2006-04-13	Catalytic subunit of the COP9 signalosome (CSN) complex; acts as an isopeptidase in cleaving the ubiquitin-like protein Nedd8 from SCF ubiquitin ligases; metalloendopeptidase involved in the adaptation to pheromone signaling; involved in modulation of genes controlling amino acid and lipid metabolism, and ergosterol biosynthesis
+S000031346	CDS					YDL216C		4	70319	68997	C		2011-02-03	1996-07-31|2006-04-13	
+S000002374	ORF	Verified	YDL215C	GDH2	glutamate dehydrogenase (NAD(+))|GDHB|GDH-B	chromosome 4	L000000697	4	73918	70640	C		2011-02-03	1996-07-31	NAD(+)-dependent glutamate dehydrogenase; degrades glutamate to ammonia and alpha-ketoglutarate; expression sensitive to nitrogen catabolite repression and intracellular ammonia levels; genetically interacts with GDH3 by suppressing stress-induced apoptosis
+S000031302	CDS					YDL215C		4	73918	70640	C		2011-02-03	1996-07-31	
+S000002373	ORF	Verified	YDL214C	PRR2	serine/threonine protein kinase PRR2	chromosome 4		4	76545	74446	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; inhibits pheromone induced signalling downstream of MAPK, possibly at the level of the Ste12p transcription factor; mutant has increased aneuploidy tolerance; PRR2 has a paralog, NPR1, that arose from the whole genome duplication
+S000030339	CDS					YDL214C		4	76545	74446	C		2011-02-03	1996-07-31	
+S000002372	ORF	Verified	YDL213C	NOP6		chromosome 4		4	77966	77289	C		2011-02-03	1996-07-31	rRNA-binding protein required for 40S ribosomal subunit biogenesis; contains an RNA recognition motif (RRM); hydrophilin essential to overcome the stress of the desiccation-rehydration process; NOP6 may be a fungal-specific gene as no homologs have been yet identified in higher eukaryotes
+S000030227	CDS					YDL213C		4	77966	77289	C		2011-02-03	1996-07-31	
+S000002371	ORF	Verified	YDL212W	SHR3	APF1	chromosome 4	L000001885	4	78426	79058	W		2011-02-03	1996-07-31	Endoplasmic reticulum packaging chaperone; required for incorporation of amino acid permeases into COPII coated vesicles for transport to the cell surface
+S000030170	CDS					YDL212W		4	78426	79058	W		2011-02-03	1996-07-31	
+S000002370	ORF	Uncharacterized	YDL211C			chromosome 4		4	80412	79294	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; YDL211C has a paralog, TDA7, that arose from the whole genome duplication
+S000036399	CDS					YDL211C		4	80412	79294	C		2011-02-03	1996-07-31	
+S000006576	tRNA_gene		tG(GCC)D1			chromosome 4	L000003761	4	83548	83618	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000031690	noncoding_exon					tG(GCC)D1		4	83548	83618	W		2011-02-03	2000-05-19	
+S000002369	ORF	Verified	YDL210W	UGA4		chromosome 4	L000002424	4	84270	85985	W		2011-02-03	1996-07-31	GABA (gamma-aminobutyrate) permease; serves as a GABA transport protein involved in the utilization of GABA as a nitrogen source; catalyzes the transport of putrescine and delta-aminolevulinic acid (ALA); localized to the vacuolar membrane
+S000036357	CDS					YDL210W		4	84270	85985	W		2011-02-03	1996-07-31	
+S000118428	ARS		ARS405		ARSIV-86	chromosome 4		4	85945	86176			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178061	ARS_consensus_sequence					ARS405		4	86125	86109	C		2014-11-18	2014-11-18	
+S000002368	ORF	Verified	YDL209C	CWC2	NTC40	chromosome 4		4	87226	86207	C		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; binds directly to U6 snRNA; similar to S. pombe Cwf2
+S000036574	CDS					YDL209C		4	87226	86207	C		2011-02-03	1996-07-31	
+S000002367	ORF	Verified	YDL208W	NHP2	snoRNA-binding protein NHP2	chromosome 4	L000001243	4	87512	87982	W		2011-02-03	1996-07-31|2005-11-22	Protein related to mammalian high mobility group (HMG) proteins; nuclear protein; essential for function of H/ACA-type snoRNPs, which are involved in 18S rRNA processing
+S000036516	CDS					YDL208W		4	87512	87982	W		2011-02-03	1996-07-31|2005-11-22	
+S000002366	ORF	Verified	YDL207W	GLE1	nucleoporin GLE1|NLE2|BRR3|RSS1	chromosome 4	L000003399|L000001255|S000029324	4	88248	89864	W		2011-02-03	1996-07-31	Cytoplasmic nucleoporin required for polyadenylated mRNA export; contains a nuclear export signal; when bound to inositol hexakisphosphate (IP6), functions as an activator for the Dbp5p ATPase activity at the nuclear pore complex during mRNA export; mediates translation initiation; required for efficient translation termination
+S000036457	CDS					YDL207W		4	88248	89864	W		2011-02-03	1996-07-31	
+S000002365	ORF	Uncharacterized	YDL206W			chromosome 4		4	90176	92464	W		2011-02-03	1996-07-31	Putative protein of unknown function; YDL206W is not an essential protein
+S000035556	CDS					YDL206W		4	90176	92464	W		2011-02-03	1996-07-31	
+S000002364	ORF	Verified	YDL205C	HEM3	hydroxymethylbilane synthase|OLE2	chromosome 4	L000000762	4	93745	92762	C		2011-02-03	1996-07-31	Porphobilinogen deaminase; catalyzes the conversion of 4-porphobilinogen to hydroxymethylbilane, the third step in heme biosynthesis; localizes to the cytoplasm and nucleus; expression is regulated by Hap2p-Hap3p, but not by levels of heme; human homolog HMBS can complement yeast mutant and allow growth of haploid null after sporulation of a heterozygous diploid
+S000035448	CDS					YDL205C		4	93745	92762	C		2011-02-03	1996-07-31	
+S000002363	ORF	Verified	YDL204W	RTN2		chromosome 4		4	94605	95786	W		2011-02-03	1996-07-31	Reticulon protein; involved in nuclear pore assembly and maintenance of tubular ER morphology; promotes membrane curvature; regulates the ER asymmetry-induced inheritance block during ER stress; role in ER-derived peroxisomal biogenesis; interacts with Sec6p, Yip3p, and Sbh1p; less abundant than RTN1; member of RTNLA (reticulon-like A) subfamily; protein increases in abundance and relocalizes to plasma membrane upon DNA replication stress
+S000035441	CDS					YDL204W		4	94605	95786	W		2011-02-03	1996-07-31	
+S000002362	ORF	Verified	YDL203C	ACK1		chromosome 4		4	97953	96082	C		2011-02-03	1996-07-31	Protein that functions in the cell wall integrity pathway; functions upstream of Pkc1p; GFP-fusion protein expression is induced in response to the DNA-damaging agent MMS; non-tagged Ack1p is detected in purified mitochondria
+S000035331	CDS					YDL203C		4	97953	96082	C		2011-02-03	1996-07-31	
+S000002361	ORF	Verified	YDL202W	MRPL11	mitochondrial 54S ribosomal protein YmL11|YmL11	chromosome 4	L000002686	4	98475	99224	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; localizes to vacuole in response to H2O2
+S000035301	CDS					YDL202W		4	98475	99224	W		2011-02-03	1996-07-31	
+S000002360	ORF	Verified	YDL201W	TRM8	tRNA (guanine46-N7)-methyltransferase	chromosome 4		4	99561	100421	W		2011-02-03	1996-07-31	Noncatalytic subunit of a tRNA methyltransferase complex; Trm8p and Trm82p comprise an enzyme that catalyzes a methyl-transfer from S-adenosyl-l-methionine to the N(7) atom of guanine at position 46 in tRNA; Trm8 lacks catalytic activity if not bound to Trm82p
+S000034332	CDS					YDL201W		4	99561	100421	W		2011-02-03	1996-07-31	
+S000002359	ORF	Verified	YDL200C	MGT1	methylated-DNA--protein-cysteine methyltransferase|MGMT	chromosome 4	L000001106	4	101067	100501	C		2011-02-03	1996-07-31|2006-04-13	DNA repair methyltransferase (6-O-methylguanine-DNA methylase); involved in protection against DNA alkylation damage
+S000034219	CDS					YDL200C		4	101067	100501	C		2011-02-03	1996-07-31|2006-04-13	
+S000002358	ORF	Uncharacterized	YDL199C			chromosome 4		4	103353	101290	C		2011-02-03	1996-07-31	Putative transporter; member of the sugar porter family
+S000035760	CDS					YDL199C		4	103353	101290	C		2011-02-03	1996-07-31	
+S000002357	ORF	Verified	YDL198C	GGC1	SHM1|YHM1	chromosome 4	L000001881	4	104551	103649	C		2011-02-03	1996-07-31	Mitochondrial GTP/GDP transporter; essential for mitochondrial genome maintenance; has a role in mitochondrial iron transport; member of the mitochondrial carrier family
+S000035649	CDS					YDL198C		4	104551	103649	C		2011-02-03	1996-07-31	
+S000002356	ORF	Verified	YDL197C	ASF2		chromosome 4	L000000127	4	106494	104917	C	-109.03	2011-02-03	1996-07-31	Anti-silencing protein; causes derepression of silent loci when overexpressed
+S000034644	CDS					YDL197C		4	106494	104917	C		2011-02-03	1996-07-31	
+S000002355	ORF	Dubious	YDL196W			chromosome 4		4	106741	107070	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame is located in promoter region of essential gene SEC31
+S000034607	CDS					YDL196W		4	106741	107070	W		2011-02-03	1996-07-31	
+S000002354	ORF	Verified	YDL195W	SEC31	WEB1	chromosome 4	L000002484	4	107208	111029	W		2011-02-03	1996-07-31|2011-02-03	Component of the Sec13p-Sec31p complex of the COPII vesicle coat; COPII coat is required for vesicle formation in ER to Golgi transport; mutant has increased aneuploidy tolerance
+S000034506	CDS					YDL195W		4	107208	111029	W		2011-02-03	1996-07-31|2011-02-03	
+S000002353	ORF	Verified	YDL194W	SNF3	glucose sensor	chromosome 4	L000001946	4	111580	114234	W	-104	2011-02-03	1996-07-31	Plasma membrane low glucose sensor, regulates glucose transport; high affinity sensor that contains 12 predicted transmembrane segments and a long C-terminal tail required for induction of hexose transporters; also senses fructose and mannose; SNF3 has a paralog, RGT2, that arose from the whole genome duplication
+S000033579	CDS					YDL194W		4	111580	114234	W		2011-02-03	1996-07-31	
+S000002352	ORF	Verified	YDL193W	NUS1	ditrans,polycis-polyprenyl diphosphate synthase	chromosome 4		4	114672	115799	W		2011-02-03	1996-07-31	Forms dehydrodolichyl diphosphate syntase complex with RER2 or SRT1; tet-repressible mutant shows accumulation of hypoglycosylated forms of CPY, suggesting that Nus1p may be involved in protein trafficking; mutations in human homolog NUS1 have been implicated in congenital scoliosis, neurological impairment, refractory epilepsy, hearing deficit, and visual impairment; human cis-prenyltransferase complex complements yeast null mutant
+S000033540	CDS					YDL193W		4	114672	115799	W		2011-02-03	1996-07-31	
+S000002351	ORF	Verified	YDL192W	ARF1	Arf family GTPase ARF1	chromosome 4	L000000104	4	116321	116866	W	-91	2011-02-03	1996-07-31	ADP-ribosylation factor; GTPase of the Ras superfamily involved in regulation of coated vesicle formation in intracellular trafficking within the Golgi; ARF1 has a paralog, ARF2, that arose from the whole genome duplication; arf1 arf2 double null mutation is complemented by human ARF1, ARF4, ARF5, or ARF6
+S000033475	CDS					YDL192W		4	116321	116866	W		2011-02-03	1996-07-31	
+S000002350	ORF	Verified	YDL191W	RPL35A	uL29|ribosomal 60S subunit protein L35A|L35A|L29|SOS1	chromosome 4	L000001985	4	117664	118517	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L35A; homologous to mammalian ribosomal protein L35 and bacterial L29; RPL35A has a paralog, RPL35B, that arose from the whole genome duplication
+S000033395	CDS					YDL191W		4	117664	117666	W		2011-02-03	1996-07-31	
+S000033396	CDS					YDL191W		4	118158	118517	W		2011-02-03	1996-07-31	
+S000033397	intron					YDL191W		4	117667	118157	W		2011-02-03	1996-07-31	
+S000002349	ORF	Verified	YDL190C	UFD2	ubiquitin-ubiquitin ligase UFD2	chromosome 4	L000002788	4	121592	118707	C		2011-02-03	1996-07-31|2011-02-03	Ubiquitin chain assembly factor (E4); cooperates with a ubiquitin-activating enzyme (E1), a ubiquitin-conjugating enzyme (E2), and a ubiquitin protein ligase (E3) to conjugate ubiquitin to substrates; also functions as an E3
+S000032665	CDS					YDL190C		4	121592	118707	C		2011-02-03	1996-07-31|2011-02-03	
+S000002348	ORF	Verified	YDL189W	RBS1		chromosome 4		4	122216	123589	W		2011-02-03	2000-07-22|1996-07-31	Protein involved in assembly of the RNA polymerase III (Pol III) complex; high copy suppressor of Pol III assembly mutation and psk1 psk2 mutations that confer temperature-sensitivity for galactose utilization; physically interacts with Pol III; proposed to bind single-stranded nucleic acids via its R3H domain
+S000033663	CDS					YDL189W		4	122216	123589	W		2011-02-03	2000-07-22|1996-07-31	
+S000122396	five_prime_UTR_intron					YDL189W		4	122078	122176	W		2011-02-03	2007-04-27	
+S000118429	ARS		ARS406		ARSIV-124	chromosome 4		4	123617	123901			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178062	ARS_consensus_sequence					ARS406		4	123795	123779	C		2014-11-18	2014-11-18	
+S000002347	ORF	Verified	YDL188C	PPH22	phosphoprotein phosphatase 2A catalytic subunit PPH22|PPH2	chromosome 4	L000001473	4	124998	123865	C	-102	2011-02-03	1996-07-31	Catalytic subunit of protein phosphatase 2A (PP2A); functionally redundant with Pph21p; methylated at C terminus; forms alternate complexes with several regulatory subunits; involved in signal transduction and regulation of mitosis; protein abundance increases in response to DNA replication stress; dephosphorylates Tel1p/Mec1p-phosphorylated Cdc13p to promote telomerase release from telomeres at G2/M; PPH22 has a paralog, PPH21, that arose from the whole genome duplication
+S000030301	CDS					YDL188C		4	124998	123865	C		2011-02-03	1996-07-31	
+S000002345	ORF	Uncharacterized	YDL186W			chromosome 4		4	125616	126449	W		2011-02-03	1996-07-31	Putative protein of unknown function; YDL186W is not an essential gene
+S000030062	CDS					YDL186W		4	125616	126449	W		2011-02-03	1996-07-31	
+S000002346	ORF	Dubious	YDL187C			chromosome 4		4	125838	125509	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030099	CDS					YDL187C		4	125838	125509	C		2011-02-03	1996-07-31	
+S000002344	ORF	Verified	YDL185W	VMA1	H(+)-transporting V1 sector ATPase subunit A|TFP1|CLS8	chromosome 4	L000002289	4	126787	130002	W	-101.43	2011-02-03	1996-07-31	Subunit A of the V1 peripheral membrane domain of V-ATPase; protein precursor undergoes self-catalyzed splicing to yield the extein Tfp1p and the intein Vde (PI-SceI), which is a site-specific endonuclease; the V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase) has eight subunits; involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner
+S000029978	CDS					YDL185W		4	126787	130002	W		2011-02-03	1996-07-31	
+S000029636	intein_encoding_region					YDL185W	S000007537	4	127636	129000	W		2014-11-18	2014-11-18	Vma1p derived endonuclease; a 50 kDa intein derived from the self-splicing of amino acid residues 284-738 of the VMA1 primary translation product; has endonuclease activity and cleaves at the VMA1 gene to stimulate gene conversion during meiosis
+S000007600	ORF	Dubious	YDL185C-A			chromosome 4		4	126835	126608	C		2011-02-03	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YDL185W; identified by homology with hemiascomycetous yeast species
+S000037146	CDS					YDL185C-A		4	126835	126608	C		2011-02-03	2001-02-26	
+S000002343	ORF	Verified	YDL184C	RPL41A	eL41|ribosomal 60S subunit protein L41A|L41e|YL41|L47A|L41A|RPL47A	chromosome 4	L000001738	4	130484	130407	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L41A; comprises only 25 amino acids; rpl41a rpl41b double null mutant is viable; homologous to mammalian ribosomal protein L41, no bacterial homolog; RPL41A has a paralog, RPL41B, that arose from the whole genome duplication
+S000037317	CDS					YDL184C		4	130484	130407	C		2011-02-03	1996-07-31	
+S000002342	ORF	Verified	YDL183C		MKR1	chromosome 4		4	131833	130871	C		2011-02-03	1996-07-31	Protein that may form an active mitochondrial KHE system; mitochondrial inner-membrane protein; non-essential gene; KHE system stands for K+/H+ exchanger system
+S000037236	CDS					YDL183C		4	131833	130871	C		2011-02-03	1996-07-31	
+S000002341	ORF	Verified	YDL182W	LYS20	homocitrate synthase LYS20	chromosome 4	L000004103	4	133437	134723	W		2011-02-03	1996-07-31	Homocitrate synthase isozyme and functions in DNA repair; catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, which is the first step in the lysine biosynthesis pathway; LYS20 has a paralog, LYS21, that arose from the whole genome duplication
+S000037198	CDS					YDL182W		4	133437	134723	W		2011-02-03	1996-07-31	
+S000002340	ORF	Verified	YDL181W	INH1	ATPase inhibitor	chromosome 4	L000000866	4	135179	135436	W		2011-02-03	1996-07-31	Protein that inhibits ATP hydrolysis by the F1F0-ATP synthase; inhibitory function is enhanced by stabilizing proteins Stf1p and Stf2p; has a calmodulin-binding motif and binds calmodulin in vitro; INH1 has a paralog, STF1, that arose from the whole genome duplication
+S000037121	CDS					YDL181W		4	135179	135436	W		2011-02-03	1996-07-31	
+S000002339	ORF	Uncharacterized	YDL180W			chromosome 4		4	135896	137539	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole
+S000036445	CDS					YDL180W		4	135896	137539	W		2011-02-03	1996-07-31	
+S000002338	ORF	Verified	YDL179W	PCL9		chromosome 4	L000004041	4	138291	139205	W		2011-02-03	1996-07-31	Cyclin; forms a functional kinase complex with Pho85p cyclin-dependent kinase (Cdk), expressed in late M/early G1 phase, activated by Swi5p; PCL9 has a paralog, PCL2, that arose from the whole genome duplication
+S000032032	CDS					YDL179W		4	138291	139205	W		2011-02-03	1996-07-31	
+S000002337	ORF	Verified	YDL178W	DLD2	D-lactate dehydrogenase|AIP2	chromosome 4	L000000070	4	139522	141114	W		2011-02-03	1996-07-31	D-2-hydroxyglutarate dehydrogenase, and minor D-lactate dehydrogenase; mitochondrial matrix protein that oxidizes D-2-hydroxyglutarate (D-2HG), an oncometabolite, to alpha-ketoglutarate with a minor role in lactate catabolism; located in the mitochondrial matrix
+S000031886	CDS					YDL178W		4	139522	141114	W		2011-02-03	1996-07-31	
+S000002336	ORF	Uncharacterized	YDL177C			chromosome 4		4	141721	141209	C		2011-02-03	1996-07-31	Putative protein of unknown function; similar to the mouse IMPACT gene; YDL177C is not an essential gene
+S000031688	CDS					YDL177C		4	141721	141209	C		2011-02-03	1996-07-31	
+S000002335	ORF	Verified	YDL176W			chromosome 4		4	142097	144223	W		2011-02-03	1996-07-31	Protein of unknown function; predicted by computational methods to be involved in fructose-1,6-bisphosphatase (Fbp1p) degradation; interacts with components of the GID complex; YDL176W is not an essential gene
+S000036245	CDS					YDL176W		4	142097	144223	W		2011-02-03	1996-07-31	
+S000002334	ORF	Verified	YDL175C	AIR2	TRAMP complex RNA-binding subunit	chromosome 4		4	145518	144484	C		2011-02-03	1996-07-31	RNA-binding subunit of the TRAMP nuclear RNA surveillance complex; involved in nuclear RNA processing and degradation; involved in TRAMP complex assembly as a bridge between Mtr4p and Trf4p; stimulates the poly(A) polymerase activity of Pap2p in vitro; has 5 zinc knuckle motifs; AIR2 has a paralog, AIR1, that arose from the whole genome duplication; Air2p and Air1p have nonredundant roles in regulation of substrate specificity of the exosome
+S000036095	CDS					YDL175C		4	145518	144484	C		2011-02-03	1996-07-31	
+S000002333	ORF	Verified	YDL174C	DLD1	D-lactate dehydrogenase	chromosome 4	L000000508	4	147589	145826	C		2011-02-03	1996-07-31	Major mitochondrial D-lactate dehydrogenase; oxidizes D-lactate to pyruvate, transcription is heme-dependent, repressed by glucose, and derepressed in ethanol or lactate; located in the mitochondrial inner membrane
+S000035215	CDS					YDL174C		4	147589	145826	C		2011-02-03	1996-07-31	
+S000002332	ORF	Verified	YDL173W	PAR32		chromosome 4		4	148191	149078	W		2011-02-03	1996-07-31	Protein of unknown function; hyperphosphorylated upon rapamycin treatment in a Tap42p-dependent manner; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; PAR32 is not an essential gene
+S000035172	CDS					YDL173W		4	148191	149078	W		2011-02-03	1996-07-31	
+S000002331	ORF	Dubious	YDL172C			chromosome 4		4	149086	148607	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035016	CDS					YDL172C		4	149086	148607	C		2011-02-03	1996-07-31	
+S000002330	ORF	Verified	YDL171C	GLT1	glutamate synthase (NADH)	chromosome 4	L000003333	4	155640	149203	C		2011-02-03	1996-07-31	NAD(+)-dependent glutamate synthase (GOGAT); synthesizes glutamate from glutamine and alpha-ketoglutarate; with Gln1p, forms the secondary pathway for glutamate biosynthesis from ammonia; expression regulated by nitrogen source; assembles into filaments as cells approach stationary phase and under cytosolic acidification and starvation conditions
+S000034863	CDS					YDL171C		4	155640	149203	C		2011-02-03	1996-07-31	
+S000002329	ORF	Verified	YDL170W	UGA3		chromosome 4	L000002423	4	156318	157904	W		2011-02-03	1996-07-31	Transcriptional activator for GABA-dependent induction of GABA genes; binds to DNA elements found in the promoters of target genes and increases their expression in the presence of GABA (gamma-aminobutyrate); zinc finger transcription factor of the Zn(2)-Cys(6) binuclear cluster domain type; localized to the nucleus; examples of GABA genes include UGA1, UGA2, and UGA4
+S000034829	CDS					YDL170W		4	156318	157904	W		2011-02-03	1996-07-31	
+S000002328	ORF	Verified	YDL169C	UGX2		chromosome 4	L000002851	4	158735	158064	C		2011-02-03	1996-07-31	Protein of unknown function; transcript accumulates in response to any combination of stress conditions
+S000033142	CDS					YDL169C		4	158735	158064	C		2011-02-03	1996-07-31	
+S000002327	ORF	Verified	YDL168W	SFA1	bifunctional alcohol dehydrogenase/S-(hydroxymethyl)glutathione dehydrogenase|ADH5	chromosome 4	L000001868	4	159604	160764	W		2011-02-03	1996-07-31	Bifunctional alcohol dehydrogenase and formaldehyde dehydrogenase; formaldehyde dehydrogenase activity is glutathione-dependent; functions in formaldehyde detoxification and formation of long chain and complex alcohols, regulated by Hog1p-Sko1p; protein abundance increases in response to DNA replication stress
+S000033096	CDS					YDL168W		4	159604	160764	W		2011-02-03	1996-07-31	
+S000002326	ORF	Verified	YDL167C	NRP1		chromosome 4	L000000121	4	163154	160995	C		2011-02-03	1996-07-31	Putative RNA binding protein of unknown function; localizes to stress granules induced by glucose deprivation; predicted to be involved in ribosome biogenesis
+S000032963	CDS					YDL167C		4	163154	160995	C		2011-02-03	1996-07-31	
+S000002325	ORF	Verified	YDL166C	FAP7	nucleoside-triphosphatase	chromosome 4		4	164042	163449	C		2011-02-03	1996-07-31	Essential NTPase required for small ribosome subunit synthesis; mediates processing of the 20S pre-rRNA at site D in the cytoplasm but associates only transiently with 43S preribosomes via Rps14p; complex with Rps14 is conserved between humans, yeast, and arches; may be the endonuclease for site D; depletion leads to accumulation of pre-40S ribosomes in 80S-like ribosomes; human TAF9 functionally complements the lethality of the null mutation
+S000032043	CDS					YDL166C		4	164042	163449	C		2011-02-03	1996-07-31	
+S000002324	ORF	Verified	YDL165W	CDC36	CCR4-NOT core subunit CDC36|NOT2|DNA19	chromosome 4	L000000272	4	164290	164865	W	-80	2011-02-03	1996-07-31	Component of the CCR4-NOT core complex, involved in mRNA decapping; this complex has multiple roles in regulating mRNA levels including regulation of transcription and destabilizing mRNAs through deadenylation; basal transcription factor
+S000031977	CDS					YDL165W		4	164290	164865	W		2011-02-03	1996-07-31	
+S000002322	ORF	Dubious	YDL163W			chromosome 4		4	166956	167258	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CDC9/YDL164C encoding DNA ligase
+S000030824	CDS					YDL163W		4	166956	167258	W		2011-02-03	1996-07-31	
+S000002323	ORF	Verified	YDL164C	CDC9	DNA ligase (ATP) CDC9|MMS8	chromosome 4	L000000249	4	167254	164987	C	-78	2011-02-03	1996-07-31	DNA ligase I found in nucleus and mitochondria; essential enzyme that joins Okazaki fragments during DNA replication; also acts in ribonucleotide excision repair, base excision repair, and recombination; DNA ligase I mutants trigger ubiquitination of PCNA at K107, facilitating Rad59p-mediated bypass of unligated Okazaki fragments; human homolog LIG1 can complement yeast cdc9 temperature-sensitive mutant at restrictive temperature
+S000030891	CDS					YDL164C		4	167254	164987	C		2011-02-03	1996-07-31	
+S000002320	ORF	Verified	YDL161W	ENT1	epsin	chromosome 4		4	167714	169078	W		2011-02-03	1996-07-31	Epsin-like protein involved in endocytosis and actin patch assembly; functionally redundant with Ent2p; binds clathrin via a clathrin-binding domain motif at C-terminus; relocalizes from bud neck to cytoplasm upon DNA replication stress; ENT1 has a paralog, ENT2, that arose from the whole genome duplication
+S000030611	CDS					YDL161W		4	167714	169078	W		2011-02-03	1996-07-31	
+S000002321	ORF	Dubious	YDL162C			chromosome 4		4	167715	167359	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ENT1/YDL161W, a verified gene involved in endocytosis and actin cortical patch assembly
+S000030690	CDS					YDL162C		4	167715	167359	C		2011-02-03	1996-07-31	
+S000028520	ORF	Verified	YDL160C-A	MHF2		chromosome 4		4	169608	169366	C		2011-02-03	2003-07-29	Component of the heterotetrameric MHF histone-fold complex; in humans the MHF complex interacts with both DNA and Mph1p ortholog FANCM to stabilize and remodel blocked replication forks and repair damaged DNA; mhf2 srs2 double mutants are MMS hypersensitive; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-X, also known as MHF2
+S000030315	CDS					YDL160C-A		4	169608	169366	C		2011-02-03	2003-07-29	
+S000002319	ORF	Verified	YDL160C	DHH1	DExD/H-box ATP-dependent RNA helicase DHH1	chromosome 4	L000000504	4	171930	170410	C		2011-02-03	1996-07-31	Cytoplasmic DEAD-box helicase, stimulates mRNA decapping; coordinates distinct steps in mRNA function and decay, interacting with both decapping and deadenylase complexes; role in translational repression, mRNA decay, and possibly mRNA export; interacts and cooperates with Ngr1p to promote specific mRNA decay; ATP- and RNA-bound form promotes processing body (PB) assembly, while ATPase stimulation by Not1p promotes PB disassembly; forms cytoplasmic foci on replication stress
+S000036698	CDS					YDL160C		4	171930	170410	C		2011-02-03	1996-07-31	
+S000007599	ORF	Uncharacterized	YDL159W-A		YDL159W-B	chromosome 4		4	172182	172313	W		2011-02-03	2001-02-26	Putative protein of unknown function; identified by sequence comparison with hemiascomycetous yeast species
+S000037145	CDS					YDL159W-A		4	172182	172313	W		2011-02-03	2001-02-26	
+S000002318	ORF	Verified	YDL159W	STE7	mitogen-activated protein kinase kinase STE7	chromosome 4	L000002117	4	172481	174028	W	-76	2011-02-03	1996-07-31	Signal transducing MAP kinase kinase; involved in pheromone response where it phosphorylates Fus3p; involved in the pseudohyphal/invasive growth pathway where it phosphorylates of Kss1p; phosphorylated by Ste11p; degraded by ubiquitin pathway
+S000036970	CDS					YDL159W		4	172481	174028	W		2011-02-03	1996-07-31	
+S000028612	ORF	Dubious	YDL159C-B		YDL159C-A	chromosome 4		4	173232	173056	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031444	CDS					YDL159C-B		4	173232	173056	C		2011-02-03	2003-07-29	
+S000002317	ORF	Dubious	YDL158C			chromosome 4		4	174174	173866	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036885	CDS					YDL158C		4	174174	173866	C		2011-02-03	1996-07-31	
+S000002316	ORF	Uncharacterized	YDL157C			chromosome 4		4	174588	174232	C		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000036806	CDS					YDL157C		4	174588	174232	C		2011-02-03	1996-07-31	
+S000002315	ORF	Verified	YDL156W	CMR1		chromosome 4		4	174918	176486	W		2011-02-03	1996-07-31	Nuclear protein with a role in protein quality control; localizes to the intranuclear quality control compartment (INQ) in response to proteasome inhibition or DNA replication stress; INQ likely sequesters proteins involved in DNA metabolism for degradation or re-folding; DNA-binding protein with preference for UV-damaged DNA; contains three WD domains (WD-40 repeat); human ortholog WDR76 also exhibits perinuclear localization under similar stress conditions
+S000035992	CDS					YDL156W		4	174918	176486	W		2011-02-03	1996-07-31	
+S000002314	ORF	Verified	YDL155W	CLB3	B-type cyclin CLB3	chromosome 4	L000000351	4	176773	178056	W		2011-02-03	1996-07-31	B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the G2/M transition; may be involved in DNA replication and spindle assembly; accumulates during S phase and G2, then targeted for ubiquitin-mediated degradation; relative distribution to the nucleus increases upon DNA replication stress; CLB3 has a paralog, CLB4, that arose from the whole genome duplication
+S000035864	CDS					YDL155W		4	176773	178056	W		2011-02-03	1996-07-31	
+S000002313	ORF	Verified	YDL154W	MSH5	MutS family protein MSH5	chromosome 4	L000002573	4	178334	181039	W		2011-02-03	1996-07-31	Protein of the MutS family; forms a dimer with Msh4p that facilitates crossovers between homologs during meiosis; msh5-Y823H mutation confers tolerance to DNA alkylating agents; homologs present in C. elegans and humans
+S000035754	CDS					YDL154W		4	178334	181039	W		2011-02-03	1996-07-31	
+S000002311	ORF	Dubious	YDL152W			chromosome 4		4	182822	183187	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SAS10/YDL153C, a component of the small ribosomal subunit processosome
+S000034761	CDS					YDL152W		4	182822	183187	W		2011-02-03	1996-07-31	
+S000002312	ORF	Verified	YDL153C	SAS10	rRNA-processing protein SAS10|UTP3	chromosome 4	L000003317	4	183018	181186	C		2011-02-03	1996-07-31	Subunit of U3-containing Small Subunit (SSU) processome complex; involved in production of 18S rRNA and assembly of small ribosomal subunit; disrupts silencing when overproduced; mutant has increased aneuploidy tolerance; essential gene
+S000035646	CDS					YDL153C		4	183018	181186	C		2011-02-03	1996-07-31	
+S000002309	ORF	Verified	YDL150W	RPC53	DNA-directed RNA polymerase III subunit C53|C53|RPC4	chromosome 4	L000001691	4	183343	184611	W	-70	2011-02-03	1996-07-31	RNA polymerase III subunit C53
+S000034634	CDS					YDL150W		4	183343	184611	W		2011-02-03	1996-07-31	
+S000002310	ORF	Dubious	YDL151C	BUD30		chromosome 4	S000007648	4	183899	183318	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 96% of ORF overlaps the verified gene RPC53; diploid mutant displays a weak budding pattern phenotype in a systematic assay
+S000034639	CDS					YDL151C		4	183899	183318	C		2011-02-03	1996-07-31	
+S000002308	ORF	Verified	YDL149W	ATG9	autophagy protein ATG9|CVT6|APG9|CVT7|AUT9	chromosome 4	L000004759|L000004753|L000004758|S000029131	4	184925	187918	W		2011-02-03	1996-07-31	Transmembrane protein involved in forming Cvt and autophagic vesicles; cycles between the phagophore assembly site (PAS) and other cytosolic punctate structures, not found in autophagosomes; may be involved in membrane delivery to the PAS
+S000032870	CDS					YDL149W		4	184925	187918	W		2011-02-03	1996-07-31	
+S000002307	ORF	Verified	YDL148C	NOP14	snoRNA-binding rRNA-processing protein NOP14|UTP2	chromosome 4		4	190586	188154	C		2011-02-03	1996-07-31	Nucleolar protein; forms a complex with Noc4p that mediates maturation and nuclear export of 40S ribosomal subunits; also present in the small subunit processome complex, which is required for processing of pre-18S rRNA
+S000032714	CDS					YDL148C		4	190586	188154	C		2011-02-03	1996-07-31	
+S000002306	ORF	Verified	YDL147W	RPN5	proteasome regulatory particle lid subunit RPN5|NAS5	chromosome 4	L000004451|L000004305	4	190924	192261	W		2011-02-03	1996-07-31	Subunit of the CSN and 26S proteasome lid complexes; similar to mammalian p55 subunit and to another S. cerevisiae regulatory subunit, Rpn7p; Rpn5p is an essential protein; the COP9 signalosome is also known as the CSN
+S000032657	CDS					YDL147W		4	190924	192261	W		2011-02-03	1996-07-31	
+S000002305	ORF	Verified	YDL146W	LDB17		chromosome 4		4	192750	194225	W		2011-02-03	1996-07-31	Protein involved in the regulation of endocytosis; transiently recruited to actin cortical patches in a SLA1-dependent manner after late coat component assembly; GFP-fusion protein localizes to the periphery, cytoplasm, bud, and bud neck
+S000032526	CDS					YDL146W		4	192750	194225	W		2011-02-03	1996-07-31	
+S000002304	ORF	Verified	YDL145C	COP1	coatomer subunit alpha|SOO1|RET1|SEC33	chromosome 4	L000002603	4	198176	194571	C		2011-02-03	1996-07-31	Alpha subunit of COPI vesicle coatomer complex; complex surrounds transport vesicles in the early secretory pathway
+S000031516	CDS					YDL145C		4	198176	194571	C		2011-02-03	1996-07-31	
+S000002303	ORF	Verified	YDL144C			chromosome 4		4	199732	198662	C		2011-02-03	2003-09-22|1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YDL144C is not an essential gene; protein abundance increases in response to DNA replication stress
+S000031463	CDS					YDL144C		4	199732	198662	C		2011-02-03	2003-09-22|1996-07-31	
+S000002302	ORF	Verified	YDL143W	CCT4	chaperonin-containing T-complex subunit CCT4|ANC2|TCP4	chromosome 4	L000000087	4	199996	201582	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo
+S000031415	CDS					YDL143W		4	199996	201582	W		2011-02-03	1996-07-31	
+S000002301	ORF	Verified	YDL142C	CRD1	cardiolipin synthase|CLS1	chromosome 4	L000003358	4	202570	201719	C		2011-02-03	1996-07-31	Cardiolipin synthase; produces cardiolipin, which is a phospholipid of the mitochondrial inner membrane that is required for normal mitochondrial membrane potential and function and for correct integration of membrane-multispanning proteins into the mitochondrial outer membrane; required to maintain tubular mitochondrial morphology and functions in mitochondrial fusion; also required for normal vacuolar ion homeostasis
+S000030494	CDS					YDL142C		4	202570	201719	C		2011-02-03	1996-07-31	
+S000002300	ORF	Verified	YDL141W	BPL1	biotin--[acetyl-CoA-carboxylase] ligase BPL1|ACC2	chromosome 4	L000002771	4	203039	205111	W		2011-02-03	1996-07-31	Biotin:apoprotein ligase; covalently modifies proteins with the addition of biotin, required for acetyl-CoA carboxylase (Acc1p) holoenzyme formation; comparative analysis suggests that a mitochondrially targeted form may result from translation starting at a non-canonical codon upstream of the annotated start codon; human homolog HLCS can complement yeast BPL1 mutant
+S000030458	CDS					YDL141W		4	203039	205111	W		2011-02-03	1996-07-31	
+S000002299	ORF	Verified	YDL140C	RPO21	DNA-directed RNA polymerase II core subunit RPO21|B220|SUA8|RPB220|RPB1	chromosome 4	L000001744	4	210561	205360	C	-68	2011-02-03	1996-07-31	RNA polymerase II largest subunit B220; part of central core; phosphorylation of C-terminal heptapeptide repeat domain regulates association with transcription and splicing factors; similar to bacterial beta-prime
+S000030216	CDS					YDL140C		4	210561	205360	C		2011-02-03	1996-07-31	
+S000002298	ORF	Verified	YDL139C	SCM3		chromosome 4	L000003281	4	212046	211375	C		2011-02-03	2003-09-22|1996-07-31	Nonhistone component of centromeric chromatin; binds to histone H3 variant, Cse4p, and recruits it to centromeres; involved in the assembly and maintenance of Cse4-H4 at centromeres; required for kinetochore assembly and G2/M progression; may protect Cse4p from ubiquitination; homolog of mammalian HJURP
+S000037514	CDS					YDL139C		4	212046	211375	C		2011-02-03	2003-09-22|1996-07-31	
+S000118430	ARS		ARS409		ARSIV-213	chromosome 4		4	212519	212618			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178063	ARS_consensus_sequence					ARS409		4	212594	212578	C		2014-11-18	2014-11-18	
+S000002297	ORF	Verified	YDL138W	RGT2	glucose sensor	chromosome 4	L000003268	4	213351	215642	W		2011-02-03	1996-07-31	Plasma membrane high glucose sensor that regulates glucose transport; low affinity sesnor that contains 12 predicted transmembrane segments and a long C-terminal tail required for hexose transporter induction; phosphorylation of the tail by Yck1p/Yck2p facilitates binding to the HXT co-repressors, Mth1p and Std1p; RGT2 has a paralog, SNF3, that arose from the whole genome duplication
+S000037451	CDS					YDL138W		4	213351	215642	W		2011-02-03	1996-07-31	
+S000002296	ORF	Verified	YDL137W	ARF2	Arf family GTPase ARF2	chromosome 4	L000000105|L000000060	4	216529	217074	W	-64	1996-07-31	1996-07-31	ADP-ribosylation factor; GTPase of the Ras superfamily involved in regulation of coated formation vesicles in intracellular trafficking within the Golgi; ARF2 has a paralog, ARF1, that arose from the whole genome duplication; arf1 arf2 double null mutation is complemented by human ARF1, ARF4, ARF5, or ARF6
+S000036736	CDS					YDL137W		4	216529	217074	W		1996-07-31	1996-07-31	
+S000122094	five_prime_UTR_intron					YDL137W		4	216158	216489	W		2007-04-04	2007-04-04	
+S000002295	ORF	Verified	YDL136W	RPL35B	uL29|ribosomal 60S subunit protein L35B|L35B|L29|SOS2	chromosome 4	L000001986	4	217600	218367	W		1996-07-31	1996-07-31	Ribosomal 60S subunit protein L35B; homologous to mammalian ribosomal protein L35 and bacterial L29; RPL35B has a paralog, RPL35A, that arose from the whole genome duplication
+S000036637	CDS					YDL136W		4	217600	217602	W		1996-07-31	1996-07-31	
+S000036638	CDS					YDL136W		4	218008	218367	W		1996-07-31	1996-07-31	
+S000036639	intron					YDL136W		4	217603	218007	W		1996-07-31	1996-07-31	
+S000002294	ORF	Verified	YDL135C	RDI1		chromosome 4	L000002743	4	219288	218680	C		1996-07-31	1996-07-31	Rho GDP dissociation inhibitor; involved in the localization and regulation of Cdc42p and Rho1p; protein abundance increases in response to DNA replication stress
+S000036486	CDS					YDL135C		4	219288	218680	C		1996-07-31	1996-07-31	
+S000002292	ORF	Verified	YDL134C	PPH21	phosphoprotein phosphatase 2A catalytic subunit PPH21	chromosome 4	L000001472	4	220771	219662	C	-66	1996-07-31	1996-07-31	Catalytic subunit of protein phosphatase 2A (PP2A); functionally redundant with Pph22p; methylated at C terminus; forms alternate complexes with several regulatory subunits; involved in signal transduction and regulation of mitosis; forms nuclear foci upon DNA replication stress; PPH21 has a paralog, PPH22, that arose from the whole genome duplication
+S000035565	CDS					YDL134C		4	220771	219662	C		1996-07-31	1996-07-31	
+S000002293	ORF	Verified	YDL133C-A	RPL41B	eL41|ribosomal 60S subunit protein L41B|L41e|YL41|L47B|L41B|YDL134C-A|RPL47B	chromosome 4	L000001739	4	221801	221724	C		1999-07-17	1999-07-17	Ribosomal 60S subunit protein L41B; comprises only 25 amino acids; rpl41a rpl41b double null mutant is viable; homologous to mammalian ribosomal protein L41, no bacterial homolog; RPL41B has a paralog, RPL41A, that arose from the whole genome duplication
+S000030753	CDS					YDL133C-A		4	221801	221724	C		1999-07-17	1999-07-17	
+S000002291	ORF	Verified	YDL133W	SRF1		chromosome 4		4	222427	223740	W		1996-07-31	1996-07-31	Regulator of phospholipase D (Spo14p); interacts with Spo14p and regulates its catalytic activity; capable of buffering the toxicity of C16:0 platelet activating factor, a lipid that accumulates intraneuronally in Alzheimer's patients
+S000035552	CDS					YDL133W		4	222427	223740	W		1996-07-31	1996-07-31	
+S000002290	ORF	Verified	YDL132W	CDC53	cullin CDC53	chromosome 4	L000000281	4	224304	226751	W	-81	1996-07-31	1996-07-31	Cullin; structural protein of SCF complexes (which also contain Skp1p, Cdc34p, Hrt1p and an F-box protein) involved in ubiquitination; SCF promotes the G1-S transition by targeting G1 cyclins and the Cln-CDK inhibitor Sic1p for degradation; human homolog CUL1 can complement yeast cdc53 null mutant
+S000035487	CDS					YDL132W		4	224304	226751	W		1996-07-31	1996-07-31	
+S000002289	ORF	Verified	YDL131W	LYS21	homocitrate synthase LYS21	chromosome 4	L000004259	4	227393	228715	W		1996-07-31	1996-07-31	Homocitrate synthase isozyme; catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, which is the first step in the lysine biosynthesis pathway; LYS21 has a paralog, LYS20, that arose from the whole genome duplication
+S000035437	CDS					YDL131W		4	227393	228715	W		1996-07-31	1996-07-31	
+S000007232	ORF	Verified	YDL130W-A	STF1	ATPase-binding protein|AIS2	chromosome 4	L000002126	4	229171	229431	W		1999-07-17	1999-07-17	Protein involved in regulation of the mitochondrial F1F0-ATP synthase; Stf1p and Stf2p act as stabilizing factors that enhance inhibitory action of the Inh1p protein; protein abundance increases in response to DNA replication stress; STF1 has a paralog, INH1, that arose from the whole genome duplication
+S000033965	CDS					YDL130W-A		4	229171	229431	W		1999-07-17	1999-07-17	
+S000002288	ORF	Verified	YDL130W	RPP1B	ribosomal protein P1B|YP1beta|P1B|L44'|Ax|RPLA3|RPL44'	chromosome 4	L000003298|L000001734	4	229906	230527	W		1996-07-31	1996-07-31	Ribosomal protein P1 beta; component of the ribosomal stalk, which is involved in interaction of translational elongation factors with ribosome; free (non-ribosomal) P1 stimulates the phosphorylation of the eIF2 alpha subunit (Sui2p) by Gcn2p; accumulation is regulated by phosphorylation and interaction with the P2 stalk component
+S000035361	CDS					YDL130W		4	229906	230019	W		1996-07-31	1996-07-31	
+S000035362	CDS					YDL130W		4	230321	230527	W		1996-07-31	1996-07-31	
+S000035363	intron					YDL130W		4	230020	230320	W		1996-07-31	1996-07-31	
+S000002287	ORF	Verified	YDL129W			chromosome 4		4	231024	231899	W		1996-07-31	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus; YDL129W is not an essential gene; relative distribution to the nucleus increases upon DNA replication stress
+S000034421	CDS					YDL129W		4	231024	231899	W		1996-07-31	1996-07-31	
+S000002286	ORF	Verified	YDL128W	VCX1	MNR1|HUM1	chromosome 4	L000002990	4	232652	233887	W		1996-07-31	1996-07-31	Vacuolar membrane antiporter with Ca2+/H+ and K+/H+ exchange activity; involved in control of cytosolic Ca2+ and K+ concentrations; has similarity to sodium/calcium exchangers, including the bovine Na+/Ca2+,K+ antiporter
+S000034358	CDS					YDL128W		4	232652	233887	W		1996-07-31	1996-07-31	
+S000002285	ORF	Verified	YDL127W	PCL2	cyclin PCL2|CLN4	chromosome 4	L000002784	4	234927	235853	W		2004-02-11	2004-02-11|1996-07-31	Cyclin, interacts with cyclin-dependent kinase Pho85p; member of the Pcl1,2-like subfamily, involved in the regulation of polarized growth and morphogenesis and progression through the cell cycle; localizes to sites of polarized cell growth; PCL2 has a paralog, PCL9, that arose from the whole genome duplication
+S000033442	CDS					YDL127W		4	234927	235853	W		2004-02-11	2004-02-11|1996-07-31	
+S000178064	ARS		ARS409.5			chromosome 4		4	235937	236185			2014-11-18	2014-11-18	Strong autonomously replicating sequence
+S000002284	ORF	Verified	YDL126C	CDC48	AAA family ATPase CDC48	chromosome 4	L000000280	4	238664	236157	C		2004-02-11	1996-07-31	AAA ATPase; subunit of polyUb-selective segregase complex involved in ERAD, INM-associated degradation (INMAD), mitotic spindle disassembly, macroautophagy, PMN, ribosome-associated degradation, ribophagy, homotypic ER membrane fusion, SCF complex disassembly, cell wall integrity during heat stress, and telomerase regulation; mobilizes membrane-anchored transcription factors by regulated Ub/proteasome-dependent processing (RUP); human ortholog VCP complements a cdc48 mutant
+S000033307	CDS					YDL126C		4	238664	236157	C		2004-02-11	1996-07-31	
+S000002283	ORF	Verified	YDL125C	HNT1	adenosine 5'-monophosphoramidase	chromosome 4	L000003334	4	239606	239019	C		2004-02-11	1996-07-31	Adenosine 5'-monophosphoramidase; interacts physically and genetically with Kin28p, a CDK and TFIIK subunit, and genetically with CAK1; member of histidine triad (HIT) superfamily of nucleotide-binding proteins; protein abundance increases in response to DNA replication stress; human homolog HINT1 can complement yeast hnt1 mutant
+S000033248	CDS					YDL125C		4	239398	239019	C		2004-02-11	1996-07-31	
+S000033247	CDS					YDL125C		4	239606	239510	C		2004-02-11	1996-07-31	
+S000033249	intron					YDL125C		4	239509	239399	C		2004-02-11	1996-07-31	
+S000002282	ORF	Verified	YDL124W		aldo-keto reductase superfamily protein	chromosome 4		4	240259	241197	W		2004-02-11	1996-07-31	NADPH-dependent alpha-keto amide reductase; reduces aromatic alpha-keto amides, aliphatic alpha-keto esters, and aromatic alpha-keto esters; member of the aldo-keto reductase (AKR) family; protein abundance increases in response to DNA replication stress
+S000033228	CDS					YDL124W		4	240259	241197	W		2004-02-11	1996-07-31	
+S000002281	ORF	Verified	YDL123W	SNA4		chromosome 4		4	241418	241840	W		2004-02-11	1996-07-31	Protein of unknown function; localized to the vacuolar outer membrane; predicted to be palmitoylated
+S000032369	CDS					YDL123W		4	241418	241840	W		2004-02-11	1996-07-31	
+S000002280	ORF	Verified	YDL122W	UBP1	ubiquitin-specific protease UBP1	chromosome 4	L000002415	4	242552	244981	W		2004-02-11	1996-07-31	Ubiquitin-specific protease; removes ubiquitin from ubiquitinated proteins; cleaves at the C terminus of ubiquitin fusions irrespective of their size; capable of cleaving polyubiquitin chains
+S000032268	CDS					YDL122W		4	242552	244981	W		2004-02-11	1996-07-31	
+S000002279	ORF	Uncharacterized	YDL121C			chromosome 4		4	245582	245133	C		2004-02-11	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YDL121C is not an essential protein
+S000031235	CDS					YDL121C		4	245582	245133	C		2004-02-11	1996-07-31	
+S000002278	ORF	Verified	YDL120W	YFH1	ferroxidase	chromosome 4	L000003525	4	245923	246447	W		2004-02-11	1996-07-31	Mitochondrial matrix iron chaperone; oxidizes and stores iron; interacts with Isu1p to promote Fe-S cluster assembly; mutation results in multiple Fe/S-dependent enzyme deficiencies; human frataxin homolog FXN is mutated in Friedrich's ataxia; human FTL gene can complement yeast yfh1 null mutant
+S000031221	CDS					YDL120W		4	245923	246447	W		2004-02-11	1996-07-31	
+S000002276	ORF	Dubious	YDL118W			chromosome 4		4	247302	247682	W		2004-02-11	1996-07-31	Dubious open reading frame, unlikely to encode a protein; overlaps almost completely with YDL119C; mutations that would affect both YDL118W and YDL119C confer defective telomere maintenance and are synthetically sick or lethal with alpha-synuclein
+S000030066	CDS					YDL118W		4	247302	247682	W		2004-02-11	1996-07-31	
+S000002277	ORF	Verified	YDL119C	HEM25		chromosome 4		4	247612	246689	C		2004-02-11	1996-07-31	Mitochondrial glycine transporter; required for the transport of glycine into mitochondria for initiation of heme biosynthesis, with YMC1 acting as a secondary transporter; homolog of human SLC25A38, a mitochondrial glycine transporter associated with nonsyndromic autosomal recessive congenital sideroblastic anemia; human SLC25A38 can complement the heme deficiency associated with the null mutant; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
+S000030189	CDS					YDL119C		4	247612	246689	C		2004-02-11	1996-07-31	
+S000002275	ORF	Verified	YDL117W	CYK3		chromosome 4		4	248581	251238	W		2004-02-11	1996-07-31	SH3-domain protein located in the bud neck and cytokinetic actin ring; relocalizes from bud neck to nucleus upon DNA replication stress; activates the chitin synthase activity of Chs2p during cytokinesis; suppressor of growth and cytokinesis defects of chs2 phospho-mutants
+S000029965	CDS					YDL117W		4	248581	251238	W		2004-02-11	1996-07-31	
+S000002274	ORF	Verified	YDL116W	NUP84		chromosome 4	L000003137	4	251566	253746	W		2004-02-11	1996-07-31	Subunit of the Nup84p subcomplex of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport and NPC biogenesis; also plays roles in several processes that may require localization of genes or chromosomes at the nuclear periphery, including double-strand break repair, transcription and chromatin silencing; homologous to human NUP107
+S000029859	CDS					YDL116W		4	251566	253746	W		2004-02-11	1996-07-31	
+S000118431	ARS		ARS410		ARSIV-254	chromosome 4		4	253791	254039			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000178065	ARS_consensus_sequence					ARS410		4	253948	253932	C		2014-11-18	2014-11-18	
+S000007598	ORF	Dubious	YDL114W-A			chromosome 4		4	254935	255048	W		2004-02-11	2001-02-26	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified based on homology to hemiascomycetous yeasts
+S000037144	CDS					YDL114W-A		4	254935	255048	W		2004-02-11	2001-02-26	
+S000002273	ORF	Verified	YDL115C	IWR1		chromosome 4		4	255126	253995	C		2007-07-10	2004-02-23|2007-07-10|1996-07-31|2004-01-23	RNA polymerase II transport factor, conserved from yeast to humans; also has a role in transporting RNA polymerase III into the nucleus; interacts with most of the RNAP II subunits; nucleo-cytoplasmic shuttling protein; deletion causes hypersensitivity to K1 killer toxin; protein increases in abundance and relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000123279	CDS					YDL115C		4	254974	253995	C		2007-07-10	2007-07-10	
+S000037159	CDS					YDL115C		4	255126	255045	C		2007-07-10	2004-02-23|2007-07-10|1996-07-31|2004-01-23	
+S000123278	intron					YDL115C		4	255044	254975	C		2007-07-10	2007-07-10	
+S000002272	ORF	Uncharacterized	YDL114W		short-chain dehydrogenase/reductase	chromosome 4		4	255604	256530	W		2004-02-11	1996-07-31	Putative short-chain dehydrogenase/reductase; YDL114W is not an essential gene
+S000037093	CDS					YDL114W		4	255604	256530	W		2004-02-11	1996-07-31	
+S000130171	ARS		ARS411			chromosome 4		4	256530	256633			2009-05-07	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000002271	ORF	Verified	YDL113C	ATG20	CVT20|SNX42	chromosome 4		4	258555	256633	C		2004-02-11	1996-07-31	Sorting nexin family member; required for the cytoplasm-to-vacuole targeting (Cvt) pathway and for endosomal sorting; has a Phox homology domain that binds phosphatidylinositol-3-phosphate; interacts with Snx4p; potential Cdc28p substrate
+S000036989	CDS					YDL113C		4	258555	256633	C		2004-02-11	1996-07-31	
+S000002270	ORF	Verified	YDL112W	TRM3	tRNA (guanosine(18)-2'-O)-methyltransferase	chromosome 4	L000004920	4	258915	263225	W		2004-02-11	1996-07-31	2'-O-ribose methyltransferase; catalyzes the ribose methylation of the guanosine nucleotide at position 18 of tRNAs
+S000036371	CDS					YDL112W		4	258915	263225	W		2004-02-11	1996-07-31	
+S000002269	ORF	Verified	YDL111C	RRP42	exosome non-catalytic core subunit RRP42	chromosome 4	L000003551	4	264110	263313	C		2004-02-11	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp42p (EXOSC7)
+S000036214	CDS					YDL111C		4	264110	263313	C		2004-02-11	1996-07-31	
+S000002268	ORF	Verified	YDL110C	TMA17	ADC17	chromosome 4	S000154294	4	264964	264512	C		2004-02-11	1996-07-31	ATPase dedicated chaperone that adapts proteasome assembly to stress; Tma17p is induced upon stress; interacts with Rpt6p to assist its pairing to Rpt3p and early steps in proteasome biogenesis; associates with ribosomes; heterozygous deletion demonstrated increases in chromosome instability in a rad9 deletion background; protein abundance is decreased upon intracellular iron depletion
+S000036093	CDS					YDL110C		4	264964	264512	C		2004-02-11	1996-07-31	
+S000002267	ORF	Uncharacterized	YDL109C		putative lipase	chromosome 4		4	267201	265258	C		2004-02-11	1996-07-31	Putative lipase; involved in lipid metabolism; not an essential gene; YDL109C has a paralog, ROG1, that arose from the whole genome duplication
+S000033934	CDS					YDL109C		4	267201	265258	C		2004-02-11	1996-07-31	
+S000002266	ORF	Verified	YDL108W	KIN28	TFIIH complex serine/threonine-protein kinase subunit KIN28	chromosome 4	L000000905	4	267698	268699	W		2004-02-11	1996-07-31	Serine/threonine protein kinase, subunit of transcription factor TFIIH; involved in transcription initiation at RNA polymerase II promoters; phosphorylates Ser5 residue of the PolII C-terminal domain (CTD) at gene promoters; relocalizes to the cytosol in response to hypoxia
+S000033868	CDS					YDL108W		4	267698	267725	W		2004-02-11	1996-07-31	
+S000033869	CDS					YDL108W		4	267807	268699	W		2004-02-11	1996-07-31	
+S000033870	intron					YDL108W		4	267726	267806	W		2004-02-11	1996-07-31	
+S000002265	ORF	Verified	YDL107W	MSS2		chromosome 4	L000001202	4	268921	269976	W		2004-02-11	1996-07-31	Peripherally bound inner membrane protein of the mitochondrial matrix; involved in membrane insertion of C-terminus of Cox2p, interacts genetically and physically with Cox18p
+S000033109	CDS					YDL107W		4	268921	269976	W		2004-02-11	1996-07-31	
+S000002264	ORF	Verified	YDL106C	PHO2	phoB|GRF10|BAS2	chromosome 4	L000000728	4	271901	270222	C	-58.01	2004-02-11	1996-07-31	Homeobox transcription factor; regulatory targets include genes involved in phosphate metabolism; binds cooperatively with Pho4p to the PHO5 promoter; phosphorylation of Pho2p facilitates interaction with Pho4p; relocalizes to the cytosol in response to hypoxia
+S000032983	CDS					YDL106C		4	271901	270222	C		2004-02-11	1996-07-31	
+S000002263	ORF	Verified	YDL105W	NSE4	Smc5-Smc6 complex subunit NSE4|QRI2	chromosome 4	L000002653	4	272389	273597	W		2004-02-11	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair
+S000032948	CDS					YDL105W		4	272389	273597	W		2004-02-11	1996-07-31	
+S000002262	ORF	Verified	YDL104C	QRI7	putative N(6)-L-threonylcarbamoyladenine synthase	chromosome 4	L000002654	4	274876	273653	C		2004-02-11	1996-07-31	Protein involved in threonylcarbamoyl adenosine biosynthesis; Sua5p and Qri7p are necessary and sufficient for RNA t6A modification in vitro; highly conserved mitochondrial protein; essential for t6A modification of mitochondrial tRNAs that decode ANN codons; similar to Kae1p and E. coli YgjD, both of which are also required for tRNA t6A modification; when directed to the cytoplasm, complements the essential function of Kae1p in the KEOPS complex
+S000031963	CDS					YDL104C		4	274876	273653	C		2004-02-11	1996-07-31	
+S000002261	ORF	Verified	YDL103C	QRI1	UDP-N-acetylglucosamine diphosphorylase|UAP1	chromosome 4	L000002652	4	276581	275148	C		2004-02-11	1996-07-31	UDP-N-acetylglucosamine pyrophosphorylase; catalyzes the formation of UDP-N-acetylglucosamine (UDP-GlcNAc), which is important in cell wall biosynthesis, protein N-glycosylation, and GPI anchor biosynthesis; protein abundance increases in response to DNA replication stress
+S000031867	CDS					YDL103C		4	276581	275148	C		2004-02-11	1996-07-31	
+S000002260	ORF	Verified	YDL102W	POL3	DNA-directed DNA polymerase delta POL3|CDC2|TEX1|HPR6	chromosome 4	L000000242	4	276872	280165	W	-55	2004-02-11	1996-07-31|2011-02-03	Catalytic subunit of DNA polymerase delta; required for chromosomal DNA replication during mitosis and meiosis, intragenic recombination, repair of double strand DNA breaks, and DNA replication during nucleotide excision repair (NER)
+S000031813	CDS					YDL102W		4	276872	280165	W		2004-02-11	1996-07-31|2011-02-03	
+S000002259	ORF	Verified	YDL101C	DUN1	serine/threonine protein kinase DUN1	chromosome 4	L000000531	4	281848	280307	C		2004-02-11	1996-07-31	Cell-cycle checkpoint S/T protein kinase; required for transient G2/M arrest after DNA damage, damage-induced transcription, and nuclear-to-cytoplasmic redistribution of Rnr2p-Rnr4p after genotoxic stress and iron deprivation; phosphorylates repair protein Rad55p, transcriptional repressor Sml1p, superoxide dismutase, and ribonucleotide reductase inhibitors Crt1p and Dif1p; functions in the Mec1p pathway to regulate dNTP pools and telomere length; postreplicative repair role
+S000031605	CDS					YDL101C		4	281848	280307	C		2004-02-11	1996-07-31	
+S000002258	ORF	Verified	YDL100C	GET3	guanine nucleotide exchange factor GET3|ARR4	chromosome 4		4	283176	282112	C		2004-02-11	1996-07-31	Guanine nucleotide exchange factor for Gpa1p; amplifies G protein signaling; functions as a chaperone under ATP-depleted oxidative stress conditions; subunit of GET complex, involved in ATP dependent Golgi to ER trafficking and insertion of tail-anchored (TA) proteins into ER membrane under non-stress conditions; binds as dimer to transmembrane domain (TMD) cargo, shielding TMDs from aqueous solvent; protein abundance increases under DNA replication stress
+S000030758	CDS					YDL100C		4	283176	282112	C		2004-02-11	1996-07-31	
+S000002257	ORF	Verified	YDL099W	BUG1		chromosome 4		4	283419	284444	W		2004-02-11	1996-07-31	Cis-golgi localized protein involved in ER to Golgi transport; forms a complex with the mammalian GRASP65 homolog, Grh1p; mutants are compromised for the fusion of ER-derived vesicles with Golgi membranes
+S000034178	CDS					YDL099W		4	283419	284444	W		2004-02-11	1996-07-31	
+S000002256	ORF	Verified	YDL098C	SNU23	U4/U6-U5 snRNP complex subunit SNU23	chromosome 4		4	285165	284581	C		2004-02-11	1996-07-31	Component of the U4/U6.U5 snRNP complex; involved in mRNA splicing via spliceosome
+S000034033	CDS					YDL098C		4	285165	284581	C		2004-02-11	1996-07-31	
+S000002255	ORF	Verified	YDL097C	RPN6	proteasome regulatory particle lid subunit RPN6|NAS4	chromosome 4	L000004306	4	286695	285391	C		2004-02-11	1996-07-31	Essential, non-ATPase regulatory subunit of the 26S proteasome lid; required for the assembly and activity of the 26S proteasome; the human homolog (S9 protein) partially rescues Rpn6p depletion; protein abundance increases in response to DNA replication stress
+S000033908	CDS					YDL097C		4	286695	285391	C		2004-02-11	1996-07-31	
+S000002253	ORF	Verified	YDL095W	PMT1	dolichyl-phosphate-mannose-protein mannosyltransferase PMT1	chromosome 4	L000001458	4	287059	289512	W		2004-02-11	1996-07-31	Protein O-mannosyltransferase of the ER membrane; transfers mannose from dolichyl phosphate-D-mannose to protein serine and threonine residues; 1 of 7 related proteins involved in O-glycosylation which is essential for cell wall rigidity; involved in ER quality control; amino terminus faces cytoplasm, carboxyl terminus faces ER lumen
+S000033095	CDS					YDL095W		4	287059	289512	W		2004-02-11	1996-07-31	
+S000002254	ORF	Dubious	YDL096C	OPI6		chromosome 4		4	287324	286998	C		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene PMT1/YDL095W; YDL096C is not essential
+S000033140	CDS					YDL096C		4	287324	286998	C		2004-02-11	1996-07-31	
+S000002251	ORF	Verified	YDL093W	PMT5	putative dolichyl-phosphate-mannose-protein mannosyltransferase PMT5	chromosome 4	L000003164	4	289909	292140	W		2004-02-11	1996-07-31	Protein O-mannosyltransferase; transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues; acts in a complex with Pmt3p, can instead interact with Pmt2p in some conditions; target for new antifungals
+S000032094	CDS					YDL093W		4	289909	292140	W		2004-02-11	1996-07-31	
+S000002252	ORF	Dubious	YDL094C			chromosome 4		4	290081	289572	C		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verfied gene PMT5/YDL093W; YDL094C is not essential
+S000032962	CDS					YDL094C		4	290081	289572	C		2004-02-11	1996-07-31	
+S000002250	ORF	Verified	YDL092W	SRP14	RNA-binding signal recognition particle subunit SRP14	chromosome 4	L000002061	4	292781	293221	W		2004-02-11	1996-07-31	Signal recognition particle (SRP) subunit; interacts with the RNA component of SRP to form the Alu domain, which is the region of SRP responsible for arrest of nascent chain elongation during membrane targeting; homolog of mammalian SRP14
+S000031975	CDS					YDL092W		4	292781	293221	W		2004-02-11	1996-07-31	
+S000002249	ORF	Verified	YDL091C	UBX3		chromosome 4		4	294759	293392	C		2004-02-11	1996-07-31	Clathrin-coated vesicle component, regulator of endocytosis; copurifies with the DSC ubiquitin ligase complex; UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p; required for efficient clathrin-mediated endocytosis; ortholog of fission yeast Ucp10
+S000030889	CDS					YDL091C		4	294759	293392	C		2004-02-11	1996-07-31	
+S000002248	ORF	Verified	YDL090C	RAM1	protein farnesyltransferase|STE16|SGP2|SCG2|FUS8|DPR1	chromosome 4	L000001579	4	296329	295034	C	-33	2004-02-11	1996-07-31	Beta subunit of the CAAX farnesyltransferase (FTase); this complex prenylates the a-factor mating pheromone and Ras proteins; required for the membrane localization of Ras proteins and a-factor; homolog of the mammalian FTase beta subunit
+S000030792	CDS					YDL090C		4	296329	295034	C		2004-02-11	1996-07-31	
+S000002247	ORF	Verified	YDL089W	NUR1		chromosome 4		4	296820	298274	W		2004-02-11	1996-07-31	Protein involved in regulation of mitotic exit; dephosphorylation target of Cdc14p in anaphase, which promotes timely rDNA segregation and allows mitotic progression; interacts with Csm1p, Lrs4p; required for rDNA repeat stability; null mutant causes increase in unequal sister-chromatid exchange; GFP-fusion protein localizes to the nuclear periphery, possible Cdc28p substrate
+S000037902	CDS					YDL089W		4	296820	298274	W		2004-02-11	1996-07-31	
+S000002246	ORF	Verified	YDL088C	ASM4	FG-nucleoporin ASM4|NUP59	chromosome 4	L000002642	4	300003	298417	C		2004-02-11	1996-07-31	FG-nucleoporin component of central core of nuclear pore complex (NPC); contributes directly to nucleocytoplasmic transport; induces membrane tubulation, which may contribute to nuclear pore assembly; ASM4 has a paralog, NUP53, that arose from the whole genome duplication
+S000037765	CDS					YDL088C		4	300003	298417	C		2004-02-11	1996-07-31	
+S000002245	ORF	Verified	YDL087C	LUC7	EPE1|EXM2	chromosome 4	L000003348	4	300999	300214	C		2004-02-11	1996-07-31	Essential protein associated with the U1 snRNP complex; splicing factor involved in recognition of 5' splice site; contains two zinc finger motifs; N-terminal zinc finger binds pre-mRNA; relocalizes to the cytosol in response to hypoxia
+S000037703	CDS					YDL087C		4	300999	300214	C		2004-02-11	1996-07-31	
+S000002244	ORF	Uncharacterized	YDL086W		carboxymethylenebutenolidase	chromosome 4		4	301413	302234	W		2004-02-11	1996-07-31	Putative carboxymethylenebutenolidase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YDL086W is not an essential gene
+S000036968	CDS					YDL086W		4	301413	302234	W		2004-02-11	1996-07-31	
+S000028611	ORF	Dubious	YDL086C-A			chromosome 4		4	302089	301655	C		2004-02-11	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps uncharacterized ORF YDL086W; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
+S000031442	CDS					YDL086C-A		4	302089	301655	C		2004-02-11	2003-07-29	
+S000007588	ORF	Uncharacterized	YDL085C-A			chromosome 4		4	302670	302464	C		2004-02-11	2001-01-30	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
+S000037099	CDS					YDL085C-A		4	302670	302464	C		2004-02-11	2001-01-30	
+S000002243	ORF	Verified	YDL085W	NDE2	NADH-ubiquinone reductase (H(+)-translocating) NDE2|NDH2	chromosome 4		4	303211	304848	W		2004-02-11	1996-07-31	Mitochondrial external NADH dehydrogenase; catalyzes the oxidation of cytosolic NADH; Nde1p and Nde2p are involved in providing the cytosolic NADH to the mitochondrial respiratory chain; NDE2 has a paralog, NDE1, that arose from the whole genome duplication
+S000036900	CDS					YDL085W		4	303211	304848	W		2004-02-11	1996-07-31	
+S000002242	ORF	Verified	YDL084W	SUB2	ATP-dependent RNA helicase SUB2	chromosome 4	L000004574	4	305237	306577	W		2004-02-11	1996-07-31	Component of the TREX complex required for nuclear mRNA export; member of the DEAD-box RNA helicase superfamily and is involved in early and late steps of spliceosome assembly; homolog of the human splicing factor hUAP56; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000036856	CDS					YDL084W		4	305237	306577	W		2004-02-11	1996-07-31	
+S000002241	ORF	Verified	YDL083C	RPS16B	uS9|ribosomal 40S subunit protein S16B|S9|rp61R|S16B	chromosome 4	L000004478	4	307789	306926	C		2004-02-11	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S16 and bacterial S9; RPS16B has a paralog, RPS16A, that arose from the whole genome duplication
+S000035913	CDS					YDL083C		4	307333	306926	C		2004-02-11	1996-07-31	
+S000035912	CDS					YDL083C		4	307789	307766	C		2004-02-11	1996-07-31	
+S000035914	intron					YDL083C		4	307765	307334	C		2004-02-11	1996-07-31	
+S000002240	ORF	Verified	YDL082W	RPL13A	eL13|ribosomal 60S subunit protein L13A|L13e|L13A	chromosome 4	L000004454	4	308424	309388	W		2004-02-11	1996-07-31	Ribosomal 60S subunit protein L13A; not essential for viability; homologous to mammalian ribosomal protein L13, no bacterial homolog; RPL13A has a paralog, RPL13B, that arose from the whole genome duplication
+S000035860	CDS					YDL082W		4	308424	308427	W		2004-02-11	1996-07-31	
+S000035861	CDS					YDL082W		4	308793	309388	W		2004-02-11	1996-07-31	
+S000035862	intron					YDL082W		4	308428	308792	W		2004-02-11	1996-07-31	
+S000002239	ORF	Verified	YDL081C	RPP1A	P1A|ribosomal protein P1A|RPLA1	chromosome 4	L000002627	4	310122	309802	C		2004-02-11	1996-07-31	Ribosomal stalk protein P1 alpha; involved in the interaction between translational elongation factors and the ribosome; free (non-ribosomal) P1 stimulates the phosphorylation of the eIF2 alpha subunit (Sui2p) by Gcn2p; accumulation of P1 in the cytoplasm is regulated by phosphorylation and interaction with the P2 stalk component
+S000035711	CDS					YDL081C		4	310122	309802	C		2004-02-11	1996-07-31	
+S000002238	ORF	Verified	YDL080C	THI3	branched-chain-2-oxoacid decarboxylase THI3|KID1	chromosome 4	L000003499	4	312471	310642	C		2004-02-11	1996-07-31	Regulatory protein that binds Pdc2p and Thi2p transcription factors; activates thiamine biosynthesis transcription factors Pdc2p and Thi2p by binding to them, but releases and de-activates them upon binding to thiamine pyrophosphate (TPP), the end product of the pathway; has similarity to decarboxylases but enzymatic activity is not detected
+S000035644	CDS					YDL080C		4	312471	310642	C		2004-02-11	1996-07-31	
+S000002237	ORF	Verified	YDL079C	MRK1	putative serine/threonine protein kinase MRK1	chromosome 4	L000001151	4	314748	312951	C		2004-02-11	1996-07-31	Glycogen synthase kinase 3 (GSK-3) homolog; one of four GSK-3 homologs in S. cerevisiae that function to activate Msn2p-dependent transcription of stress responsive genes and that function in protein degradation; MRK1 has a paralog, RIM11, that arose from the whole genome duplication
+S000033718	CDS					YDL079C		4	314044	312951	C		2004-02-11	1996-07-31	
+S000033717	CDS					YDL079C		4	314748	314337	C		2004-02-11	1996-07-31	
+S000033719	intron					YDL079C		4	314336	314045	C		2004-02-11	1996-07-31	
+S000002236	ORF	Verified	YDL078C	MDH3	malate dehydrogenase MDH3	chromosome 4	L000001047	4	316388	315357	C		2004-02-11	1996-07-31	Peroxisomal malate dehydrogenase; catalyzes interconversion of malate and oxaloacetate; involved in the glyoxylate cycle
+S000033624	CDS					YDL078C		4	316388	315357	C		2004-02-11	1996-07-31	
+S000130172	ARS		ARS412			chromosome 4		4	316771	317230			2014-11-18	2014-11-18|2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000178066	ARS_consensus_sequence					ARS412		4	316862	316878	W		2014-11-18	2014-11-18	
+S000002235	ORF	Verified	YDL077C	VAM6	VPS39|VPL22|VPL18|CVT4	chromosome 4	L000003935	4	320120	316971	C		2004-02-11	1996-07-31	Guanine nucleotide exchange factor for the GTPase Gtr1p; subunit of the HOPS endocytic tethering complex; vacuole membrane protein; functions as a Rab GTPase effector, interacting with both GTP- and GDP-bound conformations of Ypt7p; facilitates tethering and promotes membrane fusion events at the late endosome and vacuole; required for both membrane and protein trafficking; component of vacuole-mitochondrion contacts (vCLAMPs) important for lipid transfer between organelles
+S000033526	CDS					YDL077C		4	320120	316971	C		2004-02-11	1996-07-31	
+S000002234	ORF	Verified	YDL076C	RXT3		chromosome 4		4	321552	320668	C		2004-02-11	1996-07-31	Component of the Rpd3L histone deacetylase complex; involved in histone deacetylation; protein abundance increases in response to DNA replication stress
+S000032814	CDS					YDL076C		4	321552	320668	C		2004-02-11	1996-07-31	
+S000002233	ORF	Verified	YDL075W	RPL31A	eL31|ribosomal 60S subunit protein L31A|L31e|YL28|L34A|L31A|RPL34	chromosome 4	L000003297|L000001727	4	322226	322988	W		2004-02-11	1996-07-31	Ribosomal 60S subunit protein L31A; associates with karyopherin Sxm1p; loss of both Rpl31p and Rpl39p confers lethality; homologous to mammalian ribosomal protein L31, no bacterial homolog; RPL31A has a paralog, RPL31B, that arose from the whole genome duplication
+S000032744	CDS					YDL075W		4	322226	322282	W		2004-02-11	1996-07-31	
+S000032745	CDS					YDL075W		4	322704	322988	W		2004-02-11	1996-07-31	
+S000032746	intron					YDL075W		4	322283	322703	W		2004-02-11	1996-07-31	
+S000006454	snoRNA_gene		snR63	SNR63		chromosome 4	L000004532	4	323471	323217	C		2004-02-11	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A2256
+S000030842	noncoding_exon					snR63		4	323471	323217	C		2004-02-11	2000-05-19	
+S000002232	ORF	Verified	YDL074C	BRE1	E3 ubiquitin-protein ligase BRE1	chromosome 4		4	326149	324047	C		2004-02-11	1996-07-31	E3 ubiquitin ligase; forms heterodimer with Rad6p to regulate K63 polyubiquitination in response to oxidative stress and to monoubiquinate histone H2B-K123, which is required for the subsequent methylation of histone H3-K4 and H3-K79; required for DSBR, transcription, silencing, and checkpoint control; interacts with RNA-binding protein Npl3p, linking histone ubiquitination to mRNA processing; Bre1p-dependent histone ubiquitination promotes pre-mRNA splicing
+S000032572	CDS					YDL074C		4	326149	324047	C		2004-02-11	1996-07-31	
+S000002231	ORF	Verified	YDL073W	AHK1		chromosome 4		4	326613	329567	W		2004-02-11	1996-07-31	Scaffold protein in the HKR1 sub-branch of the Hog1p-signaling pathway; physically interacts with the cytoplasmic domain of Hkr1p, and with Sho1p, Pbs2p, and Ste11p; prevents cross-talk signaling from Hkr1p of the osmotic stress MAPK cascade to the Kss1p MAPK cascade; non-essential gene
+S000032520	CDS					YDL073W		4	326613	329567	W		2004-02-11	1996-07-31	
+S000118432	ARS		ARS413		ARSIV-330	chromosome 4		4	329566	329814			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000178067	ARS_consensus_sequence					ARS413		4	329671	329687	W		2014-11-18	2014-11-18	
+S000002230	ORF	Verified	YDL072C	YET3		chromosome 4		4	330447	329836	C		2004-02-11	1996-07-31	Protein of unknown function; YET3 null mutant decreases the level of secreted invertase; homolog of human BAP31 protein; protein abundance increases in response to DNA replication stress
+S000031514	CDS					YDL072C		4	330447	329836	C		2004-02-11	1996-07-31	
+S000002228	ORF	Verified	YDL070W	BDF2		chromosome 4	L000004431	4	331024	332940	W		2011-02-03	1996-07-31	Protein involved in transcription initiation; acts at TATA-containing promoters; associates with the basal transcription factor TFIID; contains two bromodomains; corresponds to the C-terminal region of mammalian TAF1; redundant with Bdf1p; protein abundance increases in response to DNA replication stress; BDF2 has a paralog, BDF1, that arose from the whole genome duplication
+S000031410	CDS					YDL070W		4	331024	332940	W		2011-02-03	1996-07-31	
+S000002229	ORF	Dubious	YDL071C		IRC1	chromosome 4		4	331040	330666	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF BDF2/YDL070W
+S000031459	CDS					YDL071C		4	331040	330666	C		2011-02-03	1996-07-31	
+S000002226	ORF	Dubious	YDL068W			chromosome 4		4	333500	333829	W		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030510	CDS					YDL068W		4	333500	333829	W		2004-02-11	1996-07-31	
+S000002227	ORF	Verified	YDL069C	CBS1		chromosome 4	L000000230	4	333810	333121	C		2004-02-11	2003-09-22|1996-07-31	Mitochondrial translational activator of the COB mRNA; membrane protein that interacts with translating ribosomes, acts on the COB mRNA 5'-untranslated leader
+S000030553	CDS					YDL069C		4	333810	333121	C		2004-02-11	2003-09-22|1996-07-31	
+S000002225	ORF	Verified	YDL067C	COX9	cytochrome c oxidase subunit VIIa	chromosome 4	L000000393	4	334396	334217	C		2004-02-11	1996-07-31	Subunit VIIa of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain
+S000037632	CDS					YDL067C		4	334396	334217	C		2004-02-11	1996-07-31	
+S000002224	ORF	Verified	YDL066W	IDP1	isocitrate dehydrogenase (NADP(+)) IDP1	chromosome 4	L000000852	4	334835	336121	W		2004-02-11	1996-07-31	Mitochondrial NADP-specific isocitrate dehydrogenase; catalyzes the oxidation of isocitrate to alpha-ketoglutarate; not required for mitochondrial respiration and may function to divert alpha-ketoglutarate to biosynthetic processes
+S000037594	CDS					YDL066W		4	334835	336121	W		2004-02-11	1996-07-31	
+S000002223	ORF	Verified	YDL065C	PEX19	PAS12	chromosome 4	L000003965	4	337277	336249	C		2006-04-12	1996-07-31|2006-04-12	Chaperone and import receptor for newly-synthesized class I PMPs; binds peroxisomal membrane proteins (PMPs) in the cytoplasm and delivers them to the peroxisome for subsequent insertion into the peroxisomal membrane; interacts with Myo2p and contributes to peroxisome partitioning
+S000037387	CDS					YDL065C		4	337277	336249	C		2006-04-12	1996-07-31|2006-04-12	
+S000002222	ORF	Verified	YDL064W	UBC9	E2 SUMO-conjugating protein UBC9	chromosome 4	L000002636	4	337487	338070	W		2004-02-11	1996-07-31	SUMO-conjugating enzyme involved in the Smt3p conjugation pathway; nuclear protein required for S- and M-phase cyclin degradation and mitotic control; involved in proteolysis mediated by the anaphase-promoting complex cyclosome (APCC)
+S000036730	CDS					YDL064W		4	337487	337524	W		2004-02-11	1996-07-31	
+S000036731	CDS					YDL064W		4	337635	338070	W		2004-02-11	1996-07-31	
+S000036732	intron					YDL064W		4	337525	337634	W		2004-02-11	1996-07-31	
+S000002220	ORF	Dubious	YDL062W			chromosome 4		4	339857	340282	W		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized ORF YDL063C; YDL062W is not essential
+S000036515	CDS					YDL062W		4	339857	340282	W		2004-02-11	1996-07-31	
+S000002221	ORF	Verified	YDL063C	SYO1		chromosome 4		4	340134	338272	C		2004-02-11	1996-07-31	Transport adaptor or symportin; facilitates synchronized nuclear coimport of the two 5S-rRNA binding proteins Rpl5p and Rpl11p; binds to nascent Rpl5p during translation; required for biogenesis of the large ribosomal subunit; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
+S000036559	CDS					YDL063C		4	340134	338272	C		2004-02-11	1996-07-31	
+S000002219	ORF	Verified	YDL061C	RPS29B	uS14|ribosomal 40S subunit protein S29B|S14|YS29|S36B|S29B|YS29B	chromosome 4	L000002550	4	340798	340628	C		2004-02-11	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S29 and bacterial S14; RPS29B has a paralog, RPS29A, that arose from the whole genome duplication
+S000035564	CDS					YDL061C		4	340798	340628	C		2004-02-11	1996-07-31	
+S000122093	five_prime_UTR_intron					YDL061C		4	341219	340811	C		2007-04-04	2007-04-04	
+S000002218	ORF	Verified	YDL060W	TSR1		chromosome 4		4	341619	343985	W		2004-02-11	1996-07-31	Protein required for processing of 20S pre-rRNA in the cytoplasm; associates with pre-40S ribosomal particles; inhibits the premature association of 60S subunits with assembling 40S subunits in the cytoplasm; similar to Bms1p; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000035549	CDS					YDL060W		4	341619	343985	W		2004-02-11	1996-07-31	
+S000002217	ORF	Verified	YDL059C	RAD59		chromosome 4	L000003987	4	344953	344237	C		2004-02-11	1996-07-31	Protein involved DNA double-strand break repair; repairs breaks in DNA during vegetative growth via recombination and single-strand annealing; anneals complementary single-stranded DNA; forms nuclear foci upon DNA replication stress; required for loading of Rad52p to DSBs; regulates replication fork progression in DNA ligase I-deficient cells; paralog of Rad52p
+S000035590	CDS					YDL059C		4	344953	344237	C		2004-02-11	1996-07-31	
+S000002216	ORF	Verified	YDL058W	USO1	INT1	chromosome 4	L000002446	4	345665	351037	W		2004-02-11	1996-07-31	Essential protein involved in vesicle-mediated ER to Golgi transport; binds membranes and functions during vesicle docking to the Golgi; required for assembly of the ER-to-Golgi SNARE complex
+S000035550	CDS					YDL058W		4	345665	351037	W		2004-02-11	1996-07-31	
+S000002215	ORF	Uncharacterized	YDL057W			chromosome 4		4	351434	352420	W		2004-02-11	1996-07-31	Putative protein of unknown function; YDL057W is not an essential gene
+S000034554	CDS					YDL057W		4	351434	352420	W		2004-02-11	1996-07-31	
+S000002214	ORF	Verified	YDL056W	MBP1	transcription factor MBP1	chromosome 4	L000001032	4	352877	355378	W		2004-02-11	1996-07-31	Transcription factor; involved in regulation of cell cycle progression from G1 to S phase, forms a complex with Swi6p that binds to MluI cell cycle box regulatory element in promoters of DNA synthesis genes
+S000034419	CDS					YDL056W		4	352877	355378	W		2004-02-11	1996-07-31	
+S000002213	ORF	Verified	YDL055C	PSA1	mannose-1-phosphate guanylyltransferase|SRB1|VIG9|MPG1	chromosome 4	L000002625|L000002860|L000002049	4	356759	355674	C		2004-02-11	1996-07-31	GDP-mannose pyrophosphorylase (mannose-1-phosphate guanyltransferase); synthesizes GDP-mannose from GTP and mannose-1-phosphate in cell wall biosynthesis; required for normal cell wall structure
+S000034293	CDS					YDL055C		4	356759	355674	C		2004-02-11	1996-07-31	
+S000006629	tRNA_gene		tK(UUU)D			chromosome 4	L000003762|S000007415	4	359577	359672	W		2004-02-11	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034182	intron					tK(UUU)D		4	359614	359636	W		2004-02-11	2000-05-19	
+S000034180	noncoding_exon					tK(UUU)D		4	359577	359613	W		2004-02-11	2000-05-19	
+S000034181	noncoding_exon					tK(UUU)D		4	359637	359672	W		2004-02-11	2000-05-19	
+S000002212	ORF	Verified	YDL054C	MCH1		chromosome 4		4	361285	359825	C		2004-02-11	1996-07-31	Protein with similarity to mammalian monocarboxylate permeases; monocarboxylate permeases are involved in transport of monocarboxylic acids across the plasma membrane but mutant is not deficient in monocarboxylate transport
+S000033372	CDS					YDL054C		4	361285	359825	C		2004-02-11	1996-07-31	
+S000002211	ORF	Verified	YDL053C	PBP4		chromosome 4		4	362256	361699	C		2004-02-11	1996-07-31	Pbp1p binding protein; interacts strongly with Pab1p-binding protein 1 (Pbp1p) in the yeast two-hybrid system; also interacts with Lsm12p in a copurification assay; relative distribution to the nucleus increases upon DNA replication stress
+S000033305	CDS					YDL053C		4	362256	361699	C		2004-02-11	1996-07-31	
+S000002210	ORF	Verified	YDL052C	SLC1	1-acylglycerol-3-phosphate O-acyltransferase SLC1	chromosome 4	L000001914	4	363583	362672	C		2004-02-11	1996-07-31	1-acyl-sn-glycerol-3-phosphate acyltransferase; catalyzes the acylation of lysophosphatidic acid to form phosphatidic acid, a key intermediate in lipid metabolism; enzymatic activity detected in lipid particles and microsomes
+S000033244	CDS					YDL052C		4	363583	362672	C		2004-02-11	1996-07-31	
+S000002209	ORF	Verified	YDL051W	LHP1	YLA1|LAH1	chromosome 4	L000002518	4	363952	364779	W		2004-02-11	1996-07-31	RNA binding protein required for maturation of tRNA and U6 snRNA; acts as a molecular chaperone for RNAs transcribed by polymerase III; homologous to human La (SS-B) autoantigen
+S000033227	CDS					YDL051W		4	363952	364779	W		2004-02-11	1996-07-31	
+S000002208	ORF	Dubious	YDL050C			chromosome 4		4	364817	364446	C		2004-02-11	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032313	CDS					YDL050C		4	364817	364446	C		2004-02-11	1996-07-31	
+S000002207	ORF	Verified	YDL049C	KNH1		chromosome 4	L000002837	4	365874	365068	C		2004-02-11	1996-07-31	Protein with similarity to Kre9p; Kre9p is involved in cell wall beta 1,6-glucan synthesis; overproduction suppresses growth defects of a kre9 null mutant; required for propionic acid resistance
+S000031388	CDS					YDL049C		4	365874	365068	C		2004-02-11	1996-07-31	
+S000002206	ORF	Verified	YDL048C	STP4		chromosome 4	L000003372	4	368211	366739	C		2004-02-11	1999-02-09|1996-07-31	Protein containing a Kruppel-type zinc-finger domain; similar to Stp1p, Stp2p; predicted transcription factor; relative distribution to the nucleus increases upon DNA replication stress; STP4 has a paralog, STP3, that arose from the whole genome duplication
+S000031282	CDS					YDL048C		4	368211	366739	C		2004-02-11	1999-02-09|1996-07-31	
+S000002205	ORF	Verified	YDL047W	SIT4	type 2A-related serine/threonine-protein phosphatase SIT4|PPH1	chromosome 4	L000001901	4	369771	370706	W		2011-02-03	1996-07-31	Ceramide-activated, type 2A-related serine-threonine phosphatase; functions in G1/S transition of mitotic cycle; controls lifespan, mitochondrial function, cell cycle progression by regulating HXK2 phosphorylation; regulator of COPII coat dephosphorylation; required for ER to Golgi traffic; interacts with Hrr25p kinase; cytoplasmic and nuclear protein that modulates functions mediated by Pkc1p including cell wall and actin cytoskeleton organization; similar to human PP6
+S000031218	CDS					YDL047W		4	369771	370706	W		2011-02-03	1996-07-31	
+S000002204	ORF	Verified	YDL046W	NPC2	sterol transporter	chromosome 4	S000028462	4	371240	371761	W		2011-02-03	1996-07-31	Sterol transport protein and functional homolog of human NPC2/He1; human NPC2 is a cholesterol-binding protein whose deficiency causes Niemann-Pick type C2 disease involving retention of cholesterol in lysosomes; yeast NPC2 can complement mutations in human NPC2
+S000031100	CDS					YDL046W		4	371240	371761	W		2011-02-03	1996-07-31	
+S000006430	ORF	Verified	YDL045W-A	MRP10	mitochondrial 37S ribosomal protein YmS-T|YmS-T	chromosome 4	L000003390	4	372248	372535	W		2011-02-03	1999-07-17	Mitochondrial ribosomal protein of the small subunit; contains twin cysteine-x9-cysteine motifs; oxidized by Mia40p during import into mitochondria
+S000032810	CDS					YDL045W-A		4	372248	372535	W		2011-02-03	1999-07-17	
+S000002203	ORF	Verified	YDL045C	FAD1	FMN adenylyltransferase	chromosome 4	L000000598	4	373608	372688	C		2011-02-03	1996-07-31	Flavin adenine dinucleotide (FAD) synthetase; performs the second step in synthesis of FAD from riboflavin; mutation is functionally complemented by human FLAD1
+S000030018	CDS					YDL045C		4	373608	372688	C		2011-02-03	1996-07-31	
+S000002202	ORF	Verified	YDL044C	MTF2	NAM1	chromosome 4	L000001212	4	375289	373967	C	-17.93	2011-02-03	1996-07-31	Mitochondrial protein that interacts with mitochondrial RNA polymerase; interacts with an N-terminal region of mitochondrial RNA polymerase (Rpo41p) and couples RNA processing and translation to transcription
+S000029908	CDS					YDL044C		4	375289	373967	C		2011-02-03	1996-07-31	
+S000002201	ORF	Verified	YDL043C	PRP11	RNA11	chromosome 4	L000001502	4	376480	375680	C	-17.13	2011-02-03	1996-07-31	Subunit of the SF3a splicing factor complex; required for spliceosome assembly
+S000037237	CDS					YDL043C		4	376480	375680	C		2011-02-03	1996-07-31	
+S000002199	ORF	Dubious	YDL041W			chromosome 4		4	378102	378455	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene SIR2/YDL042C
+S000037091	CDS					YDL041W		4	378102	378455	W		2011-02-03	1996-07-31	
+S000002200	ORF	Verified	YDL042C	SIR2	NAD-dependent histone deacetylase SIR2|MAR1	chromosome 4	L000001895	4	378445	376757	C	-16.03	2011-02-03	1996-07-31	Conserved NAD+ dependent histone deacetylase of the Sirtuin family; deacetylation targets are primarily nuclear proteins; required for telomere hypercluster formation in quiescent yeast cells; involved in regulation of lifespan; plays roles in silencing at HML, HMR, telomeres, and rDNA; negatively regulates initiation of DNA replication; functions as regulator of autophagy like mammalian homolog SIRT1, and also of mitophagy
+S000037155	CDS					YDL042C		4	378445	376757	C		2011-02-03	1996-07-31	
+S000002198	ORF	Verified	YDL040C	NAT1	peptide alpha-N-acetyltransferase complex A subunit NAT1|NAA15|AAA1	chromosome 4	L000000002	4	381438	378874	C	-14.93	2011-02-03	1996-07-31	Subunit of protein N-terminal acetyltransferase NatA; NatA comprised of Nat1p, Ard1p, and Nat5p; N-terminally acetylates many proteins to influence multiple processes such as cell cycle progression, heat-shock resistance, mating, sporulation, telomeric silencing and early stages of mitophagy; orthologous to human NAA15; expression of both human NAA10 and NAA15 functionally complements ard1 nat1 double mutant although single mutations are not complemented by their orthologs
+S000036986	CDS					YDL040C		4	381438	378874	C		2011-02-03	1996-07-31	
+S000002197	ORF	Verified	YDL039C	PRM7	pheromone-regulated protein PRM7|YDL038C	chromosome 4		4	384081	381985	C		2011-02-03	1996-07-31|2008-06-05	Pheromone-regulated protein; predicted to have one transmembrane segment; promoter contains Gcn4p binding elements; in W303 strain one continuous open reading frame comprising of YDL037C, the intergenic region and YDL039C encodes the IMI1
+S000035141	CDS					YDL039C		4	384081	381985	C		2011-02-03	1996-07-31|2008-06-05	
+S000002195	ORF	Verified	YDL037C	BSC1		chromosome 4		4	385587	384601	C		2011-02-03	1996-07-31	Protein of unconfirmed function; similar to cell surface flocculin Flo11p; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; in W303 strain one continuous open reading frame comprising of YDL037C, the intergenic region and YDL039C encodes the gene IMI1
+S000034059	CDS					YDL037C		4	385587	384601	C		2011-02-03	1996-07-31	
+S000002194	ORF	Verified	YDL036C	PUS9	pseudouridine synthase PUS9	chromosome 4		4	388901	387513	C		2011-02-03	1996-07-31	Mitochondrial tRNA:pseudouridine synthase; catalyzes the formation of pseudouridine at position 32 in mitochondrial tRNAs; contains an N-terminal mitochondrial targeting sequence; PUS9 has a paralog, RIB2, that arose from the whole genome duplication
+S000033903	CDS					YDL036C		4	388901	387513	C		2011-02-03	1996-07-31	
+S000002192	ORF	Dubious	YDL034W			chromosome 4		4	391783	392127	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps with verified gene GPR1/YDL035C; YDL034W is not an essential gene
+S000033108	CDS					YDL034W		4	391783	392127	W		2011-02-03	1996-07-31	
+S000002193	ORF	Verified	YDL035C	GPR1		chromosome 4	L000004298	4	392057	389172	C		2011-02-03	1996-07-31	Plasma membrane G protein coupled receptor (GPCR); interacts with the heterotrimeric G protein alpha subunit, Gpa2p, and with Plc1p; sensor that integrates nutritional signals with the modulation of cell fate via PKA and cAMP synthesis
+S000033783	CDS					YDL035C		4	392057	389172	C		2011-02-03	1996-07-31	
+S000002190	ORF	Dubious	YDL032W			chromosome 4		4	393690	394001	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene SLM3/YDL033C; YDL032W is not an essential gene
+S000032947	CDS					YDL032W		4	393690	394001	W		2011-02-03	1996-07-31	
+S000002191	ORF	Verified	YDL033C	SLM3	tRNA-5-taurinomethyluridine 2-sulfurtransferase|MTU1|MTO2	chromosome 4		4	393912	392659	C		2011-02-03	1996-07-31	tRNA-specific 2-thiouridylase; responsible for 2-thiolation of the wobble base of mitochondrial tRNAs; human homolog TRMU is implicated in myoclonus epilepsy associated with ragged red fibers (MERRF), and can complement yeast null mutant
+S000032981	CDS					YDL033C		4	393912	392659	C		2011-02-03	1996-07-31	
+S000002189	ORF	Verified	YDL031W	DBP10	putative ATP-dependent RNA helicase DBP10	chromosome 4	L000004557	4	394217	397204	W		2011-02-03	1996-07-31|2011-02-03	Putative ATP-dependent RNA helicase of the DEAD-box protein family; constituent of 66S pre-ribosomal particles; essential protein involved in ribosome biogenesis
+S000032837	CDS					YDL031W		4	394217	397204	W		2011-02-03	1996-07-31|2011-02-03	
+S000002188	ORF	Verified	YDL030W	PRP9	SF3a splicing factor complex subunit PRP9	chromosome 4	L000001501	4	397537	399129	W		2011-02-03	1996-07-31	Subunit of the SF3a splicing factor complex; required for spliceosome assembly; acts after the formation of the U1 snRNP-pre-mRNA complex
+S000031920	CDS					YDL030W		4	397537	399129	W		2011-02-03	1996-07-31	
+S000002187	ORF	Verified	YDL029W	ARP2	actin-related protein 2|ACT2	chromosome 4	L000000026	4	399340	400638	W		2011-02-03	1996-07-31	Essential component of the Arp2/3 complex; Arp2/3 is a highly conserved actin nucleation center required for the motility and integrity of actin patches; involved in endocytosis and membrane growth and polarity; required for efficient Golgi-to-ER trafficking in COPI mutants
+S000032598	CDS					YDL029W		4	399340	399361	W		2011-02-03	1996-07-31	
+S000032599	CDS					YDL029W		4	399485	400638	W		2011-02-03	1996-07-31	
+S000032600	intron					YDL029W		4	399362	399484	W		2011-02-03	1996-07-31	
+S000002186	ORF	Verified	YDL028C	MPS1	serine/threonine/tyrosine protein kinase MPS1|PAC8|RPK1	chromosome 4	L000001698	4	403291	400997	C		2011-02-03	1996-07-31|2011-02-03	Dual-specificity kinase; autophosphorylation required for function; required for spindle pole body (SPB) duplication and spindle checkpoint function; contributes to bi-orientation by promoting formation of force-generating kinetochore-microtubule attachments in meiosis I; substrates include SPB proteins Spc42p, Spc110p, and Spc98p, mitotic exit network protein Mob1p, kinetochore protein Cnn1p, and checkpoint protein Mad1p; substrate of APCC(Cdh1); similar to human Mps1p
+S000031526	CDS					YDL028C		4	403291	400997	C		2011-02-03	1996-07-31|2011-02-03	
+S000002184	ORF	Dubious	YDL026W			chromosome 4		4	404749	405060	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031360	CDS					YDL026W		4	404749	405060	W		2011-02-03	1996-07-31	
+S000002185	ORF	Uncharacterized	YDL027C	MRX9		chromosome 4		4	404957	403695	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YDL027C is not an essential gene
+S000031399	CDS					YDL027C		4	404957	403695	C		2011-02-03	1996-07-31	
+S000028610	ORF	Dubious	YDL025W-A			chromosome 4		4	405410	405514	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the ORF YDL025C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
+S000031440	CDS					YDL025W-A		4	405410	405514	W		2011-02-03	2003-07-29	
+S000002183	ORF	Verified	YDL025C	RTK1	putative serine/threonine protein kinase RTK1	chromosome 4		4	407206	405344	C		2011-02-03	1996-07-31	Putative protein kinase, potentially phosphorylated by Cdc28p; interacts with ribosome biogenesis factors, Cka2, Gus1 and Arc1; protein abundance increases in response to DNA replication stress
+S000030352	CDS					YDL025C		4	407206	405344	C		2011-02-03	1996-07-31	
+S000118433	ARS		ARS414		ARSIV-408	chromosome 4		4	408075	408316			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000002182	ORF	Verified	YDL024C	DIA3	putative acid phosphatase DIA3	chromosome 4		4	409857	408451	C		2011-02-03	1996-07-31	Protein of unknown function; involved in invasive and pseudohyphal growth
+S000030155	CDS					YDL024C		4	409857	408451	C		2011-02-03	1996-07-31	
+S000028537	ORF	Uncharacterized	YDL022C-A			chromosome 4		4	410056	409808	C		2011-02-03	2003-07-29	Protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cytosol; partially overlaps the verified gene DIA3; identified by fungal homology and RT-PCR; mRNA identified as translated by ribosome profiling data
+S000031146	CDS					YDL022C-A		4	410056	409808	C		2011-02-03	2003-07-29	
+S000006510	tRNA_gene		tA(AGC)D			chromosome 4	L000003763	4	410379	410451	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000032254	noncoding_exon					tA(AGC)D		4	410379	410451	W		2011-02-03	2000-05-19	
+S000002180	ORF	Verified	YDL022W	GPD1	glycerol-3-phosphate dehydrogenase (NAD(+)) GPD1|OSR5|OSG1|HOR1|DAR1	chromosome 4	L000000722	4	411825	413000	W		2011-02-03	1996-07-31	NAD-dependent glycerol-3-phosphate dehydrogenase; key enzyme of glycerol synthesis, essential for growth under osmotic stress; expression regulated by high-osmolarity glycerol response pathway; protein abundance increases in response to DNA replication stress; constitutively inactivated via phosphorylation by the protein kinases Ypk1p and Ypk2p, dephosphorylation increases catalytic activity; forms a heterodimer with Pnc1p to facilitate its peroxisomal import
+S000037411	CDS					YDL022W		4	411825	413000	W		2011-02-03	1996-07-31	
+S000002181	ORF	Dubious	YDL023C		SRF4	chromosome 4		4	412081	411761	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in other Saccharomyces species; overlaps the verified gene GPD1; deletion confers sensitivity to GSAO; deletion in cyr1 mutant results in loss of stress resistance
+S000037466	CDS					YDL023C		4	412081	411761	C		2011-02-03	1996-07-31	
+S000002179	ORF	Verified	YDL021W	GPM2	phosphoglycerate mutase family protein GPM2	chromosome 4	L000003294	4	413953	414888	W		2011-02-03	1996-07-31	Homolog of Gpm1p phosphoglycerate mutase; converts 3-phosphoglycerate to 2-phosphoglycerate in glycolysis; may be non-functional; GPM2 has a paralog, GPM3, that arose from the whole genome duplication
+S000037296	CDS					YDL021W		4	413953	414888	W		2011-02-03	1996-07-31	
+S000002178	ORF	Verified	YDL020C	RPN4	stress-regulated transcription factor RPN4|UFD5|SON1	chromosome 4	L000001984	4	416708	415113	C		2011-02-03	1996-07-31	Transcription factor that stimulates expression of proteasome genes; Rpn4p levels are in turn regulated by the 26S proteasome in a negative feedback control mechanism; RPN4 is transcriptionally regulated by various stress responses; relative distribution to the nucleus increases upon DNA replication stress
+S000036564	CDS					YDL020C		4	416708	415113	C		2011-02-03	1996-07-31	
+S000002177	ORF	Verified	YDL019C	OSH2	oxysterol-binding protein related protein OSH2	chromosome 4		4	421514	417663	C		2011-02-03	1996-07-31	Member of an oxysterol-binding protein family with seven members; in S. cerevisiae, family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability; contains FFAT motif; interacts with ER anchor Scs2p at patches at the plasma membrane and at the nuclear envelope; regulated by sterol binding; OSH2 has a paralog, SWH1, that arose from the whole genome duplication
+S000035539	CDS					YDL019C		4	421514	417663	C		2011-02-03	1996-07-31	
+S000002176	ORF	Verified	YDL018C	ERP3		chromosome 4	L000004680	4	423510	422833	C		2011-02-03	1996-07-31	Protein with similarity to Emp24p and Erv25p; member of the p24 family involved in ER to Golgi transport
+S000035452	CDS					YDL018C		4	423510	422833	C		2011-02-03	1996-07-31	
+S000002175	ORF	Verified	YDL017W	CDC7	serine/threonine protein kinase CDC7|SAS1|LSD6	chromosome 4	L000000247	4	424209	425732	W	-1	2011-02-03	1996-07-31	DDK (Dbf4-dependent kinase) catalytic subunit; required for origin firing and replication fork progression in mitotic S phase through phosphorylation of Mcm2-7p complexes and Cdc45p; kinase activity correlates with cyclical DBF4 expression; required for pre-meiotic DNA replication, meiotic DSB formation, recruitment of monopolin complex to kinetochores during meiosis I, regulation of meiosis-specific Ndt80p; mutation complemented by human CDC7 and DBF4 co-expression
+S000035373	CDS					YDL017W		4	424209	425732	W		2011-02-03	1996-07-31	
+S000002174	ORF	Dubious	YDL016C			chromosome 4		4	425872	425570	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CDC7/YDL153C, the catalytic subunit of a complex that regulates DNA replication
+S000034291	CDS					YDL016C		4	425872	425570	C		2011-02-03	1996-07-31	
+S000002173	ORF	Verified	YDL015C	TSC13	trans-2-enoyl-CoA reductase (NADPH) TSC13	chromosome 4		4	426934	426002	C		2011-02-03	1996-07-31	Enoyl reductase; catalyzes last step in each cycle of very long chain fatty acid elongation; localizes to ER, highly enriched in a structure marking nuclear-vacuolar junctions; coimmunoprecipitates with elongases Elo2p and Elo3p; protein increases in abundance and relative distribution to ER foci increases upon DNA replication stress; human homolog TECR implicated in nonsyndromic mental retardation, can complement yeast mutant
+S000034157	CDS					YDL015C		4	426934	426002	C		2011-02-03	1996-07-31	
+S000002172	ORF	Verified	YDL014W	NOP1	rRNA methyltransferase NOP1|LOT3	chromosome 4	L000001260	4	427364	428347	W	-1.93	2011-02-03	1996-07-31	Histone glutamine methyltransferase, modifies H2A at Q105 in nucleolus; component of the small subunit processome complex, which is required for processing of pre-18S rRNA; ortholog of mammalian fibrillarin; inviability of the null mutant is functionally complemented by human FBL
+S000034123	CDS					YDL014W		4	427364	428347	W		2011-02-03	1996-07-31	
+S000002171	ORF	Verified	YDL013W	SLX5	SUMO-targeted ubiquitin ligase complex subunit SLX5|ULS2|HEX3	chromosome 4	L000000768	4	429067	430926	W	-1.69	2011-02-03	1996-07-31	Subunit of the Slx5-Slx8 SUMO-targeted Ub ligase (STUbL) complex; role in Ub-mediated degradation of histone variant Cse4p preventing mislocalization to euchromatin; role in proteolysis of spindle positioning protein Kar9p, and DNA repair proteins Rad52p and Rad57p; forms SUMO-dependent nuclear foci, including DNA repair centers; contains a RING domain and two SIM motifs; associates with the centromere; required for maintenance of genome integrity like human ortholog RNF4
+S000033268	CDS					YDL013W		4	429067	430926	W		2011-02-03	1996-07-31	
+S000002170	ORF	Verified	YDL012C			chromosome 4		4	431517	431108	C		2011-02-03	1996-07-31	Tail-anchored plasma membrane protein with a conserved CYSTM module; possibly involved in response to stress; may contribute to non-homologous end-joining (NHEJ) based on ydl012c htz1 double null phenotype; YDL012C has a paralog, YBR016W, that arose from the whole genome duplication
+S000033170	CDS					YDL012C		4	431386	431108	C		2011-02-03	1996-07-31	
+S000033169	CDS					YDL012C		4	431517	431473	C		2011-02-03	1996-07-31	
+S000033171	intron					YDL012C		4	431472	431387	C		2011-02-03	1996-07-31	
+S000002168	ORF	Verified	YDL010W	GRX6	glutathione-disulfide reductase GRX6	chromosome 4		4	432330	433025	W		2011-02-03	1996-07-31	Cis-golgi localized monothiol glutaredoxin, binds Fe-S cluster; more similar in activity to dithiol than other monothiol glutaredoxins; involved in the oxidative stress response; GRX6 has a paralog, GRX7, that arose from the whole genome duplication
+S000032278	CDS					YDL010W		4	432330	433025	W		2011-02-03	1996-07-31	
+S000002169	ORF	Dubious	YDL011C			chromosome 4		4	432631	432308	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the uncharacterized ORF YDL010W
+S000032316	CDS					YDL011C		4	432631	432308	C		2011-02-03	1996-07-31	
+S000002167	ORF	Uncharacterized	YDL009C			chromosome 4		4	433248	432925	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA identified as translated by ribosome profiling data; SWAT-GFP and mCherry fusion proteins localize to the cytosol; partially overlaps the verified ORF YDL010W; YDL009C is not an essential gene
+S000032265	CDS					YDL009C		4	433248	432925	C		2011-02-03	1996-07-31	
+S000002166	ORF	Verified	YDL008W	APC11	anaphase promoting complex subunit 11	chromosome 4	L000004322	4	433497	433994	W		2011-02-03	1996-07-31	Catalytic core subunit, Anaphase-Promoting Complex/Cyclosome (APC/C); which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; contains a RING-H2 domain that is required for activity
+S000032227	CDS					YDL008W		4	433497	433994	W		2011-02-03	1996-07-31	
+S000006739	tRNA_gene		tT(AGU)D			chromosome 4	L000003788	4	434336	434264	C		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000032153	noncoding_exon					tT(AGU)D		4	434336	434264	C		2011-02-03	2000-05-19	
+S000006842	long_terminal_repeat		YDLCdelta1			chromosome 4		4	434739	434423	C		2011-02-03	2000-05-19	Ty1 LTR
+S000130173	ARS		ARS415			chromosome 4		4	434971	435320			2014-11-18	2014-11-18|2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000113557	ORF	Uncharacterized	YDL007C-A			chromosome 4		4	436824	436567	C		2011-02-03	2005-11-17	Putative protein of unknown function
+S000113558	CDS					YDL007C-A		4	436824	436567	C		2011-02-03	2005-11-17	
+S000006843	long_terminal_repeat		YDLWtau1			chromosome 4		4	437149	437518	W		2011-02-03	2000-05-19	Ty4 LTR
+S000006721	tRNA_gene		tS(AGA)D1			chromosome 4	L000003764	4	437772	437853	W		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000031630	noncoding_exon					tS(AGA)D1		4	437772	437853	W		2011-02-03	2000-05-19	
+S000002165	ORF	Verified	YDL007W	RPT2	proteasome regulatory particle base subunit RPT2|YTA5|YHS4	chromosome 4	L000002559	4	438047	439360	W		2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; required for normal peptide hydrolysis by the core 20S particle; N-myristoylation of Rpt2p at Gly2 is involved in regulating the proper intracellular distribution of proteasome activity by controlling the nuclear localization of the 26S proteasome
+S000031210	CDS					YDL007W		4	438047	439360	W		2011-02-03	1996-07-31	
+S000002164	ORF	Verified	YDL006W	PTC1	type 2C protein phosphatase PTC1|TPD1|KCS2|CWH47	chromosome 4	L000000890|L000001523	4	439909	440754	W		2011-02-03	1996-07-31	Type 2C protein phosphatase (PP2C); dephosphorylates Hog1p, inactivating osmosensing MAPK cascade; involved in Fus3p activation during pheromone response; deletion affects precursor tRNA splicing, mitochondrial inheritance, and sporulation
+S000031084	CDS					YDL006W		4	439909	440754	W		2011-02-03	1996-07-31	
+S000002163	ORF	Verified	YDL005C	MED2		chromosome 4	L000003914	4	442309	441014	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; relocalizes to the cytosol in response to hypoxia
+S000030042	CDS					YDL005C		4	442309	441014	C		2011-02-03	1996-07-31	
+S000002162	ORF	Verified	YDL004W	ATP16	F1F0 ATP synthase subunit delta	chromosome 4	L000000150	4	443029	443511	W		2011-02-03	1996-07-31	Delta subunit of the central stalk of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; F1 translationally regulates ATP6 and ATP8 expression to achieve a balanced output of ATP synthase genes encoded in nucleus and mitochondria; phosphorylated
+S000030001	CDS					YDL004W		4	443029	443511	W		2011-02-03	1996-07-31	
+S000002161	ORF	Verified	YDL003W	MCD1	kleisin alpha|SCC1|RHC21|PDS3	chromosome 4	L000002676	4	444683	446383	W		2011-02-03	1996-07-31	Essential alpha-kleisin subunit of the cohesin complex; required for sister chromatid cohesion in mitosis and meiosis; apoptosis induces cleavage and translocation of a C-terminal fragment to mitochondria; expression peaks in S phase
+S000029870	CDS					YDL003W		4	444683	446383	W		2011-02-03	1996-07-31	
+S000002160	ORF	Verified	YDL002C	NHP10	HMO2	chromosome 4	L000002765	4	447578	446967	C		2011-02-03	1996-07-31	Non-essential INO80 chromatin remodeling complex subunit; preferentially binds DNA ends, protecting them from exonucleatic cleavage; deletion affects telomere maintenance via recombination; related to mammalian high mobility group proteins
+S000037122	CDS					YDL002C		4	447578	446967	C		2011-02-03	1996-07-31	
+S000002159	ORF	Verified	YDL001W	RMD1		chromosome 4		4	447984	449276	W		2011-02-03	1996-07-31	Cytoplasmic protein required for sporulation
+S000037078	CDS					YDL001W		4	447984	449276	W		2011-02-03	1996-07-31	
+S000006466	centromere		CEN4	CEN4		chromosome 4	L000000297	4	449711	449821	W	0	2011-02-03	2000-05-19|2006-05-08	Chromosome IV centromere
+S000077266	centromere_DNA_Element_I					CEN4		4	449711	449720	W		2011-02-03	2004-10-04	
+S000077267	centromere_DNA_Element_II					CEN4		4	449721	449796	W		2011-02-03	2004-10-04	
+S000077268	centromere_DNA_Element_III					CEN4		4	449797	449821	W		2011-02-03	2004-10-04	
+S000002408	ORF	Verified	YDR001C	NTH1	alpha,alpha-trehalase NTH1	chromosome 4	L000001280	4	452475	450220	C		2011-02-03	1996-07-31	Neutral trehalase, degrades trehalose; required for thermotolerance and may mediate resistance to other cellular stresses; phosphorylated and activated by Cdc28p at the G1/S phase transition to coordinately regulate carbohydrate metabolism and the cell cycle; inhibited by Dcs1p; NTH1 has a paralog, NTH2, that arose from the whole genome duplication
+S000033545	CDS					YDR001C		4	452475	450220	C		2011-02-03	1996-07-31	
+S000002409	ORF	Verified	YDR002W	YRB1	Ran GTPase-binding protein YRB1|STP52|SFO1|HTN1|CST20	chromosome 4	L000001871|S000029527|L000002134	4	453045	453650	W		2011-02-03	1996-07-31	Ran GTPase binding protein; involved in nuclear protein import and RNA export, ubiquitin-mediated protein degradation during the cell cycle; shuttles between the nucleus and cytoplasm; is essential; homolog of human RanBP1
+S000034475	CDS					YDR002W		4	453045	453650	W		2011-02-03	1996-07-31	
+S000002410	ORF	Verified	YDR003W	RCR2	SSH5	chromosome 4	S000029511|L000002952	4	454122	454754	W		2011-02-03	1996-07-31	Vacuolar protein; presumably functions within the endosomal-vacuolar trafficking pathway, affecting events that determine whether plasma membrane proteins are degraded or routed to the plasma membrane; RCR2 has a paralog, RCR1, that arose from the whole genome duplication
+S000034587	CDS					YDR003W		4	454122	454754	W		2011-02-03	1996-07-31	
+S000028819	ORF	Uncharacterized	YDR003W-A			chromosome 4		4	454782	454904	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000033630	CDS					YDR003W-A		4	454782	454904	W		2011-02-03	2003-07-29	
+S000002411	ORF	Verified	YDR004W	RAD57	putative DNA-dependent ATPase RAD57	chromosome 4	L000001577	4	455201	456583	W	2	2011-02-03	1996-07-31	Protein that stimulates strand exchange; stimulates strand exchange by stabilizing the binding of Rad51p to single-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; forms heterodimer with Rad55p
+S000034681	CDS					YDR004W		4	455201	456583	W		2011-02-03	1996-07-31	
+S000002412	ORF	Verified	YDR005C	MAF1	RNA polymerase III-inhibiting protein MAF1	chromosome 4	L000002614	4	458103	456836	C		2011-02-03	1996-07-31	Highly conserved negative regulator of RNA polymerase III; involved in tRNA processing and stability; inhibits tRNA degradation via rapid tRNA decay (RTD) pathway; binds N-terminal domain of Rpc160p subunit of Pol III to prevent closed-complex formation; regulated by phosphorylation mediated by TORC1, protein kinase A, Sch9p, casein kinase 2; localizes to cytoplasm during vegetative growth and translocates to nucleus and nucleolus under stress conditions
+S000034763	CDS					YDR005C		4	458017	456836	C		2011-02-03	1996-07-31	
+S000034762	CDS					YDR005C		4	458103	458098	C		2011-02-03	1996-07-31	
+S000034764	intron					YDR005C		4	458097	458018	C		2011-02-03	1996-07-31	
+S000002413	ORF	Verified	YDR006C	SOK1		chromosome 4	L000001983	4	461247	458542	C		2011-02-03	1996-07-31	Protein of unknown function; overexpression suppresses the growth defect of mutants lacking protein kinase A activity; involved in cAMP-mediated signaling; localized to the nucleus; similar to the mouse testis-specific protein PBS13
+S000035723	CDS					YDR006C		4	461247	458542	C		2011-02-03	1996-07-31	
+S000002414	ORF	Verified	YDR007W	TRP1	phosphoribosylanthranilate isomerase TRP1	chromosome 4	L000002352	4	461842	462516	W	1	2011-02-03	2004-02-11|1996-07-31	Phosphoribosylanthranilate isomerase; catalyzes the third step in tryptophan biosynthesis; in 2004, the sequence of TRP1 from strain S228C was updated by changing the previously annotated internal STOP (TAA) to serine (TCA); enhances vegetative growth at low and high temperatures when used as an auxotrophic marker in strains such as W303
+S000035920	CDS					YDR007W		4	461842	462516	W		2011-02-03	2004-02-11|1996-07-31	
+S000029652	ARS		ARS416	ARS1		chromosome 4	S000007454	4	462567	462622			2014-11-18	2014-11-18|2006-04-10	Early-firing autonomously replicating sequence; highly efficient chromosomal replicator active in nearly every cell cycle
+S000121228	ARS_consensus_sequence					ARS416		4	462606	462596	C		2011-02-03	2007-03-06	
+S000002415	ORF	Dubious	YDR008C			chromosome 4		4	462602	462252	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps TRP1/YDR007W on opposite strand
+S000035999	CDS					YDR008C		4	462602	462252	C		2011-02-03	1996-07-31	
+S000002416	ORF	Verified	YDR009W	GAL3	transcriptional regulator GAL3	chromosome 4	L000000660	4	463434	464996	W	1	2011-02-03	1996-07-31	Transcriptional regulator; involved in activation of the GAL genes in response to galactose; forms a complex with Gal80p to relieve Gal80p inhibition of Gal4p; binds galactose and ATP but does not have galactokinase activity; GAL3 has a paralog, GAL1, that arose from the whole genome duplication
+S000037895	CDS					YDR009W		4	463434	464996	W		2011-02-03	1996-07-31	
+S000002417	ORF	Dubious	YDR010C			chromosome 4		4	465383	465051	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037562	CDS					YDR010C		4	465383	465051	C		2011-02-03	1996-07-31	
+S000002418	ORF	Verified	YDR011W	SNQ2	ATP-binding cassette transporter SNQ2	chromosome 4	L000001957	4	465919	470424	W		2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; multidrug transporter involved in multidrug resistance and resistance to singlet oxygen species
+S000037672	CDS					YDR011W		4	465919	470424	W		2011-02-03	1996-07-31	
+S000002419	ORF	Verified	YDR012W	RPL4B	uL4|ribosomal 60S subunit protein L4B|L4|rp2|YL2|L4B|L2B	chromosome 4	L000001702	4	471853	472941	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L4B; homologous to mammalian ribosomal protein L4 and bacterial L4; RPL4B has a paralog, RPL4A, that arose from the whole genome duplication
+S000037729	CDS					YDR012W		4	471853	472941	W		2011-02-03	1996-07-31	
+S000002420	ORF	Verified	YDR013W	PSF1	DNA replication protein PSF1|CDC101	chromosome 4		4	473157	473783	W		2011-02-03	1996-07-31	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p); complex is localized to DNA replication origins and implicated in assembly of the DNA replication machinery
+S000037779	CDS					YDR013W		4	473157	473783	W		2011-02-03	1996-07-31	
+S000002421	ORF	Verified	YDR014W	RAD61	WPL1	chromosome 4		4	474046	475989	W		2011-02-03	1996-07-31	Subunit of a complex that inhibits sister chromatid cohesion; also negatively regulates chromosome condensation; inhibited by Eco1p-acetylated cohesin subunits Smc3p and Mcd1p; binds Smc3p ATPase head of cohesin; related to the human Wapl protein that controls the association of cohesin with chromatin
+S000030660	CDS					YDR014W		4	474046	475989	W		2011-02-03	1996-07-31	
+S000113613	ORF	Verified	YDR014W-A	HED1		chromosome 4		4	477797	478285	W		2011-02-03	2006-04-14	Meiosis-specific protein; down-regulates Rad51p-mediated mitotic recombination when the meiotic recombination machinery is impaired; promotes synapsis and required for the normal morphogenesis of synaptonemal complex; prevents the recruitment of Rad54p to site-specific DNA double-strand breaks in vivo; early meiotic gene, transcribed specifically during meiotic prophase
+S000114898	CDS					YDR014W-A		4	477797	478285	W		2011-02-03	2006-04-14	
+S000002422	ORF	Dubious	YDR015C			chromosome 4		4	478199	477960	C		2011-02-03	1996-07-31|2006-04-13	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene HED1/YDR014W-A
+S000030702	CDS					YDR015C		4	478199	477960	C		2011-02-03	1996-07-31|2006-04-13	
+S000002423	ORF	Verified	YDR016C	DAD1		chromosome 4		4	478758	478474	C		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
+S000030807	CDS					YDR016C		4	478758	478474	C		2011-02-03	1996-07-31	
+S000002424	ORF	Verified	YDR017C	KCS1	inositol polyphosphate kinase KCS1	chromosome 4	L000000889	4	482267	479115	C		2011-02-03	1996-07-31	Inositol hexakisphosphate and inositol heptakisphosphate kinase; generation of high energy inositol pyrophosphates by Kcs1p is required for many processes such as vacuolar biogenesis, stress response, RNA polymerase I-mediated rRNA transcription and telomere maintenance; inositol hexakisphosphate is also known as IP6; inositol heptakisphosphate is also known as IP7
+S000031751	CDS					YDR017C		4	482267	479115	C		2011-02-03	1996-07-31	
+S000002425	ORF	Uncharacterized	YDR018C		putative acyltransferase	chromosome 4		4	483860	482670	C		2011-02-03	1996-07-31	Probable membrane protein with three predicted transmembrane domains; similar to C. elegans F55A11.5 and maize 1-acyl-glycerol-3-phosphate acyltransferase; YDR018C has a paralog, CST26, that arose from the whole genome duplication
+S000031907	CDS					YDR018C		4	483860	482670	C		2011-02-03	1996-07-31	
+S000118434	ARS		ARS417		ARSIV-484	chromosome 4		4	484006	484059			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178068	ARS_consensus_sequence					ARS417		4	484035	484019	C		2014-11-18	2014-11-18	
+S000002426	ORF	Verified	YDR019C	GCV1	glycine decarboxylase subunit T|GSD1	chromosome 4	L000002736	4	485365	484163	C		2011-02-03	1996-07-31	T subunit of the mitochondrial glycine decarboxylase complex; glycine decarboxylase is required for the catabolism of glycine to 5,10-methylene-THF; expression is regulated by levels of levels of 5,10-methylene-THF in the cytoplasm
+S000032068	CDS					YDR019C		4	485365	484163	C		2011-02-03	1996-07-31	
+S000002427	ORF	Uncharacterized	YDR020C	DAS2	putative uridine kinase DAS2|RRT3	chromosome 4		4	486444	485746	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription; weak similarity with uridine kinases and with phosphoribokinases
+S000032817	CDS					YDR020C		4	486444	485746	C		2011-02-03	1996-07-31	
+S000002428	ORF	Verified	YDR021W	FAL1	ATP-dependent RNA helicase FAL1	chromosome 4	L000003480	4	486804	488003	W		2011-02-03	1996-07-31	Nucleolar protein required for maturation of 18S rRNA; member of the eIF4A subfamily of DEAD-box ATP-dependent RNA helicases; 18S rRNA biogenesis defect of the null mutant is functionally complemented by human EIF4A3
+S000032973	CDS					YDR021W		4	486804	488003	W		2011-02-03	1996-07-31	
+S000002429	ORF	Verified	YDR022C	ATG31	CIS1	chromosome 4	L000003475	4	488662	488072	C		2011-02-03	1996-07-31	Autophagy-specific protein required for autophagosome formation; forms a complex with Atg17p and Atg29p that localizes other proteins to the pre-autophagosomal structure; constitutively phosphorylated, and phosphorylation of residue S174 is required for function; high-copy suppressor of CIK1 deletion
+S000033002	CDS					YDR022C		4	488662	488072	C		2011-02-03	1996-07-31	
+S000006770	tRNA_gene		tV(UAC)D			chromosome 4	L000003787	4	488870	488797	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000036290	noncoding_exon					tV(UAC)D		4	488870	488797	C		2011-02-03	2000-05-19	
+S000002430	ORF	Verified	YDR023W	SES1	serine--tRNA ligase SES1|SerRS	chromosome 4	L000001867	4	489508	490896	W		2011-02-03	1996-07-31	Cytosolic seryl-tRNA synthetase; class II aminoacyl-tRNA synthetase that aminoacylates tRNA(Ser), displays tRNA-dependent amino acid recognition which enhances discrimination of the serine substrate, interacts with peroxin Pex21p
+S000033710	CDS					YDR023W		4	489508	490896	W		2011-02-03	1996-07-31	
+S000002431	ORF	Dubious	YDR024W	FYV1		chromosome 4		4	491017	491502	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; mutation decreases survival upon exposure to K1 killer toxin
+S000033822	CDS					YDR024W		4	491017	491502	W		2011-02-03	1996-07-31	
+S000002432	ORF	Verified	YDR025W	RPS11A	uS17|ribosomal 40S subunit protein S11A|S17|rp41A|YS12|S18A|S11A	chromosome 4	L000001757	4	491515	492324	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S11 and bacterial S17; N-terminally propionylated in vivo; RPS11A has a paralog, RPS11B, that arose from the whole genome duplication
+S000033919	CDS					YDR025W		4	491515	491559	W		2011-02-03	1996-07-31	
+S000033920	CDS					YDR025W		4	491899	492324	W		2011-02-03	1996-07-31	
+S000033921	intron					YDR025W		4	491560	491898	W		2011-02-03	1996-07-31	
+S000002433	ORF	Verified	YDR026C	NSI1	YTT1	chromosome 4		4	494268	492556	C		2011-02-03	1996-07-31	RNA polymerase I termination factor; binds to rDNA terminator element, required for efficient Pol I termination; required for rDNA silencing at NTS1; facilities association of Sir2p with NTS1, contributes to rDNA stability and cell longevity; interacts physically with Fob1p and RENT subunits, Sir2p and Net1p; may interact with ribosomes, based on co-purification experiments; Myb-like DNA-binding protein; NSI1 has a paralog, REB1, that arose from the whole genome duplication
+S000033977	CDS					YDR026C		4	494268	492556	C		2011-02-03	1996-07-31	
+S000002434	ORF	Verified	YDR027C	VPS54	TCS3|CGP1|LUV1	chromosome 4	L000004648	4	497318	494649	C		2011-02-03	1996-07-31	Component of the GARP (Golgi-associated retrograde protein) complex; GARP is required for the recycling of proteins from endosomes to the late Golgi, and for mitosis after DNA damage induced checkpoint arrest; potentially phosphorylated by Cdc28p; members of the GARP complex are Vps51p-Vps52p-Vps53p-Vps54p
+S000034876	CDS					YDR027C		4	497318	494649	C		2011-02-03	1996-07-31	
+S000002435	ORF	Verified	YDR028C	REG1	protein phosphatase regulator REG1|SRN1|SPP43|PZF240|HEX2	chromosome 4	L000001609	4	500879	497835	C	2.79	2011-02-03	1996-07-31	Regulatory subunit of type 1 protein phosphatase Glc7p; involved in negative regulation of glucose-repressible genes; involved in regulation of the nucleocytoplasmic shuttling of Hxk2p; REG1 has a paralog, REG2, that arose from the whole genome duplication
+S000035027	CDS					YDR028C		4	500879	497835	C		2011-02-03	1996-07-31	
+S000002436	ORF	Uncharacterized	YDR029W			chromosome 4		4	501100	501414	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR029W is not an essential gene
+S000035276	CDS					YDR029W		4	501100	501414	W		2011-02-03	1996-07-31	
+S000002437	ORF	Verified	YDR030C	RAD28		chromosome 4	L000004123	4	503273	501753	C		2011-02-03	1996-07-31	Protein involved in DNA repair; related to the human CSA protein that is involved in transcription-coupled repair nucleotide excision repair
+S000036180	CDS					YDR030C		4	503273	501753	C		2011-02-03	1996-07-31	
+S000002438	ORF	Verified	YDR031W	MIX14	MIC14	chromosome 4		4	503498	503863	W		2011-02-03	2004-07-22|1996-07-31	Mitochondrial intermembrane space protein of unknown function; required for normal oxygen consumption; contains twin cysteine-x9-cysteine motifs; protein abundance increases in response to DNA replication stress
+S000036965	CDS					YDR031W		4	503498	503863	W		2011-02-03	2004-07-22|1996-07-31	
+S000002439	ORF	Verified	YDR032C	PST2	flavodoxin-like fold family protein	chromosome 4		4	504695	504099	C		2011-02-03	1996-07-31	Protein with similarity to a family of flavodoxin-like proteins; induced by oxidative stress in a Yap1p dependent manner; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress; PST2 has a paralog, RFS1, that arose from the whole genome duplication
+S000036988	CDS					YDR032C		4	504695	504099	C		2011-02-03	1996-07-31	
+S000119069	ARS		ARS450		ARSIV-506|ARS417.5	chromosome 4		4	505343	505584			2011-02-03	2006-10-05	Autonomously Replicating Sequence
+S000002440	ORF	Verified	YDR033W	MRH1		chromosome 4		4	508147	509109	W		2011-02-03	1996-07-31	Protein that localizes primarily to the plasma membrane; also found at the nuclear envelope; long-lived protein that is asymmetrically retained in the plasma membrane of mother cells; the authentic, non-tagged protein is detected in mitochondria in a phosphorylated state; null mutation confers sensitivity to acetic acid
+S000037115	CDS					YDR033W		4	508147	509109	W		2011-02-03	1996-07-31	
+S000002441	ORF	Verified	YDR034C	LYS14		chromosome 4	L000000971	4	512109	509737	C	8	2011-02-03	1996-07-31	Transcriptional activator involved in regulating lysine biosynthesis; involved in the regulation of genes of the lysine biosynthesis pathway; requires 2-aminoadipate semialdehyde as co-inducer
+S000037166	CDS					YDR034C		4	512109	509737	C		2011-02-03	1996-07-31	
+S000006844	long_terminal_repeat		YDRCdelta2			chromosome 4		4	513258	512986	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006845	long_terminal_repeat		YDRCdelta3			chromosome 4		4	513590	513259	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006846	long_terminal_repeat		YDRCdelta4			chromosome 4		4	514020	513692	C		2011-02-03	2000-05-19	Ty2 LTR
+S000007345	transposable_element_gene		YDR034C-D		gag-pol fusion protein	chromosome 4		4	519356	514043	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000035118	CDS					YDR034C-D		4	518062	514043	C		2011-02-03	1999-07-17	
+S000035117	CDS					YDR034C-D		4	519356	518064	C		2011-02-03	1999-07-17	
+S000035119	plus_1_translational_frameshift					YDR034C-D		4	518063	518063	C		2011-02-03	1999-07-17	
+S000007344	transposable_element_gene		YDR034C-C		gag protein	chromosome 4		4	519356	518040	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000035078	CDS					YDR034C-C		4	519356	518040	C		2011-02-03	1999-07-17	
+S000006862	LTR_retrotransposon		YDRCTy2-1		Ty2	chromosome 4		4	519647	513692	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000006847	long_terminal_repeat		YDRCdelta5			chromosome 4		4	519647	519316	C		2011-02-03	2000-05-19	Ty2 LTR
+S000006649	tRNA_gene		tL(UAA)D			chromosome 4	L000003765	4	519743	519826	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000037383	noncoding_exon					tL(UAA)D		4	519743	519826	W		2011-02-03	2000-05-19	
+S000006848	long_terminal_repeat		YDRCdelta6a			chromosome 4		4	520475	520173	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006863	long_terminal_repeat		YDRWdelta7			chromosome 4		4	520477	520805	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007233	ORF	Uncharacterized	YDR034C-A			chromosome 4		4	520692	520516	C		2011-02-03	1999-07-17	Putative protein of unknown function; contained within the solo Ty1 LTR element YDRWdelta7
+S000035073	CDS					YDR034C-A		4	520692	520516	C		2011-02-03	1999-07-17	
+S000006849	long_terminal_repeat		YDRCdelta6b			chromosome 4		4	520833	520806	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006693	tRNA_gene		tQ(UUG)D1			chromosome 4	L000003766	4	520972	521043	W		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034805	noncoding_exon					tQ(UUG)D1		4	520972	521043	W		2011-02-03	2000-05-19	
+S000007234	ORF	Uncharacterized	YDR034W-B			chromosome 4		4	521314	521469	W		2011-02-03	1999-07-17	Predicted tail-anchored plasma membrane protein; contains conserved CYSTM module; related proteins in other organisms may be involved in response to stress; N- and C-terminal fusion proteins localize to the cell periphery; YDR034W-B has a paralog, YBR056W-A, that arose from the whole genome duplication
+S000030044	CDS					YDR034W-B		4	521314	521469	W		2011-02-03	1999-07-17	
+S000002442	ORF	Verified	YDR035W	ARO3	3-deoxy-7-phosphoheptulonate synthase ARO3	chromosome 4	L000000118	4	521816	522928	W		2011-02-03	1996-07-31	3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) synthase; catalyzes the first step in aromatic amino acid biosynthesis and is feedback-inhibited by phenylalanine or high concentration of tyrosine or tryptophan
+S000029906	CDS					YDR035W		4	521816	522928	W		2011-02-03	1996-07-31	
+S000002443	ORF	Verified	YDR036C	EHD3	MRP5	chromosome 4		4	524713	523211	C		2011-02-03	1996-07-31	3-hydroxyisobutyryl-CoA hydrolase; member of a family of enoyl-CoA hydratase/isomerases; non-tagged protein is detected in highly purified mitochondria in high-throughput studies; phosphorylated; mutation affects fluid-phase endocytosis
+S000029947	CDS					YDR036C		4	524713	523211	C		2011-02-03	1996-07-31	
+S000002444	ORF	Verified	YDR037W	KRS1	lysine--tRNA ligase KRS1|GCD5	chromosome 4	L000000673|L000000919	4	525440	527215	W		2011-02-03	1996-07-31	Lysyl-tRNA synthetase
+S000031019	CDS					YDR037W		4	525440	527215	W		2011-02-03	1996-07-31	
+S000002445	ORF	Verified	YDR038C	ENA5	putative Na(+)-exporting P-type ATPase ENA5	chromosome 4	L000003293	4	530697	527422	C		2011-02-03	1996-07-31	Protein with similarity to P-type ATPase sodium pumps; member of the Na+ efflux ATPase family
+S000031057	CDS					YDR038C		4	530697	527422	C		2011-02-03	1996-07-31	
+S000002446	ORF	Verified	YDR039C	ENA2	Na(+)-exporting P-type ATPase ENA2	chromosome 4	L000000556	4	534582	531307	C		2011-02-03	1996-07-31	P-type ATPase sodium pump; involved in Na+ efflux to allow salt tolerance; likely not involved in Li+ efflux
+S000031179	CDS					YDR039C		4	534582	531307	C		2011-02-03	1996-07-31	
+S000002447	ORF	Verified	YDR040C	ENA1	Na(+)/Li(+)-exporting P-type ATPase ENA1|PMR2|HOR6	chromosome 4	L000001456	4	538467	535192	C	15	2011-02-03	1996-07-31	P-type ATPase sodium pump; involved in Na+ and Li+ efflux to allow salt tolerance
+S000032116	CDS					YDR040C		4	538467	535192	C		2011-02-03	1996-07-31	
+S000002448	ORF	Verified	YDR041W	RSM10	mitochondrial 37S ribosomal protein RSM10	chromosome 4		4	539803	540414	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S10 ribosomal protein; essential for viability, unlike most other mitoribosomal proteins
+S000032233	CDS					YDR041W		4	539803	540414	W		2011-02-03	1996-07-31	
+S000002449	ORF	Uncharacterized	YDR042C			chromosome 4		4	541203	540601	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression is increased in ssu72-ts69 mutant
+S000032269	CDS					YDR042C		4	541203	540601	C		2011-02-03	1996-07-31	
+S000006507	snoRNA_gene		snR47	SNR47		chromosome 4	L000003414	4	541700	541602	C		2011-02-03	2000-05-19|2007-04-04	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A2220 and small subunit (SSU) rRNA at position A619
+S000030649	noncoding_exon					snR47		4	541700	541602	C		2011-02-03	2000-05-19|2007-04-04	
+S000002450	ORF	Verified	YDR043C	NRG1	transcriptional regulator NRG1	chromosome 4	L000004598	4	543369	542674	C		2011-02-03	1996-07-31	Transcriptional repressor; recruits the Cyc8p-Tup1p complex to promoters; mediates glucose repression and negatively regulates a variety of processes including filamentous growth and alkaline pH response; activated in stochastic pulses of nuclear localization in response to low glucose
+S000033143	CDS					YDR043C		4	543369	542674	C		2011-02-03	1996-07-31	
+S000002451	ORF	Verified	YDR044W	HEM13	coproporphyrinogen oxidase	chromosome 4	L000000765	4	546642	547628	W		2011-02-03	1996-07-31	Coproporphyrinogen III oxidase; oxygen-requiring enzyme that catalyzes sixth step in heme biosynthetic pathway; transcription is repressed by oxygen and heme (via Rox1p and Hap1p); human homolog CPOX can complement yeast mutant and allow growth of haploid null after sporulation of a heterozygous diploid
+S000033232	CDS					YDR044W		4	546642	547628	W		2011-02-03	1996-07-31	
+S000002452	ORF	Verified	YDR045C	RPC11	DNA-directed RNA polymerase III core subunit RPC11|C11	chromosome 4	L000004954	4	548310	547978	C		2011-02-03	1996-07-31	RNA polymerase III subunit C11; mediates pol III RNA cleavage activity and is important for termination of transcription; homologous to TFIIS
+S000033256	CDS					YDR045C		4	548310	547978	C		2011-02-03	1996-07-31	
+S000002453	ORF	Verified	YDR046C	BAP3	amino acid transporter BAP3|PAP1	chromosome 4	L000004277	4	550576	548762	C		2011-02-03	1996-07-31	Amino acid permease; involved in uptake of cysteine, leucine, isoleucine and valine; BAP3 has a paralog, BAP2, that arose from the whole genome duplication
+S000033308	CDS					YDR046C		4	550576	548762	C		2011-02-03	1996-07-31	
+S000002454	ORF	Verified	YDR047W	HEM12	uroporphyrinogen decarboxylase HEM12|HEM6	chromosome 4	L000000764	4	551860	552948	W		2011-02-03	1996-07-31	Uroporphyrinogen decarboxylase; catalyzes the fifth step in the heme biosynthetic pathway; localizes to both the cytoplasm and nucleus; a hem12 mutant has phenotypes similar to patients with porphyria cutanea tarda
+S000034271	CDS					YDR047W		4	551860	552948	W		2011-02-03	1996-07-31	
+S000002456	ORF	Verified	YDR049W	VMS1		chromosome 4		4	553254	555152	W		2011-02-03	1996-07-31	Component of a Cdc48p-complex involved in protein quality control; exhibits cytosolic and ER-membrane localization, with Cdc48p, during normal growth, and contributes to ER-associated degradation (ERAD) of specific substrates at a step after their ubiquitination; forms a mitochondrially-associated complex with Cdc48p and Npl4p under oxidative stress that is required for ubiquitin-mediated mitochondria-associated protein degradation (MAD); conserved in C. elegans and humans
+S000035432	CDS					YDR049W		4	553254	555152	W		2011-02-03	1996-07-31	
+S000002455	ORF	Dubious	YDR048C			chromosome 4		4	553398	553084	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF VMS1/YDR049W
+S000034352	CDS					YDR048C		4	553398	553084	C		2011-02-03	1996-07-31	
+S000118435	ARS		ARS418		ARSIV-555	chromosome 4		4	555240	555404			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000002457	ORF	Verified	YDR050C	TPI1	triose-phosphate isomerase TPI1	chromosome 4	L000002326	4	556472	555726	C		2011-02-03	1996-07-31	Triose phosphate isomerase, abundant glycolytic enzyme; mRNA half-life is regulated by iron availability; transcription is controlled by activators Reb1p, Gcr1p, and Rap1p through binding sites in the 5' non-coding region; inhibition of Tpi1p activity by PEP (phosphoenolpyruvate) stimulates redox metabolism in respiring cells; E104D mutation in human homolog TPI1 causes a rare autosomal disease; human TPI1 can complement yeast null mutant
+S000036419	CDS					YDR050C		4	556472	555726	C		2011-02-03	1996-07-31	
+S000002458	ORF	Verified	YDR051C	DET1	acid phosphatase DET1	chromosome 4		4	558060	557056	C		2011-02-03	1996-07-31	Acid phosphatase; involved in the non-vesicular transport of sterols in both directions between the endoplasmic reticulum and plasma membrane; deletion confers sensitivity to nickel
+S000036483	CDS					YDR051C		4	558060	557056	C		2011-02-03	1996-07-31	
+S000002460	ORF	Dubious	YDR053W			chromosome 4		4	560249	560644	W		2011-02-03	1996-07-31	Putative protein of unknown function; open reading frame overlaps 5' end of essential DBF4 gene encoding the regulatory subunit of the Cdc7p-Dbf4p kinase complex
+S000037331	CDS					YDR053W		4	560249	560644	W		2011-02-03	1996-07-31	
+S000002459	ORF	Verified	YDR052C	DBF4	protein serine/threonine kinase activating protein DBF4|DNA52|LSD7	chromosome 4	L000000488|S000029149|L000000513	4	560625	558511	C		2011-02-03	1996-07-31	Regulatory subunit of Cdc7p-Dbf4p kinase complex; required for Cdc7p kinase activity and initiation of DNA replication; phosphorylates the Mcm2-7 family of proteins; cell cycle regulated; relative distribution to the nucleus increases upon DNA replication stress; co-expression of human CDC7 and DBF4 complements single cdc7 or dbf4 null mutations or the cdc7 dbf4 double null mutation
+S000036579	CDS					YDR052C		4	560625	558511	C		2011-02-03	1996-07-31	
+S000002461	ORF	Verified	YDR054C	CDC34	SCF E2 ubiquitin-protein ligase catalytic subunit CDC34|UBC3|DNA6	chromosome 4	L000000271	4	562327	561440	C	37	2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme (E2); catalytic subunit of SCF ubiquitin-protein ligase complex (together with Skp1p, Rbx1p, Cdc53p, and an F-box protein) that regulates cell cycle progression by targeting key substrates for degradation; protein abundance increases in response to DNA replication stress; human CDC34 functionally complements the thermosensitivity of the cdc34-2 mutant
+S000037377	CDS					YDR054C		4	562327	561440	C		2011-02-03	1996-07-31	
+S000002462	ORF	Verified	YDR055W	PST1	HPF2	chromosome 4	L000004850	4	563527	564861	W		2011-02-03	1996-07-31	Cell wall protein that contains a putative GPI-attachment site; secreted by regenerating protoplasts; up-regulated by activation of the cell integrity pathway, as mediated by Rlm1p; upregulated by cell wall damage via disruption of FKS1; PST1 has a paralog, ECM33, that arose from the whole genome duplication
+S000030148	CDS					YDR055W		4	563527	564861	W		2011-02-03	1996-07-31	
+S000002463	ORF	Uncharacterized	YDR056C	EMC10		chromosome 4		4	565640	565023	C		2011-02-03	1996-07-31	Putative protein of unknown function; subunit of evolutionarily conserved EMC (Endoplasmic Reticulum Membrane Complex) implicated in ERAD (ER-associated degradation) and proper assembly of multi-pass transmembrane (TM) proteins; EMC acts in yeast as an ER-mitochondria tether that interacts with outer membrane protein Tom5p of TOM (Translocase of the Mitochondrial Outer Membrane) complex; YDR056C is not an essential protein
+S000030254	CDS					YDR056C		4	565640	565023	C		2011-02-03	1996-07-31	
+S000002464	ORF	Verified	YDR057W	YOS9		chromosome 4		4	565927	567555	W		2011-02-03	1996-07-31	ER quality-control lectin; integral subunit of the HRD ligase; participates in efficient ER retention of misfolded proteins by recognizing them and delivering them to Hrd1p; binds to glycans with terminal alpha-1,6 linked mannose on misfolded N-glycosylated proteins and participates in targeting proteins to ERAD; member of the OS-9 protein family
+S000030476	CDS					YDR057W		4	565927	567555	W		2011-02-03	1996-07-31	
+S000118436	ARS		ARS419		ARSIV-568	chromosome 4		4	567610	567685			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178069	ARS_consensus_sequence					ARS419		4	567677	567661	C		2014-11-18	2014-11-18	
+S000002465	ORF	Verified	YDR058C	TGL2	triglyceride lipase	chromosome 4	L000003248	4	568703	567723	C		2011-02-03	1996-07-31	Triacylglycerol lipase that is localized to the mitochondria; has lipolytic activity towards triacylglycerols and diacylglycerols when expressed in E. coli
+S000030539	CDS					YDR058C		4	568703	567723	C		2011-02-03	1996-07-31	
+S000006709	tRNA_gene		tR(UCU)D			chromosome 4	L000003767	4	568882	568953	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000037839	noncoding_exon					tR(UCU)D		4	568882	568953	W		2011-02-03	2000-05-19	
+S000006531	tRNA_gene		tD(GUC)D			chromosome 4	L000003768	4	568964	569035	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000037680	noncoding_exon					tD(GUC)D		4	568964	569035	W		2011-02-03	2000-05-19	
+S000002466	ORF	Verified	YDR059C	UBC5	E2 ubiquitin-conjugating protein UBC5	chromosome 4	L000002408	4	569770	569234	C		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme; mediates selective degradation of short-lived, abnormal, or excess proteins, including histone H3; central component of the cellular stress response; expression is heat inducible; protein abundance increases in response to DNA replication stress; UBC5 has a paralog, UBC4, that arose from the whole genome duplication
+S000031454	CDS					YDR059C		4	569633	569234	C		2011-02-03	1996-07-31	
+S000031453	CDS					YDR059C		4	569770	569724	C		2011-02-03	1996-07-31	
+S000031455	intron					YDR059C		4	569723	569634	C		2011-02-03	1996-07-31	
+S000002467	ORF	Verified	YDR060W	MAK21	RNA-binding ribosome biosynthesis protein MAK21|NOC1	chromosome 4	L000000993	4	570649	573726	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; required for large (60S) ribosomal subunit biogenesis; acts as part of a Mak21p-Noc2p-Rrp5p module that associates with nascent pre-rRNA during transcription and has a role in bigenesis of the large ribosomal subunit; involved in nuclear export of pre-ribosomes; required for maintenance of dsRNA virus; homolog of human CAATT-binding protein
+S000031685	CDS					YDR060W		4	570649	573726	W		2011-02-03	1996-07-31	
+S000002468	ORF	Uncharacterized	YDR061W			chromosome 4		4	574164	575783	W		2011-02-03	1996-07-31	Protein with similarity to ABC transporter family members; lacks predicted membrane-spanning regions; transcriptionally activated by Yrm1p along with genes involved in multidrug resistance
+S000031826	CDS					YDR061W		4	574164	575783	W		2011-02-03	1996-07-31	
+S000002469	ORF	Verified	YDR062W	LCB2	serine C-palmitoyltransferase LCB2|TSC1|SCS1	chromosome 4	L000001819	4	576474	578159	W		2011-02-03	1996-07-31	Component of serine palmitoyltransferase; responsible along with Lcb1p for the first committed step in sphingolipid synthesis, which is the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine
+S000031954	CDS					YDR062W		4	576474	578159	W		2011-02-03	1996-07-31	
+S000002470	ORF	Verified	YDR063W	AIM7	GMF1|GMF	chromosome 4		4	578663	579112	W		2011-02-03	1996-07-31	Protein that interacts with Arp2/3 complex; interacts with Arp2/3 complex to stimulate actin filament debranching and inhibit actin nucleation; has similarity to Cof1p and also to human glia maturation factor (GMF); null mutant displays elevated mitochondrial genome loss
+S000032842	CDS					YDR063W		4	578663	579112	W		2011-02-03	1996-07-31	
+S000002471	ORF	Verified	YDR064W	RPS13	uS15|ribosomal 40S subunit protein S13|YS15|S27a|S15|S13|RPS13C|RPS13B	chromosome 4	L000002900|L000002655	4	579458	580452	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S13 and bacterial S15
+S000032956	CDS					YDR064W		4	579458	579478	W		2011-02-03	1996-07-31	
+S000032957	CDS					YDR064W		4	580018	580452	W		2011-02-03	1996-07-31	
+S000032958	intron					YDR064W		4	579479	580017	W		2011-02-03	1996-07-31	
+S000002472	ORF	Verified	YDR065W	RRG1		chromosome 4		4	580687	581784	W		2011-02-03	1996-07-31	Protein of unknown function; required for vacuolar acidification and mitochondrial genome maintenance; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000033047	CDS					YDR065W		4	580687	581784	W		2011-02-03	1996-07-31	
+S000002473	ORF	Verified	YDR066C	RTR2	putative protein-serine/threonine phosphatase	chromosome 4		4	582498	581908	C		2011-02-03	1996-07-31	Protein of unknown function; exhibits genetic interactions with Rtr1p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YDR066C is not an essential gene; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress; RTR2 has a paralog, RTR1, that arose from the whole genome duplication
+S000033084	CDS					YDR066C		4	582498	581908	C		2011-02-03	1996-07-31	
+S000002474	ORF	Uncharacterized	YDR067C	OCA6	protein-tyrosine-phosphatase	chromosome 4		4	583465	582791	C		2011-02-03	1996-07-31	Cytoplasmic protein required for replication of Brome mosaic virus; S. cerevisiae is a model system for studying positive-strand RNA virus replication; null mutation confers sensitivity to tunicamycin and DTT
+S000033843	CDS					YDR067C		4	583465	582791	C		2011-02-03	1996-07-31	
+S000002475	ORF	Verified	YDR068W	DOS2		chromosome 4	L000000518	4	583713	584645	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000034055	CDS					YDR068W		4	583713	584645	W		2011-02-03	1996-07-31	
+S000002476	ORF	Verified	YDR069C	DOA4	ubiquitin-specific protease DOA4|UBP4|SSV7|NPI2|MUT4|DOS1	chromosome 4	L000000514	4	587719	584939	C		2011-02-03	1996-07-31	Ubiquitin hydrolase; deubiquitinates intralumenal vesicle (ILVs) cargo proteins; required for recycling ubiquitin from proteasome-bound ubiquitinated intermediates, acts at the late endosome/prevacuolar compartment to recover ubiquitin from ubiquitinated membrane proteins destined for the vacuole; DOA4 has a paralog, UBP5, that arose from the whole genome duplication
+S000034891	CDS					YDR069C		4	587719	584939	C		2011-02-03	1996-07-31	
+S000002477	ORF	Verified	YDR070C	FMP16		chromosome 4		4	588379	588098	C		2011-02-03	1996-07-31	Protein of unknown function; may be involved in responding to conditions of stress; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress
+S000036234	CDS					YDR070C		4	588379	588098	C		2011-02-03	1996-07-31	
+S000002478	ORF	Verified	YDR071C	PAA1	polyamine acetyltransferase	chromosome 4		4	589402	588827	C		2011-02-03	1996-07-31	Polyamine acetyltransferase; acetylates polyamines (e.g. putrescine, spermidine, spermine) and also aralkylamines (e.g. tryptamine, phenylethylamine); may be involved in transcription and/or DNA replication
+S000036334	CDS					YDR071C		4	589402	588827	C		2011-02-03	1996-07-31	
+S000002479	ORF	Verified	YDR072C	IPT1	MIC2|inositolphosphotransferase|KTI6|SYR4	chromosome 4	L000004226|L000003534|S000029294	4	591344	589761	C		2011-02-03	1996-07-31	Inositolphosphotransferase; involved in synthesis of mannose-(inositol-P)2-ceramide (M(IP)2C), the most abundant sphingolipid; can mutate to resistance to the antifungals syringomycin E and DmAMP1 and to K. lactis zymocin
+S000037011	CDS					YDR072C		4	591344	589761	C		2011-02-03	1996-07-31	
+S000002480	ORF	Verified	YDR073W	SNF11		chromosome 4	L000003167	4	592439	592948	W		2011-02-03	1996-07-31	Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; interacts with a highly conserved 40-residue sequence of Snf2p; relocates to the cytosol under hypoxic conditions
+S000037137	CDS					YDR073W		4	592439	592948	W		2011-02-03	1996-07-31	
+S000002481	ORF	Verified	YDR074W	TPS2	trehalose-phosphatase TPS2|PFK3|HOG2	chromosome 4	L000002331	4	593893	596583	W		2011-02-03	1996-07-31	Phosphatase subunit of the trehalose-6-P synthase/phosphatase complex; involved in synthesis of the storage carbohydrate trehalose; expression is induced by stress conditions and repressed by the Ras-cAMP pathway; protein abundance increases in response to DNA replication stress
+S000037233	CDS					YDR074W		4	593893	596583	W		2011-02-03	1996-07-31	
+S000002482	ORF	Verified	YDR075W	PPH3	phosphoprotein phosphatase PP4 catalytic subunit PPH3	chromosome 4	L000001471	4	597156	598082	W	53	2011-02-03	1996-07-31	Catalytic subunit of protein phosphatase PP4 complex; Pph3p and Psy2p form active complex, Psy4p may provide substrate specificity; regulates recovery from the DNA damage checkpoint, the gene conversion- and single-strand annealing-mediated pathways of meiotic double-strand break repair and efficient Non-Homologous End-Joining (NHEJ) pathway; involved in activation of Gln3p to alleviate nitrogen catabolite repression; Pph3p and Psy2p localize to foci on meiotic chromosomes
+S000029904	CDS					YDR075W		4	597156	598082	W		2011-02-03	1996-07-31	
+S000002483	ORF	Verified	YDR076W	RAD55	putative DNA-dependent ATPase RAD55	chromosome 4	L000001575	4	598468	599688	W	53	2011-02-03	1996-07-31	Protein that stimulates strand exchange; stimulates strand exchange by stabilizing the binding of Rad51p to single-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; forms heterodimer with Rad57p
+S000030010	CDS					YDR076W		4	598468	599688	W		2011-02-03	1996-07-31	
+S000002484	ORF	Verified	YDR077W	SED1		chromosome 4	L000001859	4	600793	601809	W		2011-02-03	1996-07-31	Major stress-induced structural GPI-cell wall glycoprotein; associates with translating ribosomes, possible role in mitochondrial genome maintenance; ORF contains two distinct variable minisatellites; SED1 has a paralog, SPI1, that arose from the whole genome duplication
+S000030135	CDS					YDR077W		4	600793	601809	W		2011-02-03	1996-07-31	
+S000002485	ORF	Verified	YDR078C	SHU2		chromosome 4		4	602869	602198	C		2011-02-03	1996-07-31	Component of Shu complex (aka PCSS complex); Shu complex also includes Psy3, Csm2, Shu1, and promotes error-free DNA repair, Shu complex mediates inhibition of Srs2p function; promotes formation of Rad51p filaments; important for both mitotic and meiotic homologous recombination, and contains a conserved SWIM domain that is necessary for both
+S000030241	CDS					YDR078C		4	602869	602198	C		2011-02-03	1996-07-31	
+S000002486	ORF	Verified	YDR079W	PET100		chromosome 4	L000003521	4	603064	603399	W		2011-02-03	1996-07-31	Chaperone that facilitates the assembly of cytochrome c oxidase; integral to the mitochondrial inner membrane; interacts with a subcomplex of subunits VII, VIIa, and VIII (Cox7p, Cox9p, and Cox8p) but not with the holoenzyme
+S000031263	CDS					YDR079W		4	603064	603399	W		2011-02-03	1996-07-31	
+S000007603	ORF	Verified	YDR079C-A	TFB5	TFIIH complex subunit TFB5	chromosome 4		4	603811	603593	C		2011-02-03	2001-02-26	Component of RNA polymerase II general transcription factor TFIIH; involved in transcription initiation and in nucleotide-excision repair; relocalizes to the cytosol in response to hypoxia; homolog of Chlamydomonas reinhardtii REX1-S protein involved in DNA repair
+S000037149	CDS					YDR079C-A		4	603811	603593	C		2011-02-03	2001-02-26	
+S000002487	ORF	Verified	YDR080W	VPS41	VPL20|VAM2|SVL2|FET2|CVT8	chromosome 4	L000003512|L000004234	4	604008	606986	W		2011-02-03	1996-07-31	Subunit of the HOPS endocytic tethering complex; vacuole membrane protein that functions as a Rab GTPase effector, interacting specifically with the GTP-bound conformation of Ypt7p, facilitating tethering, docking and promoting membrane fusion events at the late endosome and vacuole; required for both membrane and protein trafficking; Yck3p-mediated phosphorylation regulates the organization of vacuolar fusion sites
+S000032217	CDS					YDR080W		4	604008	606986	W		2011-02-03	1996-07-31	
+S000002488	ORF	Verified	YDR081C	PDC2		chromosome 4	L000001355	4	610081	607304	C	50	2011-02-03	1996-07-31	Transcription factor for thiamine-regulated genes; required for expression of the two isoforms of pyruvate decarboxylase (PDC1 and PDC5) along with thiamine biosynthetic genes; binds a DNA sequence in the PDC5 promoter; mutant fails to grow on 2% glucose and thus is scored as inviable under standard conditions
+S000032243	CDS					YDR081C		4	610081	607304	C		2011-02-03	1996-07-31	
+S000002489	ORF	Verified	YDR082W	STN1		chromosome 4	L000003921	4	610441	611925	W		2011-02-03	1996-07-31	Telomere end-binding and capping protein; plays a key role with Pol12p in linking telomerase action with completion of lagging strand synthesis, and in a regulatory step required for telomere capping; similar to human Stn1
+S000032408	CDS					YDR082W		4	610441	611925	W		2011-02-03	1996-07-31	
+S000002490	ORF	Verified	YDR083W	RRP8	25S rRNA (adenine645-N1)-methyltransferase	chromosome 4		4	612073	613251	W		2011-02-03	2003-09-22|2006-01-19|1996-07-31	Nucleolar S-adenosylmethionine-dependent rRNA methyltransferase; methylates adenine (m1A) of the large subunit (LSU) rRNA at position 645; involved in pre-rRNA cleavage at site A2; mutation is synthetically lethal with a gar1 mutation; deletion disrupts telomere maintenance by influencing the expression of neighboring gene STN1
+S000033239	CDS					YDR083W		4	612073	613251	W		2011-02-03	2003-09-22|2006-01-19|1996-07-31	
+S000002491	ORF	Verified	YDR084C	TVP23		chromosome 4		4	614004	613405	C		2011-02-03	1996-07-31	Integral membrane protein; localized to late Golgi vesicles along with the v-SNARE Tlg2p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
+S000033277	CDS					YDR084C		4	614004	613405	C		2011-02-03	1996-07-31	
+S000002492	ORF	Verified	YDR085C	AFR1		chromosome 4	L000000059	4	616150	614288	C	47.97	2011-02-03	1996-07-31	Protein required for pheromone-induced projection (shmoo) formation; regulates septin architecture during mating; has an RVXF motif that mediates targeting of Glc7p to mating projections; interacts with Cdc12p; AFR1 has a paralog, YER158C, that arose from the whole genome duplication
+S000033345	CDS					YDR085C		4	616150	614288	C		2011-02-03	1996-07-31	
+S000002493	ORF	Verified	YDR086C	SSS1	translocon subunit SSS1	chromosome 4	L000002092	4	617170	616928	C		2011-02-03	1996-07-31	Subunit of the Sec61p translocation complex (Sec61p-Sss1p-Sbh1p); this complex forms a channel for passage of secretory proteins through the endoplasmic reticulum membrane, and of the Ssh1p complex (Ssh1p-Sbh2p-Sss1p); interacts with Ost4p and Wbp1p
+S000033427	CDS					YDR086C		4	617170	616928	C		2011-02-03	1996-07-31	
+S000002494	ORF	Verified	YDR087C	RRP1		chromosome 4	L000001774	4	618306	617470	C		2011-02-03	1996-07-31	Essential evolutionarily conserved nucleolar protein; necessary for biogenesis of 60S ribosomal subunits and for processing of pre-rRNAs to mature rRNA; associated with several distinct 66S pre-ribosomal particles
+S000034333	CDS					YDR087C		4	618306	617470	C		2011-02-03	1996-07-31	
+S000002495	ORF	Verified	YDR088C	SLU7	mRNA splicing protein SLU7|SLT17	chromosome 4	L000001922	4	619645	618497	C		2011-02-03	1996-07-31	RNA splicing factor; required for ATP-independent portion of 2nd catalytic step of spliceosomal RNA splicing; interacts with Prp18p; contains zinc knuckle domain
+S000034412	CDS					YDR088C		4	619645	618497	C		2011-02-03	1996-07-31	
+S000006700	tRNA_gene		tR(ACG)D			chromosome 4	L000003786	4	620041	619969	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000030369	noncoding_exon					tR(ACG)D		4	620041	619969	C		2011-02-03	2000-05-19	
+S000002496	ORF	Verified	YDR089W	VTC5		chromosome 4		4	622112	624721	W		2011-02-03	1996-07-31	Novel subunit of the vacuolar transporter chaperone complex; vacuolar transmembrane protein that regulates biosynthesis of polyphosphate; deletion reduces and overexpression increases polyP accumulation; SPX domain (Syg1, Pho81, Xpr1)-containing protein involved in phosphate homeostasis; relocalizes from vacuole to cytoplasm upon DNA replication stress
+S000035491	CDS					YDR089W		4	622112	624721	W		2011-02-03	1996-07-31	
+S000002497	ORF	Uncharacterized	YDR090C			chromosome 4		4	625998	625066	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000035405	CDS					YDR090C		4	625998	625066	C		2011-02-03	1996-07-31	
+S000002498	ORF	Verified	YDR091C	RLI1	Fe-S cluster-binding ribosome biosynthesis protein	chromosome 4		4	628534	626708	C		2011-02-03	1996-07-31	Essential Fe-S protein; required for ribosome biogenesis, translation initiation/termination; facilitates binding of multifactor complex (MFC) of initiation factors to small ribosomal subunit; Dom34-Hbs1 complex and Rli1p work in dissociating inactive ribosomes, thereby facilitating translation restart; forms complex with Lto1p and Yae1p; dependency on ROS-labile FeS clusters, activity in nuclear ribosomal-subunit export impaired by mild oxidative stress
+S000035466	CDS					YDR091C		4	628534	626708	C		2011-02-03	1996-07-31	
+S000130174	ARS		ARS420			chromosome 4		4	628938	629582			2014-11-18	2014-11-18|2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000002499	ORF	Verified	YDR092W	UBC13	E2  ubiquitin-conjugating protein UBC13	chromosome 4	L000003387	4	629876	630605	W		2011-02-03	1996-07-31	E2 ubiquitin-conjugating enzyme; involved in the error-free DNA postreplication repair pathway; interacts with Mms2p to assemble ubiquitin chains at the Ub Lys-63 residue; DNA damage triggers redistribution from the cytoplasm to the nucleus
+S000035560	CDS					YDR092W		4	629876	629905	W		2011-02-03	1996-07-31	
+S000035561	CDS					YDR092W		4	630174	630605	W		2011-02-03	1996-07-31	
+S000035562	intron					YDR092W		4	629906	630173	W		2011-02-03	1996-07-31	
+S000002500	ORF	Verified	YDR093W	DNF2	aminophospholipid-translocating P4-type ATPase DNF2	chromosome 4		4	631282	636120	W		2011-02-03	1996-07-31	Aminophospholipid translocase (flippase); type 4 P-type ATPase; involved in phospholipid translocation, contributing to endocytosis, protein transport, and cellular polarization; localizes primarily to the plasma membrane; localizes to the shmoo tip where it has a redundant role in the cellular response to mating pheromone; DNF2 has a paralog, DNF1, that arose from the whole genome duplication
+S000036482	CDS					YDR093W		4	631282	636120	W		2011-02-03	1996-07-31	
+S000002501	ORF	Dubious	YDR094W			chromosome 4		4	635840	636175	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF DNF2/YDR093W
+S000036554	CDS					YDR094W		4	635840	636175	W		2011-02-03	1996-07-31	
+S000002502	ORF	Dubious	YDR095C			chromosome 4		4	636527	636117	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036605	CDS					YDR095C		4	636527	636117	C		2011-02-03	1996-07-31	
+S000002503	ORF	Verified	YDR096W	GIS1	histone demethylase GIS1	chromosome 4	L000003351	4	637139	639823	W		2011-02-03	1996-07-31	Histone demethylase and transcription factor; regulates genes during nutrient limitation; activity modulated by proteasome-mediated proteolysis; has JmjC and JmjN domain in N-terminus that interact, promoting stability and proper transcriptional activity; contains two transactivating domains downstream of Jmj domains and a C-terminal DNA binding domain; relocalizes to the cytosol in response to hypoxia; GIS1 has a paralog, RPH1, that arose from the whole genome duplication
+S000037381	CDS					YDR096W		4	637139	639823	W		2011-02-03	1996-07-31	
+S000118437	ARS		ARS421		ARSIV-640	chromosome 4		4	640006	640072			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178070	ARS_consensus_sequence					ARS421		4	640062	640046	C		2014-11-18	2014-11-18	
+S000002504	ORF	Verified	YDR097C	MSH6	PMS6|mismatch repair ATPase MSH6|PMS3	chromosome 4	L000003135|L000004503|S000029377	4	643837	640109	C		2011-02-03	1996-07-31	Protein required for mismatch repair in mitosis and meiosis; forms a complex with Msh2p to repair both single-base & insertion-deletion mispairs; also involved in interstrand cross-link repair; potentially phosphorylated by Cdc28p
+S000037420	CDS					YDR097C		4	643837	640109	C		2011-02-03	1996-07-31	
+S000002505	ORF	Verified	YDR098C	GRX3	monothiol glutaredoxin GRX3	chromosome 4	S000007444	4	644930	644178	C		2014-11-18	1996-07-31|2014-11-18	Glutathione-dependent oxidoreductase; hydroperoxide and superoxide-radical responsive; monothiol glutaredoxin subfamily member along with Grx4p and Grx5p; protects cells from oxidative damage; with Grx4p, binds to Aft1p in iron-replete conditions, promoting its dissociation from promoters; evidence exists indicating that the translation start site is not Met1 as currently annotated, but rather Met36; GRX3 has a paralog, GRX4, that arose from the whole genome duplication
+S000037543	CDS					YDR098C		4	644930	644178	C		2014-11-18	1996-07-31|2014-11-18	
+S000006694	tRNA_gene		tQ(UUG)D2			chromosome 4	L000003785	4	645224	645153	C		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034810	noncoding_exon					tQ(UUG)D2		4	645224	645153	C		2011-02-03	2000-05-19	
+S000006850	long_terminal_repeat		YDRCdelta7			chromosome 4		4	645835	645502	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007391	transposable_element_gene		YDR098C-B		gag-pol fusion protein	chromosome 4		4	651126	645858	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000032257	CDS					YDR098C-B		4	649820	645858	C		2011-02-03	1999-07-17	
+S000032256	CDS					YDR098C-B		4	651126	649822	C		2011-02-03	1999-07-17	
+S000032258	plus_1_translational_frameshift					YDR098C-B		4	649821	649821	C		2011-02-03	1999-07-17	
+S000007390	transposable_element_gene		YDR098C-A		gag protein	chromosome 4		4	651126	649804	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000032236	CDS					YDR098C-A		4	651126	649804	C		2011-02-03	1999-07-17	
+S000006859	LTR_retrotransposon		YDRCTy1-1		Ty1	chromosome 4		4	651419	645502	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000006851	long_terminal_repeat		YDRCdelta8			chromosome 4		4	651419	651086	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006855	long_terminal_repeat		YDRCsigma1			chromosome 4		4	651503	651420	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006852	long_terminal_repeat		YDRCdelta9			chromosome 4		4	651980	651682	C		2011-02-03	2000-05-19	Ty1 LTR
+S000002506	ORF	Verified	YDR099W	BMH2	14-3-3 family protein BMH2|SCD3	chromosome 4	L000000186	4	653607	654428	W	63	2011-02-03	1996-07-31	14-3-3 protein, minor isoform; controls proteome at post-transcriptional level, binds proteins and DNA, involved in regulation of many processes including exocytosis, vesicle transport, Ras/MAPK signaling, and rapamycin-sensitive signaling; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; abundance relative to Bmh1p increases during sporulation
+S000030398	CDS					YDR099W		4	653607	654428	W		2011-02-03	1996-07-31	
+S000122095	five_prime_UTR_intron					YDR099W		4	652781	653523	W		2011-02-03	2007-04-04	
+S000002507	ORF	Verified	YDR100W	TVP15		chromosome 4		4	655013	655444	W		2011-02-03	1996-07-31	Integral membrane protein; localized to late Golgi vesicles along with the v-SNARE Tlg2p
+S000035845	CDS					YDR100W		4	655013	655444	W		2011-02-03	1996-07-31	
+S000002508	ORF	Verified	YDR101C	ARX1	putative hydrolase	chromosome 4		4	657467	655686	C		2011-02-03	1996-07-31	Nuclear export factor for the ribosomal pre-60S subunit; shuttling factor which directly binds FG rich nucleoporins and facilities translocation through the nuclear pore complex; interacts directly with Alb1p; responsible for Tif6p recycling defects in the absence of Rei1; associated with the ribosomal export complex
+S000035887	CDS					YDR101C		4	657467	655686	C		2011-02-03	1996-07-31	
+S000002509	ORF	Uncharacterized	YDR102C			chromosome 4		4	657980	657648	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR102C is not an essential gene; homozygous diploid deletion strain exhibits high budding index
+S000036020	CDS					YDR102C		4	657980	657648	C		2011-02-03	1996-07-31	
+S000002510	ORF	Verified	YDR103W	STE5	NUL3|HMD3	chromosome 4	L000002115	4	658350	661103	W	63	2011-02-03	1996-07-31	Pheromone-responsive MAPK scaffold protein; couples activation of the G-protein-coupled pheromone receptor to MAPK activation; intramolecular interaction of PH and VWA domains blocks activation of assembled signaling cascade components (Ste11p, Ste7p and Fus3p) under basal conditions; Gbeta-gamma (Ste4p-Ste18p)-dependent docking at the plasma membrane and binding of PI(4,5)P2 by the PH domain relieves autoinhibition, resulting in pheromone-dependent pathway activation
+S000036909	CDS					YDR103W		4	658350	661103	W		2011-02-03	1996-07-31	
+S000002511	ORF	Verified	YDR104C	SPO71		chromosome 4		4	664910	661173	C		2011-02-03	1996-07-31	Meiosis-specific protein required for prospore membrane morphogenesis; localizes to the prospore membrane (PSM) during sporulation; required for PSM elongation and closure; genetically antagonistic to SPO1; recruits Vps13p to the PSM during sporulation; interacts and functions cooperatively with Spo73p; mutants have defects in the PSM, aberrant spore wall formation and reduced PtdIns-phosphate pools in the PSM; contains three PH-like domains
+S000036931	CDS					YDR104C		4	664910	661173	C		2011-02-03	1996-07-31	
+S000002512	ORF	Verified	YDR105C	TMS1		chromosome 4		4	666770	665349	C		2011-02-03	1996-07-31	Vacuolar membrane protein of unknown function; is conserved in mammals; predicted to contain eleven transmembrane helices; interacts with Pdr5p, a protein involved in multidrug resistance
+S000036992	CDS					YDR105C		4	666770	665349	C		2011-02-03	1996-07-31	
+S000002513	ORF	Verified	YDR106W	ARP10		chromosome 4	L000003439	4	667004	667858	W		2011-02-03	1996-07-31	Component of the dynactin complex; localized to the pointed end of the Arp1p filament; may regulate membrane association of the complex
+S000037120	CDS					YDR106W		4	667004	667858	W		2011-02-03	1996-07-31	
+S000006601	tRNA_gene		tI(AAU)D			chromosome 4	L000003784	4	668080	668007	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000030399	noncoding_exon					tI(AAU)D		4	668080	668007	C		2011-02-03	2000-05-19	
+S000006856	long_terminal_repeat		YDRWsigma2		YDRCsigma2	chromosome 4		4	668096	668436	W		2011-02-03	2000-05-19|2007-04-02	Ty3 LTR
+S000006864	long_terminal_repeat		YDRWdelta10			chromosome 4		4	668543	668784	W		2011-02-03	2000-05-19	Ty1 LTR
+S000002514	ORF	Verified	YDR107C	TMN2		chromosome 4		4	671034	669016	C		2011-02-03	1996-07-31	Protein with a role in cellular adhesion and filamentous growth; similar to Tmn3p; member of the evolutionarily conserved Transmembrane Nine family of proteins with nine membrane-spanning segments; TMN2 has a paralog, EMP70, that arose from the whole genome duplication
+S000037823	CDS					YDR107C		4	671034	669016	C		2011-02-03	1996-07-31	
+S000002515	ORF	Verified	YDR108W	TRS85	GSG1|MUM1	chromosome 4	L000002779|S000029315|L000002585	4	671269	673365	W		2011-02-03	1996-07-31	Component of transport protein particle (TRAPP) complex III; TRAPPIII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating endosome-Golgi traffic and required for membrane expansion during autophagy and the CVT pathway; directs Ypt1p to the PAS; late post-replication meiotic role
+S000029911	CDS					YDR108W		4	671269	673365	W		2011-02-03	1996-07-31	
+S000002516	ORF	Uncharacterized	YDR109C		putative phosphotransferase	chromosome 4		4	675667	673520	C		2011-02-03	1996-07-31	Putative kinase
+S000029962	CDS					YDR109C		4	675667	673520	C		2011-02-03	1996-07-31	
+S000002517	ORF	Verified	YDR110W	FOB1	replication fork barrier binding protein FOB1|HRM1	chromosome 4	L000003959	4	676102	677802	W		2011-02-03	1996-07-31	Nucleolar protein that binds the rDNA replication fork barrier site; required for replication fork blocking, recombinational hotspot activity, condensin recruitment to replication fork barrier (RFB), and rDNA repeat segregation; related to retroviral integrases
+S000031039	CDS					YDR110W		4	676102	677802	W		2011-02-03	1996-07-31	
+S000002519	ORF	Dubious	YDR112W	IRC2		chromosome 4		4	679544	679852	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ALT2/YDR111C; null mutant displays increased levels of spontaneous Rad52p foci
+S000032093	CDS					YDR112W		4	679544	679852	W		2011-02-03	1996-07-31	
+S000002518	ORF	Uncharacterized	YDR111C	ALT2	alanine transaminase ALT2	chromosome 4		4	679764	678241	C		2011-02-03	1996-07-31	Catalytically inactive alanine transaminase; expression is repressed in the presence of alanine and repression is mediated by Nrg1p; ALT2 has a paralog, ALT1, that arose from the whole genome duplication
+S000031067	CDS					YDR111C		4	679764	678241	C		2011-02-03	1996-07-31	
+S000002520	ORF	Verified	YDR113C	PDS1	securin	chromosome 4	L000001368	4	681617	680496	C		2011-02-03	1996-07-31	Securin; inhibits anaphase by binding separin Esp1p; blocks cyclin destruction and mitotic exit, essential for meiotic progression and mitotic cell cycle arrest; localization is cell-cycle dependent and regulated by Cdc28p phosphorylation
+S000032118	CDS					YDR113C		4	681617	680496	C		2011-02-03	1996-07-31	
+S000002522	ORF	Verified	YDR115W	MRX14	putative mitochondrial 54S ribosomal protein	chromosome 4		4	682175	682492	W		2011-02-03	1996-07-31	Putative mitochondrial ribosomal protein of the large subunit; similar to E. coli L34 ribosomal protein; required for respiratory growth, as are most mitochondrial ribosomal proteins; protein increases in abundance and relocalizes to the plasma membrane upon DNA replication stress
+S000032311	CDS					YDR115W		4	682175	682492	W		2011-02-03	1996-07-31	
+S000002521	ORF	Uncharacterized	YDR114C			chromosome 4		4	682226	681924	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant exhibits poor growth at elevated pH and calcium
+S000032200	CDS					YDR114C		4	682226	681924	C		2011-02-03	1996-07-31	
+S000002523	ORF	Verified	YDR116C	MRPL1	mitochondrial 54S ribosomal protein MRPL1	chromosome 4		4	683581	682724	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000033144	CDS					YDR116C		4	683581	682724	C		2011-02-03	1996-07-31	
+S000002524	ORF	Verified	YDR117C	TMA64	RBF64	chromosome 4		4	685643	683946	C		2011-02-03	1996-07-31	Protein of unknown function that associates with ribosomes; has a putative RNA binding domain; in mammals the corresponding protein, eIF2D, has been shown to possess translation initiation factor activity
+S000033197	CDS					YDR117C		4	685643	683946	C		2011-02-03	1996-07-31	
+S000002525	ORF	Verified	YDR118W	APC4	anaphase promoting complex subunit 4	chromosome 4	L000004319	4	685882	687840	W		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; component of the platform domain of the APC/C, based on structural analysis; relative distribution to the nucleus increases upon DNA replication stress
+S000033282	CDS					YDR118W		4	685882	687840	W		2011-02-03	1996-07-31	
+S000028820	ORF	Dubious	YDR118W-A			chromosome 4		4	687768	687884	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified using a combination of expression profiling and mass spectrometry
+S000033639	CDS					YDR118W-A		4	687768	687884	W		2011-02-03	2003-07-29	
+S000002526	ORF	Uncharacterized	YDR119W	VBA4		chromosome 4		4	688227	690533	W		2011-02-03	1996-07-31	Protein of unknown function; proposed role as a basic amino acid permease based on phylogeny; GFP-fusion protein localizes to vacuolar membrane; physical interaction with Atg27p suggests a possible role in autophagy; non-essential gene
+S000034153	CDS					YDR119W		4	688227	690533	W		2011-02-03	1996-07-31	
+S000113555	ORF	Verified	YDR119W-A	COX26		chromosome 4		4	691014	691214	W		2011-02-03	2005-11-16	Stabilizes or regulates formation of respiratory chain supercomplexes composed of Complex III (ubiquinol-cytochrome c reductase) and Complex IV (cytochrome c oxidase)
+S000113556	CDS					YDR119W-A		4	691014	691214	W		2011-02-03	2005-11-16	
+S000002527	ORF	Verified	YDR120C	TRM1	tRNA (guanine26-N2)-dimethyltransferase	chromosome 4	L000002337	4	693261	691549	C		2011-02-03	1996-07-31	tRNA methyltransferase; two forms of protein are made by alternative translation starts; localizes to both nucleus and mitochondrion to produce modified base N2,N2-dimethylguanosine in tRNAs in both compartments; nuclear Trm1p is evenly distributed around inner nuclear membrane in WT, but mislocalizes as puncta near ER-nucleus junctions in spindle pole body (SPB) mutants; both Trm1p inner nuclear membrane targeting and maintenance depend upon SPB
+S000035345	CDS					YDR120C		4	693261	691549	C		2011-02-03	1996-07-31	
+S000002528	ORF	Verified	YDR121W	DPB4	DNA polymerase epsilon noncatalytic subunit	chromosome 4	S000007463	4	693585	694175	W		2011-02-03	1996-07-31	Subunit of DNA pol epsilon and of ISW2 chromatin accessibility complex; involved in both chromosomal DNA replication and inheritance of telomeric silencing; stabilizes the interaction of Pol epsilon with primer-template DNA, positively affecting the processivity of the polymerase and exonuclease activities of Pol epsilon; interacts with extranucleosomal DNA and acts as anchor point for ISW2 complex that retains its position on DNA during nucleosome mobilization
+S000035456	CDS					YDR121W		4	693585	694175	W		2011-02-03	1996-07-31	
+S000002529	ORF	Verified	YDR122W	KIN1	serine/threonine protein kinase KIN1	chromosome 4	L000000901	4	694700	697894	W		2011-02-03	1996-07-31	Serine/threonine protein kinase involved in regulation of exocytosis; localizes to the cytoplasmic face of the plasma membrane; KIN1 has a paralog, KIN2, that arose from the whole genome duplication
+S000036387	CDS					YDR122W		4	694700	697894	W		2011-02-03	1996-07-31	
+S000002530	ORF	Verified	YDR123C	INO2	SCS1|DIE1	chromosome 4	L000000868|L000002801	4	699468	698554	C		2011-02-03	1996-07-31	Transcription factor; component of the heteromeric Ino2p/Ino4p basic helix-loop-helix transcription activator that binds inositol/choline-responsive elements (ICREs), required for derepression of phospholipid biosynthetic genes in response to inositol depletion; involved in diauxic shift
+S000036420	CDS					YDR123C		4	699468	698554	C		2011-02-03	1996-07-31	
+S000002531	ORF	Uncharacterized	YDR124W			chromosome 4		4	700315	701289	W		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene; expression is strongly induced by alpha factor
+S000036553	CDS					YDR124W		4	700315	701289	W		2011-02-03	1996-07-31	
+S000002532	ORF	Verified	YDR125C	ECM18	alpha/beta hydrolase family protein	chromosome 4	L000003893	4	702758	701397	C		2011-02-03	1996-07-31	Protein of unknown function; ECM18 has a paralog, ICT1, that arose from the whole genome duplication
+S000036581	CDS					YDR125C		4	702758	701397	C		2011-02-03	1996-07-31	
+S000114834	ARS		ARS422	ARS422	ARSIV-703|ARO1 ARS	chromosome 4		4	702887	703132			2011-02-03	2006-09-08|2006-04-12	Autonomously Replicating Sequence
+S000178071	ARS_consensus_sequence					ARS422		4	702924	702940	W		2014-11-18	2014-11-18	
+S000002533	ORF	Verified	YDR126W	SWF1	palmitoyltransferase SWF1|PSL10	chromosome 4		4	703234	704244	W		2011-02-03	1996-07-31	Palmitoyltransferase that acts on transmembrane proteins; including the SNAREs Snc1p, Syn8p, Tlg1p and likely all SNAREs; contains an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; may have a role in vacuole fusion
+S000037340	CDS					YDR126W		4	703234	704244	W		2011-02-03	1996-07-31	
+S000002534	ORF	Verified	YDR127W	ARO1	pentafunctional protein ARO1p	chromosome 4	L000000116	4	704484	709250	W	81	2011-02-03	1996-07-31	Pentafunctional arom protein; catalyzes steps 2 through 6 in the biosynthesis of chorismate, which is a precursor to aromatic amino acids
+S000037463	CDS					YDR127W		4	704484	709250	W		2011-02-03	1996-07-31	
+S000002535	ORF	Verified	YDR128W	MTC5	SEA3	chromosome 4		4	709549	712995	W		2011-02-03	1996-07-31	Subunit of SEACAT, a subcomplex of the SEA complex; Mtc1p, along with Rtc1p and Sea4p, redundantly inhibit the TORC1 inhibitory role of the Iml1p/SEACIT (Iml1p-Npr2p-Npr3p) subcomplex, a GAP for GTPase Gtr1p (EGOC subunit) in response to amino acid limitation, thereby resulting in activation of TORC1 signaling; SEA is a coatomer-related complex that associates dynamically with the vacuole; relative distribution to the vacuolar membrane decreases upon DNA replication stress
+S000030151	CDS					YDR128W		4	709549	712995	W		2011-02-03	1996-07-31	
+S000002536	ORF	Verified	YDR129C	SAC6	fimbrin|ABP67	chromosome 4	L000001793	4	715379	713340	C	84	2011-02-03	1996-07-31	Fimbrin, actin-bundling protein; cooperates with Scp1p in organization and maintenance of the actin cytoskeleton; phosphorylated by Cdc28p/Clb2p in metaphase on T103, to regulate conformation, and modulate actin filament binding affinity and actin cable dynamics; relocalizes from the plasma membrane to the cytoplasm upon DNA replication stress; human homologs PLS3 and LCP1 implicated in spinocerebellar ataxia type 2 (SCA2) can each complement yeast null mutant
+S000030258	CDS					YDR129C		4	715247	713340	C		2011-02-03	1996-07-31	
+S000030257	CDS					YDR129C		4	715379	715359	C		2011-02-03	1996-07-31	
+S000030259	intron					YDR129C		4	715358	715248	C		2011-02-03	1996-07-31	
+S000002537	ORF	Verified	YDR130C	FIN1		chromosome 4		4	716622	715747	C		2011-02-03	1996-07-31	Spindle pole body-related intermediate filament protein; forms cell cycle-specific filaments between spindle pole bodies in dividing cells; localizes to poles and microtubules of spindle during anaphase and contributes to spindle stability; involved in Glc7p localization and regulation; relative distribution to the nucleus increases upon DNA replication stress
+S000030642	CDS					YDR130C		4	716622	715747	C		2011-02-03	1996-07-31	
+S000002538	ORF	Verified	YDR131C			chromosome 4		4	718460	716790	C		2011-02-03	1996-07-31	F-box protein subunit of SCF ubiquitin ligase complex; substrate-specific adaptor subunit that recruits substrates to a core ubiquitination complex
+S000030724	CDS					YDR131C		4	718460	716790	C		2011-02-03	1996-07-31	
+S000002539	ORF	Verified	YDR132C			chromosome 4		4	720303	718816	C		2011-02-03	1996-07-31	Protein of unknown function; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; YDR132C has a paralog, YLR108C, that arose from the whole genome duplication
+S000031561	CDS					YDR132C		4	720303	718816	C		2011-02-03	1996-07-31	
+S000002540	ORF	Dubious	YDR133C			chromosome 4		4	721297	720962	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps YDR134C
+S000031648	CDS					YDR133C		4	721297	720962	C		2011-02-03	1996-07-31	
+S000002541	blocked_reading_frame		YDR134C			chromosome 4		4	721481	721071	C		2011-02-03	1996-07-31	Cell wall protein; YDR134C has a paralog, CCW12, that arose from the whole genome duplication; S. cerevisiae genome reference strain S288C contains an internal in-frame stop at codon 67, which in other strains encodes glutamine
+S000031764	CDS					YDR134C		4	721481	721071	C		2011-02-03	1996-07-31	
+S000002542	ORF	Verified	YDR135C	YCF1	ATP-binding cassette glutathione S-conjugate transporter YCF1	chromosome 4	L000002499	4	727551	723004	C		2011-02-03	1996-07-31	Vacuolar glutathione S-conjugate transporter; ABC-C transporter of the ATP-binding cassette family; required for vacuole fusion; forms stable complexes with vacuole fusion machinery; regulates Vam7p recruitment to vacuoles; role in detoxifying metals (Cd, Hg, As); transports GSSG that is not immediately reduced in cytosol to vacuole; transports unconjugated bilirubin, selenodigluthatione, oxidized glutathione; similar to human cystic fibrosis protein CFTR
+S000031914	CDS					YDR135C		4	727551	723004	C		2011-02-03	1996-07-31	
+S000002544	ORF	Verified	YDR137W	RGP1		chromosome 4	L000001628	4	728259	730250	W	82	2011-02-03	1996-07-31	Subunit of a Golgi membrane exchange factor (Ric1p-Rgp1p); this complex catalyzes nucleotide exchange on Ypt6p
+S000032960	CDS					YDR137W		4	728259	730250	W		2011-02-03	1996-07-31	
+S000002543	ORF	Dubious	YDR136C	VPS61		chromosome 4		4	728283	727711	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 4% of ORF overlaps the verified gene RGP1; deletion causes a vacuolar protein sorting defect
+S000032795	CDS					YDR136C		4	728283	727711	C		2011-02-03	1996-07-31	
+S000002545	ORF	Verified	YDR138W	HPR1	TRF1	chromosome 4	L000000808	4	730578	732836	W	82	2011-02-03	1996-07-31	Subunit of THO/TREX complexes; this complex couple transcription elongation with mitotic recombination and with mRNA metabolism and export, subunit of an RNA Pol II complex; regulates lifespan; involved in telomere maintenance; similar to Top1p
+S000033050	CDS					YDR138W		4	730578	732836	W		2011-02-03	1996-07-31	
+S000002546	ORF	Verified	YDR139C	RUB1	NEDD8 family protein RUB1	chromosome 4	L000003330|L000004485	4	733924	733618	C		2011-02-03	2000-12-01|1996-07-31	Ubiquitin-like protein with similarity to mammalian NEDD8; conjugation (neddylation) substrates include the cullins Cdc53p, Rtt101p, and Cul3p; activated by Ula1p and Uba3p (E1 enzyme pair); conjugation mediated by Ubc12p (E2 enzyme)
+S000033098	CDS					YDR139C		4	733702	733618	C		2011-02-03	2000-12-01|1996-07-31	
+S000033097	CDS					YDR139C		4	733924	733776	C		2011-02-03	2000-12-01|1996-07-31	
+S000033099	intron					YDR139C		4	733775	733703	C		2011-02-03	2000-12-01|1996-07-31	
+S000002547	ORF	Verified	YDR140W	MTQ2	S-adenosylmethionine-dependent methyltransferase	chromosome 4		4	734138	734803	W		2011-02-03	1996-07-31	S-adenosylmethionine-dependent methyltransferase; subunit of complex with Trm112p that methylates translation release factor Sup45p (eRF1) in the ternary complex eRF1-eRF3-GTP; similar to E.coli PrmC; member of the seven beta-strand family
+S000036021	CDS					YDR140W		4	734138	734803	W		2011-02-03	1996-07-31	
+S000002548	ORF	Verified	YDR141C	DOP1		chromosome 4		4	739997	734901	C		2011-02-03	1996-07-31	Golgi-localized, leucine-zipper domain containing protein; involved in endosome to Golgi transport, organization of the ER, establishing cell polarity, and morphogenesis; detected in highly purified mitochondria in high-throughput studies
+S000036047	CDS					YDR141C		4	739997	734901	C		2011-02-03	1996-07-31	
+S000002549	ORF	Verified	YDR142C	PEX7	PEB1|PAS7	chromosome 4	L000001340	4	741600	740473	C		2011-02-03	1996-07-31	Peroxisomal signal receptor for peroxisomal matrix proteins; recognizes the N-terminal nonapeptide signal (PTS2); WD repeat protein; defects in human homolog cause lethal rhizomelic chondrodysplasia punctata (RCDP)
+S000036136	CDS					YDR142C		4	741600	740473	C		2011-02-03	1996-07-31	
+S000002550	ORF	Verified	YDR143C	SAN1	ubiquitin-protein ligase SAN1	chromosome 4	L000001800	4	743874	742042	C		2011-02-03	1996-07-31	Ubiquitin-protein ligase; involved in proteasome-dependent degradation of aberrant nuclear proteins; targets substrates with regions of exposed hydrophobicity containing 5 or more contiguous hydrophobic residues; contains intrinsically disordered regions that contribute to substrate recognition; prefers a window of exposed hydrophobicity that causes a particular level of protein insolubility, suggesting that San1p evolved to target highly aggregation-prone proteins
+S000036257	CDS					YDR143C		4	743874	742042	C		2011-02-03	1996-07-31	
+S000002551	ORF	Verified	YDR144C	MKC7	aspartyl protease|YPS2	chromosome 4	L000003069	4	746101	744311	C		2011-02-03	1996-07-31	GPI-anchored aspartyl protease; member of the yapsin family of proteases involved in cell wall growth and maintenance; shares functions with Yap3p and Kex2p; MKC7 has a paralog, YPS1, that arose from the whole genome duplication
+S000036336	CDS					YDR144C		4	746101	744311	C		2011-02-03	1996-07-31	
+S000002552	ORF	Verified	YDR145W	TAF12	TafII61|TafII68|TAF68|TAF61	chromosome 4	L000003462	4	746738	748357	W		2011-02-03	1996-07-31	Subunit (61/68 kDa) of TFIID and SAGA complexes; involved in RNA polymerase II transcription initiation and in chromatin modification, similar to histone H2A; overexpression of the human ortholog, TAF12, an oncogene involved in the formation of choroid plexus carcinomas, results in dosage chromosomal instability (dCIN) in a human cell line similar to the dCIN observed in yeast overexpressors
+S000037046	CDS					YDR145W		4	746738	748357	W		2011-02-03	1996-07-31	
+S000119070	ARS		ARS451		ARSIV-748|ARS422.5	chromosome 4		4	748392	748637			2011-02-03	2006-10-05	Autonomously Replicating Sequence
+S000178072	ARS_consensus_sequence					ARS451		4	748456	748472	W		2014-11-18	2014-11-18	
+S000002553	ORF	Verified	YDR146C	SWI5	DNA-binding transcription factor SWI5	chromosome 4	L000002253	4	750742	748613	C		2011-02-03	1996-07-31	Transcription factor that recruits Mediator and Swi/Snf complexes; activates transcription of genes expressed at the M/G1 phase boundary and in G1 phase; required for expression of the HO gene controlling mating type switching; localization to nucleus occurs during G1 and appears to be regulated by phosphorylation by Cdc28p kinase; SWI5 has a paralog, ACE2, that arose from the whole genome duplication
+S000037075	CDS					YDR146C		4	750742	748613	C		2011-02-03	1996-07-31	
+S000002554	ORF	Verified	YDR147W	EKI1	bifunctional choline kinase/ethanolamine kinase EKI1	chromosome 4	L000004610	4	751631	753235	W		2011-02-03	1996-07-31	Ethanolamine kinase; primarily responsible for phosphatidylethanolamine synthesis via the CDP-ethanolamine pathway; exhibits some choline kinase activity, thus contributing to phosphatidylcholine synthesis via the CDP-choline pathway; EKI1 has a paralog, CKI1, that arose from the whole genome duplication
+S000037235	CDS					YDR147W		4	751631	753235	W		2011-02-03	1996-07-31	
+S000118438	ARS		ARS423		ARSIV-753	chromosome 4		4	753242	753386			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178073	ARS_consensus_sequence					ARS423		4	753333	753317	C		2014-11-18	2014-11-18	
+S000002555	ORF	Verified	YDR148C	KGD2	alpha-ketoglutarate dehydrogenase KGD2	chromosome 4	L000000898	4	755066	753675	C		2011-02-03	1996-07-31	Dihydrolipoyl transsuccinylase; component of the mitochondrial alpha-ketoglutarate dehydrogenase complex, which catalyzes the oxidative decarboxylation of alpha-ketoglutarate to succinyl-CoA in the TCA cycle; phosphorylated
+S000037302	CDS					YDR148C		4	755066	753675	C		2011-02-03	1996-07-31	
+S000002557	ORF	Verified	YDR150W	NUM1	PAC12	chromosome 4	L000001287	4	755628	763874	W		2011-02-03	1996-07-31	Protein required for nuclear migration; component of the mitochondria-ER-cortex-ancor (MECA); required for the association of mitochondria with the cell cortex and for accurate distribution of mitochondrial network; interacts with Mdm36p to link the ER and mitochondria at the cortex; localizes to the mother cell cortex and the bud tip; may mediate interactions of dynein and cytoplasmic microtubules with the cell cortex
+S000031071	CDS					YDR150W		4	755628	763874	W		2011-02-03	1996-07-31	
+S000002556	ORF	Dubious	YDR149C			chromosome 4		4	756262	755555	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene NUM1/YDR150W; null mutation blocks anaerobic growth
+S000029951	CDS					YDR149C		4	756262	755555	C		2011-02-03	1996-07-31	
+S000002558	ORF	Verified	YDR151C	CTH1	putative mRNA-binding protein CTH1	chromosome 4	L000002772	4	765155	764178	C		2011-02-03	1996-07-31	Member of the CCCH zinc finger family; similar to mammalian Tis11 protein, which activates transcription and also has a role in mRNA degradation; may function with Tis11p in iron homeostasis; CTH1 has a paralog, TIS11, that arose from the whole genome duplication
+S000031106	CDS					YDR151C		4	765155	764178	C		2011-02-03	1996-07-31	
+S000002559	ORF	Verified	YDR152W	GIR2		chromosome 4		4	765706	766503	W		2011-02-03	1996-07-31	Highly-acidic RWD domain-containing cytoplasmic protein; forms a highly conserved complex with Rbg2p that is responsible for efficient cell growth under amino acid starvation and binds translational activator Gcn1p in dose-dependent manner according to stress level; associates with translating ribosomes; intrinsically unstructured protein whose stability is enhanced upon binding Rbg2p
+S000031232	CDS					YDR152W		4	765706	766503	W		2011-02-03	1996-07-31	
+S000002560	ORF	Verified	YDR153C	ENT5		chromosome 4		4	767971	766736	C		2011-02-03	1996-07-31	Protein containing an N-terminal epsin-like domain; involved in clathrin recruitment and traffic between the Golgi and endosomes; associates with the clathrin adaptor Gga2p, clathrin adaptor complex AP-1, and clathrin
+S000032164	CDS					YDR153C		4	767971	766736	C		2011-02-03	1996-07-31	
+S000002561	ORF	Dubious	YDR154C			chromosome 4		4	768753	768403	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant exhibits synthetic phenotype with alpha-synuclein
+S000032245	CDS					YDR154C		4	768753	768403	C		2011-02-03	1996-07-31	
+S000002562	ORF	Verified	YDR155C	CPR1	peptidylprolyl isomerase CPR1|CPH1|CYP1	chromosome 4	L000002663	4	769000	768512	C		2011-02-03	1996-07-31	Cytoplasmic peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; binds the drug cyclosporin A; N-terminally propionylated in vivo; protein abundance increases in response to DNA replication stress
+S000032345	CDS					YDR155C		4	769000	768512	C		2011-02-03	1996-07-31	
+S000002563	ORF	Verified	YDR156W	RPA14	DNA-directed RNA polymerase I subunit RPA14|A14	chromosome 4	L000002883	4	769525	769938	W		2011-02-03	1996-07-31	RNA polymerase I subunit A14
+S000033241	CDS					YDR156W		4	769525	769938	W		2011-02-03	1996-07-31	
+S000002564	ORF	Dubious	YDR157W			chromosome 4		4	769931	770332	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033302	CDS					YDR157W		4	769931	770332	W		2011-02-03	1996-07-31	
+S000002565	ORF	Verified	YDR158W	HOM2	aspartate-semialdehyde dehydrogenase|THR2	chromosome 4	L000000799	4	770357	771454	W	92	2011-02-03	1996-07-31	Aspartic beta semi-aldehyde dehydrogenase; catalyzes the second step in the common pathway for methionine and threonine biosynthesis; expression regulated by Gcn4p and the general control of amino acid synthesis
+S000033370	CDS					YDR158W		4	770357	771454	W		2011-02-03	1996-07-31	
+S000002566	ORF	Verified	YDR159W	SAC3	LEP1	chromosome 4	L000001792	4	771877	775782	W	92	2011-02-03	1996-07-31	mRNA export factor; required for biogenesis of the small ribosomal subunit; component of TREX-2 complex (Sac3p-Thp1p-Sus1p-Cdc31p) involved in transcription elongation and mRNA export from the nucleus; involved in post-transcriptional tethering of active genes to the nuclear periphery and to non-nascent mRNP; similar to the human germinal center-associated nuclear protein (GANP)
+S000034282	CDS					YDR159W		4	771877	775782	W		2011-02-03	1996-07-31	
+S000002567	ORF	Verified	YDR160W	SSY1	RAA1|SHR10	chromosome 4	L000004190|L000003184|S000029399|L000001553	4	776163	778721	W	92	2011-02-03	1996-07-31	Component of the SPS plasma membrane amino acid sensor system; senses external amino acid concentration and transmits intracellular signals that result in regulation of expression of amino acid permease genes; other members are Ssy1p, Ptr3p, and Ssy5p
+S000034346	CDS					YDR160W		4	776163	778721	W		2011-02-03	1996-07-31	
+S000002568	ORF	Verified	YDR161W	ACL4		chromosome 4	L000004169	4	779043	780206	W		2011-02-03	1996-07-31	Specific assembly chaperone for ribosomal protein Rpl4p; binds to an evolutionarily conserved surface extension of nascent Rpl4p and chaperones Rpl4p until its assembly into the pre-ribosome; transcriptionally co-regulated with rRNA and ribosome biosynthesis genes
+S000035308	CDS					YDR161W		4	779043	780206	W		2011-02-03	1996-07-31	
+S000002569	ORF	Verified	YDR162C	NBP2		chromosome 4	L000002861	4	781100	780390	C		2011-02-03	1996-07-31	Protein involved in the HOG (high osmolarity glycerol) pathway; negatively regulates Hog1p by recruitment of phosphatase Ptc1p the Pbs2p-Hog1p complex; interacts with Bck1p and down regulates the cell wall integrity pathway; found in the nucleus and cytoplasm, contains an SH3 domain and a Ptc1p binding domain (PBM)
+S000035337	CDS					YDR162C		4	781100	780390	C		2011-02-03	1996-07-31	
+S000002570	ORF	Verified	YDR163W	CWC15	U2-type spliceosomal complex subunit CWC15	chromosome 4		4	781423	781950	W		2011-02-03	1996-07-31	Non-essential protein involved in pre-mRNA splicing; component of a complex containing Cef1p; has similarity to S. pombe Cwf15p
+S000035446	CDS					YDR163W		4	781423	781950	W		2011-02-03	1996-07-31	
+S000002571	ORF	Verified	YDR164C	SEC1		chromosome 4	L000001827	4	784215	782041	C	94.77	2011-02-03	1996-07-31	Sm-like protein involved in docking and fusion of exocytic vesicles; binds to assembled SNARE complexes at the membrane and stimulates membrane fusion; localization to sites of secretion (bud neck and bud tip) is dependent on SNARE function; interacts directly with essential exocyst subunit Sec6p
+S000035467	CDS					YDR164C		4	784215	782041	C		2011-02-03	1996-07-31	
+S000002572	ORF	Verified	YDR165W	TRM82		chromosome 4		4	784871	786205	W		2011-02-03	1996-07-31	Catalytic subunit of a tRNA methyltransferase complex; Trm8p and Trm82p comprise an enzyme that catalyzes a methyl-transfer from S-adenosyl-l-methionine to the N(7) atom of guanine at position 46 in tRNA; Trm8 lacks catalytic activity if not bound to Trm82p; relocalizes to the cytosol in response to hypoxia; mutation in human ortholog WDR4 causes microcephalic primordial dwarfism
+S000035563	CDS					YDR165W		4	784871	786205	W		2011-02-03	1996-07-31	
+S000002573	ORF	Verified	YDR166C	SEC5	exocyst subunit SEC5	chromosome 4	L000001831	4	789221	786306	C	95	2011-02-03	1996-07-31	Essential 107kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion; involved in assembly of the exocyst complex; required with Sec3p for ER inheritance where it promotes anchoring of the cortical ER at the bud tip
+S000035593	CDS					YDR166C		4	789221	786306	C		2011-02-03	1996-07-31	
+S000002574	ORF	Verified	YDR167W	TAF10	TafII25|TAF25|TAF23	chromosome 4	L000003460	4	789449	790069	W		2011-02-03	1996-07-31	Subunit (145 kDa) of TFIID and SAGA complexes; involved in RNA polymerase II transcription initiation and in chromatin modification
+S000036558	CDS					YDR167W		4	789449	790069	W		2011-02-03	1996-07-31	
+S000002575	ORF	Verified	YDR168W	CDC37	SMO1	chromosome 4	L000000273	4	790328	791848	W	95	2011-02-03	1996-07-31	Essential Hsp90p co-chaperone; necessary for passage through the START phase of the cell cycle; stabilizes protein kinase nascent chains and participates along with Hsp90p in their folding
+S000036673	CDS					YDR168W		4	790328	791848	W		2011-02-03	1996-07-31	
+S000002576	ORF	Verified	YDR169C	STB3		chromosome 4	L000002109	4	793889	792348	C		2011-02-03	1996-07-31	Ribosomal RNA processing element (RRPE)-binding protein; involved in the glucose-induced transition from quiescence to growth; restricted to nucleus in quiescent cells, released into cytoplasm after glucose repletion; binds Sin3p; relative distribution to the nucleus increases upon DNA replication stress
+S000036712	CDS					YDR169C		4	793889	792348	C		2011-02-03	1996-07-31	
+S000028538	ORF	Uncharacterized	YDR169C-A			chromosome 4		4	794723	794574	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031147	CDS					YDR169C-A		4	794723	794574	C		2011-02-03	2003-07-29	
+S000002577	ORF	Verified	YDR170C	SEC7	Arf family guanine nucleotide exchange factor SEC7	chromosome 4	L000001833	4	802222	796193	C	96	2011-02-03	1996-07-31	Guanine nucleotide exchange factor (GEF) for ADP ribosylation factors; involved in proliferation of the Golgi, intra-Golgi transport and ER-to-Golgi transport; found in the cytoplasm and on Golgi-associated coated vesicles
+S000036405	CDS					YDR170C		4	802222	796193	C		2011-02-03	1996-07-31	
+S000006695	tRNA_gene		tQ(UUG)D3			chromosome 4	L000003783	4	802802	802731	C		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034813	noncoding_exon					tQ(UUG)D3		4	802802	802731	C		2011-02-03	2000-05-19	
+S000006865	long_terminal_repeat		YDRWdelta11			chromosome 4		4	802905	803235	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007227	transposable_element_gene		YDR170W-A		gag protein	chromosome 4		4	803195	804517	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag; YDR170W-A is part of a mutant retrotransposon; distribution in the cytoplasm becomes irregular rather than punctate upon DNA replication stress
+S000036096	CDS					YDR170W-A		4	803195	804517	W		2011-02-03	1999-07-17	
+S000118439	ARS		ARS425		ARSIV-806	chromosome 4		4	806052	806277			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178074	ARS_consensus_sequence					ARS425		4	806099	806115	W		2014-11-18	2014-11-18	
+S000002578	ORF	Verified	YDR171W	HSP42	heat shock protein HSP42	chromosome 4	L000003095	4	806621	807748	W		2011-02-03	1996-07-31	Small heat shock protein (sHSP) with chaperone activity; forms barrel-shaped oligomers that suppress unfolded protein aggregation; involved in cytoskeleton reorganization after heat shock; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress
+S000030208	CDS					YDR171W		4	806621	807748	W		2011-02-03	1996-07-31	
+S000002579	ORF	Verified	YDR172W	SUP35	translation termination factor GTPase eRF3|eRF3|[PSI(+)]|[PSI]|SUP36|SUP2|SUF12|SAL3|PNM2|GST1	chromosome 4	L000002200	4	808324	810381	W	142.87	2011-02-03	1996-07-31	Translation termination factor eRF3; has a role in mRNA deadenylation and decay; altered protein conformation creates the [PSI(+)] prion that modifies cellular fitness, alters translational fidelity by affecting reading frame selection, and results in a nonsense suppressor phenotype; many stress-response genes are repressed in the presence of [PSI(+)]
+S000030332	CDS					YDR172W		4	808324	810381	W		2011-02-03	1996-07-31	
+S000002580	ORF	Verified	YDR173C	ARG82	inositol polyphosphate multikinase|ARGRIII|IPK2|ARGR3	chromosome 4	L000002727	4	811632	810565	C	95	2011-02-03	1996-07-31	Inositol polyphosphate multikinase (IPMK); sequentially phosphorylates Ins(1,4,5)P3 to form Ins(1,3,4,5,6)P5; also has diphosphoinositol polyphosphate synthase activity; regulates arginine-, phosphate-, and nitrogen-responsive genes
+S000030416	CDS					YDR173C		4	811632	810565	C		2011-02-03	1996-07-31	
+S000002581	ORF	Verified	YDR174W	HMO1	HSM2	chromosome 4	L000003234	4	812110	812850	W		2011-02-03	1996-07-31	Chromatin associated high mobility group (HMG) family member; involved in compacting, bending, bridging and looping DNA; rDNA-binding component that regulates transcription from RNA polymerase I promoters; regulates start site selection of ribosomal protein genes via RNA polymerase II promoters; role in genome maintenance; associates with a 5'-3' DNA helicase and Fpr1p, a prolyl isomerase; relocalizes to the cytosol in response to hypoxia
+S000031344	CDS					YDR174W		4	812110	812850	W		2011-02-03	1996-07-31	
+S000002582	ORF	Verified	YDR175C	RSM24	mitochondrial 37S ribosomal protein RSM24	chromosome 4		4	814152	813193	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000031376	CDS					YDR175C		4	814152	813193	C		2011-02-03	1996-07-31	
+S000002583	ORF	Verified	YDR176W	NGG1	histone acetyltransferase NGG1|SWI7|ADA3	chromosome 4	L000001241	4	814452	816560	W		2011-02-03	1996-07-31	Subunit of chromatin modifying histone acetyltransferase complexes; member of the ADA complex, the SAGA complex, and the SLIK complex; transcriptional regulator involved in glucose repression of Gal4p-regulated genes
+S000031512	CDS					YDR176W		4	814452	816560	W		2011-02-03	1996-07-31	
+S000002584	ORF	Verified	YDR177W	UBC1	E2 ubiquitin-conjugating protein UBC1	chromosome 4	L000002406	4	816878	817525	W		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme; key E2 partner with Ubc4p for the anaphase-promoting complex (APC); mediates selective degradation of short-lived and abnormal proteins; plays a role in vesicle biogenesis and ER-associated protein degradation (ERAD); component of the cellular stress response; protein abundance increases in response to DNA replication stress key E2 partner with Ubc4p for the anaphase-promoting complex (APC)
+S000031590	CDS					YDR177W		4	816878	817525	W		2011-02-03	1996-07-31	
+S000002585	ORF	Verified	YDR178W	SDH4	succinate dehydrogenase membrane anchor subunit SDH4|ACN18	chromosome 4	L000001826	4	817950	818495	W		2011-02-03	1996-07-31	Membrane anchor subunit of succinate dehydrogenase (SDH); involved in coupling the oxidation of succinate to the transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; has similarity to human SDH subunit D (SDHD), which is implicated in paraganglioma
+S000032569	CDS					YDR178W		4	817950	818495	W		2011-02-03	1996-07-31	
+S000002586	ORF	Verified	YDR179C	CSN9		chromosome 4	S000007578	4	819196	818708	C		2011-02-03	1996-07-31	Subunit of the Cop9 signalosome; Cop9 signalosome is required for deneddylation, or removal of the ubiquitin-like protein Rub1p from Cdc53p (cullin); involved in adaptation to pheromone signaling
+S000032647	CDS					YDR179C		4	819196	818708	C		2011-02-03	1996-07-31	
+S000002587	ORF	Verified	YDR179W-A	NVJ3		chromosome 4		4	819433	820824	W		2011-02-03	2004-07-21|1996-07-31	Protein with a potential role in tethering ER and vacuoles; localizes to nucleus-vacuole junctions in an Mdm1p-dependent manner; contains a lipid-binding PXA domain
+S000037444	CDS					YDR179W-A		4	819433	820824	W		2011-02-03	2004-07-21|1996-07-31	
+S000002588	ORF	Verified	YDR180W	SCC2	cohesin-loading factor complex subunit SCC2	chromosome 4	L000004262	4	821295	825776	W		2011-02-03	1996-07-31	Subunit of cohesin loading factor (Scc2p-Scc4p); a complex required for loading of cohesin complexes onto chromosomes; involved in establishing sister chromatid cohesion during DSB repair via histone H2AX; promotes gene expression program that supports translational fidelity; evolutionarily-conserved adherin; relocalizes to cytosol in response to hypoxia; human disorder Cornelia de Lange syndrome is caused by mutations in NIPBL, the human ortholog of SCC2
+S000034456	CDS					YDR180W		4	821295	825776	W		2011-02-03	1996-07-31	
+S000002589	ORF	Verified	YDR181C	SAS4		chromosome 4	L000004214	4	827355	825910	C		2011-02-03	1996-07-31	Subunit of the SAS complex (Sas2p, Sas4p, Sas5p); acetylates free histones and nucleosomes and regulates transcriptional silencing; required for the HAT activity of Sas2p
+S000034496	CDS					YDR181C		4	827355	825910	C		2011-02-03	1996-07-31	
+S000002590	ORF	Verified	YDR182W	CDC1	putative lipid phosphatase CDC1|ESP2|DSR1|DSC1	chromosome 4	L000000241	4	827582	829057	W		2011-02-03	1996-07-31	Putative mannose-ethanolamine phosphate phosphodiesterase; involved in GPI-anchor remodeling prior to the attachment of cell wall proteins to beta 1,3-glucan, removing ethanolamine phosphate from the first mannose of GPI anchors; mutants display elevated Ca2+-dependent signaling resulting in secondary actin polarization and Golgi inheritance defects; enzyme is Mn2+-dependent; mutants have cell division cycle defect and fragile cell walls
+S000034637	CDS					YDR182W		4	827582	829057	W		2011-02-03	1996-07-31	
+S000028539	ORF	Uncharacterized	YDR182W-A			chromosome 4		4	829151	829354	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031148	CDS					YDR182W-A		4	829151	829354	W		2011-02-03	2003-07-29	
+S000002591	ORF	Verified	YDR183W	PLP1		chromosome 4	L000003424	4	829585	830277	W		2011-02-03	1996-07-31	Protein that interacts with CCT (chaperonin containing TCP-1) complex; has a role in actin and tubulin folding; has weak similarity to phosducins, which are G-protein regulators
+S000034709	CDS					YDR183W		4	829585	830277	W		2011-02-03	1996-07-31	
+S000028540	ORF	Dubious	YDR183C-A			chromosome 4		4	830654	830397	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by fungal homology and RT-PCR
+S000031190	CDS					YDR183C-A		4	830654	830397	C		2011-02-03	2003-07-29	
+S000002592	ORF	Verified	YDR184C	ATC1	LIC4	chromosome 4	L000004405	4	831513	830629	C		2011-02-03	1996-07-31	Nuclear protein; possibly involved in regulation of cation stress responses and/or in the establishment of bipolar budding pattern; relative distribution to the nucleus decreases upon DNA replication stress
+S000034749	CDS					YDR184C		4	831513	830629	C		2011-02-03	1996-07-31	
+S000002593	ORF	Verified	YDR185C	UPS3	GEP2	chromosome 4		4	832473	831934	C		2011-02-03	1996-07-31	Mitochondrial protein of unknown function; similar to Ups1p and Ups2p which are involved in regulation of mitochondrial cardiolipin and phosphatidylethanolamine levels; null is viable but interacts synthetically with ups1 and ups2 mutations; UPS3 has a paralog, UPS2, that arose from the whole genome duplication
+S000035675	CDS					YDR185C		4	832473	831934	C		2011-02-03	1996-07-31	
+S000002594	ORF	Verified	YDR186C	SND1		chromosome 4		4	835492	832859	C		2011-02-03	1996-07-31	Protein involved in SRP-independent targeting of substrates to the ER; component of an alternative ER targeting pathway that has partial functional redundancy with the GET pathway; preference for substrates with downstream transmembrane domains; interacts with Env10p/Snd2p and Pho88p/Snd3p; can compensate for loss of SRP; may interact with ribosomes, based on co-purification experiments; GFP-fusion protein localizes to the cytoplasm
+S000035744	CDS					YDR186C		4	835492	832859	C		2011-02-03	1996-07-31	
+S000002596	ORF	Verified	YDR188W	CCT6	chaperonin-containing T-complex subunit CCT6|TCP20|TCP6|HTR3	chromosome 4	L000002271	4	836421	838061	W		2011-02-03	1996-07-31	Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, essential protein that is required for the assembly of actin and tubulins in vivo; contains an ATP-binding motif
+S000036804	CDS					YDR188W		4	836421	838061	W		2011-02-03	1996-07-31	
+S000002595	ORF	Dubious	YDR187C			chromosome 4		4	836746	836228	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified, essential ORF CCT6/YDR188W
+S000035828	CDS					YDR187C		4	836746	836228	C		2011-02-03	1996-07-31	
+S000002597	ORF	Verified	YDR189W	SLY1	syntaxin-binding protein	chromosome 4	L000001923	4	838392	840392	W		2011-02-03	1996-07-31	Hydrophilic protein involved in ER/Golgi vesicle trafficking; SM (Sec1/Munc-18) family protein that binds the tSNARE Sed5p and stimulates its assembly into a trans-SNARE membrane-protein complex
+S000036882	CDS					YDR189W		4	838392	840392	W		2011-02-03	1996-07-31	
+S000002598	ORF	Verified	YDR190C	RVB1	RuvB family ATP-dependent DNA helicase pontin|TIP49|TIH1|TIP49A	chromosome 4	S000007843	4	841995	840604	C		2011-02-03	1996-07-31	ATP-dependent DNA helicase, also known as pontin; member of the AAA+ and RuvB-like protein families; similar to Rvb2p; conserved component of multiple complexes including the INO80 complex, the Swr1 complex, and the R2TP complex (Rvb1-Rvb2-Tah1-Pih1); involved in multiple processes such as chromatin remodeling, box C/D snoRNP assembly, and RNA polymerase II assembly
+S000036562	CDS					YDR190C		4	841995	840604	C		2011-02-03	1996-07-31	
+S000002599	ORF	Verified	YDR191W	HST4	NAD-dependent histone deacetylase HST4	chromosome 4	L000003043	4	842337	843449	W		2011-02-03	1996-07-31	NAD(+)-dependent protein deacetylase; deacetylation targets are primarily mitochondrial proteins; involved along with Hst3p in silencing at telomeres, cell cycle progression, radiation resistance, genomic stability and short-chain fatty acid metabolism; accumulates in mitochondria in response to biotin starvation and may link biotin metabolism with energy homeostasis; member of the Sir2 family and may be the functional equivalent of human SIRT3
+S000036688	CDS					YDR191W		4	842337	843449	W		2011-02-03	1996-07-31	
+S000002601	ORF	Dubious	YDR193W			chromosome 4		4	844554	844952	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030657	CDS					YDR193W		4	844554	844952	W		2011-02-03	1996-07-31	
+S000002600	ORF	Verified	YDR192C	NUP42	FG-nucleoporin NUP42|UIP1|RIP1	chromosome 4	L000002940	4	844861	843569	C		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; also part of the nuclear pore complex (NPC) cytoplasmic filaments; contributes directly to nucleocytoplasmic transport and maintenance of the NPC permeability barrier and is involved in gene tethering at the nuclear periphery; interacts with Gle1p
+S000036723	CDS					YDR192C		4	844861	843569	C		2011-02-03	1996-07-31	
+S000002602	ORF	Verified	YDR194C	MSS116	ATP-dependent RNA helicase	chromosome 4	L000001206	4	847946	845952	C		2011-02-03	1996-07-31	Mitochondrial transcription elongation factor; DEAD-box protein; required for efficient splicing of mitochondrial Group I and II introns; non-polar RNA helicase that also facilities strand annealing; promotes RNA folding by stabilizing an early assembly intermediate
+S000030696	CDS					YDR194C		4	847946	845952	C		2011-02-03	1996-07-31	
+S000028541	ORF	Uncharacterized	YDR194W-A			chromosome 4		4	848071	848223	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031191	CDS					YDR194W-A		4	848071	848223	W		2011-02-03	2003-07-29	
+S000002603	ORF	Verified	YDR195W	REF2	RNA-processing protein REF2	chromosome 4	L000002661	4	848599	850200	W		2011-02-03	1996-07-31	RNA-binding protein; involved in the cleavage step of mRNA 3'-end formation prior to polyadenylation, and in snoRNA maturation; part of holo-CPF subcomplex APT, which associates with 3'-ends of snoRNA- and mRNA-encoding genes; putative regulatory subunit of type 1 protein phosphatase Glc7p, required for actomyosin ring formation, and for timely dephosphorylation and release of Bnr1p from the division site; relocalizes to the cytosol in response to hypoxia
+S000030881	CDS					YDR195W		4	848599	850200	W		2011-02-03	1996-07-31	
+S000002604	ORF	Verified	YDR196C	CAB5	putative dephospho-CoA kinase	chromosome 4		4	850999	850274	C		2011-02-03	1996-07-31	Subunit of the CoA-Synthesizing Protein Complex (CoA-SPC); subunits of this complex are: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p; probable dephospho-CoA kinase (DPCK) that catalyzes the last step in coenzyme A biosynthesis; null mutant lethality is complemented by human homolog DCAKD and by E. coli coaE (encoding DPCK); detected in purified mitochondria in high-throughput studies; also localized to lipid droplets
+S000031739	CDS					YDR196C		4	850999	850274	C		2011-02-03	1996-07-31	
+S000002605	ORF	Verified	YDR197W	CBS2	CBP7	chromosome 4	L000000231	4	851228	852397	W		2011-02-03	1996-07-31	Mitochondrial translational activator of the COB mRNA; interacts with translating ribosomes, acts on the COB mRNA 5'-untranslated leader
+S000032020	CDS					YDR197W		4	851228	852397	W		2011-02-03	1996-07-31	
+S000002606	ORF	Verified	YDR198C	RKM2	protein-lysine N-methyltransferase	chromosome 4		4	853972	852533	C		2011-02-03	1996-07-31	Ribosomal protein lysine methyltransferase; responsible for trimethylation of the lysine residue at position 3 of Rpl12Ap and Rpl12Bp
+S000032059	CDS					YDR198C		4	853972	852533	C		2011-02-03	1996-07-31	
+S000002607	ORF	Dubious	YDR199W			chromosome 4		4	854175	854540	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene VPS64/YDR200C; computationally predicted to have thiol-disulfide oxidoreductase activity
+S000033057	CDS					YDR199W		4	854175	854540	W		2011-02-03	1996-07-31	
+S000002608	ORF	Verified	YDR200C	VPS64	FAR9	chromosome 4		4	856093	854279	C		2011-02-03	1996-07-31	Protein required for cytoplasm to vacuole targeting of proteins; forms a complex with Far3p and Far7p to Far11p involved in recovery from pheromone-induced cell cycle arrest; mutant has increased aneuploidy tolerance; VPS64 has a paralog, FAR10, that arose from the whole genome duplication
+S000037661	CDS					YDR200C		4	856093	854279	C		2011-02-03	1996-07-31	
+S000002609	ORF	Verified	YDR201W	SPC19		chromosome 4	L000004693	4	856317	856814	W		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; also localized to nuclear side of spindle pole body
+S000030528	CDS					YDR201W		4	856317	856814	W		2011-02-03	1996-07-31	
+S000002611	ORF	Dubious	YDR203W			chromosome 4		4	857682	857999	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF RAV2/YDR202C
+S000030685	CDS					YDR203W		4	857682	857999	W		2011-02-03	1996-07-31	
+S000002610	ORF	Verified	YDR202C	RAV2		chromosome 4		4	857953	856898	C		2011-02-03	1996-07-31	Subunit of RAVE complex (Rav1p, Rav2p, Skp1p); the RAVE complex associates with the V1 domain of the vacuolar membrane (H+)-ATPase (V-ATPase) and promotes assembly and reassembly of the holoenzyme
+S000030555	CDS					YDR202C		4	857953	856898	C		2011-02-03	1996-07-31	
+S000002612	ORF	Verified	YDR204W	COQ4	ubiquinone biosynthesis protein COQ4	chromosome 4	L000003957	4	858137	859144	W		2011-02-03	1996-07-31	Protein with a role in ubiquinone (Coenzyme Q) biosynthesis; possibly functioning in stabilization of Coq7p; located on matrix face of mitochondrial inner membrane; component of a mitochondrial ubiquinone-synthesizing complex; human homolog COQ4 can complement yeast coq4 null mutant
+S000030757	CDS					YDR204W		4	858137	859144	W		2011-02-03	1996-07-31	
+S000002613	ORF	Verified	YDR205W	MSC2	metal cation transporter MSC2	chromosome 4		4	859346	861520	W		2011-02-03	2003-09-22|1996-07-31	Endoplasmic reticulum zinc transporter; part of a heterodimeric transporter with Zrg17p that transfers zinc from the cytosol to the ER lumen; member of the cation diffusion facilitator family of efflux pumps; localizes to ER and nucleus; mutations affect the cellular distribution of zinc and also confer defects in meiotic recombination between homologous chromatids
+S000031604	CDS					YDR205W		4	859346	861520	W		2011-02-03	2003-09-22|1996-07-31	
+S000002614	ORF	Verified	YDR206W	EBS1		chromosome 4	L000004629	4	862054	864708	W		2011-02-03	1996-07-31	Protein involved in translation inhibition and nonsense-mediated decay; interacts with cap binding protein Cdc33p and with Nam7p; localizes to P-bodies upon glucose starvation; mRNA abundance regulated by mRNA decay factors; EBS1 has a paralog, EST1, that arose from the whole genome duplication
+S000031711	CDS					YDR206W		4	862054	864708	W		2011-02-03	1996-07-31	
+S000002615	ORF	Verified	YDR207C	UME6	DNA-binding transcriptional regulator UME6|RIM16|NIM2|CAR80	chromosome 4	L000002426	4	867522	865012	C		2011-02-03	1996-07-31	Rpd3L histone deacetylase complex subunit; key transcriptional regulator of early meiotic genes; involved in chromatin remodeling and transcriptional repression via DNA looping; binds URS1 upstream regulatory sequence, represses transcription by recruiting conserved histone deacetylase Rpd3p (through co-repressor Sin3p) and chromatin-remodeling factor Isw2p; couples metabolic responses to nutritional cues with initiation and progression of meiosis, forms compl
+S000031768	CDS					YDR207C		4	867522	865012	C		2011-02-03	1996-07-31	
+S000002616	ORF	Verified	YDR208W	MSS4	1-phosphatidylinositol-4-phosphate 5-kinase	chromosome 4	L000001203	4	868224	870563	W		2011-02-03	1996-07-31	Phosphatidylinositol-4-phosphate 5-kinase; involved in actin cytoskeleton organization and cell morphogenesis; multicopy suppressor of stt4 mutation
+S000031959	CDS					YDR208W		4	868224	870563	W		2011-02-03	1996-07-31	
+S000002618	ORF	Uncharacterized	YDR210W			chromosome 4		4	871074	871301	W		2011-02-03	1996-07-31	Predicted tail-anchored plasma membrane protein; contains a conserved CYSTM module; related proteins in other organisms may be involved in response to stress; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery
+S000034858	CDS					YDR210W		4	871074	871301	W		2011-02-03	1996-07-31	
+S000002617	ORF	Uncharacterized	YDR209C			chromosome 4		4	871449	871036	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR209C is not an essential gene; partially overlaps uncharacterized gene YDR210W
+S000032797	CDS					YDR209C		4	871449	871036	C		2011-02-03	1996-07-31	
+S000006867	long_terminal_repeat		YDRWdelta13			chromosome 4		4	871821	872152	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006884	LTR_retrotransposon		YDRWTy2-2		Ty2	chromosome 4		4	871821	877779	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007392	transposable_element_gene		YDR210W-A		gag protein	chromosome 4		4	872112	873428	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000029817	CDS					YDR210W-A		4	872112	873428	W		2011-02-03	1999-07-17	
+S000007393	transposable_element_gene		YDR210W-B		gag-pol fusion protein	chromosome 4		4	872112	877425	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000029819	CDS					YDR210W-B		4	872112	873404	W		2011-02-03	1999-07-17	
+S000029820	CDS					YDR210W-B		4	873406	877425	W		2011-02-03	1999-07-17	
+S000029821	plus_1_translational_frameshift					YDR210W-B		4	873405	873405	W		2011-02-03	1999-07-17	
+S000006868	long_terminal_repeat		YDRWdelta14			chromosome 4		4	877448	877779	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007410	transposable_element_gene		YDR210C-D		gag-pol fusion protein|YDR210W-D	chromosome 4		4	883927	878659	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000029824	CDS					YDR210C-D		4	882621	878659	C		2011-02-03	1999-07-17	
+S000029823	CDS					YDR210C-D		4	883927	882623	C		2011-02-03	1999-07-17	
+S000029825	plus_1_translational_frameshift					YDR210C-D		4	882622	882622	C		2011-02-03	1999-07-17	
+S000007409	transposable_element_gene		YDR210C-C		gag protein|YDR210W-C	chromosome 4		4	883927	882605	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000029822	CDS					YDR210C-C		4	883927	882605	C		2011-02-03	1999-07-17	
+S000006860	LTR_retrotransposon		YDRCTy1-2		Ty1	chromosome 4		4	884220	878303	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000006613	tRNA_gene		tI(UAU)D			chromosome 4	L000003769	4	884361	884493	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000035113	intron					tI(UAU)D		4	884398	884457	W		2011-02-03	2000-05-19	
+S000035111	noncoding_exon					tI(UAU)D		4	884361	884397	W		2011-02-03	2000-05-19	
+S000035112	noncoding_exon					tI(UAU)D		4	884458	884493	W		2011-02-03	2000-05-19	
+S000002619	ORF	Verified	YDR211W	GCD6	translation initiation factor eIF2B catalytic subunit epsilon	chromosome 4	L000000674	4	884727	886865	W		2011-02-03	1996-07-31	Catalytic epsilon subunit of the translation initiation factor eIF2B; eIF2B is the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression; forms cytoplasmic foci upon DNA replication stress
+S000034999	CDS					YDR211W		4	884727	886865	W		2011-02-03	1996-07-31	
+S000002620	ORF	Verified	YDR212W	TCP1	chaperonin-containing T-complex alpha subunit TCP1|CCT1	chromosome 4	L000002267	4	887232	888911	W	127	2011-02-03	1996-07-31	Alpha subunit of chaperonin-containing T-complex; complex mediates protein folding in the cytosol; involved in actin cytoskeleton maintenance; overexpression in neurons suppresses formation of pathogenic conformations of huntingtin protein
+S000035134	CDS					YDR212W		4	887232	888911	W		2011-02-03	1996-07-31	
+S000002621	ORF	Verified	YDR213W	UPC2	MOX4	chromosome 4		4	889751	892492	W		2011-02-03	1996-07-31	Sterol regulatory element binding protein; induces sterol biosynthetic genes, upon sterol depletion; acts as a sterol sensor, binding ergosterol in sterol rich conditions; relocates from intracellular membranes to perinuclear foci upon sterol depletion; redundant activator of filamentation with ECM22, up-regulating the expression of filamentous growth genes; contains a Zn[2]-Cys[6] binuclear cluster; UPC2 has a paralog, ECM22, that arose from the whole genome duplication
+S000036022	CDS					YDR213W		4	889751	892492	W		2011-02-03	1996-07-31	
+S000002622	ORF	Verified	YDR214W	AHA1		chromosome 4		4	892875	893927	W		2011-02-03	1996-07-31	Co-chaperone that binds Hsp82p and activates its ATPase activity; plays a role in determining prion variants; similar to Hch1p; expression is regulated by stresses such as heat shock; protein abundance increases in response to DNA replication stress
+S000036092	CDS					YDR214W		4	892875	893927	W		2011-02-03	1996-07-31	
+S000002623	ORF	Dubious	YDR215C			chromosome 4		4	894502	894089	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant displays elevated sensitivity to expression of a mutant huntingtin fragment or of alpha-synuclein
+S000036137	CDS					YDR215C		4	894502	894089	C		2011-02-03	1996-07-31|2011-02-03	
+S000002624	ORF	Verified	YDR216W	ADR1	DNA-binding transcription factor ADR1	chromosome 4	L000000050	4	895035	899006	W	125	2011-02-03	1996-07-31	Carbon source-responsive zinc-finger transcription factor; required for transcription of the glucose-repressed gene ADH2, of peroxisomal protein genes, and of genes required for ethanol, glycerol, and fatty acid utilization
+S000036296	CDS					YDR216W		4	895035	899006	W		2011-02-03	1996-07-31	
+S000130175	ARS		ARS427			chromosome 4		4	899051	899596			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000002625	ORF	Verified	YDR217C	RAD9	chromatin-binding protein RAD9	chromosome 4	L000001562	4	903480	899551	C	126	2011-02-03	1996-07-31	DNA damage-dependent checkpoint protein; required for cell-cycle arrest in G1/S, intra-S, and G2/M, plays a role in postreplication repair (PRR) pathway; transmits checkpoint signal by activating Rad53p and Chk1p; hyperphosphorylated by Mec1p and Tel1p; multiple cyclin dependent kinase consensus sites and the C-terminal BRCT domain contribute to DNA damage checkpoint activation; Rad9p Chk1 Activating Domain (CAD) is phosphorylated at multiple sites by Cdc28p/Clb2p
+S000036338	CDS					YDR217C		4	903480	899551	C		2011-02-03	1996-07-31	
+S000002626	ORF	Verified	YDR218C	SPR28	septin SPR28	chromosome 4	L000004150	4	905052	903781	C		2011-02-03	1996-07-31	Sporulation-specific homolog of the CDC3/10/11/12 family of genes; meiotic septin expressed at high levels during meiotic divisions and ascospore formation; the yeast CDC3/10/11/12 family is a family of bud neck microfilament genes
+S000037012	CDS					YDR218C		4	905052	903781	C		2011-02-03	1996-07-31	
+S000002627	ORF	Verified	YDR219C	MFB1		chromosome 4		4	906852	905455	C		2011-02-03	1996-07-31	Mitochondria-associated F-box protein; involved in maintenance of normal mitochondrial morphology; interacts with Skp1p through the F-box motif; preferentially localizes to the mother cell during budding
+S000037083	CDS					YDR219C		4	906852	905455	C		2011-02-03	1996-07-31	
+S000002628	ORF	Dubious	YDR220C			chromosome 4		4	907293	907000	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant exhibits synthetic phenotype with alpha-synuclein
+S000037911	CDS					YDR220C		4	907293	907000	C		2011-02-03	1996-07-31	
+S000002629	ORF	Verified	YDR221W	GTB1		chromosome 4		4	907330	909438	W		2011-02-03	1996-07-31	Glucosidase II beta subunit, forms a complex with alpha subunit Rot2p; involved in removal of two glucose residues from N-linked glycans during glycoprotein biogenesis in the ER; relocalizes from ER to cytoplasm upon DNA replication stress
+S000029995	CDS					YDR221W		4	907330	909438	W		2011-02-03	1996-07-31	
+S000002630	ORF	Uncharacterized	YDR222W			chromosome 4		4	910054	911301	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; YDR222W has a paralog, YLR225C, that arose from the whole genome duplication
+S000030976	CDS					YDR222W		4	910054	911301	W		2011-02-03	1996-07-31	
+S000002631	ORF	Verified	YDR223W	CRF1		chromosome 4		4	912099	913502	W		2011-02-03	1996-07-31	Transcriptional corepressor; involved in repression of ribosomal protein (RP) gene transcription via the TOR signaling pathway which promotes accumulation of Crf1p in the nucleus; role in repression of RP genes varies by strain; CRF1 has a paralog, IFH1, that arose from the whole genome duplication
+S000031073	CDS					YDR223W		4	912099	913502	W		2011-02-03	1996-07-31	
+S000118440	ARS		ARS428		ARSIV-914	chromosome 4		4	913790	914038			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178075	ARS_consensus_sequence					ARS428		4	913856	913872	W		2014-11-18	2014-11-18	
+S000002632	ORF	Verified	YDR224C	HTB1	histone H2B|SPT12	chromosome 4	L000000829	4	914712	914317	C	132	2011-02-03	1996-07-31	Histone H2B; core histone protein required for chromatin assembly and chromosome function; nearly identical to HTB2; Rad6p-Bre1p-Lge1p mediated ubiquitination regulates reassembly after DNA replication, transcriptional activation, meiotic DSB formation and H3 methylation
+S000031108	CDS					YDR224C		4	914712	914317	C		2011-02-03	1996-07-31	
+S000002633	ORF	Verified	YDR225W	HTA1	histone H2A|SPT11|H2A1	chromosome 4	L000000827	4	915530	915928	W	132	2011-02-03	1996-07-31	Histone H2A; core histone protein required for chromatin assembly and chromosome function; one of two nearly identical subtypes (see also HTA2); DNA damage-dependent phosphorylation by Mec1p facilitates DNA repair; acetylated by Nat4p; N-terminally propionylated in vivo
+S000031234	CDS					YDR225W		4	915530	915928	W		2011-02-03	1996-07-31	
+S000002634	ORF	Verified	YDR226W	ADK1	adenylate kinase ADK1|AKY2|AKY1	chromosome 4	L000000046	4	916486	917154	W	133	2011-02-03	1996-07-31	Adenylate kinase, required for purine metabolism; localized to the cytoplasm and the mitochondria; lacks cleavable signal sequence; protein abundance increases in response to DNA replication stress; mutations affecting Adk1p catalytic activity deregulate expression of phosphate utilization genes PHO5 and PHO84; human homolog AK1 can complement yeast adk1 mutant
+S000032219	CDS					YDR226W		4	916486	917154	W		2011-02-03	1996-07-31	
+S000002635	ORF	Verified	YDR227W	SIR4	chromatin-silencing protein SIR4|UTH2|STE9|ASD1	chromosome 4	L000001897	4	917571	921647	W	128	2011-02-03	1996-07-31	SIR protein involved in assembly of silent chromatin domains; silent information regulator (SIR) along with SIR2 and SIR3; involved in assembly of silent chromatin domains at telomeres and the silent mating-type loci; some alleles of SIR4 prolong lifespan; required for telomere hypercluster formation in quiescent yeast cells
+S000032314	CDS					YDR227W		4	917571	921647	W		2011-02-03	1996-07-31	
+S000118441	ARS		ARS429		ARSIV-922	chromosome 4		4	921692	921939			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178076	ARS_consensus_sequence					ARS429		4	921736	921752	W		2014-11-18	2014-11-18	
+S000002636	ORF	Verified	YDR228C	PCF11		chromosome 4	L000004116	4	923806	921926	C		2011-02-03	1996-07-31	mRNA 3' end processing factor; essential component of cleavage and polyadenylation factor IA (CF IA), involved in pre-mRNA 3' end processing and in transcription termination; binds C-terminal domain of largest subunit of RNA pol II (Rpo21p); required for gene looping; relocalizes to the cytosol in response to hypoxia
+S000032352	CDS					YDR228C		4	923806	921926	C		2011-02-03	1996-07-31	
+S000002637	ORF	Verified	YDR229W	IVY1		chromosome 4		4	924785	926146	W		2011-02-03	1996-07-31	Phospholipid-binding protein that interacts with both Ypt7p and Vps33p; may partially counteract the action of Vps33p and vice versa, localizes to the rim of the vacuole as cells approach stationary phase
+S000033246	CDS					YDR229W		4	924785	926146	W		2011-02-03	1996-07-31	
+S000002638	ORF	Dubious	YDR230W			chromosome 4		4	926223	926570	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene COX20/YDR231C
+S000034096	CDS					YDR230W		4	926223	926570	W		2011-02-03	1996-07-31	
+S000002639	ORF	Verified	YDR231C	COX20		chromosome 4	S000007474	4	926910	926293	C		2011-02-03	1996-07-31	Mitochondrial inner membrane protein; required for proteolytic processing of Cox2p and its assembly into cytochrome c oxidase
+S000034128	CDS					YDR231C		4	926910	926293	C		2011-02-03	1996-07-31	
+S000002640	ORF	Verified	YDR232W	HEM1	5-aminolevulinate synthase|OLE3|CYD1	chromosome 4	L000000760	4	927452	929098	W		2011-02-03	1996-07-31	5-aminolevulinate synthase; catalyzes the first step in the heme biosynthetic pathway; an N-terminal signal sequence is required for localization to the mitochondrial matrix; expression is regulated by Hap2p-Hap3p; has a pyridoxal phosphate cofactor whose insertion is mediated by Mcx1p
+S000034287	CDS					YDR232W		4	927452	929098	W		2011-02-03	1996-07-31	
+S000002641	ORF	Verified	YDR233C	RTN1		chromosome 4		4	930357	929470	C		2011-02-03	1996-07-31	Reticulon protein; involved in nuclear pore assembly and maintenance of tubular ER morphology; promotes membrane curvature; regulates the ER asymmetry-induced inheritance block during ER stress; role in ER-derived peroxisomal biogenesis; increases tubular ER when overexpressed; mutants have reduced phosphatidylserine transfer between the ER and mitochondria; interacts with exocyst subunit Sec6p, Yip3p, and Sbh1p; member of the RTNLA subfamily
+S000034311	CDS					YDR233C		4	930357	929470	C		2011-02-03	1996-07-31	
+S000002642	ORF	Verified	YDR234W	LYS4	homoaconitate hydratase LYS4|LYS3	chromosome 4	L000000966	4	931129	933210	W	145.87	2011-02-03	1996-07-31	Homoaconitase; catalyzes the conversion of homocitrate to homoisocitrate, which is a step in the lysine biosynthesis pathway
+S000035310	CDS					YDR234W		4	931129	933210	W		2011-02-03	1996-07-31	
+S000002643	ORF	Verified	YDR235W	PRP42	mRNA splicing protein PRP42|SNU65|MUD16	chromosome 4	L000003969	4	933504	935138	W		2011-02-03	1996-07-31	U1 snRNP protein involved in splicing; required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats
+S000035386	CDS					YDR235W		4	933504	935138	W		2011-02-03	1996-07-31	
+S000002644	ORF	Verified	YDR236C	FMN1	riboflavin kinase	chromosome 4		4	935892	935236	C		2011-02-03	1996-07-31	Riboflavin kinase, produces riboflavin monophosphate (FMN); FMN is a necessary cofactor for many enzymes; predominantly localizes to the microsomal fraction and also found in the mitochondrial inner membrane; human RFK functionally complements the lethality of the null mutation
+S000035407	CDS					YDR236C		4	935892	935236	C		2011-02-03	1996-07-31	
+S000002645	ORF	Verified	YDR237W	MRPL7	mitochondrial 54S ribosomal protein YmL7/YmL5|YmL7|YmL5	chromosome 4	L000002684	4	936615	937493	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; MRPL7 produces both YmL5 and YmL7, which are two different modified forms of the same protein
+S000035502	CDS					YDR237W		4	936615	937493	W		2011-02-03	1996-07-31	
+S000002646	ORF	Verified	YDR238C	SEC26	coatomer subunit beta	chromosome 4	L000001847	4	940816	937895	C		2011-02-03	1996-07-31	Essential beta-coat protein of the COPI coatomer; involved in ER-to-Golgi protein trafficking and maintenance of normal ER morphology; shares 43% sequence identity with mammalian beta-coat protein (beta-COP)
+S000035532	CDS					YDR238C		4	940816	937895	C		2011-02-03	1996-07-31	
+S000002647	ORF	Verified	YDR239C			chromosome 4		4	943420	941057	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments
+S000035595	CDS					YDR239C		4	943420	941057	C		2011-02-03	1996-07-31	
+S000002649	ORF	Dubious	YDR241W	BUD26		chromosome 4		4	945151	945438	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 1% of ORF overlaps the verified gene SNU56; diploid mutant displays a weak budding pattern phenotype in a systematic assay
+S000036282	CDS					YDR241W		4	945151	945438	W		2011-02-03	1996-07-31	
+S000002648	ORF	Verified	YDR240C	SNU56	MUD10	chromosome 4	L000004362	4	945152	943674	C		2011-02-03	1996-07-31	Component of U1 snRNP required for mRNA splicing via spliceosome; yeast specific, no metazoan counterpart; interacts with mRNA in commitment complex
+S000036072	CDS					YDR240C		4	945152	943674	C		2011-02-03	1996-07-31	
+S000006866	long_terminal_repeat		YDRWdelta12			chromosome 4		4	945351	945673	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006857	long_terminal_repeat		YDRCsigma3			chromosome 4		4	946295	945955	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006778	tRNA_gene		tY(GUA)D	SUP2		chromosome 4	L000003770	4	946312	946400	W		2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000034661	intron					tY(GUA)D		4	946351	946364	W		2011-02-03	2000-05-19	
+S000034659	noncoding_exon					tY(GUA)D		4	946312	946350	W		2011-02-03	2000-05-19	
+S000034660	noncoding_exon					tY(GUA)D		4	946365	946400	W		2011-02-03	2000-05-19	
+S000002650	ORF	Verified	YDR242W	AMD2	putative amidase	chromosome 4	L000000083	4	946807	948456	W		2011-02-03	1996-07-31	Putative amidase
+S000036363	CDS					YDR242W		4	946807	948456	W		2011-02-03	1996-07-31	
+S000002651	ORF	Verified	YDR243C	PRP28	mRNA splicing protein PRP28	chromosome 4	L000001509	4	950284	948518	C	144.27	2011-02-03	1996-07-31	RNA binding protein; involved in RNA isomerization at the 5' splice site and for exchange of U6 for U1 snRNA at the 5' splice site; similar to the RNA helicases of the DEAD-box family
+S000036406	CDS					YDR243C		4	950284	948518	C		2011-02-03	1996-07-31	
+S000002652	ORF	Verified	YDR244W	PEX5	PAS10	chromosome 4	L000001342	4	950563	952401	W		2011-02-03	1996-07-31	Peroxisomal membrane signal receptor for peroxisomal matrix proteins; receptor for the C-terminal tripeptide signal sequence (PTS1) of peroxisomal matrix proteins; required for peroxisomal matrix protein import; also proposed to have PTS1-receptor independent functions
+S000030212	CDS					YDR244W		4	950563	952401	W		2011-02-03	1996-07-31	
+S000002653	ORF	Verified	YDR245W	MNN10	alpha-1,6-mannosyltransferase|REC41|SLC2|BED1	chromosome 4	L000002793|L000002853	4	952800	953981	W		2011-02-03	1996-07-31	Subunit of a Golgi mannosyltransferase complex; complex mediates elongation of the polysaccharide mannan backbone; membrane protein of the mannosyltransferase family; other members of the complex are Anp1p, Mnn9p, Mnn11p, and Hoc1p
+S000030334	CDS					YDR245W		4	952800	953981	W		2011-02-03	1996-07-31	
+S000002654	ORF	Verified	YDR246W	TRS23	TRAPP subunit TRS23	chromosome 4	S000007432	4	954288	954947	W		2011-02-03	1996-07-31	Core component of transport protein particle (TRAPP) complexes I-III; TRAPP complexes are related multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII); human homolog is TRAPPC4
+S000030489	CDS					YDR246W		4	954288	954947	W		2011-02-03	1996-07-31	
+S000028542	ORF	Uncharacterized	YDR246W-A			chromosome 4		4	955133	955333	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031192	CDS					YDR246W-A		4	955133	955333	W		2011-02-03	2003-07-29	
+S000002655	ORF	Verified	YDR247W	VHS1	putative serine/threonine protein kinase VHS1	chromosome 4		4	956013	957398	W		2011-02-03	1996-07-31	Cytoplasmic serine/threonine protein kinase; identified as a high-copy suppressor of the synthetic lethality of a sis2 sit4 double mutant, suggesting a role in G1/S phase progression; VHS1 has a paralog, SKS1, that arose from the whole genome duplication
+S000031345	CDS					YDR247W		4	956013	957398	W		2011-02-03	1996-07-31	
+S000002656	ORF	Uncharacterized	YDR248C		gluconokinase	chromosome 4		4	958339	957758	C		2011-02-03	1996-07-31	Putative gluconokinase; sequence similarity to bacterial and human gluconokinase; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; upregulated by deletion of the RNAP-II associated factor, PAF1
+S000031382	CDS					YDR248C		4	958339	957758	C		2011-02-03	1996-07-31	
+S000002657	ORF	Uncharacterized	YDR249C			chromosome 4		4	959802	958681	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000031491	CDS					YDR249C		4	959802	958681	C		2011-02-03	1996-07-31	
+S000002658	ORF	Dubious	YDR250C			chromosome 4		4	960361	960086	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031286	CDS					YDR250C		4	960361	960086	C		2011-02-03	1996-07-31	
+S000002659	ORF	Verified	YDR251W	PAM1		chromosome 4	L000001334	4	960614	963106	W		2011-02-03	1996-07-31	Essential protein of unknown function; exhibits variable expression during colony morphogenesis; overexpression permits survival without protein phosphatase 2A, inhibits growth, and induces a filamentous phenotype; PAM1 has a paralog, SVL3, that arose from the whole genome duplication
+S000032340	CDS					YDR251W		4	960614	963106	W		2011-02-03	1996-07-31	
+S000002660	ORF	Verified	YDR252W	BTT1	CCR4-NOT core subunit BTT1	chromosome 4	L000000195	4	963412	963861	W		2011-02-03	1996-07-31	Heterotrimeric nascent polypeptide-associated complex beta3 subunit; complex binds ribosomes via its beta-subunits in close proximity to nascent polypeptides; interacts with Caf130p of the CCR4-NOT complex; similar to human BTF3; BTT1 has a paralog, EGD1, that arose from the whole genome duplication
+S000032433	CDS					YDR252W		4	963412	963861	W		2011-02-03	1996-07-31	
+S000002661	ORF	Verified	YDR253C	MET32		chromosome 4	L000003470	4	964565	963990	C		2011-02-03	1996-07-31	Zinc-finger DNA-binding transcription factor; involved in transcriptional regulation of the methionine biosynthetic genes; targets strong transcriptional activator Met4p to promoters of sulfur metabolic genes; feedforward loop exists in the regulation of genes controlled by Met4p and Met32p; lack of such a loop for MET31 may account for the differential actions of Met32p and Met31p; MET32 has a paralog, MET31, that arose from the whole genome duplication
+S000032479	CDS					YDR253C		4	964565	963990	C		2011-02-03	1996-07-31	
+S000002662	ORF	Verified	YDR254W	CHL4	MCM17|CTF17	chromosome 4	L000000321	4	965113	966489	W		2011-02-03	1996-07-31	Outer kinetochore protein required for chromosome stability; involved in new kinetochore assembly and sister chromatid cohesion; forms a stable complex with Iml3p; peripheral component of the Ctf19 kinetochore complex that interacts with Ctf19p, Ctf3p, and Mif2p; required for the spindle assembly checkpoint; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-N and fission yeast mis15
+S000034580	CDS					YDR254W		4	965113	966489	W		2011-02-03	1996-07-31	
+S000002663	ORF	Verified	YDR255C	RMD5	ubiquitin-protein ligase RMD5|GID2	chromosome 4		4	967822	966557	C		2011-02-03	1996-07-31	Component of GID Complex that confers ubiquitin ligase (U3) activity; necessary for polyubiquitination and degradation of the gluconeogenic enzyme fructose-1,6-bisphosphatase; forms dimer with Fyv10p that is then recruited to GID Complex by Gid8p; also required for sporulation; conserved protein that has a degenerate RING finger domain
+S000034601	CDS					YDR255C		4	967822	966557	C		2011-02-03	1996-07-31	
+S000002664	ORF	Verified	YDR256C	CTA1	catalase A	chromosome 4	L000000428	4	969680	968133	C		2011-02-03	1996-07-31	Catalase A; breaks down hydrogen peroxide in the peroxisomal matrix formed by acyl-CoA oxidase (Pox1p) during fatty acid beta-oxidation
+S000034671	CDS					YDR256C		4	969680	968133	C		2011-02-03	1996-07-31	
+S000002665	ORF	Verified	YDR257C	RKM4	ribosomal lysine N-methyltransferase|SET7|RMS1	chromosome 4	L000003277	4	971474	969990	C		2011-02-03	1996-07-31	Ribosomal lysine methyltransferase; specific for monomethylation of Rpl42ap and Rpl42bp (lysine 55); nuclear SET-domain containing protein
+S000034751	CDS					YDR257C		4	971474	969990	C		2011-02-03	1996-07-31	
+S000002666	ORF	Verified	YDR258C	HSP78	chaperone ATPase HSP78	chromosome 4	L000000821	4	974243	971808	C		2011-02-03	1996-07-31	Oligomeric mitochondrial matrix chaperone; cooperates with Ssc1p in mitochondrial thermotolerance after heat shock; able to prevent the aggregation of misfolded proteins as well as resolubilize protein aggregates
+S000035676	CDS					YDR258C		4	974243	971808	C		2011-02-03	1996-07-31	
+S000002667	ORF	Verified	YDR259C	YAP6	HAL7	chromosome 4	L000004344	4	975782	974631	C		2011-02-03	1996-07-31	Basic leucine zipper (bZIP) transcription factor; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; overexpression increases sodium and lithium tolerance; computational analysis suggests a role in regulation of expression of genes involved in carbohydrate metabolism; YAP6 has a paralog, CIN5, that arose from the whole genome duplication
+S000035746	CDS					YDR259C		4	975782	974631	C		2011-02-03	1996-07-31	
+S000002668	ORF	Verified	YDR260C	SWM1	APC13	chromosome 4	L000004027	4	977229	976717	C		2011-02-03	1996-07-31	Subunit of the anaphase-promoting complex (APC); APC is an E3 ubiquitin ligase that regulates the metaphase-anaphase transition and exit from mitosis; required for activation of the daughter-specific gene expression and spore wall maturation
+S000035460	CDS					YDR260C		4	977229	976717	C		2011-02-03	1996-07-31	
+S000002669	ORF	Verified	YDR261C	EXG2	glucan exo-1,3-beta-glucosidase	chromosome 4	L000000593	4	979209	977521	C	162	2011-02-03	1996-07-31	Exo-1,3-beta-glucanase; involved in cell wall beta-glucan assembly; may be anchored to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor
+S000035548	CDS					YDR261C		4	979209	977521	C		2011-02-03	1996-07-31	
+S000006722	tRNA_gene		tS(AGA)D2			chromosome 4	L000003774	4	981055	980974	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000031633	noncoding_exon					tS(AGA)D2		4	981055	980974	C		2011-02-03	2000-05-19	
+S000006869	long_terminal_repeat		YDRWdelta19			chromosome 4		4	981171	981502	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006885	LTR_retrotransposon		YDRWTy2-3		Ty2	chromosome 4		4	981171	987125	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007396	transposable_element_gene		YDR261W-A		gag protein	chromosome 4		4	981462	982778	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000034032	CDS					YDR261W-A		4	981462	982778	W		2011-02-03	1999-07-17	
+S000007397	transposable_element_gene		YDR261W-B		gag-pol fusion protein	chromosome 4		4	981462	986775	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000034034	CDS					YDR261W-B		4	981462	982754	W		2011-02-03	1999-07-17	
+S000034035	CDS					YDR261W-B		4	982756	986775	W		2011-02-03	1999-07-17	
+S000034036	plus_1_translational_frameshift					YDR261W-B		4	982755	982755	W		2011-02-03	1999-07-17	
+S000006870	long_terminal_repeat		YDRWdelta20			chromosome 4		4	986794	987125	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006853	long_terminal_repeat		YDRCdelta21			chromosome 4		4	987483	987150	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007395	transposable_element_gene		YDR261C-D		gag-pol fusion protein	chromosome 4		4	992349	987534	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; Gag processing produces capsid proteins, Pol is cleaved to produce protease, reverse transcriptase and integrase activities; in YDRCTy1-3 TYB is mutant and probably non-functional
+S000032325	CDS					YDR261C-D		4	991043	987534	C		2011-02-03	1999-07-17	
+S000032324	CDS					YDR261C-D		4	992349	991045	C		2011-02-03	1999-07-17	
+S000032326	plus_1_translational_frameshift					YDR261C-D		4	991044	991044	C		2011-02-03	1999-07-17	
+S000007394	transposable_element_gene		YDR261C-C		gag protein	chromosome 4		4	992349	991027	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; Gag processing produces capsid proteins; in YDRCTy1-3 TYB is mutant and probably non-functional
+S000031433	CDS					YDR261C-C		4	992349	991027	C		2011-02-03	1999-07-17	
+S000006861	LTR_retrotransposon		YDRCTy1-3		Ty1	chromosome 4		4	992642	987150	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
+S000006854	long_terminal_repeat		YDRCdelta22			chromosome 4		4	992642	992309	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006880	long_terminal_repeat		YDRCsigma4		YDRWsigma4	chromosome 4		4	992815	992740	C		2011-02-03	2000-05-19|2007-04-02	Ty3 LTR
+S000006577	tRNA_gene		tG(GCC)D2			chromosome 4	L000003771	4	992832	992902	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000031716	noncoding_exon					tG(GCC)D2		4	992832	992902	W		2011-02-03	2000-05-19	
+S000002670	ORF	Uncharacterized	YDR262W			chromosome 4		4	993134	993952	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole and is induced in response to the DNA-damaging agent MMS; gene expression increases in response to Zymoliase treatment
+S000036503	CDS					YDR262W		4	993134	993952	W		2011-02-03	1996-07-31	
+S000002671	ORF	Verified	YDR263C	DIN7	exodeoxyribonuclease DIN7|DIN3	chromosome 4	L000003086	4	995534	994242	C		2011-02-03	1996-07-31	Mitochondrial nuclease functioning in DNA repair and replication; modulates the stability of the mitochondrial genome, induced by exposure to mutagens, also induced during meiosis at a time nearly coincident with commitment to recombination; DIN7 has a paralog, EXO1, that arose from the whole genome duplication
+S000036563	CDS					YDR263C		4	995534	994242	C		2011-02-03	1996-07-31	
+S000002672	ORF	Verified	YDR264C	AKR1	palmitoyltransferase AKR1	chromosome 4	L000000072	4	998323	996029	C		2011-02-03	1996-07-31	Palmitoyl transferase involved in protein palmitoylation; acts as a negative regulator of pheromone response pathway; required for endocytosis of pheromone receptors; involved in cell shape control; contains ankyrin repeats; AKR1 has a paralog, AKR2, that arose from the whole genome duplication; any of several human homologs encoding DHHC-type zinc fingers (ZDHHC) can complement temperature sensitivity of yeast akr1 null mutant
+S000036629	CDS					YDR264C		4	998323	996029	C		2011-02-03	1996-07-31	
+S000002673	ORF	Verified	YDR265W	PEX10	ubiquitin-protein ligase peroxin 10|PAS4	chromosome 4	L000003961	4	998864	999877	W		2011-02-03	1996-07-31	Peroxisomal membrane E3 ubiquitin ligase; required for for Ubc4p-dependent Pex5p ubiquitination and peroxisomal matrix protein import; contains zinc-binding RING domain; mutations in human homolog cause various peroxisomal disorders
+S000036772	CDS					YDR265W		4	998864	999877	W		2011-02-03	1996-07-31	
+S000002674	ORF	Verified	YDR266C	HEL2	E3 ubiquitin-protein ligase HEL2	chromosome 4		4	1002023	1000104	C		2011-02-03	1996-07-31	RING finger ubiquitin ligase (E3); involved in ubiquitination and degradation of excess histones; interacts with Ubc4p and Rad53p; null mutant sensitive to hydroxyurea (HU); green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; computational analysis suggests a role as a transcription factor
+S000030572	CDS					YDR266C		4	1002023	1000104	C		2011-02-03	1996-07-31	
+S000002675	ORF	Verified	YDR267C	CIA1	iron-sulfur cluster assembly protein CIA1	chromosome 4		4	1003502	1002510	C		2011-02-03	1996-07-31	Component of cytosolic iron-sulfur protein assembly (CIA) machinery; acts at late step of Fe-S cluster assembly; forms CIA targeting complex with Cia2p and Met18p that directs Fe-S cluster incorporation into subset of proteins involved in methionine biosynthesis, DNA replication and repair, transcription, telomere maintenance; contains WD40 repeats; human homolog CIAO1 can complement yeast cia1 null mutant
+S000030699	CDS					YDR267C		4	1003502	1002510	C		2011-02-03	1996-07-31	
+S000002676	ORF	Verified	YDR268W	MSW1	tryptophan--tRNA ligase MSW1	chromosome 4	L000001209	4	1004004	1005143	W		2011-02-03	1996-07-31	Mitochondrial tryptophanyl-tRNA synthetase
+S000030885	CDS					YDR268W		4	1004004	1005143	W		2011-02-03	1996-07-31	
+S000002678	ORF	Verified	YDR270W	CCC2	Cu(2+)-transporting P-type ATPase CCC2	chromosome 4	L000000235	4	1005675	1008689	W		2011-02-03	1996-07-31	Cu(+2)-transporting P-type ATPase; required for export of copper from the cytosol into an extracytosolic compartment; similar to human proteins involved in Menkes and Wilsons diseases; protein abundance increases in response to DNA replication stress; affects TBSV model (+)RNA virus replication by regulating copper metabolism; human homologs ATP7A and ATP7B both complement yeast null mutant
+S000031624	CDS					YDR270W		4	1005675	1008689	W		2011-02-03	1996-07-31	
+S000002677	ORF	Dubious	YDR269C			chromosome 4		4	1005988	1005665	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031741	CDS					YDR269C		4	1005988	1005665	C		2011-02-03	1996-07-31	
+S000002679	ORF	Dubious	YDR271C			chromosome 4		4	1008766	1008395	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CCC2/YDR270W
+S000031691	CDS					YDR271C		4	1008766	1008395	C		2011-02-03	1996-07-31	
+S000002680	ORF	Verified	YDR272W	GLO2	hydroxyacylglutathione hydrolase GLO2	chromosome 4	L000003488	4	1009010	1009834	W		2011-02-03	1996-07-31	Cytoplasmic glyoxalase II; catalyzes the hydrolysis of S-D-lactoylglutathione into glutathione and D-lactate; GLO2 has a paralog, GLO4, that arose from the whole genome duplication
+S000032699	CDS					YDR272W		4	1009010	1009834	W		2011-02-03	1996-07-31	
+S000002681	ORF	Verified	YDR273W	DON1		chromosome 4		4	1010176	1011273	W		2011-02-03	1996-07-31	Meiosis-specific component of the spindle pole body; subunit of the leading edge protein (LEP) complex (Ssp1-Ady3-Don1-Irc10) that forms a ring-like structure at the leading edge of the prospore membrane (PSM) during meiosis II; required for PSM growth and closure; DON1 has a paralog, CUE5, that arose from the whole genome
+S000032778	CDS					YDR273W		4	1010176	1011273	W		2011-02-03	1996-07-31	
+S000002682	ORF	Uncharacterized	YDR274C			chromosome 4		4	1011960	1011589	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR274C is not an essential gene
+S000032843	CDS					YDR274C		4	1011960	1011589	C		2011-02-03	1996-07-31	
+S000002683	ORF	Verified	YDR275W	BSC2		chromosome 4		4	1012252	1012959	W		2011-02-03	1996-07-31	Protein of unknown function; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; null mutant displays increased translation rate and increased readthrough of premature stop codons; BSC2 has a paralog, IRC23, that arose from the whole genome duplication
+S000034861	CDS					YDR275W		4	1012252	1012959	W		2011-02-03	1996-07-31	
+S000002684	ORF	Verified	YDR276C	PMP3	SNA1	chromosome 4		4	1013643	1013476	C		2011-02-03	1996-07-31	Small plasma membrane protein; confers resistance to amphotericin B and is a potential target of this common antifungal drug; related to a family of plant polypeptides that are overexpressed under high salt concentration or low temperature; not essential for viability; deletion causes hyperpolarization of the plasma membrane potential
+S000034908	CDS					YDR276C		4	1013643	1013476	C		2011-02-03	1996-07-31	
+S000002685	ORF	Verified	YDR277C	MTH1	HTR1|DGT1|BPC1	chromosome 4	L000001213|L000000831	4	1015702	1014401	C		2011-02-03	1996-07-31	Negative regulator of the glucose-sensing signal transduction pathway; required for repression of transcription by Rgt1p; interacts with Rgt1p and the Snf3p and Rgt2p glucose sensors; phosphorylated by Yck1p, triggering Mth1p degradation; MTH1 has a paralog, STD1, that arose from the whole genome duplication
+S000035061	CDS					YDR277C		4	1015702	1014401	C		2011-02-03	1996-07-31	
+S000118442	ARS		ARS430		ARSIV-1017	chromosome 4		4	1016670	1016911			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178077	ARS_consensus_sequence					ARS430		4	1016846	1016830	C		2014-11-18	2014-11-18	
+S000006546	tRNA_gene		tE(CUC)D			chromosome 4	L000003781	4	1017278	1017207	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis
+S000031893	noncoding_exon					tE(CUC)D		4	1017278	1017207	C		2011-02-03	2000-05-19	
+S000002686	ORF	Uncharacterized	YDR278C			chromosome 4		4	1017318	1017001	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YDR278C is not an essential gene
+S000035163	CDS					YDR278C		4	1017318	1017001	C		2011-02-03	1996-07-31	
+S000002687	ORF	Verified	YDR279W	RNH202	Rnh2B	chromosome 4		4	1019368	1020420	W		2011-02-03	1996-07-31	Ribonuclease H2 subunit; required for RNase H2 activity; role in ribonucleotide excision repair; related to human AGS2 that causes Aicardi-Goutieres syndrome
+S000036060	CDS					YDR279W		4	1019368	1020420	W		2011-02-03	1996-07-31	
+S000002688	ORF	Verified	YDR280W	RRP45	exosome non-catalytic core subunit RRP45	chromosome 4	L000004578	4	1020747	1021664	W		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp45p (PM/SCL-75, EXOSC9); protein abundance increases in response to DNA replication stress
+S000035087	CDS					YDR280W		4	1020747	1021664	W		2011-02-03	1996-07-31	
+S000002689	ORF	Verified	YDR281C	PHM6		chromosome 4	S000007515	4	1022321	1022007	C		2011-02-03	1996-07-31	Protein of unknown function; expression is regulated by phosphate levels
+S000035153	CDS					YDR281C		4	1022321	1022007	C		2011-02-03	1996-07-31	
+S000006881	long_terminal_repeat		YDRWsigma5			chromosome 4		4	1023137	1023477	W		2011-02-03	2000-05-19	Ty3 LTR
+S000002690	ORF	Verified	YDR282C	MRX10		chromosome 4		4	1024755	1023511	C		2011-02-03	1996-07-31	Mitochondrial inner membrane protein of unknown function; associates with mitochondrial ribosome; localizes to the inner membrane with the C terminus facing the intermembrane space; ortholog of human RMND1, mutation in which is implicated in infantile encephaloneuromyopathy and defective mitochondrial translation
+S000035316	CDS					YDR282C		4	1024755	1023511	C		2011-02-03	1996-07-31	
+S000002691	ORF	Verified	YDR283C	GCN2	serine/threonine-protein kinase GCN2|AAS102|NDR2|AAS1	chromosome 4	L000000681	4	1030049	1025070	C	173	2011-02-03	1996-07-31	Protein kinase; phosphorylates the alpha-subunit of translation initiation factor eIF2 (Sui2p) in response to starvation; activated by uncharged tRNAs and the Gcn1p-Gcn20p complex; contributes to DNA damage checkpoint control
+S000036262	CDS					YDR283C		4	1030049	1025070	C		2011-02-03	1996-07-31	
+S000002692	ORF	Verified	YDR284C	DPP1	bifunctional diacylglycerol diphosphate phosphatase/phosphatidate phosphatase|ZRG1	chromosome 4	L000003582	4	1031419	1030550	C		2011-02-03	1996-07-31	Diacylglycerol pyrophosphate (DGPP) phosphatase; zinc-regulated vacuolar membrane-associated lipid phosphatase, dephosphorylates DGPP to phosphatidate (PA) and Pi, then PA to diacylglycerol; involved in lipid signaling and cell metabolism
+S000036340	CDS					YDR284C		4	1031419	1030550	C		2011-02-03	1996-07-31	
+S000002693	ORF	Verified	YDR285W	ZIP1		chromosome 4	L000002568	4	1032436	1035063	W		2011-02-03	1996-07-31	Transverse filament protein of the synaptonemal complex; required for normal levels of meiotic recombination and pairing between homologous chromosome during meiosis; required for meiotic recombination between non-allelc sites; potential Cdc28p substrate
+S000036473	CDS					YDR285W		4	1032436	1035063	W		2011-02-03	1996-07-31	
+S000002694	ORF	Uncharacterized	YDR286C			chromosome 4		4	1035575	1035231	C		2011-02-03	1996-07-31	Putative protein of unknown function; predicted to have thiol-disulfide oxidoreductase active site
+S000037085	CDS					YDR286C		4	1035575	1035231	C		2011-02-03	1996-07-31	
+S000002695	ORF	Verified	YDR287W	INM2	inositol monophosphate 1-phosphatase INM2	chromosome 4		4	1035995	1036873	W		2011-02-03	1996-07-31	Inositol monophosphatase; involved in biosynthesis of inositol; enzymatic activity requires magnesium ions and is inhibited by lithium and sodium ions; inm1 inm2 double mutant lacks inositol auxotrophy
+S000037232	CDS					YDR287W		4	1035995	1036873	W		2011-02-03	1996-07-31	
+S000002696	ORF	Verified	YDR288W	NSE3	Smc5-Smc6 complex subunit NSE3	chromosome 4		4	1037195	1038106	W		2011-02-03	1996-07-31	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; protein abundance increases in response to DNA replication stress
+S000037315	CDS					YDR288W		4	1037195	1038106	W		2011-02-03	1996-07-31	
+S000002698	ORF	Dubious	YDR290W		SWS1	chromosome 4		4	1039370	1039699	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RTT103
+S000031324	CDS					YDR290W		4	1039370	1039699	W		2011-02-03	1996-07-31	
+S000002697	ORF	Verified	YDR289C	RTT103		chromosome 4		4	1039509	1038280	C		2011-02-03	1996-07-31	Protein involved in transcription termination by RNA polymerase II; interacts with exonuclease Rat1p and Rai1p; has an RPR domain (carboxy-terminal domain interacting domain); also involved in regulation of Ty1 transposition
+S000037346	CDS					YDR289C		4	1039509	1038280	C		2011-02-03	1996-07-31	
+S000002699	ORF	Verified	YDR291W	HRQ1	ATP-dependent 3'-5' DNA helicase	chromosome 4		4	1039728	1042961	W		2011-02-03	1996-07-31	3'-5' DNA helicase that has DNA strand annealing activity; helicase activity is stimulated by fork structure and 3'-tail length of substrates; acts with Rad4p in nucleotide-excision repair; belongs to the widely conserved RecQ family of proteins which are involved in maintaining genomic integrity; similar to the human RecQ4p implicated in Rothmund-Thomson syndrome (RTS)
+S000032334	CDS					YDR291W		4	1039728	1042961	W		2011-02-03	1996-07-31	
+S000002700	ORF	Verified	YDR292C	SRP101	Signal recognition particle receptor subunit alpha	chromosome 4	L000002067	4	1045011	1043146	C		2011-02-03	1996-07-31	Signal recognition particle (SRP) receptor alpha subunit; contain GTPase domains; involved in SRP-dependent protein targeting; interacts with the beta subunit, Srp102p
+S000032412	CDS					YDR292C		4	1045011	1043146	C		2011-02-03	1996-07-31	
+S000002701	ORF	Verified	YDR293C	SSD1	mRNA-binding translational repressor SSD1|SRK1|RLT1|MCS1|CLA1	chromosome 4	L000002077	4	1049392	1045640	C	176	2011-02-03	1996-07-31	Translational repressor with a role in polar growth and wall integrity; regulated by Cbk1p phosphorylation to effect bud-specific translational control and localization of specific mRNAs; interacts with TOR pathway components; contains a functional N-terminal nuclear localization sequence and nucleocytoplasmic shuttling appears to be critical to Ssd1p function
+S000032503	CDS					YDR293C		4	1049392	1045640	C		2011-02-03	1996-07-31	
+S000002702	ORF	Verified	YDR294C	DPL1	sphinganine-1-phosphate aldolase DPL1|BST1	chromosome 4	L000004296	4	1052228	1050459	C		2011-02-03	1996-07-31	Dihydrosphingosine phosphate lyase; regulates intracellular levels of sphingolipid long-chain base phosphates (LCBPs), degrades phosphorylated long chain bases, prefers C16 dihydrosphingosine-l-phosphate as a substrate
+S000032617	CDS					YDR294C		4	1052228	1050459	C		2011-02-03	1996-07-31	
+S000002703	ORF	Verified	YDR295C	HDA2	PLO2	chromosome 4		4	1054647	1052623	C		2011-02-03	1996-07-31	Subunit of the HDA1 histone deacetylase complex; possibly tetrameric trichostatin A-sensitive class II histone deacetylase complex contains Hda1p homodimer and an Hda2p-Hda3p heterodimer; involved in telomere maintenance; relocalizes to the cytosol in response to hypoxia
+S000033335	CDS					YDR295C		4	1054647	1052623	C		2011-02-03	1996-07-31	
+S000002704	ORF	Verified	YDR296W	MHR1	XTC1	chromosome 4	L000004333	4	1055212	1055892	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; also involved in homologous recombination in mitochondria; required for recombination-dependent mtDNA partitioning; involved in stimulation of mitochondrial DNA replication in response to oxidative stress
+S000033421	CDS					YDR296W		4	1055212	1055892	W		2011-02-03	1996-07-31	
+S000002705	ORF	Verified	YDR297W	SUR2	sphingosine hydroxylase|SYR2	chromosome 4	L000002244|L000002259	4	1056551	1057600	W		2011-02-03	1996-07-31	Sphinganine C4-hydroxylase; catalyses the conversion of sphinganine to phytosphingosine in sphingolipid biosyntheis
+S000033508	CDS					YDR297W		4	1056551	1057600	W		2011-02-03	1996-07-31	
+S000118443	ARS		ARS431		ARSIV-1058	chromosome 4		4	1057841	1057951			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178078	ARS_consensus_sequence					ARS431		4	1057887	1057903	W		2014-11-18	2014-11-18	
+S000002706	ORF	Verified	YDR298C	ATP5	F1F0 ATP synthase subunit 5|OSC1	chromosome 4	L000000145	4	1058814	1058176	C		2011-02-03	1996-07-31	Subunit 5 of the stator stalk of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; homologous to bovine subunit OSCP (oligomycin sensitivity-conferring protein); phosphorylated
+S000033515	CDS					YDR298C		4	1058814	1058176	C		2011-02-03	1996-07-31	
+S000002707	ORF	Verified	YDR299W	BFR2	rRNA-processing protein BFR2	chromosome 4	L000004432	4	1059627	1061231	W		2011-02-03	1996-07-31	Component of the SSU and 90S preribosomes; involved in pre-18S rRNA processing; binds to U3 snoRNA and Mpp10p; multicopy suppressor of sensitivity to Brefeldin A; expression is induced during lag phase and also by cold shock
+S000033609	CDS					YDR299W		4	1059627	1061231	W		2011-02-03	1996-07-31	
+S000002708	ORF	Verified	YDR300C	PRO1	glutamate 5-kinase	chromosome 4	L000001491	4	1062791	1061505	C	187	2011-02-03	1996-07-31	Gamma-glutamyl kinase; catalyzes the first step in proline biosynthesis; required for nitrogen starvation-induced ribophagy but not for nonselective autophagy; PRO1 has a paralog, YHR033W, that arose from the whole genome duplication
+S000030896	CDS					YDR300C		4	1062791	1061505	C		2011-02-03	1996-07-31	
+S000002709	ORF	Verified	YDR301W	CFT1	YHH1	chromosome 4	L000003600	4	1063352	1067425	W		2011-02-03	1996-07-31	RNA-binding subunit of the mRNA cleavage and polyadenylation factor; involved in poly(A) site recognition and required for both pre-mRNA cleavage and polyadenylation, 51% sequence similarity with mammalian AAUAA-binding subunit of CPSF
+S000031983	CDS					YDR301W		4	1063352	1067425	W		2011-02-03	1996-07-31	
+S000002710	ORF	Verified	YDR302W	GPI11	mannose-ethanolamine phosphotransferase GPI11	chromosome 4		4	1067731	1068390	W		2011-02-03	1996-07-31	ER membrane protein involved in a late step of GPI anchor assembly; involved in the addition of phosphoethanolamine to the multiply mannosylated glycosylphosphatidylinositol (GPI) intermediate; human PIG-Fp is a functional homolog
+S000032108	CDS					YDR302W		4	1067731	1068390	W		2011-02-03	1996-07-31	
+S000002711	ORF	Verified	YDR303C	RSC3		chromosome 4		4	1071386	1068729	C		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; essential gene required for maintenance of proper ploidy and regulation of ribosomal protein genes and the cell wall/stress response; RSC3 has a paralog, RSC30, that arose from the whole genome duplication
+S000032135	CDS					YDR303C		4	1071386	1068729	C		2011-02-03	1996-07-31	
+S000002712	ORF	Verified	YDR304C	CPR5	peptidylprolyl isomerase family protein CPR5|CYP5	chromosome 4	L000000466	4	1072557	1071880	C		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (cyclophilin) of the ER; catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; transcriptionally induced in response to unfolded proteins in the ER; CPR5 has a paralog, CPR2, that arose from the whole genome duplication
+S000034130	CDS					YDR304C		4	1072557	1071880	C		2011-02-03	1996-07-31	
+S000002713	ORF	Verified	YDR305C	HNT2	bis(5'-adenosyl)-triphosphatase|APH1	chromosome 4	L000003335	4	1073488	1072746	C		2011-02-03	1996-07-31	Dinucleoside triphosphate hydrolase; has similarity to the tumor suppressor FHIT and belongs to the histidine triad (HIT) superfamily of nucleotide-binding proteins
+S000034247	CDS					YDR305C		4	1073312	1072746	C		2011-02-03	1996-07-31	
+S000034246	CDS					YDR305C		4	1073488	1073402	C		2011-02-03	1996-07-31	
+S000034248	intron					YDR305C		4	1073401	1073313	C		2011-02-03	1996-07-31	
+S000002714	ORF	Verified	YDR306C			chromosome 4		4	1075171	1073735	C		2011-02-03	1996-07-31	F-box protein of unknown function; interacts with Sgt1p via a Leucine-Rich Repeat (LRR) domain
+S000034313	CDS					YDR306C		4	1075171	1073735	C		2011-02-03	1996-07-31	
+S000006767	tRNA_gene		tV(CAC)D			chromosome 4	L000003780	4	1075544	1075472	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000030586	noncoding_exon					tV(CAC)D		4	1075544	1075472	C		2011-02-03	2000-05-19	
+S000002715	ORF	Uncharacterized	YDR307W	PMT7	putative dolichyl-phosphate-mannose--protein mannosyltransferase	chromosome 4	S000029378|L000004021|L000004010	4	1075865	1077853	W		2011-02-03	1996-07-31	Putative protein mannosyltransferase similar to Pmt1p; has a potential role in protein O-glycosylation
+S000035324	CDS					YDR307W		4	1075865	1077853	W		2011-02-03	1996-07-31	
+S000002716	ORF	Verified	YDR308C	SRB7	SSX1|MED21	chromosome 4	L000002754|S000029514|L000002097	4	1078449	1078027	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; target of the global repressor Tup1p
+S000035339	CDS					YDR308C		4	1078449	1078027	C		2011-02-03	1996-07-31	
+S000002717	ORF	Verified	YDR309C	GIC2		chromosome 4	L000003314	4	1080199	1079048	C		2011-02-03	1996-07-31	Redundant rho-like GTPase Cdc42p effector; involved in initiation of budding and cellular polarization; interacts with Cdc42p via the Cdc42/Rac-interactive binding (CRIB) domain and with PI(4,5)P2 via a polybasic region; GIC2 has a paralog, GIC1, that arose from the whole genome duplication
+S000035408	CDS					YDR309C		4	1080199	1079048	C		2011-02-03	1996-07-31	
+S000002718	ORF	Verified	YDR310C	SUM1		chromosome 4	L000003008	4	1084316	1081128	C		2011-02-03	1996-07-31	Transcriptional repressor that regulates middle-sporulation genes; required for mitotic repression of middle sporulation-specific genes; also acts as general replication initiation factor; involved in telomere maintenance, chromatin silencing; regulated by pachytene checkpoint
+S000034868	CDS					YDR310C		4	1084316	1081128	C		2011-02-03	1996-07-31	
+S000002719	ORF	Verified	YDR311W	TFB1	TFIIH/NER complex subunit TFB1	chromosome 4	L000002284	4	1085065	1086993	W		2011-02-03	1996-07-31	Subunit of TFIIH and nucleotide excision repair factor 3 complexes; required for nucleotide excision repair, target for transcriptional activators; relocalizes to the cytosol in response to hypoxia
+S000035123	CDS					YDR311W		4	1085065	1086993	W		2011-02-03	1996-07-31	
+S000002720	ORF	Verified	YDR312W	SSF2	rRNA-binding ribosome biosynthesis protein	chromosome 4	L000002081	4	1087581	1088942	W		2011-02-03	1996-07-31	Protein required for ribosomal large subunit maturation; functionally redundant with Ssf1p; member of the Brix family; SSF2 has a paralog, SSF1, that arose from the whole genome duplication
+S000035275	CDS					YDR312W		4	1087581	1088942	W		2011-02-03	1996-07-31	
+S000002721	ORF	Verified	YDR313C	PIB1	phosphatidylinositol-3-phosphate-binding ubiquitin-protein ligase	chromosome 4	L000004635	4	1090079	1089219	C		2011-02-03	1996-07-31	RING-type ubiquitin ligase of the endosomal and vacuolar membranes; binds phosphatidylinositol(3)-phosphate; contains a FYVE finger domain
+S000036080	CDS					YDR313C		4	1090079	1089219	C		2011-02-03	1996-07-31	
+S000002722	ORF	Verified	YDR314C	RAD34		chromosome 4		4	1092511	1090433	C		2011-02-03	1996-07-31	Protein involved in nucleotide excision repair (NER); homologous to RAD4
+S000036213	CDS					YDR314C		4	1092511	1090433	C		2011-02-03	1996-07-31	
+S000002723	ORF	Verified	YDR315C	IPK1	inositol pentakisphosphate 2-kinase|GSL1	chromosome 4	L000003564	4	1093586	1092741	C		2011-02-03	1996-07-31	Inositol 1,3,4,5,6-pentakisphosphate 2-kinase; nuclear protein required for synthesis of 1,2,3,4,5,6-hexakisphosphate (phytate), which is integral to cell function; has 2 motifs conserved in other fungi; ipk1 gle1 double mutant is inviable; human IPPK can complement ipk1 null mutant
+S000036321	CDS					YDR315C		4	1093586	1092741	C		2011-02-03	1996-07-31	
+S000002724	ORF	Verified	YDR316W	OMS1	putative RNA methyltransferase	chromosome 4		4	1093763	1095178	W		2011-02-03	1996-07-31	Protein integral to the mitochondrial membrane; has a conserved methyltransferase motif and is predicted to be an RNA methyltransferase; multicopy suppressor of respiratory defects caused by OXA1 mutations
+S000030079	CDS					YDR316W		4	1093763	1095178	W		2011-02-03	1996-07-31	
+S000006563	tRNA_gene		tF(GAA)D			chromosome 4	L000003779	4	1095461	1095370	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000035376	intron					tF(GAA)D		4	1095424	1095406	C		2011-02-03	2000-05-19	
+S000035375	noncoding_exon					tF(GAA)D		4	1095405	1095370	C		2011-02-03	2000-05-19	
+S000035374	noncoding_exon					tF(GAA)D		4	1095461	1095425	C		2011-02-03	2000-05-19	
+S000006871	long_terminal_repeat		YDRWdelta23			chromosome 4		4	1095767	1096104	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006882	LTR_retrotransposon		YDRWTy1-4		Ty1	chromosome 4		4	1095767	1101692	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007398	transposable_element_gene		YDR316W-A		gag protein	chromosome 4		4	1096064	1097386	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000034439	CDS					YDR316W-A		4	1096064	1097386	W		2011-02-03	1999-07-17	
+S000007399	transposable_element_gene		YDR316W-B		gag-pol fusion protein	chromosome 4		4	1096064	1101332	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000034443	CDS					YDR316W-B		4	1096064	1097368	W		2011-02-03	1999-07-17	
+S000034444	CDS					YDR316W-B		4	1097370	1101332	W		2011-02-03	1999-07-17	
+S000034445	plus_1_translational_frameshift					YDR316W-B		4	1097369	1097369	W		2011-02-03	1999-07-17	
+S000006872	long_terminal_repeat		YDRWdelta24			chromosome 4		4	1101355	1101692	W		2011-02-03	2000-05-19	Ty1 LTR
+S000002725	ORF	Verified	YDR317W	HIM1		chromosome 4	S000029210|L000000774	4	1102184	1103428	W	275	2011-02-03	1996-07-31	Protein of unknown function involved in DNA repair
+S000030217	CDS					YDR317W		4	1102184	1103428	W		2011-02-03	1996-07-31	
+S000002726	ORF	Verified	YDR318W	MCM21	CTF5	chromosome 4	L000003998	4	1103758	1104947	W		2011-02-03	2003-09-27|1996-07-31	Component of the kinetochore sub-complex COMA; COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) bridges kinetochore subunits in contact with centromeric DNA with subunits bound to microtubules during kinetochore assembly; involved in minichromosome maintenance; modified by sumoylation; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-O and fission yeast mal2
+S000030336	CDS					YDR318W		4	1103758	1103809	W		2011-02-03	2003-09-27|1996-07-31	
+S000030337	CDS					YDR318W		4	1103893	1104947	W		2011-02-03	2003-09-27	
+S000030338	intron					YDR318W		4	1103810	1103892	W		2011-02-03	2003-09-27	
+S000002727	ORF	Uncharacterized	YDR319C	YFT2	FIT2A	chromosome 4		4	1105827	1105003	C		2011-02-03	1996-07-31	Protein required for normal ER membrane biosynthesis; member of the highly conserved FIT family of proteins involved in triglyceride droplet biosynthesis and homologous to human FIT2; interacts with Sst2p and Hsp82p in high-throughput two-hybrid screens
+S000030447	CDS					YDR319C		4	1105827	1105003	C		2011-02-03	1996-07-31	
+S000002728	ORF	Verified	YDR320C	SWA2	BUD24|AUX1	chromosome 4		4	1108101	1106095	C		2011-02-03	1996-07-31	Auxilin-like protein involved in vesicular transport; clathrin-binding protein required for uncoating of clathrin-coated vesicles
+S000030945	CDS					YDR320C		4	1108101	1106095	C		2011-02-03	1996-07-31	
+S000028821	ORF	Dubious	YDR320W-B			chromosome 4		4	1108484	1108621	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene DAD4/YDR320C-A
+S000033640	CDS					YDR320W-B		4	1108484	1108621	W		2011-02-03	2003-07-29	
+S000007604	ORF	Verified	YDR320C-A	DAD4	HSK2	chromosome 4		4	1108498	1108280	C		2011-02-03	2001-02-26	Essential subunit of the Dam1 complex (aka DASH complex); complex couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
+S000037150	CDS					YDR320C-A		4	1108498	1108280	C		2011-02-03	2001-02-26	
+S000002729	ORF	Verified	YDR321W	ASP1	asparaginase ASP1	chromosome 4	L000000129	4	1108702	1109847	W	190	2011-02-03	1996-07-31	Cytosolic L-asparaginase, involved in asparagine catabolism; catalyzes hydrolysis of L-asparagine to aspartic acid and ammonia; important enzyme for the treatment of acute lymphoblastic leukemia; has low glutaminase activity and dependence; synthesized constitutively
+S000031109	CDS					YDR321W		4	1108702	1109847	W		2011-02-03	1996-07-31	
+S000119071	ARS		ARS452		ARSIV-1110|ARS431.5	chromosome 4		4	1109964	1110204			2011-02-03	2006-10-05	Autonomously Replicating Sequence
+S000002730	ORF	Verified	YDR322W	MRPL35	mitochondrial 54S ribosomal protein YmL35|YmL35	chromosome 4	L000002694	4	1110589	1111692	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000031250	CDS					YDR322W		4	1110589	1111692	W		2011-02-03	1996-07-31	
+S000007255	ORF	Verified	YDR322C-A	TIM11	F1F0 ATP synthase subunit e|ATP21	chromosome 4	L000004719	4	1112293	1112003	C		2011-02-03	1999-07-17	Subunit e of mitochondrial F1F0-ATPase; ATPase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; essential for the dimeric and oligomeric state of ATP synthase, which in turn determines the shape of inner membrane cristae
+S000035372	CDS					YDR322C-A		4	1112293	1112003	C		2011-02-03	1999-07-17	
+S000002731	ORF	Verified	YDR323C	PEP7	VPT19|VPS19|VPL21|VAC1	chromosome 4	L000001377	4	1114027	1112480	C	192	2011-02-03	1996-07-31	Adaptor protein involved in vesicle-mediated vacuolar protein sorting; multivalent adaptor protein; facilitates vesicle-mediated vacuolar protein sorting by ensuring high-fidelity vesicle docking and fusion, which are essential for targeting of vesicles to the endosome; required for vacuole inheritance
+S000031288	CDS					YDR323C		4	1114027	1112480	C		2011-02-03	1996-07-31	
+S000002732	ORF	Verified	YDR324C	UTP4		chromosome 4		4	1116763	1114433	C		2011-02-03	1996-07-31	Subunit of U3-containing 90S preribosome and SSU processome complexes; involved in production of 18S rRNA and assembly of small ribosomal subunit; member of t-Utp subcomplex involved with transcription of 35S rRNA transcript; Small Subunit processome is also known as SSU processome
+S000032287	CDS					YDR324C		4	1116763	1114433	C		2011-02-03	1996-07-31	
+S000002733	ORF	Verified	YDR325W	YCG1	condensin subunit YCG1|YCS5|TIE1	chromosome 4	S000007469	4	1117126	1120233	W		2011-02-03	2002-12-17|1996-07-31	Subunit of the condensin complex; required for establishment and maintenance of chromosome condensation, chromosome segregation and chromatin binding by the complex; required for tRNA genes clustering at the nucleolus; required for replication slow zone breakage following Mec1p inactivation; transcription is cell cycle regulated, peaking in mitosis and declining in G1; protein is constitutively degraded by the proteasome; rate limiting for condensin recruitment to chromatin
+S000032437	CDS					YDR325W		4	1117126	1120233	W		2011-02-03	2002-12-17|1996-07-31	
+S000002734	ORF	Verified	YDR326C	YSP2	LAM2|LTC4	chromosome 4		4	1124925	1120609	C		2011-02-03	1996-07-31	Sterol-binding protein; has a probable role in retrograde transport of sterols from the plasma membrane to the ER; contains two StART-like domains that bind sterols and a GRAM domain; co-localizes to puncta in the cortical ER with Sip3p; one of six StART-like domain-containing proteins in yeast that may be involved in sterol transfer between intracellular membranes; conserved across eukaryotes
+S000032495	CDS					YDR326C		4	1124925	1120609	C		2011-02-03	1996-07-31	
+S000002735	ORF	Dubious	YDR327W			chromosome 4		4	1125302	1125628	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SKP1
+S000034595	CDS					YDR327W		4	1125302	1125628	W		2011-02-03	1996-07-31	
+S000002736	ORF	Verified	YDR328C	SKP1	SCF ubiquitin ligase subunit SKP1|CBF3D|MGO1	chromosome 4	L000001910	4	1126018	1125434	C		2011-02-03	1996-07-31	Evolutionarily conserved kinetochore protein; part of multiple protein complexes, including the SCF ubiquitin ligase complex, the CBF3 complex that binds centromeric DNA, and the RAVE complex that regulates assembly of the V-ATPase; protein abundance increases in response to DNA replication stress
+S000034604	CDS					YDR328C		4	1126018	1125434	C		2011-02-03	1996-07-31	
+S000002737	ORF	Verified	YDR329C	PEX3	PAS3	chromosome 4	L000001339	4	1127595	1126270	C		2011-02-03	1996-07-31	Peroxisomal membrane protein (PMP); required for proper localization and stability of PMPs; anchors peroxisome retention factor Inp1p at the peroxisomal membrane; interacts with Pex19p
+S000034672	CDS					YDR329C		4	1127595	1126270	C		2011-02-03	1996-07-31	
+S000002738	ORF	Verified	YDR330W	UBX5		chromosome 4		4	1127872	1129374	W		2011-02-03	1996-07-31	UBX domain-containing protein that interacts with Cdc48p; ubiquitin regulatory X is also known as UBX
+S000034262	CDS					YDR330W		4	1127872	1129374	W		2011-02-03	1996-07-31	
+S000002739	ORF	Verified	YDR331W	GPI8	GPI-anchor transamidase	chromosome 4	L000004086	4	1129588	1130823	W		2011-02-03	1996-07-31	ER membrane glycoprotein subunit of the GPI transamidase complex; adds glycosylphosphatidylinositol (GPI) anchors to newly synthesized proteins; human PIG-K protein is a functional homolog
+S000034385	CDS					YDR331W		4	1129588	1130823	W		2011-02-03	1996-07-31	
+S000002740	ORF	Verified	YDR332W	IRC3	double-stranded DNA-dependent ATPase	chromosome 4		4	1131001	1133070	W		2011-02-03	1996-07-31	Double-stranded DNA-dependent helicase of the DExH/D-box family; required for maintenance of the mitochondrial (mt) genome; null mutant accumulates double-stranded breaks in mt DNA; localizes to the mt matrix
+S000035410	CDS					YDR332W		4	1131001	1133070	W		2011-02-03	1996-07-31	
+S000002741	ORF	Verified	YDR333C	RQC1		chromosome 4		4	1135431	1133260	C		2011-02-03	1996-07-31	Component of the ribosome quality control complex (RQC); RQC (Rqc1p-Rkr1p-Tae2p-Cdc48p-Npl4p-Ufd1p) is a ribosome-bound complex required for the degradation of polypeptides arising from stalled translation; required along with Rkr1p for recruitment of the Cdc48p-Npl4p-Ufd1p AAA ATPase complex to the RQC
+S000035465	CDS					YDR333C		4	1135431	1133260	C		2011-02-03	1996-07-31	
+S000002742	ORF	Verified	YDR334W	SWR1	chromatin-remodeling protein SWR1	chromosome 4	S000007447	4	1135932	1140476	W		2011-02-03	1996-07-31	Swi2/Snf2-related ATPase; structural component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; relocalizes to the cytosol in response to hypoxia; chronological aging factor that mediates lifespan extension by dietary restriction
+S000035602	CDS					YDR334W		4	1135932	1140476	W		2011-02-03	1996-07-31	
+S000002743	ORF	Verified	YDR335W	MSN5	karyopherin MSN5|STE21|KAP142	chromosome 4	L000002124|L000003212	4	1141168	1144842	W	196	2011-02-03	1996-07-31	Karyopherin; involved in nuclear import and export of proteins, including import of replication protein A and export of Far1p and transcription factors Swi5p, Swi6p, Msn2p, and Pho4p; required for re-export of mature tRNAs after their retrograde import from the cytoplasm; exportin-5 homolog
+S000036506	CDS					YDR335W		4	1141168	1144842	W		2011-02-03	1996-07-31	
+S000002744	ORF	Uncharacterized	YDR336W	MRX8		chromosome 4		4	1145092	1146036	W		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; sumoylated under stress conditions in a genome wide study; YDR336W is not an essential gene
+S000036602	CDS					YDR336W		4	1145092	1146036	W		2011-02-03	1996-07-31	
+S000002745	ORF	Verified	YDR337W	MRPS28	mitochondrial 37S ribosomal protein MRPS28	chromosome 4	L000001176	4	1146319	1147179	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000036695	CDS					YDR337W		4	1146319	1147179	W		2011-02-03	1996-07-31	
+S000002746	ORF	Uncharacterized	YDR338C			chromosome 4		4	1149466	1147379	C		2011-02-03	1996-07-31	Putative protein of unknown function; member of the multi-drug and toxin extrusion (MATE) family of the multidrug/oligosaccharidyl-lipid/polysaccharide (MOP) exporter superfamily
+S000036729	CDS					YDR338C		4	1149466	1147379	C		2011-02-03	1996-07-31	
+S000002747	ORF	Verified	YDR339C	FCF1	rRNA-processing protein FCF1|UTP24	chromosome 4		4	1150520	1149951	C		2011-02-03	1996-07-31	Putative PINc domain nuclease; required for early cleavages of 35S pre-rRNA and maturation of 18S rRNA; component of the SSU (small subunit) processome involved in 40S ribosomal subunit biogenesis; copurifies with Faf1p
+S000030573	CDS					YDR339C		4	1150520	1149951	C		2011-02-03	1996-07-31	
+S000002748	ORF	Dubious	YDR340W			chromosome 4		4	1150881	1151183	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000030471	CDS					YDR340W		4	1150881	1151183	W		2011-02-03	1996-07-31	
+S000006777	tRNA_gene		tX(XXX)D			chromosome 4	L000003778	4	1150941	1150842	C		2011-02-03	2000-05-19	tRNA of undetermined specificity, predicted by tRNAscan-SE analysis; very similar to serine tRNAs
+S000032726	noncoding_exon					tX(XXX)D		4	1150941	1150842	C		2011-02-03	2000-05-19	
+S000006873	long_terminal_repeat		YDRWdelta25			chromosome 4		4	1151039	1151368	W		2011-02-03	2000-05-19	Ty1 LTR
+S000002749	ORF	Verified	YDR341C		arginine--tRNA ligase|ArgRS|RRS1	chromosome 4		4	1153626	1151803	C		2011-02-03	1996-07-31	Arginyl-tRNA synthetase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YDR341C has a paralog, MSR1, that arose from the whole genome duplication
+S000030508	CDS					YDR341C		4	1153626	1151803	C		2011-02-03	1996-07-31	
+S000002750	ORF	Verified	YDR342C	HXT7	hexose transporter HXT7	chromosome 4	L000000841	4	1155928	1154216	C		2011-02-03	1996-07-31	High-affinity glucose transporter; member of the major facilitator superfamily, nearly identical to Hxt6p, expressed at high basal levels relative to other HXTs, expression repressed by high glucose levels; HXT7 has a paralog, HXT4, that arose from the whole genome duplication
+S000031436	CDS					YDR342C		4	1155928	1154216	C		2011-02-03	1996-07-31	
+S000118444	ARS		ARS432		ARSIV-1159	chromosome 4		4	1159262	1159510			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000119074	ARS_consensus_sequence					ARS432		4	1159461	1159447	C		2011-02-03	2006-10-05	
+S000002751	ORF	Verified	YDR343C	HXT6	hexose transporter HXT6	chromosome 4	L000000840	4	1161320	1159608	C		2011-02-03	1996-07-31	High-affinity glucose transporter; member of the major facilitator superfamily, nearly identical to Hxt7p, expressed at high basal levels relative to other HXTs, repression of expression by high glucose requires SNF3; HXT6 has a paralog, HXT1, that arose from the whole genome duplication
+S000031535	CDS					YDR343C		4	1161320	1159608	C		2011-02-03	1996-07-31	
+S000002752	ORF	Dubious	YDR344C			chromosome 4		4	1162449	1162006	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031692	CDS					YDR344C		4	1162449	1162006	C		2011-02-03	1996-07-31	
+S000002753	ORF	Verified	YDR345C	HXT3	hexose transporter HXT3	chromosome 4	L000000837	4	1164660	1162957	C	209.07	2011-02-03	1996-07-31	Low affinity glucose transporter of the major facilitator superfamily; expression is induced in low or high glucose conditions; HXT3 has a paralog, HXT5, that arose from the whole genome duplication
+S000032671	CDS					YDR345C		4	1164660	1162957	C		2011-02-03	1996-07-31	
+S000119072	ARS		ARS453		ARSIV-1166|ARS432.5	chromosome 4		4	1166067	1166212			2014-11-18	2014-11-18|2006-10-05	Autonomously Replicating Sequence
+S000119073	ARS_consensus_sequence					ARS453		4	1166181	1166167	C		2011-02-03	2006-10-05	
+S000002754	ORF	Verified	YDR346C	SVF1	SGI1	chromosome 4		4	1168659	1167214	C		2011-02-03	1996-07-31	Protein with a potential role in cell survival pathways; required for the diauxic growth shift; expression in mammalian cells increases survival under conditions inducing apoptosis; mutant has increased aneuploidy tolerance
+S000032732	CDS					YDR346C		4	1168659	1167214	C		2011-02-03	1996-07-31	
+S000002755	ORF	Verified	YDR347W	MRP1	mitochondrial 37S ribosomal protein MRP1	chromosome 4	L000001152	4	1169178	1170143	W	204.07	2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; MRP1 exhibits genetic interactions with PET122, encoding a COX3-specific translational activator, and with PET123, encoding a small subunit mitochondrial ribosomal protein
+S000032890	CDS					YDR347W		4	1169178	1170143	W		2011-02-03	1996-07-31	
+S000002756	ORF	Verified	YDR348C	PAL1		chromosome 4		4	1171825	1170326	C		2011-02-03	1996-07-31	Protein of unknown function thought to be involved in endocytosis; physically interacts with Ede1p and is found at endocytic sites at cell periphery during early stages of endocytosis; green fluorescent protein (GFP)-fusion protein localizes to bud neck; potential Cdc28p substrate; similar to S. pombe Pal1 protein; relocalizes from bud neck to cytoplasm upon DNA replication stress; PAL1 has a paralog, YHR097C, that arose from the whole genome duplication
+S000034824	CDS					YDR348C		4	1171825	1170326	C		2011-02-03	1996-07-31	
+S000002757	ORF	Verified	YDR349C	YPS7	putative aspartic endopeptidase	chromosome 4	L000004384	4	1174176	1172386	C		2011-02-03	1996-07-31	Putative GPI-anchored aspartic protease; member of the yapsin family of proteases involved in cell wall growth and maintenance; located in the cytoplasm and endoplasmic reticulum
+S000034909	CDS					YDR349C		4	1174176	1172386	C		2011-02-03	1996-07-31	
+S000006874	long_terminal_repeat		YDRWdelta26			chromosome 4		4	1175316	1175647	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006858	long_terminal_repeat		YDRCsigma6			chromosome 4		4	1175812	1175134	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006659	tRNA_gene		tM(CAU)D	EMT1		chromosome 4	L000000551|L000003772	4	1175829	1175901	W		2011-02-03	2000-05-19	Methionine tRNA (tRNA-Met), functions in translational elongation; not involved in translational initiation; predicted by tRNAscan-SE analysis
+S000034501	noncoding_exon					tM(CAU)D		4	1175829	1175901	W		2011-02-03	2000-05-19	
+S000002758	ORF	Verified	YDR350C	ATP22	TCM10	chromosome 4	L000002912	4	1178174	1176120	C		2011-02-03	1996-07-31|2011-02-03	Specific translational activator for the mitochondrial ATP6 mRNA; Atp6p encodes a subunit of F1F0 ATP synthase; localized to the mitochondrial inner membrane
+S000033802	CDS					YDR350C		4	1178174	1176120	C		2011-02-03	1996-07-31|2011-02-03	
+S000002759	ORF	Verified	YDR351W	SBE2		chromosome 4	L000002745	4	1178666	1181260	W		2011-02-03	1996-07-31	Protein required for bud growth; involved in transport of cell wall components from the Golgi to the cell surface; SBE2 has a paralog, SBE22, that arose from the whole genome duplication
+S000034051	CDS					YDR351W		4	1178666	1181260	W		2011-02-03	1996-07-31	
+S000002760	ORF	Verified	YDR352W	YPQ2		chromosome 4		4	1181801	1182754	W		2011-02-03	1996-07-31	Putative vacuolar membrane transporter for cationic amino acids; likely contributes to amino acid homeostasis by exporting cationic amino acids from the vacuole; member of the PQ-loop family, with seven transmembrane domains; mutant phenotype is functionally complemented by rat PQLC2 vacuolar transporter
+S000034941	CDS					YDR352W		4	1181801	1182754	W		2011-02-03	1996-07-31	
+S000002761	ORF	Verified	YDR353W	TRR1	thioredoxin-disulfide reductase TRR1	chromosome 4	L000003953	4	1183299	1184258	W		2011-02-03	1996-07-31	Cytoplasmic thioredoxin reductase; key regulatory enzyme that determines the redox state of the thioredoxin system, which acts as a disulfide reductase system and protects cells against both oxidative and reductive stress; protein abundance increases in response to DNA replication stress; TRR1 has a paralog, TRR2, that arose from the whole genome duplication
+S000035089	CDS					YDR353W		4	1183299	1184258	W		2011-02-03	1996-07-31	
+S000002762	ORF	Verified	YDR354W	TRP4	anthranilate phosphoribosyltransferase	chromosome 4	L000002355	4	1184747	1185889	W	209	2011-02-03	1996-07-31	Anthranilate phosphoribosyl transferase; transferase of the tryptophan biosynthetic pathway; catalyzes the phosphoribosylation of anthranilate; subject to the general control system of amino acid biosynthesis
+S000035242	CDS					YDR354W		4	1184747	1185889	W		2011-02-03	1996-07-31	
+S000028613	ORF	Dubious	YDR354C-A			chromosome 4		4	1185282	1185139	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps TRP4; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031447	CDS					YDR354C-A		4	1185282	1185139	C		2011-02-03	2003-07-29	
+S000002764	ORF	Verified	YDR356W	SPC110	NUF1|XCM1	chromosome 4	L000001285	4	1186107	1188941	W		2011-02-03	1996-07-31	Inner plaque spindle pole body (SPB) component; ortholog of human kendrin; gamma-tubulin small complex (gamma-TuSC) receptor that interacts with Spc98p to recruit the complex to the nuclear side of the SPB, connecting nuclear microtubules to the SPB; promotes gamma-TuSC assembly and oligomerization to initiate microtubule nucleation; interacts with Tub4p-complex and calmodulin; phosphorylated by Mps1p in cell cycle-dependent manner
+S000036297	CDS					YDR356W		4	1186107	1188941	W		2011-02-03	1996-07-31	
+S000002763	ORF	Dubious	YDR355C			chromosome 4		4	1186369	1186067	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified essential ORF SPC110/YDR356W
+S000035318	CDS					YDR355C		4	1186369	1186067	C		2011-02-03	1996-07-31	
+S000002765	ORF	Verified	YDR357C	CNL1	BLC1	chromosome 4		4	1189567	1189199	C		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; interacts with Msb3p; null mutant is sensitive to drug inducing secretion of vacuolar cargo; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000036341	CDS					YDR357C		4	1189567	1189199	C		2011-02-03	1996-07-31	
+S000002766	ORF	Verified	YDR358W	GGA1	ubiquitin-binding protein	chromosome 4	S000007493	4	1190059	1191732	W		2011-02-03	1996-07-31	Golgi-localized protein with homology to gamma-adaptin; interacts with and regulates Arf1p and Arf2p in a GTP-dependent manner in order to facilitate traffic through the late Golgi; GGA1 has a paralog, GGA2, that arose from the whole genome duplication
+S000036474	CDS					YDR358W		4	1190059	1191732	W		2011-02-03	1996-07-31	
+S000002768	ORF	Dubious	YDR360W	OPI7		chromosome 4		4	1194598	1195032	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene VID21/YDR359C
+S000030092	CDS					YDR360W		4	1194598	1195032	W		2011-02-03	1996-07-31|2011-02-03	
+S000002767	ORF	Verified	YDR359C	EAF1	VID21	chromosome 4		4	1194884	1191936	C		2011-02-03	2004-02-06|1996-07-31	Component of the NuA4 histone acetyltransferase complex; acts as a platform for assembly of NuA4 subunits into the native complex; required for initiation of pre-meiotic DNA replication, likely due to its requirement for expression of IME1
+S000037088	CDS					YDR359C		4	1194884	1191936	C		2011-02-03	2004-02-06|1996-07-31	
+S000002769	ORF	Verified	YDR361C	BCP1	protein-transporting protein BCP1	chromosome 4		4	1196263	1195412	C		2011-02-03	1996-07-31	Essential protein involved in nuclear export of Mss4p; Mss4p is a lipid kinase that generates phosphatidylinositol 4,5-biphosphate and plays a role in actin cytoskeleton organization and vesicular transport
+S000030230	CDS					YDR361C		4	1196263	1195412	C		2011-02-03	1996-07-31	
+S000002770	ORF	Verified	YDR362C	TFC6	transcription factor TFIIIC subunit TFC6|tau 91	chromosome 4	L000004492	4	1198697	1196679	C		2011-02-03	1996-07-31	Subunit of RNA polymerase III transcription initiation factor complex; one of six subunits of RNA polymerase III transcription initiation factor complex (TFIIIC); part of TFIIIC TauB domain that binds BoxB promoter sites of tRNA and other genes; cooperates with Tfc3p in DNA binding; human homolog is TFIIIC-110
+S000031159	CDS					YDR362C		4	1198697	1196679	C		2011-02-03	1996-07-31	
+S000077077	matrix_attachment_site		ETC6	ETC6		chromosome 4		4	1198885	1198907	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; remains predominantly localized to the nuclear periphery throughout cell cycle; located between divergently transcribed genes TFC6 and ESC2
+S000002771	ORF	Verified	YDR363W	ESC2		chromosome 4	L000004423	4	1199183	1200553	W		2011-02-03	1996-07-31	Sumo-like domain protein; prevents accumulation of toxic intermediates during replication-associated recombinational repair; roles in silencing, lifespan, chromatid cohesion and the intra-S-phase DNA damage checkpoint; RENi family member
+S000031326	CDS					YDR363W		4	1199183	1200553	W		2011-02-03	1996-07-31	
+S000006616	tRNA_gene		tK(CUU)D1			chromosome 4	L000003773	4	1201750	1201822	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000035877	noncoding_exon					tK(CUU)D1		4	1201750	1201822	W		2011-02-03	2000-05-19	
+S000007235	ORF	Verified	YDR363W-A	SEM1	proteasome regulatory particle lid subunit SEM1|HOD1|DSS1	chromosome 4	L000003539|L000004647	4	1202128	1202397	W		2011-02-03	1999-07-17	19S proteasome regulatory particle lid subcomplex component; role in Ub-dependent proteolysis and proteasome stability; involved in TREX-2 mediated mRNA export, and in the prevention of transcription-associated genome instability; ubiquitinated by Nedd4-like E3-ligase, Rsp5p; human ortholog DSS1, a BRCA1 binding protein implicated in cancer, complements the yeast null; drives trinucleotide repeat expansion; protein abundance increases in response to DNA replication stress
+S000037294	CDS					YDR363W-A		4	1202128	1202397	W		2011-02-03	1999-07-17	
+S000002772	ORF	Verified	YDR364C	CDC40	SLU4|SLT15|PRP17	chromosome 4	L000000275|L000001921	4	1204210	1202843	C	211	2011-02-03	1996-07-31	Pre-mRNA splicing factor; important for catalytic step II of pre-mRNA splicing and plays a role in cell cycle progression, particularly at the G1/S phase transition; required for DNA synthesis during mitosis and meiosis; has WD repeats; thermosensitivity of the cdc40 null mutant is functionally complemented by a chimeric construct containing the N-terminal 156 amino acids of yeast Cdc40p fused to the C-terminal two thirds (297 amino acids) of human CDC40
+S000031393	CDS					YDR364C		4	1204210	1202843	C		2011-02-03	1996-07-31	
+S000002773	ORF	Verified	YDR365C	ESF1		chromosome 4		4	1206383	1204497	C		2011-02-03	1996-07-31	Nucleolar protein involved in pre-rRNA processing; depletion causes severely decreased 18S rRNA levels
+S000032429	CDS					YDR365C		4	1206383	1204497	C		2011-02-03	1996-07-31	
+S000006875	long_terminal_repeat		YDRWdelta27			chromosome 4		4	1206704	1207037	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006883	LTR_retrotransposon		YDRWTy1-5		Ty1	chromosome 4		4	1206704	1212621	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007400	transposable_element_gene		YDR365W-A		gag protein	chromosome 4		4	1206997	1208319	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000032504	CDS					YDR365W-A		4	1206997	1208319	W		2011-02-03	1999-07-17	
+S000007401	transposable_element_gene		YDR365W-B		gag-pol fusion protein	chromosome 4	S000029012	4	1206997	1212265	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000032510	CDS					YDR365W-B		4	1206997	1208301	W		2011-02-03	1999-07-17	
+S000032511	CDS					YDR365W-B		4	1208303	1212265	W		2011-02-03	1999-07-17	
+S000032512	plus_1_translational_frameshift					YDR365W-B		4	1208302	1208302	W		2011-02-03	1999-07-17	
+S000006876	long_terminal_repeat		YDRWdelta28			chromosome 4		4	1212288	1212621	W		2011-02-03	2000-05-19	Ty1 LTR
+S000002774	ORF	Uncharacterized	YDR366C			chromosome 4		4	1212836	1212438	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000032506	CDS					YDR366C		4	1212836	1212438	C		2011-02-03	1996-07-31	
+S000002775	ORF	Verified	YDR367W	KEI1		chromosome 4		4	1212848	1213614	W		2011-02-03	1996-07-31	Component of inositol phosphorylceramide (IPC) synthase; forms a complex with Aur1p and regulates its activity; required for IPC synthase complex localization to the Golgi; post-translationally processed by Kex2p; KEI1 is an essential gene
+S000032662	CDS					YDR367W		4	1212848	1212877	W		2011-02-03	1996-07-31	
+S000032663	CDS					YDR367W		4	1212979	1213614	W		2011-02-03	1996-07-31	
+S000032664	intron					YDR367W		4	1212878	1212978	W		2011-02-03	1996-07-31	
+S000002776	ORF	Verified	YDR368W	YPR1	trifunctional aldehyde reductase/carbonyl reductase (NADPH)/glucose 1-dehydrogenase (NADP(+)) YPR1	chromosome 4	L000003084	4	1213904	1214842	W		2011-02-03	1996-07-31	NADPH-dependent aldo-keto reductase; reduces multiple substrates including 2-methylbutyraldehyde and D,L-glyceraldehyde, expression is induced by osmotic and oxidative stress; functionally redundant with other aldo-keto reductases; protein abundance increases in response to DNA replication stress; YPR1 has a paralog, GCY1, that arose from the whole genome duplication; human homolog AKR1B1 can complement yeast null mutant
+S000033354	CDS					YDR368W		4	1213904	1214842	W		2011-02-03	1996-07-31	
+S000002777	ORF	Verified	YDR369C	XRS2		chromosome 4	L000002489	4	1217580	1215016	C	211	2011-02-03	1996-07-31	Protein required for DNA repair; component of the Mre11 complex, which is involved in double strand breaks, meiotic recombination, telomere maintenance, and checkpoint signaling
+S000033386	CDS					YDR369C		4	1217580	1215016	C		2011-02-03	1996-07-31	
+S000002778	ORF	Verified	YDR370C	DXO1		chromosome 4		4	1219110	1217782	C		2011-02-03	1996-07-31	mRNA 5'-end-capping quality-control protein; has distributive, 5'-3' exoRNase activity; similar to Rai1p;
+S000034314	CDS					YDR370C		4	1219110	1217782	C		2011-02-03	1996-07-31	
+S000002779	ORF	Uncharacterized	YDR371W	CTS2	putative chitinase	chromosome 4		4	1219413	1220948	W		2011-02-03	1996-07-31	Putative chitinase; functionally complements A. gossypii cts2 mutant sporulation defect
+S000034441	CDS					YDR371W		4	1219413	1220948	W		2011-02-03	1996-07-31	
+S000028822	ORF	Dubious	YDR371C-A			chromosome 4		4	1219613	1219509	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized gene CTS2/YDR371W; identified by expression profiling and mass spectrometry
+S000033641	CDS					YDR371C-A		4	1219613	1219509	C		2011-02-03	2003-07-29	
+S000002780	ORF	Verified	YDR372C	VPS74	MNN3|API1	chromosome 4		4	1222149	1221112	C		2011-02-03	1996-07-31	Golgi phosphatidylinositol-4-kinase effector and PtdIns4P sensor; interacts with the cytosolic domains of cis and medial glycosyltransferases, and in the PtdIns4P-bound state mediates the targeting of these enzymes to the Golgi; interacts with the catalytic domain of Sac1p, the major cellular PtdIns4P phosphatase, to direct dephosphosphorylation of the Golgi pool of PtdIns4P; tetramerization required for function; ortholog of human GOLPH3/GPP34/GMx33
+S000034509	CDS					YDR372C		4	1222149	1221112	C		2011-02-03	1996-07-31	
+S000002781	ORF	Verified	YDR373W	FRQ1	frequenin	chromosome 4		4	1222759	1223331	W		2011-02-03	1996-07-31	N-myristoylated calcium-binding protein; may have a role in intracellular signaling through its regulation of the phosphatidylinositol 4-kinase Pik1p; member of the recoverin/frequenin branch of the EF-hand superfamily; human NCS1 functionally complements the heat sensitivity of a frq1 ts mutant
+S000035570	CDS					YDR373W		4	1222759	1223331	W		2011-02-03	1996-07-31	
+S000002782	ORF	Verified	YDR374C	PHO92	mRNA-binding phosphate metabolism regulator	chromosome 4		4	1224394	1223474	C		2011-02-03	1996-07-31	Posttranscriptional regulator of phosphate metabolism; facilitates PHO4 mRNA degradation by interacting with Pop2p; regulates PHO4 mRNA stability by binding to PHO4's 3'UTR in a phosphate-dependent manner; contains highly conserved YTH (YT521-B Homology) domain that exhibits RNA-binding activity; human homolog YTHDF2 can complement yeast null mutant
+S000035608	CDS					YDR374C		4	1224394	1223474	C		2011-02-03	1996-07-31	
+S000113553	ORF	Verified	YDR374W-A	WIP1		chromosome 4		4	1224757	1225026	W		2011-02-03	2005-11-16	Kinetochore localized protein of unknown function; interacts with Cnn1p (CENP-T); orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-W and fission yeast new1
+S000113554	CDS					YDR374W-A		4	1224757	1225026	W		2011-02-03	2005-11-16	
+S000002783	ORF	Verified	YDR375C	BCS1	bifunctional AAA family ATPase chaperone/translocase BCS1	chromosome 4	L000000164	4	1226536	1225166	C		2011-02-03	1996-07-31	Protein translocase and chaperone required for Complex III assembly; member of the AAA ATPase family; forms a homo-oligomeric complex in the mitochondrial inner membrane that translocates the C-terminal domain of Rip1p from the matrix across the inner membrane and delivers it to an assembly intermediate of respiratory Complex III; also required for assembly of the Qcr10p subunit; mutation is functionally complemented by human homolog BCS1L, linked to neonatal diseases
+S000035698	CDS					YDR375C		4	1226536	1225166	C		2011-02-03	1996-07-31	
+S000002784	ORF	Verified	YDR376W	ARH1	NADPH-adrenodoxin reductase	chromosome 4	L000002799	4	1226822	1228303	W		2011-02-03	1996-07-31	Oxidoreductase of the mitochondrial inner membrane; involved in cytoplasmic and mitochondrial iron homeostasis and required for activity of Fe-S cluster-containing enzymes; one of the few mitochondrial proteins essential for viability
+S000036678	CDS					YDR376W		4	1226822	1228303	W		2011-02-03	1996-07-31	
+S000002785	ORF	Verified	YDR377W	ATP17	F1F0 ATP synthase subunit f	chromosome 4	L000003415	4	1228611	1228916	W		2011-02-03	1996-07-31	Subunit f of the F0 sector of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis
+S000036737	CDS					YDR377W		4	1228611	1228916	W		2011-02-03	1996-07-31	
+S000002786	ORF	Verified	YDR378C	LSM6	U4/U6-U5 snRNP complex subunit LSM6	chromosome 4	L000004685	4	1229609	1229349	C		2011-02-03	1996-07-31|2005-11-22	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA
+S000036760	CDS					YDR378C		4	1229609	1229349	C		2011-02-03	1996-07-31|2005-11-22	
+S000002787	ORF	Verified	YDR379W	RGA2		chromosome 4	L000004022	4	1230167	1233196	W		2011-02-03	1996-07-31	GTPase-activating protein for polarity-establishment protein Cdc42p; implicated in control of septin organization, pheromone response, and haploid invasive growth; regulated by Pho85p and Cdc28p; RGA2 has a paralog, RGA1, that arose from the whole genome duplication
+S000036849	CDS					YDR379W		4	1230167	1233196	W		2011-02-03	1996-07-31	
+S000007605	ORF	Verified	YDR379C-A	SDH6		chromosome 4		4	1233517	1233278	C		2011-02-03	2001-02-26	Mitochondrial protein involved in assembly of succinate dehydrogenase; has a role in maturation of the Sdh2p subunit; member of the LYR protein family; mutations in human ortholog SDHAF1 are associated with infantile leukoencephalopathy
+S000037182	CDS					YDR379C-A		4	1233517	1233278	C		2011-02-03	2001-02-26	
+S000002788	ORF	Verified	YDR380W	ARO10	phenylpyruvate decarboxylase ARO10	chromosome 4		4	1234218	1236125	W		2011-02-03	1996-07-31	Phenylpyruvate decarboxylase; catalyzes decarboxylation of phenylpyruvate to phenylacetaldehyde, which is the first specific step in the Ehrlich pathway; involved in protein N-terminal Met and Ala catabolism
+S000037478	CDS					YDR380W		4	1234218	1236125	W		2011-02-03	1996-07-31	
+S000002789	ORF	Verified	YDR381W	YRA1	RNA-binding protein YRA1|SHE11	chromosome 4	L000002959|L000002873	4	1236558	1238004	W		2011-02-03	1999-07-17|1996-07-31	Nuclear polyadenylated RNA-binding protein; required for export of poly(A)+ mRNA from the nucleus; proposed to couple mRNA export with 3' end processing via its interactions with Mex67p and Pcf11p; interacts with DBP2; inhibits the helicase activity of Dbp2; functionally redundant with Yra2p, another REF family member
+S000037615	CDS					YDR381W		4	1236558	1236842	W		2011-02-03	1999-07-17|1996-07-31	
+S000037616	CDS					YDR381W		4	1237609	1238004	W		2011-02-03	1999-07-17	
+S000037617	intron					YDR381W		4	1236843	1237608	W		2011-02-03	1999-07-17	
+S000007650	ORF	Verified	YDR381C-A			chromosome 4		4	1238850	1238312	C		2011-02-03	2004-01-26|2001-03-30	Protein of unknown function; localized to the mitochondrial outer membrane
+S000037338	CDS					YDR381C-A		4	1238630	1238312	C		2011-02-03	2004-01-26|2001-03-30	
+S000037337	CDS					YDR381C-A		4	1238850	1238825	C		2011-02-03	2004-01-26|2001-03-30	
+S000037339	intron					YDR381C-A		4	1238824	1238631	C		2011-02-03	2004-01-26|2001-03-30	
+S000002790	ORF	Verified	YDR382W	RPP2B	ribosomal protein P2B|YP2beta|P2B|L45|YPA1|RPL45	chromosome 4	L000001736	4	1239492	1239824	W		2011-02-03	1996-07-31	Ribosomal protein P2 beta; a component of the ribosomal stalk, which is involved in the interaction between translational elongation factors and the ribosome; free (non-ribosomal) P2 stimulates the phosphorylation of the eIF2 alpha subunit (Sui2p) by Gcn2p; regulates the accumulation of P1 (Rpp1Ap and Rpp1Bp) in the cytoplasm
+S000030372	CDS					YDR382W		4	1239492	1239824	W		2011-02-03	1996-07-31	
+S000002791	ORF	Verified	YDR383C	NKP1		chromosome 4		4	1240676	1239960	C		2011-02-03	2003-09-22|1996-07-31	Central kinetochore protein and subunit of the Ctf19 complex; mutants have elevated rates of chromosome loss; orthologous to fission yeast kinetochore protein fta4
+S000030450	CDS					YDR383C		4	1240676	1239960	C		2011-02-03	2003-09-22|1996-07-31	
+S000118445	ARS		ARS433		ARSIV-1241	chromosome 4		4	1240882	1241110			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178079	ARS_consensus_sequence					ARS433		4	1240919	1240935	W		2014-11-18	2014-11-18	
+S000002792	ORF	Verified	YDR384C	ATO3	putative ammonium permease ATO3	chromosome 4		4	1242031	1241204	C		2011-02-03	1996-07-31	Plasma membrane protein, putative ammonium transporter; regulation pattern suggests a possible role in export of ammonia from the cell; phosphorylated in mitochondria; member of the TC 9.B.33 YaaH family of putative transporters
+S000030592	CDS					YDR384C		4	1242031	1241204	C		2011-02-03	1996-07-31	
+S000002793	ORF	Verified	YDR385W	EFT2	elongation factor 2	chromosome 4	L000000544	4	1243230	1245758	W		2011-02-03	1996-07-31	Elongation factor 2 (EF-2), also encoded by EFT1; catalyzes ribosomal translocation during protein synthesis; contains diphthamide, the unique posttranslationally modified histidine residue specifically ADP-ribosylated by diphtheria toxin; EFT2 has a paralog, EFT1, that arose from the whole genome duplication
+S000030719	CDS					YDR385W		4	1243230	1245758	W		2011-02-03	1996-07-31	
+S000002794	ORF	Verified	YDR386W	MUS81	SLX3	chromosome 4	L000004650	4	1246084	1247982	W		2011-02-03	1996-07-31	Subunit of structure-specific Mms4p-Mus81p endonuclease; cleaves branched DNA; involved in DNA repair, replication fork stability, and joint molecule formation/resolution during meiotic recombination; promotes template switching during break-induced replication (BIR), causing non-reciprocal translocations (NRTs); helix-hairpin-helix protein; phosphorylation of non-catalytic subunit Mms4p by Cdc28p and Cdcp during mitotic cell cycle activates function of Mms4p-Mus81p
+S000031582	CDS					YDR386W		4	1246084	1247982	W		2011-02-03	1996-07-31	
+S000002795	ORF	Uncharacterized	YDR387C	CIN10		chromosome 4		4	1249821	1248154	C		2011-02-03	1996-07-31	Putative transporter; member of the sugar porter family; non-essential gene; overexpression results in elevated colony sectoring, an indicator of chromosomal instability
+S000031627	CDS					YDR387C		4	1249821	1248154	C		2011-02-03	1996-07-31	
+S000002796	ORF	Verified	YDR388W	RVS167	amphiphysin	chromosome 4	L000001789	4	1250186	1251634	W		2011-02-03	1996-07-31	Calmodulin-binding actin-associated protein; roles in endocytic membrane tabulation and constriction, and exocytosis; N-BAR domain protein that interacts with Rvs161p to regulate actin cytoskeleton, endocytosis, and viability following starvation or osmotic stress; recruited to bud tips by Gyl1p and Gyp5p during polarized growth; homolog of mammalian amphiphysin
+S000031800	CDS					YDR388W		4	1250186	1251634	W		2011-02-03	1996-07-31	
+S000002797	ORF	Verified	YDR389W	SAC7		chromosome 4	L000001794	4	1252537	1254501	W	220	2011-02-03	1996-07-31	GTPase activating protein (GAP) for Rho1p; regulator of a Tor2p-mediated, Rho1p GTPase switch that controls organization of the actin cytoskeleton; negative regulator of the RHO1-PKC1-MAPK cell integrity (CWI) and membrane fluidity homeostasis signaling pathways; potential Cdc28p substrate; SAC7 has a paralog, BAG7, that arose from the whole genome duplication
+S000031909	CDS					YDR389W		4	1252537	1254501	W		2011-02-03	1996-07-31	
+S000002798	ORF	Verified	YDR390C	UBA2	E1 ubiquitin-activating protein UBA2|UAL1	chromosome 4	L000002404	4	1256847	1254937	C		2011-02-03	1996-07-31	Subunit of heterodimeric nuclear SUMO activating enzyme E1 with Aos1p; activates Smt3p (SUMO) before its conjugation to proteins (sumoylation), which may play a role in protein targeting; essential for viability
+S000032721	CDS					YDR390C		4	1256847	1254937	C		2011-02-03	1996-07-31	
+S000006572	tRNA_gene		tG(CCC)D	SUF3		chromosome 4	L000002151|L000003777	4	1257079	1257008	C	232	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
+S000032332	noncoding_exon					tG(CCC)D		4	1257079	1257008	C		2011-02-03	2000-05-19	
+S000002799	ORF	Uncharacterized	YDR391C			chromosome 4		4	1258056	1257358	C		2011-02-03	1996-07-31	Putative protein of unknown function; possibly involved in zinc homeostasis; Bdf1p-dependent transcription induced by salt stress; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
+S000032830	CDS					YDR391C		4	1258056	1257358	C		2011-02-03	1996-07-31	
+S000002800	ORF	Verified	YDR392W	SPT3	transcriptional regulator SPT3	chromosome 4	L000002029	4	1258696	1259709	W		2011-02-03	1996-07-31	Subunit of the SAGA and SAGA-like transcriptional regulatory complexes; interacts with Spt15p to activate transcription of some RNA polymerase II-dependent genes, also functions to inhibit transcription at some promoters; relocalizes to the cytosol in response to hypoxia
+S000033594	CDS					YDR392W		4	1258696	1259709	W		2011-02-03	1996-07-31	
+S000002801	ORF	Verified	YDR393W	SHE9	MDM33	chromosome 4	L000002871	4	1259901	1261271	W		2011-02-03	1996-07-31	Protein required for normal mitochondrial morphology; mitochondrial inner membrane protein; may be involved in fission of the inner membrane; forms a homo-oligomeric complex
+S000033681	CDS					YDR393W		4	1259901	1261271	W		2011-02-03	1996-07-31	
+S000002802	ORF	Verified	YDR394W	RPT3	proteasome regulatory particle base subunit RPT3|YTA2|YNT1	chromosome 4	L000002556|L000002537	4	1261681	1262967	W		2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; substrate of N-acetyltransferase B
+S000033819	CDS					YDR394W		4	1261681	1262967	W		2011-02-03	1996-07-31	
+S000002803	ORF	Verified	YDR395W	SXM1	KAP108	chromosome 4	L000003508	4	1263324	1266158	W		2011-02-03	1996-07-31	Nuclear transport factor (karyopherin); involved in protein transport between the cytoplasm and nucleoplasm; similar to Nmd5p, Cse1p, Lph2p, and the human cellular apoptosis susceptibility protein, CAS1
+S000034692	CDS					YDR395W		4	1263324	1266158	W		2011-02-03	1996-07-31	
+S000002804	ORF	Dubious	YDR396W			chromosome 4		4	1266295	1266795	W		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; extensively overlaps essential NCB2 gene encoding the beta subunit of the NC2 dimeric histone-fold complex
+S000034845	CDS					YDR396W		4	1266295	1266795	W		2011-02-03	1996-07-31	
+S000002805	ORF	Verified	YDR397C	NCB2	negative cofactor 2 transcription regulator complex subunit NCB2|YDR1	chromosome 4	L000003241	4	1266898	1266366	C		2011-02-03	1996-07-31	Subunit of a heterodimeric NC2 transcription regulator complex; complex binds to TBP and can repress transcription by preventing preinitiation complex assembly or stimulate activated transcription; homologous to human NC2beta; complex also includes Bur6p
+S000034923	CDS					YDR397C		4	1266769	1266366	C		2011-02-03	1996-07-31	
+S000034922	CDS					YDR397C		4	1266898	1266862	C		2011-02-03	1996-07-31	
+S000034924	intron					YDR397C		4	1266861	1266770	C		2011-02-03	1996-07-31	
+S000002806	ORF	Verified	YDR398W	UTP5		chromosome 4		4	1267471	1269402	W		2011-02-03	1996-07-31	Subunit of U3-containing Small Subunit (SSU) processome complex; involved in production of 18S rRNA and assembly of small ribosomal subunit
+S000035902	CDS					YDR398W		4	1267471	1269402	W		2011-02-03	1996-07-31	
+S000002807	ORF	Verified	YDR399W	HPT1	hypoxanthine phosphoribosyltransferase|HGPRTase|HPRT|BRA6	chromosome 4	L000004313	4	1270068	1270733	W		2011-02-03	1996-07-31	Dimeric hypoxanthine-guanine phosphoribosyltransferase; catalyzes the transfer of the phosphoribosyl portion of 5-phosphoribosyl-alpha-1-pyrophosphate to a purine base (either guanine or hypoxanthine) to form pyrophosphate and a purine nucleotide (either guanosine monophosphate or inosine monophosphate); mutations in the human homolog HPRT1 can cause Lesch-Nyhan syndrome and Kelley-Seegmiller syndrome
+S000036067	CDS					YDR399W		4	1270068	1270733	W		2011-02-03	1996-07-31	
+S000002808	ORF	Verified	YDR400W	URH1	trifunctional uridine nucleosidase/nicotinamide riboside hydrolase/nicotinic acid riboside hydrolase	chromosome 4	S000007492	4	1271063	1272085	W		2011-02-03	2003-09-22|1996-07-31	Uridine nucleosidase (uridine-cytidine N-ribohydrolase); cleaves N-glycosidic bonds in nucleosides; involved in the pyrimidine salvage and nicotinamide riboside salvage pathways
+S000033224	CDS					YDR400W		4	1271063	1272085	W		2011-02-03	2003-09-22|1996-07-31	
+S000002809	ORF	Dubious	YDR401W			chromosome 4		4	1272223	1272786	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033274	CDS					YDR401W		4	1272223	1272786	W		2011-02-03	1996-07-31	
+S000002810	ORF	Verified	YDR402C	DIT2	putative cytochrome P450|CYP56	chromosome 4	L000000507	4	1273703	1272234	C		2011-02-03	1996-07-31	N-formyltyrosine oxidase; sporulation-specific microsomal enzyme involved in the production of N,N-bisformyl dityrosine required for spore wall maturation, homologous to cytochrome P-450s; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000033300	CDS					YDR402C		4	1273703	1272234	C		2011-02-03	1996-07-31	
+S000002811	ORF	Verified	YDR403W	DIT1		chromosome 4	L000000506	4	1274602	1276212	W		2011-02-03	1996-07-31	Sporulation-specific enzyme required for spore wall maturation; involved in the production of a soluble LL-dityrosine-containing precursor of the spore wall; transcripts accumulate at the time of prospore enclosure
+S000034267	CDS					YDR403W		4	1274602	1276212	W		2011-02-03	1996-07-31	
+S000118446	ARS		ARS434		ARSIV-1276	chromosome 4		4	1276225	1276452			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000002812	ORF	Verified	YDR404C	RPB7	DNA-directed RNA polymerase II subunit RPB7|B16	chromosome 4	L000001681	4	1277169	1276654	C		2011-02-03	1996-07-31	RNA polymerase II subunit B16; forms dissociable heterodimer with Rpb4p; Rpb4/7 dissociates from RNAPII as Ser2 CTD phosphorylation increases; Rpb4/7 regulates cellular lifespan via mRNA decay process; involved in recruitment of 3'-end processing factors to transcribing RNA polymerase II complex, export of mRNA to cytoplasm under stress conditions; also involved in translation initiation
+S000034321	CDS					YDR404C		4	1277169	1276654	C		2011-02-03	1996-07-31	
+S000002813	ORF	Verified	YDR405W	MRP20	mitochondrial 54S ribosomal protein YmL41|YmL41|MRPL41	chromosome 4	L000001158	4	1277646	1278437	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000035411	CDS					YDR405W		4	1277646	1278437	W		2011-02-03	1996-07-31	
+S000002814	ORF	Verified	YDR406W	PDR15	ATP-binding cassette multidrug transporter PDR15	chromosome 4	L000002909	4	1279210	1283799	W		2011-02-03	1996-07-31	Plasma membrane ATP binding cassette (ABC) transporter; multidrug transporter and general stress response factor implicated in cellular detoxification; regulated by Pdr1p, Pdr3p and Pdr8p; promoter contains a PDR responsive element; PDR15 has a paralog, PDR5, that arose from the whole genome duplication
+S000035511	CDS					YDR406W		4	1279210	1283799	W		2011-02-03	1996-07-31	
+S000028543	ORF	Dubious	YDR406W-A		YDR406C-A	chromosome 4		4	1283799	1284044	W		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by fungal homology and RT-PCR
+S000031193	CDS					YDR406W-A		4	1283799	1284044	W		2011-02-03	2003-07-29	
+S000002815	ORF	Verified	YDR407C	TRS120		chromosome 4	S000007435	4	1287938	1284069	C		2011-02-03	1996-07-31	Component of transport protein particle (TRAPP) complex II; TRAPPII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating intra-Golgi and endosome-Golgi traffic
+S000035551	CDS					YDR407C		4	1287938	1284069	C		2011-02-03	1996-07-31	
+S000002816	ORF	Verified	YDR408C	ADE8	phosphoribosylglycinamide formyltransferase	chromosome 4	L000000037	4	1288859	1288215	C	256	2011-02-03	1996-07-31	Phosphoribosyl-glycinamide transformylase; catalyzes a step in the 'de novo' purine nucleotide biosynthetic pathway
+S000035623	CDS					YDR408C		4	1288859	1288215	C		2011-02-03	1996-07-31	
+S000077072	matrix_attachment_site		ETC1	ETC1		chromosome 4		4	1289041	1289063	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; located between divergently transcribed genes ADE8 and SIZ1
+S000002817	ORF	Verified	YDR409W	SIZ1	SUMO ligase SIZ1|ULL1	chromosome 4	S000007589	4	1289406	1292120	W		2011-02-03	1996-07-31	SUMO E3 ligase; promotes attachment of small ubiquitin-related modifier sumo (Smt3p) to primarily cytoplasmic proteins; regulates Rsp5p ubiquitin ligase activity and is in turn itself regulated by Rsp5p; required for sumoylation of septins and histone H3 variant Cse4p, a prerequisite for STUbL-mediated Ub-dependent degradation; localizes to the septin ring; acts as an adapter between E2, Ubc9p and substrates; tends to compensate for survival of DNA damage in absence of Nfi1p
+S000036616	CDS					YDR409W		4	1289406	1292120	W		2011-02-03	1996-07-31	
+S000002818	ORF	Verified	YDR410C	STE14	protein-S-isoprenylcysteine carboxyl O-methyltransferase	chromosome 4	L000002121	4	1293091	1292372	C	259.47	2011-02-03	1996-07-31	Farnesyl cysteine-carboxyl methyltransferase; mediates the carboxyl methylation step during C-terminal CAAX motif processing of a-factor and RAS proteins in the endoplasmic reticulum, localizes to the ER membrane
+S000037364	CDS					YDR410C		4	1293091	1292372	C		2011-02-03	1996-07-31	
+S000002819	ORF	Verified	YDR411C	DFM1		chromosome 4		4	1294394	1293369	C		2011-02-03	1996-07-31	Endoplasmic reticulum (ER) localized protein; involved in ER-associated protein degradation (ERAD), ER stress, and homeostasis; interacts with components of ERAD-L and ERAD-C and Cdc48p; derlin-like family member similar to Der1p
+S000037501	CDS					YDR411C		4	1294394	1293369	C		2011-02-03	1996-07-31	
+S000002820	ORF	Verified	YDR412W	RRP17		chromosome 4		4	1294693	1295400	W		2011-02-03	1996-07-31	Component of the pre-60S pre-ribosomal particle; required for cell viability under standard (aerobic) conditions but not under anaerobic conditions; exonuclease required for 5' end processing of pre-60S ribosomal RNA
+S000030317	CDS					YDR412W		4	1294693	1295400	W		2011-02-03	1996-07-31	
+S000002821	ORF	Dubious	YDR413C			chromosome 4		4	1295411	1294836	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the essential uncharacterized ORF YDR412W that is implicated in rRNA processing
+S000030389	CDS					YDR413C		4	1295411	1294836	C		2011-02-03	1996-07-31	
+S000002822	ORF	Verified	YDR414C	ERD1	LDB2	chromosome 4	L000000566|L000004741	4	1296686	1295598	C		2011-02-03	1996-07-31|2011-02-03	Predicted membrane protein required for lumenal ER protein retention; mutants secrete the endogenous ER protein, BiP (Kar2p)
+S000030512	CDS					YDR414C		4	1296686	1295598	C		2011-02-03	1996-07-31|2011-02-03	
+S000002823	ORF	Uncharacterized	YDR415C		putative aminopeptidase	chromosome 4		4	1298161	1297037	C		2011-02-03	1996-07-31	Putative aminopeptidase; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to the vacuole
+S000031437	CDS					YDR415C		4	1298161	1297037	C		2011-02-03	1996-07-31	
+S000002824	ORF	Verified	YDR416W	SYF1	mRNA splicing protein SYF1|NTC90	chromosome 4	L000004195	4	1298432	1301011	W		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); that contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; null mutant has splicing defect and arrests in G2/M; relocalizes to the cytosol in response to hypoxia; homologs in human and C. elegans
+S000031649	CDS					YDR416W		4	1298432	1301011	W		2011-02-03	1996-07-31	
+S000002826	ORF	Verified	YDR418W	RPL12B	uL11|ribosomal 60S subunit protein L12B|L11|YL23|L15B|L12B	chromosome 4	L000001711	4	1301616	1302113	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L12B; rpl12a rpl12b double mutant exhibits slow growth and slow translation; homologous to mammalian ribosomal protein L12 and bacterial L11; RPL12B has a paralog, RPL12A, that arose from the whole genome duplication
+S000032701	CDS					YDR418W		4	1301616	1302113	W		2011-02-03	1996-07-31	
+S000002825	ORF	Dubious	YDR417C			chromosome 4		4	1301926	1301555	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RPL12B/YDR418W
+S000031695	CDS					YDR417C		4	1301926	1301555	C		2011-02-03	1996-07-31	
+S000118447	ARS		ARS435		ARSIV-1303	chromosome 4		4	1302689	1302768			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000002827	ORF	Verified	YDR419W	RAD30	DNA-directed DNA polymerase eta|DBH1	chromosome 4	L000003523	4	1303174	1305072	W		2011-02-03	1996-07-31	DNA polymerase eta; involved in translesion synthesis during post-replication repair; catalyzes the synthesis of DNA opposite cyclobutane pyrimidine dimers and other lesions; involved in formation of post-replicative damage-induced genome-wide cohesion; may also have a role in protection against mitochondrial mutagenesis; mutations in human pol eta are responsible for XPV
+S000032806	CDS					YDR419W		4	1303174	1305072	W		2011-02-03	1996-07-31	
+S000006723	tRNA_gene		tS(AGA)D3			chromosome 4	L000003782	4	1305630	1305712	W		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000031657	noncoding_exon					tS(AGA)D3		4	1305630	1305712	W		2011-02-03	2000-05-19	
+S000130176	ARS		ARS436			chromosome 4		4	1305757	1306312			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000002828	ORF	Verified	YDR420W	HKR1		chromosome 4	L000000788	4	1306267	1311675	W		2011-02-03	1996-07-31	Mucin family member that functions as an osmosensor in the HOG pathway; large, highly glycosylated protein that functions redundantly with Msb2p in Sho1p-mediated osmostresss induction of the HOG signaling pathway; cytoplasmic domain interacts with Ahk1p a scaffold protein that prevents cross talk with the Kss1p MAPK of the filamentous growth pathway; mutant displays defects in beta-1,3 glucan synthesis and bud site selection
+S000032953	CDS					YDR420W		4	1306267	1311675	W		2011-02-03	1996-07-31	
+S000002829	ORF	Verified	YDR421W	ARO80		chromosome 4		4	1312040	1314892	W		2011-02-03	1996-07-31	Zinc finger transcriptional activator of the Zn2Cys6 family; activates transcription of aromatic amino acid catabolic genes in the presence of aromatic amino acids
+S000033023	CDS					YDR421W		4	1312040	1314892	W		2011-02-03	1996-07-31	
+S000002830	ORF	Verified	YDR422C	SIP1		chromosome 4	L000001890	4	1317773	1315326	C		2011-02-03	1996-07-31|2006-04-12	Alternate beta-subunit of the Snf1p kinase complex; may confer substrate specificity; vacuolar protein containing KIS (Kinase-Interacting Sequence) and ASC (Association with Snf1 kinase Complex) domains involved in protein interactions
+S000033079	CDS					YDR422C		4	1317773	1315326	C		2011-02-03	1996-07-31|2006-04-12	
+S000002831	ORF	Verified	YDR423C	CAD1	YAP2	chromosome 4	L000000206	4	1319275	1318046	C	271	2011-02-03	1996-07-31	AP-1-like basic leucine zipper (bZIP) transcriptional activator; involved in stress responses, iron metabolism, and pleiotropic drug resistance; controls a set of genes involved in stabilizing proteins; binds consensus sequence TTACTAA; CAD1 has a paralog, YAP1, that arose from the whole genome duplication
+S000033829	CDS					YDR423C		4	1319275	1318046	C		2011-02-03	1996-07-31	
+S000002832	ORF	Verified	YDR424C	DYN2	dynein light chain|SLC1	chromosome 4	L000003064	4	1319841	1319387	C		2011-02-03	1996-07-31	Cytoplasmic light chain dynein, microtubule motor protein; required for intracellular transport and cell division; involved in mitotic spindle positioning; forms complex with dynein intermediate chain Pac11p that promotes Dyn1p homodimerization, potentiates motor processivity; Dyn2p-Pac11p complex important for interaction of dynein motor complex with dynactin complex; acts as molecular glue to dimerize, stabilize Nup82-Nsp1-Nup159 complex module of cytoplasmic pore filaments
+S000033950	CDS					YDR424C		4	1319617	1319387	C		2011-02-03	1996-07-31	
+S000033949	CDS					YDR424C		4	1319720	1319698	C		2011-02-03	1996-07-31	
+S000033948	CDS					YDR424C		4	1319841	1319817	C		2011-02-03	1996-07-31	
+S000033952	intron					YDR424C		4	1319697	1319618	C		2011-02-03	1996-07-31	
+S000033951	intron					YDR424C		4	1319816	1319721	C		2011-02-03	1996-07-31	
+S000002833	ORF	Verified	YDR425W	SNX41		chromosome 4		4	1320064	1321941	W		2011-02-03	1996-07-31	Sorting nexin; involved in the retrieval of late-Golgi SNAREs from the post-Golgi endosome to the trans-Golgi network; interacts with Snx4p
+S000034950	CDS					YDR425W		4	1320064	1321941	W		2011-02-03	1996-07-31	
+S000002834	ORF	Dubious	YDR426C			chromosome 4		4	1322006	1321629	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SNX41
+S000035012	CDS					YDR426C		4	1322006	1321629	C		2011-02-03	1996-07-31	
+S000002835	ORF	Verified	YDR427W	RPN9	proteasome regulatory particle lid subunit RPN9|NAS7	chromosome 4	L000004309	4	1322205	1323386	W		2011-02-03	1996-07-31	Non-ATPase regulatory subunit of the 26S proteasome; similar to putative proteasomal subunits in other species; null mutant is temperature sensitive and exhibits cell cycle and proteasome assembly defects; protein abundance increases in response to DNA replication stress; relocalizes to the cytosol in response to hypoxia
+S000035280	CDS					YDR427W		4	1322205	1323386	W		2011-02-03	1996-07-31	
+S000002836	ORF	Verified	YDR428C	BNA7	arylformamidase	chromosome 4		4	1324239	1323454	C		2011-02-03	1996-07-31	Formylkynurenine formamidase; involved in the de novo biosynthesis of NAD from tryptophan via kynurenine
+S000035320	CDS					YDR428C		4	1324239	1323454	C		2011-02-03	1996-07-31	
+S000002837	ORF	Verified	YDR429C	TIF35	translation initiation factor eIF3 core subunit g	chromosome 4	L000004253	4	1325301	1324477	C		2011-02-03	1996-07-31	eIF3g subunit of the eukaryotic translation initiation factor 3 (eIF3); subunit of the core complex of eIF3; is essential for translation; stimulates resumption of ribosomal scanning during translation reinitiation; eIF3 is also involved in programmed stop codon readthrough
+S000036266	CDS					YDR429C		4	1325301	1324477	C		2011-02-03	1996-07-31	
+S000002839	ORF	Dubious	YDR431W			chromosome 4		4	1328390	1328701	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000029889	CDS					YDR431W		4	1328390	1328701	W		2011-02-03	1996-07-31	
+S000002838	ORF	Verified	YDR430C	CYM1	MOP112	chromosome 4		4	1328470	1325501	C		2011-02-03	1996-07-31	Lysine-specific metalloprotease of the pitrilysin family; metalloprotease of the intermembrane space; degrades proteins and presequence peptides cleaved from imported proteins; required for normal mitochondrial morphology
+S000037179	CDS					YDR430C		4	1328470	1325501	C		2011-02-03	1996-07-31	
+S000002840	ORF	Verified	YDR432W	NPL3	mRNA-binding protein NPL3|NAB1|NOP3|MTS1|MTR13	chromosome 4	L000001270	4	1328783	1330027	W		2011-02-03	1996-07-31	RNA-binding protein; promotes elongation, regulates termination, and carries poly(A) mRNA from nucleus to cytoplasm; represses translation initiation by binding eIF4G; required for pre-mRNA splicing; interacts with E3 ubiquitin ligase Bre1p, linking histone ubiquitination to mRNA processing; may have role in telomere maintenance; dissociation from mRNAs promoted by Mtr10p; phosphorylated by Sky1p in cytoplasm; protein abundance increases in response to DNA replication stress
+S000029988	CDS					YDR432W		4	1328783	1330027	W		2011-02-03	1996-07-31	
+S000002841	ORF	Dubious	YDR433W		KRE22	chromosome 4		4	1329600	1330040	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030126	CDS					YDR433W		4	1329600	1330040	W		2011-02-03	1996-07-31	
+S000002842	ORF	Verified	YDR434W	GPI17	GPI-anchor transamidase GPI17	chromosome 4		4	1331237	1332841	W		2011-02-03	1996-07-31	Transmembrane protein; subunit of the glycosylphosphatidylinositol transamidase complex that adds GPIs to newly synthesized proteins; human PIG-S homolog
+S000031125	CDS					YDR434W		4	1331237	1332841	W		2011-02-03	1996-07-31	
+S000002843	ORF	Verified	YDR435C	PPM1	leucine carboxy methyltransferase	chromosome 4		4	1333969	1332983	C		2011-02-03	1996-07-31	Carboxyl methyltransferase; methylates the C terminus of the protein phosphatase 2A catalytic subunit (Pph21p or Pph22p), which is important for complex formation with regulatory subunits; required for methionine to inhibit autophagy and promote growth
+S000031177	CDS					YDR435C		4	1333969	1332983	C		2011-02-03	1996-07-31	
+S000002844	ORF	Verified	YDR436W	PPZ2	salt homeostasis regulator	chromosome 4	L000001479	4	1334821	1336953	W		2011-02-03	1996-07-31	Serine/threonine protein phosphatase Z, isoform of Ppz1p; involved in regulation of potassium transport, which affects osmotic stability, cell cycle progression, and halotolerance
+S000031349	CDS					YDR436W		4	1334821	1336953	W		2011-02-03	1996-07-31	
+S000002845	ORF	Verified	YDR437W	GPI19	phosphatidylinositol N-acetylglucosaminyltransferase GPI19	chromosome 4		4	1337352	1337774	W		2011-02-03	1996-07-31	Subunit of GPI-GlcNAc transferase involved in synthesis of GlcNAc-PI; N-acetylglucosaminyl phosphatidylinositol (GlcNAc-PI) is the first intermediate in glycosylphosphatidylinositol (GPI) anchor synthesis; shares similarity with mammalian PIG-P
+S000032347	CDS					YDR437W		4	1337352	1337774	W		2011-02-03	1996-07-31	
+S000002846	ORF	Verified	YDR438W	THI74		chromosome 4		4	1338274	1339386	W		2011-02-03	1996-07-31	Mitochondrial transporter repressible by thiamine; THI74 has a paralog, YML018C, that arose from the whole genome duplication; shows sequence homology to human gene SLC35F3, a thiamine transporter implicated in hypertension
+S000032476	CDS					YDR438W		4	1338274	1339386	W		2011-02-03	1996-07-31	
+S000002847	ORF	Verified	YDR439W	LRS4		chromosome 4	L000004395	4	1339676	1340719	W		2011-02-03	1996-07-31	Nucleolar protein that forms a complex with Csm1p; and then Mam1p at kinetochores during meiosis I to mediate accurate homolog segregation; required for condensin recruitment to the replication fork barrier site and rDNA repeat segregation
+S000032575	CDS					YDR439W		4	1339676	1340719	W		2011-02-03	1996-07-31	
+S000002848	ORF	Verified	YDR440W	DOT1	histone methyltransferase DOT1|KMT4|PCH1	chromosome 4	L000004390|L000004273	4	1342493	1344241	W		2011-02-03	1996-07-31	Nucleosomal histone H3-Lys79 methylase; methylation is required for telomeric silencing, meiotic checkpoint control, and DNA damage response
+S000033292	CDS					YDR440W		4	1342493	1344241	W		2011-02-03	1996-07-31	
+S000002849	ORF	Verified	YDR441C	APT2	adenine phosphoribosyltransferase APT2	chromosome 4	L000000102	4	1345062	1344517	C		2011-02-03	1996-07-31	Potential adenine phosphoribosyltransferase; encodes a protein with similarity to adenine phosphoribosyltransferase, but artificially expressed protein exhibits no enzymatic activity; APT2 has a paralog, APT1, that arose from the whole genome duplication
+S000033331	CDS					YDR441C		4	1345062	1344517	C		2011-02-03	1996-07-31	
+S000002850	ORF	Dubious	YDR442W			chromosome 4		4	1345647	1346039	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034272	CDS					YDR442W		4	1345647	1346039	W		2011-02-03	1996-07-31	
+S000002851	ORF	Verified	YDR443C	SSN2	SSX5|MED13|RYE3|UME2|SRB9|SCA1|NUT8	chromosome 4	L000001803|L000002088|S000029518|L000002101	4	1349938	1345676	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for stable association of Srb10p-Srb11p kinase; essential for transcriptional regulation
+S000034322	CDS					YDR443C		4	1349938	1345676	C		2011-02-03	1996-07-31	
+S000002852	ORF	Uncharacterized	YDR444W		putative hydrolase	chromosome 4		4	1350290	1352353	W		2011-02-03	1996-07-31	Putative hydrolase acting on ester bonds
+S000034446	CDS					YDR444W		4	1350290	1352353	W		2011-02-03	1996-07-31	
+S000006617	tRNA_gene		tK(CUU)D2			chromosome 4	L000003776	4	1352538	1352466	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000035878	noncoding_exon					tK(CUU)D2		4	1352538	1352466	C		2011-02-03	2000-05-19	
+S000002853	ORF	Dubious	YDR445C			chromosome 4		4	1352589	1352182	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034512	CDS					YDR445C		4	1352589	1352182	C		2011-02-03	1996-07-31	
+S000006877	long_terminal_repeat		YDRWdelta29			chromosome 4		4	1352644	1352975	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006878	long_terminal_repeat		YDRWdelta30			chromosome 4		4	1352976	1353226	W		2011-02-03	2000-05-19	Ty1 LTR
+S000002854	ORF	Verified	YDR446W	ECM11		chromosome 4	L000003886	4	1353725	1354633	W		2011-02-03	1996-07-31	Meiosis-specific protein; component of the Synaptonemal Complex (SC) along with Gmc2p; required for efficient crossover formation and for the efficient loading of the SC transverse filament protein, Zip1p; is SUMOlytaed in a Gmc2p manner, and SUMOylation is required for its function in meiosis; GFP fusion protein is present in discrete clusters in the nucleus throughout mitosis; may be involved in maintaining chromatin structure
+S000035576	CDS					YDR446W		4	1353725	1354633	W		2011-02-03	1996-07-31	
+S000002855	ORF	Verified	YDR447C	RPS17B	eS17|ribosomal 40S subunit protein S17B|S17e|rp51B|S17B|RPL51B|RP51B	chromosome 4	L000001670|L000001741	4	1355553	1354829	C		2011-02-03	1996-07-31	Ribosomal protein 51 (rp51) of the small (40s) subunit; homologous to mammalian ribosomal protein S17, no bacterial homolog; RPS17B has a paralog, RPS17A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000035611	CDS					YDR447C		4	1355236	1354829	C		2011-02-03	1996-07-31	
+S000035610	CDS					YDR447C		4	1355553	1355551	C		2011-02-03	1996-07-31	
+S000035612	intron					YDR447C		4	1355550	1355237	C		2011-02-03	1996-07-31	
+S000002856	ORF	Verified	YDR448W	ADA2	chromatin-binding transcription regulator ADA2|SWI8	chromosome 4	L000000029	4	1356065	1357369	W		2011-02-03	1996-07-31	Transcription coactivator; component of the ADA and SAGA transcriptional adaptor/HAT (histone acetyltransferase) complexes
+S000035771	CDS					YDR448W		4	1356065	1357369	W		2011-02-03	1996-07-31	
+S000002857	ORF	Verified	YDR449C	UTP6	snoRNA-binding rRNA-processing protein UTP6	chromosome 4		4	1358902	1357580	C		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
+S000036633	CDS					YDR449C		4	1358902	1357580	C		2011-02-03	1996-07-31	
+S000002858	ORF	Verified	YDR450W	RPS18A	uS13|ribosomal 40S subunit protein S18A|S18A|S13	chromosome 4	L000004480	4	1359923	1360798	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S18 and bacterial S13; RPS18A has a paralog, RPS18B, that arose from the whole genome duplication; protein increases in abundance and relocalizes from cytoplasm to nuclear foci upon DNA replication stress
+S000036543	CDS					YDR450W		4	1359923	1359969	W		2011-02-03	1996-07-31	
+S000036544	CDS					YDR450W		4	1360405	1360798	W		2011-02-03	1996-07-31	
+S000036545	intron					YDR450W		4	1359970	1360404	W		2011-02-03	1996-07-31	
+S000002859	ORF	Verified	YDR451C	YHP1		chromosome 4		4	1362181	1361120	C		2011-02-03	1996-07-31	Homeobox transcriptional repressor; binds Mcm1p and early cell cycle box (ECB) elements of cell cycle regulated genes, thereby restricting ECB-mediated transcription to the M/G1 interval; YHP1 has a paralog, YOX1, that arose from the whole genome duplication
+S000036584	CDS					YDR451C		4	1362181	1361120	C		2011-02-03	1996-07-31	
+S000002860	ORF	Verified	YDR452W	PPN1	endopolyphosphatase|PHM5	chromosome 4	S000007514	4	1362878	1364902	W		2011-02-03	1996-07-31	Dual endo- and exopolyphosphatase with a role in phosphate metabolism; acts as both an endopolyphosphatase cleaving long chains of polyphosphate distributively to generate shorter polymer chains and as an exopolyphosphatase catalyzing the hydrolysis of terminal phosphate from polyphosphate; localizes to the vacuole, nucleus and cytosol; functions as a homodimer; relocalizes from vacuole to cytoplasm upon DNA replication stress
+S000036745	CDS					YDR452W		4	1362878	1364902	W		2011-02-03	1996-07-31	
+S000002861	ORF	Verified	YDR453C	TSA2	thioredoxin peroxidase TSA2|cTPxII	chromosome 4		4	1365662	1365072	C		2011-02-03	1996-07-31	Stress inducible cytoplasmic thioredoxin peroxidase; cooperates with Tsa1p in the removal of reactive oxygen, nitrogen and sulfur species using thioredoxin as hydrogen donor; deletion enhances the mutator phenotype of tsa1 mutants; protein abundance increases in response to DNA replication stress; TSA2 has a paralog, TSA1, that arose from the whole genome duplication
+S000037410	CDS					YDR453C		4	1365662	1365072	C		2011-02-03	1996-07-31	
+S000002862	ORF	Verified	YDR454C	GUK1	BRA3|guanylate kinase|PUR5	chromosome 4	L000000745	4	1366827	1366264	C		2011-02-03	1996-07-31	Guanylate kinase; converts GMP to GDP; required for growth and mannose outer chain elongation of cell wall N-linked glycoproteins
+S000037538	CDS					YDR454C		4	1366827	1366264	C		2011-02-03	1996-07-31	
+S000002864	ORF	Verified	YDR456W	NHX1	bifunctional K:H/Na:H antiporter NHX1|VPL27|NHA2|VPS44	chromosome 4	L000004336	4	1367485	1369386	W		2011-02-03	1996-07-31	Na+/H+ and K+/H+ exchanger; required for intracellular sequestration of Na+ and K+; located in the vacuole and late endosome compartments; required for osmotolerance to acute hypertonic shock and for vacuolar fusion; ortholog of human NHE9, which is linked to autism
+S000030521	CDS					YDR456W		4	1367485	1369386	W		2011-02-03	1996-07-31	
+S000002863	ORF	Dubious	YDR455C			chromosome 4		4	1367681	1367373	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YDR456W
+S000037654	CDS					YDR455C		4	1367681	1367373	C		2011-02-03	1996-07-31	
+S000002865	ORF	Verified	YDR457W	TOM1	E3 ubiquitin-protein ligase TOM1	chromosome 4	L000002983	4	1369790	1379596	W		2011-02-03	1996-07-31	E3 ubiquitin ligase of the hect-domain class; has a role in mRNA export from the nucleus and may regulate transcriptional coactivators; involved in degradation of excess histones; interacts with Dia2p and is required for Dia2p degradation; required to target Cdc6p for ubiquitin-mediated destruction during G1 phase
+S000030634	CDS					YDR457W		4	1369790	1379596	W		2011-02-03	1996-07-31	
+S000130177	ARS		ARS439			chromosome 4		4	1379641	1380100			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000002866	ORF	Verified	YDR458C	HEH2		chromosome 4		4	1382046	1380055	C		2011-02-03	1996-07-31	Inner nuclear membrane (INM) protein; contains helix-extension-helix (HEH) motif, nuclear localization signal sequence; targeting to the INM requires the Srp1p-Kap95p karyopherins and the Ran cycle; HEH2 has a paralog, SRC1, that arose from the whole genome duplication
+S000030675	CDS					YDR458C		4	1382046	1380055	C		2011-02-03	1996-07-31	
+S000002867	ORF	Verified	YDR459C	PFA5	palmitoyltransferase PFA5	chromosome 4		4	1383443	1382319	C		2011-02-03	1996-07-31	Palmitoyltransferase with autoacylation activity; likely functions in pathway(s) outside Ras; member of a family of putative palmitoyltransferases containing an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain
+S000031546	CDS					YDR459C		4	1383443	1382319	C		2011-02-03	1996-07-31	
+S000002868	ORF	Verified	YDR460W	TFB3	TFIIH/NER complex subunit TFB3|RIG2	chromosome 4	L000003496	4	1383811	1384776	W		2011-02-03	1996-07-31	Subunit of TFIIH and nucleotide excision repair factor 3 complexes; involved in transcription initiation, required for nucleotide excision repair; ring finger protein similar to mammalian CAK and TFIIH subunit
+S000031579	CDS					YDR460W		4	1383811	1384776	W		2011-02-03	1996-07-31	
+S000002869	ORF	Verified	YDR461W	MFA1	mating pheromone a	chromosome 4	L000001096	4	1385176	1385286	W	280.27	2011-02-03	1996-07-31	Mating pheromone a-factor; made by a cells; interacts with alpha cells to induce cell cycle arrest and other responses leading to mating; biogenesis involves C-terminal modification, N-terminal proteolysis, and export; also encoded by MFA2
+S000032540	CDS					YDR461W		4	1385176	1385286	W		2011-02-03	1996-07-31	
+S000087209	ORF	Uncharacterized	YDR461C-A			chromosome 4		4	1385766	1385524	C		2011-02-03	2005-11-15	Putative protein of unknown function
+S000087210	CDS					YDR461C-A		4	1385766	1385524	C		2011-02-03	2005-11-15	
+S000002870	ORF	Verified	YDR462W	MRPL28	mitochondrial 54S ribosomal protein YmL28|YmL28	chromosome 4	L000002691	4	1386073	1386516	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; protein abundance increases in response to DNA replication stress
+S000032692	CDS					YDR462W		4	1386073	1386516	W		2011-02-03	1996-07-31	
+S000002871	ORF	Verified	YDR463W	STP1	SSY2|BAP1	chromosome 4	L000002132	4	1386816	1388375	W	298	2011-02-03	2003-09-22|1996-07-31	Transcription factor; contains a N-terminal regulatory motif (RI) that acts as a cytoplasmic retention determinant and as an Asi dependent degron in the nucleus; undergoes proteolytic processing by SPS (Ssy1p-Ptr3p-Ssy5p)-sensor component Ssy5p in response to extracellular amino acids; activates transcription of amino acid permease genes and may have a role in tRNA processing; STP1 has a paralog, STP2, that arose from the whole genome duplication
+S000032755	CDS					YDR463W		4	1386816	1388375	W		2011-02-03	2003-09-22|1996-07-31	
+S000002872	ORF	Verified	YDR464W	SPP41		chromosome 4	L000002019	4	1388872	1393179	W	297	2011-02-03	1996-07-31	Protein of unknown function; involved in negative regulation of expression of spliceosome components PRP4 and PRP3; relocalizes to the cytosol in response to hypoxia
+S000033502	CDS					YDR464W		4	1388872	1393179	W		2011-02-03	1996-07-31	
+S000028614	ORF	Dubious	YDR464C-A			chromosome 4		4	1392680	1392492	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031450	CDS					YDR464C-A		4	1392680	1392492	C		2011-02-03	2003-07-29	
+S000002873	ORF	Verified	YDR465C	RMT2	protein-arginine N5-methyltransferase	chromosome 4	L000004724	4	1394574	1393336	C		2011-02-03	1996-07-31	Arginine N5 methyltransferase; methylates ribosomal protein Rpl12 (L12) on Arg67; relative distribution to the nucleus increases upon DNA replication stress
+S000033538	CDS					YDR465C		4	1394574	1393336	C		2011-02-03	1996-07-31	
+S000002874	ORF	Verified	YDR466W	PKH3	protein kinase PKH3	chromosome 4		4	1395121	1397817	W		2011-02-03	1996-07-31	Protein kinase with similarity to mammalian PDK1 and yeast Pkh1p/Phk2p; yeast Pkh1p and Pkh2p are two redundant upstream activators of Pkc1p; identified as a multicopy suppressor of a pkh1 pkh2 double mutant
+S000033694	CDS					YDR466W		4	1395121	1397817	W		2011-02-03	1996-07-31	
+S000002875	ORF	Dubious	YDR467C			chromosome 4		4	1397909	1397583	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033742	CDS					YDR467C		4	1397909	1397583	C		2011-02-03	1996-07-31	
+S000002876	ORF	Verified	YDR468C	TLG1		chromosome 4	L000004227	4	1398700	1398026	C		2011-02-03	1996-07-31	Essential t-SNARE that mediates fusion of vesicles with the late Golgi; forms a complex with Tlg2p and Vti1p; mediates fusion of endosome-derived vesicles with the late Golgi; binds the docking complex VFT (Vps fifty-three) through interaction with Vps51p
+S000034625	CDS					YDR468C		4	1398700	1398026	C		2011-02-03	1996-07-31	
+S000002877	ORF	Verified	YDR469W	SDC1	SAF19|CPS25	chromosome 4		4	1399015	1399542	W		2011-02-03	1996-07-31	Subunit of the COMPASS (Set1C) complex; COMPASS methylates lysine 4 of histone H3 and is required in chromatin silencing at telomeres; contains a Dpy-30 domain that mediates interaction with Bre2p; similar to C. elegans and human DPY-30
+S000034852	CDS					YDR469W		4	1399015	1399542	W		2011-02-03	1996-07-31	
+S000002878	ORF	Verified	YDR470C	UGO1		chromosome 4		4	1401214	1399706	C		2011-02-03	2000-04-06|1996-07-31|2011-02-03	Outer membrane component of the mitochondrial fusion machinery; binds to Fzo1p and Mgm1p to link these two GTPases during mitochondrial fusion; involved in fusion of both the outer and inner membranes; facilitates dimerization of Fzo1p during fusion; import into the outer membrane is mediated by Tom70p and Mim1p; has similarity to carrier proteins but likely not a transporter; similar to human SLC25A46 implicated in optic atroprophy spectrum disorder
+S000035822	CDS					YDR470C		4	1401214	1399706	C		2011-02-03	2000-04-06|1996-07-31|2011-02-03	
+S000002879	ORF	Verified	YDR471W	RPL27B	eL27|ribosomal 60S subunit protein L27B|L27e|L27B	chromosome 4	L000002898	4	1401770	1402564	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L27B; homologous to mammalian ribosomal protein L27, no bacterial homolog; RPL27B has a paralog, RPL27A, that arose from the whole genome duplication
+S000036787	CDS					YDR471W		4	1401770	1401800	W		2011-02-03	1996-07-31	
+S000036788	CDS					YDR471W		4	1402185	1402564	W		2011-02-03	1996-07-31	
+S000036789	intron					YDR471W		4	1401801	1402184	W		2011-02-03	1996-07-31	
+S000006498	snoRNA_gene		snR13	SNR13		chromosome 4	L000002849	4	1402919	1403042	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at positions A2280 and A2281
+S000036591	noncoding_exon					snR13		4	1402919	1403042	W		2011-02-03	2000-05-19	
+S000002880	ORF	Verified	YDR472W	TRS31	TRAPP subunit TRS31	chromosome 4	S000007433	4	1403322	1404173	W		2011-02-03	1996-07-31	Core component of transport protein particle (TRAPP) complexes I-III; TRAPP complexes are related multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII)
+S000036864	CDS					YDR472W		4	1403322	1404173	W		2011-02-03	1996-07-31	
+S000118448	ARS		ARS440		ARSIV-1404	chromosome 4		4	1404290	1404524			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178080	ARS_consensus_sequence					ARS440		4	1404322	1404338	W		2014-11-18	2014-11-18	
+S000002881	ORF	Verified	YDR473C	PRP3	U4/U6-U5 snRNP complex subunit PRP3|RNA3	chromosome 4	L000001496	4	1405854	1404445	C	300	2011-02-03	1996-07-31	Splicing factor; component of the U4/U6-U5 snRNP complex
+S000036886	CDS					YDR473C		4	1405854	1404445	C		2011-02-03	1996-07-31	
+S000002883	ORF	Verified	YDR475C	JIP4	YDR474C	chromosome 4		4	1410094	1407464	C		2011-02-03	2003-09-30|1996-07-31	Protein of unknown function; previously annotated as two separate ORFs, YDR474C and YDR475C, which were merged as a result of corrections to the systematic reference sequence; JIP4 has a paralog, YOR019W, that arose from the whole genome duplication
+S000037707	CDS					YDR475C		4	1410094	1407464	C		2011-02-03	2003-09-30|1996-07-31	
+S000002884	ORF	Uncharacterized	YDR476C			chromosome 4		4	1411127	1410453	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YDR476C is not an essential gene
+S000037771	CDS					YDR476C		4	1411127	1410453	C		2011-02-03	1996-07-31	
+S000002885	ORF	Verified	YDR477W	SNF1	AMP-activated serine/threonine-protein kinase catalytic subunit SNF1|PAS14|HAF3|GLC2|CCR1|CAT1	chromosome 4	L000001944	4	1412373	1414274	W	304	2011-02-03	1996-07-31	AMP-activated S/T protein kinase; forms a complex with Snf4p and members of the Sip1p/Sip2p/Gal83p family; required for transcription of glucose-repressed genes, thermotolerance, sporulation, and peroxisome biogenesis; regulates nucleocytoplasmic shuttling of Hxk2p; regulates filamentous growth and acts as a non-canonical GEF, activating Arf3p during invasive growth; SUMOylation by Mms21p inhibits its function and targets Snf1p for destruction via the Slx5-Slx8 Ub ligase
+S000029842	CDS					YDR477W		4	1412373	1414274	W		2011-02-03	1996-07-31	
+S000002886	ORF	Verified	YDR478W	SNM1		chromosome 4	L000002825	4	1414575	1415171	W		2011-02-03	1996-07-31	Ribonuclease MRP complex subunit; ribonuclease (RNase) MRP cleaves pre-rRNA and has a role in cell cycle-regulated degradation of daughter cell-specific mRNAs; binds to the NME1 RNA subunit of RNase MRP
+S000030848	CDS					YDR478W		4	1414575	1415171	W		2011-02-03	1996-07-31	
+S000002887	ORF	Verified	YDR479C	PEX29		chromosome 4		4	1416874	1415210	C		2011-02-03	1996-07-31	ER-resident protein involved in peroxisomal biogenesis; ER-localized protein that associates with peroxisomes; interacts with Pex30p and reticulons Rtn1p and Yop1p to regulate peroxisome biogenesis from the ER; role in peroxisomal-destined vesicular flow from the ER; regulates peroxisomal size, number and distribution; Pex28p and Pex29p may act at steps upstream of those mediated by Pex30p, Pex31p, and Pex32p; forms ER foci upon DNA replication stress
+S000030901	CDS					YDR479C		4	1416874	1415210	C		2011-02-03	1996-07-31	
+S000002888	ORF	Verified	YDR480W	DIG2	RST2	chromosome 4	L000003123	4	1417399	1418370	W		2011-02-03	1996-07-31	MAP kinase-responsive inhibitor of the Ste12p transcription factor; involved in the regulation of mating-specific genes and the invasive growth pathway; related regulators Dig1p and Dig2p bind to Ste12p; DIG2 has a paralog, DIG1, that arose from the whole genome duplication
+S000032009	CDS					YDR480W		4	1417399	1418370	W		2011-02-03	1996-07-31	
+S000002889	ORF	Verified	YDR481C	PHO8	alkaline phosphatase PHO8|phoH	chromosome 4	L000001422	4	1420250	1418550	C	306	2011-02-03	1996-07-31	Repressible vacuolar alkaline phosphatase; regulated by levels of Pi and by Pho4p, Pho9p, Pho80p, Pho81p and Pho85p; dephosphorylates phosphotyrosyl peptides; contributes to NAD+ metabolism by producing nicotinamide riboside from NMN
+S000032056	CDS					YDR481C		4	1420250	1418550	C		2011-02-03	1996-07-31	
+S000002890	ORF	Verified	YDR482C	CWC21	U2-type spliceosomal complex subunit CWC21	chromosome 4		4	1420838	1420431	C		2011-02-03	1996-07-31	Protein involved in RNA splicing by the spliceosome; component of a complex containing Cef1p; interacts genetically with ISY1 and BUD13; may bind RNA; has similarity to S. pombe Cwf21p
+S000032970	CDS					YDR482C		4	1420838	1420431	C		2011-02-03	1996-07-31	
+S000002891	ORF	Verified	YDR483W	KRE2	alpha-1,2-mannosyltransferase KRE2|MNT1	chromosome 4	L000000913	4	1421157	1422485	W	306	2011-02-03	1996-07-31	Alpha1,2-mannosyltransferase of the Golgi; involved in protein mannosylation; KRE2 has a paralog, KTR6, that arose from the whole genome duplication
+S000033119	CDS					YDR483W		4	1421157	1422485	W		2011-02-03	1996-07-31	
+S000002892	ORF	Verified	YDR484W	VPS52	SAC2	chromosome 4	L000001791	4	1422763	1424688	W	314	2011-02-03	1996-07-31	Component of the GARP (Golgi-associated retrograde protein) complex; GARP is required for the recycling of proteins from endosomes to the late Golgi, and for mitosis after DNA damage induced checkpoint arrest; involved in localization of actin and chitin; members of the GARP complex are Vps51p-Vps52p-Vps53p-Vps54p
+S000033198	CDS					YDR484W		4	1422763	1424688	W		2011-02-03	1996-07-31	
+S000002893	ORF	Verified	YDR485C	VPS72	SWC2	chromosome 4		4	1427207	1424820	C		2011-02-03	2003-09-22|1996-07-31	Htz1p-binding component of the SWR1 complex; exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; may function as a lock that prevents removal of H2AZ from nucleosomes; required for vacuolar protein sorting
+S000033955	CDS					YDR485C		4	1427207	1424820	C		2011-02-03	2003-09-22|1996-07-31	
+S000002894	ORF	Verified	YDR486C	VPS60	CHM5|MOS10	chromosome 4		4	1428120	1427431	C		2011-02-03	2003-09-22|1996-07-31	Protein involved in late endosome to vacuole transport; cytoplasmic and vacuolar membrane protein; required for normal filament maturation during pseudohyphal growth; may function in targeting cargo proteins for degradation; interacts with Vta1p
+S000034065	CDS					YDR486C		4	1428120	1427431	C		2011-02-03	2003-09-22|1996-07-31	
+S000002895	ORF	Verified	YDR487C	RIB3	3,4-dihydroxy-2-butanone-4-phosphate synthase RIB3	chromosome 4	L000001635	4	1428980	1428354	C		2011-02-03	1996-07-31	3,4-dihydroxy-2-butanone-4-phosphate synthase (DHBP synthase); required for riboflavin biosynthesis from ribulose-5-phosphate, also has an unrelated function in mitochondrial respiration
+S000034158	CDS					YDR487C		4	1428980	1428354	C		2011-02-03	1996-07-31	
+S000002896	ORF	Verified	YDR488C	PAC11	dynein intermediate chain	chromosome 4	L000001330	4	1430789	1429188	C		2011-02-03	1996-07-31	Dynein intermediate chain, microtubule motor protein; required for intracellular transport and cell division; acts in cytoplasmic dynein pathway; forms complex with dynein light chain Dyn2p that promotes Dyn1p homodimerization and potentiates motor processivity; Dyn2p-Pac11p complex is also important for interaction of dynein motor complex with dynactin complex; forms cortical cytoplasmic microtubule capture site with Num1p; essential in the absence of CIN8
+S000035100	CDS					YDR488C		4	1430789	1429188	C		2011-02-03	1996-07-31	
+S000002897	ORF	Verified	YDR489W	SLD5	DNA replication protein SLD5|CDC105	chromosome 4		4	1431012	1431896	W		2011-02-03	1996-07-31	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p); complex is localized to DNA replication origins and implicated in assembly of the DNA replication machinery
+S000035299	CDS					YDR489W		4	1431012	1431896	W		2011-02-03	1996-07-31	
+S000002898	ORF	Verified	YDR490C	PKH1	serine/threonine protein kinase PKH1	chromosome 4	L000004616	4	1434268	1431968	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; involved in sphingolipid-mediated signaling pathway that controls endocytosis; activates Ypk1p and Ykr2p, components of signaling cascade required for maintenance of cell wall integrity; contains a PH-like domain; redundant with Pkh2p; PKH1 has a paralog, PKH2, that arose from the whole genome duplication
+S000036098	CDS					YDR490C		4	1434268	1431968	C		2011-02-03	1996-07-31	
+S000002900	ORF	Verified	YDR492W	IZH1	PAQR-type receptor	chromosome 4		4	1434924	1435874	W		2011-02-03	1996-07-31	Membrane protein involved in zinc ion homeostasis; member of the four-protein IZH family; transcription is regulated directly by Zap1p, expression induced by zinc deficiency and fatty acids; deletion increases sensitivity to elevated zinc; IZH1 has a paralog, IZH4, that arose from the whole genome duplication
+S000031780	CDS					YDR492W		4	1434924	1435874	W		2011-02-03	1996-07-31	
+S000002899	ORF	Dubious	YDR491C			chromosome 4		4	1434991	1434500	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036239	CDS					YDR491C		4	1434991	1434500	C		2011-02-03	1996-07-31	
+S000002901	ORF	Verified	YDR493W	MZM1	AIM8|FMP36	chromosome 4		4	1436217	1436588	W		2011-02-03	1996-07-31	Protein required for assembly of the cytochrome bc(1) complex; acts as a chaperone for Rip1p and facilitates its insertion into the complex at a late stage of assembly; localized to the mitochondrial matrix; null mutant exhibits a respiratory growth defect and reduced mitochondrial zinc levels, which is characteristic of mutations affecting bc(1) complex assembly; member of the LYR protein family; human LYRM7 is a functional ortholog
+S000031922	CDS					YDR493W		4	1436217	1436588	W		2011-02-03	1996-07-31	
+S000002902	ORF	Verified	YDR494W	RSM28	mitochondrial 37S ribosomal protein RSM28	chromosome 4		4	1436930	1438015	W		2011-02-03	2002-12-17|1996-07-31	Mitochondrial ribosomal protein of the small subunit; genetic interactions suggest a possible role in promoting translation initiation
+S000037424	CDS					YDR494W		4	1436930	1438015	W		2011-02-03	2002-12-17|1996-07-31	
+S000002903	ORF	Verified	YDR495C	VPS3	CORVET complex subunit VPS3|VPT17|VPL3|PEP6	chromosome 4	L000002469	4	1441150	1438115	C		2011-02-03	1996-07-31	Component of CORVET membrane tethering complex; cytoplasmic protein required for the sorting and processing of soluble vacuolar proteins, acidification of the vacuolar lumen, and assembly of the vacuolar H+-ATPase
+S000037459	CDS					YDR495C		4	1441150	1438115	C		2011-02-03	1996-07-31	
+S000002904	ORF	Verified	YDR496C	PUF6		chromosome 4		4	1443403	1441433	C		2011-02-03	1996-07-31	Pumilio-homology domain protein; binds the 3' UTR of ASH1 mRNA and represses its translation, resulting in proper asymmetric localization of ASH1 mRNA; required at post-transcriptional step for efficient retrotransposition; absence results in decreased Ty1 Gag:GFP protein levels; co-sediments with the 60S ribosomal subunit and is required for its biogenesis
+S000037553	CDS					YDR496C		4	1443403	1441433	C		2011-02-03	1996-07-31	
+S000002905	ORF	Verified	YDR497C	ITR1	myo-inositol transporter ITR1	chromosome 4	L000000879	4	1445467	1443713	C		2011-02-03	1996-07-31	Myo-inositol transporter; member of the sugar transporter superfamily; expression is repressed by inositol and choline via Opi1p and derepressed via Ino2p and Ino4p; relative distribution to the vacuole increases upon DNA replication stress; ITR1 has a paralog, ITR2, that arose from the whole genome duplication
+S000037634	CDS					YDR497C		4	1445467	1443713	C		2011-02-03	1996-07-31	
+S000002906	ORF	Verified	YDR498C	SEC20		chromosome 4	L000001843	4	1446994	1445843	C		2011-02-03	1996-07-31	Membrane glycoprotein v-SNARE; involved in retrograde transport from the Golgi to the endoplasmic reticulum (ER); required for N- and O-glycosylation in the Golgi but not in the ER and for efficient nuclear fusion during mating; mediates Sey1p-independent homotypic ER fusion; interacts with the Dsl1p complex through Tip20p
+S000030424	CDS					YDR498C		4	1446994	1445843	C		2011-02-03	1996-07-31	
+S000002907	ORF	Verified	YDR499W	LCD1	PIE1|DDC2	chromosome 4		4	1447830	1450073	W		2011-02-03	1996-07-31	Essential protein required for the DNA integrity checkpoint pathways; interacts physically with Mec1p; putative homolog of S. pombe Rad26 and human ATRIP; forms nuclear foci upon DNA replication stress
+S000030564	CDS					YDR499W		4	1447830	1450073	W		2011-02-03	1996-07-31	
+S000002908	ORF	Verified	YDR500C	RPL37B	eL37|ribosomal 60S subunit protein L37B|L37e|YL35|L43|L37B	chromosome 4	L000002899	4	1450853	1450198	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L37B; required for processing of 27SB pre-rRNA and formation of stable 66S assembly intermediates; protein abundance increases in response to DNA replication stress; homologous to mammalian ribosomal protein L37, no bacterial homolog; RPL37B has a paralog, RPL37A, that arose from the whole genome duplication
+S000036331	CDS					YDR500C		4	1450457	1450198	C		2011-02-03	1996-07-31	
+S000036330	CDS					YDR500C		4	1450853	1450847	C		2011-02-03	1996-07-31	
+S000036332	intron					YDR500C		4	1450846	1450458	C		2011-02-03	1996-07-31	
+S000002909	ORF	Verified	YDR501W	PLM2		chromosome 4	S000007440	4	1451353	1452918	W		2011-02-03	1996-07-31	Putative transcription factor, contains Forkhead Associated domain; found associated with chromatin; target of SBF transcription factor; induced in response to DNA damaging agents and deletion of telomerase; PLM2 has a paralog, TOS4, that arose from the whole genome duplication
+S000037037	CDS					YDR501W		4	1451353	1452918	W		2011-02-03	1996-07-31	
+S000002910	ORF	Verified	YDR502C	SAM2	methionine adenosyltransferase SAM2|ETH2	chromosome 4	L000001799	4	1454464	1453310	C		2011-02-03	1996-07-31	S-adenosylmethionine synthetase; catalyzes transfer of the adenosyl group of ATP to the sulfur atom of methionine; comparative analysis suggests that a mitochondrially targeted form may result from translation starting at a non-canonical codon upstream of the annotated start codon
+S000037058	CDS					YDR502C		4	1454464	1453310	C		2011-02-03	1996-07-31	
+S000130178	ARS		ARS442			chromosome 4		4	1454509	1455087			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000002911	ORF	Verified	YDR503C	LPP1	phosphatidate phosphatase LPP1	chromosome 4	L000004266	4	1455866	1455042	C		2011-02-03	1996-07-31	Lipid phosphate phosphatase; catalyzes Mg(2+)-independent dephosphorylation of phosphatidic acid (PA), lysophosphatidic acid, and diacylglycerol pyrophosphate; involved in control of the cellular levels of phosphatidylinositol and PA
+S000037180	CDS					YDR503C		4	1455866	1455042	C		2011-02-03	1996-07-31	
+S000002912	ORF	Verified	YDR504C	SPG3		chromosome 4		4	1456694	1456311	C		2011-02-03	1996-07-31	Protein required for high temperature survival during stationary phase; not required for growth on nonfermentable carbon sources; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
+S000037274	CDS					YDR504C		4	1456694	1456311	C		2011-02-03	1996-07-31	
+S000002913	ORF	Verified	YDR505C	PSP1	GIN5	chromosome 4	L000002881|L000002877	4	1459220	1456695	C		2011-02-03	1996-07-31|2011-02-03	Asn and gln rich protein of unknown function; high-copy suppressor of POL1 (DNA polymerase alpha) and partial suppressor of CDC2 (polymerase delta) and CDC6 (pre-RC loading factor) mutations; overexpression results in growth inhibition; PSP1 has a paralog, YLR177W, that arose from the whole genome duplication
+S000029936	CDS					YDR505C		4	1459220	1456695	C		2011-02-03	1996-07-31|2011-02-03	
+S000002914	ORF	Verified	YDR506C	GMC1	putative oxidoreductase	chromosome 4		4	1461554	1459728	C		2011-02-03	1996-07-31	Protein involved in meiotic progression; mutants are delayed in meiotic nuclear division and are defective in synaptonemal complex assembly; possible membrane-localized protein; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000030050	CDS					YDR506C		4	1461554	1459728	C		2011-02-03	1996-07-31	
+S000006638	tRNA_gene		tL(CAA)D			chromosome 4	L000003775	4	1461829	1461715	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000033776	intron					tL(CAA)D		4	1461791	1461759	C		2011-02-03	2000-05-19	
+S000033775	noncoding_exon					tL(CAA)D		4	1461758	1461715	C		2011-02-03	2000-05-19	
+S000033774	noncoding_exon					tL(CAA)D		4	1461829	1461792	C		2011-02-03	2000-05-19	
+S000118449	ARS		ARS443		ARSIV-1462	chromosome 4		4	1461862	1462173			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000002915	ORF	Verified	YDR507C	GIN4	protein kinase GIN4|ERC47	chromosome 4	L000002876	4	1465786	1462358	C		2011-02-03	1996-07-31	Protein kinase involved in bud growth and assembly of the septin ring; proposed to have kinase-dependent and kinase-independent activities; undergoes autophosphorylation; similar to Hsl1p; GIN4 has a paralog, KCC4, that arose from the whole genome duplication
+S000030234	CDS					YDR507C		4	1465786	1462358	C		2011-02-03	1996-07-31	
+S000002917	ORF	Dubious	YDR509W			chromosome 4		4	1468226	1468573	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031352	CDS					YDR509W		4	1468226	1468573	W		2011-02-03	1996-07-31	
+S000002916	ORF	Verified	YDR508C	GNP1	glutamine permease GNP1	chromosome 4	L000002806	4	1468444	1466453	C		2011-02-03	1996-07-31	High-affinity glutamine permease; also transports Leu, Ser, Thr, Cys, Met and Asn; expression is fully dependent on Grr1p and modulated by the Ssy1p-Ptr3p-Ssy5p (SPS) sensor of extracellular amino acids; GNP1 has a paralog, AGP1, that arose from the whole genome duplication
+S000031178	CDS					YDR508C		4	1468444	1466453	C		2011-02-03	1996-07-31	
+S000002918	ORF	Verified	YDR510W	SMT3	SUMO family protein SMT3	chromosome 4	L000001938	4	1469400	1469705	W		2011-02-03	1996-07-31	Ubiquitin-like protein of the SUMO family; conjugated to lysine residues of target proteins; associates with transcriptionally active genes; regulates chromatid cohesion, chromosome segregation, APC-mediated proteolysis, DNA replication and septin ring dynamics; human homolog SUMO1 can complement yeast null mutant
+S000032284	CDS					YDR510W		4	1469400	1469705	W		2011-02-03	1996-07-31	
+S000028615	ORF	Dubious	YDR510C-A			chromosome 4		4	1469811	1469695	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031452	CDS					YDR510C-A		4	1469811	1469695	C		2011-02-03	2003-07-29	
+S000002919	ORF	Verified	YDR511W	SDH7	ACN9	chromosome 4		4	1470017	1470418	W		2011-02-03	1996-07-31	Mitochondrial protein involved in assembly of succinate dehydrogenase; has a role in maturation of the Sdh2p subunit; localized to the mitochondrial intermembrane space; required for acetate utilization and gluconeogenesis; mutation in Drosophila ortholog SDHAF3 causes reduced succinate dehydrogenase activity and neuronal and muscular dysfunction; member of the LYR protein family
+S000032384	CDS					YDR511W		4	1470017	1470418	W		2011-02-03	1996-07-31	
+S000002921	ORF	Verified	YDR513W	GRX2	dithiol glutaredoxin GRX2|TTR1	chromosome 4	L000000510|L000002386	4	1471017	1471448	W		2011-02-03	1996-07-31	Cytoplasmic glutaredoxin; thioltransferase, glutathione-dependent disulfide oxidoreductase involved in maintaining redox state of target proteins, also exhibits glutathione peroxidase activity, expression induced in response to stress; GRX2 has two in-frame start codons resulting in a shorter isoform that is retained in the cytosol and a longer form translocated to the mitochondrial matrix; GRX2 has a paralog, GRX1, that arose from the whole genome duplication
+S000033294	CDS					YDR513W		4	1471017	1471448	W		2011-02-03	1996-07-31	
+S000002920	ORF	Verified	YDR512C	EMI1		chromosome 4		4	1471063	1470500	C		2011-02-03	1996-07-31	Non-essential protein of unknown function; required for transcriptional induction of the early meiotic-specific transcription factor IME1, also required for sporulation; contains twin cysteine-x9-cysteine motifs; deletion affects mitochondrial morphology
+S000032449	CDS					YDR512C		4	1471063	1470500	C		2011-02-03	1996-07-31	
+S000002922	ORF	Verified	YDR514C			chromosome 4		4	1472999	1471548	C		2011-02-03	1996-07-31	Protein of unknown function that localizes to mitochondria; overexpression affects endocytic protein trafficking; YDR514C has a paralog, GFD2, that arose from the whole genome duplication
+S000033333	CDS					YDR514C		4	1472999	1471548	C		2011-02-03	1996-07-31	
+S000002923	ORF	Verified	YDR515W	SLF1	SRO99	chromosome 4	L000004191|L000002894	4	1473429	1474772	W		2011-02-03	1996-07-31	RNA binding protein that associates with polysomes; may be involved in regulating mRNA translation; involved in the copper-dependent mineralization of copper sulfide complexes on cell surface in cells cultured in copper salts; SLF1 has a paralog, SRO9, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000034278	CDS					YDR515W		4	1473429	1474772	W		2011-02-03	1996-07-31	
+S000002924	ORF	Verified	YDR516C	EMI2	putative glucokinase	chromosome 4		4	1476476	1474974	C		2011-02-03	1996-07-31	Non-essential protein of unknown function; required for transcriptional induction of the early meiotic-specific transcription factor IME1; required for sporulation; expression regulated by glucose-repression transcription factors Mig1/2p; EMI2 has a paralog, GLK1, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000034325	CDS					YDR516C		4	1476476	1474974	C		2011-02-03	1996-07-31	
+S000002925	ORF	Verified	YDR517W	GRH1		chromosome 4		4	1477239	1478357	W		2011-02-03	1996-07-31	Acetylated cis-Golgi protein, involved in ER to Golgi transport; homolog of human GRASP65; forms a complex with the coiled-coil protein Bug1p; mutants are compromised for the fusion of ER-derived vesicles with Golgi membranes; protein abundance increases in response to DNA replication stress
+S000034449	CDS					YDR517W		4	1477239	1478357	W		2011-02-03	1996-07-31	
+S000002926	ORF	Verified	YDR518W	EUG1	protein disulfide isomerase EUG1	chromosome 4	L000000589	4	1478608	1480161	W		2011-02-03	1996-07-31	Protein disulfide isomerase of the endoplasmic reticulum lumen; EUG1 has a paralog, PDI1, that arose from the whole genome duplication; function overlaps with that of Pdi1p; may interact with nascent polypeptides in the ER
+S000034562	CDS					YDR518W		4	1478608	1480161	W		2011-02-03	1996-07-31	
+S000002927	ORF	Verified	YDR519W	FPR2	peptidylprolyl isomerase family protein FPR2|FKB2	chromosome 4	L000000613	4	1480425	1480832	W		2011-02-03	1996-07-31	Membrane-bound peptidyl-prolyl cis-trans isomerase (PPIase); binds to the drugs FK506 and rapamycin; expression pattern suggests possible involvement in ER protein trafficking; relocalizes from nucleus to vacuole upon DNA replication stress; mutation is functionally complemented by human FKBP2
+S000035584	CDS					YDR519W		4	1480425	1480832	W		2011-02-03	1996-07-31	
+S000002929	ORF	Dubious	YDR521W			chromosome 4		4	1483141	1483476	W		2011-02-03	1996-07-31	Dubious ORF that overlaps YDR520C; mutant increases expression of PIS1 and RPL3 in glycerol
+S000035558	CDS					YDR521W		4	1483141	1483476	W		2011-02-03	1996-07-31	
+S000002928	ORF	Uncharacterized	YDR520C	URC2	RRT4	chromosome 4	S000122335	4	1483403	1481085	C		2011-02-03	1996-07-31	Putative Zn(II)2Cys6 motif containing transcription factor; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription; similar to S. kluyveri Urc2p involved in uracil catabolism
+S000035462	CDS					YDR520C		4	1483403	1481085	C		2011-02-03	1996-07-31	
+S000002930	ORF	Verified	YDR522C	SPS2		chromosome 4	L000002025	4	1485303	1483795	C		2011-02-03	1996-07-31	Protein expressed during sporulation; SPS2 has a paralog, SPS22, that arose from the whole genome duplication; redundant with Sps22p for organization of the beta-glucan layer of the spore wall; S. pombe ortholog is a spore wall component
+S000035591	CDS					YDR522C		4	1485303	1483795	C		2011-02-03	1996-07-31	
+S000118450	ARS		ARS446		ARSIV-1487	chromosome 4		4	1486918	1487161			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178081	ARS_consensus_sequence					ARS446		4	1487092	1487076	C		2014-11-18	2014-11-18	
+S000002931	ORF	Verified	YDR523C	SPS1	putative serine/threonine protein kinase SPS1	chromosome 4	L000002024	4	1487038	1485566	C		2011-02-03	1996-07-31	Putative protein serine/threonine kinase; localizes to the nucleus and cytoplasm; required for efficient spore packaging, prospore membrane development and closure and localization of enzymes involved in spore wall synthesis; interacts with and required for Ssp1p phosphorylation and turnover; member of the GCKIII subfamily of STE20 kinases; multiply phosphorylated on S/T residues; interacts with 14-3-3 proteins, Bmh1p and Bmh2p; expressed at the end of meiosis
+S000036490	CDS					YDR523C		4	1487038	1485566	C		2011-02-03	1996-07-31	
+S000002932	ORF	Verified	YDR524C	AGE1	SAT1	chromosome 4	S000007502	4	1488990	1487542	C		2011-02-03	1996-07-31	ADP-ribosylation factor (ARF) GTPase activating protein (GAP) effector; involved in the secretory and endocytic pathways; contains C2C2H2 cysteine/histidine motif
+S000036586	CDS					YDR524C		4	1488990	1487542	C		2011-02-03	1996-07-31	
+S000028740	ORF	Uncharacterized	YDR524W-C		YDR524W-A	chromosome 4		4	1489403	1489492	W		2011-02-03	2003-07-29	Putative protein of unknown function; small ORF identified by SAGE; deletion strains are moderately sensitive to the radiomimetic drug bleomycin
+S000033410	CDS					YDR524W-C		4	1489403	1489492	W		2011-02-03	2003-07-29	
+S000028739	ORF	Uncharacterized	YDR524C-B			chromosome 4		4	1489798	1489598	C		2011-02-03	2003-07-29	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; YDR524C-B has a paralog, YCL048W-A, that arose from the whole genome duplication
+S000033383	CDS					YDR524C-B		4	1489798	1489598	C		2011-02-03	2003-07-29	
+S000002933	ORF	Dubious	YDR525W	API2		chromosome 4		4	1489905	1490234	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 26% of ORF overlaps the dubious ORF YDR524C-A; insertion mutation in a cdc34-2 mutant background causes altered bud morphology
+S000036746	CDS					YDR525W		4	1489905	1490234	W		2011-02-03	1996-07-31	
+S000028616	ORF	Dubious	YDR524C-A		YDR524C-C	chromosome 4		4	1489990	1489871	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031456	CDS					YDR524C-A		4	1489990	1489871	C		2011-02-03	2003-07-29	
+S000007236	ORF	Verified	YDR525W-A	SNA2		chromosome 4		4	1490596	1490835	W		2011-02-03	1999-07-17	Protein of unknown function; has similarity to Pmp3p, which is involved in cation transport; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
+S000036177	CDS					YDR525W-A		4	1490596	1490835	W		2011-02-03	1999-07-17	
+S000002935	ORF	Verified	YDR527W	RBA50		chromosome 4		4	1491094	1492413	W		2011-02-03	1996-07-31|2011-02-03	Protein involved in transcription; interacts with RNA polymerase II subunits Rpb2p, Rpb3, and Rpb11p; has similarity to human RPAP1
+S000037626	CDS					YDR527W		4	1491094	1492413	W		2011-02-03	1996-07-31|2011-02-03	
+S000002934	ORF	Dubious	YDR526C			chromosome 4		4	1491545	1491075	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037413	CDS					YDR526C		4	1491545	1491075	C		2011-02-03	1996-07-31	
+S000028466	snoRNA_gene		snR84	SNR84	RUF1	chromosome 4		4	1493026	1492477	C		2011-02-03	2003-03-05	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2266; overexpression confers resistance to baking-associated stress
+S000030073	noncoding_exon					snR84		4	1493026	1492477	C		2011-02-03	2003-03-05	
+S000002936	ORF	Verified	YDR528W	HLR1		chromosome 4		4	1494586	1495857	W		2011-02-03	1996-07-31	Protein involved in regulation of cell wall composition and integrity; also involved in cell wall response to osmotic stress; overproduction suppresses a lysis sensitive PKC mutation; HLR1 has a paralog, LRE1, that arose from the whole genome duplication
+S000030394	CDS					YDR528W		4	1494586	1495857	W		2011-02-03	1996-07-31	
+S000002937	ORF	Verified	YDR529C	QCR7	ubiquinol--cytochrome-c reductase subunit 7|UCR7|CRO1|COR4	chromosome 4	L000001547	4	1496548	1496165	C		2011-02-03	1996-07-31	Subunit 7 of ubiquinol cytochrome-c reductase (Complex III); Complex III is a component of the mitochondrial inner membrane electron transport chain; oriented facing the mitochondrial matrix; N-terminus appears to play a role in complex assembly
+S000030475	CDS					YDR529C		4	1496548	1496165	C		2011-02-03	1996-07-31	
+S000002938	ORF	Verified	YDR530C	APA2	bifunctional AP-4-A phosphorylase/ADP sulfurylase	chromosome 4	L000000091	4	1497768	1496791	C		2011-02-03	1996-07-31	Diadenosine 5',5'''-P1,P4-tetraphosphate phosphorylase II; AP4A phosphorylase involved in catabolism of bis(5'-nucleosidyl) tetraphosphates; APA2 has a paralog, APA1, that arose from the whole genome duplication
+S000031311	CDS					YDR530C		4	1497768	1496791	C		2011-02-03	1996-07-31	
+S000002939	ORF	Verified	YDR531W	CAB1	pantothenate kinase	chromosome 4		4	1498232	1499335	W		2011-02-03	1996-07-31	Pantothenate kinase, ATP:D-pantothenate 4'-phosphotransferase; catalyzes the first committed step in the universal biosynthetic pathway for synthesis of coenzyme A (CoA); transcriptionally regulated by Upc2p via a sterol response element
+S000031423	CDS					YDR531W		4	1498232	1499335	W		2011-02-03	1996-07-31	
+S000002940	ORF	Verified	YDR532C	KRE28		chromosome 4		4	1500553	1499396	C		2011-02-03	1996-07-31	Subunit of a kinetochore-microtubule binding complex; complex bridges centromeric heterochromatin and kinetochore MAPs and motors; required for sister chromatid bi-orientation and kinetochore binding of SAC components; complex also includes Spc105p; modified by sumoylation
+S000031481	CDS					YDR532C		4	1500553	1499396	C		2011-02-03	1996-07-31	
+S000002941	ORF	Verified	YDR533C	HSP31	glutathione-independent methylglyoxalase	chromosome 4		4	1502160	1501447	C		2011-02-03	1996-07-31	Methylglyoxalase that converts methylglyoxal to D-lactate; involved in oxidative stress resistance, diauxic shift, and stationary phase survival; has similarity to E. coli Hsp31 and C. albicans Glx3p; member of the DJ-1/ThiJ/PfpI superfamily, which includes human DJ-1 involved in Parkinson's disease and cancer; exists as a dimer and contains a putative metal-binding site; protein abundance increases in response to DNA replication stress
+S000031524	CDS					YDR533C		4	1502160	1501447	C		2011-02-03	1996-07-31	
+S000002942	ORF	Verified	YDR534C	FIT1		chromosome 4		4	1504900	1503314	C		2011-02-03	1996-07-31	Mannoprotein that is incorporated into the cell wall; incorporated via a glycosylphosphatidylinositol (GPI) anchor; involved in the retention of siderophore-iron in the cell wall 
+S000031631	CDS					YDR534C		4	1504900	1503314	C		2011-02-03	1996-07-31	
+S000002943	ORF	Dubious	YDR535C			chromosome 4		4	1507362	1506606	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YDR535C is not an essential gene
+S000032613	CDS					YDR535C		4	1507058	1506606	C		2011-02-03	1996-07-31	
+S000032612	CDS					YDR535C		4	1507362	1507315	C		2011-02-03	1996-07-31	
+S000032614	intron					YDR535C		4	1507314	1507059	C		2011-02-03	1996-07-31	
+S000002944	ORF	Verified	YDR536W	STL1	glucose-inactivated glycerol proton symporter STL1	chromosome 4	L000002130	4	1508005	1509714	W		2011-02-03	1996-07-31	Glycerol proton symporter of the plasma membrane; subject to glucose-induced inactivation, strongly but transiently induced when cells are subjected to osmotic shock
+S000032772	CDS					YDR536W		4	1508005	1509714	W		2011-02-03	1996-07-31	
+S000002946	ORF	Verified	YDR538W	PAD1	phenylacrylic acid decarboxylase PAD1|POF1	chromosome 4	L000001331	4	1510902	1511630	W		2011-02-03	1996-07-31	Phenylacrylic acid decarboxylase; confers resistance to cinnamic acid, decarboxylates aromatic carboxylic acids to the corresponding vinyl derivatives; also has mRNA binding activity; homolog of E. coli UbiX; co-overproduction of Pad1p and Fdc1p greatly increases cinnamic acid decarboxylase activity
+S000033597	CDS					YDR538W		4	1510902	1511630	W		2011-02-03	1996-07-31	
+S000002945	ORF	Dubious	YDR537C			chromosome 4		4	1511461	1510856	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps verified ORF PAD1/YDR538W
+S000032834	CDS					YDR537C		4	1511461	1510856	C		2011-02-03	1996-07-31	
+S000002947	ORF	Verified	YDR539W	FDC1	putative phenylacrylic acid decarboxylase FDC1	chromosome 4		4	1512094	1513605	W		2011-02-03	1996-07-31	Ferulic acid decarboxylase, also active on p-coumaric acid; essential for decarboxylation of aromatic carboxylic acids to corresponding vinyl derivatives; co-overproduction of Pad1p and Fdc1p greatly increases cinnamic acid decarboxylase activity; structure implicates Glu285 as the general base in the nonoxidative decarboxylation reaction catalyzed by Fdc1p; homolog of E. coli UbiD; GFP-fusion protein localizes to cytoplasm
+S000033698	CDS					YDR539W		4	1512094	1513605	W		2011-02-03	1996-07-31	
+S000002948	ORF	Verified	YDR540C	IRC4		chromosome 4		4	1517675	1517136	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant displays increased levels of spontaneous Rad52p foci; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
+S000034746	CDS					YDR540C		4	1517675	1517136	C		2011-02-03	1996-07-31	
+S000006879	long_terminal_repeat		YDRWdelta31			chromosome 4		4	1518484	1518807	W		2011-02-03	2000-05-19	Ty1 LTR
+S000002949	ORF	Verified	YDR541C		carbonyl reductase (NADPH-dependent)	chromosome 4		4	1520698	1519664	C		2011-02-03	1996-07-31|2011-02-03	Aldehyde reductase; substrates include both aromatic and aliphatic aldehydes; uses NADPH as cofactor; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000035672	CDS					YDR541C		4	1520698	1519664	C		2011-02-03	1996-07-31|2011-02-03	
+S000002950	ORF	Verified	YDR542W	PAU10	seripauperin PAU10	chromosome 4		4	1523249	1523611	W		2011-02-03	1996-07-31	Protein of unknown function; SWAT-GFP fusion protein localizes to the endoplasmic reticulum and vacuole, while mCherry fusion localizes to the vacuole; member of the seripauperin multigene family encoded mainly in subtelomeric regions
+S000035788	CDS					YDR542W		4	1523249	1523611	W		2011-02-03	1996-07-31	
+S000028948	telomere		TEL04R			chromosome 4		4	1524625	1531933	W	321	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome IV; composed of an X element core sequence, X element combinatorial repeats, a short stretch of telomeric repeats, and a long Y' element
+S000028949	telomeric_repeat					TEL04R		4	1525371	1525466	W		2011-02-03	2003-09-09	Internal telomeric repeats on the right arm of Chromosome IV
+S000028950	X_element					TEL04R		4	1524625	1525089	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome IV; spans 464 bp and contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YDR543C
+S000028951	X_element_combinatorial_repeat					TEL04R		4	1525090	1525370	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr IV; spans 280 bp and contains repeats of the D, C, B and A types, Tbf1p binding sites, and ORF YDR544C; formerly called SubTelomeric Repeats
+S000028952	Y_prime_element					TEL04R		4	1525467	1531933	W		2011-02-03	2003-09-09	Telomeric long Y' element on the right arm of Chromosome IV; contains an ARS consensus sequence, a region of 36-bp repeats, and ORFs YRF1-1/YDR545W and YDR545C-A
+S000002951	ORF	Dubious	YDR543C			chromosome 4		4	1524933	1524634	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035825	CDS					YDR543C		4	1524933	1524634	C		2011-02-03	1996-07-31	
+S000002952	ORF	Dubious	YDR544C			chromosome 4		4	1525523	1525095	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035945	CDS					YDR544C		4	1525523	1525095	C		2011-02-03	1996-07-31	
+S000002953	ORF	Verified	YDR545W	YRF1-1	Y' element ATP-dependent helicase protein 1 copy 1|YRF1	chromosome 4	L000004879	4	1526321	1531711	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
+S000036865	CDS					YDR545W		4	1526321	1531711	W		2011-02-03	1996-07-31	
+S000028617	ORF	Dubious	YDR545C-A			chromosome 4		4	1531342	1530863	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF YRF1-1/YDR545W
+S000031458	CDS					YDR545C-A		4	1531342	1530863	C		2011-02-03	2003-07-29	
+S000028621	ORF	Dubious	YEL077W-A			chromosome 5		5	630	1112	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031470	CDS					YEL077W-A		5	630	1112	W		2003-07-29	2003-07-29	
+S000006409	ORF	Uncharacterized	YEL077C		Y' element ATP-dependent helicase	chromosome 5		5	4097	264	C		1996-07-31	1996-07-31	Helicase-like protein encoded within the telomeric Y' element
+S000034008	CDS					YEL077C		5	4097	264	C		1996-07-31	1996-07-31	
+S000077377	ARS		ARS502			chromosome 5		5	4097	4185			2004-10-19	2004-10-19	Autonomously Replicating Sequence
+S000002956	ORF	Dubious	YEL075W-A		YEL076W-C	chromosome 5		5	4870	5481	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031130	CDS					YEL075W-A		5	4870	5481	W		1996-07-31	1996-07-31	
+S000002955	ORF	Uncharacterized	YEL076C-A			chromosome 5		5	5114	4185	C		1996-07-31	1996-07-31	Putative protein of unknown function
+S000036122	CDS					YEL076C-A		5	4322	4185	C		1996-07-31	1996-07-31	
+S000036121	CDS					YEL076C-A		5	5114	4602	C		1996-07-31	1996-07-31	
+S000036123	intron					YEL076C-A		5	4601	4323	C		1996-07-31	1996-07-31	
+S000000802	ORF	Uncharacterized	YEL076C			chromosome 5		5	5114	4464	C		1996-07-31	1996-07-31	Putative protein of unknown function
+S000033207	CDS					YEL076C		5	5114	4464	C		1996-07-31	1996-07-31	
+S000000801	ORF	Uncharacterized	YEL075C			chromosome 5		5	5713	5345	C		1996-07-31	1996-07-31	Putative protein of unknown function
+S000033136	CDS					YEL075C		5	5713	5345	C		1996-07-31	1996-07-31	
+S000000800	ORF	Dubious	YEL074W			chromosome 5		5	6126	6464	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; large scale expression analysis showed an increase in mRNA accumulation in strains mutant for exosome components
+S000033091	CDS					YEL074W		5	6126	6464	W		1996-07-31	1996-07-31	
+S000077378	ARS		ARS503			chromosome 5		5	6378	6453			2014-11-18	2004-10-19|2014-11-18	Autonomously Replicating Sequence
+S000028879	telomere		TEL05L			chromosome 5		5	6473	1	C	-52	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome V; annotated components include an X element core sequence and a long Y' element; TEL05L does have telomeric repeats (TEL05L-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
+S000028880	X_element					TEL05L		5	6473	6279	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome V; contains an ARS consensus sequence and spans ORF YEL074W
+S000028881	Y_prime_element					TEL05L		5	6278	1	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome V; contains an ARS consensus sequence, a region of 36-bp repeats, and six ORFs (YEL075C, YEL076C, YEL076C-A, YEL077C, YEL075W-A, YEL077W-A)
+S000000799	ORF	Uncharacterized	YEL073C			chromosome 5		5	7553	7230	C		1996-07-31	1996-07-31	Putative protein of unknown function; located adjacent to ARS503 and the telomere on the left arm of chromosome V; regulated by inositol/choline
+S000032128	CDS					YEL073C		5	7553	7230	C		1996-07-31	1996-07-31	
+S000077379	ARS		ARS504			chromosome 5		5	8786	10019			2004-10-19	2004-10-19|2011-02-03	Autonomously Replicating Sequence
+S000000798	ORF	Verified	YEL072W	RMD6		chromosome 5		5	13720	14415	W		1996-07-31	1996-07-31	Protein required for sporulation
+S000032092	CDS					YEL072W		5	13720	14415	W		1996-07-31	1996-07-31	
+S000000797	ORF	Verified	YEL071W	DLD3	D-lactate dehydrogenase	chromosome 5		5	16355	17845	W		1996-07-31	1996-07-31	2-hydroxyglutarate transhydrogenase, and minor D-lactate dehydrogenase; converts D-2-hydroxyglutarate (D-2HG), an oncometabolite, to alpha-ketoglutarate in the presence of FAD, with concomitant reduction of pyruvate to D-lactate; minor lactate dehydrogenase activity; component of the retrograde regulon that consists of genes whose expression are stimulated by damage to mitochondria and reduced in cells grown with glutamate as the sole nitrogen source; located in the cytoplasm
+S000031974	CDS					YEL071W		5	16355	17845	W		1996-07-31	1996-07-31	
+S000000796	ORF	Verified	YEL070W	DSF1	MAN1|mannitol dehydrogenase DSF1	chromosome 5		5	19589	21097	W		1996-07-31	1996-07-31	Mannitol dehydrogenase; deletion suppresses mutation of mpt5; DSF1 has a paralog, MAN2, that arose from a segmental duplication
+S000031743	CDS					YEL070W		5	19589	21097	W		1996-07-31	1996-07-31	
+S000000795	ORF	Verified	YEL069C	HXT13	HLT1|hexose transporter HXT13	chromosome 5	L000002640	5	23231	21537	C		1996-07-31	1996-07-31	Putative transmembrane polyol transporter; supports growth on and uptake of mannitol and sorbitol with moderate affinity when overexpressed in a strain deleted for hexose family members; minor hexose transport activity when overexpressed in a similar strain; induced by non-fermentable carbon sources; induced in low glucose, repressed in high glucose; HXT13 has a paralog, HXT17, that arose from a segmental duplication
+S000030787	CDS					YEL069C		5	23231	21537	C		1996-07-31	1996-07-31	
+S000000794	ORF	Uncharacterized	YEL068C			chromosome 5		5	25978	25646	C		1996-07-31	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; SWAT-GFP and seamless-GFP fusion proteins localize to the endoplasmic reticulum and mCherry fusion protein localizes to the vacuole
+S000037857	CDS					YEL068C		5	25978	25646	C		1996-07-31	1996-07-31	
+S000000792	ORF	Verified	YEL066W	HPA3	D-amino-acid N-acetyltransferase	chromosome 5	L000004380	5	26667	27206	W		1996-07-31	1996-07-31	D-Amino acid N-acetyltransferase that detoxifies D-amino acids; catalyzes N-acetylation of D-amino acids through ordered bi-bi mechanism in which acetyl-CoA is first substrate bound and CoA is last product liberated; acetylates histones and polyamines, also autoacetylates
+S000037723	CDS					YEL066W		5	26667	27206	W		1996-07-31	1996-07-31	
+S000000793	ORF	Uncharacterized	YEL067C			chromosome 5		5	26776	26189	C		1996-07-31	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000037750	CDS					YEL067C		5	26776	26189	C		1996-07-31	1996-07-31	
+S000000791	ORF	Verified	YEL065W	SIT1	siderophore transporter|ARN3	chromosome 5		5	27657	29543	W		1996-07-31	1996-07-31	Ferrioxamine B transporter; member of the ARN family of transporters that specifically recognize siderophore-iron chelates; transcription is induced during iron deprivation and diauxic shift; potentially phosphorylated by Cdc28p
+S000036964	CDS					YEL065W		5	27657	29543	W		1996-07-31	1996-07-31	
+S000000790	ORF	Verified	YEL064C	AVT2		chromosome 5		5	31239	29797	C		1996-07-31	1996-07-31	Putative transporter; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
+S000036881	CDS					YEL064C		5	31239	29797	C		1996-07-31	1996-07-31	
+S000000789	ORF	Verified	YEL063C	CAN1	arginine permease CAN1	chromosome 5	L000000213	5	33466	31694	C	-50	1996-07-31	1996-07-31	Plasma membrane arginine permease; requires phosphatidyl ethanolamine (PE) for localization, exclusively associated with lipid rafts; mutation confers canavanine resistance; CAN1 has a paralog, ALP1, that arose from the whole genome duplication
+S000036793	CDS					YEL063C		5	33466	31694	C		1996-07-31	1996-07-31	
+S000000788	ORF	Verified	YEL062W	NPR2	nitrogen permease regulating protein NPR2	chromosome 5	L000001274	5	34407	36254	W		2003-09-22	2003-09-22|1996-07-31	Subunit of the Iml1p/SEACIT complex; SEACIT (Iml1p-Npr2p-Npr3p) is a subcomplex of the SEA complex, a coatomer-related complex that associates dynamically with the vacuole; Npr2p may have a structural or regulatory role, supporting Iml1p function as a GAP for the Rag family GTPase Gtr1p, and resulting in inhibition of TORC1 signaling in response to amino acid deprivation; SEACIT is required for non-nitrogen-starvation-induced autophagy; homolog of human tumor suppressor NPRL2
+S000035991	CDS					YEL062W		5	34407	36254	W		2003-09-22	2003-09-22|1996-07-31	
+S000000787	ORF	Verified	YEL061C	CIN8	kinesin motor protein CIN8|SDS15|KSL2	chromosome 5	L000000340	5	39537	36535	C		2003-09-22	2003-09-22|1996-07-31	Kinesin motor protein; involved in mitotic spindle assembly and chromosome segregation
+S000035795	CDS					YEL061C		5	39537	36535	C		2003-09-22	2003-09-22|1996-07-31	
+S000000786	ORF	Verified	YEL060C	PRB1	proteinase B|CVT1	chromosome 5	L000001480	5	41953	40046	C	-48	1996-07-31	1996-07-31	Vacuolar proteinase B (yscB) with H3 N-terminal endopeptidase activity; serine protease of the subtilisin family; involved in protein degradation in the vacuole and required for full protein degradation during sporulation; activity inhibited by Pbi2p; protein abundance increases in response to DNA replication stress; PRB1 has a paralog, YSP3, that arose from the whole genome duplication
+S000035710	CDS					YEL060C		5	41953	40046	C		1996-07-31	1996-07-31	
+S000002954	ORF	Verified	YEL059C-A	SOM1		chromosome 5	L000003993	5	42624	42400	C		1996-07-31	1996-07-31	Subunit of the mitochondrial inner membrane peptidase (IMP); IMP is required for maturation of mitochondrial proteins of the intermembrane space; Som1p facilitates cleavage of a subset of substrates; contains twin cysteine-x9-cysteine motifs
+S000035802	CDS					YEL059C-A		5	42624	42400	C		1996-07-31	1996-07-31	
+S000000785	ORF	Dubious	YEL059W	HHY1	ENV6	chromosome 5		5	42652	42960	W		1996-07-31	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; mutant is hypersensitive to hygromycin B indicative of defects in vacuolar trafficking
+S000034663	CDS					YEL059W		5	42652	42960	W		1996-07-31	1996-07-31	
+S000000784	ORF	Verified	YEL058W	PCM1	phosphoacetylglucosamine mutase PCM1|AGM1	chromosome 5	L000001351	5	43252	44925	W		1996-07-31	1996-07-31	Essential N-acetylglucosamine-phosphate mutase; converts GlcNAc-6-P to GlcNAc-1-P, which is a precursor for the biosynthesis of chitin and for the formation of N-glycosylated mannoproteins and glycosylphosphatidylinositol anchors
+S000033785	CDS					YEL058W		5	43252	44925	W		1996-07-31	1996-07-31	
+S000000783	ORF	Verified	YEL057C	SDD1		chromosome 5		5	45721	45020	C		1996-07-31	1996-07-31	Protein of unknown function; overproduction suppresses lethality due to expression of the dominant PET9 allele AAC2-A128P; may have a role in telomere maintenance; target of UME6 regulation
+S000033614	CDS					YEL057C		5	45721	45020	C		1996-07-31	1996-07-31	
+S000000782	ORF	Verified	YEL056W	HAT2		chromosome 5	L000003400	5	47168	48373	W		1996-07-31	1996-07-31	Subunit of the Hat1p-Hat2p histone acetyltransferase complex; required for high affinity binding of the complex to free histone H4, thereby enhancing Hat1p activity; similar to human RbAp46 and 48; has a role in telomeric silencing
+S000033568	CDS					YEL056W		5	47168	48373	W		1996-07-31	1996-07-31	
+S000000781	ORF	Verified	YEL055C	POL5	DNA-directed DNA polymerase	chromosome 5	L000004119	5	51539	48471	C		1996-07-31	1996-07-31	DNA Polymerase phi; has sequence similarity to the human MybBP1A and weak sequence similarity to B-type DNA polymerases, not required for chromosomal DNA replication; required for the synthesis of rRNA
+S000032784	CDS					YEL055C		5	51539	48471	C		1996-07-31	1996-07-31	
+S000081374	snoRNA_gene		snR80	SNR80		chromosome 5		5	52320	52150	C		2005-11-29	2005-11-29	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U776 and small subunit (SSU) rRNA at position U759
+S000113618	noncoding_exon					snR80		5	52320	52150	C		2005-11-29	2005-11-29	
+S000028744	ORF	Dubious	YEL053W-A			chromosome 5		5	52908	53255	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene RPL12A/YEL054C
+S000033414	CDS					YEL053W-A		5	52908	53255	W		2003-07-29	2003-07-29	
+S000000780	ORF	Verified	YEL054C	RPL12A	uL11|ribosomal 60S subunit protein L12A|L11|YL23|L15A|L12A	chromosome 5	L000001712	5	53218	52721	C		1996-07-31	1996-07-31	Ribosomal 60S subunit protein L12A; rpl12a rpl12b double mutant exhibits slow growth and slow translation; homologous to mammalian ribosomal protein L12 and bacterial L11; RPL12A has a paralog, RPL12B, that arose from the whole genome duplication
+S000032694	CDS					YEL054C		5	53218	52721	C		1996-07-31	1996-07-31	
+S000000779	ORF	Verified	YEL053C	MAK10	NAA35	chromosome 5	L000000983	5	56102	53901	C	-43	1996-07-31	1996-07-31	Non-catalytic subunit of the NatC N-terminal acetyltransferase; required for replication of dsRNA virus; expression is glucose-repressible; human NatC ortholog, Naa35, requires co-expression of the human catalytic subunit, Naa30, to functionally complement the null allele
+S000032563	CDS					YEL053C		5	56102	53901	C		1996-07-31	1996-07-31	
+S000000778	ORF	Verified	YEL052W	AFG1		chromosome 5	L000000055	5	56571	58100	W		1996-07-31	1996-07-31	Protein that may act as a chaperone for cytochrome c oxidase subunits; conserved protein; may act as a chaperone in the degradation of misfolded or unassembled cytochrome c oxidase subunits; localized to matrix face of the mitochondrial inner membrane; member of the AAA family but lacks a protease domain
+S000031642	CDS					YEL052W		5	56571	58100	W		1996-07-31	1996-07-31	
+S000000777	ORF	Verified	YEL051W	VMA8	H(+)-transporting V1 sector ATPase subunit D	chromosome 5	L000002463	5	58378	59148	W		1996-07-31	1996-07-31	Subunit D of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; plays a role in the coupling of proton transport and ATP hydrolysis; the V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase) has eight subunits
+S000031545	CDS					YEL051W		5	58378	59148	W		1996-07-31	1996-07-31	
+S000077380	ARS		ARS507		ARSV-59	chromosome 5		5	59338	59477			2014-11-18	2014-11-18|2004-10-19|2006-09-07	Autonomously Replicating Sequence
+S000178082	ARS_consensus_sequence					ARS507		5	59470	59454	C		2014-11-18	2014-11-18	
+S000028545	ORF	Dubious	YEL050W-A			chromosome 5		5	59549	59740	W		2003-07-29	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by fungal homology and RT-PCR
+S000031195	CDS					YEL050W-A		5	59549	59740	W		2003-07-29	2003-07-29	
+S000000776	ORF	Verified	YEL050C	RML2	mitochondrial 54S ribosomal protein RML2	chromosome 5	L000004131	5	60851	59670	C		1996-07-31	1996-07-31	Mitochondrial ribosomal protein of the large subunit (L2); has similarity to E. coli L2 ribosomal protein; mutant allele (fat21) causes inability to utilize oleate, and induce oleic acid oxidation; may interfere with activity of the Adr1p transcription factor
+S000031449	CDS					YEL050C		5	60851	59670	C		1996-07-31	1996-07-31	
+S000006458	snoRNA_gene		snR67	SNR67		chromosome 5	L000004536	5	61352	61433	W		2000-05-19	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at positions G2619 and U2724
+S000030853	noncoding_exon					snR67		5	61352	61433	W		2000-05-19	2000-05-19	
+S000006444	snoRNA_gene		snR53	SNR53		chromosome 5	L000004522	5	61699	61789	W		2000-05-19	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of small subunit (SSU) rRNA at position A796
+S000030737	noncoding_exon					snR53		5	61699	61789	W		2000-05-19	2000-05-19	
+S000006578	tRNA_gene		tG(GCC)E			chromosome 5	L000003808	5	61960	61890	C		2000-05-19	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000037897	noncoding_exon					tG(GCC)E		5	61960	61890	C		2000-05-19	2000-05-19	
+S000006889	long_terminal_repeat		YELWdelta1			chromosome 5		5	62081	62756	W		2000-05-19	2000-05-19	Ty1 LTR
+S000006890	long_terminal_repeat		YELWdelta2			chromosome 5		5	62142	62474	W		2000-05-19	2000-05-19	Ty1 LTR
+S000000775	ORF	Verified	YEL049W	PAU2	seripauperin PAU2	chromosome 5	L000002738	5	63728	64090	W		1996-07-31	1996-07-31	Member of the seripauperin multigene family; encoded mainly in subtelomeric region; active during alcoholic fermentation; regulated by anaerobiosis; negatively regulated by oxygen; repressed by heme 
+S000030708	CDS					YEL049W		5	63728	64090	W		1996-07-31	1996-07-31	
+S000000774	ORF	Verified	YEL048C	TCA17		chromosome 5		5	65167	64709	C		1996-07-31	1996-07-31	Component of transport protein particle (TRAPP) complex II; TRAPPII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating intra-Golgi and endosome-Golgi traffic; promotes association of TRAPPII-specific subunits with the TRAPP core complex; sedlin related; human Sedlin mutations cause SEDT, a skeletal disorder
+S000030547	CDS					YEL048C		5	65167	64709	C		1996-07-31	1996-07-31	
+S000000773	ORF	Verified	YEL047C	FRD1	fumarate reductase|FRDS1	chromosome 5		5	66797	65385	C		1996-07-31	1996-07-31	Soluble fumarate reductase; required with isoenzyme Osm1p for anaerobic growth; may interact with ribosomes, based on co-purification experiments; authentic, non-tagged protein is detected in purified mitochondria in high-throughput studies; similar to Arxula adeninovorans fumarate reductase; protein abundance increases in response to DNA replication stress; FRD1 has a paralog, OSM1, that arose from the whole genome duplication
+S000030396	CDS					YEL047C		5	66797	65385	C		1996-07-31	1996-07-31	
+S000000772	ORF	Verified	YEL046C	GLY1	threonine aldolase GLY1	chromosome 5	L000000718	5	68792	67629	C		1996-07-31	1996-07-31	Threonine aldolase; catalyzes the cleavage of L-allo-threonine and L-threonine to glycine; involved in glycine biosynthesis
+S000037630	CDS					YEL046C		5	68792	67629	C		1996-07-31	1996-07-31	
+S000000771	ORF	Dubious	YEL045C			chromosome 5		5	69265	68840	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion gives MMS sensitivity, growth defect under alkaline conditions, less than optimal growth upon citric acid stress
+S000037503	CDS					YEL045C		5	69265	68840	C		1996-07-31	1996-07-31	
+S000000770	ORF	Verified	YEL044W	IES6		chromosome 5		5	69757	70257	W		1996-07-31	1996-07-31	Component of the INO80 chromatin remodeling complex; critical for INO80 function; involved in regulation of chromosome segregation and maintenance of normal centromeric chromatin structure; human ortholog INO80C is a member of the human INO80 complex; implicated in DNA repair based on genetic interactions with RAD52 epistasis genes
+S000037449	CDS					YEL044W		5	69757	70257	W		1996-07-31	1996-07-31	
+S000000769	ORF	Verified	YEL043W			chromosome 5		5	70478	73348	W		1996-07-31	1996-07-31	Predicted cytoskeleton protein involved in intracellular signaling; based on quantitative analysis of protein-protein interaction maps; may interact with ribosomes, based on co-purification studies; contains fibronectin type III domain fold
+S000036714	CDS					YEL043W		5	70478	73348	W		1996-07-31	1996-07-31	
+S000000768	ORF	Verified	YEL042W	GDA1	guanosine diphosphatase	chromosome 5	L000000695	5	73771	75327	W		1996-07-31	1996-07-31	Guanosine diphosphatase located in the Golgi; involved in the transport of GDP-mannose into the Golgi lumen, converting GDP to GMP after mannose is transferred to substrates; null mutants are defective in sporulation and pre-meiotic S phase entry; orthologous to human ENTPD6, a meiosis-associated non-obstructive azoospermia (NOA) related gene identified in GWAS studies
+S000036632	CDS					YEL042W		5	73771	75327	W		1996-07-31	1996-07-31	
+S000000767	ORF	Verified	YEL041W	YEF1	NADH/NAD(+) kinase	chromosome 5		5	75944	77431	W		1996-07-31	1996-07-31	ATP-NADH kinase; phosphorylates both NAD and NADH; homooctameric structure consisting of 60-kDa subunits; similar to Pos5p; overexpression complements certain pos5 phenotypes; YEF1 has a paralog, UTR1, that arose from the whole genome duplication
+S000036511	CDS					YEL041W		5	75944	77431	W		1996-07-31	1996-07-31	
+S000000766	ORF	Verified	YEL040W	UTR2	CRH2	chromosome 5	L000002448	5	78053	79456	W		1996-07-31	1996-07-31	Chitin transglycosylase; functions in the transfer of chitin to beta(1-6) and beta(1-3) glucans in the cell wall; similar to and functionally redundant with Crh1; glycosylphosphatidylinositol (GPI)-anchored protein localized to bud neck
+S000036453	CDS					YEL040W		5	78053	79456	W		1996-07-31	1996-07-31	
+S000000765	ORF	Verified	YEL039C	CYC7	cytochrome c isoform 2	chromosome 5	L000000451	5	79977	79636	C	-27	1996-07-31	1996-07-31	Cytochrome c isoform 2, expressed under hypoxic conditions; also known as iso-2-cytochrome c; electron carrier of the mitochondrial intermembrane space that transfers electrons from ubiquinone-cytochrome c oxidoreductase to cytochrome c oxidase during cellular respiration; protein abundance increases in response to DNA replication stress; CYC7 has a paralog, CYC1, that arose from the whole genome duplication
+S000035665	CDS					YEL039C		5	79977	79636	C		1996-07-31	1996-07-31	
+S000000764	ORF	Verified	YEL038W	UTR4	putative acireductone synthase UTR4	chromosome 5	L000002449	5	80462	81145	W		2006-05-09	1996-07-31|2006-05-09	Protein with sequence similarity to acireductone synthases; involved in methionine salvage; found in both the cytoplasm and nucleus
+S000035624	CDS					YEL038W		5	80462	81145	W		2006-05-09	1996-07-31|2006-05-09	
+S000000763	ORF	Verified	YEL037C	RAD23		chromosome 5	L000001568	5	82603	81407	C	-26	1996-07-31	1996-07-31	Protein with ubiquitin-like N terminus; subunit of Nuclear Excision Repair Factor 2 (NEF2) with Rad4p that binds damaged DNA; enhances protein deglycosylation activity of Png1p; also involved, with Rad4p, in ubiquitylated protein turnover; Rad4p-Rad23p heterodimer binds to promoters of DNA damage response genes to repress their transcription in the absence of DNA damage
+S000035488	CDS					YEL037C		5	82603	81407	C		1996-07-31	1996-07-31	
+S000000762	ORF	Verified	YEL036C	ANP1	MNN8|GEM3	chromosome 5	L000000089	5	84552	83050	C	-26	1996-07-31	1996-07-31	Subunit of the alpha-1,6 mannosyltransferase complex; type II membrane protein; has a role in retention of glycosyltransferases in the Golgi; involved in osmotic sensitivity and resistance to aminonitrophenyl propanediol
+S000034468	CDS					YEL036C		5	84552	83050	C		1996-07-31	1996-07-31	
+S000000761	ORF	Uncharacterized	YEL035C	UTR5		chromosome 5	L000002450	5	85545	85045	C		1996-07-31	1996-07-31	Protein of unknown function; transcription may be regulated by Gcr1p; essential for growth under standard (aerobic) conditions but not under anaerobic conditions
+S000034388	CDS					YEL035C		5	85545	85045	C		1996-07-31	1996-07-31	
+S000000760	ORF	Verified	YEL034W	HYP2	translation elongation factor eIF-5A|eIF-5A|eIF5A|TIF51A	chromosome 5	L000000847|L000002307	5	85676	86149	W		1996-07-31	1996-07-31	Translation elongation factor eIF-5A; required for translation of proteins containing polyproline stretches, including Bni1p, and this leads to a requirement for mating projection formation; structural homolog of bacterial EF-P; undergoes an essential hypusination modification; HYP2 has a paralog, ANB1, that arose from the whole genome duplication; human EIF5A complements the inviability of the yeast hyp2 anb1 double null mutant
+S000034356	CDS					YEL034W		5	85676	86149	W		1996-07-31	1996-07-31	
+S000000759	ORF	Uncharacterized	YEL033W	MTC7		chromosome 5		5	86179	86598	W		1996-07-31	1996-07-31	Protein of unknown function; predicted metabolic role based on network analysis derived from ChIP experiments, a large-scale deletion study and localization of transcription factor binding sites; null mutant is sensitive to temperature oscillation in a cdc13-1 mutant
+S000033441	CDS					YEL033W		5	86179	86598	W		1996-07-31	1996-07-31	
+S000028743	ORF	Dubious	YEL034C-A			chromosome 5		5	86215	85613	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps HYP2/YEL034W, a verified gene that encodes eiF-5A
+S000033413	CDS					YEL034C-A		5	86215	85613	C		2003-07-29	2003-07-29	
+S000006724	tRNA_gene		tS(AGA)E			chromosome 5	L000003789	5	86604	86685	W		2000-05-19	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000032362	noncoding_exon					tS(AGA)E		5	86604	86685	W		2000-05-19	2000-05-19	
+S000000758	ORF	Verified	YEL032W	MCM3	MCM DNA helicase complex subunit MCM3	chromosome 5	L000001039	5	86937	89852	W	-24	1996-07-31	1996-07-31	Protein involved in DNA replication; component of the Mcm2-7 hexameric helicase complex that binds chromatin as a part of the pre-replicative complex
+S000033351	CDS					YEL032W		5	86937	89852	W		1996-07-31	1996-07-31	
+S000028620	ORF	Dubious	YEL032C-A			chromosome 5		5	87201	87040	C		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031469	CDS					YEL032C-A		5	87201	87040	C		2003-07-29	2003-07-29	
+S000000757	ORF	Verified	YEL031W	SPF1	ion-transporting P-type ATPase SPF1|PER9|PIO1|COD1	chromosome 5	L000003454	5	90258	93905	W		1996-07-31	1996-07-31	P-type ATPase, ion transporter of the ER membrane; required to maintain normal lipid composition of intracellular compartments and proper targeting of mitochondrial outer membrane tail-anchored proteins; involved in ER function and Ca2+ homeostasis; required for regulating Hmg2p degradation; confers sensitivity to a killer toxin (SMKT) produced by Pichia farinosa KK1
+S000033284	CDS					YEL031W		5	90258	93905	W		1996-07-31	1996-07-31	
+S000077381	ARS		ARS508		ARSV-94	chromosome 5		5	93978	94218			2006-09-07	2004-10-19|2006-09-07	Autonomously Replicating Sequence
+S000178083	ARS_consensus_sequence					ARS508		5	94055	94071	W		2014-11-18	2014-11-18	
+S000000756	ORF	Verified	YEL030W	ECM10	Hsp70 family ATPase ECM10|SSC3	chromosome 5	L000003885	5	94644	96578	W		1996-07-31	1996-07-31	Heat shock protein of the Hsp70 family; localized in mitochondrial nucleoids, plays a role in protein translocation, interacts with Mge1p in an ATP-dependent manner; overexpression induces extensive mitochondrial DNA aggregations; ECM10 has a paralog, SSC1, that arose from the whole genome duplication
+S000033225	CDS					YEL030W		5	94644	96578	W		1996-07-31	1996-07-31	
+S000028619	ORF	Dubious	YEL030C-A			chromosome 5		5	94897	94583	C		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031462	CDS					YEL030C-A		5	94897	94583	C		2003-07-29	2003-07-29	
+S000000755	ORF	Verified	YEL029C	BUD16	putative pyridoxal kinase BUD16	chromosome 5		5	97796	96858	C		1996-07-31	1996-07-31	Putative pyridoxal kinase; a key enzyme involved in pyridoxal 5'-phosphate synthesis, the active form of vitamin B6; required for genome integrity; involved in bud-site selection; similarity to yeast BUD17 and human pyridoxal kinase (PDXK)
+S000032366	CDS					YEL029C		5	97796	96858	C		1996-07-31	1996-07-31	
+S000000754	ORF	Uncharacterized	YEL028W			chromosome 5		5	98668	99129	W		1996-07-31	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YEL028C is not an essential gene
+S000031432	CDS					YEL028W		5	98668	99129	W		1996-07-31	1996-07-31	
+S000006886	long_terminal_repeat		YELCdelta3			chromosome 5		5	99664	99490	C		2000-05-19	2000-05-19	Ty1 LTR
+S000006660	tRNA_gene		tM(CAU)E	IMT4		chromosome 5	L000003790	5	100133	100204	W		2000-05-19	2000-05-19	Methionine initiator tRNA (tRNA-Met); predicted by tRNAscan-SE analysis; one of four initiator methionine tRNAs in yeast that are functional for translation
+S000034533	noncoding_exon					tM(CAU)E		5	100133	100204	W		2000-05-19	2000-05-19	
+S000000753	ORF	Verified	YEL027W	VMA3	H(+)-transporting V0 sector ATPase subunit c|CUP5|GEF2|CLS7	chromosome 5	L000000441	5	100769	101251	W	-18	1996-07-31	1996-07-31	Proteolipid subunit c of the V0 domain of vacuolar H(+)-ATPase; dicyclohexylcarbodiimide binding subunit; required for vacuolar acidification and important for copper and iron metal ion homeostasis
+S000031319	CDS					YEL027W		5	100769	101251	W		1996-07-31	1996-07-31	
+S000000752	ORF	Verified	YEL026W	SNU13	RNA binding protein SNU13	chromosome 5		5	101943	102323	W		1996-07-31	1996-07-31	RNA binding protein; part of U3 snoRNP involved in rRNA processing, part of U4/U6-U5 tri-snRNP involved in mRNA splicing, similar to human 15.5K protein
+S000031209	CDS					YEL026W		5	101943	102323	W		1996-07-31	1996-07-31	
+S000000751	ORF	Uncharacterized	YEL025C		SRI1	chromosome 5		5	106147	102581	C		1996-07-31	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
+S000030133	CDS					YEL025C		5	106147	102581	C		1996-07-31	1996-07-31	
+S000000750	ORF	Verified	YEL024W	RIP1	ubiquinol--cytochrome-c reductase catalytic subunit RIP1	chromosome 5	L000001643	5	107260	107907	W		1996-07-31	1996-07-31	Ubiquinol-cytochrome-c reductase; a Rieske iron-sulfur protein of the mitochondrial cytochrome bc1 complex; transfers electrons from ubiquinol to cytochrome c1 during respiration; during import, Rip1p is first imported into the mitochondrial matrix where it is processed, acquires its Fe-S cluster, and is folded, then is translocated into the inner membrane by the action of a homo-oligomer of Bcs1p, and finally is delivered by Bcs1p to Complex III for assembly
+S000030065	CDS					YEL024W		5	107260	107907	W		1996-07-31	1996-07-31	
+S000000749	ORF	Uncharacterized	YEL023C			chromosome 5		5	110552	108504	C		1996-07-31	1996-07-31	Putative protein of unknown function; expression is increased greatly during sporulation; YEL023C is not an essential gene
+S000029902	CDS					YEL023C		5	110552	108504	C		1996-07-31	1996-07-31	
+S000000748	ORF	Verified	YEL022W	GEA2	Arf family guanine nucleotide exchange factor GEA2	chromosome 5	L000004717	5	111421	115800	W		1996-07-31	1996-07-31	Guanine nucleotide exchange factor for ADP ribosylation factors (ARFs); involved in vesicular transport between the Golgi and ER, Golgi organization, and actin cytoskeleton organization; GEA2 has a paralog, GEA1, that arose from the whole genome duplication
+S000037316	CDS					YEL022W		5	111421	115800	W		1996-07-31	1996-07-31	
+S000000747	ORF	Verified	YEL021W	URA3	orotidine-5'-phosphate decarboxylase	chromosome 5	L000002432	5	116167	116970	W	-7	1996-07-31	1996-07-31	Orotidine-5'-phosphate (OMP) decarboxylase; catalyzes the sixth enzymatic step in the de novo biosynthesis of pyrimidines, converting OMP into uridine monophosphate (UMP); converts 5-FOA into 5-fluorouracil, a toxic compound
+S000037201	CDS					YEL021W		5	116167	116970	W		1996-07-31	1996-07-31	
+S000007256	ORF	Verified	YEL020W-A	TIM9	protein transporter TIM9	chromosome 5	L000004718	5	117211	117474	W		1999-07-17	1999-07-17	Essential protein of the mitochondrial intermembrane space; forms a complex with Tim10p (TIM10 complex) that delivers hydrophobic proteins to the TIM22 complex for insertion into the inner membrane
+S000034788	CDS					YEL020W-A		5	117211	117474	W		1999-07-17	1999-07-17	
+S000028544	ORF	Dubious	YEL020C-B			chromosome 5		5	117380	117183	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene YEL020W-A; identified by fungal homology and RT-PCR
+S000031194	CDS					YEL020C-B		5	117380	117183	C		2003-07-29	2003-07-29	
+S000006490	ncRNA_gene		RPR1	RPR1		chromosome 5	L000001748	5	118035	117667	C	-6	2000-05-19	2000-05-19	RNA component of nuclear RNase P; nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; may be responsible for recognition of substrate tRNAs
+S000032263	noncoding_exon					RPR1		5	118035	117667	C		2000-05-19	2000-05-19	
+S000006888	long_terminal_repeat		YELCtau1			chromosome 5		5	118551	118230	C		2000-05-19	2000-05-19	Ty4 LTR
+S000000746	ORF	Verified	YEL020C	PXP1	putative indolepyruvate decarboxylase family protein	chromosome 5		5	120299	118617	C		1996-07-31	1996-07-31	Peroxisomal matrix protein; well-conserved in fungi; contains tripartite homology domain of thiamine pyrophosphate (TPP) enzymes; targeted to peroxisomes by Pex5p; contains low sequence identity with Pdc1p; mRNA identified as translated by ribosome profiling data
+S000037043	CDS					YEL020C		5	120299	118617	C		1996-07-31	1996-07-31	
+S000000745	ORF	Verified	YEL019C	MMS21	SUMO ligase MMS21|PSO10|NSE2	chromosome 5	L000001125	5	121301	120498	C		1996-07-31	1996-07-31	Highly conserved SUMO E3 ligase subunit of SMC5-SMC6 complex; required for anchoring dsDNA breaks to the nuclear periphery; SMC5-SMC6 plays a key role in removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; required for efficient sister chromatid cohesion; mutants are sensitive to MMS, show increased spontaneous mutation and mitotic recombination; SUMOylates and inhibits Snf1p function; supports nucleolar function
+S000035285	CDS					YEL019C		5	121301	120498	C		1996-07-31	1996-07-31	
+S000000744	ORF	Verified	YEL018W	EAF5		chromosome 5		5	121471	122310	W		1996-07-31	1996-07-31	Non-essential subunit of the NuA4 acetyltransferase complex; Esa1p-associated factor; relocalizes to the cytosol in response to hypoxia
+S000035234	CDS					YEL018W		5	121471	122310	W		1996-07-31	1996-07-31	
+S000028742	ORF	Dubious	YEL018C-A			chromosome 5		5	121988	121455	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF EAF5/YEL018W
+S000033412	CDS					YEL018C-A		5	121988	121455	C		2003-07-29	2003-07-29	
+S000002103	ORF	Verified	YEL017C-A	PMP2	proteolipid ATPase	chromosome 5	L000001454	5	122929	122798	C		1996-07-31	1996-07-31	Proteolipid associated with plasma membrane H(+)-ATPase (Pma1p); regulates plasma membrane H(+)-ATPase activity; protein abundance increases in response to DNA replication stress; PMP2 has a paralog, PMP1, that arose from the whole genome duplication
+S000035297	CDS					YEL017C-A		5	122929	122798	C		1996-07-31	1996-07-31	
+S000000743	ORF	Verified	YEL017W	GTT3		chromosome 5		5	123657	124670	W		1996-07-31	1996-07-31	Protein of unknown function may be involved in glutathione metabolism; function suggested by computational analysis of large-scale protein-protein interaction data; N- and C-terminal fusion proteins localize to the cell periphery
+S000035057	CDS					YEL017W		5	123657	124670	W		1996-07-31	1996-07-31	
+S000000742	ORF	Verified	YEL016C	NPP2	nucleotide diphosphatase/phosphodiesterase NPP2	chromosome 5		5	126218	124737	C		1996-07-31	1996-07-31	Nucleotide pyrophosphatase/phosphodiesterase; mediates extracellular nucleotide phosphate hydrolysis along with Npp1p and Pho5p; activity and expression enhanced during conditions of phosphate starvation; involved in spore wall assembly; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; NPP2 has a paralog, NPP1, that arose from the whole genome duplication; npp1 npp2 double mutant exhibits reduced dityrosine fluorescence relative to single mutants
+S000034054	CDS					YEL016C		5	126218	124737	C		1996-07-31	1996-07-31	
+S000000741	ORF	Verified	YEL015W	EDC3	LSM16|DCP3	chromosome 5		5	126629	128284	W		1996-07-31	1996-07-31	Non-essential conserved protein with a role in mRNA decapping; specifically affects the function of the decapping enzyme Dcp1p; mediates decay of the RPS28B mRNA via binding to both Rps28Bp (or Rps28Ap) and the RPS28B mRNA; mediates decay of the YRA1 mRNA by a different, translation-independent mechanism; localizes to cytoplasmic mRNA processing bodies; forms cytoplasmic foci upon DNA replication stress
+S000034021	CDS					YEL015W		5	126629	128284	W		1996-07-31	1996-07-31	
+S000000740	ORF	Dubious	YEL014C			chromosome 5		5	128608	128303	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033749	CDS					YEL014C		5	128608	128303	C		1996-07-31	1996-07-31	
+S000000739	ORF	Verified	YEL013W	VAC8	protein anchor VAC8|YEB3	chromosome 5	L000004028	5	128825	130561	W		1996-07-31	1996-07-31	Phosphorylated and palmitoylated vacuolar membrane protein; interacts with Atg13p, required for the cytoplasm-to-vacuole targeting (Cvt) pathway; interacts with Nvj1p to form nucleus-vacuole junctions
+S000033107	CDS					YEL013W		5	128825	130561	W		1996-07-31	1996-07-31	
+S000006697	tRNA_gene		tQ(UUG)E2			chromosome 5	L000003807	5	131153	131082	C		2000-05-19	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034949	noncoding_exon					tQ(UUG)E2		5	131153	131082	C		2000-05-19	2000-05-19	
+S000000738	ORF	Verified	YEL012W	UBC8	E2 ubiquitin-conjugating protein UBC8|GID3	chromosome 5	L000002410	5	131772	132551	W		2000-12-01	2000-12-01|1996-07-31	Ubiquitin-conjugating enzyme that regulates gluconeogenesis; negatively regulates gluconeogenesis by mediating the glucose-induced ubiquitination of fructose-1,6-bisphosphatase (FBPase); cytoplasmic enzyme that catalyzes the ubiquitination of histones in vitro
+S000033012	CDS					YEL012W		5	131772	131776	W		2000-12-01	2000-12-01	
+S000033013	CDS					YEL012W		5	131900	132551	W		2000-12-01	2000-12-01|1996-07-31	
+S000033014	intron					YEL012W		5	131777	131899	W		2000-12-01	2000-12-01	
+S000000737	ORF	Verified	YEL011W	GLC3	1,4-alpha-glucan branching enzyme|GHA1	chromosome 5	L000000705	5	133120	135234	W	-2	1996-07-31	1996-07-31	Glycogen branching enzyme, involved in glycogen accumulation; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress; glycogen accumulation defect of the null mutant is functionally complemented by human GBE1, which is associated with glycogen storage disease
+S000032907	CDS					YEL011W		5	133120	135234	W		1996-07-31	1996-07-31	
+S000006618	tRNA_gene		tK(CUU)E1			chromosome 5	L000003806	5	135497	135425	C		2000-05-19	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000037790	noncoding_exon					tK(CUU)E1		5	135497	135425	C		2000-05-19	2000-05-19	
+S000006887	long_terminal_repeat		YELCdelta4			chromosome 5		5	135939	135612	C		2000-05-19	2000-05-19	Ty1 LTR
+S000000736	ORF	Dubious	YEL010W			chromosome 5		5	136279	136629	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032835	CDS					YEL010W		5	136279	136629	W		1996-07-31	1996-07-31	
+S000028741	ORF	Dubious	YEL009C-A			chromosome 5		5	136778	136371	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YEL010W
+S000033411	CDS					YEL009C-A		5	136778	136371	C		2003-07-29	2003-07-29	
+S000006891	long_terminal_repeat		YELWdelta5			chromosome 5		5	137324	137639	W		2000-05-19	2000-05-19	Ty1 LTR
+S000006892	long_terminal_repeat		YELWdelta6			chromosome 5		5	138221	138553	W		2000-05-19	2000-05-19	Ty1 LTR
+S000006710	tRNA_gene		tR(UCU)E			chromosome 5	L000003791	5	138666	138737	W		2000-05-19	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000037841	noncoding_exon					tR(UCU)E		5	138666	138737	W		2000-05-19	2000-05-19	
+S000000735	ORF	Verified	YEL009C	GCN4	amino acid starvation-responsive transcription factor GCN4|AAS101|ARG9|AAS3	chromosome 5	L000000683	5	139763	138918	C	-3	1996-07-31	1996-07-31	bZIP transcriptional activator of amino acid biosynthetic genes;  activator responds to amino acid starvation; expression is tightly regulated at both the transcriptional and translational levels
+S000032641	CDS					YEL009C		5	139763	138918	C		1996-07-31	1996-07-31	
+S000000734	ORF	Uncharacterized	YEL008W			chromosome 5		5	140512	140892	W		1996-07-31	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YEL008W is not an essential gene; predicted to be involved in metabolism
+S000032595	CDS					YEL008W		5	140512	140892	W		1996-07-31	1996-07-31	
+S000028618	ORF	Dubious	YEL008C-A			chromosome 5		5	140818	140726	C		2003-07-29	2003-07-29	Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031461	CDS					YEL008C-A		5	140818	140726	C		2003-07-29	2003-07-29	
+S000000733	ORF	Verified	YEL007W	MIT1	TOS9	chromosome 5		5	141892	143892	W		2011-02-03	1996-07-31	Transcriptional regulator of pseudohyphal growth; protein with sequence similarity to S. pombe gti1+ (gluconate transport inducer 1) and C. albicans Wor1
+S000031610	CDS					YEL007W		5	141892	143892	W		2011-02-03	1996-07-31	
+S000000732	ORF	Verified	YEL006W	YEA6	NAD+ transporter|NDT2	chromosome 5		5	144327	145334	W		2011-02-03	1996-07-31	Putative mitochondrial NAD+ transporter; member of the mitochondrial carrier subfamily (see also YIA6); has putative human ortholog; YEA6 has a paralog, YIA6, that arose from the whole genome duplication
+S000031480	CDS					YEL006W		5	144327	145334	W		2011-02-03	1996-07-31	
+S000077382	ARS		ARS510		ARSV-146	chromosome 5		5	145678	145840			2014-11-18	2014-11-18|2004-10-19|2006-09-07	Autonomously Replicating Sequence
+S000000731	ORF	Verified	YEL005C	VAB2	VAB31	chromosome 5		5	146755	145907	C		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; interacts with Vps21p-GFP; has potential role in vacuolar function, as suggested by its ability to bind Vac8p; likely member of; Vab2p-GFP-fusion localizes to cytoplasm in punctate pattern
+S000030477	CDS					YEL005C		5	146755	145907	C		2011-02-03	1996-07-31	
+S000000730	ORF	Verified	YEL004W	YEA4		chromosome 5	L000004419	5	146951	147979	W		2011-02-03	1996-07-31	Uridine diphosphate-N-acetylglucosamine (UDP-GlcNAc) transporter; required for cell wall chitin synthesis; localized to the ER
+S000030440	CDS					YEL004W		5	146951	147979	W		2011-02-03	1996-07-31	
+S000000729	ORF	Verified	YEL003W	GIM4	tubulin-binding prefolding complex subunit GIM4|PFD2	chromosome 5	L000004368	5	148176	148599	W		2011-02-03	1996-07-31|2007-07-09	Subunit of the heterohexameric cochaperone prefoldin complex; complex binds specifically to cytosolic chaperonin and transfers target proteins to it
+S000030310	CDS					YEL003W		5	148176	148194	W		2011-02-03	1996-07-31|2007-07-09	
+S000123269	CDS					YEL003W		5	148283	148599	W		2011-02-03	2007-07-09	
+S000123268	intron					YEL003W		5	148195	148282	W		2011-02-03	2007-07-09	
+S000000728	ORF	Verified	YEL002C	WBP1	dolichyl-diphosphooligosaccharide-protein glycotransferase	chromosome 5	L000002483	5	150014	148722	C		2011-02-03	1996-07-31	Beta subunit of the oligosaccharyl transferase glycoprotein complex; required for N-linked glycosylation of proteins in the endoplasmic reticulum; human homolog DDOST can complement yeast growth defect during down-regulation of yeast gene
+S000037446	CDS					YEL002C		5	150014	148722	C		2011-02-03	1996-07-31	
+S000000727	ORF	Verified	YEL001C	IRC22		chromosome 5		5	150978	150301	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion localizes to the ER; YEL001C is non-essential; null mutant displays increased levels of spontaneous Rad52p foci
+S000037333	CDS					YEL001C		5	150978	150301	C		2011-02-03	1996-07-31	
+S000006467	centromere		CEN5	CEN5		chromosome 5	L000000298	5	151987	152104	W	0	2011-02-03	2000-05-19|2006-05-08	Chromosome V centromere
+S000077269	centromere_DNA_Element_I					CEN5		5	151987	151996	W		2011-02-03	2004-10-04	
+S000077270	centromere_DNA_Element_II					CEN5		5	151997	152079	W		2011-02-03	2004-10-04	
+S000077271	centromere_DNA_Element_III					CEN5		5	152080	152104	W		2011-02-03	2004-10-04	
+S000000803	ORF	Verified	YER001W	MNN1	alpha-1,3-mannosyltransferase MNN1	chromosome 5	L000001126	5	153520	155808	W	0	2011-02-03	1996-07-31	Alpha-1,3-mannosyltransferase; integral membrane glycoprotein of the Golgi complex, required for addition of alpha1,3-mannose linkages to N-linked and O-linked oligosaccharides, one of five S. cerevisiae proteins of the MNN1 family
+S000033040	CDS					YER001W		5	153520	155808	W		2011-02-03	1996-07-31	
+S000000804	ORF	Verified	YER002W	NOP16		chromosome 5		5	156803	157498	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; involved in 60S ribosomal subunit biogenesis
+S000033709	CDS					YER002W		5	156803	157498	W		2011-02-03	1996-07-31	
+S000000805	ORF	Verified	YER003C	PMI40	mannose-6-phosphate isomerase PMI40|PMI	chromosome 5	L000001452	5	159118	157736	C		2011-02-03	1996-07-31	Mannose-6-phosphate isomerase; catalyzes the interconversion of fructose-6-P and mannose-6-P; required for early steps in protein mannosylation
+S000033753	CDS					YER003C		5	158994	157736	C		2011-02-03	1996-07-31	
+S000033752	CDS					YER003C		5	159118	159088	C		2011-02-03	1996-07-31	
+S000033754	intron					YER003C		5	159087	158995	C		2011-02-03	1996-07-31	
+S000000806	ORF	Verified	YER004W	FMP52		chromosome 5		5	159580	160275	W		2011-02-03	1996-07-31	Protein of unknown function; localized to the mitochondrial outer membrane; induced by treatment with 8-methoxypsoralen and UVA irradiation
+S000033918	CDS					YER004W		5	159580	160275	W		2011-02-03	1996-07-31	
+S000000807	ORF	Verified	YER005W	YND1	apyrase|YEJ5|APY1	chromosome 5	S000007428	5	160550	162442	W		2011-02-03	1996-07-31	Apyrase with wide substrate specificity; helps prevent inhibition of glycosylation by hydrolyzing nucleoside tri- and diphosphates that inhibit glycotransferases; partially redundant with Gda1p; mediates adenovirus E4orf4-induced toxicity
+S000034049	CDS					YER005W		5	160550	162442	W		2011-02-03	1996-07-31	
+S000000808	ORF	Verified	YER006W	NUG1	RNA-binding GTPase NUG1	chromosome 5		5	162723	164285	W		2011-02-03	1996-07-31	GTPase that associates with nuclear 60S pre-ribosomes; required for export of 60S ribosomal subunits from the nucleus
+S000034937	CDS					YER006W		5	162723	164285	W		2011-02-03	1996-07-31	
+S000000809	ORF	Verified	YER007W	PAC2		chromosome 5	L000001329	5	164527	166083	W		2011-02-03	1996-07-31	Microtubule effector required for tubulin heterodimer formation; binds alpha-tubulin, required for normal microtubule function, null mutant exhibits cold-sensitive microtubules and sensitivity to benomyl
+S000035125	CDS					YER007W		5	164527	166083	W		2011-02-03	1996-07-31	
+S000028745	ORF	Dubious	YER006C-A			chromosome 5		5	164661	164344	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF PAC2/YER007W
+S000033415	CDS					YER006C-A		5	164661	164344	C		2011-02-03	2003-07-29	
+S000002957	ORF	Verified	YER007C-A	TMA20	RBF20	chromosome 5		5	166885	166237	C		2011-02-03	1996-07-31	Protein of unknown function that associates with ribosomes; has a putative RNA binding domain; interacts with Tma22p; null mutant exhibits translation defects; has homology to human oncogene MCT-1; protein abundance increases in response to DNA replication stress
+S000032950	CDS					YER007C-A		5	166771	166237	C		2011-02-03	1996-07-31	
+S000032949	CDS					YER007C-A		5	166885	166875	C		2011-02-03	1996-07-31	
+S000032951	intron					YER007C-A		5	166874	166772	C		2011-02-03	1996-07-31	
+S000006499	snRNA_gene		snR14	SNR14	U4	chromosome 5	L000001965	5	167586	167427	C		2011-02-03	2000-05-19	U4 spliceosomal RNA (U4 snRNA); interacts with U6
+S000036593	noncoding_exon					snR14		5	167586	167427	C		2011-02-03	2000-05-19	
+S000000810	ORF	Verified	YER008C	SEC3	GTP-Rho binding exocyst subunit SEC3|PSL1	chromosome 5	L000001829|L000001520	5	171818	167808	C	3	2011-02-03	1996-07-31	Subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to sites of exocytosis prior to SNARE-mediated fusion; PtdIns[4,5]P2-binding protein that localizes to exocytic sites in a Rho1p-dependent, actin-independent manner, targeting and anchoring the exocyst to the plasma membrane with Exo70p; direct GTP Rho1p effector; required for ER inheritance; relocalizes away from bud neck upon DNA replication stress
+S000035220	CDS					YER008C		5	171818	167808	C		2011-02-03	1996-07-31	
+S000000811	ORF	Verified	YER009W	NTF2	Ran GTPase-binding protein NTF2	chromosome 5	L000002863	5	172115	172492	W		2011-02-03	1996-07-31	Nuclear envelope protein; interacts with GDP-bound Gsp1p and with proteins of the nuclear pore to transport Gsp1p into the nucleus where it is an essential player in nucleocytoplasmic transport
+S000036204	CDS					YER009W		5	172115	172492	W		2011-02-03	1996-07-31	
+S000000812	ORF	Verified	YER010C		bifunctional 4-hydroxy-4-methyl-2-oxoglutarate aldolase/oxaloacetate decarboxylase	chromosome 5		5	173338	172634	C		2011-02-03	1996-07-31	Bifunctional HMG aldolase/oxaloacetate decarboxylase; requires divalent metal ions for activity; competitively inhibited by oxalate; forms a ring-shaped homotrimer; similar to members of the prokaryotic RraA family of class II (divalent metal ion dependent) pyruvate aldolases from the meta cleavage pathways of protocatechuate and gallate
+S000036925	CDS					YER010C		5	173338	172634	C		2011-02-03	1996-07-31	
+S000077383	ARS		ARS511		ARSV-174	chromosome 5		5	173700	173864			2014-11-18	2014-11-18|2004-10-19|2006-09-07	Autonomously Replicating Sequence
+S000178084	ARS_consensus_sequence					ARS511		5	173808	173792	C		2014-11-18	2014-11-18	
+S000000813	ORF	Verified	YER011W	TIR1	GPI-anchored mannoprotein|SRP1	chromosome 5	L000002059	5	175248	176012	W		2011-02-03	1996-07-31	Cell wall mannoprotein; expression is downregulated at acidic pH and induced by cold shock and anaerobiosis; abundance is increased in cells cultured without shaking; member of the Srp1p/Tip1p family of serine-alanine-rich proteins
+S000037042	CDS					YER011W		5	175248	176012	W		2011-02-03	1996-07-31	
+S000006912	long_terminal_repeat		YERWdelta7			chromosome 5		5	176705	176856	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006550	tRNA_gene		tE(UUC)E1			chromosome 5	L000003792	5	177099	177170	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
+S000034436	noncoding_exon					tE(UUC)E1		5	177099	177170	W		2011-02-03	2000-05-19	
+S000000814	ORF	Verified	YER012W	PRE1	proteasome core particle subunit beta 4	chromosome 5	L000001483	5	177835	178431	W		2011-02-03	1996-07-31	Beta 4 subunit of the 20S proteasome; localizes to the nucleus throughout the cell cycle
+S000037113	CDS					YER012W		5	177835	178431	W		2011-02-03	1996-07-31	
+S000000815	ORF	Verified	YER013W	PRP22	DEAH-box ATP-dependent RNA helicase PRP22	chromosome 5	L000001508	5	178841	182278	W		2011-02-03	1996-07-31	DEAH-box RNA-dependent ATPase/ATP-dependent RNA helicase; associates with lariat intermediates before the second catalytic step of splicing; mediates ATP-dependent mRNA release from the spliceosome and unwinds RNA duplexes; required for proofreading the exon ligation reaction
+S000037868	CDS					YER013W		5	178841	182278	W		2011-02-03	1996-07-31	
+S000000816	ORF	Verified	YER014W	HEM14	oxygen-dependent protoporphyrinogen oxidase	chromosome 5	L000003353	5	182600	184219	W		2011-02-03	1996-07-31	Protoporphyrinogen oxidase; a mitochondrial enzyme that catalyzes the seventh step in the heme biosynthetic pathway, converting protoporphyrinogen IX to protoporphyrin IX; inhibited by diphenyl ether-type herbicides
+S000029903	CDS					YER014W		5	182600	184219	W		2011-02-03	1996-07-31	
+S000000817	ORF	Verified	YER015W	FAA2	medium-chain fatty acid-CoA ligase FAA2|FAM1	chromosome 5	L000000595|L000000599	5	184541	186775	W		2011-02-03	1996-07-31	Medium chain fatty acyl-CoA synthetase; activates imported fatty acids; accepts a wide range of fatty acid chain lengths with a preference for medium chains, C9:0-C13:0; localized to the peroxisome; comparative analysis suggests that a mitochondrially targeted form may result from translation starting at a non-canonical codon upstream of the annotated start codon
+S000030015	CDS					YER015W		5	184541	186775	W		2011-02-03	1996-07-31	
+S000007590	ORF	Verified	YER014C-A	BUD25		chromosome 5		5	184700	183731	C		2011-02-03	2001-02-14	Protein involved in bud-site selection; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern
+S000037101	CDS					YER014C-A		5	184169	183731	C		2011-02-03	2001-02-14	
+S000037100	CDS					YER014C-A		5	184700	184678	C		2011-02-03	2001-02-14	
+S000037102	intron					YER014C-A		5	184677	184170	C		2011-02-03	2001-02-14	
+S000000818	ORF	Verified	YER016W	BIM1	microtubule-binding protein BIM1|EB1|YEB1	chromosome 5	L000003272	5	188277	189311	W		2011-02-03	1996-07-31	Microtubule plus end-tracking protein; together with Kar9p makes up the cortical microtubule capture site and delays the exit from mitosis when the spindle is oriented abnormally; homolog of human end binding protein 1 (EB1)
+S000031017	CDS					YER016W		5	188277	189311	W		2011-02-03	1996-07-31	
+S000000819	ORF	Verified	YER017C	AFG3	AAA family ATPase AFG3|YTA10	chromosome 5	L000002562|L000000057	5	191788	189503	C		2011-02-03	1996-07-31	Mitochondrial inner membrane m-AAA protease component; mediates degradation of misfolded or unassembled proteins; also required for correct assembly of mitochondrial enzyme complexes; involved in cytoplasmic mRNA translation and aging; expression of human homolog AFG3L2 can complement yeast yta12 afg3 double mutant
+S000031051	CDS					YER017C		5	191788	189503	C		2011-02-03	1996-07-31	
+S000000820	ORF	Verified	YER018C	SPC25	kinetochore-associated Ndc80 complex subunit SPC25	chromosome 5	L000004695	5	192624	191959	C		2011-02-03	1996-07-31	Component of the kinetochore-associated Ndc80 complex; involved in chromosome segregation, spindle checkpoint activity, and kinetochore clustering; evolutionarily conserved; other members include Ndc80p, Nuf2p, Spc24p, and Spc25p
+S000031164	CDS					YER018C		5	192624	191959	C		2011-02-03	1996-07-31	
+S000000821	ORF	Verified	YER019W	ISC1	inositol phosphosphingolipid phospholipase	chromosome 5		5	192797	194230	W		2011-02-03	1996-07-31	Inositol phosphosphingolipid phospholipase C; mitochondrial membrane localized; hydrolyzes complex sphingolipids to produce ceramide; activates genes required for non-fermentable carbon source metabolism during diauxic shift; activated by phosphatidylserine, cardiolipin, and phosphatidylglycerol; mediates Na+ and Li+ halotolerance; ortholog of mammalian neutral sphingomyelinase type 2
+S000032239	CDS					YER019W		5	192797	194230	W		2011-02-03	1996-07-31	
+S000002127	ORF	Verified	YER019C-A	SBH2	Arf family guanine nucleotide exchange factor SBH2|SEB2	chromosome 5	L000002847|L000004138	5	194539	194273	C		2011-02-03	1996-07-31	Ssh1p-Sss1p-Sbh2p complex component; involved in protein translocation into the endoplasmic reticulum; SBH2 has a paralog, SBH1, that arose from the whole genome duplication
+S000032656	CDS					YER019C-A		5	194539	194273	C		2011-02-03	1996-07-31	
+S000000822	ORF	Verified	YER020W	GPA2	guanine nucleotide-binding protein subunit alpha|SSP101	chromosome 5	L000000721	5	195168	196517	W	10	2011-02-03	1996-07-31	Nucleotide binding alpha subunit of the heterotrimeric G protein; interacts with the receptor Gpr1p, has signaling role in response to nutrients; required for the recruitment of Ras-GTP at the plasma membrane and in the nucleus
+S000032231	CDS					YER020W		5	195168	196517	W		2011-02-03	1996-07-31	
+S000000823	ORF	Verified	YER021W	RPN3	proteasome regulatory particle lid subunit RPN3|SUN2	chromosome 5	L000003109	5	196948	198519	W		2011-02-03	1996-07-31	Essential non-ATPase regulatory subunit of the 26S proteasome lid; similar to the p58 subunit of the human 26S proteasome; temperature-sensitive alleles cause metaphase arrest, suggesting a role for the proteasome in cell cycle control
+S000032304	CDS					YER021W		5	196948	198519	W		2011-02-03	1996-07-31	
+S000000824	ORF	Verified	YER022W	SRB4	MED17	chromosome 5	L000002051	5	198812	200875	W		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for basal RNA polymerase II transcription; homozygosity of the human MED17 L371P mutation is associated with infantile cerebral and cerebellar atrophy with poor myelination
+S000033166	CDS					YER022W		5	198812	200875	W		2011-02-03	1996-07-31	
+S000000825	ORF	Verified	YER023W	PRO3	pyrroline-5-carboxylate reductase|ORE2	chromosome 5	L000001493	5	201076	201936	W	23	2011-02-03	1996-07-31	Delta 1-pyrroline-5-carboxylate reductase; catalyzes the last step in proline biosynthesis
+S000033229	CDS					YER023W		5	201076	201936	W		2011-02-03	1996-07-31	
+S000028622	ORF	Dubious	YER023C-A			chromosome 5		5	201734	201522	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene PRO3; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
+S000031472	CDS					YER023C-A		5	201734	201522	C		2011-02-03	2003-07-29	
+S000000826	ORF	Verified	YER024W	YAT2	carnitine O-acetyltransferase YAT2	chromosome 5		5	202192	204963	W		2011-02-03	1996-07-31	Carnitine acetyltransferase; has similarity to Yat1p, which is a carnitine acetyltransferase associated with the mitochondrial outer membrane
+S000033278	CDS					YER024W		5	202192	204963	W		2011-02-03	1996-07-31	
+S000000827	ORF	Verified	YER025W	GCD11	translation initiation factor eIF2 subunit gamma|SUI4	chromosome 5	L000000677	5	205251	206834	W	14	2011-02-03	1996-07-31	Gamma subunit of the translation initiation factor eIF2; involved in the identification of the start codon; binds GTP when forming the ternary complex with GTP and tRNAi-Met; mutations in human ortholog cause X-linked intellectual disability (XLID)
+S000034151	CDS					YER025W		5	205251	206834	W		2011-02-03	1996-07-31	
+S000006593	tRNA_gene		tH(GUG)E1			chromosome 5	L000003793	5	207357	207428	W		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
+S000035209	noncoding_exon					tH(GUG)E1		5	207357	207428	W		2011-02-03	2000-05-19	
+S000000828	ORF	Verified	YER026C	CHO1	CDP-diacylglycerol-serine O-phosphatidyltransferase|PSS1	chromosome 5	L000000327|L000001521	5	208474	207644	C	22	2011-02-03	1996-07-31	Phosphatidylserine synthase; functions in phospholipid biosynthesis; catalyzes the reaction CDP-diaclyglycerol + L-serine = CMP + L-1-phosphatidylserine, transcriptionally repressed by myo-inositol and choline
+S000034205	CDS					YER026C		5	208474	207644	C		2011-02-03	1996-07-31	
+S000000829	ORF	Verified	YER027C	GAL83	SPM1	chromosome 5	L000000666	5	210232	208979	C	11	2011-02-03	1996-07-31	One of three possible beta-subunits of the Snf1 kinase complex; allows nuclear localization of the Snf1 kinase complex in the presence of a nonfermentable carbon source; necessary and sufficient for phosphorylation of the Mig2p transcription factor in response to alkaline stress; functionally redundant with SIP1 and SIP2 for the phosphorylation of Mig1p in response to glucose deprivation; contains a glycogen-binding domain
+S000034334	CDS					YER027C		5	210232	208979	C		2011-02-03	1996-07-31	
+S000000830	ORF	Verified	YER028C	MIG3		chromosome 5		5	211876	210692	C		2011-02-03	1996-07-31	Transcriptional regulator; partially nonfunctional in S288C strains but has a major role in catabolite repression and ethanol response in some other strains; involved in response to toxic agents; phosphorylation by Snf1p or the Mec1p pathway inactivates Mig3p, allowing induction of damage response genesenvironment
+S000035341	CDS					YER028C		5	211876	210692	C		2011-02-03	1996-07-31	
+S000077384	ARS		ARS512		ARSV-212	chromosome 5		5	212383	212631			2011-02-03	2004-10-19|2006-09-07	Autonomously Replicating Sequence
+S000178085	ARS_consensus_sequence					ARS512		5	212454	212470	W		2014-11-18	2014-11-18	
+S000000831	ORF	Verified	YER029C	SMB1	mRNA splicing protein SMB1|Sm B|SmB	chromosome 5	L000004361	5	213177	212587	C		2011-02-03	1996-07-31	Core Sm protein Sm B; part of heteroheptameric complex (with Smd1p, Smd2p, Smd3p, Sme1p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm B and Sm B'
+S000035476	CDS					YER029C		5	213177	212587	C		2011-02-03	1996-07-31	
+S000000832	ORF	Verified	YER030W	CHZ1		chromosome 5		5	213437	213898	W		2011-02-03	1996-07-31|2005-11-29	Histone chaperone for Htz1p/H2A-H2B dimer; required for the stabilization of the Chz1p-Htz1-H2B complex; has overlapping function with Nap1p; null mutant displays weak sensitivity to MMS and benomyl; contains a highly conserved CHZ motif; protein abundance increases in response to DNA replication stress
+S000036549	CDS					YER030W		5	213437	213898	W		2011-02-03	1996-07-31|2005-11-29	
+S000000833	ORF	Verified	YER031C	YPT31	Rab family GTPase YPT31|YPT8	chromosome 5	L000002545	5	214747	214076	C		2011-02-03	1996-07-31	Rab family GTPase; involved in the exocytic pathway; mediates intra-Golgi traffic or the budding of post-Golgi vesicles from the trans-Golgi; YPT31 has a paralog, YPT32, that arose from the whole genome duplication; localizes to the transitional and late Golgi
+S000036578	CDS					YER031C		5	214747	214076	C		2011-02-03	1996-07-31	
+S000000834	ORF	Verified	YER032W	FIR1	PIP1	chromosome 5	L000003487	5	215063	217693	W		2011-02-03	2003-09-22|1996-07-31	Protein involved in 3' mRNA processing; interacts with Ref2p; APCC(Cdh1) substrate; potential Cdc28p substrate
+S000037329	CDS					YER032W		5	215063	217693	W		2011-02-03	2003-09-22|1996-07-31	
+S000000835	ORF	Verified	YER033C	ZRG8		chromosome 5	S000007518	5	221287	218057	C		2011-02-03	1996-07-31	Protein of unknown function; authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; GFP-fusion protein is localized to the cytoplasm; transcription induced under conditions of zinc deficiency
+S000037376	CDS					YER033C		5	221287	218057	C		2011-02-03	1996-07-31	
+S000000836	ORF	Verified	YER034W			chromosome 5		5	221846	222403	W		2011-02-03	1996-07-31	Protein of unknown function; non-essential gene; expression induced upon calcium shortage; protein abundance increases in response to DNA replication stress
+S000030147	CDS					YER034W		5	221846	222403	W		2011-02-03	1996-07-31	
+S000000837	ORF	Verified	YER035W	EDC2		chromosome 5		5	222639	223076	W		2011-02-03	1996-07-31	RNA-binding protein that directly activates mRNA decapping; binds mRNA substrate and enhances activity of decapping proteins Dcp1p and Dcp2p; has a role in translation during heat stress; protein increases in abundance and relocalizes to nucleolus and to nuclear foci upon DNA replication stress; EDC2 has a paralog, EDC1, that arose from the whole genome duplication
+S000030324	CDS					YER035W		5	222639	223076	W		2011-02-03	1996-07-31	
+S000000838	ORF	Verified	YER036C	ARB1	ATP-binding cassette family ATPase ARB1	chromosome 5		5	225199	223367	C		2011-02-03	1996-07-31	ATPase of the ATP-binding cassette (ABC) family; involved in 40S and 60S ribosome biogenesis, has similarity to Gcn20p; shuttles from nucleus to cytoplasm, physically interacts with Tif6p, Lsg1p; human homolog ABCF2 can complement yeast ARB1 mutant
+S000030397	CDS					YER036C		5	225199	223367	C		2011-02-03	1996-07-31	
+S000000839	ORF	Verified	YER037W	PHM8	bifunctional nucleotidase/lysophosphatidic acid phosphatase	chromosome 5		5	225889	226854	W		2011-02-03	1996-07-31	Lysophosphatidic acid (LPA) phosphatase, nucleotidase; principle and physiological nucleotidase working on GMP, UMP and CMP; involved in LPA hydrolysis in response to phosphate starvation and ribose salvage pathway; phosphatase activity is soluble and Mg2+ dependent; expression is induced by low phosphate levels and by inactivation of Pho85p; repressed by Gcn4p under normal conditions; PHM8 has a paralog, SDT1, that arose from the whole genome duplication
+S000031397	CDS					YER037W		5	225889	226854	W		2011-02-03	1996-07-31	
+S000000840	ORF	Verified	YER038C	KRE29	Smc5-Smc6 complex subunit KRE29|NSE6	chromosome 5		5	228252	226858	C		2011-02-03	1996-07-31	Subunit of the SMC5-SMC6 complex; this complex is involved in removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; heterozygous mutant shows haploinsufficiency in K1 killer toxin resistance
+S000031448	CDS					YER038C		5	228252	226858	C		2011-02-03	1996-07-31	
+S000028746	ORF	Uncharacterized	YER038W-A	FMP49		chromosome 5		5	228451	228831	W		2011-02-03	2003-07-29	Mitochondrial protein of unknown function; almost completely overlaps ORF HVG1/YER039C
+S000033416	CDS					YER038W-A		5	228451	228831	W		2011-02-03	2003-07-29	
+S000000841	ORF	Verified	YER039C	HVG1	putative GDP-mannose transporter|YEM9	chromosome 5	L000003907	5	229205	228456	C		2011-02-03	1996-07-31	Protein of unknown function; HVG1 has a paralog, VRG4, that arose from the whole genome duplication
+S000031567	CDS					YER039C		5	229205	228456	C		2011-02-03	1996-07-31	
+S000007226	ORF	Uncharacterized	YER039C-A			chromosome 5		5	229481	229263	C		2011-02-03	1999-07-17	Putative protein of unknown function; YER039C-A is not an essential gene
+S000030146	CDS					YER039C-A		5	229481	229263	C		2011-02-03	1999-07-17	
+S000000842	ORF	Verified	YER040W	GLN3	nitrogen-responsive transcriptional regulator GLN3	chromosome 5	L000000710	5	229795	231987	W	38	2011-02-03	1996-07-31	Transcriptional activator of genes regulated by nitrogen catabolite repression; localization and activity regulated by quality of nitrogen source and Ure2p
+S000031823	CDS					YER040W		5	229795	231987	W		2011-02-03	1996-07-31	
+S000000843	ORF	Verified	YER041W	YEN1	crossover junction endodeoxyribonuclease	chromosome 5		5	232461	234740	W		2011-02-03	1996-07-31|2011-02-03	Holliday junction resolvase; promotes template switching during break-induced replication (BIR), causing non-reciprocal translocations (NRTs); localization is cell-cycle dependent and regulated by Cdc28p phosphorylation; homolog of human GEN1; similar to S. cerevisiae endonuclease Rth1p
+S000031953	CDS					YER041W		5	232461	234740	W		2011-02-03	1996-07-31|2011-02-03	
+S000000844	ORF	Verified	YER042W	MXR1	peptide-methionine-S-sulfoxide reductase|msrA	chromosome 5	L000004794	5	234937	235491	W		2011-02-03	1996-07-31	Methionine-S-sulfoxide reductase; involved in the response to oxidative stress; protects iron-sulfur clusters from oxidative inactivation along with MXR2; involved in the regulation of lifespan; reduced activity of human homolog implicated in Alzheimer disease
+S000032841	CDS					YER042W		5	234937	235491	W		2011-02-03	1996-07-31	
+S000000845	ORF	Verified	YER043C	SAH1	adenosylhomocysteinase	chromosome 5	L000002989	5	237119	235770	C		2011-02-03	1996-07-31	S-adenosyl-L-homocysteine hydrolase; catabolizes S-adenosyl-L-homocysteine which is formed after donation of the activated methyl group of S-adenosyl-L-methionine (AdoMet) to an acceptor; regulates cellular lipid homoeostasis by regulating phosphatidylcholine(PC)synthesis and triacylglycerol (TG) levels
+S000032879	CDS					YER043C		5	237119	235770	C		2011-02-03	1996-07-31	
+S000000846	ORF	Verified	YER044C	ERG28	BUD18	chromosome 5		5	238016	237570	C		2011-02-03	1996-07-31	Endoplasmic reticulum membrane protein; may facilitate protein-protein interactions between the Erg26p dehydrogenase and the Erg27p 3-ketoreductase and/or tether these enzymes to the ER, also interacts with Erg6p
+S000032987	CDS					YER044C		5	238016	237570	C		2011-02-03	1996-07-31	
+S000001954	ORF	Verified	YER044C-A	MEI4		chromosome 5	L000001060	5	239774	238460	C	41	2011-02-03	1996-07-31	Meiosis-specific protein involved in forming DSBs; involved in double-strand break (DSBs) formation during meiotic recombination; required for chromosome synapsis and production of viable spores
+S000032766	CDS					YER044C-A		5	239623	238460	C		2011-02-03	1996-07-31	
+S000032765	CDS					YER044C-A		5	239774	239712	C		2011-02-03	1996-07-31	
+S000032767	intron					YER044C-A		5	239711	239624	C		2011-02-03	1996-07-31	
+S000000847	ORF	Verified	YER045C	ACA1		chromosome 5		5	241501	240032	C		2011-02-03	1996-07-31	ATF/CREB family basic leucine zipper (bZIP) transcription factor; binds as a homodimer to the ATF/CREB consensus sequence TGACGTCA; important for carbon source utilization; target genes include GRE2 and COS8; ACA1 has a paralog, CST6, that arose from the whole genome duplication
+S000033081	CDS					YER045C		5	241501	240032	C		2011-02-03	1996-07-31	
+S000000848	ORF	Verified	YER046W	SPO73		chromosome 5		5	243180	243611	W		2011-02-03	1996-07-31	Meiosis-specific protein required for prospore membrane morphogenesis; required for the proper shape of the prospore membrane (PSM) and for spore wall formation; functions cooperatively with SPO71 in PSM elongation; physically interacts with Spo71p; genetically antagonistic to SPO1, similar to SPO71; localizes to the PSM; required for spore wall formation during sporulation; dispensable for both nuclear divisions during meiosis; dysferlin domain-only protein
+S000033892	CDS					YER046W		5	243180	243611	W		2011-02-03	1996-07-31	
+S000028747	ORF	Dubious	YER046W-A			chromosome 5		5	243700	244029	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SAP1/YER047C
+S000033417	CDS					YER046W-A		5	243700	244029	W		2011-02-03	2003-07-29	
+S000000849	ORF	Verified	YER047C	SAP1	putative AAA family ATPase SAP1	chromosome 5	L000004134	5	246503	243810	C		2011-02-03	1996-07-31	Putative ATPase of the AAA family; interacts with the Sin1p transcriptional repressor in the two-hybrid system
+S000033982	CDS					YER047C		5	246503	243810	C		2011-02-03	1996-07-31	
+S000000850	ORF	Verified	YER048C	CAJ1		chromosome 5	L000000210	5	248157	246982	C		2011-02-03	1996-07-31	Nuclear type II J heat shock protein of the E. coli dnaJ family; contains a leucine zipper-like motif, binds to non-native substrates for presentation to Ssa3p, may function during protein translocation, assembly and disassembly
+S000034089	CDS					YER048C		5	248157	246982	C		2011-02-03	1996-07-31	
+S000006893	long_terminal_repeat		YERCdelta8			chromosome 5		5	249331	249109	C		2011-02-03	2000-05-19|2007-04-03	Ty1 LTR
+S000006913	long_terminal_repeat		YERWdelta9			chromosome 5		5	249445	249752	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006904	long_terminal_repeat		YERCsigma1			chromosome 5		5	250270	249930	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006696	tRNA_gene		tQ(UUG)E1			chromosome 5	L000003794	5	250286	250357	W		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034942	noncoding_exon					tQ(UUG)E1		5	250286	250357	W		2011-02-03	2000-05-19	
+S000007237	ORF	Verified	YER048W-A	ISD11		chromosome 5		5	250718	251002	W		2011-02-03	1999-07-17	Cysteine desulfurase (Nfs1p) activator; essential for the formation of the persulfide intermediate at the desulfurase active site during pyridoxal phosphate-dependent desulfuration of cysteine; required for mitochondrial iron-sulfur cluster biosynthesis; exclusive to eukaryotes, implicated as eukaryotic supplement to the bacterium-derived Fe-S cluster (ISC) assembly apparatus; involved in regulation of iron metabolism; member of the LYR protein family
+S000036074	CDS					YER048W-A		5	250718	251002	W		2011-02-03	1999-07-17	
+S000000851	ORF	Verified	YER049W	TPA1	oxidative DNA demethylase	chromosome 5		5	251728	253662	W		2011-02-03	1996-07-31	Fe(II)/2-oxoglutarate-dependent dioxygenase family member; catalyzes the repair of methyl-base lesions in both ss and dsDNA by oxidative demethylation; Poly(rA)-binding protein involved in mRNA poly(A) tail length and mRNA stability; role in translation termination efficiency; interacts with Sup45p (eRF1), Sup35p (eRF3) and Pab1p; similar to human prolyl 4-hydroxylase OGFOD1; binds Fe(II) and 2-oxoglutarate
+S000035095	CDS					YER049W		5	251728	253662	W		2011-02-03	1996-07-31	
+S000000852	ORF	Verified	YER050C	RSM18	mitochondrial 37S ribosomal protein RSM18	chromosome 5		5	254387	253971	C		2011-02-03	1996-07-31|2005-11-28	Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S18 ribosomal protein
+S000036333	CDS					YER050C		5	254387	253971	C		2011-02-03	1996-07-31|2005-11-28	
+S000000853	ORF	Verified	YER051W	JHD1	[Histone H3]-lysine-36 demethylase|KDM2|JHDM1	chromosome 5		5	254656	256134	W		2011-02-03	1996-07-31	JmjC domain family histone demethylase specific for H3-K36; similar to proteins found in human, mouse, drosophila, X. laevis, C. elegans, and S. pombe
+S000037038	CDS					YER051W		5	254656	256134	W		2011-02-03	1996-07-31	
+S000000854	ORF	Verified	YER052C	HOM3	aspartate kinase|THR3|SIL4|BOR1	chromosome 5	L000000800	5	257958	256375	C	48	2011-02-03	1996-07-31	Aspartate kinase (L-aspartate 4-P-transferase); cytoplasmic enzyme that catalyzes the first step in the common pathway for methionine and threonine biosynthesis; expression regulated by Gcn4p and the general control of amino acid synthesis
+S000037071	CDS					YER052C		5	257958	256375	C		2011-02-03	1996-07-31	
+S000077385	ARS		ARS513			chromosome 5		5	257958	258737			2011-02-03	2004-10-19	Autonomously Replicating Sequence
+S000000855	ORF	Verified	YER053C	PIC2	Cu/Pi carrier	chromosome 5		5	259639	258737	C		2011-02-03	1996-07-31	Mitochondrial copper and phosphate carrier; imports copper and inorganic phosphate into mitochondria; functionally redundant with Mir1p but less abundant than Mir1p under normal conditions; expression is induced at high temperature
+S000037192	CDS					YER053C		5	259639	258737	C		2011-02-03	1996-07-31	
+S000007523	ORF	Verified	YER053C-A			chromosome 5		5	261046	260933	C		2011-02-03	2000-07-14	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; protein abundance increases in response to DNA replication stress
+S000037059	CDS					YER053C-A		5	261046	260933	C		2011-02-03	2000-07-14	
+S000000856	ORF	Verified	YER054C	GIP2		chromosome 5	L000003093	5	263698	262052	C		2011-02-03	1996-07-31	Putative regulatory subunit of protein phosphatase Glc7p; involved in glycogen metabolism; contains a conserved motif (GVNK motif) that is also found in Gac1p, Pig1p, and Pig2p; GIP2 has a paralog, PIG2, that arose from the whole genome duplication
+S000037276	CDS					YER054C		5	263698	262052	C		2011-02-03	1996-07-31	
+S000000857	ORF	Verified	YER055C	HIS1	ATP phosphoribosyltransferase	chromosome 5	L000000778	5	265785	264892	C	49	2011-02-03	1996-07-31	ATP phosphoribosyltransferase; a hexameric enzyme, catalyzes the first step in histidine biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts; transcription is regulated by general amino acid control
+S000029938	CDS					YER055C		5	265785	264892	C		2011-02-03	1996-07-31	
+S000000858	ORF	Verified	YER056C	FCY2	purine-cytosine permease|BRA7	chromosome 5	L000000607	5	268113	266512	C	49	2011-02-03	1996-07-31	Purine-cytosine permease; mediates purine (adenine, guanine, and hypoxanthine) and cytosine accumulation; relative distribution to the vacuole increases upon DNA replication stress
+S000030053	CDS					YER056C		5	268113	266512	C		2011-02-03	1996-07-31	
+S000002135	ORF	Verified	YER056C-A	RPL34A	eL34|ribosomal 60S subunit protein L34A|L34e|L34A	chromosome 5	L000004465	5	270185	269423	C		2011-02-03	2000-12-01|1996-07-31	Ribosomal 60S subunit protein L34A; homologous to mammalian ribosomal protein L34, no bacterial homolog; RPL34A has a paralog, RPL34B, that arose from the whole genome duplication
+S000031749	CDS					YER056C-A		5	269751	269423	C		2011-02-03	2000-12-01|1996-07-31	
+S000031748	CDS					YER056C-A		5	270185	270149	C		2011-02-03	2000-12-01|1996-07-31	
+S000031750	intron					YER056C-A		5	270148	269752	C		2011-02-03	2000-12-01|1996-07-31	
+S000000859	ORF	Verified	YER057C	HMF1	putative isoleucine biosynthesis protein HMF1|HIG1	chromosome 5	L000004440	5	271126	270737	C		2011-02-03	1996-07-31	Member of the p14.5 protein family; functionally complements Mmf1p function when targeted to mitochondria; heat shock inducible; high-dosage growth inhibitor; forms a homotrimer in vitro; HMF1 has a paralog, MMF1, that arose from the whole genome duplication
+S000030235	CDS					YER057C		5	271126	270737	C		2011-02-03	1996-07-31	
+S000000860	ORF	Verified	YER058W	PET117		chromosome 5	L000001396	5	271768	272091	W		2011-02-03	1996-07-31	Protein required for assembly of cytochrome c oxidase
+S000031258	CDS					YER058W		5	271768	272091	W		2011-02-03	1996-07-31	
+S000000861	ORF	Verified	YER059W	PCL6		chromosome 5	L000004038	5	272624	273886	W		2011-02-03	1996-07-31	Pho85p cyclin of the Pho80p subfamily; forms the major Glc8p kinase together with Pcl7p and Pho85p; involved in the control of glycogen storage by Pho85p; stabilized by Elongin C binding; PCL6 has a paralog, PCL7, that arose from the whole genome duplication
+S000031353	CDS					YER059W		5	272624	273886	W		2011-02-03	1996-07-31	
+S000000862	ORF	Verified	YER060W	FCY21	purine-cytosine permease	chromosome 5	L000003373	5	274567	276153	W		2011-02-03	1996-07-31	Putative purine-cytosine permease; very similar to Fcy2p but cannot substitute for its function
+S000032301	CDS					YER060W		5	274567	276153	W		2011-02-03	1996-07-31	
+S000178086	ARS		ARS513.5			chromosome 5		5	276130	276528			2014-11-18	2014-11-18	Very weak autonomously replicating sequence
+S000002958	ORF	Verified	YER060W-A	FCY22	purine-cytosine permease	chromosome 5	L000003374	5	276572	278164	W		2011-02-03	1999-07-17|1996-07-31	Putative purine-cytosine permease; very similar to Fcy2p but cannot substitute for its function
+S000032822	CDS					YER060W-A		5	276572	278164	W		2011-02-03	1999-07-17|1996-07-31	
+S000178087	ARS		ARS513.7			chromosome 5		5	278076	278357			2014-11-18	2014-11-18	Weak autonomously replicating sequence
+S000178088	ARS_consensus_sequence					ARS513.7		5	278177	278161	C		2014-11-18	2014-11-18	
+S000000863	ORF	Verified	YER061C	CEM1	fatty acid synthase CEM1	chromosome 5	L000000292	5	279626	278298	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial beta-keto-acyl synthase; possible role in fatty acid synthesis; required for mitochondrial respiration; human homolog OXSM can complement yeast cem1 null mutant
+S000032319	CDS					YER061C		5	279626	278298	C		2011-02-03	1996-07-31|2011-02-03	
+S000000864	ORF	Verified	YER062C	GPP2	HOR2|glycerol-1-phosphatase HOR2	chromosome 5	L000003979	5	280682	279930	C		2011-02-03	1996-07-31	DL-glycerol-3-phosphate phosphatase involved in glycerol biosynthesis; also known as glycerol-1-phosphatase; induced in response to hyperosmotic or oxidative stress, and during diauxic shift; GPP2 has a paralog, GPP1, that arose from the whole genome duplication
+S000032451	CDS					YER062C		5	280682	279930	C		2011-02-03	1996-07-31	
+S000000865	ORF	Verified	YER063W	THO1		chromosome 5	L000004712	5	281710	282366	W		2011-02-03	1996-07-31	Conserved nuclear RNA-binding protein; specifically binds to transcribed chromatin in a THO- and RNA-dependent manner, genetically interacts with shuttling hnRNP NAB2; overproduction suppresses transcriptional defect caused by hpr1 mutation
+S000033296	CDS					YER063W		5	281710	282366	W		2011-02-03	1996-07-31	
+S000000866	ORF	Verified	YER064C	VHR2		chromosome 5		5	284222	282705	C		2011-02-03	1996-07-31	Non-essential nuclear protein; null mutation has global effects on transcription; VHR2 has a paralog, VHR1, that arose from the whole genome duplication; relative distribution to the nucleus increases upon DNA replication stress
+S000033339	CDS					YER064C		5	284222	282705	C		2011-02-03	1996-07-31	
+S000000867	ORF	Verified	YER065C	ICL1	isocitrate lyase 1	chromosome 5	L000000848	5	286914	285241	C		2011-02-03	1996-07-31	Isocitrate lyase; catalyzes the formation of succinate and glyoxylate from isocitrate, a key reaction of the glyoxylate cycle; expression of ICL1 is induced by growth on ethanol and repressed by growth on glucose
+S000033405	CDS					YER065C		5	286914	285241	C		2011-02-03	1996-07-31	
+S000077386	ARS		ARS514		ARSV-288	chromosome 5		5	287552	287629			2014-11-18	2014-11-18|2004-10-19|2006-09-07	Autonomously Replicating Sequence
+S000178089	ARS_consensus_sequence					ARS514		5	287565	287581	W		2014-11-18	2014-11-18	
+S000006894	long_terminal_repeat		YERCdelta10			chromosome 5		5	288062	287745	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006734	tRNA_gene		tS(UGA)E	SUP19	SUP20	chromosome 5	L000002192|L000003805	5	288524	288443	C	50	2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000034046	noncoding_exon					tS(UGA)E		5	288524	288443	C		2011-02-03	2000-05-19	
+S000000868	ORF	Uncharacterized	YER066W	RRT13		chromosome 5		5	290242	290799	W		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene identified in a screen for mutants with decreased levels of rDNA transcription
+S000034374	CDS					YER066W		5	290242	290799	W		2011-02-03	1996-07-31	
+S000000869	ORF	Verified	YER067W	RGI1		chromosome 5		5	292066	292551	W		2011-02-03	1996-07-31	Protein of unknown function; involved in energy metabolism under respiratory conditions; protein abundance is increased upon intracellular iron depletion or in response to DNA replication stress; RGI1 has a paralog, RGI2, that arose from the whole genome duplication
+S000034452	CDS					YER067W		5	292066	292551	W		2011-02-03	1996-07-31	
+S000002959	ORF	Dubious	YER066C-A			chromosome 5		5	292203	291703	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized ORF YER067W
+S000035687	CDS					YER066C-A		5	292203	291703	C		2011-02-03	1996-07-31	
+S000028748	ORF	Dubious	YER067C-A			chromosome 5		5	292563	292240	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF RGI1/YER067W
+S000033418	CDS					YER067C-A		5	292563	292240	C		2011-02-03	2003-07-29	
+S000000870	ORF	Verified	YER068W	MOT2	CCR4-NOT core ubiquitin-protein ligase subunit MOT2|SIG1|NOT4	chromosome 5	L000001887|L000001137	5	293050	294813	W		2011-02-03	1996-07-31	Ubiquitin-protein ligase subunit of the CCR4-NOT complex; with Ubc4p, ubiquitinates nascent polypeptide-associated complex subunits and histone demethyase Jhd2p; CCR4-NOT has roles in transcription regulation, mRNA degradation, and post-transcriptional modifications; regulates levels of DNA Polymerase-{alpha} to promote efficient and accurate DNA replication
+S000035479	CDS					YER068W		5	293050	294813	W		2011-02-03	1996-07-31	
+S000000871	ORF	Verified	YER069W	ARG5,6	argC|argB|bifunctional acetylglutamate kinase/N-acetyl-gamma-glutamyl-phosphate reductase	chromosome 5	L000000110	5	295410	298001	W	55	2011-02-03	1996-07-31	Acetylglutamate kinase and N-acetyl-gamma-glutamyl-phosphate reductase; N-acetyl-L-glutamate kinase (NAGK) catalyzes the 2nd and N-acetyl-gamma-glutamyl-phosphate reductase (NAGSA), the 3rd step in arginine biosynthesis; synthesized as a precursor which is processed in the mitochondrion to yield mature NAGK and NAGSA; enzymes form a metabolon complex with Arg2p; NAGK C-terminal domain stabilizes the enzymes, slows catalysis and is involved in feed-back inhibition by arginine
+S000035588	CDS					YER069W		5	295410	298001	W		2011-02-03	1996-07-31	
+S000028749	ORF	Dubious	YER068C-A			chromosome 5		5	295732	295301	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF ARG5,6/YER069W
+S000033419	CDS					YER068C-A		5	295732	295301	C		2011-02-03	2003-07-29	
+S000000872	ORF	Verified	YER070W	RNR1	ribonucleotide-diphosphate reductase subunit RNR1|SDS12|RIR1|CRT7	chromosome 5	L000001655	5	298950	301616	W		2011-02-03	1996-07-31	Major isoform of large subunit of ribonucleotide-diphosphate reductase; the RNR complex catalyzes rate-limiting step in dNTP synthesis, regulated by DNA replication and DNA damage checkpoint pathways via localization of small subunits; relative distribution to the nucleus increases upon DNA replication stress; RNR1 has a paralog, RNR3, that arose from the whole genome duplication
+S000035499	CDS					YER070W		5	298950	301616	W		2011-02-03	1996-07-31	
+S000000873	ORF	Uncharacterized	YER071C	TDA2		chromosome 5		5	302327	301947	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; null mutant is sensitive to expression of the top1-T722A allele
+S000035526	CDS					YER071C		5	302327	301947	C		2011-02-03	1996-07-31	
+S000000874	ORF	Verified	YER072W	VTC1	PHM4|NRF1	chromosome 5	L000004689	5	302806	303195	W		2011-02-03	1996-07-31	Regulatory subunit of the vacuolar transporter chaperone (VTC) complex; VTC complex is involved in membrane trafficking, vacuolar polyphosphate accumulation, microautophagy and non-autophagic vacuolar fusion; also has mRNA binding activity; protein abundance increases in response to DNA replication stress
+S000036469	CDS					YER072W		5	302806	303195	W		2011-02-03	1996-07-31	
+S000000875	ORF	Verified	YER073W	ALD5	aldehyde dehydrogenase (NAD(P)(+)) ALD5	chromosome 5	L000004949	5	304030	305592	W		2011-02-03	1996-07-31|2011-02-03	Mitochondrial aldehyde dehydrogenase; involved in regulation or biosynthesis of electron transport chain components and acetate formation; activated by K+; utilizes NADP+ as the preferred coenzyme; constitutively expressed
+S000036548	CDS					YER073W		5	304030	305592	W		2011-02-03	1996-07-31|2011-02-03	
+S000000876	ORF	Verified	YER074W	RPS24A	eS24|ribosomal 40S subunit protein S24A|S24e|S24A|RPS24EA	chromosome 5	L000002710	5	306323	307196	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S24, no bacterial homolog; RPS24A has a paralog, RPS24B, that arose from the whole genome duplication
+S000036669	CDS					YER074W		5	306323	306325	W		2011-02-03	1996-07-31	
+S000036670	CDS					YER074W		5	306792	307196	W		2011-02-03	1996-07-31	
+S000036671	intron					YER074W		5	306326	306791	W		2011-02-03	1996-07-31	
+S000007651	ORF	Verified	YER074W-A	YOS1		chromosome 5		5	307653	308123	W		2011-02-03	2004-01-08|2001-06-29	Integral membrane protein required for ER to Golgi transport; localized to the Golgi, the ER, and COPII vesicles; interacts with Yip1p and Yif1p
+S000037341	CDS					YER074W-A		5	307653	307746	W		2011-02-03	2004-01-08|2001-06-29	
+S000037342	CDS					YER074W-A		5	307849	307956	W		2011-02-03	2004-01-08|2001-06-29	
+S000037343	CDS					YER074W-A		5	308068	308123	W		2011-02-03	2004-01-08|2001-06-29	
+S000037344	intron					YER074W-A		5	307747	307848	W		2011-02-03	2004-01-08|2001-06-29	
+S000037345	intron					YER074W-A		5	307957	308067	W		2011-02-03	2004-01-08|2001-06-29	
+S000000877	ORF	Verified	YER075C	PTP3	tyrosine protein phosphatase PTP3	chromosome 5	L000003996	5	311199	308413	C		2011-02-03	1996-07-31|2011-02-03	Phosphotyrosine-specific protein phosphatase; involved in the inactivation of mitogen-activated protein kinase (MAPK) during osmolarity sensing; dephosporylates Hog1p MAPK and regulates its localization; localized to the cytoplasm
+S000036705	CDS					YER075C		5	311199	308413	C		2011-02-03	1996-07-31|2011-02-03	
+S000006522	tRNA_gene		tA(UGC)E			chromosome 5	L000003804	5	312095	312023	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
+S000034855	noncoding_exon					tA(UGC)E		5	312095	312023	C		2011-02-03	2000-05-19	
+S000006914	long_terminal_repeat		YERWdelta11			chromosome 5		5	312274	312445	W		2011-02-03	2000-05-19	Ty1 LTR
+S000028750	ORF	Dubious	YER076W-A			chromosome 5		5	313390	313737	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YER076C
+S000033444	CDS					YER076W-A		5	313390	313737	W		2011-02-03	2003-07-29	
+S000000878	ORF	Uncharacterized	YER076C			chromosome 5		5	313498	312590	C		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; analysis of HA-tagged protein suggests a membrane localization
+S000037415	CDS					YER076C		5	313498	312590	C		2011-02-03	1996-07-31	
+S000000879	ORF	Uncharacterized	YER077C	MRX1		chromosome 5		5	316600	314534	C		2011-02-03	1996-07-31	Protein that associates with mitochondrial ribosome; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; null mutation results in a decrease in plasma membrane electron transport
+S000037540	CDS					YER077C		5	316600	314534	C		2011-02-03	1996-07-31	
+S000077387	ARS		ARS515			chromosome 5		5	316600	316807			2011-02-03	2004-10-19	Autonomously Replicating Sequence
+S000000880	ORF	Verified	YER078C	ICP55	aminopeptidase	chromosome 5		5	318342	316807	C		2011-02-03	1996-07-31	Mitochondrial aminopeptidase; cleaves the N termini of at least 38 imported proteins after cleavage by the mitochondrial processing peptidase (MPP), thereby increasing their stability; member of the aminopeptidase P family
+S000037656	CDS					YER078C		5	318342	316807	C		2011-02-03	1996-07-31	
+S000028546	ORF	Uncharacterized	YER078W-A			chromosome 5		5	318646	318810	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031196	CDS					YER078W-A		5	318646	318810	W		2011-02-03	2003-07-29	
+S000000881	ORF	Uncharacterized	YER079W			chromosome 5		5	318920	319552	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000030524	CDS					YER079W		5	318920	319552	W		2011-02-03	1996-07-31	
+S000000882	ORF	Verified	YER080W	AIM9	FMP29	chromosome 5		5	319963	321846	W		2011-02-03	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays elevated frequency of mitochondrial genome loss
+S000031341	CDS					YER080W		5	319963	321846	W		2011-02-03	1996-07-31	
+S000028751	ORF	Dubious	YER079C-A			chromosome 5		5	320240	319902	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF AIM9/YER080W
+S000033445	CDS					YER079C-A		5	320240	319902	C		2011-02-03	2003-07-29	
+S000029010	ncRNA_gene		SRG1	SRG1		chromosome 5		5	322212	322762	W		2011-02-03	2003-10-29	Non-protein-coding RNA that regulates the transcription of SER3; expression of SRG1 RNA represses expression of its neighboring gene SER3 via a transcription-interference mechanism
+S000035975	noncoding_exon					SRG1		5	322212	322762	W		2011-02-03	2003-10-29	
+S000000883	ORF	Verified	YER081W	SER3	phosphoglycerate dehydrogenase SER3	chromosome 5	S000007457	5	322686	324095	W		2011-02-03	1996-07-31	3-phosphoglycerate dehydrogenase and alpha-ketoglutarate reductase; 3PG dehydrogenase that catalyzes the first step in serine and glycine biosynthesis; also functions as an alpha-ketoglutarate reductase, converting alpha-ketoglutarate to D-2-hydroxyglutarate (D-2HG); localizes to the cytoplasm; SER3 has a paralog, SER33, that arose from the whole genome duplication
+S000031424	CDS					YER081W		5	322686	324095	W		2011-02-03	1996-07-31	
+S000000884	ORF	Verified	YER082C	UTP7	KRE31	chromosome 5		5	325936	324272	C		2011-02-03	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
+S000031483	CDS					YER082C		5	325936	324272	C		2011-02-03	1996-07-31	
+S000000885	ORF	Verified	YER083C	GET2	GET complex subunit GET2|RMD7|HUR2	chromosome 5		5	327031	326174	C		2011-02-03	2003-09-22|1996-07-31	Subunit of the GET complex; involved in insertion of proteins into the ER membrane; required for the retrieval of HDEL proteins from the Golgi to the ER in an ERD2 dependent fashion and for meiotic nuclear division
+S000031538	CDS					YER083C		5	327031	326174	C		2011-02-03	2003-09-22|1996-07-31	
+S000000886	ORF	Uncharacterized	YER084W			chromosome 5		5	327065	327451	W		2011-02-03	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels
+S000032559	CDS					YER084W		5	327065	327451	W		2011-02-03	1996-07-31	
+S000028752	ORF	Dubious	YER084W-A			chromosome 5		5	327598	328110	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps uncharacterized ORF YER085C
+S000033446	CDS					YER084W-A		5	327598	328110	W		2011-02-03	2003-07-29	
+S000000887	ORF	Uncharacterized	YER085C			chromosome 5		5	328140	327619	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000032615	CDS					YER085C		5	328140	327619	C		2011-02-03	1996-07-31	
+S000000888	ORF	Verified	YER086W	ILV1	threonine ammonia-lyase ILV1|ISO1	chromosome 5	L000000857	5	328477	330207	W	64	2011-02-03	1999-07-17|1996-07-31	Threonine deaminase, catalyzes first step in isoleucine biosynthesis; expression is under general amino acid control; ILV1 locus exhibits highly positioned nucleosomes whose organization is independent of known ILV1 regulation
+S000032774	CDS					YER086W		5	328477	330207	W		2011-02-03	1996-07-31	
+S000000889	ORF	Verified	YER087W	AIM10	putative proline--tRNA ligase AIM10	chromosome 5		5	330576	332306	W		2011-02-03	1996-07-31	Protein with similarity to tRNA synthetases; non-tagged protein is detected in purified mitochondria; null mutant is viable and displays elevated frequency of mitochondrial genome loss
+S000033504	CDS					YER087W		5	330576	332306	W		2011-02-03	1996-07-31	
+S000028753	ORF	Dubious	YER087C-A			chromosome 5		5	332368	331817	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF AIM10/YER087W
+S000033447	CDS					YER087C-A		5	332368	331817	C		2011-02-03	2003-07-29	
+S000002128	ORF	Verified	YER087C-B	SBH1	Arf family guanine nucleotide exchange factor SBH1|YER087C-A|SEB1	chromosome 5	L000002846|L000004137	5	332830	332582	C		2011-02-03	1996-07-31	Beta subunit of Sec61p ER translocation complex (Sec61p-Sss1p-Sbh1p); involved in protein translocation into the endoplasmic reticulum; interacts with the exocyst complex and also with Rtn1p; cotranslationally N-acetylated by NatA; SBH1 has a paralog, SBH2, that arose from the whole genome duplication
+S000037045	CDS					YER087C-B		5	332830	332582	C		2011-02-03	1996-07-31	
+S000000890	ORF	Verified	YER088C	DOT6	PBF2	chromosome 5	L000004393	5	335188	333176	C		2011-02-03	1996-07-31	Protein involved in rRNA and ribosome biogenesis; activated in stochastic pulses of nuclear localization; binds polymerase A and C motif; subunit of the RPD3L histone deacetylase complex; has chromatin specific SANT domain; involved in telomeric gene silencing and filamentation; relative distribution to the nucleus increases upon DNA replication stress
+S000033553	CDS					YER088C		5	335188	333176	C		2011-02-03	1996-07-31	
+S000028623	ORF	Dubious	YER088W-B			chromosome 5		5	335927	336073	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the ORF PTC2/YER089C; identified by gene-trapping, expression analysis, and homology searching
+S000031475	CDS					YER088W-B		5	335927	336073	W		2011-02-03	2003-07-29	
+S000028754	ORF	Dubious	YER088C-A			chromosome 5		5	336019	335696	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORFs PTC2/YER089C and YER088W-B
+S000033448	CDS					YER088C-A		5	336019	335696	C		2011-02-03	2003-07-29	
+S000000891	ORF	Verified	YER089C	PTC2	type 2C protein phosphatase PTC2	chromosome 5	L000003403	5	337340	335946	C		2011-02-03	1996-07-31	Type 2C protein phosphatase (PP2C); dephosphorylates Hog1p to limit maximal osmostress induced kinase activity; dephosphorylates Ire1p to downregulate the unfolded protein response; dephosphorylates Cdc28p; inactivates the DNA damage checkpoint; PTC2 has a paralog, PTC3, that arose from the whole genome duplication
+S000033635	CDS					YER089C		5	337340	335946	C		2011-02-03	1996-07-31	
+S000000892	ORF	Verified	YER090W	TRP2	anthranilate synthase TRP2	chromosome 5	L000002353	5	337949	339472	W	76	2011-02-03	1996-07-31	Anthranilate synthase; catalyzes the initial step of tryptophan biosynthesis, forms multifunctional hetero-oligomeric anthranilate synthase:indole-3-glycerol phosphate synthase enzyme complex with Trp3p
+S000035640	CDS					YER090W		5	337949	339472	W		2011-02-03	1996-07-31	
+S000029725	ORF	Dubious	YER090C-A			chromosome 5		5	338411	338322	C		2011-02-03	2004-08-27	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036876	CDS					YER090C-A		5	338411	338322	C		2011-02-03	2004-08-27	
+S000000893	ORF	Verified	YER091C	MET6	5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase	chromosome 5	L000001081	5	342167	339864	C	77	2011-02-03	1996-07-31	Cobalamin-independent methionine synthase; involved in methionine biosynthesis and regeneration; requires a minimum of two glutamates on the methyltetrahydrofolate substrate, similar to bacterial metE homologs
+S000035673	CDS					YER091C		5	342167	339864	C		2011-02-03	1996-07-31	
+S000007238	ORF	Dubious	YER091C-A			chromosome 5		5	342611	342390	C		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034939	CDS					YER091C-A		5	342611	342390	C		2011-02-03	1999-07-17	
+S000000894	ORF	Verified	YER092W	IES5		chromosome 5		5	342855	343232	W		2011-02-03	1996-07-31	Non-essential INO80 chromatin remodeling complex subunit; deletion affects telomere maintenance via recombination
+S000035789	CDS					YER092W		5	342855	343232	W		2011-02-03	1996-07-31	
+S000000895	ORF	Verified	YER093C	TSC11	TORC2 complex subunit TSC11|AVO3	chromosome 5		5	347612	343320	C		2011-02-03	1996-07-31	Subunit of TORC2 (Tor2p-Lst8p-Avo1-Avo2-Tsc11p-Bit61p); TORC2 is a membrane-associated complex that regulates actin cytoskeletal dynamics during polarized growth and cell wall integrity; involved in sphingolipid metabolism; contains a RasGEFN domain
+S000035826	CDS					YER093C		5	347612	343320	C		2011-02-03	1996-07-31	
+S000002960	ORF	Verified	YER093C-A	AIM11	GEP8	chromosome 5		5	348400	347912	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant is viable but shows increased loss of mitochondrial genome and synthetic interaction with prohibitin (phb1); contains an intron; SWAT-GFP and mCherry fusion proteins localize to the mitochondria; YER093C-A has a paralog, YBL059W, that arose from the whole genome duplication
+S000030866	CDS					YER093C-A		5	348201	347912	C		2011-02-03	1996-07-31	
+S000030865	CDS					YER093C-A		5	348400	348277	C		2011-02-03	1996-07-31	
+S000030867	intron					YER093C-A		5	348276	348202	C		2011-02-03	1996-07-31	
+S000000896	ORF	Verified	YER094C	PUP3	proteasome core particle subunit beta 3|SCS32	chromosome 5	L000001532	5	349346	348729	C		2011-02-03	1996-07-31	Beta 3 subunit of the 20S proteasome; involved in ubiquitin-dependent catabolism; human homolog is subunit C10
+S000035946	CDS					YER094C		5	349346	348729	C		2011-02-03	1996-07-31	
+S000000897	ORF	Verified	YER095W	RAD51	recombinase RAD51|MUT5	chromosome 5	L000001571	5	349980	351182	W	78	2011-02-03	1996-07-31	Strand exchange protein; forms a helical filament with DNA that searches for homology; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; homolog of Dmc1p and bacterial RecA protein
+S000036878	CDS					YER095W		5	349980	351182	W		2011-02-03	1996-07-31	
+S000000898	ORF	Verified	YER096W	SHC1		chromosome 5	L000001879	5	351698	353236	W	79.23	2011-02-03	1996-07-31	Sporulation-specific activator of Chs3p (chitin synthase III); required for the synthesis of the chitosan layer of ascospores; transcriptionally induced at alkaline pH; SHC1 has a paralog, SKT5, that arose from the whole genome duplication
+S000036926	CDS					YER096W		5	351698	353236	W		2011-02-03	1996-07-31	
+S000006915	long_terminal_repeat		YERWdelta12			chromosome 5		5	353399	353735	W		2011-02-03	2000-05-19	Ty1 LTR
+S000077388	ARS		ARS516		ARSV-354	chromosome 5		5	353578	353636			2014-11-18	2014-11-18|2004-10-19|2006-10-02	Autonomously Replicating Sequence
+S000178090	ARS_consensus_sequence					ARS516		5	353582	353598	W		2014-11-18	2014-11-18	
+S000006916	long_terminal_repeat		YERWdelta13			chromosome 5		5	354136	354850	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006908	long_terminal_repeat		YERCtau2			chromosome 5		5	354730	354360	C		2011-02-03	2000-05-19	Ty4 LTR
+S000006905	long_terminal_repeat		YERCsigma2			chromosome 5		5	354917	354851	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006551	tRNA_gene		tE(UUC)E2			chromosome 5	L000003795	5	354934	355005	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034437	noncoding_exon					tE(UUC)E2		5	354934	355005	W		2011-02-03	2000-05-19	
+S000000899	ORF	Dubious	YER097W			chromosome 5		5	355140	355469	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036977	CDS					YER097W		5	355140	355469	W		2011-02-03	1996-07-31	
+S000000900	ORF	Verified	YER098W	UBP9	putative ubiquitin-specific protease UBP9	chromosome 5	L000003170	5	355466	357730	W		2011-02-03	1996-07-31	Ubiquitin-specific protease that cleaves ubiquitin-protein fusions; UBP9 has a paralog, UBP13, that arose from the whole genome duplication
+S000037747	CDS					YER098W		5	355466	357730	W		2011-02-03	1996-07-31	
+S000000901	ORF	Verified	YER099C	PRS2	ribose phosphate diphosphokinase subunit PRS2	chromosome 5	L000001512	5	359061	358105	C		2011-02-03	1996-07-31	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase, synthesizes PRPP; which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes; PRS2 has a paralog, PRS4, that arose from the whole genome duplication
+S000037788	CDS					YER099C		5	359061	358105	C		2011-02-03	1996-07-31	
+S000000902	ORF	Verified	YER100W	UBC6	E2 ubiquitin-conjugating protein UBC6|DOA2	chromosome 5	L000002409	5	359562	360314	W		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme involved in ERAD; located at the cytosolic side of the ER membrane; tail region contains a transmembrane segment at the C-terminus; substrate of the ubiquitin-proteasome pathway; ER-associated protein degradation is also known as ERAD
+S000035454	CDS					YER100W		5	359562	360314	W		2011-02-03	1996-07-31	
+S000000903	ORF	Verified	YER101C	AST2		chromosome 5	L000000134	5	361794	360502	C		2011-02-03	1996-07-31	Lipid raft associated protein; overexpression restores Pma1p localization to lipid rafts which is required for targeting of Pma1p to the plasma membrane; sometimes classified in the medium-chain dehydrogenase/reductases (MDRs) superfamily; AST2 has a paralog, AST1, that arose from the whole genome duplication
+S000036309	CDS					YER101C		5	361794	360502	C		2011-02-03	1996-07-31	
+S000000904	ORF	Verified	YER102W	RPS8B	eS8|ribosomal 40S subunit protein S8B|S8e|rp19|YS9|S8B|S14B	chromosome 5	L000001754	5	363100	363702	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S8, no bacterial homolog; RPS8B has a paralog, RPS8A, that arose from the whole genome duplication
+S000036450	CDS					YER102W		5	363100	363702	W		2011-02-03	1996-07-31	
+S000122096	five_prime_UTR_intron					YER102W		5	362733	363092	W		2011-02-03	2007-04-04	
+S000000905	ORF	Verified	YER103W	SSA4	Hsp70 family chaperone SSA4|YG107	chromosome 5	L000002072	5	364589	366517	W		2011-02-03	1996-07-31	Heat shock protein that is highly induced upon stress; plays a role in SRP-dependent cotranslational protein-membrane targeting and translocation; member of the HSP70 family; cytoplasmic protein that concentrates in nuclei upon starvation; SSA4 has a paralog, SSA3, that arose from the whole genome duplication
+S000036552	CDS					YER103W		5	364589	366517	W		2011-02-03	1996-07-31	
+S000000906	ORF	Verified	YER104W	RTT105		chromosome 5	S000007476	5	366802	367428	W		2011-02-03	1996-07-31	Protein with a role in regulation of Ty1 transposition
+S000037250	CDS					YER104W		5	366802	367428	W		2011-02-03	1996-07-31	
+S000000907	ORF	Verified	YER105C	NUP157		chromosome 5	L000003139	5	372013	367838	C		2011-02-03	1996-07-31	Subunit of the inner ring of the nuclear pore complex (NPC); contributes to NPC assembly and tethering of DNA to the nuclear periphery; both Nup170p and NUP157p are similar to human Nup155p; NUP157 has a paralog, NUP170, that arose from the whole genome duplication
+S000037287	CDS					YER105C		5	372013	367838	C		2011-02-03	1996-07-31	
+S000000908	ORF	Verified	YER106W	MAM1		chromosome 5		5	372326	373234	W		2011-02-03	1996-07-31	Monopolin; meiosis-specific kinetochore-associated protein involved in monopolar attachment of sister kinetochores to the meiotic spindle; subunit of monopolin, a complex that prevents biorientation of sister kinetochores to ensure homolog biorientation during meiosis I; regulates the conformation, enzyme kinetics and substrate specificity of the Dsn1p kinase, Hrr1p; expressed only during the first meiotic division
+S000037445	CDS					YER106W		5	372326	373234	W		2011-02-03	1996-07-31	
+S000028755	ORF	Dubious	YER107W-A			chromosome 5		5	374394	374714	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF GLE2/YER107C
+S000033449	CDS					YER107W-A		5	374394	374714	W		2011-02-03	2003-07-29	
+S000000909	ORF	Verified	YER107C	GLE2	RNA export factor GLE2|RAE1	chromosome 5	L000004084	5	374545	373448	C		2011-02-03	1996-07-31	RNA export factor associated with the nuclear pore complex (NPC); associates with NUP116p; required for polyadenylated RNA export but not for protein import; homologous to S. pombe Rae1p and human RAE1
+S000037509	CDS					YER107C		5	374545	373448	C		2011-02-03	1996-07-31	
+S000000911	blocked_reading_frame		YER109C	FLO8	transcription factor FLO8|STA10|YER108C|PHD5	chromosome 5	L000003202|S000000910|S000029523|L000004208	5	377614	375215	C		2011-02-03	1999-07-17|1996-07-31	Transcription factor; required for flocculation, diploid filamentous growth, and haploid invasive growth; forms a heterodimer with Mss1p that interacts with the Swi/Snf complex during transcriptional activation of FLO1, FLO11, and STA1; S. cerevisiae genome reference strain S288C contains an internal in-frame stop at codon 142, which in other strains encodes tryptophan
+S000030400	CDS					YER109C		5	377614	375215	C		2011-02-03	1999-07-17|1996-07-31	
+S000000912	ORF	Verified	YER110C	KAP123	YRB4	chromosome 5	L000003445|L000003466	5	382103	378762	C		2011-02-03	1996-07-31	Karyopherin beta; mediates nuclear import of ribosomal proteins prior to assembly into ribosomes and import of histones H3 and H4; localizes to the nuclear pore, nucleus, and cytoplasm; exhibits genetic interactions with RAI1
+S000030722	CDS					YER110C		5	382103	378762	C		2011-02-03	1996-07-31	
+S000000913	ORF	Verified	YER111C	SWI4	SBF complex DNA-binding subunit SWI4|ART1	chromosome 5	L000000124|L000002252	5	385876	382595	C		2011-02-03	1996-07-31	DNA binding component of the SBF complex (Swi4p-Swi6p); a transcriptional activator that in concert with MBF (Mbp1-Swi6p) regulates late G1-specific transcription of targets including cyclins and genes required for DNA synthesis and repair; Slt2p-independent regulator of cold growth; acetylation at two sites, K1016 and K1066, regulates interaction with Swi6p
+S000031559	CDS					YER111C		5	385876	382595	C		2011-02-03	1996-07-31	
+S000000914	ORF	Verified	YER112W	LSM4	U6 snRNA complex subunit LSM4|USS1|SDB23	chromosome 5	L000002447	5	387232	387795	W		2011-02-03	1996-07-31	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; forms cytoplasmic foci upon DNA replication stress
+S000031681	CDS					YER112W		5	387232	387795	W		2011-02-03	1996-07-31	
+S000000915	ORF	Verified	YER113C	TMN3		chromosome 5		5	390052	387932	C		2011-02-03	1996-07-31	Protein with a role in cellular adhesion and filamentous growth; similar to Emp70p and Tmn2p; member of Transmembrane Nine family with 9 transmembrane segments; localizes to Golgi; induced by 8-methoxypsoralen plus UVA irradiation
+S000031762	CDS					YER113C		5	390052	387932	C		2011-02-03	1996-07-31	
+S000000916	ORF	Verified	YER114C	BOI2	BEB1	chromosome 5	L000000166|L000002916	5	393712	390590	C		2011-02-03	1996-07-31	Protein implicated in polar growth, functionally redundant with Boi1p; interacts with bud-emergence protein Bem1p; contains an SH3 (src homology 3) domain and a PH (pleckstrin homology) domain; BOI2 has a paralog, BOI1, that arose from the whole genome duplication
+S000031880	CDS					YER114C		5	393712	390590	C		2011-02-03	1996-07-31	
+S000000917	ORF	Verified	YER115C	SPR6		chromosome 5	L000002023	5	394867	394292	C	93	2011-02-03	1996-07-31	Protein of unknown function; expressed during sporulation; not required for sporulation, but gene exhibits genetic interactions with other genes required for sporulation
+S000032791	CDS					YER115C		5	394867	394292	C		2011-02-03	1996-07-31	
+S000000918	ORF	Verified	YER116C	SLX8	SUMO-targeted ubiquitin ligase complex subunit SLX8	chromosome 5		5	396172	395348	C		2011-02-03	1996-07-31	Subunit of Slx5-Slx8 SUMO-targeted ubiquitin ligase (STUbL) complex; role in proteolysis of spindle positioning protein Kar9, DNA repair proteins Rad52p and Rad57p; stimulated by SUMO-modified substrates; contains a C-terminal RING domain; forms nuclear foci upon DNA replication stress; required for maintenance of genome integrity like human ortholog RNF
+S000032881	CDS					YER116C		5	396172	395348	C		2011-02-03	1996-07-31	
+S000000919	ORF	Verified	YER117W	RPL23B	uL14|ribosomal 60S subunit protein L23B|L14|YL32|L23B|L17aB	chromosome 5	L000001717	5	396769	397653	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L23B; homologous to mammalian ribosomal protein L23 and bacterial L14; RPL23B has a paralog, RPL23A, that arose from the whole genome duplication
+S000033044	CDS					YER117W		5	396769	396810	W		2011-02-03	1996-07-31	
+S000033045	CDS					YER117W		5	397282	397653	W		2011-02-03	1996-07-31	
+S000033046	intron					YER117W		5	396811	397281	W		2011-02-03	1996-07-31	
+S000000920	ORF	Verified	YER118C	SHO1	osmosensor SHO1|SSU81	chromosome 5	L000002632|L000002823	5	399055	397952	C		2011-02-03	1996-07-31	Transmembrane osmosensor for filamentous growth and HOG pathways; involved in activation of the Cdc42p- and MAP kinase-dependent filamentous growth pathway and the high-osmolarity glycerol (HOG) response pathway; phosphorylated by Hog1p; interacts with Pbs2p, Msb2p, Hkr1p, and Ste11p
+S000033082	CDS					YER118C		5	399055	397952	C		2011-02-03	1996-07-31	
+S000000921	ORF	Verified	YER119C	AVT6	aspartate/glutamate transporter	chromosome 5		5	400842	399496	C		2011-02-03	1996-07-31	Vacuolar aspartate and glutamate exporter; member of a family of seven genes (AVT1-7) related to vesicular GABA-glycine transporters; involved in compartmentalizing acidic amino acids in response to nitrogen starvation; AVT6 has a paralog, AVT5, that arose from the whole genome duplication
+S000033839	CDS					YER119C		5	400842	399496	C		2011-02-03	1996-07-31	
+S000000922	ORF	Verified	YER120W	SCS2	phosphatidylinositol-binding protein SCS2	chromosome 5	L000002629	5	401135	401869	W		2011-02-03	1996-07-31	Integral ER membrane protein, regulates phospholipid metabolism; one of 6 proteins (Ist2p, Scs2p, Scs22p, Tcb1p, Tcb2p, Tcb3p) that connect ER to plasma membrane (PM) and regulate PI4P levels by controlling access of Sac1p phosphatase to substrate PI4P in the PM; interacts with FFAT motifs in Opi1p, Swh1p, Osh2p, and Osh3p; involved in telomeric silencing; VAP homolog; SCS2 has a paralog, SCS22, that arose from the whole genome duplication
+S000036090	CDS					YER120W		5	401135	401869	W		2011-02-03	1996-07-31	
+S000002961	ORF	Dubious	YER119C-A			chromosome 5		5	401238	400867	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; deletion mutation blocks replication of Brome mosaic virus in S. cerevisiae, but this is likely due to effects on the overlapping gene SCS2
+S000033092	CDS					YER119C-A		5	401238	400867	C		2011-02-03	1996-07-31	
+S000000923	ORF	Uncharacterized	YER121W			chromosome 5		5	402375	402719	W		2011-02-03	1996-07-31	Putative protein of unknown function; may be involved in phosphatase regulation and/or generation of precursor metabolites and energy
+S000036211	CDS					YER121W		5	402375	402719	W		2011-02-03	1996-07-31	
+S000000924	ORF	Verified	YER122C	GLO3	ADP-ribosylation factor GTPase-activating protein	chromosome 5	L000000713	5	404352	402871	C		2011-02-03	1996-07-31	ADP-ribosylation factor GTPase activating protein (ARF GAP); involved in ER-Golgi transport; shares functional similarity with Gcs1p
+S000036231	CDS					YER122C		5	404352	402871	C		2011-02-03	1996-07-31	
+S000000925	ORF	Verified	YER123W	YCK3	casein kinase YCK3|CKI3	chromosome 5	L000002915	5	404813	406387	W		2011-02-03	2000-03-16|1996-07-31	Palmitoylated vacuolar membrane-localized casein kinase I isoform; negatively regulates vacuole fusion during hypertonic stress via phosphorylation of Vps41p; shares essential functions with Hrr25p; regulates vesicle fusion in AP-3 pathway
+S000036985	CDS					YER123W		5	404813	406387	W		2011-02-03	2000-03-16|1996-07-31	
+S000077389	ARS		ARS517		ARSV-407	chromosome 5		5	406752	406953			2011-02-03	2004-10-19|2006-09-07	Autonomously Replicating Sequence
+S000000926	ORF	Verified	YER124C	DSE1		chromosome 5		5	409063	407342	C		2011-02-03	1996-07-31	Daughter cell-specific protein; may regulate cross-talk between the mating and filamentation pathways; deletion affects cell separation after division and sensitivity to alpha-factor and drugs affecting the cell wall; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000037009	CDS					YER124C		5	409063	407342	C		2011-02-03	1996-07-31	
+S000000927	ORF	Verified	YER125W	RSP5	NEDD4 family E3 ubiquitin-protein ligase|SMM1|UBY1|NPI1|MUT2|MDP1	chromosome 5	L000001054|L000001779|L000001220	5	410189	412618	W		2011-02-03	1996-07-31	NEDD4 family E3 ubiquitin ligase; regulates processes including: MVB sorting, the heat shock response, transcription, endocytosis and ribosome stability; ubiquitinates Sec23p, Sna3p, Ste4p, Nfi1p, Rpo21p and Sem1p; autoubiquitinates; deubiquitinated by Ubp2p; regulated by SUMO ligase Siz1p, in turn regulates Siz1p SUMO ligase activity; required for efficient Golgi-to-ER trafficking in COPI mutants; mutant tolerates aneuploidy; human homolog implicated in Liddle syndrome
+S000037135	CDS					YER125W		5	410189	412618	W		2011-02-03	1996-07-31	
+S000000928	ORF	Verified	YER126C	NSA2	rRNA-processing protein NSA2	chromosome 5		5	414179	413394	C		2011-02-03	1996-07-31	Protein constituent of 66S pre-ribosomal particles; contributes to processing of the 27S pre-rRNA; recruited by ribosomal proteins L17, L35, and L37 to assembling ribosomes after 27SB pre-rRNA is generated, immediately preceding removal of ITS2
+S000037193	CDS					YER126C		5	414179	413394	C		2011-02-03	1996-07-31	
+S000000929	ORF	Verified	YER127W	LCP5		chromosome 5	L000004265	5	414481	415554	W		2011-02-03	1996-07-31	Essential protein involved in maturation of 18S rRNA; depletion leads to inhibited pre-rRNA processing and reduced polysome levels; localizes primarily to the nucleolus
+S000029893	CDS					YER127W		5	414481	415554	W		2011-02-03	1996-07-31	
+S000000930	ORF	Verified	YER128W	VFA1		chromosome 5		5	415859	416470	W		2011-02-03	1996-07-31	Protein that interacts with Vps4p and has a role in vacuolar sorting; stimulates the ATPase activity of Vps4; localizes to endosomes in a Vps4-dependent manner; overexpression causes canavanine sensitivity and confers a partial class D vacuole morphology
+S000030007	CDS					YER128W		5	415859	416470	W		2011-02-03	1996-07-31	
+S000000931	ORF	Verified	YER129W	SAK1	serine/threonine protein kinase SAK1|PAK1	chromosome 5	L000001333	5	417281	420709	W		2011-02-03	1996-07-31	Upstream serine/threonine kinase for the SNF1 complex; plays a role in pseudohyphal groth; partially redundant with Elm1p and Tos3p; members of this family have functional orthology with LKB1, a mammalian kinase associated with Peutz-Jeghers cancer-susceptibility syndrome; SAK1 has a paralog, TOS3, that arose from the whole genome duplication
+S000030128	CDS					YER129W		5	417281	420709	W		2011-02-03	1996-07-31	
+S000000932	ORF	Verified	YER130C	COM2		chromosome 5		5	422446	421115	C		2011-02-03	1996-07-31	Transcription factor that binds IME1 Upstream Activation Signal (UAS)ru; COM2 transcription is regulated by Haa1p, Sok2p and Zap1p transcriptional activators; may bind the IME1 promoter under all growth conditions to negatively regulate its transcription in the absence of a positive regulator that binds more effectively; repressor activity may depend on phosphorylation by PKA; C. albicans homolog (MNL1) plays a role in adaptation to stress
+S000031102	CDS					YER130C		5	422446	421115	C		2011-02-03	1996-07-31	
+S000000933	ORF	Verified	YER131W	RPS26B	eS26|ribosomal 40S subunit protein S26B|S26e|S26B	chromosome 5	L000001763	5	423952	424311	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S26, no bacterial homolog; RPS26B has a paralog, RPS26A, that arose from the whole genome duplication; human homolog can partially complement an RPS26A, RPS26B double null mutant; mutations in the human gene are associated with Diamond-Blackfan anemia
+S000031231	CDS					YER131W		5	423952	424311	W		2011-02-03	1996-07-31	
+S000122097	five_prime_UTR_intron					YER131W		5	423591	423951	W		2011-02-03	2007-04-04	
+S000006493	snoRNA_gene		snR4	SNR4		chromosome 5	L000001959	5	424698	424883	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA) but not shown to be active; no target site is predicted within the ribosomal RNAs
+S000034305	noncoding_exon					snR4		5	424698	424883	W		2011-02-03	2000-05-19	
+S000000934	ORF	Verified	YER132C	PMD1		chromosome 5	L000003968	5	430449	425188	C		2011-02-03	1996-07-31	Protein with an N-terminal kelch-like domain; putative negative regulator of early meiotic gene expression; required, with Mds3p, for growth under alkaline conditions; PMD1 has a paralog, MDS3, that arose from the whole genome duplication
+S000032160	CDS					YER132C		5	430449	425188	C		2011-02-03	1996-07-31	
+S000006443	snoRNA_gene		snR52	SNR52		chromosome 5	L000004521	5	431220	431129	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position U2921 and small subunit (SSU) rRNA at position A420
+S000030733	noncoding_exon					snR52		5	431220	431129	C		2011-02-03	2000-05-19	
+S000006895	long_terminal_repeat		YERCdelta14			chromosome 5		5	431822	431490	C		2011-02-03	2000-05-19	Ty1 LTR
+S000000935	ORF	Verified	YER133W	GLC7	type 1 serine/threonine-protein phosphatase catalytic subunit GLC7|DIS2S1|PP1|DIS2|CID1	chromosome 5	L000000706	5	432495	433958	W		2011-02-03	1996-07-31	Type 1 S/T protein phosphatase (PP1) catalytic subunit; involved in glycogen metabolism, sporulation and mitotic progression; interacts with multiple regulatory subunits; regulates actomyosin ring formation; subunit of CPF; recruited to mating projections by Afr1p interaction; regulates nucleocytoplasmic shuttling of Hxk2p; import into the nucleus is inhibited during spindle assembly checkpoint arrest; involved in dephosphorylating Rps6a/b and Bnr1p
+S000032307	CDS					YER133W		5	432495	432671	W		2011-02-03	1996-07-31	
+S000032308	CDS					YER133W		5	433197	433958	W		2011-02-03	1996-07-31	
+S000032309	intron					YER133W		5	432672	433196	W		2011-02-03	1996-07-31	
+S000006594	tRNA_gene		tH(GUG)E2			chromosome 5	L000003803	5	434612	434541	C		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
+S000035212	noncoding_exon					tH(GUG)E2		5	434612	434541	C		2011-02-03	2000-05-19	
+S000006906	long_terminal_repeat		YERCsigma3			chromosome 5		5	434971	434631	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006896	long_terminal_repeat		YERCdelta15			chromosome 5		5	435447	435128	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006619	tRNA_gene		tK(CUU)E2			chromosome 5	L000003802	5	435824	435752	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000037795	noncoding_exon					tK(CUU)E2		5	435824	435752	C		2011-02-03	2000-05-19	
+S000006897	long_terminal_repeat		YERCdelta16			chromosome 5		5	436277	435946	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006909	long_terminal_repeat		YERCtau3			chromosome 5		5	436605	436279	C		2011-02-03	2000-05-19	Ty4 LTR
+S000028756	ORF	Dubious	YER133W-A			chromosome 5		5	437191	437532	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF YER134C
+S000033450	CDS					YER133W-A		5	437191	437532	W		2011-02-03	2003-07-29	
+S000000936	ORF	Verified	YER134C		Mg-dependent acid phosphatase|MDP-1	chromosome 5		5	437803	437267	C		2011-02-03	1996-07-31	Magnesium-dependent acid phosphatase; member of the haloacid dehalogenase superfamily; non-essential gene
+S000032339	CDS					YER134C		5	437803	437267	C		2011-02-03	1996-07-31	
+S000000937	ORF	Uncharacterized	YER135C			chromosome 5		5	438344	437952	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YER135C is not an essential gene
+S000032452	CDS					YER135C		5	438344	437952	C		2011-02-03	1996-07-31	
+S000006753	tRNA_gene		tV(AAC)E1			chromosome 5	L000003796	5	438700	438773	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000035942	noncoding_exon					tV(AAC)E1		5	438700	438773	W		2011-02-03	2000-05-19	
+S000077390	ARS		ARS518		ARSV-439	chromosome 5		5	438934	439182			2011-02-03	2004-10-19|2006-09-07	Autonomously Replicating Sequence
+S000178091	ARS_consensus_sequence					ARS518		5	439102	439086	C		2014-11-18	2014-11-18	
+S000000938	ORF	Verified	YER136W	GDI1	SEC19	chromosome 5	L000000699	5	439616	440971	W		2011-02-03	1996-07-31	GDP dissociation inhibitor; regulates vesicle traffic in secretory pathways by regulating the dissociation of GDP from the Sec4/Ypt/rab family of GTP binding proteins
+S000033298	CDS					YER136W		5	439616	440971	W		2011-02-03	1996-07-31	
+S000028757	ORF	Dubious	YER137W-A			chromosome 5		5	441575	441880	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YER137C
+S000033451	CDS					YER137W-A		5	441575	441880	W		2011-02-03	2003-07-29	
+S000000939	ORF	Uncharacterized	YER137C			chromosome 5		5	441819	441373	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000033341	CDS					YER137C		5	441819	441373	C		2011-02-03	1996-07-31	
+S000006491	ncRNA_gene		SCR1	SCR1		chromosome 5	L000001818	5	441987	442508	W		2011-02-03	2000-05-19|2004-10-08	RNA subunit of the Signal Recognition Particle (SRP)
+S000034550	noncoding_exon					SCR1		5	441987	442508	W		2011-02-03	2000-05-19|2004-10-08	
+S000077391	ARS		ARS519			chromosome 5		5	442416	442735			2011-02-03	2004-10-19	Autonomously Replicating Sequence
+S000006917	long_terminal_repeat		YERWdelta17			chromosome 5		5	442734	443072	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006602	tRNA_gene		tI(AAU)E1			chromosome 5	L000003801	5	443275	443202	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000037353	noncoding_exon					tI(AAU)E1		5	443275	443202	C		2011-02-03	2000-05-19	
+S000006898	long_terminal_repeat		YERCdelta19			chromosome 5		5	443733	443397	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006919	long_terminal_repeat		YERWdelta21			chromosome 5		5	444834	445139	W		2011-02-03	2000-05-19	Ty1 LTR
+S000000940	transposable_element_gene		YER138C		gag-pol fusion protein	chromosome 5		5	449024	443756	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000033407	CDS					YER138C		5	447721	443756	C		2011-02-03	1996-07-31	
+S000033406	CDS					YER138C		5	449024	447723	C		2011-02-03	1996-07-31	
+S000033408	plus_1_translational_frameshift					YER138C		5	447722	447722	C		2011-02-03	1996-07-31	
+S000007402	transposable_element_gene		YER137C-A		gag protein	chromosome 5		5	449024	447702	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000034807	CDS					YER137C-A		5	449024	447702	C		2011-02-03	1999-07-17	
+S000006910	LTR_retrotransposon		YERCTy1-1		Ty1	chromosome 5		5	449320	443397	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000006899	long_terminal_repeat		YERCdelta20			chromosome 5		5	449320	448984	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007239	ORF	Uncharacterized	YER138W-A			chromosome 5		5	449474	449578	W		2011-02-03	1999-07-17	Putative protein of unknown function; YER138W-A has a paralog, YBL107W-A, that arose from a single-locus duplication
+S000030980	CDS					YER138W-A		5	449474	449578	W		2011-02-03	1999-07-17	
+S000000941	ORF	Verified	YER139C	RTR1	RNA polymerase II subunit B1 CTD phosphatase RTR1	chromosome 5		5	451243	450563	C		2011-02-03	1996-07-31	CTD phosphatase; dephosphorylates S5-P in the C-terminal domain of Rpo21p; has a cysteine-rich motif required for function and conserved in eukaryotes; shuttles between the nucleus and cytoplasm; RTR1 has a paralog, RTR2, that arose from the whole genome duplication
+S000034331	CDS					YER139C		5	451243	450563	C		2011-02-03	1996-07-31	
+S000000942	ORF	Verified	YER140W	EMP65		chromosome 5		5	451565	453235	W		2011-02-03	1996-07-31	Integral membrane protein of the ER; forms an ER-membrane associated protein complex with Slp1p; identified along with SLP1 in a screen for mutants defective in the unfolded protein response (UPR); proposed to function in the folding of integral membrane proteins; interacts genetically with MPS3; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000035305	CDS					YER140W		5	451565	453235	W		2011-02-03	1996-07-31	
+S000000943	ORF	Verified	YER141W	COX15		chromosome 5	L000002578	5	453459	454919	W		2011-02-03	1996-07-31	Protein required for the hydroxylation of heme O to form heme A; heme A is an essential prosthetic group for cytochrome c oxidase
+S000035366	CDS					YER141W		5	453459	454919	W		2011-02-03	1996-07-31	
+S000000944	ORF	Verified	YER142C	MAG1	MMS5	chromosome 5	L000000976	5	456036	455146	C	110	2011-02-03	1996-07-31	3-methyl-adenine DNA glycosylase; involved in protecting DNA against alkylating agents; initiates base excision repair by removing damaged bases to create abasic sites that are subsequently repaired; protein abundance increases in response to DNA replication stress
+S000035403	CDS					YER142C		5	456036	455146	C		2011-02-03	1996-07-31	
+S000000945	ORF	Verified	YER143W	DDI1	VSM1	chromosome 5	L000004257	5	456319	457605	W		2011-02-03	1996-07-31	DNA damage-inducible v-SNARE binding protein; role in suppression of protein secretion; may play a role in S-phase checkpoint control; has ubiquitin-associated (UBA), ubiquitin-like (UBL), and retroviral-like proteinase (RVP) domains
+S000035500	CDS					YER143W		5	456319	457605	W		2011-02-03	1996-07-31	
+S000000946	ORF	Verified	YER144C	UBP5	putative ubiquitin-specific protease UBP5	chromosome 5	L000002419	5	460223	457806	C		2011-02-03	1996-07-31	Putative ubiquitin-specific protease; concentrates at the bud neck; UBP5 has a paralog, DOA4, that arose from the whole genome duplication
+S000035528	CDS					YER144C		5	460223	457806	C		2011-02-03	1996-07-31	
+S000000947	ORF	Verified	YER145C	FTR1	high-affinity iron permease FTR1	chromosome 5	L000003066	5	461740	460526	C		2011-02-03	1996-07-31	High affinity iron permease; involved in the transport of iron across the plasma membrane; forms complex with Fet3p; expression is regulated by iron; protein abundance increases in response to DNA replication stress
+S000035592	CDS					YER145C		5	461740	460526	C		2011-02-03	1996-07-31	
+S000000948	ORF	Verified	YER146W	LSM5	RNA-binding protein LSM5	chromosome 5	L000004684	5	462585	462866	W		2011-02-03	1996-07-31	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA
+S000036550	CDS					YER146W		5	462585	462866	W		2011-02-03	1996-07-31	
+S000028758	ORF	Dubious	YER145C-A			chromosome 5		5	462823	462386	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps verified ORF LSM5/YER146W
+S000033452	CDS					YER145C-A		5	462823	462386	C		2011-02-03	2003-07-29	
+S000000949	ORF	Verified	YER147C	SCC4	cohesin-loading factor complex subunit SCC4	chromosome 5		5	464842	462968	C		2011-02-03	1996-07-31	Subunit of cohesin loading factor (Scc2p-Scc4p); complex is required for the loading of cohesin complexes onto chromosomes; involved in establishing sister chromatid cohesion during double-strand break repair via phosphorylated histone H2AX
+S000036587	CDS					YER147C		5	464842	462968	C		2011-02-03	1996-07-31	
+S000000950	ORF	Verified	YER148W	SPT15	TATA-binding protein|TBP|TBP1|BTF1	chromosome 5	L000002037	5	465303	466025	W	110	2011-02-03	1996-07-31	TATA-binding protein (TBP); general transcription factor that interacts with other factors to form the preinitiation complex at promoters; essential for viability, highly conserved; yeast gene can complement mutations in human homolog TBP
+S000037378	CDS					YER148W		5	465303	466025	W		2011-02-03	1996-07-31	
+S000028759	ORF	Dubious	YER147C-A			chromosome 5		5	465613	465203	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SPT15/YER148W
+S000033453	CDS					YER147C-A		5	465613	465203	C		2011-02-03	2003-07-29	
+S000028760	ORF	Dubious	YER148W-A			chromosome 5		5	466185	466763	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF PEA2/YER149C
+S000033464	CDS					YER148W-A		5	466185	466763	W		2011-02-03	2003-07-29	
+S000000951	ORF	Verified	YER149C	PEA2	PPF2|DFG9	chromosome 5	L000003143	5	467470	466208	C		2011-02-03	1996-07-31	Coiled-coil 12S polarisome subunit; required for polarity establishment, apical bud growth, shmoo formation, filamentous differentiation; involved in Bni1p localization at sites of polarized growth, controlling polarized assembly of actin cables; role in apical growth affects diploid-specific bipolar bud site selection; retains Slt2p at bud tip to regulate ER inheritance; role in Ca2+ influx, cell fusion; S288C allele encoding Leu409 rather than Met linked with non-invasion
+S000037418	CDS					YER149C		5	467470	466208	C		2011-02-03	1996-07-31	
+S000000952	ORF	Verified	YER150W	SPI1		chromosome 5	L000004852	5	468370	468816	W		2011-02-03	1996-07-31	GPI-anchored cell wall protein involved in weak acid resistance; basal expression requires Msn2p/Msn4p; expression is induced under conditions of stress and during the diauxic shift; SPI1 has a paralog, SED1, that arose from the whole genome duplication
+S000030182	CDS					YER150W		5	468370	468816	W		2011-02-03	1996-07-31	
+S000006754	tRNA_gene		tV(AAC)E2			chromosome 5	L000003797	5	469457	469530	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000035943	noncoding_exon					tV(AAC)E2		5	469457	469530	W		2011-02-03	2000-05-19	
+S000000953	ORF	Verified	YER151C	UBP3	mRNA-binding ubiquitin-specific protease UBP3|BLM3	chromosome 5	L000002417|S000086717	5	472424	469686	C		2011-02-03	1996-07-31	Ubiquitin-specific protease involved in transport and osmotic response; negatively regulates Ras/PKA signaling; interacts with Bre5p to coregulate anterograde, retrograde transport between ER and Golgi; involved in transcription elongation in response to osmostress through phosphorylation at Ser695 by Hog1p; inhibitor of gene silencing; role in ribophagy; cleaves ubiquitin fusions but not polyubiquitin; protein abundance increases in response to DNA replication stress
+S000030288	CDS					YER151C		5	472424	469686	C		2011-02-03	1996-07-31	
+S000028761	ORF	Dubious	YER152W-A			chromosome 5		5	473485	474051	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YER152C
+S000033465	CDS					YER152W-A		5	473485	474051	W		2011-02-03	2003-07-29	
+S000000954	ORF	Verified	YER152C		2-aminoadipate transaminase	chromosome 5		5	473988	472657	C		2011-02-03	1996-07-31	Protein with 2-aminoadipate transaminase activity; shares amino acid similarity with the aminotransferases Aro8p and Aro9p; YER152C is not an essential gene
+S000030401	CDS					YER152C		5	473988	472657	C		2011-02-03	1996-07-31	
+S000000955	ORF	Verified	YER153C	PET122		chromosome 5	L000001397	5	474805	474041	C	118	2011-02-03	1996-07-31	Mitochondrial translational activator specific for the COX3 mRNA; acts together with Pet54p and Pet494p; located in the mitochondrial inner membrane
+S000031314	CDS					YER153C		5	474805	474041	C		2011-02-03	1996-07-31	
+S000000956	ORF	Verified	YER154W	OXA1	membrane insertase OXA1|PET1402	chromosome 5	L000001318	5	475020	476228	W	112	2011-02-03	1996-07-31	Mitochondrial inner membrane insertase; mediates the insertion of both mitochondrial- and nuclear-encoded proteins from the matrix into the inner membrane; also has a role in insertion of carrier proteins into the inner membrane; acts as a voltage-gated ion channel, activated by substrate peptides; interacts with mitochondrial ribosomes; conserved from bacteria to animals
+S000031446	CDS					YER154W		5	475020	476228	W		2011-02-03	1996-07-31	
+S000000957	ORF	Verified	YER155C	BEM2	TSL1|SUP9|IPL2	chromosome 5	L000000168	5	482848	476345	C	119	2011-02-03	1996-07-31	Rho GTPase activating protein (RhoGAP); involved in the control of cytoskeleton organization and cellular morphogenesis; required for bud emergence; potential GAP for Rho4p
+S000031485	CDS					YER155C		5	482848	476345	C		2011-02-03	1996-07-31	
+S000000958	ORF	Uncharacterized	YER156C			chromosome 5		5	484341	483325	C		2011-02-03	1996-07-31	Putative protein of unknown function; interacts with Hsp82p and copurifies with Ipl1p; expression is copper responsive and downregulated in strains deleted for MAC1, a copper-responsive transcription factor; similarity to mammalian MYG1
+S000031540	CDS					YER156C		5	484341	483325	C		2011-02-03	1996-07-31	
+S000000959	ORF	Verified	YER157W	COG3	Golgi transport complex subunit COG3|SEC34|GRD20	chromosome 5	L000004876	5	484788	487193	W		2011-02-03	1996-07-31	Essential component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
+S000032561	CDS					YER157W		5	484788	487193	W		2011-02-03	1996-07-31	
+S000006552	tRNA_gene		tE(UUC)E3			chromosome 5	L000003800	5	487402	487331	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
+S000034442	noncoding_exon					tE(UUC)E3		5	487402	487331	C		2011-02-03	2000-05-19	
+S000006920	long_terminal_repeat		YERWdelta22			chromosome 5		5	487834	488165	W		2011-02-03	2000-05-19	Ty1 LTR
+S000000960	ORF	Uncharacterized	YER158C			chromosome 5		5	490578	488857	C		2011-02-03	1996-07-31	Protein of unknown function; potentially phosphorylated by Cdc28p; YER158C has a paralog, AFR1, that arose from the whole genome duplication
+S000032616	CDS					YER158C		5	490578	488857	C		2011-02-03	1996-07-31	
+S000028624	ORF	Dubious	YER158W-A			chromosome 5		5	491487	491702	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031478	CDS					YER158W-A		5	491487	491702	W		2011-02-03	2003-07-29	
+S000000961	ORF	Verified	YER159C	BUR6	negative cofactor 2 transcription regulator complex subunit BUR6|NCB1	chromosome 5	L000003240	5	491958	491530	C		2011-02-03	1996-07-31	Subunit of a heterodimeric NC2 transcription regulator complex; complex binds to TBP and can repress transcription by preventing preinitiation complex assembly or stimulate activated transcription; homologous to human NC2alpha; complex also includes Ncb2p; bur6 ncb2 double mutation is functionally complemented by coexpression of human DRAP1 and DR1, although the single bur6 mutation is not complemented by its ortholog DRAP1
+S000032723	CDS					YER159C		5	491958	491530	C		2011-02-03	1996-07-31	
+S000006701	tRNA_gene		tR(ACG)E			chromosome 5	L000003799	5	492424	492352	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 6 nuclear tRNA genes containing the tDNA-anticodon ACG (converted to ICG in the mature tRNA), decodes CGU, CGC, and probably CGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000030371	noncoding_exon					tR(ACG)E		5	492424	492352	C		2011-02-03	2000-05-19	
+S000006900	long_terminal_repeat		YERCdelta23			chromosome 5		5	492833	492695	C		2011-02-03	2000-05-19	Ty1 LTR
+S000000962	transposable_element_gene		YER160C		gag-pol fusion protein	chromosome 5		5	498124	492856	C		2011-02-03	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000034492	CDS					YER160C		5	496821	492856	C		2011-02-03	1996-07-31	
+S000034491	CDS					YER160C		5	498124	496823	C		2011-02-03	1996-07-31	
+S000034493	plus_1_translational_frameshift					YER160C		5	496822	496822	C		2011-02-03	1996-07-31	
+S000007403	transposable_element_gene		YER159C-A		gag protein	chromosome 5		5	498124	496802	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000030149	CDS					YER159C-A		5	498124	496802	C		2011-02-03	1999-07-17	
+S000006911	LTR_retrotransposon		YERCTy1-2		Ty1	chromosome 5		5	498421	492695	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000006901	long_terminal_repeat		YERCdelta24			chromosome 5		5	498421	498084	C		2011-02-03	2000-05-19	Ty1 LTR
+S000077392	ARS		ARS520			chromosome 5		5	498884	499182			2014-11-18	2004-10-19|2014-11-18	Autonomously Replicating Sequence
+S000178092	ARS_consensus_sequence					ARS520		5	498884	498900	W		2014-11-18	2014-11-18	
+S000000963	ORF	Verified	YER161C	SPT2	EXA1|SIN1	chromosome 5	L000002028	5	500348	499347	C	127	2011-02-03	1996-07-31	Protein involved in negative regulation of transcription; required for RNA polyadenylation; exhibits regulated interactions with both histones and SWI-SNF components; relocalizes to the cytosol in response to hypoxia; similar to mammalian HMG1 proteins
+S000034600	CDS					YER161C		5	500348	499347	C		2011-02-03	1996-07-31	
+S000000964	ORF	Verified	YER162C	RAD4		chromosome 5	L000001558	5	502894	500630	C	128	2011-02-03	1996-07-31|2011-02-03	Protein that recognizes and binds damaged DNA (with Rad23p) during NER; subunit of Nuclear Excision Repair Factor 2 (NEF2); also involved, with Rad23p, in turnover of ubiquitylated proteins; Rad4p-Rad23p heterodimer binds to promoters of DNA damage response genes to repress their transcription in the absence of DNA damage; NER stands for nucleotide excision repair
+S000034668	CDS					YER162C		5	502894	500630	C		2011-02-03	1996-07-31|2011-02-03	
+S000000965	ORF	Verified	YER163C	GCG1	gamma-glutamylcyclotransferase	chromosome 5		5	503782	503084	C		2011-02-03	1996-07-31	Gamma-glutamyl cyclotransferase; cleaves the gamma-glutamyl bond of glutathione to yield 5-oxoproline and a Cys-Gly dipeptide; similar to mammalian pro-apoptotic protein ChaC1; expression of mouse ChaC1 in yeast increases apoptosis; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; periodically expressed during the metabolic cycle
+S000034748	CDS					YER163C		5	503782	503084	C		2011-02-03	1996-07-31	
+S000000966	ORF	Verified	YER164W	CHD1	chromatin-remodeling ATPase CHD1	chromosome 5	L000003467	5	505392	509798	W		2011-02-03	1996-07-31	Chromatin remodeler that regulates various aspects of transcription; acts in in conjunction with Isw1b to regulate chromatin structure and maintain chromatin integrity during transcription elongation by RNAP II by preventing trans-histone exchange over coding regions; contains a chromo domain, a helicase domain and a DNA-binding domain; component of both the SAGA and SLIK complexes
+S000035707	CDS					YER164W		5	505392	509798	W		2011-02-03	1996-07-31	
+S000000967	ORF	Verified	YER165W	PAB1	polyadenylate-binding protein	chromosome 5	L000001327	5	510373	512106	W		2011-02-03	1996-07-31	Poly(A) binding protein; part of the 3'-end RNA-processing complex, mediates interactions between the 5' cap structure and the 3' mRNA poly(A) tail, involved in control of poly(A) tail length, interacts with translation factor eIF-4G; stimulates, but is not required for the deadenylation activity of the Pan2p-Pan3p poly(A)-ribonuclease complex
+S000035793	CDS					YER165W		5	510373	512106	W		2011-02-03	1996-07-31	
+S000000968	ORF	Verified	YER166W	DNF1	aminophospholipid-translocating P4-type ATPase DNF1	chromosome 5		5	512744	517459	W		2011-02-03	1996-07-31	Aminophospholipid translocase (flippase); type 4 P-type ATPase; involved in phospholipid translocation, contributing to endocytosis, protein transport, and cellular polarization; localizes primarily to the plasma membrane; localizes to the shmoo tip where it has a redundant role in the cellular response to mating pheromone; DNF1 has a paralog, DNF2, that arose from the whole genome duplication
+S000035898	CDS					YER166W		5	512744	517459	W		2011-02-03	1996-07-31	
+S000028762	ORF	Dubious	YER165C-A			chromosome 5		5	512983	512627	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene DNF1/YER166W
+S000033466	CDS					YER165C-A		5	512983	512627	C		2011-02-03	2003-07-29	
+S000000969	ORF	Verified	YER167W	BCK2	CTR7	chromosome 5	L000000163	5	518216	520771	W		2011-02-03	1996-07-31	Serine/threonine-rich protein involved in PKC1 signaling pathway; protein kinase C (PKC1) signaling pathway controls cell integrity; overproduction suppresses pkc1 mutations
+S000036791	CDS					YER167W		5	518216	520771	W		2011-02-03	1996-07-31	
+S000077393	ARS		ARS521			chromosome 5		5	520772	521030			2011-02-03	2004-10-19	Autonomously Replicating Sequence
+S000000970	ORF	Verified	YER168C	CCA1	tRNA adenylyltransferase|TNT1	chromosome 5	L000000232	5	522669	521029	C		2011-02-03	1996-07-31	ATP (CTP):tRNA-specific tRNA nucleotidyltransferase; different forms targeted to the nucleus, cytosol, and mitochondrion are generated via the use of multiple transcriptional and translational start sites; human homolog TRNT1 complements yeast null mutant
+S000036817	CDS					YER168C		5	522669	521029	C		2011-02-03	1996-07-31	
+S000000971	ORF	Verified	YER169W	RPH1	KDM4	chromosome 5	L000004504	5	523369	525759	W		2011-02-03	1996-07-31	JmjC domain-containing histone demethylase; targets tri- and dimethylated H3K36; associates with actively transcribed regions and promotes elongation; repressor of autophagy-related genes in nutrient-replete conditions; damage-responsive repressor of PHR1; phosphorylated by the Rad53p-dependent DNA damage checkpoint pathway and by a Rim1p-mediated event during starvation; target of stress-induced hormesis; RPH1 has a paralog, GIS1, that arose from the whole genome duplication
+S000036928	CDS					YER169W		5	523369	525759	W		2011-02-03	1996-07-31	
+S000000972	ORF	Verified	YER170W	ADK2	adenylate kinase ADK2|PAK3|AKY3	chromosome 5	L000000047	5	525974	526651	W	146	2011-02-03	1996-07-31	Mitochondrial adenylate kinase; catalyzes the reversible synthesis of GTP and AMP from GDP and ADP; may serve as a back-up for synthesizing GTP or ADP depending on metabolic conditions; 3' sequence of ADK2 varies with strain background
+S000036684	CDS					YER170W		5	525974	526651	W		2011-02-03	1996-07-31	
+S000000973	ORF	Verified	YER171W	RAD3	TFIIH/NER complex ATP-dependent 5'-3' DNA helicase subunit RAD3|REM1	chromosome 5	L000001557	5	527082	529418	W	146	2011-02-03	1996-07-31	5' to 3' DNA helicase; involved in nucleotide excision repair and transcription; subunit of RNA polII initiation factor TFIIH and of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPD protein; mutant has aneuploidy tolerance; protein abundance increases in response to DNA replication stress
+S000036770	CDS					YER171W		5	527082	529418	W		2011-02-03	1996-07-31	
+S000000974	ORF	Verified	YER172C	BRR2	ATP-dependent RNA helicase BRR2|PRP44|SNU246|SLT22|RSS1	chromosome 5	L000003100|L000003283	5	536021	529530	C		2011-02-03	1996-07-31	RNA-dependent ATPase RNA helicase (DEIH box); required for disruption of U4/U6 base-pairing in native snRNPs to activate the spliceosome for catalysis; homologous to human U5-200kD
+S000030569	CDS					YER172C		5	536021	529530	C		2011-02-03	1996-07-31	
+S000000975	ORF	Verified	YER173W	RAD24	RS1	chromosome 5	L000001777	5	536300	538279	W	147	2011-02-03	1996-07-31	Checkpoint protein; involved in the activation of the DNA damage and meiotic pachytene checkpoints; subunit of a clamp loader that loads Rad17p-Mec3p-Ddc1p onto DNA; homolog of human and S. pombe Rad17 protein
+S000030767	CDS					YER173W		5	536300	538279	W		2011-02-03	1996-07-31	
+S000028763	ORF	Dubious	YER172C-A			chromosome 5		5	536655	536275	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF RAD24/YER173W
+S000033467	CDS					YER172C-A		5	536655	536275	C		2011-02-03	2003-07-29	
+S000000976	ORF	Verified	YER174C	GRX4	monothiol glutaredoxin GRX4	chromosome 5	S000007445	5	539168	538434	C		2011-02-03	1996-07-31	Glutathione-dependent oxidoreductase; hydroperoxide and superoxide-radical responsive; monothiol glutaredoxin subfamily member along with Grx3p and Grx5p; protects cells from oxidative damage; with Grx3p, binds to Aft1p in iron-replete conditions, promoting its dissociation from promoters; mutant has increased aneuploidy tolerance; transcription regulated by Yap5p; GRX4 has a paralog, GRX3, that arose from the whole genome duplication
+S000030799	CDS					YER174C		5	539168	538434	C		2011-02-03	1996-07-31	
+S000000977	ORF	Verified	YER175C	TMT1	TAM1	chromosome 5		5	540363	539464	C		2011-02-03	1996-07-31	Trans-aconitate methyltransferase; cytosolic enzyme that catalyzes the methyl esterification of 3-isopropylmalate, an intermediate of the leucine biosynthetic pathway, and trans-aconitate, which inhibits the citric acid cycle
+S000031738	CDS					YER175C		5	540363	539464	C		2011-02-03	1996-07-31	
+S000028625	ORF	Uncharacterized	YER175W-A			chromosome 5		5	540650	540814	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031479	CDS					YER175W-A		5	540650	540814	W		2011-02-03	2003-07-29	
+S000000978	ORF	Verified	YER176W	ECM32	MTT1|HEL1	chromosome 5	L000003934	5	541690	545055	W		2011-02-03	1996-07-31	DNA dependent ATPase/DNA helicase; helicase belonging to the Dna2p- and Nam7p-like family of helicases that is involved in modulating translation termination; interacts with the translation termination factors, localized to polysomes
+S000032015	CDS					YER176W		5	541690	545055	W		2011-02-03	1996-07-31	
+S000000979	ORF	Verified	YER177W	BMH1	14-3-3 family protein BMH1|APR6	chromosome 5	L000000185	5	545611	546414	W	148	2011-02-03	1996-07-31	14-3-3 protein, major isoform; controls proteome at post-transcriptional level, binds proteins and DNA, involved in regulation of exocytosis, vesicle transport, Ras/MAPK and rapamycin-sensitive signaling, aggresome formation, spindle position checkpoint; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; antiapoptotic gene similar to human 14-3-3; BMH1 has a paralog, BMH2, that arose from whole genome duplication
+S000032121	CDS					YER177W		5	545611	546414	W		2011-02-03	1996-07-31	
+S000000980	ORF	Verified	YER178W	PDA1	pyruvate dehydrogenase (acetyl-transferring) subunit E1 alpha	chromosome 5	L000001352	5	546817	548079	W	143	2011-02-03	2003-09-22|1996-07-31	E1 alpha subunit of the pyruvate dehydrogenase (PDH) complex; catalyzes the direct oxidative decarboxylation of pyruvate to acetyl-CoA; phosphorylated; regulated by glucose; PDH complex is concentrated in spots within the mitochondrial matrix, often near the ERMES complex and near peroxisomes
+S000033032	CDS					YER178W		5	546817	548079	W		2011-02-03	2003-09-22|1996-07-31	
+S000000981	ORF	Verified	YER179W	DMC1	recombinase DMC1|ISC2	chromosome 5	L000000509	5	548421	549517	W		2011-02-03	1996-07-31	Meiosis-specific recombinase required for double-strand break repair; also required for pairing between homologous chromosomes; required for the normal morphogenesis of synaptonemal complex; homolog of Rad51p and the bacterial RecA protein; binds ssDNA and dsDNA, forms helical filaments; stimulated by Rdh54p
+S000033128	CDS					YER179W		5	548421	548552	W		2011-02-03	1996-07-31	
+S000033129	CDS					YER179W		5	548645	549517	W		2011-02-03	1996-07-31	
+S000033130	intron					YER179W		5	548553	548644	W		2011-02-03	1996-07-31	
+S000077394	ARS		ARS522		ARSV-550|ARS501	chromosome 5		5	549566	549814			2011-02-03	2004-10-19|2006-09-07	Autonomously Replicating Sequence; active origin of replication near the right end of Chromosome V that is activated late in S phase, late activation appears to result from telomeric proximity
+S000000982	ORF	Verified	YER180C	ISC10		chromosome 5	L000000876	5	550527	549724	C		2011-02-03	1996-07-31	Protein required for sporulation; transcript is induced 7.5 hours after induction of meiosis, expected to play significant role in the formation of reproductive cells
+S000032813	CDS					YER180C		5	550527	549724	C		2011-02-03	1996-07-31	
+S000028437	ORF	Verified	YER180C-A	SLO1		chromosome 5	S000028475	5	551122	550865	C		2011-02-03	2003-03-07	Protein interacting with Arl3p; Arl3p is a GTPase of the Ras superfamily involved in vesicle-tethering at the Golgi; putative ortholog of human SCOCO
+S000030116	CDS					YER180C-A		5	551122	550865	C		2011-02-03	2003-03-07	
+S000006603	tRNA_gene		tI(AAU)E2			chromosome 5	L000003798	5	551358	551285	C		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000037354	noncoding_exon					tI(AAU)E2		5	551358	551285	C		2011-02-03	2000-05-19	
+S000006921	long_terminal_repeat		YERWdelta25			chromosome 5		5	551442	551773	W		2011-02-03	2000-05-19	Ty1 LTR
+S000000983	ORF	Verified	YER181C			chromosome 5		5	551796	551473	C		2011-02-03	1996-07-31	Mitochondrial protein of unknown function; conserved among S. cerevisiae strains; extensively overlaps a Ty1 LTR; YER181C is not an essential gene
+S000032942	CDS					YER181C		5	551796	551473	C		2011-02-03	1996-07-31	
+S000006902	long_terminal_repeat		YERCdelta26			chromosome 5		5	552267	552040	C		2011-02-03	2000-05-19	Ty1 LTR
+S000000984	ORF	Uncharacterized	YER182W	FMP10		chromosome 5		5	552525	553259	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000034960	CDS					YER182W		5	552525	553259	W		2011-02-03	1996-07-31	
+S000000985	ORF	Verified	YER183C	FAU1	5-formyltetrahydrofolate cyclo-ligase	chromosome 5		5	553969	553334	C		2011-02-03	1996-07-31	5,10-methenyltetrahydrofolate synthetase; involved in folic acid biosynthesis
+S000035021	CDS					YER183C		5	553969	553334	C		2011-02-03	1996-07-31	
+S000000986	ORF	Verified	YER184C	TOG1		chromosome 5		5	558680	556296	C		2011-02-03	1996-07-31	Transcriptional activator of oleate genes; regulates genes involved in fatty acid utilization; zinc cluster protein; deletion confers sensitivity to Calcufluor white, and prevents growth on glycerol or lactate as sole carbon source
+S000035120	CDS					YER184C		5	558680	556296	C		2011-02-03	1996-07-31	
+S000000987	ORF	Verified	YER185W	PUG1		chromosome 5		5	559454	560365	W		2011-02-03	1996-07-31	Plasma membrane protein involved in protoprophyrin and heme transport; roles in the uptake of protoprophyrin IX and the efflux of heme; expression is induced under both low-heme and low-oxygen conditions; member of the fungal lipid-translocating exporter (LTE) family of proteins
+S000036056	CDS					YER185W		5	559454	560365	W		2011-02-03	1996-07-31	
+S000000988	ORF	Uncharacterized	YER186C			chromosome 5		5	562625	561705	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000036102	CDS					YER186C		5	562625	561705	C		2011-02-03	1996-07-31	
+S000006903	long_terminal_repeat		YERComega1			chromosome 5		5	564024	563928	C		2011-02-03	2000-05-19	Ty5 LTR
+S000000989	ORF	Uncharacterized	YER187W			chromosome 5		5	566230	566655	W		2011-02-03	1996-07-31	Putative protein of unknown function; induced in respiratory-deficient cells
+S000031676	CDS					YER187W		5	566230	566655	W		2011-02-03	1996-07-31	
+S000000990	ORF	Dubious	YER188W			chromosome 5		5	568040	568759	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; large-scale analyses show mRNA expression increases under anaerobic conditions and two-hybrid interactions with Sst2p
+S000031818	CDS					YER188W		5	568040	568759	W		2011-02-03	1996-07-31	
+S000006922	long_terminal_repeat		YERWomega2			chromosome 5		5	568791	569024	W		2011-02-03	2000-05-19	Ty5 LTR
+S000028953	telomere		TEL05R			chromosome 5		5	569599	576874	W	151	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome V; annotated components include an X element core sequence, X element combinatorial repeats, and a long Y' element; TEL05R does have telomeric repeats (TEL05R-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
+S000028954	X_element					TEL05R		5	569599	570060	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome V; contains an ARS consensus sequence, an Abf1p binding site consensus sequence, and ORF YER188C-A
+S000028955	X_element_combinatorial_repeat					TEL05R		5	570061	570329	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr V; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; Formerly called SubTelomeric Repeats
+S000028956	Y_prime_element					TEL05R		5	570330	576874	W		2011-02-03	2003-09-09	Telomeric long Y' element on the right arm of Chromosome V; contains an ARS consensus sequence, a region of 36-bp repeats, and four ORFs (YRF1-2/YER190W, YER189W, YER190C-A, YER190C-B)
+S000077395	ARS		ARS523			chromosome 5		5	569618	569695			2014-11-18	2014-11-18|2004-10-19	Autonomously Replicating Sequence
+S000178093	ARS_consensus_sequence					ARS523		5	569629	569645	W		2014-11-18	2014-11-18	
+S000028764	ORF	Uncharacterized	YER188C-A			chromosome 5		5	569907	569608	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000033468	CDS					YER188C-A		5	569907	569608	C		2011-02-03	2003-07-29	
+S000000991	ORF	Uncharacterized	YER189W			chromosome 5		5	571155	571523	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000031933	CDS					YER189W		5	571155	571523	W		2011-02-03	1996-07-31	
+S000000992	ORF	Verified	YER190W	YRF1-2	Y' element ATP-dependent helicase protein 1 copy 2|YRF1	chromosome 5		5	571480	576525	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p; induced by treatment with 8-methoxypsoralen and UVA irradiation
+S000036410	CDS					YER190W		5	571480	576525	W		2011-02-03	1996-07-31	
+S000028626	ORF	Dubious	YER190C-A			chromosome 5		5	575379	574804	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF YRF1-2/YER190W; identified by gene-trapping, expression analysis, and homology
+S000031482	CDS					YER190C-A		5	575379	574804	C		2011-02-03	2003-07-29	
+S000028627	ORF	Uncharacterized	YER190C-B			chromosome 5		5	576162	575680	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031484	CDS					YER190C-B		5	576162	575680	C		2011-02-03	2003-07-29	
+S000001826	ORF	Uncharacterized	YFL068W			chromosome 6		6	53	535	W		1996-07-31	1996-07-31	Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the cytosol
+S000030466	CDS					YFL068W		6	53	535	W		1996-07-31	1996-07-31	
+S000001827	ORF	Uncharacterized	YFL067W			chromosome 6		6	836	1363	W		1996-07-31	1996-07-31	Protein of unknown function; down-regulated at low calcium levels; mCherry fusion protein localizes to the vacuole
+S000037641	CDS					YFL067W		6	836	1363	W		1996-07-31	1996-07-31	
+S000001828	ORF	Uncharacterized	YFL066C		Y' element ATP-dependent helicase	chromosome 6		6	2615	1437	C		1996-07-31	1996-07-31	Helicase-like protein encoded within the telomeric Y' element; induced by treatment with 8-methoxypsoralen and UVA irradiation; SWAT-GFP and mCherry fusion proteins localize to the nucleus
+S000037520	CDS					YFL066C		6	2615	1437	C		1996-07-31	1996-07-31	
+S000001829	ORF	Uncharacterized	YFL065C			chromosome 6		6	3338	3030	C		1996-07-31	1996-07-31	Putative protein of unknown function; induced by treatment with 8-methoxypsoralen and UVA irradiation
+S000037426	CDS					YFL065C		6	3338	3030	C		1996-07-31	1996-07-31	
+S000001830	ORF	Uncharacterized	YFL064C			chromosome 6		6	3846	3322	C		1996-07-31	1996-07-31	Putative protein of unknown function
+S000031930	CDS					YFL064C		6	3846	3322	C		1996-07-31	1996-07-31	
+S000001831	ORF	Dubious	YFL063W			chromosome 6		6	5066	5521	W		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031881	CDS					YFL063W		6	5066	5521	W		1996-07-31	1996-07-31	
+S000029653	ARS		ARS600	ARS600	ARS600.1|ARS120	chromosome 6	L000000123	6	5426	5529			2014-11-18	2014-11-18|2006-03-02	Subtelomeric Autonomously Replicating Sequence; originally published as ARS120
+S000114519	ARS_consensus_sequence					ARS600		6	5492	5482	C		2006-03-02	2006-03-02	
+S000028882	telomere		TEL06L			chromosome 6		6	5530	1	C	-60	2003-09-09	2003-09-09|2011-02-03	Telomeric region on the left arm of Chromosome VI; composed of an X element core sequence, X element combinatorial repeats, a stretch of telomeric repeats, and a short Y' element
+S000028883	telomeric_repeat					TEL06L		6	4819	4685	C		2003-09-09	2003-09-09	Internal telomeric repeats on the left arm of Chromosome VI
+S000028884	X_element					TEL06L		6	5530	5068	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome VI; contains an ARS consensus sequence, an Abf1p binding site consensus sequence and ORF YFL063W
+S000028885	X_element_combinatorial_repeat					TEL06L		6	5067	4820	C		2003-09-09	2003-09-09|2011-02-03	Telomeric X element combinatorial repeat on the left arm of Chr VI; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000028886	Y_prime_element					TEL06L		6	4684	1	C		2003-09-09	2003-09-09	Telomeric short Y' element on the left arm of Chromosome VI; contains a region of 36-bp repeats and five ORFs (YFL064C, YFL065C, YFL066C, YFL067W, YFL068W)
+S000001832	ORF	Verified	YFL062W	COS4		chromosome 6	L000004062	6	6426	7565	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000031765	CDS					YFL062W		6	6426	7565	W		1996-07-31	1996-07-31	
+S000001833	ORF	Verified	YFL061W	DDI2	cyanamide hydratase	chromosome 6		6	9545	10222	W		1996-07-31	1996-07-31	Cyanamide hydratase that detoxifies cyanamide; member of the HD domain metalloprotein superfamily; expression is induced over 100-fold by cyanamide and by SN2-type DNA alkylating agents such as MMS and DMA; induction decreased in rad6 and rad18 mutants; gene and protein are identical to DDI3 and Ddi3p
+S000036244	CDS					YFL061W		6	9545	10222	W		1996-07-31	1996-07-31	
+S000001834	ORF	Verified	YFL060C	SNO3	putative pyridoxal 5'-phosphate synthase	chromosome 6	L000003453	6	10969	10301	C		1996-07-31	1996-07-31	Protein of unknown function; nearly identical to Sno2p; expression is induced before the diauxic shift and also in the absence of thiamin
+S000036055	CDS					YFL060C		6	10969	10301	C		1996-07-31	1996-07-31	
+S000001835	ORF	Verified	YFL059W	SNZ3	pyridoxine biosynthesis protein SNZ3	chromosome 6	L000002577	6	11363	12259	W		1996-07-31	1996-07-31	Member of a stationary phase-induced gene family; expressed in the presence of galactose; transcription of SNZ3 is induced prior to diauxic shift, and also in the absence of thiamin in a Thi2p-dependent manner; forms a coregulated gene pair with SNO3
+S000035247	CDS					YFL059W		6	11363	12259	W		1996-07-31	1996-07-31	
+S000001836	ORF	Verified	YFL058W	THI5	4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase	chromosome 6	L000002850	6	12929	13951	W		1996-07-31	1996-07-31	Protein involved in synthesis of the thiamine precursor HMP; member of a subtelomeric gene family including THI5, THI11, THI12, and THI13; hydroxymethylpyrimidine is also known as HMP
+S000035156	CDS					YFL058W		6	12929	13951	W		1996-07-31	1996-07-31	
+S000001838	pseudogene		YFL056C	AAD6	YFL057C	chromosome 6	L000004638	6	15431	14305	C		2014-11-18	1996-07-31|2014-11-18	Putative aryl-alcohol dehydrogenase; involved in oxidative stress response; similar to P. chrysosporium aryl-alcohol dehydrogenase; ORFs AAD6/YFL056C and AAD16/YFL057C are displaced from one another by -1 frameshift; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family; expression induced in cells treated with the mycotoxin patulin
+S000034007	CDS					YFL056C		6	15431	14305	C		2014-11-18	1996-07-31|2014-11-18	
+S000001839	ORF	Verified	YFL055W	AGP3		chromosome 6	L000003948	6	17004	18680	W		1996-07-31	1996-07-31	Low-affinity amino acid permease; may act to supply the cell with amino acids as nitrogen source in nitrogen-poor conditions; transcription is induced under conditions of sulfur limitation; plays a role in regulating Ty1 transposition
+S000033961	CDS					YFL055W		6	17004	18680	W		1996-07-31	1996-07-31	
+S000178094	ARS		ARS600.4			chromosome 6		6	20702	20900			2014-11-18	2014-11-18	Strong autonomously replicating sequence
+S000001840	ORF	Uncharacterized	YFL054C	AQY3		chromosome 6		6	22787	20847	C		1996-07-31	1996-07-31	Putative channel-like protein; similar to Fps1p; mediates passive diffusion of glycerol in the presence of ethanol
+S000033120	CDS					YFL054C		6	22787	20847	C		1996-07-31	1996-07-31	
+S000001841	ORF	Verified	YFL053W	DAK2	dihydroxyacetone kinase	chromosome 6	L000004204	6	23423	25198	W		1996-07-31	1996-07-31	Dihydroxyacetone kinase; required for detoxification of dihydroxyacetone (DHA); involved in stress adaptation
+S000033090	CDS					YFL053W		6	23423	25198	W		1996-07-31	1996-07-31	
+S000001842	ORF	Verified	YFL052W	ZNF1	DNA-binding domain containing protein|ROP1	chromosome 6		6	28232	29629	W		1996-07-31	1996-07-31	Zinc cluster transcription factor that regulates respiratory growth; binds to promoters of genes involved in respiration, gluconeogenesis, and the glyoxylate shunt; required for normal carbon source utilization and stress response
+S000032997	CDS					YFL052W		6	28232	29629	W		1996-07-31	1996-07-31	
+S000001843	ORF	Uncharacterized	YFL051C			chromosome 6		6	30540	30058	C		1996-07-31	1996-07-31	Putative protein of unknown function; SWAT-GFP fusion protein localizes to the cell periphery while mCherry fusion protein localizes to both the cell periphery and vacuole; YFL051C is not an essential gene
+S000032013	CDS					YFL051C		6	30540	30058	C		1996-07-31	1996-07-31	
+S000007633	ARS		ARS601	ARS601		chromosome 6		6	32473	32995			2001-03-02	2001-03-02	Autonomously replicating sequence on Chromosome VI; overlaps ARS602, ARS601/ARS602 together appear to be activated during the second half of S phase in ~32% of cell cycles
+S000121262	ARS_consensus_sequence					ARS601		6	32708	32718	W		2007-03-08	2007-03-08	
+S000007634	ARS		ARS602	ARS602		chromosome 6		6	32667	33247			2001-03-02	2001-03-02	Autonomously replicating sequence on Chromosome VI; overlaps ARS601, ARS601/ARS602 together appear to be activated during the second half of S phase in ~32% of cell cycles
+S000121263	ARS_consensus_sequence					ARS602		6	32970	32960	C		2007-03-08	2007-03-08	
+S000001844	ORF	Verified	YFL050C	ALR2	putative Mg(2+) transporter ALR2	chromosome 6	L000002888	6	35848	33272	C		1996-07-31	1996-07-31	Probable Mg(2+) transporter; overexpression confers increased tolerance to Al(3+) and Ga(3+) ions; plays a role in regulating Ty1 transposition
+S000031839	CDS					YFL050C		6	35848	33272	C		1996-07-31	1996-07-31	
+S000001845	ORF	Verified	YFL049W	SWP82		chromosome 6		6	36803	38674	W		1996-07-31	1996-07-31	Member of the SWI/SNF chromatin remodeling complex; has an as yet unidentified role in the complex; has identifiable counterparts in closely related yeast species; abundantly expressed in many growth conditions; paralog of Npl6p; relocates to the cytosol under hypoxic conditions
+S000030907	CDS					YFL049W		6	36803	38674	W		1996-07-31	1996-07-31	
+S000001846	ORF	Verified	YFL048C	EMP47		chromosome 6	L000002804	6	40180	38843	C		1996-07-31	1996-07-31	Integral membrane component of ER-derived COPII-coated vesicles; functionS in ER to Golgi transport; EMP47 has a paralog, EMP46, that arose from the whole genome duplication
+S000030785	CDS					YFL048C		6	40180	38843	C		1996-07-31	1996-07-31	
+S000001847	ORF	Verified	YFL047W	RGD2		chromosome 6		6	40421	42565	W		1996-07-31	1996-07-31	GTPase-activating protein (RhoGAP) for Cdc42p and Rho5p; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000037893	CDS					YFL047W		6	40421	42565	W		1996-07-31	1996-07-31	
+S000001848	ORF	Verified	YFL046W	FMP32		chromosome 6		6	42815	43438	W		1996-07-31	1996-07-31	Putative assembly factor for cytochrome c oxidase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; has similarity to human MCUR1/CCDC90A
+S000037798	CDS					YFL046W		6	42815	43438	W		1996-07-31	1996-07-31	
+S000001849	ORF	Verified	YFL045C	SEC53	phosphomannomutase SEC53|ALG4	chromosome 6	L000001849	6	44392	43628	C		1996-07-31	1996-07-31	Phosphomannomutase; involved in synthesis of GDP-mannose and dolichol-phosphate-mannose; required for folding and glycosylation of secretory proteins in the ER lumen
+S000037699	CDS					YFL045C		6	44392	43628	C		1996-07-31	1996-07-31	
+S000001850	ORF	Verified	YFL044C	OTU1	ubiquitin-specific protease OTU1|YOD1	chromosome 6		6	45560	44655	C		1996-07-31	1996-07-31	Deubiquitylation enzyme that binds to the chaperone-ATPase Cdc48p; may contribute to regulation of protein degradation by deubiquitylating substrates that have been ubiquitylated by Ufd2p; member of the Ovarian Tumor (OTU) family; protein abundance increases in response to DNA replication stress
+S000036927	CDS					YFL044C		6	45560	44655	C		1996-07-31	1996-07-31	
+S000001852	ORF	Verified	YFL042C	LAM5	LTC2|YFL043C	chromosome 6		6	47744	45720	C		2001-05-29	2001-05-29|1996-07-31	Putative sterol transfer protein; one of six StART-like domain-containing proteins in yeast that may be involved in sterol transfer between intracellular membranes; conserved across eukaryotes; has both GRAM and StART-like (VASt) domains; localizes to membrane contact sites throughout the cell, including nucleus-vacuole junctions and ER-mitochondrial contact sites
+S000036790	CDS					YFL042C		6	47744	45720	C		2001-05-29	2001-05-29|1996-07-31	
+S000028547	ORF	Uncharacterized	YFL041W-A			chromosome 6		6	48734	48925	W		2003-07-29	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031197	CDS					YFL041W-A		6	48734	48925	W		2003-07-29	2003-07-29	
+S000001853	ORF	Verified	YFL041W	FET5	ferroxidase FET5	chromosome 6	L000002773	6	49139	51007	W		2001-05-29	1996-07-31	Multicopper oxidase; integral membrane protein with similarity to Fet3p; may have a role in iron transport
+S000035986	CDS					YFL041W		6	49139	51007	W		2001-05-29	1996-07-31	
+S000001854	ORF	Uncharacterized	YFL040W			chromosome 6		6	51350	52972	W		2001-05-29	1996-07-31	Putative transporter; member of the sugar porter family; YFL040W is not an essential gene; may have a role in intracellular sterol transport
+S000035851	CDS					YFL040W		6	51350	52972	W		2001-05-29	1996-07-31	
+S000001855	ORF	Verified	YFL039C	ACT1	actin|ABY1|END7	chromosome 6	L000000025	6	54696	53260	C	-59	2011-02-03	1996-07-31|2011-02-03	Actin; structural protein involved in cell polarization, endocytosis, and other cytoskeletal functions
+S000034732	CDS					YFL039C		6	54377	53260	C		2001-05-29	1996-07-31	
+S000034731	CDS					YFL039C		6	54696	54687	C		2011-02-03	1996-07-31	
+S000034733	intron					YFL039C		6	54686	54378	C		2011-02-03	1996-07-31|2011-02-03	
+S000001856	ORF	Verified	YFL038C	YPT1	Rab family GTPase YPT1|YP2	chromosome 6	L000002543	6	55986	55366	C	-59	2011-02-03	1996-07-31	Rab family GTPase; involved in the ER-to-Golgi step of the secretory pathway; complex formation with the Rab escort protein Mrs6p is required for prenylation of Ypt1p by type II protein geranylgeranyltransferase (Bet2p-Bet4p); binds to unspliced HAC1 mRNA; regulates the unfolded protein response (UPR) by promoting the decay of HAC1 RNA; localizes to the early Golgi, the transitional Golgi and ER membranes, pre-autophagosomal structures, and cytoplasmic vesicles
+S000033828	CDS					YFL038C		6	55986	55366	C		2011-02-03	1996-07-31	
+S000001857	ORF	Verified	YFL037W	TUB2	beta-tubulin|SHE8|ARM10	chromosome 6	L000002388	6	56336	57709	W	-59	2011-02-03	1996-07-31	Beta-tubulin; associates with alpha-tubulin (Tub1p and Tub3p) to form tubulin dimer, which polymerizes to form microtubules; mutation in human ortholog is associated with congenital fibrosis of the extraocular muscles (CFEOM) with polymicrogyria
+S000033779	CDS					YFL037W		6	56336	57709	W		2011-02-03	1996-07-31	
+S000130129	ncRNA_gene		RUF21	RUF21		chromosome 6		6	58521	57815	C		2011-02-03	2009-05-04|2011-02-03	RNA of Unknown Function
+S000130130	noncoding_exon					RUF21		6	58521	57815	C		2011-02-03	2009-05-04|2011-02-03	
+S000001858	ORF	Verified	YFL036W	RPO41	DNA-directed RNA polymerase	chromosome 6	L000001747	6	58782	62837	W		2011-02-03	1996-07-31	Mitochondrial RNA polymerase; single subunit enzyme similar to those of T3 and T7 bacteriophages; requires a specificity subunit encoded by MTF1 for promoter recognition; Mtf1p interacts with and stabilizes the Rpo41p-promoter complex, enhancing DNA bending and melting to facilitate pre-initiation open complex formation; Rpo41p also synthesizes RNA primers for mitochondrial DNA replication
+S000033655	CDS					YFL036W		6	58782	62837	W		2011-02-03	1996-07-31	
+S000001859	ORF	Verified	YFL034C-B	MOB2	YFL035C-A|YFL035C	chromosome 6	L000003535|S000007658|S000002966	6	63993	63016	C		2011-02-03	1996-07-31	Activator of Cbk1p kinase; component of the RAM signaling network that regulates cellular polarity and morphogenesis; activation of Cbk1p facilitates the Ace2p-dependent daughter cell-specific transcription of genes involved in cell separation; similar to Mob1p
+S000036508	CDS					YFL034C-B		6	63859	63016	C		2011-02-03	1996-07-31	
+S000036507	CDS					YFL034C-B		6	63993	63974	C		2011-02-03	1996-07-31	
+S000036509	intron					YFL034C-B		6	63973	63860	C		2011-02-03	1996-07-31	
+S000006436	ORF	Verified	YFL034C-A	RPL22B	eL22|ribosomal 60S subunit protein L22B|L22e|rp4|l1c|YL31|L22B|YFL035C-B	chromosome 6	L000004513|S000002967	6	64932	64243	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L22A; required for translation of long 5' UTR of IME1 mRNA and meiotic entry; homologous to mammalian ribosomal protein L22, no bacterial homolog; RPL22B has a paralog, RPL22A, that arose from the whole genome duplication
+S000036495	CDS					YFL034C-A		6	64599	64243	C		2011-02-03	1996-07-31	
+S000036494	CDS					YFL034C-A		6	64932	64921	C		2011-02-03	1996-07-31	
+S000036496	intron					YFL034C-A		6	64920	64600	C		2011-02-03	1996-07-31	
+S000001860	ORF	Uncharacterized	YFL034W	MIL1		chromosome 6		6	65477	68698	W		2011-02-03	1996-07-31|2011-02-03	Predicted lipase; binds variant medium clathrin chain Apm2p and contributes to its membrane recruitment; putative integral membrane protein that interacts with Rpp0p component of ribosomal stalk
+S000032866	CDS					YFL034W		6	65477	68698	W		2011-02-03	1996-07-31|2011-02-03	
+S000007635	ARS		ARS603	ARS603		chromosome 6		6	68759	68861			2014-11-18	2001-03-02|2014-11-18	Highly-efficient autonomously replicating sequence on Chromosome VI; activated during the second half of S phase in ~67% of cell cycles
+S000121268	ARS_consensus_sequence					ARS603		6	68829	68839	W		2011-02-03	2007-03-08	
+S000121269	ARS_consensus_sequence					ARS603		6	68855	68845	C		2011-02-03	2007-03-08	
+S000001861	ORF	Verified	YFL033C	RIM15	protein kinase RIM15|TAK1	chromosome 6	L000003524|L000003204	6	74427	69115	C		2011-02-03	1996-07-31	Protein kinase involved in cell proliferation in response to nutrients; glucose-repressible; involved in signal transduction during cell proliferation in response to nutrients, specifically the establishment of stationary phase; identified as a regulator of IME2; phosphorylates Igo1p and Igo2p; substrate of Pho80p-Pho85p kinase
+S000032693	CDS					YFL033C		6	74427	69115	C		2011-02-03	1996-07-31	
+S000001862	ORF	Dubious	YFL032W			chromosome 6		6	74872	75192	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene HAC1/YFL031W; YFL032W is not an essential gene
+S000032655	CDS					YFL032W		6	74872	75192	W		2011-02-03	1996-07-31	
+S000001863	ORF	Verified	YFL031W	HAC1	transcription factor HAC1|IRE15|ERN4	chromosome 6	L000002611	6	75179	76147	W		2011-02-03	2001-05-29|1996-07-31	Basic leucine zipper (bZIP) transcription factor (ATF/CREB1 homolog); regulates the unfolded protein response, via UPRE binding, and membrane biogenesis; ER stress-induced splicing pathway facilitates efficient Hac1p synthesis; two functional forms of Hac1p are produced; translation initiation is repressed under non-stress conditions; protein abundance increases in response to DNA replication stress
+S000031638	CDS					YFL031W		6	75179	75839	W		2011-02-03	2001-05-29|1996-07-31	
+S000031639	CDS					YFL031W		6	76092	76147	W		2011-02-03	2001-05-29	
+S000031640	intron					YFL031W		6	75840	76091	W		2011-02-03	2001-05-29	
+S000028629	ORF	Dubious	YFL031C-A		YFL030C-A	chromosome 6		6	76115	76014	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps HAC1/YFL031W; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000031489	CDS					YFL031C-A		6	76115	76014	C		2011-02-03	2003-07-29	
+S000001864	ORF	Verified	YFL030W	AGX1	alanine--glyoxylate transaminase	chromosome 6		6	76831	77988	W		2011-02-03	1996-07-31	Alanine:glyoxylate aminotransferase (AGT); catalyzes the synthesis of glycine from glyoxylate, which is one of three pathways for glycine biosynthesis in yeast; similar to mammalian and plant alanine:glyoxylate aminotransferases; human homolog AGXT complements yeast null mutant
+S000031544	CDS					YFL030W		6	76831	77988	W		2011-02-03	1996-07-31	
+S000001865	ORF	Verified	YFL029C	CAK1	cyclin-dependent protein kinase-activating kinase CAK1|CIV1	chromosome 6	L000003177	6	79161	78055	C		2011-02-03	1996-07-31	Cyclin-dependent kinase-activating kinase; required for passage through the cell cycle; phosphorylates and activates Cdc28p; nucleotide-binding pocket differs significantly from those of most other protein kinases
+S000031499	CDS					YFL029C		6	79161	78055	C		2011-02-03	1996-07-31	
+S000001866	ORF	Verified	YFL028C	CAF16	putative ATP-binding cassette family ATPase CAF16	chromosome 6	L000003418	6	80213	79344	C		2011-02-03	1996-07-31	Part of evolutionarily-conserved CCR4-NOT regulatory complex; contains single ABC-type ATPase domain but no transmembrane domain; interacts with several subunits of Mediator
+S000030636	CDS					YFL028C		6	80213	79344	C		2011-02-03	1996-07-31	
+S000001867	ORF	Verified	YFL027C	GYP8		chromosome 6		6	81912	80419	C		2011-02-03	1996-07-31	GTPase-activating protein for yeast Rab family members; Ypt1p is the preferred in vitro substrate but also acts on Sec4p, Ypt31p and Ypt32p; involved in the regulation of ER to Golgi vesicle transport
+S000030523	CDS					YFL027C		6	81912	80419	C		2011-02-03	1996-07-31	
+S000001868	ORF	Verified	YFL026W	STE2	alpha-factor pheromone receptor STE2	chromosome 6	L000002112	6	82580	83875	W	-37	2011-02-03	1996-07-31|2011-02-03	Receptor for alpha-factor pheromone; seven transmembrane-domain GPCR that interacts with both pheromone and a heterotrimeric G protein to initiate the signaling response that leads to mating between haploid a and alpha cells
+S000030488	CDS					YFL026W		6	82580	83875	W		2011-02-03	1996-07-31|2011-02-03	
+S000001869	ORF	Verified	YFL025C	BST1	PER17	chromosome 6	L000004294	6	87234	84145	C		2011-02-03	1996-07-31	GPI inositol deacylase of the endoplasmic reticulum (ER); negatively regulates COPII vesicle formation; prevents production of vesicles with defective subunits; required for proper discrimination between resident ER proteins and Golgi-bound cargo molecules; functional ortholog of human PGAP1, mutation of which is associated with intellectual disability and encephalopathy
+S000037627	CDS					YFL025C		6	87234	84145	C		2011-02-03	1996-07-31	
+S000001870	ORF	Verified	YFL024C	EPL1		chromosome 6	L000004576	6	90345	87847	C		2011-02-03	1996-07-31	Subunit of NuA4, an essential histone H4/H2A acetyltransferase complex; conserved region at N-terminus is essential for interaction with the NPC (nucleosome core particle); required for autophagy; homologous to Drosophila Enhancer of Polycomb; coding sequence contains length polymorphisms in different strains
+S000037484	CDS					YFL024C		6	90345	87847	C		2011-02-03	1996-07-31	
+S000001871	ORF	Verified	YFL023W	BUD27	URI1	chromosome 6	S000007647	6	90986	93376	W		2011-02-03	1996-07-31	Unconventional prefoldin protein involved in translation initiation; required for correct assembly of RNAP I, II, and III in an Rpb5p-dependent manner; shuttles between nucleus and cytoplasm; mutants have inappropriate expression of nutrient sensitive genes due to translational derepression of Gcn4p transcription factor; diploid mutants show random budding; ortholog of human URI/RMP
+S000037447	CDS					YFL023W		6	90986	93376	W		2011-02-03	1996-07-31	
+S000001872	ORF	Verified	YFL022C	FRS2	phenylalanine--tRNA ligase subunit alpha	chromosome 6	L000000630	6	95010	93499	C		2011-02-03	1996-07-31|2011-02-03	Alpha subunit of cytoplasmic phenylalanyl-tRNA synthetase; forms a tetramer with Frs1p to form active enzyme; evolutionarily distant from mitochondrial phenylalanyl-tRNA synthetase based on protein sequence, but substrate binding is similar
+S000036666	CDS					YFL022C		6	95010	93499	C		2011-02-03	1996-07-31|2011-02-03	
+S000001873	ORF	Verified	YFL021W	GAT1	MEP80|NIL1	chromosome 6	L000002835	6	95966	97498	W		2011-02-03	1996-07-31	Transcriptional activator of nitrogen catabolite repression genes; contains a GATA-1-type zinc finger DNA-binding motif; activity and localization regulated by nitrogen limitation and Ure2p; different translational starts produce two major and two minor isoforms that are differentially regulated and localized
+S000036630	CDS					YFL021W		6	95966	97498	W		2011-02-03	1996-07-31	
+S000028766	ORF	Dubious	YFL021C-A			chromosome 6		6	96615	95761	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF GAT1/YFL021W
+S000033470	CDS					YFL021C-A		6	96615	95761	C		2011-02-03	2003-07-29	
+S000001874	ORF	Verified	YFL020C	PAU5	seripauperin PAU5	chromosome 6	L000002815	6	99599	99231	C		2011-02-03	1996-07-31	Member of the seripauperin multigene family; encoded mainly in subtelomeric regions; induced during alcoholic fermentation; induced by low temperature and also by anaerobic conditions; negatively regulated by oxygen and repressed by heme
+S000036468	CDS					YFL020C		6	99599	99231	C		2011-02-03	1996-07-31	
+S000006924	long_terminal_repeat		YFLWdelta1			chromosome 6		6	100581	100901	W		2011-02-03	2000-05-19	Ty1 LTR
+S000001875	ORF	Dubious	YFL019C			chromosome 6		6	100605	100252	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YFL019C is not an essential gene
+S000035776	CDS					YFL019C		6	100605	100252	C		2011-02-03	1996-07-31	
+S000006681	tRNA_gene		tP(UGG)F	SUF9		chromosome 6	L000002157|L000003809	6	101376	101478	W	-13	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in proline codons
+S000035980	intron					tP(UGG)F		6	101412	101442	W		2011-02-03	2000-05-19	
+S000035978	noncoding_exon					tP(UGG)F		6	101376	101411	W		2011-02-03	2000-05-19	
+S000035979	noncoding_exon					tP(UGG)F		6	101443	101478	W		2011-02-03	2000-05-19	
+S000001876	ORF	Verified	YFL018C	LPD1	dihydrolipoyl dehydrogenase|HPD1	chromosome 6	L000000951	6	103127	101628	C		2011-02-03	1996-07-31	Dihydrolipoamide dehydrogenase; the lipoamide dehydrogenase component (E3) of the pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase multi-enzyme complexes; PDH complex is concentrated in spots within the mitochondrial matrix, often near the ERMES complex and near peroxisomes; LPD1 has a paralog, IRC15, that arose from the whole genome duplication
+S000035657	CDS					YFL018C		6	103127	101628	C		2011-02-03	1996-07-31	
+S000002965	ORF	Verified	YFL017W-A	SMX2	mRNA splicing protein SMX2|Sm G|SmG|YFL018W-A|SNP2	chromosome 6	L000001955	6	103699	103932	W		2011-02-03	1996-07-31	Core Sm protein Sm G; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Smd3p, Sme1p, and Smx3p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm G
+S000037748	CDS					YFL017W-A		6	103699	103932	W		2011-02-03	1996-07-31	
+S000001877	ORF	Verified	YFL017C	GNA1	glucosamine 6-phosphate N-acetyltransferase|PAT1	chromosome 6	L000004865	6	104462	103983	C		2011-02-03	1996-07-31	Glucosamine-6-phosphate acetyltransferase; evolutionarily conserved; required for multiple cell cycle events including passage through START, DNA synthesis, and mitosis; involved in UDP-N-acetylglucosamine synthesis, forms GlcNAc6P from AcCoA
+S000035587	CDS					YFL017C		6	104462	103983	C		2011-02-03	1996-07-31	
+S000178095	ARS		ARS603.1			chromosome 6		6	104463	104701			2014-11-18	2014-11-18	Very weak autonomously replicating sequence
+S000001878	ORF	Verified	YFL016C	MDJ1		chromosome 6	L000001048	6	106236	104701	C		2011-02-03	1996-07-31	Co-chaperone that stimulates HSP70 protein Ssc1p ATPase activity; involved in protein folding/refolding in the mitochodrial matrix; required for proteolysis of misfolded proteins; member of the HSP40 (DnaJ) family of chaperones
+S000035478	CDS					YFL016C		6	106236	104701	C		2011-02-03	1996-07-31	
+S000028765	ORF	Dubious	YFL015W-A			chromosome 6		6	106415	106732	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF YFL015C
+S000033469	CDS					YFL015W-A		6	106415	106732	W		2011-02-03	2003-07-29	
+S000001879	ORF	Dubious	YFL015C			chromosome 6		6	106963	106469	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps dubious ORF YFL015W-A; YFL015C is not an essential gene
+S000034451	CDS					YFL015C		6	106963	106469	C		2011-02-03	1996-07-31	
+S000001880	ORF	Verified	YFL014W	HSP12	lipid-binding protein HSP12|HOR5|GLP1	chromosome 6	L000000816	6	107256	107585	W		2011-02-03	1996-07-31	Plasma membrane protein involved in maintaining membrane organization; involved in maintaining organization during stress conditions; induced by heat shock, oxidative stress, osmostress, stationary phase, glucose depletion, oleate and alcohol; protein abundance increased in response to DNA replication stress and dietary restriction; regulated by the HOG and Ras-Pka pathways; required for dietary restriction-induced lifespan extension
+S000034418	CDS					YFL014W		6	107256	107585	W		2011-02-03	1996-07-31	
+S000028628	ORF	Dubious	YFL013W-A			chromosome 6		6	107799	108602	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps IES1/YFL013C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
+S000031487	CDS					YFL013W-A		6	107799	108602	W		2011-02-03	2003-07-29	
+S000002964	ORF	Dubious	YFL012W-A		YFL013W-A	chromosome 6		6	109810	110184	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene IES1/YFL013C
+S000029905	CDS					YFL012W-A		6	109810	110184	W		2011-02-03	1996-07-31	
+S000001881	ORF	Verified	YFL013C	IES1		chromosome 6		6	109930	107852	C		2011-02-03	1996-07-31	Subunit of the INO80 chromatin remodeling complex; relocalizes to the cytosol in response to hypoxia
+S000034280	CDS					YFL013C		6	109930	107852	C		2011-02-03	1996-07-31	
+S000001882	ORF	Uncharacterized	YFL012W			chromosome 6		6	110647	111093	W		2011-02-03	1996-07-31	Putative protein of unknown function; transcribed during sporulation; null mutant exhibits increased resistance to rapamycin
+S000033440	CDS					YFL012W		6	110647	111093	W		2011-02-03	1996-07-31	
+S000001883	ORF	Verified	YFL011W	HXT10	hexose transporter HXT10	chromosome 6	L000000844	6	112345	113985	W		2011-02-03	1996-07-31	Putative hexose transporter; expressed at low levels and expression is repressed by glucose
+S000033350	CDS					YFL011W		6	112345	113985	W		2011-02-03	1996-07-31	
+S000001955	ORF	Verified	YFL010W-A	AUA1	YFL011W-A	chromosome 6	L000000156	6	114990	115274	W		2011-02-03	1999-07-17	Protein required for the negative regulation by ammonia of Gap1p; Gap1p is a general amino acid permease
+S000031553	CDS					YFL010W-A		6	114990	115274	W		2011-02-03	1999-07-17	
+S000001884	ORF	Verified	YFL010C	WWM1		chromosome 6		6	115743	115108	C		2011-02-03	1996-07-31	WW domain containing protein of unknown function; binds to Mca1p, a caspase-related protease that regulates H2O2-induced apoptosis; overexpression causes G1 phase growth arrest and clonal death that is suppressed by overexpression of MCA1
+S000033237	CDS					YFL010C		6	115743	115108	C		2011-02-03	1996-07-31	
+S000001885	ORF	Verified	YFL009W	CDC4	SCF ubiquitin ligase complex subunit CDC4	chromosome 6	L000000244	6	116145	118484	W	-9	2011-02-03	1996-07-31	F-box protein required for both the G1/S and G2/M phase transitions; modular substrate specificity factor which associates with core SCF (Cdc53p, Skp1p and Hrt1p/Rbx1p) to form the SCFCdc4 complex; SCFCdc4 acts as a ubiquitin-protein ligase directing ubiquitination of cyclin-dependent kinase (CDK) phosphorylated substrates, such as: Sic1p, Far1p, Cdc6p, Clb6p, and Cln3p
+S000032546	CDS					YFL009W		6	116145	118484	W		2011-02-03	1996-07-31	
+S000007645	ARS		ARS603.5	ARS603.5		chromosome 6		6	118637	118957			2011-02-03	2001-03-15	Autonomously replicating sequence on Chromosome VI; activated early in S phase in ~50% of cell cycles
+S000121270	ARS_consensus_sequence					ARS603.5		6	118688	118678	C		2011-02-03	2007-03-08	
+S000001886	ORF	Verified	YFL008W	SMC1	cohesin subunit SMC1|CHL10	chromosome 6	L000001926	6	119429	123106	W	-10	2011-02-03	1996-07-31	Subunit of the multiprotein cohesin complex; essential protein involved in chromosome segregation and in double-strand DNA break repair; SMC chromosomal ATPase family member, binds DNA with a preference for DNA with secondary structure
+S000032447	CDS					YFL008W		6	119429	123106	W		2011-02-03	1996-07-31	
+S000001887	ORF	Verified	YFL007W	BLM10	YFL006W	chromosome 6	S000007437	6	123479	129910	W		2011-02-03	2003-09-26|1996-07-31	Proteasome activator; binds the core proteasome (CP) and stimulates proteasome-mediated protein degradation by inducing gate opening; required for sequestering CP into proteasome storage granule (PSG) during quiescent phase and for nuclear import of CP in proliferating cells; required for resistance to bleomycin, may be involved in protecting against oxidative damage; similar to mammalian PA200
+S000031431	CDS					YFL007W		6	123479	129910	W		2011-02-03	2003-09-26|1996-07-31	
+S000007636	ARS		ARS604	ARS604		chromosome 6		6	127751	128071			2011-02-03	2001-03-02	Extremely inefficient ARS on Chromosome VI
+S000121271	ARS_consensus_sequence					ARS604		6	127869	127879	W		2011-02-03	2007-03-08	
+S000001889	ORF	Verified	YFL005W	SEC4	Rab family GTPase SEC4|SRO6	chromosome 6	L000001830	6	130334	130981	W	-6	2011-02-03	1996-07-31	Rab family GTPase; essential for vesicle-mediated exocytic secretion and autophagy; associates with the exocyst component Sec15p and may regulate polarized delivery of transport vesicles to the exocyst at the plasma membrane
+S000031208	CDS					YFL005W		6	130334	130981	W		2011-02-03	1996-07-31	
+S000130127	ncRNA_gene		RUF20	RUF20		chromosome 6		6	131503	131061	C		2011-02-03	2009-05-04	RNA of Unknown Function
+S000130128	noncoding_exon					RUF20		6	131503	131061	C		2011-02-03	2009-05-04	
+S000001890	ORF	Verified	YFL004W	VTC2	vacuolar transporter chaperone|PHM1	chromosome 6	S000007511	6	131810	134296	W		2011-02-03	1996-07-31	Regulatory subunit of the vacuolar transporter chaperone (VTC) complex; involved in membrane trafficking, vacuolar polyphosphate accumulation, microautophagy and non-autophagic vacuolar fusion; VTC2 has a paralog, VTC3, that arose from the whole genome duplication
+S000031094	CDS					YFL004W		6	131810	134296	W		2011-02-03	1996-07-31	
+S000007637	ARS		ARS605	ARS605		chromosome 6		6	135985	136085			2011-02-03	2001-03-02	Autonomously replicating sequence on Chromosome VI; activated early in S phase in ~27% of cell cycles; inactive during premeiotic S phase
+S000121274	ARS_consensus_sequence					ARS605		6	136047	136037	C		2011-02-03	2007-03-08	
+S000001891	ORF	Verified	YFL003C	MSH4	MutS family protein MSH4	chromosome 6	L000001192	6	137157	134521	C		2011-02-03	1996-07-31	Protein involved in meiotic recombination; required for normal levels of crossing over, colocalizes with Zip2p to discrete foci on meiotic chromosomes, has homology to bacterial MutS protein
+S000030006	CDS					YFL003C		6	137157	134521	C		2011-02-03	1996-07-31	
+S000006669	tRNA_gene		tN(GUU)F			chromosome 6	L000003818	6	137559	137486	C		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000030707	noncoding_exon					tN(GUU)F		6	137559	137486	C		2011-02-03	2000-05-19	
+S000006925	long_terminal_repeat		YFLWdelta2			chromosome 6		6	137663	137912	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006926	long_terminal_repeat		YFLWdelta3			chromosome 6		6	137913	138240	W		2011-02-03	2000-05-19	Ty2 LTR
+S000006930	LTR_retrotransposon		YFLWTy2-1		Ty2	chromosome 6		6	137913	143871	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007404	transposable_element_gene		YFL002W-B		gag protein	chromosome 6		6	138204	139520	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000031732	CDS					YFL002W-B		6	138204	139520	W		2011-02-03	1999-07-17	
+S000002962	transposable_element_gene		YFL002W-A		gag-pol fusion protein	chromosome 6		6	138204	143517	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000031719	CDS					YFL002W-A		6	138204	139496	W		2011-02-03	1999-07-17	
+S000031720	CDS					YFL002W-A		6	139498	143517	W		2011-02-03	1999-07-17	
+S000031721	plus_1_translational_frameshift					YFL002W-A		6	139497	139497	W		2011-02-03	1999-07-17	
+S000006927	long_terminal_repeat		YFLWdelta4			chromosome 6		6	143540	143871	W		2011-02-03	2000-05-19	Ty2 LTR
+S000006928	long_terminal_repeat		YFLWdelta5			chromosome 6		6	143872	143947	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006929	long_terminal_repeat		YFLWtau1			chromosome 6		6	144203	144523	W		2011-02-03	2000-05-19	Ty4 LTR
+S000006923	long_terminal_repeat		YFLCdelta6			chromosome 6		6	144822	144524	C		2011-02-03	2000-05-19	Ty1 LTR
+S000001894	ORF	Verified	YFL002C	SPB4	putative ATP-dependent RNA helicase SPB4	chromosome 6	L000001991	6	146934	145114	C		2011-02-03	1996-07-31	Putative ATP-dependent RNA helicase; nucleolar protein required for synthesis of 60S ribosomal subunits at a late step in the pathway; sediments with 66S pre-ribosomes in sucrose gradients
+S000029891	CDS					YFL002C		6	146934	145114	C		2011-02-03	1996-07-31	
+S000001895	ORF	Verified	YFL001W	DEG1	pseudouridine synthase DEG1|HRM3|PUS3	chromosome 6	L000000501	6	147131	148459	W	-1	2011-02-03	1996-07-31	tRNA:pseudouridine synthase; introduces pseudouridines at position 38 or 39 in tRNA; also responsible for pseudouracil modification of some mRNAs; important for maintenance of translation efficiency and normal cell growth, localizes to both the nucleus and cytoplasm; non-essential for viability
+S000037314	CDS					YFL001W		6	147131	148459	W		2011-02-03	1996-07-31	
+S000001896	centromere		CEN6	CEN6		chromosome 6	L000000299	6	148510	148627	W	0	2011-02-03	2000-05-19|2006-05-08	Chromosome VI centromere
+S000077272	centromere_DNA_Element_I					CEN6		6	148510	148519	W		2011-02-03	2004-10-04	
+S000077273	centromere_DNA_Element_II					CEN6		6	148520	148602	W		2011-02-03	2004-10-04	
+S000077274	centromere_DNA_Element_III					CEN6		6	148603	148627	W		2011-02-03	2004-10-04	
+S000001897	ORF	Verified	YFR001W	LOC1		chromosome 6		6	149110	149724	W		2011-02-03	1996-07-31	Nuclear protein involved in asymmetric localization of ASH1 mRNA; binds double-stranded RNA in vitro; constituent of 66S pre-ribosomal particles; required at post-transcriptional step for efficient retrotransposition; absence results in decreased Ty1 Gag:GFP protein levels; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000033165	CDS					YFR001W		6	149110	149724	W		2011-02-03	1996-07-31	
+S000001898	ORF	Verified	YFR002W	NIC96	linker nucleoporin NIC96	chromosome 6	L000001250	6	150016	152535	W		2011-02-03	1996-07-31	Linker nucleoporin component of the nuclear pore complex (NPC); also part of the NPC nuclear basket; contributes to nucleocytoplasmic transport and NPC biogenesis; forms stable associations with three FG-nucleoporins (Nsp1p, Nup57p, and Nup49p)
+S000033226	CDS					YFR002W		6	150016	152535	W		2011-02-03	1996-07-31	
+S000001899	ORF	Verified	YFR003C	YPI1	type 1 protein phosphatase-activating protein YPI1	chromosome 6		6	153124	152657	C		2011-02-03	1996-07-31	Regulatory subunit of the type I protein phosphatase (PP1) Glc7p; Glc7p participates in the regulation of a variety of metabolic processes including mitosis and glycogen metabolism; in vitro evidence suggests Ypi1p is an inhibitor of Glc7p while in vivo evidence suggests it is an activator; overproduction causes decreased cellular content of glycogen; partial depletion causes lithium sensitivity, while overproduction confers lithium-tolerance
+S000033251	CDS					YFR003C		6	153124	152657	C		2011-02-03	1996-07-31	
+S000001900	ORF	Verified	YFR004W	RPN11	proteasome regulatory particle lid subunit RPN11|MPR1	chromosome 6	L000002976|L000002965	6	153393	154313	W		2011-02-03	1996-07-31	Metalloprotease subunit of 19S regulatory particle; part of 26S proteasome lid; couples the deubiquitination and degradation of proteasome substrates; involved, independent of catalytic activity, in fission of mitochondria and peroxisomes; protein abundance increases in response to DNA replication stress
+S000034135	CDS					YFR004W		6	153393	154313	W		2011-02-03	1996-07-31	
+S000001901	ORF	Verified	YFR005C	SAD1	mRNA splicing protein SAD1	chromosome 6	L000001795	6	155873	154527	C		2011-02-03	1996-07-31	Conserved zinc-finger domain protein involved in pre-mRNA splicing; critical for splicing of nearly all intron-containing genes; required for assembly of U4 snRNA into the U4/U6 particle
+S000034191	CDS					YFR005C		6	155873	154527	C		2011-02-03	1996-07-31	
+S000001902	ORF	Uncharacterized	YFR006W		putative Xaa-Pro dipeptidase	chromosome 6		6	156145	157752	W		2011-02-03	1996-07-31	Putative X-Pro aminopeptidase; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YFR006W is not an essential gene
+S000034389	CDS					YFR006W		6	156145	157752	W		2011-02-03	1996-07-31	
+S000006564	tRNA_gene		tF(GAA)F			chromosome 6	L000003817	6	158007	157916	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000035384	intron					tF(GAA)F		6	157970	157952	C		2011-02-03	2000-05-19	
+S000035383	noncoding_exon					tF(GAA)F		6	157951	157916	C		2011-02-03	2000-05-19	
+S000035382	noncoding_exon					tF(GAA)F		6	158007	157971	C		2011-02-03	2000-05-19	
+S000006933	long_terminal_repeat		YFRWdelta7			chromosome 6		6	158376	158686	W		2011-02-03	2000-05-19	Ty1 LTR
+S000001903	ORF	Verified	YFR007W	YFH7	AIM12	chromosome 6		6	159299	160360	W		2011-02-03	1996-07-31	Putative kinase with similarity to the PRK/URK/PANK kinase subfamily; the PRK/URK/PANK subfamily of P-loop kinases is also known as phosphoribulokinase/uridine kinase/bacterial pantothenate kinase
+S000035412	CDS					YFR007W		6	159299	160360	W		2011-02-03	1996-07-31	
+S000001904	ORF	Verified	YFR008W	FAR7		chromosome 6		6	160535	161200	W		2011-02-03	1996-07-31	Protein involved in recovery from pheromone-induced cell cycle arrest; acts in a Far1p-independent pathway; interacts with Far3p, Far8p, Far9p, Far10p, and Far11p; protein abundance increases in response to DNA replication stress
+S000035513	CDS					YFR008W		6	160535	161200	W		2011-02-03	1996-07-31	
+S000006931	long_terminal_repeat		YFRCdelta8			chromosome 6		6	162135	161804	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006579	tRNA_gene		tG(GCC)F1	SUF20		chromosome 6	L000002167|L000003810	6	162228	162298	W	6	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
+S000031966	noncoding_exon					tG(GCC)F1		6	162228	162298	W		2011-02-03	2000-05-19	
+S000001905	ORF	Verified	YFR009W	GCN20	putative AAA family ATPase GCN20	chromosome 6	L000000689	6	162488	164746	W		2011-02-03	1996-07-31	Positive regulator of the Gcn2p kinase activity; forms a complex with Gcn1p; proposed to stimulate Gcn2p activation by an uncharged tRNA
+S000035605	CDS					YFR009W		6	162488	164746	W		2011-02-03	1996-07-31	
+S000028823	ORF	Dubious	YFR009W-A			chromosome 6		6	163875	164132	W		2011-02-03	2003-08-07|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YFR009W; identified by expression profiling and mass spectrometry
+S000033643	CDS					YFR009W-A		6	163875	164132	W		2011-02-03	2003-08-07|2003-07-29	
+S000001906	ORF	Verified	YFR010W	UBP6	ubiquitin-specific protease UBP6	chromosome 6	L000004586	6	165067	166566	W		2011-02-03	1996-07-31	Ubiquitin-specific protease; situated in the base subcomplex of the 26S proteasome, releases free ubiquitin from branched polyubiquitin chains en bloc, rather than from the distal tip of the chain; negatively regulates degradation of ubiquitinated proteins by the proteasome; works in opposition to Hul5p polyubiquitin elongation activity; mutant has aneuploidy tolerance; human homolog UBP14 complements yeast null mutant
+S000037248	CDS					YFR010W		6	165067	166566	W		2011-02-03	1996-07-31	
+S000028824	ORF	Dubious	YFR010W-A			chromosome 6		6	166728	166916	W		2011-02-03	2003-08-07|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized gene YFR011C; identified by expression profiling and mass spectrometry
+S000033645	CDS					YFR010W-A		6	166728	166916	W		2011-02-03	2003-08-07|2003-07-29	
+S000001907	ORF	Verified	YFR011C	MIC19	AIM13|MCS19	chromosome 6		6	167258	166746	C		2011-02-03	1996-07-31	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; Mic19p is peripheral to the inner membrane and may connect Mic60p with the Mic10p-Mic12p-Mic27p subcomplex; both yeast and human Mic19p become oxidized, and oxidation may regulate MICOS
+S000037259	CDS					YFR011C		6	167258	166746	C		2011-02-03	1996-07-31	
+S000006779	tRNA_gene		tY(GUA)F1	SUP11		chromosome 6	L000003811|L000002188	6	167437	167525	W	4	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000030879	intron					tY(GUA)F1		6	167476	167489	W		2011-02-03	2000-05-19	
+S000030877	noncoding_exon					tY(GUA)F1		6	167437	167475	W		2011-02-03	2000-05-19	
+S000030878	noncoding_exon					tY(GUA)F1		6	167490	167525	W		2011-02-03	2000-05-19	
+S000007638	ARS		ARS606	ARS606		chromosome 6		6	167547	167801			2014-11-18	2001-03-06|2014-11-18	Highly-efficient autonomously replicating sequence on Chromosome VI; activated early in S phase in ~74% of cell cycles; replication capacity dependent upon Sum1p
+S000121275	ARS_consensus_sequence					ARS606		6	167736	167726	C		2011-02-03	2007-03-08	
+S000001908	ORF	Verified	YFR012W	DCV1		chromosome 6		6	167888	168496	W		2011-02-03	1996-07-31	Protein of unknown function; deletion mutant shows strong genetic interaction with cdc28-as1 mutant in the presence of 1-NM-PP1; DCV1 has a paralog, YOL019W, that arose from the whole genome duplication
+S000037437	CDS					YFR012W		6	167888	168496	W		2011-02-03	1996-07-31	
+S000007606	ORF	Uncharacterized	YFR012W-A			chromosome 6		6	169224	169310	W		2011-02-03	2001-02-26	Putative protein of unknown function; identified by homology
+S000037183	CDS					YFR012W-A		6	169224	169310	W		2011-02-03	2001-02-26	
+S000001909	ORF	Verified	YFR013W	IOC3		chromosome 6		6	169922	172285	W		2011-02-03	1996-07-31	Subunit of the Isw1a complex; Isw1a has nucleosome-stimulated ATPase activity and represses transcription initiation by specific positioning of a promoter proximal dinucleosome; promotes nucleosome shifts in the 5 prime direction; IOC3 has a paralog, ESC8, that arose from the whole genome duplication
+S000037546	CDS					YFR013W		6	169922	172285	W		2011-02-03	1996-07-31	
+S000001910	ORF	Verified	YFR014C	CMK1	calmodulin-dependent protein kinase CMK1	chromosome 6	L000000366	6	173877	172537	C		2011-02-03	1996-07-31|2011-02-03	Calmodulin-dependent protein kinase; may play a role in stress response, many Ca++/calmodulin dependent phosphorylation substrates demonstrated in vitro, amino acid sequence similar to mammalian Cam Kinase II; CMK1 has a paralog, CMK2, that arose from the whole genome duplication
+S000030207	CDS					YFR014C		6	173877	172537	C		2011-02-03	1996-07-31|2011-02-03	
+S000001911	ORF	Verified	YFR015C	GSY1	glycogen (starch) synthase GSY1	chromosome 6	L000000739	6	176391	174265	C		2011-02-03	1996-07-31	Glycogen synthase; expression induced by glucose limitation, nitrogen starvation, environmental stress, and entry into stationary phase; GSY1 has a paralog, GSY2, that arose from the whole genome duplication; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
+S000030390	CDS					YFR015C		6	176391	174265	C		2011-02-03	1996-07-31	
+S000001912	ORF	Verified	YFR016C			chromosome 6		6	180743	177042	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and bud; interacts with Spa2p; YFR016C is not an essential gene
+S000030514	CDS					YFR016C		6	180743	177042	C		2011-02-03	1996-07-31	
+S000006580	tRNA_gene		tG(GCC)F2			chromosome 6	L000003816	6	181044	180974	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000031970	noncoding_exon					tG(GCC)F2		6	181044	180974	C		2011-02-03	2000-05-19	
+S000001913	ORF	Verified	YFR017C	IGD1		chromosome 6		6	182861	182274	C		2011-02-03	1996-07-31	Cytoplasmic protein that inhibits Gdb1p glycogen debranching activity; required for normal intracellular accumulation of glycogen; phosphorylated in vivo; expression increases during wine fermentation; protein abundance increases in response to DNA replication stress; IGD1 has a paralog, YOL024W, that arose from the whole genome duplication
+S000031438	CDS					YFR017C		6	182861	182274	C		2011-02-03	1996-07-31	
+S000001914	ORF	Uncharacterized	YFR018C			chromosome 6		6	184222	183131	C		2011-02-03	1996-07-31	Putative protein of unknown function; SWAT-GFP and seamless GFP fusion proteins localize to the endoplasmic reticulum and mCherry fusion protein localizes to the vacuole
+S000031539	CDS					YFR018C		6	184222	183131	C		2011-02-03	1996-07-31	
+S000001915	ORF	Verified	YFR019W	FAB1	1-phosphatidylinositol-3-phosphate 5-kinase|SVL7	chromosome 6	L000000597	6	184502	191338	W		2011-02-03	1996-07-31|2011-02-03	1-phosphatidylinositol-3-phosphate 5-kinase; vacuolar membrane kinase that generates phosphatidylinositol (3,5)P2, which is involved in vacuolar sorting and homeostasis
+S000032628	CDS					YFR019W		6	184502	191338	W		2011-02-03	1996-07-31|2011-02-03	
+S000006731	tRNA_gene		tS(GCU)F			chromosome 6	L000003815	6	191613	191513	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000037442	intron					tS(GCU)F		6	191576	191558	C		2011-02-03	2000-05-19	
+S000037441	noncoding_exon					tS(GCU)F		6	191557	191513	C		2011-02-03	2000-05-19	
+S000037440	noncoding_exon					tS(GCU)F		6	191613	191577	C		2011-02-03	2000-05-19	
+S000006932	long_terminal_repeat		YFRCdelta9			chromosome 6		6	191854	191685	C		2011-02-03	2000-05-19	Ty1 LTR
+S000001916	ORF	Verified	YFR020W	CSS2		chromosome 6		6	192737	193435	W		2011-02-03	1996-07-31	Protein of unknown function, secreted when constitutively expressed; SWAT-GFP fusion protein localizes to the endoplasmic reticulum (ER) and extracellular region, while mCherry fusion protein localizes to the ER and vacuole; mRNA identified as translated by ribosome profiling data; CSS2 is a non-essential gene
+S000031952	CDS					YFR020W		6	192737	193435	W		2011-02-03	1996-07-31	
+S000001917	ORF	Verified	YFR021W	ATG18	phosphoinositide binding protein ATG18|SVP1|AUT10|CVT18|NMR1	chromosome 6		6	194812	196314	W		2011-02-03	1996-07-31	Phosphoinositide binding protein; required for vesicle formation in autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; binds both phosphatidylinositol (3,5)-bisphosphate and phosphatidylinositol 3-phosphate; WD-40 repeat protein; relocalizes from vacuole to cytoplasm upon DNA replication stress; has 4 mammalian homologs WIPI1, WIPI2, WIPI3 and WIPI4/WDR45; mutations in human WDR45 cause static encephalopathy of childhood with neurodegeneration in adulthood
+S000032840	CDS					YFR021W		6	194812	196314	W		2011-02-03	1996-07-31	
+S000001918	ORF	Verified	YFR022W	ROG3	ART7	chromosome 6		6	196833	199034	W		2011-02-03	1996-07-31	Alpha-arrestin involved in ubiquitin-dependent endocytosis; contributes to desensitization of agonist-occupied alpha-factor receptor Ste2p by Rsp5p-independent internalization; PPXY motif-mediated binding of the ubiquitin ligase Rsp5p is not required for adaptation; mutation suppresses the temperature sensitivity of an mck1 rim11 double mutant; SWAT-GFP and mCherry fusion proteins localize to the cytosol; ROG3 has a paralog, ROD1, that arose from the whole genome duplication
+S000032952	CDS					YFR022W		6	196833	199034	W		2011-02-03	1996-07-31	
+S000007639	ARS		ARS607	ARS607		chromosome 6		6	199395	199505			2011-02-03	2001-03-06	Highly-efficient autonomously replicating sequence on Chromosome VI; activated very early in S phase in >85% of cell cycles
+S000121276	ARS_consensus_sequence					ARS607		6	199416	199426	W		2011-02-03	2007-03-08	
+S000130131	ncRNA_gene		RUF22	RUF22		chromosome 6		6	199813	199299	C		2011-02-03	2009-05-04	RNA of Unknown Function; precise location of 3' end uncertain; RUF22 may be longer than currently annotated
+S000130132	noncoding_exon					RUF22		6	199813	199299	C		2011-02-03	2009-05-04	
+S000001919	ORF	Verified	YFR023W	PES4		chromosome 6	L000001381	6	199874	201709	W		2011-02-03	1996-07-31	Poly(A) binding protein, suppressor of DNA polymerase epsilon mutation; PES4 has a paralog, MIP6, that arose from the whole genome duplication
+S000033022	CDS					YFR023W		6	199874	201709	W		2011-02-03	1996-07-31	
+S000002968	ORF	Verified	YFR024C-A	LSB3	YFR024C	chromosome 6		6	203433	201960	C		2011-02-03	1996-07-31|2008-06-02	Protein containing a C-terminal SH3 domain; binds Las17p, which is a homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly and actin polymerization; protein abundance increases in response to DNA replication stress; LSB3 has a paralog, YSC84, that arose from the whole genome duplication
+S000035055	CDS					YFR024C-A		6	203292	201960	C		2011-02-03	1996-07-31|2008-06-02	
+S000035054	CDS					YFR024C-A		6	203433	203387	C		2011-02-03	1996-07-31	
+S000035056	intron					YFR024C-A		6	203386	203293	C		2011-02-03	1996-07-31|2008-06-02	
+S000001921	ORF	Verified	YFR025C	HIS2	histidinol-phosphatase	chromosome 6	L000000779	6	204750	203743	C	32	2011-02-03	1996-07-31	Histidinolphosphatase; catalyzes the eighth step in histidine biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts; transcription is regulated by general amino acid control
+S000033826	CDS					YFR025C		6	204750	203743	C		2011-02-03	1996-07-31	
+S000006511	tRNA_gene		tA(AGC)F			chromosome 6	L000003814	6	204996	204924	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000032277	noncoding_exon					tA(AGC)F		6	204996	204924	C		2011-02-03	2000-05-19	
+S000001922	ORF	Verified	YFR026C	ULI1		chromosome 6		6	206257	205748	C		2011-02-03	1996-07-31	Protein of unknown function; involved in and induced by the endoplasmic reticulum unfolded protein response (UPR); SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
+S000033947	CDS					YFR026C		6	206257	205748	C		2011-02-03	1996-07-31	
+S000006934	long_terminal_repeat		YFRWdelta10			chromosome 6		6	206922	207138	W		2011-02-03	2000-05-19	Ty1 LTR
+S000001923	ORF	Verified	YFR027W	ECO1	CTF7	chromosome 6	L000004789	6	207452	208297	W		2011-02-03	1996-07-31	Acetyltransferase; required for establishment of sister chromatid cohesion; acetylates Mps3p to regulate nuclear organization; modifies Smc3p at replication forks and Mcd1p in response to dsDNA breaks; phosphorylated by three kinases (Cdc28p, Cdc7p, Mck1p) to generate pair of phosphates spaced precisely for recognition by ubiquitin ligase SCF-Cdc4; mutations in human homolog ESCO2 cause Roberts syndrome; relative distribution to nucleus increases upon DNA replication stress
+S000034947	CDS					YFR027W		6	207452	208297	W		2011-02-03	1996-07-31	
+S000001924	ORF	Verified	YFR028C	CDC14	phosphoprotein phosphatase CDC14|OAF3	chromosome 6	L000000254	6	210068	208413	C	36	2011-02-03	1996-07-31	Protein phosphatase required for mitotic exit; required for rDNA segregation, cytokinesis, meiosis I spindle disassembly, environmental stress response; held in nucleolus by Cdc55p in early meiosis, liberated by FEAR and Mitotic Exit Network in anaphase, enabling it to effect a decrease in CDK/B-cyclin activity and mitotic exit; sequestered in metaphase II, released upon entry into anaphase II; human homolog CDC14A can complement thermosensitivity of yeast cdc14-1 mutant
+S000035011	CDS					YFR028C		6	210068	208413	C		2011-02-03	1996-07-31	
+S000006780	tRNA_gene		tY(GUA)F2	SUP6		chromosome 6	L000003813|L000002185	6	210707	210619	C	38	2011-02-03	2000-05-19	Tyrosine tRNA (tRNA-Tyr), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000030888	intron					tY(GUA)F2		6	210668	210655	C		2011-02-03	2000-05-19	
+S000030887	noncoding_exon					tY(GUA)F2		6	210654	210619	C		2011-02-03	2000-05-19	
+S000030886	noncoding_exon					tY(GUA)F2		6	210707	210669	C		2011-02-03	2000-05-19	
+S000001925	ORF	Verified	YFR029W	PTR3	RAA2|SSY3	chromosome 6	L000003185|L000003493|S000029400|L000001554	6	210937	212973	W	46	2011-02-03	1996-07-31	Component of the SPS plasma membrane amino acid sensor system; senses external amino acid concentration and transmits intracellular signals that result in regulation of expression of amino acid permease genes; other members are Ssy1p, Ptr3p, and Ssy5p
+S000035279	CDS					YFR029W		6	210937	212973	W		2011-02-03	1996-07-31	
+S000001926	ORF	Verified	YFR030W	MET10	sulfite reductase subunit alpha	chromosome 6	L000001084	6	213312	216419	W	41	2011-02-03	1996-07-31	Subunit alpha of assimilatory sulfite reductase; complex converts sulfite into sulfide
+S000037036	CDS					YFR030W		6	213312	216419	W		2011-02-03	1996-07-31	
+S000007640	ARS		ARS608	ARS608		chromosome 6		6	216357	216704			2011-02-03	2001-03-06	Extremely inefficient autonomously replicating sequence on Chr VI; activated early in S phase in <10% of cell cycles
+S000121280	ARS_consensus_sequence					ARS608		6	216484	216494	W		2011-02-03	2007-03-08	
+S000001927	ORF	Verified	YFR031C	SMC2	condensin subunit SMC2	chromosome 6	L000001927	6	220106	216594	C		2011-02-03	1996-07-31|2011-02-03	Subunit of the condensin complex; condensin reorganizes chromosomes during both mitosis and meiosis; essential SMC chromosomal ATPase family member that forms a subcomplex with Smc2p that has ATP-hydrolyzing and DNA-binding activity, but other condensin subunits are required for chromatin binding; required for clustering of tRNA genes at the nucleolus
+S000037057	CDS					YFR031C		6	220106	216594	C		2011-02-03	1996-07-31|2011-02-03	
+S000002104	ORF	Verified	YFR031C-A	RPL2A	uL2|ribosomal 60S subunit protein L2A|L2|rp8|YL6|L5A|L2A|RPL5B	chromosome 6	L000003147	6	221418	220507	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L2A; homologous to mammalian ribosomal protein L2 and bacterial L2; RPL2A has a paralog, RPL2B, that arose from the whole genome duplication
+S000032329	CDS					YFR031C-A		6	221267	220507	C		2011-02-03	1996-07-31	
+S000032328	CDS					YFR031C-A		6	221418	221415	C		2011-02-03	1996-07-31	
+S000032330	intron					YFR031C-A		6	221414	221268	C		2011-02-03	1996-07-31	
+S000130133	ncRNA_gene		RUF23	RUF23		chromosome 6		6	221714	221967	W		2011-02-03	2009-05-04	RNA of Unknown Function; precise location of 3' end uncertain; RUF23 may be longer than currently annotated
+S000130134	noncoding_exon					RUF23		6	221714	221967	W		2011-02-03	2009-05-04	
+S000001928	ORF	Uncharacterized	YFR032C	RRT5		chromosome 6		6	222959	222090	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription; expressed at high levels during sporulation
+S000037177	CDS					YFR032C		6	222959	222090	C		2011-02-03	1996-07-31	
+S000006437	ORF	Verified	YFR032C-A	RPL29	eL29|ribosomal 60S subunit protein L29|L29e|YL43|L29	chromosome 6	L000004514	6	223437	223258	C		2011-02-03	1999-07-17	Ribosomal 60S subunit protein L29; not essential for translation, but required for proper joining of large and small ribosomal subunits and for normal translation rate; homologous to mammalian ribosomal protein L29, no bacterial homolog
+S000034020	CDS					YFR032C-A		6	223437	223258	C		2011-02-03	1999-07-17	
+S000122098	five_prime_UTR_intron					YFR032C-A		6	223771	223441	C		2011-02-03	2007-04-04	
+S000028630	ORF	Uncharacterized	YFR032C-B			chromosome 6		6	223973	223710	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032386	CDS					YFR032C-B		6	223973	223710	C		2011-02-03	2003-07-29	
+S000001929	ORF	Verified	YFR033C	QCR6	ubiquinol--cytochrome-c reductase subunit 6|UCR6|COR3	chromosome 6	L000001546	6	224769	224326	C		2011-02-03	1996-07-31	Subunit 6 of the ubiquinol cytochrome-c reductase complex; the complex, also known as the cytochrome bc(1) complex or Complex III, is a component of the mitochondrial inner membrane electron transport chain; highly acidic protein; required for maturation of cytochrome c1; may be loosely associated with the complex since it is easily released into the intermembrane space
+S000037271	CDS					YFR033C		6	224769	224326	C		2011-02-03	1996-07-31	
+S000001930	ORF	Verified	YFR034C	PHO4	phosphate-sensing transcription factor PHO4|phoD	chromosome 6	L000001420	6	225958	225020	C	47	2011-02-03	1996-07-31	Basic helix-loop-helix (bHLH) transcription factor of the myc-family; activates transcription cooperatively with Pho2p in response to phosphate limitation; binding to 'CACGTG' motif is regulated by chromatin restriction, competitive binding of Cbf1p to the same DNA binding motif and cooperation with Pho2p; function is regulated by phosphorylation at multiple sites and by phosphate availability
+S000029931	CDS					YFR034C		6	225958	225020	C		2011-02-03	1996-07-31	
+S000028631	ORF	Dubious	YFR034W-A			chromosome 6		6	226022	226309	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps YFR035C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
+S000032387	CDS					YFR034W-A		6	226022	226309	W		2011-02-03	2003-07-29	
+S000001931	ORF	Uncharacterized	YFR035C			chromosome 6		6	226465	226121	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant exhibits synthetic phenotype with alpha-synuclein
+S000030041	CDS					YFR035C		6	226465	226121	C		2011-02-03	1996-07-31	
+S000006620	tRNA_gene		tK(CUU)F			chromosome 6	L000003812	6	226760	226688	C		2011-02-03	2000-05-19|2011-02-03	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000036006	noncoding_exon					tK(CUU)F		6	226760	226688	C		2011-02-03	2000-05-19|2011-02-03	
+S000001932	ORF	Verified	YFR036W	CDC26	anaphase promoting complex subunit CDC26|SCD26|HIT3	chromosome 6	L000000265|L000001809	6	226963	227337	W	52	2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; relocalizes to the cytosol in response to hypoxia
+S000031122	CDS					YFR036W		6	226963	227337	W		2011-02-03	1996-07-31	
+S000028767	ORF	Dubious	YFR036W-A			chromosome 6		6	227451	228101	W		2011-02-03	2003-08-07|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps verified ORF RSC8/YFR037C
+S000033471	CDS					YFR036W-A		6	227451	228101	W		2011-02-03	2003-08-07|2003-07-29	
+S000001933	ORF	Verified	YFR037C	RSC8	SWH3	chromosome 6	L000003458|L000003393	6	229186	227513	C		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; essential for viability and mitotic growth; homolog of SWI/SNF subunit Swi3p, but unlike Swi3p, does not activate transcription of reporters
+S000031163	CDS					YFR037C		6	229186	227513	C		2011-02-03	1996-07-31	
+S000001934	ORF	Verified	YFR038W	IRC5	putative ATPase	chromosome 6		6	229380	231941	W		2011-02-03	2004-02-05|1996-07-31	Putative ATPase containing the DEAD/H helicase-related sequence motif; null mutant displays increased levels of spontaneous Rad52p foci; SWAT-GFP and mCherry fusion proteins localize to the nucleus
+S000031348	CDS					YFR038W		6	229380	231941	W		2011-02-03	2004-02-05|1996-07-31	
+S000001935	ORF	Verified	YFR039C	OSW7		chromosome 6		6	233544	232012	C		2011-02-03	1996-07-31	Protein involved in outer spore wall assembly; likely involved directly in dityrosine layer assembly; may be involved in response to high salt and changes in carbon source; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; deletion mutant has decreased spore survival in Drosophila feces; OSW7 has a paralog, SHE10, that arose from the whole genome duplication; paralogs are redundant for spore wall dityrosine assembly
+S000031395	CDS					YFR039C		6	233544	232012	C		2011-02-03	1996-07-31	
+S000001936	ORF	Verified	YFR040W	SAP155		chromosome 6	L000002598	6	234242	237250	W		2011-02-03	2003-09-26|1996-07-31|2011-02-03	Protein required for function of the Sit4p protein phosphatase; forms a complex with Sit4p; member of a family of similar proteins including Sap4p, Sap185p, and Sap190p; protein abundance increases in response to DNA replication stress; SAP155 has a paralog, SAP4, that arose from the whole genome duplication
+S000032382	CDS					YFR040W		6	234242	237250	W		2011-02-03	2003-09-26|1996-07-31|2011-02-03	
+S000001937	ORF	Verified	YFR041C	ERJ5		chromosome 6		6	238255	237368	C		2011-02-03	1996-07-31	Type I membrane protein with a J domain; required to preserve the folding capacity of the endoplasmic reticulum; loss of the non-essential ERJ5 gene leads to a constitutively induced unfolded protein response
+S000032446	CDS					YFR041C		6	238255	237368	C		2011-02-03	1996-07-31	
+S000001938	ORF	Verified	YFR042W	KEG1		chromosome 6		6	238458	239060	W		2011-02-03	1996-07-31	Integral membrane protein of the ER; physically interacts with Kre6p; has a role in the synthesis of beta-1,6-glucan in the cell wall; required for cell viability
+S000033287	CDS					YFR042W		6	238458	239060	W		2011-02-03	1996-07-31	
+S000001939	ORF	Verified	YFR043C	IRC6		chromosome 6		6	239827	239114	C		2011-02-03	1996-07-31	Clathrin coat accessory factor; involved in clathrin-mediated vesicle trafficking; may function to link the AP-1 clathrin adaptor complex with the Rab GTPase Ypt31p; has structural similarity to G-proteins; mouse homolog Aagab (p34) functionally complements irc6 null mutation; null mutant displays increased levels of spontaneous Rad52p foci
+S000033328	CDS					YFR043C		6	239827	239114	C		2011-02-03	1996-07-31	
+S000001940	ORF	Verified	YFR044C	DUG1	metallodipeptidase	chromosome 6		6	241437	239992	C		2011-02-03	1996-07-31	Cys-Gly metallo-di-peptidase; forms a complex with Dug2p and Dug3p to degrade glutathione (GSH) and other peptides containing a gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p); human homolog CNDP2 can complement yeast dug1 mutant
+S000033403	CDS					YFR044C		6	241437	239992	C		2011-02-03	1996-07-31	
+S000001941	ORF	Uncharacterized	YFR045W			chromosome 6		6	241998	242999	W		2011-02-03	2004-02-05|2007-04-04|1996-07-31	Putative mitochondrial transport protein; null mutant is viable, exhibits decreased levels of chitin and normal resistance to calcofluor white
+S000122078	CDS					YFR045W		6	241998	242009	W		2011-02-03	2007-04-04	
+S000034370	CDS					YFR045W		6	242082	242999	W		2011-02-03	2004-02-05|2007-04-04|1996-07-31	
+S000122079	intron					YFR045W		6	242010	242081	W		2011-02-03	2007-04-04	
+S000001942	ORF	Verified	YFR046C	CNN1	centromere-binding protein CNN1	chromosome 6		6	244159	243074	C		2011-02-03	1996-07-31	Kinetochore protein; associated with the essential kinetochore proteins Nnf1p and Spc24p; phosphorylated by Clb5-Cdk1, Mps1p, Ipl1p and to a lesser extent by Clb2-Cdk1; localizes to the lower region of the Ndc80 complex during anaphase and regulates KMN activity by inhibiting the Mtw1 and Spc105 complexes from binding to the Ndc80 complex; similar to metazoan CENP-T
+S000034403	CDS					YFR046C		6	244159	243074	C		2011-02-03	1996-07-31	
+S000001943	ORF	Verified	YFR047C	BNA6	nicotinate-nucleotide diphosphorylase (carboxylating)|QPT1	chromosome 6		6	245166	244279	C		2011-02-03	1996-07-31	Quinolinate phosphoribosyl transferase; required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
+S000034510	CDS					YFR047C		6	245166	244279	C		2011-02-03	1996-07-31	
+S000001944	ORF	Verified	YFR048W	RMD8		chromosome 6		6	246146	248134	W		2011-02-03	1996-07-31	Cytosolic protein required for sporulation
+S000035572	CDS					YFR048W		6	246146	248134	W		2011-02-03	1996-07-31	
+S000001945	ORF	Verified	YFR049W	YMR31	KGD4|mitochondrial 37S ribosomal protein YMR31	chromosome 6	L000002726	6	248523	248894	W		2011-02-03	1996-07-31	Subunit of the mitochondrial alpha-ketoglutarate dehydrogenase; recruits E3 subunit (Lpd1p) to the E1-E2 (Kgd1p, Kgd2p) core; has similarity to human mitochondrial ribosomal protein MRP-S36
+S000035651	CDS					YFR049W		6	248523	248894	W		2011-02-03	1996-07-31	
+S000001946	ORF	Verified	YFR050C	PRE4	proteasome core particle subunit beta 7	chromosome 6	L000001486	6	249866	249066	C		2011-02-03	1996-07-31	Beta 7 subunit of the 20S proteasome
+S000035525	CDS					YFR050C		6	249866	249066	C		2011-02-03	1996-07-31	
+S000001947	ORF	Verified	YFR051C	RET2	coatomer subunit delta	chromosome 6	L000004127	6	251803	250163	C		2011-02-03	1996-07-31	Delta subunit of the coatomer complex (COPI); COPI coats Golgi-derived transport vesicles; involved in retrograde transport between Golgi and ER
+S000035589	CDS					YFR051C		6	251803	250163	C		2011-02-03	1996-07-31	
+S000001948	ORF	Verified	YFR052W	RPN12	proteasome regulatory particle lid subunit RPN12|NIN1	chromosome 6	L000001251	6	252505	253329	W		2011-02-03	1996-07-31	Subunit of the 19S regulatory particle of the 26S proteasome lid; synthetically lethal with RPT1, which is an ATPase component of the 19S regulatory particle; physically interacts with Nob1p and Rpn3p; protein abundance increases in response to DNA replication stress
+S000036541	CDS					YFR052W		6	252505	253329	W		2011-02-03	1996-07-31	
+S000028768	ORF	Dubious	YFR052C-A			chromosome 6		6	253734	253429	C		2011-02-03	2003-08-07|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF HXK1/YFR053C
+S000033472	CDS					YFR052C-A		6	253734	253429	C		2011-02-03	2003-08-07|2003-07-29	
+S000001949	ORF	Verified	YFR053C	HXK1	hexokinase 1	chromosome 6	L000000833	6	255049	253592	C	70	2011-02-03	1996-07-31	Hexokinase isoenzyme 1; a cytosolic protein that catalyzes phosphorylation of glucose during glucose metabolism; expression is highest during growth on non-glucose carbon sources; glucose-induced repression involves hexokinase Hxk2p; HXK1 has a paralog, HXK2, that arose from the whole genome duplication
+S000036582	CDS					YFR053C		6	255049	253592	C		2011-02-03	1996-07-31	
+S000007641	ARS		ARS609	ARS609		chromosome 6		6	256277	256431			2011-02-03	2001-03-06	Autonomously replicating sequence on Chromosome VI; activated very late in S phase in ~37% of cell cycles; this origin is specifically fired in the absence of RAD53 in the presence of hydroxyurea
+S000121281	ARS_consensus_sequence					ARS609		6	256385	256375	C		2011-02-03	2007-03-08	
+S000001950	ORF	Dubious	YFR054C			chromosome 6		6	259433	258855	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000036701	CDS					YFR054C		6	259433	258855	C		2011-02-03	1996-07-31	
+S000001952	ORF	Verified	YFR055W	IRC7	cysteine-S-conjugate beta-lyase IRC7	chromosome 6		6	264204	265226	W		2011-02-03	1996-07-31	Beta-lyase involved in the production of thiols; null mutant displays increased levels of spontaneous Rad52p foci; expression induced by nitrogen limitation in a GLN3, GAT1-dependent manner and by copper levels in a Mac1-dependent manner
+S000037482	CDS					YFR055W		6	264204	265226	W		2011-02-03	1996-07-31	
+S000001951	ORF	Dubious	YFR056C			chromosome 6		6	264325	263957	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YFR055W
+S000037536	CDS					YFR056C		6	264325	263957	C		2011-02-03	1996-07-31	
+S000001953	ORF	Uncharacterized	YFR057W			chromosome 6		6	269061	269516	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000030392	CDS					YFR057W		6	269061	269516	W		2011-02-03	1996-07-31	
+S000121260	ARS		ARS610	ARS610	ARSVI-270	chromosome 6		6	269417	270035			2011-02-03	2007-03-08	Autonomously Replicating Sequence
+S000028957	telomere		TEL06R			chromosome 6		6	269731	270161	W	73	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome VI; composed of an X element core sequence and a short terminal stretch of telomeric repeats
+S000028958	telomeric_repeat					TEL06R		6	270113	270161	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome VI
+S000028959	X_element					TEL06R		6	269731	270112	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome VI; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000029680	gene_group		MAL1	MAL1		chromosome 7	L000001000	7							Multigene complex, polymeric locus for maltose fermentation; encodes the MAL13 trans-acting MAL-activator, MAL11 maltose permease, and MAL12 maltase
+S000028887	telomere		TEL07L			chromosome 7		7	781	1	C	-172	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome VII; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
+S000028888	telomeric_repeat					TEL07L		7	34	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome VII
+S000028889	X_element					TEL07L		7	781	318	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome VII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028890	X_element_combinatorial_repeat					TEL07L		7	317	35	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr VII; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000006948	long_terminal_repeat		YGLWomega1			chromosome 7		7	838	1079	W		2000-05-19	2000-05-19	Ty5 LTR
+S000003232	ORF	Verified	YGL263W	COS12		chromosome 7	L000004069	7	2790	3932	W		1996-07-31	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000031687	CDS					YGL263W		7	2790	3932	W		1996-07-31	1996-07-31	
+S000003231	ORF	Uncharacterized	YGL262W			chromosome 7		7	5312	5839	W		1996-07-31	1996-07-31	Putative protein of unknown function; null mutant displays elevated sensitivity to expression of a mutant huntingtin fragment or of alpha-synuclein; YGL262W is not an essential gene
+S000031603	CDS					YGL262W		7	5312	5839	W		1996-07-31	1996-07-31	
+S000003230	ORF	Uncharacterized	YGL261C	PAU11	seripauperin PAU11	chromosome 7		7	6652	6290	C		1996-07-31	1996-07-31	Putative protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; mRNA expression appears to be regulated by SUT1 and UPC2
+S000030725	CDS					YGL261C		7	6652	6290	C		1996-07-31	1996-07-31	
+S000003229	ORF	Uncharacterized	YGL260W			chromosome 7		7	6860	7090	W		1996-07-31	1996-07-31	Putative protein of unknown function; transcription is significantly increased in a NAP1 deletion background; deletion mutant has increased accumulation of nickel and selenium
+S000030684	CDS					YGL260W		7	6860	7090	W		1996-07-31	1996-07-31	
+S000003228	ORF	Uncharacterized	YGL259W	YPS5		chromosome 7	L000004385	7	8470	8967	W		1996-07-31	1996-07-31	Protein with similarity to GPI-anchored aspartic proteases; such proteases are Yap1p and Yap3p; mCherry fusion protein localizes to the vacuole
+S000030354	CDS					YGL259W		7	8470	8967	W		1996-07-31	1996-07-31	
+S000007607	ORF	Uncharacterized	YGL258W-A			chromosome 7		7	9162	9395	W		2001-02-26	2001-02-26	Putative protein of unknown function
+S000037184	CDS					YGL258W-A		7	9162	9395	W		2001-02-26	2001-02-26	
+S000003227	ORF	Verified	YGL258W	VEL1		chromosome 7		7	11110	11730	W		1996-07-31	1996-07-31	Protein of unknown function; highly induced in zinc-depleted conditions and has increased expression in NAP1 deletion mutants; VEL1 has a paralog, YOR387C, that arose from a single-locus duplication
+S000030158	CDS					YGL258W		7	11110	11730	W		1996-07-31	1996-07-31	
+S000003226	ORF	Verified	YGL257C	MNT2	alpha-1,3-mannosyltransferase MNT2	chromosome 7	S000007417	7	14157	12481	C		1996-07-31	1996-07-31	Mannosyltransferase; involved in adding the 4th and 5th mannose residues of O-linked glycans
+S000037390	CDS					YGL257C		7	14157	12481	C		1996-07-31	1996-07-31	
+S000003225	ORF	Verified	YGL256W	ADH4	alcohol dehydrogenase ADH4|ZRG5|NRC465	chromosome 7	L000000044	7	15159	16307	W	-169	2008-06-02	1996-07-31|2008-06-02	Alcohol dehydrogenase isoenzyme type IV; dimeric enzyme demonstrated to be zinc-dependent despite sequence similarity to iron-activated alcohol dehydrogenases; transcription is induced in response to zinc deficiency
+S000037356	CDS					YGL256W		7	15159	16307	W		2008-06-02	1996-07-31|2008-06-02	
+S000003224	ORF	Verified	YGL255W	ZRT1	high-affinity Zn(2+) transporter ZRT1	chromosome 7	L000003260	7	20978	22108	W		1996-07-31	1996-07-31	High-affinity zinc transporter of the plasma membrane; responsible for the majority of zinc uptake; transcription is induced under low-zinc conditions by the Zap1p transcription factor
+S000037251	CDS					YGL255W		7	20978	22108	W		1996-07-31	1996-07-31	
+S000003223	ORF	Verified	YGL254W	FZF1	SUL1|RSU1|NRC299	chromosome 7	L000001781|L000000656	7	22304	23203	W		1996-07-31	1996-07-31	Transcription factor involved in sulfite metabolism; sole identified regulatory target is SSU1; overexpression suppresses sulfite-sensitivity of many unrelated mutants due to hyperactivation of SSU1, contains five zinc fingers; protein abundance increases in response to DNA replication stress
+S000036566	CDS					YGL254W		7	22304	23203	W		1996-07-31	1996-07-31	
+S000003222	ORF	Verified	YGL253W	HXK2	hexokinase 2|SCI2|HKB|HEX1	chromosome 7	L000000834	7	23935	25395	W	-167	1996-07-31	1996-07-31	Hexokinase isoenzyme 2; phosphorylates glucose in cytosol; predominant hexokinase during growth on glucose; represses expression of HXK1, GLK1, induces expression of its own gene; antiapoptotic; phosphorylation/dephosphorylation at Ser14 by kinase Snf1p, phosphatase Glc7p-Reg1p regulates nucleocytoplasmic shuttling of Hxk2p; functions downstream of Sit4p in control of cell cycle, mitochondrial function, oxidative stress resistance, chronological lifespan; has paralog HXK1
+S000036456	CDS					YGL253W		7	23935	25395	W		1996-07-31	1996-07-31	
+S000003221	ORF	Verified	YGL252C	RTG2		chromosome 7	L000001784	7	27484	25718	C		1996-07-31	1996-07-31	Sensor of mitochondrial dysfunction; regulates the subcellular location of Rtg1p and Rtg3p, transcriptional activators of the retrograde (RTG) and TOR pathways; Rtg2p is inhibited by the phosphorylated form of Mks1p
+S000036310	CDS					YGL252C		7	27484	25718	C		1996-07-31	1996-07-31	
+S000003220	ORF	Verified	YGL251C	HFM1	MER3	chromosome 7	L000002581	7	31636	27921	C		2000-07-14	2000-07-14|1996-07-31	Meiosis specific DNA helicase; involved in the conversion of double-stranded breaks to later recombination intermediates and in crossover control; catalyzes the unwinding of Holliday junctions; has ssDNA and dsDNA stimulated ATPase activity
+S000035419	CDS					YGL251C		7	31426	27921	C		2000-07-14	2000-07-14|1996-07-31	
+S000035418	CDS					YGL251C		7	31636	31579	C		2000-07-14	2000-07-14	
+S000035420	intron					YGL251C		7	31578	31427	C		2000-07-14	2000-07-14	
+S000003219	ORF	Verified	YGL250W	RMR1		chromosome 7		7	31910	32635	W		2003-09-22	2003-09-22|1996-07-31	Protein required for meiotic recombination and gene conversion; null mutant displays reduced PIS1 expression and growth defects on non-fermentable carbon sources and minimal media; GFP-fusion protein localizes to both cytoplasm and nucleus
+S000035397	CDS					YGL250W		7	31910	32635	W		2003-09-22	2003-09-22|1996-07-31	
+S000003218	ORF	Verified	YGL249W	ZIP2		chromosome 7	L000003536	7	33098	35212	W		1996-07-31	1996-07-31	Meiosis-specific protein; involved in normal synaptonemal complex formation and pairing between homologous chromosomes during meiosis; relocalizes from mitochondrion to cytoplasm upon DNA replication stress
+S000034159	CDS					YGL249W		7	33098	35212	W		1996-07-31	1996-07-31	
+S000144910	ncRNA_gene		RME3	RME3	SUT534	chromosome 7		7	35013	33109	C		2014-11-18	2014-11-18	Antisense transcript that represses the meiosis-specific ZIP2 gene; expressed in haploid cells under sporulation inducing conditions; regulates ZIP2 in a cis-dependent manner; RME3 is repressed by the MAT a1/alpha2 complex in diploid cells
+S000178099	noncoding_exon					RME3		7	35013	33109	C		2014-11-18	2014-11-18	
+S000003217	ORF	Verified	YGL248W	PDE1	3',5'-cyclic-nucleotide phosphodiesterase PDE1	chromosome 7	L000001358	7	35653	36762	W		1996-07-31	1996-07-31	Low-affinity cyclic AMP phosphodiesterase; controls glucose and intracellular acidification-induced cAMP signaling, target of the cAMP-protein kinase A (PKA) pathway; glucose induces transcription and inhibits translation
+S000033288	CDS					YGL248W		7	35653	36762	W		1996-07-31	1996-07-31	
+S000003216	ORF	Verified	YGL247W	BRR6		chromosome 7		7	36933	37526	W		1996-07-31	1996-07-31	Essential nuclear envelope integral membrane protein; interacts and functions with Apq12p and Brl1p in lipid homeostasis; mutants are defective in nuclear pore complex biogenesis, nuclear envelope morphology, mRNA nuclear export, and are sensitive to sterol biosynthesis inhibitors and membrane fluidizing agents; exhibits synthetic lethal genetic interactions with genes involved in lipid metabolism; homologous to Brl1p
+S000033240	CDS					YGL247W		7	36933	37526	W		1996-07-31	1996-07-31	
+S000003215	ORF	Verified	YGL246C	RAI1	decapping nuclease	chromosome 7	S000007430	7	38780	37617	C		1996-07-31	1996-07-31	Nuclear protein with decapping endonuclease activity; targets mRNAs with unmethylated 7-methylguanosine cap structures and 5'-triphosphates; binds to and stabilizes the exoribonuclease Rat1p; required for pre-rRNA processing; relocalizes to the cytosol in response to hypoxia; homologous to human DOM3Z
+S000033150	CDS					YGL246C		7	38780	37617	C		1996-07-31	1996-07-31	
+S000003214	ORF	Verified	YGL245W	GUS1	glutamate--tRNA ligase GUS1|GluRS|GSN1	chromosome 7		7	39023	41149	W		2003-09-22	2003-09-22|1996-07-31	Glutamyl-tRNA synthetase (GluRS); forms a complex with methionyl-tRNA synthetase (Mes1p) and Arc1p; complex formation increases the catalytic efficiency of both tRNA synthetases and ensures their correct localization to the cytoplasm; protein abundance increases in response to DNA replication stress
+S000033122	CDS					YGL245W		7	39023	41149	W		2003-09-22	2003-09-22|1996-07-31	
+S000003213	ORF	Verified	YGL244W	RTF1	CSL3	chromosome 7	L000001782	7	41498	43174	W		1999-07-17	1999-07-17|1996-07-31	Subunit of RNAPII-associated chromatin remodeling Paf1 complex; regulates gene expression by directing cotranscriptional histone modification, influences transcription and chromatin structure through several independent functional domains; directly or indirectly regulates DNA-binding properties of Spt15p and relative activities of different TATA elements; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay
+S000032242	CDS					YGL244W		7	41498	43174	W		1999-07-17	1999-07-17|1996-07-31	
+S000003212	ORF	Verified	YGL243W	TAD1	tRNA-specific adenosine deaminase	chromosome 7	L000004621	7	43307	44509	W		1996-07-31	1996-07-31	tRNA-specific adenosine deaminase; deaminates adenosine-37 to inosine in tRNA-Ala
+S000032159	CDS					YGL243W		7	43307	44509	W		1996-07-31	1996-07-31	
+S000003211	ORF	Verified	YGL242C			chromosome 7		7	45197	44652	C		1996-07-31	1996-07-31	Protein of unknown function; N-terminally propionylated in vivo; deletion mutant is viable
+S000032036	CDS					YGL242C		7	45197	44652	C		1996-07-31	1996-07-31	
+S000003210	ORF	Verified	YGL241W	KAP114		chromosome 7	L000004867	7	45445	48459	W		1996-07-31	1996-07-31	Karyopherin, responsible for nuclear import of specific proteins; cargoes include Spt15p, Sua7p, histones H2A and H2B, and Nap1p; amino terminus shows similarity to those of other importins, particularly Cse1p; localization is primarily nuclear; function is regulated by sumoylation; protein abundance increases in response to DNA replication stress
+S000032007	CDS					YGL241W		7	45445	48459	W		1996-07-31	1996-07-31	
+S000003209	ORF	Verified	YGL240W	DOC1	anaphase promoting complex subunit DOC1|APC10	chromosome 7	L000004350	7	48613	49365	W		2003-09-22	2003-09-22|1996-07-31	Processivity factor; required for the ubiquitination activity of the anaphase promoting complex (APC), mediates the activity of the APC by contributing to substrate recognition; involved in cyclin proteolysis; contains a conserved DOC1 homology domain
+S000031054	CDS					YGL240W		7	48613	49365	W		2003-09-22	2003-09-22|1996-07-31	
+S000003207	ORF	Verified	YGL238W	CSE1	importin-alpha export receptor|KAP109	chromosome 7	L000000425	7	49552	52434	W		1996-07-31	1996-07-31	Nuclear envelope protein that acts as a recycling factor; mediates the nuclear export of Srp1p (importin alpha) back to the cytoplasm after its import substrates have been released into the nucleoplasm, thereby allowing the participation of Srp1p in multiple rounds of nuclear import; required for accurate chromosome segregation; homolog of metazoan CAS and human CSE1L, overexpression of which is implicated in cancer progression
+S000029914	CDS					YGL238W		7	49552	52434	W		1996-07-31	1996-07-31	
+S000003208	ORF	Dubious	YGL239C			chromosome 7		7	49745	49431	C		1996-07-31	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified gene CSE1
+S000029968	CDS					YGL239C		7	49745	49431	C		1996-07-31	1996-07-31	
+S000003206	ORF	Verified	YGL237C	HAP2		chromosome 7	L000000752	7	53528	52731	C	-148	1996-07-31	1996-07-31	Subunit of the Hap2p/3p/4p/5p CCAAT-binding complex; complex is heme-activated and glucose-repressed; complex is a transcriptional activator and global regulator of respiratory gene expression; contains sequences sufficient for both complex assembly and DNA binding; respiratory defect of the null mutant is functionally complemented by human NFYA
+S000037826	CDS					YGL237C		7	53528	52731	C		1996-07-31	1996-07-31	
+S000003204	ORF	Uncharacterized	YGL235W			chromosome 7		7	55279	55815	W		2004-07-15	1996-07-31	Putative protein of unknown function; potential Cdc28p substrate; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
+S000037051	CDS					YGL235W		7	55279	55815	W		2004-07-15	1996-07-31	
+S000003205	ORF	Verified	YGL236C	MTO1	tRNA modification protein MTO1|IPS1	chromosome 7		7	55796	53787	C		2004-07-15	2004-07-15|1996-07-31	Mitochondrial protein; forms heterodimer complex with Mss1p that performs 5-carboxymethylaminomethyl modification of the wobble uridine base in mitochondrial tRNAs; required for respiration in paromomycin-resistant 15S rRNA mutants; human homolog MTO1 can complement yeast null mutant
+S000037073	CDS					YGL236C		7	55796	53787	C		2004-07-15	2004-07-15|1996-07-31	
+S000003203	ORF	Verified	YGL234W	ADE5,7	bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase	chromosome 7	L000000035	7	56482	58890	W	-152	2004-07-15	1996-07-31	Enzyme of the 'de novo' purine nucleotide biosynthetic pathway; contains aminoimidazole ribotide synthetase and glycinamide ribotide synthetase activities
+S000036969	CDS					YGL234W		7	56482	58890	W		2004-07-15	1996-07-31	
+S000003202	ORF	Verified	YGL233W	SEC15	Rab GTPase-binding exocyst subunit SEC15	chromosome 7	L000001840	7	59122	61854	W		2004-07-15	1996-07-31	Essential 113 kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis prior to SNARE-mediated fusion; interacts with and functions as a downstream effector of active, GTP-bound Sec4p, a Rab family GTPase
+S000036914	CDS					YGL233W		7	59122	61854	W		2004-07-15	1996-07-31	
+S000003201	ORF	Verified	YGL232W	TAN1	putative tRNA acetyltransferase	chromosome 7		7	62075	63002	W		2004-07-15	1996-07-31	Putative tRNA acetyltransferase; RNA-binding protein required for the formation of the modified nucleoside N(4)-acetylcytidine in serine and leucine tRNAs but not required for the same modification in 18S rRNA; protein abundance increases in response to DNA replication stress
+S000036130	CDS					YGL232W		7	62075	62131	W		2004-07-15	1996-07-31	
+S000036131	CDS					YGL232W		7	62190	63002	W		2004-07-15	1996-07-31	
+S000036132	intron					YGL232W		7	62132	62189	W		2004-07-15	1996-07-31	
+S000003200	ORF	Verified	YGL231C	EMC4	chaperone EMC4	chromosome 7		7	63620	63048	C		2004-07-15	1996-07-31	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; homologous to worm ZK616.6/EMC-4 and fly CG11137; mutation is functionally complemented by human EMC4
+S000035888	CDS					YGL231C		7	63620	63048	C		2004-07-15	1996-07-31	
+S000003199	ORF	Uncharacterized	YGL230C			chromosome 7		7	64215	63772	C		2004-07-15	1996-07-31	Putative protein of unknown function; non-essential gene
+S000034975	CDS					YGL230C		7	64215	63772	C		2004-07-15	1996-07-31	
+S000118451	ARS		ARS702		ARSVII-64	chromosome 7		7	64360	64464			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000119018	ARS_consensus_sequence					ARS702		7	64458	64444	C		2006-10-03	2006-10-03	
+S000003198	ORF	Verified	YGL229C	SAP4		chromosome 7	L000003341	7	66959	64503	C		2004-07-15	1996-07-31	Protein required for function of the Sit4p protein phosphatase; member of a family of similar proteins that form complexes with Sit4p, including Sap155p, Sap185p, and Sap190p; SAP4 has a paralog, SAP155, that arose from the whole genome duplication
+S000034012	CDS					YGL229C		7	66959	64503	C		2004-07-15	1996-07-31	
+S000003197	ORF	Verified	YGL228W	SHE10		chromosome 7	L000002872	7	67598	69331	W		2004-07-15	1996-07-31	Protein involved in outer spore wall assembly; likely involved directly in dityrosine layer assembly; putative GPI-anchored protein; overexpression causes growth arrest;; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; SHE10 has a paralog, OSW7/YFR039C, that arose from the whole genome duplication; paralogs are redundant for spore wall dityrosine assembly
+S000033924	CDS					YGL228W		7	67598	69331	W		2004-07-15	1996-07-31	
+S000003196	ORF	Verified	YGL227W	VID30	glucose-induced degradation complex subunit VID30|GID1	chromosome 7	L000004008	7	69671	72547	W		2004-07-15	1996-07-31	Central component of GID Complex, involved in FBPase degradation; interacts strongly with Gid8p to serve as a scaffold for other GID Complex subunits; contains SPRY domain and 3 domains that are also found in Gid8p - LisH, CTLH, and CRA; required for association of Vid vesicles and actin patches in vacuole import and degradation pathway; shifts the balance of nitrogen metabolism toward glutamate production; localizes to the nucleus and the cytoplasm
+S000033846	CDS					YGL227W		7	69671	72547	W		2004-07-15	1996-07-31	
+S000003194	ORF	Verified	YGL226C-A	OST5	dolichyl-diphosphooligosaccharide--protein glycotransferase subunit	chromosome 7	L000002944	7	73158	72749	C		2011-02-03	1996-07-31	Zeta subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins
+S000037108	CDS					YGL226C-A		7	72988	72749	C		2011-02-03	1996-07-31	
+S000037107	CDS					YGL226C-A		7	73158	73138	C		2011-02-03	1996-07-31	
+S000037109	intron					YGL226C-A		7	73137	72989	C		2011-02-03	1996-07-31	
+S000003195	ORF	Verified	YGL226W	MTC3		chromosome 7		7	73340	73711	W		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; mtc3 is synthetically sick with cdc13-1
+S000033716	CDS					YGL226W		7	73340	73711	W		2011-02-03	1996-07-31	
+S000006757	tRNA_gene		tV(AAC)G3			chromosome 7	L000003854	7	73902	73829	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000036907	noncoding_exon					tV(AAC)G3		7	73902	73829	C		2011-02-03	2000-05-19	
+S000003193	ORF	Verified	YGL225W	VRG4	GDP-mannose transporter|VIG4|LDB3|GOG5|VAN2	chromosome 7	L000000719	7	76894	77907	W		2011-02-03	1996-07-31	Golgi GDP-mannose transporter; regulates Golgi function and glycosylation in Golgi; VRG4 has a paralog, HVG1, that arose from the whole genome duplication
+S000033042	CDS					YGL225W		7	76894	77907	W		2011-02-03	1996-07-31	
+S000003192	ORF	Verified	YGL224C	SDT1	nucleotidase|SSM1	chromosome 7	L000003406	7	78857	78015	C		2011-02-03	1996-07-31	Pyrimidine nucleotidase; responsible for production of nicotinamide riboside and nicotinic acid riboside; overexpression suppresses the 6-AU sensitivity of transcription elongation factor S-II, as well as resistance to other pyrimidine derivatives; SDT1 has a paralog, PHM8, that arose from the whole genome duplication
+S000032898	CDS					YGL224C		7	78857	78015	C		2011-02-03	1996-07-31	
+S000003191	ORF	Verified	YGL223C	COG1	Golgi transport complex subunit COG1|SEC36|LDB11|COD3	chromosome 7		7	80365	79112	C		2011-02-03	1996-07-31	Essential component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
+S000032824	CDS					YGL223C		7	80365	79112	C		2011-02-03	1996-07-31	
+S000003190	ORF	Verified	YGL222C	EDC1		chromosome 7		7	81186	80659	C		2011-02-03	1996-07-31	RNA-binding protein that activates mRNA decapping directly; binds to mRNA substrate and enhances activity of decapping proteins Dcp1p and Dcp2p; has a role in translation during heat stress; protein becomes more abundant and forms cytoplasmic foci in response to DNA replication stress; EDC1 has a paralog, EDC2, that arose from the whole genome duplication
+S000031900	CDS					YGL222C		7	81186	80659	C		2011-02-03	1996-07-31	
+S000003189	ORF	Verified	YGL221C	NIF3	hypothetical protein	chromosome 7	L000003316	7	82292	81426	C		2011-02-03	1996-07-31	Protein of unknown function; similar to Listeria monocytogenes major sigma factor (rpoD gene product); the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000031759	CDS					YGL221C		7	82292	81426	C		2011-02-03	1996-07-31	
+S000003188	ORF	Verified	YGL220W	BOL2	FRA2|AIM15	chromosome 7		7	82374	82736	W		2011-02-03	1996-07-31	Cytosolic protein involved in repression of iron regulon transcription; forms an iron-independent complex with Fra1p, Grx3p, and Grx4p; null mutant fails to repress the iron regulon and is sensitive to nickel; sequence similarity to human BOLA family member, BOLA2
+S000031708	CDS					YGL220W		7	82374	82736	W		2011-02-03	1996-07-31	
+S000003186	ORF	Dubious	YGL218W		SRF1	chromosome 7		7	83650	84300	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 93% of ORF overlaps the verified gene MDM34; deletion in cyr1 mutant results in loss of stress resistance
+S000030779	CDS					YGL218W		7	83650	84300	W		2011-02-03	1996-07-31	
+S000003187	ORF	Verified	YGL219C	MDM34	ERMES complex subunit MDM34|MMM2	chromosome 7		7	84257	82878	C		2011-02-03	1996-07-31	Mitochondrial component of the ERMES complex; links the ER to mitochondria and may promote inter-organellar calcium and phospholipid exchange as well as coordinating mitochondrial DNA replication and growth; required for mitophagy; ERMES complex is often co-localized with peroxisomes and with concentrated areas of pyruvate dehydrogenase
+S000030809	CDS					YGL219C		7	84257	82878	C		2011-02-03	1996-07-31	
+S000003184	ORF	Verified	YGL216W	KIP3	tubulin-dependent ATPase KIP3	chromosome 7	L000003911	7	84885	87302	W		2011-02-03	1996-07-31	Kinesin-related antiparallel sliding motor protein; involved in mitotic spindle positioning; sliding activity promotes bipolar spindle assembly and maintenance of genome stability; inhibits spindle elongation, destabilizing late anaphase spindle microtubules that polymerize beyond the midzone
+S000037780	CDS					YGL216W		7	84885	87302	W		2011-02-03	1996-07-31	
+S000003185	ORF	Dubious	YGL217C			chromosome 7		7	85180	84839	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF KIP3/YGL216W
+S000030618	CDS					YGL217C		7	85180	84839	C		2011-02-03	1996-07-31	
+S000003183	ORF	Verified	YGL215W	CLG1		chromosome 7	L000000356	7	87981	89339	W		2011-02-03	1996-07-31	Cyclin-like protein that interacts with Pho85p; has sequence similarity to G1 cyclins PCL1 and PCL2
+S000037731	CDS					YGL215W		7	87981	89339	W		2011-02-03	1996-07-31	
+S000003182	ORF	Dubious	YGL214W			chromosome 7		7	90010	90495	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion mutation phenotype is likely due to the overlapping verified ORF SKI8/YGL213C
+S000037674	CDS					YGL214W		7	90010	90495	W		2011-02-03	1996-07-31|2011-02-03	
+S000003181	ORF	Verified	YGL213C	SKI8	SKI complex subunit WD repeat protein SKI8|REC103	chromosome 7	L000001906	7	91247	90054	C	-149	2011-02-03	1996-07-31	Ski complex component and WD-repeat protein; mediates 3'-5' RNA degradation by the cytoplasmic exosome; also required for meiotic double-strand break recombination; null mutants have superkiller phenotype
+S000037570	CDS					YGL213C		7	91247	90054	C		2011-02-03	1996-07-31	
+S000003180	ORF	Verified	YGL212W	VAM7	VPL24|VPS43	chromosome 7	L000002452	7	91432	92382	W		2011-02-03	1996-07-31	Vacuolar SNARE protein; functions with Vam3p in vacuolar protein trafficking; has an N-terminal PX domain (phosphoinositide-binding module) that binds PtdIns-3-P and mediates membrane binding; SNAP-25 homolog; protein abundance increases in response to DNA replication stress
+S000036874	CDS					YGL212W		7	91432	92382	W		2011-02-03	1996-07-31	
+S000003179	ORF	Verified	YGL211W	NCS6	TUC1|YGL210W-A	chromosome 7		7	92512	93591	W		2011-02-03	2004-07-20|1996-07-31	Protein required for uridine thiolation of Gln, Lys, and Glu tRNAs; required for the thiolation of uridine at the wobble position of Gln, Lys, and Glu tRNAs; has a role in urmylation and in invasive and pseudohyphal growth; inhibits replication of Brome mosaic virus in S. cerevisiae
+S000036823	CDS					YGL211W		7	92512	93591	W		2011-02-03	2004-07-20|1996-07-31	
+S000003178	ORF	Verified	YGL210W	YPT32	Rab family GTPase YPT32	chromosome 7	L000002897	7	93792	94460	W		2011-02-03	1996-07-31	Rab family GTPase involved in the exocytic pathway; mediates intra-Golgi traffic or the budding of post-Golgi vesicles from the trans-Golgi; protein abundance increases in response to DNA replication stress; YPT32 has a paralog, YPT31, that arose from the whole genome duplication
+S000036765	CDS					YGL210W		7	93792	94460	W		2011-02-03	1996-07-31	
+S000003177	ORF	Verified	YGL209W	MIG2	MLZ1	chromosome 7	L000003254	7	95858	97006	W		2011-02-03	1996-07-31	Zinc finger transcriptional repressor; cooperates with Mig1p in glucose-induced gene repression; under low glucose conditions relocalizes to mitochondrion, where it interacts with Ups1p, antagonizes mitochondrial fission factor Dnm1p, indicative of a role in mitochondrial fusion or regulating morphology; regulates filamentous growth in response to glucose depletion; activated in stochastic pulses of nuclear localization in response to low glucose
+S000035806	CDS					YGL209W		7	95858	97006	W		2011-02-03	1996-07-31	
+S000003176	ORF	Verified	YGL208W	SIP2	SPM2	chromosome 7	L000001891|L000001998	7	97338	98585	W		2011-02-03	1996-07-31|2011-02-03	One of three beta subunits of the Snf1 kinase complex; involved in the response to glucose starvation; null mutants exhibit accelerated aging; N-myristoylprotein localized to the cytoplasm and the plasma membrane; SIP2 has a paralog, GAL83, that arose from the whole genome duplication
+S000035685	CDS					YGL208W		7	97338	98585	W		2011-02-03	1996-07-31|2011-02-03	
+S000003175	ORF	Verified	YGL207W	SPT16	chromatin-remodeling protein SPT16|SSF1|CDC68	chromosome 7	L000002038	7	98969	102076	W	-134	2011-02-03	1996-07-31	Subunit of the heterodimeric FACT complex (Spt16p-Pob3p); FACT associates with chromatin via interaction with Nhp6Ap and Nhp6Bp, and reorganizes nucleosomes to facilitate access to DNA by RNA and DNA polymerases; specifically required for diauxic shift-induced H2B deposition onto rDNA genes; mutations cause reduced nucleosome occupancy over highly transcribed regions; coregulates transcription with Mot1p through preinitiation complex assembly and nucleosome organization
+S000034683	CDS					YGL207W		7	98969	102076	W		2011-02-03	1996-07-31	
+S000003174	ORF	Verified	YGL206C	CHC1	clathrin heavy chain|SWA5	chromosome 7	L000000317	7	107504	102543	C	-133	2011-02-03	1996-07-31	Clathrin heavy chain; subunit of the major coat protein involved in intracellular protein transport and endocytosis; the clathrin triskelion is a trimeric molecule composed of three heavy chains that radiate from a vertex and three light chains which bind noncovalently near the vertex of the triskelion; the light chain (CLC1) is thought to regulate function
+S000034547	CDS					YGL206C		7	107504	102543	C		2011-02-03	1996-07-31	
+S000003173	ORF	Verified	YGL205W	POX1	acyl-CoA oxidase|FOX1	chromosome 7	L000001467	7	108158	110404	W		2011-02-03	1996-07-31	Fatty-acyl coenzyme A oxidase; involved in the fatty acid beta-oxidation pathway; localized to the peroxisomal matrix
+S000034502	CDS					YGL205W		7	108158	110404	W		2011-02-03	1996-07-31	
+S000006595	tRNA_gene		tH(GUG)G1			chromosome 7	L000003822	7	110696	110625	C		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
+S000036197	noncoding_exon					tH(GUG)G1		7	110696	110625	C		2011-02-03	2000-05-19	
+S000006950	long_terminal_repeat		YGLWtau1			chromosome 7		7	110855	111225	W		2011-02-03	2000-05-19	Ty4 LTR
+S000006935	long_terminal_repeat		YGLCdelta1			chromosome 7		7	111505	111226	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006940	long_terminal_repeat		YGLWdelta2			chromosome 7		7	111506	111698	W		2011-02-03	2000-05-19	Ty1 LTR
+S000003172	ORF	Uncharacterized	YGL204C			chromosome 7		7	112005	111700	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA identified as translated by ribosome profiling data; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
+S000033547	CDS					YGL204C		7	112005	111700	C		2011-02-03	1996-07-31	
+S000118452	ARS		ARS704		ARSVII-112	chromosome 7		7	112079	112317			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000119019	ARS_consensus_sequence					ARS704		7	112125	112139	W		2011-02-03	2006-10-03	
+S000003171	ORF	Verified	YGL203C	KEX1	serine-type carboxypeptidase	chromosome 7	L000000895	7	114664	112475	C	-131	2011-02-03	1996-07-31	Cell death protease essential for hypochlorite-induced apoptosis; involved in the processing of killer toxin and alpha factor precursor; cleaves Lys and Arg residues from the C-terminus of peptides and proteins
+S000033480	CDS					YGL203C		7	114664	112475	C		2011-02-03	1996-07-31	
+S000006941	long_terminal_repeat		YGLWdelta3			chromosome 7		7	114939	115269	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006630	tRNA_gene		tK(UUU)G1			chromosome 7	L000003819	7	115488	115583	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000033672	intron					tK(UUU)G1		7	115525	115547	W		2011-02-03	2000-05-19	
+S000033670	noncoding_exon					tK(UUU)G1		7	115488	115524	W		2011-02-03	2000-05-19	
+S000033671	noncoding_exon					tK(UUU)G1		7	115548	115583	W		2011-02-03	2000-05-19	
+S000003170	ORF	Verified	YGL202W	ARO8	bifunctional 2-aminoadipate transaminase/aromatic-amino-acid:2-oxoglutarate transaminase	chromosome 7	L000003949	7	116059	117561	W		2011-02-03	1996-07-31	Aromatic aminotransferase I; expression is regulated by general control of amino acid biosynthesis
+S000033459	CDS					YGL202W		7	116059	117561	W		2011-02-03	1996-07-31	
+S000114845	ARS		ARS706	ARS706	ARO8 ARS	chromosome 7		7	117561	117854			2011-02-03	2006-04-12	Autonomously Replicating Sequence
+S000003169	ORF	Verified	YGL201C	MCM6	MCM DNA helicase complex subunit MCM6	chromosome 7	L000004104	7	120907	117854	C		2011-02-03	2004-01-23|1996-07-31	Protein involved in DNA replication; component of the Mcm2-7 hexameric helicase complex that binds chromatin as a part of the pre-replicative complex; forms a subcomplex with Mcm4p and Mcm7p
+S000033344	CDS					YGL201C		7	120907	117854	C		2011-02-03	2004-01-23|1996-07-31	
+S000006621	tRNA_gene		tK(CUU)G1			chromosome 7	L000003820	7	122269	122341	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000029888	noncoding_exon					tK(CUU)G1		7	122269	122341	W		2011-02-03	2000-05-19	
+S000003168	ORF	Verified	YGL200C	EMP24	BST2	chromosome 7	L000000549	7	123305	122694	C		2011-02-03	1996-07-31	Component of the p24 complex; role in misfolded protein quality control; binds to GPI anchor proteins and mediates their efficient transport from the ER to the Golgi; integral membrane protein that associates with endoplasmic reticulum-derived COPII-coated vesicles
+S000032658	CDS					YGL200C		7	123305	122694	C		2011-02-03	1996-07-31	
+S000003166	ORF	Verified	YGL198W	YIP4		chromosome 7		7	123591	124298	W		2011-02-03	2004-01-23|1996-07-31	Protein that interacts with Rab GTPases; localized to late Golgi vesicles; computational analysis of large-scale protein-protein interaction data suggests a possible role in vesicle-mediated transport
+S000034057	CDS					YGL198W		7	123591	124298	W		2011-02-03	2004-01-23|1996-07-31	
+S000003167	ORF	Dubious	YGL199C			chromosome 7		7	124042	123572	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YIP4/YGL198W
+S000034896	CDS					YGL199C		7	124042	123572	C		2011-02-03	1996-07-31	
+S000003165	ORF	Verified	YGL197W	MDS3		chromosome 7	L000003960	7	124698	129161	W		2011-02-03	1996-07-31|2011-02-03	Putative component of the TOR regulatory pathway; negative regulator of early meiotic gene expression; required, with Pmd1p, for growth under alkaline conditions; has an N-terminal kelch-like domain; MDS3 has a paralog, PMD1, that arose from the whole genome duplication
+S000033900	CDS					YGL197W		7	124698	129161	W		2011-02-03	1996-07-31|2011-02-03	
+S000003164	ORF	Verified	YGL196W	DSD1	D-serine ammonia-lyase DSD1	chromosome 7		7	129883	131169	W		2011-02-03	2004-07-19|1996-07-31	D-serine dehydratase (aka D-serine ammonia-lyase); converts D-serine to pyruvate and ammonia by a reaction dependent on pyridoxal 5'-phosphate and zinc; may play a role in D-serine detoxification; L-serine is not a substrate
+S000033780	CDS					YGL196W		7	129883	131169	W		2011-02-03	2004-07-19|1996-07-31	
+S000003163	ORF	Verified	YGL195W	GCN1	AAS103|NDR1	chromosome 7	L000000680	7	131525	139543	W		2011-02-03	1996-07-31	Positive regulator of the Gcn2p kinase activity; forms a complex with Gcn20p; proposed to stimulate Gcn2p activation by an uncharged tRNA
+S000033049	CDS					YGL195W		7	131525	139543	W		2011-02-03	1996-07-31	
+S000087160	ORF	Uncharacterized	YGL194C-A			chromosome 7		7	139961	139719	C		2011-02-03	2005-11-10	Putative protein of unknown function; identified based on comparisons of the genome sequences of six Saccharomyces species; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
+S000087161	CDS					YGL194C-A		7	139961	139719	C		2011-02-03	2005-11-10	
+S000003162	ORF	Verified	YGL194C	HOS2	histone deacetylase HOS2|RTL1	chromosome 7	L000004092|L000003448	7	141726	140368	C		2011-02-03	1996-07-31	Histone deacetylase and subunit of Set3 and Rpd3L complexes; required for gene activation via specific deacetylation of lysines in H3 and H4 histone tails; subunit of the Set3 complex, a meiotic-specific repressor of sporulation specific genes that contains deacetylase activity; co-localizes with Cmr1p in nuclear foci in response to DNA damage by MMS
+S000032901	CDS					YGL194C		7	141726	140368	C		2011-02-03	1996-07-31	
+S000003161	ORF	Uncharacterized	YGL193C			chromosome 7		7	142227	141916	C		2011-02-03	1996-07-31	Haploid-specific gene repressed by a1-alpha2; turned off in sir3 null strains, absence enhances the sensitivity of rad52-327 cells to campothecin almost 100-fold
+S000032793	CDS					YGL193C		7	142227	141916	C		2011-02-03	1996-07-31	
+S000003160	ORF	Verified	YGL192W	IME4	mRNA (N6-adenosine)-methyltransferase|SPO8	chromosome 7	L000000863|L000002001	7	142246	144048	W	-130	2011-02-03	1996-07-31	mRNA N6-adenosine methyltransferase required for entry into meiosis; mediates N6-adenosine methylation of bulk mRNA during the induction of sporulation which includes the meiotic regulators IME1, IME2 and IME4 itself; repressed in haploids via production of antisense IME4 transcripts; transcribed in diploid cells where antisense transcription is repressed; orthologous to human METTL3 (MT-A70)
+S000031956	CDS					YGL192W		7	142246	144048	W		2011-02-03	1996-07-31	
+S000144908	ncRNA_gene		RME2	RME2	IME4-AS	chromosome 7		7	144120	141898	C		2014-11-18	2014-11-18	Antisense transcript initiated from the 3' end of the IME4 locus; expressed in haploids and interferes with IME4 expression through a cis-acting mechanism; RME2 expression is repressed by the MAT a1/alpha2 repressor complex
+S000178098	noncoding_exon					RME2		7	144120	141898	C		2014-11-18	2014-11-18	
+S000003159	ORF	Verified	YGL191W	COX13	cytochrome c oxidase subunit VIa	chromosome 7	L000000397	7	144808	145197	W		2011-02-03	1996-07-31	Subunit VIa of cytochrome c oxidase; present in a subclass of cytochrome c oxidase complexes that may have a role in mimimizing generation of reactive oxygen species; not essential for cytochrome c oxidase activity but may modulate activity in response to ATP; required for assembly of Rcf2p into cytochrome c oxidase - cytochrome bc1 supercomplexes
+S000031830	CDS					YGL191W		7	144808	145197	W		2011-02-03	1996-07-31	
+S000003158	ORF	Verified	YGL190C	CDC55	TMR4|protein phosphatase 2A regulatory subunit CDC55	chromosome 7	L000000282|S000029602|L000003191	7	147389	145809	C	-125	2011-02-03	1996-07-31	Regulatory subunit B of protein phosphatase 2A (PP2A); Zds1p/2p-dependent localization to cytoplasm promotes mitotic entry; localization to nucleus prevents mitotic exit; required for correct nuclear division, chromosome segregation during achiasmate meiosis; maintains nucleolar sequestration of Cdc14p during early meiosis; limits formation of PP2A-Rts1p holocomplexes to ensure timely dissolution of sister chromosome cohesion; homolog of mammalian B55
+S000031647	CDS					YGL190C		7	147389	145809	C		2011-02-03	1996-07-31	
+S000003157	ORF	Verified	YGL189C	RPS26A	eS26|ribosomal 40S subunit protein S26A|S26e|S26A|RPS26	chromosome 7	L000003256|L000001762	7	148588	148229	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S26, no bacterial homolog; RPS26A has a paralog, RPS26B, that arose from the whole genome duplication; human homolog can partially complement an RPS26A, RPS26B double null mutant; mutations in the human gene are associated with Diamond-Blackfan anemia
+S000031468	CDS					YGL189C		7	148588	148229	C		2011-02-03	1996-07-31	
+S000122100	five_prime_UTR_intron					YGL189C		7	148966	148599	C		2011-02-03	2007-04-04	
+S000028635	ORF	Uncharacterized	YGL188C-A			chromosome 7		7	148964	148824	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000032391	CDS					YGL188C-A		7	148964	148824	C		2011-02-03	2003-07-29	
+S000003156	ORF	Dubious	YGL188C			chromosome 7		7	149516	149343	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030546	CDS					YGL188C		7	149516	149343	C		2011-02-03	1996-07-31	
+S000003155	ORF	Verified	YGL187C	COX4	cytochrome c oxidase subunit IV	chromosome 7	L000000386	7	150171	149704	C		2011-02-03	1996-07-31	Subunit IV of cytochrome c oxidase; the terminal member of the mitochondrial inner membrane electron transport chain; precursor N-terminal 25 residues are cleaved during mitochondrial import; phosphorylated; spermidine enhances translation
+S000030404	CDS					YGL187C		7	150171	149704	C		2011-02-03	1996-07-31	
+S000122089	five_prime_UTR_intron					YGL187C		7	150525	150184	C		2011-02-03	2007-03-28	
+S000003154	ORF	Verified	YGL186C	TPN1		chromosome 7		7	152776	151037	C		2011-02-03	1996-07-31	Plasma membrane pyridoxine (vitamin B6) transporter; member of the purine-cytosine permease subfamily within the major facilitator superfamily; proton symporter with similarity to Fcy21p, Fcy2p, and Fcy22p
+S000030268	CDS					YGL186C		7	152776	151037	C		2011-02-03	1996-07-31	
+S000003153	ORF	Uncharacterized	YGL185C		putative hydroxyacid dehydrogenase	chromosome 7		7	154306	153167	C		2011-02-03	1996-07-31	Putative protein with sequence similar to hydroxyacid dehydrogenases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000037513	CDS					YGL185C		7	154306	153167	C		2011-02-03	1996-07-31	
+S000003152	ORF	Verified	YGL184C	STR3	cystathionine beta-lyase STR3	chromosome 7		7	156012	154615	C		2011-02-03	1996-07-31	Peroxisomal cystathionine beta-lyase; converts cystathionine into homocysteine; may be redox regulated by Gto1p; involved in the release of the aromatic thiol 3-mercaptohexanol during wine fermentation
+S000037385	CDS					YGL184C		7	156012	154615	C		2011-02-03	1996-07-31	
+S000003151	ORF	Verified	YGL183C	MND1		chromosome 7		7	157285	156543	C		2011-02-03	2003-01-07|1996-07-31	Protein required for recombination and meiotic nuclear division; forms a complex with Hop2p, which is involved in chromosome pairing and repair of meiotic double-strand breaks
+S000037289	CDS					YGL183C		7	157199	156543	C		2011-02-03	2003-01-07|1996-07-31	
+S000037288	CDS					YGL183C		7	157285	157283	C		2011-02-03	2003-01-07	
+S000037290	intron					YGL183C		7	157282	157200	C		2011-02-03	2003-01-07	
+S000003150	ORF	Dubious	YGL182C			chromosome 7		7	157596	157273	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MND1/YGL183C
+S000036583	CDS					YGL182C		7	157596	157273	C		2011-02-03	1996-07-31	
+S000003149	ORF	Verified	YGL181W	GTS1	LSR1|FHT1	chromosome 7	L000000743	7	157906	159096	W		2011-02-03	1996-07-31	Protein involved in Arf3p regulation and in transcription regulation; localizes to the nucleus and to endocytic patches; contains an N-terminal Zn-finger and ArfGAP homology domain, a C-terminal glutamine-rich region, and a UBA (ubiquitin associated) domain; gts1 mutations affect budding, cell size, heat tolerance, sporulation, life span, ultradian rhythms, endocytosis; expression oscillates in a pattern similar to metabolic oscillations
+S000036556	CDS					YGL181W		7	157906	159096	W		2011-02-03	1996-07-31	
+S000003148	ORF	Verified	YGL180W	ATG1	serine/threonine protein kinase ATG1|APG1|CVT10|AUT3	chromosome 7	L000003955|S000028502|L000004761	7	160065	162758	W		2011-02-03	1996-07-31	Protein serine/threonine kinase; required for vesicle formation in autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; structurally required for phagophore assembly site formation; during autophagy forms a complex with Atg13p and Atg17p; essential for cell cycle progression from G2/M to G1 under nitrogen starvation
+S000036454	CDS					YGL180W		7	160065	162758	W		2011-02-03	1996-07-31	
+S000118453	ARS		ARS707		ARSVII-163	chromosome 7		7	163218	163318			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000119020	ARS_consensus_sequence					ARS707		7	163236	163250	W		2011-02-03	2006-10-03	
+S000003147	ORF	Verified	YGL179C	TOS3	serine/threonine protein kinase TOS3	chromosome 7		7	165091	163409	C		2011-02-03	1996-07-31	Protein kinase; related to and functionally redundant with Elm1p and Sak1p for the phosphorylation and activation of Snf1p; functionally orthologous to LKB1, a mammalian kinase associated with Peutz-Jeghers cancer-susceptibility syndrome; TOS3 has a paralog, SAK1, that arose from the whole genome duplication
+S000035343	CDS					YGL179C		7	165091	163409	C		2011-02-03	1996-07-31	
+S000003146	ORF	Verified	YGL178W	MPT5	UTH4|PUF5|HTR1	chromosome 7	L000001146	7	167352	170571	W		2011-02-03	1996-07-31	mRNA-binding protein of the PUF family; binds to specific mRNAs, often in the 3' UTR; has broad specificity and binds to more than 1000 mRNAs (16% of the transcriptome); recruits the CCR4-NOT deadenylase complex to mRNAs along with Dhh1p and Dcp1p to promote deadenylation, decapping, and decay; also interacts with the Caf20p translational initiation repressor, affecting its mRNA target specificity
+S000034396	CDS					YGL178W		7	167352	167354	W		2011-02-03	1996-07-31	
+S000034397	CDS					YGL178W		7	167995	170571	W		2011-02-03	1996-07-31	
+S000034398	intron					YGL178W		7	167355	167994	W		2011-02-03	1996-07-31	
+S000003145	ORF	Dubious	YGL177W			chromosome 7		7	167559	167906	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034289	CDS					YGL177W		7	167559	167906	W		2011-02-03	1996-07-31	
+S000003144	ORF	Uncharacterized	YGL176C			chromosome 7		7	173079	171415	C		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant is viable and has no detectable phenotype
+S000033315	CDS					YGL176C		7	173079	171415	C		2011-02-03	1996-07-31	
+S000003143	ORF	Verified	YGL175C	SAE2	ssDNA endodeoxyribonuclease SAE2|COM1	chromosome 7	L000002892	7	174322	173285	C		2011-02-03	1996-07-31	Endonuclease required for telomere elongation; required for telomeric 5' C-rich strand resection; involved in ds-break repair and processing hairpin DNA structures with the MRX complex; function requires sumoylation and phosphorylation; exists as inactive oligomers that are transiently released into smaller active units by phosphorylation; DNA damage triggers Sae2p removal, so active Sae2p is present only transiently; sequence and functional similarity with human CtIP/RBBP8
+S000033258	CDS					YGL175C		7	174322	173285	C		2011-02-03	1996-07-31	
+S000003142	ORF	Verified	YGL174W	BUD13	CWC26	chromosome 7		7	174545	175345	W		2011-02-03	1996-07-31	Subunit of the RES complex; RES complex is required for nuclear pre-mRNA retention and splicing; involved in bud-site selection; diploid mutants display a unipolar budding pattern instead of the wild-type bipolar pattern due to a specific defect in MATa1 pre-mRNA splicing which leads to haploid gene expression in diploids
+S000033236	CDS					YGL174W		7	174545	175345	W		2011-02-03	1996-07-31	
+S000003141	ORF	Verified	YGL173C	XRN1	chromatin-binding exonuclease XRN1|KEM1|SKI1|SEP1|RAR5|DST2	chromosome 7	L000000891|L000001902	7	180113	175527	C	-111	2011-02-03	1996-07-31	Evolutionarily-conserved 5'-3' exonuclease; component of cytoplasmic processing (P) bodies involved in mRNA decay; also enters the nucleus and positively regulates transcription initiation and elongation; plays a role in microtubule-mediated processes, filamentous growth, ribosomal RNA maturation, and telomere maintenance; activated by the scavenger decapping enzyme Dcs1p
+S000033145	CDS					YGL173C		7	180113	175527	C		2011-02-03	1996-07-31	
+S000003140	ORF	Verified	YGL172W	NUP49	FG-nucleoporin NUP49|NSP49	chromosome 7	L000001290	7	180700	182118	W		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier; found in stable complex with Nic96p and two other FG-nucleoproteins (Nsp1p and Nup57p)
+S000032312	CDS					YGL172W		7	180700	182118	W		2011-02-03	1996-07-31	
+S000003139	ORF	Verified	YGL171W	ROK1	RNA-dependent ATPase ROK1	chromosome 7	L000003005	7	182390	184084	W		2011-02-03	1996-07-31	RNA-dependent ATPase; involved in pre-rRNA processing at sites A0, A1, and A2, and in control of cell cycle progression; contains two upstream open reading frames (uORFs) in 5' untranslated region which regulate translation
+S000032238	CDS					YGL171W		7	182390	184084	W		2011-02-03	1996-07-31	
+S000003138	ORF	Verified	YGL170C	SPO74		chromosome 7		7	185394	184153	C		2011-02-03	1996-07-31	Component of the meiotic outer plaque of the spindle pole body; involved in modifying the meiotic outer plaque that is required prior to prospore membrane formation
+S000032119	CDS					YGL170C		7	185394	184153	C		2011-02-03	1996-07-31	
+S000006622	tRNA_gene		tK(CUU)G2			chromosome 7	L000003852	7	185786	185714	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000029890	noncoding_exon					tK(CUU)G2		7	185786	185714	C		2011-02-03	2000-05-19	
+S000003137	ORF	Verified	YGL169W	SUA5	threonylcarbamoyladenylate synthase	chromosome 7	L000002140	7	186059	187339	W	-104.06	2011-02-03	1996-07-31	Protein involved in threonylcarbamoyl adenosine biosynthesis; Sua5p and Qri7p are necessary and sufficient for RNA t6A modification in vitro; null mutant lacks N6-threonylcarbamoyl adenosine (t6A) modification in the anticodon loop of ANN-decoding tRNA; member of conserved YrdC/Sua5 family; binds single-stranded telomeric DNA and null mutant has abnormal telomere length
+S000031262	CDS					YGL169W		7	186059	187339	W		2011-02-03	1996-07-31	
+S000003136	ORF	Verified	YGL168W	HUR1		chromosome 7		7	187464	187796	W		2011-02-03	1996-07-31	Protein of unknown function; reported null mutant phenotype of hydroxyurea sensitivity may be due to effects on overlapping PMR1 gene
+S000031124	CDS					YGL168W		7	187464	187796	W		2011-02-03	1996-07-31	
+S000130163	ARS		ARS709			chromosome 7		7	187464	187796			2011-02-03	2009-05-07	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
+S000003135	ORF	Verified	YGL167C	PMR1	Ca(2+)/Mn(2+)-transporting P-type ATPase PMR1|SSC1|LDB1|BSD1	chromosome 7	L000004740|L000001455	7	190468	187616	C	-104	2011-02-03	1996-07-31	High affinity Ca2+/Mn2+ P-type ATPase; required for Ca2+ and Mn2+ transport into Golgi; involved in Ca2+ dependent protein sorting, processing; D53A mutant (Mn2+ transporting) is rapamycin sensitive, Q783A mutant (Ca2+ transporting) is rapamycin resistant; Mn2+ transport into Golgi lumen required for rapamycin sensitivity; mutations in human homolog ATP2C1 cause acantholytic skin condition Hailey-Hailey disease; human ATP2C1 can complement yeast null mutant
+S000030956	CDS					YGL167C		7	190468	187616	C		2011-02-03	1996-07-31	
+S000003134	ORF	Verified	YGL166W	CUP2	ACE1	chromosome 7	L000000439	7	191129	191806	W	-101	2011-02-03	1996-07-31	Copper-binding transcription factor; activates transcription of the metallothionein genes CUP1-1 and CUP1-2 in response to elevated copper concentrations; required for regulation of copper genes in response to DNA-damaging reagents; CUP2 has a paralog, HAA1, that arose from the whole genome duplication
+S000030040	CDS					YGL166W		7	191129	191806	W		2011-02-03	1996-07-31	
+S000003133	ORF	Dubious	YGL165C			chromosome 7		7	191976	191398	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CUP2/YGL166W
+S000029838	CDS					YGL165C		7	191976	191398	C		2011-02-03	1996-07-31	
+S000003132	ORF	Verified	YGL164C	YRB30		chromosome 7		7	193300	191978	C		2011-02-03	1996-07-31	RanGTP-binding protein; inhibits RanGAP1 (Rna1p)-mediated GTP hydrolysis of RanGTP (Gsp1p); shares similarity to proteins in other fungi but not in higher eukaryotes
+S000037824	CDS					YGL164C		7	193300	191978	C		2011-02-03	1996-07-31	
+S000003131	ORF	Verified	YGL163C	RAD54	DNA-dependent ATPase RAD54|XRS1	chromosome 7	L000001574	7	196403	193707	C	-111	2011-02-03	1996-07-31	DNA-dependent ATPase that stimulates strand exchange; modifies the topology of double-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; member of the SWI/SNF family of DNA translocases; forms nuclear foci upon DNA replication stress
+S000037069	CDS					YGL163C		7	196403	193707	C		2011-02-03	1996-07-31	
+S000003130	ORF	Verified	YGL162W	SUT1		chromosome 7	L000003483	7	198138	199037	W		2011-02-03	1996-07-31	Zn(II)2Cys6 family transcription factor; positively regulates sterol uptake genes under anaerobic conditions; involved in hypoxic gene expression; represses filamentation-inducing genes during vegetative growth; positively regulates mating with SUT2 by repressing expression of genes that act as mating inhibitors; repressed by STE12; relocalizes from the nucleus to the cytoplasm upon DNA replication stress; SUT1 has a paralog, SUT2, that arose from the whole genome duplication
+S000037047	CDS					YGL162W		7	198138	199037	W		2011-02-03	1996-07-31	
+S000003129	ORF	Verified	YGL161C	YIP5		chromosome 7		7	200142	199210	C		2011-02-03	1996-07-31	Protein that interacts with Rab GTPases; localized to late Golgi vesicles; computational analysis of large-scale protein-protein interaction data suggests a possible role in vesicle-mediated transport
+S000036937	CDS					YGL161C		7	200142	199210	C		2011-02-03	1996-07-31	
+S000003128	ORF	Verified	YGL160W	AIM14	putative metalloreductase|YNO1	chromosome 7		7	200561	202273	W		2011-02-03	1996-07-31	NADPH oxidase localized to the perinuclear ER; produces superoxide from NADPH; overexpression causes MCA1 dependent apoptosis; likely involved in superoxide-mediated regulation of the actin cytoskeleton; member of a conserved superfamily of NADPH oxidases (NOX enzymes); has similarity to iron/copper reductases (FRE1-8), particularly Fre8p
+S000036910	CDS					YGL160W		7	200561	202273	W		2011-02-03	1996-07-31	
+S000003127	ORF	Uncharacterized	YGL159W			chromosome 7		7	202721	203833	W		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant has no detectable phenotype
+S000036059	CDS					YGL159W		7	202721	203833	W		2011-02-03	1996-07-31	
+S000118454	ARS		ARS710		ARSVII-204	chromosome 7		7	203914	204155			2011-02-03	2006-08-30|2011-02-03	Autonomously Replicating Sequence
+S000119021	ARS_consensus_sequence					ARS710		7	203972	203986	W		2011-02-03	2006-10-03	
+S000006951	long_terminal_repeat		YGLWtau2			chromosome 7		7	204982	205337	W		2011-02-03	2000-05-19	Ty4 LTR
+S000006639	tRNA_gene		tL(CAA)G1			chromosome 7	L000003821	7	205521	205634	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000034236	intron					tL(CAA)G1		7	205559	205590	W		2011-02-03	2000-05-19	
+S000034234	noncoding_exon					tL(CAA)G1		7	205521	205558	W		2011-02-03	2000-05-19	
+S000034235	noncoding_exon					tL(CAA)G1		7	205591	205634	W		2011-02-03	2000-05-19	
+S000003126	ORF	Verified	YGL158W	RCK1	putative serine/threonine protein kinase RCK1	chromosome 7	L000001592	7	207033	208571	W		2011-02-03	1996-07-31	Protein kinase involved in oxidative stress response; promotes pseudohyphal growth via activation of Ubp3p phosphorylation; identified as suppressor of S. pombe cell cycle checkpoint mutations; RCK1 has a paralog, RCK2, that arose from the whole genome duplication
+S000035130	CDS					YGL158W		7	207033	208571	W		2011-02-03	1996-07-31	
+S000003125	ORF	Verified	YGL157W	ARI1	carbonyl reductase (NADPH-dependent) ARI1	chromosome 7		7	209006	210049	W		2011-02-03	1996-07-31	NADPH-dependent aldehyde reductase; utilizes aromatic and alophatic aldehyde substrates; member of the short-chain dehydrogenase/reductase superfamily
+S000034964	CDS					YGL157W		7	209006	210049	W		2011-02-03	1996-07-31	
+S000003124	ORF	Verified	YGL156W	AMS1	alpha-mannosidase	chromosome 7	L000000084	7	210416	213667	W	-98	2011-02-03	1996-07-31	Vacuolar alpha mannosidase; involved in free oligosaccharide (fOS) degradation; delivered to the vacuole in a novel pathway separate from the secretory pathway
+S000034834	CDS					YGL156W		7	210416	213667	W		2011-02-03	1996-07-31	
+S000003123	ORF	Verified	YGL155W	CDC43	protein geranylgeranyltransferase type I subunit CDC43|CAL1	chromosome 7	L000000277	7	214081	215211	W	-99	2011-02-03	1996-07-31	Beta subunit of geranylgeranyltransferase type I; subunit of the Ram2p-Cdc43p heterodimer that catalyzes the geranylgeranylation of the cysteine residue in proteins containing a C-terminal CaaX sequence ending in Leu or Phe; has substrates important for morphogenesis
+S000033923	CDS					YGL155W		7	214081	215211	W		2011-02-03	1996-07-31	
+S000003122	ORF	Verified	YGL154C	LYS5	holo-[acyl-carrier-protein] synthase	chromosome 7	L000000967	7	216096	215278	C	-97	2011-02-03	1996-07-31	Phosphopantetheinyl transferase involved in lysine biosynthesis; converts inactive apo-form of Lys2p (alpha-aminoadipate reductase) into catalytically active holo-form by posttranslational addition of phosphopantetheine
+S000033755	CDS					YGL154C		7	216096	215278	C		2011-02-03	1996-07-31	
+S000003121	ORF	Verified	YGL153W	PEX14		chromosome 7	L000004118	7	216273	217298	W		2011-02-03	1996-07-31	Central component of the peroxisomal importomer complex; peroxisomal protein import machinery docking complex component; interacts with both PTS1 (Pex5p) and PTS2 (Pex7p) peroxisomal matrix protein signal recognition factors and membrane receptor Pex13p
+S000033715	CDS					YGL153W		7	216273	217298	W		2011-02-03	1996-07-31	
+S000003120	ORF	Dubious	YGL152C			chromosome 7		7	217369	216692	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF PEX14/YGL153W
+S000033004	CDS					YGL152C		7	217369	216692	C		2011-02-03	1996-07-31	
+S000003119	ORF	Verified	YGL151W	NUT1	SSX4|MED5	chromosome 7	L000003073|S000029517|L000002100	7	217524	220922	W		2011-02-03	1996-07-31	Component of the RNA polymerase II mediator complex; mediator is required for transcriptional activation and also has a role in basal transcription
+S000032975	CDS					YGL151W		7	217524	220922	W		2011-02-03	1996-07-31	
+S000003117	ORF	Uncharacterized	YGL149W			chromosome 7		7	225572	225877	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YGL149W is not an essential gene
+S000032110	CDS					YGL149W		7	225572	225877	W		2011-02-03	1996-07-31	
+S000003118	ORF	Verified	YGL150C	INO80	chromatin-remodeling ATPase INO80	chromosome 7	L000004543	7	225573	221104	C		2011-02-03	1996-07-31	ATPase and nucleosome spacing factor; subunit of complex containing actin and actin-related proteins that has chromatin remodeling activity and 3' to 5' DNA helicase activity in vitro; promotes nucleosome shifts in the 3 prime direction; has a role in modulating stress gene transcription
+S000032821	CDS					YGL150C		7	225573	221104	C		2011-02-03	1996-07-31	
+S000003116	ORF	Verified	YGL148W	ARO2	bifunctional chorismate synthase/riboflavin reductase [NAD(P)H] ARO2	chromosome 7	L000000117	7	226399	227529	W	-90	2011-02-03	1996-07-31	Bifunctional chorismate synthase and flavin reductase; catalyzes the conversion of 5-enolpyruvylshikimate 3-phosphate (EPSP) to form chorismate, which is a precursor to aromatic amino acids; protein abundance increases in response to DNA replication stress
+S000031990	CDS					YGL148W		7	226399	227529	W		2011-02-03	1996-07-31	
+S000003115	ORF	Verified	YGL147C	RPL9A	uL6|ribosomal 60S subunit protein L9A|L6|rp24|YL11|L9A|L8A	chromosome 7	L000001708	7	228329	227754	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L9A; homologous to mammalian ribosomal protein L9 and bacterial L6; RPL9A has a paralog, RPL9B, that arose from a single-locus duplication
+S000031756	CDS					YGL147C		7	228329	227754	C		2011-02-03	1996-07-31	
+S000003114	ORF	Uncharacterized	YGL146C	RRT6		chromosome 7		7	229686	228751	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription; contains two putative transmembrane spans, but no significant homology to other known proteins
+S000030808	CDS					YGL146C		7	229686	228751	C		2011-02-03	1996-07-31	
+S000003113	ORF	Verified	YGL145W	TIP20	TIP1	chromosome 7	L000002756	7	230243	232348	W		2011-02-03	1996-07-31|2011-02-03	Peripheral membrane protein required for COPI vesicle fusion to the ER; mediates Sey1p-independent homotypic ER fusion; prohibits back-fusion of COPII vesicles with the ER; forms a tethering complex with Sec39p and Dsl1p that interacts with ER SNAREs Sec20p and Use1p
+S000030778	CDS					YGL145W		7	230243	232348	W		2011-02-03	1996-07-31|2011-02-03	
+S000007642	ARS		ARS701		ARS137	chromosome 7		7	231907	231981			2011-02-03	2001-03-06	ARS containing only an imperfect match to the core consensus sequence
+S000003112	ORF	Verified	YGL144C	ROG1	putative lipase ROG1	chromosome 7		7	234507	232450	C		2011-02-03	1996-07-31	Lipase with specificity for monoacylglycerol; preferred substrate is 1-oleoylglycerol; null mutation affects lipid droplet morphology and overexpression causes increased accumulation of reactive oxygen species
+S000030591	CDS					YGL144C		7	234507	232450	C		2011-02-03	1996-07-31	
+S000003111	ORF	Verified	YGL143C	MRF1		chromosome 7	L000001150	7	235958	234717	C		2011-02-03	1996-07-31	Mitochondrial translation release factor; involved in stop codon recognition and hydrolysis of the peptidyl-tRNA bond during mitochondrial translation; lack of MRF1 causes mitochondrial genome instability
+S000037757	CDS					YGL143C		7	235958	234717	C		2011-02-03	1996-07-31	
+S000003110	ORF	Verified	YGL142C	GPI10	putative glycosylphosphatidylinositol-alpha 1,2 mannosyltransferase	chromosome 7	L000004297	7	238119	236269	C		2011-02-03	1996-07-31	Integral membrane protein involved in GPI anchor synthesis; putative alpha 1,2 mannosyltransferase required for addition of the third mannose onto the glycosylphosphatidylinositol (GPI) core structure; human PIG-Bp is a functional homolog
+S000037696	CDS					YGL142C		7	238119	236269	C		2011-02-03	1996-07-31	
+S000003109	ORF	Verified	YGL141W	HUL5	ubiquitin-ubiquitin ligase HUL5	chromosome 7		7	238353	241085	W		2011-02-03	1996-07-31	Multiubiquitin chain assembly factor (E4); proteasome processivity factor that elongates polyUb chains on substrates, opposing Ubp6p, a branched polyubiquitin protease; required for retrograde transport of misfolded proteins during ERAD; required for ubiquitination of a subset of cytosolic misfolded proteins upon heat shock
+S000037673	CDS					YGL141W		7	238353	241085	W		2011-02-03	1996-07-31	
+S000130164	ARS		ARS712			chromosome 7		7	241085	241353			2011-02-03	2009-05-07	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
+S000003108	ORF	Uncharacterized	YGL140C			chromosome 7		7	245012	241353	C		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene; contains multiple predicted transmembrane domains
+S000037564	CDS					YGL140C		7	245012	241353	C		2011-02-03	1996-07-31	
+S000003107	ORF	Verified	YGL139W	FLC3	putative flavin adenine dinucleotide transporter|HUF3	chromosome 7		7	245716	248124	W		2011-02-03	1996-07-31	Putative FAD transporter, similar to Flc1p and Flc2p; localized to the ER; FLC3 has a paralog, FLC1, that arose from the whole genome duplication
+S000037900	CDS					YGL139W		7	245716	248124	W		2011-02-03	1996-07-31	
+S000003106	ORF	Uncharacterized	YGL138C			chromosome 7		7	249531	248494	C		2011-02-03	1996-07-31	Putative protein of unknown function; has no significant sequence similarity to any known protein
+S000036000	CDS					YGL138C		7	249531	248494	C		2011-02-03	1996-07-31	
+S000003105	ORF	Verified	YGL137W	SEC27	coatomer subunit beta'	chromosome 7	L000001848	7	249869	252738	W		2011-02-03	1996-07-31	Essential beta'-coat protein of the COPI coatomer; involved in ER-to-Golgi and Golgi-to-ER transport; contains WD40 domains that mediate cargo selective interactions; 45% sequence identity to mammalian beta'-COP
+S000035921	CDS					YGL137W		7	249869	249886	W		2011-02-03	1996-07-31	
+S000035922	CDS					YGL137W		7	250087	252738	W		2011-02-03	1996-07-31	
+S000035923	intron					YGL137W		7	249887	250086	W		2011-02-03	1996-07-31	
+S000003104	ORF	Verified	YGL136C	MRM2	21S rRNA (uridine2791-2'-O) methyltransferase	chromosome 7		7	253859	252897	C		2011-02-03	1996-07-31	Mitochondrial 2' O-ribose methyltransferase; required for methylation of U(2791) in 21S rRNA; MRM2 deletion confers thermosensitive respiration and loss of mitochondrial DNA; has similarity to Spb1p and Trm7p, and to E. coli FtsJ/RrmJ
+S000035725	CDS					YGL136C		7	253859	252897	C		2011-02-03	1996-07-31	
+S000003103	ORF	Verified	YGL135W	RPL1B	uL1|ribosomal 60S subunit protein L1B|L1|L1B|SSM2	chromosome 7	L000002658	7	254641	255294	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L1B; N-terminally acetylated; homologous to mammalian ribosomal protein L10A and bacterial L1; RPL1B has a paralog, RPL1A, that arose from the whole genome duplication; rpl1a rpl1b double null mutation is lethal
+S000035683	CDS					YGL135W		7	254641	255294	W		2011-02-03	1996-07-31	
+S000003102	ORF	Verified	YGL134W	PCL10		chromosome 7	L000004042	7	255663	256964	W		2011-02-03	1996-07-31	Pho85p cyclin; recruits, activates, and targets Pho85p cyclin-dependent protein kinase to its substrate; PCL10 has a paralog, PCL8, that arose from the whole genome duplication
+S000034682	CDS					YGL134W		7	255663	256964	W		2011-02-03	1996-07-31	
+S000003101	ORF	Verified	YGL133W	ITC1		chromosome 7		7	257707	261501	W		2011-02-03	1996-07-31	Subunit of ATP-dependent Isw2p-Itc1p chromatin remodeling complex; required for repression of a-specific genes, repression of early meiotic genes during mitotic growth, and repression of INO1; similar to mammalian Acf1p, the regulatory subunit of the mammalian ATP-utilizing chromatin assembly and modifying factor (ACF) complex; ITC1 has a paralog, YPL216W, that arose from the whole genome duplication
+S000034589	CDS					YGL133W		7	257707	261501	W		2011-02-03	1996-07-31	
+S000003100	ORF	Dubious	YGL132W			chromosome 7		7	261580	261915	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene SNT2/YGL131C
+S000034500	CDS					YGL132W		7	261580	261915	W		2011-02-03	1996-07-31	
+S000003099	ORF	Verified	YGL131C	SNT2	DNA-binding E3 ubiquitin-protein ligase SNT2	chromosome 7		7	265859	261648	C		2011-02-03	1996-07-31	Subunit of Snt2C complex, RING finger ubiquitin ligase (E3); physically associates with Ecm5p and Rpd3p; along with Ecm5p, recruits Rpd3p to small number of promoters; colocalizes with Ecm5p, independently of Rpd3p, to promoters of stress response genes upon oxidative stress; involved in ubiquitination, degradation of excess histones; interacts with Ubc4p; role in regulating genes encoding amine transporters; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000033546	CDS					YGL131C		7	265859	261648	C		2011-02-03	1996-07-31	
+S000003098	ORF	Verified	YGL130W	CEG1	mRNA guanylyltransferase 	chromosome 7	L000000291	7	266145	267524	W		2011-02-03	1996-07-31	Guanylyltransferase involved in mRNA 5' capping; subunit of mRNA capping enzyme, which is a heterotetramer composed of two molecules of Ceg1p and a homodimer of Cet1p, the mRNA 5'-triphosphatase subunit; nuclear import of Ceg1p requires interaction with Cet1p; mammalian capping enzyme is a single bifunctional polypeptide; human homolog RNGTT can complement yeast ceg1 null mutant
+S000033518	CDS					YGL130W		7	266145	267524	W		2011-02-03	1996-07-31	
+S000003097	ORF	Verified	YGL129C	RSM23	mitochondrial 37S ribosomal protein RSM23	chromosome 7		7	269075	267723	C		2011-02-03	1996-07-31|2011-02-03	Mitochondrial ribosomal protein of the small subunit; has similarity to mammalian apoptosis mediator proteins; null mutation prevents induction of apoptosis by overproduction of metacaspase Mca1p
+S000033944	CDS					YGL129C		7	269075	267723	C		2011-02-03	1996-07-31|2011-02-03	
+S000003096	ORF	Verified	YGL128C	CWC23	U2-type spliceosomal complex subunit CWC23	chromosome 7		7	270144	269293	C		2011-02-03	2003-09-22|1996-07-31	Component of a complex containing Cef1p; putatively involved in pre-mRNA splicing; has similarity to E. coli DnaJ and other DnaJ-like proteins and to S. pombe Cwf23p
+S000033837	CDS					YGL128C		7	270144	269293	C		2011-02-03	2003-09-22|1996-07-31	
+S000003095	ORF	Verified	YGL127C	SOH1	MED31	chromosome 7	L000001982	7	270775	270392	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; involved in telomere maintenance; conserved with other metazoan MED31 subunits
+S000033696	CDS					YGL127C		7	270775	270392	C		2011-02-03	1996-07-31	
+S000003094	ORF	Verified	YGL126W	SCS3	FIT2B	chromosome 7	L000002845	7	270997	272139	W		2011-02-03	1996-07-31	Protein required for inositol prototrophy; required for normal ER membrane biosynthesis; ortholog of the FIT family of proteins involved in triglyceride droplet biosynthesis and homologous to human FIT2; disputed role in the synthesis of inositol phospholipids from inositol
+S000033638	CDS					YGL126W		7	270997	272139	W		2011-02-03	1996-07-31	
+S000003093	ORF	Verified	YGL125W	MET13	methylenetetrahydrofolate reductase (NAD(P)H) MET13|MRPL45|MET11	chromosome 7	L000003570|L000001085	7	272520	274322	W	-77	2011-02-03	2003-01-06|1996-07-31	Major isozyme of methylenetetrahydrofolate reductase; catalyzes the reduction of 5,10-methylenetetrahydrofolate to 5-methyltetrahydrofolate in the methionine biosynthesis pathway
+S000030346	CDS					YGL125W		7	272520	274322	W		2011-02-03	2003-01-06|1996-07-31	
+S000003092	ORF	Verified	YGL124C	MON1	AUT12	chromosome 7		7	276714	274780	C		2011-02-03	1996-07-31|2011-02-03	Subunit of a heterodimeric guanine nucleotide exchange factor (GEF); subunit of the Mon1-Ccz1 GEF complex which stimulates nucleotide exchange and activation of Ypt7p, a Rab family GTPase involved in membrane tethering and fusion events at the late endosome and vacuole; GEF activity is stimulated by membrane association and anionic phospholipids; role in localizing Ypt7p to the vacuolar membrane; required for autophagy, the CVT pathway and mitophagy; potential Cdc28 substrate
+S000030087	CDS					YGL124C		7	276714	274780	C		2011-02-03	1996-07-31|2011-02-03	
+S000003091	ORF	Verified	YGL123W	RPS2	uS5|ribosomal 40S subunit protein S2|rp12|Ys5|S5|S4|S2|SUP138|SUP44|SUP38|RPS4	chromosome 7	L000002205	7	277617	278381	W	-72	2011-02-03	1996-07-31	Protein component of the small (40S) subunit; essential for control of translational accuracy; phosphorylation by C-terminal domain kinase I (CTDK-I) enhances translational accuracy; methylated on one or more arginine residues by Hmt1p; homologous to mammalian ribosomal protein S2 and bacterial S5
+S000030054	CDS					YGL123W		7	277617	278381	W		2011-02-03	1996-07-31	
+S000028634	ORF	Dubious	YGL123C-A			chromosome 7		7	277864	277634	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene RPS2/YGL123W
+S000032390	CDS					YGL123C-A		7	277864	277634	C		2011-02-03	2003-07-29	
+S000003090	ORF	Verified	YGL122C	NAB2	mRNA-binding protein NAB2	chromosome 7	L000001227	7	280523	278946	C		2011-02-03	1996-07-31	Nuclear polyadenylated RNA-binding protein; required for nuclear mRNA export and poly(A) tail length control; stimulates RNA polymerase III transcription by enhancing TFIIIB binding to promoters; protects mRNA against decay by the nuclear exosome in a poly(A)-tail-dependent manner; involved in forming export-competent mRNPs in the nucleus; autoregulates mRNA levels; NLS binds Kap104p; protein abundance increases under DNA replication stress; related to human hnRNPs
+S000037370	CDS					YGL122C		7	280523	278946	C		2011-02-03	1996-07-31	
+S000003089	ORF	Verified	YGL121C	GPG1		chromosome 7		7	281157	280777	C		2011-02-03	1996-07-31	Proposed gamma subunit of the heterotrimeric G protein; interacts with the receptor Gpr1p; involved in regulation of pseudohyphal growth; requires Gpb1p or Gpb2p to interact with Gpa2p; overproduction causes prion curing
+S000037311	CDS					YGL121C		7	281157	280777	C		2011-02-03	1996-07-31	
+S000003088	ORF	Verified	YGL120C	PRP43	DEAH-box ATP-dependent RNA helicase PRP43|JA1	chromosome 7	L000003359	7	283937	281634	C		2011-02-03	1996-07-31	RNA helicase in the DEAH-box family; functions in both RNA polymerase I and polymerase II transcript metabolism; catalyzes removal of U2, U5, and U6 snRNPs from the postsplicing lariat-intron ribonucleoprotein complex; required for efficient biogenesis of both small- and large-subunit rRNAs; acts with Sqs1p to promote 20S to 18S rRNA processing catalyzed by endonuclease Nob1p
+S000037207	CDS					YGL120C		7	283937	281634	C		2011-02-03	1996-07-31	
+S000003087	ORF	Verified	YGL119W	COQ8	protein kinase COQ8|ABC1	chromosome 7	L000000010	7	284442	285947	W		2011-02-03	1996-07-31	ATPase required for ubiquinone biosynthesis and respiratory growth; maintains levels of CoQ biosynthetic proteins; binds to CoQ biosynthesis intermediates; UbiB protein kinase-like family member that lacks canonical protein kinase activity; similar to prokaryotic proteins involved in ubiquinone biosynthesis; human homolog ADCK3 complements a coq8 null, is associated with CoQ and respiratory-chain deficiencies, and is mutated in autosomal-recessive cerebellar ataxia type 2
+S000037639	CDS					YGL119W		7	284442	285947	W		2011-02-03	1996-07-31	
+S000118455	ARS		ARS714		ARSVII-286	chromosome 7		7	285991	286081			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000119022	ARS_consensus_sequence					ARS714		7	286004	286018	W		2011-02-03	2006-10-03	
+S000006771	tRNA_gene		tW(CCA)G1			chromosome 7	L000003851	7	287455	287350	C		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
+S000032524	intron					tW(CCA)G1		7	287419	287386	C		2011-02-03	2000-05-19	
+S000032523	noncoding_exon					tW(CCA)G1		7	287385	287350	C		2011-02-03	2000-05-19	
+S000032522	noncoding_exon					tW(CCA)G1		7	287455	287420	C		2011-02-03	2000-05-19	
+S000003086	ORF	Uncharacterized	YGL118C			chromosome 7		7	288451	288014	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YGL118C is not an essential gene
+S000037518	CDS					YGL118C		7	288451	288014	C		2011-02-03	1996-07-31	
+S000130165	ARS		ARS715			chromosome 7		7	288451	288512			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000003085	ORF	Uncharacterized	YGL117W			chromosome 7		7	288512	289309	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000037461	CDS					YGL117W		7	288512	289309	W		2011-02-03	1996-07-31	
+S000003084	ORF	Verified	YGL116W	CDC20	ubiquitin-protein transferase activating protein CDC20|PAC5	chromosome 7	L000000259	7	289809	291641	W	-70	2011-02-03	1996-07-31	Activator of anaphase-promoting complex/cyclosome (APC/C); APC/C is required for metaphase/anaphase transition; directs ubiquitination of mitotic cyclins, Pds1p, and other anaphase inhibitors; cell-cycle regulated; potential Cdc28p substrate; relative distribution to the nucleus increases upon DNA replication stress
+S000032000	CDS					YGL116W		7	289809	291641	W		2011-02-03	1996-07-31	
+S000003083	ORF	Verified	YGL115W	SNF4	AMP-activated serine/threonine-protein kinase regulatory subunit SNF4|SCI1|CAT3	chromosome 7	L000001947	7	292033	293001	W		2011-02-03	1996-07-31	Activating gamma subunit of the AMP-activated Snf1p kinase complex; additional subunits of the complex are Snf1p and a Sip1p/Sip2p/Gal83p family member; activates glucose-repressed genes, represses glucose-induced genes; role in sporulation, and peroxisome biogenesis; protein abundance increases in response to DNA replication stress
+S000031879	CDS					YGL115W		7	292033	293001	W		2011-02-03	1996-07-31	
+S000003082	ORF	Uncharacterized	YGL114W		OPT3	chromosome 7		7	293460	295637	W		2011-02-03	1996-07-31	Putative protein of unknown function; predicted member of the oligopeptide transporter (OPT) family of membrane transporters
+S000031734	CDS					YGL114W		7	293460	295637	W		2011-02-03	1996-07-31	
+S000003081	ORF	Verified	YGL113W	SLD3		chromosome 7		7	295932	297938	W		2011-02-03	1996-07-31	Protein involved in the initiation of DNA replication; required for proper assembly of replication proteins at the origins of replication; interacts with Cdc45p; localizes to nuclear foci that become diffuse upon DNA replication stress; homologous to the human Treslin/Ticrr protein
+S000036243	CDS					YGL113W		7	295932	297938	W		2011-02-03	1996-07-31	
+S000003080	ORF	Verified	YGL112C	TAF6	TafII60|TAF60	chromosome 7	L000002828	7	299728	298178	C		2011-02-03	1996-07-31	Subunit (60 kDa) of TFIID and SAGA complexes; involved in transcription initiation of RNA polymerase II and in chromatin modification, similar to histone H4; relocalizes to the cytosol in response to hypoxia
+S000036054	CDS					YGL112C		7	299728	298178	C		2011-02-03	1996-07-31	
+S000003079	ORF	Verified	YGL111W	NSA1	ribosome biosynthesis protein NSA1	chromosome 7		7	299978	301369	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; involved in 60S ribosomal subunit biogenesis
+S000035260	CDS					YGL111W		7	299978	301369	W		2011-02-03	1996-07-31	
+S000003078	ORF	Verified	YGL110C	CUE3		chromosome 7		7	303411	301537	C		2011-02-03	1996-07-31	Protein of unknown function; has a CUE domain that binds ubiquitin, which may facilitate intramolecular monoubiquitination
+S000035107	CDS					YGL110C		7	303411	301537	C		2011-02-03	1996-07-31	
+S000003077	ORF	Dubious	YGL109W			chromosome 7		7	303513	303836	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the uncharacterized gene YGL108C
+S000034172	CDS					YGL109W		7	303513	303836	W		2011-02-03	1996-07-31|2011-02-03	
+S000003076	ORF	Verified	YGL108C			chromosome 7		7	304071	303649	C		2011-02-03	1996-07-31	Protein of unknown function, predicted to be palmitoylated; SWAT-GFP, seamless-GFP and mCherry C-terminal fusion proteins localize to the cytosol, while N-terminal GFP fusion protein localizes to the cell periphery; protein abundance increases in response to DNA replication stress
+S000034006	CDS					YGL108C		7	304071	303649	C		2011-02-03	1996-07-31	
+S000003075	ORF	Verified	YGL107C	RMD9		chromosome 7		7	306273	304333	C		2011-02-03	1996-07-31	Mitochondrial protein required for respiratory growth; mutant phenotype and genetic interactions suggest a role in delivering mt mRNAs to ribosomes; located on matrix face of the inner membrane and loosely associated with mitoribosomes; RMD9 has a paralog, YBR238C, that arose from the whole genome duplication
+S000033204	CDS					YGL107C		7	306273	304333	C		2011-02-03	1996-07-31	
+S000003074	ORF	Verified	YGL106W	MLC1		chromosome 7	L000004170	7	306560	307009	W		2011-02-03	1996-07-31	Essential light chain for Myo1p; light chain for Myo2p; stabilizes Myo2p by binding to the neck region; interacts with Myo1p, Iqg1p, and Myo2p to coordinate formation and contraction of the actomyosin ring with targeted membrane deposition
+S000033181	CDS					YGL106W		7	306560	307009	W		2011-02-03	1996-07-31	
+S000003073	ORF	Verified	YGL105W	ARC1		chromosome 7	L000003553	7	307437	308567	W		2011-02-03	1996-07-31	Protein that binds tRNA and methionyl- and glutamyl-tRNA synthetases; involved in tRNA delivery, stimulating catalysis, and ensuring localization; also binds quadruplex nucleic acids; protein abundance increases in response to DNA replication stress; methionyl-tRNA synthetase is Mes1p; glutamyl-tRNA synthetase is Gus1p
+S000033089	CDS					YGL105W		7	307437	308567	W		2011-02-03	1996-07-31	
+S000003072	ORF	Verified	YGL104C	VPS73	putative sugar transporter	chromosome 7		7	310173	308713	C		2011-02-03	1996-07-31	Mitochondrial protein; mutation affects vacuolar protein sorting; putative transporter; member of the sugar porter family; VPS73 has a paralog, YBR241C, that arose from the whole genome duplication
+S000032120	CDS					YGL104C		7	310173	308713	C		2011-02-03	1996-07-31	
+S000003071	ORF	Verified	YGL103W	RPL28	uL15|ribosomal 60S subunit protein L28|L15|rp44|YL24|L29|L28|CYH2	chromosome 7	L000000454	7	310967	311927	W	-64	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L28; homologous to mammalian ribosomal protein L27A and bacterial L15; may have peptidyl transferase activity; can mutate to cycloheximide resistance
+S000032088	CDS					YGL103W		7	310967	311015	W		2011-02-03	1996-07-31	
+S000032089	CDS					YGL103W		7	311527	311927	W		2011-02-03	1996-07-31	
+S000032090	intron					YGL103W		7	311016	311526	W		2011-02-03	1996-07-31	
+S000003070	ORF	Dubious	YGL102C			chromosome 7		7	311933	311505	C		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 3' end of essential RPL28 gene encoding a large subunit ribosomal protein
+S000031837	CDS					YGL102C		7	311933	311505	C		2011-02-03	1996-07-31	
+S000003069	ORF	Uncharacterized	YGL101W			chromosome 7		7	312193	312840	W		2011-02-03	1996-07-31	Protein of unknown function; non-essential gene; interacts with the DNA helicase Hpr5p; YGL101W has a paralog, YBR242W, that arose from the whole genome duplication
+S000031742	CDS					YGL101W		7	312193	312840	W		2011-02-03	1996-07-31	
+S000003068	ORF	Verified	YGL100W	SEH1		chromosome 7	L000003153	7	313234	314283	W		2011-02-03	1996-07-31	Subunit of the Nup84 nuclear pore and SEACAT subcomplexes; involved in nucleocytoplasmic transport and NPC biogenesis in the nuclear pore subcomplex; subunit of SEACAT, a subcomplex of the SEA complex that inhibits the TORC1 inhibitory role of SEACIT (Iml1p-Npr2p-Npr3p), a GAP for Gtr1p in response to amino acid limitation, thereby resulting in activation of TORC1 signaling; SEA is a coatomer-related complex that associates dynamically with the vacuole; human SEH1 homolog
+S000030802	CDS					YGL100W		7	313234	314283	W		2011-02-03	1996-07-31	
+S000003067	ORF	Verified	YGL099W	LSG1	putative GTPase LSG1|KRE35	chromosome 7		7	314631	316553	W		2011-02-03	1996-07-31	Putative GTPase involved in 60S ribosomal subunit biogenesis; required for the release of Nmd3p from 60S subunits in the cytoplasm
+S000032465	CDS					YGL099W		7	314631	316553	W		2011-02-03	1996-07-31	
+S000028467	snoRNA_gene		snR82	SNR82	RUF2	chromosome 7		7	316788	317055	W		2011-02-03	2003-03-06	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at positions U1110, U2349, and U2351
+S000030074	noncoding_exon					snR82		7	316788	317055	W		2011-02-03	2003-03-06	
+S000003066	ORF	Verified	YGL098W	USE1	SNAP receptor USE1|SLT1	chromosome 7		7	317342	318079	W		2011-02-03	1996-07-31	Essential SNARE protein localized to the ER; involved in retrograde traffic from the Golgi to the ER and Sey1p-independent homotypic ER fusion; required for efficient nuclear fusion during mating; forms a complex with the SNAREs Sec22p, Sec20p and Ufe1p
+S000032364	CDS					YGL098W		7	317342	318079	W		2011-02-03	1996-07-31	
+S000006942	long_terminal_repeat		YGLWdelta4			chromosome 7		7	318697	318860	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006936	long_terminal_repeat		YGLCdelta5			chromosome 7		7	319341	319009	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006937	long_terminal_repeat		YGLCsigma1			chromosome 7		7	319762	319423	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006596	tRNA_gene		tH(GUG)G2			chromosome 7	L000003853	7	319781	319852	W		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
+S000036200	noncoding_exon					tH(GUG)G2		7	319781	319852	W		2011-02-03	2000-05-19	
+S000006939	long_terminal_repeat		YGLCtau3			chromosome 7		7	320707	320355	C		2011-02-03	2000-05-19	Ty4 LTR
+S000003065	ORF	Verified	YGL097W	SRM1	Ran guanyl-nucleotide exchange factor|TSM437|PRP20|MTR1	chromosome 7	L000002058|L000001216|S000029621|L000002370	7	321782	323230	W		2011-02-03	1996-07-31	Nucleotide exchange factor for Gsp1p; localizes to the nucleus, required for nucleocytoplasmic trafficking of macromolecules; suppressor of the pheromone response pathway; potentially phosphorylated by Cdc28p; human homolog of the RAN GEF, RCC1, can complement a temperature sensitive point mutant
+S000032259	CDS					YGL097W		7	321782	323230	W		2011-02-03	1996-07-31	
+S000003064	ORF	Verified	YGL096W	TOS8		chromosome 7		7	325331	326161	W		2011-02-03	1996-07-31	Homeodomain-containing protein and putative transcription factor; found associated with chromatin; target of SBF transcription factor; induced during meiosis and under cell-damaging conditions; TOS8 has a paralog, CUP9, that arose from the whole genome duplication
+S000031260	CDS					YGL096W		7	325331	326161	W		2011-02-03	1996-07-31	
+S000006943	long_terminal_repeat		YGLWdelta6			chromosome 7		7	327904	328224	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006553	tRNA_gene		tE(UUC)G1	SOE1		chromosome 7	L000003823|L000001980	7	328583	328654	W	-63	2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; can mutate to become a missense suppressor tRNA that inserts glutamate residues at lysine codons; target of K. lactis zymocin
+S000034645	noncoding_exon					tE(UUC)G1		7	328583	328654	W		2011-02-03	2000-05-19	
+S000003063	ORF	Verified	YGL095C	VPS45	VPL28|STT10	chromosome 7	L000002478	7	330607	328874	C		2011-02-03	1996-07-31	Protein of the Sec1p/Munc-18 family; essential for vacuolar protein sorting; required for the function of Pep12p and the early endosome/late Golgi SNARE Tlg2p; essential for fusion of Golgi-derived vesicles with the prevacuolar compartment
+S000031062	CDS					YGL095C		7	330607	328874	C		2011-02-03	1996-07-31	
+S000003062	ORF	Verified	YGL094C	PAN2	poly(A)-specific ribonuclease	chromosome 7	L000003115	7	334465	331118	C		2011-02-03	1996-07-31	Catalytic subunit of the Pan2p-Pan3p poly(A)-ribonuclease complex; complex acts to control poly(A) tail length and regulate the stoichiometry and activity of postreplication repair complexes
+S000030953	CDS					YGL094C		7	334465	331118	C		2011-02-03	1996-07-31	
+S000003061	ORF	Verified	YGL093W	SPC105		chromosome 7	L000004697	7	334886	337639	W		2011-02-03	1996-07-31	Subunit of a kinetochore-microtubule binding complex; complex bridges centromeric heterochromatin and kinetochore MAPs and motors; required for sister chromatid bi-orientation and kinetochore binding of SAC components; complex also includes Kre28p; modified by sumoylation
+S000030038	CDS					YGL093W		7	334886	337639	W		2011-02-03	1996-07-31	
+S000003060	ORF	Verified	YGL092W	NUP145	nucleocytoplasmic transporter NUP145|RAT10	chromosome 7	L000001294	7	337906	341859	W		2011-02-03	1996-07-31	Essential protein with distinct roles in two nuclear pore subcomplexes; catalyzes its own proteolytic cleavage in vivo to generate a C-terminal fragment that is a structural component of the Nup84p subcomplex (with roles in NPC biogenesis and localization of genes to the nuclear periphery), and an N-terminal fragment that is one of several FG-nucleoporins within the NPC central core directly responsible for nucleocytoplasmic transport; homologous to human NUP98
+S000029907	CDS					YGL092W		7	337906	341859	W		2011-02-03	1996-07-31	
+S000003059	ORF	Verified	YGL091C	NBP35	Fe-S cluster-binding ATPase	chromosome 7	L000003338	7	343042	342056	C		2011-02-03	1996-07-31	Essential cytoplasmic iron-sulfur cluster binding protein; forms a complex with Cfd1p that is involved in iron-sulfur protein assembly in the cytosol; similar to P-loop NTPases
+S000037170	CDS					YGL091C		7	343042	342056	C		2011-02-03	1996-07-31	
+S000003058	ORF	Verified	YGL090W	LIF1		chromosome 7	L000004541	7	343319	344584	W		2011-02-03	1996-07-31	Component of the DNA ligase IV complex; this complex mediates nonhomologous end joining in DNA double-strand break repair; physically interacts with Dnl4p and Nej1p; homologous to mammalian XRCC4 protein
+S000037116	CDS					YGL090W		7	343319	344584	W		2011-02-03	1996-07-31	
+S000003057	ORF	Verified	YGL089C	MF(ALPHA)2		chromosome 7	L000001095	7	345153	344791	C	-58	2011-02-03	1996-07-31	Mating pheromone alpha-factor, made by alpha cells; interacts with mating type a cells to induce cell cycle arrest and other responses leading to mating; also encoded by MF(ALPHA)1, which is more highly expressed; binds copper(II) ions
+S000036327	CDS					YGL089C		7	345153	344791	C		2011-02-03	1996-07-31	
+S000003056	ORF	Dubious	YGL088W			chromosome 7		7	345836	346201	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps snR10, a snoRNA required for preRNA processing
+S000036288	CDS					YGL088W		7	345836	346201	W		2011-02-03	1996-07-31	
+S000007499	snoRNA_gene		snR10	SNR10		chromosome 7		7	345986	346230	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); essential gene required for for preRNA processing, specifically for cleavage at sites A1 and A2; also guides pseudouridylation of large subunit (LSU) rRNA at position U2923
+S000036589	noncoding_exon					snR10		7	345986	346230	W		2011-02-03	2000-05-19	
+S000003055	ORF	Verified	YGL087C	MMS2	E2  ubiquitin-conjugating protein MMS2	chromosome 7	L000004015	7	346904	346406	C		2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme variant; involved in error-free postreplication repair; forms a heteromeric complex with Ubc13p, an active ubiquitin-conjugating enzyme; cooperates with chromatin-associated RING finger proteins, Rad18p and Rad5p; protein abundance increases in response to DNA replication stress
+S000036106	CDS					YGL087C		7	346808	346406	C		2011-02-03	1996-07-31	
+S000036105	CDS					YGL087C		7	346904	346894	C		2011-02-03	1996-07-31	
+S000036107	intron					YGL087C		7	346893	346809	C		2011-02-03	1996-07-31	
+S000003054	ORF	Verified	YGL086W	MAD1	coiled-coil domain-containing protein MAD1	chromosome 7	L000000974	7	347119	349368	W		2011-02-03	1996-07-31	Coiled-coil protein involved in spindle-assembly checkpoint; required for inhibition of karyopherin/importin Pse1p (aka Kap121p) upon spindle assembly checkpoint arrest; phosphorylated by Mps1p upon checkpoint activation which leads to inhibition of anaphase promoting complex activity; forms a complex with Mad2p; gene dosage imbalance between MAD1 and MAD2 leads to chromosome instability
+S000035277	CDS					YGL086W		7	347119	349368	W		2011-02-03	1996-07-31	
+S000003053	ORF	Uncharacterized	YGL085W	LCL3		chromosome 7		7	349616	350440	W		2011-02-03	1996-07-31	Putative protein of unknown function; mutant has long chronological lifespan; has homology to Staphylococcus aureus nuclease; GFP-fusion protein localizes to mitochondria; is induced in response to the DNA-damaging agent MMS
+S000035126	CDS					YGL085W		7	349616	350440	W		2011-02-03	1996-07-31	
+S000003052	ORF	Verified	YGL084C	GUP1	O-acyltransferase	chromosome 7	L000004739	7	352298	350616	C		2011-02-03	1996-07-31	Plasma membrane protein involved in remodeling GPI anchors; member of the MBOAT family of putative membrane-bound O-acyltransferases; role in misfolded protein quality control; proposed to be involved in glycerol transport; homolog of the mammalian Hedgehog pathway modulator HHATL; GUP1 has a paralog, GUP2, that arose from the whole genome duplication
+S000034877	CDS					YGL084C		7	352298	350616	C		2011-02-03	1996-07-31	
+S000118456	ARS		ARS716		ARSVII-353	chromosome 7		7	352760	352906			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178100	ARS_consensus_sequence					ARS716		7	352865	352849	C		2014-11-18	2014-11-18	
+S000003051	ORF	Verified	YGL083W	SCY1		chromosome 7	L000003258	7	353058	355472	W		2011-02-03	1996-07-31	Putative kinase; suppressor of GTPase mutant; similar to bovine rhodopsin kinase; may have a role in intracellular sterol transport
+S000034832	CDS					YGL083W		7	353058	355472	W		2011-02-03	1996-07-31	
+S000003050	ORF	Uncharacterized	YGL082W			chromosome 7		7	355827	356972	W		2011-02-03	1996-07-31	Putative protein of unknown function; predicted prenylation/proteolysis target of Afc1p and Rce1p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; not an essential gene; YGL082W has a paralog, YPL191C, that arose from the whole genome duplication
+S000033922	CDS					YGL082W		7	355827	356972	W		2011-02-03	1996-07-31	
+S000003049	ORF	Uncharacterized	YGL081W			chromosome 7		7	357377	358339	W		2011-02-03	1996-07-31	Putative protein of unknown function; non-essential gene; interacts genetically with CHS5, a gene involved in chitin biosynthesis
+S000033825	CDS					YGL081W		7	357377	358339	W		2011-02-03	1996-07-31	
+S000003048	ORF	Verified	YGL080W	MPC1	pyruvate transporter MPC1|FMP37	chromosome 7		7	358636	359028	W		2011-02-03	1996-07-31	Highly conserved subunit of mitochondrial pyruvate carrier (MPC); MPC is a mitochondrial inner membrane complex that mediates pyruvate uptake and comprises Mpc1p and Mpc2p during fermentative growth, or Mcp1p and Mpc3p during respiratory growth; null mutant displays slow growth that is complemented by expression of human or mouse ortholog; mutation in human ortholog MPC1 is associated with lactic acidosis and hyperpyruvatemia
+S000033711	CDS					YGL080W		7	358636	359028	W		2011-02-03	1996-07-31	
+S000003047	ORF	Verified	YGL079W	KXD1	KIB1	chromosome 7		7	359444	360100	W		2011-02-03	1996-07-31	Subunit of the BLOC-1 complex involved in endosomal maturation; null mutant is sensitive to drug inducing secretion of vacuolar cargo; GFP-fusion protein localizes to the endosome
+S000034302	CDS					YGL079W		7	359444	360100	W		2011-02-03	1996-07-31	
+S000003046	ORF	Verified	YGL078C	DBP3	RNA-dependent ATPase DBP3	chromosome 7	L000000494	7	361859	360288	C		2011-02-03	1996-07-31	RNA-Dependent ATPase, member of DExD/H-box family; involved in cleavage of site A3 within the ITS1 spacer during rRNA processing; not essential for growth, but deletion causes severe slow-growth phenotype
+S000034146	CDS					YGL078C		7	361859	360288	C		2011-02-03	1996-07-31	
+S000003045	ORF	Verified	YGL077C	HNM1	CTR1	chromosome 7	L000000433|L000000795	7	363916	362225	C		2011-02-03	1996-07-31	Plasma membrane transporter for choline, ethanolamine, and carnitine; involved in the uptake of nitrogen mustard and the uptake of glycine betaine during hypersaline stress; co-regulated with phospholipid biosynthetic genes and negatively regulated by choline and myo-inositol
+S000034066	CDS					YGL077C		7	363916	362225	C		2011-02-03	1996-07-31	
+S000007302	snoRNA_gene		snR39	SNR39		chromosome 7	L000003054	7	365251	365163	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A807
+S000036769	noncoding_exon					snR39		7	365251	365163	C		2011-02-03	2000-05-19	
+S000003044	ORF	Verified	YGL076C	RPL7A	uL30|ribosomal 60S subunit protein L7A|YL8|L7A|L6A|L30|rp11	chromosome 7	L000002704|L000003255	7	365996	364335	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L7A; required for processing of 27SA3 pre-rRNA to 27SB pre-rRNA during assembly of large ribosomal subunit; depletion leads to a turnover of pre-rRNA; contains a conserved C-terminal Nucleic acid Binding Domain (NDB2); binds to Domain II of 25S and 5.8S rRNAs; homologous to mammalian ribosomal protein L7 and bacterial L30; RPL7A has a paralog, RPL7B, that arose from the whole genome duplication
+S000032065	CDS					YGL076C		7	364964	364335	C		2011-02-03	1996-07-31	
+S000032064	CDS					YGL076C		7	365526	365433	C		2011-02-03	1996-07-31	
+S000032063	CDS					YGL076C		7	365996	365986	C		2011-02-03	1996-07-31	
+S000032067	intron					YGL076C		7	365432	364965	C		2011-02-03	1996-07-31	
+S000032066	intron					YGL076C		7	365985	365527	C		2011-02-03	1996-07-31	
+S000007303	snoRNA_gene		snR39B	SNR39B		chromosome 7	L000003494	7	366469	366374	C		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position G805
+S000030654	noncoding_exon					snR39B		7	366469	366374	C		2011-02-03	2000-05-19	
+S000003043	ORF	Verified	YGL075C	MPS2	MMC1	chromosome 7	L000004546|L000004250	7	368088	366925	C		2011-02-03	1996-07-31	Essential membrane protein localized at nuclear envelope and SPBs; required for insertion of the newly duplicated spindle pole body into the nuclear envelope; potentially phosphorylated by Cdc28p; MPS2 has a paralog, CSM4, that arose from the whole genome duplication
+S000031904	CDS					YGL075C		7	368088	366925	C		2011-02-03	1996-07-31	
+S000003041	ORF	Verified	YGL073W	HSF1	stress-responsive transcription factor HSF1|MAS3|EXA3	chromosome 7	L000000814	7	368753	371254	W		2011-02-03	1996-07-31	Trimeric heat shock transcription factor; activates multiple genes in response to highly diverse stresses; recognizes variable heat shock elements (HSEs) consisting of inverted NGAAN repeats; monitors translational status of cell through an RQC (Ribosomal Quality Control)-mediated translation-stress signal; involved in diauxic shift; posttranslationally regulated; human homolog HSF1 with linker region mutations can complement yeast hsf1 mutant
+S000030864	CDS					YGL073W		7	368753	371254	W		2011-02-03	1996-07-31	
+S000003042	ORF	Dubious	YGL074C			chromosome 7		7	368922	368596	C		2011-02-03	1996-07-31	Dubious open reading frame unlikely to encode a functional protein; overlaps 5' end of essential HSF1 gene encoding heat shock transcription factor
+S000031746	CDS					YGL074C		7	368922	368596	C		2011-02-03	1996-07-31	
+S000003040	ORF	Dubious	YGL072C			chromosome 7		7	371362	371003	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene HSF1; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
+S000030701	CDS					YGL072C		7	371362	371003	C		2011-02-03	1996-07-31	
+S000003039	ORF	Verified	YGL071W	AFT1	DNA-binding transcription factor AFT1|RCS1	chromosome 7	L000002660|L000001594	7	372012	374084	W		2011-02-03	1996-07-31	Transcription factor involved in iron utilization and homeostasis; binds consensus site PyPuCACCCPu and activates transcription in response to changes in iron availability; in iron-replete conditions localization is regulated by Grx3p, Grx4p, and Fra2p, and promoter binding is negatively regulated via Grx3p-Grx4p binding; AFT1 has a paralog, AFT2, that arose from the whole genome duplication; relative distribution to the nucleus increases upon DNA replication stress
+S000030658	CDS					YGL071W		7	372012	374084	W		2011-02-03	1996-07-31	
+S000003038	ORF	Verified	YGL070C	RPB9	DNA-directed RNA polymerase II core subunit RPB9|B12.6|SSU73|SHI	chromosome 7	L000001683|L000001880	7	374827	374459	C		2011-02-03	1996-07-31	RNA polymerase II subunit B12.6; contacts DNA; mutations affect transcription start site selection and fidelity of transcription
+S000037754	CDS					YGL070C		7	374827	374459	C		2011-02-03	1996-07-31	
+S000003036	ORF	Verified	YGL068W	MNP1	mitochondrial nucleoid protein MNP1	chromosome 7		7	375087	375671	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; has similarity to E. coli L7/L12 and human MRPL7 ribosomal proteins; associates with the mitochondrial nucleoid; required for normal respiratory growth
+S000030909	CDS					YGL068W		7	375087	375671	W		2011-02-03	1996-07-31	
+S000003037	ORF	Dubious	YGL069C		SRF3	chromosome 7		7	375514	375050	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 92% of ORF overlaps the uncharacterized ORF YGL068W; deletion in cyr1 mutant results in loss of stress resistance
+S000030942	CDS					YGL069C		7	375514	375050	C		2011-02-03	1996-07-31	
+S000003035	ORF	Verified	YGL067W	NPY1	NAD(+) diphosphatase	chromosome 7	S000007505	7	376101	377255	W		2011-02-03	1996-07-31	NADH diphosphatase (pyrophosphatase); hydrolyzes the pyrophosphate linkage in NADH and related nucleotides; localizes to peroxisomes; nudix hydrolase family member
+S000029896	CDS					YGL067W		7	376101	377255	W		2011-02-03	1996-07-31	
+S000003034	ORF	Verified	YGL066W	SGF73	deubiquitination module subunit SGF73|SCA7	chromosome 7		7	377609	379582	W		2011-02-03	1996-07-31	Subunit of DUBm module of SAGA and SLIK; has roles in anchoring deubiquitination module (DUBm) into SAGA and SLIK complexes, maintaining organization and ubiquitin-binding conformation of Ubp8p, thereby contributing to overall DUBm activity; involved in preinitiation complex assembly at promoters; relocalizes to cytosol under hypoxia; human homolog ATXN7 implicated in spinocerebellar ataxia, and can complement yeast null mutant
+S000037894	CDS					YGL066W		7	377609	379582	W		2011-02-03	1996-07-31	
+S000003033	ORF	Verified	YGL065C	ALG2	GDP-Man:Man(1)GlcNAc(2)-PP-dolichol alpha-1,3-mannosyltransferase	chromosome 7	L000002798	7	381271	379760	C		2011-02-03	1996-07-31	Mannosyltransferase in the N-linked glycosylation pathway; catalyzes two consecutive steps in the N-linked glycosylation pathway; alg2 mutants exhibit temperature-sensitive growth and abnormal accumulation of the lipid-linked oligosaccharide Man2GlcNAc2-PP-Dol; human ALG2 complements the temperature sensitivity and dolichol-linked oligosaccharide biosynthesis defect of the alg2-1 mutant, but mutant form from a patient with CDG-Ii fails to complement
+S000035998	CDS					YGL065C		7	381271	379760	C		2011-02-03	1996-07-31	
+S000003032	ORF	Verified	YGL064C	MRH4	ATP-dependent RNA helicase	chromosome 7		7	383208	381523	C		2011-02-03	1996-07-31	Mitochondrial ATP-dependent RNA helicase of the DEAD-box family; required for assembly of the large subunit of mitochondrial ribosomes; binds to the large subunit rRNA, 21S_rRNA; localizes to the matrix face of the mitochondrial inner membrane and associates with the large subunit precursor and with mature ribosomes
+S000035835	CDS					YGL064C		7	383208	381523	C		2011-02-03	1996-07-31	
+S000003031	ORF	Verified	YGL063W	PUS2	pseudouridine synthase PUS2	chromosome 7	L000003361	7	383654	384766	W		2011-02-03	1996-07-31|2011-02-03	Mitochondrial tRNA:pseudouridine synthase; acts at positions 27 and 28, but not at position 72; efficiently and rapidly targeted to mitochondria, specifically dedicated to mitochondrial tRNA modification; mutation also affects pseudouridylation of some nuclear-encoded mRNAs; PUS2 has a paralog, PUS1, that arose from the whole genome duplication
+S000035805	CDS					YGL063W		7	383654	384766	W		2011-02-03	1996-07-31|2011-02-03	
+S000028633	ORF	Dubious	YGL063C-A			chromosome 7		7	384651	384502	C		2011-02-03	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032389	CDS					YGL063C-A		7	384651	384502	C		2011-02-03	2003-07-29	
+S000003030	ORF	Verified	YGL062W	PYC1	pyruvate carboxylase 1	chromosome 7	L000001542	7	385196	388732	W		2011-02-03	1996-07-31	Pyruvate carboxylase isoform; cytoplasmic enzyme that converts pyruvate to oxaloacetate; differentially regulated than isoform Pyc2p; mutations in the human homolog are associated with lactic acidosis; PYC1 has a paralog, PYC2, that arose from the whole genome duplication
+S000035682	CDS					YGL062W		7	385196	388732	W		2011-02-03	1996-07-31	
+S000118457	ARS		ARS717		ARSVII-389	chromosome 7		7	388658	388891			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000119023	ARS_consensus_sequence					ARS717		7	388846	388832	C		2011-02-03	2006-10-03	
+S000003029	ORF	Verified	YGL061C	DUO1		chromosome 7	L000004421	7	389711	388968	C		2011-02-03	1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); cooperates with Dam1p to connect the DASH complex with microtubules (MT); couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis
+S000034613	CDS					YGL061C		7	389711	388968	C		2011-02-03	1996-07-31	
+S000003028	ORF	Verified	YGL060W	YBP2	YBH1	chromosome 7		7	390065	391990	W		2011-02-03	1996-07-31	Central kinetochore associated protein; mediates mitotic progression; interacts with several central kinetochore proteins and centromeric histone Cse4p; role in resistance to oxidative stress; similar to Slk19p; YBP2 has a paralog, YBP1, that arose from the whole genome duplication
+S000034586	CDS					YGL060W		7	390065	391990	W		2011-02-03	1996-07-31	
+S000003027	ORF	Verified	YGL059W	PKP2	protein kinase PKP2	chromosome 7		7	392223	393698	W		2011-02-03	2003-01-02|1996-07-31|2011-02-03	Mitochondrial protein kinase; negatively regulates activity of the pyruvate dehydrogenase complex by phosphorylating the ser-133 residue of the Pda1p subunit; acts in concert with kinase Pkp1p and phosphatases Ptc5p and Ptc6p; relocalizes from mitochondrion to cytoplasm upon DNA replication stress
+S000035146	CDS					YGL059W		7	392223	393698	W		2011-02-03	2003-01-02|1996-07-31|2011-02-03	
+S000003026	ORF	Verified	YGL058W	RAD6	E2 ubiquitin-conjugating protein RAD6|PSO8|UBC2	chromosome 7	L000001560	7	393986	394504	W	-44	2011-02-03	1996-07-31	Ubiquitin-conjugating enzyme (E2); involved in postreplication repair as a heterodimer with Rad18p, regulation of K63 polyubiquitination in response to oxidative stress, DSBR and checkpoint control as a heterodimer with Bre1p, ubiquitin-mediated N-end rule protein degradation as a heterodimer with Ubr1p, ERAD with Ubr1p in the absence of canonical ER membrane ligases, and Rpn4p turnover as part of proteasome homeostasis, in complex with Ubr2p and Mub1p
+S000035031	CDS					YGL058W		7	393986	394504	W		2011-02-03	1996-07-31	
+S000003025	ORF	Verified	YGL057C	GEP7		chromosome 7		7	395829	394966	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant exhibits a respiratory growth defect and synthetic interactions with prohibitin (phb1) and gem1; authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000034817	CDS					YGL057C		7	395829	394966	C		2011-02-03	1996-07-31	
+S000003024	ORF	Verified	YGL056C	SDS23		chromosome 7	L000004692	7	397618	396035	C		2011-02-03	1996-07-31|2011-02-03	Protein involved in cell separation during budding; one of two S. cerevisiae homologs (Sds23p and Sds24p) of the S. pombe Sds23 protein, which is implicated in APC/cyclosome regulation; SDS23 has a paralog, SDS24, that arose from the whole genome duplication
+S000033939	CDS					YGL056C		7	397618	396035	C		2011-02-03	1996-07-31|2011-02-03	
+S000003023	ORF	Verified	YGL055W	OLE1	stearoyl-CoA 9-desaturase|MDM2	chromosome 7	L000001052|L000001297	7	398628	400160	W	-37	2011-02-03	1996-07-31	Delta(9) fatty acid desaturase; required for monounsaturated fatty acid synthesis and for normal distribution of mitochondria
+S000033893	CDS					YGL055W		7	398628	400160	W		2011-02-03	1996-07-31	
+S000003022	ORF	Verified	YGL054C	ERV14	cornichon family protein	chromosome 7	L000004816	7	401287	400871	C		2011-02-03	1996-07-31	COPII-coated vesicle protein; involved in vesicle formation and incorporation of specific secretory cargo; required for the delivery of bud-site selection protein Axl2p and Nha1p antiporter to cell surface; related to Drosophila cornichon; ERV14 has a paralog, ERV15, that arose from the whole genome duplication
+S000033689	CDS					YGL054C		7	401287	400871	C		2011-02-03	1996-07-31	
+S000006554	tRNA_gene		tE(UUC)G2			chromosome 7	L000003850	7	401598	401527	C		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000034647	noncoding_exon					tE(UUC)G2		7	401598	401527	C		2011-02-03	2000-05-19	
+S000006949	long_terminal_repeat		YGLWsigma2			chromosome 7		7	401616	401894	W		2011-02-03	2000-05-19	Ty3 LTR
+S000006944	long_terminal_repeat		YGLWdelta7			chromosome 7		7	401959	402290	W		2011-02-03	2000-05-19	Ty1 LTR
+S000003021	ORF	Verified	YGL053W	PRM8	pheromone-regulated DUP240 family protein PRM8	chromosome 7		7	402589	403302	W		2011-02-03	1996-07-31	Pheromone-regulated protein; contains with 2 predicted transmembrane segments and an FF sequence, a motif involved in COPII binding; forms a complex with Prp9p in the ER; member of DUP240 gene family; PRM8 has a paralog, PRM9, that arose from a segmental duplication
+S000033637	CDS					YGL053W		7	402589	403302	W		2011-02-03	1996-07-31	
+S000003020	ORF	Dubious	YGL052W			chromosome 7		7	403437	403742	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MST27
+S000030345	CDS					YGL052W		7	403437	403742	W		2011-02-03	1996-07-31	
+S000003019	ORF	Verified	YGL051W	MST27	DUP240 family protein MST27	chromosome 7		7	403687	404391	W		2011-02-03	1996-07-31	Putative integral membrane protein, involved in vesicle formation; forms complex with Mst28p; member of DUP240 gene family; binds COPI and COPII vesicles; MST27 has a paralog, MST28, that arose from a segmental duplication
+S000030145	CDS					YGL051W		7	403687	404391	W		2011-02-03	1996-07-31	
+S000006945	long_terminal_repeat		YGLWdelta8			chromosome 7		7	405004	405145	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006946	long_terminal_repeat		YGLWdelta9			chromosome 7		7	405146	405207	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006938	long_terminal_repeat		YGLCsigma3			chromosome 7		7	405453	405208	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006711	tRNA_gene		tR(UCU)G1			chromosome 7	L000003824	7	405470	405541	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000037328	noncoding_exon					tR(UCU)G1		7	405470	405541	W		2011-02-03	2000-05-19	
+S000003018	ORF	Verified	YGL050W	TYW3	tRNA methyltransferase TYW3	chromosome 7		7	405776	406597	W		2011-02-03	1996-07-31	tRNA methyltransferase required for synthesis of wybutosine; a modified guanosine found at the 3'-position adjacent to the anticodon of phenylalanine tRNA which supports reading frame maintenance by stabilizing codon-anticodon interactions
+S000030037	CDS					YGL050W		7	405776	406597	W		2011-02-03	1996-07-31	
+S000003017	ORF	Verified	YGL049C	TIF4632	translation initiation factor eIF4G|eIF4G2	chromosome 7	L000002310	7	409604	406860	C		2011-02-03	1996-07-31	Translation initiation factor eIF4G; subunit of the mRNA cap-binding protein complex (eIF4F) that also contains eIF4E (Cdc33p); associates with the poly(A)-binding protein Pab1p, also interacts with eIF4A (Tif1p); TIF4632 has a paralog, TIF4631, that arose from the whole genome duplication
+S000030563	CDS					YGL049C		7	409604	406860	C		2011-02-03	1996-07-31	
+S000003016	ORF	Verified	YGL048C	RPT6	proteasome regulatory particle base subunit RPT6|SUG1|SCB68|CRL3|CIM3	chromosome 7	L000002174|L000000406|L000002265	7	411286	410069	C	-43	2011-02-03	1996-07-31	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; bound by ubiquitin-protein ligases Ubr1p and Ufd4p; localized mainly to the nucleus throughout the cell cycle; protein abundance increases in response to DNA replication stress
+S000030499	CDS					YGL048C		7	411286	410069	C		2011-02-03	1996-07-31	
+S000003015	ORF	Verified	YGL047W	ALG13	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase catalytic subunit ALG13	chromosome 7		7	411552	412160	W		2011-02-03	1996-07-31	Catalytic component of UDP-GlcNAc transferase; required for the second step of dolichyl-linked oligosaccharide synthesis; anchored to the ER membrane via interaction with Alg14p; similar to bacterial and human glycosyltransferases; protein abundance increases in response to DNA replication stress; both human homologs ALG13 and ALG14 are required to complement yeast alg13 mutant
+S000030465	CDS					YGL047W		7	411552	412160	W		2011-02-03	1996-07-31	
+S000006755	tRNA_gene		tV(AAC)G1			chromosome 7	L000003849	7	412367	412294	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000036903	noncoding_exon					tV(AAC)G1		7	412367	412294	C		2011-02-03	2000-05-19	
+S000006947	long_terminal_repeat		YGLWdelta10			chromosome 7		7	412456	412725	W		2011-02-03	2000-05-19	Ty1 LTR
+S000003013	ORF	Verified	YGL045W	RIM8	ART9|YGL046W|PAL3	chromosome 7	L000004171	7	414102	415730	W		2011-02-03	2003-01-09|1996-07-31	Protein involved in proteolytic activation of Rim101p; part of response to alkaline pH; interacts with ESCRT-1 subunits Stp22p and Vps28p; essential for anaerobic growth; member of the arrestin-related trafficking adaptor family
+S000037558	CDS					YGL045W		7	414102	415730	W		2011-02-03	2003-01-09|1996-07-31	
+S000003012	ORF	Verified	YGL044C	RNA15		chromosome 7	L000001651	7	417036	416146	C		2011-02-03	1996-07-31	Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; required for gene looping and maintenance of genome stability
+S000037423	CDS					YGL044C		7	417036	416146	C		2011-02-03	1996-07-31	
+S000003011	ORF	Verified	YGL043W	DST1	SII|S-II|TFIIS|P37|PPR2	chromosome 7	L000001476|L000000530	7	417483	418412	W	24	2011-02-03	1996-07-31	General transcription elongation factor TFIIS; enables RNA polymerase II to read through blocks to elongation by stimulating cleavage of nascent transcripts stalled at transcription arrest sites; maintains RNAPII elongation activity on ribosomal protein genes during conditions of transcriptional stress
+S000031998	CDS					YGL043W		7	417483	418412	W		2011-02-03	1996-07-31	
+S000003010	ORF	Dubious	YGL042C			chromosome 7		7	418593	418288	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; deletion mutation blocks replication of Brome mosaic virus in S. cerevisiae, but this is likely due to effects on the overlapping gene DST1
+S000031778	CDS					YGL042C		7	418593	418288	C		2011-02-03	1996-07-31	
+S000028826	ORF	Uncharacterized	YGL041W-A			chromosome 7		7	418825	419289	W		2011-02-03	2003-07-29|2011-02-03	Putative protein of unknown function; conserved in fungi; identified by expression profiling and mass spectrometry
+S000033650	CDS					YGL041W-A		7	418825	419289	W		2011-02-03	2003-07-29|2011-02-03	
+S000028548	ORF	Uncharacterized	YGL041C-B			chromosome 7		7	418886	418704	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
+S000031198	CDS					YGL041C-B		7	418886	418704	C		2011-02-03	2003-07-29	
+S000003009	ORF	Dubious	YGL041C			chromosome 7		7	419225	419022	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000029877	CDS					YGL041C		7	419225	419022	C		2011-02-03	1996-07-31|2011-02-03	
+S000003008	ORF	Verified	YGL040C	HEM2	porphobilinogen synthase HEM2|OLE4|SLU1	chromosome 7	L000000761	7	420555	419527	C		2011-02-03	1996-07-31	Aminolevulinate dehydratase; a homo-octameric enzyme, catalyzes the conversion of 5-aminolevulinate to porphobilinogen, the second step in heme biosynthesis; enzymatic activity is zinc-dependent; localizes to the cytoplasm and nucleus; human homolog ALAD can complement yeast hem2 mutant
+S000036193	CDS					YGL040C		7	420555	419527	C		2011-02-03	1996-07-31	
+S000118458	ARS		ARS718		ARSVII-421	chromosome 7		7	421171	421279			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000119024	ARS_consensus_sequence					ARS718		7	421279	421265	C		2011-02-03	2006-10-03	
+S000006640	tRNA_gene		tL(CAA)G2	SUP54		chromosome 7	L000003825|L000002211	7	423092	423205	W	-24	2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; can mutate to suppress amber nonsense mutations
+S000034245	intron					tL(CAA)G2		7	423130	423161	W		2011-02-03	2000-05-19	
+S000034243	noncoding_exon					tL(CAA)G2		7	423092	423129	W		2011-02-03	2000-05-19	
+S000034244	noncoding_exon					tL(CAA)G2		7	423162	423205	W		2011-02-03	2000-05-19	
+S000003007	ORF	Verified	YGL039W		carbonyl reductase (NADPH-dependent)	chromosome 7		7	423961	425007	W		2011-02-03	1996-07-31	Aldehyde reductase; reduces aliphatic aldehyde substrates using NADH as cofactor; shown to reduce carbonyl compounds to chiral alcohols
+S000035325	CDS					YGL039W		7	423961	425007	W		2011-02-03	1996-07-31	
+S000003006	ORF	Verified	YGL038C	OCH1	LDB12|NGD29	chromosome 7	L000001295	7	426804	425362	C	-31.86	2011-02-03	1996-07-31	Mannosyltransferase of the cis-Golgi apparatus; initiates the polymannose outer chain elongation of N-linked oligosaccharides of glycoproteins
+S000035173	CDS					YGL038C		7	426804	425362	C		2011-02-03	1996-07-31	
+S000003005	ORF	Verified	YGL037C	PNC1	nicotinamidase	chromosome 7		7	427947	427297	C		2011-02-03	1996-07-31	Nicotinamidase that converts nicotinamide to nicotinic acid; part of the NAD(+) salvage pathway; required for life span extension by calorie restriction; lacks a peroxisomal targeting signal but is imported into peroxisomes via binding to Gpd1p; PNC1 expression responds to all known stimuli that extend replicative life span; protein increases in abundance and relative distribution to cytoplasmic foci decreases upon DNA replication stress
+S000034206	CDS					YGL037C		7	427947	427297	C		2011-02-03	1996-07-31	
+S000003004	ORF	Uncharacterized	YGL036W			chromosome 7	L000003392	7	428601	431330	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YGL036W is not an essential gene
+S000034168	CDS					YGL036W		7	428601	431330	W		2011-02-03	1996-07-31	
+S000003003	ORF	Verified	YGL035C	MIG1	transcription factor MIG1|TDS22|SSN1|CAT4	chromosome 7	L000001110	7	433062	431548	C	-27	2011-02-03	1996-07-31	Transcription factor involved in glucose repression; sequence specific DNA binding protein containing two Cys2His2 zinc finger motifs; regulated by the SNF1 kinase and the GLC7 phosphatase; regulates filamentous growth along with Mig2p in response to glucose depletion; activated in stochastic pulses of nuclear localization, shuttling between cytosol and nucleus depending on external glucose levels and its phosphorylation state
+S000034005	CDS					YGL035C		7	433062	431548	C		2011-02-03	1996-07-31	
+S000003002	ORF	Uncharacterized	YGL034C			chromosome 7		7	433579	433214	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YGL034C is not an essential gene
+S000033200	CDS					YGL034C		7	433579	433214	C		2011-02-03	1996-07-31	
+S000003001	ORF	Verified	YGL033W	HOP2		chromosome 7	L000004230	7	435625	436401	W		2014-11-18	2000-12-01|2014-11-18|1996-07-31	Meiosis-specific protein that localizes to chromosomes; prevents synapsis between nonhomologous chromosomes and ensures synapsis between homologs; complexes with Mnd1p to promote homolog pairing and meiotic double-strand break repair; heterodimer of Hop2p-Mnd1p stimulates the Dmc1p-mediated strand invasion
+S000033177	CDS					YGL033W		7	435625	435679	W		2011-02-03	2000-12-01|1996-07-31	
+S000033178	CDS					YGL033W		7	435750	436312	W		2014-11-18	2000-12-01|2014-11-18|1996-07-31	
+S000178097	CDS					YGL033W		7	436375	436401	W		2014-11-18	2014-11-18	
+S000033179	intron					YGL033W		7	435680	435749	W		2011-02-03	2000-12-01|1996-07-31	
+S000178096	intron					YGL033W		7	436313	436374	W		2014-11-18	2014-11-18	
+S000003000	ORF	Verified	YGL032C	AGA2		chromosome 7	L000000062	7	436833	436570	C	-23.06	2011-02-03	1996-07-31	Adhesion subunit of a-agglutinin of a-cells; C-terminal sequence acts as a ligand for alpha-agglutinin (Sag1p) during agglutination, modified with O-linked oligomannosyl chains, linked to anchorage subunit Aga1p via two disulfide bonds
+S000033030	CDS					YGL032C		7	436833	436570	C		2011-02-03	1996-07-31	
+S000002999	ORF	Verified	YGL031C	RPL24A	eL24|ribosomal 60S subunit protein L24A|L24e|rp29|YL21|L30A|L24A|RPL30A	chromosome 7	L000001724	7	437934	437467	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L24A; not essential for translation but may be required for normal translation rate; homologous to mammalian ribosomal protein L24, no bacterial homolog; RPL24A has a paralog, RPL24B, that arose from the whole genome duplication
+S000032115	CDS					YGL031C		7	437934	437467	C		2011-02-03	1996-07-31	
+S000122099	five_prime_UTR_intron					YGL031C		7	438397	437942	C		2011-02-03	2007-04-04	
+S000002998	ORF	Verified	YGL030W	RPL30	eL30|ribosomal 60S subunit protein L30|L30e|rp73|YL38|L32|L30	chromosome 7	L000001726	7	439091	439638	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L30; involved in pre-rRNA processing in the nucleolus; autoregulates splicing of its transcript; homologous to mammalian ribosomal protein L30, no bacterial homolog
+S000032082	CDS					YGL030W		7	439091	439093	W		2011-02-03	1996-07-31	
+S000032083	CDS					YGL030W		7	439324	439638	W		2011-02-03	1996-07-31	
+S000032084	intron					YGL030W		7	439094	439323	W		2011-02-03	1996-07-31	
+S000002997	ORF	Verified	YGL029W	CGR1		chromosome 7	S000007411	7	440063	440425	W		2011-02-03	1996-07-31	Protein involved in nucleolar integrity and processing of pre-rRNA; has a role in processing rRNA for the 60S ribosome subunit; transcript is induced in response to cytotoxic stress but not genotoxic stress; relocalizes from nucleus to nucleolus upon DNA replication stress
+S000030962	CDS					YGL029W		7	440063	440425	W		2011-02-03	1996-07-31	
+S000006565	tRNA_gene		tF(GAA)G			chromosome 7	L000003848	7	440807	440716	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000035389	intron					tF(GAA)G		7	440770	440752	C		2011-02-03	2000-05-19	
+S000035388	noncoding_exon					tF(GAA)G		7	440751	440716	C		2011-02-03	2000-05-19	
+S000035387	noncoding_exon					tF(GAA)G		7	440807	440771	C		2011-02-03	2000-05-19	
+S000002996	ORF	Verified	YGL028C	SCW11	putative glucan endo-1,3-beta-D-glucosidase	chromosome 7		7	442909	441281	C		2011-02-03	1996-07-31	Cell wall protein with similarity to glucanases; may play a role in conjugation during mating based on its regulation by Ste12p
+S000030849	CDS					YGL028C		7	442909	441281	C		2011-02-03	1996-07-31	
+S000002995	ORF	Verified	YGL027C	CWH41	DER7|GLS1	chromosome 7	L000003121|L000000715	7	446143	443642	C		2011-02-03	1996-07-31	Processing alpha glucosidase I; ER type II integral membrane N-glycoprotein involved in assembly of cell wall beta 1,6 glucan and asparagine-linked protein glycosylation; also involved in ER protein quality control and sensing of ER stress
+S000029845	CDS					YGL027C		7	446143	443642	C		2011-02-03	1996-07-31	
+S000002994	ORF	Verified	YGL026C	TRP5	tryptophan synthase TRP5	chromosome 7	L000002356	7	448535	446412	C	-22	2011-02-03	1996-07-31	Tryptophan synthase; catalyzes the last step of tryptophan biosynthesis; regulated by the general control system of amino acid biosynthesis
+S000037836	CDS					YGL026C		7	448535	446412	C		2011-02-03	1996-07-31	
+S000002992	ORF	Dubious	YGL024W		SST3	chromosome 7		7	449788	450123	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially/completely overlaps the verified ORF PGD1/YGL025C
+S000037721	CDS					YGL024W		7	449788	450123	W		2011-02-03	1996-07-31	
+S000002993	ORF	Verified	YGL025C	PGD1	MED3|HRS1	chromosome 7	L000000811|L000001408	7	449957	448764	C		2011-02-03	2003-09-22|1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for basal and activated transcription; direct target of Cyc8p-Tup1p transcriptional corepressor
+S000037746	CDS					YGL025C		7	449957	448764	C		2011-02-03	2003-09-22|1996-07-31	
+S000002991	ORF	Verified	YGL023C	PIB2		chromosome 7	S000007475	7	452104	450197	C		2011-02-03	1996-07-31	Protein of unknown function; contains FYVE domain; similar to Fab1 and Vps27
+S000036924	CDS					YGL023C		7	452104	450197	C		2011-02-03	1996-07-31	
+S000002990	ORF	Verified	YGL022W	STT3	dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3	chromosome 7	L000002716	7	452404	454560	W		2011-02-03	1996-07-31	Subunit of the oligosaccharyltransferase complex of the ER lumen; complex catalyzes asparagine-linked glycosylation of newly synthesized proteins; forms a subcomplex with Ost3p and Ost4p and is directly involved in catalysis
+S000036896	CDS					YGL022W		7	452404	454560	W		2011-02-03	1996-07-31	
+S000002989	ORF	Verified	YGL021W	ALK1	protein kinase ALK1	chromosome 7	L000002852	7	454785	457067	W		2011-02-03	1996-07-31	Protein kinase; along with its paralog, ALK2, required for proper spindle positioning and nuclear segregation following mitotic arrest, proper organization of cell polarity factors in mitosis, proper localization of formins and polarity factors, and survival in cells that activate spindle assembly checkpoint; phosphorylated in response to DNA damage; ALK1 has a paralog, ALK2, that arose from the whole genome duplication; similar to mammalian haspins
+S000036836	CDS					YGL021W		7	454785	457067	W		2011-02-03	1996-07-31	
+S000002988	ORF	Verified	YGL020C	GET1	GET complex subunit GET1|MDM39	chromosome 7		7	457870	457163	C		2011-02-03	1996-07-31	Subunit of the GET complex; involved in insertion of proteins into the ER membrane; required for the retrieval of HDEL proteins from the Golgi to the ER in an ERD2 dependent fashion and for normal mitochondrial morphology and inheritance
+S000035892	CDS					YGL020C		7	457870	457163	C		2011-02-03	1996-07-31	
+S000002987	ORF	Verified	YGL019W	CKB1	casein kinase 2 regulatory subunit CKB1	chromosome 7	L000002856	7	458156	458992	W		2011-02-03	1996-07-31	Beta regulatory subunit of casein kinase 2 (CK2); a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerases
+S000034946	CDS					YGL019W		7	458156	458992	W		2011-02-03	1996-07-31	
+S000002986	ORF	Verified	YGL018C	JAC1	J-type chaperone JAC1	chromosome 7	L000003591	7	459664	459110	C		2011-02-03	1996-07-31	Specialized J-protein that functions in Fe-S cluster biogenesis; functions with Hsp70 in Fe-S cluster biogenesis in mitochondria; involved in iron metabolism; contains a J domain typical to J-type chaperones; localizes to the mitochondrial matrix
+S000034703	CDS					YGL018C		7	459664	459110	C		2011-02-03	1996-07-31	
+S000002985	ORF	Verified	YGL017W	ATE1	arginyltransferase	chromosome 7	L000000137	7	459854	461365	W	-12	2011-02-03	1996-07-31	Arginyl-tRNA-protein transferase; catalyzes post-translational conjugation of arginine to the amino termini of acceptor proteins which are then subject to degradation via the N-end rule pathway
+S000034655	CDS					YGL017W		7	459854	461365	W		2011-02-03	1996-07-31	
+S000002984	ORF	Verified	YGL016W	KAP122	PDR6	chromosome 7	L000001366	7	461666	464911	W	-10	2011-02-03	1996-07-31	Karyopherin beta; responsible for import of the Toa1p-Toa2p complex into the nucleus; binds to nucleoporins Nup1p and Nup2p; may play a role in regulation of pleiotropic drug resistance
+S000033773	CDS					YGL016W		7	461666	464911	W		2011-02-03	1996-07-31	
+S000002983	ORF	Uncharacterized	YGL015C			chromosome 7		7	465435	465043	C		2011-02-03	1996-07-31	Putative protein of unknown function; null mutants accumulate cargo in the Golgi
+S000033596	CDS					YGL015C		7	465435	465043	C		2011-02-03	1996-07-31	
+S000002982	ORF	Verified	YGL014W	PUF4	YGL023	chromosome 7		7	466141	468807	W		2011-02-03	1996-07-31	Member of the PUF protein family; PUF family is defined by the presence of Pumilio homology domains that confer RNA binding activity; preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors
+S000033567	CDS					YGL014W		7	466141	468807	W		2011-02-03	1996-07-31	
+S000028825	ORF	Dubious	YGL014C-A			chromosome 7		7	466398	466237	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by expression profiling and mass spectrometry
+S000033647	CDS					YGL014C-A		7	466398	466237	C		2011-02-03	2003-07-29	
+S000002981	ORF	Verified	YGL013C	PDR1	drug-responsive transcription factor PDR1|TPE3|TPE1|TIL1|SMR2|NRA2|CYH3|BOR2|ANT1|AMY1	chromosome 7	L000002984|L000003503|L000001361	7	472298	469092	C	-8	2011-02-03	1996-07-31	Transcription factor that regulates the pleiotropic drug response; zinc cluster protein that is a master regulator involved in recruiting other zinc cluster proteins to pleiotropic drug response elements (PDREs) to fine tune the regulation of multidrug resistance genes; relocalizes to the cytosol in response to hypoxia; PDR1 has a paralog, PDR3, that arose from the whole genome duplication
+S000032756	CDS					YGL013C		7	472298	469092	C		2011-02-03	1996-07-31	
+S000002980	ORF	Verified	YGL012W	ERG4	delta(24(24(1)))-sterol reductase	chromosome 7	L000000571	7	472855	474276	W		2011-02-03	1996-07-31	C-24(28) sterol reductase; catalyzes the final step in ergosterol biosynthesis; mutants are viable, but lack ergosterol
+S000032737	CDS					YGL012W		7	472855	474276	W		2011-02-03	1996-07-31	
+S000002979	ORF	Verified	YGL011C	SCL1	proteasome core particle subunit alpha 1|PRC2	chromosome 7	L000001812	7	475247	474489	C	-8	2011-02-03	1996-07-31	Alpha 1 subunit of the 20S proteasome; involved in the degradation of ubiquitinated substrates; 20S proteasome is the core complex of the 26S proteasome; essential for growth; detected in the mitochondria
+S000032541	CDS					YGL011C		7	475247	474489	C		2011-02-03	1996-07-31	
+S000002978	ORF	Verified	YGL010W	MPO1		chromosome 7		7	475545	476069	W		2011-02-03	1996-07-31	Protein involved in metabolism of phytosphingosine; not an essential gene
+S000031636	CDS					YGL010W		7	475545	476069	W		2011-02-03	1996-07-31	
+S000002977	ORF	Verified	YGL009C	LEU1	3-isopropylmalate dehydratase LEU1	chromosome 7	L000000942	7	478652	476313	C	-5	2011-02-03	1996-07-31	Isopropylmalate isomerase; catalyzes the second step in the leucine biosynthesis pathway
+S000031584	CDS					YGL009C		7	478652	476313	C		2011-02-03	1996-07-31	
+S000002976	ORF	Verified	YGL008C	PMA1	H(+)-exporting P2-type ATPase PMA1|KTI10	chromosome 7	L000001449	7	482666	479910	C	-2	2011-02-03	1996-07-31	Plasma membrane P2-type H+-ATPase; pumps protons out of cell; major regulator of cytoplasmic pH and plasma membrane potential; long-lived protein asymmetrically distributed at plasma membrane between mother cells and buds; accumulates at high levels in mother cells during aging, buds emerge with very low levels of Pma1p, newborn cells have low levels of Pma1p; Hsp30p plays a role in Pma1p regulation; interactions with Std1p appear to propagate [GAR+]
+S000030720	CDS					YGL008C		7	482666	479910	C		2011-02-03	1996-07-31	
+S000028632	ORF	Uncharacterized	YGL007C-A			chromosome 7		7	483027	482941	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; deletion exhibits slow-growth phenotype; computationally predicted to have a role in cell budding
+S000032388	CDS					YGL007C-A		7	483027	482941	C		2011-02-03	2003-07-29	
+S000002975	ORF	Uncharacterized	YGL007W	BRP1		chromosome 7		7	483260	483637	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; located in the upstream region of PMA1; deletion leads to polyamine resistance due to downregulation of PMA1
+S000030678	CDS					YGL007W		7	483260	483637	W		2011-02-03	1996-07-31	
+S000118459	ARS		ARS719		ARSVII-485	chromosome 7		7	484930	485157			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000119025	ARS_consensus_sequence					ARS719		7	485110	485096	C		2011-02-03	2006-10-03	
+S000028769	ORF	Uncharacterized	YGL006W-A			chromosome 7		7	485423	485533	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by SAGE
+S000033473	CDS					YGL006W-A		7	485423	485533	W		2011-02-03	2003-07-29	
+S000002974	ORF	Verified	YGL006W	PMC1	calcium-transporting ATPase PMC1	chromosome 7	L000001451	7	485921	489442	W		2011-02-03	1996-07-31	Vacuolar Ca2+ ATPase involved in depleting cytosol of Ca2+ ions; prevents growth inhibition by activation of calcineurin in the presence of elevated concentrations of calcium; similar to mammalian PMCA1a
+S000030624	CDS					YGL006W		7	485921	489442	W		2011-02-03	1996-07-31	
+S000002973	ORF	Verified	YGL005C	COG7	Golgi transport complex subunit COG7|COD5	chromosome 7		7	490547	489708	C		2011-02-03	1996-07-31	Component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments
+S000030391	CDS					YGL005C		7	490547	489708	C		2011-02-03	1996-07-31	
+S000002972	ORF	Verified	YGL004C	RPN14		chromosome 7		7	491956	490703	C		2011-02-03	1996-07-31	Evolutionarily conserved 19S regulatory particle assembly-chaperone; proteasome-interacting protein involved in the assembly of the base subcomplex of the 19S proteasome regulatory particle (RP); null mutants accumulate ubiquitinated Gcn4p and display decreased 26S proteasome stability; interacts with Rpt5p
+S000037620	CDS					YGL004C		7	491956	490703	C		2011-02-03	1996-07-31	
+S000002971	ORF	Verified	YGL003C	CDH1	HCT1	chromosome 7	L000004229	7	494174	492474	C		2011-02-03	1996-07-31	Activator of anaphase-promoting complex/cyclosome (APC/C); antagonist of the spindle assembly checkpoint; directs ubiquitination of cyclins resulting in mitotic exit; targets the APC/C to specific substrates including: Cdc20p, Ase1p, Cin8p, Fin1p and Clb5p; partially active in metaphase, and fully active in anaphase; cell-cycle regulated
+S000037480	CDS					YGL003C		7	494174	492474	C		2011-02-03	1996-07-31	
+S000002970	ORF	Verified	YGL002W	ERP6		chromosome 7	L000004683	7	494517	495167	W		2011-02-03	1996-07-31	Member of the p24 family involved in ER to Golgi transport; similar to Emp24p and Erv25p; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; ERP6 has a paralog, ERP1, that arose from the whole genome duplication
+S000037443	CDS					YGL002W		7	494517	495167	W		2011-02-03	1996-07-31	
+S000002969	ORF	Verified	YGL001C	ERG26	sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating)	chromosome 7		7	496502	495453	C		2011-02-03	1996-07-31	C-3 sterol dehydrogenase; catalyzes the second of three steps required to remove two C-4 methyl groups from an intermediate in ergosterol biosynthesis; human homolog NSDHL implicated in CK syndrome, and can complement yeast null mutant; molecular target of natural product and antifungal compound FR171456
+S000036649	CDS					YGL001C		7	496502	495453	C		2011-02-03	1996-07-31	
+S000006468	centromere		CEN7	CEN7		chromosome 7	L000000300	7	497038	496920	C	0	2011-02-03	2000-05-19|2004-10-08|2006-05-09	Chromosome VII centromere
+S000077293	centromere_DNA_Element_I					CEN7		7	497038	497029	C		2011-02-03	2004-10-08	
+S000077294	centromere_DNA_Element_II					CEN7		7	497028	496945	C		2011-02-03	2004-10-08	
+S000077295	centromere_DNA_Element_III					CEN7		7	496944	496920	C		2011-02-03	2004-10-08	
+S000003233	ORF	Verified	YGR001C	EFM5	protein-lysine N-methyltransferase|AML1	chromosome 7		7	498034	497133	C		2011-02-03	2000-07-14|1996-07-31	S-adenosylmethionine-dependent lysine methyltransferase; involved in the trimethylation of eEF1A (Tef1p/Tef2p) at lysine 79; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; required for replication of Brome mosaic virus in budding yeast; expresses a circular RNA; originally misclassified as a N-6-adenine specific DNA methyltransferase based on sequence similarity; both Efm5p and human ortholog N6AMT2 can methylate eEF1a from either species in vitro
+S000032873	CDS					YGR001C		7	497365	497133	C		2011-02-03	1996-07-31	
+S000032872	CDS					YGR001C		7	497937	497459	C		2011-02-03	2000-07-14|1996-07-31	
+S000032871	CDS					YGR001C		7	498034	498000	C		2011-02-03	2000-07-14	
+S000032875	intron					YGR001C		7	497458	497366	C		2011-02-03	1996-07-31	
+S000032874	intron					YGR001C		7	497999	497938	C		2011-02-03	2000-07-14	
+S000003234	ORF	Verified	YGR002C	SWC4	GOD1|EAF2	chromosome 7		7	499906	498476	C		2011-02-03	1996-07-31	Component of the Swr1p complex that incorporates Htz1p into chromatin; component of the NuA4 histone acetyltransferase complex
+S000032986	CDS					YGR002C		7	499906	498476	C		2011-02-03	1996-07-31	
+S000003235	ORF	Verified	YGR003W	CUL3	cullin CUL3|CULLIN B|CULB	chromosome 7		7	500132	502366	W		2011-02-03	1996-07-31	Ubiquitin-protein ligase; forms a complex with Elc1p that polyubiquitylates monoubiquitylated RNA polymerase II to trigger its proteolysis; cullin family member with similarity to Cdc53p and human CUL3
+S000033740	CDS					YGR003W		7	500132	502366	W		2011-02-03	1996-07-31	
+S000003236	ORF	Verified	YGR004W	PEX31	peroxisome biogenesis protein	chromosome 7		7	502938	504326	W		2011-02-03	1996-07-31	Peroxisomal integral membrane protein; involved in negative regulation of peroxisome size; partially functionally redundant with Pex30p and Pex32p; probably acts at a step downstream of steps mediated by Pex28p and Pex29p; PEX31 has a paralog, PEX30, that arose from the whole genome duplication
+S000033874	CDS					YGR004W		7	502938	504326	W		2011-02-03	1996-07-31	
+S000003237	ORF	Verified	YGR005C	TFG2	transcription factor IIF subunit TFG2	chromosome 7	L000002633	7	505859	504657	C		2011-02-03	1996-07-31	TFIIF (Transcription Factor II) middle subunit; involved in both transcription initiation and elongation of RNA polymerase II; homologous to human RAP30
+S000033942	CDS					YGR005C		7	505859	504657	C		2011-02-03	1996-07-31	
+S000003238	ORF	Verified	YGR006W	PRP18	mRNA splicing protein PRP18	chromosome 7	L000001505	7	506070	506825	W		2011-02-03	2004-01-22|1996-07-31	Splicing factor and component of snRNP U5; factor involved in the positioning of the 3' splice site during the second catalytic step of splicing; interacts with Slu7p
+S000034938	CDS					YGR006W		7	506070	506825	W		2011-02-03	2004-01-22|1996-07-31	
+S000003239	ORF	Verified	YGR007W	ECT1	ethanolamine-phosphate cytidylyltransferase|MUQ1	chromosome 7	L000001218	7	506969	507940	W		2011-02-03	1996-07-31	Ethanolamine-phosphate cytidylyltransferase; catalyzes the second step of phosphatidylethanolamine biosynthesis; involved in the maintenance of plasma membrane; similar to mammalian CTP: phosphocholine cytidylyl-transferases; inability of the null mutant to synthesize phosphatidylethanolamine and phosphatidylcholine from ethanolamine is functionally complemented by human PCYT2
+S000035086	CDS					YGR007W		7	506969	507940	W		2011-02-03	1996-07-31	
+S000003240	ORF	Verified	YGR008C	STF2	ATPase-stabilizing factor family protein	chromosome 7	L000002127	7	508364	508110	C		2011-02-03	1996-07-31	Protein involved in resistance to desiccation stress; Stf2p exhibits antioxidant properties, and its overexpression prevents ROS accumulation and apoptosis; binds to F0 sector of mitochondrial F1F0 ATPase in vitro and may modulate the inhibitory action of Inh1p and Stf1p; protein abundance increases in response to DNA replication stress; STF2 has a paralog, TMA10, that arose from the whole genome duplication
+S000035152	CDS					YGR008C		7	508364	508110	C		2011-02-03	1996-07-31	
+S000118460	ARS		ARS720		ARSVII-509	chromosome 7		7	508729	508977			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178101	ARS_consensus_sequence					ARS720		7	508909	508893	C		2014-11-18	2014-11-18	
+S000003241	ORF	Verified	YGR009C	SEC9	HSS7	chromosome 7	L000001835	7	511002	509047	C		2011-02-03	1996-07-31	t-SNARE protein required for secretory vesicle-plasma membrane fusion; similar to but not functionally redundant with Spo20p; interacts non-exocyst bound Sec6p; SNAP-25 homolog
+S000035315	CDS					YGR009C		7	511002	509047	C		2011-02-03	1996-07-31	
+S000003242	ORF	Verified	YGR010W	NMA2	nicotinamide-nucleotide adenylyltransferase NMA2	chromosome 7		7	511545	512732	W		2011-02-03	1996-07-31	Nicotinic acid mononucleotide adenylyltransferase; catalyzes the transfer of the adenylyl moiety of ATP to nicotinamide mononucleotide to form NAD; involved in de novo and salvage synthesis of NAD(+); homolog of human NMNAT; NMA2 has a paralog, NMA1, that arose from the whole genome duplication
+S000037117	CDS					YGR010W		7	511545	512732	W		2011-02-03	1996-07-31	
+S000003243	ORF	Dubious	YGR011W			chromosome 7		7	512497	512823	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037223	CDS					YGR011W		7	512497	512823	W		2011-02-03	1996-07-31	
+S000003244	ORF	Verified	YGR012W	MCY1	putative cysteine synthase	chromosome 7		7	513159	514340	W		2011-02-03	1996-07-31	Putative cysteine synthase; localized to the mitochondrial outer membrane
+S000029879	CDS					YGR012W		7	513159	514340	W		2011-02-03	1996-07-31	
+S000003245	ORF	Verified	YGR013W	SNU71		chromosome 7	L000004363	7	514554	516416	W		2011-02-03	1996-07-31	Component of U1 snRNP required for mRNA splicing via spliceosome; yeast specific, no metazoan counterpart
+S000029977	CDS					YGR013W		7	514554	516416	W		2011-02-03	1996-07-31	
+S000003246	ORF	Verified	YGR014W	MSB2		chromosome 7	L000001185	7	516943	520863	W	2	2011-02-03	1996-07-31	Mucin family member involved in various signaling pathways; functions as osmosensor in the Sho1p-mediated HOG pathway; functions in Cdc42p- and MAP kinase-dependent filamentous growth signaling pathway; processed into secreted and cell-associated forms by aspartyl protease Yps1p; potential Cdc28p substrate
+S000030086	CDS					YGR014W		7	516943	520863	W		2011-02-03	1996-07-31	
+S000003247	ORF	Uncharacterized	YGR015C		putative hydrolase	chromosome 7		7	522076	521090	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion
+S000030196	CDS					YGR015C		7	522076	521090	C		2011-02-03	1996-07-31	
+S000003248	ORF	Uncharacterized	YGR016W			chromosome 7		7	522261	522833	W		2011-02-03	1996-07-31	Putative protein of unknown function
+S000031230	CDS					YGR016W		7	522261	522833	W		2011-02-03	1996-07-31	
+S000003249	ORF	Uncharacterized	YGR017W			chromosome 7		7	523787	524680	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the nucleus and the cytoplasm
+S000031323	CDS					YGR017W		7	523787	524680	W		2011-02-03	1996-07-31	
+S000003250	ORF	Uncharacterized	YGR018C			chromosome 7		7	524694	524365	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA identified as translated by ribosome profiling data; partially overlaps the uncharacterized ORF YGR017W
+S000031392	CDS					YGR018C		7	524694	524365	C		2011-02-03	1996-07-31	
+S000003251	ORF	Verified	YGR019W	UGA1	4-aminobutyrate transaminase	chromosome 7	L000002422	7	525229	526644	W		2011-02-03	1996-07-31	Gamma-aminobutyrate (GABA) transaminase; also known as 4-aminobutyrate aminotransferase; involved in the 4-aminobutyrate and glutamate degradation pathways; required for normal oxidative stress tolerance and nitrogen utilization; protein abundance increases in response to DNA replication stress
+S000032468	CDS					YGR019W		7	525229	526644	W		2011-02-03	1996-07-31	
+S000003252	ORF	Verified	YGR020C	VMA7	H(+)-transporting V1 sector ATPase subunit F	chromosome 7	L000002462	7	527329	526973	C		2011-02-03	1996-07-31	Subunit F of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; required for the V1 domain to assemble onto the vacuolar membrane; the V1 peripheral membrane domain of vacuolar H+-ATPase (V-ATPase) has eight subunits
+S000032415	CDS					YGR020C		7	527329	526973	C		2011-02-03	1996-07-31	
+S000003253	ORF	Uncharacterized	YGR021W		HAH1	chromosome 7		7	527632	528504	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000033286	CDS					YGR021W		7	527632	528504	W		2011-02-03	1996-07-31	
+S000003255	ORF	Verified	YGR023W	MTL1		chromosome 7	L000004649	7	529264	530919	W		2011-02-03	1996-07-31	Putative plasma membrane sensor; involved in cell integrity signaling and stress response during glucose starvation and oxidative stress; has structural and functional similarity to Mid2p; MTL1 has a paralog, MID2, that arose from the whole genome duplication
+S000034269	CDS					YGR023W		7	529264	530919	W		2011-02-03	1996-07-31	
+S000003254	ORF	Dubious	YGR022C			chromosome 7		7	529586	529257	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF MTL1/YGR023W
+S000033318	CDS					YGR022C		7	529586	529257	C		2011-02-03	1996-07-31	
+S000006532	tRNA_gene		tD(GUC)G1			chromosome 7	L000003826	7	531610	531681	W		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000036686	noncoding_exon					tD(GUC)G1		7	531610	531681	W		2011-02-03	2000-05-19	
+S000003256	ORF	Verified	YGR024C	THG1	tRNA guanylyltransferase	chromosome 7		7	532596	531883	C		2011-02-03	1996-07-31	tRNAHis guanylyltransferase; adds a guanosine residue to the 5' end of tRNAH is after transcription and RNase P cleavage; can also catalyze reverse (3'-5') polymerization with certain substrates in a template-dependent reaction; couples nuclear division and migration to cell budding and cytokinesis; essential enzyme conserved among eukaryotes
+S000034310	CDS					YGR024C		7	532596	531883	C		2011-02-03	1996-07-31	
+S000003257	ORF	Dubious	YGR025W			chromosome 7		7	532639	532941	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034440	CDS					YGR025W		7	532639	532941	W		2011-02-03	1996-07-31	
+S000003258	ORF	Uncharacterized	YGR026W			chromosome 7		7	532985	533821	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery
+S000034561	CDS					YGR026W		7	532985	533821	W		2011-02-03	1996-07-31	
+S000003259	ORF	Verified	YGR027C	RPS25A	eS25|ribosomal 40S subunit protein S25A|S25e|rp45|YS23|S31A|S25A|RPS31A	chromosome 7	L000003257	7	534458	534132	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S25, no bacterial homolog; RPS25A has a paralog, RPS25B, that arose from the whole genome duplication
+S000035521	CDS					YGR027C		7	534458	534132	C		2011-02-03	1996-07-31	
+S000122101	five_prime_UTR_intron					YGR027C		7	534785	534474	C		2011-02-03	2007-04-04	
+S000006965	long_terminal_repeat		YGRWdelta11			chromosome 7		7	535211	535542	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006952	long_terminal_repeat		YGRCdelta12			chromosome 7		7	535759	535607	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006966	long_terminal_repeat		YGRWdelta13			chromosome 7		7	535760	536097	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006982	LTR_retrotransposon		YGRWTy1-1		Ty1	chromosome 7		7	535760	541685	W		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007405	transposable_element_gene		YGR027W-A		gag protein	chromosome 7		7	536057	537379	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000036251	CDS					YGR027W-A		7	536057	537379	W		2011-02-03	1999-07-17	
+S000007406	transposable_element_gene		YGR027W-B		gag-pol fusion protein	chromosome 7	S000029013	7	536057	541325	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000036253	CDS					YGR027W-B		7	536057	537361	W		2011-02-03	1999-07-17	
+S000036254	CDS					YGR027W-B		7	537363	541325	W		2011-02-03	1999-07-17	
+S000036255	plus_1_translational_frameshift					YGR027W-B		7	537362	537362	W		2011-02-03	1999-07-17	
+S000006967	long_terminal_repeat		YGRWdelta14			chromosome 7		7	541348	541685	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006555	tRNA_gene		tE(UUC)G3			chromosome 7	L000003827	7	541850	541921	W		2011-02-03	2000-05-19	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p; target of K. lactis zymocin
+S000034674	noncoding_exon					tE(UUC)G3		7	541850	541921	W		2011-02-03	2000-05-19	
+S000003260	ORF	Verified	YGR028W	MSP1	YTA4	chromosome 7	L000001200|L000002558	7	542203	543291	W		2011-02-03	1996-07-31	Highly-conserved N-terminally anchored AAA-ATPase; distributed in the mitochondrial outer membrane and peroxisomes; involved in mitochondrial protein sorting; functions as an extraction engine in local organelle surveillance to remove and initiate degradation of mistargeted proteins, ensuring fidelity of organelle-specific localization of tail-anchored proteins; contains an N-terminal transmembrane domain and C-terminal cytoplasmic ATPase domain
+S000035635	CDS					YGR028W		7	542203	543291	W		2011-02-03	1996-07-31	
+S000003261	ORF	Verified	YGR029W	ERV1	flavin-linked sulfhydryl oxidase	chromosome 7	L000000583	7	543553	544205	W		2011-02-03	2000-07-14|1996-07-31	Flavin-linked sulfhydryl oxidase of the mitochondrial IMS; N-terminus is an intrinsically disordered domain that in the cytosol helps target Erv1p to mitochondria, and in the intermembrane space oxidizes Mia40p as part of a disulfide relay system that promotes intermembrane space retention of imported proteins; functional ortholog of human GFER (ALR); human GFER carrying N-terminal 21 amino acids of Erv1p functionally complements the lethality of the erv1 null mutation
+S000035763	CDS					YGR029W		7	543553	543638	W		2011-02-03	2000-07-14	
+S000035764	CDS					YGR029W		7	543722	544205	W		2011-02-03	2000-07-14|1996-07-31	
+S000035765	intron					YGR029W		7	543639	543721	W		2011-02-03	2000-07-14	
+S000006533	tRNA_gene		tD(GUC)G2			chromosome 7	L000003847	7	544648	544577	C		2011-02-03	2000-05-19	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000036692	noncoding_exon					tD(GUC)G2		7	544648	544577	C		2011-02-03	2000-05-19	
+S000006506	snoRNA_gene		snR46	SNR46		chromosome 7	L000003413	7	545370	545566	W		2011-02-03	2000-05-19|2007-05-08	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2865
+S000030619	noncoding_exon					snR46		7	545370	545566	W		2011-02-03	2000-05-19|2007-05-08	
+S000003262	ORF	Verified	YGR030C	POP6	ribonuclease P/MRP protein subunit POP6	chromosome 7	L000004302	7	546157	545681	C		2011-02-03	1996-07-31	Subunit of RNase MRP, nuclear RNase P and telomerase; forms a soluble heterodimer with Pop7p that binds P3 domain of RNase MRP and RNase P RNAs; RNase MRP cleaves pre-rRNA, nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs, while telomerase replenishes telomeric DNA; relocalizes to the cytosol in response to hypoxia
+S000035582	CDS					YGR030C		7	546157	545681	C		2011-02-03	1996-07-31	
+S000003263	ORF	Verified	YGR031W	IMO32		chromosome 7		7	546441	547469	W		2011-02-03	1996-07-31	Conserved mitochondrial protein of unknown function; processed by both mitochondrial processing peptidase and mitochondrial octapeptidyl aminopeptidase; gene contains the nested antisense gene NAG1
+S000036524	CDS					YGR031W		7	546441	547469	W		2011-02-03	1996-07-31	
+S000028636	ORF	Verified	YGR031C-A	NAG1		chromosome 7		7	547300	546809	C		2011-02-03	2003-07-29	Protein involved in yeast cell wall biogenesis; localizes to the cell periphery; production of Nag1p is dependent upon the presence of Slt2p and Rlm1p; gene is nested within and antisense to IMO32
+S000032392	CDS					YGR031C-A		7	547300	546809	C		2011-02-03	2003-07-29	
+S000003264	ORF	Verified	YGR032W	GSC2	1,3-beta-glucan synthase GSC2|FKS2	chromosome 7	L000000716|L000000733	7	548264	553951	W		2011-02-03	1996-07-31	Catalytic subunit of 1,3-beta-glucan synthase; involved in formation of the inner layer of the spore wall; activity positively regulated by Rho1p and negatively by Smk1p; GSC2 has a paralog, FKS1, that arose from the whole genome duplication
+S000036645	CDS					YGR032W		7	548264	553951	W		2011-02-03	1996-07-31	
+S000003265	ORF	Verified	YGR033C	TIM21	FMP17	chromosome 7		7	554967	554248	C		2011-02-03	1996-07-31	Nonessential component of the TIM23 complex; interacts with the Translocase of the Outer Mitochondrial membrane (TOM complex) and with respiratory enzymes; may regulate the Translocase of the Inner Mitochondrial membrane (TIM23 complex) activity
+S000036681	CDS					YGR033C		7	554967	554248	C		2011-02-03	1996-07-31	
+S000003266	ORF	Verified	YGR034W	RPL26B	uL24|ribosomal 60S subunit protein L26B|L24|YL33|L33B|L26B	chromosome 7	L000004462	7	555812	556672	W		2011-02-03	1996-07-31|2006-10-05	Ribosomal 60S subunit protein L26B; binds to 5.8S rRNA; non-essential even when paralog is also deleted; deletion has minimal affections on ribosome biosynthesis; homologous to mammalian ribosomal protein L26 and bacterial L24; RPL26B has a paralog, RPL26A, that arose from the whole genome duplication
+S000037472	CDS					YGR034W		7	555812	555830	W		2011-02-03	1996-07-31|2006-10-05	
+S000037473	CDS					YGR034W		7	556308	556672	W		2011-02-03	1996-07-31	
+S000037474	intron					YGR034W		7	555831	556307	W		2011-02-03	1996-07-31|2006-10-05	
+S000003267	ORF	Uncharacterized	YGR035C			chromosome 7		7	557422	557072	C		2011-02-03	1996-07-31	Putative protein of unknown function, potential Cdc28p substrate; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance; YGR035C has a paralog, YLR346C, that arose from the whole genome duplication
+S000037516	CDS					YGR035C		7	557422	557072	C		2011-02-03	1996-07-31	
+S000028827	ORF	Uncharacterized	YGR035W-A			chromosome 7		7	557565	557786	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000033652	CDS					YGR035W-A		7	557565	557786	W		2011-02-03	2003-07-29	
+S000003268	ORF	Verified	YGR036C	CAX4	CWH8	chromosome 7	L000002917	7	558868	558149	C		2011-02-03	1996-07-31	Dolichyl pyrophosphate (Dol-P-P) phosphatase; has a luminally oriented active site in the ER; cleaves the anhydride linkage in Dol-P-P; required for Dol-P-P-linked oligosaccharide intermediate synthesis and protein N-glycosylation
+S000037649	CDS					YGR036C		7	558868	558149	C		2011-02-03	1996-07-31	
+S000003269	ORF	Verified	YGR037C	ACB1	long-chain fatty acid transporter ACB1	chromosome 7	L000000016	7	559994	559731	C		2011-02-03	1996-07-31	Acyl-CoA-binding protein; transports newly synthesized acyl-CoA esters from fatty acid synthetase (Fas1p-Fas2p) to acyl-CoA-consuming processes; subject to starvation-induced, Grh1p-mediated unconventional secretion; protein abundance increases in response to DNA replication stress
+S000030442	CDS					YGR037C		7	559994	559731	C		2011-02-03	1996-07-31	
+S000003270	ORF	Verified	YGR038W	ORM1	sphingolipid homeostasis protein ORM1	chromosome 7	L000003422	7	560682	561350	W		2011-02-03	1996-07-31	Protein that mediates sphingolipid homeostasis; evolutionarily conserved, required for resistance to agents that induce unfolded protein response; Orm1p and Orm2p together control membrane biogenesis by coordinating lipid homeostasis with protein quality control; ORM1 has a paralog, ORM2, that arose from the whole genome duplication
+S000030632	CDS					YGR038W		7	560682	561350	W		2011-02-03	1996-07-31	
+S000006725	tRNA_gene		tS(AGA)G			chromosome 7	L000003846	7	561743	561662	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000032368	noncoding_exon					tS(AGA)G		7	561743	561662	C		2011-02-03	2000-05-19	
+S000006953	long_terminal_repeat		YGRCdelta15			chromosome 7		7	562176	561843	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007408	transposable_element_gene		YGR038C-B		gag-pol fusion protein	chromosome 7		7	567467	562199	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000031864	CDS					YGR038C-B		7	566161	562199	C		2011-02-03	1999-07-17	
+S000031863	CDS					YGR038C-B		7	567467	566163	C		2011-02-03	1999-07-17	
+S000031865	plus_1_translational_frameshift					YGR038C-B		7	566162	566162	C		2011-02-03	1999-07-17	
+S000007407	transposable_element_gene		YGR038C-A		gag protein	chromosome 7		7	567467	566145	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000031828	CDS					YGR038C-A		7	567467	566145	C		2011-02-03	1999-07-17	
+S000006962	LTR_retrotransposon		YGRCTy1-2		Ty1	chromosome 7		7	567760	561843	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000006954	long_terminal_repeat		YGRCdelta16			chromosome 7		7	567760	567427	C		2011-02-03	2000-05-19	Ty1 LTR
+S000118461	ARS		ARS721		ARSVII-569	chromosome 7		7	568490	568737			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000119026	ARS_consensus_sequence					ARS721		7	568660	568646	C		2011-02-03	2006-10-03	
+S000006955	long_terminal_repeat		YGRCdelta17			chromosome 7		7	569072	568740	C		2011-02-03	2000-05-19	Ty2 LTR
+S000118462	ARS		ARS722		ARSVII-575	chromosome 7		7	574622	574915			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178102	ARS_consensus_sequence					ARS722		7	574701	574717	W		2014-11-18	2014-11-18	
+S000006964	LTR_retrotransposon		YGRCTy2-1		Ty2	chromosome 7		7	574700	568740	C		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; mutated in S288C
+S000006956	long_terminal_repeat		YGRCdelta18			chromosome 7		7	574700	574369	C		2011-02-03	2000-05-19	Ty2 LTR
+S000003271	ORF	Uncharacterized	YGR039W			chromosome 7		7	574888	575199	W		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YGR039W is not an essential gene
+S000030717	CDS					YGR039W		7	574888	575199	W		2011-02-03	1996-07-31	
+S000003272	ORF	Verified	YGR040W	KSS1	mitogen-activated serine/threonine-protein kinase KSS1	chromosome 7	L000000922	7	575398	576504	W		2011-02-03	1996-07-31	Mitogen-activated protein kinase (MAPK); involved in signal transduction pathways that control filamentous growth and pheromone response; regulates septum assembly, and may directly phosphorylate Bni4p; the KSS1 gene is nonfunctional in S288C strains and functional in W303 strains
+S000031506	CDS					YGR040W		7	575398	576504	W		2011-02-03	1996-07-31	
+S000130166	ARS		ARS723			chromosome 7		7	575484	576346			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000003273	ORF	Verified	YGR041W	BUD9		chromosome 7	L000003939	7	577487	579130	W		2011-02-03	1996-07-31	Protein involved in bud-site selection; mutant has increased aneuploidy tolerance; diploid mutants display a unipolar budding pattern instead of the wild-type bipolar pattern, and bud at the distal pole; BUD9 has a paralog, BUD8, that arose from the whole genome duplication
+S000031558	CDS					YGR041W		7	577487	579130	W		2011-02-03	1996-07-31	
+S000003274	ORF	Verified	YGR042W	MTE1		chromosome 7		7	579476	580291	W		2011-02-03	1996-07-31	Protein of unknown function; involved in maintenance of proper telomere length; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus; forms nuclear foci upon DNA replication stress
+S000032536	CDS					YGR042W		7	579476	580291	W		2011-02-03	1996-07-31	
+S000003275	ORF	Verified	YGR043C	NQM1	sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate transaldolase NQM1	chromosome 7		7	581436	580435	C		2011-02-03	1996-07-31	Transaldolase of unknown function; transcription is repressed by Mot1p and induced by alpha-factor and during diauxic shift; NQM1 has a paralog, TAL1, that arose from the whole genome duplication
+S000032607	CDS					YGR043C		7	581436	580435	C		2011-02-03	1996-07-31	
+S000130167	ARS		ARS724			chromosome 7		7	581436	582213			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000003276	ORF	Verified	YGR044C	RME1	CSP1	chromosome 7	L000001648	7	583892	582990	C	14	2011-02-03	1996-07-31	Zinc finger protein involved in control of meiosis; prevents meiosis by repressing IME1 expression and promotes mitosis by activating CLN2 expression; directly repressed by a1-alpha2 regulator; mediates cell type control of sporulation; relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000032718	CDS					YGR044C		7	583892	582990	C		2011-02-03	1996-07-31	
+S000003277	ORF	Dubious	YGR045C			chromosome 7		7	584296	583934	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032825	CDS					YGR045C		7	584296	583934	C		2011-02-03	1996-07-31	
+S000003278	ORF	Verified	YGR046W	TAM41	putative phosphatidate cytidylyltransferase|MMP37	chromosome 7		7	584895	586052	W		2011-02-03	1996-07-31	Mitochondrial phosphatidate cytidylyltransferase (CDP-DAG synthase); required for cardiolipin biosynthesis; viability of null mutant is strain-dependent; mRNA is targeted to the bud; mutant displays defect in mitochondrial protein import, likely due to altered membrane lipid composition
+S000033590	CDS					YGR046W		7	584895	586052	W		2011-02-03	1996-07-31	
+S000003279	ORF	Verified	YGR047C	TFC4	transcription factor TFIIIC subunit TFC4|tau 131|PCF1	chromosome 7	L000001348|L000002288	7	589469	586392	C		2011-02-03	1996-07-31	Subunit of RNA polymerase III transcription initiation factor complex; one of six subunits of RNA polymerase III transcription initiation factor complex (TFIIIC); part of the TauA domain of TFIIIC that binds BoxA DNA promoter sites of tRNA and similar genes; has TPR motifs; human homolog is TFIIIC-102
+S000033631	CDS					YGR047C		7	589469	586392	C		2011-02-03	1996-07-31	
+S000003280	ORF	Verified	YGR048W	UFD1	polyubiquitin-binding protein UFD1	chromosome 7	L000002787	7	589826	590911	W		2011-02-03	1996-07-31	Substrate-recruiting cofactor of the Cdc48p-Npl4p-Ufd1p segregase; polyubiquitin binding protein that assists in the dislocation of misfolded, ERAD substrates that are subsequently delivered to the proteasome for degradation; involved in regulated destruction of ER membrane proteins such as HMG-CoA reductase (Hmg1/2p) and cytoplasmic proteins (Fbp1p); involved in mobilizing membrane bound transcription factors by regulated Ub/proteasome-dependent processing (RUP)
+S000033814	CDS					YGR048W		7	589826	590911	W		2011-02-03	1996-07-31	
+S000003281	ORF	Verified	YGR049W	SCM4		chromosome 7	L000001814	7	591314	591877	W		2011-02-03	1996-07-31	Mitochondrial outer membrane protein of unknown function; predicted to have 4 transmembrane segments; import is mediated by Tom70p and Mim1p; interacts genetically with a cdc4 mutation; SCM4 has a paralog, ATG33, that arose from the whole genome duplication
+S000034690	CDS					YGR049W		7	591314	591877	W		2011-02-03	1996-07-31	
+S000003282	ORF	Uncharacterized	YGR050C			chromosome 7		7	592442	592086	C		2011-02-03	1996-07-31	Protein of unknown function; mRNA identified as translated by ribosome profiling data
+S000035714	CDS					YGR050C		7	592442	592086	C		2011-02-03	1996-07-31	
+S000003283	ORF	Dubious	YGR051C			chromosome 7		7	593229	592906	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YGR051C is not an essential gene
+S000035801	CDS					YGR051C		7	593229	592906	C		2011-02-03	1996-07-31	
+S000003284	ORF	Uncharacterized	YGR052W	FMP48	protein kinase FMP48	chromosome 7		7	593596	594705	W		2011-02-03	1996-07-31	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; induced by treatment with 8-methoxypsoralen and UVA irradiation
+S000036785	CDS					YGR052W		7	593596	594705	W		2011-02-03	1996-07-31	
+S000003285	ORF	Uncharacterized	YGR053C			chromosome 7		7	595837	594986	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000036816	CDS					YGR053C		7	595837	594986	C		2011-02-03	1996-07-31	
+S000003286	ORF	Verified	YGR054W			chromosome 7		7	596693	598621	W		2011-02-03	1996-07-31|2011-02-03	Eukaryotic initiation factor eIF2A; associates specifically with both 40S subunits and 80 S ribosomes, and interacts genetically with both eIF5b and eIF4E; homologous to mammalian eIF2A
+S000036916	CDS					YGR054W		7	596693	598621	W		2011-02-03	1996-07-31|2011-02-03	
+S000003287	ORF	Verified	YGR055W	MUP1		chromosome 7	L000003071	7	599417	601141	W		2011-02-03	1996-07-31	High affinity methionine permease; integral membrane protein with 13 putative membrane-spanning regions; also involved in cysteine uptake
+S000036973	CDS					YGR055W		7	599417	601141	W		2011-02-03	1996-07-31	
+S000003288	ORF	Verified	YGR056W	RSC1	RSC subunit protein RSC1	chromosome 7	L000004024	7	601661	604447	W		2011-02-03	1996-07-31	Component of the RSC chromatin remodeling complex; required for expression of mid-late sporulation-specific genes; contains two essential bromodomains, a bromo-adjacent homology (BAH) domain, and an AT hook; RSC1 has a paralog, RSC2, that arose from the whole genome duplication
+S000037741	CDS					YGR056W		7	601661	604447	W		2011-02-03	1996-07-31	
+S000003289	ORF	Verified	YGR057C	LST7		chromosome 7	L000004355	7	605501	604773	C		2011-02-03	2003-09-22|1996-07-31	Subunit of the Lst4p-Lst7p GTPase activating protein complex for Gtr2p; stimulates the GTPase activity of Rag family GTPase Gtr2p, within the context of the Gtr1p-Gtr2p heterodimer, after amino acid stimulation; required for activation of TORC1 in response to amino acid stimulation; recruited to the vacuolar membrane during amino acid starvation and released from the membrane by TORC1; required for the transport of amino acid permease Gap1p from the Golgi to the cell surface
+S000037768	CDS					YGR057C		7	605501	604773	C		2011-02-03	2003-09-22|1996-07-31	
+S000003290	ORF	Verified	YGR058W	PEF1		chromosome 7		7	606136	607143	W		2011-02-03	1996-07-31|2011-02-03	Penta-EF-hand protein; required for polar bud growth and cell wall abscission; binds calcium and zinc with different affinity; localizes to bud site in G1, bud neck in G2; binds to Sec31p and modulates COPII coat assembly
+S000029835	CDS					YGR058W		7	606136	607143	W		2011-02-03	1996-07-31|2011-02-03	
+S000003291	ORF	Verified	YGR059W	SPR3	septin SPR3	chromosome 7	L000002022	7	607563	609101	W		2011-02-03	1996-07-31	Sporulation-specific homolog of the CDC3/10/11/12 family of genes; septin protein involved in sporulation; regulated by ABFI; the yeast CDC3/10/11/12 family is a family of bud neck microfilament genes
+S000030838	CDS					YGR059W		7	607563	609101	W		2011-02-03	1996-07-31	
+S000006440	snoRNA_gene		snR48	SNR48		chromosome 7	L000004518	7	609584	609696	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at positions G2791 and G2793
+S000030651	noncoding_exon					snR48		7	609584	609696	W		2011-02-03	2000-05-19	
+S000003292	ORF	Verified	YGR060W	ERG25	methylsterol monooxygenase	chromosome 7	L000003089	7	610564	611493	W		2011-02-03	1996-07-31	C-4 methyl sterol oxidase; catalyzes the first of three steps required to remove two C-4 methyl groups from an intermediate in ergosterol biosynthesis; mutants accumulate the sterol intermediate 4,4-dimethylzymosterol; human MSMO1 functionally complements the growth defect caused by repression of ERG25 expression
+S000031788	CDS					YGR060W		7	610564	611493	W		2011-02-03	1996-07-31	
+S000003293	ORF	Verified	YGR061C	ADE6	phosphoribosylformylglycinamidine synthase	chromosome 7	L000000036	7	615965	611889	C	39	2011-02-03	1996-07-31	Formylglycinamidine-ribonucleotide (FGAM)-synthetase; catalyzes a step in the 'de novo' purine nucleotide biosynthetic pathway
+S000031938	CDS					YGR061C		7	615965	611889	C		2011-02-03	1996-07-31	
+S000003294	ORF	Verified	YGR062C	COX18	membrane insertase COX18|OXA2	chromosome 7	L000003308	7	617278	616328	C		2011-02-03	1996-07-31	Protein required for membrane insertion of C-terminus of Cox2p; mitochondrial integral inner membrane protein; interacts genetically and physically with Mss2p and Pnt1p; similar to S. cerevisiae Oxa1, N. crassa Oxa2p, and E. coli YidC; respiratory defect of the null mutant is functionally complemented by human COX18 carrying the N-terminal 54 amino acids of S. cerevisiae Cox18p
+S000032054	CDS					YGR062C		7	617278	616328	C		2011-02-03	1996-07-31	
+S000003296	ORF	Dubious	YGR064W			chromosome 7		7	617621	617989	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SPT4/YGR063C
+S000033116	CDS					YGR064W		7	617621	617989	W		2011-02-03	1996-07-31	
+S000003295	ORF	Verified	YGR063C	SPT4	transcription elongation factor SPT4	chromosome 7	L000002030	7	617824	617516	C	40	2011-02-03	1996-07-31	Spt4p/5p (DSIF) transcription elongation factor complex subunit; the Spt4/5 complex binds to ssRNA in a sequence-specific manner, and along with RNAP I and II has multiple roles regulating transcriptional elongation, RNA processing, quality control, and transcription-coupled repair; localizes to kinetochores and heterochromatin, influencing chromosomal dynamics and silencing; required for transcription through long trinucleotide repeats in ORFs and non-protein coding regions
+S000032968	CDS					YGR063C		7	617824	617516	C		2011-02-03	1996-07-31	
+S000003297	ORF	Verified	YGR065C	VHT1		chromosome 7	S000007487	7	619858	618077	C		2011-02-03	1996-07-31	High-affinity plasma membrane H+-biotin (vitamin H) symporter; mutation results in fatty acid auxotrophy; 12 transmembrane domain containing major facilitator subfamily member; mRNA levels negatively regulated by iron deprivation and biotin
+S000033152	CDS					YGR065C		7	619858	618077	C		2011-02-03	1996-07-31	
+S000003298	ORF	Uncharacterized	YGR066C			chromosome 7		7	621799	620921	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000033915	CDS					YGR066C		7	621799	620921	C		2011-02-03	1996-07-31	
+S000003299	ORF	Uncharacterized	YGR067C			chromosome 7		7	624786	622372	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; contains a zinc finger motif similar to that of Adr1p
+S000034061	CDS					YGR067C		7	624786	622372	C		2011-02-03	1996-07-31|2011-02-03	
+S000028637	ORF	Dubious	YGR068W-A			chromosome 7		7	626294	626389	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps with the uncharacterized ORF YGR068C
+S000032393	CDS					YGR068W-A		7	626294	626389	W		2011-02-03	2003-07-29	
+S000003301	ORF	Dubious	YGR069W			chromosome 7		7	627083	627418	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035169	CDS					YGR069W		7	627083	627418	W		2011-02-03	1996-07-31	
+S000003300	ORF	Verified	YGR068C	ART5		chromosome 7		7	627084	625324	C		2011-02-03	1996-07-31	Protein proposed to regulate endocytosis of plasma membrane proteins; regulates by recruiting the ubiquitin ligase Rsp5p to its target in the plasma membrane; SWAT-GFP and mCherry fusion proteins localize to the cytosol
+S000034144	CDS					YGR068C		7	627084	625324	C		2011-02-03	1996-07-31	
+S000003302	ORF	Verified	YGR070W	ROM1	Rho family guanine nucleotide exchange factor ROM1|SKC1	chromosome 7	L000003181	7	627806	631273	W		2011-02-03	1996-07-31|2011-02-03	Guanine nucleotide exchange factor (GEF) for Rho1p; mutations are synthetically lethal with mutations in rom2, which also encodes a GEP; ROM1 has a paralog, ROM2, that arose from the whole genome duplication
+S000036051	CDS					YGR070W		7	627806	631273	W		2011-02-03	1996-07-31|2011-02-03	
+S000003303	ORF	Verified	YGR071C	ENV11		chromosome 7		7	634063	631481	C		2011-02-03	1996-07-31	Protein proposed to be involved in vacuolar functions; mutant shows defect in CPY processing and fragmented vacuoles; deletion mutant has increased glycogen accumulation and displays elongated buds; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; ENV11 has a paralog, VID22, that arose from the whole genome duplication
+S000036097	CDS					YGR071C		7	634063	631481	C		2011-02-03	1996-07-31	
+S000003304	ORF	Verified	YGR072W	UPF3	SUP112|SUA6	chromosome 7	L000003057|S000029549|L000002231	7	634304	635467	W	32	2011-02-03	1996-07-31	Component of the nonsense-mediated mRNA decay (NMD) pathway; along with Nam7p and Nmd2p; involved in decay of mRNA containing nonsense codons; involved in telomere maintenance
+S000029860	CDS					YGR072W		7	634304	635467	W		2011-02-03	1996-07-31	
+S000003306	ORF	Verified	YGR074W	SMD1	mRNA splicing protein SMD1|SPP92	chromosome 7	L000001928	7	635712	636152	W		2011-02-03	1996-07-31	Core Sm protein Sm D1; part of heteroheptameric complex (with Smb1p, Smd2p, Smd3p, Sme1p, Smx3p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; relocalizes to the cytosol in response to hypoxia; homolog of human Sm D1; protein abundance increases in response to DNA replication stress
+S000031921	CDS					YGR074W		7	635712	636152	W		2011-02-03	1996-07-31	
+S000003305	ORF	Dubious	YGR073C			chromosome 7		7	635986	635615	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; extensively overlaps essential SMD1 gene encoding a U6 snRNP protein
+S000031714	CDS					YGR073C		7	635986	635615	C		2011-02-03	1996-07-31	
+S000003307	ORF	Verified	YGR075C	PRP38	U4/U6-U5 snRNP complex subunit PRP38	chromosome 7	L000001510	7	636875	636147	C		2011-02-03	1996-07-31	Unique component of the U4/U6.U5 tri-snRNP particle; tri-snRNP is required for conformational changes which result in the catalytic activation of the spliceosome; dispensable for spliceosome assembly
+S000031968	CDS					YGR075C		7	636875	636147	C		2011-02-03	1996-07-31	
+S000003308	ORF	Verified	YGR076C	MRPL25	mitochondrial 54S ribosomal protein YmL25|AFO1|YmL25|YMR26	chromosome 7	L000002532	7	637577	637104	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit; mutation confers increased replicative lifespan
+S000037456	CDS					YGR076C		7	637577	637104	C		2011-02-03	1996-07-31	
+S000003309	ORF	Verified	YGR077C	PEX8	PAS6	chromosome 7	L000004222|L000003962	7	639513	637744	C		2011-02-03	1996-07-31	Intraperoxisomal organizer of the peroxisomal import machinery; organizes the formation of the importomer complex, bridging the docking complex with the RING finger complex; tightly associated with the lumenal face of the peroxisomal membrane; essential for peroxisome biogenesis; binds PTS1-signal receptor Pex5p, and PTS2-signal receptor Pex7p
+S000037552	CDS					YGR077C		7	639513	637744	C		2011-02-03	1996-07-31	
+S000003310	ORF	Verified	YGR078C	PAC10	tubulin-binding prefolding complex subunit PAC10|RKS2|PFD3|GIM2	chromosome 7	L000002864	7	640371	639772	C		2011-02-03	1996-07-31	Part of the heteromeric co-chaperone GimC/prefoldin complex; complex promotes efficient protein folding
+S000037609	CDS					YGR078C		7	640371	639772	C		2011-02-03	1996-07-31	
+S000003311	ORF	Uncharacterized	YGR079W			chromosome 7		7	640720	641832	W		2011-02-03	1996-07-31	Putative protein of unknown function; YGR079W is not an essential gene
+S000030491	CDS					YGR079W		7	640720	641832	W		2011-02-03	1996-07-31	
+S000003312	ORF	Verified	YGR080W	TWF1		chromosome 7	L000004372	7	642010	643008	W		2011-02-03	1996-07-31	Twinfilin; highly conserved actin monomer-sequestering protein involved in regulation of the cortical actin cytoskeleton; coordinates actin filament severing and monomer sequestering at sites of rapid actin turnover; composed of two cofilin-like regions, stimulates actin depolymerization as does the mouse homolog, mTwf1
+S000037367	CDS					YGR080W		7	642010	643008	W		2011-02-03	1996-07-31	
+S000003313	ORF	Verified	YGR081C	SLX9		chromosome 7		7	643780	643148	C		2011-02-03	1996-07-31	Protein required for pre-rRNA processing; associated with the 90S pre-ribosome and 43S small ribosomal subunit precursor; interacts with U3 snoRNA; deletion mutant has synthetic fitness defect with an sgs1 deletion mutant
+S000037394	CDS					YGR081C		7	643780	643148	C		2011-02-03	1996-07-31	
+S000003314	ORF	Verified	YGR082W	TOM20	MOM19|MAS20	chromosome 7	L000001029	7	644044	644595	W		2011-02-03	1996-07-31	Component of the TOM (translocase of outer membrane) complex; responsible for recognition and initial import steps for all mitochondrially directed proteins; acts as a receptor for incoming precursor proteins
+S000030069	CDS					YGR082W		7	644044	644595	W		2011-02-03	1996-07-31	
+S000003315	ORF	Verified	YGR083C	GCD2	translation initiation factor eIF2B subunit delta|GCD12	chromosome 7	L000000671	7	646815	644860	C	54	2011-02-03	1996-07-31	Delta subunit of the translation initiation factor eIF2B; the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression
+S000030132	CDS					YGR083C		7	646815	644860	C		2011-02-03	1996-07-31	
+S000003316	ORF	Verified	YGR084C	MRP13	mitochondrial 37S ribosomal protein YmS-A	chromosome 7	L000001142|L000001157	7	648142	647123	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000030307	CDS					YGR084C		7	648142	647123	C		2011-02-03	1996-07-31	
+S000003317	ORF	Verified	YGR085C	RPL11B	uL5|ribosomal 60S subunit protein L11B|rp39B|YL22|L5|L16A|L11B	chromosome 7	L000001730|L000001713	7	648907	648383	C	56	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L11B; expressed at half the level of Rpl11Ap; involved in ribosomal assembly; depletion causes degradation of 60S proteins and RNA; homologous to mammalian ribosomal protein L11 and bacterial L5; RPL11B has a paralog, RPL11A, that arose from the whole genome duplication
+S000033620	CDS					YGR085C		7	648907	648383	C		2011-02-03	1996-07-31	
+S000003318	ORF	Verified	YGR086C	PIL1	lipid-binding protein PIL1	chromosome 7		7	650617	649598	C		2011-02-03	1996-07-31	Eisosome core component; eisosomes are large immobile cell cortex structures associated with endocytosis; detected in phosphorylated state in mitochondria; phosphorylated on Thr233 upon Pkc1p hyperactivation in a Slt2p MAPK-dependent fashion; null mutant shows activation of Pkc1p/Ypk1p stress resistance pathways; member of BAR domain family; protein increases in abundance and relocalizes from plasma membrane to cytoplasm upon DNA replication stress
+S000033727	CDS					YGR086C		7	650617	649598	C		2011-02-03	1996-07-31	
+S000003319	ORF	Verified	YGR087C	PDC6	indolepyruvate decarboxylase 6	chromosome 7	L000001357	7	652981	651290	C		2011-02-03	1996-07-31	Minor isoform of pyruvate decarboxylase; decarboxylates pyruvate to acetaldehyde, involved in amino acid catabolism; transcription is glucose- and ethanol-dependent, and is strongly induced during sulfur limitation
+S000033866	CDS					YGR087C		7	652981	651290	C		2011-02-03	1996-07-31	
+S000003320	ORF	Verified	YGR088W	CTT1	catalase T|SPS101	chromosome 7	L000000435	7	654634	656322	W		2011-02-03	1996-07-31|2006-01-23	Cytosolic catalase T; has a role in protection from oxidative damage by hydrogen peroxide
+S000034811	CDS					YGR088W		7	654634	656322	W		2011-02-03	1996-07-31|2006-01-23	
+S000003321	ORF	Verified	YGR089W	NNF2		chromosome 7		7	656960	659770	W		2011-02-03	1996-07-31	Protein that exhibits physical and genetic interactions with Rpb8p; Rpb8p is a subunit of RNA polymerases I, II, and III; computational analysis of large-scale protein-protein interaction data suggests a role in chromosome segregation
+S000034943	CDS					YGR089W		7	656960	659770	W		2011-02-03	1996-07-31	
+S000118463	ARS		ARS727		ARSVII-660	chromosome 7		7	659907	660002			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000119027	ARS_consensus_sequence					ARS727		7	660000	659986	C		2011-02-03	2006-10-03	
+S000006749	tRNA_gene		tT(UGU)G1			chromosome 7	L000003828	7	661749	661820	W		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000030910	noncoding_exon					tT(UGU)G1		7	661749	661820	W		2011-02-03	2000-05-19	
+S000003322	ORF	Verified	YGR090W	UTP22	rRNA-processing protein UTP22	chromosome 7		7	662358	666071	W		2011-02-03	1996-07-31	Component of the small-subunit processome; required for nuclear export of tRNAs; may facilitate binding of Utp8p to aminoacylated tRNAs and their delivery to Los1p for export; conserved from yeast to mammals
+S000033602	CDS					YGR090W		7	662358	666071	W		2011-02-03	1996-07-31	
+S000003323	ORF	Verified	YGR091W	PRP31	U4/U6-U5 snRNP complex subunit PRP31	chromosome 7	L000002947	7	666341	667825	W		2011-02-03	1996-07-31	Splicing factor; component of the U4/U6-U5 snRNP complex
+S000034543	CDS					YGR091W		7	666341	667825	W		2011-02-03	1996-07-31	
+S000003324	ORF	Verified	YGR092W	DBF2	serine/threonine-protein kinase DBF2	chromosome 7	L000000487	7	668189	669907	W	28	2011-02-03	1996-07-31	Ser/Thr kinase involved in transcription and stress response; functions as part of a network of genes in exit from mitosis; localization is cell cycle regulated; activated by Cdc15p during the exit from mitosis; also plays a role in regulating the stability of SWI5 and CLB2 mRNAs; phosphorylates Chs2p to regulate primary septum formation and Hof1p to regulate cytokinesis; DBF2 has a paralog, DBF20, that arose from the whole genome duplication
+S000034610	CDS					YGR092W		7	668189	669907	W		2011-02-03	1996-07-31	
+S000003325	ORF	Verified	YGR093W	DRN1		chromosome 7		7	670388	671911	W		2011-02-03	1996-07-31	Splicing factor that modulates turnover of branched RNAs by Dbr1p; interacts with spliceosomal components and branched RNA splicing products; enhances Dbr1p debranching in vitro; conserved protein with domain organization identical from yeast to human; N-terminal homology to Dbr1p N-terminus, but Dbr1p catalytic residues not conserved; relocalizes to the cytosol in response to hypoxia
+S000034725	CDS					YGR093W		7	670388	671911	W		2011-02-03	1996-07-31	
+S000003326	ORF	Verified	YGR094W	VAS1	valine--tRNA ligase	chromosome 7	L000002457	7	672186	675500	W		2011-02-03	1996-07-31	Mitochondrial and cytoplasmic valyl-tRNA synthetase; human homolog VARS2 implicated in mitochondrial diseases, can partially complement yeast null mutant
+S000035718	CDS					YGR094W		7	672186	675500	W		2011-02-03	1996-07-31	
+S000003327	ORF	Verified	YGR095C	RRP46	exosome non-catalytic core subunit RRP46	chromosome 7	L000004579	7	676342	675671	C		2011-02-03	2003-09-22|1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp46p (EXOSC5)
+S000035767	CDS					YGR095C		7	676342	675671	C		2011-02-03	2003-09-22|1996-07-31	
+S000003328	ORF	Verified	YGR096W	TPC1	thiamine transporter TPC1	chromosome 7		7	676621	677565	W		2011-02-03	1996-07-31	Mitochondrial membrane transporter; mediates uptake of the essential cofactor thiamine pyrophosphate (ThPP) into mitochondria; expression appears to be regulated by carbon source; member of the mitochondrial carrier family
+S000035962	CDS					YGR096W		7	676621	677565	W		2011-02-03	1996-07-31	
+S000003329	ORF	Verified	YGR097W	ASK10	RGC2	chromosome 7	L000002770	7	678695	682135	W		2011-02-03	1996-07-31	Regulator of the Fps1p glycerol channel; under nonstress conditions, binds to Fps1p to positively regulate glycerol transport; under osmotic stress, multiple phosphorylation by Hog1p causes Ask10p to dissociate from Fps1p; forms homodimers and heterodimerizes with paralog Rgc1p; phosphorylated in response to oxidative stress; has a role in destruction of Ssn8p; associates with RNA polymerase II holoenzyme
+S000037821	CDS					YGR097W		7	678695	682135	W		2011-02-03	1996-07-31	
+S000003330	ORF	Verified	YGR098C	ESP1	separase	chromosome 7	L000000584	7	687458	682566	C	60	2011-02-03	1996-07-31	Separase, a caspase-like cysteine protease; promotes sister chromatid separation by mediating dissociation of the cohesin Scc1p from chromatin; inhibits protein phosphatase 2A-Cdc55p to promote mitotic exit; inhibited by Pds1p; relative distribution to the nucleus increases upon DNA replication stress
+S000037871	CDS					YGR098C		7	687458	682566	C		2011-02-03	1996-07-31	
+S000003331	ORF	Verified	YGR099W	TEL2		chromosome 7	L000002913	7	687899	689965	W		2011-02-03	1996-07-31	Subunit of the ASTRA complex, involved in chromatin remodeling; subunit of the telomere cap complex DNA-binding protein specific to single-stranded yeast telomeric DNA repeats, required for telomere length regulation and telomere position effect; involved in the stability or biogenesis of PIKKs such as TORC1
+S000029946	CDS					YGR099W		7	687899	689965	W		2011-02-03	1996-07-31	
+S000003332	ORF	Verified	YGR100W	MDR1	GYP2|MIC1	chromosome 7	L000003270	7	690245	693097	W		2011-02-03	1996-07-31	Cytoplasmic GTPase-activating protein; activates Ypt/Rab transport GTPases Ypt6p, Ypt31p and Sec4p; involved in recycling of internalized proteins and regulation of Golgi secretory function
+S000035442	CDS					YGR100W		7	690245	693097	W		2011-02-03	1996-07-31	
+S000003333	ORF	Verified	YGR101W	PCP1	rhomboid protease PCP1|RBD1|MDM37	chromosome 7		7	693363	694403	W		2011-02-03	1996-07-31	Mitochondrial serine protease; required for the processing of various mitochondrial proteins and maintenance of mitochondrial DNA and morphology; belongs to the rhomboid-GlpG superfamily of intramembrane peptidases
+S000035497	CDS					YGR101W		7	693363	694403	W		2011-02-03	1996-07-31	
+S000003334	ORF	Verified	YGR102C	GTF1	glutamyl-tRNA(Gln) amidotransferase subunit F	chromosome 7		7	695135	694584	C		2011-02-03	1996-07-31	Subunit of the trimeric GatFAB AmidoTransferase(AdT) complex; involved in the formation of Q-tRNAQ; transposon insertion mutant is salt sensitive and null mutant has growth defects; non-tagged protein is detected in purified mitochondria
+S000035523	CDS					YGR102C		7	695135	694584	C		2011-02-03	1996-07-31	
+S000003335	ORF	Verified	YGR103W	NOP7	mRNA-binding ribosome synthesis protein NOP7|YPH1	chromosome 7	S000007661	7	695417	697234	W		2011-02-03	1996-07-31	Component of several different pre-ribosomal particles; forms a complex with Ytm1p and Erb1p that is required for maturation of the large ribosomal subunit; required for exit from G0 and the initiation of cell proliferation
+S000036462	CDS					YGR103W		7	695417	697234	W		2011-02-03	1996-07-31	
+S000003336	ORF	Verified	YGR104C	SRB5	MED18	chromosome 7	L000002052	7	698368	697445	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; required for proper termination of transcription for some genes; involved in telomere maintenance
+S000036489	CDS					YGR104C		7	698368	697445	C		2011-02-03	1996-07-31	
+S000003337	ORF	Verified	YGR105W	VMA21		chromosome 7	L000002466	7	698599	698832	W		2011-02-03	1996-07-31	Integral membrane protein required for V-ATPase function; not an actual component of the vacuolar H+-ATPase (V-ATPase) complex; diverged ortholog of human XMEA (X-linked Myopathy with Excessive Autophagy); functions in the assembly of the V-ATPase; localized to the yeast endoplasmic reticulum (ER)
+S000036647	CDS					YGR105W		7	698599	698832	W		2011-02-03	1996-07-31	
+S000003338	ORF	Verified	YGR106C	VOA1		chromosome 7		7	699786	698989	C		2011-02-03	1996-07-31	ER protein that functions in assembly of the V0 sector of V-ATPase; functions with other assembly factors; null mutation enhances the vacuolar ATPase (V-ATPase) deficiency of a vma21 mutant impaired in endoplasmic reticulum (ER) retrieval
+S000036683	CDS					YGR106C		7	699786	698989	C		2011-02-03	1996-07-31	
+S000006646	tRNA_gene		tL(GAG)G			chromosome 7	L000003829	7	700675	700756	W		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis; not essential for viability even though this is the only tRNA that decodes GAG codons
+S000031926	noncoding_exon					tL(GAG)G		7	700675	700756	W		2011-02-03	2000-05-19	
+S000006631	tRNA_gene		tK(UUU)G2			chromosome 7	L000003845	7	701048	700953	C		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000033693	intron					tK(UUU)G2		7	701011	700989	C		2011-02-03	2000-05-19	
+S000033692	noncoding_exon					tK(UUU)G2		7	700988	700953	C		2011-02-03	2000-05-19	
+S000033691	noncoding_exon					tK(UUU)G2		7	701048	701012	C		2011-02-03	2000-05-19	
+S000006968	long_terminal_repeat		YGRWdelta19			chromosome 7		7	701104	701350	W		2011-02-03	2000-05-19	Ty1 LTR
+S000003339	ORF	Dubious	YGR107W			chromosome 7		7	702667	703116	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037476	CDS					YGR107W		7	702667	703116	W		2011-02-03	1996-07-31	
+S000003340	ORF	Verified	YGR108W	CLB1	B-type cyclin CLB1|SCB1	chromosome 7	L000000349	7	703636	705051	W		2011-02-03	1996-07-31	B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the transition from G2 to M phase; accumulates during G2 and M, then targeted via a destruction box motif for ubiquitin-mediated degradation by the proteasome; CLB1 has a paralog, CLB2, that arose from the whole genome duplication
+S000037604	CDS					YGR108W		7	703636	705051	W		2011-02-03	1996-07-31	
+S000003341	ORF	Verified	YGR109C	CLB6	B-type cyclin CLB6	chromosome 7	L000000354	7	706501	705359	C		2011-02-03	1996-07-31	B-type cyclin involved in DNA replication during S phase; activates Cdc28p to promote initiation of DNA synthesis; functions in formation of mitotic spindles along with Clb3p and Clb4p; most abundant during late G1; CLB6 has a paralog, CLB5, that arose from the whole genome duplication
+S000037653	CDS					YGR109C		7	706501	705359	C		2011-02-03	1996-07-31	
+S000006527	tRNA_gene		tC(GCA)G			chromosome 7	L000003844	7	707179	707108	C		2011-02-03	2000-05-19	Cysteine tRNA (tRNA-Cys), predicted by tRNAscan-SE analysis
+S000035213	noncoding_exon					tC(GCA)G		7	707179	707108	C		2011-02-03	2000-05-19	
+S000006978	long_terminal_repeat		YGRWsigma4			chromosome 7		7	707195	707534	W		2011-02-03	2000-05-19	Ty3 LTR
+S000006984	LTR_retrotransposon		YGRWTy3-1		Ty3	chromosome 7		7	707195	712545	W		2011-02-03	2000-05-19	Ty3 element, LTR retrotransposon of the Gypsy (Metaviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; transposition is induced upon exposure to mating pheromone
+S000007346	transposable_element_gene		YGR109W-A		gag protein	chromosome 7		7	707610	708482	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000033102	CDS					YGR109W-A		7	707610	708482	W		2011-02-03	1999-07-17	
+S000007347	transposable_element_gene		YGR109W-B		gag-pol fusion protein	chromosome 7		7	707610	712254	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000033103	CDS					YGR109W-B		7	707610	708459	W		2011-02-03	1999-07-17	
+S000033104	CDS					YGR109W-B		7	708461	712254	W		2011-02-03	1999-07-17	
+S000033105	plus_1_translational_frameshift					YGR109W-B		7	708460	708460	W		2011-02-03	1999-07-17	
+S000006979	long_terminal_repeat		YGRWsigma5			chromosome 7		7	712206	712545	W		2011-02-03	2000-05-19	Ty3 LTR
+S000006957	long_terminal_repeat		YGRCdelta20			chromosome 7		7	713384	713084	C		2011-02-03	2000-05-19	Ty1 LTR
+S000003342	ORF	Verified	YGR110W	CLD1	carboxylic ester hydrolase	chromosome 7		7	713709	715046	W		2011-02-03	1996-07-31	Mitochondrial cardiolipin-specific phospholipase; functions upstream of Taz1p to generate monolyso-cardiolipin; transcription increases upon genotoxic stress; involved in restricting Ty1 transposition; has homology to mammalian CGI-58
+S000030464	CDS					YGR110W		7	713709	715046	W		2011-02-03	1996-07-31	
+S000118464	ARS		ARS728		ARSVII-715	chromosome 7		7	715312	715377			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000119028	ARS_consensus_sequence					ARS728		7	715315	715329	W		2011-02-03	2006-10-03	
+S000003343	ORF	Uncharacterized	YGR111W			chromosome 7		7	715828	717030	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
+S000031339	CDS					YGR111W		7	715828	717030	W		2011-02-03	1996-07-31	
+S000003344	ORF	Verified	YGR112W	SHY1		chromosome 7	L000004140	7	717358	718527	W		2011-02-03	1996-07-31	Mitochondrial inner membrane protein required for complex IV assembly; associates with complex IV assembly intermediates and complex III/complex IV supercomplexes; similar to human SURF1 involved in Leigh Syndrome; complex IV is also known as cytochrome c oxidase
+S000031421	CDS					YGR112W		7	717358	718527	W		2011-02-03	1996-07-31	
+S000003345	ORF	Verified	YGR113W	DAM1		chromosome 7	L000004420	7	718893	719924	W		2011-02-03	2001-05-31|1996-07-31	Essential subunit of the Dam1 complex (aka DASH complex); cooperates with Duo1p to connect the DASH complex with the microtubules (MT); couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; Ipl1p target for regulating kinetochore-MT attachments
+S000031509	CDS					YGR113W		7	718893	719924	W		2011-02-03	2001-05-31|1996-07-31	
+S000003348	ORF	Verified	YGR116W	SPT6	chromatin-remodeling histone chaperone SPT6|SSN20|CRE2	chromosome 7	L000002032	7	720409	724764	W	87.64	2011-02-03	1996-07-31	Nucleosome remodeling protein; functions in various aspects of transcription, chromatin maintenance, and RNA processing; required for the maintenance of chromatin structure during transcription in order to inhibit transcription from promoters within the coding region; required for H3K36 trimethylation but not dimethylation by Set2p
+S000032690	CDS					YGR116W		7	720409	724764	W		2011-02-03	1996-07-31	
+S000003346	ORF	Dubious	YGR114C			chromosome 7		7	720654	720265	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; open reading frame overlaps 5' end of the essential gene SPT6
+S000031522	CDS					YGR114C		7	720654	720265	C		2011-02-03	1996-07-31	
+S000003347	ORF	Dubious	YGR115C			chromosome 7		7	721151	720372	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified and essential ORF SPT6/YGR115C
+S000031629	CDS					YGR115C		7	721151	720372	C		2011-02-03	1996-07-31	
+S000003349	ORF	Uncharacterized	YGR117C			chromosome 7		7	726479	725049	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000032722	CDS					YGR117C		7	726479	725049	C		2011-02-03	1996-07-31	
+S000003350	ORF	Verified	YGR118W	RPS23A	uS12|ribosomal 40S subunit protein S23A|rp37|YS14|S28A|S23A|S12	chromosome 7	L000001764	7	726974	727730	W		2011-02-03	1996-07-31|2011-02-03	Ribosomal protein 28 (rp28) of the small (40S) ribosomal subunit; required for translational accuracy; homologous to mammalian ribosomal protein S23 and bacterial S12; RPS23A has a paralog, RPS23B, that arose from the whole genome duplication; deletion of both RPS23A and RPS23B is lethal
+S000033494	CDS					YGR118W		7	726974	727038	W		2011-02-03	1996-07-31	
+S000033495	CDS					YGR118W		7	727358	727730	W		2011-02-03	1996-07-31	
+S000033496	intron					YGR118W		7	727039	727357	W		2011-02-03	1996-07-31|2011-02-03	
+S000003351	ORF	Verified	YGR119C	NUP57	FG-nucleoporin NUP57	chromosome 7	L000002619	7	729671	728046	C		2011-02-03	1996-07-31	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier; found in stable complex with Nic96p and two other FG-nucleoproteins (Nsp1p and Nup49p)
+S000033534	CDS					YGR119C		7	729671	728046	C		2011-02-03	1996-07-31	
+S000003352	ORF	Verified	YGR120C	COG2	Golgi transport complex subunit COG2|SEC35	chromosome 7	L000004877	7	730821	730033	C		2011-02-03	2003-09-22|1996-07-31	Essential component of the conserved oligomeric Golgi complex; a cytosolic tethering complex that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments; the components of the Golgi complex are Gog1p through Cog8p
+S000034667	CDS					YGR120C		7	730821	730033	C		2011-02-03	2003-09-22|1996-07-31	
+S000006670	tRNA_gene		tN(GUU)G			chromosome 7	L000003830	7	731137	731210	W		2011-02-03	2000-05-19	Asparagine tRNA (tRNA-Asn), predicted by tRNAscan-SE analysis
+S000030710	noncoding_exon					tN(GUU)G		7	731137	731210	W		2011-02-03	2000-05-19	
+S000003353	ORF	Verified	YGR121C	MEP1	ammonium permease MEP1|AMT1	chromosome 7	L000001073	7	732927	731449	C		2011-02-03	1996-07-31	Ammonium permease; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation; human homolog RHCG complements yeast null mutant; mutations in human homolog RHCG implicated in metabolic acidosis; MEP1 has a paralog, MEP3, that arose from the whole genome duplication
+S000034743	CDS					YGR121C		7	732927	731449	C		2011-02-03	1996-07-31	
+S000028550	ORF	Uncharacterized	YGR121W-A			chromosome 7		7	733412	733627	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000031236	CDS					YGR121W-A		7	733412	733627	W		2011-02-03	2003-07-29	
+S000003354	ORF	Verified	YGR122W			chromosome 7		7	733935	735143	W		2011-02-03	1996-07-31	Protein that may be involved in pH regulation; probable ortholog of A. nidulans PalC, which is involved in pH regulation and binds to the ESCRT-III complex; null mutant does not properly process Rim101p and has decreased resistance to rapamycin; GFP-fusion protein is cytoplasmic; relative distribution to cytoplasm increases upon DNA replication stress
+S000035706	CDS					YGR122W		7	733935	735143	W		2011-02-03	1996-07-31	
+S000006969	long_terminal_repeat		YGRWdelta21			chromosome 7		7	735542	735872	W		2011-02-03	2000-05-19	Ty1 LTR
+S000007240	ORF	Dubious	YGR122C-A			chromosome 7		7	735758	735630	C		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; similar to YLR334C and YOL106W
+S000032623	CDS					YGR122C-A		7	735758	735630	C		2011-02-03	1999-07-17	
+S000006980	long_terminal_repeat		YGRWsigma6			chromosome 7		7	735982	736322	W		2011-02-03	2000-05-19	Ty3 LTR
+S000006713	tRNA_gene		tR(UCU)G3			chromosome 7	L000003831	7	736340	736411	W		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000037332	noncoding_exon					tR(UCU)G3		7	736340	736411	W		2011-02-03	2000-05-19	
+S000003355	ORF	Verified	YGR123C	PPT1	protein serine/threonine phosphatase	chromosome 7	L000002624	7	738203	736662	C		2011-02-03	1996-07-31	Protein serine/threonine phosphatase; regulates Hsp90 chaperone by affecting its ATPase and cochaperone binding activities; has similarity to human phosphatase PP5; present in both the nucleus and cytoplasm; expressed during logarithmic growth
+S000035715	CDS					YGR123C		7	738203	736662	C		2011-02-03	1996-07-31	
+S000006604	tRNA_gene		tI(AAU)G			chromosome 7	L000003832	7	739122	739195	W		2011-02-03	2000-05-19	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000030407	noncoding_exon					tI(AAU)G		7	739122	739195	W		2011-02-03	2000-05-19	
+S000003356	ORF	Verified	YGR124W	ASN2	asparagine synthase (glutamine-hydrolyzing) 2	chromosome 7	L000003156	7	739944	741662	W		2011-02-03	1996-07-31	Asparagine synthetase; catalyzes the synthesis of L-asparagine from L-aspartate in the asparagine biosynthetic pathway; ASN2 has a paralog, ASN1, that arose from the whole genome duplication
+S000035868	CDS					YGR124W		7	739944	741662	W		2011-02-03	1996-07-31	
+S000003357	ORF	Uncharacterized	YGR125W			chromosome 7		7	742325	745435	W		2011-02-03	1996-07-31	Putative protein of unknown function; deletion mutant has decreased rapamycin resistance but normal wormannin resistance; green fluorescent protein (GFP)-fusion protein localizes to the vacuole
+S000036786	CDS					YGR125W		7	742325	745435	W		2011-02-03	1996-07-31	
+S000003358	ORF	Uncharacterized	YGR126W			chromosome 7		7	745835	746527	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus and is induced in response to the DNA-damaging agent MMS
+S000036861	CDS					YGR126W		7	745835	746527	W		2011-02-03	1996-07-31	
+S000003359	ORF	Uncharacterized	YGR127W			chromosome 7		7	746798	747736	W		2011-02-03	1996-07-31	Putative protein of unknown function; expression is regulated by Msn2p/Msn4p, indicating a possible role in stress response
+S000036917	CDS					YGR127W		7	746798	747736	W		2011-02-03	1996-07-31	
+S000003360	ORF	Verified	YGR128C	UTP8		chromosome 7		7	750091	747950	C		2011-02-03	1996-07-31	Nucleolar protein required for export of tRNAs from the nucleus; also copurifies with the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
+S000036949	CDS					YGR128C		7	750091	747950	C		2011-02-03	1996-07-31	
+S000003361	ORF	Verified	YGR129W	SYF2	NTC31	chromosome 7	L000004196	7	750400	751047	W		2011-02-03	1996-07-31	Member of the NineTeen Complex (NTC); NTC contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; relocalizes to the cytosol in response to hypoxia; isy1 syf2 cells have defective spindles activiating cell cycle arrest
+S000037743	CDS					YGR129W		7	750400	751047	W		2011-02-03	1996-07-31	
+S000003362	ORF	Verified	YGR130C			chromosome 7		7	753844	751394	C		2011-02-03	1996-07-31	Component of the eisosome with unknown function; GFP-fusion protein localizes to the cytoplasm; specifically phosphorylated in vitro by mammalian diphosphoinositol pentakisphosphate (IP7)
+S000030568	CDS					YGR130C		7	753844	751394	C		2011-02-03	1996-07-31	
+S000003363	ORF	Verified	YGR131W	FHN1		chromosome 7		7	754726	755250	W		2011-02-03	1996-07-31	Protein of unknown function; induced by ketoconazole; promoter region contains sterol regulatory element motif, which has been identified as a Upc2p-binding site; overexpression complements function of Nce102p in NCE102 deletion strain; FHN1 has a paralog, NCE102, that arose from the whole genome duplication
+S000030762	CDS					YGR131W		7	754726	755250	W		2011-02-03	1996-07-31	
+S000003364	ORF	Verified	YGR132C	PHB1	prohibitin subunit PHB1	chromosome 7	L000001416|L000001415	7	756452	755589	C		2011-02-03	1996-07-31	Subunit of the prohibitin complex (Phb1p-Phb2p); prohibitin is a 1.2 MDa ring-shaped inner mitochondrial membrane chaperone that stabilizes newly synthesized proteins; determinant of replicative life span; involved in mitochondrial segregation; prohibitin deficiency induces a mitochondrial unfolded protein response (mtUPR)
+S000030798	CDS					YGR132C		7	756452	755589	C		2011-02-03	1996-07-31	
+S000003365	ORF	Verified	YGR133W	PEX4	E2 ubiquitin-protein ligase peroxin 4|UBC10|PAS2	chromosome 7	L000001338	7	756896	757447	W		2011-02-03	1996-07-31	Peroxisomal ubiquitin conjugating enzyme; required for peroxisomal matrix protein import and peroxisome biogenesis
+S000031790	CDS					YGR133W		7	756896	757447	W		2011-02-03	1996-07-31	
+S000003366	ORF	Verified	YGR134W	CAF130	CCR4-NOT core subunit CAF130	chromosome 7		7	757770	761138	W		2011-02-03	1996-07-31	Subunit of the CCR4-NOT transcriptional regulatory complex; CCR4-NOT complex is evolutionarily-conserved and involved in controlling mRNA initiation, elongation, and degradation
+S000031982	CDS					YGR134W		7	757770	761138	W		2011-02-03	1996-07-31	
+S000003367	ORF	Verified	YGR135W	PRE9	proteasome core particle subunit alpha 3	chromosome 7	L000002701	7	761392	762168	W		2011-02-03	1996-07-31	Alpha 3 subunit of the 20S proteasome; the only nonessential 20S subunit; may be replaced by the alpha 4 subunit (Pre6p) under stress conditions to create a more active proteasomal isoform
+S000032101	CDS					YGR135W		7	761392	762168	W		2011-02-03	1996-07-31	
+S000003368	ORF	Verified	YGR136W	LSB1		chromosome 7		7	762428	763153	W		2011-02-03	1996-07-31	Negative regulator of actin nucleation-promoting factor activity; interacts with Las17p, a homolog of human Wiskott-Aldrich Syndrome protein (WASP), via an N-terminal SH3 domain, and along with PIN3 cooperatively inhibits the nucleation of actin filaments; overexpression blocks receptor-mediated endocytosis; protein increases in abundance and forms nuclear foci in response to DNA replication stress; LSB1 has a paralog, PIN3, that arose from the whole genome duplication
+S000033027	CDS					YGR136W		7	762428	763153	W		2011-02-03	1996-07-31	
+S000003369	ORF	Dubious	YGR137W			chromosome 7		7	762888	763262	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033117	CDS					YGR137W		7	762888	763262	W		2011-02-03	1996-07-31	
+S000003370	ORF	Verified	YGR138C	TPO2	spermine transporter	chromosome 7		7	765606	763762	C		2011-02-03	1996-07-31	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; specific for spermine; localizes to the plasma membrane; transcription of TPO2 is regulated by Haa1p; TPO2 has a paralog, TPO3, that arose from the whole genome duplication
+S000033153	CDS					YGR138C		7	765606	763762	C		2011-02-03	1996-07-31	
+S000003371	ORF	Dubious	YGR139W			chromosome 7		7	765726	766064	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034004	CDS					YGR139W		7	765726	766064	W		2011-02-03	1996-07-31	
+S000003372	ORF	Verified	YGR140W	CBF2	CSL5|NDC10|CTF14|CEP2|CBF3A	chromosome 7	L000000430|L000001238|L000000221	7	767429	770299	W		2011-02-03	1996-07-31	Essential kinetochore protein; component of the CBF3 multisubunit complex that binds to the CDEIII region of the centromere; Cbf2p also binds to the CDEII region possibly forming a different multimeric complex, ubiquitinated in vivo; sumoylated in an Mms21p-dependent manner; relative distribution to the spindle pole body decreases upon DNA replication stress
+S000034959	CDS					YGR140W		7	767429	770299	W		2011-02-03	1996-07-31	
+S000003373	ORF	Verified	YGR141W	VPS62		chromosome 7		7	770569	771972	W		2011-02-03	1996-07-31	Vacuolar protein sorting (VPS) protein; required for cytoplasm to vacuole targeting of proteins; VPS62 has a paralog, TDA6, that arose from the whole genome duplication
+S000035068	CDS					YGR141W		7	770569	771972	W		2011-02-03	1996-07-31	
+S000003374	ORF	Verified	YGR142W	BTN2		chromosome 7		7	772454	773686	W		2011-02-03	1996-07-31	v-SNARE binding protein; facilitates specific protein retrieval from a late endosome to the Golgi; modulates arginine uptake, possible role in mediating pH homeostasis between the vacuole and plasma membrane H(+)-ATPase; contributes to prion curing; preferentially expressed after severe ethanol stress
+S000035175	CDS					YGR142W		7	772454	773686	W		2011-02-03	1996-07-31	
+S000006970	long_terminal_repeat		YGRWdelta22			chromosome 7		7	774040	774162	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006512	tRNA_gene		tA(AGC)G			chromosome 7	L000003833	7	774349	774421	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000032279	noncoding_exon					tA(AGC)G		7	774349	774421	W		2011-02-03	2000-05-19	
+S000003375	ORF	Verified	YGR143W	SKN1	beta-glucan synthesis-associated protein SKN1	chromosome 7	L000001907	7	775193	777508	W	88.14	2011-02-03	1996-07-31	Protein involved in sphingolipid biosynthesis; type II membrane protein; SKN1 has a paralog, KRE6, that arose from the whole genome duplication
+S000036052	CDS					YGR143W		7	775193	777508	W		2011-02-03	1996-07-31	
+S000118465	ARS		ARS729		ARSVII-778	chromosome 7		7	777966	778214			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000119029	ARS_consensus_sequence					ARS729		7	778014	778028	W		2011-02-03	2006-10-03	
+S000178103	ARS_consensus_sequence					ARS729		7	778196	778180	C		2014-11-18	2014-11-18	
+S000006971	long_terminal_repeat		YGRWdelta23			chromosome 7		7	778784	779112	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006972	long_terminal_repeat		YGRWdelta24			chromosome 7		7	779116	779224	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006958	long_terminal_repeat		YGRCdelta25			chromosome 7		7	779515	779225	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006590	tRNA_gene		tG(UCC)G	SUF4		chromosome 7	L000002152|L000003834	7	779616	779687	W	105	2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis; can mutate to suppress +1 frameshift mutations in glycine codons
+S000037534	noncoding_exon					tG(UCC)G		7	779616	779687	W		2011-02-03	2000-05-19	
+S000003376	ORF	Verified	YGR144W	THI4	thiamine thiazole synthase|MOL1|ESP35	chromosome 7	L000001133|L000000585	7	780399	781379	W		2011-02-03	1996-07-31	Thiazole synthase; abundant protein involved in the formation of the thiazole moiety of thiamine during thiamine biosynthesis; acts more as a co-substrate rather than an enzyme by providing the sulphur source for thiazole formation; undergoes a single turnover only; required for mitochondrial genome stability in response to DNA damaging agents
+S000036192	CDS					YGR144W		7	780399	781379	W		2011-02-03	1996-07-31	
+S000003377	ORF	Verified	YGR145W	ENP2	ribosome biosynthesis protein ENP2	chromosome 7		7	781767	783890	W		2011-02-03	1996-07-31|2011-02-03	Component of the SSU; required for pre-18S rRNA processing, biogenesis of the small ribosomal subunit; interacts with U3 snoRNA, Mpp10p and Bfr2p; contains WD repeats, and has homology to Spb1p
+S000029871	CDS					YGR145W		7	781767	783890	W		2011-02-03	1996-07-31|2011-02-03	
+S000003378	ORF	Verified	YGR146C	ECL1		chromosome 7		7	784858	784223	C		2011-02-03	1996-07-31	Protein of unknown function; mitochondrial-dependent role in the extension of chronological lifespan; overexpression increases oxygen consumption and respiratory activity while deletion results in reduced oxygen consumption under conditions of caloric restriction; induced by iron homeostasis transcription factor Aft2p; multicopy suppressor of temperature sensitive hsf1 mutant; induced by treatment with 8-methoxypsoralen and UVA irradiation
+S000031718	CDS					YGR146C		7	784858	784223	C		2011-02-03	1996-07-31	
+S000028638	ORF	Uncharacterized	YGR146C-A			chromosome 7		7	785437	785276	C		2011-02-03	2003-07-29	Putative protein of unknown function
+S000032394	CDS					YGR146C-A		7	785437	785276	C		2011-02-03	2003-07-29	
+S000003379	ORF	Verified	YGR147C	NAT2		chromosome 7	L000001233	7	786920	786054	C		2011-02-03	1996-07-31	Protein of unknown function; has an apparent role in acetylation of N-terminal methionine residues
+S000031870	CDS					YGR147C		7	786920	786054	C		2011-02-03	1996-07-31	
+S000003380	ORF	Verified	YGR148C	RPL24B	eL24|ribosomal 60S subunit protein L24B|L24e|rp29|YL21|L30B|L24B|RPL30B	chromosome 7	L000001725	7	787779	787312	C		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L24B; not essential for translation but may be required for normal translation rate; homologous to mammalian ribosomal protein L24, no bacterial homolog; RPL24B has a paralog, RPL24A, that arose from the whole genome duplication
+S000031971	CDS					YGR148C		7	787779	787312	C		2011-02-03	1996-07-31	
+S000122102	five_prime_UTR_intron					YGR148C		7	788178	787787	C		2011-02-03	2007-04-04	
+S000003381	ORF	Verified	YGR149W	GPC1		chromosome 7		7	789031	790329	W		2011-02-03	1996-07-31	Glycerophosphocholine acyltransferase (GPCAT); involved in in phosphatidylcholine (PC) synthesis; uses acetyl-CoA to acylate glycero-3-phosphocholine to yield lyso-PC; also catalyzes acylation of glycerophosphoethanolamine with acyl-CoA; predicted to be an integal membrane protein
+S000037495	CDS					YGR149W		7	789031	790329	W		2011-02-03	1996-07-31	
+S000003382	ORF	Verified	YGR150C	CCM1	DMR1|RRG2	chromosome 7		7	793053	790459	C		2011-02-03	1996-07-31	Mitochondrial 15S rRNA-binding protein; required for intron removal of COB and COX1 pre-mRNAs; has separable roles in stabilizing mitochondrial 15S rRNA and in maturation of the COB and COX1 mRNAs; contains pentatricopeptide repeat (PPR) motifs; mutant is respiratory deficient and has defective plasma membrane electron transport
+S000036478	CDS					YGR150C		7	793053	790459	C		2011-02-03	1996-07-31	
+S000006973	long_terminal_repeat		YGRWdelta26			chromosome 7		7	793237	793559	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006523	tRNA_gene		tA(UGC)G			chromosome 7	L000003835	7	794417	794489	W		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 5 nuclear tRNA genes containing the tDNA-anticodon TGC (mature tRNA may be UGC or may contain modified bases), decodes GCA and probably GCG codons into alanine, one of 16 nuclear tRNAs for alanine
+S000034874	noncoding_exon					tA(UGC)G		7	794417	794489	W		2011-02-03	2000-05-19	
+S000003383	ORF	Dubious	YGR151C			chromosome 7		7	794990	794655	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF RSR1/BUD1/YGR152C; relative distribution to the nucleus increases upon DNA replication stress
+S000037176	CDS					YGR151C		7	794990	794655	C		2011-02-03	1996-07-31	
+S000003384	ORF	Verified	YGR152C	RSR1	Ras family GTPase RSR1|BUD1	chromosome 7	L000001780	7	795492	794674	C	98	2011-02-03	1996-07-31	GTP-binding protein of the Ras superfamily; required for bud site selection, morphological changes in response to mating pheromone, and efficient cell fusion; localized to the plasma membrane; significantly similar to mammalian Rap GTPases
+S000037247	CDS					YGR152C		7	795492	794674	C		2011-02-03	1996-07-31	
+S000003385	ORF	Uncharacterized	YGR153W		TOS10	chromosome 7		7	796092	796745	W		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function
+S000037368	CDS					YGR153W		7	796092	796745	W		2011-02-03	1996-07-31|2011-02-03	
+S000003386	ORF	Verified	YGR154C	GTO1	omega-class glutathione transferase	chromosome 7		7	797868	796798	C		2011-02-03	1996-07-31	Omega-class glutathione transferase; induced under oxidative stress; putative peroxisomal localization
+S000037395	CDS					YGR154C		7	797868	796798	C		2011-02-03	1996-07-31	
+S000003387	ORF	Verified	YGR155W	CYS4	cystathionine beta-synthase CYS4|VMA41|STR4|NHS5	chromosome 7	L000001248|L000000471	7	798543	800066	W	87.14	2011-02-03	1996-07-31	Cystathionine beta-synthase; catalyzes synthesis of cystathionine from serine and homocysteine, the first committed step in cysteine biosynthesis; responsible for hydrogen sulfide generation; advances passage through START by promoting cell growth which requires catalytic activity, and reducing critical cell size independent of catalytic activity; mutations in human ortholog CBS cause homocystinuria; human CBS can complement yeast null mutant
+S000030070	CDS					YGR155W		7	798543	800066	W		2011-02-03	1996-07-31	
+S000003388	ORF	Verified	YGR156W	PTI1	cleavage polyadenylation factor subunit PTI1	chromosome 7		7	800546	801823	W		2011-02-03	1996-07-31	Essential component of CPF (cleavage and polyadenylation factor); involved in 3' end formation of snoRNA and mRNA; interacts directly with Pta1p; relocalizes to the cytosol in response to hypoxia; similar to mammalian Cleavage-Stimulation Factor CstF-64
+S000030236	CDS					YGR156W		7	800546	801823	W		2011-02-03	1996-07-31	
+S000003389	ORF	Verified	YGR157W	CHO2	phosphatidylethanolamine N-methyltransferase|PEM1	chromosome 7	L000000328	7	802440	805049	W		2011-02-03	1996-07-31	Phosphatidylethanolamine methyltransferase (PEMT); catalyzes the first step in the conversion of phosphatidylethanolamine to phosphatidylcholine during the methylation pathway of phosphatidylcholine biosynthesis
+S000030380	CDS					YGR157W		7	802440	805049	W		2011-02-03	1996-07-31	
+S000003390	ORF	Verified	YGR158C	MTR3	exosome non-catalytic core subunit MTR3	chromosome 7	L000003982	7	806021	805269	C		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hMtr3p (EXOSC6)
+S000033622	CDS					YGR158C		7	806021	805269	C		2011-02-03	1996-07-31	
+S000003392	ORF	Dubious	YGR160W			chromosome 7		7	807073	807684	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033399	CDS					YGR160W		7	807073	807684	W		2011-02-03	1996-07-31	
+S000003391	ORF	Verified	YGR159C	NSR1	SHE5	chromosome 7	L000001278	7	807656	806412	C		2011-02-03	1996-07-31	Nucleolar protein that binds nuclear localization sequences; required for pre-rRNA processing and ribosome biogenesis; binds to single stranded telomeric DNA and mRNA; methylated by Hmt1p; interaction with Top1p and nucleolar localization are negatively regulated by polyphosphorylation
+S000033736	CDS					YGR159C		7	807656	806412	C		2011-02-03	1996-07-31	
+S000003393	ORF	Uncharacterized	YGR161C	RTS3		chromosome 7		7	809420	808629	C		2011-02-03	1996-07-31	Putative component of the protein phosphatase type 2A complex
+S000033431	CDS					YGR161C		7	809420	808629	C		2011-02-03	1996-07-31	
+S000029726	ORF	Uncharacterized	YGR161W-C			chromosome 7		7	810227	810505	W		2011-02-03	2004-08-27	Putative protein of unknown function; identified by sequence comparison with hemiascomycetous yeast species
+S000036877	CDS					YGR161W-C		7	810227	810505	W		2011-02-03	2004-08-27	
+S000006974	long_terminal_repeat		YGRWdelta27			chromosome 7		7	811447	811778	W		2011-02-03	2000-05-19	Ty2 LTR
+S000006983	LTR_retrotransposon		YGRWTy2-2		Ty2	chromosome 7		7	811447	817397	W		2011-02-03	2000-05-19	Ty2 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007369	transposable_element_gene		YGR161W-A		gag protein	chromosome 7		7	811738	813054	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000030119	CDS					YGR161W-A		7	811738	813054	W		2011-02-03	1999-07-17	
+S000007370	transposable_element_gene		YGR161W-B		gag-pol fusion protein	chromosome 7	S000029014	7	811738	817051	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000030122	CDS					YGR161W-B		7	811738	813030	W		2011-02-03	1999-07-17	
+S000030123	CDS					YGR161W-B		7	813032	817051	W		2011-02-03	1999-07-17	
+S000030124	plus_1_translational_frameshift					YGR161W-B		7	813031	813031	W		2011-02-03	1999-07-17	
+S000006975	long_terminal_repeat		YGRWdelta28			chromosome 7		7	817074	817397	W		2011-02-03	2000-05-19	Ty2 LTR
+S000006959	long_terminal_repeat		YGRCdelta29			chromosome 7		7	817724	817393	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007368	transposable_element_gene		YGR161C-D		gag-pol fusion protein	chromosome 7		7	823015	817747	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000036390	CDS					YGR161C-D		7	821709	817747	C		2011-02-03	1999-07-17	
+S000036389	CDS					YGR161C-D		7	823015	821711	C		2011-02-03	1999-07-17	
+S000036391	plus_1_translational_frameshift					YGR161C-D		7	821710	821710	C		2011-02-03	1999-07-17	
+S000007367	transposable_element_gene		YGR161C-C		gag protein	chromosome 7		7	823015	821693	C		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000036388	CDS					YGR161C-C		7	823015	821693	C		2011-02-03	1999-07-17	
+S000006963	LTR_retrotransposon		YGRCTy1-3		Ty1	chromosome 7		7	823306	817393	C		2011-02-03	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000006960	long_terminal_repeat		YGRCdelta30			chromosome 7		7	823306	822975	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006756	tRNA_gene		tV(AAC)G2			chromosome 7	L000003836	7	823482	823555	W		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000036904	noncoding_exon					tV(AAC)G2		7	823482	823555	W		2011-02-03	2000-05-19	
+S000003394	ORF	Verified	YGR162W	TIF4631	translation initiation factor eIF4G|eiF4G1	chromosome 7	L000002309	7	824059	826917	W		2011-02-03	1996-07-31	Translation initiation factor eIF4G; subunit of the mRNA cap-binding protein complex (eIF4F) that also contains eIF4E (Cdc33p); interacts with Pab1p and with eIF4A (Tif1p); also has a role in biogenesis of the large ribosomal subunit; TIF4631 has a paralog, TIF4632, that arose from the whole genome duplication
+S000033543	CDS					YGR162W		7	824059	826917	W		2011-02-03	1996-07-31	
+S000003395	ORF	Verified	YGR163W	GTR2		chromosome 7	L000004611	7	827552	828577	W		2011-02-03	1996-07-31	Subunit of a TORC1-stimulating GTPase complex; subunit of the Gtr1-Gtr2 GTPase complex that stimulates TORC1 in response to amino acid stimulation; stimulates the GTPase activity of Gtr1p; negatively regulates the Ran/Tc4 GTPase cycle; activates transcription; tethered to the vacuolar membrane as part of the EGO complex (EGOC); required for sorting of Gap1p; activated by the the Lst4p-Lst7p GAP complex; localizes to cytoplasm and to chromatin; homolog of human RagC and
+S000033603	CDS					YGR163W		7	827552	828577	W		2011-02-03	1996-07-31	
+S000003396	ORF	Dubious	YGR164W			chromosome 7		7	828625	828960	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034546	CDS					YGR164W		7	828625	828960	W		2011-02-03	1996-07-31	
+S000006712	tRNA_gene		tR(UCU)G2			chromosome 7	L000003843	7	828794	828723	C		2011-02-03	2000-05-19	Arginine tRNA (tRNA-Arg), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon UCU (converted to mcm5-UCU in the mature tRNA), decodes AGA codons into arginine, one of 19 nuclear tRNAs for arginine
+S000037330	noncoding_exon					tR(UCU)G2		7	828794	828723	C		2011-02-03	2000-05-19	
+S000003397	ORF	Verified	YGR165W	MRPS35	mitochondrial 37S ribosomal protein MRPS35	chromosome 7		7	829116	830153	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit; null mutant does not grow on glycerol, is sensitive to 2,4-dichlorophenol, and accumulates large lipid droplets
+S000034612	CDS					YGR165W		7	829116	830153	W		2011-02-03	1996-07-31	
+S000003398	ORF	Verified	YGR166W	TRS65	KRE11	chromosome 7	L000000918	7	830515	832197	W	154.34	2011-02-03	1996-07-31	Component of transport protein particle (TRAPP) complex II; TRAPPII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating intra-Golgi and endosome-Golgi traffic; role in cell wall beta-glucan biosynthesis and the stress response
+S000034756	CDS					YGR166W		7	830515	832197	W		2011-02-03	1996-07-31	
+S000003399	ORF	Verified	YGR167W	CLC1	SCD4	chromosome 7	L000000355	7	832456	833157	W		2011-02-03	1996-07-31	Clathrin light chain; subunit of the major coat protein involved in intracellular protein transport and endocytosis; regulates endocytic progression; thought to regulate clathrin function; the clathrin triskelion is a trimeric molecule composed of three heavy chains that radiate from a vertex and three light chains which bind noncovalently near the vertex of the triskelion
+S000035721	CDS					YGR167W		7	832456	833157	W		2011-02-03	1996-07-31	
+S000003400	ORF	Uncharacterized	YGR168C			chromosome 7		7	834482	833352	C		2011-02-03	1996-07-31	Putative protein of unknown function; YGR168C is not an essential gene
+S000035768	CDS					YGR168C		7	834482	833352	C		2011-02-03	1996-07-31	
+S000118466	ARS		ARS731		ARSVII-835	chromosome 7		7	834491	834734			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000119030	ARS_consensus_sequence					ARS731		7	834664	834650	C		2011-02-03	2006-10-03	
+S000003401	ORF	Verified	YGR169C	PUS6	pseudouridine synthase PUS6	chromosome 7		7	835903	834689	C		2011-02-03	1996-07-31	tRNA:pseudouridine synthase; catalyzes the conversion of uridine to pseudouridine at position 31 in cytoplasmic and mitochondrial tRNAs; mutation of Asp168 to Ala abolishes enzyme activity; not essential for viability
+S000035880	CDS					YGR169C		7	835903	834689	C		2011-02-03	1996-07-31	
+S000028521	ORF	Verified	YGR169C-A	LSO2	YGR169C-C	chromosome 7		7	836665	836387	C		2011-02-03	2003-07-29	Protein with a potential role in response to iron deprivation; localizes to nucleus and cytoplasm, and nuclear localization is enhanced under iron-replete conditions; null mutant exhibits slow growth during iron deprivation; LSO2 has a paralog, LSO1, that arose from the whole genome duplication
+S000030316	CDS					YGR169C-A		7	836665	836387	C		2011-02-03	2003-07-29	
+S000003402	ORF	Verified	YGR170W	PSD2	phosphatidylserine decarboxylase 2	chromosome 7	L000002817	7	837142	840558	W		2011-02-03	1996-07-31	Phosphatidylserine decarboxylase of the Golgi and vacuolar membranes; converts phosphatidylserine to phosphatidylethanolamine; controls vacuolar membrane phospholipid content by regulating phospholipids in compartments that will eventually give rise to the vacuole; loss of Psd2p causes a specific reduction in vacuolar membrane PE levels while total PE levels are not significantly affected
+S000036827	CDS					YGR170W		7	837142	840558	W		2011-02-03	1996-07-31	
+S000003403	ORF	Verified	YGR171C	MSM1	methionine--tRNA ligase MSM1	chromosome 7	L000001196	7	842551	840824	C		2011-02-03	1996-07-31	Mitochondrial methionyl-tRNA synthetase (MetRS); functions as a monomer in mitochondrial protein synthesis; functions similarly to cytoplasmic MetRS although the cytoplasmic form contains a zinc-binding domain not found in Msm1p
+S000036868	CDS					YGR171C		7	842551	840824	C		2011-02-03	1996-07-31	
+S000003404	ORF	Verified	YGR172C	YIP1	transporter YIP1	chromosome 7	L000003259	7	843591	842845	C		2011-02-03	1996-07-31	Integral membrane protein; required for the biogenesis of ER-derived COPII transport vesicles; interacts with Yif1p and Yos1p; localizes to the Golgi, the ER, and COPII vesicles; human homolog YIPF5 can complement yeast yip1 mutant
+S000037595	CDS					YGR172C		7	843591	842845	C		2011-02-03	1996-07-31	
+S000003405	ORF	Verified	YGR173W	RBG2	GIR1	chromosome 7		7	843854	844960	W		2011-02-03	1996-07-31	Protein with a role in translation; forms a complex with Gir2p; has similarity to mammalian developmentally regulated GTP-binding protein
+S000037694	CDS					YGR173W		7	843854	844960	W		2011-02-03	1996-07-31	
+S000006981	long_terminal_repeat		YGRWsigma7			chromosome 7		7	845281	845602	W		2011-02-03	2000-05-19	Ty3 LTR
+S000006581	tRNA_gene		tG(GCC)G1			chromosome 7	L000003837	7	845649	845719	W		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000037454	noncoding_exon					tG(GCC)G1		7	845649	845719	W		2011-02-03	2000-05-19	
+S000003406	ORF	Verified	YGR174C	CBP4		chromosome 7	L000000227	7	846405	845893	C		2011-02-03	1996-07-31	Mitochondrial protein required for assembly of cytochrome bc1 complex; interacts with the Cbp3p-Cbp6p complex and newly synthesized cytochrome b (Cobp) to promote assembly of Cobp into the cytochrome bc1 complex
+S000037715	CDS					YGR174C		7	846405	845893	C		2011-02-03	1996-07-31	
+S000028639	ORF	Uncharacterized	YGR174W-A			chromosome 7		7	846655	846741	W		2011-02-03	2003-07-29	Putative protein of unknown function; predicted to have a role in cell budding based on computational "guilt by association" analysis
+S000032395	CDS					YGR174W-A		7	846655	846741	W		2011-02-03	2003-07-29	
+S000003407	ORF	Verified	YGR175C	ERG1	squalene monooxygenase	chromosome 7	L000000568	7	848423	846933	C		2011-02-03	1996-07-31	Squalene epoxidase; catalyzes the epoxidation of squalene to 2,3-oxidosqualene; plays an essential role in the ergosterol-biosynthesis pathway and is the specific target of the antifungal drug terbinafine; human SQLE functionally complements the lethality of the erg1 null mutation
+S000037776	CDS					YGR175C		7	848423	846933	C		2011-02-03	1996-07-31	
+S000003408	ORF	Dubious	YGR176W			chromosome 7		7	848720	849067	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030672	CDS					YGR176W		7	848720	849067	W		2011-02-03	1996-07-31	
+S000003409	ORF	Verified	YGR177C	ATF2	alcohol O-acetyltransferase	chromosome 7	L000003345	7	850436	848829	C		2011-02-03	1996-07-31	Alcohol acetyltransferase; may play a role in steroid detoxification; forms volatile esters during fermentation, which is important for brewing and winemaking
+S000030746	CDS					YGR177C		7	850436	848829	C		2011-02-03	1996-07-31	
+S000003410	ORF	Verified	YGR178C	PBP1	MRS16	chromosome 7	L000003967	7	853215	851047	C		2011-02-03	1996-07-31	Component of glucose deprivation induced stress granules; involved in P-body-dependent granule assembly; similar to human ataxin-2; interacts with Pab1p to regulate mRNA polyadenylation; interacts with Mkt1p to regulate HO translation; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress
+S000030834	CDS					YGR178C		7	853215	851047	C		2011-02-03	1996-07-31	
+S000003411	ORF	Verified	YGR179C	OKP1		chromosome 7		7	854895	853675	C		2011-02-03	1996-07-31	Outer kinetochore protein required for accurate chromosome segregation; component of COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) a kinetochore sub-complex which functions as a platform for kinetochore assembly; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-Q and fission yeast fta7
+S000031845	CDS					YGR179C		7	854895	853675	C		2011-02-03	1996-07-31	
+S000003412	ORF	Verified	YGR180C	RNR4	ribonucleotide-diphosphate reductase subunit RNR4|PSO3|CRT3	chromosome 7	L000002819|S000029396|L000004184	7	856301	855264	C		2011-02-03	1996-07-31	Ribonucleotide-diphosphate reductase (RNR) small subunit; the RNR complex catalyzes the rate-limiting step in dNTP synthesis and is regulated by DNA replication and DNA damage checkpoint pathways via localization of the small subunits; relocalizes from nucleus to cytoplasm upon DNA replication stress; RNR4 has a paralog, RNR2, that arose from the whole genome duplication
+S000031850	CDS					YGR180C		7	856301	855264	C		2011-02-03	1996-07-31	
+S000006641	tRNA_gene		tL(CAA)G3			chromosome 7	L000003842	7	857491	857378	C		2011-02-03	2000-05-19	Leucine tRNA (tRNA-Leu), predicted by tRNAscan-SE analysis
+S000034251	intron					tL(CAA)G3		7	857453	857422	C		2011-02-03	2000-05-19	
+S000034250	noncoding_exon					tL(CAA)G3		7	857421	857378	C		2011-02-03	2000-05-19	
+S000034249	noncoding_exon					tL(CAA)G3		7	857491	857454	C		2011-02-03	2000-05-19	
+S000003413	ORF	Verified	YGR181W	TIM13	protein translocase subunit TIM13	chromosome 7		7	858287	858604	W		2011-02-03	1996-07-31	Mitochondrial intermembrane space protein; forms a complex with Tim8p that delivers a subset of hydrophobic proteins to the TIM22 complex for insertion into the inner membrane
+S000032812	CDS					YGR181W		7	858287	858604	W		2011-02-03	1996-07-31	
+S000003414	ORF	Dubious	YGR182C			chromosome 7		7	858904	858551	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF TIM13/YGR181W
+S000032855	CDS					YGR182C		7	858904	858551	C		2011-02-03	1996-07-31	
+S000003415	ORF	Verified	YGR183C	QCR9	ubiquinol--cytochrome-c reductase subunit 9|UCR9	chromosome 7	L000001549	7	859476	859063	C	148	2011-02-03	1996-07-31	Subunit 9 of ubiquinol cytochrome-c reductase (Complex III); Complex III is a component of the mitochondrial inner membrane electron transport chain; required for electron transfer at the ubiquinol oxidase site of the complex
+S000032944	CDS					YGR183C		7	859260	859063	C		2011-02-03	1996-07-31	
+S000032943	CDS					YGR183C		7	859476	859474	C		2011-02-03	1996-07-31	
+S000032945	intron					YGR183C		7	859473	859261	C		2011-02-03	1996-07-31	
+S000003416	ORF	Verified	YGR184C	UBR1	E3 ubiquitin-protein ligase UBR1|PTR1	chromosome 7	L000002420	7	865753	859901	C		2011-02-03	1996-07-31	E3 ubiquitin ligase (N-recognin); heterodimerizes with Rad6p to recognize and ubiquitinate substrates of the N-end rule pathway; role in endoplasmic reticulum-associated protein degradation (ERAD) in the absence of canonical ER membrane ligases or after stress; major role in targeting misfolded cytosolic proteins for degradation; regulates peptide transport via Cup9p ubiquitination; mutation in human UBR1 causes Johansson-Blizzard Syndrome (JBS)
+S000033034	CDS					YGR184C		7	865753	859901	C		2011-02-03	1996-07-31	
+S000003417	ORF	Verified	YGR185C	TYS1	tyrosine--tRNA ligase TYS1|TyrRS|TTS1	chromosome 7	L000001105	7	867520	866336	C		2011-02-03	1996-07-31	Cytoplasmic tyrosyl-tRNA synthetase; required for cytoplasmic protein synthesis; interacts with positions 34 and 35 of the tRNATyr anticodon; mutations in human ortholog YARS are associated with Charcot-Marie-Tooth (CMT) neuropathies; human ortholog YARS functionally complements the heat sensitivity of a ts allele; protein abundance increases in response to DNA replication stress
+S000033686	CDS					YGR185C		7	867520	866336	C		2011-02-03	1996-07-31	
+S000003418	ORF	Verified	YGR186W	TFG1	transcription factor IIF subunit TFG1|RAP74|SSU71	chromosome 7	L000002594	7	867774	869981	W		2011-02-03	1996-07-31	TFIIF (Transcription Factor II) largest subunit; involved in both transcription initiation and elongation of RNA polymerase II; homologous to human RAP74
+S000033854	CDS					YGR186W		7	867774	869981	W		2011-02-03	1996-07-31	
+S000003419	ORF	Verified	YGR187C	HGH1		chromosome 7	L000003003	7	871416	870232	C		2011-02-03	1996-07-31	Nonessential protein of unknown function; predicted to be involved in ribosome biogenesis; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; similar to mammalian BRP16 (Brain protein 16); relative distribution to the nucleus increases upon DNA replication stress
+S000033880	CDS					YGR187C		7	871416	870232	C		2011-02-03	1996-07-31	
+S000003420	ORF	Verified	YGR188C	BUB1	protein kinase BUB1	chromosome 7	L000000196	7	875109	872044	C	150	2011-02-03	1996-07-31	Protein kinase involved in the cell cycle checkpoint into anaphase; in complex with Mad1p and Bub3p, prevents progression into anaphase in presence of spindle damage; Cdc28p-mediated phosphorylation at Bub1p-T566 is important for degradation in anaphase and adaptation of checkpoint to prolonged mitotic arrest; associates with centromere DNA via Skp1p; involved in Sgo1p relocalization in response to sister kinetochore tension; paralog MAD3 arose from whole genome duplication
+S000034040	CDS					YGR188C		7	875109	872044	C		2011-02-03	1996-07-31	
+S000006976	long_terminal_repeat		YGRWdelta31			chromosome 7		7	875951	876279	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006623	tRNA_gene		tK(CUU)G3			chromosome 7	L000003838	7	876394	876466	W		2011-02-03	2000-05-19	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000029892	noncoding_exon					tK(CUU)G3		7	876394	876466	W		2011-02-03	2000-05-19	
+S000003421	ORF	Verified	YGR189C	CRH1	transglycosylase	chromosome 7	S000007423	7	878192	876669	C		2011-02-03	1996-07-31	Chitin transglycosylase; functions in the transfer of chitin to beta(1-6) and beta(1-3) glucans in the cell wall; similar and functionally redundant to Utr2; localizes to sites of polarized growth; expression induced by cell wall stress
+S000034926	CDS					YGR189C		7	878192	876669	C		2011-02-03	1996-07-31	
+S000006772	tRNA_gene		tW(CCA)G2			chromosome 7	L000003841	7	878815	878710	C		2011-02-03	2000-05-19	Tryptophan tRNA (tRNA-Trp), predicted by tRNAscan-SE analysis
+S000032530	intron					tW(CCA)G2		7	878779	878746	C		2011-02-03	2000-05-19	
+S000032529	noncoding_exon					tW(CCA)G2		7	878745	878710	C		2011-02-03	2000-05-19	
+S000032528	noncoding_exon					tW(CCA)G2		7	878815	878780	C		2011-02-03	2000-05-19	
+S000003423	ORF	Verified	YGR191W	HIP1	histidine permease	chromosome 7	L000000775	7	880420	882231	W	146	2011-02-03	1996-07-31	High-affinity histidine permease; also involved in the transport of manganese ions
+S000036175	CDS					YGR191W		7	880420	882231	W		2011-02-03	1996-07-31	
+S000003422	ORF	Dubious	YGR190C			chromosome 7		7	880661	880296	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene HIP1/YGR191W
+S000035932	CDS					YGR190C		7	880661	880296	C		2011-02-03	1996-07-31	
+S000003424	ORF	Verified	YGR192C	TDH3	glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) TDH3|GAPDH|GPD|SSS2|HSP36|HSP35|GLD1	chromosome 7	L000002274	7	883810	882812	C		2011-02-03	1996-07-31	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH), isozyme 3; involved in glycolysis and gluconeogenesis; tetramer that catalyzes the reaction of glyceraldehyde-3-phosphate to 1,3 bis-phosphoglycerate; detected in the cytoplasm and cell wall; GAPDH-derived antimicrobial peptides secreted by S. cerevisiae are active against a wide variety of wine-related yeasts and bacteria; binds AU-rich RNA
+S000036226	CDS					YGR192C		7	883810	882812	C		2011-02-03	1996-07-31	
+S000003425	ORF	Verified	YGR193C	PDX1		chromosome 7	L000001369	7	885741	884509	C		2011-02-03	1996-07-31	E3-binding protein of the mitochondrial pyruvate dehydrogenase complex; plays a structural role in the complex by binding and positioning dihydrolipoamide dehydrogenase (E3) to the dihydrolipoamide acetyltransferase (E2) core
+S000036958	CDS					YGR193C		7	885741	884509	C		2011-02-03	1996-07-31	
+S000003426	ORF	Verified	YGR194C	XKS1	xylulokinase	chromosome 7		7	887875	886073	C		2011-02-03	1996-07-31	Xylulokinase; converts D-xylulose and ATP to xylulose 5-phosphate and ADP; rate limiting step in fermentation of xylulose; required for xylose fermentation by recombinant S. cerevisiae strains
+S000037017	CDS					YGR194C		7	887875	886073	C		2011-02-03	1996-07-31	
+S000119032	ARS		ARS737		ARSVII-888|ARS731.5	chromosome 7		7	888413	888493			2014-11-18	2014-11-18|2006-10-03	Autonomously Replicating Sequence
+S000119033	ARS_consensus_sequence					ARS737		7	888414	888430	W		2014-11-18	2014-11-18|2006-10-03	
+S000003427	ORF	Verified	YGR195W	SKI6	exosome non-catalytic core subunit SKI6|RRP41|ECM20	chromosome 7	L000003895|L000004426	7	888882	889622	W		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp41p (EXOSC4)
+S000037164	CDS					YGR195W		7	888882	889622	W		2011-02-03	1996-07-31	
+S000003428	ORF	Verified	YGR196C	FYV8		chromosome 7		7	892186	889733	C		2011-02-03	1996-07-31	Protein of unknown function; required for survival upon exposure to K1 killer toxin
+S000037853	CDS					YGR196C		7	892186	889733	C		2011-02-03	1996-07-31	
+S000003429	ORF	Verified	YGR197C	SNG1		chromosome 7	L000002747	7	894140	892497	C		2011-02-03	1996-07-31	Protein involved in resistance to nitrosoguanidine and 6-azauracil; expression is regulated by transcription factors involved in multidrug resistance; SNG1 has a paralog, YJR015W, that arose from the whole genome duplication
+S000029875	CDS					YGR197C		7	894140	892497	C		2011-02-03	1996-07-31	
+S000003430	ORF	Verified	YGR198W	YPP1		chromosome 7		7	894693	897146	W		2011-02-03	1996-07-31	Cargo-transport protein involved in endocytosis; interacts with phosphatidylinositol-4-kinase Stt4p; is required, along with Efr3p, for the assembly and recruitment of multiple copies of the kinase into phosphoinositide kinase (PIK) patches at the plasma membrane; positively regulates Stt4p; GFP-fusion protein localizes to the cytoplasm; YGR198W is an essential gene
+S000030951	CDS					YGR198W		7	894693	897146	W		2011-02-03	1996-07-31	
+S000003431	ORF	Verified	YGR199W	PMT6	dolichyl-phosphate-mannose-protein mannosyltransferase PMT6	chromosome 7	L000004009|L000004020	7	897502	899781	W		2011-02-03	1996-07-31	Protein O-mannosyltransferase; transfers mannose from dolichyl phosphate-D-mannose to protein serine/threonine residues of secretory proteins; reaction is essential for cell wall rigidity; member of a family of mannosyltransferases
+S000031053	CDS					YGR199W		7	897502	899781	W		2011-02-03	1996-07-31	
+S000003432	ORF	Verified	YGR200C	ELP2	Elongator subunit ELP2|KTI3|TOT2	chromosome 7		7	902270	899904	C		2011-02-03	1996-07-31	Subunit of Elongator complex; binds to microtubules via conserved alkaline residues; has two seven-bladed WD40 β propellers; Elongator complex is required for modification of wobble nucleosides in tRNA; target of Kluyveromyces lactis zymocin
+S000036532	CDS					YGR200C		7	902270	899904	C		2011-02-03	1996-07-31	
+S000003433	ORF	Uncharacterized	YGR201C			chromosome 7		7	903197	902520	C		2011-02-03	2003-09-22|1996-07-31	Putative protein of unknown function
+S000036618	CDS					YGR201C		7	903197	902520	C		2011-02-03	2003-09-22|1996-07-31	
+S000003434	ORF	Verified	YGR202C	PCT1	choline-phosphate cytidylyltransferase|CCT1|BSR2	chromosome 7	L000000240	7	904748	903474	C		2011-02-03	1996-07-31	Cholinephosphate cytidylyltransferase; a rate-determining enzyme of the CDP-choline pathway for phosphatidylcholine synthesis, inhibited by Sec14p, activated upon lipid-binding; contains an element within the regulatory domain involved in both silencing and activation of enzymatic activity
+S000036716	CDS					YGR202C		7	904748	903474	C		2011-02-03	1996-07-31	
+S000003435	ORF	Verified	YGR203W	YCH1	phosphatase YCH1	chromosome 7		7	905237	905683	W		2011-02-03	1996-07-31	Phosphatase with sequence similarity to Cdc25p; Arr2p and Mih1p; member of the single-domain rhodanese homology superfamily; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
+S000030650	CDS					YGR203W		7	905237	905683	W		2011-02-03	1996-07-31	
+S000003436	ORF	Verified	YGR204W	ADE3	trifunctional formate-tetrahydrofolate ligase/methenyltetrahydrofolate cyclohydrolase/methylenetetrahydrofolate dehydrogenase ADE3	chromosome 7	L000000033	7	905934	908774	W	159	2011-02-03	1996-07-31	Cytoplasmic trifunctional enzyme C1-tetrahydrofolate synthase; involved in single carbon metabolism and required for biosynthesis of purines, thymidylate, methionine, and histidine; null mutation causes auxotrophy for adenine and histidine
+S000030764	CDS					YGR204W		7	905934	908774	W		2011-02-03	1996-07-31	
+S000028640	ORF	Uncharacterized	YGR204C-A			chromosome 7		7	909174	909061	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032416	CDS					YGR204C-A		7	909174	909061	C		2011-02-03	2003-07-29	
+S000003437	ORF	Verified	YGR205W	TDA10	putative ATP-dependent kinase	chromosome 7		7	909213	910085	W		2011-02-03	1996-07-31	ATP-binding protein of unknown function; crystal structure resembles that of E.coli pantothenate kinase and other small kinases; null mutant is sensitive to expression of the top1-T722A allele
+S000030854	CDS					YGR205W		7	909213	910085	W		2011-02-03	1996-07-31	
+S000003438	ORF	Verified	YGR206W	MVB12	ubiquitin-binding ESCRT-I subunit protein MVB12	chromosome 7		7	910432	910737	W		2011-02-03	1996-07-31	ESCRT-I subunit required to stabilize ESCRT-I core complex oligomers; the ESCRT-I core complex (Stp22p, Vps28p, Srn2p) is involved in ubiquitin-dependent sorting of proteins into the endosome; deletion mutant is sensitive to rapamycin and nystatin
+S000031833	CDS					YGR206W		7	910432	910737	W		2011-02-03	1996-07-31	
+S000003439	ORF	Verified	YGR207C	CIR1		chromosome 7		7	911628	910843	C		2011-02-03	1996-07-31	Mitochondrial protein that interacts with frataxin (Yfh1p); putative ortholog of mammalian electron transfer flavoprotein complex subunit ETF-beta; may have a role in oxidative stress response
+S000031940	CDS					YGR207C		7	911628	910843	C		2011-02-03	1996-07-31	
+S000003440	ORF	Verified	YGR208W	SER2	phosphoserine phosphatase	chromosome 7	L000001866	7	911883	912812	W	168	2011-02-03	1996-07-31	Phosphoserine phosphatase of the phosphoglycerate pathway; involved in serine and glycine biosynthesis, expression is regulated by the available nitrogen source
+S000032117	CDS					YGR208W		7	911883	912812	W		2011-02-03	1996-07-31	
+S000003441	ORF	Verified	YGR209C	TRX2	thioredoxin TRX2|LMA1	chromosome 7	L000002358	7	913227	912913	C	161	2011-02-03	1996-07-31	Cytoplasmic thioredoxin isoenzyme; part of thioredoxin system which protects cells against oxidative and reductive stress; forms LMA1 complex with Pbi2p; acts as a cofactor for Tsa1p; required for ER-Golgi transport and vacuole inheritance; with Trx1p, facilitates mitochondrial import of small Tims Tim9p, Tim10p, Tim13p by maintaining them in reduced form; abundance increases under DNA replication stress; TRX2 has a paralog, TRX1, that arose from the whole genome duplication
+S000032991	CDS					YGR209C		7	913227	912913	C		2011-02-03	1996-07-31	
+S000003442	ORF	Uncharacterized	YGR210C			chromosome 7		7	914738	913503	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000032713	CDS					YGR210C		7	914738	913503	C		2011-02-03	1996-07-31	
+S000003443	ORF	Verified	YGR211W	ZPR1	zinc finger-containing protein ZPR1	chromosome 7	L000004700	7	915241	916701	W		2011-02-03	1996-07-31	Essential protein with two zinc fingers; present in nucleus of growing cells, relocates to cytoplasm in starved cells via a process mediated by Cpr1p; binds translation elongation factor eEF-1 (Tef1p); relative distribution to nucleus increases upon DNA replication stress; human ZPR1 gene can complement yeast by allowing growth during down-regulation of yeast zpr1
+S000032885	CDS					YGR211W		7	915241	916701	W		2011-02-03	1996-07-31	
+S000003444	ORF	Verified	YGR212W	SLI1	N-acetyltransferase	chromosome 7		7	917040	918446	W		2011-02-03	1996-07-31	N-acetyltransferase; confers resistance to the sphingolipid biosynthesis inhibitor myriocin (ISP-1) by converting it into N-acetyl-myriocin, co-operates with Ypk1p in mediating resistance to myriocin
+S000034830	CDS					YGR212W		7	917040	918446	W		2011-02-03	1996-07-31	
+S000003445	ORF	Verified	YGR213C	RTA1		chromosome 7	L000003245	7	919465	918512	C		2011-02-03	1996-07-31	Protein involved in 7-aminocholesterol resistance; has seven potential membrane-spanning regions; expression is induced under both low-heme and low-oxygen conditions; member of the fungal lipid-translocating exporter (LTE) family of protein; RTA1 has a paralog, YLR046C, that arose from the whole genome duplication
+S000034869	CDS					YGR213C		7	919465	918512	C		2011-02-03	1996-07-31	
+S000003446	ORF	Verified	YGR214W	RPS0A	uS2|ribosomal 40S subunit protein S0A|S2|S0A|YST1|NAB1A|NAB1	chromosome 7	L000001226|L000001225	7	920575	921788	W		2011-02-03	1996-07-31	Ribosomal 40S subunit protein S0A; required for maturation of 18S rRNA along with Rps0Bp; deletion of either RPS0 gene reduces growth rate, deletion of both genes is lethal; homologous to human ribosomal protein SA and bacterial S2; RPS0A has a paralog, RPS0B, that arose from the whole genome duplication;
+S000035102	CDS					YGR214W		7	920575	920664	W		2011-02-03	1996-07-31	
+S000035103	CDS					YGR214W		7	921120	921788	W		2011-02-03	1996-07-31	
+S000035104	intron					YGR214W		7	920665	921119	W		2011-02-03	1996-07-31	
+S000003447	ORF	Verified	YGR215W	RSM27	mitochondrial 37S ribosomal protein RSM27	chromosome 7		7	922175	922507	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000035176	CDS					YGR215W		7	922175	922507	W		2011-02-03	1996-07-31	
+S000003448	ORF	Verified	YGR216C	GPI1	phosphatidylinositol N-acetylglucosaminyltransferase	chromosome 7	L000000725	7	924462	922633	C		2011-02-03	1996-07-31	Membrane protein involved in the synthesis of GlcNAc-PI; N-acetylglucosaminyl phosphatidylinositol (GlcNAc-PI) is the first intermediate in the synthesis of glycosylphosphatidylinositol (GPI) anchors; human and mouse GPI1p are functional homologs
+S000035248	CDS					YGR216C		7	924462	922633	C		2011-02-03	1996-07-31	
+S000003449	ORF	Verified	YGR217W	CCH1		chromosome 7	L000003440	7	924696	930815	W		2011-02-03	1996-07-31	Voltage-gated high-affinity calcium channel; involved in calcium influx in response to some environmental stresses as well as exposure to mating pheromones; interacts and partially co-localizes with Mid1p; however, evidence suggests CCH1 is not required for Mid1p function
+S000036194	CDS					YGR217W		7	924696	930815	W		2011-02-03	1996-07-31	
+S000006582	tRNA_gene		tG(GCC)G2			chromosome 7	L000003840	7	931023	930953	C		2011-02-03	2000-05-19	Glycine tRNA (tRNA-Gly), predicted by tRNAscan-SE analysis
+S000037457	noncoding_exon					tG(GCC)G2		7	931023	930953	C		2011-02-03	2000-05-19	
+S000006961	long_terminal_repeat		YGRCtau3			chromosome 7		7	931540	931171	C		2011-02-03	2000-05-19	Ty4 LTR
+S000006977	long_terminal_repeat		YGRWdelta32			chromosome 7		7	931688	932019	W		2011-02-03	2000-05-19	Ty1 LTR
+S000003450	ORF	Verified	YGR218W	CRM1	exportin CRM1|XPO1|KAP124	chromosome 7	L000000420	7	932541	935795	W		2011-02-03	1996-07-31	Major karyopherin; involved in export of proteins, RNAs, and ribosomal subunits from the nucleus; exportin
+S000029874	CDS					YGR218W		7	932541	935795	W		2011-02-03	1996-07-31	
+S000003451	ORF	Dubious	YGR219W			chromosome 7		7	936035	936376	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MRPL9/YGR220C
+S000031776	CDS					YGR219W		7	936035	936376	W		2011-02-03	1996-07-31	
+S000003452	ORF	Verified	YGR220C	MRPL9	mitochondrial 54S ribosomal protein YmL9|YmL9	chromosome 7	L000001163|L000002525	7	936883	936074	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000036227	CDS					YGR220C		7	936883	936074	C		2011-02-03	1996-07-31	
+S000003453	ORF	Verified	YGR221C	TOS2		chromosome 7		7	938992	937124	C		2011-02-03	1996-07-31|2011-02-03	Protein involved in localization of Cdc24p to the site of bud growth; may act as a membrane anchor; localizes to the bud neck and bud tip; potentially phosphorylated by Cdc28p; TOS2 has a paralog, SKG6, that arose from the whole genome duplication
+S000036329	CDS					YGR221C		7	938992	937124	C		2011-02-03	1996-07-31|2011-02-03	
+S000006495	snRNA_gene		snR7-L	SNR7-L	U5L|SNR7	chromosome 7		7	939672	939459	C		2011-02-03	2004-03-30	U5 spliceosomal RNA (U5 snRNA), long form; associated with spliceosome
+S000033299	noncoding_exon					snR7-L		7	939672	939459	C		2011-02-03	2004-03-30	
+S000006496	snRNA_gene		snR7-S	SNR7-S	U5S|SNR7	chromosome 7		7	939672	939494	C		2011-02-03	2004-04-01	U5 spliceosomal RNA (U5 snRNA), short form; derived from SNR7-L by 3' end processing; associated with spliceosome
+S000033320	noncoding_exon					snR7-S		7	939672	939494	C		2011-02-03	2004-04-01	
+S000003454	ORF	Verified	YGR222W	PET54		chromosome 7	L000001391	7	939923	940804	W	174	2011-02-03	1996-07-31	Mitochondrial inner membrane protein; binds to the 5' UTR of the COX3 mRNA to activate its translation together with Pet122p and Pet494p; also binds to the COX1 Group I intron AI5 beta to facilitate exon ligation during splicing
+S000036470	CDS					YGR222W		7	939923	940804	W		2011-02-03	1996-07-31	
+S000003455	ORF	Verified	YGR223C	HSV2		chromosome 7		7	942215	940869	C		2011-02-03	1996-07-31	Phosphatidylinositol 3,5-bisphosphate-binding protein; plays a role in micronucleophagy; belongs to the PROPPIN family of proteins; predicted to fold as a seven-bladed beta-propeller; displays punctate cytoplasmic localization
+S000036479	CDS					YGR223C		7	942215	940869	C		2011-02-03	1996-07-31	
+S000003456	ORF	Verified	YGR224W	AZR1	azole transporter	chromosome 7		7	942806	944647	W		2011-02-03	1996-07-31	Plasma membrane transporter of the major facilitator superfamily; involved in resistance to azole drugs such as ketoconazole and fluconazole
+S000037202	CDS					YGR224W		7	942806	944647	W		2011-02-03	1996-07-31	
+S000003457	ORF	Verified	YGR225W	AMA1	SPO70	chromosome 7	L000004668	7	945145	947019	W		2011-02-03	2000-12-01|1996-07-31|2005-11-29	Activator of meiotic anaphase promoting complex (APC/C); Cdc20p family member; required for initiation of spore wall assembly; required for Clb1p degradation during meiosis; prevents premature assembly of the meiosis I spindle, required for DSB induced prophase I arrest
+S000037306	CDS					YGR225W		7	945145	946327	W		2011-02-03	2000-12-01|1996-07-31	
+S000037307	CDS					YGR225W		7	946421	947019	W		2011-02-03	2000-12-01|2005-11-29	
+S000037308	intron					YGR225W		7	946328	946420	W		2011-02-03	2000-12-01	
+S000003458	ORF	Dubious	YGR226C			chromosome 7		7	947001	946792	C		2011-02-03	1996-07-31|2005-11-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; overlaps significantly with a verified ORF, AMA1/YGR225W
+S000037323	CDS					YGR226C		7	947001	946792	C		2011-02-03	1996-07-31|2005-11-29	
+S000003459	ORF	Verified	YGR227W	DIE2	dolichyl-P-Glc:Glc(2)Man(9)GlcNAc(2)-PP-dolichol alpha-1,2- glucosyltransferase|ALG10	chromosome 7	L000002802	7	947420	948997	W		2011-02-03	1996-07-31|2011-02-03	Dolichyl-phosphoglucose-dependent alpha-1,2-glucosyltransferase; located in the ER; functions in pathway that synthesizes the dolichol-linked oligosaccharide precursor for N-linked protein glycosylation; has a role in regulation of ITR1 and INO1; human homolog ALG10B can complement yeast die2 null mutant
+S000029996	CDS					YGR227W		7	947420	948997	W		2011-02-03	1996-07-31|2011-02-03	
+S000003460	ORF	Dubious	YGR228W			chromosome 7		7	949365	949709	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SMI1/YGR229C
+S000030071	CDS					YGR228W		7	949365	949709	W		2011-02-03	1996-07-31	
+S000003461	ORF	Verified	YGR229C	SMI1	KNR4	chromosome 7	L000000909	7	950899	949382	C		2011-02-03	1996-07-31	Protein involved in the regulation of cell wall synthesis; proposed to be involved in coordinating cell cycle progression with cell wall integrity
+S000030134	CDS					YGR229C		7	950899	949382	C		2011-02-03	1996-07-31	
+S000003462	ORF	Verified	YGR230W	BNS1		chromosome 7	L000004859	7	951894	952307	W		2011-02-03	1996-07-31	Protein of unknown function; overexpression bypasses need for Spo12p, but not required for meiosis; BNS1 has a paralog, SPO12, that arose from the whole genome duplication
+S000032548	CDS					YGR230W		7	951894	952307	W		2011-02-03	1996-07-31	
+S000003463	ORF	Verified	YGR231C	PHB2	prohibitin subunit PHB2	chromosome 7	L000004019	7	953480	952548	C		2011-02-03	2004-07-15|1996-07-31	Subunit of the prohibitin complex (Phb1p-Phb2p); prohibitin is a 1.2 MDa ring-shaped inner mitochondrial membrane chaperone that stabilizes newly synthesized proteins; determinant of replicative life span; involved in mitochondrial segregation; prohibitin deficiency induces a mitochondrial unfolded protein response (mtUPR)
+S000032579	CDS					YGR231C		7	953480	952548	C		2011-02-03	2004-07-15|1996-07-31	
+S000003464	ORF	Verified	YGR232W	NAS6		chromosome 7		7	953960	954646	W		2011-02-03	1996-07-31	Evolutionarily conserved 19S regulatory particle assembly-chaperone; proteasome-interacting protein involved in the assembly of the base subcomplex of the 19S proteasomal regulatory particle (RP); ortholog of human oncoprotein gankyrin, also known as p28, which interacts with the Rb tumor suppressor and CDK4/6
+S000033340	CDS					YGR232W		7	953960	954646	W		2011-02-03	1996-07-31	
+S000003465	ORF	Verified	YGR233C	PHO81	VAC6|phoS	chromosome 7	L000001427|S000029634|L000004050	7	958210	954674	C		2011-02-03	1996-07-31	Cyclin-dependent kinase (CDK) inhibitor; regulates Pho80p-Pho85p and Pcl7p-Pho85p cyclin-CDK complexes in response to phosphate levels; inhibitory activity for Pho80p-Pho85p requires myo-D-inositol heptakisphosphate (IP7) generated by Vip1p; relative distribution to the nucleus increases upon DNA replication stress
+S000033365	CDS					YGR233C		7	958210	954674	C		2011-02-03	1996-07-31	
+S000003466	ORF	Verified	YGR234W	YHB1	flavohemoglobin|YHB4	chromosome 7	L000002510	7	959904	961103	W		2011-02-03	1996-07-31	Nitric oxide oxidoreductase; flavohemoglobin that plays role in oxidative and nitrosative stress responses; protects against nitration of cellular targets and against cell growth inhibition under aerobic or anaerobic conditions; yeast flavohemoglobin Yhb1p and human homolog neuroglobin NGB protect cells against alpha-synuclein cytotoxicity and aggregate formation; protein increases in abundance, relocalizes from nucleus to cytoplasmic foci upon DNA replication stress
+S000033479	CDS					YGR234W		7	959904	961103	W		2011-02-03	1996-07-31	
+S000003467	ORF	Verified	YGR235C	MIC26	MOS2|MCS29|MIO27	chromosome 7		7	962061	961360	C		2011-02-03	1996-07-31	Component of the MICOS complex; MICOS (formerly MINOS or MitOS) is a mitochondrial inner membrane complex that extends into the intermembrane space and has a role in the maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane; Mic26p is a non-essential component of the complex
+S000033513	CDS					YGR235C		7	962061	961360	C		2011-02-03	1996-07-31	
+S000003468	ORF	Verified	YGR236C	SPG1		chromosome 7		7	962817	962530	C		2011-02-03	1996-07-31|2005-11-22	Protein required for high temperature survival during stationary phase; not required for growth on nonfermentable carbon sources; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000033575	CDS					YGR236C		7	962817	962530	C		2011-02-03	1996-07-31|2005-11-22	
+S000003469	ORF	Uncharacterized	YGR237C			chromosome 7		7	965655	963298	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000034450	CDS					YGR237C		7	965655	963298	C		2011-02-03	1996-07-31	
+S000003470	ORF	Verified	YGR238C	KEL2		chromosome 7	L000003593	7	968687	966039	C		2011-02-03	1996-07-31	Protein that negatively regulates mitotic exit; forms a complex with Kel1p and Bud14p that regulates Bnr1p (formin) to affect actin cable assembly, cytokinesis, and polarized growth; functions in a complex with Kel1p, interacts with Tem1p and Lte1p; localizes to regions of polarized growth; potential Cdc28p substrate
+S000034584	CDS					YGR238C		7	968687	966039	C		2011-02-03	1996-07-31	
+S000003471	ORF	Verified	YGR239C	PEX21		chromosome 7	L000004797	7	970053	969187	C		2011-02-03	1996-07-31	Peroxin required for peroxisomal matrix protein targeting; acts on proteins containing the PTS2 targeting sequence; interacts with Pex7p; constitutively expressed; partially redundant with Pex18p; required for import of the Gpd1p-Pnc1p heterodimer in which only Gpd1p has a peroxisomal targeting signal; relative distribution to cytoplasmic foci increases upon DNA replication stress
+S000034676	CDS					YGR239C		7	970053	969187	C		2011-02-03	1996-07-31	
+S000003472	ORF	Verified	YGR240C	PFK1	6-phosphofructokinase subunit alpha	chromosome 7	L000001404	7	973734	970771	C	184	2011-02-03	1996-07-31	Alpha subunit of heterooctameric phosphofructokinase; involved in glycolysis, indispensable for anaerobic growth, activated by fructose-2,6-bisphosphate and AMP, mutation inhibits glucose induction of cell cycle-related genes
+S000036620	CDS					YGR240C		7	973734	970771	C		2011-02-03	1996-07-31	
+S000028551	ORF	Uncharacterized	YGR240C-A			chromosome 7		7	974777	974577	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031237	CDS					YGR240C-A		7	974777	974577	C		2011-02-03	2003-07-29	
+S000003474	ORF	Dubious	YGR242W			chromosome 7		7	976415	976723	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YAP1802/YGR241C
+S000036776	CDS					YGR242W		7	976415	976723	W		2011-02-03	1996-07-31	
+S000003473	ORF	Verified	YGR241C	YAP1802		chromosome 7	L000004199	7	976581	974875	C		2011-02-03	1996-07-31	Protein of the AP180 family, involved in clathrin cage assembly; binds Pan1p and clathrin; YAP1802 has a paralog, YAP1801, that arose from the whole genome duplication
+S000036696	CDS					YGR241C		7	976581	974875	C		2011-02-03	1996-07-31	
+S000003475	ORF	Verified	YGR243W	MPC3	mitochondrial pyruvate carrier|FMP43	chromosome 7		7	977336	977776	W		2011-02-03	1996-07-31	Highly conserved subunit of the mitochondrial pyruvate carrier (MPC); expressed during growth on nonfermentable carbon sources, and heterodimerizes with Mpc1p to form the respiratory isoform of MPC; MPC localizes to the mitochondrial inner membrane and mediates pyruvate uptake; MPC3 paralog, MPC2, heterodimerizes with Mpc1p to form the fermentative MPC isoform; protein abundance increases in response to DNA replication stress
+S000036844	CDS					YGR243W		7	977336	977776	W		2011-02-03	1996-07-31	
+S000118467	ARS		ARS733		ARSVII-978	chromosome 7		7	977728	977976			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000119031	ARS_consensus_sequence					ARS733		7	977905	977891	C		2011-02-03	2006-10-03	
+S000003476	ORF	Verified	YGR244C	LSC2	succinate--CoA ligase (GDP-forming) subunit beta	chromosome 7	L000004592	7	979319	978036	C		2011-02-03	1996-07-31	Beta subunit of succinyl-CoA ligase; succinyl-CoA ligase is a mitochondrial enzyme of the TCA cycle that catalyzes the nucleotide-dependent conversion of succinyl-CoA to succinate
+S000036869	CDS					YGR244C		7	979319	978036	C		2011-02-03	1996-07-31	
+S000003477	ORF	Verified	YGR245C	SDA1		chromosome 7		7	982068	979765	C		2011-02-03	1996-07-31	Protein required for actin organization and passage through Start; highly conserved nuclear protein; required for actin cytoskeleton organization; plays a critical role in G1 events; binds Nap1p; involved in 60S ribosome biogenesis
+S000037596	CDS					YGR245C		7	982068	979765	C		2011-02-03	1996-07-31	
+S000003478	ORF	Verified	YGR246C	BRF1	transcription factor TFIIIB subunit BRF1|TFIIIB70|TDS4|PCF4	chromosome 7	L000000193	7	984272	982482	C		2011-02-03	1996-07-31	TFIIIB B-related factor; one of three subunits of RNA polymerase III transcription initiation factor TFIIIB, binds TFIIIC and TBP and recruits RNA pol III to promoters, amino-terminal half is homologous to TFIIB; mutations in human homolog are associated with autosomal recessive cerebellar-facial-dental syndrome
+S000037668	CDS					YGR246C		7	984272	982482	C		2011-02-03	1996-07-31	
+S000003479	ORF	Verified	YGR247W	CPD1	2',3'-cyclic-nucleotide 3'-phosphodiesterase	chromosome 7		7	984966	985685	W		2011-02-03	1996-07-31	Cyclic nucleotide phosphodiesterase; hydrolyzes ADP-ribose 1'', 2''-cyclic phosphate to ADP-ribose 1''-phosphate; may have a role in tRNA splicing; no detectable phenotype is conferred by null mutation or by overexpression; protein abundance increases in response to DNA replication stress
+S000037753	CDS					YGR247W		7	984966	985685	W		2011-02-03	1996-07-31	
+S000003480	ORF	Verified	YGR248W	SOL4	6-phosphogluconolactonase SOL4	chromosome 7	L000003365	7	985972	986739	W		2011-02-03	1996-07-31	6-phosphogluconolactonase; protein abundance increases in response to DNA replication stress; SOL4 has a paralog, SOL3, that arose from the whole genome duplication
+S000030588	CDS					YGR248W		7	985972	986739	W		2011-02-03	1996-07-31	
+S000003481	ORF	Verified	YGR249W	MGA1		chromosome 7	L000001100	7	988049	989419	W		2011-02-03	1996-07-31	Protein similar to heat shock transcription factor; multicopy suppressor of pseudohyphal growth defects of ammonium permease mutants
+S000030700	CDS					YGR249W		7	988049	989419	W		2011-02-03	1996-07-31	
+S000003482	ORF	Verified	YGR250C	RIE1		chromosome 7		7	993521	991176	C		2011-02-03	1996-07-31	Putative RNA binding protein; localizes to stress granules induced by glucose deprivation; interacts with Rbg1p in a two-hybrid assay; protein abundance increases in response to DNA replication stress
+S000031515	CDS					YGR250C		7	993521	991176	C		2011-02-03	1996-07-31	
+S000003483	ORF	Verified	YGR251W	NOP19	DHI1	chromosome 7		7	995639	996229	W		2011-02-03	1996-07-31	Ribosome biogenesis factor; nucleolar protein associated with pre-rRNA components of the 90S preribosome, required for cleavage of pre-rRNA at A0, A1 and A2 sites; interacts with RNA helicase Dhr2p and RNA helicase-like protein Utp25p; required for incorporation of Utp25p into preribosomes
+S000031667	CDS					YGR251W		7	995639	996229	W		2011-02-03	1996-07-31	
+S000003484	ORF	Verified	YGR252W	GCN5	histone acetyltransferase GCN5|AAS104|KAT2|SWI9|ADA4	chromosome 7	L000000684	7	996869	998188	W		2011-02-03	1996-07-31	Catalytic subunit of ADA and SAGA histone acetyltransferase complexes; modifies N-terminal lysines on histones H2B and H3; acetylates Rsc4p, a subunit of the RSC chromatin-remodeling complex, altering replication stress tolerance; relocalizes to the cytosol in response to hypoxia; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; greater involvement in repression of RNAPII-dependent transcription than in activation
+S000031757	CDS					YGR252W		7	996869	998188	W		2011-02-03	1996-07-31	
+S000003485	ORF	Verified	YGR253C	PUP2	proteasome core particle subunit alpha 5|DOA5	chromosome 7	L000001531	7	999140	998358	C		2011-02-03	1996-07-31	Alpha 5 subunit of the 20S proteasome; involved in ubiquitin-dependent catabolism; human homolog is subunit zeta
+S000031854	CDS					YGR253C		7	999140	998358	C		2011-02-03	1996-07-31	
+S000118468	ARS		ARS734		ARSVII-999	chromosome 7		7	999456	999576			2014-11-18	2014-11-18|2006-08-30|2011-02-03	Autonomously Replicating Sequence
+S000178104	ARS_consensus_sequence					ARS734		7	999504	999520	W		2014-11-18	2014-11-18	
+S000003486	ORF	Verified	YGR254W	ENO1	phosphopyruvate hydratase ENO1|HSP48	chromosome 7	L000000559	7	1000927	1002240	W		2011-02-03	1996-07-31	Enolase I, a phosphopyruvate hydratase; catalyzes conversion of 2-phosphoglycerate to phosphoenolpyruvate during glycolysis and the reverse reaction during gluconeogenesis; expression repressed in response to glucose; protein abundance increases in response to DNA replication stress; N-terminally propionylated in vivo; ENO1 has a paralog, ENO2, that arose from the whole genome duplication
+S000032820	CDS					YGR254W		7	1000927	1002240	W		2011-02-03	1996-07-31	
+S000130168	ARS		ARS735			chromosome 7		7	1002239	1002522			2011-02-03	2009-05-07	Replication origin; identified in multiple array studies, confirmed by plasmid-based recombinational ARS assay
+S000003487	ORF	Verified	YGR255C	COQ6	putative N,N-dimethylaniline monooxygenase COQ6	chromosome 7	L000003876	7	1003962	1002523	C		2011-02-03	1996-07-31	Flavin-dependent monooxygenase involved in ubiquinone biosynthesis; responsible for hydroxylation at position C5 and deamination at C4 during ubiquinone (Coenzyme Q) biosynthesis; localizes to matrix face of mitochondrial inner membrane in a large complex with other ubiquinone biosynthetic enzymes; human homolog COQ6 can complement yeast null mutant and is implicated in steroid-resistant nephrotic syndrome (SRNS)
+S000032856	CDS					YGR255C		7	1003962	1002523	C		2011-02-03	1996-07-31	
+S000006750	tRNA_gene		tT(UGU)G2			chromosome 7	L000003839	7	1004216	1004287	W		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000030915	noncoding_exon					tT(UGU)G2		7	1004216	1004287	W		2011-02-03	2000-05-19	
+S000003488	ORF	Verified	YGR256W	GND2	phosphogluconate dehydrogenase (decarboxylating) GND2	chromosome 7	L000003352	7	1004624	1006102	W		2011-02-03	1996-07-31	6-phosphogluconate dehydrogenase (decarboxylating); catalyzes an NADPH regenerating reaction in the pentose phosphate pathway; required for growth on D-glucono-delta-lactone; GND2 has a paralog, GND1, that arose from the whole genome duplication
+S000033003	CDS					YGR256W		7	1004624	1006102	W		2011-02-03	1996-07-31	
+S000003489	ORF	Verified	YGR257C	MTM1		chromosome 7		7	1007305	1006205	C		2011-02-03	1996-07-31	Mitochondrial protein of the mitochondrial carrier family; high affinity pyridoxal 5'-phosphate (PLP) transporter, important for delivery of PLP cofactor to mitochondrial enzymes; involved in mitochondrial iron homeostasis and in activating mitochondrial Sod2p by facilitating insertion of an essential manganese cofactor
+S000033036	CDS					YGR257C		7	1007305	1006205	C		2011-02-03	1996-07-31	
+S000003490	ORF	Verified	YGR258C	RAD2	ssDNA endodeoxyribonuclease RAD2	chromosome 7	L000001556	7	1010766	1007671	C	192	2011-02-03	1996-07-31	Single-stranded DNA endonuclease; cleaves single-stranded DNA during nucleotide excision repair to excise damaged DNA; subunit of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPG protein
+S000033688	CDS					YGR258C		7	1010766	1007671	C		2011-02-03	1996-07-31	
+S000077075	matrix_attachment_site		ETC4	ETC4		chromosome 7		7	1010927	1010949	W		2014-11-18	2014-11-18	Chromosome-organizing-clamp; tethers chromosomal regions to the nuclear periphery; binds TFIIIC transcription factor but does not recruit RNA Polymerase III; can act as a transcription-blocking insulator or as a heterochromatin barrier element; remains predominantly localized to the nuclear periphery throughout cell cycle; located between divergently transcribed genes RAD2 and TNA1
+S000003492	ORF	Verified	YGR260W	TNA1		chromosome 7		7	1012485	1014089	W		2011-02-03	1996-07-31	High affinity nicotinic acid plasma membrane permease; responsible for uptake of low levels of nicotinic acid; expression of the gene increases in the absence of extracellular nicotinic acid or para-aminobenzoate (PABA)
+S000034815	CDS					YGR260W		7	1012485	1014089	W		2011-02-03	1996-07-31	
+S000003491	ORF	Dubious	YGR259C			chromosome 7		7	1012921	1012481	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF TNA1/YGR260W
+S000033805	CDS					YGR259C		7	1012921	1012481	C		2011-02-03	1996-07-31	
+S000003493	ORF	Verified	YGR261C	APL6	YKS5	chromosome 7	L000003034	7	1016750	1014321	C		2011-02-03	1996-07-31	Beta3-like subunit of the yeast AP-3 complex; functions in transport of alkaline phosphatase to the vacuole via the alternate pathway; exists in both cytosolic and peripherally associated membrane-bound pools
+S000034880	CDS					YGR261C		7	1016750	1014321	C		2011-02-03	1996-07-31	
+S000003494	ORF	Verified	YGR262C	BUD32	serine/threonine protein kinase BUD32|LDB14	chromosome 7		7	1017759	1016974	C		2011-02-03	1996-07-31	Protein kinase; component of the EKC/KEOPS complex with Kae1p, Cgi121p, Pcc1p, and Gon7p; Pyrococcus Bud32 ortholog functions as a P-loop ATPase rather than a protein kinase in the context of the complex; EKC/KEOPS complex is required for t6A tRNA modification and telomeric TG1-3 recombination; may have role in transcription; mutation is functionally complemented by human TP53RK
+S000034994	CDS					YGR262C		7	1017759	1016974	C		2011-02-03	1996-07-31	
+S000003495	ORF	Verified	YGR263C	SAY1	steryl deacetylase	chromosome 7		7	1019241	1017967	C		2011-02-03	1996-07-31	Sterol deacetylase; component of the sterol acetylation/deacetylation cycle along with Atf2p; active both in the endoplasmic reticulum (ER) and in lipid droplets; integral membrane protein with active site in the ER lumen; green fluorescent protein (GFP)-fusion protein localizes to the ER
+S000035935	CDS					YGR263C		7	1019241	1017967	C		2011-02-03	1996-07-31	
+S000003497	ORF	Dubious	YGR265W			chromosome 7		7	1021648	1022058	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MES1/YGR264C, which encodes methionyl-tRNA synthetase
+S000036929	CDS					YGR265W		7	1021648	1022058	W		2011-02-03	1996-07-31	
+S000003496	ORF	Verified	YGR264C	MES1	methionine--tRNA ligase MES1|MetRS|MESI	chromosome 7	L000001075	7	1021853	1019598	C	204	2011-02-03	1996-07-31	Methionyl-tRNA synthetase; forms a complex with glutamyl-tRNA synthetase (Gus1p) and Arc1p, which increases the catalytic efficiency of both tRNA synthetases; also has a role in nuclear export of tRNAs; mutations in human ortholog MARS are associated with pediatric pulmonary alveolar proteinosis
+S000036088	CDS					YGR264C		7	1021853	1019598	C		2011-02-03	1996-07-31	
+S000003498	ORF	Verified	YGR266W			chromosome 7		7	1022656	1024761	W		2011-02-03	1996-07-31	Protein of unknown function; predicted to contain a single transmembrane domain; mutant has increased aneuploidy tolerance; localized to both the mitochondrial outer membrane and the plasma membrane; protein abundance increases in response to DNA replication stress
+S000036991	CDS					YGR266W		7	1022656	1024761	W		2011-02-03	1996-07-31	
+S000003499	ORF	Verified	YGR267C	FOL2	GTP cyclohydrolase I	chromosome 7	L000000621	7	1025735	1025004	C	215	2011-02-03	1996-07-31	GTP-cyclohydrolase I, catalyzes first step in folic acid biosynthesis; human homolog GCH1 is implicated in dopa-responsive dystonia (DRD), and can complement yeast null mutant
+S000037019	CDS					YGR267C		7	1025735	1025004	C		2011-02-03	1996-07-31	
+S000003501	ORF	Dubious	YGR269W			chromosome 7		7	1026636	1026962	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF HUA1/YGR268C
+S000029827	CDS					YGR269W		7	1026636	1026962	W		2011-02-03	1996-07-31	
+S000003500	ORF	Verified	YGR268C	HUA1		chromosome 7		7	1026653	1026057	C		2011-02-03	1996-07-31	Cytoplasmic protein containing a zinc finger domain; sequence similarity to that of Type I J-proteins; computational analysis of large-scale protein-protein interaction data suggests a possible role in actin patch assembly
+S000037084	CDS					YGR268C		7	1026653	1026057	C		2011-02-03	1996-07-31	
+S000003502	ORF	Verified	YGR270W	YTA7		chromosome 7	L000002561	7	1027370	1031509	W		2011-02-03	1996-07-31	Protein that localizes to chromatin; has a role in regulation of histone gene expression; has a bromodomain-like region that interacts with the N-terminal tail of histone H3, and an ATPase domain; relocalizes to the cytosol in response to hypoxia; potentially phosphorylated by Cdc28p
+S000030911	CDS					YGR270W		7	1027370	1031509	W		2011-02-03	1996-07-31	
+S000028641	ORF	Dubious	YGR270C-A			chromosome 7		7	1027600	1027382	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF YTA7/YGR270W
+S000032417	CDS					YGR270C-A		7	1027600	1027382	C		2011-02-03	2003-07-29	
+S000003503	ORF	Verified	YGR271W	SLH1	putative RNA helicase	chromosome 7		7	1031791	1037694	W		2011-02-03	1996-07-31|2011-02-03	Putative RNA helicase related to Ski2p; involved in translation inhibition of non-poly(A) mRNAs; required for repressing propagation of dsRNA viruses
+S000030983	CDS					YGR271W		7	1031791	1037694	W		2011-02-03	1996-07-31|2011-02-03	
+S000007608	ORF	Verified	YGR271C-A	EFG1	YGR272C	chromosome 7		7	1038501	1037800	C		2011-02-03	2001-02-26|2007-12-11	Essential protein required for maturation of 18S rRNA; null mutant is sensitive to hydroxyurea and is delayed in recovering from alpha-factor arrest; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus
+S000037185	CDS					YGR271C-A		7	1038501	1037800	C		2011-02-03	2001-02-26|2007-12-11	
+S000003505	ORF	Uncharacterized	YGR273C		IBI1	chromosome 7		7	1039239	1038715	C		2011-02-03	1996-07-31	Putative protein of unknown function; expression downregulated by treatment with 8-methoxypsoralen plus UVA irradiation; not an essential gene; YGR273C has a paralog, YMR295C, that arose from the whole genome duplication
+S000031075	CDS					YGR273C		7	1039239	1038715	C		2011-02-03	1996-07-31	
+S000003506	ORF	Verified	YGR274C	TAF1	KAT4|TafII145|TafII130|TAF145|TAF130	chromosome 7	L000002748	7	1043095	1039895	C		2011-02-03	1996-07-31|2011-02-03	TFIID subunit, involved in RNA pol II transcription initiation; possesses in vitro histone acetyltransferase activity but its role in vivo appears to be minor; involved in promoter binding and G1/S progression; relocalizes to the cytosol in response to hypoxia
+S000032074	CDS					YGR274C		7	1043095	1039895	C		2011-02-03	1996-07-31|2011-02-03	
+S000003507	ORF	Verified	YGR275W	RTT102		chromosome 7	L000004851	7	1043276	1043749	W		2011-02-03	2003-09-22|1996-07-31	Component of both the SWI/SNF and RSC chromatin remodeling complexes; suggested role in chromosome maintenance; possible weak regulator of Ty1 transposition; protein abundance increases in response to DNA replication stress
+S000032191	CDS					YGR275W		7	1043276	1043749	W		2011-02-03	2003-09-22|1996-07-31	
+S000003508	ORF	Verified	YGR276C	RNH70	RNA82|REX1	chromosome 7	L000004048	7	1045480	1043819	C		2011-02-03	1996-07-31	3'-5' exoribonuclease; required for maturation of 3' ends of 5S rRNA and tRNA-Arg3 from dicistronic transcripts
+S000032221	CDS					YGR276C		7	1045480	1043819	C		2011-02-03	1996-07-31	
+S000003509	ORF	Verified	YGR277C	CAB4	putative pantetheine-phosphate adenylyltransferase	chromosome 7		7	1046561	1045644	C		2011-02-03	1996-07-31	Subunit of the CoA-Synthesizing Protein Complex (CoA-SPC); subunits of this complex are: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p; probable pantetheine-phosphate adenylyltransferase (PPAT); PPAT catalyzes the fourth step in the biosynthesis of coenzyme A from pantothenate; null mutant lethality is complemented by E. coli coaD (encoding PPAT) and by human COASY
+S000032280	CDS					YGR277C		7	1046561	1045644	C		2011-02-03	1996-07-31	
+S000003510	ORF	Verified	YGR278W	CWC22	U2-type spliceosomal complex subunit CWC22	chromosome 7		7	1046731	1048464	W		2011-02-03	1996-07-31	Spliceosome-associated protein that is required for pre-mRNA splicing; necessary for Prp2p function at the first catalytic step of splicing; has similarity to S. pombe Cwf22p; CWC22 is an essential protein
+S000033193	CDS					YGR278W		7	1046731	1048464	W		2011-02-03	1996-07-31	
+S000003511	ORF	Verified	YGR279C	SCW4	putative family 17 glucosidase	chromosome 7	L000004565	7	1049958	1048798	C		2011-02-03	1996-07-31	Cell wall protein with similarity to glucanases; scw4 scw10 double mutants exhibit defects in mating; SCW4 has a paralog, SCW10, that arose from the whole genome duplication
+S000033219	CDS					YGR279C		7	1049958	1048798	C		2011-02-03	1996-07-31	
+S000003512	ORF	Verified	YGR280C	PXR1	telomerase inhibitor|PinX1|GNO1	chromosome 7	S000007659	7	1051725	1050910	C		2011-02-03	1996-07-31	Essential protein involved in rRNA and snoRNA maturation; competes with TLC1 RNA for binding to Est2p, suggesting a role in negative regulation of telomerase; human homolog inhibits telomerase; contains a G-patch RNA interacting domain
+S000035203	CDS					YGR280C		7	1051725	1050910	C		2011-02-03	1996-07-31	
+S000003513	ORF	Verified	YGR281W	YOR1	ATP-binding cassette transporter YOR1|YRS1	chromosome 7	L000003083	7	1052824	1057257	W		2011-02-03	1996-07-31	Plasma membrane ATP-binding cassette (ABC) transporter; multidrug transporter mediates export of many different organic anions including oligomycin; homolog of human cystic fibrosis transmembrane receptor (CFTR)
+S000035335	CDS					YGR281W		7	1052824	1057257	W		2011-02-03	1996-07-31	
+S000003514	ORF	Verified	YGR282C	BGL2	glucan 1,3-beta-glucosidase|SCW9	chromosome 7	L000000175|S000029440|L000004570	7	1058724	1057783	C		2011-02-03	1996-07-31	Endo-beta-1,3-glucanase; major protein of the cell wall, involved in cell wall maintenance; involved in incorporation of newly synthesized mannoprotein molecules into the cell wall
+S000035378	CDS					YGR282C		7	1058724	1057783	C		2011-02-03	1996-07-31	
+S000003515	ORF	Verified	YGR283C		putative methyltransferase	chromosome 7		7	1060040	1059015	C		2011-02-03	1996-07-31	Putative methyltransferase; may interact with ribosomes, based on co-purification experiments; predicted to be involved in ribosome biogenesis; null mutant is resistant to fluconazole; GFP-fusion protein localizes to the nucleolus; YGR283C has a paralog, YMR310C, that arose from the whole genome duplication
+S000035443	CDS					YGR283C		7	1060040	1059015	C		2011-02-03	1996-07-31	
+S000003516	ORF	Verified	YGR284C	ERV29		chromosome 7		7	1061590	1060658	C		2011-02-03	1996-07-31	Protein localized to COPII-coated vesicles; involved in vesicle formation and incorporation of specific secretory cargo; protein abundance increases in response to DNA replication stress
+S000036349	CDS					YGR284C		7	1061590	1060658	C		2011-02-03	1996-07-31	
+S000003517	ORF	Verified	YGR285C	ZUO1	zuotin	chromosome 7	L000002571	7	1063153	1061852	C		2011-02-03	1996-07-31	Ribosome-associated chaperone; zuotin functions in ribosome biogenesis and as a chaperone for nascent polypeptide chains in partnership with Ssz1p and SSb1/2; contains a DnaJ domain and functions as a J-protein partner for Ssb1p and Ssb2p; human gene DNAJC2 can partially complement yeast zuo1 null mutant
+S000036447	CDS					YGR285C		7	1063153	1061852	C		2011-02-03	1996-07-31	
+S000003518	ORF	Verified	YGR286C	BIO2	biotin synthase	chromosome 7	L000000181	7	1064940	1063813	C		2011-02-03	1996-07-31	Biotin synthase; catalyzes the conversion of dethiobiotin to biotin, which is the last step of the biotin biosynthesis pathway; complements E. coli bioB mutant
+S000036536	CDS					YGR286C		7	1064940	1063813	C		2011-02-03	1996-07-31	
+S000003519	ORF	Verified	YGR287C	IMA1	oligo-1,6-glucosidase IMA1	chromosome 7		7	1068991	1067222	C		2011-02-03	1996-07-31	Major isomaltase (alpha-1,6-glucosidase/alpha-methylglucosidase); required for isomaltose utilization; preferred specificity for isomaltose, alpha-methylglucoside, and palatinose, but also exhibits alpha-1,2 glucosidase activity on sucrose and kojibiose, and can cleave the 1,3-alpha linkage of nigerose and turanose and the alpha-1,5 linkage of leucrose in vitro; member of the IMA isomaltase family
+S000036609	CDS					YGR287C		7	1068991	1067222	C		2011-02-03	1996-07-31	
+S000003520	ORF	Verified	YGR288W	MAL13	transcription factor MAL13|MALR	chromosome 7	L000001010	7	1070293	1071714	W		2011-02-03	1996-07-31	MAL-activator protein; part of complex locus MAL1; nonfunctional in genomic reference strain S288C
+S000037379	CDS					YGR288W		7	1070293	1071714	W		2011-02-03	1996-07-31	
+S000003522	ORF	Dubious	YGR290W			chromosome 7		7	1075482	1075925	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; putative HLH protein; partially overlaps the verified ORF MAL11/YGR289C (a high-affinity maltose transporter)
+S000030534	CDS					YGR290W		7	1075482	1075925	W		2011-02-03	1996-07-31	
+S000003521	ORF	Verified	YGR289C	MAL11	alpha-glucoside permease|MALT|AGT1	chromosome 7	L000002978	7	1075813	1073963	C		2011-02-03	1996-07-31	High-affinity maltose transporter (alpha-glucoside transporter); inducible; encoded in the MAL1 complex locus; broad substrate specificity that includes maltotriose; required for isomaltose utilization
+S000037432	CDS					YGR289C		7	1075813	1073963	C		2011-02-03	1996-07-31	
+S000003523	ORF	Dubious	YGR291C			chromosome 7		7	1076504	1076283	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030599	CDS					YGR291C		7	1076504	1076283	C		2011-02-03	1996-07-31	
+S000003524	ORF	Verified	YGR292W	MAL12	alpha-glucosidase MAL12|MALS	chromosome 7	L000001009	7	1076599	1078353	W	226	2011-02-03	1996-07-31	Maltase (alpha-D-glucosidase); inducible protein involved in maltose catabolism; encoded in the MAL1 complex locus; hydrolyzes the disaccharides maltose, turanose, maltotriose, and sucrose
+S000030723	CDS					YGR292W		7	1076599	1078353	W		2011-02-03	1996-07-31	
+S000003526	ORF	Verified	YGR294W	PAU12	seripauperin PAU12	chromosome 7		7	1080306	1080668	W		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP fusion protein localizes to both the endoplasmic reticulum and vacuole
+S000031646	CDS					YGR294W		7	1080306	1080668	W		2011-02-03	1996-07-31	
+S000003525	ORF	Dubious	YGR293C			chromosome 7		7	1080346	1079885	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YGR294W
+S000030754	CDS					YGR293C		7	1080346	1079885	C		2011-02-03	1996-07-31	
+S000003527	ORF	Verified	YGR295C	COS6		chromosome 7	L000004064	7	1082729	1081584	C		2011-02-03	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000031677	CDS					YGR295C		7	1082729	1081584	C		2011-02-03	1996-07-31	
+S000028960	telomere		TEL07R			chromosome 7		7	1083635	1090940	W	231	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome VII; annotated components include an X element core sequence, X element combinatorial repeats, and a long Y' element; TEL07R does have telomeric repeats (TEL07R-TR), but they are missing from the genome annotation due to difficulties encountered during sequencing and/or assembly
+S000028961	X_element					TEL07R		7	1083635	1084092	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome VII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028962	X_element_combinatorial_repeat					TEL07R		7	1084093	1084346	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr VII; contains repeats of the D, C, and B types; formerly called SubTelomeric Repeats
+S000028963	Y_prime_element					TEL07R		7	1084347	1090940	W		2011-02-03	2003-09-09	Telomeric long Y' element on the right arm of Chromosome VII; contains an ARS consensus sequence, a region of 36-bp repeats, and three ORFs (YRF1-3/YGR296W, YGR296C-A, YGR296C-B)
+S000130170	ARS		ARS736			chromosome 7		7	1083795	1084863			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000003528	ORF	Verified	YGR296W	YRF1-3	Y' element ATP-dependent helicase protein 1 copy 3|YRF1	chromosome 7		7	1084864	1090591	W		2011-02-03	1996-07-31	Helicase encoded by the Y' element of subtelomeric regions; highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
+S000031882	CDS					YGR296W		7	1084864	1084882	W		2011-02-03	1996-07-31	
+S000031883	CDS					YGR296W		7	1085031	1090591	W		2011-02-03	1996-07-31	
+S000031884	intron					YGR296W		7	1084883	1085030	W		2011-02-03	1996-07-31	
+S000028642	ORF	Dubious	YGR296C-A			chromosome 7		7	1089445	1088870	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps TEL07R
+S000032418	CDS					YGR296C-A		7	1089445	1088870	C		2011-02-03	2003-07-29	
+S000028643	ORF	Dubious	YGR296C-B			chromosome 7		7	1090228	1089746	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; contained completely within TEL07R
+S000032419	CDS					YGR296C-B		7	1090228	1089746	C		2011-02-03	2003-07-29	
+S000028644	ORF	Dubious	YHL050W-A			chromosome 8		8	811	1293	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032420	CDS					YHL050W-A		8	811	1293	W		2003-07-29	2003-07-29	
+S000001042	ORF	Uncharacterized	YHL050C			chromosome 8		8	3311	445	C		2011-02-03	1996-07-31|2011-02-03	Putative protein of unknown function; potential Cdc28p substrate
+S000030583	CDS					YHL050C		8	1897	445	C		1996-07-31	1996-07-31	
+S000030582	CDS					YHL050C		8	3311	2671	C		2011-02-03	1996-07-31	
+S000030584	intron					YHL050C		8	2670	1898	C		2011-02-03	1996-07-31|2011-02-03	
+S000001041	ORF	Uncharacterized	YHL049C			chromosome 8		8	4541	3726	C		2011-02-03	1996-07-31	Putative protein of unknown function
+S000031013	CDS					YHL049C		8	4541	3726	C		2011-02-03	1996-07-31	
+S000130145	ARS		ARS801			chromosome 8		8	5471	6401			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000028891	telomere		TEL08L			chromosome 8		8	5505	1	C	-40	2011-02-03	2003-09-09|2011-02-03	Telomeric region on the left arm of Chromosome VIII; composed of an X element core sequence, an X element combinatorial repeat, a short Y' element, and a short terminal stretch of telomeric repeats
+S000028892	telomeric_repeat					TEL08L		8	34	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome VIII
+S000028893	X_element					TEL08L		8	5505	5052	C		2011-02-03	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome VIII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028894	X_element_combinatorial_repeat					TEL08L		8	5051	4952	C		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr VIII; contains a D-type repeat; formerly called SubTelomeric Repeats
+S000028895	Y_prime_element					TEL08L		8	4951	35	C		2011-02-03	2003-09-09|2011-02-03	Telomeric short Y' element on the left arm of Chromosome VIII; contains an ARS consensus sequence, a region of 36-bp repeats, and three ORFs (YHL049C, YHL050C, YHL050W-A)
+S000028829	ORF	Uncharacterized	YHL048C-A			chromosome 8		8	5797	5663	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000033659	CDS					YHL048C-A		8	5797	5663	C		2011-02-03	2003-07-29	
+S000001040	ORF	Verified	YHL048W	COS8		chromosome 8	L000004066	8	6401	7546	W		2011-02-03	1996-07-31	Endosomal protein involved in turnover of plasma membrane proteins; member of the DUP380 subfamily of conserved, often subtelomeric COS genes; required for the multivesicular vesicle body sorting pathway that internalizes plasma membrane proteins for degradation; Cos proteins provide ubiquitin in trans for nonubiquitinated cargo proteins
+S000030997	CDS					YHL048W		8	6401	7546	W		2011-02-03	1996-07-31	
+S000118356	ARS		ARS802		ARSVIII-8	chromosome 8		8	7702	7767			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178105	ARS_consensus_sequence					ARS802		8	7755	7739	C		2014-11-18	2014-11-18	
+S000006986	long_terminal_repeat		YHLComega1			chromosome 8		8	8225	7994	C		2011-02-03	2000-05-19	Ty5 LTR
+S000028775	ORF	Dubious	YHL046W-A			chromosome 8		8	9981	10307	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF ARN2/YHL047C
+S000033493	CDS					YHL046W-A		8	9981	10307	W		2011-02-03	2003-07-29	
+S000001039	ORF	Verified	YHL047C	ARN2	siderophore transporter|TAF1	chromosome 8		8	10213	8351	C		2011-02-03	1996-07-31|2011-02-03	Transporter; member of the ARN family of transporters that specifically recognize siderophore-iron chelates; responsible for uptake of iron bound to the siderophore triacetylfusarinine C
+S000029944	CDS					YHL047C		8	10213	8351	C		2011-02-03	1996-07-31|2011-02-03	
+S000001038	ORF	Verified	YHL046C	PAU13	seripauperin PAU13	chromosome 8		8	12285	11923	C		2011-02-03	1996-07-31	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; expression is induced after ethanol shock; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000029841	CDS					YHL046C		8	12285	11923	C		2011-02-03	1996-07-31	
+S000001037	ORF	Dubious	YHL045W			chromosome 8		8	12502	12849	W		2011-02-03	1996-07-31	Putative protein of unknown function; not an essential gene
+S000037882	CDS					YHL045W		8	12502	12849	W		2011-02-03	1996-07-31	
+S000001036	ORF	Uncharacterized	YHL044W		DUP240 family protein	chromosome 8		8	13565	14272	W		2011-02-03	1996-07-31	Putative integral membrane protein; member of DUP240 gene family; green fluorescent protein (GFP)-fusion protein localizes to the plasma membrane in a punctate pattern
+S000037802	CDS					YHL044W		8	13565	14272	W		2011-02-03	1996-07-31	
+S000001035	ORF	Verified	YHL043W	ECM34		chromosome 8	L000003903	8	14901	15413	W		2011-02-03	1996-07-31	Protein of unknown function; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins; SWAT-GFP, seamless-GFP and mCherry C-terminal fusion proteins localize to the cytosol
+S000035918	CDS					YHL043W		8	14901	15413	W		2011-02-03	1996-07-31	
+S000001034	ORF	Uncharacterized	YHL042W			chromosome 8		8	15667	16119	W		2011-02-03	1996-07-31	Protein of unknown function; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins; SWAT-GFP and mCherry fusion proteins localize to the vacuole
+S000035803	CDS					YHL042W		8	15667	16119	W		2011-02-03	1996-07-31	
+S000001033	ORF	Dubious	YHL041W			chromosome 8		8	17392	17841	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035678	CDS					YHL041W		8	17392	17841	W		2011-02-03	1996-07-31	
+S000001032	ORF	Verified	YHL040C	ARN1	siderophore transporter	chromosome 8		8	20971	19088	C		2011-02-03	1996-07-31	ARN family transporter for siderophore-iron chelates; responsible for uptake of iron bound to ferrirubin, ferrirhodin, and related siderophores; protein increases in abundance and relocalizes to the vacuole upon DNA replication stress
+S000034609	CDS					YHL040C		8	20971	19088	C		2011-02-03	1996-07-31	
+S000001031	ORF	Verified	YHL039W	EFM1	protein-lysine N-methyltransferase	chromosome 8		8	21783	23540	W		2011-02-03	1996-07-31	Lysine methyltransferase; involved in the monomethylation of eEF1A (Tef1p/Tef2p); SET-domain family member; predicted involvement in ribosome biogenesis; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
+S000036027	CDS					YHL039W		8	21783	23540	W		2011-02-03	1996-07-31	
+S000001030	ORF	Verified	YHL038C	CBP2		chromosome 8	L000000225	8	25509	23617	C		2011-02-03	1996-07-31	Required for splicing of the group I intron bI5 of the COB pre-mRNA; nuclear-encoded mitochondrial protein that binds to the RNA to promote splicing; also involved in but not essential for splicing of the COB bI2 intron and the intron in the 21S rRNA gene
+S000035079	CDS					YHL038C		8	25509	23617	C		2011-02-03	1996-07-31	
+S000001029	ORF	Dubious	YHL037C			chromosome 8		8	26179	25778	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034940	CDS					YHL037C		8	26179	25778	C		2011-02-03	1996-07-31|2011-02-03	
+S000001028	ORF	Verified	YHL036W	MUP3		chromosome 8	L000003357	8	26241	27881	W		2011-02-03	1996-07-31	Low affinity methionine permease; similar to Mup1p
+S000034885	CDS					YHL036W		8	26241	27881	W		2011-02-03	1996-07-31	
+S000001027	ORF	Verified	YHL035C	VMR1	putative ATP-binding cassette multidrug transporter VMR1	chromosome 8		8	32756	27978	C		2011-02-03	1996-07-31	Vacuolar membrane protein; involved in multiple drug resistance and metal sensitivity; ATP-binding cassette (ABC) family member involved in drug transport; potential Cdc28p substrate; induced under respiratory conditions; VMR1 has a paralog, YBT1, that arose from the whole genome duplication
+S000033937	CDS					YHL035C		8	32756	27978	C		2011-02-03	1996-07-31	
+S000028774	ORF	Dubious	YHL034W-A			chromosome 8		8	33176	33637	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF SBP1/YHL034C
+S000033492	CDS					YHL034W-A		8	33176	33637	W		2011-02-03	2003-07-29	
+S000001026	ORF	Verified	YHL034C	SBP1	SSB1|SSBR1	chromosome 8	L000002628|L000002076	8	34077	33193	C		2011-02-03	1996-07-31	Protein that binds eIF4G and has a role in repression of translation; has an RGG motif; found in cytoplasmic P bodies; binds to mRNAs under glucose starvation stress, most often in the 5' UTR; found associated with small nucleolar RNAs snR10 and snR11; SBP1 has a paralog, RNP1, that arose from the whole genome duplication
+S000033834	CDS					YHL034C		8	34077	33193	C		2011-02-03	1996-07-31	
+S000001025	ORF	Verified	YHL033C	RPL8A	eL8|ribosomal 60S subunit protein L8A|L8e|rp6|YL5|L8A|L4A|MAK7	chromosome 8	L000000981|L000001704	8	36025	35255	C	-38	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L8A; required for processing of 27SA3 pre-rRNA to 27SB pre-rRNA during assembly of large ribosomal subunit; depletion leads to a turnover of pre-rRNA; L8 binds to Domain I of 25S and 5.8 S rRNAs; mutation results in decreased amounts of free 60S subunits; homologous to mammalian ribosomal protein L7A, no bacterial homolog; RPL8A has a paralog, RPL8B, that arose from the whole genome duplication
+S000033669	CDS					YHL033C		8	36025	35255	C		2011-02-03	1996-07-31	
+S000001024	ORF	Verified	YHL032C	GUT1	glycerol kinase	chromosome 8	L000000746	8	38508	36379	C		2011-02-03	1996-07-31	Glycerol kinase; converts glycerol to glycerol-3-phosphate; glucose repression of expression is mediated by Adr1p and Ino2p-Ino4p; derepression of expression on non-fermentable carbon sources is mediated by Opi1p and Rsf1p
+S000030379	CDS					YHL032C		8	38508	36379	C		2011-02-03	1996-07-31	
+S000028773	ORF	Dubious	YHL030W-A			chromosome 8		8	39074	39535	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene GOS1/YHL031C
+S000033490	CDS					YHL030W-A		8	39074	39535	W		2011-02-03	2003-07-29	
+S000001023	ORF	Verified	YHL031C	GOS1		chromosome 8	L000004085	8	39486	38815	C		2011-02-03	1996-07-31	v-SNARE protein involved in Golgi transport; homolog of the mammalian protein GOS-28/GS28
+S000030199	CDS					YHL031C		8	39486	38815	C		2011-02-03	1996-07-31	
+S000001022	ORF	Verified	YHL030W	ECM29		chromosome 8	L000003899	8	40084	45690	W		2011-02-03	1996-07-31	Scaffold protein; assists in association of the proteasome core particle with the regulatory particle; inhibits proteasomal ATPase activity; degraded by the mature proteasome after assembly; contains HEAT-like repeats; protein increases in abundance and relocalizes from nucleus to cytoplasm upon DNA replication stress
+S000030143	CDS					YHL030W		8	40084	45690	W		2011-02-03	1996-07-31	
+S000001021	ORF	Uncharacterized	YHL029C	OCA5		chromosome 8		8	47968	45929	C		2011-02-03	1996-07-31	Cytoplasmic protein required for replication of Brome mosaic virus; S. cerevisiae is a model system for studying replication of positive-strand RNA viruses in their natural hosts
+S000030645	CDS					YHL029C		8	47968	45929	C		2011-02-03	1996-07-31	
+S000001020	ORF	Verified	YHL028W	WSC4	YFW1|YHC8	chromosome 8	L000004219	8	48763	50580	W		2011-02-03	1996-07-31	Endoplasmic reticulum (ER) membrane protein; involved in the translocation of soluble secretory proteins and insertion of membrane proteins into the ER membrane; may also have a role in the stress response but has only partial functional overlap with WSC1-3
+S000030604	CDS					YHL028W		8	48763	50580	W		2011-02-03	1996-07-31	
+S000001019	ORF	Verified	YHL027W	RIM101	alkaline-responsive transcriptional regulator RIM101|RIM1	chromosome 8	L000002818	8	51111	52988	W		2011-02-03	1996-07-31	Cys2His2 zinc-finger transcriptional repressor; involved in alkaline responsive gene repression as part of adaptation to alkaline conditions; involved in cell wall assembly; required for alkaline pH-stimulated haploid invasive growth and sporulation; activated by alkaline-dependent proteolytic processing which results in removal of the C-terminal tail; similar to A. nidulans PacC
+S000030530	CDS					YHL027W		8	51111	52988	W		2011-02-03	1996-07-31	
+S000001018	ORF	Uncharacterized	YHL026C			chromosome 8		8	54166	53219	C		2011-02-03	1996-07-31|2005-11-07	Putative protein of unknown function; transcriptionally regulated by Upc2p via an upstream sterol response element; SWAT-GFP fusion protein localizes to the cell periphery, while mCherry fusion localizes to both the cell periphery and vacuole; YHL026C is not an essential gene; in 2005 the start site was moved 141 nt upstream (see Locus History)
+S000037665	CDS					YHL026C		8	54166	53219	C		2011-02-03	1996-07-31|2005-11-07	
+S000001017	ORF	Verified	YHL025W	SNF6		chromosome 8	L000001949	8	54851	55849	W		2011-02-03	1996-07-31	Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; functions interdependently in transcriptional activation with Snf2p and Snf5p; relocates to the cytosol under hypoxic conditions
+S000037635	CDS					YHL025W		8	54851	55849	W		2011-02-03	1996-07-31	
+S000001016	ORF	Verified	YHL024W	RIM4		chromosome 8	L000004288|L000004795	8	56649	58790	W		2011-02-03	1996-07-31	Putative RNA-binding protein; required for the expression of early and middle sporulation genes
+S000037557	CDS					YHL024W		8	56649	58790	W		2011-02-03	1996-07-31	
+S000001015	ORF	Verified	YHL023C	NPR3	RMD11	chromosome 8		8	62563	59123	C		2011-02-03	1996-07-31	Subunit of the Iml1p/SEACIT complex; SEACIT (Iml1p-Npr2p-Npr3p) is a subcomplex of SEAC, a coatomer-related complex that associates dynamically with the vacuole; Npr3p may have a structural or regulatory role, supporting Iml1p function as a GAP for the Rag family GTPase Gtr1p, and leading to inhibition of TORC1 signaling in response to amino acid deprivation; SEACIT is required for non-nitrogen-starvation-induced autophagy; null mutant has meiotic defects; human NPRL3 homolog
+S000037421	CDS					YHL023C		8	62563	59123	C		2011-02-03	1996-07-31	
+S000006597	tRNA_gene		tH(GUG)H			chromosome 8	L000003855	8	62755	62826	W		2011-02-03	2000-05-19	Histidine tRNA (tRNA-His), predicted by tRNAscan-SE analysis
+S000033884	noncoding_exon					tH(GUG)H		8	62755	62826	W		2011-02-03	2000-05-19	
+S000001014	ORF	Verified	YHL022C	SPO11		chromosome 8	L000002002	8	64157	62961	C	-23	2011-02-03	1996-07-31	Meiosis-specific protein that initiates meiotic recombination; initiates meiotic recombination by catalyzing the formation of double-strand breaks in DNA via a transesterification reaction; required for homologous chromosome pairing and synaptonemal complex formation
+S000031919	CDS					YHL022C		8	64157	62961	C		2011-02-03	1996-07-31	
+S000114849	ARS		ARS805	ARS805	ARSVIII-64|SPO11 ARS	chromosome 8		8	64296	64371			2014-11-18	2014-11-18|2006-04-13|2006-09-07|2011-02-03	Autonomously Replicating Sequence
+S000178106	ARS_consensus_sequence					ARS805		8	64299	64315	W		2014-11-18	2014-11-18	
+S000001013	ORF	Verified	YHL021C	AIM17	FMP12	chromosome 8		8	65859	64462	C		2011-02-03	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays reduced frequency of mitochondrial genome loss
+S000031775	CDS					YHL021C		8	65859	64462	C		2011-02-03	1996-07-31	
+S000001012	ORF	Verified	YHL020C	OPI1	transcriptional regulator OPI1	chromosome 8	L000001303	8	67456	66242	C		2011-02-03	1996-07-31	Transcriptional regulator of a variety of genes; phosphorylation by protein kinase A stimulates Opi1p function in negative regulation of phospholipid biosynthetic genes; involved in telomere maintenance; null exhibits disrupted mitochondrial metabolism and low cardiolipin content, strongly correlated with overproduction of inositol; binds to phosphatidic acid
+S000029857	CDS					YHL020C		8	67456	66242	C		2011-02-03	1996-07-31	
+S000028772	ORF	Dubious	YHL019W-A			chromosome 8		8	67711	68304	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene APM2/YHL019C
+S000033486	CDS					YHL019W-A		8	67711	68304	W		2011-02-03	2003-07-29	
+S000001011	ORF	Verified	YHL019C	APM2		chromosome 8	L000000095	8	69548	67731	C		2011-02-03	1996-07-31	Protein of unknown function; homologous to the medium chain of mammalian clathrin-associated protein complex; involved in vesicular transport
+S000035353	CDS					YHL019C		8	69548	67731	C		2011-02-03	1996-07-31	
+S000001010	ORF	Uncharacterized	YHL018W		4a-hydroxytetrahydrobiopterin dehydratase	chromosome 8		8	69708	70070	W		2011-02-03	1996-07-31	Putative 4a-hydroxytetrahydrobiopterin dehydratase; green fluorescent protein (GFP)-fusion protein localizes to mitochondria and is induced in response to the DNA-damaging agent MMS
+S000035323	CDS					YHL018W		8	69708	70070	W		2011-02-03	1996-07-31	
+S000001009	ORF	Uncharacterized	YHL017W			chromosome 8		8	70276	71874	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein co-localizes with clathrin-coated vesicles; YHL017W has a paralog, PTM1, that arose from the whole genome duplication
+S000035245	CDS					YHL017W		8	70276	71874	W		2011-02-03	1996-07-31	
+S000001008	ORF	Verified	YHL016C	DUR3		chromosome 8	L000000534	8	74244	72037	C	-13	2011-02-03	1996-07-31	Plasma membrane transporter for both urea and polyamines; expression is highly sensitive to nitrogen catabolite repression and induced by allophanate, the last intermediate of the allantoin degradative pathway
+S000034197	CDS					YHL016C		8	74244	72037	C		2011-02-03	1996-07-31	
+S000028828	ORF	Uncharacterized	YHL015W-A			chromosome 8		8	74699	74782	W		2011-02-03	2003-07-29	Putative protein of unknown function
+S000033654	CDS					YHL015W-A		8	74699	74782	W		2011-02-03	2003-07-29	
+S000001007	ORF	Verified	YHL015W	RPS20	uS10|ribosomal 40S subunit protein S20|S10|URP2	chromosome 8	L000002442	8	75412	75777	W		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; overproduction suppresses mutations affecting RNA polymerase III-dependent transcription; homologous to mammalian ribosomal protein S20 and bacterial S10
+S000034165	CDS					YHL015W		8	75412	75777	W		2011-02-03	1996-07-31	
+S000001006	ORF	Verified	YHL014C	YLF2	YLF1	chromosome 8	L000002519	8	77314	76097	C		2011-02-03	1996-07-31	Protein of unknown function; has weak similarity to E. coli GTP-binding protein gtp1; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000034003	CDS					YHL014C		8	77314	76097	C		2011-02-03	1996-07-31	
+S000001005	ORF	Verified	YHL013C	OTU2		chromosome 8		8	78353	77430	C		2011-02-03	1996-07-31	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; member of the ovarian tumor-like (OTU) superfamily of predicted cysteine proteases; shows cytoplasmic localization; protein abundance increases in response to DNA replication stress
+S000033190	CDS					YHL013C		8	78353	77430	C		2011-02-03	1996-07-31	
+S000001004	ORF	Uncharacterized	YHL012W		UTP--glucose-1-phosphate uridylyltransferase	chromosome 8		8	78936	80417	W		2011-02-03	1996-07-31	Putative UTP glucose-1-phosphate uridylyltransferase; YHL012W has a paralog, UGP1, that arose from the whole genome duplication
+S000033163	CDS					YHL012W		8	78936	80417	W		2011-02-03	1996-07-31	
+S000001003	ORF	Verified	YHL011C	PRS3	ribose phosphate diphosphokinase subunit PRS3	chromosome 8	L000001514	8	81616	80654	C		2011-02-03	1996-07-31	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase; synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes
+S000033025	CDS					YHL011C		8	81616	80654	C		2011-02-03	1996-07-31	
+S000001002	ORF	Verified	YHL010C	ETP1	BRP2	chromosome 8		8	83721	81964	C		2011-02-03	1996-07-31	Protein of unknown function required for growth on ethanol; contains a zinc finger region and has homology to human BRAP2, which is a cytoplasmic protein that binds nuclear localization sequences
+S000032099	CDS					YHL010C		8	83721	81964	C		2011-02-03	1996-07-31	
+S000001001	ORF	Verified	YHL009C	YAP3		chromosome 8	L000004382	8	85060	84068	C		2011-02-03	1996-07-31	Basic leucine zipper (bZIP) transcription factor
+S000030991	CDS					YHL009C		8	85060	84068	C		2011-02-03	1996-07-31	
+S000006758	tRNA_gene		tV(AAC)H			chromosome 8	L000003865	8	85371	85298	C		2011-02-03	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000032130	noncoding_exon					tV(AAC)H		8	85371	85298	C		2011-02-03	2000-05-19	
+S000006987	long_terminal_repeat		YHLCsigma1			chromosome 8		8	85538	85388	C		2011-02-03	2000-05-19	Ty3 LTR
+S000006989	long_terminal_repeat		YHLWtau1			chromosome 8		8	85539	85909	W		2011-02-03	2000-05-19	Ty4 LTR
+S000006991	LTR_retrotransposon		YHLWTy4-1		Ty4	chromosome 8		8	85539	91761	W		2011-02-03	2000-05-19	Ty4 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007371	transposable_element_gene		YHL009W-A		gag protein	chromosome 8		8	85909	87150	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000032880	CDS					YHL009W-A		8	85909	87150	W		2011-02-03	1999-07-17	
+S000007372	transposable_element_gene		YHL009W-B		gag-pol fusion protein	chromosome 8	S000029015	8	85909	91318	W		2011-02-03	1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000032882	CDS					YHL009W-B		8	85909	86994	W		2011-02-03	1999-07-17	
+S000032883	CDS					YHL009W-B		8	86996	91318	W		2011-02-03	1999-07-17	
+S000032884	plus_1_translational_frameshift					YHL009W-B		8	86995	86995	W		2011-02-03	1999-07-17	
+S000006990	long_terminal_repeat		YHLWtau2			chromosome 8		8	91391	91761	W		2011-02-03	2000-05-19	Ty4 LTR
+S000006985	long_terminal_repeat		YHLCdelta1			chromosome 8		8	92099	91772	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006988	long_terminal_repeat		YHLWdelta2			chromosome 8		8	92240	92390	W		2011-02-03	2000-05-19	Ty1 LTR
+S000001000	ORF	Uncharacterized	YHL008C			chromosome 8		8	94510	92627	C		2011-02-03	1996-07-31	Putative protein of unknown function; may be involved in the uptake of chloride ions; does not appear to be involved in monocarboxylic acid transport; green fluorescent protein (GFP)-fusion protein localizes to the vacuole
+S000030923	CDS					YHL008C		8	94510	92627	C		2011-02-03	1996-07-31	
+S000028771	ORF	Dubious	YHL006W-A			chromosome 8		8	97732	98085	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF STE20/YHL007C
+S000033485	CDS					YHL006W-A		8	97732	98085	W		2011-02-03	2003-07-29	
+S000000999	ORF	Verified	YHL007C	STE20	mitogen-activated protein kinase kinase kinase kinase STE20	chromosome 8	L000002123	8	97937	95118	C		2011-02-03	1996-07-31	Cdc42p-activated signal transducing kinase; involved in pheromone response, pseudohyphal/invasive growth, vacuole inheritance, down-regulation of sterol uptake; GBB motif binds Ste4p; member of the PAK (p21-activated kinase) family
+S000030840	CDS					YHL007C		8	97937	95118	C		2011-02-03	1996-07-31	
+S000000998	ORF	Verified	YHL006C	SHU1		chromosome 8		8	98795	98343	C		2011-02-03	2004-01-29|1996-07-31	Component of Shu complex (aka PCSS complex); Shu complex also includes Psy3, Csm2, Shu2, and promotes error-free DNA repair, mediates inhibition of Srs2p function; essential for promoting the establishment of homolog bias during meiotic homologous recombination; promotes both crossover (CO) and non-crossover (NCO) pathways of meiotic recombination and formation of Rad51p filaments
+S000029837	CDS					YHL006C		8	98795	98343	C		2011-02-03	2004-01-29|1996-07-31	
+S000000996	ORF	Verified	YHL004W	MRP4	mitochondrial 37S ribosomal protein MRP4	chromosome 8	L000001154	8	99219	100403	W		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the small subunit
+S000037796	CDS					YHL004W		8	99219	100403	W		2011-02-03	1996-07-31	
+S000000997	ORF	Uncharacterized	YHL005C			chromosome 8		8	99220	98828	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YHL005C is not an essential gene
+S000037818	CDS					YHL005C		8	99220	98828	C		2011-02-03	1996-07-31	
+S000000995	ORF	Verified	YHL003C	LAG1	sphingosine N-acyltransferase LAG1	chromosome 8	L000000928	8	101883	100648	C		2011-02-03	1996-07-31	Ceramide synthase component; involved in synthesis of ceramide from C26(acyl)-coenzyme A and dihydrosphingosine or phytosphingosine, functionally equivalent to Lac1p; forms ER foci upon DNA replication stress; homolog of human CERS2, a tumor metastasis suppressor gene whose silencing enhances invasion/metastasis of prostate cancer cells; LAG1 has a paralog, LAC1, that arose from the whole genome duplication
+S000036974	CDS					YHL003C		8	101883	100648	C		2011-02-03	1996-07-31	
+S000000994	ORF	Verified	YHL002W	HSE1	ESCRT-0 subunit protein HSE1	chromosome 8		8	102612	103970	W		2011-02-03	1996-07-31	Subunit of the endosomal Vps27p-Hse1p complex; complex is required for sorting of ubiquitinated membrane proteins into intralumenal vesicles prior to vacuolar degradation, as well as for recycling of Golgi proteins and formation of lumenal membranes
+S000036957	CDS					YHL002W		8	102612	103970	W		2011-02-03	1996-07-31	
+S000028770	ORF	Dubious	YHL002C-A			chromosome 8		8	103075	102587	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF HSE1/YHL002W
+S000033484	CDS					YHL002C-A		8	103075	102587	C		2011-02-03	2003-07-29	
+S000000993	ORF	Verified	YHL001W	RPL14B	eL14|ribosomal 60S subunit protein L14B|L14e|L14B	chromosome 8	L000002707	8	104277	105091	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L14B; homologous to mammalian ribosomal protein L14, no bacterial homolog; RPL14B has a paralog, RPL14A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000036892	CDS					YHL001W		8	104277	104405	W		2011-02-03	1996-07-31	
+S000036893	CDS					YHL001W		8	104804	105091	W		2011-02-03	1996-07-31	
+S000036894	intron					YHL001W		8	104406	104803	W		2011-02-03	1996-07-31	
+S000006469	centromere		CEN8	CEN8		chromosome 8	L000000301	8	105703	105586	C	0	2011-02-03	2000-05-19|2004-10-08	Chromosome VIII centromere
+S000077284	centromere_DNA_Element_I					CEN8		8	105703	105694	C		2011-02-03	2004-10-08	
+S000077285	centromere_DNA_Element_II					CEN8		8	105693	105611	C		2011-02-03	2004-10-08	
+S000077286	centromere_DNA_Element_III					CEN8		8	105610	105586	C		2011-02-03	2004-10-08	
+S000001043	ORF	Verified	YHR001W	OSH7	oxysterol-binding protein related protein OSH7	chromosome 8		8	106055	107368	W		2011-02-03	1996-07-31	Oxysterol-binding protein; part of family with seven members in S. cerevisiae; family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability; OSH7 has a paralog, OSH6, that arose from the whole genome duplication
+S000033353	CDS					YHR001W		8	106055	107368	W		2011-02-03	1996-07-31	
+S000003529	ORF	Verified	YHR001W-A	QCR10	ubiquinol--cytochrome-c reductase subunit 10	chromosome 8	L000001550	8	107826	108122	W		2011-02-03	1996-07-31	Subunit of the ubiqunol-cytochrome c oxidoreductase complex; this complex comprises part of the mitochondrial respiratory chain; members include Cobp, Rip1p, Cyt1p, Cor1p, Qcr2p, Qcr6p, Qcr7p, Qcr8p, Qcr9p, and Qcr10p and comprises part of the mitochondrial respiratory chain
+S000035662	CDS					YHR001W-A		8	107826	107831	W		2011-02-03	1996-07-31	
+S000035663	CDS					YHR001W-A		8	107895	108122	W		2011-02-03	1996-07-31	
+S000035664	intron					YHR001W-A		8	107832	107894	W		2011-02-03	1996-07-31	
+S000001044	ORF	Verified	YHR002W	LEU5	coenzyme A transporter	chromosome 8	L000000946	8	108812	109885	W	0	2011-02-03	1996-07-31	Mitochondrial carrier protein; involved in the accumulation of CoA in the mitochondrial matrix; homolog of human Graves disease protein SLC25A16, which complements yeast null mutant; does not encode an isozyme of Leu4p, as first hypothesized
+S000034263	CDS					YHR002W		8	108812	109885	W		2011-02-03	1996-07-31	
+S000001045	ORF	Verified	YHR003C	TCD1	tRNA threonylcarbamoyladenosine dehydratase	chromosome 8		8	111317	110028	C		2011-02-03	1996-07-31	tRNA threonylcarbamoyladenosine dehydratase; required for the ct6A tRNA base modification, where an adenosine at position 37 is modified to form a cyclized active ester with an oxazolone ring; localized to the mitochondrial outer membrane; TCD1 has a paralog, TCD2, that arose from the whole genome duplication
+S000034299	CDS					YHR003C		8	111317	110028	C		2011-02-03	1996-07-31	
+S000001046	ORF	Verified	YHR004C	NEM1	Nem1-Spo7 phosphatase catalytic subunit NEM1	chromosome 8		8	113094	111754	C		2011-02-03	1996-07-31	Probable catalytic subunit of Nem1p-Spo7p phosphatase holoenzyme; regulates nuclear growth by controlling phospholipid biosynthesis, required for normal nuclear envelope morphology and sporulation; homolog of the human protein Dullard
+S000034400	CDS					YHR004C		8	113094	111754	C		2011-02-03	1996-07-31	
+S000001047	ORF	Verified	YHR005C	GPA1	guanine nucleotide-binding protein subunit alpha|SCG1|DAC1|CDC70	chromosome 8	L000000720	8	114917	113499	C	3	2011-02-03	1996-07-31	Subunit of the G protein involved in pheromone response; GTP-binding alpha subunit of the heterotrimeric G protein; negatively regulates the mating pathway by sequestering G(beta)gamma and by triggering an adaptive response; activates Vps34p at the endosome; protein abundance increases in response to DNA replication stress
+S000034477	CDS					YHR005C		8	114917	113499	C		2011-02-03	1996-07-31	
+S000003530	ORF	Verified	YHR005C-A	TIM10	protein transporter TIM10|MRS11	chromosome 8	L000003574	8	115901	115620	C		2011-02-03	1999-07-17	Essential protein of the mitochondrial intermembrane space; forms a complex with Tim9p (TIM10 complex) that delivers hydrophobic proteins to the TIM22 complex for insertion into the inner membrane
+S000033460	CDS					YHR005C-A		8	115901	115620	C		2011-02-03	1999-07-17	
+S000006740	tRNA_gene		tT(AGU)H			chromosome 8	L000003864	8	116179	116107	C		2011-02-03	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000032165	noncoding_exon					tT(AGU)H		8	116179	116107	C		2011-02-03	2000-05-19	
+S000130146	ARS		ARS806			chromosome 8		8	116179	116421			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000006992	long_terminal_repeat		YHRCdelta3			chromosome 8		8	116752	116421	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006993	long_terminal_repeat		YHRCdelta4			chromosome 8		8	117061	116763	C		2011-02-03	2000-05-19	Ty1 LTR
+S000001048	ORF	Verified	YHR006W	STP2		chromosome 8	L000003370	8	117814	119439	W		2011-02-03	1996-07-31	Transcription factor; activated by proteolytic processing in response to signals from the SPS sensor system for external amino acids; activates transcription of amino acid permease genes; STP2 has a paralog, STP1, that arose from the whole genome duplication
+S000035553	CDS					YHR006W		8	117814	119439	W		2011-02-03	1996-07-31	
+S000001049	ORF	Verified	YHR007C	ERG11	sterol 14-demethylase|CYP51	chromosome 8	L000000577	8	121683	120091	C	12	2011-02-03	1996-07-31	Lanosterol 14-alpha-demethylase; catalyzes C-14 demethylation of lanosterol to form 4,4''-dimethyl cholesta-8,14,24-triene-3-beta-ol in ergosterol biosynthesis pathway; transcriptionally down-regulated when ergosterol is in excess; member of cytochrome P450 family; associated and coordinately regulated with the P450 reductase Ncp1p; human CYP51A1 functionally complements the lethality of the erg11 null mutation
+S000035603	CDS					YHR007C		8	121683	120091	C		2011-02-03	1996-07-31	
+S000028830	ORF	Uncharacterized	YHR007C-A			chromosome 8		8	122765	122550	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry; SWAT-GFP fusion protein localizes to the nucleus
+S000034480	CDS					YHR007C-A		8	122765	122550	C		2011-02-03	2003-07-29	
+S000001050	ORF	Verified	YHR008C	SOD2	superoxide dismutase SOD2	chromosome 8	L000001979	8	123590	122889	C	12	2011-02-03	1996-07-31	Mitochondrial manganese superoxide dismutase; protects cells against oxygen toxicity and oxidative stress; human mitochondrial SOD2 can complement a yeast null mutant and human cytoplasmic SOD1 can also complement when targeted to the mitochondrial matrix
+S000035694	CDS					YHR008C		8	123590	122889	C		2011-02-03	1996-07-31	
+S000001051	ORF	Verified	YHR009C	TDA3	BTN3	chromosome 8		8	125680	124109	C		2011-02-03	1996-07-31	Putative oxidoreductase involved in late endosome to Golgi transport; physical and genetical interactions with Btn2p; null mutant is viable, has extended S phase, and sensitive to expression of top1-T722A allele; similar to human FOXRED1
+S000036628	CDS					YHR009C		8	125680	124109	C		2011-02-03	1996-07-31	
+S000001052	ORF	Verified	YHR010W	RPL27A	eL27|ribosomal 60S subunit protein L27A|L27e|L27A|RPL27	chromosome 8	L000002708	8	126521	127492	W		2011-02-03	1996-07-31	Ribosomal 60S subunit protein L27A; homologous to mammalian ribosomal protein L27, no bacterial homolog; RPL27A has a paralog, RPL27B, that arose from the whole genome duplication
+S000036518	CDS					YHR010W		8	126521	126551	W		2011-02-03	1996-07-31	
+S000036519	CDS					YHR010W		8	127113	127492	W		2011-02-03	1996-07-31	
+S000036520	intron					YHR010W		8	126552	127112	W		2011-02-03	1996-07-31	
+S000001053	ORF	Verified	YHR011W	DIA4	putative serine--tRNA ligase DIA4	chromosome 8		8	127780	129120	W		2011-02-03	1996-07-31	Probable mitochondrial seryl-tRNA synthetase; mutant displays increased invasive and pseudohyphal growth
+S000036641	CDS					YHR011W		8	127780	129120	W		2011-02-03	1996-07-31	
+S000001054	ORF	Verified	YHR012W	VPS29	retromer subunit VPS29|VPT6|PEP11	chromosome 8	L000002840	8	129481	130448	W		2011-02-03	1996-07-31	Subunit of the membrane-associated retromer complex; endosomal protein; essential for endosome-to-Golgi retrograde transport; forms a subcomplex with Vps35p and Vps26p that selects cargo proteins for endosome-to-Golgi retrieval
+S000036738	CDS					YHR012W		8	129481	129528	W		2011-02-03	1996-07-31	
+S000036739	CDS					YHR012W		8	129648	130448	W		2011-02-03	1996-07-31	
+S000036740	intron					YHR012W		8	129529	129647	W		2011-02-03	1996-07-31	
+S000001055	ORF	Verified	YHR013C	ARD1	peptide alpha-N-acetyltransferase complex A subunit ARD1|NAA10	chromosome 8	L000000103	8	131446	130730	C	10	2011-02-03	1996-07-31	Subunit of protein N-terminal acetyltransferase NatA; NatA comprises Nat1p, Ard1p, Nat5p; acetylates many proteins to influence telomeric silencing, cell cycle, heat-shock resistance, mating, sporulation, early stages of mitophagy; protein abundance increases under DNA replication stress; mutations in human homolog X-linked NAA10 lead to Ogden syndrome (S37P) and intellectual disability (R116W); expression of human NAA10 and NAA15 can complement ard1 nat1 double mutant
+S000037391	CDS					YHR013C		8	131446	130730	C		2011-02-03	1996-07-31	
+S000001056	ORF	Verified	YHR014W	SPO13		chromosome 8	L000002004	8	132047	132922	W	11	2011-02-03	1996-07-31	Meiotic regulator; involved in maintaining sister chromatid cohesion during meiosis I as well as promoting proper attachment of kinetochores to the spindle during meiosis I and meiosis II; anaphase-promoting complex (APC) substrate that is degraded during anaphase I; expressed only in meiotic cells
+S000037600	CDS					YHR014W		8	132047	132922	W		2011-02-03	1996-07-31	
+S000006726	tRNA_gene		tS(AGA)H			chromosome 8	L000003863	8	133107	133026	C		2011-02-03	2000-05-19	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis
+S000032372	noncoding_exon					tS(AGA)H		8	133107	133026	C		2011-02-03	2000-05-19	
+S000118357	ARS		ARS807		ARSVIII-134	chromosome 8		8	133438	133539			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178107	ARS_consensus_sequence					ARS807		8	133530	133514	C		2014-11-18	2014-11-18	
+S000006994	long_terminal_repeat		YHRCdelta5			chromosome 8		8	133442	133201	C		2011-02-03	2000-05-19	Ty1 LTR
+S000006995	long_terminal_repeat		YHRCdelta6			chromosome 8		8	133684	133565	C		2011-02-03	2000-05-19	Ty1 LTR
+S000007007	long_terminal_repeat		YHRWdelta7			chromosome 8		8	133685	134009	W		2011-02-03	2000-05-19	Ty1 LTR
+S000006698	tRNA_gene		tQ(UUG)H			chromosome 8	L000003856	8	134321	134392	W		2011-02-03	2000-05-19	Glutamine tRNA (tRNA-Gln), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000031701	noncoding_exon					tQ(UUG)H		8	134321	134392	W		2011-02-03	2000-05-19	
+S000001057	ORF	Verified	YHR015W	MIP6		chromosome 8	L000004334	8	134554	136533	W		2011-02-03	1996-07-31	Putative RNA-binding protein; interacts with Mex67p, which is a component of the nuclear pore involved in nuclear mRNA export; MIP6 has a paralog, PES4, that arose from the whole genome duplication
+S000030365	CDS					YHR015W		8	134554	136533	W		2011-02-03	1996-07-31	
+S000001058	ORF	Verified	YHR016C	YSC84	LSB4	chromosome 8	L000003175	8	138455	136881	C		2011-02-03	1996-07-31	Actin-binding protein; involved in bundling of actin filaments and endocytosis of actin cortical patches; activity stimulated by Las17p; contains SH3 domain similar to Rvs167p; YSC84 has a paralog, LSB3, that arose from the whole genome duplication
+S000030436	CDS					YHR016C		8	138240	136881	C		2011-02-03	1996-07-31	
+S000030435	CDS					YHR016C		8	138455	138409	C		2011-02-03	1996-07-31	
+S000030437	intron					YHR016C		8	138408	138241	C		2011-02-03	1996-07-31	
+S000001059	ORF	Verified	YHR017W	YSC83		chromosome 8	L000002830	8	138694	139851	W		2011-02-03	1996-07-31	Non-essential mitochondrial protein of unknown function; mRNA induced during meiosis, peaking between mid to late prophase of meiosis I; similar to S. douglasii YSD83
+S000030626	CDS					YHR017W		8	138694	139851	W		2011-02-03	1996-07-31	
+S000029042	ARS		ARS808	ARS2		chromosome 8	L000000122	8	140349	141274			2011-02-03	2006-04-13	Autonomously Replicating Sequence
+S000001060	ORF	Verified	YHR018C	ARG4	argininosuccinate lyase ARG4	chromosome 8	L000000109	8	141402	140011	C	12	2011-02-03	1996-07-31	Argininosuccinate lyase; catalyzes the final step in the arginine biosynthesis pathway
+S000030670	CDS					YHR018C		8	141402	140011	C		2011-02-03	1996-07-31	
+S000001061	ORF	Verified	YHR019C	DED81	asparagine--tRNA ligase DED81	chromosome 8	L000002734	8	143558	141894	C		2011-02-03	1996-07-31	Cytosolic asparaginyl-tRNA synthetase; required for protein synthesis, catalyzes the specific attachment of asparagine to its cognate tRNA
+S000031533	CDS					YHR019C		8	143558	141894	C		2011-02-03	1996-07-31	
+S000001062	ORF	Verified	YHR020W		proline--tRNA ligase	chromosome 8		8	143996	146062	W		2011-02-03	1996-07-31	Prolyl-tRNA synthetase; N-terminal domain shows weak homology to prokaryotic posttransfer editing domain, but does not possess posttransfer editing activity; may interact with ribosomes, based on co-purification experiments
+S000031552	CDS					YHR020W		8	143996	146062	W		2011-02-03	1996-07-31	
+S000006513	tRNA_gene		tA(AGC)H			chromosome 8	L000003862	8	146314	146242	C		2011-02-03	2000-05-19	Alanine tRNA (tRNA-Ala), predicted by tRNAscan-SE analysis; one of 11 nuclear tRNA genes containing the tDNA-anticodon AGC (converted to IGC in the mature tRNA), decodes GCU and GCC codons into alanine, one of 16 nuclear tRNAs for alanine
+S000032282	noncoding_exon					tA(AGC)H		8	146314	146242	C		2011-02-03	2000-05-19	
+S000007003	long_terminal_repeat		YHRCsigma2			chromosome 8		8	146671	146331	C		2011-02-03	2000-05-19	Ty3 LTR
+S000007010	long_terminal_repeat		YHRWtau3			chromosome 8		8	146844	147114	W		2011-02-03	2000-05-19	Ty4 LTR
+S000001063	ORF	Verified	YHR021C	RPS27B	eS27|ribosomal 40S subunit protein S27B|S27e|rp61|YS20|S27B	chromosome 8	L000002713	8	148669	147871	C		2011-02-03	1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S27, no bacterial homolog; RPS27B has a paralog, RPS27A, that arose from the whole genome duplication
+S000031620	CDS					YHR021C		8	148116	147871	C		2011-02-03	1996-07-31	
+S000031619	CDS					YHR021C		8	148669	148667	C		2011-02-03	1996-07-31	
+S000031621	intron					YHR021C		8	148666	148117	C		2011-02-03	1996-07-31	
+S000003531	ORF	Uncharacterized	YHR021W-A	ECM12		chromosome 8	L000003887	8	149225	149680	W		2011-02-03	1999-07-17	Putative protein of unknown function; may contribute to cell wall biosynthesis, mutants display zymolyase hypersensitivity
+S000034210	CDS					YHR021W-A		8	149225	149680	W		2011-02-03	1999-07-17	
+S000001064	ORF	Uncharacterized	YHR022C			chromosome 8		8	150345	149575	C		2011-02-03	1996-07-31	Putative protein of unknown function; YHR022C is not an essential gene
+S000032603	CDS					YHR022C		8	150345	149575	C		2011-02-03	1996-07-31	
+S000028645	ORF	Uncharacterized	YHR022C-A			chromosome 8		8	151306	151217	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032421	CDS					YHR022C-A		8	151306	151217	C		2011-02-03	2003-07-29	
+S000001065	ORF	Verified	YHR023W	MYO1	myosin 1	chromosome 8	L000001222	8	151666	157452	W		2011-02-03	1996-07-31	Type II myosin heavy chain; required for wild-type cytokinesis and cell separation; localizes to the actomyosin ring; binds to myosin light chains Mlc1p and Mlc2p through its IQ1 and IQ2 motifs respectively
+S000032750	CDS					YHR023W		8	151666	157452	W		2011-02-03	1996-07-31	
+S000001066	ORF	Verified	YHR024C	MAS2	mitochondrial-processing protease subunit alpha|MIF2	chromosome 8	L000001027	8	159192	157744	C	26	2011-02-03	1996-07-31	Alpha subunit of the mitochondrial processing protease (MPP); essential processing enzyme that cleaves the N-terminal targeting sequences from mitochondrially imported proteins
+S000032823	CDS					YHR024C		8	159192	157744	C		2011-02-03	1996-07-31	
+S000001067	ORF	Verified	YHR025W	THR1	homoserine kinase	chromosome 8	L000002298	8	159438	160511	W	26	2011-02-03	1996-07-31	Homoserine kinase; conserved protein required for threonine biosynthesis; long-lived protein that is preferentially retained in mother cells and forms cytoplasmic filaments; expression is regulated by the GCN4-mediated general amino acid control pathway
+S000033588	CDS					YHR025W		8	159438	160511	W		2011-02-03	1996-07-31	
+S000001068	ORF	Verified	YHR026W	VMA16	H(+)-transporting V0 sector ATPase subunit c''|PPA1	chromosome 8	L000001468	8	160844	161485	W	27	2011-02-03	1996-07-31	Subunit c'' of the vacuolar ATPase; v-ATPase functions in acidification of the vacuole; one of three proteolipid subunits of the V0 domain
+S000033662	CDS					YHR026W		8	160844	161485	W		2011-02-03	1996-07-31	
+S000001069	ORF	Verified	YHR027C	RPN1	proteasome regulatory particle base subunit RPN1|NAS1|HRD2	chromosome 8	L000003039	8	164711	161730	C		2011-02-03	1996-07-31	Non-ATPase base subunit of the 19S RP of the 26S proteasome; may participate in the recognition of several ligands of the proteasome; contains a leucine-rich repeat (LRR) domain, a site for protein-protein interactions; RP is the acronym for regulatory particle
+S000033726	CDS					YHR027C		8	164711	161730	C		2011-02-03	1996-07-31	
+S000028776	ORF	Dubious	YHR028W-A			chromosome 8		8	167352	167672	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF DAP2/YHR028C
+S000033498	CDS					YHR028W-A		8	167352	167672	W		2011-02-03	2003-07-29	
+S000001070	ORF	Verified	YHR028C	DAP2	DPP2	chromosome 8	L000000483	8	167434	164978	C		2011-02-03	1996-07-31	Dipeptidyl aminopeptidase; synthesized as a glycosylated precursor; localizes to the vacuolar membrane; similar to Ste13p
+S000034620	CDS					YHR028C		8	167434	164978	C		2011-02-03	1996-07-31	
+S000118358	ARS		ARS809		ARSVIII-169	chromosome 8		8	168549	168723			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000001071	ORF	Verified	YHR029C	YHI9		chromosome 8		8	168561	167677	C		2011-02-03	1996-07-31	Protein of unknown function; null mutant is defective in unfolded protein response; possibly involved in a membrane regulation metabolic pathway; member of the PhzF superfamily, though most likely not involved in phenazine production
+S000034772	CDS					YHR029C		8	168561	167677	C		2011-02-03	1996-07-31	
+S000001072	ORF	Verified	YHR030C	SLT2	mitogen-activated serine/threonine-protein kinase SLT2|LYT2|SLK2|MPK1|BYC2	chromosome 8	L000001919	8	170344	168890	C		2011-02-03	1996-07-31	Serine/threonine MAP kinase; coordinates expression of all 19S regulatory particle assembly-chaperones (RACs) to control proteasome abundance; involved in regulating maintenance of cell wall integrity, cell cycle progression, nuclear mRNA retention in heat shock, septum assembly; required for mitophagy, pexophagy; affects recruitment of mitochondria to phagophore assembly site; plays role in adaptive response of cells to cold; regulated by the PKC1-mediated signaling pathway
+S000035799	CDS					YHR030C		8	170344	168890	C		2011-02-03	1996-07-31	
+S000001073	ORF	Verified	YHR031C	RRM3	RTT104	chromosome 8	S000007420	8	172970	170799	C		2011-02-03	1996-07-31	DNA helicase involved in rDNA replication and Ty1 transposition; binds to and suppresses DNA damage at G4 motifs in vivo; relieves replication fork pauses at telomeric regions; structurally and functionally related to Pif1p
+S000035940	CDS					YHR031C		8	172970	170799	C		2011-02-03	1996-07-31	
+S000001074	ORF	Verified	YHR032W	ERC1		chromosome 8		8	173344	175089	W		2011-02-03	1996-07-31	Member of the multi-drug and toxin extrusion (MATE) family; the MATE family is part of the multidrug/oligosaccharidyl-lipid/polysaccharide (MOP) exporter superfamily; overproduction confers ethionine resistance and accumulation of S-adenosylmethionine
+S000036858	CDS					YHR032W		8	173344	175089	W		2011-02-03	1996-07-31	
+S000028831	ORF	Dubious	YHR032W-A			chromosome 8		8	175195	175374	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YHR032C-A
+S000034481	CDS					YHR032W-A		8	175195	175374	W		2011-02-03	2003-07-29	
+S000028646	ORF	Dubious	YHR032C-A			chromosome 8		8	175394	175275	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YHR032W-A
+S000032422	CDS					YHR032C-A		8	175394	175275	C		2011-02-03	2003-07-29	
+S000001075	ORF	Uncharacterized	YHR033W		putative glutamate 5-kinase	chromosome 8		8	175548	176819	W		2011-02-03	1996-07-31	Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm; YHR033W has a paralog, PRO1, that arose from the whole genome duplication
+S000036911	CDS					YHR033W		8	175548	176819	W		2011-02-03	1996-07-31	
+S000001076	ORF	Verified	YHR034C	PIH1	NOP17	chromosome 8		8	177999	176965	C		2011-02-03	1996-07-31	Component of the conserved R2TP complex (Rvb1-Rvb2-Tah1-Pih1); R2TP complex interacts with Hsp90 (Hsp82p and Hsc82p) to mediate assembly large protein complexes such as box C/D snoRNPs and RNA polymerase II
+S000036943	CDS					YHR034C		8	177999	176965	C		2011-02-03	1996-07-31	
+S000001077	ORF	Verified	YHR035W	NEL1		chromosome 8		8	178219	180111	W		2011-02-03	1996-07-31	Activator of Sar1p GTPase activity; paralog of Sec23 but does not associate with the COPII components; not an essential gene
+S000037726	CDS					YHR035W		8	178219	180111	W		2011-02-03	1996-07-31	
+S000001078	ORF	Verified	YHR036W	BRL1		chromosome 8		8	180345	181760	W		2011-02-03	1996-07-31	Essential nuclear envelope/ER integral membrane protein; interacts and functions with Apq12p and Brr6p in lipid homeostasis; mutants are defective in nuclear pore complex biogenesis, mRNA nuclear export and are sensitive to sterol biosynthesis inhibitors and membrane fluidizing agents; identified as a dosage suppressor of a temperature sensitive mutation in the major karyopherin, CRM1; homologous to Brr6p
+S000037810	CDS					YHR036W		8	180345	181760	W		2011-02-03	1996-07-31	
+S000001079	ORF	Verified	YHR037W	PUT2	1-pyrroline-5-carboxylate dehydrogenase	chromosome 8	L000001536	8	181977	183704	W	24	2011-02-03	1996-07-31	Delta-1-pyrroline-5-carboxylate dehydrogenase; nuclear-encoded mitochondrial protein involved in utilization of proline as sole nitrogen source; deficiency of human homolog ALDH4A1 causes type II hyperprolinemia (HPII), an autosomal recessive inborn error of metabolism; human homolog ALDH4A1 can complement yeast null mutant
+S000037908	CDS					YHR037W		8	181977	183704	W		2011-02-03	1996-07-31	
+S000001080	ORF	Verified	YHR038W	RRF1	FIL1|KIM4	chromosome 8	L000004366	8	184066	184758	W		2011-02-03	1996-07-31	Mitochondrial ribosome recycling factor; essential for mitochondrial protein synthesis and for the maintenance of the respiratory function of mitochondria
+S000030835	CDS					YHR038W		8	184066	184758	W		2011-02-03	1996-07-31	
+S000001081	ORF	Verified	YHR039C	MSC7	meiotic recombination directing protein	chromosome 8		8	186809	184875	C		2011-02-03	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; msc7 mutants are defective in directing meiotic recombination events to homologous chromatids
+S000030880	CDS					YHR039C		8	186809	184875	C		2011-02-03	1996-07-31	
+S000002100	ORF	Verified	YHR039C-A	VMA10	H(+)-transporting V1 sector ATPase subunit G|YHR039BC|YHR039C-B	chromosome 8	L000002954	8	187679	187173	C		2011-02-03	1996-07-31	Subunit G of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; involved in vacuolar acidification; the V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase) has eight subunits
+S000035240	CDS					YHR039C-A		8	187514	187173	C		2011-02-03	1996-07-31	
+S000035239	CDS					YHR039C-A		8	187679	187677	C		2011-02-03	1996-07-31	
+S000035241	intron					YHR039C-A		8	187676	187515	C		2011-02-03	1996-07-31	
+S000001082	ORF	Verified	YHR040W	BCD1		chromosome 8		8	187924	189024	W		2011-02-03	1996-07-31	Essential protein required for the accumulation of box C/D snoRNA
+S000031978	CDS					YHR040W		8	187924	189024	W		2011-02-03	1996-07-31	
+S000001083	ORF	Verified	YHR041C	SRB2	MED20|HRS2	chromosome 8	L000002050|L000003586	8	189864	189131	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; general transcription factor involved in telomere maintenance
+S000032051	CDS					YHR041C		8	189749	189131	C		2011-02-03	1996-07-31	
+S000032050	CDS					YHR041C		8	189864	189851	C		2011-02-03	1996-07-31	
+S000032052	intron					YHR041C		8	189850	189750	C		2011-02-03	1996-07-31	
+S000001084	ORF	Verified	YHR042W	NCP1	CPR1	chromosome 8	L000001482	8	190543	192618	W		2011-02-03	1996-07-31	NADP-cytochrome P450 reductase; involved in ergosterol biosynthesis; associated and coordinately regulated with Erg11p
+S000033000	CDS					YHR042W		8	190543	192618	W		2011-02-03	1996-07-31	
+S000001085	ORF	Verified	YHR043C	DOG2	2-deoxyglucose-6-phosphatase	chromosome 8	L000000516	8	193545	192805	C		2011-02-03	1996-07-31	2-deoxyglucose-6-phosphate phosphatase; member of a family of low molecular weight phosphatases, induced by oxidative and osmotic stress, confers 2-deoxyglucose resistance when overexpressed; DOG2 has a paralog, DOG1, that arose from a single-locus duplication; the last half of DOG1 and DOG2 are subject to gene conversions among S. cerevisiae, S. paradoxus, and S. mikatae
+S000033060	CDS					YHR043C		8	193545	192805	C		2011-02-03	1996-07-31	
+S000001086	ORF	Verified	YHR044C	DOG1	2-deoxyglucose-6-phosphatase	chromosome 8	L000000515	8	194808	194068	C		2011-02-03	1996-07-31	2-deoxyglucose-6-phosphate phosphatase; member of a family of low molecular weight phosphatases; confers 2-deoxyglucose resistance when overexpressed; DOG1 has a paralog, DOG2, that arose from a single-locus duplication; the last half of DOG1 and DOG2 are subject to gene conversions among S. cerevisiae, S. paradoxus, and S. mikatae
+S000033147	CDS					YHR044C		8	194808	194068	C		2011-02-03	1996-07-31	
+S000001087	ORF	Uncharacterized	YHR045W			chromosome 8		8	195551	197233	W		2011-02-03	1996-07-31	Putative protein of unknown function; possible role in iron metabolism and/or amino acid and carbohydrate metabolism; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum
+S000033998	CDS					YHR045W		8	195551	197233	W		2011-02-03	1996-07-31	
+S000001088	ORF	Verified	YHR046C	INM1	inositol monophosphate 1-phosphatase INM1	chromosome 8		8	198285	197398	C		2011-02-03	1996-07-31	Inositol monophosphatase; involved in biosynthesis of inositol and in phosphoinositide second messenger signaling; INM1 expression increases in the presence of inositol and decreases upon exposure to antibipolar drugs lithium and valproate
+S000034037	CDS					YHR046C		8	198285	197398	C		2011-02-03	1996-07-31	
+S000001089	ORF	Verified	YHR047C	AAP1	arginine/alanine aminopeptidase|AAP1'	chromosome 8	L000000006	8	201310	198740	C		2011-02-03	1996-07-31	Arginine/alanine amino peptidase; overproduction stimulates glycogen accumulation; AAP1 has a paralog, APE2, that arose from the whole genome duplication
+S000034139	CDS					YHR047C		8	201310	198740	C		2011-02-03	1996-07-31	
+S000001090	ORF	Uncharacterized	YHR048W	YHK8		chromosome 8		8	204607	206151	W		2011-02-03	1996-07-31	Presumed antiporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; expression of gene is up-regulated in cells exhibiting reduced susceptibility to azoles
+S000035165	CDS					YHR048W		8	204607	206151	W		2011-02-03	1996-07-31	
+S000001091	ORF	Verified	YHR049W	FSH1	putative serine hydrolase	chromosome 8		8	206462	207193	W		2011-02-03	1996-07-31	Putative serine hydrolase; localizes to both the nucleus and cytoplasm; sequence is similar to S. cerevisiae Fsh2p and Fsh3p and the human candidate tumor suppressor OVCA2
+S000035291	CDS					YHR049W		8	206462	207193	W		2011-02-03	1996-07-31	
+S000003532	ORF	Dubious	YHR049C-A			chromosome 8		8	207530	207234	C		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031834	CDS					YHR049C-A		8	207530	207234	C		2011-02-03	1996-07-31|2011-02-03	
+S000001092	ORF	Verified	YHR050W	SMF2	divalent metal ion transporter SMF2	chromosome 8	L000001932|L000001870	8	207654	209303	W		2011-02-03	1996-07-31	Divalent metal ion transporter involved in manganese homeostasis; has broad specificity for di-valent and tri-valent metals; post-translationally regulated by levels of metal ions; member of the Nramp family of metal transport proteins
+S000036147	CDS					YHR050W		8	207654	209303	W		2011-02-03	1996-07-31	
+S000028832	ORF	Uncharacterized	YHR050W-A			chromosome 8		8	209475	209645	W		2011-02-03	2003-07-29	Protein of unknown function; identified by expression profiling and mass spectrometry
+S000034482	CDS					YHR050W-A		8	209475	209645	W		2011-02-03	2003-07-29	
+S000001093	ORF	Verified	YHR051W	COX6	cytochrome c oxidase subunit VI	chromosome 8	L000000390	8	209705	210151	W		2011-02-03	1996-07-31	Subunit VI of cytochrome c oxidase (Complex IV); Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain; expression is regulated by oxygen levels
+S000029851	CDS					YHR051W		8	209705	210151	W		2011-02-03	1996-07-31	
+S000001094	ORF	Verified	YHR052W	CIC1	NSA3	chromosome 8		8	210848	211978	W		2011-02-03	1996-07-31	Essential protein that interacts with proteasome components; has a potential role in proteasome substrate specificity; also copurifies with 66S pre-ribosomal particles
+S000031769	CDS					YHR052W		8	210848	211978	W		2011-02-03	1996-07-31	
+S000028470	ncRNA_gene		RUF5-1	RUF5-1	RUF5	chromosome 8		8	212409	213118	W		2011-02-03	2004-04-01	RNA of Unknown Function
+S000030107	noncoding_exon					RUF5-1		8	212409	213118	W		2011-02-03	2004-04-01	
+S000028647	ORF	Dubious	YHR052W-A			chromosome 8		8	212510	212704	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps CUP1-1
+S000032423	CDS					YHR052W-A		8	212510	212704	W		2011-02-03	2003-07-29	
+S000001095	ORF	Verified	YHR053C	CUP1-1	metallothionein CUP1|CUP1	chromosome 8	L000000436	8	212720	212535	C		2011-02-03	1996-07-31	Metallothionein; binds copper and mediates resistance to high concentrations of copper and cadmium; locus is variably amplified in different strains, with two copies, CUP1-1 and CUP1-2, in the genomic sequence reference strain S288C; CUP1-1 has a paralog, CUP1-2, that arose from a segmental duplication
+S000031831	CDS					YHR053C		8	212720	212535	C		2011-02-03	1996-07-31	
+S000130147	ARS		ARS810			chromosome 8		8	212720	213185			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000001096	ORF	Uncharacterized	YHR054C			chromosome 8		8	214249	213185	C		2011-02-03	1996-07-31	Putative protein of unknown function; partial duplicate of RSC30/YHR056C, truncated remnant of segmental duplication
+S000031964	CDS					YHR054C		8	214249	213185	C		2011-02-03	1996-07-31	
+S000028474	ncRNA_gene		RUF5-2	RUF5-2	RUF5	chromosome 8		8	214407	215116	W		2011-02-03	2004-04-01	RNA of Unknown Function
+S000030115	noncoding_exon					RUF5-2		8	214407	215116	W		2011-02-03	2004-04-01	
+S000028648	ORF	Dubious	YHR054W-A			chromosome 8		8	214508	214702	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps CUP1-2
+S000032424	CDS					YHR054W-A		8	214508	214702	W		2011-02-03	2003-07-29	
+S000001097	ORF	Verified	YHR055C	CUP1-2	metallothionein CUP1|CUP1	chromosome 8		8	214718	214533	C		2011-02-03	1996-07-31	Metallothionein; binds copper and mediates resistance to high concentrations of copper and cadmium; locus is variably amplified in different strains, with two copies, CUP1-1 and CUP1-2, in the genomic sequence reference strain S288C; CUP1-2 has a paralog, CUP1-1, that arose from a segmental duplication
+S000037453	CDS					YHR055C		8	214718	214533	C		2011-02-03	1996-07-31	
+S000130148	ARS		ARS811			chromosome 8		8	214718	215183			2011-02-03	2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000028777	ORF	Dubious	YHR056W-A			chromosome 8		8	217406	217840	W		2011-02-03	2004-01-29|2011-02-03|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps ORF RSC30/YHR056C
+S000033500	CDS					YHR056W-A		8	217406	217840	W		2011-02-03	2004-01-29|2003-07-29|2011-02-03	
+S000001098	ORF	Verified	YHR056C	RSC30		chromosome 8		8	217834	215183	C		2011-02-03	2004-01-29|1996-07-31|2011-02-03	Component of the RSC chromatin remodeling complex; non-essential gene required for regulation of ribosomal protein genes and the cell wall/stress response; null mutants are osmosensitive; RSC30 has a paralog, RSC3, that arose from the whole genome duplication
+S000037529	CDS					YHR056C		8	217834	215183	C		2011-02-03	2004-01-29|1996-07-31|2011-02-03	
+S000001099	ORF	Verified	YHR057C	CPR2	peptidylprolyl isomerase CPR2|CYP2	chromosome 8	L000000463	8	218843	218226	C		2011-02-03	1996-07-31	Peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; potential role in the secretory pathway; seamless-GFP and mCherry fusion proteins localize to the vacuole, while SWAT-GFP fusion localizes to both the endoplasmic reticulum and vacuole; suppresses toxicity of slow-folding human Z-type alpha1-antitrypsin variant associated with liver cirrhosis and emphysema
+S000037607	CDS					YHR057C		8	218843	218226	C		2011-02-03	1996-07-31	
+S000001100	ORF	Verified	YHR058C	MED6	mediator complex subunit MED6	chromosome 8	L000003569	8	219884	218997	C		2011-02-03	1996-07-31	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; protein abundance increases in response to DNA replication stress
+S000037687	CDS					YHR058C		8	219884	218997	C		2011-02-03	1996-07-31	
+S000001101	ORF	Verified	YHR059W	FYV4		chromosome 8		8	220108	220500	W		2011-02-03	1996-07-31	Protein of unknown function; required for survival upon exposure to K1 killer toxin
+S000030557	CDS					YHR059W		8	220108	220500	W		2011-02-03	1996-07-31	
+S000001102	ORF	Verified	YHR060W	VMA22	VPH6|CEV1	chromosome 8	L000002789	8	220725	221270	W		2011-02-03	1996-07-31	Protein that is required for vacuolar H+-ATPase (V-ATPase) function; peripheral membrane protein; not an actual component of the V-ATPase complex; functions in the assembly of the V-ATPase; localized to the yeast endoplasmic reticulum (ER)
+S000029986	CDS					YHR060W		8	220725	221270	W		2011-02-03	1996-07-31	
+S000001103	ORF	Verified	YHR061C	GIC1		chromosome 8	L000003313	8	222478	221534	C		2011-02-03	1996-07-31	Protein involved in initiation of budding and cellular polarization; interacts with Cdc42p via the Cdc42/Rac-interactive binding (CRIB) domain; relocalizes from bud neck to nucleus upon DNA replication stress; GIC1 has a paralog, GIC2, that arose from the whole genome duplication
+S000030028	CDS					YHR061C		8	222478	221534	C		2011-02-03	1996-07-31	
+S000001104	ORF	Verified	YHR062C	RPP1	RNA-binding RNA processing protein RPP1	chromosome 8	L000004007	8	223758	222877	C		2011-02-03	1996-07-31	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; relocalizes to the cytosol in response to hypoxia
+S000030103	CDS					YHR062C		8	223758	222877	C		2011-02-03	1996-07-31	
+S000001105	ORF	Verified	YHR063C	PAN5	2-dehydropantoate 2-reductase PAN5	chromosome 8		8	225169	224030	C		2011-02-03	1996-07-31	2-dehydropantoate 2-reductase; part of the pantothenic acid pathway, structurally homologous to E. coli panE
+S000030303	CDS					YHR063C		8	225169	224030	C		2011-02-03	1996-07-31	
+S000028778	ORF	Dubious	YHR063W-A			chromosome 8		8	225442	225777	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF SSZ1/YHR064C
+S000033501	CDS					YHR063W-A		8	225442	225777	W		2011-02-03	2003-07-29	
+S000001106	ORF	Verified	YHR064C	SSZ1	PDR13	chromosome 8	L000004029	8	227141	225525	C		2011-02-03	2003-09-22|1996-07-31	Hsp70 protein that interacts with Zuo1p (a DnaJ homolog); interacts with Zuo1p to form a ribosome-associated complex that binds the ribosome via the Zuo1p subunit; also involved in pleiotropic drug resistance via sequential activation of PDR1 and PDR5; binds ATP
+S000030385	CDS					YHR064C		8	227141	225525	C		2011-02-03	2003-09-22|1996-07-31	
+S000001107	ORF	Verified	YHR065C	RRP3	RNA-dependent ATPase RRP3	chromosome 8	L000004225	8	229037	227532	C		2011-02-03	2003-09-22|1996-07-31	Protein involved in rRNA processing; required for maturation of the 35S primary transcript of pre-rRNA and for cleavage leading to mature 18S rRNA; homologous to eIF-4a, which is a DEAD box RNA-dependent ATPase with helicase activity
+S000033722	CDS					YHR065C		8	229037	227532	C		2011-02-03	2003-09-22|1996-07-31	
+S000001108	ORF	Verified	YHR066W	SSF1	rRNA-binding ribosome biosynthesis protein	chromosome 8	L000002080	8	229335	230696	W		2011-02-03	1996-07-31	Constituent of 66S pre-ribosomal particles; required for ribosomal large subunit maturation; functionally redundant with Ssf2p; member of the Brix family; SSF1 has a paralog, SSF2, that arose from the whole genome duplication
+S000033935	CDS					YHR066W		8	229335	230696	W		2011-02-03	1996-07-31	
+S000001109	ORF	Verified	YHR067W	HTD2	hydroxyacyl-thioester dehydratase HTD2|RMD12	chromosome 8		8	230970	231812	W		2011-02-03	1996-07-31	Mitochondrial 3-hydroxyacyl-thioester dehydratase; involved in fatty acid biosynthesis, required for respiratory growth and for normal mitochondrial morphology
+S000034794	CDS					YHR067W		8	230970	231812	W		2011-02-03	1996-07-31	
+S000001110	ORF	Verified	YHR068W	DYS1	deoxyhypusine synthase	chromosome 8	L000003346	8	232133	233296	W		2011-02-03	1996-07-31	Deoxyhypusine synthase; catalyzes formation of deoxyhypusine, the first step in hypusine biosynthesis; triggers posttranslational hypusination of translation elongation factor eIF-5A and regulates its intracellular levels; tetrameric; human homolog DHPS allows growth of yeast haploid dys1 null mutant after sporulation of heterozygous diploid
+S000034934	CDS					YHR068W		8	232133	233296	W		2011-02-03	1996-07-31	
+S000001111	ORF	Verified	YHR069C	RRP4	exosome non-catalytic core subunit RRP4	chromosome 8	L000003549	8	234658	233579	C		2011-02-03	1996-07-31	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain RNA binding domains; has similarity to human hRrp4p (EXOSC2)
+S000034980	CDS					YHR069C		8	234658	233579	C		2011-02-03	1996-07-31	
+S000001112	ORF	Verified	YHR070W	TRM5	tRNA (guanine) methyltransferase	chromosome 8		8	234881	236380	W		2011-02-03	1996-07-31	tRNA(m(1)G37)methyltransferase; methylates a tRNA base adjacent to the anticodon that has a role in prevention of frameshifting; localized to both cytoplasm and mitochondria, and modifies both cytoplasmic and mitochondrial tRNAs; mutations in human ortholog TRMT5 are associated with skeletal muscle respiratory chain deficiencies, and trm5 mutations analogous to disease mutations decrease respiration
+S000034511	CDS					YHR070W		8	234881	236380	W		2011-02-03	1996-07-31	
+S000028779	ORF	Dubious	YHR069C-A			chromosome 8		8	235236	234874	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps ORF TRM5/YHR070W
+S000033503	CDS					YHR069C-A		8	235236	234874	C		2011-02-03	2003-07-29	
+S000028780	ORF	Dubious	YHR070C-A			chromosome 8		8	236512	236102	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene TRM5/YHR070W
+S000033520	CDS					YHR070C-A		8	236512	236102	C		2011-02-03	2003-07-29	
+S000001113	ORF	Verified	YHR071W	PCL5		chromosome 8	L000004037	8	237004	237693	W		2011-02-03	1996-07-31	Cyclin; interacts with and phosphorylated by Pho85p cyclin-dependent kinase (Cdk), induced by Gcn4p at level of transcription, specifically required for Gcn4p degradation, may be sensor of cellular protein biosynthetic capacity
+S000034608	CDS					YHR071W		8	237004	237693	W		2011-02-03	1996-07-31	
+S000006566	tRNA_gene		tF(GAA)H1			chromosome 8	L000003861	8	237939	237848	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000032801	intron					tF(GAA)H1		8	237902	237884	C		2011-02-03	2000-05-19	
+S000032800	noncoding_exon					tF(GAA)H1		8	237883	237848	C		2011-02-03	2000-05-19	
+S000032799	noncoding_exon					tF(GAA)H1		8	237939	237903	C		2011-02-03	2000-05-19	
+S000001114	ORF	Verified	YHR072W	ERG7	lanosterol synthase ERG7	chromosome 8	L000000573	8	239098	241293	W		2011-02-03	1996-07-31|2011-02-03	Lanosterol synthase; an essential enzyme that catalyzes the cyclization of squalene 2,3-epoxide, a step in ergosterol biosynthesis; human LSS functionally complements the lethality of the erg7 null mutation
+S000034721	CDS					YHR072W		8	239098	241293	W		2011-02-03	1996-07-31|2011-02-03	
+S000028781	ORF	Dubious	YHR071C-A			chromosome 8		8	239230	238910	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF ERG7/YHR072W
+S000033521	CDS					YHR071C-A		8	239230	238910	C		2011-02-03	2003-07-29	
+S000007455	ORF	Verified	YHR072W-A	NOP10	snoRNP complex protein NOP10	chromosome 8		8	241664	241840	W		2011-02-03	2000-12-01	Subunit of box H/ACA snoRNP complex; required for pseudouridylation and processing of pre-18S rRNA
+S000036439	CDS					YHR072W-A		8	241664	241840	W		2011-02-03	2000-12-01	
+S000001115	ORF	Verified	YHR073W	OSH3	oxysterol-binding protein related protein OSH3	chromosome 8		8	242582	245572	W		2011-02-03	1996-07-31	Member of an oxysterol-binding protein family; this family has seven members in S. cerevisiae; family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability; contains FFAT motif; interacts with ER anchor Scs2p at patches at the plasma membrane; regulated by sterol binding
+S000035693	CDS					YHR073W		8	242582	245572	W		2011-02-03	1996-07-31	
+S000028834	ORF	Dubious	YHR073W-A			chromosome 8		8	242868	243044	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF YHR073W; identified by expression profiling and mass spectrometry
+S000034484	CDS					YHR073W-A		8	242868	243044	W		2011-02-03	2003-07-29	
+S000028833	ORF	Dubious	YHR073C-B			chromosome 8		8	245502	245422	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF YHR073W; identified by expression profiling and mass spectrometry
+S000034483	CDS					YHR073C-B		8	245502	245422	C		2011-02-03	2003-07-29	
+S000118359	ARS		ARS813		ARSVIII-246	chromosome 8		8	245773	245847			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178108	ARS_consensus_sequence					ARS813		8	245789	245805	W		2014-11-18	2014-11-18	
+S000001116	ORF	Verified	YHR074W	QNS1	glutamine-dependent NAD(+) synthetase	chromosome 8	S000007569	8	246193	248337	W		2011-02-03	1996-07-31	Glutamine-dependent NAD(+) synthetase; essential for the formation of NAD(+) from nicotinic acid adenine dinucleotide
+S000035833	CDS					YHR074W		8	246193	248337	W		2011-02-03	1996-07-31	
+S000001117	ORF	Verified	YHR075C	PPE1	carboxylesterase-mitochondrial 37S ribosomal protein YmS2|YmS2|MRPS2	chromosome 8		8	249641	248439	C		2011-02-03	1996-07-31	Protein with carboxyl methyl esterase activity; may have a role in demethylation of the phosphoprotein phosphatase catalytic subunit; also identified as a small subunit mitochondrial ribosomal protein
+S000035876	CDS					YHR075C		8	249641	248439	C		2011-02-03	1996-07-31	
+S000001118	ORF	Verified	YHR076W	PTC7	type 2C protein phosphatase PTC7	chromosome 8		8	251101	252225	W		2011-02-03	1996-07-31|2007-07-09	Type 2C serine/threonine protein phosphatase (PP2C); alternatively spliced to create two mRNA isoforms; protein from spliced form localizes to the mitochondria while the one from the unspliced form is localized to the nuclear envelope; activates coenzyme Q6 biosynthesis by dephosphorylation of demethoxy-Q6 hydroxylase Coq7p
+S000037820	CDS					YHR076W		8	251101	251155	W		2011-02-03	1996-07-31|2007-07-09	
+S000123271	CDS					YHR076W		8	251249	252225	W		2011-02-03	2007-07-09	
+S000123270	intron					YHR076W		8	251156	251248	W		2011-02-03	2007-07-09	
+S000001119	ORF	Verified	YHR077C	NMD2	SUP111|UPF2|SUA1|IFS1	chromosome 8	L000001257|S000029548|L000002230	8	255756	252374	C	51	2011-02-03	1999-11-17|1996-07-31	Protein involved in the nonsense-mediated mRNA decay (NMD) pathway; interacts with Nam7p and Upf3p; involved in telomere maintenance
+S000037864	CDS					YHR077C		8	255637	252374	C		2011-02-03	1999-11-17	
+S000037863	CDS					YHR077C		8	255756	255751	C		2011-02-03	1999-11-17|1996-07-31	
+S000037865	intron					YHR077C		8	255750	255638	C		2011-02-03	1999-11-17	
+S000001120	ORF	Uncharacterized	YHR078W			chromosome 8		8	256360	258018	W		2011-02-03	1996-07-31	High osmolarity-regulated gene of unknown function
+S000029926	CDS					YHR078W		8	256360	258018	W		2011-02-03	1996-07-31	
+S000001121	ORF	Verified	YHR079C	IRE1	bifunctional endoribonuclease/protein kinase IRE1|ERN1	chromosome 8	L000000875	8	261591	258244	C		2011-02-03	1996-07-31	Serine-threonine kinase and endoribonuclease; transmembrane protein that mediates the unfolded protein response (UPR) by regulating Hac1p synthesis through HAC1 mRNA splicing; role in homeostatic adaptation to ER stress; Kar2p binds inactive Ire1p and releases from it upon ER stress
+S000029980	CDS					YHR079C		8	261591	258244	C		2011-02-03	1996-07-31	
+S000001957	ORF	Verified	YHR079C-A	SAE3	YHR079BC|YHR079C-B	chromosome 8	L000002893	8	262553	262192	C		2011-02-03	1996-07-31|2005-11-03	Meiosis-specific protein involved in meiotic recombination; involved in DMC1-dependent meiotic recombination; forms heterodimer with Mei5p; proposed to be an assembly factor for Dmc1p
+S000087058	CDS					YHR079C-A		8	262354	262192	C		2011-02-03	2005-11-03	
+S000034792	CDS					YHR079C-A		8	262553	262441	C		2011-02-03	1996-07-31|2005-11-03	
+S000087057	intron					YHR079C-A		8	262440	262355	C		2011-02-03	2005-11-03	
+S000001122	ORF	Verified	YHR080C	LAM4	LTC3	chromosome 8		8	266838	262801	C		2011-02-03	1996-07-31	Sterol-binding protein that localizes to puncta in the cortical ER; sterol binding occurs via two StART-like domains; one of six StART-like domain-containing proteins in yeast that may be involved in intracellular sterol transfer between membranes; conserved across eukaryotes; has both GRAM and StART-like (VASt) domains; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
+S000037712	CDS					YHR080C		8	266838	262801	C		2011-02-03	1996-07-31	
+S000001123	ORF	Verified	YHR081W	LRP1	RRP47|YC1D	chromosome 8		8	267538	268092	W		2011-02-03	1996-07-31	Nuclear exosome-associated nucleic acid binding protein; involved in RNA processing, surveillance, degradation, tethering, and export; forms a stable heterodimer with Rrp6p and regulates its exonucleolytic activity; rapidly degraded by the proteasome in the absence of Rrp6p; homolog of mammalian nuclear matrix protein C1D involved in regulation of DNA repair and recombination
+S000030578	CDS					YHR081W		8	267538	268092	W		2011-02-03	1996-07-31	
+S000001124	ORF	Verified	YHR082C	KSP1	putative serine/threonine protein kinase KSP1	chromosome 8	L000000921	8	271548	268459	C		2011-02-03	1996-07-31	Serine/threonine protein kinase; associates with TORC1 and likely involved in TOR signaling cascades; negative regulator of autophagy; nuclear translocation required for haploid filamentous growth; regulates filamentous growth induced nuclear translocation of Bcy1p, Fus3p, and Sks1p; overproduction causes allele-specific suppression of prp20-10; protein abundance increases in response to DNA replication stress
+S000030628	CDS					YHR082C		8	271548	268459	C		2011-02-03	1996-07-31	
+S000001125	ORF	Verified	YHR083W	SAM35	SAM complex subunit SAM35|TOM38|TOB38|FMP20	chromosome 8		8	272627	273616	W		2011-02-03	1996-07-31	Component of the sorting and assembly machinery (SAM) complex; the SAM (or TOB) complex is located in the mitochondrial outer membrane; the complex binds precursors of beta-barrel proteins and facilitates their insertion into the outer membrane
+S000030804	CDS					YHR083W		8	272627	273616	W		2011-02-03	1996-07-31	
+S000001126	ORF	Verified	YHR084W	STE12	homeodomain family transcription factor STE12	chromosome 8	L000002119	8	274174	276240	W	65.64	2011-02-03	1996-07-31	Transcription factor that is activated by a MAPK signaling cascade; activates genes involved in mating or pseudohyphal/invasive growth pathways; cooperates with Tec1p transcription factor to regulate genes specific for invasive growth
+S000030898	CDS					YHR084W		8	274174	276240	W		2011-02-03	1996-07-31	
+S000001127	ORF	Verified	YHR085W	IPI1		chromosome 8		8	276764	277768	W		2011-02-03	1996-07-31	Component of the Rix1 complex and possibly pre-replicative complexes; required for processing of ITS2 sequences from 35S pre-rRNA; component of the pre-60S ribosomal particle with the dynein-related AAA-type ATPase Mdn1p; required for pre-replicative complex (pre-RC) formation and maintenance during DNA replication licensing; relocalizes to the cytosol in response to hypoxia; essential gene
+S000031899	CDS					YHR085W		8	276764	277768	W		2011-02-03	1996-07-31	
+S000001128	ORF	Verified	YHR086W	NAM8	MUD15|MRE2	chromosome 8	L000001147|L000001230	8	278153	279724	W		2011-02-03	1996-07-31	RNA binding protein, component of the U1 snRNP protein; mutants are defective in meiotic recombination and in formation of viable spores, involved in the formation of DSBs through meiosis-specific splicing of REC107 pre-mRNA; Nam8p regulon embraces the meiotic pre-mRNAs of REC107, HFM1, AMA1 SPO22 and PCH2; the putative RNA binding domains RRM2 and RRM3 are required for Nam8p meiotic function
+S000032027	CDS					YHR086W		8	278153	279724	W		2011-02-03	1996-07-31	
+S000028552	ORF	Uncharacterized	YHR086W-A			chromosome 8		8	280231	280392	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively
+S000031238	CDS					YHR086W-A		8	280231	280392	W		2011-02-03	2003-07-29	
+S000001129	ORF	Verified	YHR087W	RTC3	HGI1	chromosome 8		8	280820	281155	W		2011-02-03	1996-07-31	Protein of unknown function involved in RNA metabolism; has structural similarity to SBDS, the human protein mutated in Shwachman-Diamond Syndrome (the yeast SBDS ortholog = SDO1); null mutation suppresses cdc13-1 temperature sensitivity; protein abundance increases in response to DNA replication stress
+S000032137	CDS					YHR087W		8	280820	281155	W		2011-02-03	1996-07-31	
+S000001130	ORF	Verified	YHR088W	RPF1	rRNA-binding ribosome biosynthesis protein RPF1	chromosome 8		8	281495	282382	W		2011-02-03	1996-07-31	Protein involved in assembly and export of the large ribosomal subunit; nucleolar protein; constituent of 66S pre-ribosomal particles; contains a sigma(70)-like motif, which is thought to bind RNA
+S000034136	CDS					YHR088W		8	281495	282382	W		2011-02-03	1996-07-31	
+S000001131	ORF	Verified	YHR089C	GAR1	H/ACA snoRNP pseudouridylase subunit GAR1	chromosome 8	L000000668	8	283298	282681	C		2011-02-03	1996-07-31	Protein component of the H/ACA snoRNP pseudouridylase complex; involved in the modification and cleavage of the 18S pre-rRNA
+S000034183	CDS					YHR089C		8	283298	282681	C		2011-02-03	1996-07-31	
+S000001132	ORF	Verified	YHR090C	YNG2	histone acetyltransferase YNG2|EAF4|NBN1	chromosome 8	L000004452	8	284625	283777	C		2011-02-03	1996-07-31	Subunit of NuA4, an essential histone acetyltransferase complex; positions Piccolo NuA4 for efficient acetylation of histone H4 or histone H2A; relocalizes to the cytosol in response to hypoxia; similar to human tumor suppressor ING1 and its isoforms ING4 and ING5
+S000033033	CDS					YHR090C		8	284625	283777	C		2011-02-03	1996-07-31	
+S000001133	ORF	Verified	YHR091C	MSR1	arginine--tRNA ligase MSR1	chromosome 8	L000002618	8	286770	284839	C		2011-02-03	1996-07-31	Mitochondrial arginyl-tRNA synthetase; mutations in human ortholog are associated with pontocerebellar hypoplasia type 6; MSR1 has a paralog, YDR341C, that arose from the whole genome duplication
+S000033677	CDS					YHR091C		8	286770	284839	C		2011-02-03	1996-07-31	
+S000130149	ARS		ARS814			chromosome 8		8	286770	287128			2011-02-03	2009-05-06|2011-02-03	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000001134	ORF	Verified	YHR092C	HXT4	hexose transporter HXT4|RAG1|LGT1	chromosome 8	L000000838	8	288811	287081	C		2011-02-03	1996-07-31|2011-02-03	High-affinity glucose transporter; member of the major facilitator superfamily, expression is induced by low levels of glucose and repressed by high levels of glucose; HXT4 has a paralog, HXT7, that arose from the whole genome duplication
+S000033772	CDS					YHR092C		8	288811	287081	C		2011-02-03	1996-07-31|2011-02-03	
+S000001135	ORF	Dubious	YHR093W	AHT1		chromosome 8	L000000065	8	289142	289690	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; multicopy suppressor of glucose transport defects, likely due to the presence of an HXT4 regulatory element in the region
+S000033970	CDS					YHR093W		8	289142	289690	W		2011-02-03	1996-07-31	
+S000001136	ORF	Verified	YHR094C	HXT1	hexose transporter HXT1|HOR4	chromosome 8	L000000835	8	292625	290913	C	66.54	2011-02-03	1996-07-31	Low-affinity glucose transporter of the major facilitator superfamily; expression is induced by Hxk2p in the presence of glucose and repressed by Rgt1p when glucose is limiting; HXT1 has a paralog, HXT6, what arose from the whole genome duplication
+S000034018	CDS					YHR094C		8	292625	290913	C		2011-02-03	1996-07-31	
+S000001137	ORF	Dubious	YHR095W			chromosome 8		8	292943	293437	W		2011-02-03	1996-07-31|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035020	CDS					YHR095W		8	292943	293437	W		2011-02-03	1996-07-31|2011-02-03	
+S000001138	ORF	Verified	YHR096C	HXT5	hexose transporter HXT5	chromosome 8	L000000839	8	296447	294669	C		2011-02-03	1996-07-31	Hexose transporter with moderate affinity for glucose; induced in the presence of non-fermentable carbon sources, induced by a decrease in growth rate, contains an extended N-terminal domain relative to other HXTs; HXT5 has a paralog, HXT3, that arose from the whole genome duplication
+S000035072	CDS					YHR096C		8	296447	294669	C		2011-02-03	1996-07-31	
+S000130150	ARS		ARS815			chromosome 8		8	297060	297179			2014-11-18	2014-11-18|2009-05-06	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000001139	ORF	Uncharacterized	YHR097C			chromosome 8		8	298609	297385	C		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus; YHR097C has a paralog, PAL1, that arose from the whole genome duplication
+S000035267	CDS					YHR097C		8	298360	297385	C		2011-02-03	1996-07-31	
+S000035266	CDS					YHR097C		8	298609	298485	C		2011-02-03	1996-07-31	
+S000035268	intron					YHR097C		8	298484	298361	C		2011-02-03	1996-07-31	
+S000001140	ORF	Verified	YHR098C	SFB3	LST1	chromosome 8	L000004659	8	301934	299145	C		2011-02-03	1996-07-31	Component of the Sec23p-Sfb3p heterodimer of the COPII vesicle coat; COPII coat is required for cargo selection during vesicle formation in ER to Golgi transport; scaffolding function of Lst1p required to generate vesicles that can accommodate difficult cargo proteins that include large oligomeric assemblies and asymmetrically distributed membrane proteins; homologous to Sec24p and Sfb2p
+S000036156	CDS					YHR098C		8	301934	299145	C		2011-02-03	1996-07-31	
+S000001141	ORF	Verified	YHR099W	TRA1	histone acetyltransferase TRA1	chromosome 8	L000003945	8	302761	313995	W		2011-02-03	1996-07-31	Subunit of SAGA and NuA4 histone acetyltransferase complexes; interacts with acidic activators (e.g., Gal4p) which leads to transcription activation; similar to human TRRAP, which is a cofactor for c-Myc mediated oncogenic transformation
+S000036322	CDS					YHR099W		8	302761	313995	W		2011-02-03	1996-07-31	
+S000001142	ORF	Verified	YHR100C	GEP4	phosphatidylglycerophosphatase	chromosome 8		8	314673	314116	C		2011-02-03	1996-07-31	Mitochondrial phosphatidylglycerophosphatase (PGP phosphatase); dephosphorylates phosphatidylglycerolphosphate to generate phosphatidylglycerol, an essential step during cardiolipin biosynthesis; null mutant is sensitive to tunicamycin, DTT
+S000034711	CDS					YHR100C		8	314673	314116	C		2011-02-03	1996-07-31	
+S000001143	ORF	Verified	YHR101C	BIG1		chromosome 8	L000003416	8	315968	314874	C		2011-02-03	1996-07-31	Integral membrane protein of the endoplasmic reticulum; required for normal content of cell wall beta-1,6-glucan
+S000035670	CDS					YHR101C		8	315771	314874	C		2011-02-03	1996-07-31	
+S000035669	CDS					YHR101C		8	315968	315859	C		2011-02-03	1996-07-31	
+S000035671	intron					YHR101C		8	315858	315772	C		2011-02-03	1996-07-31	
+S000001144	ORF	Verified	YHR102W	KIC1	putative serine/threonine protein kinase KIC1|NRK1	chromosome 8	L000001276	8	316572	319814	W		2011-02-03	1996-07-31	Protein kinase of the PAK/Ste20 family, required for cell integrity; physically interacts with Cdc31p (centrin), which is a component of the spindle pole body; part of the RAM network that regulates cellular polarity and morphogenesis
+S000035759	CDS					YHR102W		8	316572	319814	W		2011-02-03	1996-07-31	
+S000001145	ORF	Verified	YHR103W	SBE22		chromosome 8	L000003101	8	320414	322972	W		2011-02-03	1996-07-31	Protein involved in bud growth; involved in the transport of cell wall components from the Golgi to the cell surface; similar in structure and functionally redundant with Sbe2p; SBE22 has a paralog, SBE2, that arose from the whole genome duplication
+S000035866	CDS					YHR103W		8	320414	322972	W		2011-02-03	1996-07-31	
+S000001146	ORF	Verified	YHR104W	GRE3	trifunctional aldehyde reductase/xylose reductase/glucose 1-dehydrogenase (NADP(+))	chromosome 8	L000004178	8	323409	324392	W		2011-02-03	1996-07-31	Aldose reductase; involved in methylglyoxal, d-xylose, arabinose, and galactose metabolism; stress induced (osmotic, ionic, oxidative, heat shock, starvation and heavy metals); regulated by the HOG pathway; protein abundance increases in response to DNA replication stress
+S000036784	CDS					YHR104W		8	323409	324392	W		2011-02-03	1996-07-31	
+S000001147	ORF	Verified	YHR105W	YPT35		chromosome 8		8	324766	325410	W		2011-02-03	1996-07-31	Endosomal protein of unknown function; contains a phox (PX) homology domain; binds to both phosphatidylinositol-3-phosphate (PtdIns(3)P) and proteins involved in ER-Golgi or vesicular transport
+S000036859	CDS					YHR105W		8	324766	325410	W		2011-02-03	1996-07-31	
+S000001148	ORF	Verified	YHR106W	TRR2	thioredoxin-disulfide reductase TRR2	chromosome 8	L000003954	8	325598	326626	W		2011-02-03	1996-07-31	Mitochondrial thioredoxin reductase; involved in protection against oxidative stress, required with Glr1p to maintain the redox state of Trx3p; contains active-site motif (CAVC) present in prokaryotic orthologs; binds NADPH and FAD; TRR2 has a paralog, TRR1, that arose from the whole genome duplication
+S000036915	CDS					YHR106W		8	325598	326626	W		2011-02-03	1996-07-31	
+S000001149	ORF	Verified	YHR107C	CDC12	septin CDC12|PSL7|CLA10	chromosome 8	L000000348|L000000252	8	328036	326813	C	68.14	2011-02-03	1996-07-31	Component of the septin ring that is required for cytokinesis; septins are GTP-binding proteins that assemble into rod-like hetero-oligomers that can associate with other rods to form filaments; septin rings at the mother-bud neck act as scaffolds for recruiting cell division factors and as barriers to prevent diffusion of specific proteins between mother and daughter cells
+S000036947	CDS					YHR107C		8	328036	326813	C		2011-02-03	1996-07-31	
+S000001150	ORF	Verified	YHR108W	GGA2	phosphatidylinositol 4-phosphate-binding protein	chromosome 8	S000007494	8	328303	330060	W		2011-02-03	1996-07-31	Protein that regulates Arf1p, Arf2p to facilitate Golgi trafficking; binds phosphatidylinositol 4-phosphate, which plays a role in TGN localization; has homology to gamma-adaptin; GGA2 has a paralog, GGA1, that arose from the whole genome duplication
+S000037727	CDS					YHR108W		8	328303	330060	W		2011-02-03	1996-07-31	
+S000001151	ORF	Verified	YHR109W	CTM1	cytochrome c lysine N-methyltransferase	chromosome 8	S000007504	8	330310	332067	W		2011-02-03	1996-07-31	Cytochrome c lysine methyltransferase; trimethylates residue 72 of apo-cytochrome c (Cyc1p) in the cytosol; not required for normal respiratory growth
+S000037814	CDS					YHR109W		8	330310	332067	W		2011-02-03	1996-07-31	
+S000001152	ORF	Verified	YHR110W	ERP5		chromosome 8	L000004682	8	332282	332920	W		2011-02-03	1996-07-31	Protein with similarity to Emp24p and Erv25p; member of the p24 family involved in ER to Golgi transport
+S000030739	CDS					YHR110W		8	332282	332920	W		2011-02-03	1996-07-31	
+S000001153	ORF	Verified	YHR111W	UBA4	YHR1	chromosome 8		8	333072	334394	W		2011-02-03	1996-07-31	E1-like protein that activates Urm1p before urmylation; also acts in thiolation of the wobble base of cytoplasmic tRNAs by adenylating and then thiolating Urm1p; receives sulfur from Tum1p
+S000030847	CDS					YHR111W		8	333072	334394	W		2011-02-03	1996-07-31	
+S000001154	ORF	Verified	YHR112C		putative cystathionine beta-lyase	chromosome 8		8	335663	334527	C		2011-02-03	1996-07-31	Protein of unknown function; localizes to the cytoplasm and nucleus; overexpression affects protein trafficking through the endocytic pathway
+S000031735	CDS					YHR112C		8	335663	334527	C		2011-02-03	1996-07-31	
+S000001155	ORF	Verified	YHR113W	APE4	aspartyl aminopeptidase	chromosome 8		8	336337	337809	W		2011-02-03	1996-07-31	Cytoplasmic aspartyl aminopeptidase with possible vacuole function; Cvt pathway cargo protein; cleaves unblocked N-terminal acidic amino acids from peptide substrates; forms a 12-subunit homo-oligomer; M18 metalloprotease family
+S000031980	CDS					YHR113W		8	336337	337809	W		2011-02-03	1996-07-31	
+S000001156	ORF	Verified	YHR114W	BZZ1	LSB7	chromosome 8		8	338083	339984	W		2011-02-03	1996-07-31	SH3 domain protein implicated in regulating actin polymerization; able to recruit actin polymerization machinery through its SH3 domains; colocalizes with cortical actin patches and Las17p; interacts with type I myosins
+S000032098	CDS					YHR114W		8	338083	339984	W		2011-02-03	1996-07-31	
+S000001157	ORF	Verified	YHR115C	DMA1	ubiquitin-conjugating protein DMA1|CHF1	chromosome 8	S000029719	8	341359	340109	C		2011-02-03	1996-07-31	Ubiquitin-protein ligase (E3); controls septin dynamics, spindle position checkpoint (SPOC) with ligase Dma2p by regulating recruitment of Elm1p to bud neck; regulates levels of eIF2 subunit Gcd11p, as well as abundance, localization, and ubiquitination of Cdk inhibitory kinase Swe1p; ubiquitinates cyclin Pcl1p; ortholog of human RNF8, similar to human Chfr; contains FHA, RING fingers; DMA1 has a paralog, DMA2, that arose from the whole genome duplication
+S000032967	CDS					YHR115C		8	341359	340109	C		2011-02-03	1996-07-31	
+S000001158	ORF	Verified	YHR116W	COX23		chromosome 8		8	341665	342120	W		2011-02-03	1996-07-31	Protein that functions in mitochondrial copper homeostasis; mitochondrial intermembrane space protein; essential for functional cytochrome oxidase expression; homologous to Cox17p; contains twin cysteine-x9-cysteine motifs
+S000033114	CDS					YHR116W		8	341665	342120	W		2011-02-03	1996-07-31	
+S000001159	ORF	Verified	YHR117W	TOM71	protein channel TOM71|TOM72	chromosome 8	L000003252	8	342349	344268	W		2011-02-03	1996-07-31	Mitochondrial outer membrane protein; probable minor component of the TOM (translocase of outer membrane) complex responsible for recognition and import of mitochondrially directed proteins; TOM71 has a paralog, TOM70, that arose from the whole genome duplication
+S000033188	CDS					YHR117W		8	342349	344268	W		2011-02-03	1996-07-31	
+S000001160	ORF	Verified	YHR118C	ORC6	origin recognition complex subunit 6	chromosome 8	L000001306	8	345628	344321	C		2011-02-03	1996-07-31	Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; phosphorylated by Cdc28p; mutation in the human Orc6p is linked to Meier-Gorlin syndrome
+S000033913	CDS					YHR118C		8	345628	344321	C		2011-02-03	1996-07-31	
+S000001161	ORF	Verified	YHR119W	SET1	histone methyltransferase SET1|KMT2|YTX1	chromosome 8	L000003286	8	346043	349285	W		2011-02-03	1996-07-31	Histone methyltransferase, subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3K4; Set1p-dependent H3K4 trimethylation recruits Nrd1p, allowing efficient termination of snoRNAs and cryptic unstable transcripts (CUTs) by Nrd1p-Nab3p-Sen1p pathway; modulates histone acetylation levels in promoter proximal regions to ensure efficient Nrd1p-dependent termination; required in transcriptional silencing near telomeres and at silent mating type loci; has a SET domain
+S000034097	CDS					YHR119W		8	346043	349285	W		2011-02-03	1996-07-31	
+S000001162	ORF	Verified	YHR120W	MSH1	mismatch repair ATPase MSH1	chromosome 8	L000001189	8	349574	352453	W	70.44	2011-02-03	1996-07-31	DNA-binding protein of the mitochondria; involved in repair of mitochondrial DNA; has ATPase activity and binds to DNA mismatches; has homology to E. coli MutS; transcription is induced during meiosis
+S000035066	CDS					YHR120W		8	349574	352453	W		2011-02-03	1996-07-31	
+S000001163	ORF	Verified	YHR121W	LSM12		chromosome 8		8	352756	353319	W		2011-02-03	1996-07-31	Protein of unknown function that may function in RNA processing; interacts with Pbp1p and Pbp4p and associates with ribosomes; contains an RNA-binding LSM domain and an AD domain; GFP-fusion protein is induced by the DNA-damaging agent MMS; relative distribution to the nucleus increases upon DNA replication stress
+S000035174	CDS					YHR121W		8	352756	353319	W		2011-02-03	1996-07-31	
+S000001164	ORF	Verified	YHR122W	CIA2	iron-sulfur cluster assembly protein CIA2	chromosome 8		8	353625	354320	W		2011-02-03	1996-07-31	Component of cytosolic iron-sulfur protein assembly (CIA) machinery; acts at a late step of Fe-S cluster assembly; forms the CIA targeting complex with Cia1p and Met18p that directs Fe-S cluster incorporation into a subset of proteins involved in methionine biosynthesis, DNA replication and repair, transcription, and telomere maintenance; ortholog of human FAM96B
+S000036050	CDS					YHR122W		8	353625	354320	W		2011-02-03	1996-07-31	
+S000001165	ORF	Verified	YHR123W	EPT1	bifunctional diacylglycerol cholinephosphotransferase/ethanolaminephosphotransferase	chromosome 8	L000000563	8	354815	356081	W		2011-02-03	1996-07-31	sn-1,2-diacylglycerol ethanolamine- and cholinephosphotranferase; not essential for viability; EPT1 has a paralog, CPT1, that arose from the whole genome duplication
+S000036151	CDS					YHR123W		8	354815	354864	W		2011-02-03	1996-07-31	
+S000036152	CDS					YHR123W		8	354956	356081	W		2011-02-03	1996-07-31	
+S000036153	intron					YHR123W		8	354865	354955	W		2011-02-03	1996-07-31	
+S000001166	ORF	Verified	YHR124W	NDT80	transcription factor NDT80	chromosome 8	L000003016	8	356561	358444	W		2011-02-03	1996-07-31	Meiosis-specific transcription factor; required for exit from pachytene and for full meiotic recombination; activates middle sporulation genes; competes with Sum1p for binding to promoters containing middle sporulation elements (MSE) 
+S000029855	CDS					YHR124W		8	356561	358444	W		2011-02-03	1996-07-31	
+S000006567	tRNA_gene		tF(GAA)H2			chromosome 8	L000003860	8	358569	358478	C		2011-02-03	2000-05-19	Phenylalanine tRNA (tRNA-Phe), predicted by tRNAscan-SE analysis
+S000032804	intron					tF(GAA)H2		8	358532	358514	C		2011-02-03	2000-05-19	
+S000032803	noncoding_exon					tF(GAA)H2		8	358513	358478	C		2011-02-03	2000-05-19	
+S000032802	noncoding_exon					tF(GAA)H2		8	358569	358533	C		2011-02-03	2000-05-19	
+S000006996	long_terminal_repeat		YHRCdelta8			chromosome 8		8	358850	358672	C		2011-02-03	2000-05-19	Ty1 LTR
+S000001167	ORF	Dubious	YHR125W			chromosome 8		8	358858	359163	W		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031773	CDS					YHR125W		8	358858	359163	W		2011-02-03	1996-07-31	
+S000007005	long_terminal_repeat		YHRCtau4			chromosome 8		8	359067	358850	C		2011-02-03	2000-05-19	Ty4 LTR
+S000007008	long_terminal_repeat		YHRWdelta9			chromosome 8		8	359079	359372	W		2011-02-03	2000-05-19	Ty1 LTR
+S000001168	ORF	Uncharacterized	YHR126C	ANS1		chromosome 8		8	360181	359702	C		2011-02-03	1996-07-31	Putative GPI protein; SWAT-GFP and mCherry fusion proteins localize to the vacuole; transcription dependent upon Azf1p
+S000031832	CDS					YHR126C		8	360181	359702	C		2011-02-03	1996-07-31	
+S000001169	ORF	Verified	YHR127W		HSN1	chromosome 8	L000004353	8	360913	361644	W		2011-02-03	1996-07-31	Protein of unknown function; localizes to the nucleus; required for asymmetric localization of Kar9p during mitosis
+S000032038	CDS					YHR127W		8	360913	361644	W		2011-02-03	1996-07-31	
+S000001170	ORF	Verified	YHR128W	FUR1	uracil phosphoribosyltransferase	chromosome 8	L000000651	8	362115	362765	W	91	2011-02-03	2003-09-22|1996-07-31	Uracil phosphoribosyltransferase; synthesizes UMP from uracil; involved in the pyrimidine salvage pathway
+S000037493	CDS					YHR128W		8	362115	362765	W		2011-02-03	2003-09-22|1996-07-31	
+S000001171	ORF	Verified	YHR129C	ARP1	actin-related protein 1|ACT5	chromosome 8	L000000028	8	364153	362999	C		2011-02-03	1996-07-31	Actin-related protein of the dynactin complex; required for spindle orientation and nuclear migration; forms actin-like short filament composed of 9 or 10 Arp1p monomers; putative ortholog of mammalian centractin
+S000037551	CDS					YHR129C		8	364153	362999	C		2011-02-03	1996-07-31	
+S000001172	ORF	Uncharacterized	YHR130C			chromosome 8		8	365300	364965	C		2011-02-03	1996-07-31	Putative protein of unknown function; conserved among S. cerevisiae strains; YHR130C is not an essential gene
+S000037165	CDS					YHR130C		8	365300	364965	C		2011-02-03	1996-07-31	
+S000028782	ORF	Dubious	YHR131W-A			chromosome 8		8	367747	367992	W		2011-02-03	2004-07-26|2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YHR131C
+S000033522	CDS					YHR131W-A		8	367747	367992	W		2011-02-03	2004-07-26|2003-07-29	
+S000001173	ORF	Uncharacterized	YHR131C			chromosome 8		8	367892	365340	C		2011-02-03	2004-07-26|1996-07-31	Putative protein of unknown function; GFP-fusion protein localizes to the cytoplasm; overexpression causes cell cycle delay or arrest; contains a PH domain and binds phosphatidylinositols and other lipids in a large-scale study; YHR131C has a paralog, YNL144C, that arose from the whole genome duplication
+S000037245	CDS					YHR131C		8	367892	365340	C		2011-02-03	2004-07-26|1996-07-31	
+S000001174	ORF	Verified	YHR132C	ECM14	putative metallocarboxypeptidase	chromosome 8	L000003889	8	369794	368502	C		2011-02-03	1996-07-31	Putative metalloprotease with similarity to zinc carboxypeptidases; required for normal cell wall assembly
+S000037322	CDS					YHR132C		8	369794	368502	C		2011-02-03	1996-07-31	
+S000007496	ORF	Verified	YHR132W-A	IGO2	phosphatase regulator	chromosome 8		8	370054	370449	W		2011-02-03	2000-01-21	Protein required for initiation of G0 program; prevents degradation of nutrient-regulated mRNAs via the 5'-3' mRNA decay pathway; phosphorylated by Rim15p; GFP protein localizes to the cytoplasm and nucleus; IGO2 has a paralog, IGO1, that arose from the whole genome duplication
+S000032170	CDS					YHR132W-A		8	370054	370449	W		2011-02-03	2000-01-21	
+S000001175	ORF	Verified	YHR133C	NSG1		chromosome 8		8	371597	370722	C		2011-02-03	1996-07-31	Protein involved in regulation of sterol biosynthesis; specifically stabilizes Hmg2p, one of two HMG-CoA isoenzymes that catalyze the rate-limiting step in sterol biosynthesis; forms foci at the nuclear periphery upon DNA replication stress; relocalizes to the cytosol in response to hypoxia; homolog of mammalian INSIG proteins; NSG1 has a paralog, NSG2, that arose from the whole genome duplication
+S000037393	CDS					YHR133C		8	371597	370722	C		2011-02-03	1996-07-31	
+S000001176	ORF	Verified	YHR134W	WSS1	metalloendopeptidase WSS1	chromosome 8		8	371749	372558	W		2011-02-03	1996-07-31	Metalloprotease involved in DNA repair, removes DNA-protein crosslinks at stalled replication forks during replication of damaged DNA; localizes to a single spot on the nuclear periphery of mother cells but not daughters; interacts genetically with SMT3; activated by DNA binding
+S000030068	CDS					YHR134W		8	371749	372558	W		2011-02-03	1996-07-31	
+S000001177	ORF	Verified	YHR135C	YCK1	serine/threonine protein kinase YCK1|CKI2	chromosome 8	L000002500	8	374310	372694	C		2011-02-03	1996-07-31	Palmitoylated plasma membrane-bound casein kinase I (CK1) isoform; shares redundant functions with Yck2p in morphogenesis, proper septin assembly, endocytic trafficking, and glucose sensing; stabilized by Sod1p binding in the presence of glucose and oxygen, causing glucose repression of respiratory metabolism; involved in the phosphorylation and regulation of glucose sensor Rgt2p; YCK1 has a paralog, YCK2, that arose from the whole genome duplication
+S000030130	CDS					YHR135C		8	374310	372694	C		2011-02-03	1996-07-31	
+S000001178	ORF	Verified	YHR136C	SPL2		chromosome 8	L000004174	8	375100	374654	C		2011-02-03	1996-07-31	Protein with similarity to cyclin-dependent kinase inhibitors; downregulates low-affinity phosphate transport during phosphate limitation by targeting Pho87p to the vacuole; upstream region harbors putative hypoxia response element (HRE) cluster; overproduction suppresses a plc1 null mutation; promoter shows an increase in Snf2p occupancy after heat shock; GFP-fusion protein localizes to the cytoplasm
+S000030305	CDS					YHR136C		8	375100	374654	C		2011-02-03	1996-07-31	
+S000001179	ORF	Verified	YHR137W	ARO9	aromatic-amino-acid:2-oxoglutarate transaminase	chromosome 8	L000003950	8	375709	377250	W		2011-02-03	1996-07-31	Aromatic aminotransferase II; catalyzes the first step of tryptophan, phenylalanine, and tyrosine catabolism
+S000033667	CDS					YHR137W		8	375709	377250	W		2011-02-03	1996-07-31	
+S000028649	ORF	Dubious	YHR137C-A			chromosome 8		8	376388	375738	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene ARO9/YHR137W; identified by gene-trapping, expression analysis, and genome-wide homology searching
+S000032425	CDS					YHR137C-A		8	376388	375738	C		2011-02-03	2003-07-29	
+S000001180	ORF	Verified	YHR138C			chromosome 8		8	377699	377355	C		2011-02-03	1996-07-31	Protein of unknown function; similar to Pbi2p; double null mutant lacking Pbi2p and Yhr138cp exhibits highly fragmented vacuoles; protein abundance increases in response to DNA replication stress
+S000033725	CDS					YHR138C		8	377699	377355	C		2011-02-03	1996-07-31	
+S000001181	ORF	Verified	YHR139C	SPS100		chromosome 8	L000002027	8	379199	378219	C		2011-02-03	1996-07-31	Protein required for spore wall maturation; expressed during sporulation; may be a component of the spore wall; expression also induced in cells treated with the mycotoxin patulin; SPS100 has a paralog, YGP1, that arose from the whole genome duplication
+S000033864	CDS					YHR139C		8	379199	378219	C		2011-02-03	1996-07-31	
+S000003533	ORF	Dubious	YHR139C-A			chromosome 8		8	380419	380108	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035738	CDS					YHR139C-A		8	380419	380108	C		2011-02-03	1996-07-31	
+S000001182	ORF	Uncharacterized	YHR140W			chromosome 8		8	380572	381291	W		2011-02-03	1996-07-31	Putative integral membrane protein of unknown function
+S000033477	CDS					YHR140W		8	380572	381291	W		2011-02-03	1996-07-31	
+S000007297	snoRNA_gene		snR32	SNR32		chromosome 8	L000001970	8	381540	381727	W		2011-02-03	2000-05-19	H/ACA box small nucleolar RNA (snoRNA); guides pseudouridylation of large subunit (LSU) rRNA at position U2191
+S000036759	noncoding_exon					snR32		8	381540	381727	W		2011-02-03	2000-05-19	
+S000001183	ORF	Verified	YHR141C	RPL42B	eL42|ribosomal 60S subunit protein L42B|L44e|YP44|YL27|L42B|L41B|MAK18	chromosome 8	L000001732|L000000990	8	382751	381990	C	95	2011-02-03	1996-07-31	Ribosomal 60S subunit protein L42B; required for propagation of the killer toxin-encoding M1 double-stranded RNA satellite of the L-A double-stranded RNA virus; homologous to mammalian ribosomal protein L36A, no bacterial homolog; RPL42B has a paralog, RPL42A, that arose from the whole genome duplication
+S000033511	CDS					YHR141C		8	382306	381990	C		2011-02-03	1996-07-31	
+S000033510	CDS					YHR141C		8	382751	382748	C		2011-02-03	1996-07-31	
+S000033512	intron					YHR141C		8	382747	382307	C		2011-02-03	1996-07-31	
+S000001184	ORF	Verified	YHR142W	CHS7		chromosome 8	S000007442	8	383538	384488	W		2011-02-03	1996-07-31	Protein of unknown function; may be involved in chitin biosynthesis by regulation of Chs3p export from the ER; relocalizes from bud neck to ER upon DNA replication stress
+S000033600	CDS					YHR142W		8	383538	384488	W		2011-02-03	1996-07-31	
+S000001186	ORF	Verified	YHR143W	DSE2		chromosome 8		8	385510	386487	W		2011-02-03	1996-07-31	Daughter cell-specific secreted protein with similarity to glucanases; degrades cell wall from the daughter side causing daughter to separate from mother; expression is repressed by cAMP
+S000034514	CDS					YHR143W		8	385510	386487	W		2011-02-03	1996-07-31	
+S000001185	ORF	Verified	YHR143W-A	RPC10	DNA-directed RNA polymerase core subunit RPC10|ABC10-alpha|RPB12	chromosome 8	L000001686	8	387233	387445	W		2011-02-03	1996-07-31	RNA polymerase subunit ABC10-alpha, found in RNA pol I, II, and III; relocalizes from nucleolus to cytoplasm upon DNA replication stress
+S000036603	CDS					YHR143W-A		8	387233	387445	W		2011-02-03	1996-07-31	
+S000001187	ORF	Verified	YHR144C	DCD1	deoxycytidine monophosphate deaminase	chromosome 8	L000000496	8	388726	387788	C		2011-02-03	1996-07-31	Deoxycytidine monophosphate (dCMP) deaminase; involved in dUMP and dTMP biosynthesis; expression is NOT cell cycle regulated
+S000034581	CDS					YHR144C		8	388726	387788	C		2011-02-03	1996-07-31	
+S000006682	tRNA_gene		tP(UGG)H	SUF8		chromosome 8	L000002156|L000003859	8	388995	388893	C	82	2011-02-03	2000-05-19	Proline tRNA (tRNA-Pro), predicted by tRNAscan-SE analysis; target of K. lactis zymocin; can mutate to suppress +1 frameshift mutations in proline codons
+S000035984	intron					tP(UGG)H		8	388959	388929	C		2011-02-03	2000-05-19	
+S000035983	noncoding_exon					tP(UGG)H		8	388928	388893	C		2011-02-03	2000-05-19	
+S000035982	noncoding_exon					tP(UGG)H		8	388995	388960	C		2011-02-03	2000-05-19	
+S000001188	ORF	Dubious	YHR145C			chromosome 8		8	389337	388981	C		2011-02-03	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034646	CDS					YHR145C		8	389337	388981	C		2011-02-03	1996-07-31	
+S000006997	long_terminal_repeat		YHRCdelta10			chromosome 8		8	389509	389177	C		2011-02-03	2000-05-19	Ty2 LTR
+S000006998	long_terminal_repeat		YHRCdelta11			chromosome 8		8	389845	389613	C		2011-02-03	2000-05-19	Ty1 LTR
+S000001189	ORF	Verified	YHR146W	CRP1		chromosome 8		8	390300	391697	W		2011-02-03	1996-07-31	Protein that binds to cruciform DNA structures; CRP1 has a paralog, MDG1, that arose from the whole genome duplication
+S000035695	CDS					YHR146W		8	390300	391697	W		2011-02-03	1996-07-31	
+S000118360	ARS		ARS818		ARSVIII-392	chromosome 8		8	392180	392395			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178109	ARS_consensus_sequence					ARS818		8	392249	392233	C		2014-11-18	2014-11-18	
+S000001190	ORF	Verified	YHR147C	MRPL6	mitochondrial 54S ribosomal protein YmL16|YmL16	chromosome 8	L000001161	8	393283	392639	C		2011-02-03	1996-07-31	Mitochondrial ribosomal protein of the large subunit
+S000035761	CDS					YHR147C		8	393283	392639	C		2011-02-03	1996-07-31	
+S000001191	ORF	Verified	YHR148W	IMP3	snoRNA-binding rRNA-processing protein IMP3	chromosome 8	S000007425	8	393534	394085	W		2011-02-03	1996-07-31	Component of the SSU processome; SSU processome is required for pre-18S rRNA processing, essential protein that interacts with Mpp10p and mediates interactions of Imp4p and Mpp10p with U3 snoRNA
+S000035958	CDS					YHR148W		8	393534	394085	W		2011-02-03	1996-07-31	
+S000001192	ORF	Verified	YHR149C	SKG6		chromosome 8		8	396659	394455	C		2011-02-03	1996-07-31	Integral membrane protein; localizes primarily to growing sites such as the bud tip or the cell periphery; potential Cdc28p substrate; Skg6p interacts with Zds1p and Zds2p; SKG6 has a paralog, TOS2, that arose from the whole genome duplication
+S000037794	CDS					YHR149C		8	396659	394455	C		2011-02-03	1996-07-31	
+S000001193	ORF	Verified	YHR150W	PEX28		chromosome 8		8	397251	398990	W		2011-02-03	1996-07-31	Peroxisomal integral membrane peroxin; involved in the regulation of peroxisomal size, number and distribution; genetic interactions suggest that Pex28p and Pex29p act at steps upstream of those mediated by Pex30p, Pex31p, and Pex32p
+S000037560	CDS					YHR150W		8	397251	398990	W		2011-02-03	1996-07-31	
+S000001194	ORF	Verified	YHR151C	MTC6		chromosome 8		8	400848	399268	C		2011-02-03	1996-07-31	Protein of unknown function; mtc6 is synthetically sick with cdc13-1; SWAT-GFP and mCherry fusion proteins localize to the vacuole while SWAT-GFP fusion also localizes to the endoplasmic reticulum
+S000037592	CDS					YHR151C		8	400848	399268	C		2011-02-03	1996-07-31	
+S000001195	ORF	Verified	YHR152W	SPO12	SDB21	chromosome 8	L000002003|S000029441|L000001821	8	401434	401955	W	83	2011-02-03	1996-07-31	Nucleolar protein of unknown function; positive regulator of mitotic exit; involved in regulating release of Cdc14p from the nucleolus in early anaphase, may play similar role in meiosis; SPO12 has a paralog, BNS1, that arose from the whole genome duplication
+S000037692	CDS					YHR152W		8	401434	401955	W		2011-02-03	1996-07-31	
+S000001196	ORF	Verified	YHR153C	SPO16		chromosome 8	L000002007	8	402682	402086	C	83	2011-02-03	1996-07-31	Meiosis-specific protein involved in synaptonemal complex assembly; implicated in regulation of crossover formation; required for sporulation
+S000037713	CDS					YHR153C		8	402682	402086	C		2011-02-03	1996-07-31	
+S000001197	ORF	Verified	YHR154W	RTT107	ESC4	chromosome 8	L000004424	8	402966	406178	W		2011-02-03	1996-07-31	Protein implicated in Mms22-dependent DNA repair during S phase; involved in recruiting the SMC5/6 complex to double-strand breaks; DNA damage induces phosphorylation by Mec1p at one or more SQ/TQ motifs; interacts with Mms22p and Slx4p; has four BRCT domains; has a role in regulation of Ty1 transposition; relative distribution to nuclear foci increases upon DNA replication stress
+S000030580	CDS					YHR154W		8	402966	406178	W		2011-02-03	1996-07-31	
+S000001198	ORF	Verified	YHR155W	LAM1	YSP1	chromosome 8		8	407103	410789	W		2011-02-03	1996-07-31	Putative sterol transfer protein; localizes to puncta in the cortical ER; probable role in retrograde transport of sterols from the plasma membrane to the ER; one of six StART-like domain-containing proteins in yeast that may be involved in sterol transfer between intracellular membranes; conserved across eukaryotes; contains GRAM, StART-like (VASt) and two PH-like domains
+S000030669	CDS					YHR155W		8	407103	410789	W		2011-02-03	1996-07-31	
+S000006462	snoRNA_gene		snR71	SNR71		chromosome 8	L000004540	8	411228	411317	W		2011-02-03	2000-05-19	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A2946
+S000031782	noncoding_exon					snR71		8	411228	411317	W		2011-02-03	2000-05-19	
+S000001199	ORF	Verified	YHR156C	LIN1	U5 snRNP complex subunit LIN1|SNU40	chromosome 8		8	412406	411384	C		2011-02-03	1996-07-31	Non-essential component of U5 snRNP; nuclear protein; physically interacts with Irr1p of cohesin complex; may link together proteins involved in chromosome segregation, mRNA splicing and DNA replication
+S000030744	CDS					YHR156C		8	412406	411384	C		2011-02-03	1996-07-31	
+S000001200	ORF	Verified	YHR157W	REC104		chromosome 8	L000001605	8	412907	413455	W	107	2011-02-03	1996-07-31	Protein involved in early stages of meiotic recombination; required for meiotic crossing over; forms a complex with Rec102p and Spo11p necessary during the initiation of recombination
+S000030900	CDS					YHR157W		8	412907	413455	W		2011-02-03	1996-07-31	
+S000001201	ORF	Verified	YHR158C	KEL1		chromosome 8	L000003592	8	417179	413685	C		2011-02-03	1996-07-31	Protein required for proper cell fusion and cell morphology; forms a complex with Bud14p and Kel2p that regulates Bnr1p (formin) to affect actin cable assembly, cytokinesis, and polarized growth; functions in a complex with Kel2p to negatively regulate mitotic exit, interacts with Tem1p and Lte1p; localizes to regions of polarized growth; potential Cdc28p substrate
+S000031842	CDS					YHR158C		8	417179	413685	C		2011-02-03	1996-07-31	
+S000001202	ORF	Uncharacterized	YHR159W	TDA11		chromosome 8		8	417549	419063	W		2011-02-03	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; potential Cdc28p substrate; null mutant is sensitive to expression of the top1-T722A allele
+S000032058	CDS					YHR159W		8	417549	419063	W		2011-02-03	1996-07-31	
+S000001203	ORF	Verified	YHR160C	PEX18		chromosome 8	L000004796	8	420072	419221	C		2011-02-03	1996-07-31	Peroxin; required for targeting of peroxisomal matrix proteins containing PTS2; interacts with Pex7p; partially redundant with Pex21p; primarily responsible for peroxisomal import during growth on oleate, and expression is induced during oleate growth
+S000031912	CDS					YHR160C		8	420072	419221	C		2011-02-03	1996-07-31	
+S000001204	ORF	Verified	YHR161C	YAP1801		chromosome 8	L000004198	8	422286	420373	C		2011-02-03	1996-07-31	Protein of the AP180 family, involved in clathrin cage assembly; binds Pan1p and clathrin; YAP1801 has a paralog, YAP1802, that arose from the whole genome duplication
+S000032851	CDS					YHR161C		8	422286	420373	C		2011-02-03	1996-07-31	
+S000001205	ORF	Verified	YHR162W	MPC2	mitochondrial pyruvate carrier	chromosome 8		8	423072	423461	W		2011-02-03	1996-07-31	Highly conserved subunit of the mitochondrial pyruvate carrier (MPC); expressed during growth on fermentable carbon sources, and heterodimerizes with Mpc1p to form the fermentative isoform of MPC; MPC localizes to the mitochondrial inner membrane and mediates pyruvate uptake; MPC2 paralog, MPC3, heterodimerizes with Mpc1p to form the respiratory MPC isoform
+S000033001	CDS					YHR162W		8	423072	423461	W		2011-02-03	1996-07-31	
+S000001206	ORF	Verified	YHR163W	SOL3	6-phosphogluconolactonase SOL3	chromosome 8	L000003117	8	423724	424473	W		2011-02-03	1996-07-31|2005-11-07	6-phosphogluconolactonase; catalyzes the second step of the pentose phosphate pathway; weak multicopy suppressor of los1-1 mutation; homologous to Sol2p and Sol1p; SOL3 has a paralog, SOL4, that arose from the whole genome duplication
+S000033074	CDS					YHR163W		8	423724	424473	W		2011-02-03	1996-07-31|2005-11-07	
+S000001207	ORF	Verified	YHR164C	DNA2	bifunctional ATP-dependent DNA helicase/ssDNA endodeoxyribonuclease DNA2|WEB2	chromosome 8	L000003158	8	429178	424610	C		2011-02-03	1996-07-31	Tripartite DNA replication factor; single-stranded DNA-dependent ATPase, ATP-dependent nuclease, helicase; tracking protein for flap cleavage during Okazaki fragment maturation; involved in DNA repair/processing of meiotic DNA double strand breaks; component of telomeric chromatin with cell-cycle dependent localization; required for telomerase-dependent telomere synthesis; forms nuclear foci upon DNA replication stress; human homolog DNA2 complements yeast dna2 mutant
+S000033680	CDS					YHR164C		8	429178	424610	C		2011-02-03	1996-07-31	
+S000028783	ORF	Dubious	YHR165W-A			chromosome 8		8	436647	436958	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps ORF PRP8/YHR165C
+S000033524	CDS					YHR165W-A		8	436647	436958	W		2011-02-03	2003-07-29	
+S000001208	ORF	Verified	YHR165C	PRP8	U4/U6-U5 snRNP complex subunit PRP8|USA2|SLT21|RNA8|DNA39|DBF3	chromosome 8	L000001500|L000003226	8	436948	429707	C		2011-02-03	1996-07-31	Component of U4/U6-U5 snRNP complex; involved in second catalytic step of splicing; participates in spliceosomal assembly through its interaction with U1 snRNA; largest and most evolutionarily conserved protein of the spliceosome; mutations in human ortholog, PRPF8, cause Retinitis pigmentosa and missplicing in Myelodysplastic syndrome; mouse ortholog interacts with androgen receptor and may have a role in prostate cancer
+S000033804	CDS					YHR165C		8	436948	429707	C		2011-02-03	1996-07-31	
+S000001209	ORF	Verified	YHR166C	CDC23	anaphase promoting complex subunit CDC23	chromosome 8	L000000261	8	439050	437170	C		2011-02-03	1996-07-31	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); APC/C is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition
+S000033878	CDS					YHR166C		8	439050	437170	C		2011-02-03	1996-07-31	
+S000001210	ORF	Verified	YHR167W	THP2		chromosome 8		8	439342	440127	W		2011-02-03	1996-07-31	Subunit of the THO and TREX complexes; THO connects transcription elongation and mitotic recombination, and TREX is recruited to activated genes and couples transcription to mRNA export; involved in telomere maintenance
+S000034871	CDS					YHR167W		8	439342	440127	W		2011-02-03	1996-07-31	
+S000001211	ORF	Verified	YHR168W	MTG2	putative GTPase MTG2	chromosome 8		8	440377	441933	W		2011-02-03	1996-07-31|2011-02-03	Putative GTPase; member of the Obg family; peripheral protein of the mitochondrial inner membrane that associates with the large ribosomal subunit; required for mitochondrial translation, possibly via a role in ribosome assembly
+S000035023	CDS					YHR168W		8	440377	441933	W		2011-02-03	1996-07-31|2011-02-03	
+S000001212	ORF	Verified	YHR169W	DBP8	ATP-dependent RNA helicase DBP8	chromosome 8	L000004248	8	442181	443476	W		2011-02-03	1996-07-31	ATPase, putative RNA helicase of the DEAD-box family; component of 90S preribosome complex involved in production of 18S rRNA and assembly of 40S small ribosomal subunit; ATPase activity stimulated by association with Esf2p
+S000035188	CDS					YHR169W		8	442181	443476	W		2011-02-03	1996-07-31	
+S000001213	ORF	Verified	YHR170W	NMD3	ribosome-binding protein NMD3|SRC5	chromosome 8	L000002937	8	443828	445384	W		2011-02-03	1996-07-31	Protein involved in nuclear export of the large ribosomal subunit; acts as a Crm1p-dependent adapter protein for export of nascent ribosomal subunits through the nuclear pore complex
+S000036170	CDS					YHR170W		8	443828	445384	W		2011-02-03	1996-07-31	
+S000001214	ORF	Verified	YHR171W	ATG7	APG11|APG7|CVT2	chromosome 8	L000004701|S000029035|L000004786	8	445713	447605	W		2005-11-07	1996-07-31	Autophagy-related protein and dual specificity member of the E1 family; mediates the attachment of Atg12p to Atg5p and Atg8p to phosphatidylethanolamine which are required steps in autophagosome formation; E1 enzymes are also known as ubiquitin-activating enzymes; involved in methionine restriction extension of chronological lifespan in an autophagy-dependent manner
+S000036922	CDS					YHR171W		8	445713	447605	W		2005-11-07	1996-07-31	
+S000118361	ARS		ARS820		ARSVIII-448	chromosome 8		8	447714	447795			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178110	ARS_consensus_sequence					ARS820		8	447793	447777	C		2014-11-18	2014-11-18	
+S000001215	ORF	Verified	YHR172W	SPC97		chromosome 8	L000003543	8	448335	450806	W		2005-11-07	1996-07-31	Component of the microtubule-nucleating Tub4p (gamma-tubulin) complex; interacts with Spc110p at the spindle pole body (SPB) inner plaque and with Spc72p at the SPB outer plaque
+S000036987	CDS					YHR172W		8	448335	450806	W		2005-11-07	1996-07-31	
+S000001216	ORF	Uncharacterized	YHR173C			chromosome 8		8	451153	450815	C		2005-11-07	1996-07-31	Protein of unknown function; expressed at both mRNA and protein levels; SWAT-GFP and mCherry fusion proteins localize to the vacuole
+S000037013	CDS					YHR173C		8	451153	450815	C		2005-11-07	1996-07-31	
+S000001217	ORF	Verified	YHR174W	ENO2	phosphopyruvate hydratase ENO2	chromosome 8	L000000560	8	451327	452640	W		2005-11-07	1996-07-31	Enolase II, a phosphopyruvate hydratase; catalyzes conversion of 2-phosphoglycerate to phosphoenolpyruvate during glycolysis and the reverse reaction during gluconeogenesis; expression induced in response to glucose; ENO2 has a paralog, ENO1, that arose from the whole genome duplication
+S000037161	CDS					YHR174W		8	451327	452640	W		2005-11-07	1996-07-31	
+S000001218	ORF	Verified	YHR175W	CTR2	low-affinity Cu transporter	chromosome 8	L000004070	8	452872	453441	W		2005-11-07	1996-07-31	Low-affinity copper transporter of the vacuolar membrane; mutation confers resistance to toxic copper concentrations, while overexpression confers resistance to copper starvation; regulated by nonsense-mediated mRNA decay pathway
+S000029818	CDS					YHR175W		8	452872	453441	W		2005-11-07	1996-07-31	
+S000028553	ORF	Uncharacterized	YHR175W-A			chromosome 8		8	453558	453707	W		2005-11-07	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031239	CDS					YHR175W-A		8	453558	453707	W		2005-11-07	2003-07-29	
+S000001219	ORF	Verified	YHR176W	FMO1	N,N-dimethylaniline monooxygenase	chromosome 8		8	454229	455527	W		2005-11-07	2004-01-29|1996-07-31	Flavin-containing monooxygenase; localized to the cytoplasmic face of the ER membrane; catalyzes oxidation of biological thiols to maintain the ER redox buffer ratio for correct folding of disulfide-bonded proteins
+S000029937	CDS					YHR176W		8	454229	455527	W		2005-11-07	2004-01-29|1996-07-31	
+S000001220	ORF	Verified	YHR177W		GON3	chromosome 8		8	456591	457952	W		2005-11-07	1996-07-31	Putative transcription factor containing a WOPR domain; binds DNA in vitro; similar to C. albicans Wor1p transcription factor that regulates white-opaque switching; overexpression causes a cell cycle delay or arrest
+S000030949	CDS					YHR177W		8	456591	457952	W		2005-11-07	1996-07-31	
+S000001221	ORF	Verified	YHR178W	STB5		chromosome 8	L000003368	8	459299	461530	W		2005-11-07	1996-07-31	Transcription factor; involved in regulating multidrug resistance and oxidative stress response; forms a heterodimer with Pdr1p; contains a Zn(II)2Cys6 zinc finger domain that interacts with a pleiotropic drug resistance element in vitro
+S000031050	CDS					YHR178W		8	459299	461530	W		2005-11-07	1996-07-31	
+S000001222	ORF	Verified	YHR179W	OYE2	NADPH dehydrogenase	chromosome 8	L000001325	8	462502	463704	W		2005-11-07	1996-07-31	Conserved NADPH oxidoreductase containing flavin mononucleotide (FMN); responsible for geraniol reduction into citronellol during fermentation; homologous to Oye3p with different ligand binding and catalytic properties; may be involved in sterol metabolism, oxidative stress response, and programmed cell death; protein abundance increases in response to DNA replication stress
+S000031157	CDS					YHR179W		8	462502	463704	W		2005-11-07	1996-07-31	
+S000006999	long_terminal_repeat		YHRCdelta12			chromosome 8		8	464147	463920	C		2005-11-07	2000-05-19	Ty1 LTR
+S000001223	ORF	Dubious	YHR180W			chromosome 8		8	465178	465669	W		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000032113	CDS					YHR180W		8	465178	465669	W		2005-11-07	1996-07-31	
+S000007009	long_terminal_repeat		YHRWdelta13			chromosome 8		8	466549	466863	W		2005-11-07	2000-05-19	Ty1 LTR
+S000028555	ORF	Dubious	YHR180W-A			chromosome 8		8	466932	467114	W		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps dubious ORF YHR180C-B and long terminal repeat YHRCsigma3
+S000031241	CDS					YHR180W-A		8	466932	467114	W		2005-11-07	2003-07-29	
+S000007004	long_terminal_repeat		YHRCsigma3			chromosome 8		8	466975	466884	C		2005-11-07	2000-05-19	Ty3 LTR
+S000006751	tRNA_gene		tT(UGU)H			chromosome 8	L000003857	8	466990	467061	W		2005-11-07	2000-05-19	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000036268	noncoding_exon					tT(UGU)H		8	466990	467061	W		2005-11-07	2000-05-19	
+S000028554	ORF	Dubious	YHR180C-B			chromosome 8		8	467062	466958	C		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the dubious ORF YHR180W-A
+S000031240	CDS					YHR180C-B		8	467062	466958	C		2005-11-07	2003-07-29	
+S000001224	ORF	Verified	YHR181W	SVP26	ERV26	chromosome 8		8	467228	467914	W		2005-11-07	1996-07-31	Integral membrane protein of the early Golgi apparatus and ER; involved in COP II vesicle transport; may also function to promote retention of proteins in the early Golgi compartment
+S000032177	CDS					YHR181W		8	467228	467914	W		2005-11-07	1996-07-31	
+S000001225	ORF	Verified	YHR182W			chromosome 8		8	468219	470576	W		2005-11-07	1996-07-31	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and cytoplasm; relocalizes from bud neck to cytoplasm upon DNA replication stress
+S000032262	CDS					YHR182W		8	468219	470576	W		2005-11-07	1996-07-31	
+S000001226	ORF	Verified	YHR183W	GND1	phosphogluconate dehydrogenase (decarboxylating) GND1	chromosome 8	L000003125	8	470960	472429	W		2005-11-07	1996-07-31	6-phosphogluconate dehydrogenase (decarboxylating); catalyzes an NADPH regenerating reaction in the pentose phosphate pathway; required for growth on D-glucono-delta-lactone and adaptation to oxidative stress; GND1 has a paralog, GND2, that arose from the whole genome duplication
+S000033135	CDS					YHR183W		8	470960	472429	W		2005-11-07	1996-07-31	
+S000028784	ORF	Dubious	YHR182C-A			chromosome 8		8	471412	470939	C		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF GND1/YHR183W
+S000033525	CDS					YHR182C-A		8	471412	470939	C		2005-11-07	2003-07-29	
+S000001227	ORF	Verified	YHR184W	SSP1	SPO3	chromosome 8	L000004410|L000004488	8	472744	474459	W		2005-11-07	1996-07-31	Protein involved in the control of meiotic nuclear division; involved in the coordination of meiosis with spore formation; subunit of the leading edge protein (LEP) complex (Ssp1-Ady3-Don1-Irc10) that forms a ring-like structure at the leading edge of the prospore membrane during meiosis II; required for assembly of the leading edge coat and both prospore membrane shaping and organization; transcription is induced midway through meiosis
+S000033191	CDS					YHR184W		8	472744	474459	W		2005-11-07	1996-07-31	
+S000001228	ORF	Verified	YHR185C	PFS1	ADY1	chromosome 8	L000004781	8	475340	474627	C		2005-11-07	1996-07-31	Sporulation protein required for prospore membrane formation; required for prospore membrane formation at selected spindle poles; ensures functionality of all four spindle pole bodies during meiosis II; not required for meiotic recombination or meiotic chromosome segregation
+S000033215	CDS					YHR185C		8	475340	474627	C		2005-11-07	1996-07-31	
+S000006768	tRNA_gene		tV(CAC)H			chromosome 8	L000003858	8	475778	475706	C		2005-11-07	2000-05-19	Valine tRNA (tRNA-Val), predicted by tRNAscan-SE analysis
+S000030621	noncoding_exon					tV(CAC)H		8	475778	475706	C		2005-11-07	2000-05-19	
+S000001229	ORF	Verified	YHR186C	KOG1	ubiquitin-binding TORC1 subunit KOG1|LAS24	chromosome 8		8	480672	475999	C		2005-11-07	1996-07-31	Subunit of TORC1; TORC1 is a rapamycin-sensitive complex involved in growth control that contains Tor1p or Tor2p, Lst8p and Tco89p; contains four HEAT repeats and seven WD-40 repeats; may act as a scaffold protein to couple TOR and its effectors
+S000033270	CDS					YHR186C		8	480672	475999	C		2005-11-07	1996-07-31	
+S000001230	ORF	Verified	YHR187W	IKI1	Elongator subunit IKI1|HAP2|ELP5|TOT5	chromosome 8	L000003562	8	480990	481919	W		2005-11-07	1996-07-31	Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; iki1 mutations confer resistance to the K. lactis toxin zymocin
+S000034195	CDS					YHR187W		8	480990	481919	W		2005-11-07	1996-07-31	
+S000001231	ORF	Verified	YHR188C	GPI16	GPI-anchor transamidase subunit GPI16	chromosome 8		8	483837	482005	C		2005-11-07	1996-07-31	Subunit of the glycosylphosphatidylinositol transamidase complex; transmembrane protein; adds GPIs to newly synthesized proteins; human PIG-Tp homolog
+S000034241	CDS					YHR188C		8	483837	482005	C		2005-11-07	1996-07-31	
+S000001232	ORF	Verified	YHR189W	PTH1	aminoacyl-tRNA hydrolase|PTH	chromosome 8		8	484028	484600	W		2005-11-07	1996-07-31	One of two mitochondrially-localized peptidyl-tRNA hydrolases; dispensable for respiratory growth on rich medium, but required for respiratory growth on minimal medium; see also PTH2
+S000034422	CDS					YHR189W		8	484028	484600	W		2005-11-07	1996-07-31	
+S000001233	ORF	Verified	YHR190W	ERG9	bifunctional farnesyl-diphosphate farnesyltransferase/squalene synthase	chromosome 8	L000000575	8	484845	486179	W		2005-11-07	1996-07-31	Farnesyl-diphosphate farnesyl transferase (squalene synthase); joins two farnesyl pyrophosphate moieties to form squalene in the sterol biosynthesis pathway
+S000036394	CDS					YHR190W		8	484845	486179	W		2005-11-07	1996-07-31	
+S000001234	ORF	Verified	YHR191C	CTF8		chromosome 8	L000003309	8	486631	486230	C		2005-11-07	1996-07-31	Subunit of a complex with Ctf18p; shares some subunits with Replication Factor C; required for sister chromatid cohesion
+S000036427	CDS					YHR191C		8	486631	486230	C		2005-11-07	1996-07-31	
+S000001235	ORF	Verified	YHR192W	LNP1		chromosome 8		8	486826	487662	W		2005-11-07	1996-07-31	Lunapark family member involved in ER network formation; regulates the ER asymmetry-induced inheritance block during ER stress; localizes to ER junctions and this localization is regulated by the yeast atlastin ortholog Sey1p; interacts with the reticulon protein Rtn1p; induced in response to the DNA-damaging agent MMS
+S000036575	CDS					YHR192W		8	486826	487662	W		2005-11-07	1996-07-31	
+S000001236	ORF	Verified	YHR193C	EGD2		chromosome 8	L000000546|L000002606	8	488236	487712	C		2005-11-07	1996-07-31	Alpha subunit of the nascent polypeptide-associated complex (NAC); involved in protein sorting and translocation; associated with cytoplasmic ribosomes
+S000036606	CDS					YHR193C		8	488236	487712	C		2005-11-07	1996-07-31	
+S000001237	ORF	Verified	YHR194W	MDM31		chromosome 8		8	488657	490396	W		2005-11-07	1996-07-31	Mitochondrial protein that may have a role in phospholipid metabolism; inner membrane protein with similarity to Mdm32p; required for normal mitochondrial morphology and inheritance; interacts genetically with MMM1, MMM2, MDM10, MDM12, and MDM34
+S000037365	CDS					YHR194W		8	488657	490396	W		2005-11-07	1996-07-31	
+S000028785	ORF	Dubious	YHR193C-A			chromosome 8		8	489027	488653	C		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified ORF MDM31/YHR194W
+S000033528	CDS					YHR193C-A		8	489027	488653	C		2005-11-07	2003-07-29	
+S000001238	ORF	Verified	YHR195W	NVJ1	VAB36	chromosome 8		8	490747	491712	W		2005-11-07	1996-07-31	Nuclear envelope protein; anchored to the nuclear inner membrane, that interacts with the vacuolar membrane protein Vac8p to promote formation of nucleus-vacuole junctions during piecemeal microautophagy of the nucleus (PMN)
+S000037505	CDS					YHR195W		8	490747	491712	W		2005-11-07	1996-07-31	
+S000001239	ORF	Verified	YHR196W	UTP9		chromosome 8		8	491931	493658	W		2005-11-07	1996-07-31	Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA
+S000030211	CDS					YHR196W		8	491931	493658	W		2005-11-07	1996-07-31	
+S000001240	ORF	Verified	YHR197W	RIX1	IPI2	chromosome 8		8	493896	496187	W		2005-11-07	1996-07-31|2011-02-03	Component of the Rix1 complex and possibly pre-replicative complexes; required for processing of ITS2 sequences from 35S pre-rRNA; component of the pre-60S ribosomal particle with the dynein-related AAA-type ATPase Mdn1p; required for pre-replicative complex (pre-RC) formation and maintenance during DNA replication licensing; relocalizes to the cytosol in response to hypoxia; essential gene
+S000030393	CDS					YHR197W		8	493896	496187	W		2005-11-07	1996-07-31|2011-02-03	
+S000001241	ORF	Verified	YHR198C	AIM18	FMP22	chromosome 8		8	497280	496315	C		2005-11-07	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays elevated frequency of mitochondrial genome loss
+S000030441	CDS					YHR198C		8	497280	496315	C		2005-11-07	1996-07-31	
+S000001242	ORF	Verified	YHR199C	AIM46	FMP34	chromosome 8		8	498422	497490	C		2005-11-07	1996-07-31	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays elevated frequency of mitochondrial genome loss
+S000031364	CDS					YHR199C		8	498422	497490	C		2005-11-07	1996-07-31	
+S000029704	ORF	Verified	YHR199C-A	NBL1	MCL1	chromosome 8		8	498859	498571	C		2005-11-07	2004-02-20	Subunit of the conserved chromosomal passenger complex (CPC); complex regulates mitotic chromosome segregation; not required for the kinase activity of the complex; mediates the interaction of Sli15p and Bir1p; other complex members are Ipl1p, Sli15p, and Bir1p
+S000036811	CDS					YHR199C-A		8	498719	498571	C		2005-11-07	2004-02-20	
+S000036810	CDS					YHR199C-A		8	498859	498787	C		2005-11-07	2004-02-20	
+S000036812	intron					YHR199C-A		8	498786	498720	C		2005-11-07	2004-02-20	
+S000001243	ORF	Verified	YHR200W	RPN10	proteasome regulatory particle base subunit RPN10|SUN1|MCB1	chromosome 8	L000003108	8	499079	499885	W		2005-11-07	1996-07-31	Non-ATPase base subunit of the 19S RP of the 26S proteasome; N-terminus plays a role in maintaining the structural integrity of the regulatory particle (RP); binds selectively to polyubiquitin chains; homolog of the mammalian S5a protein
+S000036384	CDS					YHR200W		8	499079	499885	W		2005-11-07	1996-07-31	
+S000001244	ORF	Verified	YHR201C	PPX1	exopolyphosphatase	chromosome 8	L000001477	8	501143	499950	C		2005-11-07	1996-07-31	Exopolyphosphatase; hydrolyzes inorganic polyphosphate (poly P) into Pi residues; located in the cytosol, plasma membrane, and mitochondrial matrix
+S000036416	CDS					YHR201C		8	501143	499950	C		2005-11-07	1996-07-31	
+S000118362	ARS		ARS822		ARSVIII-502	chromosome 8		8	501756	501996			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000001245	ORF	Uncharacterized	YHR202W			chromosome 8		8	502388	504196	W		2005-11-07	1996-07-31	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole, while HA-tagged protein is found in the soluble fraction, suggesting cytoplasmic localization
+S000037129	CDS					YHR202W		8	502388	504196	W		2005-11-07	1996-07-31	
+S000001246	ORF	Verified	YHR203C	RPS4B	eS4|ribosomal 40S subunit protein S4B|S4e|rp5|YS6|S7B|S4B	chromosome 8	L000001750	8	505530	504476	C		2005-11-07	1999-07-17|1996-07-31	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S4, no bacterial homolog; RPS4B has a paralog, RPS4A, that arose from the whole genome duplication
+S000037172	CDS					YHR203C		8	505247	504476	C		2005-11-07	1999-07-17|1996-07-31	
+S000037171	CDS					YHR203C		8	505530	505517	C		2005-11-07	1999-07-17|1996-07-31	
+S000037173	intron					YHR203C		8	505516	505248	C		2005-11-07	1999-07-17|1996-07-31	
+S000001247	ORF	Verified	YHR204W	MNL1	alpha-1,2-mannosidase MNL1|HTM1	chromosome 8		8	506319	508709	W		2005-11-07	1996-07-31	Alpha-1,2-specific exomannosidase of the endoplasmic reticulum; involved in glycan trimming of both folded and misfolded glycoproteins; complexes with Pdi1p, and trims a mannose from Man8GlcNac2 glycans to generate Man7GlcNac2, an oligosaccharide signal on glycoproteins destined for ER-associated protein degradation; requires Pdi1p for stability and substrate recognition; human homolog EDEM1 can complement yeast null mutant
+S000037304	CDS					YHR204W		8	506319	508709	W		2005-11-07	1996-07-31	
+S000001248	ORF	Verified	YHR205W	SCH9	serine/threonine protein kinase SCH9|HRM2|KOM1	chromosome 8	L000001810	8	509363	511837	W		2005-11-07	1996-07-31	AGC family protein kinase; functional ortholog of mammalian S6 kinase; phosphorylated by Tor1p and required for TORC1-mediated regulation of ribosome biogenesis, translation initiation, and entry into G0 phase; involved in transactivation of osmostress-responsive genes; regulates G1 progression, cAPK activity and nitrogen activation of the FGM pathway; integrates nutrient signals and stress signals from sphingolipids to regulate lifespan
+S000037366	CDS					YHR205W		8	509363	511837	W		2005-11-07	1996-07-31	
+S000001249	ORF	Verified	YHR206W	SKN7	kinase-regulated stress-responsive transcription factor SKN7|POS9|BRY1	chromosome 8	L000001908	8	512732	514600	W		2005-11-07	1996-07-31	Nuclear response regulator and transcription factor; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; part of a branched two-component signaling system; required for optimal induction of heat-shock genes in response to oxidative stress; involved in osmoregulation; relocalizes to the cytosol in response to hypoxia; SKN7 has a paralog, HMS2, that arose from the whole genome duplication
+S000029994	CDS					YHR206W		8	512732	514600	W		2005-11-07	1996-07-31	
+S000001250	ORF	Verified	YHR207C	SET5	S-adenosylmethionine-dependent methyltransferase	chromosome 8		8	516485	514905	C		2005-11-07	1996-07-31	Methyltransferase involved in methylation of histone H4 Lys5, -8, -12; S-adenosylmethionine-dependent; zinc-finger protein, contains one canonical and two unusual fingers in unusual arrangements; deletion enhances replication of positive-strand RNA virus
+S000030030	CDS					YHR207C		8	516485	514905	C		2005-11-07	1996-07-31	
+S000001251	ORF	Verified	YHR208W	BAT1	branched-chain-amino-acid transaminase BAT1|TWT1|ECA39	chromosome 8	L000002396	8	517532	518713	W		2005-11-07	1996-07-31	Mitochondrial branched-chain amino acid (BCAA) aminotransferase; preferentially involved in BCAA biosynthesis; homolog of murine ECA39; highly expressed during logarithmic phase and repressed during stationary phase; BAT1 has a paralog, BAT2, that arose from the whole genome duplication
+S000030198	CDS					YHR208W		8	517532	518713	W		2005-11-07	1996-07-31	
+S000001252	ORF	Verified	YHR209W	CRG1	S-adenosylmethionine-dependent methyltransferase	chromosome 8		8	519437	520312	W		2005-11-07	1996-07-31	S-AdoMet-dependent methyltransferase involved in lipid homeostasis; mediates resistance to a drug cantharidin
+S000030378	CDS					YHR209W		8	519437	520312	W		2005-11-07	1996-07-31	
+S000001253	ORF	Uncharacterized	YHR210C		aldose 1-epimerase superfamily protein	chromosome 8		8	521737	520712	C		2005-11-07	1996-07-31	Putative aldose 1-epimerase superfamily protein; non-essential gene; highly expressed under anaeorbic conditions
+S000032576	CDS					YHR210C		8	521737	520712	C		2005-11-07	1996-07-31	
+S000001254	ORF	Verified	YHR211W	FLO5	flocculin FLO5	chromosome 8	L000000618	8	525392	528619	W		2005-11-07	1996-07-31	Lectin-like cell wall protein (flocculin) involved in flocculation; binds mannose chains on the surface of other cells, confers floc-forming ability that is chymotrypsin resistant but heat labile; important for co-flocculation with other yeasts, mediating interaction with specific species; FLO5 has a paralog, FLO1, that arose from a segmental duplication
+S000033338	CDS					YHR211W		8	525392	528619	W		2005-11-07	1996-07-31	
+S000007000	long_terminal_repeat		YHRCdelta14			chromosome 8		8	530379	530049	C		2005-11-07	2000-05-19	Ty1 LTR
+S000001255	ORF	Dubious	YHR212C			chromosome 8		8	538094	537759	C		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YHR212C has a paralog, YAR060C, that arose from a segmental duplication
+S000033360	CDS					YHR212C		8	538094	537759	C		2005-11-07	1996-07-31	
+S000028650	ORF	Uncharacterized	YHR212W-A			chromosome 8		8	538742	538945	W		2005-11-07	2003-07-29	Pseudogenic fragment with similarity to flocculins; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; YHR212W-A has a paralog, YAR061W, that arose from a segmental duplication
+S000032453	CDS					YHR212W-A		8	538742	538945	W		2005-11-07	2003-07-29	
+S000001256	ORF	Uncharacterized	YHR213W			chromosome 8		8	539151	539747	W		2005-11-07	1996-07-31	Pseudogenic fragment with similarity to flocculins; YHR213W has a paralog, YAR062W, that arose from a segmental duplication
+S000033478	CDS					YHR213W		8	539151	539747	W		2005-11-07	1996-07-31	
+S000028651	ORF	Uncharacterized	YHR213W-A			chromosome 8		8	540549	540782	W		2005-11-07	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032454	CDS					YHR213W-A		8	540549	540782	W		2005-11-07	2003-07-29	
+S000028652	ORF	Uncharacterized	YHR213W-B			chromosome 8		8	540800	541099	W		2005-11-07	2003-07-29	Pseudogenic fragment with similarity to flocculins; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; YHR213W-B has a paralog, YAR064W, that arose from a segmental duplication
+S000032455	CDS					YHR213W-B		8	540800	541099	W		2005-11-07	2003-07-29	
+S000001257	ORF	Uncharacterized	YHR214W			chromosome 8		8	541651	542262	W		2005-11-07	1996-07-31	Putative protein of unknown function; predicted to be a glycosylphosphatidylinositol-modified (GPI) protein; YHR214W has a paralog, YAR066W, that arose from a segmental duplication
+S000033542	CDS					YHR214W		8	541651	542262	W		2005-11-07	1996-07-31	
+S000003535	ORF	Dubious	YHR214W-A			chromosome 8		8	543008	543493	W		2005-11-07	1996-07-31	Dubious open reading frame; induced by zinc deficiency; YHR214W-A has a paralog, YAR068W, that arose from a segmental duplication
+S000035568	CDS					YHR214W-A		8	543008	543493	W		2005-11-07	1996-07-31	
+S000007001	long_terminal_repeat		YHRCdelta15			chromosome 8		8	543941	543610	C		2005-11-07	2000-05-19	Ty1 LTR
+S000003534	transposable_element_gene		YHR214C-B		gag-pol fusion protein	chromosome 8		8	549346	543964	C		2005-11-07	1996-07-31	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes; YHR214C-B has a paralog, YAR070C, that arose from a segmental duplication
+S000035139	CDS					YHR214C-B		8	547929	543964	C		2005-11-07	1996-07-31	
+S000035138	CDS					YHR214C-B		8	549346	547931	C		2005-11-07	1996-07-31	
+S000035140	plus_1_translational_frameshift					YHR214C-B		8	547930	547930	C		2005-11-07	1996-07-31	
+S000007421	transposable_element_gene		YHR214C-C		gag protein	chromosome 8		8	549346	547910	C		2005-11-07	1999-07-17	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000035142	CDS					YHR214C-C		8	549346	547910	C		2005-11-07	1999-07-17	
+S000007006	LTR_retrotransposon		YHRCTy1-1		Ty1	chromosome 8		8	549637	543610	C		2005-11-07	2000-05-19	Ty1 element, LTR retrotransposon of the Copia (Pseudoviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats
+S000007002	long_terminal_repeat		YHRCdelta16			chromosome 8		8	549637	549306	C		2005-11-07	2000-05-19	Ty1 LTR
+S000028653	ORF	Uncharacterized	YHR214C-D			chromosome 8		8	550941	550648	C		2005-11-07	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; SWAT-GFP and mCherry fusion proteins localize to the nucleus and endoplasmic reticulum respectively; YHR214C-D has a paralog, YAR069C, that arose from a segmental duplication
+S000032456	CDS					YHR214C-D		8	550941	550648	C		2005-11-07	2003-07-29	
+S000028654	ORF	Uncharacterized	YHR214C-E			chromosome 8		8	551499	551200	C		2005-11-07	2003-07-29	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032457	CDS					YHR214C-E		8	551499	551200	C		2005-11-07	2003-07-29	
+S000001258	ORF	Verified	YHR215W	PHO12	acid phosphatase PHO12|PHO10	chromosome 8	L000001424	8	552099	553502	W		2005-11-07	1996-07-31	One of three repressible acid phosphatases; glycoprotein that is transported to the cell surface by the secretory pathway; pregulated by phosphate starvation; PHO12 has a paralog, PHO11, that arose from a segmental duplication
+S000033601	CDS					YHR215W		8	552099	553502	W		2005-11-07	1996-07-31	
+S000001259	ORF	Verified	YHR216W	IMD2	IMP dehydrogenase IMD2|PUR5	chromosome 8		8	554396	555967	W		2005-11-07	1996-07-31	Inosine monophosphate dehydrogenase; catalyzes the rate-limiting step in GTP biosynthesis, expression is induced by mycophenolic acid resulting in resistance to the drug, expression is repressed by nutrient limitation; IMD2 has a paralog, YAR073W/YAR075W, that arose from a segmental duplication
+S000034515	CDS					YHR216W		8	554396	555967	W		2005-11-07	1996-07-31	
+S000118363	ARS		ARS824		ARSVIII-556	chromosome 8		8	556001	556331			2006-08-30	2006-08-30	Autonomously Replicating Sequence
+S000028964	telomere		TEL08R			chromosome 8		8	556105	562643	W	131	2005-11-07	2003-09-09	Telomeric region on the right arm of Chromosome VIII; composed of an X element core sequence, X element combinatorial repeats, an internal stretch of telomeric repeats, a short Y' element, and a terminal stretch of telomeric repeats
+S000028966	telomeric_repeat					TEL08R		8	556832	556985	W		2005-11-07	2003-09-09	Internal telomeric repeats on the right arm of Chromosome VIII
+S000028965	telomeric_repeat					TEL08R		8	562457	562643	W		2005-11-07	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome VIII
+S000028967	X_element					TEL08R		8	556105	556575	W		2005-11-07	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome VIII; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028968	X_element_combinatorial_repeat					TEL08R		8	556576	556831	W		2005-11-07	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr VIII; contains repeats of the D, C, and B types; formerly called SubTelomeric Repeats
+S000028969	Y_prime_element					TEL08R		8	556986	562456	W		2005-11-07	2003-09-09	Telomeric short Y' element on the right arm of Chromosome VIII; contains an ARS consensus sequence, a region of 36-bp repeats, and four ORFs (YHR218W, YHR219W, YHR218W-A, YHR219C-A)
+S000001260	ORF	Dubious	YHR217C			chromosome 8		8	557042	556581	C		2005-11-07	1996-07-31	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; located in the telomeric region TEL08R
+S000034583	CDS					YHR217C		8	557042	556581	C		2005-11-07	1996-07-31	
+S000001261	ORF	Uncharacterized	YHR218W			chromosome 8		8	558014	559924	W		2005-11-07	1996-07-31	Helicase-like protein encoded within the telomeric Y' element
+S000034722	CDS					YHR218W		8	558014	558615	W		2005-11-07	1996-07-31	
+S000034723	CDS					YHR218W		8	558715	559924	W		2005-11-07	1996-07-31	
+S000034724	intron					YHR218W		8	558616	558714	W		2005-11-07	1996-07-31	
+S000028786	ORF	Dubious	YHR218W-A			chromosome 8		8	559932	560249	W		2005-11-07	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely within telomere TEL08L
+S000033530	CDS					YHR218W-A		8	559932	560249	W		2005-11-07	2003-07-29	
+S000001262	ORF	Uncharacterized	YHR219W			chromosome 8		8	560173	562047	W		2005-11-07	1996-07-31	Putative protein of unknown function with similarity to helicases; located in the telomere region on the right arm of chromosome VIII
+S000035716	CDS					YHR219W		8	560173	562047	W		2005-11-07	1996-07-31	
+S000028655	ORF	Dubious	YHR219C-A			chromosome 8		8	561681	561199	C		2005-11-07	2003-07-29	Dubious open reading frame unlikely to encode a functional protein; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
+S000032458	CDS					YHR219C-A		8	561681	561199	C		2005-11-07	2003-07-29	
+S000028658	ORF	Dubious	YIL177W-A			chromosome 9		9	846	1328	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized gene YIL177C
+S000032462	CDS					YIL177W-A		9	846	1328	W		2003-07-29	2003-07-29	
+S000001439	ORF	Uncharacterized	YIL177C		Y' element ATP-dependent helicase	chromosome 9		9	6147	483	C		1994-12-10	1994-12-10	Putative Y' element ATP-dependent helicase
+S000034517	CDS					YIL177C		9	4598	483	C		1994-12-10	1994-12-10	
+S000034516	CDS					YIL177C		9	6147	4987	C		1994-12-10	1994-12-10	
+S000034518	intron					YIL177C		9	4986	4599	C		1994-12-10	1994-12-10	
+S000130156	ARS		ARS902			chromosome 9		9	7470	8793			2009-05-07	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000028896	telomere		TEL09L			chromosome 9		9	7784	1	C	-155	2003-09-09	2003-09-09	Telomeric region on the left arm of Chromosome IX; composed of an X element core sequence, X element combinatorial repeats, a long Y' element, and a short terminal stretch of telomeric repeats
+S000028897	telomeric_repeat					TEL09L		9	77	1	C		2003-09-09	2003-09-09	Terminal telomeric repeats on the left arm of Chromosome IX
+S000028898	X_element					TEL09L		9	7784	7322	C		2003-09-09	2003-09-09	Telomeric X element Core sequence on the left arm of Chromosome IX; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028899	X_element_combinatorial_repeat					TEL09L		9	7321	6949	C		2003-09-09	2003-09-09	Telomeric X element combinatorial repeat on the left arm of Chr IX; contains a repeat of the D type with a group I mitochondrial bI4 intron insertion; formerly called SubTelomeric Repeats
+S000028900	Y_prime_element					TEL09L		9	6948	78	C		2003-09-09	2003-09-09	Telomeric long Y' element on the left arm of Chromosome IX; contains an ARS consensus sequence, a region of 36-bp repeats, and two ORFs YIL177C and YIL177W-A
+S000001438	ORF	Uncharacterized	YIL176C	PAU14	seripauperin PAU14	chromosome 9		9	9155	8793	C		1994-12-10	1994-12-10	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; identical to Pau1p
+S000034408	CDS					YIL176C		9	9155	8793	C		1994-12-10	1994-12-10	
+S000001437	pseudogene		YIL175W			chromosome 9		9	9183	9500	W		1994-12-10	1994-12-10	Hypothetical protein; classified as pseudogene because there is no ATG at the beginning of this ORF
+S000034372	CDS					YIL175W		9	9183	9500	W		1994-12-10	1994-12-10	
+S000001436	pseudogene		YIL174W			chromosome 9		9	9469	9696	W		1994-12-10	1994-12-10	Hypothetical protein
+S000034275	CDS					YIL174W		9	9469	9696	W		1994-12-10	1994-12-10	
+S000001435	ORF	Verified	YIL173W	VTH1	signal sequence-binding protein	chromosome 9		9	11492	16141	W		1994-12-10	1994-12-10	Putative membrane glycoprotein; has strong similarity to Vth2p and Pep1p/Vps10p; may be involved in vacuolar protein sorting
+S000033367	CDS					YIL173W		9	11492	16141	W		1994-12-10	1994-12-10	
+S000130157	ARS		ARS904			chromosome 9		9	16141	16784			2009-05-07	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000028798	ORF	Dubious	YIL171W-A			chromosome 9		9	18260	18712	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF IMA3/YIL172C
+S000033565	CDS					YIL171W-A		9	18260	18712	W		2003-07-29	2003-07-29	
+S000001434	ORF	Verified	YIL172C	IMA3	oligo-1,6-glucosidase IMA3	chromosome 9		9	18553	16784	C		1994-12-10	1994-12-10	Alpha-glucosidase; weak, but broad substrate specificity for alpha-1,4- and alpha-1,6-glucosides; member of IMA isomaltase family; not required for isomaltose utilization, but Ima3p overexpression allows the ima1 null mutant to grow on isomaltose; lower activitiy and thermostability in vitro than Ima2p despite sequence difference of only 3 amino acids; cleaves alpha-1,3 linkage of nigerose and turanose, but not alpha-1,5 of leucrose; identical to IMA4
+S000033269	CDS					YIL172C		9	18553	16784	C		1994-12-10	1994-12-10	
+S000001433	pseudogene		YIL171W		HXT12	chromosome 9	L000002639	9	19515	19844	W		1994-12-10	1994-12-10	Possible pseudogene in strain S288C; YIL171W and the adjacent ORF, YIL170W/HXT12, together encode a non-functional member of the hexose transporter family
+S000033235	CDS					YIL171W		9	19515	19844	W		1994-12-10	1994-12-10	
+S000001432	pseudogene		YIL170W	HXT12		chromosome 9		9	19847	21220	W		1994-12-10	1994-12-10	Possible pseudogene in strain S288C; YIL170W/HXT12 and the adjacent ORF, YIL171W, together encode a non-functional member of the hexose transporter family
+S000032383	CDS					YIL170W		9	19847	21220	W		1994-12-10	1994-12-10	
+S000001431	ORF	Verified	YIL169C	CSS1	HPF1'	chromosome 9		9	26106	23119	C		1994-12-10	1994-12-10	Protein of unknown function, secreted when constitutively expressed; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cell periphery, SWAT-GFP fusion also localizes to the extracellular region, and mCherry fusion also localizes to the vacuole; S/T rich and highly similar to YOL155C, a putative glucan alpha-1,4-glucosidase; transcript is induced in both high and low pH environments; non-essential gene
+S000031425	CDS					YIL169C		9	26106	23119	C		1994-12-10	1994-12-10	
+S000001429	blocked_reading_frame		YIL167W	SDL1	YIL168W	chromosome 9		9	29032	30048	W		2014-11-18	1994-12-10|2014-11-18	Blocked reading frame otherwise encoding L-serine dehydratase
+S000031256	CDS					YIL167W		9	29032	30048	W		2014-11-18	1994-12-10|2014-11-18	
+S000001428	ORF	Uncharacterized	YIL166C			chromosome 9		9	32566	30938	C		1994-12-10	1994-12-10	Putative protein with similarity to allantoate permease; similar to the allantoate permease (Dal5p) subfamily of the major facilitator superfamily; mRNA expression is elevated by sulfur limitation; YIL166C is a non-essential gene
+S000030233	CDS					YIL166C		9	32566	30938	C		1994-12-10	1994-12-10	
+S000001427	ORF	Uncharacterized	YIL165C			chromosome 9		9	34077	33718	C		1994-12-10	1994-12-10	Putative protein of unknown function; mutant exhibits mitophagy defects; in closely related species and other S. cerevisiae strain backgrounds YIL165C and adjacent ORF, YIL164C, likely constitute a single ORF encoding a nitrilase gene
+S000030045	CDS					YIL165C		9	34077	33718	C		1994-12-10	1994-12-10	
+S000001426	ORF	Verified	YIL164C	NIT1		chromosome 9	L000004211	9	34686	34087	C		1994-12-10	1994-12-10	Nitrilase; member of the nitrilase branch of the nitrilase superfamily; in closely related species and other S. cerevisiae strain backgrounds YIL164C and adjacent ORF, YIL165C, likely constitute a single ORF encoding a nitrilase gene
+S000029934	CDS					YIL164C		9	34686	34087	C		1994-12-10	1994-12-10	
+S000001425	ORF	Uncharacterized	YIL163C			chromosome 9		9	37252	36899	C		1994-12-10	1994-12-10	Protein of unknown function; mRNA identified as translated by ribosome profiling data
+S000037273	CDS					YIL163C		9	37252	36899	C		1994-12-10	1994-12-10	
+S000001424	ORF	Verified	YIL162W	SUC2	beta-fructofuranosidase SUC2	chromosome 9	L000002144	9	37385	38983	W	-153	1994-12-10	1994-12-10	Invertase; sucrose hydrolyzing enzyme; a secreted, glycosylated form is regulated by glucose repression, and an intracellular, nonglycosylated enzyme is produced constitutively
+S000037231	CDS					YIL162W		9	37385	38983	W		1994-12-10	1994-12-10	
+S000001423	ORF	Uncharacterized	YIL161W			chromosome 9		9	39433	40140	W		1994-12-10	1994-12-10	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; mRNA is enriched in Scp160p-associated mRNPs; YIL161W is a non-essential gene
+S000037133	CDS					YIL161W		9	39433	40140	W		1994-12-10	1994-12-10	
+S000001422	ORF	Verified	YIL160C	POT1	acetyl-CoA C-acyltransferase|POX3|FOX3	chromosome 9	L000001466	9	41444	40191	C		1994-12-10	1994-12-10	3-ketoacyl-CoA thiolase with broad chain length specificity; cleaves 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA during beta-oxidation of fatty acids
+S000037007	CDS					YIL160C		9	41444	40191	C		1994-12-10	1994-12-10	
+S000001421	ORF	Verified	YIL159W	BNR1	formin BNR1	chromosome 9	L000004058	9	41825	45952	W		1994-12-10	1994-12-10	Formin; nucleates the formation of linear actin filaments; involved in processes such as budding and mitotic spindle orientation which require the formation of polarized actin cables; activity is regulated by Hof1p and by the Bud14p-Kel1p-Kel2p complex; dephosphorylated and delocalized from the division site in a Glc7p/Ref2p-dependent manner; functionally redundant with BNI1
+S000035282	CDS					YIL159W		9	41825	45952	W		1994-12-10	1994-12-10	
+S000001420	ORF	Verified	YIL158W	AIM20		chromosome 9		9	46201	46815	W		1994-12-10	1994-12-10	Protein of unknown function; overexpression causes cell cycle delay or arrest; green fluorescent protein (GFP)-fusion protein localizes to vacuole; null mutant displays elevated frequency of mitochondrial genome loss; relocalizes from nucleus to cytoplasm upon DNA replication stress; AIM20 has a paralog, SKG1, that arose from the whole genome duplication
+S000035094	CDS					YIL158W		9	46201	46815	W		1994-12-10	1994-12-10	
+S000028797	ORF	Dubious	YIL156W-A			chromosome 9		9	47292	47693	W		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF COA1/YIL157C
+S000033563	CDS					YIL156W-A		9	47292	47693	W		2003-07-29	2003-07-29	
+S000001419	ORF	Verified	YIL157C	COA1	FMP35	chromosome 9		9	47542	46949	C		1994-12-10	1994-12-10	Mitochondrial inner membrane protein; required for assembly of the cytochrome c oxidase complex (complex IV); interacts with complex IV assembly factor Shy1p during the early stages of assembly
+S000034088	CDS					YIL157C		9	47542	46949	C		1994-12-10	1994-12-10	
+S000028511	ORF	Uncharacterized	YIL156W-B			chromosome 9		9	47690	47973	W		2003-07-29	2003-07-29	Putative protein of unknown function; originally identified based on homology to Ashbya gossypii and other related yeasts; SWAT-GFP and mCherry fusion proteins localize to the vacuole, while SWAT-GFP fusion also localizes to the endoplasmic reticulum
+S000030265	CDS					YIL156W-B		9	47690	47698	W		2003-07-29	2003-07-29	
+S000030266	CDS					YIL156W-B		9	47761	47973	W		2003-07-29	2003-07-29	
+S000030267	intron					YIL156W-B		9	47699	47760	W		2003-07-29	2003-07-29	
+S000001418	ORF	Verified	YIL156W	UBP7	ubiquitin-specific protease UBP7	chromosome 9	L000003169	9	48091	51306	W		1994-12-10	1994-12-10	Ubiquitin-specific protease that cleaves ubiquitin-protein fusions; UBP7 has a paralog, UBP11, that arose from the whole genome duplication
+S000034053	CDS					YIL156W		9	48091	51306	W		1994-12-10	1994-12-10	
+S000001417	ORF	Verified	YIL155C	GUT2	glycerol-3-phosphate dehydrogenase	chromosome 9	L000000747	9	53708	51759	C		1994-12-10	1994-12-10	Mitochondrial glycerol-3-phosphate dehydrogenase; expression is repressed by both glucose and cAMP and derepressed by non-fermentable carbon sources in a Snf1p, Rsf1p, Hap2/3/4/5 complex dependent manner
+S000033832	CDS					YIL155C		9	53708	51759	C		1994-12-10	1994-12-10	
+S000001416	ORF	Verified	YIL154C	IMP2'	IMP2	chromosome 9	L000000865	9	55021	53981	C		1994-12-10	1994-12-10	Transcriptional activator involved in maintenance of ion homeostasis; also involved in protection against DNA damage caused by bleomycin and other oxidants; contains a C-terminal leucine-rich repeat
+S000033080	CDS					YIL154C		9	55021	53981	C		1994-12-10	1994-12-10	
+S000001415	ORF	Verified	YIL153W	RRD1	peptidylprolyl isomerase RRD1|YPA1	chromosome 9	L000004483	9	55198	56379	W		1994-12-10	1994-12-10	Peptidyl-prolyl cis/trans-isomerase; activator of the phosphotyrosyl phosphatase activity of PP2A; involved in G1 phase progression, microtubule dynamics, bud morphogenesis and DNA repair; required for rapid reduction of Sgs1p levels in response to rapamycin; subunit of the Tap42p-Sit4p-Rrd1p complex; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress
+S000033043	CDS					YIL153W		9	55198	56379	W		1994-12-10	1994-12-10	
+S000001414	ORF	Uncharacterized	YIL152W			chromosome 9		9	56545	57252	W		1994-12-10	1994-12-10	Putative protein of unknown function
+S000032954	CDS					YIL152W		9	56545	57252	W		1994-12-10	1994-12-10	
+S000001413	ORF	Uncharacterized	YIL151C	ESL1		chromosome 9		9	60694	57338	C		1994-12-10	1994-12-10	hEST1A/B (SMG5/6)-like protein; contributes to environment-sensing adaptive gene expression responses; Esl1p and Esl2p contain a 14-3-3-like domain and a putative PilT N-terminus ribonuclease domain; ESL1 has a paralog, ESL2, that arose from the whole genome duplication
+S000032789	CDS					YIL151C		9	60694	57338	C		1994-12-10	1994-12-10	
+S000001412	ORF	Verified	YIL150C	MCM10	DNA43	chromosome 9	L000000512	9	62728	61013	C		1994-12-10	1994-12-10	Essential chromatin-associated protein; involved in initiation of DNA replication; required for association of MCM2-7 complex with replication origins; required to stabilize catalytic subunit of DNA polymerase-alpha; self-associates through its N-terminal domain
+S000031878	CDS					YIL150C		9	62728	61013	C		1994-12-10	1994-12-10	
+S000001411	ORF	Verified	YIL149C	MLP2		chromosome 9	S000007510	9	68067	63028	C		1994-12-10	1994-12-10	Myosin-like protein associated with the nuclear envelope; nuclear basket protein that connects the nuclear pore complex with the nuclear interior; involved in the Tel1p pathway that controls telomere length; MLP2 has a paralog, MLP1, that arose from the whole genome duplication
+S000031703	CDS					YIL149C		9	68067	63028	C		1994-12-10	1994-12-10	
+S000001410	ORF	Verified	YIL148W	RPL40A	eL40|ubiquitin-ribosomal 60S subunit protein L40A fusion protein|L40e|L40A|UB11|UBI1|CEP52A	chromosome 9	L000002411|L000000313	9	68708	69528	W		1994-12-10	1994-12-10	Ubiquitin-ribosomal 60S subunit protein L40A fusion protein; cleaved to yield ubiquitin and ribosomal protein L40A; ubiquitin may facilitate assembly of the ribosomal protein into ribosomes; homologous to mammalian ribosomal protein L40, no bacterial homolog; RPL40A has a paralog, RPL40B, that arose from the whole genome duplication; relative distribution to the nucleus increases upon DNA replication stress
+S000031651	CDS					YIL148W		9	68708	68715	W		1994-12-10	1994-12-10	
+S000031652	CDS					YIL148W		9	69150	69528	W		1994-12-10	1994-12-10	
+S000031653	intron					YIL148W		9	68716	69149	W		1994-12-10	1994-12-10	
+S000001409	ORF	Verified	YIL147C	SLN1	YPD2	chromosome 9	L000001916	9	73453	69791	C		1994-12-10	1994-12-10	Transmembrane histidine phosphotransfer kinase and osmosensor; regulates MAP kinase cascade; transmembrane protein with an intracellular kinase domain that signals to Ypd1p and Ssk1p, thereby forming a phosphorelay system similar to bacterial two-component regulators
+S000031443	CDS					YIL147C		9	73453	69791	C		1994-12-10	1994-12-10	
+S000178111	ARS		ARS907			chromosome 9		9	73820	73991			2014-11-18	2014-11-18	Autonomously replicating sequence
+S000001408	ORF	Verified	YIL146C	ATG32	mitophagy protein ATG32|ECM37	chromosome 9	L000003904	9	75773	74184	C		1994-12-10	1994-12-10	Mitochondrial outer membrane protein required to initiate mitophagy; recruits the autophagy adaptor protein Atg11p and the ubiquitin-like protein Atg8p to the mitochondrial surface to initiate mitophagy, the selective vacuolar degradation of mitochondria in response to starvation; can promote pexophagy when placed ectopically in the peroxisomal membrane; regulates mitophagy and ethanol production during alcoholic fermentation
+S000030520	CDS					YIL146C		9	75773	74184	C		1994-12-10	1994-12-10	
+S000001407	ORF	Verified	YIL145C	PAN6	pantoate--beta-alanine ligase PAN6	chromosome 9		9	77283	76354	C		2003-09-22	2003-09-22|1994-12-10	Pantothenate synthase; also known as pantoate-beta-alanine ligase, required for pantothenic acid biosynthesis, deletion causes pantothenic acid auxotrophy, homologous to E. coli panC
+S000030395	CDS					YIL145C		9	77283	76354	C		2003-09-22	2003-09-22|1994-12-10	
+S000001406	ORF	Verified	YIL144W	NDC80	kinetochore-associated Ndc80 complex subunit NDC80|TID3|HEC1	chromosome 9	L000004311	9	78074	80149	W		1994-12-10	1994-12-10	Component of the kinetochore-associated Ndc80 complex; conserved coiled-coil protein involved in chromosome segregation, spindle checkpoint activity, and kinetochore assembly and clustering; evolutionarily conserved; complex members include Ndc80p, Nuf2p, Scp24p, and Spc25p; modified by sumoylation
+S000030319	CDS					YIL144W		9	78074	80149	W		1994-12-10	1994-12-10	
+S000001405	ORF	Verified	YIL143C	SSL2	TFIIH/NER complex ATPase/helicase subunit SSL2|RAD25|LOM3	chromosome 9	L000002086	9	83041	80510	C		1994-12-10	1994-12-10	Component of RNA polymerase transcription factor TFIIH holoenzyme; acts as dsDNA-dependent translocase in context of TFIIH, unwinds DNA strands during initiation and promotes transcription start site (TSS) scanning; has DNA-dependent ATPase/helicase activity; interacts functionally with TFIIB, has roles in TSS selection and gene looping to juxtapose initiation and termination regions; involved in DNA repair; relocalizes to cytosol under hypoxia; homolog of human ERCC3
+S000037507	CDS					YIL143C		9	83041	80510	C		1994-12-10	1994-12-10	
+S000001404	ORF	Verified	YIL142W	CCT2	chaperonin-containing T-complex subunit CCT2|TCP2|BIN3	chromosome 9	L000002269	9	83302	84885	W		1994-12-10	1994-12-10	Subunit beta of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo
+S000037439	CDS					YIL142W		9	83302	84885	W		1994-12-10	1994-12-10	
+S000028796	ORF	Dubious	YIL142C-A			chromosome 9		9	83540	83208	C		2003-07-29	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF CCT2/YIL142W
+S000033561	CDS					YIL142C-A		9	83540	83208	C		2003-07-29	2003-07-29	
+S000001403	ORF	Dubious	YIL141W			chromosome 9		9	85053	85442	W		1994-12-10	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000037327	CDS					YIL141W		9	85053	85442	W		1994-12-10	1994-12-10	
+S000001402	ORF	Verified	YIL140W	AXL2	SRO4|BUD10	chromosome 9	L000003104	9	85366	87837	W		1994-12-10	1994-12-10	Integral plasma membrane protein; required for axial budding in haploid cells; localizes to the incipient bud site and bud neck; glycosylated by Pmt4p; potential Cdc28p substrate
+S000037249	CDS					YIL140W		9	85366	87837	W		1994-12-10	1994-12-10	
+S000001401	ORF	Verified	YIL139C	REV7		chromosome 9	L000001618	9	88716	87979	C	-101	1994-12-10	1994-12-10	Accessory subunit of DNA polymerase zeta; involved in translesion synthesis during post-replication repair; required for mutagenesis induced by DNA damage; involved in double-strand break repair; forms a complex with Rev3p, Pol31p and Pol32p
+S000035566	CDS					YIL139C		9	88716	87979	C		1994-12-10	1994-12-10	
+S000001400	ORF	Verified	YIL138C	TPM2	tropomyosin TPM2	chromosome 9	L000002329	9	89715	89230	C		1994-12-10	1994-12-10	Minor isoform of tropomyosin; binds to and stabilizes actin cables and filaments, which direct polarized cell growth and the distribution of several organelles; appears to have distinct and also overlapping functions with Tpm1p; TPM2 has a paralog, TPM1, that arose from the whole genome duplication
+S000035475	CDS					YIL138C		9	89715	89230	C		1994-12-10	1994-12-10	
+S000001399	ORF	Verified	YIL137C	TMA108	TAE3|RBF108	chromosome 9		9	92788	89948	C		1994-12-10	1994-12-10	Ribosome-associated, nascent chain binding factor; binds N-terminal region of nascent peptides during translation; recognizes target proteins via its putative metallopeptidase peptide-binding pocket
+S000035340	CDS					YIL137C		9	92788	89948	C		1994-12-10	1994-12-10	
+S000001398	ORF	Verified	YIL136W	OM45		chromosome 9	L000001301	9	93619	94800	W		1994-12-10	1994-12-10	Mitochondrial outer membrane protein of unknown function; major constituent of the outer membrane, extending into the intermembrane space; interacts with porin (Por1p) and with Om14p; imported via the presequence pathway involving the TOM and TIM23 complexes, then assembled in the outer membrane by Mim1p; protein abundance increases in response to DNA replication stress
+S000034390	CDS					YIL136W		9	93619	94800	W		1994-12-10	1994-12-10	
+S000001397	ORF	Verified	YIL135C	VHS2		chromosome 9		9	96375	95065	C		1994-12-10	1994-12-10	Regulator of septin dynamics; involved in the regulation of septin dynamics at bud neck after mitotic entry, likely by stabilizing septin structure; regulated at post-translational level by cell cycle dependent phosphorylation; likely phosphorylated by Cdc28p and dephosphorylated by Cdc14p before cytokinesis; high-copy suppressor of synthetic lethality of sis2 sit4 double mutant; VHS2 has a paralog, MLF3, that arose from the whole genome duplication
+S000034198	CDS					YIL135C		9	96375	95065	C		1994-12-10	1994-12-10	
+S000028556	ORF	Uncharacterized	YIL134C-A			chromosome 9		9	96725	96522	C		2003-07-29	2003-07-29	Putative protein of unknown function; identified by fungal homology and RT-PCR
+S000031242	CDS					YIL134C-A		9	96725	96522	C		2003-07-29	2003-07-29	
+S000006459	snoRNA_gene		snR68	SNR68		chromosome 9	L000004537	9	97111	97246	W		1994-12-10	1994-12-10	C/D box small nucleolar RNA (snoRNA); guides 2'-O-methylation of large subunit (LSU) rRNA at position A2640
+S000030855	noncoding_exon					snR68		9	97111	97246	W		1994-12-10	1994-12-10	
+S000001396	ORF	Verified	YIL134W	FLX1	flavin adenine dinucleotide transporter FLX1	chromosome 9	L000002664	9	97395	98330	W		1994-12-10	1994-12-10	Mitochondrial flavin adenine dinucleotide transporter; FAD is a synthesis product of riboflavin; human homolog SLC25A32 is implicated in multiple acyl-CoA dehydrogenase deficiency (MADD) or glutaric aciduria type II (GAII), and can complement yeast null mutant
+S000034150	CDS					YIL134W		9	97395	98330	W		1994-12-10	1994-12-10	
+S000001395	ORF	Verified	YIL133C	RPL16A	uL13|ribosomal 60S subunit protein L16A|L13|rp22|YL15|L21A|L16A|RPL13	chromosome 9	L000001709	9	99416	98527	C		1994-12-10	1994-12-10	Ribosomal 60S subunit protein L16A; N-terminally acetylated, binds 5.8 S rRNA; transcriptionally regulated by Rap1p; homologous to mammalian ribosomal protein L13A and bacterial L13; RPL16A has a paralog, RPL16B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress
+S000033253	CDS					YIL133C		9	99095	98527	C		1994-12-10	1994-12-10	
+S000033252	CDS					YIL133C		9	99416	99386	C		1994-12-10	1994-12-10	
+S000033254	intron					YIL133C		9	99385	99096	C		1994-12-10	1994-12-10	
+S000001394	ORF	Verified	YIL132C	CSM2		chromosome 9		9	100501	99860	C		1994-12-10	1994-12-10	Component of Shu complex (aka PCSS complex); Shu complex also includes Psy3, Shu1, Shu2, and promotes error-free DNA repair,; Shu complex mediates inhibition of Srs2p function; promotes formation of Rad51p filaments; Psy3p and Csm2p contain similar DNA-binding regions which work together to form a single DNA binding site; required for accurate chromosome segregation during meiosis
+S000033192	CDS					YIL132C		9	100501	99860	C		1994-12-10	1994-12-10	
+S000001393	ORF	Verified	YIL131C	FKH1	forkhead family transcription factor FKH1	chromosome 9	L000002607	9	102235	100781	C		1994-12-10	1994-12-10	Forkhead family transcription factor; rate-limiting replication origin activator; evolutionarily conserved lifespan regulator; binds multiple chromosomal elements with distinct specificities, cell cycle dynamics; regulates transcription elongation, chromatin silencing at mating loci, expression of G2/M phase genes; facilitates clustering, activation of early-firing replication origins; binds HML recombination enhancer, regulates donor preference during mating-type switching
+S000033138	CDS					YIL131C		9	102235	100781	C		1994-12-10	1994-12-10	
+S000001392	ORF	Verified	YIL130W	ASG1		chromosome 9		9	102782	105676	W		1994-12-10	1994-12-10	Zinc cluster protein proposed to be a transcriptional regulator; regulator involved in the stress response; null mutants have a respiratory deficiency, calcofluor white sensitivity and slightly increased cycloheximide resistance
+S000032296	CDS					YIL130W		9	102782	105676	W		1994-12-10	1994-12-10	
+S000118394	ARS		ARS909		ARSIX-106	chromosome 9		9	105870	106053			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000001391	ORF	Verified	YIL129C	TAO3	PAG1	chromosome 9		9	113237	106107	C		1994-12-10	1994-12-10	Component of the RAM signaling network; is involved in regulation of Ace2p activity and cellular morphogenesis, interacts with protein kinase Cbk1p and also with Kic1p
+S000032290	CDS					YIL129C		9	113237	106107	C		1994-12-10	1994-12-10	
+S000130158	ARS		ARS910			chromosome 9		9	113237	113806			2009-05-07	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000001390	ORF	Verified	YIL128W	MET18	MMS19	chromosome 9	L000003468	9	113806	116904	W		1994-12-10	1994-12-10	Component of cytosolic iron-sulfur protein assembly (CIA) machinery; acts at a late step of Fe-S cluster assembly; forms the CIA targeting complex with Cia1p and Cia2p that directs Fe-S cluster incorporation into a subset of proteins involved in methionine biosynthesis, DNA replication and repair, transcription, and telomere maintenance; ortholog of human MMS19
+S000032232	CDS					YIL128W		9	113806	116904	W		1994-12-10	1994-12-10	
+S000001389	ORF	Uncharacterized	YIL127C	RRT14		chromosome 9		9	117644	117024	C		1994-12-10	1994-12-10	Putative protein of unknown function; identified in a screen for mutants with decreased levels of rDNA transcription; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus; predicted to be involved in ribosome biogenesis
+S000031158	CDS					YIL127C		9	117644	117024	C		1994-12-10	1994-12-10	
+S000001388	ORF	Verified	YIL126W	STH1	RSC chromatin remodeling complex ATPase subunit STH1|NPS1	chromosome 9	L000002128	9	117992	122071	W	-91	1994-12-10	1994-12-10	ATPase component of the RSC chromatin remodeling complex; required for expression of early meiotic genes; promotes base excision repair in chromatin; essential helicase-related protein homologous to Snf2p
+S000031113	CDS					YIL126W		9	117992	122071	W		1994-12-10	1994-12-10	
+S000001387	ORF	Verified	YIL125W	KGD1	alpha-ketoglutarate dehydrogenase KGD1|OGD1	chromosome 9	L000000897	9	122689	125733	W	-91	1994-12-10	1994-12-10	Subunit of the mitochondrial alpha-ketoglutarate dehydrogenase complex; catalyzes a key step in the tricarboxylic acid (TCA) cycle, the oxidative decarboxylation of alpha-ketoglutarate to form succinyl-CoA
+S000031016	CDS					YIL125W		9	122689	125733	W		1994-12-10	1994-12-10	
+S000001386	ORF	Verified	YIL124W	AYR1	GBG1|acylglycerone-phosphate reductase	chromosome 9	S000007473	9	126204	127097	W		1994-12-10	1994-12-10	Bifunctional triacylglycerol lipase and 1-acyl DHAP reductase; NADPH-dependent 1-acyl dihydroxyacetone phosphate reductase involved in phosphatidic acid biosynthesis; lipid droplet triacylglycerol lipase involved in the mobilization of non-polar lipids; found in lipid particles, the endoplasmic reticulum and the mitochondrial outer membrane; required for spore germination; role in cell wall biosynthesis; capable of metabolizing steroid hormones; oleic acid inducible
+S000030012	CDS					YIL124W		9	126204	127097	W		1994-12-10	1994-12-10	
+S000001385	ORF	Verified	YIL123W	SIM1	putative glucosidase SIM1	chromosome 9	L000003937	9	128151	129581	W		2011-02-03	1994-12-10|2011-02-03	Protein of the SUN family (Sim1p, Uth1p, Nca3p, Sun4p); may participate in DNA replication; promoter contains SCB regulation box at -300 bp indicating that expression may be cell cycle-regulated; SIM1 has a paralog, SUN4, that arose from the whole genome duplication
+S000029900	CDS					YIL123W		9	128151	129581	W		2011-02-03	1994-12-10|2011-02-03	
+S000122103	five_prime_UTR_intron					YIL123W		9	127662	128148	W		2007-04-04	2007-04-04	
+S000001384	ORF	Verified	YIL122W	POG1		chromosome 9		9	130610	131665	W		2011-02-03	1994-12-10	Nuclear chromatin-associated protein of unknown function; may have a role in cell cycle regulation; overexpression promotes recovery from pheromone induced arrest and suppresses the stress sensitivity caused by a mutation in the E3 ubiquitin ligase Rsp5p; binds upstream of BAR1 and cell cycle-related genes; phsosphoylated form may be ubiquitinated by Dma2p; potential Cdc28p substrate; SBF regulated
+S000037860	CDS					YIL122W		9	130610	131665	W		2011-02-03	1994-12-10	
+S000001383	ORF	Verified	YIL121W	QDR2	cation transporter	chromosome 9		9	132244	133872	W		2011-02-03	1994-12-10	Plasma membrane transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; exports copper; has broad substrate specificity and can transport many mono- and divalent cations; transports a variety of drugs and is required for resistance to quinidine, barban, cisplatin, and bleomycin; contributes to potassium homeostasis; expression is regulated by copper
+S000037111	CDS					YIL121W		9	132244	133872	W		2011-02-03	1994-12-10	
+S000001382	ORF	Verified	YIL120W	QDR1	multidrug transporter	chromosome 9		9	134417	136108	W		2011-02-03	1994-12-10	Multidrug transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; involved in spore wall assembly; sequence similarity to DTR1 and QDR3, and the triple mutant dtr1 qdr1 qdr3 exhibits reduced dityrosine fluorescence relative to the single mutants; required for resistance to quinidine, ketoconazole, fluconazole, and barban; QDR1 has a paralog, AQR1, that arose from the whole genome duplication
+S000037040	CDS					YIL120W		9	134417	136108	W		2011-02-03	1994-12-10	
+S000118395	ARS		ARS911		ARSIX-136	chromosome 9		9	136098	136338			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178112	ARS_consensus_sequence					ARS911		9	136288	136272	C		2014-11-18	2014-11-18	
+S000001381	ORF	Verified	YIL119C	RPI1		chromosome 9	L000001697	9	137877	136654	C		2011-02-03	1994-12-10	Transcription factor, allelic differences between S288C and Sigma1278b; mediates fermentation stress tolerance by modulating cell wall integrity; overexpression suppresses heat shock sensitivity of wild-type RAS2 overexpression and also suppresses cell lysis defect of mpk1 mutation; allele from S288c can confer fMAPK pathway independent transcription of FLO11; S288C and Sigma1278b alleles differ in number of tandem repeats within ORF
+S000036217	CDS					YIL119C		9	137877	136654	C		2011-02-03	1994-12-10	
+S000001380	ORF	Verified	YIL118W	RHO3	Rho family GTPase RHO3	chromosome 9	L000001632	9	139752	140447	W		2011-02-03	1994-12-10	Non-essential small GTPase of the Rho/Rac family of Ras-like proteins; involved in the establishment of cell polarity; GTPase activity positively regulated by the GTPase activating protein (GAP) Rgd1p
+S000036201	CDS					YIL118W		9	139752	140447	W		2011-02-03	1994-12-10	
+S000001379	ORF	Verified	YIL117C	PRM5	pheromone-regulated protein PRM5	chromosome 9		9	141569	140613	C		2011-02-03	1994-12-10	Pheromone-regulated protein, predicted to have 1 transmembrane segment; induced during cell integrity signaling; PRM5 has a paralog, YNL058C, that arose from the whole genome duplication
+S000035189	CDS					YIL117C		9	141569	140613	C		2011-02-03	1994-12-10	
+S000001378	ORF	Verified	YIL116W	HIS5	histidinol-phosphate transaminase	chromosome 9	L000000782	9	142928	144085	W	-89	2011-02-03	1994-12-10	Histidinol-phosphate aminotransferase; catalyzes the seventh step in histidine biosynthesis; responsive to general control of amino acid biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts
+S000035124	CDS					YIL116W		9	142928	144085	W		2011-02-03	1994-12-10	
+S000028795	ORF	Dubious	YIL115W-A			chromosome 9		9	144268	144639	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene NUP159/YIL115C
+S000033557	CDS					YIL115W-A		9	144268	144639	W		2011-02-03	2003-07-29	
+S000001377	ORF	Verified	YIL115C	NUP159	FG-nucleoporin NUP159|RAT7|NUP158	chromosome 9	L000002782	9	148709	144327	C		2011-02-03	1994-12-10	FG-nucleoporin component of central core of the nuclear pore complex; also part of the nuclear pore complex (NPC) cytoplasmic filaments; contributes directly to nucleocytoplasmic transport; regulates ADP release from the ATP-dependent RNA helicase Dbp5p; forms a stable association with Nup82p, Gle2p and two other FG-nucleoporins (Nsp1p and Nup116p)
+S000034872	CDS					YIL115C		9	148709	144327	C		2011-02-03	1994-12-10	
+S000001376	ORF	Verified	YIL114C	POR2	putative porin POR2|YVDAC2	chromosome 9	L000003425	9	149988	149143	C		2011-02-03	1994-12-10	Putative mitochondrial porin (voltage-dependent anion channel); not required for mitochondrial membrane permeability or mitochondrial osmotic stability; POR2 has a paralog, POR1, that arose from the whole genome duplication
+S000033971	CDS					YIL114C		9	149988	149143	C		2011-02-03	1994-12-10	
+S000001375	ORF	Verified	YIL113W	SDP1	mitogen-activated protein kinase tyrosine protein phosphatase SDP1	chromosome 9	L000004339	9	150559	151188	W		2011-02-03	1994-12-10	Stress-inducible dual-specificity MAP kinase phosphatase; negatively regulates Slt2p MAP kinase by direct dephosphorylation, diffuse localization under normal conditions shifts to punctate localization after heat shock; SDP1 has a paralog, MSG5, that arose from the whole genome duplication
+S000033917	CDS					YIL113W		9	150559	151188	W		2011-02-03	1994-12-10	
+S000001374	ORF	Verified	YIL112W	HOS4		chromosome 9		9	151595	154846	W		2011-02-03	1994-12-10	Subunit of the Set3 complex; complex is a meiotic-specific repressor of sporulation specific genes that contains deacetylase activity; potential Cdc28p substrate
+S000033813	CDS					YIL112W		9	151595	154846	W		2011-02-03	1994-12-10	
+S000001373	ORF	Verified	YIL111W	COX5B	cytochrome c oxidase subunit Vb	chromosome 9	L000000389	9	155222	155765	W		2011-02-03	1994-12-10	Subunit Vb of cytochrome c oxidase; cytochrome c oxidase is the terminal member of the mitochondrial inner membrane electron transport chain; Cox5Bp is predominantly expressed during anaerobic growth while its isoform Va (Cox5Ap) is expressed during aerobic growth; COX5B has a paralog, COX5A, that arose from the whole genome duplication
+S000033706	CDS					YIL111W		9	155222	155222	W		2011-02-03	1994-12-10	
+S000033707	CDS					YIL111W		9	155311	155765	W		2011-02-03	1994-12-10	
+S000033708	intron					YIL111W		9	155223	155310	W		2011-02-03	1994-12-10	
+S000001372	ORF	Verified	YIL110W	HPM1	MNI1	chromosome 9		9	156045	157178	W		2011-02-03	1994-12-10	AdoMet-dependent methyltransferase; involved in a novel 3-methylhistidine modification of ribosomal protein Rpl3p; seven beta-strand MTase family member; null mutant exhibits a weak vacuolar protein sorting defect and caspofungin resistance
+S000033038	CDS					YIL110W		9	156045	157178	W		2011-02-03	1994-12-10	
+S000001371	ORF	Verified	YIL109C	SEC24	COPII subunit SEC24|ANU1	chromosome 9	L000004360	9	160165	157385	C		2011-02-03	1994-12-10	Component of the Sec23p-Sec24p heterodimer of the COPII vesicle coat; required for cargo selection during vesicle formation in ER to Golgi transport; homologous to Sfb3p; SEC24 has a paralog, SFB2, that arose from the whole genome duplication
+S000034140	CDS					YIL109C		9	160165	157385	C		2011-02-03	1994-12-10	
+S000001370	ORF	Verified	YIL108W		putative metalloendopeptidase	chromosome 9		9	160887	162977	W		2011-02-03	1994-12-10	Putative metalloendopeptidase; forms cytoplasmic foci upon DNA replication stress
+S000034098	CDS					YIL108W		9	160887	162977	W		2011-02-03	1994-12-10	
+S000001369	ORF	Verified	YIL107C	PFK26	PFK-2|PFK2	chromosome 9	L000001406	9	165761	163278	C		2011-02-03	1994-12-10	6-phosphofructo-2-kinase; inhibited by phosphoenolpyruvate and sn-glycerol 3-phosphate; has negligible fructose-2,6-bisphosphatase activity; transcriptional regulation involves protein kinase A
+S000032029	CDS					YIL107C		9	165761	163278	C		2011-02-03	1994-12-10	
+S000001368	ORF	Verified	YIL106W	MOB1		chromosome 9	L000003356	9	166415	167444	W		2011-02-03	1999-11-17|1994-12-10	Component of the mitotic exit network; associates with and is required for the activation and Cdc15p-dependent phosphorylation of the Dbf2p kinase; required for cytokinesis and cell separation; component of the CCR4 transcriptional complex; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress
+S000031985	CDS					YIL106W		9	166415	166434	W		2011-02-03	1999-11-17|1994-12-10	
+S000031986	CDS					YIL106W		9	166520	167444	W		2011-02-03	1999-11-17	
+S000031987	intron					YIL106W		9	166435	166519	W		2011-02-03	1999-11-17	
+S000028657	ORF	Uncharacterized	YIL105W-A			chromosome 9		9	167664	167804	W		2011-02-03	2003-07-29	Protein of unknown function; completely overlaps the verified gene SLM1; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; mRNA identified as translated by ribosome profiling data
+S000032461	CDS					YIL105W-A		9	167664	167804	W		2011-02-03	2003-07-29	
+S000001367	ORF	Verified	YIL105C	SLM1	phosphatidylinositol 4,5-bisphosphate-binding protein|LIT2	chromosome 9		9	169641	167581	C		2011-02-03	1994-12-10	Phosphoinositide PI4,5P(2) binding protein, forms a complex with Slm2p; acts downstream of Mss4p in a pathway regulating actin cytoskeleton organization in response to stress; TORC2 complex substrate and effector; protein abundance increases in response to DNA replication stress; SLM1 has a paralog, SLM2, that arose from the whole genome duplication
+S000030899	CDS					YIL105C		9	169641	167581	C		2011-02-03	1994-12-10	
+S000001366	ORF	Verified	YIL104C	SHQ1	Hsp90 cochaperone SHQ1	chromosome 9		9	171505	169982	C		2011-02-03	1994-12-10	Chaperone protein; required for the assembly of box H/ACA snoRNPs and thus for pre-rRNA processing; functions as an RNA mimic; forms a complex with Naf1p and interacts with H/ACA snoRNP components Nhp2p and Cbf5p; homology with known Hsp90p cochaperones; relocalizes to the cytosol in response to hypoxia
+S000030805	CDS					YIL104C		9	171505	169982	C		2011-02-03	1994-12-10	
+S000001365	ORF	Verified	YIL103W	DPH1	KIF48	chromosome 9		9	171751	173028	W		2011-02-03	1994-12-10	Protein required for synthesis of diphthamide; required along with Dph2p, Kti11p, Jjj3p, and Dph5p; diphthamide is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); may act in a complex with Dph2p and Kti11p
+S000030777	CDS					YIL103W		9	171751	173028	W		2011-02-03	1994-12-10	
+S000113587	ORF	Uncharacterized	YIL102C-A			chromosome 9		9	173592	173365	C		2011-02-03	2005-11-21	Putative protein of unknown function; identified based on comparisons of the genome sequences of six Saccharomyces species; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum
+S000113588	CDS					YIL102C-A		9	173592	173365	C		2011-02-03	2005-11-21	
+S000001364	ORF	Uncharacterized	YIL102C			chromosome 9		9	174887	174582	C		2011-02-03	1994-12-10	Putative protein of unknown function
+S000030579	CDS					YIL102C		9	174887	174582	C		2011-02-03	1994-12-10	
+S000006741	tRNA_gene		tT(AGU)I1			chromosome 9	L000003866	9	175031	175103	W		2011-02-03	1994-12-10	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000036345	noncoding_exon					tT(AGU)I1		9	175031	175103	W		2011-02-03	1994-12-10	
+S000118396	ARS		ARS912		ARSIX-175	chromosome 9		9	175038	175358			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178113	ARS_consensus_sequence					ARS912		9	175170	175186	W		2014-11-18	2014-11-18	
+S000001363	ORF	Verified	YIL101C	XBP1		chromosome 9	L000004246	9	177250	175307	C		2011-02-03	1994-12-10	Transcriptional repressor; binds promoter sequences of cyclin genes, CYS3, and SMF2; not expressed during log phase of growth, but induced by stress or starvation during mitosis, and late in meiosis; represses 15% of all yeast genes as cells transition to quiescence; important for maintaining G1 arrest and for longevity of quiescent cells; member of Swi4p/Mbp1p family; phosphorylated by Cdc28p; relative distribution to nucleus increases upon DNA replication stress
+S000037752	CDS					YIL101C		9	177250	175307	C		2011-02-03	1994-12-10	
+S000001362	ORF	Dubious	YIL100W			chromosome 9		9	177373	177726	W		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the dubious ORF YIL100C-A
+S000037716	CDS					YIL100W		9	177373	177726	W		2011-02-03	1994-12-10	
+S000028794	ORF	Dubious	YIL100C-A			chromosome 9		9	177681	177343	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033555	CDS					YIL100C-A		9	177681	177343	C		2011-02-03	2003-07-29	
+S000001361	ORF	Verified	YIL099W	SGA1	glucan 1,4-alpha-glucosidase	chromosome 9	L000001875	9	178004	179653	W		2011-02-03	1994-12-10	Intracellular sporulation-specific glucoamylase; involved in glycogen degradation; induced during starvation of a/a diploids late in sporulation, but dispensable for sporulation
+S000032666	CDS					YIL099W		9	178004	179653	W		2011-02-03	1994-12-10	
+S000001360	ORF	Verified	YIL098C	FMC1		chromosome 9	L000004436	9	180239	179772	C		2011-02-03	1994-12-10	Mitochondrial matrix protein; required for assembly or stability at high temperature of the F1 sector of mitochondrial F1F0 ATP synthase; null mutant temperature sensitive growth on glycerol is suppressed by multicopy expression of Odc1p
+S000032508	CDS					YIL098C		9	180239	179772	C		2011-02-03	1994-12-10	
+S000001359	ORF	Verified	YIL097W	FYV10	glucose-induced degradation complex subunit FYV10|GID9	chromosome 9		9	180427	181977	W		2011-02-03	1994-12-10	Subunit of GID complex; involved in proteasome-dependent catabolite inactivation of gluconeogenic enzymes FBPase, PEPCK, and c-MDH; forms dimer with Rmd5p that is then recruited to GID Complex by Gid8p; contains a degenerate RING finger motif needed for GID complex ubiquitin ligase activity in vivo, as well as CTLH and CRA domains; plays role in anti-apoptosis; required for survival upon exposure to K1 killer toxin
+S000032474	CDS					YIL097W		9	180427	181977	W		2011-02-03	1994-12-10	
+S000001358	ORF	Verified	YIL096C	BMT5	25S rRNA (uracil2634-N3)-methyltransferase	chromosome 9		9	183127	182117	C		2011-02-03	1994-12-10	Methyltransferase required for m3U2634 methylation of the 25S rRNA; S-adenosylmethionine-dependent; associates with precursors of the 60S ribosomal subunit; predicted to be involved in ribosome biogenesis
+S000031394	CDS					YIL096C		9	183127	182117	C		2011-02-03	1994-12-10	
+S000006605	tRNA_gene		tI(AAU)I1			chromosome 9	L000003875	9	183513	183440	C		2011-02-03	1994-12-10	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000030348	noncoding_exon					tI(AAU)I1		9	183513	183440	C		2011-02-03	1994-12-10	
+S000001357	ORF	Verified	YIL095W	PRK1	serine/threonine protein kinase PRK1|PAK1	chromosome 9	L000002879	9	183937	186369	W		2011-02-03	1994-12-10	Protein serine/threonine kinase; regulates the organization and function of the actin cytoskeleton and reduces endocytic ability of cell through the phosphorylation of the Pan1p-Sla1p-End3p protein complex; PRK1 has a paralog, ARK1, that arose from the whole genome duplication
+S000031347	CDS					YIL095W		9	183937	186369	W		2011-02-03	1994-12-10	
+S000001356	ORF	Verified	YIL094C	LYS12	homoisocitrate dehydrogenase|LYS11|LYS10	chromosome 9	L000000970	9	187632	186517	C		2011-02-03	1994-12-10	Homo-isocitrate dehydrogenase; an NAD-linked mitochondrial enzyme required for the fourth step in the biosynthesis of lysine, in which homo-isocitrate is oxidatively decarboxylated to alpha-ketoadipate
+S000031160	CDS					YIL094C		9	187632	186517	C		2011-02-03	1994-12-10	
+S000001355	ORF	Verified	YIL093C	RSM25	mitochondrial 37S ribosomal protein RSM25	chromosome 9		9	188784	187990	C		2011-02-03	1994-12-10	Mitochondrial ribosomal protein of the small subunit
+S000030231	CDS					YIL093C		9	188784	187990	C		2011-02-03	1994-12-10	
+S000001354	ORF	Uncharacterized	YIL092W			chromosome 9		9	189066	190967	W		2011-02-03	1994-12-10	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus
+S000030095	CDS					YIL092W		9	189066	190967	W		2011-02-03	1994-12-10	
+S000001353	ORF	Verified	YIL091C	UTP25	rRNA-binding ribosome biosynthesis protein UTP25	chromosome 9		9	193195	191030	C		2011-02-03	1994-12-10	Nucleolar protein; required for 35S pre-RNA processing and 40S ribosomal subunit biogenesis
+S000029923	CDS					YIL091C		9	193195	191030	C		2011-02-03	1994-12-10	
+S000001352	ORF	Verified	YIL090W	ICE2		chromosome 9		9	193595	195070	W		2011-02-03	1994-12-10	Integral ER membrane protein with type-III transmembrane domains; required for maintenance of ER zinc homeostasis; necessary for efficient targeting of Trm1p tRNA methyltransferase to inner nuclear membrane; mutations cause defects in cortical ER morphology in both the mother and daughter cells
+S000029886	CDS					YIL090W		9	193595	195070	W		2011-02-03	1994-12-10	
+S000001351	ORF	Verified	YIL089W			chromosome 9		9	195599	196216	W		2011-02-03	1994-12-10	Protein of unknown function found in the ER and vacuole lumen; overexpression of YIL089W affects endocytic protein trafficking
+S000036415	CDS					YIL089W		9	195599	196216	W		2011-02-03	1994-12-10	
+S000007015	long_terminal_repeat		YILCtau1			chromosome 9		9	197023	196653	C		2011-02-03	1994-12-10	Ty4 LTR
+S000007011	long_terminal_repeat		YILCdelta1			chromosome 9		9	197488	197140	C		2011-02-03	1994-12-10	Ty1 LTR
+S000006547	tRNA_gene		tE(CUC)I			chromosome 9	L000003867	9	197592	197663	W		2011-02-03	1994-12-10	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis
+S000031939	noncoding_exon					tE(CUC)I		9	197592	197663	W		2011-02-03	1994-12-10	
+S000001350	ORF	Verified	YIL088C	AVT7		chromosome 9		9	199403	197931	C		2011-02-03	1994-12-10	Putative transporter; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
+S000036264	CDS					YIL088C		9	199403	197931	C		2011-02-03	1994-12-10	
+S000001349	ORF	Verified	YIL087C	AIM19	LRC2	chromosome 9		9	200119	199646	C		2011-02-03	1994-12-10	Protein of unknown function; mitochondrial protein that physically interacts with Tim23p; null mutant displays reduced respiratory growth
+S000035319	CDS					YIL087C		9	200119	199646	C		2011-02-03	1994-12-10	
+S000001348	ORF	Dubious	YIL086C			chromosome 9		9	200461	200153	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000035155	CDS					YIL086C		9	200461	200153	C		2011-02-03	1994-12-10	
+S000001347	ORF	Verified	YIL085C	KTR7	putative mannosyltransferase	chromosome 9	L000004100	9	202043	200490	C		2011-02-03	1994-12-10	Putative mannosyltransferase involved in protein glycosylation; member of the KRE2/MNT1 mannosyltransferase family; KTR7 has a paralog, KTR5, that arose from the whole genome duplication
+S000035010	CDS					YIL085C		9	202043	200490	C		2011-02-03	1994-12-10	
+S000001346	ORF	Verified	YIL084C	SDS3		chromosome 9	L000003384	9	203259	202276	C		2011-02-03	1994-12-10	Component of the Rpd3L histone deacetylase complex; required for its structural integrity and catalytic activity, involved in transcriptional silencing and required for sporulation; relocalizes to the cytosol in response to hypoxia; cells defective in SDS3 display pleiotropic phenotypes
+S000034086	CDS					YIL084C		9	203259	202276	C		2011-02-03	1994-12-10	
+S000001345	ORF	Verified	YIL083C	CAB2	phosphopantothenate--cysteine ligase CAB2	chromosome 9		9	204653	203556	C		2011-02-03	1994-12-10|2011-02-03	Subunit of the CoA-Synthesizing Protein Complex (CoA-SPC); subunits of this complex are: Cab2p, Cab3p, Cab4p, Cab5p, Sis2p and Vhs3p; probable phosphopantothenoylcysteine synthetase (PPCS), which catalyzes the second step of coenzyme A biosynthesis from pantothenate; null mutant lethality is complemented by human homolog PPCS and by E. coli coaBC (encoding a bifunctional enzyme with PPCS activity)
+S000033946	CDS					YIL083C		9	204653	203556	C		2011-02-03	1994-12-10|2011-02-03	
+S000007017	long_terminal_repeat		YILWsigma1			chromosome 9		9	205220	205559	W		2011-02-03	1994-12-10	Ty3 LTR
+S000007020	LTR_retrotransposon		YILWTy3-1		Ty3	chromosome 9		9	205220	210647	W		2011-02-03	1994-12-10	Ty3 element, LTR retrotransposon of the Gypsy (Metaviridae) group; contains co-transcribed genes TYA Gag and TYB Pol, encoding proteins involved in structure and function of virus-like particles, flanked by two direct repeats; transposition is induced upon exposure to mating pheromone
+S000001344	ORF	Dubious	YIL082W			chromosome 9		9	205635	206507	W		2011-02-03	1994-12-10	Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
+S000033890	CDS					YIL082W		9	205635	206507	W		2011-02-03	1994-12-10	
+S000003537	transposable_element_gene		YIL082W-A		gag-pol fusion protein	chromosome 9		9	205635	210132	W		2011-02-03	1994-12-10|1999-07-17	Retrotransposon TYA Gag and TYB Pol genes; transcribed/translated as one unit; polyprotein is processed to make a nucleocapsid-like protein (Gag), reverse transcriptase (RT), protease (PR), and integrase (IN); similar to retroviral genes
+S000030100	CDS					YIL082W-A		9	205635	206485	W		2011-02-03	1999-07-17|1994-12-10	
+S000030101	CDS					YIL082W-A		9	206487	210132	W		2011-02-03	1999-07-17|1994-12-10	
+S000030102	plus_1_translational_frameshift					YIL082W-A		9	206486	206486	W		2011-02-03	1999-07-17|1994-12-10	
+S000007018	long_terminal_repeat		YILWsigma2			chromosome 9		9	210308	210647	W		2011-02-03	1994-12-10	Ty3 LTR
+S000006606	tRNA_gene		tI(AAU)I2			chromosome 9	L000003868	9	210665	210738	W		2011-02-03	1994-12-10	Isoleucine tRNA (tRNA-Ile), predicted by tRNAscan-SE analysis
+S000030349	noncoding_exon					tI(AAU)I2		9	210665	210738	W		2011-02-03	1994-12-10	
+S000001341	ORF	Verified	YIL079C	AIR1	TRAMP complex RNA-binding subunit	chromosome 9	S000028413	9	212005	210923	C		2011-02-03	1994-12-10	Zinc knuckle protein; involved in nuclear RNA processing and degradation as a component of the TRAMP complex; stimulates the poly(A) polymerase activity of Pap2p in vitro; AIR1 has a paralog, AIR2, that arose from the whole genome duplication; although Air1p and Air2p are homologous TRAMP subunits, they have nonredundant roles in regulation of substrate specificity of the exosome
+S000032850	CDS					YIL079C		9	212005	210923	C		2011-02-03	1994-12-10	
+S000001340	ORF	Verified	YIL078W	THS1	threonine--tRNA ligase THS1	chromosome 9	L000002301	9	212499	214703	W		2011-02-03	1994-12-10	Threonyl-tRNA synthetase; essential cytoplasmic protein; human homolog TARS can complement yeast null mutant
+S000032807	CDS					YIL078W		9	212499	214703	W		2011-02-03	1994-12-10	
+S000007644	ARS		ARS913	ARS901	ARSIX-215|ARS249	chromosome 9		9	214624	214754			2014-11-18	2001-03-06|2014-11-18|2006-09-08	Autonomously Replicating Sequence
+S000178114	ARS_consensus_sequence					ARS913		9	214732	214748	W		2014-11-18	2014-11-18	
+S000001339	ORF	Uncharacterized	YIL077C			chromosome 9		9	215953	214991	C		2011-02-03	1994-12-10	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
+S000032673	CDS					YIL077C		9	215953	214991	C		2011-02-03	1994-12-10	
+S000001338	ORF	Verified	YIL076W	SEC28	coatomer subunit epsilon|ANU2	chromosome 9	L000004402	9	216658	217548	W		2011-02-03	1994-12-10|2005-11-22	Epsilon-COP subunit of the coatomer; regulates retrograde Golgi-to-ER protein traffic; stabilizes Cop1p, the alpha-COP and the coatomer complex; non-essential for cell growth; protein abundance increases in response to DNA replication stress
+S000032630	CDS					YIL076W		9	216658	217548	W		2011-02-03	1994-12-10|2005-11-22	
+S000001337	ORF	Verified	YIL075C	RPN2	proteasome regulatory particle base subunit RPN2|SEN3	chromosome 9	L000001864	9	220700	217863	C		2011-02-03	1994-12-10	Subunit of the 26S proteasome; substrate of the N-acetyltransferase Nat1p; protein abundance increases in response to DNA replication stress
+S000031543	CDS					YIL075C		9	220700	217863	C		2011-02-03	1994-12-10	
+S000001336	ORF	Verified	YIL074C	SER33	phosphoglycerate dehydrogenase SER33	chromosome 9	S000007458	9	222490	221081	C		2011-02-03	1994-12-10	3-phosphoglycerate dehydrogenase and alpha-ketoglutarate reductase; 3PG dehydrogenase that catalyzes the first step in serine and glycine biosynthesis; also functions as an alpha-ketoglutarate reductase, converting alpha-ketoglutarate to D-2-hydroxyglutarate (D-2HG); localizes to the cytoplasm; SER33 has a paralog, SER3, that arose from the whole genome duplication
+S000031439	CDS					YIL074C		9	222490	221081	C		2011-02-03	1994-12-10	
+S000001335	ORF	Verified	YIL073C	SPO22	ZIP4	chromosome 9		9	225954	222937	C		2011-02-03	2003-09-27|1994-12-10	Meiosis-specific protein essential for chromosome synapsis; involved in completion of nuclear divisions during meiosis; induced early in meiosis
+S000030517	CDS					YIL073C		9	225809	222937	C		2011-02-03	2003-09-27	
+S000030516	CDS					YIL073C		9	225954	225900	C		2011-02-03	2003-09-27|1994-12-10	
+S000030518	intron					YIL073C		9	225899	225810	C		2011-02-03	2003-09-27	
+S000001334	ORF	Verified	YIL072W	HOP1		chromosome 9	L000000802	9	226602	228419	W	-59	2011-02-03	1994-12-10	Meiosis-specific protein required for chromosome synapsis; displays Red1p dependent localization to the unsynapsed axial-lateral elements of the synaptonemal complex; required for chiasma formation; in vitro, displays the ability to promote intra- and intermolecular synapsis between double-stranded DNA molecules and to fold DNA into rigid protein-DNA filaments
+S000030472	CDS					YIL072W		9	226602	228419	W		2011-02-03	1994-12-10	
+S000028793	ORF	Dubious	YIL071W-A			chromosome 9		9	228550	229026	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF PCI8/YIL071C
+S000033552	CDS					YIL071W-A		9	228550	229026	W		2011-02-03	2003-07-29	
+S000001333	ORF	Verified	YIL071C	PCI8	YIL071W|CSN11|YIH1	chromosome 9	S000007580	9	229994	228660	C		2011-02-03	1994-12-10	Possible shared subunit of Cop9 signalosome (CSN) and eIF3; binds eIF3b subunit Prt1p, has possible dual functions in transcriptional and translational control, contains a PCI (Proteasome-COP9 signalosome (CSN)-eIF3) domain
+S000030209	CDS					YIL071C		9	229994	228660	C		2011-02-03	1994-12-10	
+S000001332	ORF	Verified	YIL070C	MAM33		chromosome 9		9	231072	230272	C		2011-02-03	1994-12-10	Specific translational activator for the mitochondrial COX1 mRNA; acidic protein of the mitochondrial matrix; related to the human complement receptor gC1q-R
+S000037502	CDS					YIL070C		9	231072	230272	C		2011-02-03	1994-12-10	
+S000001331	ORF	Verified	YIL069C	RPS24B	eS24|ribosomal 40S subunit protein S24B|S24e|S24B|RPS24EB	chromosome 9	L000002711	9	232369	231553	C		2011-02-03	1994-12-10	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S24, no bacterial homolog; RPS24B has a paralog, RPS24A, that arose from the whole genome duplication
+S000036651	CDS					YIL069C		9	231957	231553	C		2011-02-03	1994-12-10	
+S000036650	CDS					YIL069C		9	232369	232367	C		2011-02-03	1994-12-10	
+S000036652	intron					YIL069C		9	232366	231958	C		2011-02-03	1994-12-10	
+S000028792	ORF	Dubious	YIL068W-A			chromosome 9		9	233013	233396	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF SEC6/YIL068C
+S000033551	CDS					YIL068W-A		9	233013	233396	W		2011-02-03	2003-07-29	
+S000001330	ORF	Verified	YIL068C	SEC6	SNARE-binding exocyst subunit SEC6	chromosome 9	L000001832	9	235474	233057	C		2011-02-03	1994-12-10	Essential 88kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion; anchors the assembled complex to sites of secretion; interacts with SM-like protein and SNARE regulator Sec1p and may recruit it to sites of secretion; binds to SNARE complexes binteracting with Sec9p
+S000036567	CDS					YIL068C		9	235474	233057	C		2011-02-03	1994-12-10	
+S000028791	ORF	Dubious	YIL066W-A			chromosome 9		9	237366	237809	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF YIL067C
+S000033550	CDS					YIL066W-A		9	237366	237809	W		2011-02-03	2003-07-29	
+S000001329	ORF	Uncharacterized	YIL067C			chromosome 9		9	237760	235724	C		2011-02-03	1994-12-10	Uncharacterized protein of unknown function
+S000035626	CDS					YIL067C		9	237760	235724	C		2011-02-03	1994-12-10	
+S000001328	ORF	Verified	YIL066C	RNR3	ribonucleotide-diphosphate reductase subunit RNR3|RIR3|DIN1	chromosome 9	L000001644|L000001657	9	240708	238099	C		2011-02-03	1994-12-10	Minor isoform of large subunit of ribonucleotide-diphosphate reductase; the RNR complex catalyzes rate-limiting step in dNTP synthesis, regulated by DNA replication and DNA damage checkpoint pathways via localization of small subunits; RNR3 has a paralog, RNR1, that arose from the whole genome duplication
+S000035554	CDS					YIL066C		9	240708	238099	C		2011-02-03	1994-12-10	
+S000001327	ORF	Verified	YIL065C	FIS1	MDV2	chromosome 9		9	241775	241308	C		2011-02-03	1994-12-10	Protein involved in mitochondrial fission and peroxisome abundance; may have a distinct role in tethering protein aggregates to mitochondria in order to retain them in the mother cell; required for localization of Dnm1p and Mdv1p during mitochondrial division; mediates ethanol-induced apoptosis and ethanol-induced mitochondrial fragmentation
+S000035474	CDS					YIL065C		9	241775	241308	C		2011-02-03	1994-12-10	
+S000001326	ORF	Verified	YIL064W	EFM4	SEE1	chromosome 9		9	241943	242716	W		2011-02-03	1994-12-10	Lysine methyltransferase; involved in the dimethylation of eEF1A (Tef1p/Tef2p) at lysine 316; sequence similarity to S-adenosylmethionine-dependent methyltransferases of the seven beta-strand family; role in vesicular transport
+S000035414	CDS					YIL064W		9	241943	242716	W		2011-02-03	1994-12-10	
+S000001325	ORF	Verified	YIL063C	YRB2		chromosome 9	L000002886	9	243744	242761	C		2011-02-03	1994-12-10	Protein of unknown function; involved in nuclear processes of the Ran-GTPase cycle; involved in nuclear protein export; contains Ran Binding Domain and FxFG repeats; interacts with Srm1p, GTP-Gsp1p, Rna1p and Crm1p; relocalizes to the cytosol in response to hypoxia; not essential for viability
+S000034323	CDS					YIL063C		9	243744	242761	C		2011-02-03	1994-12-10	
+S000001324	ORF	Verified	YIL062C	ARC15		chromosome 9	L000004032	9	244462	243998	C		2011-02-03	1994-12-10	Subunit of the ARP2/3 complex; ARP2/3 is required for the motility and integrity of cortical actin patches; has mRNA binding activity
+S000034193	CDS					YIL062C		9	244462	243998	C		2011-02-03	1994-12-10	
+S000001323	ORF	Verified	YIL061C	SNP1	U1 snRNP complex subunit SNP1|U1-70K	chromosome 9	L000001954	9	245559	244657	C		2011-02-03	1994-12-10	Component of U1 snRNP required for mRNA splicing via spliceosome; substrate of the arginine methyltransferase Hmt1p; may interact with poly(A) polymerase to regulate polyadenylation; homolog of human U1 70K protein; protein abundance increases in response to DNA replication stress
+S000033301	CDS					YIL061C		9	245559	244657	C		2011-02-03	1994-12-10	
+S000119034	ARS		ARS923		ARSIX-246|ARS913.5	chromosome 9		9	245756	245925			2014-11-18	2014-11-18|2006-10-03	Autonomously Replicating Sequence
+S000178115	ARS_consensus_sequence					ARS923		9	245880	245864	C		2014-11-18	2014-11-18	
+S000007012	long_terminal_repeat		YILWdelta2		YILCdelta2	chromosome 9		9	246220	246552	W		2011-02-03	1994-12-10|2007-04-03	Ty2 LTR
+S000001322	ORF	Verified	YIL060W			chromosome 9		9	246392	246826	W		2011-02-03	1994-12-10	Mitochondrial protein of unknown function; required for respiratory growth; mutant accumulates less glycogen than does wild type; null mutation results in a decrease in plasma membrane electron transport; YIL060W is not an essential gene
+S000033276	CDS					YIL060W		9	246392	246826	W		2011-02-03	1994-12-10	
+S000001320	ORF	Dubious	YIL058W			chromosome 9		9	246914	247198	W		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034459	CDS					YIL058W		9	246914	247198	W		2011-02-03	1994-12-10	
+S000001321	ORF	Dubious	YIL059C			chromosome 9		9	246915	246550	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YIL060W
+S000034503	CDS					YIL059C		9	246915	246550	C		2011-02-03	1994-12-10	
+S000118397	ARS		ARS914		ARSIX-248	chromosome 9		9	247705	247760			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178116	ARS_consensus_sequence					ARS914		9	247752	247736	C		2014-11-18	2014-11-18	
+S000001319	ORF	Verified	YIL057C	RGI2		chromosome 9		9	248396	247902	C		2011-02-03	1994-12-10	Protein of unknown function; involved in energy metabolism under respiratory conditions; expression induced under carbon limitation and repressed under high glucose; RGI2 has a paralog, RGI1, that arose from the whole genome duplication
+S000032397	CDS					YIL057C		9	248396	247902	C		2011-02-03	1994-12-10	
+S000130159	ARS		ARS915			chromosome 9		9	248396	248850			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000006735	tRNA_gene		tS(UGA)I	SUP17		chromosome 9	L000002191|L000003869	9	248850	248931	W	-53	2011-02-03	1994-12-10	Serine tRNA (tRNA-Ser), predicted by tRNAscan-SE analysis; can mutate to suppress ochre nonsense mutations
+S000034050	noncoding_exon					tS(UGA)I		9	248850	248931	W		2011-02-03	1994-12-10	
+S000001318	ORF	Verified	YIL056W	VHR1		chromosome 9		9	249991	251913	W		2011-02-03	1994-12-10	Transcriptional activator; required for the vitamin H-responsive element (VHRE) mediated induction of VHT1 (Vitamin H transporter) and BIO5 (biotin biosynthesis intermediate transporter) in response to low biotin concentrations; VHR1 has a paralog, VHR2, that arose from the whole genome duplication
+S000032356	CDS					YIL056W		9	249991	251913	W		2011-02-03	1994-12-10	
+S000001317	ORF	Uncharacterized	YIL055C			chromosome 9		9	253925	252042	C		2011-02-03	1994-12-10	Putative protein of unknown function
+S000031292	CDS					YIL055C		9	253925	252042	C		2011-02-03	1994-12-10	
+S000001316	ORF	Uncharacterized	YIL054W			chromosome 9		9	254543	254860	W		2011-02-03	1994-12-10	Protein of unknown function; expressed at both mRNA and protein levels
+S000031254	CDS					YIL054W		9	254543	254860	W		2011-02-03	1994-12-10	
+S000001315	ORF	Verified	YIL053W	GPP1	RHR2|glycerol-1-phosphatase RHR2	chromosome 9	L000003988	9	255115	255867	W		2011-02-03	1994-12-10|2006-01-24	Constitutively expressed DL-glycerol-3-phosphate phosphatase; also known as glycerol-1-phosphatase; involved in glycerol biosynthesis, induced in response to both anaerobic and osmotic stress; GPP1 has a paralog, GPP2, that arose from the whole genome duplication
+S000031111	CDS					YIL053W		9	255115	255867	W		2011-02-03	1994-12-10|2006-01-24	
+S000001314	ORF	Verified	YIL052C	RPL34B	eL34|ribosomal 60S subunit protein L34B|L34e|L34B	chromosome 9	L000004466	9	257063	256226	C		2011-02-03	1994-12-10	Ribosomal 60S subunit protein L34B; homologous to mammalian ribosomal protein L34, no bacterial homolog; RPL34B has a paralog, RPL34A, that arose from the whole genome duplication
+S000030947	CDS					YIL052C		9	256554	256226	C		2011-02-03	1994-12-10	
+S000030946	CDS					YIL052C		9	257063	257027	C		2011-02-03	1994-12-10	
+S000030948	intron					YIL052C		9	257026	256555	C		2011-02-03	1994-12-10	
+S000001313	ORF	Verified	YIL051C	MMF1	isoleucine biosynthesis protein MMF1|IBM1	chromosome 9	L000004449	9	258280	257843	C		2011-02-03	1994-12-10	Mitochondrial protein required for transamination of isoleucine; but not of valine or leucine; may regulate specificity of branched-chain transaminases Bat1p and Bat2p; induction of expression in response to stress is mediated by a Hog1p-regulated antisense RNA and gene looping; interacts genetically with mitochondrial ribosomal protein genes; MMF1 has a paralog, HMF1, that arose from the whole genome duplication
+S000029935	CDS					YIL051C		9	258280	257843	C		2011-02-03	1994-12-10	
+S000001312	ORF	Verified	YIL050W	PCL7		chromosome 9	L000004039	9	258913	259770	W		2011-02-03	1994-12-10	Pho85p cyclin of the Pho80p subfamily; forms a functional kinase complex with Pho85p which phosphorylates Mmr1p and is regulated by Pho81p; involved in glycogen metabolism, expression is cell-cycle regulated; PCL7 has a paralog, PCL6, that arose from the whole genome duplication
+S000029899	CDS					YIL050W		9	258913	259770	W		2011-02-03	1994-12-10	
+S000001311	ORF	Verified	YIL049W	DFG10	putative polyprenol reductase	chromosome 9	L000004073	9	260158	260919	W		2011-02-03	1994-12-10	Probable polyprenol reductase; catalyzes conversion of polyprenol to dolichol, the precursor for N-glycosylation; involved in filamentous growth; mutations in human homolog SRD5A3 confer CDG (Congenital Disorders of Glycosylation); human SRD5A3 can complement yeast null mutant
+S000030228	CDS					YIL049W		9	260158	260919	W		2011-02-03	1994-12-10	
+S000001310	ORF	Verified	YIL048W	NEO1	putative aminophospholipid-translocating P4-type ATPase NEO1	chromosome 9	L000004112	9	261437	264892	W		2011-02-03	1994-12-10	Phospholipid translocase (flippase), role in phospholipid asymmetry of plasma membrane; involved in endocytosis, vacuolar biogenesis and Golgi to ER vesicle-mediated transport; localizes to endosomes and the Golgi apparatus
+S000030109	CDS					YIL048W		9	261437	264892	W		2011-02-03	1994-12-10	
+S000028790	ORF	Dubious	YIL047C-A			chromosome 9		9	265467	265099	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF SYG1/YIL047C
+S000033549	CDS					YIL047C-A		9	265467	265099	C		2011-02-03	2003-07-29	
+S000001309	ORF	Verified	YIL047C	SYG1		chromosome 9	L000002256	9	267823	265115	C		2011-02-03	1994-12-10	Plasma membrane protein of unknown function; truncation and overexpression suppresses lethality of G-alpha protein deficiency
+S000036323	CDS					YIL047C		9	267823	265115	C		2011-02-03	1994-12-10	
+S000028836	ORF	Uncharacterized	YIL046W-A			chromosome 9		9	268309	268473	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034486	CDS					YIL046W-A		9	268309	268473	W		2011-02-03	2003-07-29	
+S000001308	ORF	Verified	YIL046W	MET30	ubiquitin-binding SDF ubiquitin ligase complex subunit MET30|ZRG11	chromosome 9	L000001093	9	268651	270573	W		2011-02-03	1994-12-10	F-box protein containing five copies of the WD40 motif; controls cell cycle function, sulfur metabolism, and methionine biosynthesis as part of the ubiquitin ligase complex; interacts with and regulates Met4p, localizes within the nucleus; dissociation of Met30p from SCF complex in response to cadmium stress is regulated by Cdc48p
+S000036284	CDS					YIL046W		9	268651	270573	W		2011-02-03	1994-12-10	
+S000001307	ORF	Verified	YIL045W	PIG2	putative protein phosphatase regulator PIG2	chromosome 9	L000001437	9	271161	272777	W		2011-02-03	1994-12-10	Putative type-1 protein phosphatase targeting subunit; tethers Glc7p type-1 protein phosphatase to Gsy2p glycogen synthase; PIG2 has a paralog, GIP2, that arose from the whole genome duplication
+S000036173	CDS					YIL045W		9	271161	272777	W		2011-02-03	1994-12-10	
+S000001306	ORF	Verified	YIL044C	AGE2	SAT2	chromosome 9	S000007503	9	273846	272950	C		2011-02-03	1994-12-10	ADP-ribosylation factor (ARF) GTPase activating protein (GAP) effector; involved in Trans-Golgi-Network (TGN) transport; contains C2C2H2 cysteine/histidine motif
+S000035184	CDS					YIL044C		9	273846	272950	C		2011-02-03	1994-12-10	
+S000001305	ORF	Verified	YIL043C	CBR1	CBR5	chromosome 9	L000000229	9	274926	274072	C		2011-02-03	1994-12-10|2006-01-23	Cytochrome b reductase; not essential for viability; also detected in mitochondria; mutation in conserved NADH binding domain of the human ortholog results in type I methemoglobinemia
+S000035022	CDS					YIL043C		9	274926	274072	C		2011-02-03	1994-12-10|2006-01-23	
+S000001304	ORF	Verified	YIL042C	PKP1	protein kinase PKP1	chromosome 9		9	276292	275108	C		2011-02-03	1994-12-10	Mitochondrial protein kinase; involved in negative regulation of pyruvate dehydrogenase complex activity by phosphorylating the ser-133 residue of the Pda1p subunit; acts in concert with kinase Pkp2p and phosphatases Ptc5p and Ptc6p
+S000034870	CDS					YIL042C		9	276292	275108	C		2011-02-03	1994-12-10	
+S000001303	ORF	Verified	YIL041W	GVP36		chromosome 9		9	276525	277505	W		2011-02-03	1994-12-10	BAR domain protein that localizes to early and late Golgi vesicles; required for adaptation to varying nutrient concentrations, fluid-phase endocytosis, polarization of the actin cytoskeleton, and vacuole biogenesis
+S000034047	CDS					YIL041W		9	276525	277505	W		2011-02-03	1994-12-10	
+S000001302	ORF	Verified	YIL040W	APQ12		chromosome 9		9	277723	278139	W		2011-02-03	1994-12-10	Nuclear envelope/ER integral membrane protein; interacts and functions with Brr6p and Brl1p in lipid homeostasis; mutants are defective in nuclear pore complex biogenesis, nuclear envelope morphology, mRNA export from the nucleus and are sensitive to sterol biosynthesis inhibitors and membrane fluidizing agents; exhibits synthetic lethal genetic interactions with genes involved in lipid metabolism
+S000033887	CDS					YIL040W		9	277723	278139	W		2011-02-03	1994-12-10	
+S000001301	ORF	Verified	YIL039W	TED1		chromosome 9		9	278426	279847	W		2011-02-03	1994-12-10	GPI-glycan remodelase; conserved phosphoesterase domain-containing protein; acts together with Emp24p/Erv25p in cargo exit from the ER; functional ortholog of mammalian GPI-glycan remodelase PGAP5; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
+S000035327	CDS					YIL039W		9	278426	279847	W		2011-02-03	1994-12-10	
+S000001300	ORF	Verified	YIL038C	NOT3	CCR4-NOT core subunit NOT3	chromosome 9	L000001265	9	282652	280142	C		2011-02-03	1994-12-10	Component of the CCR4-NOT core complex, involved in mRNA decapping; involved in transcription initiation and elongation and in mRNA degradation; conserved lysine in human homolog of Not3p and Not5p is mutated in cancers
+S000034315	CDS					YIL038C		9	282652	280142	C		2011-02-03	1994-12-10	
+S000001299	ORF	Verified	YIL037C	PRM2	pheromone-regulated protein PRM2	chromosome 9		9	284999	283029	C		2011-02-03	1994-12-10	Pheromone-regulated protein; predicted to have 4 transmembrane segments and a coiled coil domain; regulated by Ste12p; required for efficient nuclear fusion
+S000034252	CDS					YIL037C		9	284999	283029	C		2011-02-03	1994-12-10	
+S000001298	ORF	Verified	YIL036W	CST6	SHF1|ACA2	chromosome 9	L000002995	9	285666	287429	W		2011-02-03	1994-12-10	Basic leucine zipper (bZIP) transcription factor from ATF/CREB family involved in stress-responsive regulatory network; mediates transcriptional activation of NCE103 in response to low CO2 levels; proposed to be a regulator of oleate responsive genes; involved in utilization of non-optimal carbon sources and chromosome stability; relocalizes to the cytosol in response to hypoxia; CST6 has a paralog, ACA1, that arose from the whole genome duplication
+S000034215	CDS					YIL036W		9	285666	287429	W		2011-02-03	1994-12-10	
+S000001297	ORF	Verified	YIL035C	CKA1	casein kinase 2 catalytic subunit CKA1	chromosome 9	L000000343	9	288908	287790	C	-29	2011-02-03	1994-12-10	Alpha catalytic subunit of casein kinase 2 (CK2); a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerases; regulates Fkh1p-mediated donor preference during mating-type switching
+S000032136	CDS					YIL035C		9	288908	287790	C		2011-02-03	1994-12-10	
+S000001296	ORF	Verified	YIL034C	CAP2	F-actin-capping protein subunit beta	chromosome 9	L000000215	9	290089	289226	C	-28	2011-02-03	1994-12-10	Beta subunit of the capping protein heterodimer (Cap1p and Cap2p); capping protein (CP) binds to the barbed ends of actin filaments preventing further polymerization; localized predominantly to cortical actin patches; protein increases in abundance and relocalizes from bud neck to plasma membrane upon DNA replication stress
+S000032026	CDS					YIL034C		9	290089	289226	C		2011-02-03	1994-12-10	
+S000001295	ORF	Verified	YIL033C	BCY1	cAMP-dependent protein kinase regulatory subunit BCY1|SRA1	chromosome 9	L000002044	9	291669	290419	C	-28	2011-02-03	1994-12-10	Regulatory subunit of the cyclic AMP-dependent protein kinase (PKA); PKA is a component of a signaling pathway that controls a variety of cellular processes, including metabolism, cell cycle, stress response, stationary phase, and sporulation
+S000031897	CDS					YIL033C		9	291669	290419	C		2011-02-03	1994-12-10	
+S000001294	ORF	Dubious	YIL032C			chromosome 9		9	292317	291961	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030897	CDS					YIL032C		9	292317	291961	C		2011-02-03	1994-12-10	
+S000001293	ORF	Verified	YIL031W	ULP2	SUMO protease ULP2|SMT4	chromosome 9	L000001939	9	292633	295737	W		2011-02-03	1994-12-10	Peptidase that deconjugates Smt3/SUMO-1 peptides from proteins; plays a role in chromosome cohesion at centromeric regions and recovery from checkpoint arrest induced by DNA damage or DNA replication defects; potential Cdc28p substrate; human homolog PML implicated in promyelocytic leukemia can partially complement yeast null mutant
+S000030862	CDS					YIL031W		9	292633	295737	W		2011-02-03	1994-12-10	
+S000028789	ORF	Dubious	YIL030W-A			chromosome 9		9	295565	295903	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps ORF ULP2/YIL031W
+S000033536	CDS					YIL030W-A		9	295565	295903	W		2011-02-03	2003-07-29	
+S000028788	ORF	Dubious	YIL029W-A			chromosome 9		9	299735	300106	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF SSM4/YIL030C
+S000033533	CDS					YIL029W-A		9	299735	300106	W		2011-02-03	2003-07-29	
+S000001292	ORF	Verified	YIL030C	SSM4	E3 ubiquitin-protein ligase SSM4|KIS3|DOA10	chromosome 9	L000002087	9	300009	296050	C		2011-02-03	1994-12-10	Membrane-embedded ubiquitin-protein ligase; ER and inner nuclear membrane localized RING-CH domain E3 ligase involved in ER-associated protein degradation (ERAD); targets misfolded cytosolic/nucleoplasmic domains of soluble and membrane embedded proteins (ERAD-C) and a transmembrane domain containing substrate (ERAD-M), Sbh2p; C-terminal element (CTE), conserved in human ortholog MARCH10/TEB4, determines substrate selectivity
+S000030668	CDS					YIL030C		9	300009	296050	C		2011-02-03	1994-12-10	
+S000006624	tRNA_gene		tK(CUU)I			chromosome 9	L000003874	9	300300	300228	C		2011-02-03	1994-12-10|2011-02-03	Lysine tRNA (tRNA-Lys), predicted by tRNAscan-SE analysis; a small portion is imported into mitochondria via interaction with mt lysyl-tRNA synthetase Msk1p and is necessary to decode AAG codons at high temperature, when base modification of mt-encoded tRNA-Lys is reduced
+S000036023	noncoding_exon					tK(CUU)I		9	300300	300228	C		2011-02-03	1994-12-10|2011-02-03	
+S000007013	long_terminal_repeat		YILCdelta3			chromosome 9		9	300727	300409	C		2011-02-03	1994-12-10	Ty1 LTR
+S000001291	ORF	Uncharacterized	YIL029C			chromosome 9		9	301257	300829	C		2011-02-03	1994-12-10	Putative protein of unknown function; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO); YIL029C has a paralog, YPR071W, that arose from a single-locus duplication
+S000031121	CDS					YIL029C		9	301257	300829	C		2011-02-03	1994-12-10	
+S000001290	ORF	Dubious	YIL028W			chromosome 9		9	302100	302498	W		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000031076	CDS					YIL028W		9	302100	302498	W		2011-02-03	1994-12-10	
+S000001289	ORF	Verified	YIL027C	EMC5	KRE27	chromosome 9		9	304104	303679	C		2011-02-03	1994-12-10	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response, and also shows K1 killer toxin resistance; homologous to worm B0334.15/EMC-5, fly CG15168, human MMGT
+S000030935	CDS					YIL027C		9	304104	303679	C		2011-02-03	1994-12-10	
+S000001288	ORF	Verified	YIL026C	IRR1	SCC3	chromosome 9	L000003590	9	307929	304477	C		2011-02-03	1994-12-10	Subunit of the cohesin complex; which is required for sister chromatid cohesion during mitosis and meiosis and interacts with centromeres and chromosome arms; relocalizes to the cytosol in response to hypoxia; essential for viability
+S000029925	CDS					YIL026C		9	307929	304477	C		2011-02-03	1994-12-10	
+S000001287	ORF	Dubious	YIL025C			chromosome 9		9	308575	308201	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000029834	CDS					YIL025C		9	308575	308201	C		2011-02-03	1994-12-10	
+S000001286	ORF	Uncharacterized	YIL024C			chromosome 9		9	309171	308602	C		2011-02-03	1994-12-10	Putative protein of unknown function; non-essential gene; expression directly regulated by the metabolic and meiotic transcriptional regulator Ume6p
+S000037819	CDS					YIL024C		9	309171	308602	C		2011-02-03	1994-12-10	
+S000001285	ORF	Verified	YIL023C	YKE4	Zn(2+) transporter YKE4	chromosome 9		9	310426	309386	C		2011-02-03	1994-12-10	Zinc transporter; localizes to the ER; null mutant is sensitive to calcofluor white, leads to zinc accumulation in cytosol; ortholog of the mouse KE4 and member of the ZIP (ZRT, IRT-like Protein) family
+S000035957	CDS					YIL023C		9	310426	309386	C		2011-02-03	1994-12-10	
+S000001284	ORF	Verified	YIL022W	TIM44	protein translocase subunit TIM44|MPI1|MIM44|ISP45	chromosome 9	L000001138	9	311165	312460	W		2011-02-03	1994-12-10	Essential component of the TIM23 complex; tethers the import motor and regulatory factors (PAM complex) to the translocation channel (Tim23p-Tim17p core complex); TIM23 complex is short for the translocase of the inner mitochondrial membrane
+S000035916	CDS					YIL022W		9	311165	312460	W		2011-02-03	1994-12-10	
+S000001283	ORF	Verified	YIL021W	RPB3	DNA-directed RNA polymerase II core subunit RPB3|B44	chromosome 9	L000001677|L000001589	9	312905	313861	W	-17	2011-02-03	1994-12-10	RNA polymerase II third largest subunit B44; part of central core; similar to prokaryotic alpha subunit
+S000035800	CDS					YIL021W		9	312905	313861	W		2011-02-03	1994-12-10	
+S000028656	ORF	Dubious	YIL021C-A			chromosome 9		9	313468	313199	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps verified gene RPB3/YIL021W; identified by gene-trapping, expression analysis, and genome-wide homology searching
+S000032459	CDS					YIL021C-A		9	313468	313199	C		2011-02-03	2003-07-29	
+S000130160	ARS		ARS918			chromosome 9		9	313861	314035			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000028787	ORF	Dubious	YIL020C-A			chromosome 9		9	314051	313713	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps origin of replication ARS918, partially overlaps ORF RPB3/YIL021W
+S000033532	CDS					YIL020C-A		9	314051	313713	C		2011-02-03	2003-07-29	
+S000001282	ORF	Verified	YIL020C	HIS6	1-(5-phosphoribosyl)-5- ((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase HIS6	chromosome 9	L000000783	9	314820	314035	C	-17	2011-02-03	1994-12-10	Enzyme that catalyzes the fourth step in the histidine pathway; Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts
+S000034720	CDS					YIL020C		9	314820	314035	C		2011-02-03	1994-12-10	
+S000001281	ORF	Verified	YIL019W	FAF1		chromosome 9		9	315093	316133	W		2011-02-03	1994-12-10	Protein required for pre-rRNA processing; also required for 40S ribosomal subunit assembly
+S000036117	CDS					YIL019W		9	315093	316133	W		2011-02-03	1994-12-10	
+S000001280	ORF	Verified	YIL018W	RPL2B	uL2|ribosomal 60S subunit protein L2B|L2|rp8|YL6|L5B|L2B|LOT2|RPL5A	chromosome 9	L000001707	9	316768	317932	W		2011-02-03	1994-12-10	Ribosomal 60S subunit protein L2B; homologous to mammalian ribosomal protein L2 and bacterial L2; RPL2B has a paralog, RPL2A, that arose from the whole genome duplication; expression is upregulated at low temperatures
+S000036024	CDS					YIL018W		9	316768	316771	W		2011-02-03	1994-12-10	
+S000036025	CDS					YIL018W		9	317172	317932	W		2011-02-03	1994-12-10	
+S000036026	intron					YIL018W		9	316772	317171	W		2011-02-03	1994-12-10	
+S000001279	ORF	Verified	YIL017C	VID28	glucose-induced degradation complex subunit VID28|YIL017W|GID5	chromosome 9		9	320965	318200	C		2011-02-03	1994-12-10	GID Complex subunit, serves as adaptor for regulatory subunit Vid24p; protein involved in proteasome-dependent catabolite degradation of fructose-1,6-bisphosphatase (FBPase); localized to the nucleus and the cytoplasm
+S000035053	CDS					YIL017C		9	320965	318200	C		2011-02-03	1994-12-10	
+S000001278	ORF	Verified	YIL016W	SNL1		chromosome 9	L000004403	9	321454	321933	W		2011-02-03	1994-12-10	Ribosome-associated protein; proposed to act in protein synthesis and nuclear pore complex biogenesis and maintenance as well as protein folding; has similarity to the mammalian BAG-1 protein
+S000035003	CDS					YIL016W		9	321454	321933	W		2011-02-03	1994-12-10	
+S000001277	ORF	Verified	YIL015W	BAR1	aspartyl protease BAR1|SST1	chromosome 9	L000000160	9	322342	324105	W	-12	2011-02-03	1994-12-10	Aspartyl protease; secreted into the periplasmic space of mating type a cell; helps cells find mating partners; cleaves and inactivates alpha factor allowing cells to recover from alpha-factor-induced cell cycle arrest
+S000034859	CDS					YIL015W		9	322342	324105	W		2011-02-03	1994-12-10	
+S000006534	tRNA_gene		tD(GUC)I1			chromosome 9	L000003873	9	324374	324303	C		2011-02-03	1994-12-10	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000030656	noncoding_exon					tD(GUC)I1		9	324374	324303	C		2011-02-03	1994-12-10	
+S000007019	long_terminal_repeat		YILWsigma3			chromosome 9		9	324391	324734	W		2011-02-03	1994-12-10	Ty3 LTR
+S000007016	long_terminal_repeat		YILWdelta4			chromosome 9		9	324831	325164	W		2011-02-03	1994-12-10	Ty1 LTR
+S000003536	ORF	Uncharacterized	YIL014C-A		YIL015C-A	chromosome 9		9	325526	325212	C		2011-02-03	1994-12-10	Putative protein of unknown function
+S000035773	CDS					YIL014C-A		9	325526	325212	C		2011-02-03	1994-12-10	
+S000006742	tRNA_gene		tT(AGU)I2			chromosome 9	L000003870	9	325748	325820	W		2011-02-03	1994-12-10	Threonine tRNA (tRNA-Thr), predicted by tRNAscan-SE analysis
+S000036347	noncoding_exon					tT(AGU)I2		9	325748	325820	W		2011-02-03	1994-12-10	
+S000001276	ORF	Verified	YIL014W	MNT3	alpha-1,3-mannosyltransferase MNT3	chromosome 9		9	326103	327995	W		2011-02-03	1994-12-10	Alpha-1,3-mannosyltransferase; adds the fourth and fifth alpha-1,3-linked mannose residues to O-linked glycans during protein O-glycosylation
+S000033990	CDS					YIL014W		9	326103	327995	W		2011-02-03	1994-12-10	
+S000001275	ORF	Verified	YIL013C	PDR11	ATP-binding cassette multidrug transporter PDR11	chromosome 9	L000003163	9	332442	328207	C		2011-02-03	1994-12-10	ATP-binding cassette (ABC) transporter; multidrug transporter involved in multiple drug resistance; mediates sterol uptake when sterol biosynthesis is compromised; regulated by Pdr1p; required for anaerobic growth; PDR11 has a paralog, AUS1, that arose from the whole genome duplication
+S000033824	CDS					YIL013C		9	332442	328207	C		2011-02-03	1994-12-10	
+S000001274	ORF	Dubious	YIL012W			chromosome 9		9	333011	333352	W		2011-02-03	1994-12-10|2011-02-03	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033748	CDS					YIL012W		9	333011	333352	W		2011-02-03	1994-12-10|2011-02-03	
+S000001273	ORF	Verified	YIL011W	TIR3	YIB1	chromosome 9		9	333727	334536	W		2011-02-03	1994-12-10	Cell wall mannoprotein; member of Srp1p/Tip1p family of serine-alanine-rich proteins; expressed under anaerobic conditions and required for anaerobic growth; TIR3 has a paralog, TIR2, that arose from the whole genome duplication
+S000033633	CDS					YIL011W		9	333727	334536	W		2011-02-03	1994-12-10	
+S000001272	ORF	Verified	YIL010W	DOT5	thioredoxin peroxidase DOT5	chromosome 9	L000004392	9	334882	335529	W		2011-02-03	1994-12-10	Nuclear thiol peroxidase; functions as an alkyl-hydroperoxide reductase during post-diauxic growth
+S000030341	CDS					YIL010W		9	334882	335529	W		2011-02-03	1994-12-10	
+S000006432	ORF	Verified	YIL009C-A	EST3	telomerase subunit EST3	chromosome 9	L000004271	9	336212	335666	C		2011-02-03	1997-10-20	Component of the telomerase holoenzyme; involved in telomere replication; synthesis of the full-length protein results from a programmed +1 ribosomal frameshift
+S000031928	CDS					YIL009C-A		9	335935	335666	C		2011-02-03	1997-10-20	
+S000031927	CDS					YIL009C-A		9	336212	335937	C		2011-02-03	1997-10-20	
+S000031929	plus_1_translational_frameshift					YIL009C-A		9	335936	335936	C		2011-02-03	1997-10-20	
+S000006535	tRNA_gene		tD(GUC)I2			chromosome 9	L000003872	9	336420	336349	C		2011-02-03	1994-12-10	Aspartate tRNA (tRNA-Asp), predicted by tRNAscan-SE analysis
+S000030659	noncoding_exon					tD(GUC)I2		9	336420	336349	C		2011-02-03	1994-12-10	
+S000007014	long_terminal_repeat		YILCdelta5			chromosome 9		9	336897	336708	C		2011-02-03	1994-12-10	Ty1 LTR
+S000001271	ORF	Verified	YIL009W	FAA3	long-chain fatty acid-CoA ligase FAA3	chromosome 9	L000000596	9	339344	341428	W		2011-02-03	1994-12-10	Long chain fatty acyl-CoA synthetase; activates imported fatty acids with a preference for C16:0-C18:0 chain lengths; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery
+S000030759	CDS					YIL009W		9	339344	341428	W		2011-02-03	1994-12-10	
+S000118398	ARS		ARS919		ARSIX-342	chromosome 9		9	341976	342045			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000001270	ORF	Verified	YIL008W	URM1	ubiquitin-related modifier URM1	chromosome 9	S000007535	9	342536	342835	W		2011-02-03	1994-12-10	Ubiquitin-like protein involved in thiolation of cytoplasmic tRNAs; receives sulfur from the E1-like enzyme Uba4p and transfers it to tRNA; also functions as a protein tag with roles in nutrient sensing and oxidative stress response
+S000030686	CDS					YIL008W		9	342536	342835	W		2011-02-03	1994-12-10	
+S000001269	ORF	Verified	YIL007C	NAS2		chromosome 9		9	343656	342994	C		2011-02-03	1994-12-10	Evolutionarily conserved 19S regulatory particle assembly-chaperone; involved in assembly of the base subcomplex of the 19S proteasomal regulatory particle (RP); non-essential gene; interacts with Rpn4p; protein abundance increases in response to DNA replication stress; ortholog of human p27
+S000030556	CDS					YIL007C		9	343656	342994	C		2011-02-03	1994-12-10	
+S000001268	ORF	Verified	YIL006W	YIA6	NAD+ transporter|NDT1	chromosome 9		9	344062	345183	W		2011-02-03	1994-12-10	Mitochondrial NAD+ transporter; involved in the transport of NAD+ into the mitochondria (see also YEA6); member of the mitochondrial carrier subfamily; disputed role as a pyruvate transporter; has putative mouse and human orthologs; YIA6 has a paralog, YEA6, that arose from the whole genome duplication
+S000030529	CDS					YIL006W		9	344062	345183	W		2011-02-03	1994-12-10	
+S000001267	ORF	Verified	YIL005W	EPS1	protein disulfide isomerase EPS1	chromosome 9		9	345692	347797	W		2011-02-03	1994-12-10	ER protein with chaperone and co-chaperone activity; involved in retention of resident ER proteins; has a role in recognizing proteins targeted for ER-associated degradation (ERAD), member of the protein disulfide isomerase family
+S000030455	CDS					YIL005W		9	345692	347797	W		2011-02-03	1994-12-10	
+S000001266	ORF	Verified	YIL004C	BET1	SLY12	chromosome 9	L000000171	9	348505	347946	C		2011-02-03	1994-12-10	Type II membrane protein required for vesicular transport; required for vesicular transport between the endoplasmic reticulum and Golgi complex; v-SNARE with similarity to synaptobrevins
+S000037580	CDS					YIL004C		9	348363	347946	C		2011-02-03	1994-12-10	
+S000037579	CDS					YIL004C		9	348505	348495	C		2011-02-03	1994-12-10	
+S000037581	intron					YIL004C		9	348494	348364	C		2011-02-03	1994-12-10	
+S000001265	ORF	Verified	YIL003W	CFD1	iron-sulfur cluster assembly protein CFD1|DRE3	chromosome 9		9	349122	350003	W		2011-02-03	1994-12-10	Highly conserved iron-sulfur cluster binding protein; localized in the cytoplasm; forms a complex with Nbp35p that is involved in iron-sulfur protein assembly in the cytosol
+S000037556	CDS					YIL003W		9	349122	350003	W		2011-02-03	1994-12-10	
+S000028835	ORF	Uncharacterized	YIL002W-A			chromosome 9		9	350301	350510	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034485	CDS					YIL002W-A		9	350301	350510	W		2011-02-03	2003-07-29	
+S000001264	ORF	Verified	YIL002C	INP51	phosphoinositide 5-phosphatase INP51|SJL1	chromosome 9	L000003319	9	353431	350591	C		2011-02-03	1994-12-10	Phosphatidylinositol 4,5-bisphosphate 5-phosphatase; synaptojanin-like protein with an N-terminal Sac1 domain, plays a role in phosphatidylinositol 4,5-bisphosphate homeostasis and in endocytosis; null mutation confers cold-tolerant growth
+S000032035	CDS					YIL002C		9	353431	350591	C		2011-02-03	1994-12-10	
+S000001263	ORF	Uncharacterized	YIL001W			chromosome 9		9	353940	355481	W		2011-02-03	1994-12-10	Putative protein of unknown function; contains a BTB/POZ domain which generally function in protein interactions; deletion slightly improved competitive fitness in rich media; GFP-tagged protein is localized to the cytoplasm
+S000031993	CDS					YIL001W		9	353940	355481	W		2011-02-03	1994-12-10	
+S000006470	centromere		CEN9	CEN9		chromosome 9	L000000302	9	355629	355745	W	0	2011-02-03	1994-12-10|2006-05-09	Chromosome IX centromere
+S000077275	centromere_DNA_Element_I					CEN9		9	355629	355638	W		2011-02-03	2004-10-05	
+S000077276	centromere_DNA_Element_II					CEN9		9	355639	355720	W		2011-02-03	2004-10-05	
+S000077277	centromere_DNA_Element_III					CEN9		9	355721	355745	W		2011-02-03	2004-10-05	
+S000001440	ORF	Verified	YIR001C	SGN1	RBP29|RBP1	chromosome 9		9	356895	356143	C		2011-02-03	1994-12-10	Cytoplasmic RNA-binding protein; contains an RNA recognition motif (RRM); may have a role in mRNA translation, as suggested by genetic interactions with genes encoding proteins involved in translational initiation
+S000032594	CDS					YIR001C		9	356895	356143	C		2011-02-03	1994-12-10	
+S000118399	ARS		ARS920		ARSIX-357	chromosome 9		9	357160	357396			2011-02-03	2006-08-30	Autonomously Replicating Sequence
+S000178117	ARS_consensus_sequence					ARS920		9	357222	357238	W		2014-11-18	2014-11-18	
+S000001441	ORF	Verified	YIR002C	MPH1	3'-5' DNA helicase	chromosome 9		9	360396	357415	C		2011-02-03	1994-12-10	3'-5' DNA helicase involved in error-free bypass of DNA lesions; binds flap DNA, stimulates activity of Rad27p and Dna2p; prevents crossovers between ectopic sequences by removing substrates for Mus81-Mms4 or Rad1-Rad10 cleavage; homolog of human FANCM Fanconi anemia protein that is involved in stabilizing and remodeling blocked replication forks; member of SF2 DExD/H superfamily of helicases; nonsense or missense mutations in FANCM can make people more likely to get cancer
+S000032716	CDS					YIR002C		9	360396	357415	C		2011-02-03	1994-12-10	
+S000001442	ORF	Verified	YIR003W	AIM21		chromosome 9		9	360885	362924	W		2011-02-03	1994-12-10	Protein of unknown function; involved in mitochondrial migration along actin filament; may interact with ribosomes; GFP-fusion protein colocalizes with Sac1p to the actin cytoskeleton
+S000032876	CDS					YIR003W		9	360885	362924	W		2011-02-03	1994-12-10	
+S000130161	ARS		ARS921			chromosome 9		9	362924	363221			2011-02-03	2009-05-07	Putative replication origin; identified in multiple array studies, not yet confirmed by plasmid-based assay
+S000001443	ORF	Verified	YIR004W	DJP1	PAS22|ICS1	chromosome 9	L000003966	9	363221	364519	W		2011-02-03	1994-12-10	Cytosolic J-domain-containing protein; required for peroxisomal protein import and involved in peroxisome assembly; facilitates import of Mim1p and Mim2p into the mitochondrial outer membrane; homologous to E. coli DnaJ
+S000033586	CDS					YIR004W		9	363221	364519	W		2011-02-03	1994-12-10	
+S000001444	ORF	Verified	YIR005W	IST3	U2 snRNP complex subunit IST3|SNU17	chromosome 9		9	364889	365335	W		2011-02-03	1994-12-10	Component of the U2 snRNP; required for the first catalytic step of splicing and for spliceosomal assembly; interacts with Rds3p and is required for Mer1p-activated splicing; diploid mutants have a specific defect in MATa1 pre-mRNA splicing which leads to haploid gene expression in diploids
+S000033658	CDS					YIR005W		9	364889	365335	W		2011-02-03	1994-12-10	
+S000001445	ORF	Verified	YIR006C	PAN1	DIM2|MIP3|MDP3	chromosome 9	L000001335	9	369908	365466	C		2011-02-03	1994-12-10	Part of actin cytoskeleton-regulatory complex Pan1p-Sla1p-End3p; associates with actin patches on cell cortex; promotes protein-protein interactions essential for endocytosis; binds to and activates Arp2/3 complex in vitro; phosphorylation of Thr-1225 is regulated by MAPK Hog1p in response to osmotic stress; previously thought to be a subunit of poly(A) ribonuclease
+S000033724	CDS					YIR006C		9	369908	365466	C		2011-02-03	1994-12-10	
+S000006556	tRNA_gene		tE(UUC)I			chromosome 9	L000003871	9	370417	370488	W		2011-02-03	1994-12-10	Glutamate tRNA (tRNA-Glu), predicted by tRNAscan-SE analysis; thiolation of uridine at wobble position (34) requires Ncs6p
+S000035987	noncoding_exon					tE(UUC)I		9	370417	370488	W		2011-02-03	1994-12-10	
+S000001446	ORF	Verified	YIR007W	EGH1	hydrolase	chromosome 9		9	370704	372998	W		2011-02-03	1994-12-10	Steryl-beta-glucosidase with broad specificity for aglycones; has a role in ergosteryl-beta-glucoside catabolism; required for normal vacuolar morphology; has similarity to the C. neoformans ergosteryl-beta-glucosidase EGCrP2; localizes to the cytosol
+S000034669	CDS					YIR007W		9	370704	372998	W		2011-02-03	1994-12-10	
+S000001447	ORF	Verified	YIR008C	PRI1	DNA primase subunit PRI1	chromosome 9	L000001489	9	374306	373077	C		2011-02-03	1994-12-10	Subunit of DNA primase; DNA primase is required for DNA synthesis and double-strand break repair
+S000034753	CDS					YIR008C		9	374306	373077	C		2011-02-03	1994-12-10	
+S000001448	ORF	Verified	YIR009W	MSL1	U2 snRNP complex subunit MSL1|YIB9|YIB9w	chromosome 9	L000004502	9	374525	374860	W		2011-02-03	1994-12-10	U2B component of U2 snRNP; involved in splicing, binds the U2 snRNA stem-loop IV in vitro but requires association of Lea1p for in vivo binding; does not contain the conserved C-terminal RNA binding domain found in other family members
+S000034977	CDS					YIR009W		9	374525	374860	W		2011-02-03	1994-12-10	
+S000001449	ORF	Verified	YIR010W	DSN1	MIND complex subunit DSN1	chromosome 9	L000004645	9	375431	377161	W		2011-02-03	1994-12-10	Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; Dsn1p phosphorylation promotes interaction between outer and inner kinetochore proteins; kinetochore receptor for monopolin, via interaction with subunit Csm1p; essential for meiotic but not mitotic chromosome segregation; MIND complex consists of Mtw1p, Nnf1p, Nsl1p and Dsn1p; modified by sumoylation; phosphorylated by monopolin subunit Hrr25p
+S000035994	CDS					YIR010W		9	375431	377161	W		2011-02-03	1994-12-10	
+S000001450	ORF	Verified	YIR011C	STS1	SSM5|DBF8	chromosome 9	L000000489	9	378246	377287	C		2011-02-03	1994-12-10	Protein required for localizing proteasomes to the nucleus; involved in cotranslational protein degradation; mediates interaction between nuclear import factor Srp1p and the proteasome; Sts1p and Srp1p couple proteasomes to nascent polypeptides emerging from the ribosome for cotranslational degradation; involved in ubiquitin-mediated protein degradation
+S000036807	CDS					YIR011C		9	378246	377287	C		2011-02-03	1994-12-10	
+S000001451	ORF	Verified	YIR012W	SQT1		chromosome 9	L000003431	9	378486	379781	W		2011-02-03	1994-12-10	Specific chaperone for ribosomal protein Rpl10p; binds nascent Rpl10p during translation; contains multiple WD repeats; interacts with Qsr1p in a two-hybrid assay; protein abundance increases in response to DNA replication stress
+S000036906	CDS					YIR012W		9	378486	379781	W		2011-02-03	1994-12-10	
+S000001452	ORF	Verified	YIR013C	GAT4		chromosome 9	S000007452	9	380384	380019	C		2011-02-03	1994-12-10	Protein containing GATA family zinc finger motifs; involved in spore wall assembly; sequence similarity to GAT3, and the double mutant gat3 gat4 exhibits reduced dityrosine fluorescence relative to the single mutants
+S000036935	CDS					YIR013C		9	380384	380019	C		2011-02-03	1994-12-10	
+S000001453	ORF	Uncharacterized	YIR014W			chromosome 9		9	381086	381814	W		2011-02-03	2003-09-22|1994-12-10	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; expression directly regulated by the metabolic and meiotic transcriptional regulator Ume6p; YIR014W is a non-essential gene
+S000037725	CDS					YIR014W		9	381086	381814	W		2011-02-03	2003-09-22|1994-12-10	
+S000001454	ORF	Verified	YIR015W	RPR2	ribonuclease P protein subunit RPR2	chromosome 9	L000004310	9	381948	382382	W		2011-02-03	1994-12-10	Subunit of nuclear RNase P; nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; not shared between RNase MRP and RNase P, in contrast to all other RNase P protein subunits; protein abundance increases in response to DNA replication stress
+S000037806	CDS					YIR015W		9	381948	382382	W		2011-02-03	1994-12-10	
+S000001455	ORF	Uncharacterized	YIR016W			chromosome 9		9	382628	383425	W		2011-02-03	1994-12-10	Putative protein of unknown function; expression directly regulated by the metabolic and meiotic transcriptional regulator Ume6p; overexpression causes a cell cycle delay or arrest; non-essential gene; YIR016W has a paralog, YOL036W, that arose from the whole genome duplication
+S000037904	CDS					YIR016W		9	382628	383425	W		2011-02-03	1994-12-10	
+S000028799	ORF	Dubious	YIR017W-A			chromosome 9		9	383566	384165	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000033566	CDS					YIR017W-A		9	383566	384165	W		2011-02-03	2003-07-29	
+S000001456	ORF	Verified	YIR017C	MET28		chromosome 9	L000001092	9	384119	383556	C		2011-02-03	1994-12-10	bZIP transcriptional activator in the Cbf1p-Met4p-Met28p complex; participates in the regulation of sulfur metabolism
+S000030791	CDS					YIR017C		9	384119	383556	C		2011-02-03	1994-12-10	
+S000001457	ORF	Verified	YIR018W	YAP5		chromosome 9	L000004343	9	384609	385346	W		2011-02-03	1994-12-10	Basic leucine zipper (bZIP) iron-sensing transcription factor; involved in diauxic shift; YAP5 has a paralog, YAP7, that arose from the whole genome duplication
+S000030914	CDS					YIR018W		9	384609	385346	W		2011-02-03	1994-12-10	
+S000028837	ORF	Uncharacterized	YIR018C-A			chromosome 9		9	385701	385564	C		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034488	CDS					YIR018C-A		9	385701	385564	C		2011-02-03	2003-07-29	
+S000001458	ORF	Verified	YIR019C	FLO11	MUC1|STA4	chromosome 9	L000002104	9	393675	389572	C		2011-02-03	1994-12-10	GPI-anchored cell surface glycoprotein (flocculin); required for pseudohyphal and invasive growth, flocculation, and biofilm formation; major determinant of colony morphology; transcription regulated by the MAPK pathway (Ste12p and Tec1p) and the cAMP pathway (Flo8p); required for formation of fibrous interconnections between cells of a wild strain; role in co-flocculation with other yeast species; cleaved and shed from cells, contributing to their surface properties
+S000030936	CDS					YIR019C		9	393675	389572	C		2011-02-03	1994-12-10	
+S000001459	ORF	Uncharacterized	YIR020C			chromosome 9		9	394557	394255	C		2011-02-03	1994-12-10	Protein of unknown function; mRNA identified as translated by ribosome profiling data; SWAT-GFP fusion protein localizes to the endoplasmic reticulum
+S000032045	CDS					YIR020C		9	394557	394255	C		2011-02-03	1994-12-10	
+S000007241	ORF	Dubious	YIR020W-A		YIR020W-B	chromosome 9		9	394917	395159	W		2011-02-03	1999-07-17	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000034820	CDS					YIR020W-A		9	394917	395159	W		2011-02-03	1999-07-17	
+S000132614	ncRNA_gene		PWR1	PWR1		chromosome 9		9	395999	396939	W		2011-02-03	2010-01-05	Intergenic regulatory ncRNA; one of two long ncRNAs that play key roles in regulating transcription of the nearby protein-coding ORF FLO11; PWR1 promotes FLO11 transcription by interfering with ncRNA ICR1, which is transcribed across the FLO11 promoter
+S000132615	noncoding_exon					PWR1		9	395999	396939	W		2011-02-03	2010-01-05	
+S000132612	ncRNA_gene		ICR1	ICR1		chromosome 9		9	397082	393884	C		2011-02-03	2010-01-05	Long intergenic regulatory ncRNA; has a key role in regulating transcription of the nearby protein-coding ORF FLO11; initiated far upstream from FLO11 and transcribed across much of the large promoter of FLO11, repressing FLO11 transcription in cis
+S000132613	noncoding_exon					ICR1		9	397082	393884	C		2011-02-03	2010-01-05	
+S000001460	ORF	Verified	YIR021W	MRS1	PET157	chromosome 9		9	397294	398385	W		2011-02-03	1994-12-10	Splicing protein; required for splicing of two mitochondrial group I introns (BI3 in COB and AI5beta in COX1); forms a splicing complex, containing four subunits of Mrs1p and two subunits of the BI3-encoded maturase, that binds to the BI3 RNA; MRS1 has a paralog, CCE1, that arose from the whole genome duplication
+S000032999	CDS					YIR021W		9	397294	398385	W		2011-02-03	1994-12-10	
+S000028800	ORF	Dubious	YIR020C-B			chromosome 9		9	397949	397215	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF MRS1
+S000033580	CDS					YIR020C-B		9	397949	397215	C		2011-02-03	2003-07-29	
+S000028838	ORF	Uncharacterized	YIR021W-A			chromosome 9		9	398514	398726	W		2011-02-03	2003-07-29	Putative protein of unknown function; identified by expression profiling and mass spectrometry
+S000034490	CDS					YIR021W-A		9	398514	398726	W		2011-02-03	2003-07-29	
+S000001461	ORF	Verified	YIR022W	SEC11	signal peptidase complex catalytic subunit SEC11	chromosome 9	L000001836	9	398733	399236	W	22	2011-02-03	1994-12-10	18kDa catalytic subunit of the Signal Peptidase Complex (SPC); the Signal Peptidase Complex cleaves the signal sequence of proteins targeted to the endoplasmic reticulum; other members are Spc1p, Spc2p, Spc3p, and Sec11p
+S000033111	CDS					YIR022W		9	398733	399236	W		2011-02-03	1994-12-10	
+S000001462	ORF	Verified	YIR023W	DAL81	DURL|UGA35	chromosome 9	L000000481	9	399777	402689	W	22	2011-02-03	1994-12-10	Positive regulator of genes in multiple nitrogen degradation pathways; contains DNA binding domain but does not appear to bind the dodecanucleotide sequence present in the promoter region of many genes involved in allantoin catabolism
+S000033187	CDS					YIR023W		9	399777	402689	W		2011-02-03	1994-12-10	
+S000028801	ORF	Dubious	YIR023C-A			chromosome 9		9	402706	402383	C		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; almost completely overlaps ORF DAL81/YIR023W
+S000033581	CDS					YIR023C-A		9	402706	402383	C		2011-02-03	2003-07-29	
+S000001463	ORF	Verified	YIR024C	INA22	GIF1	chromosome 9	L000004438	9	403491	402841	C		2011-02-03	1994-12-10	F1F0 ATP synthase peripheral stalk assembly factor; subunit of the matrix-exposed inner mitochondrial membrane localized INA complex (Ina22p-Ina17p) involved in assembly of the F1F0 peripheral stalk; co-purifies with Aim43p, ATP synthase subunits, and cytochrome bc1 complex assembly factors; interacts with Arh1p, a mitochondrial oxidoreductase; deletion mutant has a respiratory growth defect
+S000033910	CDS					YIR024C		9	403491	402841	C		2011-02-03	1994-12-10	
+S000001464	ORF	Verified	YIR025W	MND2		chromosome 9		9	403659	404765	W		2011-02-03	1994-12-10	Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); necessary for maintaining sister chromatid cohesion in prophase I of meiosis by inhibiting premature ubiquitination and subsequent degradation of substrates by the APC(Ama1) ubiquitin ligase
+S000034094	CDS					YIR025W		9	403659	404765	W		2011-02-03	1994-12-10	
+S000001465	ORF	Verified	YIR026C	YVH1	tyrosine protein phosphatase YVH1	chromosome 9	L000002567	9	405967	404873	C	31	2011-02-03	1994-12-10	Dual specificity protein phosphatase; regulates growth, sporulation, and glycogen accumulation in a cAMP-dependent protein kinase cascade dependent manner; mutants are defective in 60S ribosome assembly; positively regulates pre-autophagosomal structure (PAS) formation upon nitrogen starvation or rapamycin treatment
+S000034138	CDS					YIR026C		9	405967	404873	C		2011-02-03	1994-12-10	
+S000001466	ORF	Verified	YIR027C	DAL1	allantoinase	chromosome 9	L000000474	9	407642	406260	C	32.1	2011-02-03	1994-12-10	Allantoinase; converts allantoin to allantoate in the first step of allantoin degradation; expression sensitive to nitrogen catabolite repression
+S000034253	CDS					YIR027C		9	407642	406260	C		2011-02-03	1994-12-10	
+S000001467	ORF	Verified	YIR028W	DAL4	allantoin permease	chromosome 9	L000000477	9	408468	410375	W	34	2011-02-03	1994-12-10	Allantoin permease; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation
+S000035258	CDS					YIR028W		9	408468	410375	W		2011-02-03	1994-12-10	
+S000001468	ORF	Verified	YIR029W	DAL2	allantoicase|ALC1	chromosome 9	L000000475	9	410807	411838	W	36.1	2011-02-03	1994-12-10	Allantoicase; converts allantoate to urea and ureidoglycolate in the second step of allantoin degradation; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation
+S000035347	CDS					YIR029W		9	410807	411838	W		2011-02-03	1994-12-10	
+S000118400	ARS		ARS922		ARSIX-412	chromosome 9		9	411935	412011			2014-11-18	2014-11-18|2006-08-30	Autonomously Replicating Sequence
+S000178118	ARS_consensus_sequence					ARS922		9	412001	411985	C		2014-11-18	2014-11-18	
+S000001469	ORF	Verified	YIR030C	DCG1		chromosome 9	L000000497	9	412770	412036	C	36.4	2011-02-03	1994-12-10	Protein of unknown function; expression is sensitive to nitrogen catabolite repression and regulated by Dal80p; contains transmembrane domain
+S000036237	CDS					YIR030C		9	412770	412036	C		2011-02-03	1994-12-10	
+S000028802	ORF	Dubious	YIR030W-A			chromosome 9		9	412899	413282	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF DAL7/YIR031C
+S000033582	CDS					YIR030W-A		9	412899	413282	W		2011-02-03	2003-07-29	
+S000001470	ORF	Verified	YIR031C	DAL7	malate synthase DAL7|MSL2|MLS2	chromosome 9	L000000479	9	414679	413015	C	36.9	2011-02-03	1994-12-10	Malate synthase; can accept butyryl-CoA as acyl-CoA donor in addition to traditional substrate acetyl-CoA; recycles glyoxylate generated during allantoin degradation; SWAT-GFP and mCherry fusion proteins localize to the cytosol; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation
+S000031686	CDS					YIR031C		9	414679	413015	C		2011-02-03	1994-12-10	
+S000001471	ORF	Verified	YIR032C	DAL3	ureidoglycolate hydrolase	chromosome 9	L000000476	9	415617	415030	C	37	2011-02-03	1994-12-10	Ureidoglycolate lyase; converts ureidoglycolate to glyoxylate and urea in the third step of allantoin degradation; expression is sensitive to nitrogen catabolite repression; this enzyme is sometimes referred to "ureidoglycolate hydrolase" but should not be confused with the Arabidopsis thaliana ureidoglycolate hydrolase enzyme which converts ureidoglycolate to glyoxylate, ammonia and carbon dioxide
+S000031829	CDS					YIR032C		9	415617	415030	C		2011-02-03	1994-12-10	
+S000001472	ORF	Verified	YIR033W	MGA2		chromosome 9	L000004181	9	416124	419465	W		2011-02-03	1994-12-10	ER membrane protein involved in regulation of OLE1 transcription; inactive ER form dimerizes and one subunit is then activated by ubiquitin/proteasome-dependent processing followed by nuclear targeting; MGA2 has a paralog, SPT23, that arose from the whole genome duplication
+S000032031	CDS					YIR033W		9	416124	419465	W		2011-02-03	1994-12-10	
+S000001473	ORF	Verified	YIR034C	LYS1	saccharopine dehydrogenase (NAD+, L-lysine-forming)	chromosome 9	L000000964	9	420736	419615	C	40	2011-02-03	1994-12-10	Saccharopine dehydrogenase (NAD+, L-lysine-forming); catalyzes the conversion of saccharopine to L-lysine, which is the final step in the lysine biosynthesis pathway; also has mRNA binding activity
+S000037430	CDS					YIR034C		9	420736	419615	C		2011-02-03	1994-12-10	
+S000001474	ORF	Uncharacterized	YIR035C		sepiapterin reductase family protein	chromosome 9		9	421790	421026	C		2011-02-03	1994-12-10	Putative cytoplasmic short-chain dehydrogenase/reductase
+S000037528	CDS					YIR035C		9	421790	421026	C		2011-02-03	1994-12-10	
+S000028803	ORF	Dubious	YIR036W-A			chromosome 9		9	422635	423036	W		2011-02-03	2003-07-29	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF IRC24/YIR036C
+S000033584	CDS					YIR036W-A		9	422635	423036	W		2011-02-03	2003-07-29	
+S000001475	ORF	Verified	YIR036C	IRC24	sepiapterin reductase family protein IRC24	chromosome 9		9	422865	422074	C		2011-02-03	1994-12-10	Putative benzil reductase;(GFP)-fusion protein localizes to the cytoplasm and is induced by the DNA-damaging agent MMS; sequence similarity with short-chain dehydrogenase/reductases; null mutant has increased spontaneous Rad52p foci
+S000037606	CDS					YIR036C		9	422865	422074	C		2011-02-03	1994-12-10	
+S000001476	ORF	Verified	YIR037W	HYR1	peroxiredoxin HYR1|ORP1|GPX3	chromosome 9	L000002612	9	423128	423619	W		2011-02-03	1994-12-10	Thiol peroxidase; functions as a hydroperoxide receptor to sense intracellular hydroperoxide levels and transduce a redox signal to the Yap1p transcription factor; HYR1 has a paralog, GPX1, that arose from the whole genome duplication
+S000030468	CDS					YIR037W		9	423128	423619	W		2011-02-03	1994-12-10	
+S000001477	ORF	Verified	YIR038C	GTT1	bifunctional glutathione transferase/peroxidase	chromosome 9	L000004612	9	424513	423809	C		2011-02-03	1994-12-10	ER associated glutathione S-transferase capable of homodimerization; expression induced during the diauxic shift and throughout stationary phase; functional overlap with Gtt2p, Grx1p, and Grx2p
+S000030525	CDS					YIR038C		9	424513	423809	C		2011-02-03	1994-12-10	
+S000007021	long_terminal_repeat		YIRCdelta6			chromosome 9		9	426425	426201	C		2011-02-03	1994-12-10	Ty1 LTR
+S000001478	ORF	Verified	YIR039C	YPS6	aspartyl protease	chromosome 9	L000004386	9	432111	430498	C		2011-02-03	1994-12-10	Putative GPI-anchored aspartic protease; member of the yapsin family of proteases involved in cell wall growth and maintenance
+S000030600	CDS					YIR039C		9	432111	430498	C		2011-02-03	1994-12-10	
+S000001479	ORF	Dubious	YIR040C			chromosome 9		9	433721	433389	C		2011-02-03	1994-12-10	Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data
+S000030026	CDS					YIR040C		9	433721	433389	C		2011-02-03	1994-12-10	
+S000001480	ORF	Verified	YIR041W	PAU15	seripauperin PAU15	chromosome 9		9	433929	434303	W		2011-02-03	1994-12-10	Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole
+S000030194	CDS					YIR041W		9	433929	434303	W		2011-02-03	1994-12-10	
+S000001481	ORF	Uncharacterized	YIR042C			chromosome 9		9	435983	435273	C		2011-02-03	1994-12-10	Putative protein of unknown function; YIR042C is a non-essential gene
+S000030300	CDS					YIR042C		9	435983	435273	C		2011-02-03	1994-12-10	
+S000001482	blocked_reading_frame		YIR043C		YIR044C	chromosome 9		9	438179	437043	C		2014-11-18	1994-12-10|2014-11-18	Blocked reading frame; may encode a non-functional member of the conserved, often subtelomerically-encoded Cos protein family
+S000030384	CDS					YIR043C		9	438179	437043	C		2014-11-18	1994-12-10|2014-11-18	
+S000028970	telomere		TEL09R			chromosome 9		9	439068	439888	W	43	2011-02-03	2003-09-09	Telomeric region on the right arm of Chromosome IX; composed of an X element core sequence, X element combinatorial repeats, and a short terminal stretch of telomeric repeats
+S000028971	telomeric_repeat					TEL09R		9	439816	439888	W		2011-02-03	2003-09-09	Terminal telomeric repeats on the right arm of Chromosome IX
+S000028972	X_element					TEL09R		9	439068	439533	W		2011-02-03	2003-09-09	Telomeric X element Core sequence on the right arm of Chromosome IX; contains an ARS consensus sequence and an Abf1p binding site consensus sequence
+S000028973	X_element_combinatorial_repeat					TEL09R		9	439534	439815	W		2011-02-03	2003-09-09	Telomeric X element combinatorial repeat on the right arm of Chr IX; contains repeats of the D, C, B and A types, as well as Tbf1p binding sites; formerly called SubTelomeric Repeats
+S000178596	not physically mapped		OTO1												Protein whose overexpression inhibits growth; encoded by a previously unannotated ORF located between YGR227W and YGR228W in the "C" direction; overexpression of PRM1 or UBP7 suppresses the growth inhibition caused by OTO1 overexpression; "orphan" ORF not conserved in any other known species
+S000182414	not physically mapped		SMT1												
+S000029044	not physically mapped		ASL1				S000029006								
+S000155235	not physically mapped		PDR19												
+S000155237	not physically mapped		PDR20												
+S000155238	not physically mapped		PDR21												
+S000183332	not physically mapped		HTC1												
+S000183742	not physically mapped		YPL2												
+S000183740	not physically mapped		YPL1												
+S000151128	not physically mapped		AIP5												
+S000029237	not in systematic sequence of S288C		KHR1	KHR1	KHR		L000000899								Killer toxin; encoded on the left arm of chromosome IX in some strains, including YJM789
+S000029522	not in systematic sequence of S288C		STA1	STA1	MAL5|DEX2	chromosome 9	L000003928	9							Glucoamylase (glucan 1,4-alpha-glucosidase)
+S000029524	not in systematic sequence of S288C		STA2	STA2			L000002105								Glucoamylase (glucan 1,4-alpha-glucosidase); allows yeast to degrade starch
+S000029525	not in systematic sequence of S288C		STA3	STA3			L000002106								Starch hydrolysis
+S000029679	not in systematic sequence of S288C		STRP	STRP			L000002135								Transmembrane protein with a highly basic C-terminal region
+S000029531	not in systematic sequence of S288C		SUC1	SUC1		chromosome 7	L000002143	7				228			Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
+S000029532	not in systematic sequence of S288C		SUC3	SUC3		chromosome 2	L000002145	2				146			Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
+S000029533	not in systematic sequence of S288C		SUC4	SUC4	SUC6	chromosome 13	L000002146	13							Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
+S000029534	not in systematic sequence of S288C		SUC5	SUC5		chromosome 4	L000002147	4				-152			Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
+S000029535	not in systematic sequence of S288C		SUC7	SUC7		chromosome 8	L000002148	8							Invertase; sucrose hydrolyzing enzyme; seven related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in strain S288C; unlike other forms of invertase, Suc7p is unable to hydrolyze raffinose
+S000029417	not in systematic sequence of S288C		RF2	RF2		chromosome 17	S000007533	17							Maturase-like coding sequence downstream of COX3/Q0275; present in some S. cerevisiae strains and other Saccharomyces species; compound ORF with homology to other group I open reading frames; in S288C is interrupted by two GC clusters, both of which ultimately result in a -1 frameshlft
+S000029677	not in systematic sequence of S288C		RTM1	RTM1			L000001785								Member of the lipid-translocating exporter (LTE) family; present in multiple copies associated with SUC telomeric loci, amplified in yeasts used for industrial biomass or ethanol production with molasses as substrate
+S000029656	not in systematic sequence of S288C		MAL2	MAL2		chromosome 3	L000001001	3				95			Multigene complex, polymeric locus for maltose fermentation; encodes the MAL23 trans-acting MAL-activator, MAL21 maltose permease, and MAL22 maltase; on the right arm of Chromosome III, but not in strain S288C
+S000029681	not in systematic sequence of S288C		MAL21	MAL21	MALT		L000001011								Maltose permease; part of the complex locus MAL2
+S000029682	not in systematic sequence of S288C		MAL22	MAL22	MALS		L000001012								Maltase (alpha-D-glucosidase); encoded within the complex locus MAL2
+S000029685	not in systematic sequence of S288C		MAL4	MAL4		chromosome 11	L000001006	11				85			Multigene complex, polymeric locus for maltose fermentation; encodes the MAL43 trans-acting MAL-activator, MAL41 maltose permease, and MAL42 maltase; on right arm of Chromosome XI, but not in strain S288C
+S000029686	not in systematic sequence of S288C		MAL41	MAL41	MALT		L000001018								Maltose permease; part of the complex locus MAL4
+S000029687	not in systematic sequence of S288C		MAL42	MAL42	MALS		L000001019								Maltase (alpha-D-glucosidase); encoded within the complex locus MAL4
+S000029688	not in systematic sequence of S288C		MAL43	MAL43	MALR		L000001020								MAL-activator protein; encoded within the complex locus MAL4
+S000029689	not in systematic sequence of S288C		MAL6	MAL6			L000001007								Multigene complex, polymeric locus for maltose fermentation; encodes the MAL63 trans-acting MAL-activator, MAL61 maltose permease, and MAL62 maltase; on the left arm of Chromosome VIII, but not in strain S288C
+S000029690	not in systematic sequence of S288C		MAL62	MAL62	MALS		L000001022								Maltase (alpha-D-glucosidase); encoded within the complex locus MAL6
+S000029659	not in systematic sequence of S288C		MAL63	MAL63	MALR		L000001023								MAL-activator protein; transcription factor; part of the complex locus MAL6, plays a positive role in the regulation of maltose fermentation
+S000029660	not in systematic sequence of S288C		MATA1	MATA1	A1		L000002970								Expressed copy (at MATa) of a1; homeobox-domain protein that, along with alpha2, represses transcription of haploid-specific genes in diploid cells; MATa1 pre-mRNA splicing requires Bud13p and Ist3p; a1 sequence is not present in SGD because the sequenced S288C strain is MATalpha, not MATa
+S000029661	not in systematic sequence of S288C		MATA2	MATA2	A2		L000002971								Protein of unknown function; identical to the C-terminal 119 amino acid residues of the MATalpha2 protein; a2 sequence is not present in SGD because the sequenced S288C strain is MATalpha, not MATa
+S000029662	not in systematic sequence of S288C		MEL1	MEL1		chromosome 2	L000001063	2				-77			Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose; regulated by several GAL genes
+S000029692	not in systematic sequence of S288C		MEL10	MEL10		chromosome 12	L000001072	12							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
+S000029663	not in systematic sequence of S288C		MEL2	MEL2			L000001064								Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
+S000029693	not in systematic sequence of S288C		MEL3	MEL3		chromosome 16	L000001065	16							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
+S000029694	not in systematic sequence of S288C		MEL4	MEL4		chromosome 11	L000001066	11							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
+S000029664	not in systematic sequence of S288C		MEL5	MEL5		chromosome 4	L000001067	4							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
+S000029665	not in systematic sequence of S288C		MEL6	MEL6		chromosome 13	L000001068	13							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
+S000029695	not in systematic sequence of S288C		MEL7	MEL7		chromosome 6	L000001069	6							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
+S000029696	not in systematic sequence of S288C		MEL8	MEL8		chromosome 15	L000001070	15							Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
+S000029697	not in systematic sequence of S288C		MEL9	MEL9			L000001071								Secreted alpha-galactosidase; required for catabolic conversion of melibiose to glucose and galactose
+S000029666	not in systematic sequence of S288C		MPR1	MPR1			S000007536								L-azetidine-2-carboxylic acid acetyltransferase; reduces intracellular ROS and contributes to L-proline analog resistance and tolerance to ethanol and freezing; member of N-acetyltransferase superfamily; not found in S288C, only present in strains with Sigma1278b background; located on left arm of chromosome XIV approximately 15 kb from telomere
+S000029328	not in systematic sequence of S288C		NTS1-1	NTS1-1	NTS1		L000001282								Nontranscribed region of the rDNA repeat between the 3'ETS and RDN5; required for rDNA repeat expansion; contains RNA polymerase I termination site
+S000080162	not in systematic sequence of S288C		KHS1	KHS1											Thermolabile killer toxin encoded on the right arm of Chromosome V
+S000029703	not in systematic sequence of S288C		AWA1	AWA1											Putative GPI-anchored protein; localized to the cell wall; involved in foam formation in sake mash by conferring hydrophobicity to the cell surface
+S000029723	not in systematic sequence of S288C		YAR069W-A	BIO6											Putative 7-keto-8-aminopelargonic acid (KAPA) synthetase; in sake strains and S. cerevisiae strains YJM627 and A364a; involved in the biotin biosynthesis pathway; homologs present in S. bayanus, S. paradoxus, S. mikatae and S. kudriavzevii
+S000029698	not in systematic sequence of S288C		ENS2	ENS2	Endo.SceI|RF3		L000001619|L000000562								Mitochondrially-encoded 50 kD subunit of Endo.SceI; a dimeric multi-site-specific endonuclease that introduces double-stranded breaks at a number of well-defined sites on the mitochondrial DNA, inducing homologous recombination
+S000134352	not in systematic sequence of S288C		SUC8	SUC8		chromosome 10		10							Invertase; sucrose hydrolyzing enzyme; seven closely related but non-identical invertase genes have been described in yeast (SUC1-5, 7, 8) but only SUC2 is in the reference strain (S288C)
+S000130715	not in systematic sequence of S288C		ENA6	ENA6		chromosome 4		4							Plasma membrane sodium-pumping ATPase; the ENA6 gene is found in the PMR2 locus in the CEN.PK113-7D strain of S. cerevisiae, where other common lab strains have a varying number of the ENA genes (ENA1-ENA5) at the same locus
+S000124112	not in systematic sequence of S288C		TAT3	TAT3											Permease identified in lager brewing yeast strain Weihenstephan Nr.34; also in RM11-1a, but not S288C; subject to nitrogen catabolite repression and post-translational control, cellular localization dependent on nitrogen source quality
+S000124955	not in systematic sequence of S288C		MATA	MATA	MAT										Mating type locus; note that the systematic sequence in SGD contains MATalpha sequences
+S000125018	not in systematic sequence of S288C		YAR070W-A	BIO1											Putative pimeloyl-CoA synthetase involved in biotin biosynthesis; highly degraded pseudogenic paralog of YJR154W; functional copies present in S. cerevisiae strains YJM627 and A364a; functional pimeloyl-CoA synthetase (PCAS) genes are homologs of the bioW gene in Bacillus sp. and the bioC-bioH complex of E. coli
+S000125021	not in systematic sequence of S288C		YHR214W-F	BIO8											Putative 7-keto-8-aminopelargonic acid (KAPA) synthetase; highly degraded pseudogenic copy of BIO6/YAR069W-A; functional copy present in S. cerevisiae strains YJM627 and A364a; involved in the biotin biosynthesis pathway
+S000125022	not in systematic sequence of S288C		YHR214W-G	BIO7											Putative pimeloyl-CoA synthetase involved in biotin biosynthesis; in S. cerevisiae strains YJM627 and A364a; highly degraded pseudogenic copy of BIO1/YAR070W-A, which is a paralog of YJR154W
+S000029657	not in systematic sequence of S288C		MAL23	MAL23	MALR		L000001013								MAL-activator protein; encoded within the complex locus MAL2; required for maltose and isomaltose utilization
+S000029684	not in systematic sequence of S288C		MAL34	MAL34			L000001017								ORF with sequence and positional similarity to the MAL64 gene; the MAL64 gene is thought to be a nonfunctional copy of MAL63; encoded within the complex locus MAL3 in some strains of S. cerevisiae, but not in S288C
+S000029691	not in systematic sequence of S288C		MAL64	MAL64			L000001024								MAL64 is a nonfunctional homolog of the MAL63 trans-activator; encoded within the complex locus MAL6
+S000029658	not in systematic sequence of S288C		MAL61	MAL61	MALT		L000001021								High-affinity maltose transporter; narrow substrate specificity, transporting maltose and turanose but not other alpha-glucosides; other names include alpha-glucoside transporter and maltose permease
+S000145155	not in systematic sequence of S288C		FPG1	FPG1											Putative cell wall mannoprotein involved in foam formation; contains a signal peptide and a putative GPI anchor; protein precursor homologous to Awa1p and Hpf1p
+S000133140	not in systematic sequence of S288C		XDH1	XDH1		chromosome 15		15							Xylitol dehydrogenase; involved in utilization of xylose as a carbon source; not present in S288C, but located in a 65kb insertion on the right arm of chromosome XV in many wine strains such as EC1118 and AWRI1631
+S000149345	not in systematic sequence of S288C		IMI1	IMI1											Protein involved in maintaining mitochondrial integrity and glutathione homeostasis; localized to the cytoplasm; in W303 strain IMI1 is encoded by one continuous open reading frame comprising of YDL037C, the intergenic region and YDL039C, while in the reference sequence of S288C, YDL037C encodes Bsc1p and YDL039C encodes Prm7p.
+S000150108	not in systematic sequence of S288C		MPR2	MPR2											L-azetidine-2-carboxylic acid acetyltransferase; reduces intracellular ROS, contributes to L-proline analog resistance and tolerance to ethanol and freezing; member of N-acetyltransferase superfamily; not found in S288C, present in strains with Sigma1278b background; located on left arm of Chr X ~ 15 kb from telomere; identical to MPR1 except for one base at position 254, leading to Gly at position 85 in MPR1 and Glu in MPR2; present also in Japanese industrial baker's yeast
diff --git a/data/Species.csv b/data/Species.csv
index 1db2d8e..97c68fa 100644
--- a/data/Species.csv
+++ b/data/Species.csv
@@ -1,1015 +1,1015 @@
-"","Name","Classification","Taxon ID","Assembly","Accession","Variation database","Regulation database","Whole genome alignments","Other alignments","In peptide compara","In pan-taxonomic compara"
-"","Absidia glauca","Mucoromycotina","4829","AG_v1","GCA_900079185.1","-","-","-","-","-","-"
-"","Absidia repens str. NRRL 1336","Mucoromycotina","90262","Absrep1","GCA_002105175.1","-","-","-","-","","-"
-"","Acaromyces ingoldii str. MCA 4198 (GCA_003144295)","","215250","Acain1","GCA_003144295.1","-","-","-","-","","-"
-"","Acidomyces richmondensis (GCA_001572075)","Acidomyces","245562","ASM157207v1","GCA_001572075.1","-","-","-","-","-","-"
-"","Acidomyces richmondensis BFW (GCA_001592465)","Acidomyces","766039","Acidomyces_richmondensis_BFW_v1.0","GCA_001592465.1","-","-","-","-","","-"
-"","Acremonium chrysogenum ATCC 11550 (GCA_000769265)","Hypocreales","857340","ASM76926v1","GCA_000769265.1","-","-","-","-","","-"
-"","Agaricus bisporus var. burnettii JB137-S8 (GCA_000300555)","Agaricales","597362","Agabi_varbur_1","GCA_000300555.1","-","-","-","-","","-"
-"","Allomyces macrogynus ATCC 38327 (GCA_000151295)","Blastocladiales","578462","A_macrogynus_V3","GCA_000151295.1","-","-","-","-","","-"
-"","Alternaria alternata str. SRC1lrK2f (GCA_001642055)","Pleosporales","5599","Altal1","GCA_001642055.1","-","-","-","-","","-"
-"","Amanita muscaria Koide BX008 (GCA_000827485)","Agaricales","946122","Amanita_muscaria_Koide_BX008_v1.0","GCA_000827485.1","-","-","-","-","","-"
-"","Amanita thiersii Skay4041 (GCA_002554575)","Agaricales","703135","Amanita_thiersii_v1.0","GCA_002554575.1","-","-","-","-","","-"
-"","Amorphotheca resinae ATCC 22711 (GCA_003019875)","Myxotrichaceae","857342","Amore1","GCA_003019875.1","-","-","-","-","","-"
-"","Amphiamblys sp. WSBS2006 (GCA_001875675)","Microsporidia","1866961","ASM187567v1","GCA_001875675.1","-","-","-","-","","-"
-"","Anaeromyces robustus str. S4 (GCA_002104895)","","1754192","Anaeromyces_sp._S4_v1.0","GCA_002104895.1","-","-","-","-","","-"
-"","Anncaliia algerae PRA109 (GCA_000385855)","Tubulinosematidae","1240240","Annc_alge_PRA109_V4","GCA_000385855.2","-","-","-","-","-","-"
-"","Anncaliia algerae PRA339 (GCA_000385875)","Tubulinosematidae","1288291","Annc_alge_insect_USDA_JJB_V2","GCA_000385875.2","-","-","-","-","","-"
-"","Anthracocystis flocculosa PF-1 (GCA_000417875)","Ustilaginales","1277687","Pflocc_1.0","GCA_000417875.1","-","-","-","-","","-"
-"","Armillaria gallica str. Ar21-2 (GCA_002307695)","Agaricales","47427","Armga1","GCA_002307695.1","-","-","-","-","","-"
-"","Armillaria ostoyae (GCA_900157425)","Agaricales","47428","version_2","GCA_900157425.1","-","-","-","-","","-"
-"","Armillaria solidipes str. 28-4 (GCA_002307675)","Agaricales","1076256","Armost1","GCA_002307675.1","-","-","-","-","","-"
-"","Arthrobotrys oligospora ATCC 24927 (GCA_000225545)","Orbiliales","756982","AOL24927_1.0","GCA_000225545.1","-","-","-","-","","-"
-"","Ascochyta rabiei str. ArDII (GCA_001630375)","Pleosporales","5454","AscRab1.0","GCA_001630375.1","-","-","-","-","","-"
-"","Ascoidea rubescens DSM 1968 (GCA_001661345)","Saccharomycetales","1344418","Ascru1","GCA_001661345.1","-","-","-","-","","-"
-"","Ascosphaera apis ARSEF 7405 (GCA_001636715)","Onygenales","392613","AAP_1.0","GCA_001636715.1","-","-","-","-","","-"
-"","Ashbya gossypii","Saccharomycetales","284811","ASM9102v1","GCA_000091025.3","-","","","","","-"
-"","Aspergillus aculeatinus CBS 121060 (GCA_003184765)","Eurotiales","1448322","Aspacu1","GCA_003184765.1","-","-","-","-","-","-"
-"","Aspergillus aculeatus ATCC 16872 (GCA_001890905)","Eurotiales","690307","Aspac1","GCA_001890905.1","-","-","-","-","-","-"
-"","Aspergillus arachidicola str. CBS 117610 (GCA_002749805)","Eurotiales","656916","ASM274980v1","GCA_002749805.1","-","-","-","-","-","-"
-"","Aspergillus bombycis str. NRRL26010 (GCA_001792695)","Eurotiales","109264","ASM179269v1","GCA_001792695.1","-","-","-","-","-","-"
-"","Aspergillus brasiliensis CBS 101740 (GCA_001889945)","Eurotiales","767769","Aspbr1","GCA_001889945.1","-","-","-","-","-","-"
-"","Aspergillus brunneoviolaceus CBS 621.78 (GCA_003184695)","Eurotiales","1450534","Aspbru1","GCA_003184695.1","-","-","-","-","-","-"
-"","Aspergillus calidoustus str. SF006504 (GCA_001511075)","Eurotiales","454130","Acal_Allpaths_LG","GCA_001511075.1","-","-","-","-","-","-"
-"","Aspergillus campestris IBT 28561 (GCA_002847485)","Eurotiales","1392248","Aspcam1","GCA_002847485.1","-","-","-","-","-","-"
-"","Aspergillus candidus str. CBS 102.13 (GCA_002847045)","Eurotiales","41067","Aspcand1","GCA_002847045.1","-","-","-","-","-","-"
-"","Aspergillus carbonarius ITEM 5010 (GCA_001990825)","Eurotiales","602072","Aspca3","GCA_001990825.1","-","-","-","-","-","-"
-"","Aspergillus clavatus NRRL 1","Eurotiales","344612","ASM271v1","GCA_000002715.1","-","-","-","-","","-"
-"","Aspergillus cristatus str. GZAAS20.1005 (GCA_001717485)","Eurotiales","573508","ASM171748v1","GCA_001717485.1","-","-","-","-","-","-"
-"","Aspergillus ellipticus CBS 707.79 (GCA_003184645)","Eurotiales","1448320","Aspell1","GCA_003184645.1","-","-","-","-","-","-"
-"","Aspergillus eucalypticola CBS 122712 (GCA_003184535)","Eurotiales","1448314","Aspeuc1","GCA_003184535.1","-","-","-","-","-","-"
-"","Aspergillus fischeri NRRL 181","Eurotiales","331117","ASM14964v1","GCA_000149645.2","-","-","-","-","","-"
-"","Aspergillus flavus AF70 (GCA_000952835)","Eurotiales","1392242","ASM95283v1","GCA_000952835.1","-","-","-","-","-","-"
-"","Aspergillus flavus NRRL3357","Eurotiales","332952","JCVI-afl1-v2.0","GCA_000006275.2","-","-","-","-","","-"
-"","Aspergillus fumigatus (GCA_002234985)","Eurotiales","746128","ASM223498v1","GCA_002234985.1","-","-","-","-","","-"
-"","Aspergillus fumigatus A1163","Eurotiales","451804","ASM15014v1","GCA_000150145.1","-","-","-","-","-","-"
-"","Aspergillus fumigatus Af293","Eurotiales","330879","ASM265v1","GCA_000002655.1","-","-","-","-","-","-"
-"","Aspergillus fumigatus Z5 (GCA_001029325)","Eurotiales","1437362","ASM102932v1","GCA_001029325.1","-","-","-","-","-","-"
-"","Aspergillus fumigatus var. RP-2014 (GCA_000731615)","Eurotiales","1476192","AspFumNiv1.0","GCA_000731615.1","-","-","-","-","-","-"
-"","Aspergillus glaucus CBS 516.65 (GCA_001890805)","Eurotiales","1160497","Aspgl1","GCA_001890805.1","-","-","-","-","-","-"
-"","Aspergillus heteromorphus CBS 117.55 (GCA_003184545)","Eurotiales","1448321","Asphet1","GCA_003184545.1","-","-","-","-","-","-"
-"","Aspergillus indologenus CBS 114.80 (GCA_003184685)","Eurotiales","1450541","Aspind1","GCA_003184685.1","-","-","-","-","-","-"
-"","Aspergillus japonicus CBS 114.51 (GCA_003184785)","Eurotiales","1448312","Aspjap1","GCA_003184785.1","-","-","-","-","-","-"
-"","Aspergillus lacticoffeatus CBS 101883 (GCA_003184595)","Eurotiales","1450533","Asplac1","GCA_003184595.1","-","-","-","-","-","-"
-"","Aspergillus lentulus (GCA_001445615)","Eurotiales","293939","Alt_assembly01","GCA_001445615.1","-","-","-","-","-","-"
-"","Aspergillus luchuensis CBS 106.47 (GCA_001890685)","Eurotiales","1137211","Aspfo1","GCA_001890685.1","-","-","-","-","-","-"
-"","Aspergillus luchuensis str. RIB 2604 (GCA_001602395)","Eurotiales","1069201","AspL_2604","GCA_001602395.1","-","-","-","-","-","-"
-"","Aspergillus neoniger CBS 115656 (GCA_003184625)","Eurotiales","1448310","Aspneo1","GCA_003184625.1","-","-","-","-","-","-"
-"","Aspergillus nidulans","Eurotiales","227321","ASM1142v1","GCA_000011425.1","-","-","-","-","",""
-"","Aspergillus nidulans FGSC A4 (GCA_000149205)","Eurotiales","227321","ASM14920v2","GCA_000149205.2","-","-","-","-","-","-"
-"","Aspergillus niger","Eurotiales","5061","ASM285v2","GCA_000002855.2","-","-","-","","","-"
-"","Aspergillus niger (GCA_001515345)","Eurotiales","5061","ASM151534v1","GCA_001515345.1","-","-","-","-","-","-"
-"","Aspergillus niger (GCA_900248155)","Eurotiales","5061","Aniger_ATCC_64974_N402","GCA_900248155.1","-","-","-","-","-","-"
-"","Aspergillus niger ATCC 1015 (GCA_000230395)","Eurotiales","380704","ASPNI_v3.0","GCA_000230395.2","-","-","-","-","-","-"
-"","Aspergillus nomius NRRL 13137 (GCA_001204775)","Eurotiales","1509407","ASM120477v1","GCA_001204775.1","-","-","-","-","-","-"
-"","Aspergillus novofumigatus IBT 16806 (GCA_002847465)","Eurotiales","1392255","Aspnov1","GCA_002847465.1","-","-","-","-","-","-"
-"","Aspergillus ochraceoroseus IBT 24754 (GCA_002846915)","Eurotiales","1392256","Aspergillus_ochraceoroseus_IBT_24754_v1.1","GCA_002846915.2","-","-","-","-","-","-"
-"","Aspergillus ochraceoroseus str. SRRC1432 (GCA_000986665)","Eurotiales","138278","ASM98666v1","GCA_000986665.1","-","-","-","-","-","-"
-"","Aspergillus oryzae 100-8 (GCA_000691885)","Eurotiales","1197718","Aspergillus_oryzae_100-8","GCA_000691885.1","-","-","-","-","-","-"
-"","Aspergillus oryzae 3.042 (GCA_000269785)","Eurotiales","1160506","AspOry3042","GCA_000269785.2","-","-","-","-","-","-"
-"","Aspergillus oryzae RIB40","Eurotiales","510516","ASM18445v3","GCA_000184455.3","-","-","-","-","","-"
-"","Aspergillus oryzae str. BCC7051 (GCA_002007945)","Eurotiales","5062","ASM200794v1","GCA_002007945.1","-","-","-","-","-","-"
-"","Aspergillus parasiticus SU-1 (GCA_000956085)","Eurotiales","1403190","ASM95608v1","GCA_000956085.1","-","-","-","-","-","-"
-"","Aspergillus piperis CBS 112811 (GCA_003184755)","Eurotiales","1448313","Asppip1","GCA_003184755.1","-","-","-","-","-","-"
-"","Aspergillus rambellii str. SRRC1468 (GCA_000986645)","Eurotiales","308745","ASM98664v1","GCA_000986645.1","-","-","-","-","-","-"
-"","Aspergillus ruber CBS 135680 (GCA_000600275)","Eurotiales","1388766","Eurhe1","GCA_000600275.1","-","-","-","-","-","-"
-"","Aspergillus saccharolyticus JOP 1030-1 (GCA_003184585)","Eurotiales","1450539","Aspsac1","GCA_003184585.1","-","-","-","-","-","-"
-"","Aspergillus sclerotiicarbonarius CBS 121057 (GCA_003184635)","Eurotiales","1448318","Aspscle1","GCA_003184635.1","-","-","-","-","-","-"
-"","Aspergillus sclerotioniger CBS 115572 (GCA_003184525)","Eurotiales","1450535","Aspscl1","GCA_003184525.1","-","-","-","-","-","-"
-"","Aspergillus steynii IBT 23096 (GCA_002849105)","Eurotiales","1392250","Aspste1","GCA_002849105.1","-","-","-","-","-","-"
-"","Aspergillus sydowii CBS 593.65 (GCA_001890705)","Eurotiales","1036612","Aspsy1","GCA_001890705.1","-","-","-","-","-","-"
-"","Aspergillus taichungensis str. IBT 19404 (GCA_002850765)","Eurotiales","482145","Asptaic1","GCA_002850765.1","-","-","-","-","-","-"
-"","Aspergillus terreus NIH2624","Eurotiales","341663","ASM14961v1","GCA_000149615.1","-","-","-","-","","-"
-"","Aspergillus thermomutatus (GCA_002237265)","Eurotiales","41047","ASM223726v1","GCA_002237265.1","-","-","-","-","-","-"
-"","Aspergillus tubingensis CBS 134.48 (GCA_001890745)","Eurotiales","767770","Asptu1","GCA_001890745.1","-","-","-","-","-","-"
-"","Aspergillus turcosus (GCA_002234965)","Eurotiales","1245748","ASM223496v1","GCA_002234965.1","-","-","-","-","-","-"
-"","Aspergillus turcosus (GCA_002234975)","Eurotiales","1245748","ASM223497v1","GCA_002234975.1","-","-","-","-","-","-"
-"","Aspergillus udagawae str. IFM 46973 (GCA_001078395)","Eurotiales","91492","Aud_assembly01","GCA_001078395.1","-","-","-","-","-","-"
-"","Aspergillus ustus str. 3.3904 (GCA_000812125)","Eurotiales","40382","Austus1.0","GCA_000812125.1","-","-","-","-","-","-"
-"","Aspergillus uvarum CBS 121591 (GCA_003184745)","Eurotiales","1448315","Aspuva1","GCA_003184745.1","-","-","-","-","-","-"
-"","Aspergillus vadensis CBS 113365 (GCA_003184925)","Eurotiales","1448311","Aspvad1","GCA_003184925.1","-","-","-","-","-","-"
-"","Aspergillus versicolor CBS 583.65 (GCA_001890125)","Eurotiales","1036611","Aspve1","GCA_001890125.1","-","-","-","-","-","-"
-"","Aspergillus violaceofuscus CBS 115571 (GCA_003184705)","Eurotiales","1450538","Aspvio1","GCA_003184705.1","-","-","-","-","-","-"
-"","Aspergillus wentii DTO 134E9 (GCA_001890725)","Eurotiales","1073089","Aspwe1","GCA_001890725.1","-","-","-","-","-","-"
-"","Aureobasidium melanogenum CBS 110374 (GCA_000721775)","Dothideales","1043003","Aureobasidium_pullulans_var._melanogenum_CBS_110374_v1.0","GCA_000721775.1","-","-","-","-","","-"
-"","Aureobasidium namibiae CBS 147.97 (GCA_000721765)","Dothideales","1043004","Aureobasidium_pullulans_var._namibiae_CBS_147.97_v1.0","GCA_000721765.1","-","-","-","-","","-"
-"","Aureobasidium pullulans (GCA_001678115)","Dothideales","5580","ASM167811v1","GCA_001678115.1","-","-","-","-","-","-"
-"","Aureobasidium pullulans EXF-150 (GCA_000721785)","Dothideales","1043002","Aureobasidium_pullulans_var._pullulans_EXF-150_assembly_version_1.0","GCA_000721785.1","-","-","-","-","","-"
-"","Aureobasidium subglaciale EXF-2481 (GCA_000721755)","Dothideales","1043005","Aureobasidium_pullulans_var._subglaciale_EXF-2481_v1.0","GCA_000721755.1","-","-","-","-","","-"
-"","Babjeviella inositovora NRRL Y-12698 (GCA_001661335)","Saccharomycetales","984486","Babin1","GCA_001661335.1","-","-","-","-","","-"
-"","Basidiobolus meristosporus CBS 931.73 (GCA_002104905)","","1314790","Basme2finSC","GCA_002104905.1","-","-","-","-","","-"
-"","Batrachochytrium dendrobatidis JAM81 (GCA_000203795)","Rhizophydiales","684364","v1.0","GCA_000203795.1","-","-","-","-","-","-"
-"","Batrachochytrium dendrobatidis JEL423 (GCA_000149865)","Rhizophydiales","403673","BD_JEL423","GCA_000149865.1","-","-","-","-","","-"
-"","Batrachochytrium salamandrivorans str. BS (GCA_002006685)","Rhizophydiales","1357716","Batr_sala_BS_V1","GCA_002006685.1","-","-","-","-","","-"
-"","Baudoinia panamericana UAMH 10762 (GCA_000338955)","Capnodiales","717646","Bauco1","GCA_000338955.1","-","-","-","-","","-"
-"","Beauveria bassiana","Hypocreales","176275","ASM168263v1","GCA_001682635.1","-","-","-","","","-"
-"","Beauveria bassiana ARSEF 2860 (GCA_000280675)","Hypocreales","655819","ASM28067v1","GCA_000280675.1","-","-","-","-","-","-"
-"","Beauveria bassiana D1-5 (GCA_000770705)","Hypocreales","1245745","BBA1.0","GCA_000770705.1","-","-","-","-","-","-"
-"","Beauveria bassiana str. JEF-007 (GCA_002871155)","Hypocreales","176275","ASM287115v1","GCA_002871155.1","-","-","-","-","-","-"
-"","Bifiguratus adelaidae str. AZ0501","Mucoromycotina","1938954","ASM226119v1","GCA_002261195.1","-","-","-","-","","-"
-"","Bipolaris maydis ATCC 48331 (GCA_000354255)","Pleosporales","665024","CocheC4_1","GCA_000354255.1","-","-","-","-","-","-"
-"","Bipolaris maydis C5 (GCA_000338975)","Pleosporales","701091","CocheC5_3","GCA_000338975.1","-","-","-","-","","-"
-"","Bipolaris oryzae ATCC 44560 (GCA_000523455)","Pleosporales","930090","Cochliobolus_miyabeanus_v1.0","GCA_000523455.1","-","-","-","-","","-"
-"","Bipolaris sorokiniana ND90Pr (GCA_000338995)","Pleosporales","665912","Cocsa1","GCA_000338995.1","-","-","-","-","","-"
-"","Bipolaris victoriae FI3 (GCA_000527765)","Pleosporales","930091","Cochliobolus_victoriae_v1.0","GCA_000527765.1","-","-","-","-","","-"
-"","Bipolaris zeicola 26-R-13 (GCA_000523435)","Pleosporales","930089","Cochliobolus_carbonum_v1.0","GCA_000523435.1","-","-","-","-","","-"
-"","Blastomyces dermatitidis ATCC 18188 (GCA_000151595)","Onygenales","653446","BD_ATCC18188_V1","GCA_000151595.1","-","-","-","-","-","-"
-"","Blastomyces dermatitidis ATCC 26199 (GCA_000166155)","Onygenales","447095","BD_ATCC26199_V2","GCA_000166155.1","-","-","-","-","-","-"
-"","Blastomyces dermatitidis ER-3 (GCA_000003525)","Onygenales","559297","BD_ER3_V1","GCA_000003525.2","-","-","-","-","","-"
-"","Blastomyces gilchristii SLH14081 (GCA_000003855)","Onygenales","559298","BD_SLH14081_V1","GCA_000003855.2","-","-","-","-","","-"
-"","Blastomyces percursus str. EI222 (GCA_001883805)","Onygenales","1658174","Blas_perc_EI222_V1","GCA_001883805.1","-","-","-","-","","-"
-"","Blumeria graminis","Erysiphales","546991","EF2","GCA_000151065.2","-","-","-","","","-"
-"","Blumeria graminis f. sp. tritici 96224 (GCA_000418435)","Erysiphales","1268274","Bgt_454_newbler_assembly","GCA_000418435.1","-","-","-","-","-","-"
-"","Botryobasidium botryosum FD-172 SS1 (GCA_000697705)","Cantharellales","930990","Botbo1","GCA_000697705.1","-","-","-","-","","-"
-"","Botrytis cinerea B05.10","Sclerotiniaceae","332648","ASM83294v1","GCA_000143535.4","-","-","-","","","-"
-"","Botrytis cinerea BcDW1 (GCA_000349525)","Sclerotiniaceae","1290391","BcDW1","GCA_000349525.1","-","-","-","-","-","-"
-"","Botrytis cinerea T4 (GCA_000227075)","Sclerotiniaceae","999810","BotFuc_Mar2011","GCA_000227075.1","-","-","-","-","-","-"
-"","Brettanomyces bruxellensis AWRI1499 (GCA_000259595)","Saccharomycetales","1124627","AWRI1499_v1.0","GCA_000259595.1","-","-","-","-","","-"
-"","Byssochlamys spectabilis No. 5 str. Paecilomyces variotii No. 5 (NBRC109023) (GCA_000497085)","Eurotiales","1356009","PVAR5_assembly01","GCA_000497085.1","-","-","-","-","","-"
-"","Cadophora sp. DSE1049 (GCA_003073865)","Helotiales","1485229","Cadsp1","GCA_003073865.1","-","-","-","-","","-"
-"","Calocera cornea HHB12733 (GCA_001632435)","Dacrymycetales","1353952","Calco1","GCA_001632435.1","-","-","-","-","","-"
-"","Calocera viscosa TUFC12733 (GCA_001630345)","Dacrymycetales","1330018","Calvi1","GCA_001630345.1","-","-","-","-","","-"
-"","Candida albicans 12C (GCA_000773845)","Saccharomycetales","1094981","Cand_albi_12C_V2","GCA_000773845.1","-","-","-","-","-","-"
-"","Candida albicans 19F (GCA_000775445)","Saccharomycetales","1094987","Cand_albi_19F_V2","GCA_000775445.1","-","-","-","-","-","-"
-"","Candida albicans Ca6 (GCA_000784695)","Saccharomycetales","1165368","Cand_albi_Ca6_V2","GCA_000784695.1","-","-","-","-","-","-"
-"","Candida albicans GC75 (GCA_000773735)","Saccharomycetales","1094988","Cand_albi_GC75_V1","GCA_000773735.1","-","-","-","-","-","-"
-"","Candida albicans L26 (GCA_000775455)","Saccharomycetales","1094982","Cand_albi_L26_V2","GCA_000775455.1","-","-","-","-","-","-"
-"","Candida albicans P34048 (GCA_000775465)","Saccharomycetales","1094991","Cand_albi_P34048_V1","GCA_000775465.1","-","-","-","-","-","-"
-"","Candida albicans P37005 (GCA_000773745)","Saccharomycetales","1094985","Cand_albi_P37005_V2","GCA_000773745.1","-","-","-","-","-","-"
-"","Candida albicans P37037 (GCA_000773825)","Saccharomycetales","1094992","Cand_albi_P37037_V1","GCA_000773825.1","-","-","-","-","-","-"
-"","Candida albicans P37039 (GCA_000784515)","Saccharomycetales","1094993","Cand_albi_P37039_V1","GCA_000784515.1","-","-","-","-","-","-"
-"","Candida albicans P57055 (GCA_000775505)","Saccharomycetales","1094996","Cand_albi_P57055_V1","GCA_000775505.1","-","-","-","-","-","-"
-"","Candida albicans P57072 (GCA_000773805)","Saccharomycetales","1094990","Cand_albi_P57072_V1","GCA_000773805.1","-","-","-","-","-","-"
-"","Candida albicans P60002 (GCA_000784525)","Saccharomycetales","1094986","Cand_albi_P60002_V1","GCA_000784525.1","-","-","-","-","-","-"
-"","Candida albicans P75010 (GCA_000784575)","Saccharomycetales","1094994","Cand_albi_P75010_V1","GCA_000784575.1","-","-","-","-","-","-"
-"","Candida albicans P75016 (GCA_000784595)","Saccharomycetales","1094995","Cand_albi_P75016_V1","GCA_000784595.1","-","-","-","-","-","-"
-"","Candida albicans P75063 (GCA_000775525)","Saccharomycetales","1094997","Cand_albi_P75063_V1","GCA_000775525.1","-","-","-","-","-","-"
-"","Candida albicans P76055 (GCA_000784505)","Saccharomycetales","1094998","Cand_albi_P76055_V1","GCA_000784505.1","-","-","-","-","-","-"
-"","Candida albicans P76067 (GCA_000784495)","Saccharomycetales","1094999","Cand_albi_P76067_V1","GCA_000784495.1","-","-","-","-","-","-"
-"","Candida albicans P78042 (GCA_000784615)","Saccharomycetales","1095000","Cand_albi_P78042_V1","GCA_000784615.1","-","-","-","-","-","-"
-"","Candida albicans P78048 (GCA_000773725)","Saccharomycetales","1094989","Cand_albi_P78048_V1","GCA_000773725.1","-","-","-","-","-","-"
-"","Candida albicans P87 (GCA_000774085)","Saccharomycetales","1094984","Cand_albi_P87_V2","GCA_000774085.1","-","-","-","-","-","-"
-"","Candida albicans P94015 (GCA_000773755)","Saccharomycetales","1094983","Cand_albi_P94015_V1","GCA_000773755.1","-","-","-","-","-","-"
-"","Candida albicans SC5314 (GCA_000784635)","Saccharomycetales","237561","Cand_albi_SC5314_V4","GCA_000784635.1","-","-","-","-","","-"
-"","Candida albicans SC5314 (GCA_000784655)","Saccharomycetales","237561","Cand_albi_SC5314_V3","GCA_000784655.1","-","-","-","-","-","-"
-"","Candida albicans WO-1 (GCA_000149445)","Saccharomycetales","294748","ASM14944v2","GCA_000149445.2","-","-","-","-","-","-"
-"","Candida dubliniensis CD36 (GCA_000026945)","Saccharomycetales","573826","ASM2694v1","GCA_000026945.1","-","-","-","-","-","-"
-"","Candida maltosa Xu316 (GCA_000344705)","Saccharomycetales","1245528","Cmaltosa_v01","GCA_000344705.1","-","-","-","-","-","-"
-"","Candida orthopsilosis Co 90-125 (GCA_000315875)","Saccharomycetales","1136231","ASM31587v1","GCA_000315875.1","-","-","-","-","-","-"
-"","Candida parapsilosis str. CDC317 (GCA_000182765)","Saccharomycetales","5480","ASM18276v2","GCA_000182765.2","-","-","-","-","","-"
-"","Candida tropicalis MYA-3404 (GCA_000006335)","Saccharomycetales","294747","ASM633v3","GCA_000006335.3","-","-","-","-","","-"
-"","Capronia coronata CBS 617.96 (GCA_000585585)","Chaetothyriomycetidae","1182541","Capr_coro_CBS_617_96_V1","GCA_000585585.1","-","-","-","-","","-"
-"","Capronia epimyces CBS 606.96 (GCA_000585565)","Chaetothyriomycetidae","1182542","Capr_epim_CBS_606_96_V1","GCA_000585565.1","-","-","-","-","","-"
-"","Catenaria anguillulae PL171 (GCA_002102555)","Blastocladiales","765915","Catan2","GCA_002102555.1","-","-","-","-","","-"
-"","Ceraceosorus bombacis (GCA_900000165)","","401625","Ceraceosorus_bombacis","GCA_900000165.1","-","-","-","-","-","-"
-"","Ceraceosorus guamensis str. MCA 4658 (GCA_003144195)","","1522189","Cersp1","GCA_003144195.1","-","-","-","-","","-"
-"","Ceratocystis platani str. CFO (GCA_000978885)","Microascales","88771","ASM97888v1","GCA_000978885.1","-","-","-","-","","-"
-"","Cercospora berteroae (GCA_002933655)","Capnodiales","357750","Cbert_1","GCA_002933655.1","-","-","-","-","","-"
-"","Cercospora beticola (GCA_002742065)","Capnodiales","122368","CB0940_V2","GCA_002742065.1","-","-","-","-","","-"
-"","Cercospora zeina str. CMW25467 (GCA_002844615)","Capnodiales","348901","ASM284461v1","GCA_002844615.1","-","-","-","-","","-"
-"","Chaetomium globosum CBS 148.51 (GCA_000143365)","Sordariales","306901","ASM14336v1","GCA_000143365.1","-","-","-","-","","-"
-"","Chaetomium thermophilum var. thermophilum DSM 1495 (GCA_000221225)","Sordariales","759272","CTHT_3.0","GCA_000221225.1","-","-","-","-","","-"
-"","Choanephora cucurbitarum str. KUS-F28377 (GCA_001683725)","Mucoromycotina","101091","ASM168372v1","GCA_001683725.1","-","-","-","-","","-"
-"","Cladophialophora bantiana CBS 173.52 (GCA_000835475)","Chaetothyriomycetidae","1442370","Clad_bant_CBS_173_52_V1","GCA_000835475.1","-","-","-","-","","-"
-"","Cladophialophora carrionii CBS 160.54 (GCA_000365165)","Chaetothyriomycetidae","1279043","Clad_carr_CBS_160_54_V1","GCA_000365165.2","-","-","-","-","-","-"
-"","Cladophialophora carrionii str. KSF (GCA_001700775)","Chaetothyriomycetidae","86049","ASM170077v1","GCA_001700775.1","-","-","-","-","","-"
-"","Cladophialophora immunda str. CBS 83496 (GCA_000835495)","Chaetothyriomycetidae","569365","Clad_immu_CBS83496_V1","GCA_000835495.1","-","-","-","-","","-"
-"","Cladophialophora psammophila CBS 110553 (GCA_000585535)","Chaetothyriomycetidae","1182543","Clad_psam_CBS_110553_V1","GCA_000585535.1","-","-","-","-","","-"
-"","Cladophialophora yegresii CBS 114405 (GCA_000585515)","Chaetothyriomycetidae","1182544","Clad_yegr_CBS_114405_V1","GCA_000585515.1","-","-","-","-","","-"
-"","Claviceps purpurea 20.1 (GCA_000347355)","Hypocreales","1111077","ASM34735v1","GCA_000347355.1","-","-","-","-","","-"
-"","Clavispora lusitaniae ATCC 42720 (GCA_000003835)","Saccharomycetales","306902","ASM383v1","GCA_000003835.1","-","-","-","-","","-"
-"","Clavispora lusitaniae str. CBS 6936 (GCA_001673695)","Saccharomycetales","36911","ASM167369v2","GCA_001673695.2","-","-","-","-","-","-"
-"","Clohesyomyces aquaticus str. CBS 115471 (GCA_002105025)","Pleosporales","1231657","Cloaq1","GCA_002105025.1","-","-","-","-","","-"
-"","Coccidioides immitis H538.4 (GCA_000149815)","Onygenales","396776","ASM14981v1","GCA_000149815.1","-","-","-","-","","-"
-"","Coccidioides immitis RMSCC 2394 (GCA_000149895)","Onygenales","404692","ASM14989v1","GCA_000149895.1","-","-","-","-","-","-"
-"","Coccidioides immitis RMSCC 3703 (GCA_000150085)","Onygenales","454286","ASM15008v1","GCA_000150085.1","-","-","-","-","-","-"
-"","Coccidioides immitis RS (GCA_000149335)","Onygenales","246410","ASM14933v2","GCA_000149335.2","-","-","-","-","-","-"
-"","Coccidioides posadasii C735 delta SOWgp (GCA_000151335)","Onygenales","222929","JCVI-cpa1-1.0","GCA_000151335.1","-","-","-","-","-","-"
-"","Coccidioides posadasii RMSCC 3488 (GCA_000150055)","Onygenales","454284","ASM15005v1","GCA_000150055.1","-","-","-","-","-","-"
-"","Coccidioides posadasii str. Silveira (GCA_000170175)","Onygenales","443226","CPS2","GCA_000170175.2","-","-","-","-","","-"
-"","Colletotrichum chlorophyti str. NTL11 (GCA_001937105)","Glomerellales","708187","ASM193710v1","GCA_001937105.1","-","-","-","-","-","-"
-"","Colletotrichum fioriniae PJ7 (GCA_000582985)","Glomerellales","1445577","CFIO01","GCA_000582985.1","-","-","-","-","-","-"
-"","Colletotrichum gloeosporioides","Glomerellales","1213859","GCA_000319635.1","GCA_000319635.1","-","-","-","","","-"
-"","Colletotrichum gloeosporioides Cg-14 (GCA_000446055)","Glomerellales","1237896","Colletotrichum_gloeosporioides1","GCA_000446055.1","-","-","-","-","-","-"
-"","Colletotrichum graminicola","Glomerellales","645133","C_graminicola_M1_001_V1","GCA_000149035.1","-","-","-","","","-"
-"","Colletotrichum higginsianum","Glomerellales","80884","GCA_000313795.2","GCA_000313795.2","-","-","-","","","-"
-"","Colletotrichum higginsianum IMI 349063 (GCA_001672515)","Glomerellales","759273","ASM167251v1","GCA_001672515.1","-","-","-","-","-","-"
-"","Colletotrichum incanum str. MAFF 238704 (GCA_001625285)","Glomerellales","1573173","Ci238704v1","GCA_001625285.1","-","-","-","-","-","-"
-"","Colletotrichum incanum str. MAFF238712 (GCA_001855235)","Glomerellales","1573173","ASM185523v1","GCA_001855235.1","-","-","-","-","-","-"
-"","Colletotrichum nymphaeae SA-01 (GCA_001563115)","Glomerellales","1460502","CNYM01","GCA_001563115.1","-","-","-","-","-","-"
-"","Colletotrichum orbiculare","Glomerellales","1213857","GCA_000350065.1","GCA_000350065.1","-","-","-","","","-"
-"","Colletotrichum orchidophilum str. IMI 309357 (GCA_001831195)","Glomerellales","1209926","CORC01","GCA_001831195.1","-","-","-","-","-","-"
-"","Colletotrichum salicis str. CBS 607.94 (GCA_001563125)","Glomerellales","1209931","CSAL01","GCA_001563125.1","-","-","-","-","-","-"
-"","Colletotrichum simmondsii str. CBS122122 (GCA_001563135)","Glomerellales","703756","CSIM01","GCA_001563135.1","-","-","-","-","-","-"
-"","Colletotrichum sublineola str. TX430BB (GCA_000696135)","Glomerellales","1173701","ASM69613v1","GCA_000696135.1","-","-","-","-","-","-"
-"","Colletotrichum tofieldiae str. 0861 (GCA_001625265)","Glomerellales","708197","Ct0861v1","GCA_001625265.1","-","-","-","-","-","-"
-"","Conidiobolus coronatus NRRL 28638 (GCA_001566745)","","796925","Conidiobolus_coronatus_NRRL28638","GCA_001566745.1","-","-","-","-","","-"
-"","Coniella lustricola str. B22-T-1 (GCA_003019895)","Sordariomycetidae","2025994","Coniella_lustricola_v1.0","GCA_003019895.1","-","-","-","-","","-"
-"","Coniochaeta ligniaria NRRL 30616 (GCA_001879275)","Sordariomycetidae","1408157","Conlig_v1.0","GCA_001879275.1","-","-","-","-","","-"
-"","Coniophora puteana RWD-64-598 SS2 (GCA_000271625)","Boletales","741705","Conpu1","GCA_000271625.1","-","-","-","-","","-"
-"","Coniosporium apollinis CBS 100218 str. CBS 352.97 (GCA_000281105)","","1168221","Coni_apol_CBS100218__V1","GCA_000281105.1","-","-","-","-","","-"
-"","Coprinopsis cinerea okayama7#130 (GCA_000182895)","Agaricales","240176","CC3","GCA_000182895.1","-","-","-","-","","-"
-"","Cordyceps brongniartii RCEF 3172 (GCA_001636735)","Hypocreales","1081107","BBO_1.0","GCA_001636735.1","-","-","-","-","","-"
-"","Cordyceps confragosa RCEF 1005 (GCA_001636795)","Hypocreales","1081108","LEL_1.0","GCA_001636795.1","-","-","-","-","","-"
-"","Cordyceps confragosa str. UM487 (GCA_001653215)","Hypocreales","1105325","ASM165321v1","GCA_001653215.1","-","-","-","-","-","-"
-"","Cordyceps fumosorosea ARSEF 2679 (GCA_001636725)","Hypocreales","1081104","ISF_1.0","GCA_001636725.1","-","-","-","-","","-"
-"","Cordyceps militaris CM01 (GCA_000225605)","Hypocreales","983644","CmilitarisCM01_v01","GCA_000225605.1","-","-","-","-","","-"
-"","Cordyceps sp. RAO-2017 (GCA_002591385)","Hypocreales","2004951","Hirsu2","GCA_002591385.1","-","-","-","-","","-"
-"","Corynespora cassiicola Philippines (GCA_003016335)","Pleosporales","1448308","Corynespora_cassiicola_v1.0","GCA_003016335.1","-","-","-","-","","-"
-"","Cryptococcus amylolentus CBS 6039 (GCA_001720205)","Tremellales","1295533","Cryp_amyl_CBS6039_V3","GCA_001720205.1","-","-","-","-","","-"
-"","Cryptococcus amylolentus CBS 6273 (GCA_001720235)","Tremellales","1296118","Cryp_amyl_CBS6273_V2","GCA_001720235.1","-","-","-","-","-","-"
-"","Cryptococcus depauperatus CBS 7841 (GCA_001720195)","Tremellales","1295531","Filo_depa_CBS7841_V1","GCA_001720195.1","-","-","-","-","","-"
-"","Cryptococcus depauperatus CBS 7855 (GCA_001720245)","Tremellales","1295532","Filo_depa_CBS7855_V2","GCA_001720245.1","-","-","-","-","-","-"
-"","Cryptococcus gattii CA1280 (GCA_000836335)","Tremellales","1296109","Cryp_gatt_CA1280_V1","GCA_000836335.1","-","-","-","-","-","-"
-"","Cryptococcus gattii CA1873 (GCA_000855695)","Tremellales","1296111","Cryp_gatt_CA1873_V1","GCA_000855695.1","-","-","-","-","-","-"
-"","Cryptococcus gattii E566 (GCA_000875815)","Tremellales","1296102","Cryp_gatt_E566_V1","GCA_000875815.1","-","-","-","-","-","-"
-"","Cryptococcus gattii EJB2 (GCA_000835745)","Tremellales","1296103","Cryp_gatt_EJB2_V1","GCA_000835745.1","-","-","-","-","-","-"
-"","Cryptococcus gattii NT-10 (GCA_000935105)","Tremellales","1296108","Cryp_gatt_NT-10_V1","GCA_000935105.1","-","-","-","-","-","-"
-"","Cryptococcus gattii Ru294 (GCA_000836355)","Tremellales","1296112","Cryp_gatt_Ru294_V1","GCA_000836355.1","-","-","-","-","-","-"
-"","Cryptococcus gattii VGII 2001/935-1 (GCA_000835815)","Tremellales","1334442","Cryp_gatt_2001_935-1_V1","GCA_000835815.1","-","-","-","-","-","-"
-"","Cryptococcus gattii VGII 99/473 (GCA_000836455)","Tremellales","1296104","Cryp_gatt_99_473_V1","GCA_000836455.1","-","-","-","-","-","-"
-"","Cryptococcus gattii VGII CA1014 (GCA_000875795)","Tremellales","1296107","Cryp_gatt_CA1014_V1","GCA_000875795.1","-","-","-","-","-","-"
-"","Cryptococcus gattii VGII CBS 10090 (GCA_000835765)","Tremellales","1296101","Cryp_gatt_CBS10090_V1","GCA_000835765.1","-","-","-","-","-","-"
-"","Cryptococcus gattii VGII LA55 (GCA_000836315)","Tremellales","1296106","Cryp_gatt_LA55_V1","GCA_000836315.1","-","-","-","-","-","-"
-"","Cryptococcus gattii VGII MMRL2647 (GCA_000875855)","Tremellales","1296117","Cryp_gatt_MMRL2647_V2","GCA_000875855.1","-","-","-","-","-","-"
-"","Cryptococcus gattii VGII R265 (GCA_000149475)","Tremellales","294750","CNB2","GCA_000149475.3","-","-","-","-","-","-"
-"","Cryptococcus gattii VGII Ram5 (GCA_000836375)","Tremellales","1296110","Cryp_gatt_Ram5_V1","GCA_000836375.1","-","-","-","-","-","-"
-"","Cryptococcus gattii VGIV IND107 (GCA_000835755)","Tremellales","1296105","Cryp_gatt_IND107_V2","GCA_000835755.1","-","-","-","-","-","-"
-"","Cryptococcus gattii WM276 (GCA_000185945)","Tremellales","367775","ASM18594v1","GCA_000185945.1","-","-","-","-","","-"
-"","Cryptococcus neoformans var. grubii 125.91 (GCA_002215885)","Tremellales","1230079","Cryp_neof_125_91_V1","GCA_002215885.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii A1-35-8 (GCA_002221985)","Tremellales","1230081","Cryp_neof_grubii_A1-35-8_V1","GCA_002221985.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii A2-102-5 (GCA_002222375)","Tremellales","1230057","Cryp_neof_A2_102_5_V1","GCA_002222375.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii A5-35-17 (GCA_002222215)","Tremellales","1230080","Cryp_neof_grubii_A5-35-17_V1","GCA_002222215.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii AD1-7a (GCA_002220445)","Tremellales","1230056","Cryp_neof_AD1_7a_V1","GCA_002220445.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii AD1-83a (GCA_002215765)","Tremellales","1230065","Cryp_neof_AD1_83a_V1","GCA_002215765.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii AD2-60a (GCA_002215775)","Tremellales","1230059","Cryp_neof_AD2_60a_V1","GCA_002215775.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Br795 (GCA_002222225)","Tremellales","1230061","Cryp_neof_Br795_V1","GCA_002222225.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Bt1 (GCA_002215705)","Tremellales","1230073","Cryp_neof_Bt1_V1","GCA_002215705.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Bt120 (GCA_002222465)","Tremellales","1230070","Cryp_neof_Bt120_V1","GCA_002222465.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Bt15 (GCA_002222335)","Tremellales","1230071","Cryp_neof_Bt15_V1","GCA_002222335.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Bt63 (GCA_002234625)","Tremellales","1230075","Cryp_neof_Bt63_V1","GCA_002234625.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Bt85 (GCA_002215835)","Tremellales","1230076","Cryp_neof_Bt85_V1","GCA_002215835.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii C23 (GCA_002215825)","Tremellales","1230055","Cryp_neof_C23_V1","GCA_002215825.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii CHC193 (GCA_002222295)","Tremellales","1230064","Cryp_neof_CHC193_V1","GCA_002222295.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii D17-1 (GCA_002222255)","Tremellales","1230058","Cryp_neof_D17_1_V1","GCA_002222255.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Gb118 (GCA_002224005)","Tremellales","1230060","Cryp_neof_Gb118_V1","GCA_002224005.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii H99 (GCA_000149245)","Tremellales","235443","CNA3","GCA_000149245.3","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii MW-RSA1955 (GCA_002222455)","Tremellales","1230066","Cryp_neof_MW_RSA1955_V1","GCA_002222455.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii MW-RSA36 (GCA_002222395)","Tremellales","1230062","Cryp_neof_MW_RSA36_V1","GCA_002222395.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii MW-RSA852 (GCA_002220035)","Tremellales","1230069","Cryp_neof_MW_RSA852_V1","GCA_002220035.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Th84 (GCA_002222315)","Tremellales","1230067","Cryp_neof_Th84_V1","GCA_002222315.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Tu259-1 (GCA_002222325)","Tremellales","1230072","Cryp_neof_Tu259_1_V1","GCA_002222325.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Tu401-1 (GCA_002222475)","Tremellales","1230077","Cryp_neof_Tu401_1_V1","GCA_002222475.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii Ze90-1 (GCA_002222385)","Tremellales","1230078","Cryp_neof_Ze90_1_V1","GCA_002222385.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii c45 (GCA_002215855)","Tremellales","1230068","Cryp_neof_C45_V1","GCA_002215855.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii c8 (GCA_002222405)","Tremellales","1230063","Cryp_neof_C8_V1","GCA_002222405.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. CCTP51 (GCA_002217545)","Tremellales","178876","Cryp_neof_grubii_cng10_V1","GCA_002217545.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. CM20 (GCA_002222115)","Tremellales","178876","Cryp_neof_grubii_cng5_V1","GCA_002222115.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. CM24 (GCA_002222145)","Tremellales","178876","Cryp_neof_grubii_cng6_V1","GCA_002222145.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. CM36 (GCA_002222245)","Tremellales","178876","Cryp_neof_grubii_cng2_V1","GCA_002222245.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. CM50 (GCA_002222135)","Tremellales","178876","Cryp_neof_grubii_cng1_V1","GCA_002222135.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. CM52 (GCA_002222165)","Tremellales","178876","Cryp_neof_grubii_cng3_V1","GCA_002222165.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. CM64 (GCA_002222025)","Tremellales","178876","Cryp_neof_grubii_cng4_V1","GCA_002222025.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. KN99 (GCA_002216725)","Tremellales","178876","ASM221672v1","GCA_002216725.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. RCT21 (GCA_002222155)","Tremellales","178876","Cryp_neof_grubii_cng11_V1","GCA_002222155.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. RCT54 (GCA_002222015)","Tremellales","178876","Cryp_neof_grubii_cng8_V1","GCA_002222015.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. RCT6 (GCA_002222095)","Tremellales","178876","Cryp_neof_grubii_cng7_V1","GCA_002222095.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. V2 (GCA_002215755)","Tremellales","178876","Cneo_seroA_V2","GCA_002215755.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. grubii str. WM-1408 (GCA_002220045)","Tremellales","178876","Cneo_seroA_WM1408","GCA_002220045.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. neoformans B-3501A (GCA_000149385)","Tremellales","283643","ASM14938v1","GCA_000149385.1","-","-","-","-","-","-"
-"","Cryptococcus neoformans var. neoformans JEC21","Tremellales","214684","ASM9104v1","GCA_000091045.1","-","-","-","-","","-"
-"","Cutaneotrichosporon oleaginosum str. IBC0246 (GCA_001027345)","","879819","Triol1","GCA_001027345.1","-","-","-","-","","-"
-"","Cyberlindnera fabianii str. 65 (GCA_001983305)","Saccharomycetales","36022","ASM198330v1","GCA_001983305.1","-","-","-","-","-","-"
-"","Cyberlindnera fabianii str. YJS4271 (GCA_003205855)","Saccharomycetales","36022","ASM320585v1","GCA_003205855.1","-","-","-","-","","-"
-"","Cyberlindnera jadinii NRRL Y-1542 (GCA_001661405)","Saccharomycetales","983966","Cybja1","GCA_001661405.1","-","-","-","-","-","-"
-"","Cyberlindnera jadinii str. CBS1600 (GCA_001245095)","Saccharomycetales","4903","cj1","GCA_001245095.1","-","-","-","-","","-"
-"","Cylindrobasidium torrendii FP15055 ss-10 (GCA_000934385)","Agaricales","1314674","Cylto1","GCA_000934385.1","-","-","-","-","","-"
-"","Cyphellophora europaea CBS 101466 (GCA_000365145)","Chaetothyriomycetidae","1220924","Phia_euro_CBS_101466_V1","GCA_000365145.2","-","-","-","-","","-"
-"","Dacryopinax primogenitus str. DJM-731 SS1 (GCA_000292625)","Dacrymycetales","1858805","Dacryopinax_sp._DJM_731_SSP1_v1.0","GCA_000292625.1","-","-","-","-","","-"
-"","Dactylellina haptotyla CBS 200.50 (GCA_000441935)","Orbiliales","1284197","MHA_v2","GCA_000441935.1","-","-","-","-","","-"
-"","Daedalea quercina L-15889 (GCA_001632345)","Polyporales","1314783","Daequ1","GCA_001632345.1","-","-","-","-","","-"
-"","Daldinia sp. EC12 (GCA_002120325)","Xylariales","1001832","DalEC12_v.1.0","GCA_002120325.1","-","-","-","-","","-"
-"","Debaryomyces fabryi str. CBS 789 (GCA_001447935)","Saccharomycetales","58627","debFab1.0","GCA_001447935.1","-","-","-","-","","-"
-"","Debaryomyces hansenii CBS767 (GCA_000006445)","Saccharomycetales","284592","ASM644v2","GCA_000006445.2","-","-","-","-","","-"
-"","Diaporthe ampelina (GCA_001006365)","Sordariomycetidae","1214573","UCDDA912v1.0","GCA_001006365.1","-","-","-","-","","-"
-"","Diaporthe helianthi str. 7/96 (GCA_001702395)","Sordariomycetidae","158607","DHEL01v2","GCA_001702395.2","-","-","-","-","","-"
-"","Dichomitus squalens LYAD-421 SS1 (GCA_000275845)","Polyporales","732165","Dichomitus_squalens_v1.0","GCA_000275845.1","-","-","-","-","","-"
-"","Diplocarpon rosae (GCA_002317995)","Helotiales","946125","ASM231799v1","GCA_002317995.1","-","-","-","-","","-"
-"","Diplodia corticola str. CBS 112549 (GCA_001883845)","Botryosphaeriales","236234","ASM188384v1","GCA_001883845.1","-","-","-","-","","-"
-"","Diplodia seriata (GCA_001006355)","Botryosphaeriales","420778","UCDDS831v0.1","GCA_001006355.1","-","-","-","-","","-"
-"","Diplodia seriata str. F98.1 (GCA_001975905)","Botryosphaeriales","420778","Dipser_v1","GCA_001975905.1","-","-","-","-","-","-"
-"","Dothistroma septosporum","Capnodiales","675120","GCA_000340195.1","GCA_000340195.1","-","-","-","","","-"
-"","Drechmeria coniospora str. ARSEF 6962 (GCA_001625195)","Hypocreales","98403","ASM162519v1","GCA_001625195.1","-","-","-","-","","-"
-"","Drechslerella stenobrocha 248 (GCA_000525045)","Orbiliales","1043628","DREv1","GCA_000525045.1","-","-","-","-","","-"
-"","Edhazardia aedis USNM 41457 (GCA_000230595)","Microsporidia","1003232","Edha_aedis_V4b","GCA_000230595.3","-","-","-","-","","-"
-"","Elaphomyces granulatus str. OSC145934 (GCA_002240705)","Eurotiales","519963","PX439","GCA_002240705.1","-","-","-","-","","-"
-"","Elsinoe australis str. NL1 (GCA_003013795)","","40998","ASM301379v1","GCA_003013795.1","-","-","-","-","","-"
-"","Emergomyces pasteuriana Ep9510 str. UAMH 9510 (GCA_001883825)","Onygenales","1447872","Emmo_past_UAMH9510_V1","GCA_001883825.1","-","-","-","-","","-"
-"","Emmonsia crescens UAMH 3008 (GCA_001008285)","Onygenales","1247875","ASM100828v1","GCA_001008285.1","-","-","-","-","","-"
-"","Emmonsia crescens str. UAMH4076 (GCA_002572855)","Onygenales","73230","Emmon_cres_4076_V1","GCA_002572855.1","-","-","-","-","-","-"
-"","Emmonsia parva UAMH 139 (GCA_001014755)","Onygenales","2060906","ASM101475v1","GCA_001014755.1","-","-","-","-","","-"
-"","Emmonsia parva str. UAMH130 (GCA_002572885)","Onygenales","2060905","Emmon_parv_130","GCA_002572885.1","-","-","-","-","-","-"
-"","Emmonsia sp. CAC-2015a str. CBS 136260 (GCA_001660665)","Onygenales","1658172","Emmo_afri_EA111","GCA_001660665.1","-","-","-","-","","-"
-"","Encephalitozoon cuniculi EcunIII-L (GCA_001078035)","Unikaryonidae","1355160","ECIIIL","GCA_001078035.1","-","-","-","-","-","-"
-"","Encephalitozoon hellem ATCC 50504 (GCA_000277815)","Unikaryonidae","907965","ASM27781v3","GCA_000277815.3","-","-","-","-","-","-"
-"","Encephalitozoon intestinalis ATCC 50506 (GCA_000146465)","Unikaryonidae","876142","ASM14646v1","GCA_000146465.1","-","-","-","-","-","-"
-"","Encephalitozoon romaleae SJ-2008 (GCA_000280035)","Unikaryonidae","1178016","ASM28003v2","GCA_000280035.2","-","-","-","-","-","-"
-"","Endocarpon pusillum Z07020 (GCA_000464535)","Verrucariales","1263415","EPUS","GCA_000464535.1","-","-","-","-","","-"
-"","Enterocytozoon bieneusi H348 (GCA_000209485)","Microsporidia","481877","ASM20948v1","GCA_000209485.1","-","-","-","-","","-"
-"","Enterocytozoon hepatopenaei str. TH1 (GCA_002081675)","Microsporidia","646526","ASM208167v1","GCA_002081675.1","-","-","-","-","","-"
-"","Enterospora canceri str. GB1 (GCA_002087915)","Microsporidia","1081671","ASM208791v1","GCA_002087915.1","-","-","-","-","","-"
-"","Epicoccum nigrum str. ICMP 19927 (GCA_002116315)","Pleosporales","105696","ASM211631v1","GCA_002116315.1","-","-","-","-","","-"
-"","Eremothecium cymbalariae DBVPG#7215 (GCA_000235365)","Saccharomycetales","931890","ASM23536v1","GCA_000235365.1","-","-","-","-","","-"
-"","Eremothecium gossypii FDAG1 (GCA_000968835)","Saccharomycetales","1034331","ASM96883v1","GCA_000968835.1","-","-","-","-","","-"
-"","Erysiphe necator (GCA_000798715)","Erysiphales","52586","ASM79871v1","GCA_000798715.1","-","-","-","-","","-"
-"","Erysiphe pulchra (GCA_002918395)","Erysiphales","225359","ASM291839v1","GCA_002918395.1","-","-","-","-","","-"
-"","Escovopsis weberi (GCA_001278495)","Hypocreales","150374","ASM127849v1","GCA_001278495.1","-","-","-","-","","-"
-"","Eutypa lata UCREL1 (GCA_000349385)","Xylariales","1287681","UCREL1V03","GCA_000349385.1","-","-","-","-","","-"
-"","Exidia glandulosa HHB12029 (GCA_001632375)","","1314781","Exigl1","GCA_001632375.1","-","-","-","-","","-"
-"","Exophiala aquamarina CBS 119918 (GCA_000709125)","Chaetothyriomycetidae","1182545","Exop_aqua_CBS_119918_V1","GCA_000709125.1","-","-","-","-","","-"
-"","Exophiala dermatitidis NIH/UT8656 (GCA_000230625)","Chaetothyriomycetidae","858893","Exop_derm_V1","GCA_000230625.1","-","-","-","-","","-"
-"","Exophiala mesophila str. CBS 40295 (GCA_000836275)","Chaetothyriomycetidae","212818","Exop_meso_CBS40295_V1","GCA_000836275.1","-","-","-","-","","-"
-"","Exophiala oligosperma str. CBS 72588 (GCA_000835515)","Chaetothyriomycetidae","215243","Exop_olig_CBS72588_V1","GCA_000835515.1","-","-","-","-","","-"
-"","Exophiala sideris str. CBS 121828 (GCA_000835395)","Chaetothyriomycetidae","1016849","Exop_side_CBS121828_V1","GCA_000835395.1","-","-","-","-","","-"
-"","Exophiala spinifera str. CBS 89968 (GCA_000836115)","Chaetothyriomycetidae","91928","Exop_spin_CBS89968_V1","GCA_000836115.1","-","-","-","-","","-"
-"","Exophiala xenobiotica str. CBS 118157 (GCA_000835505)","Chaetothyriomycetidae","348802","Exop_xeno_CBS118157_V1","GCA_000835505.1","-","-","-","-","","-"
-"","Exserohilum turcica Et28A (GCA_000359705)","Pleosporales","671987","Setospaeria_trucica_Et28A_v1.0","GCA_000359705.1","-","-","-","-","","-"
-"","Fibroporia radiculosa str. TFFH 294 (GCA_000313525)","Polyporales","599839","ASM31352v1","GCA_000313525.1","-","-","-","-","","-"
-"","Fibularhizoctonia sp. CBS 109695 (GCA_001630335)","Atheliales","436010","Fibsp1","GCA_001630335.1","-","-","-","-","","-"
-"","Fistulina hepatica ATCC 64428 (GCA_000934395)","Agaricales","1128425","Fishe1","GCA_000934395.1","-","-","-","-","","-"
-"","Fomitiporia mediterranea MF3/22 (GCA_000271605)","Hymenochaetales","694068","Fomme1","GCA_000271605.1","-","-","-","-","","-"
-"","Fomitopsis pinicola FP-58527 SS1 (GCA_000344655)","Polyporales","743788","Fompi3","GCA_000344655.2","-","-","-","-","","-"
-"","Fonsecaea erecta (GCA_001651985)","Chaetothyriomycetidae","1367422","ASM165198v1","GCA_001651985.1","-","-","-","-","","-"
-"","Fonsecaea monophora (GCA_001642475)","Chaetothyriomycetidae","254056","ASM164247v1","GCA_001642475.1","-","-","-","-","","-"
-"","Fonsecaea multimorphosa (GCA_001646985)","Chaetothyriomycetidae","979981","ASM164698v1","GCA_001646985.1","-","-","-","-","-","-"
-"","Fonsecaea multimorphosa CBS 102226 (GCA_000836435)","Chaetothyriomycetidae","1442371","Fons_mult_CBS_102226_V1","GCA_000836435.1","-","-","-","-","","-"
-"","Fonsecaea nubica (GCA_001646965)","Chaetothyriomycetidae","856822","ASM164696v1","GCA_001646965.1","-","-","-","-","","-"
-"","Fonsecaea pedrosoi CBS 271.37 (GCA_000835455)","Chaetothyriomycetidae","1442368","Fons_pedr_CBS_271_37_V1","GCA_000835455.1","-","-","-","-","","-"
-"","Fusarium culmorum UK99","Hypocreales","1318462","EF1","GCA_900074845.1","-","-","-","","","-"
-"","Fusarium fujikuroi","Hypocreales","5127","EF1","GCA_000315255.1","-","-","-","","","-"
-"","Fusarium fujikuroi (GCA_001023035)","Hypocreales","5127","ASM102303v1","GCA_001023035.1","-","-","-","-","-","-"
-"","Fusarium fujikuroi (GCA_001023045)","Hypocreales","5127","ASM102304v1","GCA_001023045.1","-","-","-","-","-","-"
-"","Fusarium fujikuroi (GCA_001023065)","Hypocreales","5127","ASM102306v1","GCA_001023065.1","-","-","-","-","-","-"
-"","Fusarium fujikuroi (GCA_900096505)","Hypocreales","5127","version_1","GCA_900096505.1","-","-","-","-","-","-"
-"","Fusarium fujikuroi (GCA_900096685)","Hypocreales","5127","version_1","GCA_900096685.1","-","-","-","-","-","-"
-"","Fusarium fujikuroi (GCA_900096705)","Hypocreales","5127","version_1","GCA_900096705.1","-","-","-","-","-","-"
-"","Fusarium graminearum PH-1 (GCA_000240135)","Hypocreales","229533","ASM24013v3","GCA_000240135.3","-","-","-","-","-","-"
-"","Fusarium graminearum str. CS3005 (GCA_000599445)","Hypocreales","5518","CS3005v1","GCA_000599445.1","-","-","-","-","","-"
-"","Fusarium graminearum str. PH-1","Hypocreales","5518","RR1","GCA_900044135.1","","-","-","","-","-"
-"","Fusarium langsethiae str. Fl201059 (GCA_001292635)","Hypocreales","179993","ASM129263v1","GCA_001292635.1","-","-","-","-","-","-"
-"","Fusarium mangiferae (GCA_900044065)","Hypocreales","192010","Genome_assembly_version_1","GCA_900044065.1","-","-","-","-","-","-"
-"","Fusarium nygamai (GCA_002894225)","Hypocreales","42673","CS10214v1","GCA_002894225.1","-","-","-","-","-","-"
-"","Fusarium oxysporum","Hypocreales","426428","FO2","GCA_000222805.1","","-","","","","-"
-"","Fusarium oxysporum (GCA_900096695)","Hypocreales","5507","version_1","GCA_900096695.1","-","-","-","-","-","-"
-"","Fusarium oxysporum FOSC 3-a (GCA_000271745)","Hypocreales","909455","FO_FOSC_3_a_V1","GCA_000271745.2","-","-","-","-","-","-"
-"","Fusarium oxysporum Fo47 (GCA_000271705)","Hypocreales","660027","FO_Fo47_V1","GCA_000271705.2","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. conglutinans race 2 54008 str. 54008 (PHW808) (GCA_000260215)","Hypocreales","1089457","FO_PHW808_V1","GCA_000260215.2","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. cubense race 1 (GCA_000350345)","Hypocreales","1229664","Foc1_1.0","GCA_000350345.1","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. cubense race 4 (GCA_000350365)","Hypocreales","1229665","Foc4_1.0","GCA_000350365.1","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. cubense tropical race 4 54006 str. 54006 (II5) (GCA_000260195)","Hypocreales","1089451","FO_II5_V1","GCA_000260195.2","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. lycopersici 4287 (GCA_000149955)","Hypocreales","426428","ASM14995v2","GCA_000149955.2","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. lycopersici MN25 (GCA_000259975)","Hypocreales","1080343","FO_MN25_V1","GCA_000259975.2","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. melonis 26406 str. 26406 (melonis) (GCA_000260495)","Hypocreales","1089452","FO_melonis_V1","GCA_000260495.2","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. pisi HDV247 (GCA_000260075)","Hypocreales","1080344","FO_HDV247_V1","GCA_000260075.2","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. radicis-cucumerinum (GCA_001702695)","Hypocreales","327505","ASM170269v2","GCA_001702695.2","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. radicis-lycopersici 26381 str. 26381 (CL57) (GCA_000260155)","Hypocreales","1089448","FO_CL57_V1","GCA_000260155.3","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. raphani 54005 (GCA_000260235)","Hypocreales","1089458","FO_PHW815_V1","GCA_000260235.2","-","-","-","-","-","-"
-"","Fusarium oxysporum f. sp. vasinfectum 25433 str. 25433 (Cotton) (GCA_000260175)","Hypocreales","1089449","FO_Cotton_V1","GCA_000260175.2","-","-","-","-","-","-"
-"","Fusarium poae (GCA_001675295)","Hypocreales","36050","FPOA1.0","GCA_001675295.1","-","-","-","-","-","-"
-"","Fusarium proliferatum (GCA_900029915)","Hypocreales","948311","F._proliferatum_NRRL62905_version_1","GCA_900029915.1","-","-","-","-","-","-"
-"","Fusarium proliferatum ET1 (GCA_900067095)","Hypocreales","1227346","F._proliferatum_ET1_version_1","GCA_900067095.1","-","-","-","-","-","-"
-"","Fusarium pseudograminearum","Hypocreales","1028729","GCA_000303195.1","GCA_000303195.1","-","-","-","","","-"
-"","Fusarium solani","Hypocreales","660122","v2.0","GCA_000151355.1","-","-","","","","-"
-"","Fusarium venenatum (GCA_900007375)","Hypocreales","56646","ASM90000737v1","GCA_900007375.1","-","-","-","-","-","-"
-"","Fusarium verticillioides","Hypocreales","334819","ASM14955v1","GCA_000149555.1","-","-","","","","-"
-"","Gaeumannomyces tritici R3-111a-1","Magnaporthales","644352","Gae_graminis_V2","GCA_000145635.1","-","-","-","-","","-"
-"","Galerina marginata CBS 339.88 (GCA_000697645)","Agaricales","685588","Galma1","GCA_000697645.1","-","-","-","-","","-"
-"","Ganoderma sinense ZZ0214-1 (GCA_002760635)","Polyporales","1077348","GanSi1.6","GCA_002760635.1","-","-","-","-","","-"
-"","Gelatoporia subvermispora B (GCA_000320605)","Polyporales","914234","Ceriporiopsis_subvermispora_B_v1.0","GCA_000320605.2","-","-","-","-","","-"
-"","Glarea lozoyensis ATCC 20868 str. 1224 (GCA_000409485)","Helotiales","1116229","GLAREA","GCA_000409485.1","-","-","-","-","","-"
-"","Gloeophyllum trabeum ATCC 11539 (GCA_000344685)","Gloeophyllales","670483","Glotr1_1","GCA_000344685.1","-","-","-","-","","-"
-"","Gonapodya prolifera JEL478 (GCA_001574975)","","1344416","Ganpr1","GCA_001574975.1","-","-","-","-","","-"
-"","Grifola frondosa str. 9006-11 (GCA_001683735)","Agaricales","5627","ASM168373v1","GCA_001683735.1","-","-","-","-","","-"
-"","Grosmannia clavigera kw1407 (GCA_000143105)","Ophiostomatales","655863","Sanger-454-IlluminaPA_2.0","GCA_000143105.2","-","-","-","-","","-"
-"","Gymnopus luxurians FD-317 M1 (GCA_000827265)","Agaricales","944289","Gymlu1","GCA_000827265.1","-","-","-","-","","-"
-"","Hanseniaspora guilliermondii (GCA_900119595)","Saccharomycetales","56406","version_1","GCA_900119595.1","-","-","-","-","","-"
-"","Hanseniaspora opuntiae (GCA_001749795)","Saccharomycetales","211096","ASM174979v1","GCA_001749795.1","-","-","-","-","","-"
-"","Hanseniaspora osmophila (GCA_001747045)","Saccharomycetales","56408","ASM174704v1","GCA_001747045.1","-","-","-","-","","-"
-"","Hanseniaspora uvarum (GCA_001747055)","Saccharomycetales","29833","ASM174705v1","GCA_001747055.1","-","-","-","-","-","-"
-"","Hanseniaspora uvarum DSM 2768 (GCA_000968475)","Saccharomycetales","1246595","Huva2.0","GCA_000968475.1","-","-","-","-","","-"
-"","Hanseniaspora valbyensis NRRL Y-1626 (GCA_001664025)","Saccharomycetales","766949","Hanva1_1","GCA_001664025.1","-","-","-","-","","-"
-"","Hebeloma cylindrosporum h7 (GCA_000827355)","Agaricales","686832","Hebeloma_cylindrosporum_h7_v2.0","GCA_000827355.1","-","-","-","-","","-"
-"","Helicocarpus griseus UAMH5409 (GCA_002573585)","Onygenales","1447875","Heli_gris_5409_V1","GCA_002573585.1","-","-","-","-","","-"
-"","Hepatospora eriocheir str. GB1 (GCA_002087885)","Microsporidia","1081669","ASM208788v1","GCA_002087885.1","-","-","-","-","-","-"
-"","Hepatospora eriocheir str. canceri (GCA_002087875)","Microsporidia","1081669","ASM208787v1","GCA_002087875.1","-","-","-","-","","-"
-"","Hesseltinella vesiculosa str. NRRL 3301","Mucoromycotina","101127","Hesve2","GCA_002104935.1","-","-","-","-","","-"
-"","Heterobasidion irregulare TC 32-1 (GCA_000320585)","Russulales","747525","Heterobasidion_irregulare_v2.0","GCA_000320585.2","-","-","-","-","","-"
-"","Hirsutella minnesotensis 3608 (GCA_000956045)","Hypocreales","1043627","ASM95604v1","GCA_000956045.1","-","-","-","-","","-"
-"","Histoplasma capsulatum G186AR (GCA_000150115)","Onygenales","447093","ASM15011v1","GCA_000150115.1","-","-","-","-","-","-"
-"","Histoplasma capsulatum H143 (GCA_000151035)","Onygenales","544712","ASM15103v1","GCA_000151035.1","-","-","-","-","-","-"
-"","Histoplasma capsulatum H88 (GCA_000151005)","Onygenales","544711","ASM15100v2","GCA_000151005.2","-","-","-","-","-","-"
-"","Histoplasma capsulatum NAm1 (GCA_000149585)","Onygenales","339724","ASM14958v1","GCA_000149585.1","-","-","-","-","","-"
-"","Hortaea werneckii EXF-2000 (GCA_002127715)","Dothideales","1157616","HwerPB1","GCA_002127715.1","-","-","-","-","","-"
-"","Hydnomerulius pinastri MD-312 (GCA_000827185)","Boletales","994086","Hydpi2","GCA_000827185.1","-","-","-","-","","-"
-"","Hypholoma sublateritium FD-334 SS-4 (GCA_000827495)","Agaricales","945553","Hypsu1","GCA_000827495.1","-","-","-","-","","-"
-"","Hyphopichia burtonii NRRL Y-1933 (GCA_001661395)","Saccharomycetales","984485","Hypbu1","GCA_001661395.1","-","-","-","-","","-"
-"","Hypoxylon sp. CI-4A (GCA_002120315)","Xylariales","1001833","HypCI4A_v1.0","GCA_002120315.1","-","-","-","-","","-"
-"","Hypoxylon sp. CO27-5 (GCA_002120305)","Xylariales","1001938","HypCO275_v1.0","GCA_002120305.1","-","-","-","-","-","-"
-"","Hypoxylon sp. EC38 (GCA_002120335)","Xylariales","1001937","HypEC38_v3.0","GCA_002120335.1","-","-","-","-","-","-"
-"","Hypsizygus marmoreus str. 51987-8 (GCA_001605315)","Agaricales","39966","ASM160531v1","GCA_001605315.1","-","-","-","-","","-"
-"","Jaapia argillacea MUCL 33604 (GCA_000697665)","Jaapiales","933084","Jaaar1","GCA_000697665.1","-","-","-","-","","-"
-"","Jaminaea rosea str. MCA 5214 (GCA_003144245)","","1569628","Jamsp1","GCA_003144245.1","-","-","-","-","","-"
-"","Kalmanozyma brasiliensis GHG001 (GCA_000497045)","Ustilaginales","1365824","PSEUBRA1","GCA_000497045.1","-","-","-","-","","-"
-"","Kazachstania africana CBS 2517 (GCA_000304475)","Saccharomycetales","1071382","Ka_CBS2517","GCA_000304475.1","-","-","-","-","","-"
-"","Kazachstania naganishii CBS 8797 (GCA_000348985)","Saccharomycetales","1071383","ASM34898v1","GCA_000348985.1","-","-","-","-","","-"
-"","Kluyveromyces dobzhanskii CBS 2104 str. CBS2104 (GCA_000820885)","Saccharomycetales","1427455","KLDO_01","GCA_000820885.1","-","-","-","-","","-"
-"","Kluyveromyces lactis str. NRRL Y-1140 (GCA_000002515)","Saccharomycetales","28985","ASM251v1","GCA_000002515.1","-","-","-","-","","-"
-"","Kluyveromyces marxianus DMKU3-1042 (GCA_001417885)","Saccharomycetales","1003335","Kmar_1.0","GCA_001417885.1","-","-","-","-","","-"
-"","Kluyveromyces marxianus str. NBRC 1777 (GCA_001417835)","Saccharomycetales","4911","KM1777_03","GCA_001417835.1","-","-","-","-","-","-"
-"","Kockovaella imperatae str. NRRL Y-17943 (GCA_002102565)","Tremellales","4999","Kocim1","GCA_002102565.1","-","-","-","-","","-"
-"","Komagataella pastoris","Saccharomycetales","644223","GCA_000027005.1","GCA_000027005.1","-","-","-","","","-"
-"","Komagataella pastoris (GCA_001708105)","Saccharomycetales","4922","ASM170810v1","GCA_001708105.1","-","-","-","-","-","-"
-"","Komagataella phaffii CBS 7435 (GCA_000223565)","Saccharomycetales","981350","PicPas_Mar2011","GCA_000223565.1","-","-","-","-","-","-"
-"","Komagataella phaffii CBS 7435 (GCA_900235035)","Saccharomycetales","981350","ASM90023503v1","GCA_900235035.1","-","-","-","-","-","-"
-"","Komagataella phaffii GS115 (GCA_001746955)","Saccharomycetales","644223","ASM174695v1","GCA_001746955.1","-","-","-","-","","-"
-"","Komagataella phaffii str. WT (GCA_001708085)","Saccharomycetales","460519","ASM170808v1","GCA_001708085.1","-","-","-","-","-","-"
-"","Kuraishia capsulata CBS 1993 (GCA_000576695)","Saccharomycetales","1382522","AUH_PRJEB4427_v1","GCA_000576695.1","-","-","-","-","","-"
-"","Kwoniella bestiolae CBS 10118 (GCA_000512585)","Tremellales","1296100","Cryp_best_CBS10118_V1","GCA_000512585.2","-","-","-","-","","-"
-"","Kwoniella dejecticola CBS 10117 (GCA_000512565)","Tremellales","1296121","Cryp_deje_CBS10117_V1","GCA_000512565.2","-","-","-","-","","-"
-"","Kwoniella heveanensis BCC8398 (GCA_000507405)","Tremellales","1296120","Cryp_heve_BCC8398_V1","GCA_000507405.3","-","-","-","-","-","-"
-"","Kwoniella heveanensis CBS 569 (GCA_000507425)","Tremellales","1296119","Cryp_heve_CBS569_V2","GCA_000507425.3","-","-","-","-","-","-"
-"","Kwoniella mangroviensis CBS 10435 (GCA_000507885)","Tremellales","1331196","Kwon_mang_CBS10435_V2","GCA_000507885.2","-","-","-","-","-","-"
-"","Kwoniella mangroviensis CBS 8507 (GCA_000507465)","Tremellales","1296122","Kwon_mang_CBS8507_V2","GCA_000507465.3","-","-","-","-","-","-"
-"","Kwoniella mangroviensis CBS 8886 (GCA_000507485)","Tremellales","1296123","Kwon_mang_CBS8886_V1","GCA_000507485.3","-","-","-","-","-","-"
-"","Kwoniella pini CBS 10737 (GCA_000512605)","Tremellales","1296096","Cryp_pinu_CBS10737_V1","GCA_000512605.2","-","-","-","-","","-"
-"","Laccaria amethystina LaAM-08-1 (GCA_000827195)","Agaricales","1095629","Laccaria_amethystina_LaAM-08-1_v1.0","GCA_000827195.1","-","-","-","-","","-"
-"","Laccaria bicolor S238N-H82 (GCA_000143565)","Agaricales","486041","V1.0","GCA_000143565.1","-","-","-","-","","-"
-"","Lachancea dasiensis CBS 10888 (GCA_900074725)","Saccharomycetales","1266660","LADA0","GCA_900074725.1","-","-","-","-","","-"
-"","Lachancea fermentati (GCA_900074765)","Saccharomycetales","4955","LAFE0","GCA_900074765.1","-","-","-","-","-","-"
-"","Lachancea lanzarotensis str. CBS 12615 (GCA_000938715)","Saccharomycetales","1245769","LALA0","GCA_000938715.1","-","-","-","-","","-"
-"","Lachancea meyersii CBS 8951 (GCA_900074715)","Saccharomycetales","1266667","LAME0","GCA_900074715.1","-","-","-","-","-","-"
-"","Lachancea mirantina (GCA_900074745)","Saccharomycetales","1230905","LAMI0","GCA_900074745.1","-","-","-","-","-","-"
-"","Lachancea nothofagi CBS 11611 (GCA_900074755)","Saccharomycetales","1266666","LANO0","GCA_900074755.1","-","-","-","-","-","-"
-"","Lachancea quebecensis (GCA_002900925)","Saccharomycetales","1654605","ASM290092v1","GCA_002900925.1","-","-","-","-","-","-"
-"","Lachancea sp. CBS 6924 (GCA_900074735)","Saccharomycetales","433476","LAFA0","GCA_900074735.1","-","-","-","-","-","-"
-"","Lachancea thermotolerans CBS 6340 (GCA_000142805)","Saccharomycetales","559295","ASM14280v1","GCA_000142805.1","-","-","-","-","-","-"
-"","Laetiporus sulphureus 93-53 (GCA_001632365)","Polyporales","1314785","Laesu1","GCA_001632365.1","-","-","-","-","","-"
-"","Lentinula edodes str. G408PP-4 (GCA_002003045)","Agaricales","5353","Lened_assembly01","GCA_002003045.1","-","-","-","-","","-"
-"","Leptosphaeria maculans","Pleosporales","985895","ASM23037v1","GCA_000230375.1","-","-","-","","","-"
-"","Leucoagaricus sp. SymC.cos (GCA_001563735)","Agaricales","1714833","ASM156373v1","GCA_001563735.1","-","-","-","-","","-"
-"","Leucosporidium creatinivorum str. 62-1032 (GCA_002105055)","","106004","Leucr1","GCA_002105055.1","-","-","-","-","","-"
-"","Lichtheimia corymbifera JMRC:FSU:9682 (GCA_000723665)","Mucoromycotina","1263082","454Minimus","GCA_000723665.1","-","-","-","-","","-"
-"","Lichtheimia ramosa str. JMRC:FSU:6197 (GCA_000945115)","Mucoromycotina","688394","Lramosa_hybrid_454_Illumina","GCA_000945115.1","-","-","-","-","","-"
-"","Lipomyces starkeyi NRRL Y-11557 (GCA_001661325)","Saccharomycetales","675824","Lipst1_1","GCA_001661325.1","-","-","-","-","","-"
-"","Lobosporangium transversale str. NRRL 3116","Mortierellomycotina","64571","Lobtra1","GCA_002105155.1","-","-","-","-","","-"
-"","Lodderomyces elongisporus NRRL YB-4239 (GCA_000149685)","Saccharomycetales","379508","ASM14968v1","GCA_000149685.1","-","-","-","-","","-"
-"","Lomentospora prolificans str. JHH-5317 (GCA_002276285)","Microascales","41688","Lprolificans_pilon","GCA_002276285.1","-","-","-","-","","-"
-"","Macrophomina phaseolina MS6 (GCA_000302655)","Botryosphaeriales","1126212","MphMS6_1.0","GCA_000302655.1","-","-","-","-","","-"
-"","Madurella mycetomatis str. mm55 (GCA_001275765)","Sordariales","100816","ASM127576v2","GCA_001275765.2","-","-","-","-","","-"
-"","Magnaporthe oryzae","Magnaporthales","242507","MG8","GCA_000002495.2","-","-","","","","-"
-"","Magnaporthe poae","Magnaporthales","644358","Mag_poae_ATCC_64411_V1","GCA_000193285.1","-","-","","","","-"
-"","Malassezia globosa CBS 7966 (GCA_000181695)","Malasseziales","425265","ASM18169v1","GCA_000181695.1","-","-","-","-","","-"
-"","Malassezia pachydermatis (GCA_001278385)","Malasseziales","77020","MalaPachy","GCA_001278385.1","-","-","-","-","","-"
-"","Malassezia sympodialis ATCC 42132 (GCA_000349305)","Malasseziales","1230383","ASM34930v2","GCA_000349305.2","-","-","-","-","","-"
-"","Malassezia sympodialis ATCC 42132 (GCA_900149145)","Malasseziales","1230383","Msy_ATCC_42132_Feb2016","GCA_900149145.1","-","-","-","-","-","-"
-"","Malassezia vespertilionis str. NWHC:44797-103 (GCA_002818225)","Malasseziales","2020962","ASM281822v1","GCA_002818225.1","-","-","-","-","","-"
-"","Marssonina brunnea f. sp. 'multigermtubi' MB_m1 (GCA_000298775)","Helotiales","1072389","ASM29877v1","GCA_000298775.1","-","-","-","-","","-"
-"","Meira miltonrushii str. MCA 3882 (GCA_003144205)","","1280837","Meimi1","GCA_003144205.1","-","-","-","-","","-"
-"","Melampsora larici-populina","Pucciniales","747676","GCA_000204055.1","GCA_000204055.1","-","-","-","","","-"
-"","Meliniomyces bicolor E (GCA_002865645)","Helotiales","1095630","Melbi2","GCA_002865645.1","-","-","-","-","","-"
-"","Meliniomyces variabilis F (GCA_002865655)","Helotiales","1149755","Melva1","GCA_002865655.1","-","-","-","-","","-"
-"","Metarhizium acridum CQMa 102 (GCA_000187405)","Hypocreales","655827","MetAcr_May2010","GCA_000187405.1","-","-","-","-","","-"
-"","Metarhizium album ARSEF 1941 (GCA_000804445)","Hypocreales","1081103","MAM_1.0_for_version_1_of_the_Metarhizium_album_genome","GCA_000804445.1","-","-","-","-","","-"
-"","Metarhizium anisopliae ARSEF 549 (GCA_000814975)","Hypocreales","1276135","MAN_1.0","GCA_000814975.1","-","-","-","-","-","-"
-"","Metarhizium anisopliae BRIP 53284 (GCA_000426985)","Hypocreales","1291519","ASM42698v1","GCA_000426985.1","-","-","-","-","-","-"
-"","Metarhizium anisopliae BRIP 53293 (GCA_000426965)","Hypocreales","1291518","ASM42696v1","GCA_000426965.1","-","-","-","-","-","-"
-"","Metarhizium anisopliae str. E6 (GCA_000739145)","Hypocreales","5530","Metarhizium_anisopliae","GCA_000739145.1","-","-","-","-","-","-"
-"","Metarhizium brunneum ARSEF 3297 (GCA_000814965)","Hypocreales","1276141","MBR_1.0","GCA_000814965.1","-","-","-","-","-","-"
-"","Metarhizium guizhouense ARSEF 977 (GCA_000814955)","Hypocreales","1276136","MGU_1.0","GCA_000814955.1","-","-","-","-","-","-"
-"","Metarhizium majus ARSEF 297 (GCA_000814945)","Hypocreales","1276143","MAJ_1.0","GCA_000814945.1","-","-","-","-","","-"
-"","Metarhizium rileyi RCEF 4871 (GCA_001636745)","Hypocreales","1081105","NOR_1.0","GCA_001636745.1","-","-","-","-","","-"
-"","Metarhizium robertsii (GCA_000591435)","Hypocreales","568076","MR2010_11_27","GCA_000591435.1","-","-","-","-","-","-"
-"","Metarhizium robertsii ARSEF 23 (GCA_000187425)","Hypocreales","655844","MAA_2.0","GCA_000187425.2","-","-","-","-","","-"
-"","Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993 (GCA_001664035)","Saccharomycetales","869754","Metbi1","GCA_001664035.1","-","-","-","-","","-"
-"","Meyerozyma guilliermondii ATCC 6260 (GCA_000149425)","Saccharomycetales","294746","ASM14942v1","GCA_000149425.1","-","-","-","-","","-"
-"","Microbotryum intermedium (GCA_900096595)","Microbotryales","269621","Microbotrium_Intermedium_Assembly","GCA_900096595.1","-","-","-","-","","-"
-"","Microbotryum violaceum","Microbotryales","683840","GCA_000166175.1","GCA_000166175.1","-","-","-","","","-"
-"","Microdochium bolleyi str. J235TASD1 (GCA_001566295)","Xylariales","196109","Microdochium_bolleyi_v1.0","GCA_001566295.1","-","-","-","-","","-"
-"","Microsporum canis CBS 113480 (GCA_000151145)","Onygenales","554155","ASM15114v1","GCA_000151145.1","-","-","-","-","","-"
-"","Millerozyma farinosa CBS 7064 (GCA_000315895)","Saccharomycetales","559304","ASM31589v1","GCA_000315895.1","-","-","-","-","","-"
-"","Mitosporidium daphniae str. UGP3 (GCA_000760515)","Microsporidia","1485682","UGP1.0","GCA_000760515.1","-","-","-","-","","-"
-"","Mixia osmundae IAM 14324 (GCA_000241205)","Mixiales","764103","Mosmundae_2.0","GCA_000241205.2","-","-","-","-","","-"
-"","Mixia osmundae IAM 14324 (GCA_000708205)","Mixiales","764103","Mixia_osmundae_v1.0","GCA_000708205.1","-","-","-","-","-","-"
-"","Moelleriella libera RCEF 2490 (GCA_001636675)","Hypocreales","1081109","AAL_1.0","GCA_001636675.1","-","-","-","-","","-"
-"","Moesziomyces antarcticus T-34 (GCA_000334475)","Ustilaginales","1151754","Pant_1.0","GCA_000334475.1","-","-","-","-","","-"
-"","Moesziomyces antarcticus str. JCM 10317 (GCA_000747765)","Ustilaginales","84753","ASM74776v1","GCA_000747765.1","-","-","-","-","-","-"
-"","Moesziomyces aphidis DSM 70725 (GCA_000517465)","Ustilaginales","1391700","PseuAph1.0","GCA_000517465.1","-","-","-","-","","-"
-"","Moniliophthora perniciosa FA553 (GCA_000183025)","Agaricales","554373","ASM18302v1","GCA_000183025.1","-","-","-","-","","-"
-"","Moniliophthora roreri MCA 2997 (GCA_000488995)","Agaricales","1381753","M_roreri_MCA_2997_v1","GCA_000488995.1","-","-","-","-","","-"
-"","Moniliophthora roreri str. MCA 2952 (GCA_001466705)","Agaricales","221103","ASM146670v1","GCA_001466705.1","-","-","-","-","-","-"
-"","Mortierella elongata AG-77","Mortierellomycotina","1314771","Mortierella_elongata_AG-77_v2.0","GCA_001651415.1","-","-","-","-","","-"
-"","Mortierella verticillata NRRL 6337 (GCA_000739165)","Mortierellomycotina","1069443","Mort_vert_NRRL_6337_V1","GCA_000739165.1","-","-","-","-","","-"
-"","Mucor ambiguus str. NBRC 6742 (GCA_000950595)","Mucoromycotina","91626","ASM95059v1","GCA_000950595.1","-","-","-","-","","-"
-"","Mucor circinelloides f. circinelloides 1006PhL (GCA_000401635)","Mucoromycotina","1220926","Muco_sp_1006Ph_V1","GCA_000401635.1","-","-","-","-","","-"
-"","Mucor circinelloides f. lusitanicus CBS 277.49","Mucoromycotina","747725","Mucci2","GCA_001638945.1","-","-","-","-","-","-"
-"","Mycosphaerella eumusae str. CBS 114824 (GCA_001578235)","Capnodiales","321146","ASM157823v1","GCA_001578235.1","-","-","-","-","","-"
-"","Nadsonia fulvescens var. elongata DSM 6958 (GCA_001661315)","Saccharomycetales","857566","Nadfu1","GCA_001661315.1","-","-","-","-","","-"
-"","Naematelia encephala str. 68-887.2 (GCA_002105065)","Tremellales","71784","Treen1","GCA_002105065.1","-","-","-","-","","-"
-"","Nannizzia gypsea CBS 118893 (GCA_000150975)","Onygenales","535722","MS_CBS118893","GCA_000150975.2","-","-","-","-","","-"
-"","Naumovozyma castellii CBS 4309 (GCA_000237345)","Saccharomycetales","1064592","ASM23734v1","GCA_000237345.1","-","-","-","-","","-"
-"","Naumovozyma dairenensis CBS 421 (GCA_000227115)","Saccharomycetales","1071378","ASM22711v2","GCA_000227115.2","-","-","-","-","","-"
-"","Nematocida displodere str. JUm2807 (GCA_001642395)","Microsporidia","1805483","ASM164239v1","GCA_001642395.1","-","-","-","-","","-"
-"","Nematocida parisii ERTm1 (GCA_000250985)","Microsporidia","881290","Nema_parisii_ERTm1_V3","GCA_000250985.1","-","-","-","-","-","-"
-"","Nematocida parisii ERTm3 (GCA_000190615)","Microsporidia","935791","Nema_parisii_ERTm3_V1","GCA_000190615.1","-","-","-","-","","-"
-"","Nematocida sp. 1 ERTm2 (GCA_000250695)","Microsporidia","944018","Nema_parisii_ERTm2_V1","GCA_000250695.1","-","-","-","-","","-"
-"","Nematocida sp. 1 ERTm6 (GCA_000738915)","Microsporidia","1138374","Nema_sp_1_ERTm6_V2","GCA_000738915.1","-","-","-","-","-","-"
-"","Nematocida sp. ERTm5 (GCA_001642415)","Microsporidia","1805481","ASM164241v1","GCA_001642415.1","-","-","-","-","-","-"
-"","Neocallimastix californiae str. G1 (GCA_002104975)","","1754190","Neocallimastix_sp._G1_v1.0","GCA_002104975.1","-","-","-","-","","-"
-"","Neofusicoccum parvum UCRNP2 (GCA_000385595)","Botryosphaeriales","1287680","UCRNP2V3","GCA_000385595.1","-","-","-","-","","-"
-"","Neolecta irregularis DAH-3 (GCA_001929475)","Taphrinomycotina","1198029","NeoIirr1.0","GCA_001929475.1","-","-","-","-","","-"
-"","Neolentinus lepideus HHB14362 ss-1 (GCA_001632425)","Gloeophyllales","1314782","Neole1","GCA_001632425.1","-","-","-","-","","-"
-"","Neonectria ditissima str. R09/05 (GCA_001306435)","Hypocreales","78410","R0905_v2.0","GCA_001306435.1","-","-","-","-","","-"
-"","Neurospora crassa","Sordariales","367110","NC12","GCA_000182925.2","-","-","-","","",""
-"","Neurospora crassa str. 73 (GCA_000786625)","Sordariales","5141","Neucr_trp3_1","GCA_000786625.1","-","-","-","-","-","-"
-"","Neurospora tetrasperma FGSC 2508 (GCA_000213175)","Sordariales","510951","v2.0","GCA_000213175.1","-","-","-","-","-","-"
-"","Neurospora tetrasperma FGSC 2509 str. FGSC 2509 mat a (GCA_000213195)","Sordariales","510952","v1.0","GCA_000213195.1","-","-","-","-","","-"
-"","Nosema apis BRL 01 (GCA_000447185)","Nosematidae","1037528","NapisBRLv01","GCA_000447185.1","-","-","-","-","","-"
-"","Nosema bombycis CQ1 (GCA_000383075)","Nosematidae","578461","NosBomCQ1_v1.0","GCA_000383075.1","-","-","-","-","","-"
-"","Nosema ceranae (GCA_000988165)","Nosematidae","40302","ASM98816v1","GCA_000988165.1","-","-","-","-","-","-"
-"","Nosema ceranae BRL01 (GCA_000182985)","Nosematidae","578460","ASM18298v1","GCA_000182985.1","-","-","-","-","","-"
-"","Ogataea parapolymorpha DL-1 (GCA_000187245)","Saccharomycetales","871575","Hansenula_2","GCA_000187245.3","-","-","-","-","","-"
-"","Ogataea polymorpha str. NCYC 495 leu1.1 (GCA_001664045)","Saccharomycetales","460523","Hanpo2","GCA_001664045.1","-","-","-","-","","-"
-"","Oidiodendron maius Zn (GCA_000827325)","Myxotrichaceae","913774","Oidiodendron_maius_Zn_v1.0","GCA_000827325.1","-","-","-","-","","-"
-"","Ophiocordyceps australis (GCA_002591405)","Hypocreales","1399860","OphauG2","GCA_002591405.1","-","-","-","-","","-"
-"","Ophiocordyceps australis (GCA_002591415)","Hypocreales","1399860","OphauB2","GCA_002591415.1","-","-","-","-","-","-"
-"","Ophiocordyceps camponoti-rufipedis (GCA_002591395)","Hypocreales","2004952","Ophun1","GCA_002591395.1","-","-","-","-","","-"
-"","Ophiocordyceps sinensis CO18 (GCA_000448365)","Hypocreales","911162","ASM44836v1","GCA_000448365.1","-","-","-","-","-","-"
-"","Ophiocordyceps unilateralis str. SC16a (GCA_001272575)","Hypocreales","268505","ASM127257v2","GCA_001272575.2","-","-","-","-","-","-"
-"","Ophiostoma piceae UAMH 11346 str. UAMH-11346 (GCA_000410735)","Ophiostomatales","1262450","Opiceae_UAMHv01","GCA_000410735.1","-","-","-","-","","-"
-"","Ordospora colligata OC4 (GCA_000803265)","Ordosporidae","1354746","ASM80326v1","GCA_000803265.1","-","-","-","-","","-"
-"","Pachysolen tannophilus NRRL Y-2460 (GCA_001661245)","Saccharomycetales","669874","Pacta1_2","GCA_001661245.1","-","-","-","-","","-"
-"","Paracoccidioides brasiliensis Pb03 (GCA_000150475)","Onygenales","482561","Paracocci_br_Pb03_V2","GCA_000150475.2","-","-","-","-","-","-"
-"","Paracoccidioides brasiliensis Pb18 (GCA_000150735)","Onygenales","502780","Paracocci_br_Pb18_V2","GCA_000150735.2","-","-","-","-","","-"
-"","Paracoccidioides brasiliensis str. CNH (GCA_001713695)","Onygenales","121759","Paracocci_br_PbCNH","GCA_001713695.1","-","-","-","-","-","-"
-"","Paracoccidioides brasiliensis str. Pb300 (GCA_001713645)","Onygenales","121759","ASM171364v1","GCA_001713645.1","-","-","-","-","-","-"
-"","Paracoccidioides lutzii Pb01 (GCA_000150705)","Onygenales","502779","Paracocci_br_Pb01_V2","GCA_000150705.2","-","-","-","-","","-"
-"","Paramicrosporidium saccamoebae str. KSL3 (GCA_002794465)","Cryptomycota","1246581","KSL3_v6","GCA_002794465.1","-","-","-","-","","-"
-"","Paraphaeosphaeria sporulosa str. AP3s5-JAC2a (GCA_001642045)","Pleosporales","1460663","Parsp1","GCA_001642045.1","-","-","-","-","","-"
-"","Paxillus involutus ATCC 200175 (GCA_000827475)","Boletales","664439","Paxillus_involutus_ATCC_200175_v1.0","GCA_000827475.1","-","-","-","-","","-"
-"","Paxillus rubicundulus Ve08.2h10 (GCA_000827395)","Boletales","930991","Paxillus_rubicundulus_Ve08.2h10_v1.0","GCA_000827395.1","-","-","-","-","","-"
-"","Penicilliopsis zonata CBS 506.65 (GCA_001890105)","Eurotiales","1073090","Aspzo1","GCA_001890105.1","-","-","-","-","","-"
-"","Penicillium antarcticum (GCA_002072345)","Eurotiales","416450","ASM207234v1","GCA_002072345.1","-","-","-","-","","-"
-"","Penicillium arizonense (GCA_001773325)","Eurotiales","1835702","ASM177332v1","GCA_001773325.1","-","-","-","-","-","-"
-"","Penicillium brasilianum str. LaBioMMi 136 (GCA_002016555)","Eurotiales","104259","ASM201655v1","GCA_002016555.1","-","-","-","-","-","-"
-"","Penicillium brasilianum str. MG11 (GCA_001048715)","Eurotiales","104259","Pbras_Allpaths-LG","GCA_001048715.1","-","-","-","-","","-"
-"","Penicillium camemberti FM 013 (GCA_000513335)","Eurotiales","1429867","PCAMFM013_20131106","GCA_000513335.1","-","-","-","-","","-"
-"","Penicillium chrysogenum str. P2niaD18 (GCA_000710275)","Eurotiales","5076","ASM71027v1","GCA_000710275.1","-","-","-","-","-","-"
-"","Penicillium coprophilum (GCA_002072405)","Eurotiales","36646","ASM207240v1","GCA_002072405.1","-","-","-","-","-","-"
-"","Penicillium decumbens (GCA_002072245)","Eurotiales","69771","ASM207224v1","GCA_002072245.1","-","-","-","-","-","-"
-"","Penicillium digitatum PHI26 (GCA_000315665)","Eurotiales","1170229","PdigPHI26_v1","GCA_000315665.1","-","-","-","-","-","-"
-"","Penicillium digitatum Pd1 (GCA_000315645)","Eurotiales","1170230","PdigPd1_v1","GCA_000315645.2","-","-","-","-","-","-"
-"","Penicillium expansum str. CMP-1 (GCA_000769755)","Eurotiales","27334","PEX1","GCA_000769755.1","-","-","-","-","-","-"
-"","Penicillium expansum str. MD-8 (GCA_000769745)","Eurotiales","27334","ASM76974v1","GCA_000769745.1","-","-","-","-","-","-"
-"","Penicillium expansum str. d1 (GCA_000769735)","Eurotiales","27334","ASM76973v1","GCA_000769735.1","-","-","-","-","-","-"
-"","Penicillium flavigenum (GCA_002072365)","Eurotiales","254877","ASM207236v1","GCA_002072365.1","-","-","-","-","-","-"
-"","Penicillium freii (GCA_001513925)","Eurotiales","48697","ASM151392v1","GCA_001513925.1","-","-","-","-","-","-"
-"","Penicillium griseofulvum str. PG3 (GCA_001561935)","Eurotiales","5078","ASM156193v1","GCA_001561935.1","-","-","-","-","-","-"
-"","Penicillium italicum str. PHI-1 (GCA_000769765)","Eurotiales","40296","ASM76976v1","GCA_000769765.1","-","-","-","-","-","-"
-"","Penicillium nalgiovense (GCA_002072425)","Eurotiales","60175","ASM207242v1","GCA_002072425.1","-","-","-","-","-","-"
-"","Penicillium nordicum (GCA_001278595)","Eurotiales","229535","ASM127859v1","GCA_001278595.1","-","-","-","-","-","-"
-"","Penicillium occitanis str. CL100 (GCA_002382855)","Eurotiales","290292","ASM238285v1","GCA_002382855.1","-","-","-","-","-","-"
-"","Penicillium occitanis str. CT1 (GCA_002382835)","Eurotiales","290292","ASM238283v1","GCA_002382835.1","-","-","-","-","-","-"
-"","Penicillium oxalicum 114-2 (GCA_000346795)","Eurotiales","933388","pde_v1.0","GCA_000346795.1","-","-","-","-","-","-"
-"","Penicillium polonicum (GCA_002072265)","Eurotiales","60169","ASM207226v1","GCA_002072265.1","-","-","-","-","-","-"
-"","Penicillium roqueforti FM164 (GCA_000513255)","Eurotiales","1365484","PROQFM164_20130607","GCA_000513255.1","-","-","-","-","-","-"
-"","Penicillium rubens Wisconsin 54-1255 (GCA_000226395)","Eurotiales","500485","PenChr_Nov2007","GCA_000226395.1","-","-","-","-","-","-"
-"","Penicillium solitum (GCA_002072235)","Eurotiales","60172","ASM207223v1","GCA_002072235.1","-","-","-","-","-","-"
-"","Penicillium steckii (GCA_002072375)","Eurotiales","303698","ASM207237v1","GCA_002072375.1","-","-","-","-","-","-"
-"","Penicillium subrubescens str. CBS 132785 (GCA_001908125)","Eurotiales","1316194","ASM190812v1","GCA_001908125.1","-","-","-","-","-","-"
-"","Penicillium vulpinum (GCA_002072255)","Eurotiales","29845","ASM207225v1","GCA_002072255.1","-","-","-","-","-","-"
-"","Peniophora sp. CONT (GCA_001632445)","Russulales","1314672","Ricme1","GCA_001632445.1","-","-","-","-","","-"
-"","Periconia macrospinosa str. DSE2036 (GCA_003073855)","Pleosporales","97972","Perma1","GCA_003073855.1","-","-","-","-","","-"
-"","Pestalotiopsis fici W106-1 (GCA_000516985)","Xylariales","1229662","PFICI","GCA_000516985.1","-","-","-","-","","-"
-"","Pezoloma ericae str. UAMH 7357 (GCA_002865625)","Helotiales","1745343","Rhier1","GCA_002865625.1","-","-","-","-","","-"
-"","Phaeoacremonium minimum UCRPA7 (GCA_000392275)","Sordariomycetidae","1286976","UCRPA7V03","GCA_000392275.1","-","-","-","-","","-"
-"","Phaeomoniella chlamydospora (GCA_001006345)","Chaetothyriomycetidae","158046","UCRPA7V1.0","GCA_001006345.1","-","-","-","-","","-"
-"","Phaeosphaeria nodorum","Pleosporales","321614","ASM14691v1","GCA_000146915.1","-","-","-","","","-"
-"","Phanerochaete carnosa HHB-10118-sp (GCA_000300595)","Polyporales","650164","Phanerochaete_carnosa_HHB-10118-Sp_v1.0","GCA_000300595.1","-","-","-","-","","-"
-"","Phellinus noxius (GCA_002287475)","Hymenochaetales","2282107","ASM228747v1","GCA_002287475.1","-","-","-","-","","-"
-"","Phialocephala scopiformis str. CBS 120377 (GCA_001500285)","Helotiales","149040","Phisc1","GCA_001500285.1","-","-","-","-","","-"
-"","Phialocephala subalpina (GCA_900073065)","Helotiales","576137","PAC_version_1","GCA_900073065.1","-","-","-","-","","-"
-"","Phialophora americana str. CBS 27337 (GCA_000835435)","Chaetothyriomycetidae","5601","Capr_semi_CBS27337_V1","GCA_000835435.1","-","-","-","-","","-"
-"","Phialophora attae str. CBS 131958 (GCA_001299255)","Chaetothyriomycetidae","1664694","ASM129925v1","GCA_001299255.1","-","-","-","-","","-"
-"","Phlebia centrifuga str. FBCC195 (GCA_001913855)","Polyporales","98765","ASM191385v2","GCA_001913855.2","-","-","-","-","","-"
-"","Phlebiopsis gigantea 11061_1 CR5-6 (GCA_000832265)","Polyporales","745531","Phlgi1","GCA_000832265.1","-","-","-","-","","-"
-"","Pichia kudriavzevii str. 129 (GCA_001983325)","Saccharomycetales","4909","ASM198332v1","GCA_001983325.1","-","-","-","-","-","-"
-"","Pichia kudriavzevii str. CBS573 (GCA_003054445)","Saccharomycetales","4909","ASM305444v1","GCA_003054445.1","-","-","-","-","-","-"
-"","Pichia kudriavzevii str. Ckrusei653 (GCA_002166775)","Saccharomycetales","4909","Cand_krus_Ckrusei653_V21","GCA_002166775.1","-","-","-","-","-","-"
-"","Pichia kudriavzevii str. SD108 (GCA_000764455)","Saccharomycetales","4909","ASM76445v1","GCA_000764455.1","-","-","-","-","","-"
-"","Pichia membranifaciens NRRL Y-2026 (GCA_001661235)","Saccharomycetales","763406","Picme2","GCA_001661235.1","-","-","-","-","","-"
-"","Pichia membranifaciens str. KS47-1 (GCA_001950575)","Saccharomycetales","4926","P_membrenifaciens-1.0","GCA_001950575.1","-","-","-","-","-","-"
-"","Piloderma croceum F 1598 (GCA_000827315)","Atheliales","765440","Piloderma_croceum_F_1598_v1.0","GCA_000827315.1","-","-","-","-","","-"
-"","Piromyces finnis (GCA_002104945)","","1754191","Piromyces_sp._finnis_v3.0","GCA_002104945.1","-","-","-","-","","-"
-"","Piromyces sp. E2 (GCA_002157105)","","73868","PirspE2_v1.0","GCA_002157105.1","-","-","-","-","","-"
-"","Pisolithus microcarpus 441 (GCA_000827275)","Boletales","765257","Pisolithus_microcarpus_441_v1.0","GCA_000827275.1","-","-","-","-","","-"
-"","Pisolithus tinctorius Marx 270 (GCA_000827335)","Boletales","870435","Pisolithus_tinctorius_Marx_270_v1.0","GCA_000827335.1","-","-","-","-","","-"
-"","Pleurotus ostreatus PC15 (GCA_000697685)","Agaricales","1137138","PleosPC15_2","GCA_000697685.1","-","-","-","-","","-"
-"","Plicaturopsis crispa FD-325 SS-3 (GCA_000827205)","","944288","Plicr1","GCA_000827205.1","-","-","-","-","","-"
-"","Pneumocystis carinii B80 (GCA_001477545)","Taphrinomycotina","1408658","Pneu_cari_B80_V3","GCA_001477545.1","-","-","-","-","","-"
-"","Pneumocystis jirovecii RU7 (GCA_001477535)","Taphrinomycotina","1408657","Pneu_jiro_RU7_V2","GCA_001477535.1","-","-","-","-","","-"
-"","Pneumocystis murina B123 (GCA_000349005)","Taphrinomycotina","1069680","Pneumo_murina_B123_V4","GCA_000349005.2","-","-","-","-","","-"
-"","Pochonia chlamydosporia 170 (GCA_001653235)","Hypocreales","1380566","ASM165323v2","GCA_001653235.2","-","-","-","-","","-"
-"","Podospora anserina S mat+ (GCA_000226545)","Sordariales","515849","ASM22654v1","GCA_000226545.1","-","-","-","-","-","-"
-"","Polytolypa hystricis UAMH7299 (GCA_002573605)","Onygenales","1447883","Poly_hyst_7299_V1","GCA_002573605.1","-","-","-","-","","-"
-"","Postia placenta MAD-698-R-SB12 (GCA_002117355)","Polyporales","670580","PosplRSB12_1","GCA_002117355.1","-","-","-","-","-","-"
-"","Postia placenta Mad-698-R (GCA_000006255)","Polyporales","561896","Postia_placenta_V1.0","GCA_000006255.1","-","-","-","-","","-"
-"","Protomyces lactucaedebilis str. 12-1054 (GCA_002105105)","Taphrinomycotina","56484","Prola1","GCA_002105105.1","-","-","-","-","","-"
-"","Pseudocercospora fijiensis CIRAD86 (GCA_000340215)","Capnodiales","383855","Mycfi2","GCA_000340215.1","-","-","-","-","","-"
-"","Pseudocercospora musae str. CBS 116634 (GCA_001578225)","Capnodiales","113226","ASM157822v1","GCA_001578225.1","-","-","-","-","","-"
-"","Pseudogymnoascus destructans (GCA_001641265)","Pseudeurotiaceae","655981","ASM164126v1","GCA_001641265.1","-","-","-","-","-","-"
-"","Pseudogymnoascus destructans 20631-21 (GCA_000184105)","Pseudeurotiaceae","658429","Geom_destructans_V1","GCA_000184105.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. 03VT05 (GCA_001662645)","Pseudeurotiaceae","1622148","ASM166264v1","GCA_001662645.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. 05NY08 (GCA_001662605)","Pseudeurotiaceae","1622149","ASM166260v1","GCA_001662605.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. 23342-1-I1 (GCA_001662575)","Pseudeurotiaceae","1524831","ASM166257v1","GCA_001662575.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. 24MN13 (GCA_001662595)","Pseudeurotiaceae","1622150","ASM166259v1","GCA_001662595.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-103 (GCA_000750895)","Pseudeurotiaceae","1420912","DG30","GCA_000750895.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-3557 (GCA_000750665)","Pseudeurotiaceae","1437433","DG3","GCA_000750665.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-3775 (GCA_000750715)","Pseudeurotiaceae","1420901","DG4","GCA_000750715.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-3808 (GCA_000750675)","Pseudeurotiaceae","1391699","DG1","GCA_000750675.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4246 (GCA_000750735)","Pseudeurotiaceae","1420902","DG5","GCA_000750735.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4281 (FW-2241) (GCA_000750745)","Pseudeurotiaceae","1420906","DG6","GCA_000750745.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4513 (FW-928) (GCA_000750755)","Pseudeurotiaceae","1420907","DG7","GCA_000750755.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4514 (FW-929) (GCA_000750795)","Pseudeurotiaceae","1420908","DG8","GCA_000750795.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4515 (FW-2607) (GCA_000750805)","Pseudeurotiaceae","1420909","DG10","GCA_000750805.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4516 (FW-969) (GCA_000750815)","Pseudeurotiaceae","1420910","DG11","GCA_000750815.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4517 (FW-2822) (GCA_000750875)","Pseudeurotiaceae","1420911","DG13","GCA_000750875.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4518 (FW-2643) (GCA_000750925)","Pseudeurotiaceae","1420913","DG36","GCA_000750925.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4519 (FW-2642) (GCA_000750935)","Pseudeurotiaceae","1420914","DG38","GCA_000750935.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. VKM F-4520 (FW-2644) (GCA_000750995)","Pseudeurotiaceae","1420915","DG39","GCA_000750995.1","-","-","-","-","-","-"
-"","Pseudogymnoascus sp. WSF 3629 (GCA_001662585)","Pseudeurotiaceae","1622147","ASM166258v1","GCA_001662585.1","-","-","-","-","-","-"
-"","Pseudogymnoascus verrucosus (GCA_001662655)","Pseudeurotiaceae","342668","ASM166265v1","GCA_001662655.1","-","-","-","-","-","-"
-"","Pseudoloma neurophilia str. MK1 (GCA_001432165)","Microsporidia","146866","ASM143216v1","GCA_001432165.1","-","-","-","-","","-"
-"","Pseudomassariella vexata str. CBS 129021 (GCA_002105095)","Xylariales","1141098","Pseve2","GCA_002105095.1","-","-","-","-","","-"
-"","Pseudomicrostroma glucosiphilum str. MCA 4718 (GCA_003144135)","","1684307","Rhodsp1","GCA_003144135.1","-","-","-","-","","-"
-"","Pseudozyma hubeiensis SY62 (GCA_000403515)","Ustilaginales","1305764","ASM40351v1","GCA_000403515.1","-","-","-","-","","-"
-"","Puccinia coronata var. avenae f. sp. avenae (GCA_002873275)","Pucciniales","200324","ASM287327v1","GCA_002873275.1","-","-","-","-","","-"
-"","Puccinia graminis","Pucciniales","418459","ASM14992v1","GCA_000149925.1","","-","","","",""
-"","Puccinia graminis Ug99","Pucciniales","1040990","v1","-","","-","-","","","-"
-"","Puccinia sorghi str. RO10H11247 (GCA_001263375)","Pucciniales","27349","ASM126337v1","GCA_001263375.1","-","-","-","-","","-"
-"","Puccinia striiformis (GCA_002920065)","Pucciniales","27350","ASM292006v1","GCA_002920065.1","-","-","-","-","","-"
-"","Puccinia striiformis f. sp. tritici PST-130 str. Race 130","Pucciniales","875184","PST-130_1.0","GCA_000223505.1","-","-","-","","-","-"
-"","Puccinia striiformis f. sp. tritici PST-78 (GCA_001191645)","Pucciniales","1165861","P_striiformis_V1","GCA_001191645.1","-","-","-","-","-","-"
-"","Puccinia triticina","Pucciniales","630390","ASM15152v1","GCA_000151525.1","-","-","","","","-"
-"","Punctularia strigosozonata HHB-11173 SS5 (GCA_000264995)","Corticiales","741275","Punctularia_strigosozonata_v1.0","GCA_000264995.1","-","-","-","-","","-"
-"","Purpureocillium lilacinum (GCA_001653205)","Hypocreales","33203","ASM165320v1","GCA_001653205.1","-","-","-","-","","-"
-"","Purpureocillium lilacinum (GCA_001653265)","Hypocreales","33203","ASM165326v1","GCA_001653265.1","-","-","-","-","-","-"
-"","Purpureocillium lilacinum str. 36-1 (GCA_003144605)","Hypocreales","33203","ASM314460v1","GCA_003144605.1","-","-","-","-","-","-"
-"","Pyrenochaeta sp. DS3sAY3a (GCA_001644535)","Pleosporales","765867","Pyrsp1","GCA_001644535.1","-","-","-","-","","-"
-"","Pyrenophora teres","Pleosporales","861557","GCA_000166005.1","GCA_000166005.1","-","-","-","","","-"
-"","Pyrenophora tritici-repentis (GCA_003171545)","Pleosporales","45151","PtrARCrossB10","GCA_003171545.1","-","-","-","-","-","-"
-"","Pyrenophora tritici-repentis (GCA_003231325)","Pleosporales","45151","Ptr134","GCA_003231325.1","-","-","-","-","-","-"
-"","Pyrenophora tritici-repentis (GCA_003231365)","Pleosporales","45151","Ptr239","GCA_003231365.1","-","-","-","-","-","-"
-"","Pyrenophora tritici-repentis (GCA_003231425)","Pleosporales","45151","Ptr86-124","GCA_003231425.1","-","-","-","-","-","-"
-"","Pyrenophora tritici-repentis Pt-1C-BFP","Pleosporales","426418","ASM14998v1","GCA_000149985.1","-","-","-","-","","-"
-"","Rachicladosporium antarcticum (GCA_002077065)","Capnodiales","1507870","ASM207706v1","GCA_002077065.1","-","-","-","-","","-"
-"","Rachicladosporium sp. CCFEE 5018 (GCA_002077045)","Capnodiales","1974281","ASM207704v2","GCA_002077045.2","-","-","-","-","","-"
-"","Ramularia collo-cygni (GCA_900074925)","Capnodiales","112498","version_1","GCA_900074925.1","-","-","-","-","","-"
-"","Rasamsonia emersonii CBS 393.64 (GCA_000968595)","Eurotiales","1408163","ASM96859v1","GCA_000968595.1","-","-","-","-","","-"
-"","Rhinocladiella mackenziei CBS 650.93 (GCA_000835555)","Chaetothyriomycetidae","1442369","Rhin_mack_CBS_650_93_V1","GCA_000835555.1","-","-","-","-","","-"
-"","Rhizoclosmatium globosum str. JEL800 (GCA_002104985)","Chytridiomycetes","329046","Rhihy1","GCA_002104985.1","-","-","-","-","","-"
-"","Rhizoctonia solani (GCA_001286725)","Cantharellales","456999","AG22IIIB","GCA_001286725.1","-","-","-","-","-","-"
-"","Rhizoctonia solani 123E (GCA_000715385)","Cantharellales","1423351","Rhizoctonia_solani_123E_v1","GCA_000715385.1","-","-","-","-","-","-"
-"","Rhizoctonia solani AG-1 IA str. AG1 IA (GCA_000334115)","Cantharellales","983506","Rhisol_AG1IA_1.0","GCA_000334115.1","-","-","-","-","","-"
-"","Rhizoctonia solani AG-1 IB (GCA_000350255)","Cantharellales","1108050","ASM35025v1","GCA_000350255.1","-","-","-","-","-","-"
-"","Rhizoctonia solani AG-3 Rhs1AP (GCA_000524645)","Cantharellales","1086054","Rhizoctonia_solani_AG-3","GCA_000524645.1","-","-","-","-","-","-"
-"","Rhizoctonia solani AG-8 WAC10335 (GCA_000695385)","Cantharellales","1287689","RSAG8-1.V1","GCA_000695385.1","-","-","-","-","-","-"
-"","Rhizophagus clarus str. HR1","Glomerales","94130","RclarusHR1_1.0","GCA_003203555.1","-","-","-","-","","-"
-"","Rhizophagus irregularis DAOM 181602=DAOM 197198","Glomerales","747089","Rir_HGAP_ii_V2","GCA_002897155.1","-","-","-","-","-","-"
-"","Rhizophagus irregularis DAOM 181602=DAOM 197198 (GCA_000439145)","Glomerales","747089","ASM43914v3","GCA_000439145.3","-","-","-","-","-","-"
-"","Rhizophagus irregularis DAOM 197198w str. DAOM197198w (GCA_000597685)","Glomerales","1432141","Rir","GCA_000597685.1","-","-","-","-","-","-"
-"","Rhizophagus irregularis str. A1","Glomerales","588596","ASM159312v1","GCA_001593125.1","-","-","-","-","-","-"
-"","Rhizophagus irregularis str. A4","Glomerales","588596","ASM159314v1","GCA_001593145.1","-","-","-","-","-","-"
-"","Rhizophagus irregularis str. A5","Glomerales","588596","ASM159320v1","GCA_001593205.1","-","-","-","-","-","-"
-"","Rhizophagus irregularis str. C2","Glomerales","588596","ASM159315v1","GCA_001593155.1","-","-","-","-","-","-"
-"","Rhizopogon vesiculosus str. AM-OR11-056 (GCA_001882365)","Boletales","180088","Rves_AM-OR11-056_1.0","GCA_001882365.1","-","-","-","-","","-"
-"","Rhizopogon vinicolor AM-OR11-026 (GCA_001658105)","Boletales","1314800","Rhivi1","GCA_001658105.1","-","-","-","-","-","-"
-"","Rhizopus delemar RA 99-880 (GCA_000149305)","Mucoromycotina","246409","RO3","GCA_000149305.1","-","-","-","-","","-"
-"","Rhizopus microsporus ATCC 52813","Mucoromycotina","1340429","Rhimi1_1","GCA_002708625.1","-","-","-","-","-","-"
-"","Rhizopus microsporus str. ATCC 11559","Mucoromycotina","58291","Rhimi_ATCC11559_1","GCA_002083735.1","-","-","-","-","-","-"
-"","Rhizopus microsporus str. ATCC62417 (GCA_900000135)","Mucoromycotina","58291","RMATCC62417_Allpaths-LG","GCA_900000135.1","-","-","-","-","-","-"
-"","Rhizopus microsporus str. CBS-344.29 (GCA_000825725)","Mucoromycotina","58291","Rmicro_CBS_344.29_Allpaths-LG","GCA_000825725.1","-","-","-","-","","-"
-"","Rhizopus microsporus var. microsporus str. ATCC 52814","Mucoromycotina","86635","Rhimi_ATCC52814_1","GCA_002083745.1","-","-","-","-","-","-"
-"","Rhodotorula graminis WP1 (GCA_001329695)","Sporidiobolales","578459","Rhoba1_1","GCA_001329695.1","-","-","-","-","","-"
-"","Rhodotorula sp. JG-1b (GCA_001541205)","Sporidiobolales","1305733","Rhosp1","GCA_001541205.1","-","-","-","-","-","-"
-"","Rhodotorula taiwanensis str. MD1149 (GCA_002922495)","Sporidiobolales","741276","ASM292249v1","GCA_002922495.1","-","-","-","-","-","-"
-"","Rhodotorula toruloides (GCA_001255795)","Sporidiobolales","5286","IFO0880_HGAP3_v1","GCA_001255795.1","-","-","-","-","-","-"
-"","Rhodotorula toruloides ATCC 204091 (GCA_000222205)","Sporidiobolales","1001064","R.glutinis2","GCA_000222205.2","-","-","-","-","","-"
-"","Rhodotorula toruloides NP11 (GCA_000320785)","Sporidiobolales","1130832","RHOziaDV1.0","GCA_000320785.2","-","-","-","-","-","-"
-"","Rhynchosporium agropyri (GCA_900074905)","Helotiales","914238","version_1","GCA_900074905.1","-","-","-","-","","-"
-"","Rhynchosporium commune (GCA_900074885)","Helotiales","914237","version_1","GCA_900074885.1","-","-","-","-","","-"
-"","Rhynchosporium secalis (GCA_900074895)","Helotiales","38038","version_1","GCA_900074895.1","-","-","-","-","","-"
-"","Rosellinia necatrix str. W97 (GCA_001445595)","Xylariales","77044","Rnecatrix_2.0","GCA_001445595.3","-","-","-","-","","-"
-"","Rozella allomycis CSF55 (GCA_000442015)","Cryptomycota","988480","Rozella_k41_t100","GCA_000442015.1","-","-","-","-","","-"
-"","Rutstroemia sp. NJR-2017a BBW (GCA_002946425)","Helotiales","2070414","ASM294642v1","GCA_002946425.1","-","-","-","-","","-"
-"","Rutstroemia sp. NJR-2017a BVV2 (GCA_002946415)","Helotiales","2070413","ASM294641v1","GCA_002946415.1","-","-","-","-","","-"
-"","Rutstroemia sp. NJR-2017a WRK4 (GCA_002946385)","Helotiales","2070412","ASM294638v1","GCA_002946385.1","-","-","-","-","","-"
-"","Saccharomyces arboricola H-6 (GCA_000292725)","Saccharomycetales","1160507","SacArb1.0","GCA_000292725.1","-","-","-","-","","-"
-"","Saccharomyces cerevisiae","Saccharomycetales","559292","R64-1-1","GCA_000146045.2","","","","","",""
-"","Saccharomyces cerevisiae (GCA_001634645)","Saccharomycetales","4932","GLBRCY22-3","GCA_001634645.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae (GCA_002804325)","Saccharomycetales","4932","ASM280432v1","GCA_002804325.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae CEN.PK113-7D (GCA_000269885)","Saccharomycetales","889517","ASM26988v1","GCA_000269885.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae EC1118 (GCA_000218975)","Saccharomycetales","643680","ASM21897v1","GCA_000218975.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae FostersB (GCA_000190255)","Saccharomycetales","764102","ScFostersB_v01","GCA_000190255.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae FostersO (GCA_000326005)","Saccharomycetales","764101","ScFostersO_v01","GCA_000326005.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae Kyokai no. 7 str. kyokai no. 7 (GCA_000260735)","Saccharomycetales","721032","K7_1.0","GCA_000260735.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae Lalvin QA23 (GCA_000325965)","Saccharomycetales","764098","ScQA23_v01","GCA_000325965.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae P283 (GCA_000568295)","Saccharomycetales","1177187","P283","GCA_000568295.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae P301 (GCA_000568055)","Saccharomycetales","1182968","p301","GCA_000568055.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae R103 (GCA_000568365)","Saccharomycetales","1182967","R103","GCA_000568365.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae RM11-1a (GCA_000149365)","Saccharomycetales","285006","ASM14936v1","GCA_000149365.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae VL3 (GCA_000190235)","Saccharomycetales","764100","ScVL3_v01","GCA_000190235.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae Vin13 (GCA_000190215)","Saccharomycetales","764099","ScVIN13_v01","GCA_000190215.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1078 (GCA_000975645)","Saccharomycetales","1296266","Sc_YJM1078_v1","GCA_000975645.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1083 (GCA_000975675)","Saccharomycetales","1292971","Sc_YJM1083_v1","GCA_000975675.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1129 (GCA_000975705)","Saccharomycetales","1293430","Sc_YJM1129_v1","GCA_000975705.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1133 (GCA_000976695)","Saccharomycetales","1294333","Sc_YJM1133_v1","GCA_000976695.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1190 (GCA_000976725)","Saccharomycetales","1294334","Sc_YJM1190_v1","GCA_000976725.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1199 (GCA_000976755)","Saccharomycetales","1294335","Sc_YJM1199_v1","GCA_000976755.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1202 (GCA_000976785)","Saccharomycetales","1294336","Sc_YJM1202_v1","GCA_000976785.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1208 (GCA_000976815)","Saccharomycetales","1294337","Sc_YJM1208_v1","GCA_000976815.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1242 (GCA_000976845)","Saccharomycetales","1294338","Sc_YJM1242_v1","GCA_000976845.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1244 (GCA_000976875)","Saccharomycetales","1294339","Sc_YJM1244_v1","GCA_000976875.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1248 (GCA_000976905)","Saccharomycetales","1294340","Sc_YJM1248_v1","GCA_000976905.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1250 (GCA_000976935)","Saccharomycetales","1294341","Sc_YJM1250_v1","GCA_000976935.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1252 (GCA_000976965)","Saccharomycetales","1294342","Sc_YJM1252_v1","GCA_000976965.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1273 (GCA_000976995)","Saccharomycetales","1294343","Sc_YJM1273_v1","GCA_000976995.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1304 (GCA_000977025)","Saccharomycetales","1294344","Sc_YJM1304_v1","GCA_000977025.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1307 (GCA_000977055)","Saccharomycetales","1294345","Sc_YJM1307_v1","GCA_000977055.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1311 (GCA_000977085)","Saccharomycetales","1294346","Sc_YJM1311_v1","GCA_000977085.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1326 (GCA_000977115)","Saccharomycetales","1294347","Sc_YJM1326_v1","GCA_000977115.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1332 (GCA_000977145)","Saccharomycetales","1294348","Sc_YJM1332_v1","GCA_000977145.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1336 (GCA_000977175)","Saccharomycetales","1294349","Sc_YJM1336_v1","GCA_000977175.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1338 (GCA_000977205)","","1294350","Sc_YJM1338_v1","GCA_000977205.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1341 (GCA_000977235)","Saccharomycetales","1294351","Sc_YJM1341_v1","GCA_000977235.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1342 (GCA_000977265)","Saccharomycetales","1294352","Sc_YJM1342_v1","GCA_000977265.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1355 (GCA_000977295)","Saccharomycetales","1294353","Sc_YJM1355_v1","GCA_000977295.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1356 (GCA_000977325)","Saccharomycetales","1294354","Sc_YJM1356_v1","GCA_000977325.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1381 (GCA_000977355)","Saccharomycetales","1294355","Sc_YJM1381_v1","GCA_000977355.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1383 (GCA_000977385)","Saccharomycetales","1294356","Sc_YJM1383_v1","GCA_000977385.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1385 (GCA_000977415)","Saccharomycetales","1294357","Sc_YJM1385_v1","GCA_000977415.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1386 (GCA_000977445)","Saccharomycetales","1294358","Sc_YJM1386_v1","GCA_000977445.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1387 (GCA_000977475)","Saccharomycetales","1294359","Sc_YJM1387_v1","GCA_000977475.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1388 (GCA_000977505)","Saccharomycetales","1294360","Sc_YJM1388_v1","GCA_000977505.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1389 (GCA_000977535)","Saccharomycetales","1294361","Sc_YJM1389_v1","GCA_000977535.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1399 (GCA_000977565)","Saccharomycetales","1294362","Sc_YJM1399_v1","GCA_000977565.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1400 (GCA_000977595)","Saccharomycetales","1294363","Sc_YJM1400_v1","GCA_000977595.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1401 (GCA_000977625)","Saccharomycetales","1294364","Sc_YJM1401_v1","GCA_000977625.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1402 (GCA_000977655)","Saccharomycetales","1294365","Sc_YJM1402_v1","GCA_000977655.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1415 (GCA_000977685)","Saccharomycetales","1294366","Sc_YJM1415_v1","GCA_000977685.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1417 (GCA_000977715)","Saccharomycetales","1294367","Sc_YJM1417_v1","GCA_000977715.4","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1418 (GCA_000977745)","Saccharomycetales","1294368","Sc_YJM1418_v1","GCA_000977745.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1419 (GCA_000977775)","Saccharomycetales","1294369","Sc_YJM1419_v1","GCA_000977775.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1433 (GCA_000977805)","Saccharomycetales","1294370","Sc_YJM1433_v1","GCA_000977805.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1434 (GCA_000977835)","Saccharomycetales","1294371","Sc_YJM1434_v1","GCA_000977835.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1439 (GCA_000977865)","Saccharomycetales","1294372","Sc_YJM1439_v1","GCA_000977865.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1443 (GCA_000977895)","Saccharomycetales","1294373","Sc_YJM1443_v1","GCA_000977895.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1444 (GCA_000977925)","Saccharomycetales","1294374","Sc_YJM1444_v1","GCA_000977925.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1447 (GCA_000977955)","Saccharomycetales","1294375","Sc_YJM1447_v1","GCA_000977955.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1450 (GCA_000977985)","Saccharomycetales","1294376","Sc_YJM1450_v1","GCA_000977985.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1460 (GCA_000978015)","Saccharomycetales","1294377","Sc_YJM1460_v1","GCA_000978015.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1463 (GCA_000978045)","Saccharomycetales","1294378","Sc_YJM1463_v1","GCA_000978045.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1477 (GCA_000978075)","Saccharomycetales","1294379","Sc_YJM1477_v1","GCA_000978075.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1478 (GCA_000978105)","Saccharomycetales","1294380","Sc_YJM1478_v1","GCA_000978105.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1479 (GCA_000978135)","Saccharomycetales","1294381","Sc_YJM1479_v1","GCA_000978135.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1526 (GCA_000978165)","Saccharomycetales","1294382","Sc_YJM1526_v1","GCA_000978165.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1527 (GCA_000978195)","Saccharomycetales","1294383","Sc_YJM1527_v1","GCA_000978195.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1549 (GCA_000978225)","Saccharomycetales","1294384","Sc_YJM1549_v1","GCA_000978225.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1573 (GCA_000978255)","Saccharomycetales","1294385","Sc_YJM1573_v1","GCA_000978255.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1574 (GCA_000978285)","Saccharomycetales","1294386","Sc_YJM1574_v1","GCA_000978285.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1592 (GCA_000978315)","Saccharomycetales","1294387","Sc_YJM1592_v1","GCA_000978315.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM1615 (GCA_000978345)","Saccharomycetales","1294388","Sc_YJM1615_v1","GCA_000978345.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM189 (GCA_000975735)","Saccharomycetales","1294303","Sc_YJM189_v1","GCA_000975735.4","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM193 (GCA_000975765)","Saccharomycetales","1294304","Sc_YJM193_v1","GCA_000975765.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM195 (GCA_000975585)","Saccharomycetales","1294305","Sc_YJM195_v1","GCA_000975585.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM244 (GCA_000975615)","Saccharomycetales","1294306","Sc_YJM244_v1","GCA_000975615.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM248 (GCA_000975795)","Saccharomycetales","1294307","Sc_YJM248_v1","GCA_000975795.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM270 (GCA_000975825)","Saccharomycetales","1294308","Sc_YJM270_v1","GCA_000975825.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM271 (GCA_000975855)","Saccharomycetales","1294309","Sc_YJM271_v1","GCA_000975855.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM320 (GCA_000975885)","Saccharomycetales","947042","Sc_YJM320_v1","GCA_000975885.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM326 (GCA_000975915)","Saccharomycetales","468558","Sc_YJM326_v1","GCA_000975915.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM428 (GCA_000975945)","Saccharomycetales","947044","Sc_YJM428_v1","GCA_000975945.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM450 (GCA_000975975)","Saccharomycetales","1294310","Sc_YJM450_v1","GCA_000975975.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM451 (GCA_000976005)","Saccharomycetales","502869","Sc_YJM451_v1","GCA_000976005.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM453 (GCA_000976035)","Saccharomycetales","1294311","Sc_YJM453_v1","GCA_000976035.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM456 (GCA_000976065)","Saccharomycetales","1294312","Sc_YJM456_v1","GCA_000976065.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM470 (GCA_000976095)","Saccharomycetales","1294313","Sc_YJM470_v1","GCA_000976095.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM541 (GCA_000976125)","Saccharomycetales","1294314","Sc_YJM541_v1","GCA_000976125.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM554 (GCA_000976155)","Saccharomycetales","1294315","Sc_YJM554_v1","GCA_000976155.4","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM555 (GCA_000976185)","Saccharomycetales","1294316","Sc_YJM555_v1","GCA_000976185.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM627 (GCA_000976215)","Saccharomycetales","1294317","Sc_YJM627_v1","GCA_000976215.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM681 (GCA_000976245)","Saccharomycetales","1294318","Sc_YJM681_v1","GCA_000976245.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM682 (GCA_000976275)","Saccharomycetales","1294319","Sc_YJM682_v1","GCA_000976275.4","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM683 (GCA_000976305)","Saccharomycetales","1294320","Sc_YJM683_v1","GCA_000976305.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM689 (GCA_000976335)","Saccharomycetales","1294321","Sc_YJM689_v1","GCA_000976335.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM693 (GCA_000976365)","Saccharomycetales","1294322","Sc_YJM693_v1","GCA_000976365.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM789 (GCA_000181435)","Saccharomycetales","307796","ASM18143v1","GCA_000181435.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM969 (GCA_000976395)","Saccharomycetales","1294323","Sc_YJM969_v1","GCA_000976395.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM972 (GCA_000976425)","Saccharomycetales","1294324","Sc_YJM972_v1","GCA_000976425.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM975 (GCA_000976455)","Saccharomycetales","1294325","Sc_YJM975_v1","GCA_000976455.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM978 (GCA_000976485)","Saccharomycetales","1294326","Sc_YJM978_v1","GCA_000976485.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM981 (GCA_000976515)","Saccharomycetales","1294327","Sc_YJM981_v1","GCA_000976515.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM984 (GCA_000976545)","Saccharomycetales","1294328","Sc_YJM984_v1","GCA_000976545.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM987 (GCA_000976575)","Saccharomycetales","1294329","Sc_YJM987_v1","GCA_000976575.4","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM990 (GCA_000976605)","Saccharomycetales","1294330","Sc_YJM990_v1","GCA_000976605.3","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM993 (GCA_000662435)","Saccharomycetales","1294331","Sc_YJM993_v1","GCA_000662435.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae YJM996 (GCA_000976665)","Saccharomycetales","1294332","Sc_YJM996_v1","GCA_000976665.2","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae str. 131 (GCA_001983315)","Saccharomycetales","4932","ASM198331v1","GCA_001983315.1","-","-","-","-","-","-"
-"","Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7 (GCA_000326105)","Saccharomycetales","1095631","ASM32610v1","GCA_000326105.1","-","-","-","-","-","-"
-"","Saccharomyces eubayanus str. FM1318 (GCA_001298625)","Saccharomycetales","1080349","SEUB3.0","GCA_001298625.1","-","-","-","-","","-"
-"","Saccharomyces kudriavzevii IFO 1802 (GCA_000167075)","Saccharomycetales","226230","Saccharomyces_kudriavzevii_strain_IFO1802_v1.0","GCA_000167075.2","-","-","-","-","","-"
-"","Saccharomyces sp. 'boulardii' str. biocodex (GCA_001298375)","Saccharomycetales","252598","ASM129837v2","GCA_001298375.2","-","-","-","-","","-"
-"","Saccharomyces sp. 'boulardii' str. unique28 (GCA_001413975)","Saccharomycetales","252598","ASM141397v1","GCA_001413975.1","-","-","-","-","-","-"
-"","Saccharomycetaceae sp. 'Ashbya aceri' (GCA_000412225)","Saccharomycetales","566037","ASM41222v2","GCA_000412225.2","-","-","-","-","","-"
-"","Saitoella complicata NRRL Y-17804 (GCA_000227095)","Taphrinomycotina","698492","Scomplicata_3.0","GCA_000227095.3","-","-","-","-","","-"
-"","Saitoella complicata NRRL Y-17804 (GCA_001661265)","Taphrinomycotina","698492","Saico1","GCA_001661265.1","-","-","-","-","-","-"
-"","Scedosporium apiospermum str. IHEM 14462 (GCA_000732125)","Microascales","563466","ScApio1.0","GCA_000732125.1","-","-","-","-","","-"
-"","Scheffersomyces stipitis CBS 6054 (GCA_000209165)","Saccharomycetales","322104","ASM20916v1","GCA_000209165.1","-","-","-","-","","-"
-"","Schizophyllum commune H4-8 (GCA_000143185)","Agaricales","578458","v1.0","GCA_000143185.1","-","-","-","-","","-"
-"","Schizopora paradoxa str. KUC8140 (GCA_001020605)","Hymenochaetales","27342","Schpa1","GCA_001020605.1","-","-","-","-","","-"
-"","Schizosaccharomyces cryophilus","Schizosaccharomycetales","653667","GCA_000004155.2","GCA_000004155.2","-","-","","","","-"
-"","Schizosaccharomyces japonicus","Schizosaccharomycetales","402676","GCA_000149845.2","GCA_000149845.2","-","-","","","","-"
-"","Schizosaccharomyces octosporus","Schizosaccharomycetales","483514","GCA_000150505.2","GCA_000150505.2","-","-","","","","-"
-"","Schizosaccharomyces pombe","Schizosaccharomycetales","284812","ASM294v2","GCA_000002945.2","","-","","","",""
-"","Scleroderma citrinum Foug A (GCA_000827425)","Boletales","1036808","Scleroderma_citrinum_Foug_A_v1.0","GCA_000827425.1","-","-","-","-","","-"
-"","Sclerotinia borealis F-4128 (GCA_000503235)","Sclerotiniaceae","1432307","SBOR_1","GCA_000503235.1","-","-","-","-","","-"
-"","Sclerotinia sclerotiorum","Sclerotiniaceae","665079","ASM14694v1","GCA_000146945.1","-","-","-","","","-"
-"","Sclerotinia sclerotiorum 1980 UF-70 (GCA_001857865)","Sclerotiniaceae","665079","ASM185786v1","GCA_001857865.1","-","-","-","-","-","-"
-"","Serendipita indica DSM 11827 (GCA_000313545)","Sebacinales","1109443","ASM31354v1","GCA_000313545.1","-","-","-","-","","-"
-"","Serendipita vermifera MAFF 305830 (GCA_000827415)","Sebacinales","933852","Sebacina_vermifera_MAFF_305830_v1.0","GCA_000827415.1","-","-","-","-","","-"
-"","Serpula lacrymans var. lacrymans S7.3 (GCA_000218725)","Boletales","936435","v1.0","GCA_000218725.1","-","-","-","-","","-"
-"","Serpula lacrymans var. lacrymans S7.9 (GCA_000218685)","Boletales","578457","v1.0","GCA_000218685.1","-","-","-","-","-","-"
-"","Sistotremastrum niveocremeum HHB9708 (GCA_001630475)","","1314777","Sisni1","GCA_001630475.1","-","-","-","-","","-"
-"","Sistotremastrum suecicum HHB10207 ss-3 (GCA_001632355)","","1314776","Sissu1","GCA_001632355.1","-","-","-","-","","-"
-"","Sordaria macrospora k-hell (GCA_000182805)","Sordariales","771870","ASM18280v2","GCA_000182805.2","-","-","-","-","","-"
-"","Spathaspora passalidarum NRRL Y-27907 (GCA_000223485)","Saccharomycetales","619300","Spathaspora_passalidarum_v2.0","GCA_000223485.1","-","-","-","-","","-"
-"","Sphaerobolus stellatus SS14 (GCA_000827215)","Geastrales","990650","Sphst1","GCA_000827215.1","-","-","-","-","","-"
-"","Sphaerulina musiva SO2202 (GCA_000320565)","Capnodiales","692275","Septoria_musiva_SO2202_v1.0","GCA_000320565.2","-","-","-","-","","-"
-"","Spizellomyces punctatus DAOM BR117 (GCA_000182565)","Chytridiomycetes","645134","S_punctatus_V1","GCA_000182565.2","-","-","-","-","","-"
-"","Sporisorium reilianum","Ustilaginales","999809","GCA_000230245.1","GCA_000230245.1","-","-","-","","","-"
-"","Sporisorium reilianum f. sp. reilianum (GCA_900162835)","Ustilaginales","72559","version_2","GCA_900162835.1","-","-","-","-","-","-"
-"","Sporothrix brasiliensis 5110 (GCA_000820605)","Ophiostomatales","1398154","S_brasiliensis_5110_v1","GCA_000820605.1","-","-","-","-","","-"
-"","Sporothrix insectorum RCEF 264 (GCA_001636815)","Ophiostomatales","1081102","SPI_1.0","GCA_001636815.1","-","-","-","-","","-"
-"","Sporothrix schenckii 1099-18 (GCA_000961545)","Ophiostomatales","1397361","S_schenckii_v1","GCA_000961545.1","-","-","-","-","-","-"
-"","Sporothrix schenckii ATCC 58251 (GCA_000474925)","Ophiostomatales","1391915","Spor_sche_ATCC58251_V1","GCA_000474925.1","-","-","-","-","","-"
-"","Spraguea lophii 42_110 (GCA_000430065)","Spraguidae","1358809","Sprlop1.0","GCA_000430065.1","-","-","-","-","","-"
-"","Stachybotrys chartarum IBT 40288 (GCA_000732765)","Hypocreales","1283842","S40288v1","GCA_000732765.1","-","-","-","-","","-"
-"","Stachybotrys chartarum IBT 40293 (GCA_000732565)","Hypocreales","1280524","S40293v1","GCA_000732565.1","-","-","-","-","-","-"
-"","Stachybotrys chartarum IBT 7711 (GCA_000730325)","Hypocreales","1280523","S7711v1","GCA_000730325.1","-","-","-","-","-","-"
-"","Stachybotrys chlorohalonata IBT 40285 (GCA_000732775)","Hypocreales","1283841","S40285v1","GCA_000732775.1","-","-","-","-","","-"
-"","Stagonospora sp. SRC1lsM3a (GCA_001644525)","Pleosporales","765868","Stasp1","GCA_001644525.1","-","-","-","-","","-"
-"","Stemphylium lycopersici str. CIDEFI 216 (GCA_001191545)","Pleosporales","183478","ASM119154v1","GCA_001191545.1","-","-","-","-","","-"
-"","Stereum hirsutum FP-91666 SS1 (GCA_000264905)","Russulales","721885","Stehi1","GCA_000264905.1","-","-","-","-","","-"
-"","Sugiyamaella lignohabitans str. CBS 10342 (GCA_001640025)","Saccharomycetales","796027","ASM164002v2","GCA_001640025.2","-","-","-","-","","-"
-"","Suhomyces tanzawaensis NRRL Y-17324 (GCA_001661415)","Saccharomycetales","984487","Canta1","GCA_001661415.1","-","-","-","-","","-"
-"","Suillus luteus UH-Slu-Lm8-n1 (GCA_000827255)","Boletales","930992","Suilu1","GCA_000827255.1","-","-","-","-","","-"
-"","Syncephalastrum racemosum str. NRRL 2496","Mucoromycotina","13706","Synrac1","GCA_002105135.1","-","-","-","-","","-"
-"","Talaromyces atroroseus str. IBT 11181 (GCA_001907595)","Eurotiales","1441469","ASM190759v1","GCA_001907595.1","-","-","-","-","","-"
-"","Talaromyces cellulolyticus str. Y-94 (GCA_000829775)","Eurotiales","1472165","TcelY94_1.0","GCA_000829775.1","-","-","-","-","","-"
-"","Talaromyces islandicus (GCA_000985935)","Eurotiales","28573","PIS","GCA_000985935.1","-","-","-","-","","-"
-"","Talaromyces marneffei ATCC 18224 (GCA_000001985)","Eurotiales","441960","JCVI-PMFA1-2.0","GCA_000001985.1","-","-","-","-","","-"
-"","Talaromyces marneffei PM1 (GCA_000750115)","Eurotiales","1077442","ASM75011v1","GCA_000750115.1","-","-","-","-","-","-"
-"","Talaromyces stipitatus ATCC 10500 (GCA_000003125)","Eurotiales","441959","JCVI-TSTA1-3.0","GCA_000003125.1","-","-","-","-","","-"
-"","Termitomyces sp. J132 (GCA_001263195)","Agaricales","1306850","TerJ1321.0","GCA_001263195.1","-","-","-","-","","-"
-"","Testicularia cyperi str. MCA 3645 (GCA_003144125)","Ustilaginales","1882483","Tescy1","GCA_003144125.1","-","-","-","-","","-"
-"","Tetrapisispora blattae CBS 6284 (GCA_000315915)","Saccharomycetales","1071380","ASM31591v1","GCA_000315915.1","-","-","-","-","","-"
-"","Tetrapisispora phaffii CBS 4417 (GCA_000236905)","Saccharomycetales","1071381","ASM23690v1","GCA_000236905.1","-","-","-","-","","-"
-"","Thermothelomyces thermophila ATCC 42464 (GCA_000226095)","Sordariales","573729","ASM22609v1","GCA_000226095.1","-","-","-","-","","-"
-"","Thielavia terrestris NRRL 8126 (GCA_000226115)","Sordariales","578455","ASM22611v1","GCA_000226115.1","-","-","-","-","","-"
-"","Thielaviopsis punctulata (GCA_000968615)","Microascales","72032","ASM96861v1","GCA_000968615.1","-","-","-","-","","-"
-"","Tilletia caries str. DAOM 238032 (GCA_001645005)","","13290","ASM164500v1","GCA_001645005.1","-","-","-","-","","-"
-"","Tilletia controversa str. DAOM 236426 (GCA_001645045)","","13291","ASM164504v1","GCA_001645045.1","-","-","-","-","","-"
-"","Tilletia indica str. DAOM 236416 (GCA_001645015)","","43049","ASM164501v1","GCA_001645015.1","-","-","-","-","","-"
-"","Tilletia walkeri str. DAOM 236422 (GCA_001645055)","","117179","ASM164505v1","GCA_001645055.1","-","-","-","-","","-"
-"","Tilletiaria anomala UBC 951 (GCA_000711695)","Georgefischeriales","1037660","Tilletiaria_anomala_UBC_951_v1.0","GCA_000711695.1","-","-","-","-","","-"
-"","Tilletiopsis washingtonensis str. MCA 4186 (GCA_003144115)","","58919","Tilwa1","GCA_003144115.1","-","-","-","-","","-"
-"","Tolypocladium capitatum str. CBS 113982 (GCA_002901185)","Hypocreales","45235","ASM290118v1","GCA_002901185.1","-","-","-","-","","-"
-"","Tolypocladium ophioglossoides CBS 100239 (GCA_001189435)","Hypocreales","1163406","Tophv1.0","GCA_001189435.1","-","-","-","-","","-"
-"","Tolypocladium paradoxum str. NRBC 100945 (GCA_002916505)","Hypocreales","94208","ASM291650v1","GCA_002916505.1","-","-","-","-","","-"
-"","Torrubiella hemipterigena str. BCC 1449 (GCA_000825705)","Hypocreales","1531966","Allpaths-LG","GCA_000825705.1","-","-","-","-","","-"
-"","Tortispora caseinolytica NRRL Y-17796 (GCA_001661475)","Saccharomycetales","767744","Canca1","GCA_001661475.1","-","-","-","-","","-"
-"","Torulaspora delbrueckii str. CBS 1146 (GCA_000243375)","Saccharomycetales","4950","ASM24337v1","GCA_000243375.1","-","-","-","-","","-"
-"","Trachipleistophora hominis (GCA_000316135)","Pleistophoridae","72359","ASM31613v1","GCA_000316135.1","-","-","-","-","","-"
-"","Trametes cinnabarina str. BRFM137 (GCA_000765035)","Polyporales","5643","BN946","GCA_000765035.1","-","-","-","-","","-"
-"","Trametes coccinea BRFM310 (GCA_002092935)","Polyporales","1353009","Pycco1","GCA_002092935.1","-","-","-","-","","-"
-"","Trametes pubescens str. FBCC735 (GCA_001895945)","Polyporales","154538","ASM189594v1","GCA_001895945.1","-","-","-","-","","-"
-"","Trametes versicolor FP-101664 SS1 (GCA_000271585)","Polyporales","717944","Trametes_versicolor_v1.0","GCA_000271585.1","-","-","-","-","","-"
-"","Tremella mesenterica DSM 1558 (GCA_000271645)","Tremellales","578456","Treme1","GCA_000271645.1","-","-","-","-","","-"
-"","Trichoderma asperellum CBS 433.97 (GCA_003025105)","Hypocreales","1042311","Trias_v._1.0","GCA_003025105.1","-","-","-","-","","-"
-"","Trichoderma atroviride IMI 206040 (GCA_000171015)","Hypocreales","452589","TRIAT_v2.0","GCA_000171015.2","-","-","-","-","","-"
-"","Trichoderma citrinoviride str. TUCIM 6016 (GCA_003025115)","Hypocreales","58853","Trici_v4.0","GCA_003025115.1","-","-","-","-","","-"
-"","Trichoderma gamsii str. T6085 (GCA_001481775)","Hypocreales","398673","TGAM01v2","GCA_001481775.2","-","-","-","-","","-"
-"","Trichoderma guizhouense str. NJAU 4742 (GCA_002022785)","Hypocreales","1491466","ASM202278v1","GCA_002022785.1","-","-","-","-","","-"
-"","Trichoderma harzianum CBS 226.95 (GCA_003025095)","Hypocreales","983964","Allpaths-LG_v._01_03_12","GCA_003025095.1","-","-","-","-","-","-"
-"","Trichoderma harzianum str. T6776 (GCA_000988865)","Hypocreales","5544","ASM98886v1","GCA_000988865.1","-","-","-","-","","-"
-"","Trichoderma harzianum str. TR274 (GCA_002838845)","Hypocreales","5544","ASM283884v1","GCA_002838845.1","-","-","-","-","-","-"
-"","Trichoderma harzianum str. Tr1 (GCA_002894145)","Hypocreales","5544","Tr1","GCA_002894145.1","-","-","-","-","-","-"
-"","Trichoderma longibrachiatum ATCC 18648 (GCA_003025155)","Hypocreales","983965","Trilo3","GCA_003025155.1","-","-","-","-","","-"
-"","Trichoderma parareesei (GCA_001050175)","Hypocreales","858221","Tpara_v1.0","GCA_001050175.1","-","-","-","-","","-"
-"","Trichoderma reesei","Hypocreales","431241","GCA_000167675.2","GCA_000167675.2","-","-","-","","","-"
-"","Trichoderma reesei RUT C-30 (GCA_000513815)","Hypocreales","1344414","TrireRUTC30_1","GCA_000513815.1","-","-","-","-","-","-"
-"","Trichoderma virens","Hypocreales","413071","ASM17099v1","GCA_000170995.2","-","-","","","","-"
-"","Trichophyton benhamiae CBS 112371 (GCA_000151125)","Onygenales","663331","ASM15112v2","GCA_000151125.2","-","-","-","-","","-"
-"","Trichophyton equinum CBS 127.97 (GCA_000151175)","Onygenales","559882","ASM15117v1","GCA_000151175.1","-","-","-","-","","-"
-"","Trichophyton interdigitale H6 (GCA_000616785)","Onygenales","1215336","Tric_rubr_H6_V2","GCA_000616785.1","-","-","-","-","-","-"
-"","Trichophyton interdigitale MR816 (GCA_000622975)","Onygenales","1215338","Tric_inte_MR816_V1","GCA_000622975.1","-","-","-","-","","-"
-"","Trichophyton mentagrophytes str. TIMM 2789 (GCA_003118255)","Onygenales","523103","ABySS_70bp_45k_152cov_v1","GCA_003118255.1","-","-","-","-","","-"
-"","Trichophyton rubrum CBS 100081 (GCA_000616805)","Onygenales","1215328","Tric_fish_CBS_100081_V1","GCA_000616805.1","-","-","-","-","-","-"
-"","Trichophyton rubrum CBS 118892 (GCA_000151425)","Onygenales","559305","ASM15142v1","GCA_000151425.1","-","-","-","-","","-"
-"","Trichophyton rubrum CBS 202.88 (GCA_000616985)","Onygenales","1215334","Tric_raub_CBS_202_88_V2","GCA_000616985.1","-","-","-","-","-","-"
-"","Trichophyton rubrum CBS 288.86 (GCA_000616825)","Onygenales","1215330","Tric_fish_CBS_288_86_V1","GCA_000616825.1","-","-","-","-","-","-"
-"","Trichophyton rubrum CBS 289.86 (GCA_000616845)","Onygenales","1215329","Tric_kane_CBS_289_86_V1","GCA_000616845.1","-","-","-","-","-","-"
-"","Trichophyton rubrum CBS 735.88 (GCA_000616965)","Onygenales","1215332","Tric_megn_CBS_735_88_V1","GCA_000616965.1","-","-","-","-","-","-"
-"","Trichophyton rubrum D6 (GCA_000622995)","Onygenales","1215335","Tric_rubr_D6_V1","GCA_000622995.1","-","-","-","-","-","-"
-"","Trichophyton rubrum MR1448 (GCA_000616905)","Onygenales","1215339","Tric_rubr_M1448_V1","GCA_000616905.1","-","-","-","-","-","-"
-"","Trichophyton rubrum MR1459 (GCA_000616945)","Onygenales","1215341","Tric_rubr_MR1459_V1","GCA_000616945.1","-","-","-","-","-","-"
-"","Trichophyton rubrum MR850 (GCA_000616765)","Onygenales","1215337","Tric_rubr_MR-850_V1","GCA_000616765.1","-","-","-","-","-","-"
-"","Trichophyton rubrum str. CMCC(F)T1i (GCA_001651445)","Onygenales","5551","CMCC_F_T1i","GCA_001651445.1","-","-","-","-","-","-"
-"","Trichophyton soudanense CBS 452.61 (GCA_000616865)","Onygenales","1215331","Tric_soud_CBS_452_61_V1","GCA_000616865.1","-","-","-","-","","-"
-"","Trichophyton tonsurans CBS 112818 (GCA_000151455)","Onygenales","647933","ASM15145v1","GCA_000151455.1","-","-","-","-","","-"
-"","Trichophyton verrucosum HKI 0517 (GCA_000151505)","Onygenales","663202","ASM15150v1","GCA_000151505.1","-","-","-","-","","-"
-"","Trichophyton violaceum str. CMCC(F)T3l (GCA_001651435)","Onygenales","34388","CMCC_F_T3l","GCA_001651435.1","-","-","-","-","","-"
-"","Trichosporon asahii var. asahii CBS 2479 (GCA_000293215)","","1186058","Trichosporon_asahii_1","GCA_000293215.1","-","-","-","-","-","-"
-"","Trichosporon asahii var. asahii CBS 8904 (GCA_000299215)","","1220162","ASM29921v2","GCA_000299215.2","-","-","-","-","","-"
-"","Tsuchiyaea wingfieldii CBS 7118 (GCA_001720155)","Tremellales","1295528","Tsuc_wing_CBS7118_V1","GCA_001720155.1","-","-","-","-","","-"
-"","Tuber borchii str. Tbo3840 (GCA_003070745)","Pezizales","42251","Tubbor1","GCA_003070745.1","-","-","-","-","","-"
-"","Tuber magnatum (GCA_003182015)","Pezizales","42249","ASM318201v1","GCA_003182015.1","-","-","-","-","","-"
-"","Tuber melanosporum","Pezizales","656061","ASM15164v1","GCA_000151645.1","-","-","-","","","-"
-"","Tulasnella calospora MUT 4182 (GCA_000827465)","Cantharellales","1051891","Tulasnella_calospora_AL13_4D_v1.0","GCA_000827465.1","-","-","-","-","","-"
-"","Umbilicaria pustulata (GCA_900169345)","","136370","Lasallia_pustulata_v1","GCA_900169345.1","-","-","-","-","-","-"
-"","Uncinocarpus reesii 1704 str. UAMH 1704 (GCA_000003515)","Onygenales","336963","ASM351v2","GCA_000003515.2","-","-","-","-","","-"
-"","Ustilaginoidea virens (GCA_000965225)","Hypocreales","1159556","ASM96522v2","GCA_000965225.2","-","-","-","-","-","-"
-"","Ustilaginoidea virens str. UV-8b (GCA_000687475)","Hypocreales","1159556","Assembly_for_version_1_of_the_Villosiclava_virens_genome","GCA_000687475.1","-","-","-","-","","-"
-"","Ustilaginomycotina sp. SA 807 (GCA_003144235)","","1673888","Ustsp1","GCA_003144235.1","-","-","-","-","","-"
-"","Ustilago bromivora str. UB2112 (GCA_900080155)","Ustilaginales","307758","UBRO_v3","GCA_900080155.1","-","-","-","-","-","-"
-"","Ustilago hordei str. Uh4857-4 (GCA_000286035)","Ustilaginales","120017","ASM28603v1","GCA_000286035.1","-","-","-","-","","-"
-"","Ustilago maydis","Ustilaginales","237631","Umaydis521_2.0","GCA_000328475.2","-","-","-","","",""
-"","Valsa mali str. 03-8 (GCA_000818155)","Sordariomycetidae","105487","ASM81815v1","GCA_000818155.1","-","-","-","-","-","-"
-"","Valsa mali var. pyri str. SXYL134 (GCA_000813385)","Sordariomycetidae","694573","ASM81338v1","GCA_000813385.1","-","-","-","-","","-"
-"","Vanderwaltozyma polyspora DSM 70294 (GCA_000150035)","Saccharomycetales","436907","ASM15003v1","GCA_000150035.1","-","-","-","-","","-"
-"","Vavraia culicis subsp. floridensis (GCA_000192795)","Pleistophoridae","948595","Vavr_culi_floridensis_V1","GCA_000192795.1","-","-","-","-","","-"
-"","Verruconis gallopava str. CBS 43764 (GCA_000836295)","Venturiales","253628","O_gall_CBS43764","GCA_000836295.1","-","-","-","-","-","-"
-"","Verticillium alfalfae VaMs.102 (GCA_000150825)","Glomerellales","526221","ASM15082v1","GCA_000150825.1","-","-","-","-","-","-"
-"","Verticillium dahliae","Glomerellales","498257","ASM15067v2","GCA_000150675.2","-","-","-","","","-"
-"","Verticillium dahliae (GCA_002892995)","Glomerellales","27337","ASM289299v1","GCA_002892995.1","-","-","-","-","-","-"
-"","Verticillium dahliae (GCA_002893025)","Glomerellales","27337","ASM289302v1","GCA_002893025.1","-","-","-","-","-","-"
-"","Verticillium dahliae (GCA_002893035)","Glomerellales","27337","ASM289303v1","GCA_002893035.1","-","-","-","-","-","-"
-"","Verticillium dahliae (GCA_002893045)","Glomerellales","27337","ASM289304v1","GCA_002893045.1","-","-","-","-","-","-"
-"","Verticillium dahliae JR2","Glomerellales","1202531","VDAG_JR2v.4.0","GCA_000400815.2","","-","-","","-","-"
-"","Verticillium dahliae str. 12008 (GCA_002892985)","Glomerellales","27337","ASM289298v1","GCA_002892985.1","-","-","-","-","-","-"
-"","Verticillium longisporum (GCA_001268145)","Glomerellales","100787","vl1.denovo.v1","GCA_001268145.1","-","-","-","-","-","-"
-"","Verticillium longisporum (GCA_001268165)","Glomerellales","100787","vl2.denovo.v1","GCA_001268165.1","-","-","-","-","","-"
-"","Vittaforma corneae ATCC 50505 (GCA_000231115)","Nosematidae","993615","Vitt_corn_V1","GCA_000231115.1","-","-","-","-","","-"
-"","Wallemia ichthyophaga EXF-994 (GCA_000400465)","Wallemiales","1299270","Wallemia_ichthyophaga_version_1.0","GCA_000400465.1","-","-","-","-","","-"
-"","Wallemia mellicola CBS 633.66 (GCA_000263375)","Wallemiales","671144","Wallemia_sebi_v1.0","GCA_000263375.1","-","-","-","-","","-"
-"","Wickerhamiella sorbophila str. DS02 (GCA_002251995)","Saccharomycetales","45607","ASM225199v2","GCA_002251995.2","-","-","-","-","","-"
-"","Wickerhamomyces anomalus NRRL Y-366-8 (GCA_001661255)","Saccharomycetales","683960","Wican1","GCA_001661255.1","-","-","-","-","","-"
-"","Wickerhamomyces ciferrii str. NRRL Y-1031 (GCA_000313485)","Saccharomycetales","1041607","ASM31348v1","GCA_000313485.1","-","-","-","-","","-"
-"","Wolfiporia cocos MD-104 SS10 (GCA_000344635)","Polyporales","742152","Wolco1","GCA_000344635.1","-","-","-","-","","-"
-"","Xanthophyllomyces dendrorhous (GCA_001007165)","Cystofilobasidiales","5421","Xden1","GCA_001007165.2","-","-","-","-","-","-"
-"","Xylona heveae TC161 (GCA_001619985)","","1328760","Xylona_heveae_TC161_v1.0","GCA_001619985.1","-","-","-","-","","-"
-"","Yarrowia lipolytica","Saccharomycetales","284591","GCA_000002525.1","GCA_000002525.1","-","-","-","","-","-"
-"","Yarrowia lipolytica (GCA_900087985)","Saccharomycetales","4952","YALIA101","GCA_900087985.1","-","-","-","-","","-"
-"","Yarrowia lipolytica str. CLIB89 (W29) (GCA_001761485)","Saccharomycetales","4952","ASM176148v1","GCA_001761485.1","-","-","-","-","-","-"
-"","Zygosaccharomyces bailii (GCA_900162805)","Saccharomycetales","4954","version_1","GCA_900162805.1","-","-","-","-","-","-"
-"","Zygosaccharomyces bailii CLIB 213 (GCA_000442885)","Saccharomycetales","1333698","ZYBA0","GCA_000442885.1","-","-","-","-","","-"
-"","Zygosaccharomyces bailii ISA1307 (GCA_000530735)","Saccharomycetales","1355161","Z_bailii_ISA1307_version_3","GCA_000530735.1","-","-","-","-","-","-"
-"","Zygosaccharomyces parabailii str. ATCC 60483 (GCA_001984395)","Saccharomycetales","1365886","ASM198439v2","GCA_001984395.2","-","-","-","-","","-"
-"","Zygosaccharomyces rouxii str. CBS 732 (GCA_000026365)","Saccharomycetales","4956","ASM2636v1","GCA_000026365.1","-","-","-","-","","-"
-"","Zygosaccharomyces rouxii str. NBRC110957 (GCA_001972345)","Saccharomycetales","4956","ZYGR_assembly01","GCA_001972345.1","-","-","-","-","-","-"
-"","Zymoseptoria brevis str. Zb18110 (GCA_000966595)","Capnodiales","1047168","ASM96659v1","GCA_000966595.1","-","-","-","-","","-"
-"","Zymoseptoria tritici","Capnodiales","336722","MG2","GCA_000219625.1","","-","-","","",""
-"","Zymoseptoria tritici ST99CH_1A5 (GCA_900099495)","Capnodiales","1276529","ZT1A5_complete_assembly","GCA_900099495.1","-","-","-","-","-","-"
-"","Zymoseptoria tritici ST99CH_1E4 (GCA_900184115)","Capnodiales","1276532","ST99CH_1E4","GCA_900184115.1","-","-","-","-","-","-"
-"","Zymoseptoria tritici ST99CH_3D1 (GCA_900184105)","Capnodiales","1276537","ST99CH_3D1","GCA_900184105.1","-","-","-","-","-","-"
-"","Zymoseptoria tritici ST99CH_3D7 (GCA_900091695)","Capnodiales","1276538","Zt_ST99CH_3D7","GCA_900091695.1","-","-","-","-","-","-"
-"","[Candida] arabinofermentans NRRL YB-2248 (GCA_001661425)","Saccharomycetales","983967","Canar1","GCA_001661425.1","-","-","-","-","-","-"
-"","[Candida] auris (GCA_002759435)","Saccharomycetales","498019","Cand_auris_B8441_V2","GCA_002759435.2","-","-","-","-","-","-"
-"","[Candida] auris (GCA_002775015)","Saccharomycetales","498019","Cand_auris_B11221_V1","GCA_002775015.1","-","-","-","-","-","-"
-"","[Candida] auris (GCA_003013715)","Saccharomycetales","498019","Cand_auris_B11220","GCA_003013715.1","-","-","-","-","-","-"
-"","[Candida] auris (GCA_003014415)","Saccharomycetales","498019","Cand_auris_B11243","GCA_003014415.1","-","-","-","-","-","-"
-"","[Candida] auris str. 6684 (GCA_001189475)","Saccharomycetales","498019","ASM118947v1","GCA_001189475.1","-","-","-","-","","-"
-"","[Candida] duobushaemulonis str. B09383 (GCA_002926085)","Saccharomycetales","1231522","CanDuoHae_v1.0","GCA_002926085.1","-","-","-","-","-","-"
-"","[Candida] glabrata (GCA_001466525)","Saccharomycetales","5478","ASM146652v1","GCA_001466525.1","-","-","-","-","-","-"
-"","[Candida] glabrata (GCA_001466535)","Saccharomycetales","5478","ASM146653v1","GCA_001466535.1","-","-","-","-","-","-"
-"","[Candida] glabrata (GCA_001466565)","Saccharomycetales","5478","ASM146656v1","GCA_001466565.1","-","-","-","-","-","-"
-"","[Candida] glabrata (GCA_001466575)","Saccharomycetales","5478","ASM146657v1","GCA_001466575.1","-","-","-","-","-","-"
-"","[Candida] glabrata (GCA_001466635)","Saccharomycetales","5478","ASM146663v1","GCA_001466635.1","-","-","-","-","-","-"
-"","[Candida] glabrata (GCA_001466685)","Saccharomycetales","5478","ASM146668v1","GCA_001466685.1","-","-","-","-","-","-"
-"","[Candida] glabrata (GCA_002219185)","Saccharomycetales","5478","ASM221918v1","GCA_002219185.1","-","-","-","-","-","-"
-"","[Candida] glabrata (GCA_002219195)","Saccharomycetales","5478","ASM221919v1","GCA_002219195.1","-","-","-","-","-","-"
-"","[Candida] glabrata str. CBS138 (GCA_000002545)","Saccharomycetales","5478","ASM254v2","GCA_000002545.2","-","-","-","-","","-"
-"","[Candida] haemulonis str. B11899 (GCA_002926055)","Saccharomycetales","45357","CanHae_1.0","GCA_002926055.1","-","-","-","-","-","-"
-"","[Candida] intermedia (GCA_900106115)","Saccharomycetales","45354","CBS_141442_assembly","GCA_900106115.1","-","-","-","-","-","-"
-"","[Candida] intermedia (GCA_900106125)","Saccharomycetales","45354","PYCC_4715_assembly","GCA_900106125.1","-","-","-","-","-","-"
-"","[Candida] pseudohaemulonis str. B12108 (GCA_003013735)","Saccharomycetales","418784","Cand_pseudohaemulonii_B12108","GCA_003013735.1","-","-","-","-","-","-"
-"","[Candida] tenuis ATCC 10573 (GCA_000223465)","Saccharomycetales","590646","Candida_tenuis_v1.0","GCA_000223465.1","-","-","-","-","-","-"
+"","Name","Classification","Taxon ID","Assembly","Accession","Variation database","Regulation database","Whole genome alignments","Other alignments","In peptide compara","In pan-taxonomic compara"
+"","Absidia glauca","Mucoromycotina","4829","AG_v1","GCA_900079185.1","-","-","-","-","-","-"
+"","Absidia repens str. NRRL 1336","Mucoromycotina","90262","Absrep1","GCA_002105175.1","-","-","-","-","","-"
+"","Acaromyces ingoldii str. MCA 4198 (GCA_003144295)","","215250","Acain1","GCA_003144295.1","-","-","-","-","","-"
+"","Acidomyces richmondensis (GCA_001572075)","Acidomyces","245562","ASM157207v1","GCA_001572075.1","-","-","-","-","-","-"
+"","Acidomyces richmondensis BFW (GCA_001592465)","Acidomyces","766039","Acidomyces_richmondensis_BFW_v1.0","GCA_001592465.1","-","-","-","-","","-"
+"","Acremonium chrysogenum ATCC 11550 (GCA_000769265)","Hypocreales","857340","ASM76926v1","GCA_000769265.1","-","-","-","-","","-"
+"","Agaricus bisporus var. burnettii JB137-S8 (GCA_000300555)","Agaricales","597362","Agabi_varbur_1","GCA_000300555.1","-","-","-","-","","-"
+"","Allomyces macrogynus ATCC 38327 (GCA_000151295)","Blastocladiales","578462","A_macrogynus_V3","GCA_000151295.1","-","-","-","-","","-"
+"","Alternaria alternata str. SRC1lrK2f (GCA_001642055)","Pleosporales","5599","Altal1","GCA_001642055.1","-","-","-","-","","-"
+"","Amanita muscaria Koide BX008 (GCA_000827485)","Agaricales","946122","Amanita_muscaria_Koide_BX008_v1.0","GCA_000827485.1","-","-","-","-","","-"
+"","Amanita thiersii Skay4041 (GCA_002554575)","Agaricales","703135","Amanita_thiersii_v1.0","GCA_002554575.1","-","-","-","-","","-"
+"","Amorphotheca resinae ATCC 22711 (GCA_003019875)","Myxotrichaceae","857342","Amore1","GCA_003019875.1","-","-","-","-","","-"
+"","Amphiamblys sp. WSBS2006 (GCA_001875675)","Microsporidia","1866961","ASM187567v1","GCA_001875675.1","-","-","-","-","","-"
+"","Anaeromyces robustus str. S4 (GCA_002104895)","","1754192","Anaeromyces_sp._S4_v1.0","GCA_002104895.1","-","-","-","-","","-"
+"","Anncaliia algerae PRA109 (GCA_000385855)","Tubulinosematidae","1240240","Annc_alge_PRA109_V4","GCA_000385855.2","-","-","-","-","-","-"
+"","Anncaliia algerae PRA339 (GCA_000385875)","Tubulinosematidae","1288291","Annc_alge_insect_USDA_JJB_V2","GCA_000385875.2","-","-","-","-","","-"
+"","Anthracocystis flocculosa PF-1 (GCA_000417875)","Ustilaginales","1277687","Pflocc_1.0","GCA_000417875.1","-","-","-","-","","-"
+"","Armillaria gallica str. Ar21-2 (GCA_002307695)","Agaricales","47427","Armga1","GCA_002307695.1","-","-","-","-","","-"
+"","Armillaria ostoyae (GCA_900157425)","Agaricales","47428","version_2","GCA_900157425.1","-","-","-","-","","-"
+"","Armillaria solidipes str. 28-4 (GCA_002307675)","Agaricales","1076256","Armost1","GCA_002307675.1","-","-","-","-","","-"
+"","Arthrobotrys oligospora ATCC 24927 (GCA_000225545)","Orbiliales","756982","AOL24927_1.0","GCA_000225545.1","-","-","-","-","","-"
+"","Ascochyta rabiei str. ArDII (GCA_001630375)","Pleosporales","5454","AscRab1.0","GCA_001630375.1","-","-","-","-","","-"
+"","Ascoidea rubescens DSM 1968 (GCA_001661345)","Saccharomycetales","1344418","Ascru1","GCA_001661345.1","-","-","-","-","","-"
+"","Ascosphaera apis ARSEF 7405 (GCA_001636715)","Onygenales","392613","AAP_1.0","GCA_001636715.1","-","-","-","-","","-"
+"","Ashbya gossypii","Saccharomycetales","284811","ASM9102v1","GCA_000091025.3","-","","","","","-"
+"","Aspergillus aculeatinus CBS 121060 (GCA_003184765)","Eurotiales","1448322","Aspacu1","GCA_003184765.1","-","-","-","-","-","-"
+"","Aspergillus aculeatus ATCC 16872 (GCA_001890905)","Eurotiales","690307","Aspac1","GCA_001890905.1","-","-","-","-","-","-"
+"","Aspergillus arachidicola str. CBS 117610 (GCA_002749805)","Eurotiales","656916","ASM274980v1","GCA_002749805.1","-","-","-","-","-","-"
+"","Aspergillus bombycis str. NRRL26010 (GCA_001792695)","Eurotiales","109264","ASM179269v1","GCA_001792695.1","-","-","-","-","-","-"
+"","Aspergillus brasiliensis CBS 101740 (GCA_001889945)","Eurotiales","767769","Aspbr1","GCA_001889945.1","-","-","-","-","-","-"
+"","Aspergillus brunneoviolaceus CBS 621.78 (GCA_003184695)","Eurotiales","1450534","Aspbru1","GCA_003184695.1","-","-","-","-","-","-"
+"","Aspergillus calidoustus str. SF006504 (GCA_001511075)","Eurotiales","454130","Acal_Allpaths_LG","GCA_001511075.1","-","-","-","-","-","-"
+"","Aspergillus campestris IBT 28561 (GCA_002847485)","Eurotiales","1392248","Aspcam1","GCA_002847485.1","-","-","-","-","-","-"
+"","Aspergillus candidus str. CBS 102.13 (GCA_002847045)","Eurotiales","41067","Aspcand1","GCA_002847045.1","-","-","-","-","-","-"
+"","Aspergillus carbonarius ITEM 5010 (GCA_001990825)","Eurotiales","602072","Aspca3","GCA_001990825.1","-","-","-","-","-","-"
+"","Aspergillus clavatus NRRL 1","Eurotiales","344612","ASM271v1","GCA_000002715.1","-","-","-","-","","-"
+"","Aspergillus cristatus str. GZAAS20.1005 (GCA_001717485)","Eurotiales","573508","ASM171748v1","GCA_001717485.1","-","-","-","-","-","-"
+"","Aspergillus ellipticus CBS 707.79 (GCA_003184645)","Eurotiales","1448320","Aspell1","GCA_003184645.1","-","-","-","-","-","-"
+"","Aspergillus eucalypticola CBS 122712 (GCA_003184535)","Eurotiales","1448314","Aspeuc1","GCA_003184535.1","-","-","-","-","-","-"
+"","Aspergillus fischeri NRRL 181","Eurotiales","331117","ASM14964v1","GCA_000149645.2","-","-","-","-","","-"
+"","Aspergillus flavus AF70 (GCA_000952835)","Eurotiales","1392242","ASM95283v1","GCA_000952835.1","-","-","-","-","-","-"
+"","Aspergillus flavus NRRL3357","Eurotiales","332952","JCVI-afl1-v2.0","GCA_000006275.2","-","-","-","-","","-"
+"","Aspergillus fumigatus (GCA_002234985)","Eurotiales","746128","ASM223498v1","GCA_002234985.1","-","-","-","-","","-"
+"","Aspergillus fumigatus A1163","Eurotiales","451804","ASM15014v1","GCA_000150145.1","-","-","-","-","-","-"
+"","Aspergillus fumigatus Af293","Eurotiales","330879","ASM265v1","GCA_000002655.1","-","-","-","-","-","-"
+"","Aspergillus fumigatus Z5 (GCA_001029325)","Eurotiales","1437362","ASM102932v1","GCA_001029325.1","-","-","-","-","-","-"
+"","Aspergillus fumigatus var. RP-2014 (GCA_000731615)","Eurotiales","1476192","AspFumNiv1.0","GCA_000731615.1","-","-","-","-","-","-"
+"","Aspergillus glaucus CBS 516.65 (GCA_001890805)","Eurotiales","1160497","Aspgl1","GCA_001890805.1","-","-","-","-","-","-"
+"","Aspergillus heteromorphus CBS 117.55 (GCA_003184545)","Eurotiales","1448321","Asphet1","GCA_003184545.1","-","-","-","-","-","-"
+"","Aspergillus indologenus CBS 114.80 (GCA_003184685)","Eurotiales","1450541","Aspind1","GCA_003184685.1","-","-","-","-","-","-"
+"","Aspergillus japonicus CBS 114.51 (GCA_003184785)","Eurotiales","1448312","Aspjap1","GCA_003184785.1","-","-","-","-","-","-"
+"","Aspergillus lacticoffeatus CBS 101883 (GCA_003184595)","Eurotiales","1450533","Asplac1","GCA_003184595.1","-","-","-","-","-","-"
+"","Aspergillus lentulus (GCA_001445615)","Eurotiales","293939","Alt_assembly01","GCA_001445615.1","-","-","-","-","-","-"
+"","Aspergillus luchuensis CBS 106.47 (GCA_001890685)","Eurotiales","1137211","Aspfo1","GCA_001890685.1","-","-","-","-","-","-"
+"","Aspergillus luchuensis str. RIB 2604 (GCA_001602395)","Eurotiales","1069201","AspL_2604","GCA_001602395.1","-","-","-","-","-","-"
+"","Aspergillus neoniger CBS 115656 (GCA_003184625)","Eurotiales","1448310","Aspneo1","GCA_003184625.1","-","-","-","-","-","-"
+"","Aspergillus nidulans","Eurotiales","227321","ASM1142v1","GCA_000011425.1","-","-","-","-","",""
+"","Aspergillus nidulans FGSC A4 (GCA_000149205)","Eurotiales","227321","ASM14920v2","GCA_000149205.2","-","-","-","-","-","-"
+"","Aspergillus niger","Eurotiales","5061","ASM285v2","GCA_000002855.2","-","-","-","","","-"
+"","Aspergillus niger (GCA_001515345)","Eurotiales","5061","ASM151534v1","GCA_001515345.1","-","-","-","-","-","-"
+"","Aspergillus niger (GCA_900248155)","Eurotiales","5061","Aniger_ATCC_64974_N402","GCA_900248155.1","-","-","-","-","-","-"
+"","Aspergillus niger ATCC 1015 (GCA_000230395)","Eurotiales","380704","ASPNI_v3.0","GCA_000230395.2","-","-","-","-","-","-"
+"","Aspergillus nomius NRRL 13137 (GCA_001204775)","Eurotiales","1509407","ASM120477v1","GCA_001204775.1","-","-","-","-","-","-"
+"","Aspergillus novofumigatus IBT 16806 (GCA_002847465)","Eurotiales","1392255","Aspnov1","GCA_002847465.1","-","-","-","-","-","-"
+"","Aspergillus ochraceoroseus IBT 24754 (GCA_002846915)","Eurotiales","1392256","Aspergillus_ochraceoroseus_IBT_24754_v1.1","GCA_002846915.2","-","-","-","-","-","-"
+"","Aspergillus ochraceoroseus str. SRRC1432 (GCA_000986665)","Eurotiales","138278","ASM98666v1","GCA_000986665.1","-","-","-","-","-","-"
+"","Aspergillus oryzae 100-8 (GCA_000691885)","Eurotiales","1197718","Aspergillus_oryzae_100-8","GCA_000691885.1","-","-","-","-","-","-"
+"","Aspergillus oryzae 3.042 (GCA_000269785)","Eurotiales","1160506","AspOry3042","GCA_000269785.2","-","-","-","-","-","-"
+"","Aspergillus oryzae RIB40","Eurotiales","510516","ASM18445v3","GCA_000184455.3","-","-","-","-","","-"
+"","Aspergillus oryzae str. BCC7051 (GCA_002007945)","Eurotiales","5062","ASM200794v1","GCA_002007945.1","-","-","-","-","-","-"
+"","Aspergillus parasiticus SU-1 (GCA_000956085)","Eurotiales","1403190","ASM95608v1","GCA_000956085.1","-","-","-","-","-","-"
+"","Aspergillus piperis CBS 112811 (GCA_003184755)","Eurotiales","1448313","Asppip1","GCA_003184755.1","-","-","-","-","-","-"
+"","Aspergillus rambellii str. SRRC1468 (GCA_000986645)","Eurotiales","308745","ASM98664v1","GCA_000986645.1","-","-","-","-","-","-"
+"","Aspergillus ruber CBS 135680 (GCA_000600275)","Eurotiales","1388766","Eurhe1","GCA_000600275.1","-","-","-","-","-","-"
+"","Aspergillus saccharolyticus JOP 1030-1 (GCA_003184585)","Eurotiales","1450539","Aspsac1","GCA_003184585.1","-","-","-","-","-","-"
+"","Aspergillus sclerotiicarbonarius CBS 121057 (GCA_003184635)","Eurotiales","1448318","Aspscle1","GCA_003184635.1","-","-","-","-","-","-"
+"","Aspergillus sclerotioniger CBS 115572 (GCA_003184525)","Eurotiales","1450535","Aspscl1","GCA_003184525.1","-","-","-","-","-","-"
+"","Aspergillus steynii IBT 23096 (GCA_002849105)","Eurotiales","1392250","Aspste1","GCA_002849105.1","-","-","-","-","-","-"
+"","Aspergillus sydowii CBS 593.65 (GCA_001890705)","Eurotiales","1036612","Aspsy1","GCA_001890705.1","-","-","-","-","-","-"
+"","Aspergillus taichungensis str. IBT 19404 (GCA_002850765)","Eurotiales","482145","Asptaic1","GCA_002850765.1","-","-","-","-","-","-"
+"","Aspergillus terreus NIH2624","Eurotiales","341663","ASM14961v1","GCA_000149615.1","-","-","-","-","","-"
+"","Aspergillus thermomutatus (GCA_002237265)","Eurotiales","41047","ASM223726v1","GCA_002237265.1","-","-","-","-","-","-"
+"","Aspergillus tubingensis CBS 134.48 (GCA_001890745)","Eurotiales","767770","Asptu1","GCA_001890745.1","-","-","-","-","-","-"
+"","Aspergillus turcosus (GCA_002234965)","Eurotiales","1245748","ASM223496v1","GCA_002234965.1","-","-","-","-","-","-"
+"","Aspergillus turcosus (GCA_002234975)","Eurotiales","1245748","ASM223497v1","GCA_002234975.1","-","-","-","-","-","-"
+"","Aspergillus udagawae str. IFM 46973 (GCA_001078395)","Eurotiales","91492","Aud_assembly01","GCA_001078395.1","-","-","-","-","-","-"
+"","Aspergillus ustus str. 3.3904 (GCA_000812125)","Eurotiales","40382","Austus1.0","GCA_000812125.1","-","-","-","-","-","-"
+"","Aspergillus uvarum CBS 121591 (GCA_003184745)","Eurotiales","1448315","Aspuva1","GCA_003184745.1","-","-","-","-","-","-"
+"","Aspergillus vadensis CBS 113365 (GCA_003184925)","Eurotiales","1448311","Aspvad1","GCA_003184925.1","-","-","-","-","-","-"
+"","Aspergillus versicolor CBS 583.65 (GCA_001890125)","Eurotiales","1036611","Aspve1","GCA_001890125.1","-","-","-","-","-","-"
+"","Aspergillus violaceofuscus CBS 115571 (GCA_003184705)","Eurotiales","1450538","Aspvio1","GCA_003184705.1","-","-","-","-","-","-"
+"","Aspergillus wentii DTO 134E9 (GCA_001890725)","Eurotiales","1073089","Aspwe1","GCA_001890725.1","-","-","-","-","-","-"
+"","Aureobasidium melanogenum CBS 110374 (GCA_000721775)","Dothideales","1043003","Aureobasidium_pullulans_var._melanogenum_CBS_110374_v1.0","GCA_000721775.1","-","-","-","-","","-"
+"","Aureobasidium namibiae CBS 147.97 (GCA_000721765)","Dothideales","1043004","Aureobasidium_pullulans_var._namibiae_CBS_147.97_v1.0","GCA_000721765.1","-","-","-","-","","-"
+"","Aureobasidium pullulans (GCA_001678115)","Dothideales","5580","ASM167811v1","GCA_001678115.1","-","-","-","-","-","-"
+"","Aureobasidium pullulans EXF-150 (GCA_000721785)","Dothideales","1043002","Aureobasidium_pullulans_var._pullulans_EXF-150_assembly_version_1.0","GCA_000721785.1","-","-","-","-","","-"
+"","Aureobasidium subglaciale EXF-2481 (GCA_000721755)","Dothideales","1043005","Aureobasidium_pullulans_var._subglaciale_EXF-2481_v1.0","GCA_000721755.1","-","-","-","-","","-"
+"","Babjeviella inositovora NRRL Y-12698 (GCA_001661335)","Saccharomycetales","984486","Babin1","GCA_001661335.1","-","-","-","-","","-"
+"","Basidiobolus meristosporus CBS 931.73 (GCA_002104905)","","1314790","Basme2finSC","GCA_002104905.1","-","-","-","-","","-"
+"","Batrachochytrium dendrobatidis JAM81 (GCA_000203795)","Rhizophydiales","684364","v1.0","GCA_000203795.1","-","-","-","-","-","-"
+"","Batrachochytrium dendrobatidis JEL423 (GCA_000149865)","Rhizophydiales","403673","BD_JEL423","GCA_000149865.1","-","-","-","-","","-"
+"","Batrachochytrium salamandrivorans str. BS (GCA_002006685)","Rhizophydiales","1357716","Batr_sala_BS_V1","GCA_002006685.1","-","-","-","-","","-"
+"","Baudoinia panamericana UAMH 10762 (GCA_000338955)","Capnodiales","717646","Bauco1","GCA_000338955.1","-","-","-","-","","-"
+"","Beauveria bassiana","Hypocreales","176275","ASM168263v1","GCA_001682635.1","-","-","-","","","-"
+"","Beauveria bassiana ARSEF 2860 (GCA_000280675)","Hypocreales","655819","ASM28067v1","GCA_000280675.1","-","-","-","-","-","-"
+"","Beauveria bassiana D1-5 (GCA_000770705)","Hypocreales","1245745","BBA1.0","GCA_000770705.1","-","-","-","-","-","-"
+"","Beauveria bassiana str. JEF-007 (GCA_002871155)","Hypocreales","176275","ASM287115v1","GCA_002871155.1","-","-","-","-","-","-"
+"","Bifiguratus adelaidae str. AZ0501","Mucoromycotina","1938954","ASM226119v1","GCA_002261195.1","-","-","-","-","","-"
+"","Bipolaris maydis ATCC 48331 (GCA_000354255)","Pleosporales","665024","CocheC4_1","GCA_000354255.1","-","-","-","-","-","-"
+"","Bipolaris maydis C5 (GCA_000338975)","Pleosporales","701091","CocheC5_3","GCA_000338975.1","-","-","-","-","","-"
+"","Bipolaris oryzae ATCC 44560 (GCA_000523455)","Pleosporales","930090","Cochliobolus_miyabeanus_v1.0","GCA_000523455.1","-","-","-","-","","-"
+"","Bipolaris sorokiniana ND90Pr (GCA_000338995)","Pleosporales","665912","Cocsa1","GCA_000338995.1","-","-","-","-","","-"
+"","Bipolaris victoriae FI3 (GCA_000527765)","Pleosporales","930091","Cochliobolus_victoriae_v1.0","GCA_000527765.1","-","-","-","-","","-"
+"","Bipolaris zeicola 26-R-13 (GCA_000523435)","Pleosporales","930089","Cochliobolus_carbonum_v1.0","GCA_000523435.1","-","-","-","-","","-"
+"","Blastomyces dermatitidis ATCC 18188 (GCA_000151595)","Onygenales","653446","BD_ATCC18188_V1","GCA_000151595.1","-","-","-","-","-","-"
+"","Blastomyces dermatitidis ATCC 26199 (GCA_000166155)","Onygenales","447095","BD_ATCC26199_V2","GCA_000166155.1","-","-","-","-","-","-"
+"","Blastomyces dermatitidis ER-3 (GCA_000003525)","Onygenales","559297","BD_ER3_V1","GCA_000003525.2","-","-","-","-","","-"
+"","Blastomyces gilchristii SLH14081 (GCA_000003855)","Onygenales","559298","BD_SLH14081_V1","GCA_000003855.2","-","-","-","-","","-"
+"","Blastomyces percursus str. EI222 (GCA_001883805)","Onygenales","1658174","Blas_perc_EI222_V1","GCA_001883805.1","-","-","-","-","","-"
+"","Blumeria graminis","Erysiphales","546991","EF2","GCA_000151065.2","-","-","-","","","-"
+"","Blumeria graminis f. sp. tritici 96224 (GCA_000418435)","Erysiphales","1268274","Bgt_454_newbler_assembly","GCA_000418435.1","-","-","-","-","-","-"
+"","Botryobasidium botryosum FD-172 SS1 (GCA_000697705)","Cantharellales","930990","Botbo1","GCA_000697705.1","-","-","-","-","","-"
+"","Botrytis cinerea B05.10","Sclerotiniaceae","332648","ASM83294v1","GCA_000143535.4","-","-","-","","","-"
+"","Botrytis cinerea BcDW1 (GCA_000349525)","Sclerotiniaceae","1290391","BcDW1","GCA_000349525.1","-","-","-","-","-","-"
+"","Botrytis cinerea T4 (GCA_000227075)","Sclerotiniaceae","999810","BotFuc_Mar2011","GCA_000227075.1","-","-","-","-","-","-"
+"","Brettanomyces bruxellensis AWRI1499 (GCA_000259595)","Saccharomycetales","1124627","AWRI1499_v1.0","GCA_000259595.1","-","-","-","-","","-"
+"","Byssochlamys spectabilis No. 5 str. Paecilomyces variotii No. 5 (NBRC109023) (GCA_000497085)","Eurotiales","1356009","PVAR5_assembly01","GCA_000497085.1","-","-","-","-","","-"
+"","Cadophora sp. DSE1049 (GCA_003073865)","Helotiales","1485229","Cadsp1","GCA_003073865.1","-","-","-","-","","-"
+"","Calocera cornea HHB12733 (GCA_001632435)","Dacrymycetales","1353952","Calco1","GCA_001632435.1","-","-","-","-","","-"
+"","Calocera viscosa TUFC12733 (GCA_001630345)","Dacrymycetales","1330018","Calvi1","GCA_001630345.1","-","-","-","-","","-"
+"","Candida albicans 12C (GCA_000773845)","Saccharomycetales","1094981","Cand_albi_12C_V2","GCA_000773845.1","-","-","-","-","-","-"
+"","Candida albicans 19F (GCA_000775445)","Saccharomycetales","1094987","Cand_albi_19F_V2","GCA_000775445.1","-","-","-","-","-","-"
+"","Candida albicans Ca6 (GCA_000784695)","Saccharomycetales","1165368","Cand_albi_Ca6_V2","GCA_000784695.1","-","-","-","-","-","-"
+"","Candida albicans GC75 (GCA_000773735)","Saccharomycetales","1094988","Cand_albi_GC75_V1","GCA_000773735.1","-","-","-","-","-","-"
+"","Candida albicans L26 (GCA_000775455)","Saccharomycetales","1094982","Cand_albi_L26_V2","GCA_000775455.1","-","-","-","-","-","-"
+"","Candida albicans P34048 (GCA_000775465)","Saccharomycetales","1094991","Cand_albi_P34048_V1","GCA_000775465.1","-","-","-","-","-","-"
+"","Candida albicans P37005 (GCA_000773745)","Saccharomycetales","1094985","Cand_albi_P37005_V2","GCA_000773745.1","-","-","-","-","-","-"
+"","Candida albicans P37037 (GCA_000773825)","Saccharomycetales","1094992","Cand_albi_P37037_V1","GCA_000773825.1","-","-","-","-","-","-"
+"","Candida albicans P37039 (GCA_000784515)","Saccharomycetales","1094993","Cand_albi_P37039_V1","GCA_000784515.1","-","-","-","-","-","-"
+"","Candida albicans P57055 (GCA_000775505)","Saccharomycetales","1094996","Cand_albi_P57055_V1","GCA_000775505.1","-","-","-","-","-","-"
+"","Candida albicans P57072 (GCA_000773805)","Saccharomycetales","1094990","Cand_albi_P57072_V1","GCA_000773805.1","-","-","-","-","-","-"
+"","Candida albicans P60002 (GCA_000784525)","Saccharomycetales","1094986","Cand_albi_P60002_V1","GCA_000784525.1","-","-","-","-","-","-"
+"","Candida albicans P75010 (GCA_000784575)","Saccharomycetales","1094994","Cand_albi_P75010_V1","GCA_000784575.1","-","-","-","-","-","-"
+"","Candida albicans P75016 (GCA_000784595)","Saccharomycetales","1094995","Cand_albi_P75016_V1","GCA_000784595.1","-","-","-","-","-","-"
+"","Candida albicans P75063 (GCA_000775525)","Saccharomycetales","1094997","Cand_albi_P75063_V1","GCA_000775525.1","-","-","-","-","-","-"
+"","Candida albicans P76055 (GCA_000784505)","Saccharomycetales","1094998","Cand_albi_P76055_V1","GCA_000784505.1","-","-","-","-","-","-"
+"","Candida albicans P76067 (GCA_000784495)","Saccharomycetales","1094999","Cand_albi_P76067_V1","GCA_000784495.1","-","-","-","-","-","-"
+"","Candida albicans P78042 (GCA_000784615)","Saccharomycetales","1095000","Cand_albi_P78042_V1","GCA_000784615.1","-","-","-","-","-","-"
+"","Candida albicans P78048 (GCA_000773725)","Saccharomycetales","1094989","Cand_albi_P78048_V1","GCA_000773725.1","-","-","-","-","-","-"
+"","Candida albicans P87 (GCA_000774085)","Saccharomycetales","1094984","Cand_albi_P87_V2","GCA_000774085.1","-","-","-","-","-","-"
+"","Candida albicans P94015 (GCA_000773755)","Saccharomycetales","1094983","Cand_albi_P94015_V1","GCA_000773755.1","-","-","-","-","-","-"
+"","Candida albicans SC5314 (GCA_000784635)","Saccharomycetales","237561","Cand_albi_SC5314_V4","GCA_000784635.1","-","-","-","-","","-"
+"","Candida albicans SC5314 (GCA_000784655)","Saccharomycetales","237561","Cand_albi_SC5314_V3","GCA_000784655.1","-","-","-","-","-","-"
+"","Candida albicans WO-1 (GCA_000149445)","Saccharomycetales","294748","ASM14944v2","GCA_000149445.2","-","-","-","-","-","-"
+"","Candida dubliniensis CD36 (GCA_000026945)","Saccharomycetales","573826","ASM2694v1","GCA_000026945.1","-","-","-","-","-","-"
+"","Candida maltosa Xu316 (GCA_000344705)","Saccharomycetales","1245528","Cmaltosa_v01","GCA_000344705.1","-","-","-","-","-","-"
+"","Candida orthopsilosis Co 90-125 (GCA_000315875)","Saccharomycetales","1136231","ASM31587v1","GCA_000315875.1","-","-","-","-","-","-"
+"","Candida parapsilosis str. CDC317 (GCA_000182765)","Saccharomycetales","5480","ASM18276v2","GCA_000182765.2","-","-","-","-","","-"
+"","Candida tropicalis MYA-3404 (GCA_000006335)","Saccharomycetales","294747","ASM633v3","GCA_000006335.3","-","-","-","-","","-"
+"","Capronia coronata CBS 617.96 (GCA_000585585)","Chaetothyriomycetidae","1182541","Capr_coro_CBS_617_96_V1","GCA_000585585.1","-","-","-","-","","-"
+"","Capronia epimyces CBS 606.96 (GCA_000585565)","Chaetothyriomycetidae","1182542","Capr_epim_CBS_606_96_V1","GCA_000585565.1","-","-","-","-","","-"
+"","Catenaria anguillulae PL171 (GCA_002102555)","Blastocladiales","765915","Catan2","GCA_002102555.1","-","-","-","-","","-"
+"","Ceraceosorus bombacis (GCA_900000165)","","401625","Ceraceosorus_bombacis","GCA_900000165.1","-","-","-","-","-","-"
+"","Ceraceosorus guamensis str. MCA 4658 (GCA_003144195)","","1522189","Cersp1","GCA_003144195.1","-","-","-","-","","-"
+"","Ceratocystis platani str. CFO (GCA_000978885)","Microascales","88771","ASM97888v1","GCA_000978885.1","-","-","-","-","","-"
+"","Cercospora berteroae (GCA_002933655)","Capnodiales","357750","Cbert_1","GCA_002933655.1","-","-","-","-","","-"
+"","Cercospora beticola (GCA_002742065)","Capnodiales","122368","CB0940_V2","GCA_002742065.1","-","-","-","-","","-"
+"","Cercospora zeina str. CMW25467 (GCA_002844615)","Capnodiales","348901","ASM284461v1","GCA_002844615.1","-","-","-","-","","-"
+"","Chaetomium globosum CBS 148.51 (GCA_000143365)","Sordariales","306901","ASM14336v1","GCA_000143365.1","-","-","-","-","","-"
+"","Chaetomium thermophilum var. thermophilum DSM 1495 (GCA_000221225)","Sordariales","759272","CTHT_3.0","GCA_000221225.1","-","-","-","-","","-"
+"","Choanephora cucurbitarum str. KUS-F28377 (GCA_001683725)","Mucoromycotina","101091","ASM168372v1","GCA_001683725.1","-","-","-","-","","-"
+"","Cladophialophora bantiana CBS 173.52 (GCA_000835475)","Chaetothyriomycetidae","1442370","Clad_bant_CBS_173_52_V1","GCA_000835475.1","-","-","-","-","","-"
+"","Cladophialophora carrionii CBS 160.54 (GCA_000365165)","Chaetothyriomycetidae","1279043","Clad_carr_CBS_160_54_V1","GCA_000365165.2","-","-","-","-","-","-"
+"","Cladophialophora carrionii str. KSF (GCA_001700775)","Chaetothyriomycetidae","86049","ASM170077v1","GCA_001700775.1","-","-","-","-","","-"
+"","Cladophialophora immunda str. CBS 83496 (GCA_000835495)","Chaetothyriomycetidae","569365","Clad_immu_CBS83496_V1","GCA_000835495.1","-","-","-","-","","-"
+"","Cladophialophora psammophila CBS 110553 (GCA_000585535)","Chaetothyriomycetidae","1182543","Clad_psam_CBS_110553_V1","GCA_000585535.1","-","-","-","-","","-"
+"","Cladophialophora yegresii CBS 114405 (GCA_000585515)","Chaetothyriomycetidae","1182544","Clad_yegr_CBS_114405_V1","GCA_000585515.1","-","-","-","-","","-"
+"","Claviceps purpurea 20.1 (GCA_000347355)","Hypocreales","1111077","ASM34735v1","GCA_000347355.1","-","-","-","-","","-"
+"","Clavispora lusitaniae ATCC 42720 (GCA_000003835)","Saccharomycetales","306902","ASM383v1","GCA_000003835.1","-","-","-","-","","-"
+"","Clavispora lusitaniae str. CBS 6936 (GCA_001673695)","Saccharomycetales","36911","ASM167369v2","GCA_001673695.2","-","-","-","-","-","-"
+"","Clohesyomyces aquaticus str. CBS 115471 (GCA_002105025)","Pleosporales","1231657","Cloaq1","GCA_002105025.1","-","-","-","-","","-"
+"","Coccidioides immitis H538.4 (GCA_000149815)","Onygenales","396776","ASM14981v1","GCA_000149815.1","-","-","-","-","","-"
+"","Coccidioides immitis RMSCC 2394 (GCA_000149895)","Onygenales","404692","ASM14989v1","GCA_000149895.1","-","-","-","-","-","-"
+"","Coccidioides immitis RMSCC 3703 (GCA_000150085)","Onygenales","454286","ASM15008v1","GCA_000150085.1","-","-","-","-","-","-"
+"","Coccidioides immitis RS (GCA_000149335)","Onygenales","246410","ASM14933v2","GCA_000149335.2","-","-","-","-","-","-"
+"","Coccidioides posadasii C735 delta SOWgp (GCA_000151335)","Onygenales","222929","JCVI-cpa1-1.0","GCA_000151335.1","-","-","-","-","-","-"
+"","Coccidioides posadasii RMSCC 3488 (GCA_000150055)","Onygenales","454284","ASM15005v1","GCA_000150055.1","-","-","-","-","-","-"
+"","Coccidioides posadasii str. Silveira (GCA_000170175)","Onygenales","443226","CPS2","GCA_000170175.2","-","-","-","-","","-"
+"","Colletotrichum chlorophyti str. NTL11 (GCA_001937105)","Glomerellales","708187","ASM193710v1","GCA_001937105.1","-","-","-","-","-","-"
+"","Colletotrichum fioriniae PJ7 (GCA_000582985)","Glomerellales","1445577","CFIO01","GCA_000582985.1","-","-","-","-","-","-"
+"","Colletotrichum gloeosporioides","Glomerellales","1213859","GCA_000319635.1","GCA_000319635.1","-","-","-","","","-"
+"","Colletotrichum gloeosporioides Cg-14 (GCA_000446055)","Glomerellales","1237896","Colletotrichum_gloeosporioides1","GCA_000446055.1","-","-","-","-","-","-"
+"","Colletotrichum graminicola","Glomerellales","645133","C_graminicola_M1_001_V1","GCA_000149035.1","-","-","-","","","-"
+"","Colletotrichum higginsianum","Glomerellales","80884","GCA_000313795.2","GCA_000313795.2","-","-","-","","","-"
+"","Colletotrichum higginsianum IMI 349063 (GCA_001672515)","Glomerellales","759273","ASM167251v1","GCA_001672515.1","-","-","-","-","-","-"
+"","Colletotrichum incanum str. MAFF 238704 (GCA_001625285)","Glomerellales","1573173","Ci238704v1","GCA_001625285.1","-","-","-","-","-","-"
+"","Colletotrichum incanum str. MAFF238712 (GCA_001855235)","Glomerellales","1573173","ASM185523v1","GCA_001855235.1","-","-","-","-","-","-"
+"","Colletotrichum nymphaeae SA-01 (GCA_001563115)","Glomerellales","1460502","CNYM01","GCA_001563115.1","-","-","-","-","-","-"
+"","Colletotrichum orbiculare","Glomerellales","1213857","GCA_000350065.1","GCA_000350065.1","-","-","-","","","-"
+"","Colletotrichum orchidophilum str. IMI 309357 (GCA_001831195)","Glomerellales","1209926","CORC01","GCA_001831195.1","-","-","-","-","-","-"
+"","Colletotrichum salicis str. CBS 607.94 (GCA_001563125)","Glomerellales","1209931","CSAL01","GCA_001563125.1","-","-","-","-","-","-"
+"","Colletotrichum simmondsii str. CBS122122 (GCA_001563135)","Glomerellales","703756","CSIM01","GCA_001563135.1","-","-","-","-","-","-"
+"","Colletotrichum sublineola str. TX430BB (GCA_000696135)","Glomerellales","1173701","ASM69613v1","GCA_000696135.1","-","-","-","-","-","-"
+"","Colletotrichum tofieldiae str. 0861 (GCA_001625265)","Glomerellales","708197","Ct0861v1","GCA_001625265.1","-","-","-","-","-","-"
+"","Conidiobolus coronatus NRRL 28638 (GCA_001566745)","","796925","Conidiobolus_coronatus_NRRL28638","GCA_001566745.1","-","-","-","-","","-"
+"","Coniella lustricola str. B22-T-1 (GCA_003019895)","Sordariomycetidae","2025994","Coniella_lustricola_v1.0","GCA_003019895.1","-","-","-","-","","-"
+"","Coniochaeta ligniaria NRRL 30616 (GCA_001879275)","Sordariomycetidae","1408157","Conlig_v1.0","GCA_001879275.1","-","-","-","-","","-"
+"","Coniophora puteana RWD-64-598 SS2 (GCA_000271625)","Boletales","741705","Conpu1","GCA_000271625.1","-","-","-","-","","-"
+"","Coniosporium apollinis CBS 100218 str. CBS 352.97 (GCA_000281105)","","1168221","Coni_apol_CBS100218__V1","GCA_000281105.1","-","-","-","-","","-"
+"","Coprinopsis cinerea okayama7#130 (GCA_000182895)","Agaricales","240176","CC3","GCA_000182895.1","-","-","-","-","","-"
+"","Cordyceps brongniartii RCEF 3172 (GCA_001636735)","Hypocreales","1081107","BBO_1.0","GCA_001636735.1","-","-","-","-","","-"
+"","Cordyceps confragosa RCEF 1005 (GCA_001636795)","Hypocreales","1081108","LEL_1.0","GCA_001636795.1","-","-","-","-","","-"
+"","Cordyceps confragosa str. UM487 (GCA_001653215)","Hypocreales","1105325","ASM165321v1","GCA_001653215.1","-","-","-","-","-","-"
+"","Cordyceps fumosorosea ARSEF 2679 (GCA_001636725)","Hypocreales","1081104","ISF_1.0","GCA_001636725.1","-","-","-","-","","-"
+"","Cordyceps militaris CM01 (GCA_000225605)","Hypocreales","983644","CmilitarisCM01_v01","GCA_000225605.1","-","-","-","-","","-"
+"","Cordyceps sp. RAO-2017 (GCA_002591385)","Hypocreales","2004951","Hirsu2","GCA_002591385.1","-","-","-","-","","-"
+"","Corynespora cassiicola Philippines (GCA_003016335)","Pleosporales","1448308","Corynespora_cassiicola_v1.0","GCA_003016335.1","-","-","-","-","","-"
+"","Cryptococcus amylolentus CBS 6039 (GCA_001720205)","Tremellales","1295533","Cryp_amyl_CBS6039_V3","GCA_001720205.1","-","-","-","-","","-"
+"","Cryptococcus amylolentus CBS 6273 (GCA_001720235)","Tremellales","1296118","Cryp_amyl_CBS6273_V2","GCA_001720235.1","-","-","-","-","-","-"
+"","Cryptococcus depauperatus CBS 7841 (GCA_001720195)","Tremellales","1295531","Filo_depa_CBS7841_V1","GCA_001720195.1","-","-","-","-","","-"
+"","Cryptococcus depauperatus CBS 7855 (GCA_001720245)","Tremellales","1295532","Filo_depa_CBS7855_V2","GCA_001720245.1","-","-","-","-","-","-"
+"","Cryptococcus gattii CA1280 (GCA_000836335)","Tremellales","1296109","Cryp_gatt_CA1280_V1","GCA_000836335.1","-","-","-","-","-","-"
+"","Cryptococcus gattii CA1873 (GCA_000855695)","Tremellales","1296111","Cryp_gatt_CA1873_V1","GCA_000855695.1","-","-","-","-","-","-"
+"","Cryptococcus gattii E566 (GCA_000875815)","Tremellales","1296102","Cryp_gatt_E566_V1","GCA_000875815.1","-","-","-","-","-","-"
+"","Cryptococcus gattii EJB2 (GCA_000835745)","Tremellales","1296103","Cryp_gatt_EJB2_V1","GCA_000835745.1","-","-","-","-","-","-"
+"","Cryptococcus gattii NT-10 (GCA_000935105)","Tremellales","1296108","Cryp_gatt_NT-10_V1","GCA_000935105.1","-","-","-","-","-","-"
+"","Cryptococcus gattii Ru294 (GCA_000836355)","Tremellales","1296112","Cryp_gatt_Ru294_V1","GCA_000836355.1","-","-","-","-","-","-"
+"","Cryptococcus gattii VGII 2001/935-1 (GCA_000835815)","Tremellales","1334442","Cryp_gatt_2001_935-1_V1","GCA_000835815.1","-","-","-","-","-","-"
+"","Cryptococcus gattii VGII 99/473 (GCA_000836455)","Tremellales","1296104","Cryp_gatt_99_473_V1","GCA_000836455.1","-","-","-","-","-","-"
+"","Cryptococcus gattii VGII CA1014 (GCA_000875795)","Tremellales","1296107","Cryp_gatt_CA1014_V1","GCA_000875795.1","-","-","-","-","-","-"
+"","Cryptococcus gattii VGII CBS 10090 (GCA_000835765)","Tremellales","1296101","Cryp_gatt_CBS10090_V1","GCA_000835765.1","-","-","-","-","-","-"
+"","Cryptococcus gattii VGII LA55 (GCA_000836315)","Tremellales","1296106","Cryp_gatt_LA55_V1","GCA_000836315.1","-","-","-","-","-","-"
+"","Cryptococcus gattii VGII MMRL2647 (GCA_000875855)","Tremellales","1296117","Cryp_gatt_MMRL2647_V2","GCA_000875855.1","-","-","-","-","-","-"
+"","Cryptococcus gattii VGII R265 (GCA_000149475)","Tremellales","294750","CNB2","GCA_000149475.3","-","-","-","-","-","-"
+"","Cryptococcus gattii VGII Ram5 (GCA_000836375)","Tremellales","1296110","Cryp_gatt_Ram5_V1","GCA_000836375.1","-","-","-","-","-","-"
+"","Cryptococcus gattii VGIV IND107 (GCA_000835755)","Tremellales","1296105","Cryp_gatt_IND107_V2","GCA_000835755.1","-","-","-","-","-","-"
+"","Cryptococcus gattii WM276 (GCA_000185945)","Tremellales","367775","ASM18594v1","GCA_000185945.1","-","-","-","-","","-"
+"","Cryptococcus neoformans var. grubii 125.91 (GCA_002215885)","Tremellales","1230079","Cryp_neof_125_91_V1","GCA_002215885.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii A1-35-8 (GCA_002221985)","Tremellales","1230081","Cryp_neof_grubii_A1-35-8_V1","GCA_002221985.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii A2-102-5 (GCA_002222375)","Tremellales","1230057","Cryp_neof_A2_102_5_V1","GCA_002222375.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii A5-35-17 (GCA_002222215)","Tremellales","1230080","Cryp_neof_grubii_A5-35-17_V1","GCA_002222215.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii AD1-7a (GCA_002220445)","Tremellales","1230056","Cryp_neof_AD1_7a_V1","GCA_002220445.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii AD1-83a (GCA_002215765)","Tremellales","1230065","Cryp_neof_AD1_83a_V1","GCA_002215765.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii AD2-60a (GCA_002215775)","Tremellales","1230059","Cryp_neof_AD2_60a_V1","GCA_002215775.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Br795 (GCA_002222225)","Tremellales","1230061","Cryp_neof_Br795_V1","GCA_002222225.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Bt1 (GCA_002215705)","Tremellales","1230073","Cryp_neof_Bt1_V1","GCA_002215705.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Bt120 (GCA_002222465)","Tremellales","1230070","Cryp_neof_Bt120_V1","GCA_002222465.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Bt15 (GCA_002222335)","Tremellales","1230071","Cryp_neof_Bt15_V1","GCA_002222335.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Bt63 (GCA_002234625)","Tremellales","1230075","Cryp_neof_Bt63_V1","GCA_002234625.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Bt85 (GCA_002215835)","Tremellales","1230076","Cryp_neof_Bt85_V1","GCA_002215835.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii C23 (GCA_002215825)","Tremellales","1230055","Cryp_neof_C23_V1","GCA_002215825.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii CHC193 (GCA_002222295)","Tremellales","1230064","Cryp_neof_CHC193_V1","GCA_002222295.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii D17-1 (GCA_002222255)","Tremellales","1230058","Cryp_neof_D17_1_V1","GCA_002222255.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Gb118 (GCA_002224005)","Tremellales","1230060","Cryp_neof_Gb118_V1","GCA_002224005.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii H99 (GCA_000149245)","Tremellales","235443","CNA3","GCA_000149245.3","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii MW-RSA1955 (GCA_002222455)","Tremellales","1230066","Cryp_neof_MW_RSA1955_V1","GCA_002222455.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii MW-RSA36 (GCA_002222395)","Tremellales","1230062","Cryp_neof_MW_RSA36_V1","GCA_002222395.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii MW-RSA852 (GCA_002220035)","Tremellales","1230069","Cryp_neof_MW_RSA852_V1","GCA_002220035.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Th84 (GCA_002222315)","Tremellales","1230067","Cryp_neof_Th84_V1","GCA_002222315.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Tu259-1 (GCA_002222325)","Tremellales","1230072","Cryp_neof_Tu259_1_V1","GCA_002222325.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Tu401-1 (GCA_002222475)","Tremellales","1230077","Cryp_neof_Tu401_1_V1","GCA_002222475.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii Ze90-1 (GCA_002222385)","Tremellales","1230078","Cryp_neof_Ze90_1_V1","GCA_002222385.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii c45 (GCA_002215855)","Tremellales","1230068","Cryp_neof_C45_V1","GCA_002215855.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii c8 (GCA_002222405)","Tremellales","1230063","Cryp_neof_C8_V1","GCA_002222405.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. CCTP51 (GCA_002217545)","Tremellales","178876","Cryp_neof_grubii_cng10_V1","GCA_002217545.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. CM20 (GCA_002222115)","Tremellales","178876","Cryp_neof_grubii_cng5_V1","GCA_002222115.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. CM24 (GCA_002222145)","Tremellales","178876","Cryp_neof_grubii_cng6_V1","GCA_002222145.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. CM36 (GCA_002222245)","Tremellales","178876","Cryp_neof_grubii_cng2_V1","GCA_002222245.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. CM50 (GCA_002222135)","Tremellales","178876","Cryp_neof_grubii_cng1_V1","GCA_002222135.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. CM52 (GCA_002222165)","Tremellales","178876","Cryp_neof_grubii_cng3_V1","GCA_002222165.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. CM64 (GCA_002222025)","Tremellales","178876","Cryp_neof_grubii_cng4_V1","GCA_002222025.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. KN99 (GCA_002216725)","Tremellales","178876","ASM221672v1","GCA_002216725.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. RCT21 (GCA_002222155)","Tremellales","178876","Cryp_neof_grubii_cng11_V1","GCA_002222155.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. RCT54 (GCA_002222015)","Tremellales","178876","Cryp_neof_grubii_cng8_V1","GCA_002222015.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. RCT6 (GCA_002222095)","Tremellales","178876","Cryp_neof_grubii_cng7_V1","GCA_002222095.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. V2 (GCA_002215755)","Tremellales","178876","Cneo_seroA_V2","GCA_002215755.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. grubii str. WM-1408 (GCA_002220045)","Tremellales","178876","Cneo_seroA_WM1408","GCA_002220045.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. neoformans B-3501A (GCA_000149385)","Tremellales","283643","ASM14938v1","GCA_000149385.1","-","-","-","-","-","-"
+"","Cryptococcus neoformans var. neoformans JEC21","Tremellales","214684","ASM9104v1","GCA_000091045.1","-","-","-","-","","-"
+"","Cutaneotrichosporon oleaginosum str. IBC0246 (GCA_001027345)","","879819","Triol1","GCA_001027345.1","-","-","-","-","","-"
+"","Cyberlindnera fabianii str. 65 (GCA_001983305)","Saccharomycetales","36022","ASM198330v1","GCA_001983305.1","-","-","-","-","-","-"
+"","Cyberlindnera fabianii str. YJS4271 (GCA_003205855)","Saccharomycetales","36022","ASM320585v1","GCA_003205855.1","-","-","-","-","","-"
+"","Cyberlindnera jadinii NRRL Y-1542 (GCA_001661405)","Saccharomycetales","983966","Cybja1","GCA_001661405.1","-","-","-","-","-","-"
+"","Cyberlindnera jadinii str. CBS1600 (GCA_001245095)","Saccharomycetales","4903","cj1","GCA_001245095.1","-","-","-","-","","-"
+"","Cylindrobasidium torrendii FP15055 ss-10 (GCA_000934385)","Agaricales","1314674","Cylto1","GCA_000934385.1","-","-","-","-","","-"
+"","Cyphellophora europaea CBS 101466 (GCA_000365145)","Chaetothyriomycetidae","1220924","Phia_euro_CBS_101466_V1","GCA_000365145.2","-","-","-","-","","-"
+"","Dacryopinax primogenitus str. DJM-731 SS1 (GCA_000292625)","Dacrymycetales","1858805","Dacryopinax_sp._DJM_731_SSP1_v1.0","GCA_000292625.1","-","-","-","-","","-"
+"","Dactylellina haptotyla CBS 200.50 (GCA_000441935)","Orbiliales","1284197","MHA_v2","GCA_000441935.1","-","-","-","-","","-"
+"","Daedalea quercina L-15889 (GCA_001632345)","Polyporales","1314783","Daequ1","GCA_001632345.1","-","-","-","-","","-"
+"","Daldinia sp. EC12 (GCA_002120325)","Xylariales","1001832","DalEC12_v.1.0","GCA_002120325.1","-","-","-","-","","-"
+"","Debaryomyces fabryi str. CBS 789 (GCA_001447935)","Saccharomycetales","58627","debFab1.0","GCA_001447935.1","-","-","-","-","","-"
+"","Debaryomyces hansenii CBS767 (GCA_000006445)","Saccharomycetales","284592","ASM644v2","GCA_000006445.2","-","-","-","-","","-"
+"","Diaporthe ampelina (GCA_001006365)","Sordariomycetidae","1214573","UCDDA912v1.0","GCA_001006365.1","-","-","-","-","","-"
+"","Diaporthe helianthi str. 7/96 (GCA_001702395)","Sordariomycetidae","158607","DHEL01v2","GCA_001702395.2","-","-","-","-","","-"
+"","Dichomitus squalens LYAD-421 SS1 (GCA_000275845)","Polyporales","732165","Dichomitus_squalens_v1.0","GCA_000275845.1","-","-","-","-","","-"
+"","Diplocarpon rosae (GCA_002317995)","Helotiales","946125","ASM231799v1","GCA_002317995.1","-","-","-","-","","-"
+"","Diplodia corticola str. CBS 112549 (GCA_001883845)","Botryosphaeriales","236234","ASM188384v1","GCA_001883845.1","-","-","-","-","","-"
+"","Diplodia seriata (GCA_001006355)","Botryosphaeriales","420778","UCDDS831v0.1","GCA_001006355.1","-","-","-","-","","-"
+"","Diplodia seriata str. F98.1 (GCA_001975905)","Botryosphaeriales","420778","Dipser_v1","GCA_001975905.1","-","-","-","-","-","-"
+"","Dothistroma septosporum","Capnodiales","675120","GCA_000340195.1","GCA_000340195.1","-","-","-","","","-"
+"","Drechmeria coniospora str. ARSEF 6962 (GCA_001625195)","Hypocreales","98403","ASM162519v1","GCA_001625195.1","-","-","-","-","","-"
+"","Drechslerella stenobrocha 248 (GCA_000525045)","Orbiliales","1043628","DREv1","GCA_000525045.1","-","-","-","-","","-"
+"","Edhazardia aedis USNM 41457 (GCA_000230595)","Microsporidia","1003232","Edha_aedis_V4b","GCA_000230595.3","-","-","-","-","","-"
+"","Elaphomyces granulatus str. OSC145934 (GCA_002240705)","Eurotiales","519963","PX439","GCA_002240705.1","-","-","-","-","","-"
+"","Elsinoe australis str. NL1 (GCA_003013795)","","40998","ASM301379v1","GCA_003013795.1","-","-","-","-","","-"
+"","Emergomyces pasteuriana Ep9510 str. UAMH 9510 (GCA_001883825)","Onygenales","1447872","Emmo_past_UAMH9510_V1","GCA_001883825.1","-","-","-","-","","-"
+"","Emmonsia crescens UAMH 3008 (GCA_001008285)","Onygenales","1247875","ASM100828v1","GCA_001008285.1","-","-","-","-","","-"
+"","Emmonsia crescens str. UAMH4076 (GCA_002572855)","Onygenales","73230","Emmon_cres_4076_V1","GCA_002572855.1","-","-","-","-","-","-"
+"","Emmonsia parva UAMH 139 (GCA_001014755)","Onygenales","2060906","ASM101475v1","GCA_001014755.1","-","-","-","-","","-"
+"","Emmonsia parva str. UAMH130 (GCA_002572885)","Onygenales","2060905","Emmon_parv_130","GCA_002572885.1","-","-","-","-","-","-"
+"","Emmonsia sp. CAC-2015a str. CBS 136260 (GCA_001660665)","Onygenales","1658172","Emmo_afri_EA111","GCA_001660665.1","-","-","-","-","","-"
+"","Encephalitozoon cuniculi EcunIII-L (GCA_001078035)","Unikaryonidae","1355160","ECIIIL","GCA_001078035.1","-","-","-","-","-","-"
+"","Encephalitozoon hellem ATCC 50504 (GCA_000277815)","Unikaryonidae","907965","ASM27781v3","GCA_000277815.3","-","-","-","-","-","-"
+"","Encephalitozoon intestinalis ATCC 50506 (GCA_000146465)","Unikaryonidae","876142","ASM14646v1","GCA_000146465.1","-","-","-","-","-","-"
+"","Encephalitozoon romaleae SJ-2008 (GCA_000280035)","Unikaryonidae","1178016","ASM28003v2","GCA_000280035.2","-","-","-","-","-","-"
+"","Endocarpon pusillum Z07020 (GCA_000464535)","Verrucariales","1263415","EPUS","GCA_000464535.1","-","-","-","-","","-"
+"","Enterocytozoon bieneusi H348 (GCA_000209485)","Microsporidia","481877","ASM20948v1","GCA_000209485.1","-","-","-","-","","-"
+"","Enterocytozoon hepatopenaei str. TH1 (GCA_002081675)","Microsporidia","646526","ASM208167v1","GCA_002081675.1","-","-","-","-","","-"
+"","Enterospora canceri str. GB1 (GCA_002087915)","Microsporidia","1081671","ASM208791v1","GCA_002087915.1","-","-","-","-","","-"
+"","Epicoccum nigrum str. ICMP 19927 (GCA_002116315)","Pleosporales","105696","ASM211631v1","GCA_002116315.1","-","-","-","-","","-"
+"","Eremothecium cymbalariae DBVPG#7215 (GCA_000235365)","Saccharomycetales","931890","ASM23536v1","GCA_000235365.1","-","-","-","-","","-"
+"","Eremothecium gossypii FDAG1 (GCA_000968835)","Saccharomycetales","1034331","ASM96883v1","GCA_000968835.1","-","-","-","-","","-"
+"","Erysiphe necator (GCA_000798715)","Erysiphales","52586","ASM79871v1","GCA_000798715.1","-","-","-","-","","-"
+"","Erysiphe pulchra (GCA_002918395)","Erysiphales","225359","ASM291839v1","GCA_002918395.1","-","-","-","-","","-"
+"","Escovopsis weberi (GCA_001278495)","Hypocreales","150374","ASM127849v1","GCA_001278495.1","-","-","-","-","","-"
+"","Eutypa lata UCREL1 (GCA_000349385)","Xylariales","1287681","UCREL1V03","GCA_000349385.1","-","-","-","-","","-"
+"","Exidia glandulosa HHB12029 (GCA_001632375)","","1314781","Exigl1","GCA_001632375.1","-","-","-","-","","-"
+"","Exophiala aquamarina CBS 119918 (GCA_000709125)","Chaetothyriomycetidae","1182545","Exop_aqua_CBS_119918_V1","GCA_000709125.1","-","-","-","-","","-"
+"","Exophiala dermatitidis NIH/UT8656 (GCA_000230625)","Chaetothyriomycetidae","858893","Exop_derm_V1","GCA_000230625.1","-","-","-","-","","-"
+"","Exophiala mesophila str. CBS 40295 (GCA_000836275)","Chaetothyriomycetidae","212818","Exop_meso_CBS40295_V1","GCA_000836275.1","-","-","-","-","","-"
+"","Exophiala oligosperma str. CBS 72588 (GCA_000835515)","Chaetothyriomycetidae","215243","Exop_olig_CBS72588_V1","GCA_000835515.1","-","-","-","-","","-"
+"","Exophiala sideris str. CBS 121828 (GCA_000835395)","Chaetothyriomycetidae","1016849","Exop_side_CBS121828_V1","GCA_000835395.1","-","-","-","-","","-"
+"","Exophiala spinifera str. CBS 89968 (GCA_000836115)","Chaetothyriomycetidae","91928","Exop_spin_CBS89968_V1","GCA_000836115.1","-","-","-","-","","-"
+"","Exophiala xenobiotica str. CBS 118157 (GCA_000835505)","Chaetothyriomycetidae","348802","Exop_xeno_CBS118157_V1","GCA_000835505.1","-","-","-","-","","-"
+"","Exserohilum turcica Et28A (GCA_000359705)","Pleosporales","671987","Setospaeria_trucica_Et28A_v1.0","GCA_000359705.1","-","-","-","-","","-"
+"","Fibroporia radiculosa str. TFFH 294 (GCA_000313525)","Polyporales","599839","ASM31352v1","GCA_000313525.1","-","-","-","-","","-"
+"","Fibularhizoctonia sp. CBS 109695 (GCA_001630335)","Atheliales","436010","Fibsp1","GCA_001630335.1","-","-","-","-","","-"
+"","Fistulina hepatica ATCC 64428 (GCA_000934395)","Agaricales","1128425","Fishe1","GCA_000934395.1","-","-","-","-","","-"
+"","Fomitiporia mediterranea MF3/22 (GCA_000271605)","Hymenochaetales","694068","Fomme1","GCA_000271605.1","-","-","-","-","","-"
+"","Fomitopsis pinicola FP-58527 SS1 (GCA_000344655)","Polyporales","743788","Fompi3","GCA_000344655.2","-","-","-","-","","-"
+"","Fonsecaea erecta (GCA_001651985)","Chaetothyriomycetidae","1367422","ASM165198v1","GCA_001651985.1","-","-","-","-","","-"
+"","Fonsecaea monophora (GCA_001642475)","Chaetothyriomycetidae","254056","ASM164247v1","GCA_001642475.1","-","-","-","-","","-"
+"","Fonsecaea multimorphosa (GCA_001646985)","Chaetothyriomycetidae","979981","ASM164698v1","GCA_001646985.1","-","-","-","-","-","-"
+"","Fonsecaea multimorphosa CBS 102226 (GCA_000836435)","Chaetothyriomycetidae","1442371","Fons_mult_CBS_102226_V1","GCA_000836435.1","-","-","-","-","","-"
+"","Fonsecaea nubica (GCA_001646965)","Chaetothyriomycetidae","856822","ASM164696v1","GCA_001646965.1","-","-","-","-","","-"
+"","Fonsecaea pedrosoi CBS 271.37 (GCA_000835455)","Chaetothyriomycetidae","1442368","Fons_pedr_CBS_271_37_V1","GCA_000835455.1","-","-","-","-","","-"
+"","Fusarium culmorum UK99","Hypocreales","1318462","EF1","GCA_900074845.1","-","-","-","","","-"
+"","Fusarium fujikuroi","Hypocreales","5127","EF1","GCA_000315255.1","-","-","-","","","-"
+"","Fusarium fujikuroi (GCA_001023035)","Hypocreales","5127","ASM102303v1","GCA_001023035.1","-","-","-","-","-","-"
+"","Fusarium fujikuroi (GCA_001023045)","Hypocreales","5127","ASM102304v1","GCA_001023045.1","-","-","-","-","-","-"
+"","Fusarium fujikuroi (GCA_001023065)","Hypocreales","5127","ASM102306v1","GCA_001023065.1","-","-","-","-","-","-"
+"","Fusarium fujikuroi (GCA_900096505)","Hypocreales","5127","version_1","GCA_900096505.1","-","-","-","-","-","-"
+"","Fusarium fujikuroi (GCA_900096685)","Hypocreales","5127","version_1","GCA_900096685.1","-","-","-","-","-","-"
+"","Fusarium fujikuroi (GCA_900096705)","Hypocreales","5127","version_1","GCA_900096705.1","-","-","-","-","-","-"
+"","Fusarium graminearum PH-1 (GCA_000240135)","Hypocreales","229533","ASM24013v3","GCA_000240135.3","-","-","-","-","-","-"
+"","Fusarium graminearum str. CS3005 (GCA_000599445)","Hypocreales","5518","CS3005v1","GCA_000599445.1","-","-","-","-","","-"
+"","Fusarium graminearum str. PH-1","Hypocreales","5518","RR1","GCA_900044135.1","","-","-","","-","-"
+"","Fusarium langsethiae str. Fl201059 (GCA_001292635)","Hypocreales","179993","ASM129263v1","GCA_001292635.1","-","-","-","-","-","-"
+"","Fusarium mangiferae (GCA_900044065)","Hypocreales","192010","Genome_assembly_version_1","GCA_900044065.1","-","-","-","-","-","-"
+"","Fusarium nygamai (GCA_002894225)","Hypocreales","42673","CS10214v1","GCA_002894225.1","-","-","-","-","-","-"
+"","Fusarium oxysporum","Hypocreales","426428","FO2","GCA_000222805.1","","-","","","","-"
+"","Fusarium oxysporum (GCA_900096695)","Hypocreales","5507","version_1","GCA_900096695.1","-","-","-","-","-","-"
+"","Fusarium oxysporum FOSC 3-a (GCA_000271745)","Hypocreales","909455","FO_FOSC_3_a_V1","GCA_000271745.2","-","-","-","-","-","-"
+"","Fusarium oxysporum Fo47 (GCA_000271705)","Hypocreales","660027","FO_Fo47_V1","GCA_000271705.2","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. conglutinans race 2 54008 str. 54008 (PHW808) (GCA_000260215)","Hypocreales","1089457","FO_PHW808_V1","GCA_000260215.2","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. cubense race 1 (GCA_000350345)","Hypocreales","1229664","Foc1_1.0","GCA_000350345.1","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. cubense race 4 (GCA_000350365)","Hypocreales","1229665","Foc4_1.0","GCA_000350365.1","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. cubense tropical race 4 54006 str. 54006 (II5) (GCA_000260195)","Hypocreales","1089451","FO_II5_V1","GCA_000260195.2","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. lycopersici 4287 (GCA_000149955)","Hypocreales","426428","ASM14995v2","GCA_000149955.2","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. lycopersici MN25 (GCA_000259975)","Hypocreales","1080343","FO_MN25_V1","GCA_000259975.2","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. melonis 26406 str. 26406 (melonis) (GCA_000260495)","Hypocreales","1089452","FO_melonis_V1","GCA_000260495.2","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. pisi HDV247 (GCA_000260075)","Hypocreales","1080344","FO_HDV247_V1","GCA_000260075.2","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. radicis-cucumerinum (GCA_001702695)","Hypocreales","327505","ASM170269v2","GCA_001702695.2","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. radicis-lycopersici 26381 str. 26381 (CL57) (GCA_000260155)","Hypocreales","1089448","FO_CL57_V1","GCA_000260155.3","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. raphani 54005 (GCA_000260235)","Hypocreales","1089458","FO_PHW815_V1","GCA_000260235.2","-","-","-","-","-","-"
+"","Fusarium oxysporum f. sp. vasinfectum 25433 str. 25433 (Cotton) (GCA_000260175)","Hypocreales","1089449","FO_Cotton_V1","GCA_000260175.2","-","-","-","-","-","-"
+"","Fusarium poae (GCA_001675295)","Hypocreales","36050","FPOA1.0","GCA_001675295.1","-","-","-","-","-","-"
+"","Fusarium proliferatum (GCA_900029915)","Hypocreales","948311","F._proliferatum_NRRL62905_version_1","GCA_900029915.1","-","-","-","-","-","-"
+"","Fusarium proliferatum ET1 (GCA_900067095)","Hypocreales","1227346","F._proliferatum_ET1_version_1","GCA_900067095.1","-","-","-","-","-","-"
+"","Fusarium pseudograminearum","Hypocreales","1028729","GCA_000303195.1","GCA_000303195.1","-","-","-","","","-"
+"","Fusarium solani","Hypocreales","660122","v2.0","GCA_000151355.1","-","-","","","","-"
+"","Fusarium venenatum (GCA_900007375)","Hypocreales","56646","ASM90000737v1","GCA_900007375.1","-","-","-","-","-","-"
+"","Fusarium verticillioides","Hypocreales","334819","ASM14955v1","GCA_000149555.1","-","-","","","","-"
+"","Gaeumannomyces tritici R3-111a-1","Magnaporthales","644352","Gae_graminis_V2","GCA_000145635.1","-","-","-","-","","-"
+"","Galerina marginata CBS 339.88 (GCA_000697645)","Agaricales","685588","Galma1","GCA_000697645.1","-","-","-","-","","-"
+"","Ganoderma sinense ZZ0214-1 (GCA_002760635)","Polyporales","1077348","GanSi1.6","GCA_002760635.1","-","-","-","-","","-"
+"","Gelatoporia subvermispora B (GCA_000320605)","Polyporales","914234","Ceriporiopsis_subvermispora_B_v1.0","GCA_000320605.2","-","-","-","-","","-"
+"","Glarea lozoyensis ATCC 20868 str. 1224 (GCA_000409485)","Helotiales","1116229","GLAREA","GCA_000409485.1","-","-","-","-","","-"
+"","Gloeophyllum trabeum ATCC 11539 (GCA_000344685)","Gloeophyllales","670483","Glotr1_1","GCA_000344685.1","-","-","-","-","","-"
+"","Gonapodya prolifera JEL478 (GCA_001574975)","","1344416","Ganpr1","GCA_001574975.1","-","-","-","-","","-"
+"","Grifola frondosa str. 9006-11 (GCA_001683735)","Agaricales","5627","ASM168373v1","GCA_001683735.1","-","-","-","-","","-"
+"","Grosmannia clavigera kw1407 (GCA_000143105)","Ophiostomatales","655863","Sanger-454-IlluminaPA_2.0","GCA_000143105.2","-","-","-","-","","-"
+"","Gymnopus luxurians FD-317 M1 (GCA_000827265)","Agaricales","944289","Gymlu1","GCA_000827265.1","-","-","-","-","","-"
+"","Hanseniaspora guilliermondii (GCA_900119595)","Saccharomycetales","56406","version_1","GCA_900119595.1","-","-","-","-","","-"
+"","Hanseniaspora opuntiae (GCA_001749795)","Saccharomycetales","211096","ASM174979v1","GCA_001749795.1","-","-","-","-","","-"
+"","Hanseniaspora osmophila (GCA_001747045)","Saccharomycetales","56408","ASM174704v1","GCA_001747045.1","-","-","-","-","","-"
+"","Hanseniaspora uvarum (GCA_001747055)","Saccharomycetales","29833","ASM174705v1","GCA_001747055.1","-","-","-","-","-","-"
+"","Hanseniaspora uvarum DSM 2768 (GCA_000968475)","Saccharomycetales","1246595","Huva2.0","GCA_000968475.1","-","-","-","-","","-"
+"","Hanseniaspora valbyensis NRRL Y-1626 (GCA_001664025)","Saccharomycetales","766949","Hanva1_1","GCA_001664025.1","-","-","-","-","","-"
+"","Hebeloma cylindrosporum h7 (GCA_000827355)","Agaricales","686832","Hebeloma_cylindrosporum_h7_v2.0","GCA_000827355.1","-","-","-","-","","-"
+"","Helicocarpus griseus UAMH5409 (GCA_002573585)","Onygenales","1447875","Heli_gris_5409_V1","GCA_002573585.1","-","-","-","-","","-"
+"","Hepatospora eriocheir str. GB1 (GCA_002087885)","Microsporidia","1081669","ASM208788v1","GCA_002087885.1","-","-","-","-","-","-"
+"","Hepatospora eriocheir str. canceri (GCA_002087875)","Microsporidia","1081669","ASM208787v1","GCA_002087875.1","-","-","-","-","","-"
+"","Hesseltinella vesiculosa str. NRRL 3301","Mucoromycotina","101127","Hesve2","GCA_002104935.1","-","-","-","-","","-"
+"","Heterobasidion irregulare TC 32-1 (GCA_000320585)","Russulales","747525","Heterobasidion_irregulare_v2.0","GCA_000320585.2","-","-","-","-","","-"
+"","Hirsutella minnesotensis 3608 (GCA_000956045)","Hypocreales","1043627","ASM95604v1","GCA_000956045.1","-","-","-","-","","-"
+"","Histoplasma capsulatum G186AR (GCA_000150115)","Onygenales","447093","ASM15011v1","GCA_000150115.1","-","-","-","-","-","-"
+"","Histoplasma capsulatum H143 (GCA_000151035)","Onygenales","544712","ASM15103v1","GCA_000151035.1","-","-","-","-","-","-"
+"","Histoplasma capsulatum H88 (GCA_000151005)","Onygenales","544711","ASM15100v2","GCA_000151005.2","-","-","-","-","-","-"
+"","Histoplasma capsulatum NAm1 (GCA_000149585)","Onygenales","339724","ASM14958v1","GCA_000149585.1","-","-","-","-","","-"
+"","Hortaea werneckii EXF-2000 (GCA_002127715)","Dothideales","1157616","HwerPB1","GCA_002127715.1","-","-","-","-","","-"
+"","Hydnomerulius pinastri MD-312 (GCA_000827185)","Boletales","994086","Hydpi2","GCA_000827185.1","-","-","-","-","","-"
+"","Hypholoma sublateritium FD-334 SS-4 (GCA_000827495)","Agaricales","945553","Hypsu1","GCA_000827495.1","-","-","-","-","","-"
+"","Hyphopichia burtonii NRRL Y-1933 (GCA_001661395)","Saccharomycetales","984485","Hypbu1","GCA_001661395.1","-","-","-","-","","-"
+"","Hypoxylon sp. CI-4A (GCA_002120315)","Xylariales","1001833","HypCI4A_v1.0","GCA_002120315.1","-","-","-","-","","-"
+"","Hypoxylon sp. CO27-5 (GCA_002120305)","Xylariales","1001938","HypCO275_v1.0","GCA_002120305.1","-","-","-","-","-","-"
+"","Hypoxylon sp. EC38 (GCA_002120335)","Xylariales","1001937","HypEC38_v3.0","GCA_002120335.1","-","-","-","-","-","-"
+"","Hypsizygus marmoreus str. 51987-8 (GCA_001605315)","Agaricales","39966","ASM160531v1","GCA_001605315.1","-","-","-","-","","-"
+"","Jaapia argillacea MUCL 33604 (GCA_000697665)","Jaapiales","933084","Jaaar1","GCA_000697665.1","-","-","-","-","","-"
+"","Jaminaea rosea str. MCA 5214 (GCA_003144245)","","1569628","Jamsp1","GCA_003144245.1","-","-","-","-","","-"
+"","Kalmanozyma brasiliensis GHG001 (GCA_000497045)","Ustilaginales","1365824","PSEUBRA1","GCA_000497045.1","-","-","-","-","","-"
+"","Kazachstania africana CBS 2517 (GCA_000304475)","Saccharomycetales","1071382","Ka_CBS2517","GCA_000304475.1","-","-","-","-","","-"
+"","Kazachstania naganishii CBS 8797 (GCA_000348985)","Saccharomycetales","1071383","ASM34898v1","GCA_000348985.1","-","-","-","-","","-"
+"","Kluyveromyces dobzhanskii CBS 2104 str. CBS2104 (GCA_000820885)","Saccharomycetales","1427455","KLDO_01","GCA_000820885.1","-","-","-","-","","-"
+"","Kluyveromyces lactis str. NRRL Y-1140 (GCA_000002515)","Saccharomycetales","28985","ASM251v1","GCA_000002515.1","-","-","-","-","","-"
+"","Kluyveromyces marxianus DMKU3-1042 (GCA_001417885)","Saccharomycetales","1003335","Kmar_1.0","GCA_001417885.1","-","-","-","-","","-"
+"","Kluyveromyces marxianus str. NBRC 1777 (GCA_001417835)","Saccharomycetales","4911","KM1777_03","GCA_001417835.1","-","-","-","-","-","-"
+"","Kockovaella imperatae str. NRRL Y-17943 (GCA_002102565)","Tremellales","4999","Kocim1","GCA_002102565.1","-","-","-","-","","-"
+"","Komagataella pastoris","Saccharomycetales","644223","GCA_000027005.1","GCA_000027005.1","-","-","-","","","-"
+"","Komagataella pastoris (GCA_001708105)","Saccharomycetales","4922","ASM170810v1","GCA_001708105.1","-","-","-","-","-","-"
+"","Komagataella phaffii CBS 7435 (GCA_000223565)","Saccharomycetales","981350","PicPas_Mar2011","GCA_000223565.1","-","-","-","-","-","-"
+"","Komagataella phaffii CBS 7435 (GCA_900235035)","Saccharomycetales","981350","ASM90023503v1","GCA_900235035.1","-","-","-","-","-","-"
+"","Komagataella phaffii GS115 (GCA_001746955)","Saccharomycetales","644223","ASM174695v1","GCA_001746955.1","-","-","-","-","","-"
+"","Komagataella phaffii str. WT (GCA_001708085)","Saccharomycetales","460519","ASM170808v1","GCA_001708085.1","-","-","-","-","-","-"
+"","Kuraishia capsulata CBS 1993 (GCA_000576695)","Saccharomycetales","1382522","AUH_PRJEB4427_v1","GCA_000576695.1","-","-","-","-","","-"
+"","Kwoniella bestiolae CBS 10118 (GCA_000512585)","Tremellales","1296100","Cryp_best_CBS10118_V1","GCA_000512585.2","-","-","-","-","","-"
+"","Kwoniella dejecticola CBS 10117 (GCA_000512565)","Tremellales","1296121","Cryp_deje_CBS10117_V1","GCA_000512565.2","-","-","-","-","","-"
+"","Kwoniella heveanensis BCC8398 (GCA_000507405)","Tremellales","1296120","Cryp_heve_BCC8398_V1","GCA_000507405.3","-","-","-","-","-","-"
+"","Kwoniella heveanensis CBS 569 (GCA_000507425)","Tremellales","1296119","Cryp_heve_CBS569_V2","GCA_000507425.3","-","-","-","-","-","-"
+"","Kwoniella mangroviensis CBS 10435 (GCA_000507885)","Tremellales","1331196","Kwon_mang_CBS10435_V2","GCA_000507885.2","-","-","-","-","-","-"
+"","Kwoniella mangroviensis CBS 8507 (GCA_000507465)","Tremellales","1296122","Kwon_mang_CBS8507_V2","GCA_000507465.3","-","-","-","-","-","-"
+"","Kwoniella mangroviensis CBS 8886 (GCA_000507485)","Tremellales","1296123","Kwon_mang_CBS8886_V1","GCA_000507485.3","-","-","-","-","-","-"
+"","Kwoniella pini CBS 10737 (GCA_000512605)","Tremellales","1296096","Cryp_pinu_CBS10737_V1","GCA_000512605.2","-","-","-","-","","-"
+"","Laccaria amethystina LaAM-08-1 (GCA_000827195)","Agaricales","1095629","Laccaria_amethystina_LaAM-08-1_v1.0","GCA_000827195.1","-","-","-","-","","-"
+"","Laccaria bicolor S238N-H82 (GCA_000143565)","Agaricales","486041","V1.0","GCA_000143565.1","-","-","-","-","","-"
+"","Lachancea dasiensis CBS 10888 (GCA_900074725)","Saccharomycetales","1266660","LADA0","GCA_900074725.1","-","-","-","-","","-"
+"","Lachancea fermentati (GCA_900074765)","Saccharomycetales","4955","LAFE0","GCA_900074765.1","-","-","-","-","-","-"
+"","Lachancea lanzarotensis str. CBS 12615 (GCA_000938715)","Saccharomycetales","1245769","LALA0","GCA_000938715.1","-","-","-","-","","-"
+"","Lachancea meyersii CBS 8951 (GCA_900074715)","Saccharomycetales","1266667","LAME0","GCA_900074715.1","-","-","-","-","-","-"
+"","Lachancea mirantina (GCA_900074745)","Saccharomycetales","1230905","LAMI0","GCA_900074745.1","-","-","-","-","-","-"
+"","Lachancea nothofagi CBS 11611 (GCA_900074755)","Saccharomycetales","1266666","LANO0","GCA_900074755.1","-","-","-","-","-","-"
+"","Lachancea quebecensis (GCA_002900925)","Saccharomycetales","1654605","ASM290092v1","GCA_002900925.1","-","-","-","-","-","-"
+"","Lachancea sp. CBS 6924 (GCA_900074735)","Saccharomycetales","433476","LAFA0","GCA_900074735.1","-","-","-","-","-","-"
+"","Lachancea thermotolerans CBS 6340 (GCA_000142805)","Saccharomycetales","559295","ASM14280v1","GCA_000142805.1","-","-","-","-","-","-"
+"","Laetiporus sulphureus 93-53 (GCA_001632365)","Polyporales","1314785","Laesu1","GCA_001632365.1","-","-","-","-","","-"
+"","Lentinula edodes str. G408PP-4 (GCA_002003045)","Agaricales","5353","Lened_assembly01","GCA_002003045.1","-","-","-","-","","-"
+"","Leptosphaeria maculans","Pleosporales","985895","ASM23037v1","GCA_000230375.1","-","-","-","","","-"
+"","Leucoagaricus sp. SymC.cos (GCA_001563735)","Agaricales","1714833","ASM156373v1","GCA_001563735.1","-","-","-","-","","-"
+"","Leucosporidium creatinivorum str. 62-1032 (GCA_002105055)","","106004","Leucr1","GCA_002105055.1","-","-","-","-","","-"
+"","Lichtheimia corymbifera JMRC:FSU:9682 (GCA_000723665)","Mucoromycotina","1263082","454Minimus","GCA_000723665.1","-","-","-","-","","-"
+"","Lichtheimia ramosa str. JMRC:FSU:6197 (GCA_000945115)","Mucoromycotina","688394","Lramosa_hybrid_454_Illumina","GCA_000945115.1","-","-","-","-","","-"
+"","Lipomyces starkeyi NRRL Y-11557 (GCA_001661325)","Saccharomycetales","675824","Lipst1_1","GCA_001661325.1","-","-","-","-","","-"
+"","Lobosporangium transversale str. NRRL 3116","Mortierellomycotina","64571","Lobtra1","GCA_002105155.1","-","-","-","-","","-"
+"","Lodderomyces elongisporus NRRL YB-4239 (GCA_000149685)","Saccharomycetales","379508","ASM14968v1","GCA_000149685.1","-","-","-","-","","-"
+"","Lomentospora prolificans str. JHH-5317 (GCA_002276285)","Microascales","41688","Lprolificans_pilon","GCA_002276285.1","-","-","-","-","","-"
+"","Macrophomina phaseolina MS6 (GCA_000302655)","Botryosphaeriales","1126212","MphMS6_1.0","GCA_000302655.1","-","-","-","-","","-"
+"","Madurella mycetomatis str. mm55 (GCA_001275765)","Sordariales","100816","ASM127576v2","GCA_001275765.2","-","-","-","-","","-"
+"","Magnaporthe oryzae","Magnaporthales","242507","MG8","GCA_000002495.2","-","-","","","","-"
+"","Magnaporthe poae","Magnaporthales","644358","Mag_poae_ATCC_64411_V1","GCA_000193285.1","-","-","","","","-"
+"","Malassezia globosa CBS 7966 (GCA_000181695)","Malasseziales","425265","ASM18169v1","GCA_000181695.1","-","-","-","-","","-"
+"","Malassezia pachydermatis (GCA_001278385)","Malasseziales","77020","MalaPachy","GCA_001278385.1","-","-","-","-","","-"
+"","Malassezia sympodialis ATCC 42132 (GCA_000349305)","Malasseziales","1230383","ASM34930v2","GCA_000349305.2","-","-","-","-","","-"
+"","Malassezia sympodialis ATCC 42132 (GCA_900149145)","Malasseziales","1230383","Msy_ATCC_42132_Feb2016","GCA_900149145.1","-","-","-","-","-","-"
+"","Malassezia vespertilionis str. NWHC:44797-103 (GCA_002818225)","Malasseziales","2020962","ASM281822v1","GCA_002818225.1","-","-","-","-","","-"
+"","Marssonina brunnea f. sp. 'multigermtubi' MB_m1 (GCA_000298775)","Helotiales","1072389","ASM29877v1","GCA_000298775.1","-","-","-","-","","-"
+"","Meira miltonrushii str. MCA 3882 (GCA_003144205)","","1280837","Meimi1","GCA_003144205.1","-","-","-","-","","-"
+"","Melampsora larici-populina","Pucciniales","747676","GCA_000204055.1","GCA_000204055.1","-","-","-","","","-"
+"","Meliniomyces bicolor E (GCA_002865645)","Helotiales","1095630","Melbi2","GCA_002865645.1","-","-","-","-","","-"
+"","Meliniomyces variabilis F (GCA_002865655)","Helotiales","1149755","Melva1","GCA_002865655.1","-","-","-","-","","-"
+"","Metarhizium acridum CQMa 102 (GCA_000187405)","Hypocreales","655827","MetAcr_May2010","GCA_000187405.1","-","-","-","-","","-"
+"","Metarhizium album ARSEF 1941 (GCA_000804445)","Hypocreales","1081103","MAM_1.0_for_version_1_of_the_Metarhizium_album_genome","GCA_000804445.1","-","-","-","-","","-"
+"","Metarhizium anisopliae ARSEF 549 (GCA_000814975)","Hypocreales","1276135","MAN_1.0","GCA_000814975.1","-","-","-","-","-","-"
+"","Metarhizium anisopliae BRIP 53284 (GCA_000426985)","Hypocreales","1291519","ASM42698v1","GCA_000426985.1","-","-","-","-","-","-"
+"","Metarhizium anisopliae BRIP 53293 (GCA_000426965)","Hypocreales","1291518","ASM42696v1","GCA_000426965.1","-","-","-","-","-","-"
+"","Metarhizium anisopliae str. E6 (GCA_000739145)","Hypocreales","5530","Metarhizium_anisopliae","GCA_000739145.1","-","-","-","-","-","-"
+"","Metarhizium brunneum ARSEF 3297 (GCA_000814965)","Hypocreales","1276141","MBR_1.0","GCA_000814965.1","-","-","-","-","-","-"
+"","Metarhizium guizhouense ARSEF 977 (GCA_000814955)","Hypocreales","1276136","MGU_1.0","GCA_000814955.1","-","-","-","-","-","-"
+"","Metarhizium majus ARSEF 297 (GCA_000814945)","Hypocreales","1276143","MAJ_1.0","GCA_000814945.1","-","-","-","-","","-"
+"","Metarhizium rileyi RCEF 4871 (GCA_001636745)","Hypocreales","1081105","NOR_1.0","GCA_001636745.1","-","-","-","-","","-"
+"","Metarhizium robertsii (GCA_000591435)","Hypocreales","568076","MR2010_11_27","GCA_000591435.1","-","-","-","-","-","-"
+"","Metarhizium robertsii ARSEF 23 (GCA_000187425)","Hypocreales","655844","MAA_2.0","GCA_000187425.2","-","-","-","-","","-"
+"","Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993 (GCA_001664035)","Saccharomycetales","869754","Metbi1","GCA_001664035.1","-","-","-","-","","-"
+"","Meyerozyma guilliermondii ATCC 6260 (GCA_000149425)","Saccharomycetales","294746","ASM14942v1","GCA_000149425.1","-","-","-","-","","-"
+"","Microbotryum intermedium (GCA_900096595)","Microbotryales","269621","Microbotrium_Intermedium_Assembly","GCA_900096595.1","-","-","-","-","","-"
+"","Microbotryum violaceum","Microbotryales","683840","GCA_000166175.1","GCA_000166175.1","-","-","-","","","-"
+"","Microdochium bolleyi str. J235TASD1 (GCA_001566295)","Xylariales","196109","Microdochium_bolleyi_v1.0","GCA_001566295.1","-","-","-","-","","-"
+"","Microsporum canis CBS 113480 (GCA_000151145)","Onygenales","554155","ASM15114v1","GCA_000151145.1","-","-","-","-","","-"
+"","Millerozyma farinosa CBS 7064 (GCA_000315895)","Saccharomycetales","559304","ASM31589v1","GCA_000315895.1","-","-","-","-","","-"
+"","Mitosporidium daphniae str. UGP3 (GCA_000760515)","Microsporidia","1485682","UGP1.0","GCA_000760515.1","-","-","-","-","","-"
+"","Mixia osmundae IAM 14324 (GCA_000241205)","Mixiales","764103","Mosmundae_2.0","GCA_000241205.2","-","-","-","-","","-"
+"","Mixia osmundae IAM 14324 (GCA_000708205)","Mixiales","764103","Mixia_osmundae_v1.0","GCA_000708205.1","-","-","-","-","-","-"
+"","Moelleriella libera RCEF 2490 (GCA_001636675)","Hypocreales","1081109","AAL_1.0","GCA_001636675.1","-","-","-","-","","-"
+"","Moesziomyces antarcticus T-34 (GCA_000334475)","Ustilaginales","1151754","Pant_1.0","GCA_000334475.1","-","-","-","-","","-"
+"","Moesziomyces antarcticus str. JCM 10317 (GCA_000747765)","Ustilaginales","84753","ASM74776v1","GCA_000747765.1","-","-","-","-","-","-"
+"","Moesziomyces aphidis DSM 70725 (GCA_000517465)","Ustilaginales","1391700","PseuAph1.0","GCA_000517465.1","-","-","-","-","","-"
+"","Moniliophthora perniciosa FA553 (GCA_000183025)","Agaricales","554373","ASM18302v1","GCA_000183025.1","-","-","-","-","","-"
+"","Moniliophthora roreri MCA 2997 (GCA_000488995)","Agaricales","1381753","M_roreri_MCA_2997_v1","GCA_000488995.1","-","-","-","-","","-"
+"","Moniliophthora roreri str. MCA 2952 (GCA_001466705)","Agaricales","221103","ASM146670v1","GCA_001466705.1","-","-","-","-","-","-"
+"","Mortierella elongata AG-77","Mortierellomycotina","1314771","Mortierella_elongata_AG-77_v2.0","GCA_001651415.1","-","-","-","-","","-"
+"","Mortierella verticillata NRRL 6337 (GCA_000739165)","Mortierellomycotina","1069443","Mort_vert_NRRL_6337_V1","GCA_000739165.1","-","-","-","-","","-"
+"","Mucor ambiguus str. NBRC 6742 (GCA_000950595)","Mucoromycotina","91626","ASM95059v1","GCA_000950595.1","-","-","-","-","","-"
+"","Mucor circinelloides f. circinelloides 1006PhL (GCA_000401635)","Mucoromycotina","1220926","Muco_sp_1006Ph_V1","GCA_000401635.1","-","-","-","-","","-"
+"","Mucor circinelloides f. lusitanicus CBS 277.49","Mucoromycotina","747725","Mucci2","GCA_001638945.1","-","-","-","-","-","-"
+"","Mycosphaerella eumusae str. CBS 114824 (GCA_001578235)","Capnodiales","321146","ASM157823v1","GCA_001578235.1","-","-","-","-","","-"
+"","Nadsonia fulvescens var. elongata DSM 6958 (GCA_001661315)","Saccharomycetales","857566","Nadfu1","GCA_001661315.1","-","-","-","-","","-"
+"","Naematelia encephala str. 68-887.2 (GCA_002105065)","Tremellales","71784","Treen1","GCA_002105065.1","-","-","-","-","","-"
+"","Nannizzia gypsea CBS 118893 (GCA_000150975)","Onygenales","535722","MS_CBS118893","GCA_000150975.2","-","-","-","-","","-"
+"","Naumovozyma castellii CBS 4309 (GCA_000237345)","Saccharomycetales","1064592","ASM23734v1","GCA_000237345.1","-","-","-","-","","-"
+"","Naumovozyma dairenensis CBS 421 (GCA_000227115)","Saccharomycetales","1071378","ASM22711v2","GCA_000227115.2","-","-","-","-","","-"
+"","Nematocida displodere str. JUm2807 (GCA_001642395)","Microsporidia","1805483","ASM164239v1","GCA_001642395.1","-","-","-","-","","-"
+"","Nematocida parisii ERTm1 (GCA_000250985)","Microsporidia","881290","Nema_parisii_ERTm1_V3","GCA_000250985.1","-","-","-","-","-","-"
+"","Nematocida parisii ERTm3 (GCA_000190615)","Microsporidia","935791","Nema_parisii_ERTm3_V1","GCA_000190615.1","-","-","-","-","","-"
+"","Nematocida sp. 1 ERTm2 (GCA_000250695)","Microsporidia","944018","Nema_parisii_ERTm2_V1","GCA_000250695.1","-","-","-","-","","-"
+"","Nematocida sp. 1 ERTm6 (GCA_000738915)","Microsporidia","1138374","Nema_sp_1_ERTm6_V2","GCA_000738915.1","-","-","-","-","-","-"
+"","Nematocida sp. ERTm5 (GCA_001642415)","Microsporidia","1805481","ASM164241v1","GCA_001642415.1","-","-","-","-","-","-"
+"","Neocallimastix californiae str. G1 (GCA_002104975)","","1754190","Neocallimastix_sp._G1_v1.0","GCA_002104975.1","-","-","-","-","","-"
+"","Neofusicoccum parvum UCRNP2 (GCA_000385595)","Botryosphaeriales","1287680","UCRNP2V3","GCA_000385595.1","-","-","-","-","","-"
+"","Neolecta irregularis DAH-3 (GCA_001929475)","Taphrinomycotina","1198029","NeoIirr1.0","GCA_001929475.1","-","-","-","-","","-"
+"","Neolentinus lepideus HHB14362 ss-1 (GCA_001632425)","Gloeophyllales","1314782","Neole1","GCA_001632425.1","-","-","-","-","","-"
+"","Neonectria ditissima str. R09/05 (GCA_001306435)","Hypocreales","78410","R0905_v2.0","GCA_001306435.1","-","-","-","-","","-"
+"","Neurospora crassa","Sordariales","367110","NC12","GCA_000182925.2","-","-","-","","",""
+"","Neurospora crassa str. 73 (GCA_000786625)","Sordariales","5141","Neucr_trp3_1","GCA_000786625.1","-","-","-","-","-","-"
+"","Neurospora tetrasperma FGSC 2508 (GCA_000213175)","Sordariales","510951","v2.0","GCA_000213175.1","-","-","-","-","-","-"
+"","Neurospora tetrasperma FGSC 2509 str. FGSC 2509 mat a (GCA_000213195)","Sordariales","510952","v1.0","GCA_000213195.1","-","-","-","-","","-"
+"","Nosema apis BRL 01 (GCA_000447185)","Nosematidae","1037528","NapisBRLv01","GCA_000447185.1","-","-","-","-","","-"
+"","Nosema bombycis CQ1 (GCA_000383075)","Nosematidae","578461","NosBomCQ1_v1.0","GCA_000383075.1","-","-","-","-","","-"
+"","Nosema ceranae (GCA_000988165)","Nosematidae","40302","ASM98816v1","GCA_000988165.1","-","-","-","-","-","-"
+"","Nosema ceranae BRL01 (GCA_000182985)","Nosematidae","578460","ASM18298v1","GCA_000182985.1","-","-","-","-","","-"
+"","Ogataea parapolymorpha DL-1 (GCA_000187245)","Saccharomycetales","871575","Hansenula_2","GCA_000187245.3","-","-","-","-","","-"
+"","Ogataea polymorpha str. NCYC 495 leu1.1 (GCA_001664045)","Saccharomycetales","460523","Hanpo2","GCA_001664045.1","-","-","-","-","","-"
+"","Oidiodendron maius Zn (GCA_000827325)","Myxotrichaceae","913774","Oidiodendron_maius_Zn_v1.0","GCA_000827325.1","-","-","-","-","","-"
+"","Ophiocordyceps australis (GCA_002591405)","Hypocreales","1399860","OphauG2","GCA_002591405.1","-","-","-","-","","-"
+"","Ophiocordyceps australis (GCA_002591415)","Hypocreales","1399860","OphauB2","GCA_002591415.1","-","-","-","-","-","-"
+"","Ophiocordyceps camponoti-rufipedis (GCA_002591395)","Hypocreales","2004952","Ophun1","GCA_002591395.1","-","-","-","-","","-"
+"","Ophiocordyceps sinensis CO18 (GCA_000448365)","Hypocreales","911162","ASM44836v1","GCA_000448365.1","-","-","-","-","-","-"
+"","Ophiocordyceps unilateralis str. SC16a (GCA_001272575)","Hypocreales","268505","ASM127257v2","GCA_001272575.2","-","-","-","-","-","-"
+"","Ophiostoma piceae UAMH 11346 str. UAMH-11346 (GCA_000410735)","Ophiostomatales","1262450","Opiceae_UAMHv01","GCA_000410735.1","-","-","-","-","","-"
+"","Ordospora colligata OC4 (GCA_000803265)","Ordosporidae","1354746","ASM80326v1","GCA_000803265.1","-","-","-","-","","-"
+"","Pachysolen tannophilus NRRL Y-2460 (GCA_001661245)","Saccharomycetales","669874","Pacta1_2","GCA_001661245.1","-","-","-","-","","-"
+"","Paracoccidioides brasiliensis Pb03 (GCA_000150475)","Onygenales","482561","Paracocci_br_Pb03_V2","GCA_000150475.2","-","-","-","-","-","-"
+"","Paracoccidioides brasiliensis Pb18 (GCA_000150735)","Onygenales","502780","Paracocci_br_Pb18_V2","GCA_000150735.2","-","-","-","-","","-"
+"","Paracoccidioides brasiliensis str. CNH (GCA_001713695)","Onygenales","121759","Paracocci_br_PbCNH","GCA_001713695.1","-","-","-","-","-","-"
+"","Paracoccidioides brasiliensis str. Pb300 (GCA_001713645)","Onygenales","121759","ASM171364v1","GCA_001713645.1","-","-","-","-","-","-"
+"","Paracoccidioides lutzii Pb01 (GCA_000150705)","Onygenales","502779","Paracocci_br_Pb01_V2","GCA_000150705.2","-","-","-","-","","-"
+"","Paramicrosporidium saccamoebae str. KSL3 (GCA_002794465)","Cryptomycota","1246581","KSL3_v6","GCA_002794465.1","-","-","-","-","","-"
+"","Paraphaeosphaeria sporulosa str. AP3s5-JAC2a (GCA_001642045)","Pleosporales","1460663","Parsp1","GCA_001642045.1","-","-","-","-","","-"
+"","Paxillus involutus ATCC 200175 (GCA_000827475)","Boletales","664439","Paxillus_involutus_ATCC_200175_v1.0","GCA_000827475.1","-","-","-","-","","-"
+"","Paxillus rubicundulus Ve08.2h10 (GCA_000827395)","Boletales","930991","Paxillus_rubicundulus_Ve08.2h10_v1.0","GCA_000827395.1","-","-","-","-","","-"
+"","Penicilliopsis zonata CBS 506.65 (GCA_001890105)","Eurotiales","1073090","Aspzo1","GCA_001890105.1","-","-","-","-","","-"
+"","Penicillium antarcticum (GCA_002072345)","Eurotiales","416450","ASM207234v1","GCA_002072345.1","-","-","-","-","","-"
+"","Penicillium arizonense (GCA_001773325)","Eurotiales","1835702","ASM177332v1","GCA_001773325.1","-","-","-","-","-","-"
+"","Penicillium brasilianum str. LaBioMMi 136 (GCA_002016555)","Eurotiales","104259","ASM201655v1","GCA_002016555.1","-","-","-","-","-","-"
+"","Penicillium brasilianum str. MG11 (GCA_001048715)","Eurotiales","104259","Pbras_Allpaths-LG","GCA_001048715.1","-","-","-","-","","-"
+"","Penicillium camemberti FM 013 (GCA_000513335)","Eurotiales","1429867","PCAMFM013_20131106","GCA_000513335.1","-","-","-","-","","-"
+"","Penicillium chrysogenum str. P2niaD18 (GCA_000710275)","Eurotiales","5076","ASM71027v1","GCA_000710275.1","-","-","-","-","-","-"
+"","Penicillium coprophilum (GCA_002072405)","Eurotiales","36646","ASM207240v1","GCA_002072405.1","-","-","-","-","-","-"
+"","Penicillium decumbens (GCA_002072245)","Eurotiales","69771","ASM207224v1","GCA_002072245.1","-","-","-","-","-","-"
+"","Penicillium digitatum PHI26 (GCA_000315665)","Eurotiales","1170229","PdigPHI26_v1","GCA_000315665.1","-","-","-","-","-","-"
+"","Penicillium digitatum Pd1 (GCA_000315645)","Eurotiales","1170230","PdigPd1_v1","GCA_000315645.2","-","-","-","-","-","-"
+"","Penicillium expansum str. CMP-1 (GCA_000769755)","Eurotiales","27334","PEX1","GCA_000769755.1","-","-","-","-","-","-"
+"","Penicillium expansum str. MD-8 (GCA_000769745)","Eurotiales","27334","ASM76974v1","GCA_000769745.1","-","-","-","-","-","-"
+"","Penicillium expansum str. d1 (GCA_000769735)","Eurotiales","27334","ASM76973v1","GCA_000769735.1","-","-","-","-","-","-"
+"","Penicillium flavigenum (GCA_002072365)","Eurotiales","254877","ASM207236v1","GCA_002072365.1","-","-","-","-","-","-"
+"","Penicillium freii (GCA_001513925)","Eurotiales","48697","ASM151392v1","GCA_001513925.1","-","-","-","-","-","-"
+"","Penicillium griseofulvum str. PG3 (GCA_001561935)","Eurotiales","5078","ASM156193v1","GCA_001561935.1","-","-","-","-","-","-"
+"","Penicillium italicum str. PHI-1 (GCA_000769765)","Eurotiales","40296","ASM76976v1","GCA_000769765.1","-","-","-","-","-","-"
+"","Penicillium nalgiovense (GCA_002072425)","Eurotiales","60175","ASM207242v1","GCA_002072425.1","-","-","-","-","-","-"
+"","Penicillium nordicum (GCA_001278595)","Eurotiales","229535","ASM127859v1","GCA_001278595.1","-","-","-","-","-","-"
+"","Penicillium occitanis str. CL100 (GCA_002382855)","Eurotiales","290292","ASM238285v1","GCA_002382855.1","-","-","-","-","-","-"
+"","Penicillium occitanis str. CT1 (GCA_002382835)","Eurotiales","290292","ASM238283v1","GCA_002382835.1","-","-","-","-","-","-"
+"","Penicillium oxalicum 114-2 (GCA_000346795)","Eurotiales","933388","pde_v1.0","GCA_000346795.1","-","-","-","-","-","-"
+"","Penicillium polonicum (GCA_002072265)","Eurotiales","60169","ASM207226v1","GCA_002072265.1","-","-","-","-","-","-"
+"","Penicillium roqueforti FM164 (GCA_000513255)","Eurotiales","1365484","PROQFM164_20130607","GCA_000513255.1","-","-","-","-","-","-"
+"","Penicillium rubens Wisconsin 54-1255 (GCA_000226395)","Eurotiales","500485","PenChr_Nov2007","GCA_000226395.1","-","-","-","-","-","-"
+"","Penicillium solitum (GCA_002072235)","Eurotiales","60172","ASM207223v1","GCA_002072235.1","-","-","-","-","-","-"
+"","Penicillium steckii (GCA_002072375)","Eurotiales","303698","ASM207237v1","GCA_002072375.1","-","-","-","-","-","-"
+"","Penicillium subrubescens str. CBS 132785 (GCA_001908125)","Eurotiales","1316194","ASM190812v1","GCA_001908125.1","-","-","-","-","-","-"
+"","Penicillium vulpinum (GCA_002072255)","Eurotiales","29845","ASM207225v1","GCA_002072255.1","-","-","-","-","-","-"
+"","Peniophora sp. CONT (GCA_001632445)","Russulales","1314672","Ricme1","GCA_001632445.1","-","-","-","-","","-"
+"","Periconia macrospinosa str. DSE2036 (GCA_003073855)","Pleosporales","97972","Perma1","GCA_003073855.1","-","-","-","-","","-"
+"","Pestalotiopsis fici W106-1 (GCA_000516985)","Xylariales","1229662","PFICI","GCA_000516985.1","-","-","-","-","","-"
+"","Pezoloma ericae str. UAMH 7357 (GCA_002865625)","Helotiales","1745343","Rhier1","GCA_002865625.1","-","-","-","-","","-"
+"","Phaeoacremonium minimum UCRPA7 (GCA_000392275)","Sordariomycetidae","1286976","UCRPA7V03","GCA_000392275.1","-","-","-","-","","-"
+"","Phaeomoniella chlamydospora (GCA_001006345)","Chaetothyriomycetidae","158046","UCRPA7V1.0","GCA_001006345.1","-","-","-","-","","-"
+"","Phaeosphaeria nodorum","Pleosporales","321614","ASM14691v1","GCA_000146915.1","-","-","-","","","-"
+"","Phanerochaete carnosa HHB-10118-sp (GCA_000300595)","Polyporales","650164","Phanerochaete_carnosa_HHB-10118-Sp_v1.0","GCA_000300595.1","-","-","-","-","","-"
+"","Phellinus noxius (GCA_002287475)","Hymenochaetales","2282107","ASM228747v1","GCA_002287475.1","-","-","-","-","","-"
+"","Phialocephala scopiformis str. CBS 120377 (GCA_001500285)","Helotiales","149040","Phisc1","GCA_001500285.1","-","-","-","-","","-"
+"","Phialocephala subalpina (GCA_900073065)","Helotiales","576137","PAC_version_1","GCA_900073065.1","-","-","-","-","","-"
+"","Phialophora americana str. CBS 27337 (GCA_000835435)","Chaetothyriomycetidae","5601","Capr_semi_CBS27337_V1","GCA_000835435.1","-","-","-","-","","-"
+"","Phialophora attae str. CBS 131958 (GCA_001299255)","Chaetothyriomycetidae","1664694","ASM129925v1","GCA_001299255.1","-","-","-","-","","-"
+"","Phlebia centrifuga str. FBCC195 (GCA_001913855)","Polyporales","98765","ASM191385v2","GCA_001913855.2","-","-","-","-","","-"
+"","Phlebiopsis gigantea 11061_1 CR5-6 (GCA_000832265)","Polyporales","745531","Phlgi1","GCA_000832265.1","-","-","-","-","","-"
+"","Pichia kudriavzevii str. 129 (GCA_001983325)","Saccharomycetales","4909","ASM198332v1","GCA_001983325.1","-","-","-","-","-","-"
+"","Pichia kudriavzevii str. CBS573 (GCA_003054445)","Saccharomycetales","4909","ASM305444v1","GCA_003054445.1","-","-","-","-","-","-"
+"","Pichia kudriavzevii str. Ckrusei653 (GCA_002166775)","Saccharomycetales","4909","Cand_krus_Ckrusei653_V21","GCA_002166775.1","-","-","-","-","-","-"
+"","Pichia kudriavzevii str. SD108 (GCA_000764455)","Saccharomycetales","4909","ASM76445v1","GCA_000764455.1","-","-","-","-","","-"
+"","Pichia membranifaciens NRRL Y-2026 (GCA_001661235)","Saccharomycetales","763406","Picme2","GCA_001661235.1","-","-","-","-","","-"
+"","Pichia membranifaciens str. KS47-1 (GCA_001950575)","Saccharomycetales","4926","P_membrenifaciens-1.0","GCA_001950575.1","-","-","-","-","-","-"
+"","Piloderma croceum F 1598 (GCA_000827315)","Atheliales","765440","Piloderma_croceum_F_1598_v1.0","GCA_000827315.1","-","-","-","-","","-"
+"","Piromyces finnis (GCA_002104945)","","1754191","Piromyces_sp._finnis_v3.0","GCA_002104945.1","-","-","-","-","","-"
+"","Piromyces sp. E2 (GCA_002157105)","","73868","PirspE2_v1.0","GCA_002157105.1","-","-","-","-","","-"
+"","Pisolithus microcarpus 441 (GCA_000827275)","Boletales","765257","Pisolithus_microcarpus_441_v1.0","GCA_000827275.1","-","-","-","-","","-"
+"","Pisolithus tinctorius Marx 270 (GCA_000827335)","Boletales","870435","Pisolithus_tinctorius_Marx_270_v1.0","GCA_000827335.1","-","-","-","-","","-"
+"","Pleurotus ostreatus PC15 (GCA_000697685)","Agaricales","1137138","PleosPC15_2","GCA_000697685.1","-","-","-","-","","-"
+"","Plicaturopsis crispa FD-325 SS-3 (GCA_000827205)","","944288","Plicr1","GCA_000827205.1","-","-","-","-","","-"
+"","Pneumocystis carinii B80 (GCA_001477545)","Taphrinomycotina","1408658","Pneu_cari_B80_V3","GCA_001477545.1","-","-","-","-","","-"
+"","Pneumocystis jirovecii RU7 (GCA_001477535)","Taphrinomycotina","1408657","Pneu_jiro_RU7_V2","GCA_001477535.1","-","-","-","-","","-"
+"","Pneumocystis murina B123 (GCA_000349005)","Taphrinomycotina","1069680","Pneumo_murina_B123_V4","GCA_000349005.2","-","-","-","-","","-"
+"","Pochonia chlamydosporia 170 (GCA_001653235)","Hypocreales","1380566","ASM165323v2","GCA_001653235.2","-","-","-","-","","-"
+"","Podospora anserina S mat+ (GCA_000226545)","Sordariales","515849","ASM22654v1","GCA_000226545.1","-","-","-","-","-","-"
+"","Polytolypa hystricis UAMH7299 (GCA_002573605)","Onygenales","1447883","Poly_hyst_7299_V1","GCA_002573605.1","-","-","-","-","","-"
+"","Postia placenta MAD-698-R-SB12 (GCA_002117355)","Polyporales","670580","PosplRSB12_1","GCA_002117355.1","-","-","-","-","-","-"
+"","Postia placenta Mad-698-R (GCA_000006255)","Polyporales","561896","Postia_placenta_V1.0","GCA_000006255.1","-","-","-","-","","-"
+"","Protomyces lactucaedebilis str. 12-1054 (GCA_002105105)","Taphrinomycotina","56484","Prola1","GCA_002105105.1","-","-","-","-","","-"
+"","Pseudocercospora fijiensis CIRAD86 (GCA_000340215)","Capnodiales","383855","Mycfi2","GCA_000340215.1","-","-","-","-","","-"
+"","Pseudocercospora musae str. CBS 116634 (GCA_001578225)","Capnodiales","113226","ASM157822v1","GCA_001578225.1","-","-","-","-","","-"
+"","Pseudogymnoascus destructans (GCA_001641265)","Pseudeurotiaceae","655981","ASM164126v1","GCA_001641265.1","-","-","-","-","-","-"
+"","Pseudogymnoascus destructans 20631-21 (GCA_000184105)","Pseudeurotiaceae","658429","Geom_destructans_V1","GCA_000184105.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. 03VT05 (GCA_001662645)","Pseudeurotiaceae","1622148","ASM166264v1","GCA_001662645.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. 05NY08 (GCA_001662605)","Pseudeurotiaceae","1622149","ASM166260v1","GCA_001662605.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. 23342-1-I1 (GCA_001662575)","Pseudeurotiaceae","1524831","ASM166257v1","GCA_001662575.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. 24MN13 (GCA_001662595)","Pseudeurotiaceae","1622150","ASM166259v1","GCA_001662595.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-103 (GCA_000750895)","Pseudeurotiaceae","1420912","DG30","GCA_000750895.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-3557 (GCA_000750665)","Pseudeurotiaceae","1437433","DG3","GCA_000750665.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-3775 (GCA_000750715)","Pseudeurotiaceae","1420901","DG4","GCA_000750715.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-3808 (GCA_000750675)","Pseudeurotiaceae","1391699","DG1","GCA_000750675.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4246 (GCA_000750735)","Pseudeurotiaceae","1420902","DG5","GCA_000750735.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4281 (FW-2241) (GCA_000750745)","Pseudeurotiaceae","1420906","DG6","GCA_000750745.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4513 (FW-928) (GCA_000750755)","Pseudeurotiaceae","1420907","DG7","GCA_000750755.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4514 (FW-929) (GCA_000750795)","Pseudeurotiaceae","1420908","DG8","GCA_000750795.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4515 (FW-2607) (GCA_000750805)","Pseudeurotiaceae","1420909","DG10","GCA_000750805.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4516 (FW-969) (GCA_000750815)","Pseudeurotiaceae","1420910","DG11","GCA_000750815.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4517 (FW-2822) (GCA_000750875)","Pseudeurotiaceae","1420911","DG13","GCA_000750875.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4518 (FW-2643) (GCA_000750925)","Pseudeurotiaceae","1420913","DG36","GCA_000750925.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4519 (FW-2642) (GCA_000750935)","Pseudeurotiaceae","1420914","DG38","GCA_000750935.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. VKM F-4520 (FW-2644) (GCA_000750995)","Pseudeurotiaceae","1420915","DG39","GCA_000750995.1","-","-","-","-","-","-"
+"","Pseudogymnoascus sp. WSF 3629 (GCA_001662585)","Pseudeurotiaceae","1622147","ASM166258v1","GCA_001662585.1","-","-","-","-","-","-"
+"","Pseudogymnoascus verrucosus (GCA_001662655)","Pseudeurotiaceae","342668","ASM166265v1","GCA_001662655.1","-","-","-","-","-","-"
+"","Pseudoloma neurophilia str. MK1 (GCA_001432165)","Microsporidia","146866","ASM143216v1","GCA_001432165.1","-","-","-","-","","-"
+"","Pseudomassariella vexata str. CBS 129021 (GCA_002105095)","Xylariales","1141098","Pseve2","GCA_002105095.1","-","-","-","-","","-"
+"","Pseudomicrostroma glucosiphilum str. MCA 4718 (GCA_003144135)","","1684307","Rhodsp1","GCA_003144135.1","-","-","-","-","","-"
+"","Pseudozyma hubeiensis SY62 (GCA_000403515)","Ustilaginales","1305764","ASM40351v1","GCA_000403515.1","-","-","-","-","","-"
+"","Puccinia coronata var. avenae f. sp. avenae (GCA_002873275)","Pucciniales","200324","ASM287327v1","GCA_002873275.1","-","-","-","-","","-"
+"","Puccinia graminis","Pucciniales","418459","ASM14992v1","GCA_000149925.1","","-","","","",""
+"","Puccinia graminis Ug99","Pucciniales","1040990","v1","-","","-","-","","","-"
+"","Puccinia sorghi str. RO10H11247 (GCA_001263375)","Pucciniales","27349","ASM126337v1","GCA_001263375.1","-","-","-","-","","-"
+"","Puccinia striiformis (GCA_002920065)","Pucciniales","27350","ASM292006v1","GCA_002920065.1","-","-","-","-","","-"
+"","Puccinia striiformis f. sp. tritici PST-130 str. Race 130","Pucciniales","875184","PST-130_1.0","GCA_000223505.1","-","-","-","","-","-"
+"","Puccinia striiformis f. sp. tritici PST-78 (GCA_001191645)","Pucciniales","1165861","P_striiformis_V1","GCA_001191645.1","-","-","-","-","-","-"
+"","Puccinia triticina","Pucciniales","630390","ASM15152v1","GCA_000151525.1","-","-","","","","-"
+"","Punctularia strigosozonata HHB-11173 SS5 (GCA_000264995)","Corticiales","741275","Punctularia_strigosozonata_v1.0","GCA_000264995.1","-","-","-","-","","-"
+"","Purpureocillium lilacinum (GCA_001653205)","Hypocreales","33203","ASM165320v1","GCA_001653205.1","-","-","-","-","","-"
+"","Purpureocillium lilacinum (GCA_001653265)","Hypocreales","33203","ASM165326v1","GCA_001653265.1","-","-","-","-","-","-"
+"","Purpureocillium lilacinum str. 36-1 (GCA_003144605)","Hypocreales","33203","ASM314460v1","GCA_003144605.1","-","-","-","-","-","-"
+"","Pyrenochaeta sp. DS3sAY3a (GCA_001644535)","Pleosporales","765867","Pyrsp1","GCA_001644535.1","-","-","-","-","","-"
+"","Pyrenophora teres","Pleosporales","861557","GCA_000166005.1","GCA_000166005.1","-","-","-","","","-"
+"","Pyrenophora tritici-repentis (GCA_003171545)","Pleosporales","45151","PtrARCrossB10","GCA_003171545.1","-","-","-","-","-","-"
+"","Pyrenophora tritici-repentis (GCA_003231325)","Pleosporales","45151","Ptr134","GCA_003231325.1","-","-","-","-","-","-"
+"","Pyrenophora tritici-repentis (GCA_003231365)","Pleosporales","45151","Ptr239","GCA_003231365.1","-","-","-","-","-","-"
+"","Pyrenophora tritici-repentis (GCA_003231425)","Pleosporales","45151","Ptr86-124","GCA_003231425.1","-","-","-","-","-","-"
+"","Pyrenophora tritici-repentis Pt-1C-BFP","Pleosporales","426418","ASM14998v1","GCA_000149985.1","-","-","-","-","","-"
+"","Rachicladosporium antarcticum (GCA_002077065)","Capnodiales","1507870","ASM207706v1","GCA_002077065.1","-","-","-","-","","-"
+"","Rachicladosporium sp. CCFEE 5018 (GCA_002077045)","Capnodiales","1974281","ASM207704v2","GCA_002077045.2","-","-","-","-","","-"
+"","Ramularia collo-cygni (GCA_900074925)","Capnodiales","112498","version_1","GCA_900074925.1","-","-","-","-","","-"
+"","Rasamsonia emersonii CBS 393.64 (GCA_000968595)","Eurotiales","1408163","ASM96859v1","GCA_000968595.1","-","-","-","-","","-"
+"","Rhinocladiella mackenziei CBS 650.93 (GCA_000835555)","Chaetothyriomycetidae","1442369","Rhin_mack_CBS_650_93_V1","GCA_000835555.1","-","-","-","-","","-"
+"","Rhizoclosmatium globosum str. JEL800 (GCA_002104985)","Chytridiomycetes","329046","Rhihy1","GCA_002104985.1","-","-","-","-","","-"
+"","Rhizoctonia solani (GCA_001286725)","Cantharellales","456999","AG22IIIB","GCA_001286725.1","-","-","-","-","-","-"
+"","Rhizoctonia solani 123E (GCA_000715385)","Cantharellales","1423351","Rhizoctonia_solani_123E_v1","GCA_000715385.1","-","-","-","-","-","-"
+"","Rhizoctonia solani AG-1 IA str. AG1 IA (GCA_000334115)","Cantharellales","983506","Rhisol_AG1IA_1.0","GCA_000334115.1","-","-","-","-","","-"
+"","Rhizoctonia solani AG-1 IB (GCA_000350255)","Cantharellales","1108050","ASM35025v1","GCA_000350255.1","-","-","-","-","-","-"
+"","Rhizoctonia solani AG-3 Rhs1AP (GCA_000524645)","Cantharellales","1086054","Rhizoctonia_solani_AG-3","GCA_000524645.1","-","-","-","-","-","-"
+"","Rhizoctonia solani AG-8 WAC10335 (GCA_000695385)","Cantharellales","1287689","RSAG8-1.V1","GCA_000695385.1","-","-","-","-","-","-"
+"","Rhizophagus clarus str. HR1","Glomerales","94130","RclarusHR1_1.0","GCA_003203555.1","-","-","-","-","","-"
+"","Rhizophagus irregularis DAOM 181602=DAOM 197198","Glomerales","747089","Rir_HGAP_ii_V2","GCA_002897155.1","-","-","-","-","-","-"
+"","Rhizophagus irregularis DAOM 181602=DAOM 197198 (GCA_000439145)","Glomerales","747089","ASM43914v3","GCA_000439145.3","-","-","-","-","-","-"
+"","Rhizophagus irregularis DAOM 197198w str. DAOM197198w (GCA_000597685)","Glomerales","1432141","Rir","GCA_000597685.1","-","-","-","-","-","-"
+"","Rhizophagus irregularis str. A1","Glomerales","588596","ASM159312v1","GCA_001593125.1","-","-","-","-","-","-"
+"","Rhizophagus irregularis str. A4","Glomerales","588596","ASM159314v1","GCA_001593145.1","-","-","-","-","-","-"
+"","Rhizophagus irregularis str. A5","Glomerales","588596","ASM159320v1","GCA_001593205.1","-","-","-","-","-","-"
+"","Rhizophagus irregularis str. C2","Glomerales","588596","ASM159315v1","GCA_001593155.1","-","-","-","-","-","-"
+"","Rhizopogon vesiculosus str. AM-OR11-056 (GCA_001882365)","Boletales","180088","Rves_AM-OR11-056_1.0","GCA_001882365.1","-","-","-","-","","-"
+"","Rhizopogon vinicolor AM-OR11-026 (GCA_001658105)","Boletales","1314800","Rhivi1","GCA_001658105.1","-","-","-","-","-","-"
+"","Rhizopus delemar RA 99-880 (GCA_000149305)","Mucoromycotina","246409","RO3","GCA_000149305.1","-","-","-","-","","-"
+"","Rhizopus microsporus ATCC 52813","Mucoromycotina","1340429","Rhimi1_1","GCA_002708625.1","-","-","-","-","-","-"
+"","Rhizopus microsporus str. ATCC 11559","Mucoromycotina","58291","Rhimi_ATCC11559_1","GCA_002083735.1","-","-","-","-","-","-"
+"","Rhizopus microsporus str. ATCC62417 (GCA_900000135)","Mucoromycotina","58291","RMATCC62417_Allpaths-LG","GCA_900000135.1","-","-","-","-","-","-"
+"","Rhizopus microsporus str. CBS-344.29 (GCA_000825725)","Mucoromycotina","58291","Rmicro_CBS_344.29_Allpaths-LG","GCA_000825725.1","-","-","-","-","","-"
+"","Rhizopus microsporus var. microsporus str. ATCC 52814","Mucoromycotina","86635","Rhimi_ATCC52814_1","GCA_002083745.1","-","-","-","-","-","-"
+"","Rhodotorula graminis WP1 (GCA_001329695)","Sporidiobolales","578459","Rhoba1_1","GCA_001329695.1","-","-","-","-","","-"
+"","Rhodotorula sp. JG-1b (GCA_001541205)","Sporidiobolales","1305733","Rhosp1","GCA_001541205.1","-","-","-","-","-","-"
+"","Rhodotorula taiwanensis str. MD1149 (GCA_002922495)","Sporidiobolales","741276","ASM292249v1","GCA_002922495.1","-","-","-","-","-","-"
+"","Rhodotorula toruloides (GCA_001255795)","Sporidiobolales","5286","IFO0880_HGAP3_v1","GCA_001255795.1","-","-","-","-","-","-"
+"","Rhodotorula toruloides ATCC 204091 (GCA_000222205)","Sporidiobolales","1001064","R.glutinis2","GCA_000222205.2","-","-","-","-","","-"
+"","Rhodotorula toruloides NP11 (GCA_000320785)","Sporidiobolales","1130832","RHOziaDV1.0","GCA_000320785.2","-","-","-","-","-","-"
+"","Rhynchosporium agropyri (GCA_900074905)","Helotiales","914238","version_1","GCA_900074905.1","-","-","-","-","","-"
+"","Rhynchosporium commune (GCA_900074885)","Helotiales","914237","version_1","GCA_900074885.1","-","-","-","-","","-"
+"","Rhynchosporium secalis (GCA_900074895)","Helotiales","38038","version_1","GCA_900074895.1","-","-","-","-","","-"
+"","Rosellinia necatrix str. W97 (GCA_001445595)","Xylariales","77044","Rnecatrix_2.0","GCA_001445595.3","-","-","-","-","","-"
+"","Rozella allomycis CSF55 (GCA_000442015)","Cryptomycota","988480","Rozella_k41_t100","GCA_000442015.1","-","-","-","-","","-"
+"","Rutstroemia sp. NJR-2017a BBW (GCA_002946425)","Helotiales","2070414","ASM294642v1","GCA_002946425.1","-","-","-","-","","-"
+"","Rutstroemia sp. NJR-2017a BVV2 (GCA_002946415)","Helotiales","2070413","ASM294641v1","GCA_002946415.1","-","-","-","-","","-"
+"","Rutstroemia sp. NJR-2017a WRK4 (GCA_002946385)","Helotiales","2070412","ASM294638v1","GCA_002946385.1","-","-","-","-","","-"
+"","Saccharomyces arboricola H-6 (GCA_000292725)","Saccharomycetales","1160507","SacArb1.0","GCA_000292725.1","-","-","-","-","","-"
+"","Saccharomyces cerevisiae","Saccharomycetales","559292","R64-1-1","GCA_000146045.2","","","","","",""
+"","Saccharomyces cerevisiae (GCA_001634645)","Saccharomycetales","4932","GLBRCY22-3","GCA_001634645.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae (GCA_002804325)","Saccharomycetales","4932","ASM280432v1","GCA_002804325.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae CEN.PK113-7D (GCA_000269885)","Saccharomycetales","889517","ASM26988v1","GCA_000269885.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae EC1118 (GCA_000218975)","Saccharomycetales","643680","ASM21897v1","GCA_000218975.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae FostersB (GCA_000190255)","Saccharomycetales","764102","ScFostersB_v01","GCA_000190255.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae FostersO (GCA_000326005)","Saccharomycetales","764101","ScFostersO_v01","GCA_000326005.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae Kyokai no. 7 str. kyokai no. 7 (GCA_000260735)","Saccharomycetales","721032","K7_1.0","GCA_000260735.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae Lalvin QA23 (GCA_000325965)","Saccharomycetales","764098","ScQA23_v01","GCA_000325965.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae P283 (GCA_000568295)","Saccharomycetales","1177187","P283","GCA_000568295.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae P301 (GCA_000568055)","Saccharomycetales","1182968","p301","GCA_000568055.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae R103 (GCA_000568365)","Saccharomycetales","1182967","R103","GCA_000568365.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae RM11-1a (GCA_000149365)","Saccharomycetales","285006","ASM14936v1","GCA_000149365.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae VL3 (GCA_000190235)","Saccharomycetales","764100","ScVL3_v01","GCA_000190235.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae Vin13 (GCA_000190215)","Saccharomycetales","764099","ScVIN13_v01","GCA_000190215.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1078 (GCA_000975645)","Saccharomycetales","1296266","Sc_YJM1078_v1","GCA_000975645.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1083 (GCA_000975675)","Saccharomycetales","1292971","Sc_YJM1083_v1","GCA_000975675.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1129 (GCA_000975705)","Saccharomycetales","1293430","Sc_YJM1129_v1","GCA_000975705.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1133 (GCA_000976695)","Saccharomycetales","1294333","Sc_YJM1133_v1","GCA_000976695.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1190 (GCA_000976725)","Saccharomycetales","1294334","Sc_YJM1190_v1","GCA_000976725.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1199 (GCA_000976755)","Saccharomycetales","1294335","Sc_YJM1199_v1","GCA_000976755.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1202 (GCA_000976785)","Saccharomycetales","1294336","Sc_YJM1202_v1","GCA_000976785.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1208 (GCA_000976815)","Saccharomycetales","1294337","Sc_YJM1208_v1","GCA_000976815.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1242 (GCA_000976845)","Saccharomycetales","1294338","Sc_YJM1242_v1","GCA_000976845.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1244 (GCA_000976875)","Saccharomycetales","1294339","Sc_YJM1244_v1","GCA_000976875.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1248 (GCA_000976905)","Saccharomycetales","1294340","Sc_YJM1248_v1","GCA_000976905.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1250 (GCA_000976935)","Saccharomycetales","1294341","Sc_YJM1250_v1","GCA_000976935.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1252 (GCA_000976965)","Saccharomycetales","1294342","Sc_YJM1252_v1","GCA_000976965.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1273 (GCA_000976995)","Saccharomycetales","1294343","Sc_YJM1273_v1","GCA_000976995.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1304 (GCA_000977025)","Saccharomycetales","1294344","Sc_YJM1304_v1","GCA_000977025.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1307 (GCA_000977055)","Saccharomycetales","1294345","Sc_YJM1307_v1","GCA_000977055.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1311 (GCA_000977085)","Saccharomycetales","1294346","Sc_YJM1311_v1","GCA_000977085.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1326 (GCA_000977115)","Saccharomycetales","1294347","Sc_YJM1326_v1","GCA_000977115.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1332 (GCA_000977145)","Saccharomycetales","1294348","Sc_YJM1332_v1","GCA_000977145.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1336 (GCA_000977175)","Saccharomycetales","1294349","Sc_YJM1336_v1","GCA_000977175.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1338 (GCA_000977205)","","1294350","Sc_YJM1338_v1","GCA_000977205.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1341 (GCA_000977235)","Saccharomycetales","1294351","Sc_YJM1341_v1","GCA_000977235.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1342 (GCA_000977265)","Saccharomycetales","1294352","Sc_YJM1342_v1","GCA_000977265.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1355 (GCA_000977295)","Saccharomycetales","1294353","Sc_YJM1355_v1","GCA_000977295.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1356 (GCA_000977325)","Saccharomycetales","1294354","Sc_YJM1356_v1","GCA_000977325.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1381 (GCA_000977355)","Saccharomycetales","1294355","Sc_YJM1381_v1","GCA_000977355.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1383 (GCA_000977385)","Saccharomycetales","1294356","Sc_YJM1383_v1","GCA_000977385.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1385 (GCA_000977415)","Saccharomycetales","1294357","Sc_YJM1385_v1","GCA_000977415.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1386 (GCA_000977445)","Saccharomycetales","1294358","Sc_YJM1386_v1","GCA_000977445.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1387 (GCA_000977475)","Saccharomycetales","1294359","Sc_YJM1387_v1","GCA_000977475.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1388 (GCA_000977505)","Saccharomycetales","1294360","Sc_YJM1388_v1","GCA_000977505.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1389 (GCA_000977535)","Saccharomycetales","1294361","Sc_YJM1389_v1","GCA_000977535.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1399 (GCA_000977565)","Saccharomycetales","1294362","Sc_YJM1399_v1","GCA_000977565.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1400 (GCA_000977595)","Saccharomycetales","1294363","Sc_YJM1400_v1","GCA_000977595.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1401 (GCA_000977625)","Saccharomycetales","1294364","Sc_YJM1401_v1","GCA_000977625.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1402 (GCA_000977655)","Saccharomycetales","1294365","Sc_YJM1402_v1","GCA_000977655.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1415 (GCA_000977685)","Saccharomycetales","1294366","Sc_YJM1415_v1","GCA_000977685.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1417 (GCA_000977715)","Saccharomycetales","1294367","Sc_YJM1417_v1","GCA_000977715.4","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1418 (GCA_000977745)","Saccharomycetales","1294368","Sc_YJM1418_v1","GCA_000977745.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1419 (GCA_000977775)","Saccharomycetales","1294369","Sc_YJM1419_v1","GCA_000977775.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1433 (GCA_000977805)","Saccharomycetales","1294370","Sc_YJM1433_v1","GCA_000977805.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1434 (GCA_000977835)","Saccharomycetales","1294371","Sc_YJM1434_v1","GCA_000977835.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1439 (GCA_000977865)","Saccharomycetales","1294372","Sc_YJM1439_v1","GCA_000977865.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1443 (GCA_000977895)","Saccharomycetales","1294373","Sc_YJM1443_v1","GCA_000977895.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1444 (GCA_000977925)","Saccharomycetales","1294374","Sc_YJM1444_v1","GCA_000977925.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1447 (GCA_000977955)","Saccharomycetales","1294375","Sc_YJM1447_v1","GCA_000977955.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1450 (GCA_000977985)","Saccharomycetales","1294376","Sc_YJM1450_v1","GCA_000977985.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1460 (GCA_000978015)","Saccharomycetales","1294377","Sc_YJM1460_v1","GCA_000978015.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1463 (GCA_000978045)","Saccharomycetales","1294378","Sc_YJM1463_v1","GCA_000978045.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1477 (GCA_000978075)","Saccharomycetales","1294379","Sc_YJM1477_v1","GCA_000978075.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1478 (GCA_000978105)","Saccharomycetales","1294380","Sc_YJM1478_v1","GCA_000978105.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1479 (GCA_000978135)","Saccharomycetales","1294381","Sc_YJM1479_v1","GCA_000978135.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1526 (GCA_000978165)","Saccharomycetales","1294382","Sc_YJM1526_v1","GCA_000978165.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1527 (GCA_000978195)","Saccharomycetales","1294383","Sc_YJM1527_v1","GCA_000978195.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1549 (GCA_000978225)","Saccharomycetales","1294384","Sc_YJM1549_v1","GCA_000978225.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1573 (GCA_000978255)","Saccharomycetales","1294385","Sc_YJM1573_v1","GCA_000978255.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1574 (GCA_000978285)","Saccharomycetales","1294386","Sc_YJM1574_v1","GCA_000978285.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1592 (GCA_000978315)","Saccharomycetales","1294387","Sc_YJM1592_v1","GCA_000978315.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM1615 (GCA_000978345)","Saccharomycetales","1294388","Sc_YJM1615_v1","GCA_000978345.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM189 (GCA_000975735)","Saccharomycetales","1294303","Sc_YJM189_v1","GCA_000975735.4","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM193 (GCA_000975765)","Saccharomycetales","1294304","Sc_YJM193_v1","GCA_000975765.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM195 (GCA_000975585)","Saccharomycetales","1294305","Sc_YJM195_v1","GCA_000975585.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM244 (GCA_000975615)","Saccharomycetales","1294306","Sc_YJM244_v1","GCA_000975615.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM248 (GCA_000975795)","Saccharomycetales","1294307","Sc_YJM248_v1","GCA_000975795.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM270 (GCA_000975825)","Saccharomycetales","1294308","Sc_YJM270_v1","GCA_000975825.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM271 (GCA_000975855)","Saccharomycetales","1294309","Sc_YJM271_v1","GCA_000975855.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM320 (GCA_000975885)","Saccharomycetales","947042","Sc_YJM320_v1","GCA_000975885.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM326 (GCA_000975915)","Saccharomycetales","468558","Sc_YJM326_v1","GCA_000975915.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM428 (GCA_000975945)","Saccharomycetales","947044","Sc_YJM428_v1","GCA_000975945.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM450 (GCA_000975975)","Saccharomycetales","1294310","Sc_YJM450_v1","GCA_000975975.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM451 (GCA_000976005)","Saccharomycetales","502869","Sc_YJM451_v1","GCA_000976005.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM453 (GCA_000976035)","Saccharomycetales","1294311","Sc_YJM453_v1","GCA_000976035.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM456 (GCA_000976065)","Saccharomycetales","1294312","Sc_YJM456_v1","GCA_000976065.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM470 (GCA_000976095)","Saccharomycetales","1294313","Sc_YJM470_v1","GCA_000976095.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM541 (GCA_000976125)","Saccharomycetales","1294314","Sc_YJM541_v1","GCA_000976125.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM554 (GCA_000976155)","Saccharomycetales","1294315","Sc_YJM554_v1","GCA_000976155.4","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM555 (GCA_000976185)","Saccharomycetales","1294316","Sc_YJM555_v1","GCA_000976185.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM627 (GCA_000976215)","Saccharomycetales","1294317","Sc_YJM627_v1","GCA_000976215.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM681 (GCA_000976245)","Saccharomycetales","1294318","Sc_YJM681_v1","GCA_000976245.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM682 (GCA_000976275)","Saccharomycetales","1294319","Sc_YJM682_v1","GCA_000976275.4","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM683 (GCA_000976305)","Saccharomycetales","1294320","Sc_YJM683_v1","GCA_000976305.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM689 (GCA_000976335)","Saccharomycetales","1294321","Sc_YJM689_v1","GCA_000976335.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM693 (GCA_000976365)","Saccharomycetales","1294322","Sc_YJM693_v1","GCA_000976365.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM789 (GCA_000181435)","Saccharomycetales","307796","ASM18143v1","GCA_000181435.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM969 (GCA_000976395)","Saccharomycetales","1294323","Sc_YJM969_v1","GCA_000976395.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM972 (GCA_000976425)","Saccharomycetales","1294324","Sc_YJM972_v1","GCA_000976425.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM975 (GCA_000976455)","Saccharomycetales","1294325","Sc_YJM975_v1","GCA_000976455.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM978 (GCA_000976485)","Saccharomycetales","1294326","Sc_YJM978_v1","GCA_000976485.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM981 (GCA_000976515)","Saccharomycetales","1294327","Sc_YJM981_v1","GCA_000976515.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM984 (GCA_000976545)","Saccharomycetales","1294328","Sc_YJM984_v1","GCA_000976545.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM987 (GCA_000976575)","Saccharomycetales","1294329","Sc_YJM987_v1","GCA_000976575.4","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM990 (GCA_000976605)","Saccharomycetales","1294330","Sc_YJM990_v1","GCA_000976605.3","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM993 (GCA_000662435)","Saccharomycetales","1294331","Sc_YJM993_v1","GCA_000662435.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae YJM996 (GCA_000976665)","Saccharomycetales","1294332","Sc_YJM996_v1","GCA_000976665.2","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae str. 131 (GCA_001983315)","Saccharomycetales","4932","ASM198331v1","GCA_001983315.1","-","-","-","-","-","-"
+"","Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7 (GCA_000326105)","Saccharomycetales","1095631","ASM32610v1","GCA_000326105.1","-","-","-","-","-","-"
+"","Saccharomyces eubayanus str. FM1318 (GCA_001298625)","Saccharomycetales","1080349","SEUB3.0","GCA_001298625.1","-","-","-","-","","-"
+"","Saccharomyces kudriavzevii IFO 1802 (GCA_000167075)","Saccharomycetales","226230","Saccharomyces_kudriavzevii_strain_IFO1802_v1.0","GCA_000167075.2","-","-","-","-","","-"
+"","Saccharomyces sp. 'boulardii' str. biocodex (GCA_001298375)","Saccharomycetales","252598","ASM129837v2","GCA_001298375.2","-","-","-","-","","-"
+"","Saccharomyces sp. 'boulardii' str. unique28 (GCA_001413975)","Saccharomycetales","252598","ASM141397v1","GCA_001413975.1","-","-","-","-","-","-"
+"","Saccharomycetaceae sp. 'Ashbya aceri' (GCA_000412225)","Saccharomycetales","566037","ASM41222v2","GCA_000412225.2","-","-","-","-","","-"
+"","Saitoella complicata NRRL Y-17804 (GCA_000227095)","Taphrinomycotina","698492","Scomplicata_3.0","GCA_000227095.3","-","-","-","-","","-"
+"","Saitoella complicata NRRL Y-17804 (GCA_001661265)","Taphrinomycotina","698492","Saico1","GCA_001661265.1","-","-","-","-","-","-"
+"","Scedosporium apiospermum str. IHEM 14462 (GCA_000732125)","Microascales","563466","ScApio1.0","GCA_000732125.1","-","-","-","-","","-"
+"","Scheffersomyces stipitis CBS 6054 (GCA_000209165)","Saccharomycetales","322104","ASM20916v1","GCA_000209165.1","-","-","-","-","","-"
+"","Schizophyllum commune H4-8 (GCA_000143185)","Agaricales","578458","v1.0","GCA_000143185.1","-","-","-","-","","-"
+"","Schizopora paradoxa str. KUC8140 (GCA_001020605)","Hymenochaetales","27342","Schpa1","GCA_001020605.1","-","-","-","-","","-"
+"","Schizosaccharomyces cryophilus","Schizosaccharomycetales","653667","GCA_000004155.2","GCA_000004155.2","-","-","","","","-"
+"","Schizosaccharomyces japonicus","Schizosaccharomycetales","402676","GCA_000149845.2","GCA_000149845.2","-","-","","","","-"
+"","Schizosaccharomyces octosporus","Schizosaccharomycetales","483514","GCA_000150505.2","GCA_000150505.2","-","-","","","","-"
+"","Schizosaccharomyces pombe","Schizosaccharomycetales","284812","ASM294v2","GCA_000002945.2","","-","","","",""
+"","Scleroderma citrinum Foug A (GCA_000827425)","Boletales","1036808","Scleroderma_citrinum_Foug_A_v1.0","GCA_000827425.1","-","-","-","-","","-"
+"","Sclerotinia borealis F-4128 (GCA_000503235)","Sclerotiniaceae","1432307","SBOR_1","GCA_000503235.1","-","-","-","-","","-"
+"","Sclerotinia sclerotiorum","Sclerotiniaceae","665079","ASM14694v1","GCA_000146945.1","-","-","-","","","-"
+"","Sclerotinia sclerotiorum 1980 UF-70 (GCA_001857865)","Sclerotiniaceae","665079","ASM185786v1","GCA_001857865.1","-","-","-","-","-","-"
+"","Serendipita indica DSM 11827 (GCA_000313545)","Sebacinales","1109443","ASM31354v1","GCA_000313545.1","-","-","-","-","","-"
+"","Serendipita vermifera MAFF 305830 (GCA_000827415)","Sebacinales","933852","Sebacina_vermifera_MAFF_305830_v1.0","GCA_000827415.1","-","-","-","-","","-"
+"","Serpula lacrymans var. lacrymans S7.3 (GCA_000218725)","Boletales","936435","v1.0","GCA_000218725.1","-","-","-","-","","-"
+"","Serpula lacrymans var. lacrymans S7.9 (GCA_000218685)","Boletales","578457","v1.0","GCA_000218685.1","-","-","-","-","-","-"
+"","Sistotremastrum niveocremeum HHB9708 (GCA_001630475)","","1314777","Sisni1","GCA_001630475.1","-","-","-","-","","-"
+"","Sistotremastrum suecicum HHB10207 ss-3 (GCA_001632355)","","1314776","Sissu1","GCA_001632355.1","-","-","-","-","","-"
+"","Sordaria macrospora k-hell (GCA_000182805)","Sordariales","771870","ASM18280v2","GCA_000182805.2","-","-","-","-","","-"
+"","Spathaspora passalidarum NRRL Y-27907 (GCA_000223485)","Saccharomycetales","619300","Spathaspora_passalidarum_v2.0","GCA_000223485.1","-","-","-","-","","-"
+"","Sphaerobolus stellatus SS14 (GCA_000827215)","Geastrales","990650","Sphst1","GCA_000827215.1","-","-","-","-","","-"
+"","Sphaerulina musiva SO2202 (GCA_000320565)","Capnodiales","692275","Septoria_musiva_SO2202_v1.0","GCA_000320565.2","-","-","-","-","","-"
+"","Spizellomyces punctatus DAOM BR117 (GCA_000182565)","Chytridiomycetes","645134","S_punctatus_V1","GCA_000182565.2","-","-","-","-","","-"
+"","Sporisorium reilianum","Ustilaginales","999809","GCA_000230245.1","GCA_000230245.1","-","-","-","","","-"
+"","Sporisorium reilianum f. sp. reilianum (GCA_900162835)","Ustilaginales","72559","version_2","GCA_900162835.1","-","-","-","-","-","-"
+"","Sporothrix brasiliensis 5110 (GCA_000820605)","Ophiostomatales","1398154","S_brasiliensis_5110_v1","GCA_000820605.1","-","-","-","-","","-"
+"","Sporothrix insectorum RCEF 264 (GCA_001636815)","Ophiostomatales","1081102","SPI_1.0","GCA_001636815.1","-","-","-","-","","-"
+"","Sporothrix schenckii 1099-18 (GCA_000961545)","Ophiostomatales","1397361","S_schenckii_v1","GCA_000961545.1","-","-","-","-","-","-"
+"","Sporothrix schenckii ATCC 58251 (GCA_000474925)","Ophiostomatales","1391915","Spor_sche_ATCC58251_V1","GCA_000474925.1","-","-","-","-","","-"
+"","Spraguea lophii 42_110 (GCA_000430065)","Spraguidae","1358809","Sprlop1.0","GCA_000430065.1","-","-","-","-","","-"
+"","Stachybotrys chartarum IBT 40288 (GCA_000732765)","Hypocreales","1283842","S40288v1","GCA_000732765.1","-","-","-","-","","-"
+"","Stachybotrys chartarum IBT 40293 (GCA_000732565)","Hypocreales","1280524","S40293v1","GCA_000732565.1","-","-","-","-","-","-"
+"","Stachybotrys chartarum IBT 7711 (GCA_000730325)","Hypocreales","1280523","S7711v1","GCA_000730325.1","-","-","-","-","-","-"
+"","Stachybotrys chlorohalonata IBT 40285 (GCA_000732775)","Hypocreales","1283841","S40285v1","GCA_000732775.1","-","-","-","-","","-"
+"","Stagonospora sp. SRC1lsM3a (GCA_001644525)","Pleosporales","765868","Stasp1","GCA_001644525.1","-","-","-","-","","-"
+"","Stemphylium lycopersici str. CIDEFI 216 (GCA_001191545)","Pleosporales","183478","ASM119154v1","GCA_001191545.1","-","-","-","-","","-"
+"","Stereum hirsutum FP-91666 SS1 (GCA_000264905)","Russulales","721885","Stehi1","GCA_000264905.1","-","-","-","-","","-"
+"","Sugiyamaella lignohabitans str. CBS 10342 (GCA_001640025)","Saccharomycetales","796027","ASM164002v2","GCA_001640025.2","-","-","-","-","","-"
+"","Suhomyces tanzawaensis NRRL Y-17324 (GCA_001661415)","Saccharomycetales","984487","Canta1","GCA_001661415.1","-","-","-","-","","-"
+"","Suillus luteus UH-Slu-Lm8-n1 (GCA_000827255)","Boletales","930992","Suilu1","GCA_000827255.1","-","-","-","-","","-"
+"","Syncephalastrum racemosum str. NRRL 2496","Mucoromycotina","13706","Synrac1","GCA_002105135.1","-","-","-","-","","-"
+"","Talaromyces atroroseus str. IBT 11181 (GCA_001907595)","Eurotiales","1441469","ASM190759v1","GCA_001907595.1","-","-","-","-","","-"
+"","Talaromyces cellulolyticus str. Y-94 (GCA_000829775)","Eurotiales","1472165","TcelY94_1.0","GCA_000829775.1","-","-","-","-","","-"
+"","Talaromyces islandicus (GCA_000985935)","Eurotiales","28573","PIS","GCA_000985935.1","-","-","-","-","","-"
+"","Talaromyces marneffei ATCC 18224 (GCA_000001985)","Eurotiales","441960","JCVI-PMFA1-2.0","GCA_000001985.1","-","-","-","-","","-"
+"","Talaromyces marneffei PM1 (GCA_000750115)","Eurotiales","1077442","ASM75011v1","GCA_000750115.1","-","-","-","-","-","-"
+"","Talaromyces stipitatus ATCC 10500 (GCA_000003125)","Eurotiales","441959","JCVI-TSTA1-3.0","GCA_000003125.1","-","-","-","-","","-"
+"","Termitomyces sp. J132 (GCA_001263195)","Agaricales","1306850","TerJ1321.0","GCA_001263195.1","-","-","-","-","","-"
+"","Testicularia cyperi str. MCA 3645 (GCA_003144125)","Ustilaginales","1882483","Tescy1","GCA_003144125.1","-","-","-","-","","-"
+"","Tetrapisispora blattae CBS 6284 (GCA_000315915)","Saccharomycetales","1071380","ASM31591v1","GCA_000315915.1","-","-","-","-","","-"
+"","Tetrapisispora phaffii CBS 4417 (GCA_000236905)","Saccharomycetales","1071381","ASM23690v1","GCA_000236905.1","-","-","-","-","","-"
+"","Thermothelomyces thermophila ATCC 42464 (GCA_000226095)","Sordariales","573729","ASM22609v1","GCA_000226095.1","-","-","-","-","","-"
+"","Thielavia terrestris NRRL 8126 (GCA_000226115)","Sordariales","578455","ASM22611v1","GCA_000226115.1","-","-","-","-","","-"
+"","Thielaviopsis punctulata (GCA_000968615)","Microascales","72032","ASM96861v1","GCA_000968615.1","-","-","-","-","","-"
+"","Tilletia caries str. DAOM 238032 (GCA_001645005)","","13290","ASM164500v1","GCA_001645005.1","-","-","-","-","","-"
+"","Tilletia controversa str. DAOM 236426 (GCA_001645045)","","13291","ASM164504v1","GCA_001645045.1","-","-","-","-","","-"
+"","Tilletia indica str. DAOM 236416 (GCA_001645015)","","43049","ASM164501v1","GCA_001645015.1","-","-","-","-","","-"
+"","Tilletia walkeri str. DAOM 236422 (GCA_001645055)","","117179","ASM164505v1","GCA_001645055.1","-","-","-","-","","-"
+"","Tilletiaria anomala UBC 951 (GCA_000711695)","Georgefischeriales","1037660","Tilletiaria_anomala_UBC_951_v1.0","GCA_000711695.1","-","-","-","-","","-"
+"","Tilletiopsis washingtonensis str. MCA 4186 (GCA_003144115)","","58919","Tilwa1","GCA_003144115.1","-","-","-","-","","-"
+"","Tolypocladium capitatum str. CBS 113982 (GCA_002901185)","Hypocreales","45235","ASM290118v1","GCA_002901185.1","-","-","-","-","","-"
+"","Tolypocladium ophioglossoides CBS 100239 (GCA_001189435)","Hypocreales","1163406","Tophv1.0","GCA_001189435.1","-","-","-","-","","-"
+"","Tolypocladium paradoxum str. NRBC 100945 (GCA_002916505)","Hypocreales","94208","ASM291650v1","GCA_002916505.1","-","-","-","-","","-"
+"","Torrubiella hemipterigena str. BCC 1449 (GCA_000825705)","Hypocreales","1531966","Allpaths-LG","GCA_000825705.1","-","-","-","-","","-"
+"","Tortispora caseinolytica NRRL Y-17796 (GCA_001661475)","Saccharomycetales","767744","Canca1","GCA_001661475.1","-","-","-","-","","-"
+"","Torulaspora delbrueckii str. CBS 1146 (GCA_000243375)","Saccharomycetales","4950","ASM24337v1","GCA_000243375.1","-","-","-","-","","-"
+"","Trachipleistophora hominis (GCA_000316135)","Pleistophoridae","72359","ASM31613v1","GCA_000316135.1","-","-","-","-","","-"
+"","Trametes cinnabarina str. BRFM137 (GCA_000765035)","Polyporales","5643","BN946","GCA_000765035.1","-","-","-","-","","-"
+"","Trametes coccinea BRFM310 (GCA_002092935)","Polyporales","1353009","Pycco1","GCA_002092935.1","-","-","-","-","","-"
+"","Trametes pubescens str. FBCC735 (GCA_001895945)","Polyporales","154538","ASM189594v1","GCA_001895945.1","-","-","-","-","","-"
+"","Trametes versicolor FP-101664 SS1 (GCA_000271585)","Polyporales","717944","Trametes_versicolor_v1.0","GCA_000271585.1","-","-","-","-","","-"
+"","Tremella mesenterica DSM 1558 (GCA_000271645)","Tremellales","578456","Treme1","GCA_000271645.1","-","-","-","-","","-"
+"","Trichoderma asperellum CBS 433.97 (GCA_003025105)","Hypocreales","1042311","Trias_v._1.0","GCA_003025105.1","-","-","-","-","","-"
+"","Trichoderma atroviride IMI 206040 (GCA_000171015)","Hypocreales","452589","TRIAT_v2.0","GCA_000171015.2","-","-","-","-","","-"
+"","Trichoderma citrinoviride str. TUCIM 6016 (GCA_003025115)","Hypocreales","58853","Trici_v4.0","GCA_003025115.1","-","-","-","-","","-"
+"","Trichoderma gamsii str. T6085 (GCA_001481775)","Hypocreales","398673","TGAM01v2","GCA_001481775.2","-","-","-","-","","-"
+"","Trichoderma guizhouense str. NJAU 4742 (GCA_002022785)","Hypocreales","1491466","ASM202278v1","GCA_002022785.1","-","-","-","-","","-"
+"","Trichoderma harzianum CBS 226.95 (GCA_003025095)","Hypocreales","983964","Allpaths-LG_v._01_03_12","GCA_003025095.1","-","-","-","-","-","-"
+"","Trichoderma harzianum str. T6776 (GCA_000988865)","Hypocreales","5544","ASM98886v1","GCA_000988865.1","-","-","-","-","","-"
+"","Trichoderma harzianum str. TR274 (GCA_002838845)","Hypocreales","5544","ASM283884v1","GCA_002838845.1","-","-","-","-","-","-"
+"","Trichoderma harzianum str. Tr1 (GCA_002894145)","Hypocreales","5544","Tr1","GCA_002894145.1","-","-","-","-","-","-"
+"","Trichoderma longibrachiatum ATCC 18648 (GCA_003025155)","Hypocreales","983965","Trilo3","GCA_003025155.1","-","-","-","-","","-"
+"","Trichoderma parareesei (GCA_001050175)","Hypocreales","858221","Tpara_v1.0","GCA_001050175.1","-","-","-","-","","-"
+"","Trichoderma reesei","Hypocreales","431241","GCA_000167675.2","GCA_000167675.2","-","-","-","","","-"
+"","Trichoderma reesei RUT C-30 (GCA_000513815)","Hypocreales","1344414","TrireRUTC30_1","GCA_000513815.1","-","-","-","-","-","-"
+"","Trichoderma virens","Hypocreales","413071","ASM17099v1","GCA_000170995.2","-","-","","","","-"
+"","Trichophyton benhamiae CBS 112371 (GCA_000151125)","Onygenales","663331","ASM15112v2","GCA_000151125.2","-","-","-","-","","-"
+"","Trichophyton equinum CBS 127.97 (GCA_000151175)","Onygenales","559882","ASM15117v1","GCA_000151175.1","-","-","-","-","","-"
+"","Trichophyton interdigitale H6 (GCA_000616785)","Onygenales","1215336","Tric_rubr_H6_V2","GCA_000616785.1","-","-","-","-","-","-"
+"","Trichophyton interdigitale MR816 (GCA_000622975)","Onygenales","1215338","Tric_inte_MR816_V1","GCA_000622975.1","-","-","-","-","","-"
+"","Trichophyton mentagrophytes str. TIMM 2789 (GCA_003118255)","Onygenales","523103","ABySS_70bp_45k_152cov_v1","GCA_003118255.1","-","-","-","-","","-"
+"","Trichophyton rubrum CBS 100081 (GCA_000616805)","Onygenales","1215328","Tric_fish_CBS_100081_V1","GCA_000616805.1","-","-","-","-","-","-"
+"","Trichophyton rubrum CBS 118892 (GCA_000151425)","Onygenales","559305","ASM15142v1","GCA_000151425.1","-","-","-","-","","-"
+"","Trichophyton rubrum CBS 202.88 (GCA_000616985)","Onygenales","1215334","Tric_raub_CBS_202_88_V2","GCA_000616985.1","-","-","-","-","-","-"
+"","Trichophyton rubrum CBS 288.86 (GCA_000616825)","Onygenales","1215330","Tric_fish_CBS_288_86_V1","GCA_000616825.1","-","-","-","-","-","-"
+"","Trichophyton rubrum CBS 289.86 (GCA_000616845)","Onygenales","1215329","Tric_kane_CBS_289_86_V1","GCA_000616845.1","-","-","-","-","-","-"
+"","Trichophyton rubrum CBS 735.88 (GCA_000616965)","Onygenales","1215332","Tric_megn_CBS_735_88_V1","GCA_000616965.1","-","-","-","-","-","-"
+"","Trichophyton rubrum D6 (GCA_000622995)","Onygenales","1215335","Tric_rubr_D6_V1","GCA_000622995.1","-","-","-","-","-","-"
+"","Trichophyton rubrum MR1448 (GCA_000616905)","Onygenales","1215339","Tric_rubr_M1448_V1","GCA_000616905.1","-","-","-","-","-","-"
+"","Trichophyton rubrum MR1459 (GCA_000616945)","Onygenales","1215341","Tric_rubr_MR1459_V1","GCA_000616945.1","-","-","-","-","-","-"
+"","Trichophyton rubrum MR850 (GCA_000616765)","Onygenales","1215337","Tric_rubr_MR-850_V1","GCA_000616765.1","-","-","-","-","-","-"
+"","Trichophyton rubrum str. CMCC(F)T1i (GCA_001651445)","Onygenales","5551","CMCC_F_T1i","GCA_001651445.1","-","-","-","-","-","-"
+"","Trichophyton soudanense CBS 452.61 (GCA_000616865)","Onygenales","1215331","Tric_soud_CBS_452_61_V1","GCA_000616865.1","-","-","-","-","","-"
+"","Trichophyton tonsurans CBS 112818 (GCA_000151455)","Onygenales","647933","ASM15145v1","GCA_000151455.1","-","-","-","-","","-"
+"","Trichophyton verrucosum HKI 0517 (GCA_000151505)","Onygenales","663202","ASM15150v1","GCA_000151505.1","-","-","-","-","","-"
+"","Trichophyton violaceum str. CMCC(F)T3l (GCA_001651435)","Onygenales","34388","CMCC_F_T3l","GCA_001651435.1","-","-","-","-","","-"
+"","Trichosporon asahii var. asahii CBS 2479 (GCA_000293215)","","1186058","Trichosporon_asahii_1","GCA_000293215.1","-","-","-","-","-","-"
+"","Trichosporon asahii var. asahii CBS 8904 (GCA_000299215)","","1220162","ASM29921v2","GCA_000299215.2","-","-","-","-","","-"
+"","Tsuchiyaea wingfieldii CBS 7118 (GCA_001720155)","Tremellales","1295528","Tsuc_wing_CBS7118_V1","GCA_001720155.1","-","-","-","-","","-"
+"","Tuber borchii str. Tbo3840 (GCA_003070745)","Pezizales","42251","Tubbor1","GCA_003070745.1","-","-","-","-","","-"
+"","Tuber magnatum (GCA_003182015)","Pezizales","42249","ASM318201v1","GCA_003182015.1","-","-","-","-","","-"
+"","Tuber melanosporum","Pezizales","656061","ASM15164v1","GCA_000151645.1","-","-","-","","","-"
+"","Tulasnella calospora MUT 4182 (GCA_000827465)","Cantharellales","1051891","Tulasnella_calospora_AL13_4D_v1.0","GCA_000827465.1","-","-","-","-","","-"
+"","Umbilicaria pustulata (GCA_900169345)","","136370","Lasallia_pustulata_v1","GCA_900169345.1","-","-","-","-","-","-"
+"","Uncinocarpus reesii 1704 str. UAMH 1704 (GCA_000003515)","Onygenales","336963","ASM351v2","GCA_000003515.2","-","-","-","-","","-"
+"","Ustilaginoidea virens (GCA_000965225)","Hypocreales","1159556","ASM96522v2","GCA_000965225.2","-","-","-","-","-","-"
+"","Ustilaginoidea virens str. UV-8b (GCA_000687475)","Hypocreales","1159556","Assembly_for_version_1_of_the_Villosiclava_virens_genome","GCA_000687475.1","-","-","-","-","","-"
+"","Ustilaginomycotina sp. SA 807 (GCA_003144235)","","1673888","Ustsp1","GCA_003144235.1","-","-","-","-","","-"
+"","Ustilago bromivora str. UB2112 (GCA_900080155)","Ustilaginales","307758","UBRO_v3","GCA_900080155.1","-","-","-","-","-","-"
+"","Ustilago hordei str. Uh4857-4 (GCA_000286035)","Ustilaginales","120017","ASM28603v1","GCA_000286035.1","-","-","-","-","","-"
+"","Ustilago maydis","Ustilaginales","237631","Umaydis521_2.0","GCA_000328475.2","-","-","-","","",""
+"","Valsa mali str. 03-8 (GCA_000818155)","Sordariomycetidae","105487","ASM81815v1","GCA_000818155.1","-","-","-","-","-","-"
+"","Valsa mali var. pyri str. SXYL134 (GCA_000813385)","Sordariomycetidae","694573","ASM81338v1","GCA_000813385.1","-","-","-","-","","-"
+"","Vanderwaltozyma polyspora DSM 70294 (GCA_000150035)","Saccharomycetales","436907","ASM15003v1","GCA_000150035.1","-","-","-","-","","-"
+"","Vavraia culicis subsp. floridensis (GCA_000192795)","Pleistophoridae","948595","Vavr_culi_floridensis_V1","GCA_000192795.1","-","-","-","-","","-"
+"","Verruconis gallopava str. CBS 43764 (GCA_000836295)","Venturiales","253628","O_gall_CBS43764","GCA_000836295.1","-","-","-","-","-","-"
+"","Verticillium alfalfae VaMs.102 (GCA_000150825)","Glomerellales","526221","ASM15082v1","GCA_000150825.1","-","-","-","-","-","-"
+"","Verticillium dahliae","Glomerellales","498257","ASM15067v2","GCA_000150675.2","-","-","-","","","-"
+"","Verticillium dahliae (GCA_002892995)","Glomerellales","27337","ASM289299v1","GCA_002892995.1","-","-","-","-","-","-"
+"","Verticillium dahliae (GCA_002893025)","Glomerellales","27337","ASM289302v1","GCA_002893025.1","-","-","-","-","-","-"
+"","Verticillium dahliae (GCA_002893035)","Glomerellales","27337","ASM289303v1","GCA_002893035.1","-","-","-","-","-","-"
+"","Verticillium dahliae (GCA_002893045)","Glomerellales","27337","ASM289304v1","GCA_002893045.1","-","-","-","-","-","-"
+"","Verticillium dahliae JR2","Glomerellales","1202531","VDAG_JR2v.4.0","GCA_000400815.2","","-","-","","-","-"
+"","Verticillium dahliae str. 12008 (GCA_002892985)","Glomerellales","27337","ASM289298v1","GCA_002892985.1","-","-","-","-","-","-"
+"","Verticillium longisporum (GCA_001268145)","Glomerellales","100787","vl1.denovo.v1","GCA_001268145.1","-","-","-","-","-","-"
+"","Verticillium longisporum (GCA_001268165)","Glomerellales","100787","vl2.denovo.v1","GCA_001268165.1","-","-","-","-","","-"
+"","Vittaforma corneae ATCC 50505 (GCA_000231115)","Nosematidae","993615","Vitt_corn_V1","GCA_000231115.1","-","-","-","-","","-"
+"","Wallemia ichthyophaga EXF-994 (GCA_000400465)","Wallemiales","1299270","Wallemia_ichthyophaga_version_1.0","GCA_000400465.1","-","-","-","-","","-"
+"","Wallemia mellicola CBS 633.66 (GCA_000263375)","Wallemiales","671144","Wallemia_sebi_v1.0","GCA_000263375.1","-","-","-","-","","-"
+"","Wickerhamiella sorbophila str. DS02 (GCA_002251995)","Saccharomycetales","45607","ASM225199v2","GCA_002251995.2","-","-","-","-","","-"
+"","Wickerhamomyces anomalus NRRL Y-366-8 (GCA_001661255)","Saccharomycetales","683960","Wican1","GCA_001661255.1","-","-","-","-","","-"
+"","Wickerhamomyces ciferrii str. NRRL Y-1031 (GCA_000313485)","Saccharomycetales","1041607","ASM31348v1","GCA_000313485.1","-","-","-","-","","-"
+"","Wolfiporia cocos MD-104 SS10 (GCA_000344635)","Polyporales","742152","Wolco1","GCA_000344635.1","-","-","-","-","","-"
+"","Xanthophyllomyces dendrorhous (GCA_001007165)","Cystofilobasidiales","5421","Xden1","GCA_001007165.2","-","-","-","-","-","-"
+"","Xylona heveae TC161 (GCA_001619985)","","1328760","Xylona_heveae_TC161_v1.0","GCA_001619985.1","-","-","-","-","","-"
+"","Yarrowia lipolytica","Saccharomycetales","284591","GCA_000002525.1","GCA_000002525.1","-","-","-","","-","-"
+"","Yarrowia lipolytica (GCA_900087985)","Saccharomycetales","4952","YALIA101","GCA_900087985.1","-","-","-","-","","-"
+"","Yarrowia lipolytica str. CLIB89 (W29) (GCA_001761485)","Saccharomycetales","4952","ASM176148v1","GCA_001761485.1","-","-","-","-","-","-"
+"","Zygosaccharomyces bailii (GCA_900162805)","Saccharomycetales","4954","version_1","GCA_900162805.1","-","-","-","-","-","-"
+"","Zygosaccharomyces bailii CLIB 213 (GCA_000442885)","Saccharomycetales","1333698","ZYBA0","GCA_000442885.1","-","-","-","-","","-"
+"","Zygosaccharomyces bailii ISA1307 (GCA_000530735)","Saccharomycetales","1355161","Z_bailii_ISA1307_version_3","GCA_000530735.1","-","-","-","-","-","-"
+"","Zygosaccharomyces parabailii str. ATCC 60483 (GCA_001984395)","Saccharomycetales","1365886","ASM198439v2","GCA_001984395.2","-","-","-","-","","-"
+"","Zygosaccharomyces rouxii str. CBS 732 (GCA_000026365)","Saccharomycetales","4956","ASM2636v1","GCA_000026365.1","-","-","-","-","","-"
+"","Zygosaccharomyces rouxii str. NBRC110957 (GCA_001972345)","Saccharomycetales","4956","ZYGR_assembly01","GCA_001972345.1","-","-","-","-","-","-"
+"","Zymoseptoria brevis str. Zb18110 (GCA_000966595)","Capnodiales","1047168","ASM96659v1","GCA_000966595.1","-","-","-","-","","-"
+"","Zymoseptoria tritici","Capnodiales","336722","MG2","GCA_000219625.1","","-","-","","",""
+"","Zymoseptoria tritici ST99CH_1A5 (GCA_900099495)","Capnodiales","1276529","ZT1A5_complete_assembly","GCA_900099495.1","-","-","-","-","-","-"
+"","Zymoseptoria tritici ST99CH_1E4 (GCA_900184115)","Capnodiales","1276532","ST99CH_1E4","GCA_900184115.1","-","-","-","-","-","-"
+"","Zymoseptoria tritici ST99CH_3D1 (GCA_900184105)","Capnodiales","1276537","ST99CH_3D1","GCA_900184105.1","-","-","-","-","-","-"
+"","Zymoseptoria tritici ST99CH_3D7 (GCA_900091695)","Capnodiales","1276538","Zt_ST99CH_3D7","GCA_900091695.1","-","-","-","-","-","-"
+"","[Candida] arabinofermentans NRRL YB-2248 (GCA_001661425)","Saccharomycetales","983967","Canar1","GCA_001661425.1","-","-","-","-","-","-"
+"","[Candida] auris (GCA_002759435)","Saccharomycetales","498019","Cand_auris_B8441_V2","GCA_002759435.2","-","-","-","-","-","-"
+"","[Candida] auris (GCA_002775015)","Saccharomycetales","498019","Cand_auris_B11221_V1","GCA_002775015.1","-","-","-","-","-","-"
+"","[Candida] auris (GCA_003013715)","Saccharomycetales","498019","Cand_auris_B11220","GCA_003013715.1","-","-","-","-","-","-"
+"","[Candida] auris (GCA_003014415)","Saccharomycetales","498019","Cand_auris_B11243","GCA_003014415.1","-","-","-","-","-","-"
+"","[Candida] auris str. 6684 (GCA_001189475)","Saccharomycetales","498019","ASM118947v1","GCA_001189475.1","-","-","-","-","","-"
+"","[Candida] duobushaemulonis str. B09383 (GCA_002926085)","Saccharomycetales","1231522","CanDuoHae_v1.0","GCA_002926085.1","-","-","-","-","-","-"
+"","[Candida] glabrata (GCA_001466525)","Saccharomycetales","5478","ASM146652v1","GCA_001466525.1","-","-","-","-","-","-"
+"","[Candida] glabrata (GCA_001466535)","Saccharomycetales","5478","ASM146653v1","GCA_001466535.1","-","-","-","-","-","-"
+"","[Candida] glabrata (GCA_001466565)","Saccharomycetales","5478","ASM146656v1","GCA_001466565.1","-","-","-","-","-","-"
+"","[Candida] glabrata (GCA_001466575)","Saccharomycetales","5478","ASM146657v1","GCA_001466575.1","-","-","-","-","-","-"
+"","[Candida] glabrata (GCA_001466635)","Saccharomycetales","5478","ASM146663v1","GCA_001466635.1","-","-","-","-","-","-"
+"","[Candida] glabrata (GCA_001466685)","Saccharomycetales","5478","ASM146668v1","GCA_001466685.1","-","-","-","-","-","-"
+"","[Candida] glabrata (GCA_002219185)","Saccharomycetales","5478","ASM221918v1","GCA_002219185.1","-","-","-","-","-","-"
+"","[Candida] glabrata (GCA_002219195)","Saccharomycetales","5478","ASM221919v1","GCA_002219195.1","-","-","-","-","-","-"
+"","[Candida] glabrata str. CBS138 (GCA_000002545)","Saccharomycetales","5478","ASM254v2","GCA_000002545.2","-","-","-","-","","-"
+"","[Candida] haemulonis str. B11899 (GCA_002926055)","Saccharomycetales","45357","CanHae_1.0","GCA_002926055.1","-","-","-","-","-","-"
+"","[Candida] intermedia (GCA_900106115)","Saccharomycetales","45354","CBS_141442_assembly","GCA_900106115.1","-","-","-","-","-","-"
+"","[Candida] intermedia (GCA_900106125)","Saccharomycetales","45354","PYCC_4715_assembly","GCA_900106125.1","-","-","-","-","-","-"
+"","[Candida] pseudohaemulonis str. B12108 (GCA_003013735)","Saccharomycetales","418784","Cand_pseudohaemulonii_B12108","GCA_003013735.1","-","-","-","-","-","-"
+"","[Candida] tenuis ATCC 10573 (GCA_000223465)","Saccharomycetales","590646","Candida_tenuis_v1.0","GCA_000223465.1","-","-","-","-","-","-"
diff --git a/data/intogen-KRAS-distribution-data.tsv b/data/intogen-KRAS-distribution-data.tsv
index c2ee938..64640cc 100644
--- a/data/intogen-KRAS-distribution-data.tsv
+++ b/data/intogen-KRAS-distribution-data.tsv
@@ -1,179 +1,179 @@
-MUTS_PAM	STRAND	MOST_SEVERE	START	MUTS_PAM_SAMPLES	REF	MUTS_CS	ALT	AA_CHANGE	CHR	MUTS_CS_SAMPLES	PROTEIN_POS	GENE	TRANSCRIPT
-93	+	missense_variant	25398284	93	C	93	T	G/D	12	93	12	ENSG00000133703	ENST00000311936
-93	+	missense_variant	25398284	93	C	93	T	G/D	12	93	12	ENSG00000133703	ENST00000557334
-93	+	missense_variant	25398284	93	C	93	T	G/D	12	93	12	ENSG00000133703	ENST00000256078
-93	+	missense_variant	25398284	93	C	93	T	G/D	12	93	12	ENSG00000133703	ENST00000556131
-86	+	missense_variant	25398284	86	C	86	A	G/V	12	86	12	ENSG00000133703	ENST00000311936
-86	+	missense_variant	25398284	86	C	86	A	G/V	12	86	12	ENSG00000133703	ENST00000557334
-86	+	missense_variant	25398284	86	C	86	A	G/V	12	86	12	ENSG00000133703	ENST00000556131
-86	+	missense_variant	25398284	86	C	86	A	G/V	12	86	12	ENSG00000133703	ENST00000256078
-72	+	missense_variant	25398285	72	C	72	A	G/C	12	72	12	ENSG00000133703	ENST00000556131
-72	+	missense_variant	25398285	72	C	72	A	G/C	12	72	12	ENSG00000133703	ENST00000256078
-72	+	missense_variant	25398285	72	C	72	A	G/C	12	72	12	ENSG00000133703	ENST00000557334
-72	+	missense_variant	25398285	72	C	72	A	G/C	12	72	12	ENSG00000133703	ENST00000311936
-63	-	missense_variant	25398284	63	G	63	A	G/D	12	63	12	ENSG00000133703	ENST00000557334
-63	-	missense_variant	25398284	63	G	63	A	G/D	12	63	12	ENSG00000133703	ENST00000556131
-63	-	missense_variant	25398284	63	G	63	A	G/D	12	63	12	ENSG00000133703	ENST00000256078
-63	-	missense_variant	25398284	63	G	63	A	G/D	12	63	12	ENSG00000133703	ENST00000311936
-36	-	missense_variant	25398284	36	G	36	T	G/V	12	36	12	ENSG00000133703	ENST00000311936
-36	-	missense_variant	25398284	36	G	36	T	G/V	12	36	12	ENSG00000133703	ENST00000256078
-36	-	missense_variant	25398284	36	G	36	T	G/V	12	36	12	ENSG00000133703	ENST00000556131
-36	-	missense_variant	25398284	36	G	36	T	G/V	12	36	12	ENSG00000133703	ENST00000557334
-24	+	missense_variant	25398281	24	C	24	T	G/D	12	24	13	ENSG00000133703	ENST00000256078
-24	+	missense_variant	25398281	24	C	24	T	G/D	12	24	13	ENSG00000133703	ENST00000311936
-24	+	missense_variant	25398281	24	C	24	T	G/D	12	24	13	ENSG00000133703	ENST00000557334
-24	+	missense_variant	25398281	24	C	24	T	G/D	12	24	13	ENSG00000133703	ENST00000556131
-23	+	missense_variant	25398284	23	C	23	G	G/A	12	23	12	ENSG00000133703	ENST00000556131
-23	+	missense_variant	25398284	23	C	23	G	G/A	12	23	12	ENSG00000133703	ENST00000311936
-23	+	missense_variant	25398284	23	C	23	G	G/A	12	23	12	ENSG00000133703	ENST00000557334
-23	+	missense_variant	25398284	23	C	23	G	G/A	12	23	12	ENSG00000133703	ENST00000256078
-16	-	missense_variant	25398285	16	G	16	C	G/R	12	16	12	ENSG00000133703	ENST00000556131
-16	-	missense_variant	25398285	16	G	16	C	G/R	12	16	12	ENSG00000133703	ENST00000311936
-16	-	missense_variant	25398285	16	G	16	C	G/R	12	16	12	ENSG00000133703	ENST00000557334
-16	-	missense_variant	25398285	16	G	16	C	G/R	12	16	12	ENSG00000133703	ENST00000256078
-13	+	missense_variant	25398285	13	C	13	G	G/R	12	13	12	ENSG00000133703	ENST00000311936
-13	+	missense_variant	25398285	13	C	13	G	G/R	12	13	12	ENSG00000133703	ENST00000556131
-13	+	missense_variant	25398285	13	C	13	G	G/R	12	13	12	ENSG00000133703	ENST00000557334
-13	+	missense_variant	25398285	13	C	13	G	G/R	12	13	12	ENSG00000133703	ENST00000256078
-11	+	missense_variant	25380275	11	T	11	G	Q/H	12	11	61	ENSG00000133703	ENST00000311936
-11	+	missense_variant	25380275	11	T	11	G	Q/H	12	11	61	ENSG00000133703	ENST00000256078
-10	+	missense_variant	25398282	10	C	10	A	G/C	12	10	13	ENSG00000133703	ENST00000557334
-10	+	missense_variant	25398282	10	C	10	A	G/C	12	10	13	ENSG00000133703	ENST00000311936
-10	+	missense_variant	25398282	10	C	10	A	G/C	12	10	13	ENSG00000133703	ENST00000556131
-10	+	missense_variant	25398282	10	C	10	A	G/C	12	10	13	ENSG00000133703	ENST00000256078
-9	+	missense_variant	25398285	9	C	9	T	G/S	12	9	12	ENSG00000133703	ENST00000557334
-9	+	missense_variant	25398285	9	C	9	T	G/S	12	9	12	ENSG00000133703	ENST00000556131
-9	+	missense_variant	25398285	9	C	9	T	G/S	12	9	12	ENSG00000133703	ENST00000311936
-9	+	missense_variant	25398285	9	C	9	T	G/S	12	9	12	ENSG00000133703	ENST00000256078
-7	+	missense_variant	25380276	7	T	7	A	Q/L	12	7	61	ENSG00000133703	ENST00000256078
-7	+	missense_variant	25378562	7	C	7	T	A/T	12	7	146	ENSG00000133703	ENST00000256078
-7	+	missense_variant	25378562	7	C	7	T	A/T	12	7	146	ENSG00000133703	ENST00000311936
-7	+	missense_variant	25380276	7	T	7	A	Q/L	12	7	61	ENSG00000133703	ENST00000311936
-5	+	missense_variant	25398284	5	CC	5	AA	G/F	12	5	12	ENSG00000133703	ENST00000311936
-5	+	missense_variant	25398284	5	CC	5	AA	G/F	12	5	12	ENSG00000133703	ENST00000256078
-5	+	missense_variant	25380276	5	T	5	C	Q/R	12	5	61	ENSG00000133703	ENST00000311936
-5	+	missense_variant	25398284	5	CC	5	AA	G/F	12	5	12	ENSG00000133703	ENST00000557334
-5	+	missense_variant	25398284	5	CC	5	AA	G/F	12	5	12	ENSG00000133703	ENST00000556131
-5	+	missense_variant	25380276	5	T	5	C	Q/R	12	5	61	ENSG00000133703	ENST00000256078
-4	+	missense_variant	25398284	4	C	4	A	G/V	12	4	12.0	ENSG00000133703	ENST00000256078
-4	+	missense_variant	25398284	4	C	4	A	G/V	12	4	12.0	ENSG00000133703	ENST00000557334
-4	+	missense_variant	25398284	4	C	4	A	G/V	12	4	12.0	ENSG00000133703	ENST00000311936
-4	+	missense_variant	25398284	4	C	4	A	G/V	12	4	12.0	ENSG00000133703	ENST00000556131
-3	+	missense_variant	25380277	3	G	3	T	Q/K	12	3	61	ENSG00000133703	ENST00000256078
-3	+	missense_variant	25380275	3	T	3	A	Q/H	12	3	61	ENSG00000133703	ENST00000256078
-3	+	missense_variant	25378647	3	T	3	G	K/N	12	3	117	ENSG00000133703	ENST00000256078
-3	+	missense_variant	25380275	3	T	3	A	Q/H	12	3	61	ENSG00000133703	ENST00000311936
-3	+	missense_variant	25378647	3	T	3	G	K/N	12	3	117	ENSG00000133703	ENST00000311936
-3	-	missense_variant	25398281	3	G	3	A	G/D	12	3	13	ENSG00000133703	ENST00000256078
-3	-	missense_variant	25380275	3	A	3	C	Q/H	12	3	61	ENSG00000133703	ENST00000256078
-3	+	missense_variant	25398284	3	C	3	T	G/D	12	3	12.0	ENSG00000133703	ENST00000256078
-3	+	missense_variant	25380277	3	G	3	T	Q/K	12	3	61	ENSG00000133703	ENST00000311936
-3	-	missense_variant	25398281	3	G	3	A	G/D	12	3	13	ENSG00000133703	ENST00000311936
-3	-	missense_variant	25380275	3	A	3	C	Q/H	12	3	61	ENSG00000133703	ENST00000311936
-3	+	missense_variant	25398284	3	C	3	T	G/D	12	3	12.0	ENSG00000133703	ENST00000311936
-3	+	missense_variant	25398284	3	C	3	T	G/D	12	3	12.0	ENSG00000133703	ENST00000556131
-3	-	missense_variant	25398281	3	G	3	A	G/D	12	3	13	ENSG00000133703	ENST00000557334
-3	+	missense_variant	25398284	3	C	3	T	G/D	12	3	12.0	ENSG00000133703	ENST00000557334
-3	-	missense_variant	25398281	3	G	3	A	G/D	12	3	13	ENSG00000133703	ENST00000556131
-2	+	missense_variant	25398255	2	G	2	T	Q/K	12	2	22	ENSG00000133703	ENST00000556131
-2	-	missense_variant	25398285	2	G	2	A	G/S	12	2	12	ENSG00000133703	ENST00000311936
-2	-	missense_variant	25380276	2	A	2	G	Q/R	12	2	61	ENSG00000133703	ENST00000311936
-2	+	missense_variant	25398255	2	G	2	T	Q/K	12	2	22	ENSG00000133703	ENST00000557334
-2	-	missense_variant	25398285	2	G	2	A	G/S	12	2	12	ENSG00000133703	ENST00000556131
-2	-	missense_variant	25378562	2	G	2	A	A/T	12	2	146	ENSG00000133703	ENST00000311936
-2	-	missense_variant	25378562	2	G	2	A	A/T	12	2	146	ENSG00000133703	ENST00000256078
-2	+	missense_variant	25398255	2	G	2	T	Q/K	12	2	22	ENSG00000133703	ENST00000256078
-2	-	missense_variant	25380276	2	A	2	G	Q/R	12	2	61	ENSG00000133703	ENST00000256078
-2	+	missense_variant	25398255	2	G	2	T	Q/K	12	2	22	ENSG00000133703	ENST00000311936
-2	+	missense_variant	25378561	2	G	2	A	A/V	12	2	146	ENSG00000133703	ENST00000311936
-2	-	missense_variant	25398285	2	G	2	A	G/S	12	2	12	ENSG00000133703	ENST00000256078
-2	-	missense_variant	25398285	2	G	2	A	G/S	12	2	12	ENSG00000133703	ENST00000557334
-2	+	missense_variant	25378561	2	G	2	A	A/V	12	2	146	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25398285	1	C	1	G	G/R	12	1	12.0	ENSG00000133703	ENST00000557334
-1	+	missense_variant	25398306	1	T	1	C	K/E	12	1	5	ENSG00000133703	ENST00000557334
-1	-	missense_variant	25362743	1	A	1	T	S/C	12	1	72	ENSG00000133703	ENST00000557334
-1	-	missense_variant	25398282	1	G	1	T	G/C	12	1	13	ENSG00000133703	ENST00000557334
-1	-	missense_variant	25398284	1	G	1	C	G/A	12	1	12	ENSG00000133703	ENST00000557334
-1	+	missense_variant	25398285	1	C	1	A	G/C	12	1	12.0	ENSG00000133703	ENST00000557334
-0	+	synonymous_variant	25398283	0	A	1	C	-	12	1	12	ENSG00000133703	ENST00000557334
-1	+	missense_variant	25398281	1	C	1	A	G/V	12	1	13	ENSG00000133703	ENST00000557334
-0	+	synonymous_variant	25398280	0	G	1	A	-	12	1	13	ENSG00000133703	ENST00000557334
-0	+	synonymous_variant	25380278	0	A	1	G	-	12	1	60	ENSG00000133703	ENST00000311936
-1	-	missense_variant	25378647	1	A	1	T	K/N	12	1	117	ENSG00000133703	ENST00000256078
-1	-	missense_variant	25398282	1	G	1	T	G/C	12	1	13	ENSG00000133703	ENST00000256078
-1	-	missense_variant	25398284	1	G	1	C	G/A	12	1	12	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25362743	1	A	1	G	C/R	12	1	185	ENSG00000133703	ENST00000311936
-0	+	inframe_deletion	25362744	0	CTTTGT	1	-	-	12	1	183-184	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25378557	1	C	1	G	K/N	12	1	147	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25378562	1	C	1	G	A/P	12	1	146	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25378562	1	C	1	T	A/T	12	1	146.0	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25378594	1	C	1	G	R/T	12	1	135	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25378645	1	C	1	G	C/S	12	1	118	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25380240	1	C	1	A	R/M	12	1	73.0	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25380254	1	C	1	A	R/S	12	1	68	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25380271	1	C	1	T	E/K	12	1	63.0	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25380274	1	C	1	T	E/K	12	1	62	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25380275	1	T	1	G	Q/H	12	1	61.0	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25398306	1	T	1	C	K/E	12	1	5	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25398285	1	C	1	G	G/R	12	1	12.0	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25398285	1	C	1	A	G/C	12	1	12.0	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25380282	1	G	1	C	A/G	12	1	59	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25380271	1	C	1	T	E/K	12	1	63.0	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25380274	1	C	1	T	E/K	12	1	62	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25380275	1	T	1	G	Q/H	12	1	61.0	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25380277	1	GA	1	TT	GQ/GK	12	1	60-61	ENSG00000133703	ENST00000256078
-0	+	synonymous_variant	25380278	0	A	1	G	-	12	1	60	ENSG00000133703	ENST00000256078
-0	+	synonymous_variant	25380278	0	A	1	T	-	12	1	60	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25380282	1	G	1	T	A/E	12	1	59	ENSG00000133703	ENST00000256078
-0	+	synonymous_variant	25398283	0	A	1	C	-	12	1	12	ENSG00000133703	ENST00000256078
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-1	+	missense_variant	25380240	1	C	1	A	R/M	12	1	73.0	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25380282	1	G	1	C	A/G	12	1	59	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25398260	1	G	1	C	T/R	12	1	20	ENSG00000133703	ENST00000556131
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-1	+	missense_variant	25398281	1	C	1	A	G/V	12	1	13	ENSG00000133703	ENST00000556131
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-1	+	missense_variant	25398285	1	C	1	G	G/R	12	1	12.0	ENSG00000133703	ENST00000556131
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-0	+	inframe_deletion	25362744	0	CTTTGT	1	-	-	12	1	70-71	ENSG00000133703	ENST00000557334
-1	+	missense_variant	25398211	1	T	1	C	I/M	12	1	36	ENSG00000133703	ENST00000557334
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-1	+	missense_variant	25398260	1	G	1	C	T/R	12	1	20	ENSG00000133703	ENST00000557334
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-1	+	missense_variant	25398213	1	T	1	A	I/L	12	1	36	ENSG00000133703	ENST00000311936
-0	+	synonymous_variant	25398250	0	T	1	C	-	12	1	23	ENSG00000133703	ENST00000311936
-1	+	missense_variant	25398260	1	G	1	C	T/R	12	1	20	ENSG00000133703	ENST00000311936
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-1	-	missense_variant	25362743	1	A	1	T	S/C	12	1	185	ENSG00000133703	ENST00000311936
-1	-	missense_variant	25378647	1	A	1	T	K/N	12	1	117	ENSG00000133703	ENST00000311936
-1	-	missense_variant	25398282	1	G	1	T	G/C	12	1	13	ENSG00000133703	ENST00000311936
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-1	+	missense_variant	25378645	1	C	1	G	C/S	12	1	118	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25378594	1	C	1	G	R/T	12	1	135	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25368454	1	C	1	T	R/Q	12	1	164	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25368473	1	T	1	C	T/A	12	1	158	ENSG00000133703	ENST00000256078
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-1	+	missense_variant	25378562	1	C	1	G	A/P	12	1	146	ENSG00000133703	ENST00000256078
-1	+	missense_variant	25378562	1	C	1	T	A/T	12	1	146.0	ENSG00000133703	ENST00000256078
+MUTS_PAM	STRAND	MOST_SEVERE	START	MUTS_PAM_SAMPLES	REF	MUTS_CS	ALT	AA_CHANGE	CHR	MUTS_CS_SAMPLES	PROTEIN_POS	GENE	TRANSCRIPT
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+86	+	missense_variant	25398284	86	C	86	A	G/V	12	86	12	ENSG00000133703	ENST00000557334
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+86	+	missense_variant	25398284	86	C	86	A	G/V	12	86	12	ENSG00000133703	ENST00000256078
+72	+	missense_variant	25398285	72	C	72	A	G/C	12	72	12	ENSG00000133703	ENST00000556131
+72	+	missense_variant	25398285	72	C	72	A	G/C	12	72	12	ENSG00000133703	ENST00000256078
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+72	+	missense_variant	25398285	72	C	72	A	G/C	12	72	12	ENSG00000133703	ENST00000311936
+63	-	missense_variant	25398284	63	G	63	A	G/D	12	63	12	ENSG00000133703	ENST00000557334
+63	-	missense_variant	25398284	63	G	63	A	G/D	12	63	12	ENSG00000133703	ENST00000556131
+63	-	missense_variant	25398284	63	G	63	A	G/D	12	63	12	ENSG00000133703	ENST00000256078
+63	-	missense_variant	25398284	63	G	63	A	G/D	12	63	12	ENSG00000133703	ENST00000311936
+36	-	missense_variant	25398284	36	G	36	T	G/V	12	36	12	ENSG00000133703	ENST00000311936
+36	-	missense_variant	25398284	36	G	36	T	G/V	12	36	12	ENSG00000133703	ENST00000256078
+36	-	missense_variant	25398284	36	G	36	T	G/V	12	36	12	ENSG00000133703	ENST00000556131
+36	-	missense_variant	25398284	36	G	36	T	G/V	12	36	12	ENSG00000133703	ENST00000557334
+24	+	missense_variant	25398281	24	C	24	T	G/D	12	24	13	ENSG00000133703	ENST00000256078
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+23	+	missense_variant	25398284	23	C	23	G	G/A	12	23	12	ENSG00000133703	ENST00000557334
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+16	-	missense_variant	25398285	16	G	16	C	G/R	12	16	12	ENSG00000133703	ENST00000311936
+16	-	missense_variant	25398285	16	G	16	C	G/R	12	16	12	ENSG00000133703	ENST00000557334
+16	-	missense_variant	25398285	16	G	16	C	G/R	12	16	12	ENSG00000133703	ENST00000256078
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+13	+	missense_variant	25398285	13	C	13	G	G/R	12	13	12	ENSG00000133703	ENST00000256078
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+11	+	missense_variant	25380275	11	T	11	G	Q/H	12	11	61	ENSG00000133703	ENST00000256078
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+10	+	missense_variant	25398282	10	C	10	A	G/C	12	10	13	ENSG00000133703	ENST00000311936
+10	+	missense_variant	25398282	10	C	10	A	G/C	12	10	13	ENSG00000133703	ENST00000556131
+10	+	missense_variant	25398282	10	C	10	A	G/C	12	10	13	ENSG00000133703	ENST00000256078
+9	+	missense_variant	25398285	9	C	9	T	G/S	12	9	12	ENSG00000133703	ENST00000557334
+9	+	missense_variant	25398285	9	C	9	T	G/S	12	9	12	ENSG00000133703	ENST00000556131
+9	+	missense_variant	25398285	9	C	9	T	G/S	12	9	12	ENSG00000133703	ENST00000311936
+9	+	missense_variant	25398285	9	C	9	T	G/S	12	9	12	ENSG00000133703	ENST00000256078
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+7	+	missense_variant	25378562	7	C	7	T	A/T	12	7	146	ENSG00000133703	ENST00000256078
+7	+	missense_variant	25378562	7	C	7	T	A/T	12	7	146	ENSG00000133703	ENST00000311936
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+5	+	missense_variant	25398284	5	CC	5	AA	G/F	12	5	12	ENSG00000133703	ENST00000556131
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+3	-	missense_variant	25398281	3	G	3	A	G/D	12	3	13	ENSG00000133703	ENST00000256078
+3	-	missense_variant	25380275	3	A	3	C	Q/H	12	3	61	ENSG00000133703	ENST00000256078
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+3	-	missense_variant	25398281	3	G	3	A	G/D	12	3	13	ENSG00000133703	ENST00000311936
+3	-	missense_variant	25380275	3	A	3	C	Q/H	12	3	61	ENSG00000133703	ENST00000311936
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+3	+	missense_variant	25398284	3	C	3	T	G/D	12	3	12.0	ENSG00000133703	ENST00000556131
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+3	-	missense_variant	25398281	3	G	3	A	G/D	12	3	13	ENSG00000133703	ENST00000556131
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+2	-	missense_variant	25398285	2	G	2	A	G/S	12	2	12	ENSG00000133703	ENST00000311936
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+2	+	missense_variant	25398255	2	G	2	T	Q/K	12	2	22	ENSG00000133703	ENST00000557334
+2	-	missense_variant	25398285	2	G	2	A	G/S	12	2	12	ENSG00000133703	ENST00000556131
+2	-	missense_variant	25378562	2	G	2	A	A/T	12	2	146	ENSG00000133703	ENST00000311936
+2	-	missense_variant	25378562	2	G	2	A	A/T	12	2	146	ENSG00000133703	ENST00000256078
+2	+	missense_variant	25398255	2	G	2	T	Q/K	12	2	22	ENSG00000133703	ENST00000256078
+2	-	missense_variant	25380276	2	A	2	G	Q/R	12	2	61	ENSG00000133703	ENST00000256078
+2	+	missense_variant	25398255	2	G	2	T	Q/K	12	2	22	ENSG00000133703	ENST00000311936
+2	+	missense_variant	25378561	2	G	2	A	A/V	12	2	146	ENSG00000133703	ENST00000311936
+2	-	missense_variant	25398285	2	G	2	A	G/S	12	2	12	ENSG00000133703	ENST00000256078
+2	-	missense_variant	25398285	2	G	2	A	G/S	12	2	12	ENSG00000133703	ENST00000557334
+2	+	missense_variant	25378561	2	G	2	A	A/V	12	2	146	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25398285	1	C	1	G	G/R	12	1	12.0	ENSG00000133703	ENST00000557334
+1	+	missense_variant	25398306	1	T	1	C	K/E	12	1	5	ENSG00000133703	ENST00000557334
+1	-	missense_variant	25362743	1	A	1	T	S/C	12	1	72	ENSG00000133703	ENST00000557334
+1	-	missense_variant	25398282	1	G	1	T	G/C	12	1	13	ENSG00000133703	ENST00000557334
+1	-	missense_variant	25398284	1	G	1	C	G/A	12	1	12	ENSG00000133703	ENST00000557334
+1	+	missense_variant	25398285	1	C	1	A	G/C	12	1	12.0	ENSG00000133703	ENST00000557334
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+1	+	missense_variant	25380277	1	GA	1	TT	GQ/GK	12	1	60-61	ENSG00000133703	ENST00000256078
+0	+	synonymous_variant	25380278	0	A	1	G	-	12	1	60	ENSG00000133703	ENST00000256078
+0	+	synonymous_variant	25380278	0	A	1	T	-	12	1	60	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25380282	1	G	1	T	A/E	12	1	59	ENSG00000133703	ENST00000256078
+0	+	synonymous_variant	25398283	0	A	1	C	-	12	1	12	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25398211	1	T	1	C	I/M	12	1	36	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25398213	1	T	1	A	I/L	12	1	36	ENSG00000133703	ENST00000256078
+0	+	synonymous_variant	25398250	0	T	1	C	-	12	1	23	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25398260	1	G	1	C	T/R	12	1	20	ENSG00000133703	ENST00000256078
+0	+	synonymous_variant	25398280	0	G	1	A	-	12	1	13	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25398281	1	C	1	A	G/V	12	1	13	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25380277	1	GA	1	TT	GQ/GK	12	1	60-61	ENSG00000133703	ENST00000311936
+0	+	synonymous_variant	25380278	0	A	1	T	-	12	1	60	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25380240	1	C	1	A	R/M	12	1	73.0	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25380282	1	G	1	C	A/G	12	1	59	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25398260	1	G	1	C	T/R	12	1	20	ENSG00000133703	ENST00000556131
+0	+	synonymous_variant	25398280	0	G	1	A	-	12	1	13	ENSG00000133703	ENST00000556131
+1	+	missense_variant	25398281	1	C	1	A	G/V	12	1	13	ENSG00000133703	ENST00000556131
+0	+	synonymous_variant	25398283	0	A	1	C	-	12	1	12	ENSG00000133703	ENST00000556131
+1	+	missense_variant	25398285	1	C	1	A	G/C	12	1	12.0	ENSG00000133703	ENST00000556131
+1	+	missense_variant	25398285	1	C	1	G	G/R	12	1	12.0	ENSG00000133703	ENST00000556131
+1	+	missense_variant	25398306	1	T	1	C	K/E	12	1	5	ENSG00000133703	ENST00000556131
+1	-	missense_variant	25398282	1	G	1	T	G/C	12	1	13	ENSG00000133703	ENST00000556131
+1	-	missense_variant	25398284	1	G	1	C	G/A	12	1	12	ENSG00000133703	ENST00000556131
+1	+	missense_variant	25362743	1	A	1	G	C/R	12	1	72	ENSG00000133703	ENST00000557334
+0	+	inframe_deletion	25362744	0	CTTTGT	1	-	-	12	1	70-71	ENSG00000133703	ENST00000557334
+1	+	missense_variant	25398211	1	T	1	C	I/M	12	1	36	ENSG00000133703	ENST00000557334
+1	+	missense_variant	25398213	1	T	1	A	I/L	12	1	36	ENSG00000133703	ENST00000557334
+0	+	synonymous_variant	25398250	0	T	1	C	-	12	1	23	ENSG00000133703	ENST00000557334
+1	+	missense_variant	25398260	1	G	1	C	T/R	12	1	20	ENSG00000133703	ENST00000557334
+0	+	synonymous_variant	25398250	0	T	1	C	-	12	1	23	ENSG00000133703	ENST00000556131
+1	+	missense_variant	25398213	1	T	1	A	I/L	12	1	36	ENSG00000133703	ENST00000556131
+1	+	missense_variant	25398211	1	T	1	C	I/M	12	1	36	ENSG00000133703	ENST00000556131
+1	+	missense_variant	25398281	1	C	1	A	G/V	12	1	13	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25380282	1	G	1	T	A/E	12	1	59	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25398211	1	T	1	C	I/M	12	1	36	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25398213	1	T	1	A	I/L	12	1	36	ENSG00000133703	ENST00000311936
+0	+	synonymous_variant	25398250	0	T	1	C	-	12	1	23	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25398260	1	G	1	C	T/R	12	1	20	ENSG00000133703	ENST00000311936
+0	+	synonymous_variant	25398280	0	G	1	A	-	12	1	13	ENSG00000133703	ENST00000311936
+0	+	synonymous_variant	25398283	0	A	1	C	-	12	1	12	ENSG00000133703	ENST00000311936
+1	-	missense_variant	25398284	1	G	1	C	G/A	12	1	12	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25398285	1	C	1	A	G/C	12	1	12.0	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25398285	1	C	1	G	G/R	12	1	12.0	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25398306	1	T	1	C	K/E	12	1	5	ENSG00000133703	ENST00000311936
+1	-	missense_variant	25362743	1	A	1	T	S/C	12	1	185	ENSG00000133703	ENST00000311936
+1	-	missense_variant	25378647	1	A	1	T	K/N	12	1	117	ENSG00000133703	ENST00000311936
+1	-	missense_variant	25398282	1	G	1	T	G/C	12	1	13	ENSG00000133703	ENST00000311936
+1	+	missense_variant	25380254	1	C	1	A	R/S	12	1	68	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25378645	1	C	1	G	C/S	12	1	118	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25378594	1	C	1	G	R/T	12	1	135	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25368454	1	C	1	T	R/Q	12	1	164	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25368473	1	T	1	C	T/A	12	1	158	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25378557	1	C	1	G	K/N	12	1	147	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25378562	1	C	1	G	A/P	12	1	146	ENSG00000133703	ENST00000256078
+1	+	missense_variant	25378562	1	C	1	T	A/T	12	1	146.0	ENSG00000133703	ENST00000256078
diff --git a/data/intogen-OR1A1-distribution-data.tsv b/data/intogen-OR1A1-distribution-data.tsv
index 714de60..3693ce2 100644
--- a/data/intogen-OR1A1-distribution-data.tsv
+++ b/data/intogen-OR1A1-distribution-data.tsv
@@ -1,49 +1,49 @@
-MUTS_PAM	STRAND	MOST_SEVERE	START	MUTS_PAM_SAMPLES	REF	MUTS_CS	ALT	AA_CHANGE	CHR	MUTS_CS_SAMPLES	PROTEIN_POS	GENE	TRANSCRIPT
-2	+	missense_variant	3119330	2	G	2	A	R/Q	17	2	139	ENSG00000172146	ENST00000304094
-2	+	missense_variant	3119138	2	C	2	T	S/L	17	2	75	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119772	0	C	2	T	-	17	2	286	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119791	1	C	1	T	R/W	17	1	293	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119799	1	G	1	A	M/I	17	1	295	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119805	0	T	1	C	-	17	1	297	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119823	0	C	1	T	-	17	1	303	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119786	1	G	1	A	R/K	17	1	291	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119744	1	C	1	G	T/R	17	1	277	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119691	0	C	1	T	-	17	1	259	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119589	0	C	1	T	-	17	1	225	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119408	1	G	1	A	S/N	17	1	165	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119431	1	G	1	A	E/K	17	1	173	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119462	1	C	1	T	P/L	17	1	183	ENSG00000172146	ENST00000304094
-1	+	stop_gained	3119514	1	C	1	G	-	17	1	200	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119530	1	T	1	G	F/V	17	1	206	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119581	1	A	1	G	T/A	17	1	223	ENSG00000172146	ENST00000304094
-1	+	stop_gained	3119590	1	C	1	T	-	17	1	226	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119679	1	G	1	T	M/I	17	1	255	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119592	0	G	1	A	-	17	1	226	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119596	1	C	1	T	P/S	17	1	228	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119610	0	C	1	T	-	17	1	232	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119627	1	C	1	T	S/F	17	1	238	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119640	0	C	1	A	-	17	1	242	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119672	1	C	1	T	T/I	17	1	253	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119395	1	C	1	A	L/M	17	1	161	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119403	0	A	1	G	-	17	1	163	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119386	1	C	1	T	P/S	17	1	158	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119289	0	C	1	A	-	17	1	125	ENSG00000172146	ENST00000304094
-1	+	stop_gained	3118972	1	C	1	T	-	17	1	20	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3118978	1	G	1	A	E/K	17	1	22	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3118986	1	A	1	C	E/D	17	1	24	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119002	1	C	1	T	L/F	17	1	30	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119029	0	T	1	C	-	17	1	39	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119074	1	C	1	T	R/C	17	1	54	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119075	1	G	1	A	R/H	17	1	54	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119076	0	C	1	T	-	17	1	54	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119115	0	C	1	T	-	17	1	67	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119139	0	G	1	A	-	17	1	75	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3119187	0	C	1	T	-	17	1	91	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119210	1	C	1	T	T/M	17	1	99	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119217	1	G	1	A	M/I	17	1	101	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119264	1	C	1	T	A/V	17	1	117	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3119269	1	G	1	A	A/T	17	1	119	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3118961	1	G	1	A	G/E	17	1	16	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3118956	0	C	1	A	-	17	1	14	ENSG00000172146	ENST00000304094
-0	+	synonymous_variant	3118944	0	G	1	A	-	17	1	10	ENSG00000172146	ENST00000304094
-1	+	missense_variant	3118928	1	A	1	C	N/T	17	1	5	ENSG00000172146	ENST00000304094
+MUTS_PAM	STRAND	MOST_SEVERE	START	MUTS_PAM_SAMPLES	REF	MUTS_CS	ALT	AA_CHANGE	CHR	MUTS_CS_SAMPLES	PROTEIN_POS	GENE	TRANSCRIPT
+2	+	missense_variant	3119330	2	G	2	A	R/Q	17	2	139	ENSG00000172146	ENST00000304094
+2	+	missense_variant	3119138	2	C	2	T	S/L	17	2	75	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119772	0	C	2	T	-	17	2	286	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119791	1	C	1	T	R/W	17	1	293	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119799	1	G	1	A	M/I	17	1	295	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119805	0	T	1	C	-	17	1	297	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119823	0	C	1	T	-	17	1	303	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119786	1	G	1	A	R/K	17	1	291	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119744	1	C	1	G	T/R	17	1	277	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119691	0	C	1	T	-	17	1	259	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119589	0	C	1	T	-	17	1	225	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119408	1	G	1	A	S/N	17	1	165	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119431	1	G	1	A	E/K	17	1	173	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119462	1	C	1	T	P/L	17	1	183	ENSG00000172146	ENST00000304094
+1	+	stop_gained	3119514	1	C	1	G	-	17	1	200	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119530	1	T	1	G	F/V	17	1	206	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119581	1	A	1	G	T/A	17	1	223	ENSG00000172146	ENST00000304094
+1	+	stop_gained	3119590	1	C	1	T	-	17	1	226	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119679	1	G	1	T	M/I	17	1	255	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119592	0	G	1	A	-	17	1	226	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119596	1	C	1	T	P/S	17	1	228	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119610	0	C	1	T	-	17	1	232	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119627	1	C	1	T	S/F	17	1	238	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119640	0	C	1	A	-	17	1	242	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119672	1	C	1	T	T/I	17	1	253	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119395	1	C	1	A	L/M	17	1	161	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119403	0	A	1	G	-	17	1	163	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119386	1	C	1	T	P/S	17	1	158	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119289	0	C	1	A	-	17	1	125	ENSG00000172146	ENST00000304094
+1	+	stop_gained	3118972	1	C	1	T	-	17	1	20	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3118978	1	G	1	A	E/K	17	1	22	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3118986	1	A	1	C	E/D	17	1	24	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119002	1	C	1	T	L/F	17	1	30	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119029	0	T	1	C	-	17	1	39	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119074	1	C	1	T	R/C	17	1	54	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119075	1	G	1	A	R/H	17	1	54	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119076	0	C	1	T	-	17	1	54	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119115	0	C	1	T	-	17	1	67	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119139	0	G	1	A	-	17	1	75	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3119187	0	C	1	T	-	17	1	91	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119210	1	C	1	T	T/M	17	1	99	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119217	1	G	1	A	M/I	17	1	101	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119264	1	C	1	T	A/V	17	1	117	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3119269	1	G	1	A	A/T	17	1	119	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3118961	1	G	1	A	G/E	17	1	16	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3118956	0	C	1	A	-	17	1	14	ENSG00000172146	ENST00000304094
+0	+	synonymous_variant	3118944	0	G	1	A	-	17	1	10	ENSG00000172146	ENST00000304094
+1	+	missense_variant	3118928	1	A	1	C	N/T	17	1	5	ENSG00000172146	ENST00000304094
diff --git a/data/intogen-PTPN11-distribution-data.tsv b/data/intogen-PTPN11-distribution-data.tsv
index 879116c..5222b89 100644
--- a/data/intogen-PTPN11-distribution-data.tsv
+++ b/data/intogen-PTPN11-distribution-data.tsv
@@ -1,113 +1,113 @@
-MUTS_PAM	STRAND	MOST_SEVERE	START	MUTS_PAM_SAMPLES	REF	MUTS_CS	ALT	AA_CHANGE	CHR	MUTS_CS_SAMPLES	PROTEIN_POS	GENE	TRANSCRIPT
-5	+	missense_variant	112926888	5	G	5	T	G/V	12	5	503	ENSG00000179295	ENST00000351677
-4	+	missense_variant	112926270	4	C	4	T	T/M	12	4	468	ENSG00000179295	ENST00000351677
-3	+	missense_variant	112888198	3	G	3	A	A/T	12	3	72	ENSG00000179295	ENST00000392597
-3	+	missense_variant	112888198	3	G	3	A	A/T	12	3	72	ENSG00000179295	ENST00000351677
-2	+	missense_variant	112926910	2	G	2	C	Q/H	12	2	510	ENSG00000179295	ENST00000351677
-2	+	missense_variant	112926909	2	A	2	T	Q/L	12	2	510	ENSG00000179295	ENST00000351677
-2	+	missense_variant	112926900	2	C	2	A	T/K	12	2	507	ENSG00000179295	ENST00000351677
-2	+	missense_variant	112891006	2	C	2	T	H/Y	12	2	114	ENSG00000179295	ENST00000392597
-2	+	missense_variant	112888210	2	G	2	A	E/K	12	2	76	ENSG00000179295	ENST00000392597
-2	+	missense_variant	112888199	2	C	2	T	A/V	12	2	72	ENSG00000179295	ENST00000392597
-2	+	missense_variant	112888199	2	C	2	A	A/D	12	2	72	ENSG00000179295	ENST00000392597
-2	+	missense_variant	112891006	2	C	2	T	H/Y	12	2	114	ENSG00000179295	ENST00000351677
-2	+	missense_variant	112888210	2	G	2	A	E/K	12	2	76	ENSG00000179295	ENST00000351677
-2	+	missense_variant	112888199	2	C	2	T	A/V	12	2	72	ENSG00000179295	ENST00000351677
-2	+	missense_variant	112888199	2	C	2	A	A/D	12	2	72	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112893822	0	T	1	C	-	12	1	82	ENSG00000179295	ENST00000530818
-1	+	missense_variant	112910837	1	C	1	G	I/M	12	1	282	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112910844	1	T	1	G	F/V	12	1	285.0	ENSG00000179295	ENST00000392597
-0	+	synonymous_variant	112915507	0	A	1	G	-	12	1	302	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112915523	1	A	1	G	N/D	12	1	308	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112915743	1	A	1	G	N/S	12	1	339	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112919908	1	T	1	G	Y/D	12	1	375	ENSG00000179295	ENST00000392597
-1	+	frameshift_variant	112920002	1	-	1	T	-	12	1	406	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112924286	1	C	1	T	T/M	12	1	411	ENSG00000179295	ENST00000392597
-1	+	stop_gained	112924308	1	C	1	A	-	12	1	418	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112924331	1	A	1	T	H/L	12	1	426	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112924336	1	G	1	A	V/M	12	1	428	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112892383	1	G	1	C	V/L	12	1	26	ENSG00000179295	ENST00000530818
-0	+	synonymous_variant	112892409	0	T	1	C	-	12	1	34	ENSG00000179295	ENST00000530818
-1	+	stop_gained	112893784	1	G	1	T	-	12	1	70	ENSG00000179295	ENST00000530818
-0	+	synonymous_variant	112893798	0	A	1	G	-	12	1	74	ENSG00000179295	ENST00000530818
-1	+	missense_variant	112910775	1	C	1	T	L/F	12	1	262	ENSG00000179295	ENST00000392597
-0	+	synonymous_variant	112893822	0	T	1	C	-	12	1	237	ENSG00000179295	ENST00000392597
-0	+	synonymous_variant	112893802	0	C	1	A	-	12	1	231	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888211	1	A	1	C	E/A	12	1	76	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888165	1	G	1	T	D/Y	12	1	61	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888189	1	G	1	A	E/K	12	1	69.0	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888189	1	G	1	A	E/K	12	1	69	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888195	1	T	1	C	F/L	12	1	71	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888197	1	T	1	A	F/L	12	1	71	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888211	1	A	1	C	E/A	12	1	76.0	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112891015	1	C	1	T	L/F	12	1	117	ENSG00000179295	ENST00000392597
-0	+	synonymous_variant	112893798	0	A	1	G	-	12	1	229	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112891073	1	T	1	A	L/H	12	1	136	ENSG00000179295	ENST00000392597
-0	+	synonymous_variant	112891116	0	T	1	C	-	12	1	150	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112891129	1	G	1	T	D/Y	12	1	155	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112892383	1	G	1	C	V/L	12	1	181	ENSG00000179295	ENST00000392597
-0	+	synonymous_variant	112892409	0	T	1	C	-	12	1	189	ENSG00000179295	ENST00000392597
-1	+	stop_gained	112893784	1	G	1	T	-	12	1	225	ENSG00000179295	ENST00000392597
-0	+	synonymous_variant	112893802	0	C	1	A	-	12	1	76	ENSG00000179295	ENST00000530818
-1	+	missense_variant	112888163	1	G	1	T	G/V	12	1	60	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888165	1	G	1	A	D/N	12	1	61	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888162	1	G	1	C	G/R	12	1	60	ENSG00000179295	ENST00000392597
-0	+	synonymous_variant	112893822	0	T	1	C	-	12	1	237	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888165	1	G	1	T	D/Y	12	1	61	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888189	1	G	1	A	E/K	12	1	69.0	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888189	1	G	1	A	E/K	12	1	69	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888195	1	T	1	C	F/L	12	1	71	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888197	1	T	1	A	F/L	12	1	71	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888211	1	A	1	C	E/A	12	1	76.0	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888211	1	A	1	C	E/A	12	1	76	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112891015	1	C	1	T	L/F	12	1	117	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112891073	1	T	1	A	L/H	12	1	136	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112891116	0	T	1	C	-	12	1	150	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112891129	1	G	1	T	D/Y	12	1	155	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112892383	1	G	1	C	V/L	12	1	181	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112892409	0	T	1	C	-	12	1	189	ENSG00000179295	ENST00000351677
-1	+	stop_gained	112893784	1	G	1	T	-	12	1	225	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112893798	0	A	1	G	-	12	1	229	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888165	1	G	1	A	D/N	12	1	61	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888163	1	G	1	T	G/V	12	1	60	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888162	1	G	1	C	G/R	12	1	60	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112888161	0	T	1	C	-	12	1	59	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112884103	1	G	1	A	G/D	12	1	13	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112888139	1	C	1	G	T/S	12	1	52	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112893802	0	C	1	A	-	12	1	231	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112910775	1	C	1	T	L/F	12	1	262	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112888161	0	T	1	C	-	12	1	59	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112910837	1	C	1	G	I/M	12	1	282	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112926887	1	G	1	C	G/R	12	1	503	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112926908	1	C	1	G	Q/E	12	1	510.0	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112939963	1	G	1	C	G/R	12	1	539	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112939970	1	A	1	T	E/V	12	1	541	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112939981	1	A	1	C	I/L	12	1	545	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112939993	0	C	1	T	-	12	1	549	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112939999	1	G	1	A	D/N	12	1	551	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112940012	1	G	1	A	G/E	12	1	555	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112940025	0	T	1	C	-	12	1	559	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112940027	1	T	1	C	L/P	12	1	560	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112940031	0	G	1	A	-	12	1	561	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112940036	1	G	1	T	C/F	12	1	563	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112940052	0	C	1	T	-	12	1	568	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112884103	1	G	1	A	G/D	12	1	13	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112888139	1	C	1	G	T/S	12	1	52	ENSG00000179295	ENST00000392597
-1	+	missense_variant	112926885	1	C	1	T	S/L	12	1	502	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112926884	1	T	1	C	S/P	12	1	502	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112926862	0	C	1	T	-	12	1	494	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112924286	1	C	1	T	T/M	12	1	411	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112910844	1	T	1	G	F/V	12	1	285.0	ENSG00000179295	ENST00000351677
-0	+	synonymous_variant	112915507	0	A	1	G	-	12	1	302	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112915523	1	A	1	G	N/D	12	1	308	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112915743	1	A	1	G	N/S	12	1	339	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112919908	1	T	1	G	Y/D	12	1	375	ENSG00000179295	ENST00000351677
-1	+	frameshift_variant	112920002	1	-	1	T	-	12	1	406	ENSG00000179295	ENST00000351677
-1	+	stop_gained	112924308	1	C	1	A	-	12	1	418	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112926852	1	C	1	T	P/L	12	1	491	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112924331	1	A	1	T	H/L	12	1	426	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112924336	1	G	1	A	V/M	12	1	428	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112926248	1	G	1	A	A/T	12	1	461	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112926249	1	C	1	G	A/G	12	1	461	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112926291	1	TT	1	CA	L/P	12	1	475	ENSG00000179295	ENST00000351677
-1	+	missense_variant	112926839	1	G	1	T	D/Y	12	1	487	ENSG00000179295	ENST00000351677
+MUTS_PAM	STRAND	MOST_SEVERE	START	MUTS_PAM_SAMPLES	REF	MUTS_CS	ALT	AA_CHANGE	CHR	MUTS_CS_SAMPLES	PROTEIN_POS	GENE	TRANSCRIPT
+5	+	missense_variant	112926888	5	G	5	T	G/V	12	5	503	ENSG00000179295	ENST00000351677
+4	+	missense_variant	112926270	4	C	4	T	T/M	12	4	468	ENSG00000179295	ENST00000351677
+3	+	missense_variant	112888198	3	G	3	A	A/T	12	3	72	ENSG00000179295	ENST00000392597
+3	+	missense_variant	112888198	3	G	3	A	A/T	12	3	72	ENSG00000179295	ENST00000351677
+2	+	missense_variant	112926910	2	G	2	C	Q/H	12	2	510	ENSG00000179295	ENST00000351677
+2	+	missense_variant	112926909	2	A	2	T	Q/L	12	2	510	ENSG00000179295	ENST00000351677
+2	+	missense_variant	112926900	2	C	2	A	T/K	12	2	507	ENSG00000179295	ENST00000351677
+2	+	missense_variant	112891006	2	C	2	T	H/Y	12	2	114	ENSG00000179295	ENST00000392597
+2	+	missense_variant	112888210	2	G	2	A	E/K	12	2	76	ENSG00000179295	ENST00000392597
+2	+	missense_variant	112888199	2	C	2	T	A/V	12	2	72	ENSG00000179295	ENST00000392597
+2	+	missense_variant	112888199	2	C	2	A	A/D	12	2	72	ENSG00000179295	ENST00000392597
+2	+	missense_variant	112891006	2	C	2	T	H/Y	12	2	114	ENSG00000179295	ENST00000351677
+2	+	missense_variant	112888210	2	G	2	A	E/K	12	2	76	ENSG00000179295	ENST00000351677
+2	+	missense_variant	112888199	2	C	2	T	A/V	12	2	72	ENSG00000179295	ENST00000351677
+2	+	missense_variant	112888199	2	C	2	A	A/D	12	2	72	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112893822	0	T	1	C	-	12	1	82	ENSG00000179295	ENST00000530818
+1	+	missense_variant	112910837	1	C	1	G	I/M	12	1	282	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112910844	1	T	1	G	F/V	12	1	285.0	ENSG00000179295	ENST00000392597
+0	+	synonymous_variant	112915507	0	A	1	G	-	12	1	302	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112915523	1	A	1	G	N/D	12	1	308	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112915743	1	A	1	G	N/S	12	1	339	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112919908	1	T	1	G	Y/D	12	1	375	ENSG00000179295	ENST00000392597
+1	+	frameshift_variant	112920002	1	-	1	T	-	12	1	406	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112924286	1	C	1	T	T/M	12	1	411	ENSG00000179295	ENST00000392597
+1	+	stop_gained	112924308	1	C	1	A	-	12	1	418	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112924331	1	A	1	T	H/L	12	1	426	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112924336	1	G	1	A	V/M	12	1	428	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112892383	1	G	1	C	V/L	12	1	26	ENSG00000179295	ENST00000530818
+0	+	synonymous_variant	112892409	0	T	1	C	-	12	1	34	ENSG00000179295	ENST00000530818
+1	+	stop_gained	112893784	1	G	1	T	-	12	1	70	ENSG00000179295	ENST00000530818
+0	+	synonymous_variant	112893798	0	A	1	G	-	12	1	74	ENSG00000179295	ENST00000530818
+1	+	missense_variant	112910775	1	C	1	T	L/F	12	1	262	ENSG00000179295	ENST00000392597
+0	+	synonymous_variant	112893822	0	T	1	C	-	12	1	237	ENSG00000179295	ENST00000392597
+0	+	synonymous_variant	112893802	0	C	1	A	-	12	1	231	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888211	1	A	1	C	E/A	12	1	76	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888165	1	G	1	T	D/Y	12	1	61	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888189	1	G	1	A	E/K	12	1	69.0	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888189	1	G	1	A	E/K	12	1	69	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888195	1	T	1	C	F/L	12	1	71	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888197	1	T	1	A	F/L	12	1	71	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888211	1	A	1	C	E/A	12	1	76.0	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112891015	1	C	1	T	L/F	12	1	117	ENSG00000179295	ENST00000392597
+0	+	synonymous_variant	112893798	0	A	1	G	-	12	1	229	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112891073	1	T	1	A	L/H	12	1	136	ENSG00000179295	ENST00000392597
+0	+	synonymous_variant	112891116	0	T	1	C	-	12	1	150	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112891129	1	G	1	T	D/Y	12	1	155	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112892383	1	G	1	C	V/L	12	1	181	ENSG00000179295	ENST00000392597
+0	+	synonymous_variant	112892409	0	T	1	C	-	12	1	189	ENSG00000179295	ENST00000392597
+1	+	stop_gained	112893784	1	G	1	T	-	12	1	225	ENSG00000179295	ENST00000392597
+0	+	synonymous_variant	112893802	0	C	1	A	-	12	1	76	ENSG00000179295	ENST00000530818
+1	+	missense_variant	112888163	1	G	1	T	G/V	12	1	60	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888165	1	G	1	A	D/N	12	1	61	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888162	1	G	1	C	G/R	12	1	60	ENSG00000179295	ENST00000392597
+0	+	synonymous_variant	112893822	0	T	1	C	-	12	1	237	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888165	1	G	1	T	D/Y	12	1	61	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888189	1	G	1	A	E/K	12	1	69.0	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888189	1	G	1	A	E/K	12	1	69	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888195	1	T	1	C	F/L	12	1	71	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888197	1	T	1	A	F/L	12	1	71	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888211	1	A	1	C	E/A	12	1	76.0	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888211	1	A	1	C	E/A	12	1	76	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112891015	1	C	1	T	L/F	12	1	117	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112891073	1	T	1	A	L/H	12	1	136	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112891116	0	T	1	C	-	12	1	150	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112891129	1	G	1	T	D/Y	12	1	155	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112892383	1	G	1	C	V/L	12	1	181	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112892409	0	T	1	C	-	12	1	189	ENSG00000179295	ENST00000351677
+1	+	stop_gained	112893784	1	G	1	T	-	12	1	225	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112893798	0	A	1	G	-	12	1	229	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888165	1	G	1	A	D/N	12	1	61	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888163	1	G	1	T	G/V	12	1	60	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888162	1	G	1	C	G/R	12	1	60	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112888161	0	T	1	C	-	12	1	59	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112884103	1	G	1	A	G/D	12	1	13	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112888139	1	C	1	G	T/S	12	1	52	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112893802	0	C	1	A	-	12	1	231	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112910775	1	C	1	T	L/F	12	1	262	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112888161	0	T	1	C	-	12	1	59	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112910837	1	C	1	G	I/M	12	1	282	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112926887	1	G	1	C	G/R	12	1	503	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112926908	1	C	1	G	Q/E	12	1	510.0	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112939963	1	G	1	C	G/R	12	1	539	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112939970	1	A	1	T	E/V	12	1	541	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112939981	1	A	1	C	I/L	12	1	545	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112939993	0	C	1	T	-	12	1	549	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112939999	1	G	1	A	D/N	12	1	551	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112940012	1	G	1	A	G/E	12	1	555	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112940025	0	T	1	C	-	12	1	559	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112940027	1	T	1	C	L/P	12	1	560	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112940031	0	G	1	A	-	12	1	561	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112940036	1	G	1	T	C/F	12	1	563	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112940052	0	C	1	T	-	12	1	568	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112884103	1	G	1	A	G/D	12	1	13	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112888139	1	C	1	G	T/S	12	1	52	ENSG00000179295	ENST00000392597
+1	+	missense_variant	112926885	1	C	1	T	S/L	12	1	502	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112926884	1	T	1	C	S/P	12	1	502	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112926862	0	C	1	T	-	12	1	494	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112924286	1	C	1	T	T/M	12	1	411	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112910844	1	T	1	G	F/V	12	1	285.0	ENSG00000179295	ENST00000351677
+0	+	synonymous_variant	112915507	0	A	1	G	-	12	1	302	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112915523	1	A	1	G	N/D	12	1	308	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112915743	1	A	1	G	N/S	12	1	339	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112919908	1	T	1	G	Y/D	12	1	375	ENSG00000179295	ENST00000351677
+1	+	frameshift_variant	112920002	1	-	1	T	-	12	1	406	ENSG00000179295	ENST00000351677
+1	+	stop_gained	112924308	1	C	1	A	-	12	1	418	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112926852	1	C	1	T	P/L	12	1	491	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112924331	1	A	1	T	H/L	12	1	426	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112924336	1	G	1	A	V/M	12	1	428	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112926248	1	G	1	A	A/T	12	1	461	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112926249	1	C	1	G	A/G	12	1	461	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112926291	1	TT	1	CA	L/P	12	1	475	ENSG00000179295	ENST00000351677
+1	+	missense_variant	112926839	1	G	1	T	D/Y	12	1	487	ENSG00000179295	ENST00000351677
diff --git a/data/refAPSES.mfa b/data/refAPSES.mfa
index 9e62ba3..435e365 100644
--- a/data/refAPSES.mfa
+++ b/data/refAPSES.mfa
@@ -1,39 +1,39 @@
->MBP1_ASPNI AN3154 XP_660758 Q5B8H6
--VYSATYSSVPVYEFKIGTDSVMRRRSDDWINATHILKVAGFDKPARTRI
-LEREVQKGVHEKVQGGYGKYQGTWIPLQEGRQLAERNNILDKLLPIFDY
-
->MBP1_BIPOR COCMIDRAFT_338 XP_007682304 W6ZM86
-KIYSATYSNVPVYECNVNGHHVMRRRADDWINATHILKVADYDKPARTRI
-LEREVQKGVHEKVQGGYGKYQGTWIPLEEGRGLAERNGVLDKMRAIFDY
-
->MBP1_COPCI  - XP_001837394 A8NYC6
-QIFKATYSGIPVYEMMCKGVAVMRRRSDSWLNATQILKVAGFDKPQRTRV
-LEREVQKGEHEKVQGGYGKYQGTWIPLERGMQLAKQYNCEHLLRPIIEF
-
->MBP1_CRYNE  - XP_569090 Q5KMQ9
-DYVPTSVSPPPAPKHSVA--PPSKARRDKEKETGRTKATPSRTGPTSAAA
-LQAQAQLN-RAKMHDSTPDADASFRSFEERVSLTEDDSSSDTPSPVASV
-
->MBP1_NEUCR Swi4 XP_955821 Q7RW59
--IYSATYSGIPVWEYQFGVDHVMRRRHDDWVNATHILKAAGFDKPARTRI
-LEREVQKDTHEKIQGGYGRYQGTWIPLEQAEALARRNNIYERLKPIFEF
-
->MBP1_PUCGR PGTG_08863 XP_003327086 E3KED4
--IYKATYSGVPVLEMPCEGIAVMRRRSDSWLNATQILKVAGFDKPQRTRV
-LEREIQKGTHEKIQGGYGKYQGTWVPLDRGIDLAKQYGVDHLLSALFNF
-
->MBP1_SACCE Mbp1 NP_010227 P39678
-QIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRI
-LEKEVLKETHEKVQGGFGKYQGTWVPLNIAKQLAEKFSVYDQLKPLFDF
-
->MBP1_SCHPO Res2 NP_593032 P41412
--VHVAVYSGVEVYECFIKGVSVMRRRRDSWLNATQILKVADFDKPQRTRV
-LERQVQIGAHEKVQGGYGKYQGTWVPFQRGVDLATKYKVDGIMSPILS-
-
->MBP1_USTMA UMAG_11222 XP_011392621 A0A0D1DP35
--IFKATYSGVPVYECIINNVAVMRRRSDDWLNATQILKVVGLDKPQRTRV
-LEREIQKGIHEKVQGGYGKYQGTWIPLDVAIELAERYNIQGLLQPITSY
-
->MBP1_WALME  - XP_006957051 I4YGC0
--IYKACYSGVPVYEFNCKNVAVMKRRSDSWMNATQILKVANFDKPQRTRI
-LEREVQKGTHEKVQGGYGKYQGTWIPMERSVELARQYRIELLLDPIINY
+>MBP1_ASPNI AN3154 XP_660758 Q5B8H6
+-VYSATYSSVPVYEFKIGTDSVMRRRSDDWINATHILKVAGFDKPARTRI
+LEREVQKGVHEKVQGGYGKYQGTWIPLQEGRQLAERNNILDKLLPIFDY
+
+>MBP1_BIPOR COCMIDRAFT_338 XP_007682304 W6ZM86
+KIYSATYSNVPVYECNVNGHHVMRRRADDWINATHILKVADYDKPARTRI
+LEREVQKGVHEKVQGGYGKYQGTWIPLEEGRGLAERNGVLDKMRAIFDY
+
+>MBP1_COPCI  - XP_001837394 A8NYC6
+QIFKATYSGIPVYEMMCKGVAVMRRRSDSWLNATQILKVAGFDKPQRTRV
+LEREVQKGEHEKVQGGYGKYQGTWIPLERGMQLAKQYNCEHLLRPIIEF
+
+>MBP1_CRYNE  - XP_569090 Q5KMQ9
+DYVPTSVSPPPAPKHSVA--PPSKARRDKEKETGRTKATPSRTGPTSAAA
+LQAQAQLN-RAKMHDSTPDADASFRSFEERVSLTEDDSSSDTPSPVASV
+
+>MBP1_NEUCR Swi4 XP_955821 Q7RW59
+-IYSATYSGIPVWEYQFGVDHVMRRRHDDWVNATHILKAAGFDKPARTRI
+LEREVQKDTHEKIQGGYGRYQGTWIPLEQAEALARRNNIYERLKPIFEF
+
+>MBP1_PUCGR PGTG_08863 XP_003327086 E3KED4
+-IYKATYSGVPVLEMPCEGIAVMRRRSDSWLNATQILKVAGFDKPQRTRV
+LEREIQKGTHEKIQGGYGKYQGTWVPLDRGIDLAKQYGVDHLLSALFNF
+
+>MBP1_SACCE Mbp1 NP_010227 P39678
+QIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRI
+LEKEVLKETHEKVQGGFGKYQGTWVPLNIAKQLAEKFSVYDQLKPLFDF
+
+>MBP1_SCHPO Res2 NP_593032 P41412
+-VHVAVYSGVEVYECFIKGVSVMRRRRDSWLNATQILKVADFDKPQRTRV
+LERQVQIGAHEKVQGGYGKYQGTWVPFQRGVDLATKYKVDGIMSPILS-
+
+>MBP1_USTMA UMAG_11222 XP_011392621 A0A0D1DP35
+-IFKATYSGVPVYECIINNVAVMRRRSDDWLNATQILKVVGLDKPQRTRV
+LEREIQKGIHEKVQGGYGKYQGTWIPLDVAIELAERYNIQGLLQPITSY
+
+>MBP1_WALME  - XP_006957051 I4YGC0
+-IYKACYSGVPVYEFNCKNVAVMKRRSDSWMNATQILKVANFDKPQRTRI
+LEREVQKGTHEKVQGGYGKYQGTWIPMERSVELARQYRIELLLDPIINY
diff --git a/data/refAPSES_PSI-BLAST.json b/data/refAPSES_PSI-BLAST.json
index 6230627..fdb7251 100644
--- a/data/refAPSES_PSI-BLAST.json
+++ b/data/refAPSES_PSI-BLAST.json
@@ -1,490 +1,490 @@
-[
-  { "name" : "68476_WALME",
-    "RefSeqID" : "XP_006957790",
-    "UniProtID" : "I4YDD8",
-    "taxonomyID" : "671144",
-    "sequence" : [
-             "MKEEKEKTPPNNITGPPTPAQNILHSTPAAFGTAGTVGQGAGGFGSQLYQSPYVDSQQSVIGSPVTPAPLPKKATLKTPQ",
-             "PRIYSAVYSGVGVYEAMIRGIAVMRRRADGYMNATQILKVAGVDKGRRTKILEREILAGLHEKIQGGYGKYQGTWIPFER",
-             "GRELALQYGCDHLLAPIFDFNPSVMQPSAGRSAKSPSKKRQNSIVLSPTQERHQSSIIALNTARASGIYVGGADDPNDDG",
-             "LSKKEKSPVKKSKYDEVPVNVSKRPYVPPPGTNAHILTRTQQSLTALFQQPTTNSDFIPEAVAILDTTSGALHPDLAIDE",
-             "LGHTALHWAASLGRISNVQQLIKKGADMKRGNIEGETPLERSVLVNDNYDKKTFAYLLQELGSSIRVVDRTGRSILHHIA",
-             "LIAAVNGRSMSAKYYMENVLEYIARYENGEFKSLVDLQDEHGDTALNISARVGNRNLVKMLVDAGANKTVVNKLGLKASD",
-             "FGVEHETLNSVTGDEMLSNLQPPPPLNVDSSASVLENIHNLLNGITQQYTDETSGKNALLFEIQAELKQHSHELADVRKE",
-             "IQYWQNKATQMAEVDQKIKNINEAIENEKVQTWSLLGEANADKMEGIETSSSSNTSEIKIPTGDNEESLKQLRKLSKWLE",
-             "GTQKLTEERVASIDGLSASKEVKYKSIVSVCTGVPVNEVEGMLAQLLEAMESDANADLNKVQEFLAREC"]
-  },
-  { "name" : "00846_COPCI",
-    "RefSeqID" : "XP_001831299",
-    "UniProtID" : "A8N8X1",
-    "taxonomyID" : "240176",
-    "sequence" : [
-             "MQASTRPPGSNQPPVKIYNAVYSSVQVYECMVRGIAVMRRRNDSYVNATQILKVAGVDKGRRTKILEKEILPGKHEIVQG",
-             "GYGKYQGTWIPLERGRDIAAQYGVAPLLSPLFDFQPSTNSLGALPVSTPGGTASPRPLSASSSYSSMGVAGQYIPSSIPS",
-             "NLPPAPIMPGSALRLLNQGRAQGLFTPSTTSATLRPAGYHSPGPYGTSYAPSPQPQSSQTPPPGSGLKRNRSEAEVEGYH",
-             "SQPHDVQMADAPPPNTASQPNEDNPSPAKRLRTDGSITTEPASSQGQWQQQQPLPYASQQRSGPGLSQLSGHNGHGSSRP",
-             "PSSLSAPNGNRPAHTNPEDQTRKTRFSSKPSMPRGMDPHMPFKDARRSALIALICHRDDPTSVIDLLREISADHLNPPSF",
-             "DVDTVLDDQGHTALHLAASMARTQTVDMLIQTGADMHRGNHLGETPLIRACLATPNSDQQSFATLVNYLHDSIWTLDTSK",
-             "KSVVHHIVSLAGVKGRAVVARYYLDQIFYWIAQHEGGDFRSLVDLQDEHGDTAINIAARVGNRSLVRTLLDVGANRVLAN",
-             "KLGLRPGDFGVETEELSSGLRAEDLISSLRTGPPAPVQKSQDVIADMTSMIQSLSTEFQAEIKSKQDSLDVTQAHLRAAT",
-             "RELSEQRKQIQTWQARCGDLDQINQRVRNVEKAIAEEDMFDWTGRTELDGKDGKEKGGPAFAYRGSKSTMVGVGGSVDVS",
-             "FSVESEPPLPTTDTAASLVKLRRLKMWHQRMEELVKGRLKGLQGASAEKEYQCKKIVALCTGIPLDKVEEMLDNLVIAVE",
-             "SEAQVVDIGRVSGFMQKVRDGII"]
-  },
-  { "name" : "8533_BIPOR",
-    "RefSeqID" : "XP_007691662",
-    "UniProtID" : "W6ZE71",
-    "taxonomyID" : "930090",
-    "sequence" : [
-             "MSTSHSFPAASPSHQQSALYANSPHGHALMAAPAALNRSFSDMSAFHHHAMDKPQIYTAVYSGVSVYEMEVNRVAVMRRR",
-             "SDGWLNATQILKVAGVDKGKRTKVLEKEILTGEHEKVQGGYGKYQGTWINYRRGREFCRQYGVEDVLRPLLDYDITLDGS",
-             "HAPGHAIETPTKEQAMAANRKRFYTQSIDGRTTTQNLTGTFFSNISSTATSALAAMNKVARLNSPAPRPSSSSQRRTSAT",
-             "RPSQSQPPLASQDSFRTSSQQSITSEPSFAGHNGQTDSAYATAVDESQEPPRKRIRASHDDSYSQPTAADMSIHPLSSPT",
-             "EPSESFDQHHPAQPITLADGDVPTALPPLPYPDTKQDEEKQAMLTDLFADQTRSDFTNHPAILHLSGPDLDMPIDNSSNT",
-             "ALHWAATLARVSLIRLLVSKGANMFRGNASGQTALMSAVSVNNSLDHSCFPETLEILAPLIELRDSQGRTILHHIAVTCA",
-             "IKGRAASSKYYLEALLEYLVRSNIGGGQPPPFHDTSNHSKPIGLMRFMQEMVNARDKAGNTALNLAARIGNRNIISQLME",
-             "VQADPTIPNHKGTRPMDFGVGTDLGDGQGIITATSPTKAKAPLSKAEETSREIQPLMSGILQSASLQFTQEARLKQDAID",
-             "QTNELITQLSSQQKQEQQKLQTLRARLRQRQDRAKRISNLKRWLEPQRHMLSVNDGAIDLHDKKRIGYADTQGAGLLIKE",
-             "DDLPYELRQAGDHLDRRASDGPIYLSTSVPLDPSTLSQVSHQPQCQNFLLQQLPAASVLRQRIETYTATNTALLKRSRML",
-             "KEKDGQLEMMYRKVVSLCTKVEENRIEECLEGLVAALDSEEGEGVEVGRVREFLRKVEGVD"]
-  },
-  { "name" : "PGTG_02039",
-    "RefSeqID" : "XP_003320997",
-    "UniProtID" : "E3JX03",
-    "taxonomyID" : "418459",
-    "sequence" : [
-             "MAAHKTTNDIPVSSSHHINPESGTGTSSTQAFPIPNIKNNPHVYMAVYSSVPVYEMMVRGIGVMRRRSDSYMNATQILKV",
-             "AGLDKSKRTRILEREIIQGEHEKIQGGYGRYQGTWVPFTRAQELATQLNVAQLLAPLFDYRPEPNSEVNIRSTNTKPSSS",
-             "ASRANSHKTTLARQTSRQSLNEKRERSGDTTPLPHDPPEAGPSKRSRLNTPSRQSNGSANTPSSLIDHSHSAMDPDFIIP",
-             "HSQSQPTAASQCTTSTFAPIHGATVEYPAGPSHLRKSNSSSRSHLEVALKAERNIHTLMALFSNPPDGDELESETHHENP",
-             "NSVAEVNEVLEDPELEIDTPIDEHCHTALHWASSLARLGLVRAFLRSGADVNRGNDVGETPLMRSTLVTNNFERESFNQL",
-             "LELLHPSLWTLDNQDRTVLHHICLTASIKGRGESSRYYLECICEWIVNKHGAQFDSQLFDAVDLNGDTALNIAARVGNKH",
-             "LVRMLLDVGADMTIGNNLGLKPIDFGVGAGETSASYTDDMISAPLRRNPTASAPARSSRDIITSITSSVNSLSEDFENEI",
-             "RSKTDRLESVRAQLMVATRQLTTQRRQLESLKHDLDERALLELRLKKLRMAIAEEDGFDWTGRSDLDGRPAQAGKLFEQN",
-             "GIASTLAGLSASQIQLELEPDPFIPPENNQDSLVYLRRLEKWYVRVLSLLRERIGRMKGSNLEQEAKYLKVIGSFIGNTC",
-             "TNDLSSSGSSMTGRPANQTTSTTQEVPSRATQNVNPADIHDLESMDGHRRKVSTTDAVNKSHEFGRTRSELLKASMIDNK",
-             "LLKQLMAAIESDGPELDLNRVAGFMQRVQSGSL"]
-  },
-  { "name" : "MBPA_ASPNI",
-    "RefSeqID" : "XP_664319",
-    "UniProtID" : "Q5AYB5",
-    "taxonomyID" : "227321",
-    "sequence" : [
-             "MTTSNHHQQRPSLSMSYSQGSIGSANGMSFSQSQMSSLNASQSVASTPRATPPPKSSQQSAMSFNYSNGLPNGARASFSG",
-             "FEDMNGYGTMIYHEEFKPQIYRAVYSNVSVYEMEVNGVAVMKRRSDGWLNATQILKVAGVVKARRTKTLEKEIAAGEHEK",
-             "VQGGYGKYQGTWVNYQRGVELCREYHVEELLRPLLEYDMNPNGTAASGQDSLDTPTKEQAMAAQRKRLYSGMENRSMSQP",
-             "QQGTFFQNISRTAATAVNAMSKARFESPAARGGDSRRLSVIRKPSQQMGSQDAQPPFGSQQSFYSAASDSGFASNIPTNG",
-             "RYAPQDAMSFEQEEPMEPPRKRIRSSQAFSLPIDGTSMSMSEPTPTEPNDSFYQDMEPLHHIDEGRHGLDPLPPATTPER",
-             "FQKMKLIMTLFLDKTTKDFSTHPALIQLSGEDLEVPLDEYRNNALHWAAMLARMPLVYALVKKGVNIARLNGAGETALQK",
-             "AVGTRNNLDYRSFPRLLQVLAPTIDMVDRSGRTILHHIAVMAATGHGGHVSAKHYLEALLEFIVRHGGTSLNQQSNGTAS",
-             "QPGMPLSNEVITLGRFISEIVNLRDDQGDTALNLAGRARSVLVPQLLEVGADPHIPNHTGLRPADYGVGVDMVDGSSQPA",
-             "GSRSDTFLAQLAKTRKEILEATTAQVTAIVQETLGTFDKELAASLTSKQEKFDHWHAKIRESAKARQIEQKQLDELKRRS",
-             "IDRTETSRRLKNLEKSSTDLLEAHKEILTNLGDTSKPVSLGDADQESGFEIAEFEALFPETFDPASGFSEAQIAYLRKLP",
-             "SAEILEQRVSCYRAFNKETLDEIDALRSKNVVLGQNYRRMVMACTGWSAEQVDEAAEGLTQCVKELNDNPVPEDEAIEIL",
-             "MRDRGQDW"]
-  },
-  { "name" : "05520_CRYNE",
-    "RefSeqID" : "XP_570545",
-    "UniProtID" : "Q5KHS0",
-    "taxonomyID" : "214684",
-    "sequence" : [
-             "MEPPSNPIQPPVTPSHHSLLSAISPALSEQTPAPIHTLPPHLRPSIPQPHIAPPRPSSVQPTMEEQQRMHHIQQHQQQQH",
-             "FQQQQNDENVFGSVMGAPGHVPGHEAPMSTQPKVYASVYSGVPVFEAMIRGISVMRRASDSWVNATQILKVAGVHKSART",
-             "KILEKEVLNGIHEKIQGGYGKYQGTWVPLDRGRDLAEQYGVGSYLSSVFDFVPSASVIAALPVIRTGTPDRSGQQTPSGL",
-             "PGHPNQRVISPFANHGQTTPHMPPPQFIHQGNEQMMNLPPHPSSLAYPTQPKPYFSMPLQHTVGPQYDERHEGMTMTPTM",
-             "SMDGLAPPADIARMGFPYNPSDIYIDQYGQPHATYQASPYGKESGHPSKRQRSDAEGSYIESGAAVQQHVEQDEEADDGL",
-             "DNDSTASDDARDPPPLPSSMLLPHKPIRPKATPANGRIKSRLVQIFNVEGQVNLRSVFGLAPDQLPNFDIDMVIDDQGHS",
-             "ALHWACALARLSIVQQLIELGADIHRGNYAGETPLIRAVLTSNHAEAGSFTDLLHLLSPSIRTLDHAYRTVLHHIALVAG",
-             "VKGRVPAARTYMASVLEWVAREQQANNTHSITNPPNPADRNELAPINLRTLVDVQDVHGDTALNVAARVGNKGLVGLLLD",
-             "AGADKTRANKLGLRPENFGLEIEALKISNGEAVMANLKSEVSKPERKSRDVQKNIATIFESISSTFSSEMLAKQTKLNAT",
-             "EASVRHATRALADKRQHLHRAQEKLATMQLFEQRSENVRRIMDAIAAGTLLTPAEFTGRTQTMHEKSTGQLPPLAFRHVP",
-             "GLALDASSQSQLNGAPPSTPLSVEDQEDIALPERDDPECLVKLRRMALWEDRIAEVLEDKIRAMEGEGVDRAVKYRKLVS",
-             "VCAKVPVDKVDSMLDGLVAAVESEGQGLDFSRASNFVNRIKATKS"]
-  },
-  { "name" : "RES1_SCHPO",
-    "RefSeqID" : "NP_595496",
-    "UniProtID" : "P33520",
-    "taxonomyID" : "284812",
-    "sequence" : [
-             "MYNDQIHKITYSGVEVFEYTINGFPLMKRCHDNWLNATQILKIAELDKPRRTRILEKFAQKGLHEKIQGGCGKYQGTWVP",
-             "SERAVELAHEYNVFDLIQPLIEYSGSAFMPMSTFTPQSNRKPTEAYRRNSPVKKSFSRPSHSLLYPYTSSNNMTSTSRMS",
-             "GIHDALSLQSDFTRSPDMPSDSFTGSLHDIKASPFSSNNYAQSLLDYFLLPNTTQPPDFVYDRPSDWDVNAGIDEDGHTA",
-             "LHWAAAMGNLEMMHALLQAGANVVAVNYLQQTSLMRCVMFTMNYDLQTFEVVSELLQSAICMNDSFGQTVFHHIALLASS",
-             "KSKMEAARYYMDILLQNLTATQSVDVAAQIINLQDDHGDTALLICARNGAKKCARLLLSFYASSSIPNNQGQYPTDFLSS",
-             "KDMSFPENDDSPLNSKIEDNLIDNLKYPQSLDDHLSSKKPISYFSNKLTHQTLPNVFTQLSELSKCHEASLAEKQLTYNL",
-             "AMEALEQTVRETETCQRLWNERTNNDENYLVNQREDLIHQCKKFLHTLKTARYYLETVQLHQLKKYVTYFSQIWSTDELA",
-             "DISETKNLVGHDTKTNRSSLSSKHEVDLFTAENEAAREKLVEQLCSLQAQRKQKINEILNLLSMGMYNTINTDQSGS"]
-  },
-  { "name" : "CDC10_SCHPO",
-    "RefSeqID" : "NP_596132",
-    "UniProtID" : "P01129",
-    "taxonomyID" : "284812",
-    "sequence" : [
-             "MASANFIRQFELGNDSFSYQKRPEDEPSQPLSNRNINKLNDSSTLKDSSSRIFINSQVLRDGRPVELYAVECSGMKYMEL",
-             "SCGDNVALRRCPDSYFNISQILRLAGTSSSENAKELDDIIESGDYENVDSKHPQIDGVWVPYDRAISIAKRYGVYEILQP",
-             "LISFNLDLFPKFSKQQQIESSSISKNLNTSSFNTRSPLRNHNFSNPSKSSKNGVHTINNMQSSPSPSSSFLLPLTQIDSQ",
-             "NVKRSNNYLSTSPPILEQRLKRHRIDVSDEDLHPSSQLNDNEASSLFPDTPRLNHSLSFVSLVSSLPPLDQNIMQDYHTS",
-             "KDILTSIFLDVNFADSSALEAKLSDSLDLDVPIDELGHAALHWAAAVAKMPLLQALIHKGANPLRGNLTGETALMRSVLV",
-             "TNHLNQNSFGDLLDLLYASLPCTDRAGRTVVHHICLTAGIKGRGSASRYYLETLLNWAKKHASGNNGYMLKDFINYLNHQ",
-             "DKNGDTALNIAARIGNKNIVEVLMQAGASAYIPNRAGLSVANFGIFVENALKQPEDSKQTKVSLMSENLSSKEKTAVPPR",
-             "QKSRDIIASVTDVISSLDKDFQDEMAAKQSMIDSAYTQLRESTKKLSDLREQLHVSETQRTLFLELRQRCKNLMTSIEEQ",
-             "KSELSNLYESFDPNGIHDSLSLDADAPFTVNENNNKNLSIAELKFQVAAYERNEARLNELANKLWQRNSNIKSKCRRVVS",
-             "LCTGVDESRVDSLLESLLQAVESDGQQGEVDMGRVAGFLRVVKEHQA"]
-  },
-  { "name" : "05338_USTMA",
-    "RefSeqID" : "XP_011392041",
-    "UniProtID" : "A0A0D1BWD8",
-    "taxonomyID" : "237631",
-    "sequence" : [
-             "MPLNYFANQDQTASDTYAHEASSFPAPSSILTDTSKPLQPVQEVAASSLVDGVSFTSPHASIIHASKQSPRAASSLSFTT",
-             "SALQRAGLLPANPNMSTTATSGTSAASESLQRVITQGTASAAAINGASTPAHSGPLTPAHLKNLTPAQANAALQNPVGNI",
-             "PTVYLATYSNVPVYEITVRGIAVMRRRGDGWLNATQILKIAGIEKTRRTKILEKSILTGEHEKIQGGYGKFQGTWIPLQR",
-             "AQQVAAEYNVSHLLQPILEFDPATADQIPKLYQRKKPAASARNSSASAINDARGSTPSKIYSPAPASLGGPSQQPRFLSL",
-             "RPPKETHEQEISSAIFMPPGTAGLLSNGTFVDDRAASALAYPGPPAIPPGSTPAEQAALRSYNVYGYTPQGVPLPSSAAA",
-             "DGNGTEAAATAASTGAGKREASETDQDGASAAKRSRLTSPQQQRRDDGLLLGPSPVKDLNALGPAGGSLRAASAPRGHRI",
-             "TVGPPDAAGRDGAVPRYADRALPPKPYDEGEKRMRDRLVSLFSDDGVLPGVSEATGAGASQSAADEDDDAYVAKLDSLLA",
-             "DLREKASLGGLGASGTDGPKATVDLITDDHGHTALHWASALCRVKLVRTLVARPPWQGGANIHAGNHAGETALHRSVLVT",
-             "NSYDASSFPTLLNLLSSSLNTRDFKKRTVLHHISLVAALKGRAASARYYLACVLEHISAEKNSKYKGLIDAQDEDGETAL",
-             "GIVARLGNASMVRMLLDVGARKDLANALGIRPSDWGIESSADGASLTPSQNDGTNTVASLPPLTAADLASQNPSDIISAL",
-             "TRPAQVPVMKSSDVRDQLSSTLDDLQSSFERELKEKQDAVSTVQSHLQAATRDLAARRKTVSAAQAKLAEKDEARQRVQN",
-             "LRRAIVAQLGLEEADADLSLEQLVEEAANAASAAPADKSADKMDIDGAEDVKPVRASNLETLIDDILSFDTIQSDLKAVG",
-             "TSAVTQEVVEQDELVRLRWLVSFYQSSCDELSSTISELEDSSAKKESQCQQVVAICANIPQDKVESMLDELLTAMESDGP",
-             "DVDLARVANFMQKVGKTRENGDQPGVGAQLSSSTSLSTAVSSGGTAASSVVPAVERDGEDAKPDA"]
-  },
-  { "name" : "SWI4_SACCE",
-    "RefSeqID" : "NP_011036",
-    "UniProtID" : "P25302",
-    "taxonomyID" : "559292",
-    "sequence" : [
-             "MPFDVLISNQKDNTNHQNITPISKSVLLAPHSNHPVIEIATYSETDVYECYIRGFETKIVMRRTKDDWINITQVFKIAQF",
-             "SKTKRTKILEKESNDMQHEKVQGGYGRFQGTWIPLDSAKFLVNKYEIIDPVVNSILTFQFDPNNPPPKRSKNSILRKTSP",
-             "GTKITSPSSYNKTPRKKNSSSSTSATTTAANKKGKKNASINQPNPSPLQNLVFQTPQQFQVNSSMNIMNNNDNHTTMNFN",
-             "NDTRHNLINNISNNSNQSTIIQQQKSIHENSFNNNYSATQKPLQFFPIPTNLQNKNVALNNPNNNDSNSYSHNIDNVINS",
-             "SNNNNNGNNNNLIIVPDGPMQSQQQQQHHHEYLTNNFNHSMMDSITNGNSKKRRKKLNQSNEQQFYNQQEKIQRHFKLMK",
-             "QPLLWQSFQNPNDHHNEYCDSNGSNNNNNTVASNGSSIEVFSSNENDNSMNMSSRSMTPFSAGNTSSQNKLENKMTDQEY",
-             "KQTILTILSSERSSDVDQALLATLYPAPKNFNINFEIDDQGHTPLHWATAMANIPLIKMLITLNANALQCNKLGFNCITK",
-             "SIFYNNCYKENAFDEIISILKICLITPDVNGRLPFHYLIELSVNKSKNPMIIKSYMDSIILSLGQQDYNLLKICLNYQDN",
-             "IGNTPLHLSALNLNFEVYNRLVYLGASTDILNLDNESPASIMNKFNTPAGGSNSRNNNTKADRKLARNLPQKNYYQQQQQ",
-             "QQQPQNNVKIPKIIKTQHPDKEDSTADVNIAKTDSEVNESQYLHSNQPNSTNMNTIMEDLSNINSFVTSSVIKDIKSTPS",
-             "KILENSPILYRRRSQSISDEKEKAKDNENQVEKKKDPLNSVKTAMPSLESPSSLLPIQMSPLGKYSKPLSQQINKLNTKV",
-             "SSLQRIMGEEIKNLDNEVVETESSISNNKKRLITIAHQIEDAFDSVSNKTPINSISDLQSRIKETSSKLNSEKQNFIQSL",
-             "EKSQALKLATIVQDEESKVDMNTNSSSHPEKQEDEEPIPKSTSETSSPKNTKADAKFSNTVQESYDVNETLRLATELTIL",
-             "QFKRRMTTLKISEAKSKINSSVKLDKYRNLIGITIENIDSKLDDIEKDLRANA"]
-  },
-  { "name" : "SWI6_NEUCR",
-    "RefSeqID" : "XP_962967",
-    "UniProtID" : "Q7SBG9",
-    "taxonomyID" : "367110",
-    "sequence" : [
-             "MQPPQLGGASQQSQPSSQQSFSMSQSSQSVYRQYTDPPNRLHNDHAVPTIYSATYSGVGVYEMEVNNVAVMRRQKDGWVN",
-             "ATQILKVANIDKGRRTKILEKEIQIGEHEKVQGGYGKYQGTWIPFERGLEVCRQYGVEELLSKLLTHNRGQEGETGNVDT",
-             "PTKEQAMAAQRKRMYNASSQENRGIGSTGTFFKNISSTASTAVAAISKARFDSPAPRNRSGPSRAPSFNRQSSMQDVADF",
-             "PNSQQSLVSTEYATQTQNADSGFGSQTTQPLAGDGLEQPPRKRQRVLTPARSFGGQTPGHQPLDPFNAGNIANGDSGSPT",
-             "EPSNSFNYDQVTANDGDASYALGPLRPLPYENNADAEAKRGMLMGLFMDANGPEEAIQAALCNVSPQELDSPIDTQSHTA",
-             "LHWAATLSRMPLLRALIHAGANPWRVNACGETALMRACTVTNSMENNTFPELLDLLGCTLDVTDDKGRTVLHHIAVTSAV",
-             "KGRHYASRYYLESLLEWVVRQGSAPSSQENGIGDRKGRRMGIARFMSEIVNAQDNSGDTALNVAARVGNRSIISQLLEVG",
-             "ADPTIPNRANLKPLDFGIGIADAETNDDPAQEKTGATTGSGHKSRETSDEVVRSITHLIGESASIFQNELKKKQESIDTL",
-             "HSQLRVTSSQVGDARRTLESLQEKLKAQQLAKQKIVNFNRACEEEEQILIELEQRHGRLDVASANAWEMELESALEIVKT",
-             "QSPKGLDPDSRPSLPSAAVLRARIKALRARSSKTRQAVAALQAQSKEKELKYRRLVSLCTRRPEIEVEALLDTLTRAVES",
-             "EKPELEIARVRRFLGGVEGVVH"]
-  },
-  { "name" : "15042_USTMA",
-    "RefSeqID" : "XP_011388143",
-    "UniProtID" : "A0A0D1CVS5",
-    "taxonomyID" : "237631",
-    "sequence" : [
-             "MSTASPLHHGHGNGSYANSPAPTGVTGRDAGVAAAAVADSAVRSGSVPASASGSAPGSASGSMYGEAHTQHHTGHHHYSA",
-             "HHTHSHGALTSPVNGGHSSSWSPYGYPAAPVYGGSPSPYGHNAYSQYASGYGYANGTAHHVATAPTTPSATSTAYHTGVN",
-             "GMMMHHGQHAGYGYSSHHLGSHTPTHTHTHSSAYFMNGDGAHSHLNSSAHLTSPSYTTAPQYSTQLPLAGRHRVTTTLWE",
-             "DEGTLCFQVDARGVCVARRHDNNMINGTKLLNVCGMSRGKRDGILKNEKERIVVKVGAMHLKGVWISFARAKQLAEQNGI",
-             "ADALYPLFEPNIQSFLYHPDNYPRTAAVIAAAQERQAQRQRAPGGQPSPGANGTSQAPPLMRANTTPSNGDTSTFSSGLS",
-             "SLGSWTGSHDQGHASAPTTAQPSPSSMHNGATQMHMSLSNHGTASPTYAQSQQQQQQQQQQQQQQQQQQQQQQQQAYPMT",
-             "AAQQLARPSVGDRRQSAPISLNNSVGHAENPYGATNLGGAANGGLVNGARKVSGLKRSWNDADDLNGSAAASPTERDMQR",
-             "SGSGGSNGLKLDGDDLHSPDSSDDRLAKKTRGMPQRGGGATTAMPSMSTNMLMGVGNGSGIHHE"]
-  },
-  { "name" : "04778_USTMA",
-    "RefSeqID" : "XP_011391646",
-    "UniProtID" : "A0A0D1DQM4",
-    "taxonomyID" : "237631",
-    "sequence" : [
-             "MNQAPLSATGVNFYISGPRPARLFPTPIHEFRKGKYATAGGESGFMTVFEYDVRGHTMMIDVDTSFVRFTSITQALGKNK",
-             "VNFGRLVKTCPALDPHITKLKGGYLSIQGTWLPFDLAKELSRRIAWEIRDHLVPLFGYDFPSTCLRPDSEGFGQLAIGMS",
-             "QKRARKRHNNGGPHQTSCYGPSLPISIELWQHSTDPLRDLGESSVVGGQAIEHVSAKNSAVQPCYGSSQPATFHYSKGYG",
-             "LESRPWYGQDYLESNSLESMWNSAQAGGGSVGLQVPISTCGATASPCLAAIGANGGSPILSSPPSSNASSSSNQSYTAAG",
-             "YGLMVPPTVPSHSVNSEAGANQAEGPTPIDGSRSYASLTAHGYATGYGDANASLSTWNDATHASTFTLHVHAHVHFQPPD",
-             "PESAQLFTIHDFGSDPFYAEQVERG"]
-  },
-  { "name" : "STUA_ASPNI",
-    "RefSeqID" : "XP_663440",
-    "UniProtID" : "P36011",
-    "taxonomyID" : "227321",
-    "sequence" : [
-             "MASMNQPQPYMDVHSHLSSGQTYASHPATAGALTHYQYPQQPPVLQPTSTYGPASSYSQYPYPNSVASSQSVPPPTTSIS",
-             "SQVPAQLLPLPVTNHPVPTHGYGNNSGTPMQGYVYDPTGQMAPPGAKPRVTATLWEDEGSLCYQVEAKGVCVARREDNGM",
-             "INGTKLLNVAGMTRGRRDGILKSEKVRNVVKIGPMHLKGVWIPFDRALEFANKEKITDLLYPLFVQHISNLLYHPANQNQ",
-             "RNMTVPDSRRLEGPQPVVRTPQAQQPPSLHHHSLQTPVPSHMSQPGGRPSLDRAHTFPTPPARMNSSVPNTQPLSIDTSL",
-             "SNARSMPTTPATTPPGNNLQGMQSYQPQSGYDSKPYYSAAPSTHPQYAPQQPLPQQSMAQYGHSMPTSSYRDMAPPSSQR",
-             "GSVTEIESDVKTERYGQGTVAKTEPEQEQEYAQPDSGYNTGRGSYYTTNPSVGGLAHDHSQLTPDMTGSPQQNGSGRMTP",
-             "RTSNTAPQWAPGYTTPPRPAAASSLYNIVSDTRGTSGANGSTSDNYSVASNSGYSTGMNGSMGSNKRMRDDDDDRIVPPD",
-             "SRGEFDTKRRKTLTETPVGGPVGGVPLGLQPMKAGGSLISARR"]
-  },
-  { "name" : "STUA_NEUCR",
-    "RefSeqID" : "XP_960837",
-    "UniProtID" : "Q1K6U0",
-    "taxonomyID" : "367110",
-    "sequence" : [
-             "MNPNTPADVYYGQMSQGSSMPVTTVPSHSHYASQQPPPLLQPGSTYAHQYGTPQYGYANALSSPASIPPSLPPSMNSMAG",
-             "QSVLPLPGSGSMNPAVYASGGFDTTGQVAPPGMKPRVTATLWEDEGSLCFQVEARGICVARREDNAMINGTKLLNVAGMT",
-             "RGRRDGILKSEKVRHVVKIGPMHLKGVWIPFERALDFANKEKITELLYPLFVHNIGALLYHPTNQSRTSQVMAAAEQRRK",
-             "DSHGQLRGPPGLPSLQQHHHHHSMLPGPPSLPSHPSMGRPALDRAHTFPTPPTSASSVMGPMGNSDGYQWSQQSMSGTQG",
-             "NSSLSLDTSLGSNARSMPSTPATTPPGSTIQSMQNYPPVSQSYESSRQMYQGQSAQQAQYQSQQHYSSQPQHQERPVYSQ",
-             "SSYIKNDMGPPSGRPTGQSNDASDSKPPTGMIHQGQGQSDPGTHAGSEEDDDANNEAEYTHDSGGYDANRGSYNYNTQAV",
-             "NSLPHDHGLAPEIGGSPHQAGSGRATPRTAAAPSSYYSAQGYHTPPRGQPSSSLYNVMSNERTGSNGTQGNEMYAGQADM",
-             "PSSLPNGYSAQPSVMNGSSGGLKRGRDDDDDGGRPTTSAPNLGPGMDMKRRKTMMDGGSLPSPTYTATIAQAAPSAIAAH",
-             "RRR"]
-  },
-  { "name" : "PHD1_SACCE",
-    "RefSeqID" : "NP_012881",
-    "UniProtID" : "P36093",
-    "taxonomyID" : "559292",
-    "sequence" : [
-             "MYHVPEMRLHYPLVNTQSNAAITPTRSYDNTLPSFNELSHQSTINLPFVQRETPNAYANVAQLATSPTQAKSGYYCRYYA",
-             "VPFPTYPQQPQSPYQQAVLPYATIPNSNFQPSSFPVMAVMPPEVQFDGSFLNTLHPHTELPPIIQNTNDTSVARPNNLKS",
-             "IAAASPTVTATTRTPGVSSTSVLKPRVITTMWEDENTICYQVEANGISVVRRADNNMINGTKLLNVTKMTRGRRDGILRS",
-             "EKVREVVKIGSMHLKGVWIPFERAYILAQREQILDHLYPLFVKDIESIVDARKPSNKASLTPKSSPAPIKQEPSDNKHEI",
-             "ATEIKPKSIDALSNGASTQGAGELPHLKINHIDTEAQTSRAKNELS"]
-  },
-  { "name" : "08099_COPCI",
-    "RefSeqID" : "XP_001836714",
-    "UniProtID" : "A8NVH3",
-    "taxonomyID" : "240176",
-    "sequence" : [
-             "MSTGMLQETLQTTSASTSGTRFRPYASPNHQVTKGRYITSNDPRGYIPVYEYPLNGQWIMMDIDDGYILWTGIWKALGNS",
-             "KADIVKMIDSQPDLAPLIRRVRGGYLKIQGTWMPYEVALKLSRRVAWPIRHDLVPLFGPTFPSTCLSPDQPGYGQVVASS",
-             "NVRRRARRNTQATAQPPREAHSNWTVMTPGPMVGLSFPHSQFSRPPLPPLAPTPARSPSDYAPSSHYGNQLDPQDARRYS",
-             "HSPYSPLASPPERKSSISSKALSLEIPPVRPSSSKAREDISLPPLKQPDGADPEMSPYALPPISALEDLRGVDTQDSAAV",
-             "LRRLRLDDDYPSSSRSSTSQDSIWGRRHSLSAHSPHPRSSDNSRFQPYLSSRSYQDSTLKRSRSPAESYADRRRASDFSQ",
-             "EDSTSAYSPISPATPNSSILSHSSFSDLKKLASSTDTRYNFPRISGRDWAPLKGDTDHIRSSYRSGPSPLELDSDSESSA",
-             "PHRPW"]
-  },
-  { "name" : "68479_WALME",
-    "RefSeqID" : "XP_006957792",
-    "UniProtID" : "I4YDE0",
-    "taxonomyID" : "671144",
-    "sequence" : [
-             "MTNKVQELWWEENKTRVWQVEVDNGNYVARRQDNDQINGTKLLNITKITRGKRDGILKNEKSRQVVKTGTITLKGVWIPF",
-             "ERAIILARQFNIEQQLYPLFETNLGDYVENSIGSHQIKRKSLNNLMDSLTTNRELVSKRRSTVSTYNPATSAYVSPYGFS",
-             "PQHCYQTEFEDMNQHSGEIQSGRPRNTSSASDWMTNWSTSSSSPVIPATPNTFSPVMNTFQSLALHSPPIPIPNYYYDSS",
-             "SSYFPSYHQKQQQQQVQMQMQMHTTASIGGDRQSNEYIQR"]
-  },
-  { "name" : "11943_PUCGR",
-    "RefSeqID" : "XP_003330006",
-    "UniProtID" : "E3KMR2",
-    "taxonomyID" : "418459",
-    "sequence" : [
-             "MAAAPTSSFLTSMSAQPPRTVQALVNEEVRAPPPVRLYPSQHRVSMTRYATSTDPRGYIPVFEYPLNGQYIMIDCETGMV",
-             "HFTGIWKALGHTKADVVKLVESDPTIAPYLRKVRGGYLKIQGTWLPFDTAQTLARRVAWQVRYDLVPLFGPDFPDTCLGP",
-             "GEPGFGQLLLSAPKPRGRRGAKKAAAAPTVAHERTASPQDNRSQSRPGPYPSQESFGNRCSGRVEAVGAMNGYSPMLSQA",
-             "RYSPYTRAPVHRITQLEPLPSLIQPNQSCPHPTADSMYSSHYHQSPRQSMMTSHGAGPYGQQHLTGSTASGMQSTAPLPS",
-             "MRPHQAHQSENNFFETYRGPDSFEALSNKWLAPEVANPSLNDSGLLHGEGGCLPPLQYSNNPVLRNGPSGSPTNQYNFPN",
-             "QIDSAHSSHHIDSNQTQHVHRHAGFPYESQHQSNFRHDLSTEEAAHHPASPSQQPPPSVTYDKAHNSEPQAGSQAANVTA",
-             "GCYAASGSNSTGNPAGSPGSHSSHVPKSPTPSSASTSTHMQNSHNPNSHRSPSNTLTNMSNNGGFNSNTQGEEAIQFSVL",
-             "TSPAHLETSGPSENSIPPAQSSDSDWNPAQNTTGLSPSQAPRQ"]
-  },
-  { "name" : "03082_PUCGR",
-    "RefSeqID" : "XP_003321545",
-    "UniProtID" : "E3JYK1",
-    "taxonomyID" : "418459",
-    "sequence" : [
-             "MILISPTRTLPSPRPIDTDPILNYRHIQPAAAAAAVGPWLGQNQHHHHHHDTLAKSPNITTAPATHSPSELSASPAPSAV",
-             "STGSSLLDPQSVPHIKIPHSSSPPAIMLPQPSSDDDSSTAEEEQPSAQSSNATLNTPTPHTNAPHQLDSHASSVGLYDLP",
-             "PTSSSAPTTSSSSSPFPSNVPSHQQPSPYSSSPHPNQEHHPHHPHHGNQFYQQSPPALHSPLQSAHHPQQSFDARPHSSL",
-             "FAHQHYHSRPQSAPHSTSQFSLDPHVLAAAAANVEVKKWDEENTYYYQVAHKGVTVGRLKGSGLVNGTKLLNLAGISRGK",
-             "RDGILKNEKIRKVVKHGTMHLKGVWIAFDRAVFLAEQHSIADKIFPLLVVNLEHYVPIEPPLMAGGTKLGPGSLFHHHHP",
-             "RHPRLLPQPIKFPPSTISLAPASANSFSSTGGWPSGPSSALPSIGYNEPFSAPPIPRSAATADTSPSIYEQAQFQYLNSA",
-             "QANNPDLLERRHTLPNNSFHGYNSVPSFGSSQPPPPVSYSFHYNSTHVPGYPPRSSTAESATPNQFEYQSKNHNGNGNGD",
-             "AAGSYPATLYHSQPAARPVSSTTAQPSPALNSAPLLLGDLSPGSSTQIVDHGAGDFRLSTGTSNGQVKQEGDDESCNEKR",
-             "LIMEWNPSC"]
-  },
-  { "name" : "SOK2_SACCE",
-    "RefSeqID" : "NP_013729",
-    "UniProtID" : "P53438",
-    "taxonomyID" : "559292",
-    "sequence" : [
-             "MPIGNPINTNDIKSNRMRQESNMSAVSNSESTIGQSTQQQQQQQQYLGQSVQPLMPVSYQYVVPEQWPYPQYYQQPQSQS",
-             "QQQLQSQPQMYQVQESFQSSGSDSNASNPPSTSVGVPSNATATALPNGSAITTKKSNNSTNISNNVPYYYYFPQMQAQQS",
-             "MAYSYPQAYYYYPANGDGTTNGATPSVTSNQVQNPNLEKTYSTFEQQQQHQQQQQLQAQTYPAQPPKIGNAFSKFSKSGP",
-             "PSDSSSGSMSPNSNRTSRNSNSISSLAQQPPMSNYPQPSTYQYPGFHKTSSIPNSHSPIPPRSLTTPTQGPTSQNGPLSY",
-             "NLPQVGLLPPQQQQQVSPLYDGNSITPPVKPSTDQETYLTANRHGVSDQQYDSMAKTMNSFQTTTIRHPMPLIATTNATG",
-             "SNTSGTSASIIRPRVTTTMWEDEKTLCYQVEANGISVVRRADNDMVNGTKLLNVTKMTRGRRDGILKAEKIRHVVKIGSM",
-             "HLKGVWIPFERALAIAQREKIADYLYPLFIRDIQSVLKQNNPSNDSSSSSSSTGIKSISPRTYYQPINNYQNPNGPSNIS",
-             "AAQLTYSSMNLNNKIIPNNSIPAVSTIAAGEKPLKKCTMPNSNQLEGHTITNLQTLSATMPMKQQLMGNIASPLSYPRNA",
-             "TMNSASTLGITPADSKPLTPSPTTTNTNQSSESNVGSIHTGITLPRVESESASHSKWSKEADSGNTVPDNQTLKEPRSSQ",
-             "LPISALTSTDTDKIKTSTSDEATQPNEPSEAEPVKESESSKSQVDGAGDVSNEEIAADDTKKQEK"]
-  },
-  { "name" : "14426_COPCI",
-    "RefSeqID" : "XP_002911429",
-    "UniProtID" : "D6RMB0",
-    "taxonomyID" : "240176",
-    "sequence" : [
-             "MTARPPLPLRHANPSLRDGNATIPPVKYQILSCQGKDILVGRLKIDTTDGGHAFILRRFDTQAISLTTMFRAAFPTASEA",
-             "EEKDEINYVKANFDLFGNNGSSKEPHITRLAGTWVNRDTAGQLAHDYNMVDLINTMVEAEPDPNGQYRRSNKSAQNNNPP",
-             "TNAPEPTPATNVHATRSPAKQSPKPPSKTLPTPSPGSGDAQPPAPKRRREGSPATFTSGIPVASSPAVPKTPGPRRSTRT",
-             "KSPAPSRVPQPLTATKPRSRASVAPPSPKKRPVDLPKSSPIKAEEDTAVEDNVAGNELYAQDISEQKKLIADLKAAASSK",
-             "KPADTVKEDDDQQMEEEGQGPSKLKRIRQDEEKPLQFEFKEPEREERQIATNRRVGRFDMQPERKSLAWGIAAFAFGMTA",
-             "ITYLPNFL"]
-  },
-  { "name" : "BQT4_SCHPO",
-    "RefSeqID" : "NP_596166",
-    "UniProtID" : "O60158",
-    "taxonomyID" : "284812",
-    "sequence" : [
-             "MTENEKSRSLPAERNPLYKDDTLDHTPLIPKCRAQVIEFPDGPATFVRLKCTNPESKVPHFLMRMAKDSSISATSMFRSA",
-             "FPKATQEEEDLEMRWIRDNLNPIEDKRVAGLWVPPADALALAKDYSMTPFINALLEASSTPSTYATPSRPTAQKSETSEG",
-             "EPESSTSATTTSVARRTRQRLAEHLENSKKTILQHDNKEEDKEIHSEENETKDEIKSEKKEPEIKKQEGGSSTEKVGQPS",
-             "SSDDKAKGSTSKDQPSEEEEKTSDIQDRKIKTPIKPSLLGKIRSSVNKGMTDVASQVNRGMTDVASQVNKGVNGVASQVN",
-             "KGMNGVANQVNKGVTGVASQVRKPVGKLEKKFENLEKSIGDTLKSSIRSSPKSKKRSREDFEENEDYNAMVPVKRSRITK",
-             "LESEVYYEKRKVRALGGIAIGLGVGAILPFLF"]
-  },
-  { "name" : "PGTG_05590",
-    "RefSeqID" : "XP_003323688",
-    "UniProtID" : "E3K4V4",
-    "taxonomyID" : "418459",
-    "sequence" : [
-             "MPKSSSCCEPEQKQSIPTNANPISAGGAGLDIRLAGMRSAHATLRGCSFSPYMVTQHPPLRDSVNRNKQQPTNNSTNPYT",
-             "KKASRMSQTNLYKSNNPPNLPQDEFNQTLVNYQGKLRSIRIQDININGHTITIARIKIPSPEKLSSHLIKRFDTNAISAS",
-             "SFFRSAFPHSTEEEEAIQMRYLHQIYDTHTAGAVEFGSARKLTGVWVPIENAAELAEVYGLTRFAEPLLAFPNPKENPRS",
-             "PTGTKIGGEDESSTTQTPKASQQSKLTGQISVTRSSKRSRAGPLSFGNTSPSSFSLNSFNKPPTETNKSGTHDDSKSTND",
-             "ENDEKPASPTDRVAGRGARNSPSKKPTTVDENHEHTEHEDHQLIGTDELAQRAKQEALKLVSELKNSQPCTQSSLESPTN",
-             "TLETELTRTTSPAKSNKVTRKRSSDEVSFEGEEQGEDEDEERTADETATHRSFLPKLLWRKSAAQAHPNSKKHKRTQLGG",
-             "GGSSSSSSKSFVPLLTNSATPSVDDSSSTHNPNKRNLAIAGIVIAGAAA"]
-  },
-  { "name" : "06560_NEUCR",
-    "RefSeqID" : "XP_962267",
-    "UniProtID" : "Q7S9H5",
-    "taxonomyID" : "367110",
-    "sequence" : [
-             "MAQVARHLPARRNPLMLEDVPSHTDLASRRRLGQTQLTPRMVTAVPGAEVDPSSLLAFDYAHLRAPLPKGIVSGIFKSSP",
-             "PSYFLMRRSQDGYISATGMFKATFPYASQEEEEAERKYIKSIPTTSSEETAGNVWIPPEQALILAEEYQITPWIRALLDP",
-             "SDIAVTATDSSAPKQIAPPPKFFGAQPPLVAPTPPTTRSTRSRPSSRRSSSPAKSTTTSKRGTTPRNTKRTVTTEASATT",
-             "VTTTATATAVPSAETPATSFADSQAPTLINGEIPTSTPINTVPVTKIQTTEAELKVESIEKEPVVVLEPIEEEPKIKVRV",
-             "DEDVKLDKDGEEVKHTKVELEVPLMAGEPPSKEEARKMIEEAKAMVEAAVKADAEAAAALVEASKAGAEDEKAEDEAKAE",
-             "TEATKEEEADSKGKRKAEKISVDEDEKAADEAEQPRQAKRVKTEAELRKDRIRKRAYLGLTATFAVGALGALLPIITPYV",
-             "ANVL"]
-  },
-  { "name" : "81480_BIPOR",
-    "RefSeqID" : "XP_007682909",
-    "UniProtID" : "W6ZKJ4",
-    "taxonomyID" : "930090",
-    "sequence" : [
-             "MVVDRVLPERKNPLLEPTDSTSIEILIERRRLGQTNLGVKAGVSGIANATKPENMGTFDYAHLRVPLPKDLTGSGIFSRN",
-             "RMSAFPESYFLMRRSSDGYISATGMFKAAFPWASLQEEDLERKYQKTFPSAGDEEVAGSVWIAPEEALALSEEYSMRHWI",
-             "EALLDPAPIEKGGKDKSNAAIQMPPRFDVANAQPATLPTFGFRQTRARSARSVSPSKAMTPGRKYATPRKGRSTRSAMKP",
-             "DATHADDMFRPIEAVTPSTALQNSIARRIAPAETIASSIEGEVKEVEQEVKAALDAEKKPEPELEVQEGTVHIEVKQTVE",
-             "TNGDTEKTSTSVTVDVPHDHAALPEPEDPTAMIEEAKRMVAEAQKLEGGSPSVTRSSKRGIEEVLDEEDLADERLNKLAK",
-             "KAYTTEQKMTKEKVTRRALVGLGVMAAIGTAFQYFV"]
-  },
-  { "name" : "01622_ASPNI",
-    "RefSeqID" : "XP_657766",
-    "UniProtID" : "Q5BH18",
-    "taxonomyID" : "227321",
-    "sequence" : [
-             "MVRSLPKKNNPFVTPDAAPPYEELLMRRRLGKTNLAVKPTQVGTSNATKPENLGPFEYAHLRAPLPKDLKGSEIFPSHSP",
-             "QQHPETYFLMRRSKDGYVSATGMFKIAFPWAKLEEERSEREYLKTRPETSEDEIAGNVWISPVLALELAAEYKMYDWVRA",
-             "LLDPTEIIQSPSSAKKQITPPPKFELPPIQAPEALVPSSRTRSRRSASPSKKAGTPRKPRQTKAQKEAAVAATNEANATL",
-             "QSALDDTVSNADGEINGDVLPSVEDKREPETSPVKGKKAAAKAKKQAVSEEDQEDKVKIEIKSDAAEGSDVQAAQTTISV",
-             "EMPISLPEAPSAEDTQEMIAKAKEMVKEAVKLQQEPAESSATAKKRGAEEAELGEEEEDEETKTLRTKRAKVLEEKLKRE",
-             "RVRNRALMGVTAAFALAKPALVLLEA"]
-  },
-  { "name" : "05405_ASPNI",
-    "RefSeqID" : "XP_663009",
-    "UniProtID" : "Q5B225",
-    "taxonomyID" : "227321",
-    "sequence" : [
-             "MASIQFLLNPLPSLPSSDRCPLPTPSPTISSSTAMLRSPRQKKQKMAKDAPIFQRGKPRGEVRYPPYEDRDGKFSCQHQD",
-             "FRIHPLGNIADYPRHIPYNSDKKSFQERTGRESFEVFQYTFQLPGEEKQWTVMWDYNIGLVRTTHLFKCNDYSKTTPAKM",
-             "LNQNPGLRDICHSITGGALAAQGYWMPYEAAKAIAATFCWKIRFALTPLFGDNFPDLCIHPDDRARFGRMVIDPGIVRIA",
-             "TEKANLYRMLELRCSTTNSLRADYVLRPSSAPDIDRTDPNLERDRVALGRHILPKSHRHHHHRSKTSPSTNTSLVGYGSS",
-             "PEVEYYSCGTEPYCVSPESPIRSSFTPVNTPRSTDIYPSSSSTNFLRSPHELLASLSSSASIARARIERASKISGARVIP",
-             "SSVPSNVTSITTKGRDNTGHSALMEESDIDADAETDSGHEHDLDFELSSSDESSTSSTVSSSTSSASLGFAANSRNRPYR",
-             "DDDEPHRDTDEEMVDYRAPKRIATAGARDRRWGRGRRVIHQEHSDIETSRRARKHAQRSSNARLVCEMTAAHALISLLHD",
-             "ATGSDVDVDTHNRLECGRSPDGGVKNNLKGSYFGIRLNHNPSTESGQKRRRASA"]
-  },
-  { "name" : "105954_BIPOR",
-    "RefSeqID" : "XP_007691967",
-    "UniProtID" : "W6Z1H5",
-    "taxonomyID" : "930090",
-    "sequence" : [
-             "MNIQDLLNPSCGDRHDHRRSESATPPSRPVAILPALRRQKIPKDAPIFSEGNRTVGIVNFAPHEAGNDEELLAQHCRFQI",
-             "YPLGEISRKGVRHIPYNSDKKDFLEKTGRDAFEMFQYTYKLPGEDKPYVVVWDYNVGLVRMTPFFKSCKYSKTIPAKTLR",
-             "ENPGLKDISYSITGGALVCQGYWIPYQAARAIAATFCYDIRWALTPVFGNDFPSICLTPDDPSFAKFVIDPAIVRYCTEE",
-             "TTKFRELGSAYEVHRPVAPTQVEAPTSRSDQPLSTSIVRQRRARPIDIESGYGTDTERNDRCLFSPEVSPRTRFTPINRP",
-             "RSPYSPRTAESSFVSSPVSIRAPPGLHTPTSTPYEHSGEVFRAKRSHSKVAFCEHPADEAVIRPPTAATVDSAHGCEMCV",
-             "GDDNHSHLDMDAAEMLLSLRTADSAMPPSKRTRRGS"]
-  },
-  { "name" : "69819_WALME",
-    "RefSeqID" : "XP_006959479",
-    "UniProtID" : "I4Y911",
-    "taxonomyID" : "671144",
-    "sequence" : [
-             "MTSPGLPKDFNELLDKSEIPSPKWQQITRDDRPITIARLKLPHPREKHTFILRRYDCNGISFGSLFKAAYPYATDEEEKI",
-             "ESGFVKKNYDVTLVPTEEYQERKLAKLAGFWIPIAIAEELGQRYAMAEYVDALAKADTPDLTDFKKRSSNRQTSEDIKSS",
-             "PAKAQASLESPAKSASKIPTPTKNPAPRRSARHQSRSPSPSPLTHNLTPGKKKAKKAPKEAVIEESVEETIVVDKKESPL",
-             "KKALNDDQVLADIERAKDLVDDIKQSKNLSQSSPVKVVKEEVLETIQPSVSTESLEGEGKRKRELEDETGNEIKVVSFGQ",
-             "NPPANPEEIQQRPVVQRRGVAAAVGAFALGVGFAASNILPRFLF"]
-  },
-  { "name" : "02840_CRYNE",
-    "RefSeqID" : "XP_568872",
-    "UniProtID" : "Q5KM59",
-    "taxonomyID" : "214684",
-    "sequence" : [
-             "MSHPAADAPPPYPGTTDDAQYDLTPLPHTANRPRLPEDKRNPHLNNLPEDTKIVKFQTIVRENKEIVVGRIKVPTENANG",
-             "THHAFILRRYDTNAISLTTMYKVAFPSATEEEEKREMDWVKSSFDTRGTNGGRDSEVVRLAGQWVSRNLAIHIAPAYNLV",
-             "QLVAALSRAVPDPNVAYRKSQRSQAAADELARTKAKQSQAPSSVPAISNVPVRKPQAAIPSMATEISSPASKRQRKDSVT",
-             "EASGSATQTITEAQPSADTSETDDTRHITIEATTTITSPSGANVDMDAEIEQAKQLVKDLRQEIQLRNEAGDSLEDQGVA",
-             "VADDVRGVKRGKHEDEAVVISGGAGGKDRVVRTNKRIPQTAGGDVGQRFGWGAFVFSIGLGASLTLFSQYASSLL"]
-  },
-  { "name" : "11055_USTMA",
-    "RefSeqID" : "XP_011390537",
-    "UniProtID" : "A0A0D1DZM8",
-    "taxonomyID" : "237631",
-    "sequence" : [
-             "MPAAASARKSTPTRKSTPRRARSSSVTSNASTGVPASPSASPRKTKKQKEAAAAAAAAVAAAAATAEQVNDDESDLLRPK",
-             "LPTKRNPRLKEVDEAVVKLQIIKREGHNIIIGRVKLPTVNGQDHAFLLKRFDTNAMAASSMFRLAFPFADGTAEAAEMRF",
-             "LDTKYDTNRANGGYIVEEVKVPETPKKRGRTRKTAENSKKESTPDTESVSADKQIRVLPEGSTGVRLQGTWIPAEDAIEV",
-             "AEDYGIAKYALALIHATAEHAEDGGAPILTSEPVAEVKTPRKRQRVSAAAATASDTPDSPQLVQRVTRLENADGSISKVR",
-             "VESTLEAPSSNGVPVALSQAEIEEQIAQAKALAAGIQQSITAGSGSASTRGQKRRAVNDRPTAEIDPLADDEDYSESGRV",
-             "VRAFRRGTRVARRRPIATTAGAVAAAGAVGAGALAWVSGGNPEVAIQTLQASMQSIGLQNLQNLGLQNLQQIGTQLGAHL",
-             "ASILPW"]
-  },
-  { "name" : "XBP1_NEUCR",
-    "RefSeqID" : "XP_962373",
-    "UniProtID" : "Q7S9W7",
-    "taxonomyID" : "367110",
-    "sequence" : [
-             "MLNQNPGLKDIAYSITGGAIKAQGYWMPYACAKAVCATFCYQIAGALIPLFGPDFPSECISPGEPRYGIMIIKPELISDT",
-             "MRKAQELYRRYGNWGGGCTSSSPARRPLRTASSGSQERHHHHPYPNQEHLDHQQQQQRTVCSRRCPAEENSCVDARPQLR",
-             "GISAPMPPAGEWTPPLLRSSAGRPRPVMPTSTHSSISYPERAPHRSAWTAVNHQPPNNSLDRYSLKRPLPSNEPDESVSH",
-             "SNWPSRSQAPNPWLTAIPRSPRKTSSSPWASQPGSASRSRAGSIDSMASQHPQGLPSPSLILSSPSSSMVSLSSSNSPSP",
-             "RPQLPPISQLCSLPVPSGRRRLPNGRPSRVGGDATSSHSRQDHSTCGAYQFSAGYQRALTPPSSTSAPMHWRSQRRPSLQ",
-             "DQHEHEHIEDTQPRRIAVEANMECGDDNESHLHLPLPLPRTSSSASIVADKNANDTTSDNSSSRNFNSASIGSGRDDGQT",
-             "SLAARKTAALTLLHLRQQEEEKEAAAAAAAAAAAAYSSTKRPESPSSSLSSPVSPPPTSGQPSPTLSAVVTATNLRRGTT",
-             "TATATAVIDTTEPLAPPPSPSSNYLGSPISTSIASSSSSFSPSTSCNGTRENSVVANEMTRYAGQEADAGGPRHCNGDAD",
-             "DEGDYEHEQQYRRKRRRLLLVGRAKSF"]
-  },
-  { "name" : "XBP1_SACCE",
-    "RefSeqID" : "NP_012165",
-    "UniProtID" : "P40489",
-    "taxonomyID" : "559292",
-    "sequence" : [
-             "MKYPAFSINSDTVHLTDNPLDDYQRLYLVSVLDRDSPPASFSAGLNIRKVNYKSSIAAQFTHPNFIISARDAGNGEEAAA",
-             "QNVLNCFEYQFPNLQTIQSLVHEQTLLSQLASSATPHSALHLHDKNILMGKIILPSRSNKTPVSASPTKQEKKALSTASR",
-             "ENATSSLTKNQQFKLTKMDHNLINDKLINPNNCVIWSHDSGYVFMTGIWRLYQDVMKGLINLPRGDSVSTSQQQFFCKAE",
-             "FEKILSFCFYNHSSFTSEESSSVLLSSSTSSPPKRRTSTGSTFLDANASSSSTSSTQANNYIDFHWNNIKPELRDLICQS",
-             "YKDFLINELGPDQIDLPNLNPANFTKRIRGGYIKIQGTWLPMEISRLLCLRFCFPIRYFLVPIFGPDFPKDCESWYLAHQ",
-             "NVTFASSTTGAGAATAATAAANTSTNFTSTAVARPRQKPRPRPRQRSTSMSHSKAQKLVIEDALPSFDSFVENLGLSSND",
-             "KNFIKKNSKRQKSSTYTSQTSSPIGPRDPTVQILSNLASFYNTHGHRYSYPGNIYIPQQRYSLPPPNQLSSPQRQLNYTY",
-             "DHIHPVPSQYQSPRHYNVPSSPIAPAPPTFPQPYGDDHYHFLKYASEVYKQQNQRPAHNTNTNMDTSFSPRANNSLNNFK",
-             "FKTNSKQ"]
-  }
-]
+[
+  { "name" : "68476_WALME",
+    "RefSeqID" : "XP_006957790",
+    "UniProtID" : "I4YDD8",
+    "taxonomyID" : "671144",
+    "sequence" : [
+             "MKEEKEKTPPNNITGPPTPAQNILHSTPAAFGTAGTVGQGAGGFGSQLYQSPYVDSQQSVIGSPVTPAPLPKKATLKTPQ",
+             "PRIYSAVYSGVGVYEAMIRGIAVMRRRADGYMNATQILKVAGVDKGRRTKILEREILAGLHEKIQGGYGKYQGTWIPFER",
+             "GRELALQYGCDHLLAPIFDFNPSVMQPSAGRSAKSPSKKRQNSIVLSPTQERHQSSIIALNTARASGIYVGGADDPNDDG",
+             "LSKKEKSPVKKSKYDEVPVNVSKRPYVPPPGTNAHILTRTQQSLTALFQQPTTNSDFIPEAVAILDTTSGALHPDLAIDE",
+             "LGHTALHWAASLGRISNVQQLIKKGADMKRGNIEGETPLERSVLVNDNYDKKTFAYLLQELGSSIRVVDRTGRSILHHIA",
+             "LIAAVNGRSMSAKYYMENVLEYIARYENGEFKSLVDLQDEHGDTALNISARVGNRNLVKMLVDAGANKTVVNKLGLKASD",
+             "FGVEHETLNSVTGDEMLSNLQPPPPLNVDSSASVLENIHNLLNGITQQYTDETSGKNALLFEIQAELKQHSHELADVRKE",
+             "IQYWQNKATQMAEVDQKIKNINEAIENEKVQTWSLLGEANADKMEGIETSSSSNTSEIKIPTGDNEESLKQLRKLSKWLE",
+             "GTQKLTEERVASIDGLSASKEVKYKSIVSVCTGVPVNEVEGMLAQLLEAMESDANADLNKVQEFLAREC"]
+  },
+  { "name" : "00846_COPCI",
+    "RefSeqID" : "XP_001831299",
+    "UniProtID" : "A8N8X1",
+    "taxonomyID" : "240176",
+    "sequence" : [
+             "MQASTRPPGSNQPPVKIYNAVYSSVQVYECMVRGIAVMRRRNDSYVNATQILKVAGVDKGRRTKILEKEILPGKHEIVQG",
+             "GYGKYQGTWIPLERGRDIAAQYGVAPLLSPLFDFQPSTNSLGALPVSTPGGTASPRPLSASSSYSSMGVAGQYIPSSIPS",
+             "NLPPAPIMPGSALRLLNQGRAQGLFTPSTTSATLRPAGYHSPGPYGTSYAPSPQPQSSQTPPPGSGLKRNRSEAEVEGYH",
+             "SQPHDVQMADAPPPNTASQPNEDNPSPAKRLRTDGSITTEPASSQGQWQQQQPLPYASQQRSGPGLSQLSGHNGHGSSRP",
+             "PSSLSAPNGNRPAHTNPEDQTRKTRFSSKPSMPRGMDPHMPFKDARRSALIALICHRDDPTSVIDLLREISADHLNPPSF",
+             "DVDTVLDDQGHTALHLAASMARTQTVDMLIQTGADMHRGNHLGETPLIRACLATPNSDQQSFATLVNYLHDSIWTLDTSK",
+             "KSVVHHIVSLAGVKGRAVVARYYLDQIFYWIAQHEGGDFRSLVDLQDEHGDTAINIAARVGNRSLVRTLLDVGANRVLAN",
+             "KLGLRPGDFGVETEELSSGLRAEDLISSLRTGPPAPVQKSQDVIADMTSMIQSLSTEFQAEIKSKQDSLDVTQAHLRAAT",
+             "RELSEQRKQIQTWQARCGDLDQINQRVRNVEKAIAEEDMFDWTGRTELDGKDGKEKGGPAFAYRGSKSTMVGVGGSVDVS",
+             "FSVESEPPLPTTDTAASLVKLRRLKMWHQRMEELVKGRLKGLQGASAEKEYQCKKIVALCTGIPLDKVEEMLDNLVIAVE",
+             "SEAQVVDIGRVSGFMQKVRDGII"]
+  },
+  { "name" : "8533_BIPOR",
+    "RefSeqID" : "XP_007691662",
+    "UniProtID" : "W6ZE71",
+    "taxonomyID" : "930090",
+    "sequence" : [
+             "MSTSHSFPAASPSHQQSALYANSPHGHALMAAPAALNRSFSDMSAFHHHAMDKPQIYTAVYSGVSVYEMEVNRVAVMRRR",
+             "SDGWLNATQILKVAGVDKGKRTKVLEKEILTGEHEKVQGGYGKYQGTWINYRRGREFCRQYGVEDVLRPLLDYDITLDGS",
+             "HAPGHAIETPTKEQAMAANRKRFYTQSIDGRTTTQNLTGTFFSNISSTATSALAAMNKVARLNSPAPRPSSSSQRRTSAT",
+             "RPSQSQPPLASQDSFRTSSQQSITSEPSFAGHNGQTDSAYATAVDESQEPPRKRIRASHDDSYSQPTAADMSIHPLSSPT",
+             "EPSESFDQHHPAQPITLADGDVPTALPPLPYPDTKQDEEKQAMLTDLFADQTRSDFTNHPAILHLSGPDLDMPIDNSSNT",
+             "ALHWAATLARVSLIRLLVSKGANMFRGNASGQTALMSAVSVNNSLDHSCFPETLEILAPLIELRDSQGRTILHHIAVTCA",
+             "IKGRAASSKYYLEALLEYLVRSNIGGGQPPPFHDTSNHSKPIGLMRFMQEMVNARDKAGNTALNLAARIGNRNIISQLME",
+             "VQADPTIPNHKGTRPMDFGVGTDLGDGQGIITATSPTKAKAPLSKAEETSREIQPLMSGILQSASLQFTQEARLKQDAID",
+             "QTNELITQLSSQQKQEQQKLQTLRARLRQRQDRAKRISNLKRWLEPQRHMLSVNDGAIDLHDKKRIGYADTQGAGLLIKE",
+             "DDLPYELRQAGDHLDRRASDGPIYLSTSVPLDPSTLSQVSHQPQCQNFLLQQLPAASVLRQRIETYTATNTALLKRSRML",
+             "KEKDGQLEMMYRKVVSLCTKVEENRIEECLEGLVAALDSEEGEGVEVGRVREFLRKVEGVD"]
+  },
+  { "name" : "PGTG_02039",
+    "RefSeqID" : "XP_003320997",
+    "UniProtID" : "E3JX03",
+    "taxonomyID" : "418459",
+    "sequence" : [
+             "MAAHKTTNDIPVSSSHHINPESGTGTSSTQAFPIPNIKNNPHVYMAVYSSVPVYEMMVRGIGVMRRRSDSYMNATQILKV",
+             "AGLDKSKRTRILEREIIQGEHEKIQGGYGRYQGTWVPFTRAQELATQLNVAQLLAPLFDYRPEPNSEVNIRSTNTKPSSS",
+             "ASRANSHKTTLARQTSRQSLNEKRERSGDTTPLPHDPPEAGPSKRSRLNTPSRQSNGSANTPSSLIDHSHSAMDPDFIIP",
+             "HSQSQPTAASQCTTSTFAPIHGATVEYPAGPSHLRKSNSSSRSHLEVALKAERNIHTLMALFSNPPDGDELESETHHENP",
+             "NSVAEVNEVLEDPELEIDTPIDEHCHTALHWASSLARLGLVRAFLRSGADVNRGNDVGETPLMRSTLVTNNFERESFNQL",
+             "LELLHPSLWTLDNQDRTVLHHICLTASIKGRGESSRYYLECICEWIVNKHGAQFDSQLFDAVDLNGDTALNIAARVGNKH",
+             "LVRMLLDVGADMTIGNNLGLKPIDFGVGAGETSASYTDDMISAPLRRNPTASAPARSSRDIITSITSSVNSLSEDFENEI",
+             "RSKTDRLESVRAQLMVATRQLTTQRRQLESLKHDLDERALLELRLKKLRMAIAEEDGFDWTGRSDLDGRPAQAGKLFEQN",
+             "GIASTLAGLSASQIQLELEPDPFIPPENNQDSLVYLRRLEKWYVRVLSLLRERIGRMKGSNLEQEAKYLKVIGSFIGNTC",
+             "TNDLSSSGSSMTGRPANQTTSTTQEVPSRATQNVNPADIHDLESMDGHRRKVSTTDAVNKSHEFGRTRSELLKASMIDNK",
+             "LLKQLMAAIESDGPELDLNRVAGFMQRVQSGSL"]
+  },
+  { "name" : "MBPA_ASPNI",
+    "RefSeqID" : "XP_664319",
+    "UniProtID" : "Q5AYB5",
+    "taxonomyID" : "227321",
+    "sequence" : [
+             "MTTSNHHQQRPSLSMSYSQGSIGSANGMSFSQSQMSSLNASQSVASTPRATPPPKSSQQSAMSFNYSNGLPNGARASFSG",
+             "FEDMNGYGTMIYHEEFKPQIYRAVYSNVSVYEMEVNGVAVMKRRSDGWLNATQILKVAGVVKARRTKTLEKEIAAGEHEK",
+             "VQGGYGKYQGTWVNYQRGVELCREYHVEELLRPLLEYDMNPNGTAASGQDSLDTPTKEQAMAAQRKRLYSGMENRSMSQP",
+             "QQGTFFQNISRTAATAVNAMSKARFESPAARGGDSRRLSVIRKPSQQMGSQDAQPPFGSQQSFYSAASDSGFASNIPTNG",
+             "RYAPQDAMSFEQEEPMEPPRKRIRSSQAFSLPIDGTSMSMSEPTPTEPNDSFYQDMEPLHHIDEGRHGLDPLPPATTPER",
+             "FQKMKLIMTLFLDKTTKDFSTHPALIQLSGEDLEVPLDEYRNNALHWAAMLARMPLVYALVKKGVNIARLNGAGETALQK",
+             "AVGTRNNLDYRSFPRLLQVLAPTIDMVDRSGRTILHHIAVMAATGHGGHVSAKHYLEALLEFIVRHGGTSLNQQSNGTAS",
+             "QPGMPLSNEVITLGRFISEIVNLRDDQGDTALNLAGRARSVLVPQLLEVGADPHIPNHTGLRPADYGVGVDMVDGSSQPA",
+             "GSRSDTFLAQLAKTRKEILEATTAQVTAIVQETLGTFDKELAASLTSKQEKFDHWHAKIRESAKARQIEQKQLDELKRRS",
+             "IDRTETSRRLKNLEKSSTDLLEAHKEILTNLGDTSKPVSLGDADQESGFEIAEFEALFPETFDPASGFSEAQIAYLRKLP",
+             "SAEILEQRVSCYRAFNKETLDEIDALRSKNVVLGQNYRRMVMACTGWSAEQVDEAAEGLTQCVKELNDNPVPEDEAIEIL",
+             "MRDRGQDW"]
+  },
+  { "name" : "05520_CRYNE",
+    "RefSeqID" : "XP_570545",
+    "UniProtID" : "Q5KHS0",
+    "taxonomyID" : "214684",
+    "sequence" : [
+             "MEPPSNPIQPPVTPSHHSLLSAISPALSEQTPAPIHTLPPHLRPSIPQPHIAPPRPSSVQPTMEEQQRMHHIQQHQQQQH",
+             "FQQQQNDENVFGSVMGAPGHVPGHEAPMSTQPKVYASVYSGVPVFEAMIRGISVMRRASDSWVNATQILKVAGVHKSART",
+             "KILEKEVLNGIHEKIQGGYGKYQGTWVPLDRGRDLAEQYGVGSYLSSVFDFVPSASVIAALPVIRTGTPDRSGQQTPSGL",
+             "PGHPNQRVISPFANHGQTTPHMPPPQFIHQGNEQMMNLPPHPSSLAYPTQPKPYFSMPLQHTVGPQYDERHEGMTMTPTM",
+             "SMDGLAPPADIARMGFPYNPSDIYIDQYGQPHATYQASPYGKESGHPSKRQRSDAEGSYIESGAAVQQHVEQDEEADDGL",
+             "DNDSTASDDARDPPPLPSSMLLPHKPIRPKATPANGRIKSRLVQIFNVEGQVNLRSVFGLAPDQLPNFDIDMVIDDQGHS",
+             "ALHWACALARLSIVQQLIELGADIHRGNYAGETPLIRAVLTSNHAEAGSFTDLLHLLSPSIRTLDHAYRTVLHHIALVAG",
+             "VKGRVPAARTYMASVLEWVAREQQANNTHSITNPPNPADRNELAPINLRTLVDVQDVHGDTALNVAARVGNKGLVGLLLD",
+             "AGADKTRANKLGLRPENFGLEIEALKISNGEAVMANLKSEVSKPERKSRDVQKNIATIFESISSTFSSEMLAKQTKLNAT",
+             "EASVRHATRALADKRQHLHRAQEKLATMQLFEQRSENVRRIMDAIAAGTLLTPAEFTGRTQTMHEKSTGQLPPLAFRHVP",
+             "GLALDASSQSQLNGAPPSTPLSVEDQEDIALPERDDPECLVKLRRMALWEDRIAEVLEDKIRAMEGEGVDRAVKYRKLVS",
+             "VCAKVPVDKVDSMLDGLVAAVESEGQGLDFSRASNFVNRIKATKS"]
+  },
+  { "name" : "RES1_SCHPO",
+    "RefSeqID" : "NP_595496",
+    "UniProtID" : "P33520",
+    "taxonomyID" : "284812",
+    "sequence" : [
+             "MYNDQIHKITYSGVEVFEYTINGFPLMKRCHDNWLNATQILKIAELDKPRRTRILEKFAQKGLHEKIQGGCGKYQGTWVP",
+             "SERAVELAHEYNVFDLIQPLIEYSGSAFMPMSTFTPQSNRKPTEAYRRNSPVKKSFSRPSHSLLYPYTSSNNMTSTSRMS",
+             "GIHDALSLQSDFTRSPDMPSDSFTGSLHDIKASPFSSNNYAQSLLDYFLLPNTTQPPDFVYDRPSDWDVNAGIDEDGHTA",
+             "LHWAAAMGNLEMMHALLQAGANVVAVNYLQQTSLMRCVMFTMNYDLQTFEVVSELLQSAICMNDSFGQTVFHHIALLASS",
+             "KSKMEAARYYMDILLQNLTATQSVDVAAQIINLQDDHGDTALLICARNGAKKCARLLLSFYASSSIPNNQGQYPTDFLSS",
+             "KDMSFPENDDSPLNSKIEDNLIDNLKYPQSLDDHLSSKKPISYFSNKLTHQTLPNVFTQLSELSKCHEASLAEKQLTYNL",
+             "AMEALEQTVRETETCQRLWNERTNNDENYLVNQREDLIHQCKKFLHTLKTARYYLETVQLHQLKKYVTYFSQIWSTDELA",
+             "DISETKNLVGHDTKTNRSSLSSKHEVDLFTAENEAAREKLVEQLCSLQAQRKQKINEILNLLSMGMYNTINTDQSGS"]
+  },
+  { "name" : "CDC10_SCHPO",
+    "RefSeqID" : "NP_596132",
+    "UniProtID" : "P01129",
+    "taxonomyID" : "284812",
+    "sequence" : [
+             "MASANFIRQFELGNDSFSYQKRPEDEPSQPLSNRNINKLNDSSTLKDSSSRIFINSQVLRDGRPVELYAVECSGMKYMEL",
+             "SCGDNVALRRCPDSYFNISQILRLAGTSSSENAKELDDIIESGDYENVDSKHPQIDGVWVPYDRAISIAKRYGVYEILQP",
+             "LISFNLDLFPKFSKQQQIESSSISKNLNTSSFNTRSPLRNHNFSNPSKSSKNGVHTINNMQSSPSPSSSFLLPLTQIDSQ",
+             "NVKRSNNYLSTSPPILEQRLKRHRIDVSDEDLHPSSQLNDNEASSLFPDTPRLNHSLSFVSLVSSLPPLDQNIMQDYHTS",
+             "KDILTSIFLDVNFADSSALEAKLSDSLDLDVPIDELGHAALHWAAAVAKMPLLQALIHKGANPLRGNLTGETALMRSVLV",
+             "TNHLNQNSFGDLLDLLYASLPCTDRAGRTVVHHICLTAGIKGRGSASRYYLETLLNWAKKHASGNNGYMLKDFINYLNHQ",
+             "DKNGDTALNIAARIGNKNIVEVLMQAGASAYIPNRAGLSVANFGIFVENALKQPEDSKQTKVSLMSENLSSKEKTAVPPR",
+             "QKSRDIIASVTDVISSLDKDFQDEMAAKQSMIDSAYTQLRESTKKLSDLREQLHVSETQRTLFLELRQRCKNLMTSIEEQ",
+             "KSELSNLYESFDPNGIHDSLSLDADAPFTVNENNNKNLSIAELKFQVAAYERNEARLNELANKLWQRNSNIKSKCRRVVS",
+             "LCTGVDESRVDSLLESLLQAVESDGQQGEVDMGRVAGFLRVVKEHQA"]
+  },
+  { "name" : "05338_USTMA",
+    "RefSeqID" : "XP_011392041",
+    "UniProtID" : "A0A0D1BWD8",
+    "taxonomyID" : "237631",
+    "sequence" : [
+             "MPLNYFANQDQTASDTYAHEASSFPAPSSILTDTSKPLQPVQEVAASSLVDGVSFTSPHASIIHASKQSPRAASSLSFTT",
+             "SALQRAGLLPANPNMSTTATSGTSAASESLQRVITQGTASAAAINGASTPAHSGPLTPAHLKNLTPAQANAALQNPVGNI",
+             "PTVYLATYSNVPVYEITVRGIAVMRRRGDGWLNATQILKIAGIEKTRRTKILEKSILTGEHEKIQGGYGKFQGTWIPLQR",
+             "AQQVAAEYNVSHLLQPILEFDPATADQIPKLYQRKKPAASARNSSASAINDARGSTPSKIYSPAPASLGGPSQQPRFLSL",
+             "RPPKETHEQEISSAIFMPPGTAGLLSNGTFVDDRAASALAYPGPPAIPPGSTPAEQAALRSYNVYGYTPQGVPLPSSAAA",
+             "DGNGTEAAATAASTGAGKREASETDQDGASAAKRSRLTSPQQQRRDDGLLLGPSPVKDLNALGPAGGSLRAASAPRGHRI",
+             "TVGPPDAAGRDGAVPRYADRALPPKPYDEGEKRMRDRLVSLFSDDGVLPGVSEATGAGASQSAADEDDDAYVAKLDSLLA",
+             "DLREKASLGGLGASGTDGPKATVDLITDDHGHTALHWASALCRVKLVRTLVARPPWQGGANIHAGNHAGETALHRSVLVT",
+             "NSYDASSFPTLLNLLSSSLNTRDFKKRTVLHHISLVAALKGRAASARYYLACVLEHISAEKNSKYKGLIDAQDEDGETAL",
+             "GIVARLGNASMVRMLLDVGARKDLANALGIRPSDWGIESSADGASLTPSQNDGTNTVASLPPLTAADLASQNPSDIISAL",
+             "TRPAQVPVMKSSDVRDQLSSTLDDLQSSFERELKEKQDAVSTVQSHLQAATRDLAARRKTVSAAQAKLAEKDEARQRVQN",
+             "LRRAIVAQLGLEEADADLSLEQLVEEAANAASAAPADKSADKMDIDGAEDVKPVRASNLETLIDDILSFDTIQSDLKAVG",
+             "TSAVTQEVVEQDELVRLRWLVSFYQSSCDELSSTISELEDSSAKKESQCQQVVAICANIPQDKVESMLDELLTAMESDGP",
+             "DVDLARVANFMQKVGKTRENGDQPGVGAQLSSSTSLSTAVSSGGTAASSVVPAVERDGEDAKPDA"]
+  },
+  { "name" : "SWI4_SACCE",
+    "RefSeqID" : "NP_011036",
+    "UniProtID" : "P25302",
+    "taxonomyID" : "559292",
+    "sequence" : [
+             "MPFDVLISNQKDNTNHQNITPISKSVLLAPHSNHPVIEIATYSETDVYECYIRGFETKIVMRRTKDDWINITQVFKIAQF",
+             "SKTKRTKILEKESNDMQHEKVQGGYGRFQGTWIPLDSAKFLVNKYEIIDPVVNSILTFQFDPNNPPPKRSKNSILRKTSP",
+             "GTKITSPSSYNKTPRKKNSSSSTSATTTAANKKGKKNASINQPNPSPLQNLVFQTPQQFQVNSSMNIMNNNDNHTTMNFN",
+             "NDTRHNLINNISNNSNQSTIIQQQKSIHENSFNNNYSATQKPLQFFPIPTNLQNKNVALNNPNNNDSNSYSHNIDNVINS",
+             "SNNNNNGNNNNLIIVPDGPMQSQQQQQHHHEYLTNNFNHSMMDSITNGNSKKRRKKLNQSNEQQFYNQQEKIQRHFKLMK",
+             "QPLLWQSFQNPNDHHNEYCDSNGSNNNNNTVASNGSSIEVFSSNENDNSMNMSSRSMTPFSAGNTSSQNKLENKMTDQEY",
+             "KQTILTILSSERSSDVDQALLATLYPAPKNFNINFEIDDQGHTPLHWATAMANIPLIKMLITLNANALQCNKLGFNCITK",
+             "SIFYNNCYKENAFDEIISILKICLITPDVNGRLPFHYLIELSVNKSKNPMIIKSYMDSIILSLGQQDYNLLKICLNYQDN",
+             "IGNTPLHLSALNLNFEVYNRLVYLGASTDILNLDNESPASIMNKFNTPAGGSNSRNNNTKADRKLARNLPQKNYYQQQQQ",
+             "QQQPQNNVKIPKIIKTQHPDKEDSTADVNIAKTDSEVNESQYLHSNQPNSTNMNTIMEDLSNINSFVTSSVIKDIKSTPS",
+             "KILENSPILYRRRSQSISDEKEKAKDNENQVEKKKDPLNSVKTAMPSLESPSSLLPIQMSPLGKYSKPLSQQINKLNTKV",
+             "SSLQRIMGEEIKNLDNEVVETESSISNNKKRLITIAHQIEDAFDSVSNKTPINSISDLQSRIKETSSKLNSEKQNFIQSL",
+             "EKSQALKLATIVQDEESKVDMNTNSSSHPEKQEDEEPIPKSTSETSSPKNTKADAKFSNTVQESYDVNETLRLATELTIL",
+             "QFKRRMTTLKISEAKSKINSSVKLDKYRNLIGITIENIDSKLDDIEKDLRANA"]
+  },
+  { "name" : "SWI6_NEUCR",
+    "RefSeqID" : "XP_962967",
+    "UniProtID" : "Q7SBG9",
+    "taxonomyID" : "367110",
+    "sequence" : [
+             "MQPPQLGGASQQSQPSSQQSFSMSQSSQSVYRQYTDPPNRLHNDHAVPTIYSATYSGVGVYEMEVNNVAVMRRQKDGWVN",
+             "ATQILKVANIDKGRRTKILEKEIQIGEHEKVQGGYGKYQGTWIPFERGLEVCRQYGVEELLSKLLTHNRGQEGETGNVDT",
+             "PTKEQAMAAQRKRMYNASSQENRGIGSTGTFFKNISSTASTAVAAISKARFDSPAPRNRSGPSRAPSFNRQSSMQDVADF",
+             "PNSQQSLVSTEYATQTQNADSGFGSQTTQPLAGDGLEQPPRKRQRVLTPARSFGGQTPGHQPLDPFNAGNIANGDSGSPT",
+             "EPSNSFNYDQVTANDGDASYALGPLRPLPYENNADAEAKRGMLMGLFMDANGPEEAIQAALCNVSPQELDSPIDTQSHTA",
+             "LHWAATLSRMPLLRALIHAGANPWRVNACGETALMRACTVTNSMENNTFPELLDLLGCTLDVTDDKGRTVLHHIAVTSAV",
+             "KGRHYASRYYLESLLEWVVRQGSAPSSQENGIGDRKGRRMGIARFMSEIVNAQDNSGDTALNVAARVGNRSIISQLLEVG",
+             "ADPTIPNRANLKPLDFGIGIADAETNDDPAQEKTGATTGSGHKSRETSDEVVRSITHLIGESASIFQNELKKKQESIDTL",
+             "HSQLRVTSSQVGDARRTLESLQEKLKAQQLAKQKIVNFNRACEEEEQILIELEQRHGRLDVASANAWEMELESALEIVKT",
+             "QSPKGLDPDSRPSLPSAAVLRARIKALRARSSKTRQAVAALQAQSKEKELKYRRLVSLCTRRPEIEVEALLDTLTRAVES",
+             "EKPELEIARVRRFLGGVEGVVH"]
+  },
+  { "name" : "15042_USTMA",
+    "RefSeqID" : "XP_011388143",
+    "UniProtID" : "A0A0D1CVS5",
+    "taxonomyID" : "237631",
+    "sequence" : [
+             "MSTASPLHHGHGNGSYANSPAPTGVTGRDAGVAAAAVADSAVRSGSVPASASGSAPGSASGSMYGEAHTQHHTGHHHYSA",
+             "HHTHSHGALTSPVNGGHSSSWSPYGYPAAPVYGGSPSPYGHNAYSQYASGYGYANGTAHHVATAPTTPSATSTAYHTGVN",
+             "GMMMHHGQHAGYGYSSHHLGSHTPTHTHTHSSAYFMNGDGAHSHLNSSAHLTSPSYTTAPQYSTQLPLAGRHRVTTTLWE",
+             "DEGTLCFQVDARGVCVARRHDNNMINGTKLLNVCGMSRGKRDGILKNEKERIVVKVGAMHLKGVWISFARAKQLAEQNGI",
+             "ADALYPLFEPNIQSFLYHPDNYPRTAAVIAAAQERQAQRQRAPGGQPSPGANGTSQAPPLMRANTTPSNGDTSTFSSGLS",
+             "SLGSWTGSHDQGHASAPTTAQPSPSSMHNGATQMHMSLSNHGTASPTYAQSQQQQQQQQQQQQQQQQQQQQQQQQAYPMT",
+             "AAQQLARPSVGDRRQSAPISLNNSVGHAENPYGATNLGGAANGGLVNGARKVSGLKRSWNDADDLNGSAAASPTERDMQR",
+             "SGSGGSNGLKLDGDDLHSPDSSDDRLAKKTRGMPQRGGGATTAMPSMSTNMLMGVGNGSGIHHE"]
+  },
+  { "name" : "04778_USTMA",
+    "RefSeqID" : "XP_011391646",
+    "UniProtID" : "A0A0D1DQM4",
+    "taxonomyID" : "237631",
+    "sequence" : [
+             "MNQAPLSATGVNFYISGPRPARLFPTPIHEFRKGKYATAGGESGFMTVFEYDVRGHTMMIDVDTSFVRFTSITQALGKNK",
+             "VNFGRLVKTCPALDPHITKLKGGYLSIQGTWLPFDLAKELSRRIAWEIRDHLVPLFGYDFPSTCLRPDSEGFGQLAIGMS",
+             "QKRARKRHNNGGPHQTSCYGPSLPISIELWQHSTDPLRDLGESSVVGGQAIEHVSAKNSAVQPCYGSSQPATFHYSKGYG",
+             "LESRPWYGQDYLESNSLESMWNSAQAGGGSVGLQVPISTCGATASPCLAAIGANGGSPILSSPPSSNASSSSNQSYTAAG",
+             "YGLMVPPTVPSHSVNSEAGANQAEGPTPIDGSRSYASLTAHGYATGYGDANASLSTWNDATHASTFTLHVHAHVHFQPPD",
+             "PESAQLFTIHDFGSDPFYAEQVERG"]
+  },
+  { "name" : "STUA_ASPNI",
+    "RefSeqID" : "XP_663440",
+    "UniProtID" : "P36011",
+    "taxonomyID" : "227321",
+    "sequence" : [
+             "MASMNQPQPYMDVHSHLSSGQTYASHPATAGALTHYQYPQQPPVLQPTSTYGPASSYSQYPYPNSVASSQSVPPPTTSIS",
+             "SQVPAQLLPLPVTNHPVPTHGYGNNSGTPMQGYVYDPTGQMAPPGAKPRVTATLWEDEGSLCYQVEAKGVCVARREDNGM",
+             "INGTKLLNVAGMTRGRRDGILKSEKVRNVVKIGPMHLKGVWIPFDRALEFANKEKITDLLYPLFVQHISNLLYHPANQNQ",
+             "RNMTVPDSRRLEGPQPVVRTPQAQQPPSLHHHSLQTPVPSHMSQPGGRPSLDRAHTFPTPPARMNSSVPNTQPLSIDTSL",
+             "SNARSMPTTPATTPPGNNLQGMQSYQPQSGYDSKPYYSAAPSTHPQYAPQQPLPQQSMAQYGHSMPTSSYRDMAPPSSQR",
+             "GSVTEIESDVKTERYGQGTVAKTEPEQEQEYAQPDSGYNTGRGSYYTTNPSVGGLAHDHSQLTPDMTGSPQQNGSGRMTP",
+             "RTSNTAPQWAPGYTTPPRPAAASSLYNIVSDTRGTSGANGSTSDNYSVASNSGYSTGMNGSMGSNKRMRDDDDDRIVPPD",
+             "SRGEFDTKRRKTLTETPVGGPVGGVPLGLQPMKAGGSLISARR"]
+  },
+  { "name" : "STUA_NEUCR",
+    "RefSeqID" : "XP_960837",
+    "UniProtID" : "Q1K6U0",
+    "taxonomyID" : "367110",
+    "sequence" : [
+             "MNPNTPADVYYGQMSQGSSMPVTTVPSHSHYASQQPPPLLQPGSTYAHQYGTPQYGYANALSSPASIPPSLPPSMNSMAG",
+             "QSVLPLPGSGSMNPAVYASGGFDTTGQVAPPGMKPRVTATLWEDEGSLCFQVEARGICVARREDNAMINGTKLLNVAGMT",
+             "RGRRDGILKSEKVRHVVKIGPMHLKGVWIPFERALDFANKEKITELLYPLFVHNIGALLYHPTNQSRTSQVMAAAEQRRK",
+             "DSHGQLRGPPGLPSLQQHHHHHSMLPGPPSLPSHPSMGRPALDRAHTFPTPPTSASSVMGPMGNSDGYQWSQQSMSGTQG",
+             "NSSLSLDTSLGSNARSMPSTPATTPPGSTIQSMQNYPPVSQSYESSRQMYQGQSAQQAQYQSQQHYSSQPQHQERPVYSQ",
+             "SSYIKNDMGPPSGRPTGQSNDASDSKPPTGMIHQGQGQSDPGTHAGSEEDDDANNEAEYTHDSGGYDANRGSYNYNTQAV",
+             "NSLPHDHGLAPEIGGSPHQAGSGRATPRTAAAPSSYYSAQGYHTPPRGQPSSSLYNVMSNERTGSNGTQGNEMYAGQADM",
+             "PSSLPNGYSAQPSVMNGSSGGLKRGRDDDDDGGRPTTSAPNLGPGMDMKRRKTMMDGGSLPSPTYTATIAQAAPSAIAAH",
+             "RRR"]
+  },
+  { "name" : "PHD1_SACCE",
+    "RefSeqID" : "NP_012881",
+    "UniProtID" : "P36093",
+    "taxonomyID" : "559292",
+    "sequence" : [
+             "MYHVPEMRLHYPLVNTQSNAAITPTRSYDNTLPSFNELSHQSTINLPFVQRETPNAYANVAQLATSPTQAKSGYYCRYYA",
+             "VPFPTYPQQPQSPYQQAVLPYATIPNSNFQPSSFPVMAVMPPEVQFDGSFLNTLHPHTELPPIIQNTNDTSVARPNNLKS",
+             "IAAASPTVTATTRTPGVSSTSVLKPRVITTMWEDENTICYQVEANGISVVRRADNNMINGTKLLNVTKMTRGRRDGILRS",
+             "EKVREVVKIGSMHLKGVWIPFERAYILAQREQILDHLYPLFVKDIESIVDARKPSNKASLTPKSSPAPIKQEPSDNKHEI",
+             "ATEIKPKSIDALSNGASTQGAGELPHLKINHIDTEAQTSRAKNELS"]
+  },
+  { "name" : "08099_COPCI",
+    "RefSeqID" : "XP_001836714",
+    "UniProtID" : "A8NVH3",
+    "taxonomyID" : "240176",
+    "sequence" : [
+             "MSTGMLQETLQTTSASTSGTRFRPYASPNHQVTKGRYITSNDPRGYIPVYEYPLNGQWIMMDIDDGYILWTGIWKALGNS",
+             "KADIVKMIDSQPDLAPLIRRVRGGYLKIQGTWMPYEVALKLSRRVAWPIRHDLVPLFGPTFPSTCLSPDQPGYGQVVASS",
+             "NVRRRARRNTQATAQPPREAHSNWTVMTPGPMVGLSFPHSQFSRPPLPPLAPTPARSPSDYAPSSHYGNQLDPQDARRYS",
+             "HSPYSPLASPPERKSSISSKALSLEIPPVRPSSSKAREDISLPPLKQPDGADPEMSPYALPPISALEDLRGVDTQDSAAV",
+             "LRRLRLDDDYPSSSRSSTSQDSIWGRRHSLSAHSPHPRSSDNSRFQPYLSSRSYQDSTLKRSRSPAESYADRRRASDFSQ",
+             "EDSTSAYSPISPATPNSSILSHSSFSDLKKLASSTDTRYNFPRISGRDWAPLKGDTDHIRSSYRSGPSPLELDSDSESSA",
+             "PHRPW"]
+  },
+  { "name" : "68479_WALME",
+    "RefSeqID" : "XP_006957792",
+    "UniProtID" : "I4YDE0",
+    "taxonomyID" : "671144",
+    "sequence" : [
+             "MTNKVQELWWEENKTRVWQVEVDNGNYVARRQDNDQINGTKLLNITKITRGKRDGILKNEKSRQVVKTGTITLKGVWIPF",
+             "ERAIILARQFNIEQQLYPLFETNLGDYVENSIGSHQIKRKSLNNLMDSLTTNRELVSKRRSTVSTYNPATSAYVSPYGFS",
+             "PQHCYQTEFEDMNQHSGEIQSGRPRNTSSASDWMTNWSTSSSSPVIPATPNTFSPVMNTFQSLALHSPPIPIPNYYYDSS",
+             "SSYFPSYHQKQQQQQVQMQMQMHTTASIGGDRQSNEYIQR"]
+  },
+  { "name" : "11943_PUCGR",
+    "RefSeqID" : "XP_003330006",
+    "UniProtID" : "E3KMR2",
+    "taxonomyID" : "418459",
+    "sequence" : [
+             "MAAAPTSSFLTSMSAQPPRTVQALVNEEVRAPPPVRLYPSQHRVSMTRYATSTDPRGYIPVFEYPLNGQYIMIDCETGMV",
+             "HFTGIWKALGHTKADVVKLVESDPTIAPYLRKVRGGYLKIQGTWLPFDTAQTLARRVAWQVRYDLVPLFGPDFPDTCLGP",
+             "GEPGFGQLLLSAPKPRGRRGAKKAAAAPTVAHERTASPQDNRSQSRPGPYPSQESFGNRCSGRVEAVGAMNGYSPMLSQA",
+             "RYSPYTRAPVHRITQLEPLPSLIQPNQSCPHPTADSMYSSHYHQSPRQSMMTSHGAGPYGQQHLTGSTASGMQSTAPLPS",
+             "MRPHQAHQSENNFFETYRGPDSFEALSNKWLAPEVANPSLNDSGLLHGEGGCLPPLQYSNNPVLRNGPSGSPTNQYNFPN",
+             "QIDSAHSSHHIDSNQTQHVHRHAGFPYESQHQSNFRHDLSTEEAAHHPASPSQQPPPSVTYDKAHNSEPQAGSQAANVTA",
+             "GCYAASGSNSTGNPAGSPGSHSSHVPKSPTPSSASTSTHMQNSHNPNSHRSPSNTLTNMSNNGGFNSNTQGEEAIQFSVL",
+             "TSPAHLETSGPSENSIPPAQSSDSDWNPAQNTTGLSPSQAPRQ"]
+  },
+  { "name" : "03082_PUCGR",
+    "RefSeqID" : "XP_003321545",
+    "UniProtID" : "E3JYK1",
+    "taxonomyID" : "418459",
+    "sequence" : [
+             "MILISPTRTLPSPRPIDTDPILNYRHIQPAAAAAAVGPWLGQNQHHHHHHDTLAKSPNITTAPATHSPSELSASPAPSAV",
+             "STGSSLLDPQSVPHIKIPHSSSPPAIMLPQPSSDDDSSTAEEEQPSAQSSNATLNTPTPHTNAPHQLDSHASSVGLYDLP",
+             "PTSSSAPTTSSSSSPFPSNVPSHQQPSPYSSSPHPNQEHHPHHPHHGNQFYQQSPPALHSPLQSAHHPQQSFDARPHSSL",
+             "FAHQHYHSRPQSAPHSTSQFSLDPHVLAAAAANVEVKKWDEENTYYYQVAHKGVTVGRLKGSGLVNGTKLLNLAGISRGK",
+             "RDGILKNEKIRKVVKHGTMHLKGVWIAFDRAVFLAEQHSIADKIFPLLVVNLEHYVPIEPPLMAGGTKLGPGSLFHHHHP",
+             "RHPRLLPQPIKFPPSTISLAPASANSFSSTGGWPSGPSSALPSIGYNEPFSAPPIPRSAATADTSPSIYEQAQFQYLNSA",
+             "QANNPDLLERRHTLPNNSFHGYNSVPSFGSSQPPPPVSYSFHYNSTHVPGYPPRSSTAESATPNQFEYQSKNHNGNGNGD",
+             "AAGSYPATLYHSQPAARPVSSTTAQPSPALNSAPLLLGDLSPGSSTQIVDHGAGDFRLSTGTSNGQVKQEGDDESCNEKR",
+             "LIMEWNPSC"]
+  },
+  { "name" : "SOK2_SACCE",
+    "RefSeqID" : "NP_013729",
+    "UniProtID" : "P53438",
+    "taxonomyID" : "559292",
+    "sequence" : [
+             "MPIGNPINTNDIKSNRMRQESNMSAVSNSESTIGQSTQQQQQQQQYLGQSVQPLMPVSYQYVVPEQWPYPQYYQQPQSQS",
+             "QQQLQSQPQMYQVQESFQSSGSDSNASNPPSTSVGVPSNATATALPNGSAITTKKSNNSTNISNNVPYYYYFPQMQAQQS",
+             "MAYSYPQAYYYYPANGDGTTNGATPSVTSNQVQNPNLEKTYSTFEQQQQHQQQQQLQAQTYPAQPPKIGNAFSKFSKSGP",
+             "PSDSSSGSMSPNSNRTSRNSNSISSLAQQPPMSNYPQPSTYQYPGFHKTSSIPNSHSPIPPRSLTTPTQGPTSQNGPLSY",
+             "NLPQVGLLPPQQQQQVSPLYDGNSITPPVKPSTDQETYLTANRHGVSDQQYDSMAKTMNSFQTTTIRHPMPLIATTNATG",
+             "SNTSGTSASIIRPRVTTTMWEDEKTLCYQVEANGISVVRRADNDMVNGTKLLNVTKMTRGRRDGILKAEKIRHVVKIGSM",
+             "HLKGVWIPFERALAIAQREKIADYLYPLFIRDIQSVLKQNNPSNDSSSSSSSTGIKSISPRTYYQPINNYQNPNGPSNIS",
+             "AAQLTYSSMNLNNKIIPNNSIPAVSTIAAGEKPLKKCTMPNSNQLEGHTITNLQTLSATMPMKQQLMGNIASPLSYPRNA",
+             "TMNSASTLGITPADSKPLTPSPTTTNTNQSSESNVGSIHTGITLPRVESESASHSKWSKEADSGNTVPDNQTLKEPRSSQ",
+             "LPISALTSTDTDKIKTSTSDEATQPNEPSEAEPVKESESSKSQVDGAGDVSNEEIAADDTKKQEK"]
+  },
+  { "name" : "14426_COPCI",
+    "RefSeqID" : "XP_002911429",
+    "UniProtID" : "D6RMB0",
+    "taxonomyID" : "240176",
+    "sequence" : [
+             "MTARPPLPLRHANPSLRDGNATIPPVKYQILSCQGKDILVGRLKIDTTDGGHAFILRRFDTQAISLTTMFRAAFPTASEA",
+             "EEKDEINYVKANFDLFGNNGSSKEPHITRLAGTWVNRDTAGQLAHDYNMVDLINTMVEAEPDPNGQYRRSNKSAQNNNPP",
+             "TNAPEPTPATNVHATRSPAKQSPKPPSKTLPTPSPGSGDAQPPAPKRRREGSPATFTSGIPVASSPAVPKTPGPRRSTRT",
+             "KSPAPSRVPQPLTATKPRSRASVAPPSPKKRPVDLPKSSPIKAEEDTAVEDNVAGNELYAQDISEQKKLIADLKAAASSK",
+             "KPADTVKEDDDQQMEEEGQGPSKLKRIRQDEEKPLQFEFKEPEREERQIATNRRVGRFDMQPERKSLAWGIAAFAFGMTA",
+             "ITYLPNFL"]
+  },
+  { "name" : "BQT4_SCHPO",
+    "RefSeqID" : "NP_596166",
+    "UniProtID" : "O60158",
+    "taxonomyID" : "284812",
+    "sequence" : [
+             "MTENEKSRSLPAERNPLYKDDTLDHTPLIPKCRAQVIEFPDGPATFVRLKCTNPESKVPHFLMRMAKDSSISATSMFRSA",
+             "FPKATQEEEDLEMRWIRDNLNPIEDKRVAGLWVPPADALALAKDYSMTPFINALLEASSTPSTYATPSRPTAQKSETSEG",
+             "EPESSTSATTTSVARRTRQRLAEHLENSKKTILQHDNKEEDKEIHSEENETKDEIKSEKKEPEIKKQEGGSSTEKVGQPS",
+             "SSDDKAKGSTSKDQPSEEEEKTSDIQDRKIKTPIKPSLLGKIRSSVNKGMTDVASQVNRGMTDVASQVNKGVNGVASQVN",
+             "KGMNGVANQVNKGVTGVASQVRKPVGKLEKKFENLEKSIGDTLKSSIRSSPKSKKRSREDFEENEDYNAMVPVKRSRITK",
+             "LESEVYYEKRKVRALGGIAIGLGVGAILPFLF"]
+  },
+  { "name" : "PGTG_05590",
+    "RefSeqID" : "XP_003323688",
+    "UniProtID" : "E3K4V4",
+    "taxonomyID" : "418459",
+    "sequence" : [
+             "MPKSSSCCEPEQKQSIPTNANPISAGGAGLDIRLAGMRSAHATLRGCSFSPYMVTQHPPLRDSVNRNKQQPTNNSTNPYT",
+             "KKASRMSQTNLYKSNNPPNLPQDEFNQTLVNYQGKLRSIRIQDININGHTITIARIKIPSPEKLSSHLIKRFDTNAISAS",
+             "SFFRSAFPHSTEEEEAIQMRYLHQIYDTHTAGAVEFGSARKLTGVWVPIENAAELAEVYGLTRFAEPLLAFPNPKENPRS",
+             "PTGTKIGGEDESSTTQTPKASQQSKLTGQISVTRSSKRSRAGPLSFGNTSPSSFSLNSFNKPPTETNKSGTHDDSKSTND",
+             "ENDEKPASPTDRVAGRGARNSPSKKPTTVDENHEHTEHEDHQLIGTDELAQRAKQEALKLVSELKNSQPCTQSSLESPTN",
+             "TLETELTRTTSPAKSNKVTRKRSSDEVSFEGEEQGEDEDEERTADETATHRSFLPKLLWRKSAAQAHPNSKKHKRTQLGG",
+             "GGSSSSSSKSFVPLLTNSATPSVDDSSSTHNPNKRNLAIAGIVIAGAAA"]
+  },
+  { "name" : "06560_NEUCR",
+    "RefSeqID" : "XP_962267",
+    "UniProtID" : "Q7S9H5",
+    "taxonomyID" : "367110",
+    "sequence" : [
+             "MAQVARHLPARRNPLMLEDVPSHTDLASRRRLGQTQLTPRMVTAVPGAEVDPSSLLAFDYAHLRAPLPKGIVSGIFKSSP",
+             "PSYFLMRRSQDGYISATGMFKATFPYASQEEEEAERKYIKSIPTTSSEETAGNVWIPPEQALILAEEYQITPWIRALLDP",
+             "SDIAVTATDSSAPKQIAPPPKFFGAQPPLVAPTPPTTRSTRSRPSSRRSSSPAKSTTTSKRGTTPRNTKRTVTTEASATT",
+             "VTTTATATAVPSAETPATSFADSQAPTLINGEIPTSTPINTVPVTKIQTTEAELKVESIEKEPVVVLEPIEEEPKIKVRV",
+             "DEDVKLDKDGEEVKHTKVELEVPLMAGEPPSKEEARKMIEEAKAMVEAAVKADAEAAAALVEASKAGAEDEKAEDEAKAE",
+             "TEATKEEEADSKGKRKAEKISVDEDEKAADEAEQPRQAKRVKTEAELRKDRIRKRAYLGLTATFAVGALGALLPIITPYV",
+             "ANVL"]
+  },
+  { "name" : "81480_BIPOR",
+    "RefSeqID" : "XP_007682909",
+    "UniProtID" : "W6ZKJ4",
+    "taxonomyID" : "930090",
+    "sequence" : [
+             "MVVDRVLPERKNPLLEPTDSTSIEILIERRRLGQTNLGVKAGVSGIANATKPENMGTFDYAHLRVPLPKDLTGSGIFSRN",
+             "RMSAFPESYFLMRRSSDGYISATGMFKAAFPWASLQEEDLERKYQKTFPSAGDEEVAGSVWIAPEEALALSEEYSMRHWI",
+             "EALLDPAPIEKGGKDKSNAAIQMPPRFDVANAQPATLPTFGFRQTRARSARSVSPSKAMTPGRKYATPRKGRSTRSAMKP",
+             "DATHADDMFRPIEAVTPSTALQNSIARRIAPAETIASSIEGEVKEVEQEVKAALDAEKKPEPELEVQEGTVHIEVKQTVE",
+             "TNGDTEKTSTSVTVDVPHDHAALPEPEDPTAMIEEAKRMVAEAQKLEGGSPSVTRSSKRGIEEVLDEEDLADERLNKLAK",
+             "KAYTTEQKMTKEKVTRRALVGLGVMAAIGTAFQYFV"]
+  },
+  { "name" : "01622_ASPNI",
+    "RefSeqID" : "XP_657766",
+    "UniProtID" : "Q5BH18",
+    "taxonomyID" : "227321",
+    "sequence" : [
+             "MVRSLPKKNNPFVTPDAAPPYEELLMRRRLGKTNLAVKPTQVGTSNATKPENLGPFEYAHLRAPLPKDLKGSEIFPSHSP",
+             "QQHPETYFLMRRSKDGYVSATGMFKIAFPWAKLEEERSEREYLKTRPETSEDEIAGNVWISPVLALELAAEYKMYDWVRA",
+             "LLDPTEIIQSPSSAKKQITPPPKFELPPIQAPEALVPSSRTRSRRSASPSKKAGTPRKPRQTKAQKEAAVAATNEANATL",
+             "QSALDDTVSNADGEINGDVLPSVEDKREPETSPVKGKKAAAKAKKQAVSEEDQEDKVKIEIKSDAAEGSDVQAAQTTISV",
+             "EMPISLPEAPSAEDTQEMIAKAKEMVKEAVKLQQEPAESSATAKKRGAEEAELGEEEEDEETKTLRTKRAKVLEEKLKRE",
+             "RVRNRALMGVTAAFALAKPALVLLEA"]
+  },
+  { "name" : "05405_ASPNI",
+    "RefSeqID" : "XP_663009",
+    "UniProtID" : "Q5B225",
+    "taxonomyID" : "227321",
+    "sequence" : [
+             "MASIQFLLNPLPSLPSSDRCPLPTPSPTISSSTAMLRSPRQKKQKMAKDAPIFQRGKPRGEVRYPPYEDRDGKFSCQHQD",
+             "FRIHPLGNIADYPRHIPYNSDKKSFQERTGRESFEVFQYTFQLPGEEKQWTVMWDYNIGLVRTTHLFKCNDYSKTTPAKM",
+             "LNQNPGLRDICHSITGGALAAQGYWMPYEAAKAIAATFCWKIRFALTPLFGDNFPDLCIHPDDRARFGRMVIDPGIVRIA",
+             "TEKANLYRMLELRCSTTNSLRADYVLRPSSAPDIDRTDPNLERDRVALGRHILPKSHRHHHHRSKTSPSTNTSLVGYGSS",
+             "PEVEYYSCGTEPYCVSPESPIRSSFTPVNTPRSTDIYPSSSSTNFLRSPHELLASLSSSASIARARIERASKISGARVIP",
+             "SSVPSNVTSITTKGRDNTGHSALMEESDIDADAETDSGHEHDLDFELSSSDESSTSSTVSSSTSSASLGFAANSRNRPYR",
+             "DDDEPHRDTDEEMVDYRAPKRIATAGARDRRWGRGRRVIHQEHSDIETSRRARKHAQRSSNARLVCEMTAAHALISLLHD",
+             "ATGSDVDVDTHNRLECGRSPDGGVKNNLKGSYFGIRLNHNPSTESGQKRRRASA"]
+  },
+  { "name" : "105954_BIPOR",
+    "RefSeqID" : "XP_007691967",
+    "UniProtID" : "W6Z1H5",
+    "taxonomyID" : "930090",
+    "sequence" : [
+             "MNIQDLLNPSCGDRHDHRRSESATPPSRPVAILPALRRQKIPKDAPIFSEGNRTVGIVNFAPHEAGNDEELLAQHCRFQI",
+             "YPLGEISRKGVRHIPYNSDKKDFLEKTGRDAFEMFQYTYKLPGEDKPYVVVWDYNVGLVRMTPFFKSCKYSKTIPAKTLR",
+             "ENPGLKDISYSITGGALVCQGYWIPYQAARAIAATFCYDIRWALTPVFGNDFPSICLTPDDPSFAKFVIDPAIVRYCTEE",
+             "TTKFRELGSAYEVHRPVAPTQVEAPTSRSDQPLSTSIVRQRRARPIDIESGYGTDTERNDRCLFSPEVSPRTRFTPINRP",
+             "RSPYSPRTAESSFVSSPVSIRAPPGLHTPTSTPYEHSGEVFRAKRSHSKVAFCEHPADEAVIRPPTAATVDSAHGCEMCV",
+             "GDDNHSHLDMDAAEMLLSLRTADSAMPPSKRTRRGS"]
+  },
+  { "name" : "69819_WALME",
+    "RefSeqID" : "XP_006959479",
+    "UniProtID" : "I4Y911",
+    "taxonomyID" : "671144",
+    "sequence" : [
+             "MTSPGLPKDFNELLDKSEIPSPKWQQITRDDRPITIARLKLPHPREKHTFILRRYDCNGISFGSLFKAAYPYATDEEEKI",
+             "ESGFVKKNYDVTLVPTEEYQERKLAKLAGFWIPIAIAEELGQRYAMAEYVDALAKADTPDLTDFKKRSSNRQTSEDIKSS",
+             "PAKAQASLESPAKSASKIPTPTKNPAPRRSARHQSRSPSPSPLTHNLTPGKKKAKKAPKEAVIEESVEETIVVDKKESPL",
+             "KKALNDDQVLADIERAKDLVDDIKQSKNLSQSSPVKVVKEEVLETIQPSVSTESLEGEGKRKRELEDETGNEIKVVSFGQ",
+             "NPPANPEEIQQRPVVQRRGVAAAVGAFALGVGFAASNILPRFLF"]
+  },
+  { "name" : "02840_CRYNE",
+    "RefSeqID" : "XP_568872",
+    "UniProtID" : "Q5KM59",
+    "taxonomyID" : "214684",
+    "sequence" : [
+             "MSHPAADAPPPYPGTTDDAQYDLTPLPHTANRPRLPEDKRNPHLNNLPEDTKIVKFQTIVRENKEIVVGRIKVPTENANG",
+             "THHAFILRRYDTNAISLTTMYKVAFPSATEEEEKREMDWVKSSFDTRGTNGGRDSEVVRLAGQWVSRNLAIHIAPAYNLV",
+             "QLVAALSRAVPDPNVAYRKSQRSQAAADELARTKAKQSQAPSSVPAISNVPVRKPQAAIPSMATEISSPASKRQRKDSVT",
+             "EASGSATQTITEAQPSADTSETDDTRHITIEATTTITSPSGANVDMDAEIEQAKQLVKDLRQEIQLRNEAGDSLEDQGVA",
+             "VADDVRGVKRGKHEDEAVVISGGAGGKDRVVRTNKRIPQTAGGDVGQRFGWGAFVFSIGLGASLTLFSQYASSLL"]
+  },
+  { "name" : "11055_USTMA",
+    "RefSeqID" : "XP_011390537",
+    "UniProtID" : "A0A0D1DZM8",
+    "taxonomyID" : "237631",
+    "sequence" : [
+             "MPAAASARKSTPTRKSTPRRARSSSVTSNASTGVPASPSASPRKTKKQKEAAAAAAAAVAAAAATAEQVNDDESDLLRPK",
+             "LPTKRNPRLKEVDEAVVKLQIIKREGHNIIIGRVKLPTVNGQDHAFLLKRFDTNAMAASSMFRLAFPFADGTAEAAEMRF",
+             "LDTKYDTNRANGGYIVEEVKVPETPKKRGRTRKTAENSKKESTPDTESVSADKQIRVLPEGSTGVRLQGTWIPAEDAIEV",
+             "AEDYGIAKYALALIHATAEHAEDGGAPILTSEPVAEVKTPRKRQRVSAAAATASDTPDSPQLVQRVTRLENADGSISKVR",
+             "VESTLEAPSSNGVPVALSQAEIEEQIAQAKALAAGIQQSITAGSGSASTRGQKRRAVNDRPTAEIDPLADDEDYSESGRV",
+             "VRAFRRGTRVARRRPIATTAGAVAAAGAVGAGALAWVSGGNPEVAIQTLQASMQSIGLQNLQNLGLQNLQQIGTQLGAHL",
+             "ASILPW"]
+  },
+  { "name" : "XBP1_NEUCR",
+    "RefSeqID" : "XP_962373",
+    "UniProtID" : "Q7S9W7",
+    "taxonomyID" : "367110",
+    "sequence" : [
+             "MLNQNPGLKDIAYSITGGAIKAQGYWMPYACAKAVCATFCYQIAGALIPLFGPDFPSECISPGEPRYGIMIIKPELISDT",
+             "MRKAQELYRRYGNWGGGCTSSSPARRPLRTASSGSQERHHHHPYPNQEHLDHQQQQQRTVCSRRCPAEENSCVDARPQLR",
+             "GISAPMPPAGEWTPPLLRSSAGRPRPVMPTSTHSSISYPERAPHRSAWTAVNHQPPNNSLDRYSLKRPLPSNEPDESVSH",
+             "SNWPSRSQAPNPWLTAIPRSPRKTSSSPWASQPGSASRSRAGSIDSMASQHPQGLPSPSLILSSPSSSMVSLSSSNSPSP",
+             "RPQLPPISQLCSLPVPSGRRRLPNGRPSRVGGDATSSHSRQDHSTCGAYQFSAGYQRALTPPSSTSAPMHWRSQRRPSLQ",
+             "DQHEHEHIEDTQPRRIAVEANMECGDDNESHLHLPLPLPRTSSSASIVADKNANDTTSDNSSSRNFNSASIGSGRDDGQT",
+             "SLAARKTAALTLLHLRQQEEEKEAAAAAAAAAAAAYSSTKRPESPSSSLSSPVSPPPTSGQPSPTLSAVVTATNLRRGTT",
+             "TATATAVIDTTEPLAPPPSPSSNYLGSPISTSIASSSSSFSPSTSCNGTRENSVVANEMTRYAGQEADAGGPRHCNGDAD",
+             "DEGDYEHEQQYRRKRRRLLLVGRAKSF"]
+  },
+  { "name" : "XBP1_SACCE",
+    "RefSeqID" : "NP_012165",
+    "UniProtID" : "P40489",
+    "taxonomyID" : "559292",
+    "sequence" : [
+             "MKYPAFSINSDTVHLTDNPLDDYQRLYLVSVLDRDSPPASFSAGLNIRKVNYKSSIAAQFTHPNFIISARDAGNGEEAAA",
+             "QNVLNCFEYQFPNLQTIQSLVHEQTLLSQLASSATPHSALHLHDKNILMGKIILPSRSNKTPVSASPTKQEKKALSTASR",
+             "ENATSSLTKNQQFKLTKMDHNLINDKLINPNNCVIWSHDSGYVFMTGIWRLYQDVMKGLINLPRGDSVSTSQQQFFCKAE",
+             "FEKILSFCFYNHSSFTSEESSSVLLSSSTSSPPKRRTSTGSTFLDANASSSSTSSTQANNYIDFHWNNIKPELRDLICQS",
+             "YKDFLINELGPDQIDLPNLNPANFTKRIRGGYIKIQGTWLPMEISRLLCLRFCFPIRYFLVPIFGPDFPKDCESWYLAHQ",
+             "NVTFASSTTGAGAATAATAAANTSTNFTSTAVARPRQKPRPRPRQRSTSMSHSKAQKLVIEDALPSFDSFVENLGLSSND",
+             "KNFIKKNSKRQKSSTYTSQTSSPIGPRDPTVQILSNLASFYNTHGHRYSYPGNIYIPQQRYSLPPPNQLSSPQRQLNYTY",
+             "DHIHPVPSQYQSPRHYNVPSSPIAPAPPTFPQPYGDDHYHFLKYASEVYKQQNQRPAHNTNTNMDTSFSPRANNSLNNFK",
+             "FKTNSKQ"]
+  }
+]
diff --git a/data/refAnnotations.json b/data/refAnnotations.json
index eafc3fe..b551dd0 100644
--- a/data/refAnnotations.json
+++ b/data/refAnnotations.json
@@ -1,116 +1,116 @@
-[
-  {"pName" : "MBP1_SACCE", "fName" : "APSES fold", "start" : "4", "end" : "102"},
-  {"pName" : "MBP1_SACCE", "fName" : "KilA-N", "start" : "22", "end" : "105"},
-  {"pName" : "MBP1_SACCE", "fName" : "low complexity", "start" : "108", "end" : "122"},
-  {"pName" : "MBP1_SACCE", "fName" : "low complexity", "start" : "236", "end" : "241"},
-  {"pName" : "MBP1_SACCE", "fName" : "low complexity", "start" : "279", "end" : "307"},
-  {"pName" : "MBP1_SACCE", "fName" : "low complexity", "start" : "700", "end" : "717"},
-  {"pName" : "MBP1_SACCE", "fName" : "Ankyrin fold", "start" : "394", "end" : "423"},
-  {"pName" : "MBP1_SACCE", "fName" : "Ankyrin fold", "start" : "427", "end" : "463"},
-  {"pName" : "MBP1_SACCE", "fName" : "Ankyrin fold", "start" : "512", "end" : "541"},
-  {"pName" : "MBP1_SACCE", "fName" : "Swi6 fold", "start" : "381", "end" : "547"},
-  {"pName" : "MBP1_SACCE", "fName" : "coiled coil", "start" : "633", "end" : "655"},
-
-  {"pName" : "MBP1_ASPNI", "fName" : "APSES fold", "start" : "9", "end" : "106"},
-  {"pName" : "MBP1_ASPNI", "fName" : "KilA-N", "start" : "26", "end" : "109"},
-  {"pName" : "MBP1_ASPNI", "fName" : "low complexity", "start" : "529", "end" : "534"},
-  {"pName" : "MBP1_ASPNI", "fName" : "Ankyrin fold", "start" : "260", "end" : "289"},
-  {"pName" : "MBP1_ASPNI", "fName" : "Ankyrin fold", "start" : "381", "end" : "413"},
-  {"pName" : "MBP1_ASPNI", "fName" : "Swi6 fold", "start" : "193", "end" : "402"},
-  {"pName" : "MBP1_ASPNI", "fName" : "coiled coil", "start" : "509", "end" : "572"},
-
-  {"pName" : "MBP1_BIPOR", "fName" : "APSES fold", "start" : "8", "end" : "106"},
-  {"pName" : "MBP1_BIPOR", "fName" : "KilA-N", "start" : "26", "end" : "109"},
-  {"pName" : "MBP1_BIPOR", "fName" : "low complexity", "start" : "134", "end" : "152"},
-  {"pName" : "MBP1_BIPOR", "fName" : "low complexity", "start" : "267", "end" : "278"},
-  {"pName" : "MBP1_BIPOR", "fName" : "low complexity", "start" : "670", "end" : "685"},
-  {"pName" : "MBP1_BIPOR", "fName" : "Ankyrin fold", "start" : "266", "end" : "295"},
-  {"pName" : "MBP1_BIPOR", "fName" : "Ankyrin fold", "start" : "387", "end" : "416"},
-  {"pName" : "MBP1_BIPOR", "fName" : "Swi6 fold", "start" : "253", "end" : "421"},
-  {"pName" : "MBP1_BIPOR", "fName" : "coiled coil", "start" : "659", "end" : "681"},
-  {"pName" : "MBP1_BIPOR", "fName" : "coiled coil", "start" : "500", "end" : "590"},
-
-  {"pName" : "MBP1_NEUCR", "fName" : "APSES fold", "start" : "14", "end" : "114"},
-  {"pName" : "MBP1_NEUCR", "fName" : "KilA-N", "start" : "34", "end" : "117"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "130", "end" : "141"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "253", "end" : "266"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "514", "end" : "525"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "554", "end" : "564"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "601", "end" : "618"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "620", "end" : "629"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "636", "end" : "652"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "658", "end" : "672"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "725", "end" : "735"},
-  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "752", "end" : "771"},
-  {"pName" : "MBP1_NEUCR", "fName" : "Ankyrin fold", "start" : "268", "end" : "297"},
-  {"pName" : "MBP1_NEUCR", "fName" : "Ankyrin fold", "start" : "390", "end" : "419"},
-  {"pName" : "MBP1_NEUCR", "fName" : "Swi6 fold", "start" : "270", "end" : "426"},
-  {"pName" : "MBP1_NEUCR", "fName" : "coiled coil", "start" : "500", "end" : "550"},
-
-  {"pName" : "MBP1_SCHPO", "fName" : "APSES fold", "start" : "8", "end" : "104"},
-  {"pName" : "MBP1_SCHPO", "fName" : "KilA-N", "start" : "25", "end" : "113"},
-  {"pName" : "MBP1_SCHPO", "fName" : "low complexity", "start" : "111", "end" : "125"},
-  {"pName" : "MBP1_SCHPO", "fName" : "low complexity", "start" : "136", "end" : "145"},
-  {"pName" : "MBP1_SCHPO", "fName" : "low complexity", "start" : "176", "end" : "191"},
-  {"pName" : "MBP1_SCHPO", "fName" : "low complexity", "start" : "422", "end" : "447"},
-  {"pName" : "MBP1_SCHPO", "fName" : "Ankyrin fold", "start" : "247", "end" : "276"},
-  {"pName" : "MBP1_SCHPO", "fName" : "Ankyrin fold", "start" : "368", "end" : "397"},
-  {"pName" : "MBP1_SCHPO", "fName" : "Swi6 fold", "start" : "234", "end" : "400"},
-  {"pName" : "MBP1_SCHPO", "fName" : "coiled coil", "start" : "457", "end" : "538"},
-
-  {"pName" : "MBP1_COPCI", "fName" : "APSES fold", "start" : "5", "end" : "103"},
-  {"pName" : "MBP1_COPCI", "fName" : "KilA-N", "start" : "23", "end" : "106"},
-  {"pName" : "MBP1_COPCI", "fName" : "low complexity", "start" : "170", "end" : "191"},
-  {"pName" : "MBP1_COPCI", "fName" : "low complexity", "start" : "435", "end" : "450"},
-  {"pName" : "MBP1_COPCI", "fName" : "low complexity", "start" : "611", "end" : "626"},
-  {"pName" : "MBP1_COPCI", "fName" : "Ankyrin fold", "start" : "270", "end" : "299"},
-  {"pName" : "MBP1_COPCI", "fName" : "Ankyrin fold", "start" : "389", "end" : "418"},
-  {"pName" : "MBP1_COPCI", "fName" : "Ankyrin fold", "start" : "474", "end" : "509"},
-  {"pName" : "MBP1_COPCI", "fName" : "Swi6 fold", "start" : "257", "end" : "429"},
-  {"pName" : "MBP1_COPCI", "fName" : "coiled coil", "start" : "500", "end" : "570"},
-  {"pName" : "MBP1_COPCI", "fName" : "coiled coil", "start" : "651", "end" : "678"},
-
-  {"pName" : "MBP1_CRYNE", "fName" : "APSES fold", "start" : "16", "end" : "114"},
-  {"pName" : "MBP1_CRYNE", "fName" : "KilA-N", "start" : "34", "end" : "117"},
-  {"pName" : "MBP1_CRYNE", "fName" : "low complexity", "start" : "66", "end" : "85"},
-  {"pName" : "MBP1_CRYNE", "fName" : "low complexity", "start" : "413", "end" : "423"},
-  {"pName" : "MBP1_CRYNE", "fName" : "low complexity", "start" : "633", "end" : "644"},
-  {"pName" : "MBP1_CRYNE", "fName" : "low complexity", "start" : "697", "end" : "709"},
-  {"pName" : "MBP1_CRYNE", "fName" : "Ankyrin fold", "start" : "477", "end" : "506"},
-  {"pName" : "MBP1_CRYNE", "fName" : "Ankyrin fold", "start" : "618", "end" : "647"},
-  {"pName" : "MBP1_CRYNE", "fName" : "Swi6 fold", "start" : "452", "end" : "663"},
-
-  {"pName" : "MBP1_PUCGR", "fName" : "APSES fold", "start" : "90", "end" : "187"},
-  {"pName" : "MBP1_PUCGR", "fName" : "KilA-N", "start" : "107", "end" : "190"},
-  {"pName" : "MBP1_PUCGR", "fName" : "low complexity", "start" : "208", "end" : "227"},
-  {"pName" : "MBP1_PUCGR", "fName" : "low complexity", "start" : "273", "end" : "291"},
-  {"pName" : "MBP1_PUCGR", "fName" : "Ankyrin fold", "start" : "442", "end" : "271"},
-  {"pName" : "MBP1_PUCGR", "fName" : "Ankyrin fold", "start" : "475", "end" : "509"},
-  {"pName" : "MBP1_PUCGR", "fName" : "Ankyrin fold", "start" : "561", "end" : "590"},
-  {"pName" : "MBP1_PUCGR", "fName" : "Swi6 fold", "start" : "429", "end" : "601"},
-  {"pName" : "MBP1_PUCGR", "fName" : "coiled coil", "start" : "827", "end" : "863"},
-
-  {"pName" : "MBP1_USTMA", "fName" : "APSES fold", "start" : "7", "end" : "104"},
-  {"pName" : "MBP1_USTMA", "fName" : "KilA-N", "start" : "24", "end" : "107"},
-  {"pName" : "MBP1_USTMA", "fName" : "low complexity", "start" : "106", "end" : "116"},
-  {"pName" : "MBP1_USTMA", "fName" : "low complexity", "start" : "161", "end" : "183"},
-  {"pName" : "MBP1_USTMA", "fName" : "low complexity", "start" : "666", "end" : "681"},
-  {"pName" : "MBP1_USTMA", "fName" : "low complexity", "start" : "688", "end" : "700"},
-  {"pName" : "MBP1_USTMA", "fName" : "AT hook", "start" : "134", "end" : "146"},
-  {"pName" : "MBP1_USTMA", "fName" : "Ankyrin fold", "start" : "245", "end" : "274"},
-  {"pName" : "MBP1_USTMA", "fName" : "Ankyrin fold", "start" : "278", "end" : "314"},
-  {"pName" : "MBP1_USTMA", "fName" : "Ankyrin fold", "start" : "364", "end" : "393"},
-  {"pName" : "MBP1_USTMA", "fName" : "Swi6 fold", "start" : "232", "end" : "404"},
-  {"pName" : "MBP1_USTMA", "fName" : "coiled coil", "start" : "590", "end" : "618"},
-
-  {"pName" : "MBP1_WALME", "fName" : "APSES fold", "start" : "6", "end" : "103"},
-  {"pName" : "MBP1_WALME", "fName" : "KilA-N", "start" : "23", "end" : "106"},
-  {"pName" : "MBP1_WALME", "fName" : "low complexity", "start" : "149", "end" : "162"},
-  {"pName" : "MBP1_WALME", "fName" : "low complexity", "start" : "171", "end" : "188"},
-  {"pName" : "MBP1_WALME", "fName" : "low complexity", "start" : "618", "end" : "628"},
-  {"pName" : "MBP1_WALME", "fName" : "low complexity", "start" : "634", "end" : "660"},
-  {"pName" : "MBP1_WALME", "fName" : "Ankyrin fold", "start" : "250", "end" : "279"},
-  {"pName" : "MBP1_WALME", "fName" : "Ankyrin fold", "start" : "369", "end" : "398"},
-  {"pName" : "MBP1_WALME", "fName" : "Swi6 fold", "start" : "237", "end" : "409"},
-  {"pName" : "MBP1_WALME", "fName" : "coiled coil", "start" : "461", "end" : "585"}
-]
+[
+  {"pName" : "MBP1_SACCE", "fName" : "APSES fold", "start" : "4", "end" : "102"},
+  {"pName" : "MBP1_SACCE", "fName" : "KilA-N", "start" : "22", "end" : "105"},
+  {"pName" : "MBP1_SACCE", "fName" : "low complexity", "start" : "108", "end" : "122"},
+  {"pName" : "MBP1_SACCE", "fName" : "low complexity", "start" : "236", "end" : "241"},
+  {"pName" : "MBP1_SACCE", "fName" : "low complexity", "start" : "279", "end" : "307"},
+  {"pName" : "MBP1_SACCE", "fName" : "low complexity", "start" : "700", "end" : "717"},
+  {"pName" : "MBP1_SACCE", "fName" : "Ankyrin fold", "start" : "394", "end" : "423"},
+  {"pName" : "MBP1_SACCE", "fName" : "Ankyrin fold", "start" : "427", "end" : "463"},
+  {"pName" : "MBP1_SACCE", "fName" : "Ankyrin fold", "start" : "512", "end" : "541"},
+  {"pName" : "MBP1_SACCE", "fName" : "Swi6 fold", "start" : "381", "end" : "547"},
+  {"pName" : "MBP1_SACCE", "fName" : "coiled coil", "start" : "633", "end" : "655"},
+
+  {"pName" : "MBP1_ASPNI", "fName" : "APSES fold", "start" : "9", "end" : "106"},
+  {"pName" : "MBP1_ASPNI", "fName" : "KilA-N", "start" : "26", "end" : "109"},
+  {"pName" : "MBP1_ASPNI", "fName" : "low complexity", "start" : "529", "end" : "534"},
+  {"pName" : "MBP1_ASPNI", "fName" : "Ankyrin fold", "start" : "260", "end" : "289"},
+  {"pName" : "MBP1_ASPNI", "fName" : "Ankyrin fold", "start" : "381", "end" : "413"},
+  {"pName" : "MBP1_ASPNI", "fName" : "Swi6 fold", "start" : "193", "end" : "402"},
+  {"pName" : "MBP1_ASPNI", "fName" : "coiled coil", "start" : "509", "end" : "572"},
+
+  {"pName" : "MBP1_BIPOR", "fName" : "APSES fold", "start" : "8", "end" : "106"},
+  {"pName" : "MBP1_BIPOR", "fName" : "KilA-N", "start" : "26", "end" : "109"},
+  {"pName" : "MBP1_BIPOR", "fName" : "low complexity", "start" : "134", "end" : "152"},
+  {"pName" : "MBP1_BIPOR", "fName" : "low complexity", "start" : "267", "end" : "278"},
+  {"pName" : "MBP1_BIPOR", "fName" : "low complexity", "start" : "670", "end" : "685"},
+  {"pName" : "MBP1_BIPOR", "fName" : "Ankyrin fold", "start" : "266", "end" : "295"},
+  {"pName" : "MBP1_BIPOR", "fName" : "Ankyrin fold", "start" : "387", "end" : "416"},
+  {"pName" : "MBP1_BIPOR", "fName" : "Swi6 fold", "start" : "253", "end" : "421"},
+  {"pName" : "MBP1_BIPOR", "fName" : "coiled coil", "start" : "659", "end" : "681"},
+  {"pName" : "MBP1_BIPOR", "fName" : "coiled coil", "start" : "500", "end" : "590"},
+
+  {"pName" : "MBP1_NEUCR", "fName" : "APSES fold", "start" : "14", "end" : "114"},
+  {"pName" : "MBP1_NEUCR", "fName" : "KilA-N", "start" : "34", "end" : "117"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "130", "end" : "141"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "253", "end" : "266"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "514", "end" : "525"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "554", "end" : "564"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "601", "end" : "618"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "620", "end" : "629"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "636", "end" : "652"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "658", "end" : "672"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "725", "end" : "735"},
+  {"pName" : "MBP1_NEUCR", "fName" : "low complexity", "start" : "752", "end" : "771"},
+  {"pName" : "MBP1_NEUCR", "fName" : "Ankyrin fold", "start" : "268", "end" : "297"},
+  {"pName" : "MBP1_NEUCR", "fName" : "Ankyrin fold", "start" : "390", "end" : "419"},
+  {"pName" : "MBP1_NEUCR", "fName" : "Swi6 fold", "start" : "270", "end" : "426"},
+  {"pName" : "MBP1_NEUCR", "fName" : "coiled coil", "start" : "500", "end" : "550"},
+
+  {"pName" : "MBP1_SCHPO", "fName" : "APSES fold", "start" : "8", "end" : "104"},
+  {"pName" : "MBP1_SCHPO", "fName" : "KilA-N", "start" : "25", "end" : "113"},
+  {"pName" : "MBP1_SCHPO", "fName" : "low complexity", "start" : "111", "end" : "125"},
+  {"pName" : "MBP1_SCHPO", "fName" : "low complexity", "start" : "136", "end" : "145"},
+  {"pName" : "MBP1_SCHPO", "fName" : "low complexity", "start" : "176", "end" : "191"},
+  {"pName" : "MBP1_SCHPO", "fName" : "low complexity", "start" : "422", "end" : "447"},
+  {"pName" : "MBP1_SCHPO", "fName" : "Ankyrin fold", "start" : "247", "end" : "276"},
+  {"pName" : "MBP1_SCHPO", "fName" : "Ankyrin fold", "start" : "368", "end" : "397"},
+  {"pName" : "MBP1_SCHPO", "fName" : "Swi6 fold", "start" : "234", "end" : "400"},
+  {"pName" : "MBP1_SCHPO", "fName" : "coiled coil", "start" : "457", "end" : "538"},
+
+  {"pName" : "MBP1_COPCI", "fName" : "APSES fold", "start" : "5", "end" : "103"},
+  {"pName" : "MBP1_COPCI", "fName" : "KilA-N", "start" : "23", "end" : "106"},
+  {"pName" : "MBP1_COPCI", "fName" : "low complexity", "start" : "170", "end" : "191"},
+  {"pName" : "MBP1_COPCI", "fName" : "low complexity", "start" : "435", "end" : "450"},
+  {"pName" : "MBP1_COPCI", "fName" : "low complexity", "start" : "611", "end" : "626"},
+  {"pName" : "MBP1_COPCI", "fName" : "Ankyrin fold", "start" : "270", "end" : "299"},
+  {"pName" : "MBP1_COPCI", "fName" : "Ankyrin fold", "start" : "389", "end" : "418"},
+  {"pName" : "MBP1_COPCI", "fName" : "Ankyrin fold", "start" : "474", "end" : "509"},
+  {"pName" : "MBP1_COPCI", "fName" : "Swi6 fold", "start" : "257", "end" : "429"},
+  {"pName" : "MBP1_COPCI", "fName" : "coiled coil", "start" : "500", "end" : "570"},
+  {"pName" : "MBP1_COPCI", "fName" : "coiled coil", "start" : "651", "end" : "678"},
+
+  {"pName" : "MBP1_CRYNE", "fName" : "APSES fold", "start" : "16", "end" : "114"},
+  {"pName" : "MBP1_CRYNE", "fName" : "KilA-N", "start" : "34", "end" : "117"},
+  {"pName" : "MBP1_CRYNE", "fName" : "low complexity", "start" : "66", "end" : "85"},
+  {"pName" : "MBP1_CRYNE", "fName" : "low complexity", "start" : "413", "end" : "423"},
+  {"pName" : "MBP1_CRYNE", "fName" : "low complexity", "start" : "633", "end" : "644"},
+  {"pName" : "MBP1_CRYNE", "fName" : "low complexity", "start" : "697", "end" : "709"},
+  {"pName" : "MBP1_CRYNE", "fName" : "Ankyrin fold", "start" : "477", "end" : "506"},
+  {"pName" : "MBP1_CRYNE", "fName" : "Ankyrin fold", "start" : "618", "end" : "647"},
+  {"pName" : "MBP1_CRYNE", "fName" : "Swi6 fold", "start" : "452", "end" : "663"},
+
+  {"pName" : "MBP1_PUCGR", "fName" : "APSES fold", "start" : "90", "end" : "187"},
+  {"pName" : "MBP1_PUCGR", "fName" : "KilA-N", "start" : "107", "end" : "190"},
+  {"pName" : "MBP1_PUCGR", "fName" : "low complexity", "start" : "208", "end" : "227"},
+  {"pName" : "MBP1_PUCGR", "fName" : "low complexity", "start" : "273", "end" : "291"},
+  {"pName" : "MBP1_PUCGR", "fName" : "Ankyrin fold", "start" : "442", "end" : "271"},
+  {"pName" : "MBP1_PUCGR", "fName" : "Ankyrin fold", "start" : "475", "end" : "509"},
+  {"pName" : "MBP1_PUCGR", "fName" : "Ankyrin fold", "start" : "561", "end" : "590"},
+  {"pName" : "MBP1_PUCGR", "fName" : "Swi6 fold", "start" : "429", "end" : "601"},
+  {"pName" : "MBP1_PUCGR", "fName" : "coiled coil", "start" : "827", "end" : "863"},
+
+  {"pName" : "MBP1_USTMA", "fName" : "APSES fold", "start" : "7", "end" : "104"},
+  {"pName" : "MBP1_USTMA", "fName" : "KilA-N", "start" : "24", "end" : "107"},
+  {"pName" : "MBP1_USTMA", "fName" : "low complexity", "start" : "106", "end" : "116"},
+  {"pName" : "MBP1_USTMA", "fName" : "low complexity", "start" : "161", "end" : "183"},
+  {"pName" : "MBP1_USTMA", "fName" : "low complexity", "start" : "666", "end" : "681"},
+  {"pName" : "MBP1_USTMA", "fName" : "low complexity", "start" : "688", "end" : "700"},
+  {"pName" : "MBP1_USTMA", "fName" : "AT hook", "start" : "134", "end" : "146"},
+  {"pName" : "MBP1_USTMA", "fName" : "Ankyrin fold", "start" : "245", "end" : "274"},
+  {"pName" : "MBP1_USTMA", "fName" : "Ankyrin fold", "start" : "278", "end" : "314"},
+  {"pName" : "MBP1_USTMA", "fName" : "Ankyrin fold", "start" : "364", "end" : "393"},
+  {"pName" : "MBP1_USTMA", "fName" : "Swi6 fold", "start" : "232", "end" : "404"},
+  {"pName" : "MBP1_USTMA", "fName" : "coiled coil", "start" : "590", "end" : "618"},
+
+  {"pName" : "MBP1_WALME", "fName" : "APSES fold", "start" : "6", "end" : "103"},
+  {"pName" : "MBP1_WALME", "fName" : "KilA-N", "start" : "23", "end" : "106"},
+  {"pName" : "MBP1_WALME", "fName" : "low complexity", "start" : "149", "end" : "162"},
+  {"pName" : "MBP1_WALME", "fName" : "low complexity", "start" : "171", "end" : "188"},
+  {"pName" : "MBP1_WALME", "fName" : "low complexity", "start" : "618", "end" : "628"},
+  {"pName" : "MBP1_WALME", "fName" : "low complexity", "start" : "634", "end" : "660"},
+  {"pName" : "MBP1_WALME", "fName" : "Ankyrin fold", "start" : "250", "end" : "279"},
+  {"pName" : "MBP1_WALME", "fName" : "Ankyrin fold", "start" : "369", "end" : "398"},
+  {"pName" : "MBP1_WALME", "fName" : "Swi6 fold", "start" : "237", "end" : "409"},
+  {"pName" : "MBP1_WALME", "fName" : "coiled coil", "start" : "461", "end" : "585"}
+]
diff --git a/data/refFeatures.json b/data/refFeatures.json
index 8df1da7..4d6d5c6 100644
--- a/data/refFeatures.json
+++ b/data/refFeatures.json
@@ -1,47 +1,47 @@
-[
-  { "name" : "APSES fold",
-    "description " : "DNA binding domain by similarity to structure",
-    "sourceDB" : "PDB",
-    "accession" : "1BM8_A_1_99"},
-
-  { "name" : "KilA-N",
-    "description " : "DNA binding domain by Pfam annotation",
-    "sourceDB" : "Pfam",
-    "accession" : "PF04383"},
-
-  { "name" : "AT hook",
-    "description " : "DNA interaction motif by SMART annotation",
-    "sourceDB" : "SMART",
-    "accession" : null},
-
-  { "name" : "low complexity",
-    "description " : "SEG annotation by SMART",
-    "sourceDB" : "SMART",
-    "accession" : null},
-
-  { "name" : "Ankyrin fold",
-    "description " : "Ankyrin domain by SMART annotation",
-    "sourceDB" : "SMART",
-    "accession" : "SM00248"},
-
-  { "name" : "Swi6 fold",
-    "description " : "Swi6 fold by similarity to structure",
-    "sourceDB" : "PDB",
-    "accession" : "1SW6_B"},
-
-  { "name" : "coiled coil",
-    "description " : "Coiled coil by SMART annotation",
-    "sourceDB" : "SMART",
-    "accession" : null},
-
-  { "name" : "McInerny 2011",
-    "description " : "Yeast cell cycle review",
-    "sourceDB" : "PubMed",
-    "accession" : "21310294"}
-]
-
-
-
-
-
-
+[
+  { "name" : "APSES fold",
+    "description " : "DNA binding domain by similarity to structure",
+    "sourceDB" : "PDB",
+    "accession" : "1BM8_A_1_99"},
+
+  { "name" : "KilA-N",
+    "description " : "DNA binding domain by Pfam annotation",
+    "sourceDB" : "Pfam",
+    "accession" : "PF04383"},
+
+  { "name" : "AT hook",
+    "description " : "DNA interaction motif by SMART annotation",
+    "sourceDB" : "SMART",
+    "accession" : null},
+
+  { "name" : "low complexity",
+    "description " : "SEG annotation by SMART",
+    "sourceDB" : "SMART",
+    "accession" : null},
+
+  { "name" : "Ankyrin fold",
+    "description " : "Ankyrin domain by SMART annotation",
+    "sourceDB" : "SMART",
+    "accession" : "SM00248"},
+
+  { "name" : "Swi6 fold",
+    "description " : "Swi6 fold by similarity to structure",
+    "sourceDB" : "PDB",
+    "accession" : "1SW6_B"},
+
+  { "name" : "coiled coil",
+    "description " : "Coiled coil by SMART annotation",
+    "sourceDB" : "SMART",
+    "accession" : null},
+
+  { "name" : "McInerny 2011",
+    "description " : "Yeast cell cycle review",
+    "sourceDB" : "PubMed",
+    "accession" : "21310294"}
+]
+
+
+
+
+
+
diff --git a/data/refMBP1Proteins.json b/data/refMBP1Proteins.json
index 43832d2..cdeb769 100644
--- a/data/refMBP1Proteins.json
+++ b/data/refMBP1Proteins.json
@@ -1,155 +1,155 @@
-[
-  { "name" : "MBP1_SCHPO",
-    "RefSeqID" : "NP_593032",
-    "UniProtID" : "P41412",
-    "taxonomyID" : 284812,
-    "sequence" : [
-       "MAPRSSAVHVAVYSGVEVYECFIKGVSVMRRRRDSWLNATQILKVADFDKPQRTRVLERQVQIGAHEKVQ",
-       "GGYGKYQGTWVPFQRGVDLATKYKVDGIMSPILSLDIDEGKAIAPKKKQTKQKKPSVRGRRGRKPSSLSS",
-       "STLHSVNEKQPNSSISPTIESSMNKVNLPGAEEQVSATPLPASPNALLSPNDNTIKPVEELGMLEAPLDK",
-       "YEESLLDFFLHPEEGRIPSFLYSPPPDFQVNSVIDDDGHTSLHWACSMGHIEMIKLLLRANADIGVCNRL",
-       "SQTPLMRSVIFTNNYDCQTFGQVLELLQSTIYAVDTNGQSIFHHIVQSTSTPSKVAAAKYYLDCILEKLI",
-       "SIQPFENVVRLVNLQDSNGDTSLLIAARNGAMDCVNSLLSYNANPSIPNRQRRTASEYLLEADKKPHSLL",
-       "QSNSNASHSAFSFSGISPAIISPSCSSHAFVKAIPSISSKFSQLAEEYESQLREKEEDLIRANRLKQDTL",
-       "NEISRTYQELTFLQKNNPTYSQSMENLIREAQETYQQLSKRLLIWLEARQIFDLERSLKPHTSLSISFPS",
-       "DFLKKEDGLSLNNDFKKPACNNVTNSDEYEQLINKLTSLQASRKKDTLYIRKLYEELGIDDTVNSYRRLI",
-       "AMSCGINPEDLSLEILDAVEEALTREK"]
-  },
-  { "name" : "MBP1_ASPNI",
-    "RefSeqID" : "XP_660758",
-    "UniProtID" : "Q5B8H6",
-    "taxonomyID" : 227321,
-    "sequence" : [
-       "MAAVDFSNVYSATYSSVPVYEFKIGTDSVMRRRSDDWINATHILKVAGFDKPARTRILEREVQKGVHEKV",
-       "QGGYGKYQGTWIPLQEGRQLAERNNILDKLLPIFDYVAGDRSPPPAPKHTSAASKPRAPKINKRVVKEDV",
-       "FSAVNHHRSMGPPSFHHEHYDVNTGLDEDESIEQATLESSSMIADEDMISMSQNGPYSSRKRKRGINEVA",
-       "AMSLSEQEHILYGDQLLDYFMTVGDAPEATRIPPPQPPANFQVDRPIDDSGNTALHWACAMGDLEIVKDL",
-       "LRRGADMKALSIHEETPLVRAVLFTNNYEKRTFPALLDLLLDTISFRDWFGATLFHHIAQTTKSKGKWKS",
-       "SRYYCEVALEKLRTTFSPEEVDLLLSCQDSVGDTAVLVAARNGVFRLVDLLLSRCPRAGDLVNKRGETAS",
-       "SIMQRAHLAERDIPPPPSSITMGNDHIDGEVGAPTSLEPQSVTLHHESSPATAQLLSQIGAIMAEASRKL",
-       "TSSYGAAKPSQKDSDDVANPEALYEQLEQDRQKIRRQYDALAAKEAAEESSDAQLGRYEQMRDNYESLLE",
-       "QIQRARLKERLASTPVPTQTAVIGSSSPEQDRLLTTFQLSRALCSEQKIRRAAVKELAQQRADAGVSTKF",
-       "DVHRKLVALATGLKEEELDPMAAELAETLEFDRMNGKGVGPESPEADHKDSASLPFPGPVVSVDA"]
-  },
-  { "name" : "MBP1_BIPOR",
-    "RefSeqID" : "XP_007682304",
-    "UniProtID" : "W6ZM86",
-    "taxonomyID" : 930090,
-    "sequence" : [
-       "MPPAPDGKIYSATYSNVPVYECNVNGHHVMRRRADDWINATHILKVADYDKPARTRILEREVQKGVHEKV",
-       "QGGYGKYQGTWIPLEEGRGLAERNGVLDKMRAIFDYVPGDRSPPPAPKHATAASNRMKPPRQTAAAVAAA",
-       "AVAAAAAAAAVANHNALMSNSRSQASEDPYENSQRSQIYREDTPDNETVISESMLGDADLMDMSQYSADG",
-       "NRKRKRGMDQMSLLDQQHQIWADQLLDYFMLLDHEAAVSWPEPPPSINLDRPIDEKGHAAMHWAAAMGDV",
-       "GVVKELIHRGARLDCLSNNLETPLMRAVMFTNNFDKETMPSMVKIFQQTVHRTDWFGSTVFHHIAATTSS",
-       "SNKYVCARWYLDCIINKLSETWIPEEVTRLLNAADQNGDTAIMIAARNGARKCVRSLLGRNVAVDIPNKK",
-       "GETADDLIRELNQRRRMHGRTRQASSSPFAPAPEHRLNGHVPHFDGGPLMSVPVPSMAVRESVQYRSQTA",
-       "SHLMTKVAPTLLEKCEELATAYEAELQEKEAEFFDAERVVKRRQAELEAVRKQVAELQSMSKGLHIDLND",
-       "EEAERQQEDELRLLVEEAESLLEIEQKAELRRLCSSMPQQNSDSSPVDITEKMRLALLLHRAQLERRELV",
-       "REVVGNLSVAGMSEKQGTYKKLIAKALGEREEDVESMLPEILQELEEAETQERAEGLDGSPV"]
-  },
-  { "name" : "MBP1_NEUCR",
-    "RefSeqID" : "XP_955821",
-    "UniProtID" : "Q7RW59",
-    "taxonomyID" : 367110,
-    "sequence" : [
-       "MVKENVGGNPEPGIYSATYSGIPVWEYQFGVDLKEHVMRRRHDDWVNATHILKAAGFDKPARTRILEREV",
-       "QKDTHEKIQGGYGRYQGTWIPLEQAEALARRNNIYERLKPIFEFQPGNESPPPAPRHASKPKAPKVKPAV",
-       "PTWGSKSAKNANPPQPGTFLPPGRKGLPAQAPDYNDADTHMHDDDTPDNLTVASASYMAEDDRYDHSHFS",
-       "TGHRKRKRDELIEDMTEQQHAVYGDELLDYFLLSRNEQPAVRPDPPPNFKPDWPIDNERHTCLHWASAMG",
-       "DVDVMRQLKKFGASLDAQNVRGETPFMRAVNFTNCFEKQTFPQVMKELFSTIDCRDLSGCTVIHHAAVMK",
-       "IGRVNSQSCSRYYLDIILNRLQETHHPEFVQQLLDAQDNDGNTAVHLAAMRDARKCIRALLGRGASTDIP",
-       "NKQGIRAEELIKELNASISKSRSNLPQRSSSPFAPDTQRHDAFHEAISESMVTSRKNSQPNYSSDAANTV",
-       "QNRITPLVLQKLKDLTATYDSEFKEKDDAEKEARRILNKTQSELKALTASIDDYNSRLDTDDVAAKTAAE",
-       "MATARHKVLAFVTHQNRISVQEAVKQELAALDRANAVTNGTSTKSKSSSPSKKPKLSPIPDQKDKPPKDE",
-       "NETESEAEHPDPPAAQAHQQQPGPSSQDTEVEDQDREEEEDDYTHRLSLAAELRSILQEQRSAENDYVEA",
-       "RGMLGTGERIDKYKHLLMSCLPPDEQENLEENLEEMIKLMEQEDESVTDLPAGAVGGGGGGNAADGSGGG",
-       "GQPSNGRRESVLPALRGGNGDGEMSRRGSRTAAAAAAQVDGEREINGRAGAERTERIQEIAAV"]
-  },
-  { "name" : "MBP1_COPCI",
-    "RefSeqID" : "XP_001837394",
-    "UniProtID" : "A8NYC6",
-    "taxonomyID" : 240176,
-    "sequence" : [
-       "MPEAQIFKATYSGIPVYEMMCKGVAVMRRRSDSWLNATQILKVAGFDKPQRTRVLEREVQKGEHEKVQGG",
-       "YGKYQGTWIPLERGMQLAKQYNCEHLLRPIIEFTPAAKSPPLAPKHLVATAGNRPVRKPLTTDLSAAVIN",
-       "TRSTRKQVADGVGEESDHDTHSLRGSEDGSMTPSPSEASSSSRTPSPIHSPGTYHSNGLDGPSSGGRNRY",
-       "RQSNDRYDEDDDASRHNGMGDPRSYGDQILEYFISDTNQIPPILITPPPDFDPNMAIDDDGHTSLHWACA",
-       "MGRIRIVKLLLSAGADIFKVNKAGQTALMRSVMFANNYDVRKFPELYELLHRSTLNIDNSNRTVFHHVVD",
-       "VAMSKGKTHAARYYMETILTRLADYPKELADVINFQDEDGETALTMAARCRSKRLVKLLIDHGADPKINN",
-       "HDGKNAEDYILEDERFRSSPAPSSRVAAMSYRNAQVAYPPPGAPSTYSFAPANHDRPPLHYSAAAQKAST",
-       "RCVNDMASMLDSLAASFDQELRDKERDMAQAQALLTNIQAEILESQRTVLQLRQQAEGLSQAKQRLADLE",
-       "NALQDKMGRRYRLGFEKWIKDEETREKVIRDAANGDLVLTPATTSYTVDEDGDSDSGSNGDKNKGKRKAQ",
-       "VQQEEVSDLVELYSNIPTDPEELRKQCEALREEVSQSRKRRKAMFDELVTFQAEAGTSGRMSDYRRLIAA",
-       "GCGGLEPLEIDSVLGMLLETLEAEDPSSTSATWSGSKGQQTG"]
-  },
-  { "name" : "MBP1_CRYNE",
-    "RefSeqID" : "XP_569090",
-    "UniProtID" : "Q5KMQ9",
-    "taxonomyID" : 214684,
-    "sequence" : [
-       "MGKKVIASGGDNGPNTIYKATYSGVPVYEMVCRDVAVMRRRSDAYLNATQILKVAGFDKPQRTRVLEREV",
-       "QKGEHEKVQGGYGKYQGTWIPIERGLALAKQYGVEDILRPIIDYVPTSVSPPPAPKHSVAPPSKARRDKE",
-       "KETGRTKATPSRTGPTSAAALQAQAQLNRAKMHDSTPDADASFRSFEERVSLTPEDDSSSDTPSPVASVM",
-       "TDQDMEVDKMGMHMSMPNVTLSQNMEELGAGSRKRSAAMMMEDEDQFGQLRSIRGNSAVHTPHGTPRHLG",
-       "IGMPPEPIGPEQYTDIILNYFVSETSQIPSILVSPPHDFDPNAPIDDDGHTALHWACAMGRVRVVKLLLT",
-       "AGASIFAGNNAEQTPLMRSVMFSNNYDMRKFPELYELLHRSTLNIDKQNRTVFHHIANLALTKGKTHAAK",
-       "YYMETILARLADYPQELADVINFQDEEGETALTIAARARSRRLVKALLDHGANPKIKNRDSRSAEDYILE",
-       "DERFRSSPVPAPNGGIGKASTSAAAEKPLFAPQLYFSEAARLCGGQALTDITSHMQSLARSFDAELQGKE",
-       "RDILQAKALLTNIHTEVTENGRSITAITNQAAPLEEKRRELEALQASLKTRVKDALKKGYIGWLEGELVR",
-       "EQRWENGELEGNEEEKAAVQALRDVPTGGQEVVQAEEEKLRWEIEEKRKRRAMFVEKFVRAQTEAGTSEQ",
-       "IAKYRKLVSAGLGGVSTNEVDELMNQLLEGLEEENDNQVYNTTAGESGPSSWVQ"]
-  },
-  { "name" : "MBP1_PUCGR",
-    "RefSeqID" : "XP_003327086",
-    "UniProtID" : "E3KED4",
-    "taxonomyID" : 418459,
-    "sequence" : [
-       "MAYGGSIQPLRPPSRESATLHLHQPDLTVTSPPLSLTHCPPCVYSHFTHTPTSLIVIQVSLHSLLDQETY",
-       "HLLPSRSPPTVSVRMGTTTIYKATYSGVPVLEMPCEGIAVMRRRSDSWLNATQILKVAGFDKPQRTRVLE",
-       "REIQKGTHEKIQGGYGKYQGTWVPLDRGIDLAKQYGVDHLLSALFNFQPSSNESPPLAPKHVTALSTRVK",
-       "VSKVSAASAARAARAVVPSLPSTSGLGGRNTNNSWSNFDSDNEPGLPPAASSRESNGNWATQSKLARSSN",
-       "LARARANINNSHPEDLPVPAPDQLQASPLPSMQTADPENDNSLTPSELSLPSRTPSPIEDLPLTVNTASS",
-       "QSTRNKGKSRDLPDDEDLSRGQKRKYDTSLVEDTSYSDGADDQYINGNPSNAASAKYAKLILDYFVSESS",
-       "QIPNFLNDPPSDFDPNVVIDDDGHTALHWACAMGRIKIIKLLLTCGADIFRANNAGQTALMRAVMFTNNH",
-       "DLRTFPELFESFSGSVINIDRTDRTVFHYVIDIALTKGKVPAARYYLETILSQLSEYPKELIDILNFQDE",
-       "DGETALTLAARCRSKKLVKILLDHGANPKTANRDGKSAEDYILEDDKFRALSPTPCSSGPIRQLDQNSPG",
-       "GTSNRSDFVDLVDPVPIDSNLIPQRSPNASPPHYSETGQRVTKQLLPEVTSMIELLATTFDTELQDKERD",
-       "LDHAVGLLSNIEKEYLEGQRKILNYERMLSDFGEKKLALGDLEKELNDKLGKRYRFGWEKYVRDEEERAR",
-       "RITEQRSKYLQELSIEDRKLLDSSNLRFADPSKQEVLMKLQADERENSDLLNLIRTNSTDVESECDLLRE",
-       "SVQKLSEERERLFKEFINLSSENTGGENEEDDGANHTSANTSRLNNYRKLISLGCGGIGLDEVDEVIESL",
-       "NEGIDVNELNDNGFLTEQDEELGNHQNYHNIHTQGR"]
-  },
-  { "name" : "MBP1_USTMA",
-    "RefSeqID" : "XP_011392621",
-    "UniProtID" : "A0A0D1DP35",
-    "taxonomyID" : 237631,
-    "sequence" : [
-       "MSGDKTIFKATYSGVPVYECIINNVAVMRRRSDDWLNATQILKVVGLDKPQRTRVLEREIQKGIHEKVQG",
-       "GYGKYQGTWIPLDVAIELAERYNIQGLLQPITSYVPSAADSPPPAPKHTISTSNRSKKIIPADPGALGRS",
-       "RRATSIETESEVIGAAPNNVSEGSMSPSPSDISSSSRTPSPLPADRAHPLHANHALAGYNGRDANNHARY",
-       "ADIILDYFVTENTTVPSLLINPPPDFNPDMSIDDDEHTALHWACAMGRIRVVKLLLSAGADIFRVNSNQQ",
-       "TALMRATMFSNNYDLRKFPELFELLHRSILNIDRNDRTVFHHVVDLALSRGKPHAARYYMETMINRLADY",
-       "GDQLADILNFQDDEGETPLTMAARARSKRLVRLLLEHGADPKIRNKEGKNAEDYIIEDERFRSSPSRTGP",
-       "AGIELGADGLPVLPTSSLHTSEAGQRTAGRAVTLMSNLLHSLADSYDSEINTAEKKLTQAHGLLKQIQTE",
-       "IEDSAKVAEALHHEAQGVDEERKRVDSLQLALKHAINKRARDDLERRWSEGKQAIKRARLQAGLEPGALS",
-       "TSNATNAPATGDQKSKDDAKSLIEALPAGTNVKTAIAELRKQLSQVQANKTELVDKFVARAREQGTGRTM",
-       "AAYRRLIAAGCGGIAPDEVDAVVGVLCELLQESHTGARAGAGGERDDRARDVAMMLKGAGAAALAANAGA",
-       "P"]
-  },
-  { "name" : "MBP1_WALME",
-    "RefSeqID" : "XP_006957051",
-    "UniProtID" : "I4YGC0",
-    "taxonomyID" : 671144,
-    "sequence" : [
-       "MSAPPIYKACYSGVPVYEFNCKNVAVMKRRSDSWMNATQILKVANFDKPQRTRILEREVQKGTHEKVQGG",
-       "YGKYQGTWIPMERSVELARQYRIELLLDPIINYLPGPQSPPLAPKHATNVGSRARKSTAPAAQTLPSTSK",
-       "VFHPLSSTKHPAKLAAATNAKAEISDGEDASIPSSPSFKSNSSRTPSPIRINARKRKLEDEATIPSSAID",
-       "GSISYEDIILDYFISESTQIPALLIHPPSDFNPNMSIDDEGHTAMHWACAMGKVRVVKLLLSAGADIFRV",
-       "NHSEQTALMRSVMFSNNYDIRKFPQLYELLHRSTLNLDKHDRTVLHHIVDLALTKSKTHAARYYMECVLS",
-       "KLANYPDELADVINFQDDEGESALTLAARARSKRLVKLLLEHGADSKLPNKDGKTAEDYILEDERFRQSP",
-       "LLNSNHLRLHPPDTSIYAPPAHLFNSETSQNIANTSMSSVANLLESLAQSYDKEITQKERDYQQAQVILR",
-       "NIKTDIVEAKSNIEKMTIDSSEFEHLKHKLRELEMKLEEHSNDVYNKGWEEYSRNVDDPAIDAPSDNVQE",
-       "ECASLRNKIKDLQEKRISSMQELIKRQKEVGTGKKMSEYRKLISVGCGIPTTEIDAVLEMLLESLESENA",
-       "NKKAALASGISGALSSTSSAPSQATTSAPTGVATPGAPVPASSEKAGLLPPAPVMQ"]
-  }
-]
+[
+  { "name" : "MBP1_SCHPO",
+    "RefSeqID" : "NP_593032",
+    "UniProtID" : "P41412",
+    "taxonomyID" : 284812,
+    "sequence" : [
+       "MAPRSSAVHVAVYSGVEVYECFIKGVSVMRRRRDSWLNATQILKVADFDKPQRTRVLERQVQIGAHEKVQ",
+       "GGYGKYQGTWVPFQRGVDLATKYKVDGIMSPILSLDIDEGKAIAPKKKQTKQKKPSVRGRRGRKPSSLSS",
+       "STLHSVNEKQPNSSISPTIESSMNKVNLPGAEEQVSATPLPASPNALLSPNDNTIKPVEELGMLEAPLDK",
+       "YEESLLDFFLHPEEGRIPSFLYSPPPDFQVNSVIDDDGHTSLHWACSMGHIEMIKLLLRANADIGVCNRL",
+       "SQTPLMRSVIFTNNYDCQTFGQVLELLQSTIYAVDTNGQSIFHHIVQSTSTPSKVAAAKYYLDCILEKLI",
+       "SIQPFENVVRLVNLQDSNGDTSLLIAARNGAMDCVNSLLSYNANPSIPNRQRRTASEYLLEADKKPHSLL",
+       "QSNSNASHSAFSFSGISPAIISPSCSSHAFVKAIPSISSKFSQLAEEYESQLREKEEDLIRANRLKQDTL",
+       "NEISRTYQELTFLQKNNPTYSQSMENLIREAQETYQQLSKRLLIWLEARQIFDLERSLKPHTSLSISFPS",
+       "DFLKKEDGLSLNNDFKKPACNNVTNSDEYEQLINKLTSLQASRKKDTLYIRKLYEELGIDDTVNSYRRLI",
+       "AMSCGINPEDLSLEILDAVEEALTREK"]
+  },
+  { "name" : "MBP1_ASPNI",
+    "RefSeqID" : "XP_660758",
+    "UniProtID" : "Q5B8H6",
+    "taxonomyID" : 227321,
+    "sequence" : [
+       "MAAVDFSNVYSATYSSVPVYEFKIGTDSVMRRRSDDWINATHILKVAGFDKPARTRILEREVQKGVHEKV",
+       "QGGYGKYQGTWIPLQEGRQLAERNNILDKLLPIFDYVAGDRSPPPAPKHTSAASKPRAPKINKRVVKEDV",
+       "FSAVNHHRSMGPPSFHHEHYDVNTGLDEDESIEQATLESSSMIADEDMISMSQNGPYSSRKRKRGINEVA",
+       "AMSLSEQEHILYGDQLLDYFMTVGDAPEATRIPPPQPPANFQVDRPIDDSGNTALHWACAMGDLEIVKDL",
+       "LRRGADMKALSIHEETPLVRAVLFTNNYEKRTFPALLDLLLDTISFRDWFGATLFHHIAQTTKSKGKWKS",
+       "SRYYCEVALEKLRTTFSPEEVDLLLSCQDSVGDTAVLVAARNGVFRLVDLLLSRCPRAGDLVNKRGETAS",
+       "SIMQRAHLAERDIPPPPSSITMGNDHIDGEVGAPTSLEPQSVTLHHESSPATAQLLSQIGAIMAEASRKL",
+       "TSSYGAAKPSQKDSDDVANPEALYEQLEQDRQKIRRQYDALAAKEAAEESSDAQLGRYEQMRDNYESLLE",
+       "QIQRARLKERLASTPVPTQTAVIGSSSPEQDRLLTTFQLSRALCSEQKIRRAAVKELAQQRADAGVSTKF",
+       "DVHRKLVALATGLKEEELDPMAAELAETLEFDRMNGKGVGPESPEADHKDSASLPFPGPVVSVDA"]
+  },
+  { "name" : "MBP1_BIPOR",
+    "RefSeqID" : "XP_007682304",
+    "UniProtID" : "W6ZM86",
+    "taxonomyID" : 930090,
+    "sequence" : [
+       "MPPAPDGKIYSATYSNVPVYECNVNGHHVMRRRADDWINATHILKVADYDKPARTRILEREVQKGVHEKV",
+       "QGGYGKYQGTWIPLEEGRGLAERNGVLDKMRAIFDYVPGDRSPPPAPKHATAASNRMKPPRQTAAAVAAA",
+       "AVAAAAAAAAVANHNALMSNSRSQASEDPYENSQRSQIYREDTPDNETVISESMLGDADLMDMSQYSADG",
+       "NRKRKRGMDQMSLLDQQHQIWADQLLDYFMLLDHEAAVSWPEPPPSINLDRPIDEKGHAAMHWAAAMGDV",
+       "GVVKELIHRGARLDCLSNNLETPLMRAVMFTNNFDKETMPSMVKIFQQTVHRTDWFGSTVFHHIAATTSS",
+       "SNKYVCARWYLDCIINKLSETWIPEEVTRLLNAADQNGDTAIMIAARNGARKCVRSLLGRNVAVDIPNKK",
+       "GETADDLIRELNQRRRMHGRTRQASSSPFAPAPEHRLNGHVPHFDGGPLMSVPVPSMAVRESVQYRSQTA",
+       "SHLMTKVAPTLLEKCEELATAYEAELQEKEAEFFDAERVVKRRQAELEAVRKQVAELQSMSKGLHIDLND",
+       "EEAERQQEDELRLLVEEAESLLEIEQKAELRRLCSSMPQQNSDSSPVDITEKMRLALLLHRAQLERRELV",
+       "REVVGNLSVAGMSEKQGTYKKLIAKALGEREEDVESMLPEILQELEEAETQERAEGLDGSPV"]
+  },
+  { "name" : "MBP1_NEUCR",
+    "RefSeqID" : "XP_955821",
+    "UniProtID" : "Q7RW59",
+    "taxonomyID" : 367110,
+    "sequence" : [
+       "MVKENVGGNPEPGIYSATYSGIPVWEYQFGVDLKEHVMRRRHDDWVNATHILKAAGFDKPARTRILEREV",
+       "QKDTHEKIQGGYGRYQGTWIPLEQAEALARRNNIYERLKPIFEFQPGNESPPPAPRHASKPKAPKVKPAV",
+       "PTWGSKSAKNANPPQPGTFLPPGRKGLPAQAPDYNDADTHMHDDDTPDNLTVASASYMAEDDRYDHSHFS",
+       "TGHRKRKRDELIEDMTEQQHAVYGDELLDYFLLSRNEQPAVRPDPPPNFKPDWPIDNERHTCLHWASAMG",
+       "DVDVMRQLKKFGASLDAQNVRGETPFMRAVNFTNCFEKQTFPQVMKELFSTIDCRDLSGCTVIHHAAVMK",
+       "IGRVNSQSCSRYYLDIILNRLQETHHPEFVQQLLDAQDNDGNTAVHLAAMRDARKCIRALLGRGASTDIP",
+       "NKQGIRAEELIKELNASISKSRSNLPQRSSSPFAPDTQRHDAFHEAISESMVTSRKNSQPNYSSDAANTV",
+       "QNRITPLVLQKLKDLTATYDSEFKEKDDAEKEARRILNKTQSELKALTASIDDYNSRLDTDDVAAKTAAE",
+       "MATARHKVLAFVTHQNRISVQEAVKQELAALDRANAVTNGTSTKSKSSSPSKKPKLSPIPDQKDKPPKDE",
+       "NETESEAEHPDPPAAQAHQQQPGPSSQDTEVEDQDREEEEDDYTHRLSLAAELRSILQEQRSAENDYVEA",
+       "RGMLGTGERIDKYKHLLMSCLPPDEQENLEENLEEMIKLMEQEDESVTDLPAGAVGGGGGGNAADGSGGG",
+       "GQPSNGRRESVLPALRGGNGDGEMSRRGSRTAAAAAAQVDGEREINGRAGAERTERIQEIAAV"]
+  },
+  { "name" : "MBP1_COPCI",
+    "RefSeqID" : "XP_001837394",
+    "UniProtID" : "A8NYC6",
+    "taxonomyID" : 240176,
+    "sequence" : [
+       "MPEAQIFKATYSGIPVYEMMCKGVAVMRRRSDSWLNATQILKVAGFDKPQRTRVLEREVQKGEHEKVQGG",
+       "YGKYQGTWIPLERGMQLAKQYNCEHLLRPIIEFTPAAKSPPLAPKHLVATAGNRPVRKPLTTDLSAAVIN",
+       "TRSTRKQVADGVGEESDHDTHSLRGSEDGSMTPSPSEASSSSRTPSPIHSPGTYHSNGLDGPSSGGRNRY",
+       "RQSNDRYDEDDDASRHNGMGDPRSYGDQILEYFISDTNQIPPILITPPPDFDPNMAIDDDGHTSLHWACA",
+       "MGRIRIVKLLLSAGADIFKVNKAGQTALMRSVMFANNYDVRKFPELYELLHRSTLNIDNSNRTVFHHVVD",
+       "VAMSKGKTHAARYYMETILTRLADYPKELADVINFQDEDGETALTMAARCRSKRLVKLLIDHGADPKINN",
+       "HDGKNAEDYILEDERFRSSPAPSSRVAAMSYRNAQVAYPPPGAPSTYSFAPANHDRPPLHYSAAAQKAST",
+       "RCVNDMASMLDSLAASFDQELRDKERDMAQAQALLTNIQAEILESQRTVLQLRQQAEGLSQAKQRLADLE",
+       "NALQDKMGRRYRLGFEKWIKDEETREKVIRDAANGDLVLTPATTSYTVDEDGDSDSGSNGDKNKGKRKAQ",
+       "VQQEEVSDLVELYSNIPTDPEELRKQCEALREEVSQSRKRRKAMFDELVTFQAEAGTSGRMSDYRRLIAA",
+       "GCGGLEPLEIDSVLGMLLETLEAEDPSSTSATWSGSKGQQTG"]
+  },
+  { "name" : "MBP1_CRYNE",
+    "RefSeqID" : "XP_569090",
+    "UniProtID" : "Q5KMQ9",
+    "taxonomyID" : 214684,
+    "sequence" : [
+       "MGKKVIASGGDNGPNTIYKATYSGVPVYEMVCRDVAVMRRRSDAYLNATQILKVAGFDKPQRTRVLEREV",
+       "QKGEHEKVQGGYGKYQGTWIPIERGLALAKQYGVEDILRPIIDYVPTSVSPPPAPKHSVAPPSKARRDKE",
+       "KETGRTKATPSRTGPTSAAALQAQAQLNRAKMHDSTPDADASFRSFEERVSLTPEDDSSSDTPSPVASVM",
+       "TDQDMEVDKMGMHMSMPNVTLSQNMEELGAGSRKRSAAMMMEDEDQFGQLRSIRGNSAVHTPHGTPRHLG",
+       "IGMPPEPIGPEQYTDIILNYFVSETSQIPSILVSPPHDFDPNAPIDDDGHTALHWACAMGRVRVVKLLLT",
+       "AGASIFAGNNAEQTPLMRSVMFSNNYDMRKFPELYELLHRSTLNIDKQNRTVFHHIANLALTKGKTHAAK",
+       "YYMETILARLADYPQELADVINFQDEEGETALTIAARARSRRLVKALLDHGANPKIKNRDSRSAEDYILE",
+       "DERFRSSPVPAPNGGIGKASTSAAAEKPLFAPQLYFSEAARLCGGQALTDITSHMQSLARSFDAELQGKE",
+       "RDILQAKALLTNIHTEVTENGRSITAITNQAAPLEEKRRELEALQASLKTRVKDALKKGYIGWLEGELVR",
+       "EQRWENGELEGNEEEKAAVQALRDVPTGGQEVVQAEEEKLRWEIEEKRKRRAMFVEKFVRAQTEAGTSEQ",
+       "IAKYRKLVSAGLGGVSTNEVDELMNQLLEGLEEENDNQVYNTTAGESGPSSWVQ"]
+  },
+  { "name" : "MBP1_PUCGR",
+    "RefSeqID" : "XP_003327086",
+    "UniProtID" : "E3KED4",
+    "taxonomyID" : 418459,
+    "sequence" : [
+       "MAYGGSIQPLRPPSRESATLHLHQPDLTVTSPPLSLTHCPPCVYSHFTHTPTSLIVIQVSLHSLLDQETY",
+       "HLLPSRSPPTVSVRMGTTTIYKATYSGVPVLEMPCEGIAVMRRRSDSWLNATQILKVAGFDKPQRTRVLE",
+       "REIQKGTHEKIQGGYGKYQGTWVPLDRGIDLAKQYGVDHLLSALFNFQPSSNESPPLAPKHVTALSTRVK",
+       "VSKVSAASAARAARAVVPSLPSTSGLGGRNTNNSWSNFDSDNEPGLPPAASSRESNGNWATQSKLARSSN",
+       "LARARANINNSHPEDLPVPAPDQLQASPLPSMQTADPENDNSLTPSELSLPSRTPSPIEDLPLTVNTASS",
+       "QSTRNKGKSRDLPDDEDLSRGQKRKYDTSLVEDTSYSDGADDQYINGNPSNAASAKYAKLILDYFVSESS",
+       "QIPNFLNDPPSDFDPNVVIDDDGHTALHWACAMGRIKIIKLLLTCGADIFRANNAGQTALMRAVMFTNNH",
+       "DLRTFPELFESFSGSVINIDRTDRTVFHYVIDIALTKGKVPAARYYLETILSQLSEYPKELIDILNFQDE",
+       "DGETALTLAARCRSKKLVKILLDHGANPKTANRDGKSAEDYILEDDKFRALSPTPCSSGPIRQLDQNSPG",
+       "GTSNRSDFVDLVDPVPIDSNLIPQRSPNASPPHYSETGQRVTKQLLPEVTSMIELLATTFDTELQDKERD",
+       "LDHAVGLLSNIEKEYLEGQRKILNYERMLSDFGEKKLALGDLEKELNDKLGKRYRFGWEKYVRDEEERAR",
+       "RITEQRSKYLQELSIEDRKLLDSSNLRFADPSKQEVLMKLQADERENSDLLNLIRTNSTDVESECDLLRE",
+       "SVQKLSEERERLFKEFINLSSENTGGENEEDDGANHTSANTSRLNNYRKLISLGCGGIGLDEVDEVIESL",
+       "NEGIDVNELNDNGFLTEQDEELGNHQNYHNIHTQGR"]
+  },
+  { "name" : "MBP1_USTMA",
+    "RefSeqID" : "XP_011392621",
+    "UniProtID" : "A0A0D1DP35",
+    "taxonomyID" : 237631,
+    "sequence" : [
+       "MSGDKTIFKATYSGVPVYECIINNVAVMRRRSDDWLNATQILKVVGLDKPQRTRVLEREIQKGIHEKVQG",
+       "GYGKYQGTWIPLDVAIELAERYNIQGLLQPITSYVPSAADSPPPAPKHTISTSNRSKKIIPADPGALGRS",
+       "RRATSIETESEVIGAAPNNVSEGSMSPSPSDISSSSRTPSPLPADRAHPLHANHALAGYNGRDANNHARY",
+       "ADIILDYFVTENTTVPSLLINPPPDFNPDMSIDDDEHTALHWACAMGRIRVVKLLLSAGADIFRVNSNQQ",
+       "TALMRATMFSNNYDLRKFPELFELLHRSILNIDRNDRTVFHHVVDLALSRGKPHAARYYMETMINRLADY",
+       "GDQLADILNFQDDEGETPLTMAARARSKRLVRLLLEHGADPKIRNKEGKNAEDYIIEDERFRSSPSRTGP",
+       "AGIELGADGLPVLPTSSLHTSEAGQRTAGRAVTLMSNLLHSLADSYDSEINTAEKKLTQAHGLLKQIQTE",
+       "IEDSAKVAEALHHEAQGVDEERKRVDSLQLALKHAINKRARDDLERRWSEGKQAIKRARLQAGLEPGALS",
+       "TSNATNAPATGDQKSKDDAKSLIEALPAGTNVKTAIAELRKQLSQVQANKTELVDKFVARAREQGTGRTM",
+       "AAYRRLIAAGCGGIAPDEVDAVVGVLCELLQESHTGARAGAGGERDDRARDVAMMLKGAGAAALAANAGA",
+       "P"]
+  },
+  { "name" : "MBP1_WALME",
+    "RefSeqID" : "XP_006957051",
+    "UniProtID" : "I4YGC0",
+    "taxonomyID" : 671144,
+    "sequence" : [
+       "MSAPPIYKACYSGVPVYEFNCKNVAVMKRRSDSWMNATQILKVANFDKPQRTRILEREVQKGTHEKVQGG",
+       "YGKYQGTWIPMERSVELARQYRIELLLDPIINYLPGPQSPPLAPKHATNVGSRARKSTAPAAQTLPSTSK",
+       "VFHPLSSTKHPAKLAAATNAKAEISDGEDASIPSSPSFKSNSSRTPSPIRINARKRKLEDEATIPSSAID",
+       "GSISYEDIILDYFISESTQIPALLIHPPSDFNPNMSIDDEGHTAMHWACAMGKVRVVKLLLSAGADIFRV",
+       "NHSEQTALMRSVMFSNNYDIRKFPQLYELLHRSTLNLDKHDRTVLHHIVDLALTKSKTHAARYYMECVLS",
+       "KLANYPDELADVINFQDDEGESALTLAARARSKRLVKLLLEHGADSKLPNKDGKTAEDYILEDERFRQSP",
+       "LLNSNHLRLHPPDTSIYAPPAHLFNSETSQNIANTSMSSVANLLESLAQSYDKEITQKERDYQQAQVILR",
+       "NIKTDIVEAKSNIEKMTIDSSEFEHLKHKLRELEMKLEEHSNDVYNKGWEEYSRNVDDPAIDAPSDNVQE",
+       "ECASLRNKIKDLQEKRISSMQELIKRQKEVGTGKKMSEYRKLISVGCGIPTTEIDAVLEMLLESLESENA",
+       "NKKAALASGISGALSSTSSAPSQATTSAPTGVATPGAPVPASSEKAGLLPPAPVMQ"]
+  }
+]
diff --git a/data/refTaxonomy.json b/data/refTaxonomy.json
index 8da18b2..cc8272e 100644
--- a/data/refTaxonomy.json
+++ b/data/refTaxonomy.json
@@ -1,22 +1,22 @@
-[
-  { "ID" : 227321,
-    "species" : "Aspergillus nidulans FGSC A4"},
-  { "ID" : 930090,
-    "species" : "Bipolaris oryzae ATCC 44560"},
-  { "ID" : 240176,
-    "species" : "Coprinopsis cinerea okayama7#130"},
-  { "ID" : 214684,
-    "species" : "Cryptococcus neoformans var. neoformans JEC21"},
-  { "ID" : 367110,
-    "species" : "Neurospora crassa OR74A"},
-  { "ID" : 418459,
-    "species" : "Puccinia graminis f. sp. tritici CRL 75-36-700-3"},
-  { "ID" : 559292,
-    "species" : "Saccharomyces cerevisiae S288C"},
-  { "ID" : 284812,
-    "species" : "Schizosaccharomyces pombe 972h-"},
-  { "ID" : 237631,
-    "species" : "Ustilago maydis 521"},
-  { "ID" : 671144,
-    "species" : "Wallemia mellicola CBS 633.66"}
-]
+[
+  { "ID" : 227321,
+    "species" : "Aspergillus nidulans FGSC A4"},
+  { "ID" : 930090,
+    "species" : "Bipolaris oryzae ATCC 44560"},
+  { "ID" : 240176,
+    "species" : "Coprinopsis cinerea okayama7#130"},
+  { "ID" : 214684,
+    "species" : "Cryptococcus neoformans var. neoformans JEC21"},
+  { "ID" : 367110,
+    "species" : "Neurospora crassa OR74A"},
+  { "ID" : 418459,
+    "species" : "Puccinia graminis f. sp. tritici CRL 75-36-700-3"},
+  { "ID" : 559292,
+    "species" : "Saccharomyces cerevisiae S288C"},
+  { "ID" : 284812,
+    "species" : "Schizosaccharomyces pombe 972h-"},
+  { "ID" : 237631,
+    "species" : "Ustilago maydis 521"},
+  { "ID" : 671144,
+    "species" : "Wallemia mellicola CBS 633.66"}
+]
diff --git a/data/referenceDomainAnnotations.txt b/data/referenceDomainAnnotations.txt
index c8d58d6..be47276 100644
--- a/data/referenceDomainAnnotations.txt
+++ b/data/referenceDomainAnnotations.txt
@@ -1,115 +1,115 @@
-ID	protein.ID	feature.ID	start	end	note
-# MBP1_SACCE
-NA	ref_pro_4	ref_ftr_1	4	102	APSES fold
-NA	ref_pro_4	ref_ftr_2	22	105	KilA-N
-NA	ref_pro_4	ref_ftr_4	108	122	low complexity
-NA	ref_pro_4	ref_ftr_4	236	241	low complexity
-NA	ref_pro_4	ref_ftr_4	279	307	low complexity
-NA	ref_pro_4	ref_ftr_4	700	717	low complexity
-NA	ref_pro_4	ref_ftr_4	700	717	low complexity
-NA	ref_pro_4	ref_ftr_5	394	423	Ankyrin
-NA	ref_pro_4	ref_ftr_5	427	463	Ankyrin
-NA	ref_pro_4	ref_ftr_5	512	541	Ankyrin
-NA	ref_pro_4	ref_ftr_6	381	547	Swi6 fold
-NA	ref_pro_4	ref_ftr_7	633	655	coiled coil
-# MBP1_ASPNI
-NA	ref_pro_1	ref_ftr_1	9	106	APSES fold
-NA	ref_pro_1	ref_ftr_2	26	109	KilA-N
-NA	ref_pro_1	ref_ftr_4	529	534	low complexity
-NA	ref_pro_1	ref_ftr_5	260	289	Ankyrin
-NA	ref_pro_1	ref_ftr_5	381	413	Ankyrin
-NA	ref_pro_1	ref_ftr_6	193	402	Swi6 fold
-NA	ref_pro_1	ref_ftr_7	509	572	coiled coil
-# MBP1_BIPOR
-NA	ref_pro_2	ref_ftr_1	8	106	APSES fold
-NA	ref_pro_2	ref_ftr_2	26	109	KilA-N
-NA	ref_pro_2	ref_ftr_4	134	152	low complexity
-NA	ref_pro_2	ref_ftr_4	267	278	low complexity
-NA	ref_pro_2	ref_ftr_4	670	685	low complexity
-NA	ref_pro_2	ref_ftr_5	266	295	Ankyrin
-NA	ref_pro_2	ref_ftr_5	387	416	Ankyrin
-NA	ref_pro_2	ref_ftr_6	253	421	Swi6 fold
-NA	ref_pro_2	ref_ftr_7	659	681	coiled coil
-NA	ref_pro_2	ref_ftr_7	500	590	coiled coil
-# MBP1_NEUCR
-NA	ref_pro_3	ref_ftr_1	14	114	APSES fold
-NA	ref_pro_3	ref_ftr_2	34	117	KilA-N
-NA	ref_pro_3	ref_ftr_4	130	141	low complexity
-NA	ref_pro_3	ref_ftr_4	253	266	low complexity
-NA	ref_pro_3	ref_ftr_4	514	525	low complexity
-NA	ref_pro_3	ref_ftr_4	554	564	low complexity
-NA	ref_pro_3	ref_ftr_4	601	618	low complexity
-NA	ref_pro_3	ref_ftr_4	620	629	low complexity
-NA	ref_pro_3	ref_ftr_4	636	652	low complexity
-NA	ref_pro_3	ref_ftr_4	658	672	low complexity
-NA	ref_pro_3	ref_ftr_4	725	735	low complexity
-NA	ref_pro_3	ref_ftr_4	752	771	low complexity
-NA	ref_pro_3	ref_ftr_5	268	297	Ankyrin
-NA	ref_pro_3	ref_ftr_5	390	419	Ankyrin
-NA	ref_pro_3	ref_ftr_6	270	426	Swi6 fold
-NA	ref_pro_3	ref_ftr_7	500	550	coiled coil
-# MBP1_SCHPO
-NA	ref_pro_5	ref_ftr_1	8	104	APSES fold
-NA	ref_pro_5	ref_ftr_2	25	113	KilA-N
-NA	ref_pro_5	ref_ftr_4	111	125	low complexity
-NA	ref_pro_5	ref_ftr_4	136	145	low complexity
-NA	ref_pro_5	ref_ftr_4	176	191	low complexity
-NA	ref_pro_5	ref_ftr_4	422	447	low complexity
-NA	ref_pro_5	ref_ftr_5	247	276	Ankyrin
-NA	ref_pro_5	ref_ftr_5	368	397	Ankyrin
-NA	ref_pro_5	ref_ftr_6	234	400	Swi6 fold
-NA	ref_pro_5	ref_ftr_7	457	538	coiled coil
-# MBP1_COPCI
-NA	ref_pro_6	ref_ftr_1	5	103	APSES fold
-NA	ref_pro_6	ref_ftr_2	23	106	KilA-N
-NA	ref_pro_6	ref_ftr_4	170	191	low complexity
-NA	ref_pro_6	ref_ftr_4	435	450	low complexity
-NA	ref_pro_6	ref_ftr_4	611	626	low complexity
-NA	ref_pro_6	ref_ftr_5	270	299	Ankyrin
-NA	ref_pro_6	ref_ftr_5	389	418	Ankyrin
-NA	ref_pro_6	ref_ftr_5	474	509	Ankyrin
-NA	ref_pro_6	ref_ftr_6	257	429	Swi6 fold
-NA	ref_pro_6	ref_ftr_7	500	570	coiled coil
-NA	ref_pro_6	ref_ftr_7	651	678	coiled coil
-# MBP1_CRYNE
-NA	ref_pro_7	ref_ftr_1	113	211	APSES fold
-NA	ref_pro_7	ref_ftr_2	131	215	KilA-N
-NA	ref_pro_7	ref_ftr_4	66	85	low complexity
-NA	ref_pro_7	ref_ftr_4	413	423	low complexity
-NA	ref_pro_7	ref_ftr_4	633	644	low complexity
-NA	ref_pro_7	ref_ftr_4	697	709	low complexity
-NA	ref_pro_7	ref_ftr_5	477	506	Ankyrin
-NA	ref_pro_7	ref_ftr_5	618	647	Ankyrin
-NA	ref_pro_7	ref_ftr_6	452	663	Swi6 fold
-# MBP1_PUCGR
-NA	ref_pro_8	ref_ftr_1	90	187	APSES fold
-NA	ref_pro_8	ref_ftr_2	107	190	KilA-N
-NA	ref_pro_8	ref_ftr_4	208	227	low complexity
-NA	ref_pro_8	ref_ftr_4	273	291	low complexity
-NA	ref_pro_8	ref_ftr_5	442	271	Ankyrin
-NA	ref_pro_8	ref_ftr_5	475	509	Ankyrin
-NA	ref_pro_8	ref_ftr_5	561	590	Ankyrin
-NA	ref_pro_8	ref_ftr_6	429	601	Swi6 fold
-NA	ref_pro_8	ref_ftr_7	827	863	coiled coil
-# MBP1_USTMA
-NA	ref_pro_9	ref_ftr_1	7	104	APSES fold
-NA	ref_pro_9	ref_ftr_2	24	107	KilA-N
-NA	ref_pro_9	ref_ftr_4	106	116	low complexity
-NA	ref_pro_9	ref_ftr_4	161	183	low complexity
-NA	ref_pro_9	ref_ftr_4	657	672	low complexity
-NA	ref_pro_9	ref_ftr_4	776	796	low complexity
-NA	ref_pro_9	ref_ftr_5	245	274	Ankyrin
-NA	ref_pro_9	ref_ftr_5	355	384	Ankyrin
-NA	ref_pro_9	ref_ftr_6	232	395	Swi6 fold
-NA	ref_pro_9	ref_ftr_7	581	609	coiled coil
-# MBP1_WALME
-NA	ref_pro_10	ref_ftr_1	6	103	APSES fold
-NA	ref_pro_10	ref_ftr_2	23	106	KilA-N
-NA	ref_pro_10	ref_ftr_4	149	162	low complexity
-NA	ref_pro_10	ref_ftr_4	171	188	low complexity
-NA	ref_pro_10	ref_ftr_4	618	628	low complexity
-NA	ref_pro_10	ref_ftr_4	634	660	low complexity
-NA	ref_pro_10	ref_ftr_5	250	279	Ankyrin
-NA	ref_pro_10	ref_ftr_5	369	398	Ankyrin
-NA	ref_pro_10	ref_ftr_6	237	409	Swi6 fold
-NA	ref_pro_10	ref_ftr_7	461	585	coiled coil
+ID	protein.ID	feature.ID	start	end	note
+# MBP1_SACCE
+NA	ref_pro_4	ref_ftr_1	4	102	APSES fold
+NA	ref_pro_4	ref_ftr_2	22	105	KilA-N
+NA	ref_pro_4	ref_ftr_4	108	122	low complexity
+NA	ref_pro_4	ref_ftr_4	236	241	low complexity
+NA	ref_pro_4	ref_ftr_4	279	307	low complexity
+NA	ref_pro_4	ref_ftr_4	700	717	low complexity
+NA	ref_pro_4	ref_ftr_4	700	717	low complexity
+NA	ref_pro_4	ref_ftr_5	394	423	Ankyrin
+NA	ref_pro_4	ref_ftr_5	427	463	Ankyrin
+NA	ref_pro_4	ref_ftr_5	512	541	Ankyrin
+NA	ref_pro_4	ref_ftr_6	381	547	Swi6 fold
+NA	ref_pro_4	ref_ftr_7	633	655	coiled coil
+# MBP1_ASPNI
+NA	ref_pro_1	ref_ftr_1	9	106	APSES fold
+NA	ref_pro_1	ref_ftr_2	26	109	KilA-N
+NA	ref_pro_1	ref_ftr_4	529	534	low complexity
+NA	ref_pro_1	ref_ftr_5	260	289	Ankyrin
+NA	ref_pro_1	ref_ftr_5	381	413	Ankyrin
+NA	ref_pro_1	ref_ftr_6	193	402	Swi6 fold
+NA	ref_pro_1	ref_ftr_7	509	572	coiled coil
+# MBP1_BIPOR
+NA	ref_pro_2	ref_ftr_1	8	106	APSES fold
+NA	ref_pro_2	ref_ftr_2	26	109	KilA-N
+NA	ref_pro_2	ref_ftr_4	134	152	low complexity
+NA	ref_pro_2	ref_ftr_4	267	278	low complexity
+NA	ref_pro_2	ref_ftr_4	670	685	low complexity
+NA	ref_pro_2	ref_ftr_5	266	295	Ankyrin
+NA	ref_pro_2	ref_ftr_5	387	416	Ankyrin
+NA	ref_pro_2	ref_ftr_6	253	421	Swi6 fold
+NA	ref_pro_2	ref_ftr_7	659	681	coiled coil
+NA	ref_pro_2	ref_ftr_7	500	590	coiled coil
+# MBP1_NEUCR
+NA	ref_pro_3	ref_ftr_1	14	114	APSES fold
+NA	ref_pro_3	ref_ftr_2	34	117	KilA-N
+NA	ref_pro_3	ref_ftr_4	130	141	low complexity
+NA	ref_pro_3	ref_ftr_4	253	266	low complexity
+NA	ref_pro_3	ref_ftr_4	514	525	low complexity
+NA	ref_pro_3	ref_ftr_4	554	564	low complexity
+NA	ref_pro_3	ref_ftr_4	601	618	low complexity
+NA	ref_pro_3	ref_ftr_4	620	629	low complexity
+NA	ref_pro_3	ref_ftr_4	636	652	low complexity
+NA	ref_pro_3	ref_ftr_4	658	672	low complexity
+NA	ref_pro_3	ref_ftr_4	725	735	low complexity
+NA	ref_pro_3	ref_ftr_4	752	771	low complexity
+NA	ref_pro_3	ref_ftr_5	268	297	Ankyrin
+NA	ref_pro_3	ref_ftr_5	390	419	Ankyrin
+NA	ref_pro_3	ref_ftr_6	270	426	Swi6 fold
+NA	ref_pro_3	ref_ftr_7	500	550	coiled coil
+# MBP1_SCHPO
+NA	ref_pro_5	ref_ftr_1	8	104	APSES fold
+NA	ref_pro_5	ref_ftr_2	25	113	KilA-N
+NA	ref_pro_5	ref_ftr_4	111	125	low complexity
+NA	ref_pro_5	ref_ftr_4	136	145	low complexity
+NA	ref_pro_5	ref_ftr_4	176	191	low complexity
+NA	ref_pro_5	ref_ftr_4	422	447	low complexity
+NA	ref_pro_5	ref_ftr_5	247	276	Ankyrin
+NA	ref_pro_5	ref_ftr_5	368	397	Ankyrin
+NA	ref_pro_5	ref_ftr_6	234	400	Swi6 fold
+NA	ref_pro_5	ref_ftr_7	457	538	coiled coil
+# MBP1_COPCI
+NA	ref_pro_6	ref_ftr_1	5	103	APSES fold
+NA	ref_pro_6	ref_ftr_2	23	106	KilA-N
+NA	ref_pro_6	ref_ftr_4	170	191	low complexity
+NA	ref_pro_6	ref_ftr_4	435	450	low complexity
+NA	ref_pro_6	ref_ftr_4	611	626	low complexity
+NA	ref_pro_6	ref_ftr_5	270	299	Ankyrin
+NA	ref_pro_6	ref_ftr_5	389	418	Ankyrin
+NA	ref_pro_6	ref_ftr_5	474	509	Ankyrin
+NA	ref_pro_6	ref_ftr_6	257	429	Swi6 fold
+NA	ref_pro_6	ref_ftr_7	500	570	coiled coil
+NA	ref_pro_6	ref_ftr_7	651	678	coiled coil
+# MBP1_CRYNE
+NA	ref_pro_7	ref_ftr_1	113	211	APSES fold
+NA	ref_pro_7	ref_ftr_2	131	215	KilA-N
+NA	ref_pro_7	ref_ftr_4	66	85	low complexity
+NA	ref_pro_7	ref_ftr_4	413	423	low complexity
+NA	ref_pro_7	ref_ftr_4	633	644	low complexity
+NA	ref_pro_7	ref_ftr_4	697	709	low complexity
+NA	ref_pro_7	ref_ftr_5	477	506	Ankyrin
+NA	ref_pro_7	ref_ftr_5	618	647	Ankyrin
+NA	ref_pro_7	ref_ftr_6	452	663	Swi6 fold
+# MBP1_PUCGR
+NA	ref_pro_8	ref_ftr_1	90	187	APSES fold
+NA	ref_pro_8	ref_ftr_2	107	190	KilA-N
+NA	ref_pro_8	ref_ftr_4	208	227	low complexity
+NA	ref_pro_8	ref_ftr_4	273	291	low complexity
+NA	ref_pro_8	ref_ftr_5	442	271	Ankyrin
+NA	ref_pro_8	ref_ftr_5	475	509	Ankyrin
+NA	ref_pro_8	ref_ftr_5	561	590	Ankyrin
+NA	ref_pro_8	ref_ftr_6	429	601	Swi6 fold
+NA	ref_pro_8	ref_ftr_7	827	863	coiled coil
+# MBP1_USTMA
+NA	ref_pro_9	ref_ftr_1	7	104	APSES fold
+NA	ref_pro_9	ref_ftr_2	24	107	KilA-N
+NA	ref_pro_9	ref_ftr_4	106	116	low complexity
+NA	ref_pro_9	ref_ftr_4	161	183	low complexity
+NA	ref_pro_9	ref_ftr_4	657	672	low complexity
+NA	ref_pro_9	ref_ftr_4	776	796	low complexity
+NA	ref_pro_9	ref_ftr_5	245	274	Ankyrin
+NA	ref_pro_9	ref_ftr_5	355	384	Ankyrin
+NA	ref_pro_9	ref_ftr_6	232	395	Swi6 fold
+NA	ref_pro_9	ref_ftr_7	581	609	coiled coil
+# MBP1_WALME
+NA	ref_pro_10	ref_ftr_1	6	103	APSES fold
+NA	ref_pro_10	ref_ftr_2	23	106	KilA-N
+NA	ref_pro_10	ref_ftr_4	149	162	low complexity
+NA	ref_pro_10	ref_ftr_4	171	188	low complexity
+NA	ref_pro_10	ref_ftr_4	618	628	low complexity
+NA	ref_pro_10	ref_ftr_4	634	660	low complexity
+NA	ref_pro_10	ref_ftr_5	250	279	Ankyrin
+NA	ref_pro_10	ref_ftr_5	369	398	Ankyrin
+NA	ref_pro_10	ref_ftr_6	237	409	Swi6 fold
+NA	ref_pro_10	ref_ftr_7	461	585	coiled coil
diff --git a/functionTemplate.R b/functionTemplate.R
index d5de8e0..28e252b 100644
--- a/functionTemplate.R
+++ b/functionTemplate.R
@@ -1,37 +1,37 @@
-# functionTemplate.R
-#
-# Purpose:  (General)
-#
-# ToDo:
-# Notes:
-#
-# ==============================================================================
-
-myFunction <- function(a, b=1) {
-	# Purpose:
-	#     Describe ...
-    # Version:
-    # Date:
-    # Author:
-    #
-    # Parameters:
-	#     a: ...
-	#     b: ...
-	# Value:
-	#     result: ...
-	# Example: 
-
-	# code ...
-
-	return(result)
-}
-
-
-# ====  TESTS  =================================================================
-# Enter your function tests here...
-
-if (FALSE) {
-  # test ...
-}
-
-# [END]
+# functionTemplate.R
+#
+# Purpose:  (General)
+#
+# ToDo:
+# Notes:
+#
+# ==============================================================================
+
+myFunction <- function(a, b=1) {
+	# Purpose:
+	#     Describe ...
+    # Version:
+    # Date:
+    # Author:
+    #
+    # Parameters:
+	#     a: ...
+	#     b: ...
+	# Value:
+	#     result: ...
+	# Example: 
+
+	# code ...
+
+	return(result)
+}
+
+
+# ====  TESTS  =================================================================
+# Enter your function tests here...
+
+if (FALSE) {
+  # test ...
+}
+
+# [END]
diff --git a/myScripts/.myProfile.R b/myScripts/.myProfile.R
index 3e1cebb..b8d9736 100644
--- a/myScripts/.myProfile.R
+++ b/myScripts/.myProfile.R
@@ -1,21 +1,21 @@
-# .myProfile.R
-# This contains information which the course framework needs from time to time
-# to personalize assignments, validate submissions etc. Make sure that
-# the information correctly matches our official records.
-# myEmail          char      A string with your eMail address. Use your official
-#                            UofT eMail address.
-# myStudentNumber  numeric   Your UofT student number. Take care to have this
-#                            correct.
-#
-# NOTE:
-# After you have updated this script, move the file to your "myScripts" folder.
-# Utility scripts will look for it on the path: "./myScripts/.myProfile.R"
-#
-# ==============================================================================
-# options(stringsAsFactors = FALSE)
-
-myEMail <- "yh.deng@mail.utoronto.ca"        # e.g. "u.franklin@utoronto.ca"
-myStudentNumber <- 1005845285  # e.g. 1003141592
-MYSPE <- "Cutaneotrichosporon oleaginosum" 
-
-# [END]
+# .myProfile.R
+# This contains information which the course framework needs from time to time
+# to personalize assignments, validate submissions etc. Make sure that
+# the information correctly matches our official records.
+# myEmail          char      A string with your eMail address. Use your official
+#                            UofT eMail address.
+# myStudentNumber  numeric   Your UofT student number. Take care to have this
+#                            correct.
+#
+# NOTE:
+# After you have updated this script, move the file to your "myScripts" folder.
+# Utility scripts will look for it on the path: "./myScripts/.myProfile.R"
+#
+# ==============================================================================
+# options(stringsAsFactors = FALSE)
+
+myEMail <- "yh.deng@mail.utoronto.ca"        # e.g. "u.franklin@utoronto.ca"
+myStudentNumber <- 1005845285  # e.g. 1003141592
+MYSPE <- "Cutaneotrichosporon oleaginosum" 
+
+# [END]
diff --git a/myScripts/ABC-INT-Mutation_impact-code.R b/myScripts/ABC-INT-Mutation_impact-code.R
index ff5f585..51d4bf0 100644
--- a/myScripts/ABC-INT-Mutation_impact-code.R
+++ b/myScripts/ABC-INT-Mutation_impact-code.R
@@ -1,54 +1,51 @@
-myFA <-             readFASTA("data/RAB39B_HSa_coding.fa")
-myFA <- rbind(myFA, readFASTA("data/PTPN5_HSa_coding.fa"))
-myFA <- rbind(myFA, readFASTA("data/PTPN11_HSa_coding.fa"))
-myFA <- rbind(myFA, readFASTA("data/KRAS_HSa_coding.fa"))
-rownames(myFA)<-c("RAB39B", "PTPN5", "PTPN11", "KRAS") # Assign row names
-
-gen_mutations <- function(seq, N) {
-  stats <- c()
-  stats <- cbind(stats, c(0, 0, 0))
-  rownames(stats) <- c("silent", "missense", "nonsense")
-  colnames(stats) <- c("occurrences")
-  # Actual function
-  for (i in 1:217) {
-    # select index for mutation
-    working_seq <- Biostrings::DNAString(seq)
-    aa_seq <- Biostrings::translate(working_seq, no.init.codon = TRUE)
-    mut_action <- sample(c("ins", "del", "sub"), 1, TRUE)
-    mut_seq <- Biostrings::DNAString(seq)
-    if (mut_action == "sub") {
-      mut_index <- sample(1:length(working_seq), 1, replace = TRUE)
-      possible_mutations <- Biostrings::DNA_BASES
-      possible_mutations <- possible_mutations[possible_mutations != as.character(unlist(working_seq[mut_index]))]
-      mut_change <- sample(possible_mutations, 1, replace = TRUE)
-      mut_seq <- Biostrings::replaceLetterAt(mut_seq, mut_index, mut_change)
-    } else if (mut_action == "ins") {
-      mut_index <- sample(1:length(working_seq) - 2, 1, replace = TRUE)
-      possible_mutations <- Biostrings::DNA_BASES
-      mut_seq <- Biostrings::DNAString(paste(substring(working_seq, 1, mut_index - 1), sample(possible_mutations, 1), substring(working_seq, mut_index), sep = ""))
-    } else {
-      mut_index <- sample(1:length(working_seq), 1, replace = TRUE)
-      mut_seq <- mut_seq[-mut_index]
-    }
-    mut_seq <- Biostrings::DNAString(substring(mut_seq, 1, length(mut_seq) - (length(mut_seq) %% 3)))
-    mut_aa <- Biostrings::translate(mut_seq, no.init.codon = TRUE)
-
-    # Note: we need silent, nonsense, and missense
-    mut_aa_stop <- match("*", Biostrings::as.matrix(mut_aa))
-    aa_seq_stop <- match("*", Biostrings::as.matrix(aa_seq))
-    if (!is.na(mut_aa_stop) & (is.na(aa_seq_stop) | mut_aa_stop < aa_seq_stop)) {
-      stats["nonsense", "occurrences"] <- 1 + stats["nonsense", "occurrences"]
-    } else if (mut_aa == aa_seq) {
-      stats["silent", "occurrences"] <- 1 + stats["silent", "occurrences"]
-    } else {
-      stats["missense", "occurrences"] <- 1 + stats["missense", "occurrences"]
-    }
-  }
-  return(stats)
-}
-N_test <- 1200
-gen_mutations("ATGATGATGATGATGATG", N_test)
-gen_mutations("CCCCCCCCCCCCCCCCCC", N_test)
-gen_mutations("TATTACTATTACTATTAC", N_test)
-gen_mutations("TGGTGGTGGTGGTGGTGGTGGTGG", N_test)
-gen_mutations("TGTTGTTGTTGTTGTTGTTGTTGT", N_test)
+gen_mutations <- function(seq, N) {
+  sealKey() # See: http://steipe.biochemistry.utoronto.ca/abc/index.php/BCH441_Code_submisson_instructions
+  stats <- c()
+  stats <- cbind(stats, c(0, 0, 0))
+  rownames(stats) <- c("silent", "missense", "nonsense")
+  colnames(stats) <- c("occurrences")
+  # Actual function
+  for (i in 1:N) {
+    original_seq <- Biostrings::DNAString(seq)
+    aa_seq <- Biostrings::translate(original_seq, no.init.codon = TRUE)
+
+    mut_seq <- Biostrings::DNAString(seq)
+    mut_index <- sample(1:length(original_seq), 1, replace = TRUE)
+    possible_mutations <- Biostrings::DNA_BASES
+    possible_mutations <- possible_mutations[possible_mutations != as.character(unlist(original_seq[mut_index]))]
+    mut_seq <- Biostrings::replaceLetterAt(mut_seq, mut_index, sample(possible_mutations, 1, replace = TRUE))
+    mut_aa <- Biostrings::translate(mut_seq, no.init.codon = TRUE)
+
+
+    term_aa <- regexpr(pattern = "\\*", aa_seq)
+    term_mut_aa <- as.integer(regexpr(pattern = "\\*", mut_aa))
+    if ((term_aa == -1 && term_mut_aa != -1) || (term_mut_aa != -1 && term_mut_aa < term_aa)) {
+      stats["nonsense", "occurrences"] <- 1 + stats["nonsense", "occurrences"]
+    } else if (mut_aa == aa_seq) {
+      stats["silent", "occurrences"] <- 1 + stats["silent", "occurrences"]
+    } else {
+      stats["missense", "occurrences"] <- 1 + stats["missense", "occurrences"]
+    }
+  }
+  sealKey()
+  return(stats)
+}
+
+gen_mutations("ATGATGATGATGATGATG", 1000)
+gen_mutations("CCCCCCCCCCCCCCCCCC", 500)
+gen_mutations("TATTACTATTACTATTAC", 500)
+gen_mutations("TGGTGGTGGTGGTGGTGGTGGTGG", 500)
+gen_mutations("TGTTGTTGTTGTTGTTGTTGTTGT", 500)
+gen_mutations("TGTTGTTGTTGTTGTTGTTGTTGA", 500)
+
+
+myFA <-             readFASTA("data/RAB39B_HSa_coding.fa")
+myFA <- rbind(myFA, readFASTA("data/PTPN5_HSa_coding.fa"))
+myFA <- rbind(myFA, readFASTA("data/PTPN11_HSa_coding.fa"))
+myFA <- rbind(myFA, readFASTA("data/KRAS_HSa_coding.fa"))
+rownames(myFA)<-c("RAB39B", "PTPN5", "PTPN11", "KRAS") # Assign row names
+
+gen_mutations(myFA["RAB39B", 2], 10000)
+gen_mutations(myFA["PTPN5", 2], 10000)
+gen_mutations(myFA["PTPN11", 2], 10000)
+gen_mutations(myFA["KRAS", 2], 10000)
diff --git a/myScripts/BIN-Storing_data.R b/myScripts/BIN-Storing_data.R
index 2aba13f..c4a3886 100644
--- a/myScripts/BIN-Storing_data.R
+++ b/myScripts/BIN-Storing_data.R
@@ -1,41 +1,41 @@
-# ==   1.3  Task: submit for credit (part 1/2)  ================================
-# == Submission - Code to add another philosopher to the datamodel:
-
-pID <- autoincrement(philDB$person)
-immanuelKant <- data.frame(id = pID,
-                           name = "Immanuel Kant",
-                           born = "1724",
-                           died = "1804",
-                           school = "Enlightenment Philosophy")
-philDB$person <- rbind(philDB$person, immanuelKant)
-
-bID = autoincrement(philDB$books)
-immanuelKantWork <- data.frame(id = bID,
-                               title = "Critique of Pure Reason",
-                               published = "1781")
-philDB$books <- rbind(philDB$books, immanuelKantWork)
-philDB$works <- rbind(philDB$works, data.frame(id = autoincrement(philDB$works), personID = pID, bookID = bID))
-
-bID = autoincrement(philDB$books)
-immanuelKantWork <- data.frame(id = bID,
-                               title = "Critique of Judgement",
-                               published = "1790")
-philDB$books <- rbind(philDB$books, immanuelKantWork)
-philDB$works <- rbind(philDB$works, data.frame(id = autoincrement(philDB$works), personID = pID, bookID = bID))
-
-# == Submission: Code to list the philosophical schools in alphabetical order as well as their respective books in alphabetical order.
-
-schools <- unique(philDB$person$school)
-schools <- sort(schools)
-
-for (s in schools) {
-  cat(sprintf("%s\n", s))
-  authors = which(philDB$person$school == s)
-  for (author in authors) {
-    works = which(philDB$works$personID == author)
-    for (work in works) {
-      bookId = which(philDB$books$id == philDB$works$bookID[work])
-      cat(sprintf("\t%s - (%s)\n", philDB$books$title[bookId], philDB$books$published[bookId]))
-    }
-  }
+# ==   1.3  Task: submit for credit (part 1/2)  ================================
+# == Submission - Code to add another philosopher to the datamodel:
+
+pID <- autoincrement(philDB$person)
+immanuelKant <- data.frame(id = pID,
+                           name = "Immanuel Kant",
+                           born = "1724",
+                           died = "1804",
+                           school = "Enlightenment Philosophy")
+philDB$person <- rbind(philDB$person, immanuelKant)
+
+bID = autoincrement(philDB$books)
+immanuelKantWork <- data.frame(id = bID,
+                               title = "Critique of Pure Reason",
+                               published = "1781")
+philDB$books <- rbind(philDB$books, immanuelKantWork)
+philDB$works <- rbind(philDB$works, data.frame(id = autoincrement(philDB$works), personID = pID, bookID = bID))
+
+bID = autoincrement(philDB$books)
+immanuelKantWork <- data.frame(id = bID,
+                               title = "Critique of Judgement",
+                               published = "1790")
+philDB$books <- rbind(philDB$books, immanuelKantWork)
+philDB$works <- rbind(philDB$works, data.frame(id = autoincrement(philDB$works), personID = pID, bookID = bID))
+
+# == Submission: Code to list the philosophical schools in alphabetical order as well as their respective books in alphabetical order.
+
+schools <- unique(philDB$person$school)
+schools <- sort(schools)
+
+for (s in schools) {
+  cat(sprintf("%s\n", s))
+  authors = which(philDB$person$school == s)
+  for (author in authors) {
+    works = which(philDB$works$personID == author)
+    for (work in works) {
+      bookId = which(philDB$books$id == philDB$works$bookID[work])
+      cat(sprintf("\t%s - (%s)\n", philDB$books$title[bookId], philDB$books$published[bookId]))
+    }
+  }
 }
\ No newline at end of file
diff --git a/myScripts/CUTOLTaxonomy.json b/myScripts/CUTOLTaxonomy.json
index 9025c71..999223c 100644
--- a/myScripts/CUTOLTaxonomy.json
+++ b/myScripts/CUTOLTaxonomy.json
@@ -1,4 +1,4 @@
-[{
-	"ID": 879819,
-	"species": "Cutaneotrichosporon oleaginosum"}
-]
+[{
+	"ID": 879819,
+	"species": "Cutaneotrichosporon oleaginosum"}
+]
diff --git a/myScripts/MBP1_CUTOL.json b/myScripts/MBP1_CUTOL.json
index 04d300b..6c086c9 100644
--- a/myScripts/MBP1_CUTOL.json
+++ b/myScripts/MBP1_CUTOL.json
@@ -1,19 +1,19 @@
-[
-  { "name" : "MBP1_CUTOL",
-    "RefSeqID" : "XP_018278493.1",
-    "UniProtID" : "A0A0J0XLN0",
-    "taxonomyID" : 879819,
-    "sequence" : [
-       "MGKKAAAAGDGGPNTIYKATYSGVPVFEFICRNVAVMRRRSDAYLNATQILKVAGFDKPQRTRVLEREVQ",
-       "KGEHEKVQGGYGKYQGTWVPIERGLALAKQYNVEDLLRPIIDFVPRESVSPPPAPKHAVAPPTKRNKEPK",
-       "PKEGLVPIKSAGVLSGTGRHQTPDSVGEDVESEVMDDMSESQTPSPLNGTSLLPAVDERSIDGMDIDGFS",
-       "MMNGGGHARKRSAAMMDDEDEYEQLKRARGNSAVHTPPPPGQSPRYGGMQHPLTQDEYNDIVLNYFVSEA",
-       "TQIPAVMTNPPYNWDPNGIIDDDHHTALHWAAAMGRTRVIKLLLSAGARIFDKNNLDQTPLMRSVMFTNN",
-       "YDLRKFPEVFELLHRSTLNIDKNNRTVFHHIANLALYKGKTHAARYYMEVILSRLADYPQELADVINFAD",
-       "EDGETALTLAARARSKRIVKALLDHGADPKLRNRDHKSAEDYILEDERFRSSPDVMLNRTQPSAAPRNPT",
-       "SLGAAVFSQGLPPQLYNSEAARLASGPHSSDILQQMQALARSFEAEKLNKERDVLEAKAMLTSIHTEVND",
-       "AGRTLHNLGEQMKPLEAKQGELDGLVERLQSKLQKDLARGARKWKAADEGRENRWKNGDDPSQAGEDYSD",
-       "LPELTAIPDNAEAEEERLRGEIEKMRARRGELVTRLVKAQTQTGTTDKMAQYRRLITAGCGGDINPGEID",
-       "DIVGQLLDMLENEAQSGRPAPPPQAAPSWVTS"]
-  }
-]
+[
+  { "name" : "MBP1_CUTOL",
+    "RefSeqID" : "XP_018278493.1",
+    "UniProtID" : "A0A0J0XLN0",
+    "taxonomyID" : 879819,
+    "sequence" : [
+       "MGKKAAAAGDGGPNTIYKATYSGVPVFEFICRNVAVMRRRSDAYLNATQILKVAGFDKPQRTRVLEREVQ",
+       "KGEHEKVQGGYGKYQGTWVPIERGLALAKQYNVEDLLRPIIDFVPRESVSPPPAPKHAVAPPTKRNKEPK",
+       "PKEGLVPIKSAGVLSGTGRHQTPDSVGEDVESEVMDDMSESQTPSPLNGTSLLPAVDERSIDGMDIDGFS",
+       "MMNGGGHARKRSAAMMDDEDEYEQLKRARGNSAVHTPPPPGQSPRYGGMQHPLTQDEYNDIVLNYFVSEA",
+       "TQIPAVMTNPPYNWDPNGIIDDDHHTALHWAAAMGRTRVIKLLLSAGARIFDKNNLDQTPLMRSVMFTNN",
+       "YDLRKFPEVFELLHRSTLNIDKNNRTVFHHIANLALYKGKTHAARYYMEVILSRLADYPQELADVINFAD",
+       "EDGETALTLAARARSKRIVKALLDHGADPKLRNRDHKSAEDYILEDERFRSSPDVMLNRTQPSAAPRNPT",
+       "SLGAAVFSQGLPPQLYNSEAARLASGPHSSDILQQMQALARSFEAEKLNKERDVLEAKAMLTSIHTEVND",
+       "AGRTLHNLGEQMKPLEAKQGELDGLVERLQSKLQKDLARGARKWKAADEGRENRWKNGDDPSQAGEDYSD",
+       "LPELTAIPDNAEAEEERLRGEIEKMRARRGELVTRLVKAQTQTGTTDKMAQYRRLITAGCGGDINPGEID",
+       "DIVGQLLDMLENEAQSGRPAPPPQAAPSWVTS"]
+  }
+]
diff --git a/myScripts/README-myScripts.txt b/myScripts/README-myScripts.txt
index b76c55a..536a089 100644
--- a/myScripts/README-myScripts.txt
+++ b/myScripts/README-myScripts.txt
@@ -1,8 +1,8 @@
-README - myScripts folder:
-==========================
-
-The "myScripts" folder is a place to keep your personal files
-safe. No files will be submitted into this folder on the GitHub, master
-copy. Thefore everything you put into this folder is safe from being
-inadvertently overwritten by a file with the same name that would be
-downloaded in a GitHub "pull" request.
+README - myScripts folder:
+==========================
+
+The "myScripts" folder is a place to keep your personal files
+safe. No files will be submitted into this folder on the GitHub, master
+copy. Thefore everything you put into this folder is safe from being
+inadvertently overwritten by a file with the same name that would be
+downloaded in a GitHub "pull" request.
diff --git a/myScripts/makeProteinDB.R b/myScripts/makeProteinDB.R
index 70a9864..815f56b 100644
--- a/myScripts/makeProteinDB.R
+++ b/myScripts/makeProteinDB.R
@@ -1,4 +1,4 @@
-source("./scripts/ABC-createRefDB.R")
-
-myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./myScripts/MBP1_CUTOL.json"))
-myDB <- dbAddTaxonomy(myDB, jsonlite::fromJSON("./myScripts/CUTOLtaxonomy.json"))
+source("./scripts/ABC-createRefDB.R")
+
+myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./myScripts/MBP1_CUTOL.json"))
+myDB <- dbAddTaxonomy(myDB, jsonlite::fromJSON("./myScripts/CUTOLtaxonomy.json"))
diff --git a/myScripts/myScript.R b/myScripts/myScript.R
index f42a47e..178b255 100644
--- a/myScripts/myScript.R
+++ b/myScripts/myScript.R
@@ -1,38 +1,38 @@
-# myScript.R
-#
-# --- As you work with this file, you can delete the instructions below --------
-# Write your notes and code experiments into this document. Save it
-# from time to time - however I recommend that you do not _commit_
-# your saved version.
-#
-# As long as you do not _commit_ this script to version control,
-# you can _pull_ updated versions of the entire project from GitHub
-# by using the RStudio version control interface. However, once
-# you _commit_ any file in your local version, RStudio will require
-# you to resolve conflicts before you can _pull_ updates.
-# --- As you work with this file, you can delete the instructions above --------
-#
-## Purpose: <...>
-#
-# Version: <...>
-#
-# Date:    <...>
-# Author:   ()
-#
-# Versions:
-#
-#       
-#
-# TODO:
-#   <...>
-#
-# ====================================================================
-
-
-
-
-
-
-
-# [END]
-
+# myScript.R
+#
+# --- As you work with this file, you can delete the instructions below --------
+# Write your notes and code experiments into this document. Save it
+# from time to time - however I recommend that you do not _commit_
+# your saved version.
+#
+# As long as you do not _commit_ this script to version control,
+# you can _pull_ updated versions of the entire project from GitHub
+# by using the RStudio version control interface. However, once
+# you _commit_ any file in your local version, RStudio will require
+# you to resolve conflicts before you can _pull_ updates.
+# --- As you work with this file, you can delete the instructions above --------
+#
+## Purpose: <...>
+#
+# Version: <...>
+#
+# Date:    <...>
+# Author:   ()
+#
+# Versions:
+#
+#       
+#
+# TODO:
+#   <...>
+#
+# ====================================================================
+
+
+
+
+
+
+
+# [END]
+
diff --git a/plottingReference.R b/plottingReference.R
index fb576db..ac44aa1 100644
--- a/plottingReference.R
+++ b/plottingReference.R
@@ -1,1434 +1,1434 @@
-# tocID <- "plottingReference.R"
-#
-# Purpose: Reference to graphical output in R.
-#
-#
-# Version: 2.1
-#
-# Date:    2017 09  -  2021 09
-# Author:  Boris Steipe (boris.steipe@utoronto.ca)
-#
-# V 2.1    First minor updates 2021
-# V 2.0    Comprehensive reference with basic and advanced options based on
-#          an integrated yeast gene expression dataset. Full rewrite of most
-#          sections.
-# V 1.1    Stylistic improvements, code polish, and additional examples
-# V 1.0    Digest from "plotting reference" files
-#
-# ToDo:    Demo 6.3.2 in parallel plots
-#
-#
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                               Line
-#TOC> -------------------------------------------------------------------
-#TOC>   01       INITIALIZE                                            69
-#TOC>   02       THIS REFERENCE ...                                    74
-#TOC>   02.1       Dataset Documentation                               81
-#TOC>   03       PROPORTIONS AND DISTRIBUTIONS                        193
-#TOC>   03.1       barplot()                                          198
-#TOC>   03.2       pie()                                              222
-#TOC>   03.3       boxplot()                                          254
-#TOC>   03.4       hist()                                             312
-#TOC>   03.4.1         overlaying histograms                          357
-#TOC>   04       THE plot() FUNCTION                                  400
-#TOC>   04.1       line plots                                         404
-#TOC>   05       ENCODING INFORMATION: SYMBOL, SIZE, COLOuR           503
-#TOC>   05.1       pch ("plotting character" symbols)                 509
-#TOC>   05.1.1         Line types                                     684
-#TOC>   05.2       cex ("character expansion" size)                   708
-#TOC>   06       COLOUR                                               768
-#TOC>   06.1       Colours by number                                  776
-#TOC>   06.2       Colours by name                                    794
-#TOC>   06.3       Colours as hex-triplets                            820
-#TOC>   06.3.1         Inbuilt palettes                               875
-#TOC>   06.3.2         Custom palettes                                952
-#TOC>   06.3.3         Transparency: The Alpha Channel               1002
-#TOC>   06.4       abline(), lines()  and segments()                 1047
-#TOC>   07       AXES                                                1081
-#TOC>   08       LEGENDS                                             1118
-#TOC>   08.1       basic legends                                     1121
-#TOC>   08.2       Color bars                                        1125
-#TOC>   09       LAYOUT                                              1246
-#TOC>   10       TEXT                                                1281
-#TOC>   11       DRAWING ON PLOTS                                    1309
-#TOC>   12       IMAGES                                              1376
-#TOC>   13       CONTOUR LINES                                       1381
-#TOC>   14       3D PLOTS                                            1386
-#TOC>   15       GRAPHS AND NETWORKS                                 1391
-#TOC>   16       OTHER GRPAHICS PACKAGES                             1396
-#TOC>   17       INTERACTIVE PLOTS                                   1420
-#TOC>   17.1       locator()                                         1424
-#TOC>   17.2       plotly::                                          1427
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    01  INITIALIZE  =========================================================
-
-SC <- readRDS("data/SC.rds")   # <<<- execute this line first
-
-
-# =    02  THIS REFERENCE ...  =================================================
-
-# This script covers basic plotting and graphical output options of R. The
-# functions are demonstrated with an integrated data set of yeast gene
-# expression data and annotations.
-
-
-# ==   02.1  Dataset Documentation  ============================================
-
-# You do not need to study the dataset in detail but it will be useful to refer
-# to this documentation from time to time to understand what data is being
-# plotted and what one can therefore learn from the results.
-
-# The integrated dataset SC is a list that contains an analysis of yeast gene
-# expression profiles originally published by Pramila et al. (2002; PMID:
-# 12464633) and accessible as GSE3653 on GEO
-# (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3635). This is a
-# high-resolution (5 min. interval) data set spanning two cycles of a
-# synchronized yeast culture. It includes 6228 expression profiles with 25
-# time-points assigned to yeast systematic names. It is complemented with gene
-# annotations taken from SGD, and augmented with a set of GO slims. GO slims
-# were rerieved by navigating to https://www.yeastgenome.org/ and using the menu
-# to choose Function >> Gene Ontology >> GOslim Mapping File. This downloads
-# go_slim_mapping.tab which was further processed to annotate each gene with its
-# corresponding GO terms. To evaluate cyclical regulation, a curve-fitting
-# protocol was followed to fit a cyclical epxpression model with parameters
-# amplitude, phase, frequency, exponential damping, and baseline shift. After
-# fitting the profiles, correlations with the fitted model were calculated and
-# the first peak of the model was determined as a marker of when the expression
-# was ON in the cell-cycle. Finally, the expression peak markers were assigned
-# to seven phases of the cell cycle, and GO term enrichments were computed. A
-# A subset was selected with the following parameters:
-
-# selCCl <-
-#   nlsParams$A > 0.075 &   # reasonably high Amplitude
-#   nlsParams$cor > 0.6 &   # good correlation with the parametrized model
-#   nlsParams$f > 0.75 &    # period between 0.75 ...
-#   nlsParams$f < 1.333 &   # ... and 1.333 hours
-#   nlsParams$k < 0.03 &    # limiting the exponential damping
-#   nlsParams$k > -0.001
-# sum(selCCl)               # 1,297 genes in the data set show some level
-#                           # of periodic expression-variation in the cell
-#                           # cycle.
-#
-# Thus the dataset comprises numeric and categorical data
-# Here are the data details:
-# SC$xpr     :  expression profiles. Numeric matrix with 1,297 rows of genes
-# ======                             and 25 colums of time points in 5 minute
-#                                    intervals
-# Example:
-# --------
-# SC$xpr[169, 1:5]
-# >          t.0          t.5         t.10         t.15         t.20
-# > -0.055703429 -0.116124955 -0.135965733 -0.068665035 -0.001819363
-#
-#
-# SC$mdl     :  parametrized model. Data frame with 1,297 rows of genes
-# ======
-# SC$mdl$A     : model parameter: amplitude   (log ratio)
-# SC$mdl$phi   : model parameter: phase       (degrees)
-# SC$mdl$f     : model parameter: 1/frequency (hours)
-# SC$mdl$k     : model parameter: damping
-# SC$mdl$B     : model parameter: baseline shift
-# SC$mdl$cor   : correlation of observation and model
-# SC$mdl$peaks : timepoint of first expression peak of model (minutes)
-#
-# # Example:
-# --------
-# SC$mdl[169, ]
-# >         A       phi        f          k           B       cor    peaks
-# > 0.1007908 -81.04413 1.012092 0.00656052 -0.01857916 0.8437175 37.52217
-#
-#
-# SC$ann     :  annotations.  Data frame with 1,297 rows of genes
-# ======
-# SC$ann$SGD          :  Saccharomyces Gene Database identifier
-# SC$ann$sysName      :  Yeast gene systematic name
-# SC$ann$stdName      :  The standard name under which the gene is known
-# SC$ann$alias        :  common alias name(s)
-# SC$ann$description  :  free-text description of the gene
-# SC$ann$GO           :  GO IDs of the SGD GO slim subset annotated to the gene
-#
-# Example:
-# --------
-# SC$ann[169, ]
-# >        SGD sysName stdName                     alias
-# > S000002214 YDL056W    MBP1 transcription factor MBP1
-# > description
-# > YDL056W Transcription factor; involved in regulation [...]
-# > GO
-# > YDL056W GO:0005634 GO:0003677 GO:0001071 GO:0000278
-#
-# SC$phases
-# ---------
-# Data frame with a definition of yeast cell cycle phase names and
-# time-points derived from inspection of the  SC$mdl$peaks  distribution.
-#         names start ends
-#   1     Sense     0    6
-#   2      Prep     6   15
-#   3 Replicate    15   30
-#   4  Assemble    30   37
-#   5 Segregate    37   43
-#   6 Duplicate    43   55
-#   7 Stabilize    55   65
-#
-# SC$GO
-# -----
-# Data frame with GO term information and GO term enrichment data
-# SC$GO$ontology  : {C|F|P} identifying the "cellular component", "molecular
-#                           function" or "biological process" ontology
-# SC$GO$GOid      : Gene Ontyology ID of the term
-# SC$GO$label     : Short label of the term
-# SC$GO$tAll      : Count of times the term is annotated in any gene
-# SC$GO$tCC       : ... times term is annotated to a gene in this dataset
-# SC$GO$t...      : ... annotated to one ofg the cell-cycle phases
-# SC$GO$xs...     : ... enrichment factor in each cell cycle phase
-#
-
-
-# =    03  PROPORTIONS AND DISTRIBUTIONS  ======================================
-
-# Distributions of numeric variable characterize the values. Proportions compare values. A typical use case is to characterize a set of measurements, or compare several sets of measurements.
-
-
-# ==   03.1  barplot()  ========================================================
-# Draws a bar with height proportional to a given number.
-
-barplot(mean(SC$xpr[ , "t.20"])) # barplot of the mean expression at t.20
-
-# Barplots show only a single number. They tell us nothing about the underlying distribution. They are commonly used to compare several distributions:
-
-barplot(colMeans(SC$xpr[ , c("t.0", "t.20", "t.40", "t.60")]))
-
-# barplots take the usual plotting parameters
-myPal <- colorRampPalette(c("#00FF0055", "#0066FF55",    # a "palette" function
-                            "#00FFFF55", "#CCCCAA55",
-                            "#FF00FF55", "#FF006655",
-                            "#FFFFFF55"), alpha = TRUE)  # transparent colors
-
-barplot(colMeans(SC$xpr[ , 1:13]),         # mean expression changes, first hour
-        main = "Mean expression changes",
-        xlab = "time points",
-        cex.names = 0.6,                   # scale column names
-        ylab = "Expression (log ratio)",
-        cex.axis = 0.8,                    # scale of y-axis labels
-        col = myPal(13))                   # get 13 color values from myPal()
-
-
-# ==   03.2  pie()  ============================================================
-# Generally not preferred, but simple to do
-
-table(SC$GO$ontology)
-# Example: how many genes are anotated to the GO terms in the Cellular Component
-# category?
-CCids <- SC$GO$GOid[SC$GO$ontology == "C"]  # get GO ids for "C" ontology
-x <- unlist(strsplit(SC$ann$GO, " ")) # split GO term strings on blank-spaces
-                                      # and dump them all into one single vector
-x <- x[x %in% CCids] # subset the ones in CCIDs (about 40%)
-
-pie(table(x), cex = 0.5)
-
-# This can be better visualized in a barplot
-myT <- sort(table(x), decreasing = TRUE)
-b <- barplot(myT,                  # assign the plot - we need the x-coordinates
-     main = "Genes annotated to GO terms in the Cellular Component Ontology",
-     cex.main = 0.8,
-     names.arg = "",               # blank the names - otherwise they are
-     ylab = "counts",              #   taken from the names of the object
-     cex.axis = 0.8,
-     col = colorRampPalette(c("#CCAAFF", "#FFDDFF", "#FFFFFF"))(length(myT)),
-     ylim = c(0, 1.5 * max(myT)))  # make  space at the top
-
-# Add the GOids as text()
-text(b, myT,                 # b holds the x coordinates, myT is y
-     labels = names(myT),    # take the names from the table - names
-     srt = 90,               # rotate to vertical
-     adj = c(-0.1, 0.5),     # align center, top
-     cex = 0.5)
-
-
-# ==   03.3  boxplot()  ========================================================
-# A boxplot() is almost always preferred to a barplot, since it includes an
-# estimate of the distribution:
-
-boxplot(SC$xpr[ , "t.20"])   # boxplot of expression values at t.20
-
-# What are these elements?
-# Assigning the plot to a variable makes the numbers available so we can
-# use them for annotation:
-oPar <- par(mar = c(0.2,3,0.2,0.2))   # reduce the margins
-( b <- boxplot(SC$xpr[ , "t.20"]))
-
-xT <- 1.3
-cT <- "#DD0000"
-# outliers
-myOut    <- mean(b$out[b$out > b$stats[5]]) # outliers above the whiskers
-myOut[2] <- mean(b$out[b$out < b$stats[1]]) # outliers below the whiskers
-text(1.04, myOut,        adj=c(0,0.5), cex=0.7, col=cT, "outliers")
-
-# whiskers
-text(1.12, b$stats[1,1], adj=c(0,0.5), cex=0.7, col=cT, "min(x_i > Q1-1.5*IQR)")
-text(1.12, b$stats[5,1], adj=c(0,0.5), cex=0.7, col=cT, "max(x_i < Q3+1.5*IQR)")
-
-# quartiles
-# "min(x_i > Q1-1.5*IQR)" is "the smallest x in the data that still lies
-# within 1.5 times the inter-quartile range below Q1
-text(1.23, b$stats[2,1], adj=c(0,0.5), cex=0.7, col=cT, "Q1 (lower quartile)")
-text(1.23, b$stats[4,1], adj=c(0,0.5), cex=0.7, col=cT, "Q3 (upper quartile)")
-
-# median
-text(1.23, b$stats[3,1], adj=c(0,0.5), cex=0.9, col=cT, "median")
-
-# the mean is not shown
-text(0.79, mean(SC$xpr[,"t.20"]), adj=c(1,0.5), cex=0.7, col="#999999", "mean")
-
-par(oPar)  # reset the margins
-
-# If we have datasets with more columns, each column gets its own boxplot
-boxplot(SC$xpr[ , c("t.0", "t.20", "t.40", "t.60")])
-
-# boxplots take the usual plotting parameters
-myPal <- colorRampPalette(c("#00FF0055", "#0066FF55",    # a "palette" function
-                            "#00FFFF55", "#CCCCAA55",
-                            "#FF00FF55", "#FF006655",
-                            "#FFFFFF55"), alpha = TRUE)  # transparent colors
-
-boxplot(SC$xpr[ , 1:13],                   #  expression changes, first hour
-        main = "Expression levels",
-        xlab = "time points",
-        cex.axis = 0.6,                    # scale axis names
-        ylab = "Expression (log ratio)",
-        col = myPal(13))                   # get 13 color values from myPal()
-
-# This plot shows that there is a noticable fluctuation of expression levels
-# over the course of the first 60 minutes of the experiment. This may be due to
-# these genes being selected as having cyclically varying expression profiles.
-
-
-# ==   03.4  hist()  ===========================================================
-# Histograms are superbly informative and one of the workhorses of our analyses. A histogram answers the question how many observations do we have in a particular range of a (continuously varying) variable.
-
-# Here we plot a histogram of the first expression peaks of genes, computed as
-# the first peak of the fitted model for every gene in our set. We might be
-# interested in whether the expression of different genes peaks continuously
-# over the cycle, or whetehr there are time intervals where waves of expression
-# of different genes can be observed in response to cycle-control signals.
-hist(SC$mdl$peaks)
-
-# We can explicitly set breakpoints for the histogram:
-# Here we set breaks at 4 minute intervals
-( myBreaks <- seq(0, 80, by = 4) )  # Note: 21 values bound 20 intervals
-hist(SC$mdl$peaks, breaks = myBreaks)
-
-# Assigning the output of hist() makes the values
-# used in constructing the histogram accessible:
-
-( H <- hist(SC$mdl$peaks) )
-
-# for example, we can use this to plot the actual numbers:
-text(H$mids,                       # midpoints of the bars
-     H$counts,                     # counts -> probabilities
-     labels = H$counts,            # add labels to each bar: count numbers
-     adj = c(0.5, -0.5),           # text is centered on x and raised in y
-     cex = 0.6,
-     col = "#8888FF")
-
-# histograms take the usual plotting parameters
-myPal <- colorRampPalette(c("#00FF0055", "#0066FF55",    # a "palette" function
-                            "#00FFFF55", "#CCCCAA55",
-                            "#FF00FF55", "#FF006655",
-                            "#FFFFFF55"), alpha = TRUE)  # transparent colors
-
-myBreaks <- seq(0, 80, length.out = 81)    # one-minute intervals
-hist(SC$mdl$peaks,                         # gene expression first peaks
-     breaks = myBreaks,
-     main = "Timing of first peaks of during the cell-cycle",
-     sub = "The bimodal distribution distinguishes replication from division",
-     cex.sub = 0.8,
-     xlab = "t (min.)",
-     ylab = "counts",
-     col = myPal(81))                      # get 81 color values from myPal()
-
-
-# ===   03.4.1  overlaying histograms                     
-
-# Histograms can be plotted one-over another to compare them
-# Example: when do genes with different GO term annotations first peak?
-
-# GO:0005730 "nucleolus"
-# GO:0032200 "telomere organization"
-# GO:0006260 "DNA replication"
-sel1 <- grep("GO:0005730", SC$ann$GO)  # 103 genes
-sel2 <- grep("GO:0032200", SC$ann$GO)  # 32 genes
-sel3 <- grep("GO:0006260", SC$ann$GO)  # 67 genes
-
-# define breaks. This is important to make the histograms comparable
-myBreaks <- seq(0, 80, by = 4)
-# plot the first histogram
-
-hist(SC$mdl$peaks[sel1], breaks = myBreaks,
-     main = "Peak timing for different GO terms",
-     xlab = "t (min)",
-     ylab = "Counts",
-     ylim = c(0, 50),
-     col = "#FF007955")
-
-# first overlay
-hist(SC$mdl$peaks[sel2], breaks = myBreaks,
-     col = "#00B2FF55",
-     add = TRUE)
-
-# second overlay
-hist(SC$mdl$peaks[sel3], breaks = myBreaks,
-     col = "#7FDFC955",
-     add = TRUE)
-
-# Legend
-legend("topright",
-       fill = c("#FF007955", "#00B2FF55", "#7FDFC955"),
-       legend = c("GO:0005730\n(nucleolus)\n",   # "\n" is a line-break
-                  "GO:0032200\n(telomere organization)\n",
-                  "GO:0006260\n(DNA replication)\n"),
-       cex = 0.6,
-       bty = "n")  # no box around the legend
-
-
-# =    04  THE plot() FUNCTION  ================================================
-# plot() is the workhorse of data visualization in R. But plot() is also a "generic" - i.e. different "classes" can define their own plot-methods and plot will "dispatch" the right method for a class.
-
-
-# ==   04.1  line plots  =======================================================
-
-# Lines are useful to visually associate ralated data points, like points in a
-# sequence of events.
-
-# plot an expression profile: value over time
-plot(SC$xpr[169, ])
-
-# note the x is implied and plotted as "index", the expression values are used
-# for the y-axis by default.
-
-# plot types
-plot(SC$xpr[169, ], type = "p")  # points, the default
-plot(SC$xpr[169, ], type = "l")  # lines
-plot(SC$xpr[169, ], type = "b")  # both points and lines
-plot(SC$xpr[169, ], type = "c")  # empty points and lines
-plot(SC$xpr[169, ], type = "o")  # overplotted
-plot(SC$xpr[169, ], type = "s")  # steps
-plot(SC$xpr[169, ], type = "h")  # like histogram
-plot(SC$xpr[169, ], type = "n")  # none - useful to create an empty frame
-                                 # to add other elements later
-text(SC$xpr[169, ], colnames(SC$xpr), cex = 0.5) # ... such as labels
-
-# title and axis labels
-iRow <- 169
-t <- seq(0, 120, by = 5)               # set actual x-values
-plot(t, SC$xpr[iRow, ],
-     type = "b",
-     main = "Expression profile",
-     sub = "Data: GSE3653 (Pramila et al. 2002)",
-     xlab = "time(min)",
-     ylab = "Expression (log ratio)")
-
-# adjusting font sizes
-plot(t, SC$xpr[iRow, ],
-     type = "b",
-     main = "Expression profile",
-     sub = "Data: GSE3653 (Pramila et al. 2002)",
-     xlab = "time(min)",
-     ylab = "Expression (log ratio)",
-     cex.main = 1.1,                                # title
-     cex.sub = 0.6,                                 # subtitle
-     cex.axis = 0.7,                                # axis values
-     cex.lab = 0.8)                                 # axis labels
-
-# x and y axis ranges can be defined with a two-element vector
-plot(t, SC$xpr[iRow, ],
-     type = "b",
-     xlim = c(0, 120),                      # tight against the values
-     ylim = c(-max(abs(SC$xpr[iRow, ])),
-               max(abs(SC$xpr[iRow, ]))),  # symmetric around 0
-     main = "", sub = "", xlab = "", ylab = "")
-abline(h = 0, col = "#FF000044")
-
-# pull in annotations with sprintf()
-plot(t, SC$xpr[iRow, ],
-     type = "b",
-     main = sprintf("Expression profile: %s (%s)",
-                    SC$ann$stdName[iRow],
-                    SC$ann$sysName[iRow]),
-     sub = "", xlab = "", ylab = "")
-
-# When exploring data, it is useful to have a standard view of data as a
-# function:
-
-xprPlot <- function(iRow) {
-  t <- seq(0, 120, by=5)
-  yMax <- max(abs(SC$xpr[iRow, ])) * 1.1
-
-  plot(t, SC$xpr[iRow, ],
-       ylim = c(-yMax, yMax),
-       type = "b",
-       main = sprintf("Expression profile: %s (%s)",
-                      SC$ann$stdName[iRow],
-                      SC$ann$sysName[iRow]),
-       xlab = "time(min)",
-       ylab = "Expression (log ratio)",
-       cex.main = 1.1,
-       cex.axis = 0.7,
-       cex.lab = 0.8)
-  abline(h = 0, col = "#FF000044")
-}
-
-xprPlot(169)
-xprPlot(1124)
-
-# better to visualize by plotting one OVER the other.
-# This is done with the function points()
-
-xprPlot(1124)
-points(t, SC$xpr[169, ], type = "b", cex = 0.7, col = "#EE5500CC")
-
-
-
-# In general, when we plot(), we produce a "scatterplot" of X and y values.
-# scatterplot: one against the other
-plot(SC$xpr[169, ], SC$xpr[1124, ])  # these two profiles are anticorrelated
-
-
-# =    05  ENCODING INFORMATION: SYMBOL, SIZE, COLOuR  =========================
-
-# We have many options to encode information in scatter plots (and others), in order to be able to visualize and discover patterns and relationships. The most important ones are the type of symbol to use, its size, and its color.
-
-
-
-# ==   05.1  pch ("plotting character" symbols)  ===============================
-# There are many types of symbols available to plot points and they can all be varied by type, size, and color to present additional information. Which one to use is defined in the argument  pch  . The default is pch = 1: the open circle. Characters 1:20 are regular symbols:
-
-# reduce margins
-oPar <- par(mar = c(1, 1, 1, 1))
-
-# Empty plot frame ...
-plot(c(0,11), c(0,11), type = "n", axes = FALSE, xlab = "", ylab = "")
-
-# coordinates for first 25 symbols
-x1 <- c(1:10, 1:10)
-y1 <- c(rep(10, 10),rep(9, 10))
-myPch <- 1:20
-
-points(x1, y1, pch = myPch, cex = 1.2)
-
-# pch 21:25 can have different border and fill colours. Borders are defined with
-# "col", fills are defined with "fill":
-
-x2 <- 1:5
-y2 <- rep(8,5)
-
-myCols <- c("#4B0055", "#00588B", "#009B95", "#53CC67", "#FDE333")
-
-points(x2, y2, pch=21:25, col="#708090", bg = myCols, cex = 1.8)
-
-# ten more symbols are defined as characters
-x3 <- 1:10
-y3 <- rep(6,10)
-myPch <- c(".", "o", "O", "0","a","A", "*", "+","-","|")
-points(x3, y3, pch = myPch) # note: "myPCh" is a character vector while
-                            # the other pch were identified by integers
-
-# The ASCII codes for characters 32 to 126 can also be used as plotting symbols
-myPch <- 32:126
-x4 <- (((myPch - 32) %% 19) + 2) / 2
-y4 <- 5 - ((myPch - 32) %/% 19)
-points(x4, y4, pch=32:126, col="#0055AA")
-
-# I don't think I have ever actually used characters as plotting characters in
-# this way; it is much more straightforward to just use the text() function in
-# that case, rather than having to look up which ASCII code is which character,
-# and remembering which ones are available as numbers, and which ones are
-# identified by the character itself. But the first twenty five I use a lot, and
-# I also end up looking up their codes a lot. So here is a function to plot them for reference. You can paste it into your .Rprofile to keep it at hand:
-
-pchRef <- function() {
-  # a reference plot for the first twenty five plotting characters
-
-  oPar <- par(mar = c(1, 1, 1, 1), mfrow = c(1, 1))
-  plot(c(0,6), c(0,6), type = "n", axes = FALSE, xlab = "", ylab = "")
-
-  x <- ((0:24) %% 5) + 1
-  y <- rep(5:1, each = 5)
-
-  idx <- 1:20
-  points(x[idx], y[idx], pch = idx, cex = 2)
-
-  idx <- 21:25
-  points(x[idx], y[idx], pch = idx, cex = 2, col = "#708090",
-         bg=c("#CC0033AA", "#991566AA", "#662A99AA", "#323FCCAA", "#0055FFAA"))
-
-  text(x - 0.3, y, labels = sprintf("%d:", 1:25), col = "#7766AA", cex = 0.8)
-
-  par(oPar)
-}
-
-
-# reset margins
-par(oPar)
-
-
-# In addition to the default fonts, a large set of Hershey vector fonts is
-# available which gives access to many more plotting and labeling options via
-# text()
-demo(Hershey)
-
-# Plotting other symbols:
-# In the most general way, Unicode characters can be plotted as text.
-# The code is passed in hexadecimal, long integer, with a negative sign.
-# Here is a quarter note (Unicode: 266a) using plot()
-plot(0.5,0.5, pch=-0x266aL, cex=5, xlab="", ylab="")
-
-# However, rendering may vary across platforms since it depends on unicode
-# support. If your character can't be rendered, you'll only get an empty box.
-
-
-# 1.1.1 Using pch to emphasize different categories
-
-# In general, when we plot(), we produce a "scatterplot" of X and y values.
-# scatterplot: one against the other
-
-tRep <- c("t.15", "t.20", "t.25", "t.30")   # Replication-phase time points
-tDup <- c("t.40", "t.45", "t.50", "t.55")   # Duplication-phase time points
-
-plot(rowMeans(SC$xpr[ , tRep]), rowMeans(SC$xpr[ , tDup]))
-
-# select top ten replication enriched GO terms
-sel <- order(SC$GO$xsReplicate, decreasing = TRUE)[1:10]
-SC$GO$label[sel]  # what are these?
-GOrep <- SC$GO$GOid[sel]   # GO terms that are enriched in the Replication phase
-
-sel <- order(SC$GO$xsDuplicate, decreasing = TRUE)[1:10]
-SC$GO$label[sel]  # what are these?
-GOdup <- SC$GO$GOid[sel]   # GO terms that are enriched in the Duplication phase
-
-# define sets of genes that are annotated to one or the other GO id set
-repGenes <- logical(nrow(SC$ann))             # prepare an empty vector
-for (id in GOrep) {                           # whenever we find one of the
-  repGenes <- repGenes | grepl(id, SC$ann$GO) # characteristic GO IDs annotated
-}                                             # to a a gene, we put TRUE in its
-sum(repGenes)                                 # spot of the repGenes vector.
-xRep <- rowMeans(SC$xpr[ repGenes, tRep]) # repGenes in the replication phase
-yRep <- rowMeans(SC$xpr[ repGenes, tDup]) # repGenes in the duplication phase
-
-# same thing for the genes that are enriched in the duplication phase
-dupGenes <- logical(nrow(SC$ann))
-for (id in GOdup) {
-  dupGenes <- dupGenes | grepl(id, SC$ann$GO)
-}
-sum(dupGenes)
-xDup <- rowMeans(SC$xpr[ dupGenes, tRep]) # dupGenes in the replication phase
-yDup <- rowMeans(SC$xpr[ dupGenes, tDup]) # dupGenes in the duplication phase
-
-# Ready to plot:
-# base plot without the ref... and dup... genes
-basePlot <- function(...) {
-  sel <- ! (repGenes | dupGenes)
-  m <- sprintf("Expression changes between phases (%d genes)",
-               nrow(SC$xpr))
-  plot(rowMeans(SC$xpr[ sel, tRep]),
-       rowMeans(SC$xpr[ sel, tDup]),
-       main = m,
-       xlab = "Expression in Replication phase",
-       ylab = "Expression in Duplication phase",
-       cex.main = 0.9,
-       cex.lab = 0.8,
-       ...)
-  abline(h = 0, col = "#0088FF44")       # horizontal zero
-  abline(v = 0, col = "#0088FF44")       # vertical zero
-}
-
-basePlot()
-# plotting the rep.. and dup... sets with different pch
-points(xRep, yRep, pch=24, col="#000000", bg="#FFFFFF")  # white up triangle
-points(xDup, yDup, pch=25, col="#000000", bg="#FFFFFF")  # white down triangle
-
-# These are clearly different distributions,  but the plot is overall too busy.
-
-# Using color improves the plot:
-basePlot(pch=21, col="#AAAAAA", bg="#DDDDDD")
-points(xRep, yRep, pch=24, col="#000000", bg="#66DDFF")
-points(xDup, yDup, pch=25, col="#000000", bg="#FF77FF")
-
-# Even better may be to use transparent colors, to address the overlap:
-basePlot(pch=19, col="#00000022")
-points(xRep, yRep, pch=19, col="#33BBFF66")
-points(xDup, yDup, pch=19, col="#FF44AA44")
-
-# this needs a legend:
-legend ("bottom",
-        legend = c(
-  sprintf("%d Genes with Replication-\nenriched GO terms\n ", sum(repGenes)),
-  sprintf("%d Genes with Duplication-\nenriched GO terms\n ", sum(dupGenes)),
-          "Other Genes\n "
-          ),
-        horiz = TRUE,
-        pch = 19,
-        col = c("#33BBFF66", "#FF44AA44", "#00000022"),
-        cex = 0.6,
-        pt.cex = 1.0,
-        inset = 0.02,
-        box.col = "#DDDDDD",
-        bg = "#FFFFFF")
-
-# ===   05.1.1  Line types                                
-
-# Basically all plots take arguments lty to define the line type, and lwd
-# to define line width
-
-# empty plot ...
-plot(c(0,10), c(0,10), type = "n", axes = FALSE, xlab = "", ylab = "")
-
-# Line type
-for (i in 1:8) {
-  y <- 10.5-(i/2)
-  segments(1,y,5,y, lty=i)
-  text(6, y, paste("lty = ", i), col="grey60", adj=0, cex=0.75)
-}
-
-# Line width
-for (i in 1:10) {
-  y <- 5.5-(i/2)
-  segments(1,y,5,y, lwd=(0.3*i)^2)
-  text(6, y, paste("lwd = ", (0.3*i)^2), col="grey60", adj=0, cex=0.75)
-}
-
-
-
-# ==   05.2  cex ("character expansion" size)  =================================
-
-# The size of characters can be controlled with the cex parameter. cex takes a
-# vector of numbers, mapped to the vecors of plotted elements. The usual R
-# conventions of vector recycling apply, so if cex s only a single number, it is
-# applied to all plotted elements. Here is an example plotting expression
-# amplitudes in a comparison of pre-replication vs. replication phase
-# expression.
-
-
-tPre <- c("t.0",  "t.5",  "t.10")   # Pre replication-phase time points
-tMid <- c("t.25", "t.30", "t.35")   # Midway between replication and duplication
-
-x <- rowMeans(SC$xpr[ , tPre])      # row means average out fluctuations
-y <- rowMeans(SC$xpr[ , tMid])
-plot(x, y)
-
-myAmps <- SC$mdl$A                  # fetch the correlations of the fitted
-                                    # low correlations are not well modeled
-                                    # with a periodic function
-
-hist(myAmps, breaks = 40)           # examine the distribution
-hist(log(myAmps), breaks = 40)      # sometimes log() is be better suited
-                                    # to map to symbol size
-
-# useful cex sizes are approximately between 0.5 and 5
-# Example:
-N <- 10
-cexMin <- 0.5
-cexMax <- 5.0
-myCex <- seq(cexMax, cexMin, length.out=N)  # Vector of cex values of length N
-# We plot these points from largest to smallest, so we don't overplot
-x1 <- runif(N)
-y1 <- runif(N)
-plot(x1, y1, xlim = 0:1, ylim = 0:1, xlab = "", ylab = "", pch = 16,
-     cex = myCex, col= colorRampPalette(c("#F4F0F8", "#3355DD"))(N))
-
-# Note that the smallest cex at 0.5 is _really_ small.
-points(x1[N], y1[N], cex = 3.0, col = "#FF000077") # Here it is!
-
-# To rescale a vector into the desired interval (lo, up) we write a little
-# function. First we normalize the vector into the interval (0, 1), then we
-# multiply it by up-lo, and add lo.
-#
-
-reScale <- function(x, lo = 0, up = 1) {
-  return((((x-min(x)) / (max(x)-min(x))) * (up-lo)) + lo  )
-}
-
-# with this, our coding amplitudes as plot character size becomes quite easy:
-plot(x, y, pch=16,
-     cex = reScale(myAmps, lo=0.5, up=5),  # <<<---- That's all we need
-     col="#4499BB22")
-abline(a = 0, b = 1, col = "#DD333344")
-abline(h = 0, col = "#33333344")
-abline(v = 0, col = "#33333344")
-
-# ToDo: add titles, scale legend, and interpretation
-
-
-# =    06  COLOUR  =============================================================
-
-# Colour is immensely important for data visualization,  and colours in R can be
-# specified by number, by name, as hex-triplets, as rgb or hsv values, and
-# through several color-space specifications. The can be used individually, as
-# vectors that are defined manually, and through colour palettes. And the can be
-# solid and transparent.
-
-# ==   06.1  Colours by number  ================================================
-# The col=... parameter for plots is 1 by default and you can
-# set it to the range 0:8.
-# 0: white
-# 1: black (the default)
-# 2: red
-# 3: green
-# 4: blue
-# 5: cyan
-# 6: magenta
-# 7: yellow
-# 8: grey
-barplot(rep(1,9), col=0:8, axes=FALSE, names.arg=c(0:8))
-
-# As you can see, the default primary colours are garish and offend even the
-# most rudimentary sense of aesthetics. Using these colors won't earn you
-# respect. Fortunately we have many more sophisticated ways to define colours.
-
-# ==   06.2  Colours by name  ==================================================
-# You may have noticed that "red", "green", and "blue" work for the col=...
-# parameter, but you probably would not have imagined that "peachpuff",
-# "firebrick" and "goldenrod" are valid as well. In fact, there are 657 named
-# colours in R. Access them all by typing:
-colors()
-
-myCols <- c(
-  "firebrick2",
-  "tomato",
-  "goldenrod1",
-  "peachpuff",
-  "papayawhip",
-  "seashell",
-  "whitesmoke"
-)
-pie(c(1, 1, 2, 3, 5, 8, 13),
-    col = myCols,
-    labels = myCols)
-
-# Read more about named colours (and related topics) in Melanie Frazier's pdf:
-# https://www.nceas.ucsb.edu/sites/default/files/2020-04/colorPaletteCheatsheet.pdf
-
-# I almost never use named colours anymore but use hex-triplets instead...
-
-
-# ==   06.3  Colours as hex-triplets  ==========================================
-# Hex triplets in R work exactly as in HTML: a triplet of
-# RGB values in two-digit hexadecimal representation. The
-# first two digits specify the red value, the second two
-# are for green, then blue. R accepts a fourth pair of
-# digits to optionally specify the transparency - the "Alpha" channel. The
-# semantics of the hex-triplet is thus "#RRGGBB" or "#RRGGBBAA".
-# Read more e.g. at http://en.wikipedia.org/wiki/Web_colors
-
-# The function col2rgb() converts colour names to rgb values ...
-col2rgb("violetred")
-
-# ... and rgb() converts rgb values to hex-code:
-rgb(1, 0.5, 0.23)
-
-# to get hexcodes from names takes a bit more: divide and transpose -
-rgb(t(col2rgb("violetred")/255))
-
-# Here is a utility function to convert all manners of color-vectors to
-# hex-triplets. You can copy it into your .Rprofile if you want  to keep it at hand.
-
-col2hex <- function(colV, dput = FALSE, pal = FALSE, N = NULL) {
-  # colV   a vector or scalar of color names, hex-codes or integers
-  # dput   logical. If TRUE, character output is suitable for pasting into code.
-  # pal    logical. If TRUE, the colors will be used in a palette. N must
-  #                   be defined in that case
-  # value: a vector of hex-codes of the same length, or a dput() string
-
-  h <- rgb(t(col2rgb(colV) / 255))
-  if (pal == TRUE) {
-    if (is.null(N)) { stop("N must be defined if pal is TRUE.") }
-    h <- colorRampPalette(h)(N)
-  }
-  if (dput == TRUE) {
-    dput(h)
-    return(invisible(h))
-  }
-  return(h)
-}
-
-# Examples:
-myCols <- c( "firebrick2", "tomato",   "goldenrod1", "peachpuff",
-             "papayawhip", "seashell", "whitesmoke")
-
-col2hex(myCols)
-col2hex(myCols, dput = TRUE)
-
-# barplot with the original colors
-barplot(rep(1, length(myCols)), col=myCols)
-
-# expanding the palette with col2hex()
-N <- 40
-barplot(rep(1, N), col = col2hex(myCols,pal=TRUE,N=N) )
-
-
-# ===   06.3.1  Inbuilt palettes                          
-
-# In R, a palette is a function (!) that takes a number as its argument and
-# returns that number of colors, those colors can then be used to color points
-# in a plot or other elements. In principle, such colors can serve three
-# distinct puposes:
-
-# Qualitative colors have a different color for different types of entities.
-# Here the color serves simply to distinguish the types, it represents
-# "categorical information". For example, we can assign different colors to each
-# individual amino acid.
-
-# Sequential colors distinguish order in a sequence: the colors distinguish the first from the last element in the order. For example we often color the N-terminus of a protein blue(ish) and the C-terminus red(dish).
-
-# Diverging colors encode some property and are scaled to represent particular
-# values of the property. For example we might represent temperature with a
-# black-body radiation color palette. Note that "sequential" can be seen as
-# "diverging on order".
-
-# R has are a number of inbuilt palettes; Here is a convenience function to view
-# palettes. Input can be either a palette, the name of a hcl.colors palette, or a vector of colors:
-plotPal <- function(pal, N = 40) {
-  if (is.character(pal)) {
-    if (length(pal) == 1) { # name of a hcl palette
-      myCols <- hcl.colors(N, pal)
-      m <- pal
-    } else {   # already a color vector
-      myCols <- colorRampPalette(pal)(N)
-      m <- sprintf("Custom palette (spread to %d values)", N)
-    }
-  } else { # palette function
-    myCols <- pal(N)
-    m <- as.character(substitute(pal))
-  }
-  barplot(rep(1,N), main = m, axes = FALSE, col =  myCols)
-}
-
-plotPal(rainbow)         # rainbow() is the quintessential qualitative palette
-plotPal(cm.colors)       # cm.colors() is sequential: cyan-white-magenta
-plotPal(terrain.colors)  # a diverging palette: map elevation colors
-
-# A lot of thought has gone into the  construction of palettes in the
-# colorspace:: package, now available as hcl.colors in R (hcl: hue, chroma,
-# luminance), which is a better way to specify perceptually equidistant colors.
-# It's worthwhile to read through the help-file for more information -
-?hcl.colors
-# ... and to sample the 110 available palettes:
-hcl.pals()
-
-# Examples:
-plotPal("Viridis")
-plotPal("Pastel 1")
-plotPal("Spectral")
-plotPal("OrRd")
-plotPal("Cold")
-plotPal("Mint")
-plotPal("Berlin")
-
-# If you are curious, you can execute the code below, then select the line that
-# draws the plot and press ctrl+enter repeatedly to step through the entire
-# set of palettes.
-
-# i <- 0
-# plotPal(hcl.pals()[( i<-i+1 )])
-
-# Worthy of special mention are the color-Brewer palettes, in particular for
-# their accessibility considerations. Do consider that not all of us view colors
-# in the same way!
-if (! requireNamespace("RColorBrewer", quietly = TRUE)) {
-  install.packages("RColorBrewer")
-}
-?RColorBrewer
-RColorBrewer::display.brewer.all(colorblindFriendly = TRUE)
-
-plotPal(RColorBrewer::brewer.pal(11, "PuOr"), N = 11)
-
-
-# ===   06.3.2  Custom palettes                           
-#
-# Bespoke palettes are easily created with colorRampPalette(). The function
-# returns a palette, i.e. a function (not a vector of colors). You assign the
-# function to a variable (your palette), and you call it with an argument of how
-# many color values you want it to return.
-
-
-myPal <- colorRampPalette(c("#000000", "#FFFFFF", "#FF0000"))
-myPal(10)
-plotPal(myPal)
-
-# The parameter "bias" controls the spacing of colors at the end of the palette:
-plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FF0000"), bias = 0.5))
-plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FF0000"), bias = 1.0))
-plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FF0000"), bias = 2.0))
-
-# But a similar effect can be obtained by duplicating one or more colours to
-# spread the range ...
-plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FF0000", "#FF0000")))
-
-# ... and this can also be used to spread the middle
-plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FFFFFF", "#FF0000")))
-
-# nicer pastels
-myPastels <- colorRampPalette(c("#FFFFFF",
-                                "#FF9AA2",
-                                "#FFB7B2",
-                                "#FFDAC1",
-                                "#E2F0CB",
-                                "#B5EAD7",
-                                "#C7CEEA",
-                                "#FFFFFF"))
-plotPal(myPastels)
-
-# outliers
-myOutliers <- colorRampPalette(c("#66666A",
-                                 "#9999A6",
-                                 "#CCCCCA",
-                                 "#EEEEF9",
-                                 "#FFBBA8",
-                                 "#F30000"), bias = 0.5)
-plotPal(myOutliers)
-
-# Other many sources on the Web that help to generate matching colors upon which
-# to build palette. One such site with a very large selection of
-# community-contributed palettes is:  https://color.adobe.com/  ... and there is
-# also an option to extract palettes from user-supplied images.
-
-
-# ===   06.3.3  Transparency: The Alpha Channel           
-
-# R colours are actually specified as quartets: the fourth value
-# the "Alpha channel" defines the transparency. Setting this to
-# values other than "FF" (the default) can be useful for very
-# crowded plots, or for creating overlays.
-
-
-x <- SC$xpr[, "t.10"] # towards the beginning of the cycle
-y <- SC$xpr[, "t.50"] # towards the end of the cycle
-
-# compare:
-plot(x,y, pch = 19, col = "#EE3A8C")
-plot(x,y, pch = 19, col = "#EE3A8C12") # Alpha at ~ 10%
-
-# or with multiple overlays of varying size using points() ...
-plot(  x,y, pch = 16, cex = 1,   col = "#AA330009")
-points(x,y, pch = 19, cex = 2,   col = "#44558803")
-points(x,y, pch = 20, cex = 0.5, col = "#EE3A8C08")
-
-# A similar behaviour can be obtained from "density adapted colors with the
-# densCols() function
-plot (x, y, col = densCols(x, y), pch = 19, cex = 1.5)
-
-
-# ... or with the smootScatter function
-smoothScatter(x, y)
-
-smoothScatter(x, y,
-              colramp = colorRampPalette(c("#66666A",
-                                           "#9999A6",
-                                           "#CCCCCA",
-                                           "#EEEEF9",
-                                           "#FFBBA8",
-                                           "#F30000"), bias = 0.5),
-              nrpoints = 0,
-              xlim = c(-0.4, 0.3),
-              ylim = c(-0.4, 0.3),
-              xlab = "Expression (t = 10 min.)",
-              ylab = "Expression (t = 50 min.)")
-abline(h = 0, col = "#FFFFFF", lwd = 0.5)
-abline(v = 0, col = "#FFFFFF", lwd = 0.5)
-
-# ToDo: expand to "real" density plots (cf. )
-
-# ==   06.4  abline(), lines()  and segments()  ================================
-
-# lines() draws an arbitrary line from the supplied points
-
-N <- 300
-x <- seq(0.8 * pi, 40 * pi, length.out = N)
-y <- sin(x)/x
-plot(x, y, type = "n") # only set up the axes
-abline(h = 0)
-lines(x, y, lwd = 4, col = "#FFFFFF")  # "erase" parts of the axis
-lines(x, y, col = "#CC0000")           # draw the line we want
-
-
-# Varying the color of a plotted line can't be done in base r. Use
-# ggplot2:: or plotrix::color.scale.lines() instead
-
-if (! requireNamespace("plotrix", quietly = TRUE)) {
-    install.packages("plotrix")
-}
-
-# plotrix::color.scale.lines() can change color as well as width of a line
-# to give you more ways to visually display features of your data
-
-N <- 300
-x <- seq(0.8 * pi, 40 * pi, length.out = N)
-y <- sin(x)/x
-myCol <- myPastels(N)                   # colors
-myLwd <- seq(0.5, 10, length.out = N)    # line width
-
-plot(x, y, type = "n") # only set up the axes
-abline(h = 0, lwd = 2, col = "#CCCCCC")
-
-plotrix::color.scale.lines(x, y, col = myCol, lwd = myLwd)
-
-# =    07  AXES  ===============================================================
-
-# For Details, see:
-?plot.default
-
-n <- 1000
-x <- rnorm(n)
-y <- x^3 * 0.25 + rnorm(n, sd=0.75)
-
-plot(x,y)  # Default
-
-# Axes
-plot(x,y, xlim=c(-4, 4)) # fixed limits
-plot(x,y, xlim=c(-4, 4), ylim=c(10, -10)) # reverse is possible
-plot(x,y, log="xy") # log axes
-
-# The axis parameters in the default plot are limited.
-# If you want more control, suppress the printing of an axis
-# in the plot and use the axis() function instead.
-?axis
-
-
-# Axis-labels and title are straightforward parameters of plot
-plot(x,y, xlab="rnorm(n)",
-          ylab="x^3 * 0.25 + rnorm(n, sd=0.75)",
-          cex.main=1.3,
-          main="Sample\nPlot",
-          cex.sub=0.75,
-          col.sub="grey",
-          sub="Scatterplot of noisy 3d-degree polynomial"
-          )
-
-# Add gridlines
-?grid
-grid()
-
-
-# =    08  LEGENDS  ============================================================
-
-
-# ==   08.1  basic legends  ====================================================
-#
-# ToDo: basic legend syntax
-
-# ==   08.2  Color bars  =======================================================
-
-# Legends for a plot with a sequential or divergent spectrum are a special case, since we need to map a continuum of colors to a scale
-
-# Example: plotting expression levels in two cell-cycle phases against each other, and applying a divergent color spectrum that displays the model correlations: genes with low correlations have expression profiles that can not be well approximated with a periodic function.
-
-
-tRep <- c("t.15", "t.20", "t.25")   # Replication-phase time points
-tDup <- c("t.40", "t.45", "t.50")   # Duplication-phase time points
-x <- rowMeans(SC$xpr[ , tRep])
-y <- rowMeans(SC$xpr[ , tDup])
-plot(x, y)
-
-myCors <- SC$mdl$cor
-hist(myCors, breaks = 40)
-
-# The values are of course continuous, but we need to map them to a discrete set of colors. The strategy is as follows:
-#  - scale the values we wish to map into the interval [0, 1]
-#  - multiply with the desired number of intervals minus one, round, and add one
-#  - these integers can  be used as indices into a vector of colors, ...
-#  - ... which gives the colors for the plot
-
-# A divergent palette
-corPal <- colorRampPalette(c("#90005DAA", "#D44F99AA", "#F4C2B8AA",
-                             "#F8DEB9AA", "#EEFAE9AA", "#D7F1C8AA",
-                             "#BBE9C4AA", "#7CB8A6AA"), alpha = TRUE)
-hist(myCors,
-     breaks = seq(min(myCors), max(myCors), length.out = 21),
-     col = corPal(20))
-
-N <- 10  # We'll map into N  intervals
-
-
-#$$$
-# The usual way to scale a vector x to the [0,1] interval
-# is:  x-min / max-min
-idx <- (myCors - min(myCors)) / (max(myCors) - min(myCors))
-# Now: expand this to N-1, round, and add 1
-idx <- round(idx * (N-1)) + 1
-# confirm that these numbers are now suitable as indices into an 1:N vector
-table(idx)
-# create the color vector
-( corCols <- corPal(N) )
-# and make a vector of colors, one for each gene
-myCols <- corCols[idx]
-
-# then we plot ...
-plot(x, y, pch = 16, col = myCols, cex = 1.2)
-
-# there is a lot of overlap - let's re-plot in order of decreasing correlations
-# so the low correlations (reds) get plotted last. Ordering this way will give a
-# "cleaner" appearance for divergent plots.
-ord <- order(myCors, decreasing = TRUE)
-plot(x[ord], y[ord], pch = 16, col = myCols[ord], cex = 1.2)
-
-#: Titles etc.
-basePlot <- function() {
-  m <- sprintf("Expression changes between phases (%d genes)",
-               length(x))
-  plot(x[ord], y[ord],
-       main = m,
-       xlab = "mean Expression in Replication phase",
-       ylab = "mean Expression in Duplication phase",
-       sub = paste("Coloured by Correlation of",
-                   "Expression Profile (xpr) to",
-                   "Fitted Periodic Function (mdl)."),
-       cex.main = 0.9,
-       cex.lab = 0.7,
-       cex.sub = 0.7,
-       pch = 16,
-       col = myCols[ord],
-       cex = 1.2)
-  abline(h = 0, col = "#0088FF44")       # horizontal zero
-  abline(v = 0, col = "#0088FF44")       # vertical zero
-}
-
-basePlot()
-
-# to print a color-bar legend, we use the plotrix package
-
-if (! requireNamespace("plotrix", quietly = TRUE)) {
-  install.packages("plotrix")
-}
-
-corLabels <- sprintf("%4.2f",           # craft the labels to plot
-                     seq(min(myCors),
-                         max(myCors),
-                         length.out = length(corCols)))
-
-oPar <- par(mar=c(5,4,4,7))  # more space on the margin
-par("xpd" = FALSE)
-basePlot()
-
-# we need to figure out where to put the legend. par("usr") gives us the coordinates of the last plot window. We'll space the legend between 1.05 and 1.1 times the plot width, and centred along the y-axis with a height of 0.8 times the plot height.
-dx <- par("usr")[2] - par("usr")[1]
-dy <- par("usr")[4] - par("usr")[3]
-xl <- par("usr")[2] + (dx * 0.05)    # left
-xr <- xl + (0.05 * dx)               # right
-yb <- par("usr")[4] - (0.9 * dy)     # bottom
-yt <- yb + (0.8 * dy)                # top
-
-
-plotrix::color.legend(xl, yb, xr, yt,
-                      corLabels,
-                      corCols,
-                      align = "rb",       # labels to the right of the bar
-                      cex = 0.8,
-                      gradient = "y")     # vertical gradient
-
-# Almost perfect. Except we need a title for the color bar.
-# in this case the title is "r:" ... but the "r" should be in italics.
-par("xpd" = TRUE)  # enable plotting into the margin
-text(xr + (0.01 * dx), yt + 0.015 * dy,
-     expression(italic(r)["xpr,mdl"]),
-     adj = c(0, 0),
-     cex = 0.9)
-
-par(oPar)
-
-# ToDo - this is a common plot prototype - cast it into a function
-
-# =    09  LAYOUT  =============================================================
-
-# par, lattice, constant aspect ratio
-
-
-# Most parameters of the plot window can be set via
-# the functions plot(), hist() etc., but some need to
-# be set via the par() function. Calling par() without
-# arguments lists the current state of the plotting
-# parameters. Calling it with arguments, returns the
-# old parameters and sets new parameters. Thus setting
-# new parameters and saving the old ones can be done
-# in one step. The parameters that have to be set via
-# par include:
-
-# -  multiple plots in one window (mfrow, mfcol, mfg)
-# - margin layout (mai, mar mex, oma, omd, omi)
-# - controlling position and size of a plot in the figure (fig, plt, ps, pty)
-# - see ?par for details.
-
-n <- 1000
-x <- rnorm(n)
-y <- x^3 * 0.25 + rnorm(n, sd=0.75)
-
-# set window background and plotting axes via par
-opar <- par(bg="steelblue", fg="lightyellow")
-# set axis lables and titles via plot parameters
-plot(x,y, col.axis="lightyellow", col.lab="lightyellow")
-par(opar)  # reset to old values
-
-plot(x,y) # confirm reset
-
-# aspect! ...
-#
-
-# =    10  TEXT  ===============================================================
-
-
-# ToDo: sprintf()
-
-# Plotting arbitrary text
-# use the text() function to plot characters and strings to coordinates
-?text
-
-# Example: add labels to the symbols
-# first set: plain symbols (1 to 20)
-text(x1-0.4, y1, paste(1:20), cex=0.75)
-# symbols with separate background (21 to 25)
-text(x2-0.4, y2, paste(21:25), cex=0.75)
-# third set: special characters, change font for clarity
-text(x3-0.4, y3, extra, col="slateblue", cex=0.75, vfont=c("serif", "plain"))
-
-
-# ToDo: writing into the margin ...
-#   par("mar")
-#   par("xpd")
-#   par("srt")
-#
-# ToDo: plotmath()   # demo(plotmath)
-# ToDo: expression()
-
-
-
-# =    11  DRAWING ON PLOTS  ===================================================
-
-
-# To plot lines on top of plots there are several options:
-
-# segments()  # for lines with known endpoints
-# lines()     # joining x,y coordinate lists with lines
-# arrows()    # ... but to get a filled arrow use polygon()
-# curve()     # drawing a curve based on a given expression
-# abline()    # drawing horizontal or vertical lines or lines with
-#             #   given slope and intercept ()
-
-
-# Example: dividing a plot into 60° regions, centred on a point.
-# A general approach to "lines" on a plot is provided by segments().
-# However in this special case one can use abline().
-# We have to take care though that the aspect ratio for the
-# plot is exactly 1 - otherwise our angles are not right.
-# Therefore we need to set the asp parameter for plots.
-
-# For a general sketch
-#  - we plot the frame a bit larger, don't draw axes
-#  - draw the ablines
-#  - draw two arrows to symbolize the coordinate axes
-
-p <- c(4, 2)
-plot(p[1], p[2],
-     xlim=c(-0.5,10.5),
-     ylim=c(-0.5,10.5),
-     xlab="", ylab="",
-     axes=FALSE,
-     asp=1.0)
-abline(h=p[2], lty=2)  # horizontal
-abline(p[2] - (p[1]*tan(pi/3)),  tan(pi/3), lty=2)  # intercept, slope
-abline(p[2] + (p[1]*tan(pi/3)), -tan(pi/3), lty=2)  # intercept, slope
-arrows(0, 0, 10, 0, length=0.1)   # length of arrow
-arrows(0, 0, 0, 10, length=0.1)
-
-
-# curves()
-# rect()
-# polygon()
-
-# example: plot the area under the normal distribution as a polygon, and overlay
-# a histogram
-set.seed(12357)
-x <- rnorm(50)
-sig <- 1.0
-myBreaks <- seq(-3 * sig, 3 * sig, by = 0.5 * sig)
-
-# first, draw a histogram but don't show the bars
-hist(x, breaks = myBreaks, freq = FALSE, col = "#FFFFFF", border = "#FFFFFF")
-
-# next, plot the curve as a polygon() into the existing plot area
-dn <- seq(-3, 3, length.out = 100)
-polygon(dn, dnorm(dn), col = "#00FF8822", border = "#FFFFFF")
-
-# finally, replot the histogram. Setting "add = TRUE" plots it over the
-# previous histogram
-hist(x, breaks = myBreaks, freq = FALSE,
-     col = "#0000FF22", border = "#00000033",   # note: transparent colours
-     add = TRUE)
-
-#
-# More: see the Index of functions for the graphics package
-
-
-# =    12  IMAGES  =============================================================
-
-# Todo
-
-
-# =    13  CONTOUR LINES  ======================================================
-
-# ToDo
-
-
-# =    14  3D PLOTS  ===========================================================
-
-# ToDo
-
-
-# =    15  GRAPHS AND NETWORKS  ================================================
-
-# ToDo
-
-
-# =    16  OTHER GRPAHICS PACKAGES  ============================================
-
-# Packages in the standard distribution ...
-#
-#   graphics::
-#   grid::
-#   lattice::
-
-# Packages that can be downloaded from CRAN
-# ... use with install.packages("package"), then
-#              library("package")
-
-#   hexbin::
-#   ggplot2::
-
-# Packages that can be downloaded  from BioConductor
-#   prada:
-# if (! requireNamespace("prada", quietly=TRUE)) {
-#     if (! requireNamespace("BiocManager", quietly=TRUE)) {
-#       install.packages("BiocManager")
-#     }
-#     BiocManager::install("prada")
-# }
-
-# =    17  INTERACTIVE PLOTS  ==================================================
-
-# ToDo
-
-# ==   17.1  locator()  ========================================================
-# ToDo
-
-# ==   17.2  plotly::  =========================================================
-# ToDo
-
-
-
-
-# [End]
-
+# tocID <- "plottingReference.R"
+#
+# Purpose: Reference to graphical output in R.
+#
+#
+# Version: 2.1
+#
+# Date:    2017 09  -  2021 09
+# Author:  Boris Steipe (boris.steipe@utoronto.ca)
+#
+# V 2.1    First minor updates 2021
+# V 2.0    Comprehensive reference with basic and advanced options based on
+#          an integrated yeast gene expression dataset. Full rewrite of most
+#          sections.
+# V 1.1    Stylistic improvements, code polish, and additional examples
+# V 1.0    Digest from "plotting reference" files
+#
+# ToDo:    Demo 6.3.2 in parallel plots
+#
+#
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                               Line
+#TOC> -------------------------------------------------------------------
+#TOC>   01       INITIALIZE                                            69
+#TOC>   02       THIS REFERENCE ...                                    74
+#TOC>   02.1       Dataset Documentation                               81
+#TOC>   03       PROPORTIONS AND DISTRIBUTIONS                        193
+#TOC>   03.1       barplot()                                          198
+#TOC>   03.2       pie()                                              222
+#TOC>   03.3       boxplot()                                          254
+#TOC>   03.4       hist()                                             312
+#TOC>   03.4.1         overlaying histograms                          357
+#TOC>   04       THE plot() FUNCTION                                  400
+#TOC>   04.1       line plots                                         404
+#TOC>   05       ENCODING INFORMATION: SYMBOL, SIZE, COLOuR           503
+#TOC>   05.1       pch ("plotting character" symbols)                 509
+#TOC>   05.1.1         Line types                                     684
+#TOC>   05.2       cex ("character expansion" size)                   708
+#TOC>   06       COLOUR                                               768
+#TOC>   06.1       Colours by number                                  776
+#TOC>   06.2       Colours by name                                    794
+#TOC>   06.3       Colours as hex-triplets                            820
+#TOC>   06.3.1         Inbuilt palettes                               875
+#TOC>   06.3.2         Custom palettes                                952
+#TOC>   06.3.3         Transparency: The Alpha Channel               1002
+#TOC>   06.4       abline(), lines()  and segments()                 1047
+#TOC>   07       AXES                                                1081
+#TOC>   08       LEGENDS                                             1118
+#TOC>   08.1       basic legends                                     1121
+#TOC>   08.2       Color bars                                        1125
+#TOC>   09       LAYOUT                                              1246
+#TOC>   10       TEXT                                                1281
+#TOC>   11       DRAWING ON PLOTS                                    1309
+#TOC>   12       IMAGES                                              1376
+#TOC>   13       CONTOUR LINES                                       1381
+#TOC>   14       3D PLOTS                                            1386
+#TOC>   15       GRAPHS AND NETWORKS                                 1391
+#TOC>   16       OTHER GRPAHICS PACKAGES                             1396
+#TOC>   17       INTERACTIVE PLOTS                                   1420
+#TOC>   17.1       locator()                                         1424
+#TOC>   17.2       plotly::                                          1427
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    01  INITIALIZE  =========================================================
+
+SC <- readRDS("data/SC.rds")   # <<<- execute this line first
+
+
+# =    02  THIS REFERENCE ...  =================================================
+
+# This script covers basic plotting and graphical output options of R. The
+# functions are demonstrated with an integrated data set of yeast gene
+# expression data and annotations.
+
+
+# ==   02.1  Dataset Documentation  ============================================
+
+# You do not need to study the dataset in detail but it will be useful to refer
+# to this documentation from time to time to understand what data is being
+# plotted and what one can therefore learn from the results.
+
+# The integrated dataset SC is a list that contains an analysis of yeast gene
+# expression profiles originally published by Pramila et al. (2002; PMID:
+# 12464633) and accessible as GSE3653 on GEO
+# (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3635). This is a
+# high-resolution (5 min. interval) data set spanning two cycles of a
+# synchronized yeast culture. It includes 6228 expression profiles with 25
+# time-points assigned to yeast systematic names. It is complemented with gene
+# annotations taken from SGD, and augmented with a set of GO slims. GO slims
+# were rerieved by navigating to https://www.yeastgenome.org/ and using the menu
+# to choose Function >> Gene Ontology >> GOslim Mapping File. This downloads
+# go_slim_mapping.tab which was further processed to annotate each gene with its
+# corresponding GO terms. To evaluate cyclical regulation, a curve-fitting
+# protocol was followed to fit a cyclical epxpression model with parameters
+# amplitude, phase, frequency, exponential damping, and baseline shift. After
+# fitting the profiles, correlations with the fitted model were calculated and
+# the first peak of the model was determined as a marker of when the expression
+# was ON in the cell-cycle. Finally, the expression peak markers were assigned
+# to seven phases of the cell cycle, and GO term enrichments were computed. A
+# A subset was selected with the following parameters:
+
+# selCCl <-
+#   nlsParams$A > 0.075 &   # reasonably high Amplitude
+#   nlsParams$cor > 0.6 &   # good correlation with the parametrized model
+#   nlsParams$f > 0.75 &    # period between 0.75 ...
+#   nlsParams$f < 1.333 &   # ... and 1.333 hours
+#   nlsParams$k < 0.03 &    # limiting the exponential damping
+#   nlsParams$k > -0.001
+# sum(selCCl)               # 1,297 genes in the data set show some level
+#                           # of periodic expression-variation in the cell
+#                           # cycle.
+#
+# Thus the dataset comprises numeric and categorical data
+# Here are the data details:
+# SC$xpr     :  expression profiles. Numeric matrix with 1,297 rows of genes
+# ======                             and 25 colums of time points in 5 minute
+#                                    intervals
+# Example:
+# --------
+# SC$xpr[169, 1:5]
+# >          t.0          t.5         t.10         t.15         t.20
+# > -0.055703429 -0.116124955 -0.135965733 -0.068665035 -0.001819363
+#
+#
+# SC$mdl     :  parametrized model. Data frame with 1,297 rows of genes
+# ======
+# SC$mdl$A     : model parameter: amplitude   (log ratio)
+# SC$mdl$phi   : model parameter: phase       (degrees)
+# SC$mdl$f     : model parameter: 1/frequency (hours)
+# SC$mdl$k     : model parameter: damping
+# SC$mdl$B     : model parameter: baseline shift
+# SC$mdl$cor   : correlation of observation and model
+# SC$mdl$peaks : timepoint of first expression peak of model (minutes)
+#
+# # Example:
+# --------
+# SC$mdl[169, ]
+# >         A       phi        f          k           B       cor    peaks
+# > 0.1007908 -81.04413 1.012092 0.00656052 -0.01857916 0.8437175 37.52217
+#
+#
+# SC$ann     :  annotations.  Data frame with 1,297 rows of genes
+# ======
+# SC$ann$SGD          :  Saccharomyces Gene Database identifier
+# SC$ann$sysName      :  Yeast gene systematic name
+# SC$ann$stdName      :  The standard name under which the gene is known
+# SC$ann$alias        :  common alias name(s)
+# SC$ann$description  :  free-text description of the gene
+# SC$ann$GO           :  GO IDs of the SGD GO slim subset annotated to the gene
+#
+# Example:
+# --------
+# SC$ann[169, ]
+# >        SGD sysName stdName                     alias
+# > S000002214 YDL056W    MBP1 transcription factor MBP1
+# > description
+# > YDL056W Transcription factor; involved in regulation [...]
+# > GO
+# > YDL056W GO:0005634 GO:0003677 GO:0001071 GO:0000278
+#
+# SC$phases
+# ---------
+# Data frame with a definition of yeast cell cycle phase names and
+# time-points derived from inspection of the  SC$mdl$peaks  distribution.
+#         names start ends
+#   1     Sense     0    6
+#   2      Prep     6   15
+#   3 Replicate    15   30
+#   4  Assemble    30   37
+#   5 Segregate    37   43
+#   6 Duplicate    43   55
+#   7 Stabilize    55   65
+#
+# SC$GO
+# -----
+# Data frame with GO term information and GO term enrichment data
+# SC$GO$ontology  : {C|F|P} identifying the "cellular component", "molecular
+#                           function" or "biological process" ontology
+# SC$GO$GOid      : Gene Ontyology ID of the term
+# SC$GO$label     : Short label of the term
+# SC$GO$tAll      : Count of times the term is annotated in any gene
+# SC$GO$tCC       : ... times term is annotated to a gene in this dataset
+# SC$GO$t...      : ... annotated to one ofg the cell-cycle phases
+# SC$GO$xs...     : ... enrichment factor in each cell cycle phase
+#
+
+
+# =    03  PROPORTIONS AND DISTRIBUTIONS  ======================================
+
+# Distributions of numeric variable characterize the values. Proportions compare values. A typical use case is to characterize a set of measurements, or compare several sets of measurements.
+
+
+# ==   03.1  barplot()  ========================================================
+# Draws a bar with height proportional to a given number.
+
+barplot(mean(SC$xpr[ , "t.20"])) # barplot of the mean expression at t.20
+
+# Barplots show only a single number. They tell us nothing about the underlying distribution. They are commonly used to compare several distributions:
+
+barplot(colMeans(SC$xpr[ , c("t.0", "t.20", "t.40", "t.60")]))
+
+# barplots take the usual plotting parameters
+myPal <- colorRampPalette(c("#00FF0055", "#0066FF55",    # a "palette" function
+                            "#00FFFF55", "#CCCCAA55",
+                            "#FF00FF55", "#FF006655",
+                            "#FFFFFF55"), alpha = TRUE)  # transparent colors
+
+barplot(colMeans(SC$xpr[ , 1:13]),         # mean expression changes, first hour
+        main = "Mean expression changes",
+        xlab = "time points",
+        cex.names = 0.6,                   # scale column names
+        ylab = "Expression (log ratio)",
+        cex.axis = 0.8,                    # scale of y-axis labels
+        col = myPal(13))                   # get 13 color values from myPal()
+
+
+# ==   03.2  pie()  ============================================================
+# Generally not preferred, but simple to do
+
+table(SC$GO$ontology)
+# Example: how many genes are anotated to the GO terms in the Cellular Component
+# category?
+CCids <- SC$GO$GOid[SC$GO$ontology == "C"]  # get GO ids for "C" ontology
+x <- unlist(strsplit(SC$ann$GO, " ")) # split GO term strings on blank-spaces
+                                      # and dump them all into one single vector
+x <- x[x %in% CCids] # subset the ones in CCIDs (about 40%)
+
+pie(table(x), cex = 0.5)
+
+# This can be better visualized in a barplot
+myT <- sort(table(x), decreasing = TRUE)
+b <- barplot(myT,                  # assign the plot - we need the x-coordinates
+     main = "Genes annotated to GO terms in the Cellular Component Ontology",
+     cex.main = 0.8,
+     names.arg = "",               # blank the names - otherwise they are
+     ylab = "counts",              #   taken from the names of the object
+     cex.axis = 0.8,
+     col = colorRampPalette(c("#CCAAFF", "#FFDDFF", "#FFFFFF"))(length(myT)),
+     ylim = c(0, 1.5 * max(myT)))  # make  space at the top
+
+# Add the GOids as text()
+text(b, myT,                 # b holds the x coordinates, myT is y
+     labels = names(myT),    # take the names from the table - names
+     srt = 90,               # rotate to vertical
+     adj = c(-0.1, 0.5),     # align center, top
+     cex = 0.5)
+
+
+# ==   03.3  boxplot()  ========================================================
+# A boxplot() is almost always preferred to a barplot, since it includes an
+# estimate of the distribution:
+
+boxplot(SC$xpr[ , "t.20"])   # boxplot of expression values at t.20
+
+# What are these elements?
+# Assigning the plot to a variable makes the numbers available so we can
+# use them for annotation:
+oPar <- par(mar = c(0.2,3,0.2,0.2))   # reduce the margins
+( b <- boxplot(SC$xpr[ , "t.20"]))
+
+xT <- 1.3
+cT <- "#DD0000"
+# outliers
+myOut    <- mean(b$out[b$out > b$stats[5]]) # outliers above the whiskers
+myOut[2] <- mean(b$out[b$out < b$stats[1]]) # outliers below the whiskers
+text(1.04, myOut,        adj=c(0,0.5), cex=0.7, col=cT, "outliers")
+
+# whiskers
+text(1.12, b$stats[1,1], adj=c(0,0.5), cex=0.7, col=cT, "min(x_i > Q1-1.5*IQR)")
+text(1.12, b$stats[5,1], adj=c(0,0.5), cex=0.7, col=cT, "max(x_i < Q3+1.5*IQR)")
+
+# quartiles
+# "min(x_i > Q1-1.5*IQR)" is "the smallest x in the data that still lies
+# within 1.5 times the inter-quartile range below Q1
+text(1.23, b$stats[2,1], adj=c(0,0.5), cex=0.7, col=cT, "Q1 (lower quartile)")
+text(1.23, b$stats[4,1], adj=c(0,0.5), cex=0.7, col=cT, "Q3 (upper quartile)")
+
+# median
+text(1.23, b$stats[3,1], adj=c(0,0.5), cex=0.9, col=cT, "median")
+
+# the mean is not shown
+text(0.79, mean(SC$xpr[,"t.20"]), adj=c(1,0.5), cex=0.7, col="#999999", "mean")
+
+par(oPar)  # reset the margins
+
+# If we have datasets with more columns, each column gets its own boxplot
+boxplot(SC$xpr[ , c("t.0", "t.20", "t.40", "t.60")])
+
+# boxplots take the usual plotting parameters
+myPal <- colorRampPalette(c("#00FF0055", "#0066FF55",    # a "palette" function
+                            "#00FFFF55", "#CCCCAA55",
+                            "#FF00FF55", "#FF006655",
+                            "#FFFFFF55"), alpha = TRUE)  # transparent colors
+
+boxplot(SC$xpr[ , 1:13],                   #  expression changes, first hour
+        main = "Expression levels",
+        xlab = "time points",
+        cex.axis = 0.6,                    # scale axis names
+        ylab = "Expression (log ratio)",
+        col = myPal(13))                   # get 13 color values from myPal()
+
+# This plot shows that there is a noticable fluctuation of expression levels
+# over the course of the first 60 minutes of the experiment. This may be due to
+# these genes being selected as having cyclically varying expression profiles.
+
+
+# ==   03.4  hist()  ===========================================================
+# Histograms are superbly informative and one of the workhorses of our analyses. A histogram answers the question how many observations do we have in a particular range of a (continuously varying) variable.
+
+# Here we plot a histogram of the first expression peaks of genes, computed as
+# the first peak of the fitted model for every gene in our set. We might be
+# interested in whether the expression of different genes peaks continuously
+# over the cycle, or whetehr there are time intervals where waves of expression
+# of different genes can be observed in response to cycle-control signals.
+hist(SC$mdl$peaks)
+
+# We can explicitly set breakpoints for the histogram:
+# Here we set breaks at 4 minute intervals
+( myBreaks <- seq(0, 80, by = 4) )  # Note: 21 values bound 20 intervals
+hist(SC$mdl$peaks, breaks = myBreaks)
+
+# Assigning the output of hist() makes the values
+# used in constructing the histogram accessible:
+
+( H <- hist(SC$mdl$peaks) )
+
+# for example, we can use this to plot the actual numbers:
+text(H$mids,                       # midpoints of the bars
+     H$counts,                     # counts -> probabilities
+     labels = H$counts,            # add labels to each bar: count numbers
+     adj = c(0.5, -0.5),           # text is centered on x and raised in y
+     cex = 0.6,
+     col = "#8888FF")
+
+# histograms take the usual plotting parameters
+myPal <- colorRampPalette(c("#00FF0055", "#0066FF55",    # a "palette" function
+                            "#00FFFF55", "#CCCCAA55",
+                            "#FF00FF55", "#FF006655",
+                            "#FFFFFF55"), alpha = TRUE)  # transparent colors
+
+myBreaks <- seq(0, 80, length.out = 81)    # one-minute intervals
+hist(SC$mdl$peaks,                         # gene expression first peaks
+     breaks = myBreaks,
+     main = "Timing of first peaks of during the cell-cycle",
+     sub = "The bimodal distribution distinguishes replication from division",
+     cex.sub = 0.8,
+     xlab = "t (min.)",
+     ylab = "counts",
+     col = myPal(81))                      # get 81 color values from myPal()
+
+
+# ===   03.4.1  overlaying histograms                     
+
+# Histograms can be plotted one-over another to compare them
+# Example: when do genes with different GO term annotations first peak?
+
+# GO:0005730 "nucleolus"
+# GO:0032200 "telomere organization"
+# GO:0006260 "DNA replication"
+sel1 <- grep("GO:0005730", SC$ann$GO)  # 103 genes
+sel2 <- grep("GO:0032200", SC$ann$GO)  # 32 genes
+sel3 <- grep("GO:0006260", SC$ann$GO)  # 67 genes
+
+# define breaks. This is important to make the histograms comparable
+myBreaks <- seq(0, 80, by = 4)
+# plot the first histogram
+
+hist(SC$mdl$peaks[sel1], breaks = myBreaks,
+     main = "Peak timing for different GO terms",
+     xlab = "t (min)",
+     ylab = "Counts",
+     ylim = c(0, 50),
+     col = "#FF007955")
+
+# first overlay
+hist(SC$mdl$peaks[sel2], breaks = myBreaks,
+     col = "#00B2FF55",
+     add = TRUE)
+
+# second overlay
+hist(SC$mdl$peaks[sel3], breaks = myBreaks,
+     col = "#7FDFC955",
+     add = TRUE)
+
+# Legend
+legend("topright",
+       fill = c("#FF007955", "#00B2FF55", "#7FDFC955"),
+       legend = c("GO:0005730\n(nucleolus)\n",   # "\n" is a line-break
+                  "GO:0032200\n(telomere organization)\n",
+                  "GO:0006260\n(DNA replication)\n"),
+       cex = 0.6,
+       bty = "n")  # no box around the legend
+
+
+# =    04  THE plot() FUNCTION  ================================================
+# plot() is the workhorse of data visualization in R. But plot() is also a "generic" - i.e. different "classes" can define their own plot-methods and plot will "dispatch" the right method for a class.
+
+
+# ==   04.1  line plots  =======================================================
+
+# Lines are useful to visually associate ralated data points, like points in a
+# sequence of events.
+
+# plot an expression profile: value over time
+plot(SC$xpr[169, ])
+
+# note the x is implied and plotted as "index", the expression values are used
+# for the y-axis by default.
+
+# plot types
+plot(SC$xpr[169, ], type = "p")  # points, the default
+plot(SC$xpr[169, ], type = "l")  # lines
+plot(SC$xpr[169, ], type = "b")  # both points and lines
+plot(SC$xpr[169, ], type = "c")  # empty points and lines
+plot(SC$xpr[169, ], type = "o")  # overplotted
+plot(SC$xpr[169, ], type = "s")  # steps
+plot(SC$xpr[169, ], type = "h")  # like histogram
+plot(SC$xpr[169, ], type = "n")  # none - useful to create an empty frame
+                                 # to add other elements later
+text(SC$xpr[169, ], colnames(SC$xpr), cex = 0.5) # ... such as labels
+
+# title and axis labels
+iRow <- 169
+t <- seq(0, 120, by = 5)               # set actual x-values
+plot(t, SC$xpr[iRow, ],
+     type = "b",
+     main = "Expression profile",
+     sub = "Data: GSE3653 (Pramila et al. 2002)",
+     xlab = "time(min)",
+     ylab = "Expression (log ratio)")
+
+# adjusting font sizes
+plot(t, SC$xpr[iRow, ],
+     type = "b",
+     main = "Expression profile",
+     sub = "Data: GSE3653 (Pramila et al. 2002)",
+     xlab = "time(min)",
+     ylab = "Expression (log ratio)",
+     cex.main = 1.1,                                # title
+     cex.sub = 0.6,                                 # subtitle
+     cex.axis = 0.7,                                # axis values
+     cex.lab = 0.8)                                 # axis labels
+
+# x and y axis ranges can be defined with a two-element vector
+plot(t, SC$xpr[iRow, ],
+     type = "b",
+     xlim = c(0, 120),                      # tight against the values
+     ylim = c(-max(abs(SC$xpr[iRow, ])),
+               max(abs(SC$xpr[iRow, ]))),  # symmetric around 0
+     main = "", sub = "", xlab = "", ylab = "")
+abline(h = 0, col = "#FF000044")
+
+# pull in annotations with sprintf()
+plot(t, SC$xpr[iRow, ],
+     type = "b",
+     main = sprintf("Expression profile: %s (%s)",
+                    SC$ann$stdName[iRow],
+                    SC$ann$sysName[iRow]),
+     sub = "", xlab = "", ylab = "")
+
+# When exploring data, it is useful to have a standard view of data as a
+# function:
+
+xprPlot <- function(iRow) {
+  t <- seq(0, 120, by=5)
+  yMax <- max(abs(SC$xpr[iRow, ])) * 1.1
+
+  plot(t, SC$xpr[iRow, ],
+       ylim = c(-yMax, yMax),
+       type = "b",
+       main = sprintf("Expression profile: %s (%s)",
+                      SC$ann$stdName[iRow],
+                      SC$ann$sysName[iRow]),
+       xlab = "time(min)",
+       ylab = "Expression (log ratio)",
+       cex.main = 1.1,
+       cex.axis = 0.7,
+       cex.lab = 0.8)
+  abline(h = 0, col = "#FF000044")
+}
+
+xprPlot(169)
+xprPlot(1124)
+
+# better to visualize by plotting one OVER the other.
+# This is done with the function points()
+
+xprPlot(1124)
+points(t, SC$xpr[169, ], type = "b", cex = 0.7, col = "#EE5500CC")
+
+
+
+# In general, when we plot(), we produce a "scatterplot" of X and y values.
+# scatterplot: one against the other
+plot(SC$xpr[169, ], SC$xpr[1124, ])  # these two profiles are anticorrelated
+
+
+# =    05  ENCODING INFORMATION: SYMBOL, SIZE, COLOuR  =========================
+
+# We have many options to encode information in scatter plots (and others), in order to be able to visualize and discover patterns and relationships. The most important ones are the type of symbol to use, its size, and its color.
+
+
+
+# ==   05.1  pch ("plotting character" symbols)  ===============================
+# There are many types of symbols available to plot points and they can all be varied by type, size, and color to present additional information. Which one to use is defined in the argument  pch  . The default is pch = 1: the open circle. Characters 1:20 are regular symbols:
+
+# reduce margins
+oPar <- par(mar = c(1, 1, 1, 1))
+
+# Empty plot frame ...
+plot(c(0,11), c(0,11), type = "n", axes = FALSE, xlab = "", ylab = "")
+
+# coordinates for first 25 symbols
+x1 <- c(1:10, 1:10)
+y1 <- c(rep(10, 10),rep(9, 10))
+myPch <- 1:20
+
+points(x1, y1, pch = myPch, cex = 1.2)
+
+# pch 21:25 can have different border and fill colours. Borders are defined with
+# "col", fills are defined with "fill":
+
+x2 <- 1:5
+y2 <- rep(8,5)
+
+myCols <- c("#4B0055", "#00588B", "#009B95", "#53CC67", "#FDE333")
+
+points(x2, y2, pch=21:25, col="#708090", bg = myCols, cex = 1.8)
+
+# ten more symbols are defined as characters
+x3 <- 1:10
+y3 <- rep(6,10)
+myPch <- c(".", "o", "O", "0","a","A", "*", "+","-","|")
+points(x3, y3, pch = myPch) # note: "myPCh" is a character vector while
+                            # the other pch were identified by integers
+
+# The ASCII codes for characters 32 to 126 can also be used as plotting symbols
+myPch <- 32:126
+x4 <- (((myPch - 32) %% 19) + 2) / 2
+y4 <- 5 - ((myPch - 32) %/% 19)
+points(x4, y4, pch=32:126, col="#0055AA")
+
+# I don't think I have ever actually used characters as plotting characters in
+# this way; it is much more straightforward to just use the text() function in
+# that case, rather than having to look up which ASCII code is which character,
+# and remembering which ones are available as numbers, and which ones are
+# identified by the character itself. But the first twenty five I use a lot, and
+# I also end up looking up their codes a lot. So here is a function to plot them for reference. You can paste it into your .Rprofile to keep it at hand:
+
+pchRef <- function() {
+  # a reference plot for the first twenty five plotting characters
+
+  oPar <- par(mar = c(1, 1, 1, 1), mfrow = c(1, 1))
+  plot(c(0,6), c(0,6), type = "n", axes = FALSE, xlab = "", ylab = "")
+
+  x <- ((0:24) %% 5) + 1
+  y <- rep(5:1, each = 5)
+
+  idx <- 1:20
+  points(x[idx], y[idx], pch = idx, cex = 2)
+
+  idx <- 21:25
+  points(x[idx], y[idx], pch = idx, cex = 2, col = "#708090",
+         bg=c("#CC0033AA", "#991566AA", "#662A99AA", "#323FCCAA", "#0055FFAA"))
+
+  text(x - 0.3, y, labels = sprintf("%d:", 1:25), col = "#7766AA", cex = 0.8)
+
+  par(oPar)
+}
+
+
+# reset margins
+par(oPar)
+
+
+# In addition to the default fonts, a large set of Hershey vector fonts is
+# available which gives access to many more plotting and labeling options via
+# text()
+demo(Hershey)
+
+# Plotting other symbols:
+# In the most general way, Unicode characters can be plotted as text.
+# The code is passed in hexadecimal, long integer, with a negative sign.
+# Here is a quarter note (Unicode: 266a) using plot()
+plot(0.5,0.5, pch=-0x266aL, cex=5, xlab="", ylab="")
+
+# However, rendering may vary across platforms since it depends on unicode
+# support. If your character can't be rendered, you'll only get an empty box.
+
+
+# 1.1.1 Using pch to emphasize different categories
+
+# In general, when we plot(), we produce a "scatterplot" of X and y values.
+# scatterplot: one against the other
+
+tRep <- c("t.15", "t.20", "t.25", "t.30")   # Replication-phase time points
+tDup <- c("t.40", "t.45", "t.50", "t.55")   # Duplication-phase time points
+
+plot(rowMeans(SC$xpr[ , tRep]), rowMeans(SC$xpr[ , tDup]))
+
+# select top ten replication enriched GO terms
+sel <- order(SC$GO$xsReplicate, decreasing = TRUE)[1:10]
+SC$GO$label[sel]  # what are these?
+GOrep <- SC$GO$GOid[sel]   # GO terms that are enriched in the Replication phase
+
+sel <- order(SC$GO$xsDuplicate, decreasing = TRUE)[1:10]
+SC$GO$label[sel]  # what are these?
+GOdup <- SC$GO$GOid[sel]   # GO terms that are enriched in the Duplication phase
+
+# define sets of genes that are annotated to one or the other GO id set
+repGenes <- logical(nrow(SC$ann))             # prepare an empty vector
+for (id in GOrep) {                           # whenever we find one of the
+  repGenes <- repGenes | grepl(id, SC$ann$GO) # characteristic GO IDs annotated
+}                                             # to a a gene, we put TRUE in its
+sum(repGenes)                                 # spot of the repGenes vector.
+xRep <- rowMeans(SC$xpr[ repGenes, tRep]) # repGenes in the replication phase
+yRep <- rowMeans(SC$xpr[ repGenes, tDup]) # repGenes in the duplication phase
+
+# same thing for the genes that are enriched in the duplication phase
+dupGenes <- logical(nrow(SC$ann))
+for (id in GOdup) {
+  dupGenes <- dupGenes | grepl(id, SC$ann$GO)
+}
+sum(dupGenes)
+xDup <- rowMeans(SC$xpr[ dupGenes, tRep]) # dupGenes in the replication phase
+yDup <- rowMeans(SC$xpr[ dupGenes, tDup]) # dupGenes in the duplication phase
+
+# Ready to plot:
+# base plot without the ref... and dup... genes
+basePlot <- function(...) {
+  sel <- ! (repGenes | dupGenes)
+  m <- sprintf("Expression changes between phases (%d genes)",
+               nrow(SC$xpr))
+  plot(rowMeans(SC$xpr[ sel, tRep]),
+       rowMeans(SC$xpr[ sel, tDup]),
+       main = m,
+       xlab = "Expression in Replication phase",
+       ylab = "Expression in Duplication phase",
+       cex.main = 0.9,
+       cex.lab = 0.8,
+       ...)
+  abline(h = 0, col = "#0088FF44")       # horizontal zero
+  abline(v = 0, col = "#0088FF44")       # vertical zero
+}
+
+basePlot()
+# plotting the rep.. and dup... sets with different pch
+points(xRep, yRep, pch=24, col="#000000", bg="#FFFFFF")  # white up triangle
+points(xDup, yDup, pch=25, col="#000000", bg="#FFFFFF")  # white down triangle
+
+# These are clearly different distributions,  but the plot is overall too busy.
+
+# Using color improves the plot:
+basePlot(pch=21, col="#AAAAAA", bg="#DDDDDD")
+points(xRep, yRep, pch=24, col="#000000", bg="#66DDFF")
+points(xDup, yDup, pch=25, col="#000000", bg="#FF77FF")
+
+# Even better may be to use transparent colors, to address the overlap:
+basePlot(pch=19, col="#00000022")
+points(xRep, yRep, pch=19, col="#33BBFF66")
+points(xDup, yDup, pch=19, col="#FF44AA44")
+
+# this needs a legend:
+legend ("bottom",
+        legend = c(
+  sprintf("%d Genes with Replication-\nenriched GO terms\n ", sum(repGenes)),
+  sprintf("%d Genes with Duplication-\nenriched GO terms\n ", sum(dupGenes)),
+          "Other Genes\n "
+          ),
+        horiz = TRUE,
+        pch = 19,
+        col = c("#33BBFF66", "#FF44AA44", "#00000022"),
+        cex = 0.6,
+        pt.cex = 1.0,
+        inset = 0.02,
+        box.col = "#DDDDDD",
+        bg = "#FFFFFF")
+
+# ===   05.1.1  Line types                                
+
+# Basically all plots take arguments lty to define the line type, and lwd
+# to define line width
+
+# empty plot ...
+plot(c(0,10), c(0,10), type = "n", axes = FALSE, xlab = "", ylab = "")
+
+# Line type
+for (i in 1:8) {
+  y <- 10.5-(i/2)
+  segments(1,y,5,y, lty=i)
+  text(6, y, paste("lty = ", i), col="grey60", adj=0, cex=0.75)
+}
+
+# Line width
+for (i in 1:10) {
+  y <- 5.5-(i/2)
+  segments(1,y,5,y, lwd=(0.3*i)^2)
+  text(6, y, paste("lwd = ", (0.3*i)^2), col="grey60", adj=0, cex=0.75)
+}
+
+
+
+# ==   05.2  cex ("character expansion" size)  =================================
+
+# The size of characters can be controlled with the cex parameter. cex takes a
+# vector of numbers, mapped to the vecors of plotted elements. The usual R
+# conventions of vector recycling apply, so if cex s only a single number, it is
+# applied to all plotted elements. Here is an example plotting expression
+# amplitudes in a comparison of pre-replication vs. replication phase
+# expression.
+
+
+tPre <- c("t.0",  "t.5",  "t.10")   # Pre replication-phase time points
+tMid <- c("t.25", "t.30", "t.35")   # Midway between replication and duplication
+
+x <- rowMeans(SC$xpr[ , tPre])      # row means average out fluctuations
+y <- rowMeans(SC$xpr[ , tMid])
+plot(x, y)
+
+myAmps <- SC$mdl$A                  # fetch the correlations of the fitted
+                                    # low correlations are not well modeled
+                                    # with a periodic function
+
+hist(myAmps, breaks = 40)           # examine the distribution
+hist(log(myAmps), breaks = 40)      # sometimes log() is be better suited
+                                    # to map to symbol size
+
+# useful cex sizes are approximately between 0.5 and 5
+# Example:
+N <- 10
+cexMin <- 0.5
+cexMax <- 5.0
+myCex <- seq(cexMax, cexMin, length.out=N)  # Vector of cex values of length N
+# We plot these points from largest to smallest, so we don't overplot
+x1 <- runif(N)
+y1 <- runif(N)
+plot(x1, y1, xlim = 0:1, ylim = 0:1, xlab = "", ylab = "", pch = 16,
+     cex = myCex, col= colorRampPalette(c("#F4F0F8", "#3355DD"))(N))
+
+# Note that the smallest cex at 0.5 is _really_ small.
+points(x1[N], y1[N], cex = 3.0, col = "#FF000077") # Here it is!
+
+# To rescale a vector into the desired interval (lo, up) we write a little
+# function. First we normalize the vector into the interval (0, 1), then we
+# multiply it by up-lo, and add lo.
+#
+
+reScale <- function(x, lo = 0, up = 1) {
+  return((((x-min(x)) / (max(x)-min(x))) * (up-lo)) + lo  )
+}
+
+# with this, our coding amplitudes as plot character size becomes quite easy:
+plot(x, y, pch=16,
+     cex = reScale(myAmps, lo=0.5, up=5),  # <<<---- That's all we need
+     col="#4499BB22")
+abline(a = 0, b = 1, col = "#DD333344")
+abline(h = 0, col = "#33333344")
+abline(v = 0, col = "#33333344")
+
+# ToDo: add titles, scale legend, and interpretation
+
+
+# =    06  COLOUR  =============================================================
+
+# Colour is immensely important for data visualization,  and colours in R can be
+# specified by number, by name, as hex-triplets, as rgb or hsv values, and
+# through several color-space specifications. The can be used individually, as
+# vectors that are defined manually, and through colour palettes. And the can be
+# solid and transparent.
+
+# ==   06.1  Colours by number  ================================================
+# The col=... parameter for plots is 1 by default and you can
+# set it to the range 0:8.
+# 0: white
+# 1: black (the default)
+# 2: red
+# 3: green
+# 4: blue
+# 5: cyan
+# 6: magenta
+# 7: yellow
+# 8: grey
+barplot(rep(1,9), col=0:8, axes=FALSE, names.arg=c(0:8))
+
+# As you can see, the default primary colours are garish and offend even the
+# most rudimentary sense of aesthetics. Using these colors won't earn you
+# respect. Fortunately we have many more sophisticated ways to define colours.
+
+# ==   06.2  Colours by name  ==================================================
+# You may have noticed that "red", "green", and "blue" work for the col=...
+# parameter, but you probably would not have imagined that "peachpuff",
+# "firebrick" and "goldenrod" are valid as well. In fact, there are 657 named
+# colours in R. Access them all by typing:
+colors()
+
+myCols <- c(
+  "firebrick2",
+  "tomato",
+  "goldenrod1",
+  "peachpuff",
+  "papayawhip",
+  "seashell",
+  "whitesmoke"
+)
+pie(c(1, 1, 2, 3, 5, 8, 13),
+    col = myCols,
+    labels = myCols)
+
+# Read more about named colours (and related topics) in Melanie Frazier's pdf:
+# https://www.nceas.ucsb.edu/sites/default/files/2020-04/colorPaletteCheatsheet.pdf
+
+# I almost never use named colours anymore but use hex-triplets instead...
+
+
+# ==   06.3  Colours as hex-triplets  ==========================================
+# Hex triplets in R work exactly as in HTML: a triplet of
+# RGB values in two-digit hexadecimal representation. The
+# first two digits specify the red value, the second two
+# are for green, then blue. R accepts a fourth pair of
+# digits to optionally specify the transparency - the "Alpha" channel. The
+# semantics of the hex-triplet is thus "#RRGGBB" or "#RRGGBBAA".
+# Read more e.g. at http://en.wikipedia.org/wiki/Web_colors
+
+# The function col2rgb() converts colour names to rgb values ...
+col2rgb("violetred")
+
+# ... and rgb() converts rgb values to hex-code:
+rgb(1, 0.5, 0.23)
+
+# to get hexcodes from names takes a bit more: divide and transpose -
+rgb(t(col2rgb("violetred")/255))
+
+# Here is a utility function to convert all manners of color-vectors to
+# hex-triplets. You can copy it into your .Rprofile if you want  to keep it at hand.
+
+col2hex <- function(colV, dput = FALSE, pal = FALSE, N = NULL) {
+  # colV   a vector or scalar of color names, hex-codes or integers
+  # dput   logical. If TRUE, character output is suitable for pasting into code.
+  # pal    logical. If TRUE, the colors will be used in a palette. N must
+  #                   be defined in that case
+  # value: a vector of hex-codes of the same length, or a dput() string
+
+  h <- rgb(t(col2rgb(colV) / 255))
+  if (pal == TRUE) {
+    if (is.null(N)) { stop("N must be defined if pal is TRUE.") }
+    h <- colorRampPalette(h)(N)
+  }
+  if (dput == TRUE) {
+    dput(h)
+    return(invisible(h))
+  }
+  return(h)
+}
+
+# Examples:
+myCols <- c( "firebrick2", "tomato",   "goldenrod1", "peachpuff",
+             "papayawhip", "seashell", "whitesmoke")
+
+col2hex(myCols)
+col2hex(myCols, dput = TRUE)
+
+# barplot with the original colors
+barplot(rep(1, length(myCols)), col=myCols)
+
+# expanding the palette with col2hex()
+N <- 40
+barplot(rep(1, N), col = col2hex(myCols,pal=TRUE,N=N) )
+
+
+# ===   06.3.1  Inbuilt palettes                          
+
+# In R, a palette is a function (!) that takes a number as its argument and
+# returns that number of colors, those colors can then be used to color points
+# in a plot or other elements. In principle, such colors can serve three
+# distinct puposes:
+
+# Qualitative colors have a different color for different types of entities.
+# Here the color serves simply to distinguish the types, it represents
+# "categorical information". For example, we can assign different colors to each
+# individual amino acid.
+
+# Sequential colors distinguish order in a sequence: the colors distinguish the first from the last element in the order. For example we often color the N-terminus of a protein blue(ish) and the C-terminus red(dish).
+
+# Diverging colors encode some property and are scaled to represent particular
+# values of the property. For example we might represent temperature with a
+# black-body radiation color palette. Note that "sequential" can be seen as
+# "diverging on order".
+
+# R has are a number of inbuilt palettes; Here is a convenience function to view
+# palettes. Input can be either a palette, the name of a hcl.colors palette, or a vector of colors:
+plotPal <- function(pal, N = 40) {
+  if (is.character(pal)) {
+    if (length(pal) == 1) { # name of a hcl palette
+      myCols <- hcl.colors(N, pal)
+      m <- pal
+    } else {   # already a color vector
+      myCols <- colorRampPalette(pal)(N)
+      m <- sprintf("Custom palette (spread to %d values)", N)
+    }
+  } else { # palette function
+    myCols <- pal(N)
+    m <- as.character(substitute(pal))
+  }
+  barplot(rep(1,N), main = m, axes = FALSE, col =  myCols)
+}
+
+plotPal(rainbow)         # rainbow() is the quintessential qualitative palette
+plotPal(cm.colors)       # cm.colors() is sequential: cyan-white-magenta
+plotPal(terrain.colors)  # a diverging palette: map elevation colors
+
+# A lot of thought has gone into the  construction of palettes in the
+# colorspace:: package, now available as hcl.colors in R (hcl: hue, chroma,
+# luminance), which is a better way to specify perceptually equidistant colors.
+# It's worthwhile to read through the help-file for more information -
+?hcl.colors
+# ... and to sample the 110 available palettes:
+hcl.pals()
+
+# Examples:
+plotPal("Viridis")
+plotPal("Pastel 1")
+plotPal("Spectral")
+plotPal("OrRd")
+plotPal("Cold")
+plotPal("Mint")
+plotPal("Berlin")
+
+# If you are curious, you can execute the code below, then select the line that
+# draws the plot and press ctrl+enter repeatedly to step through the entire
+# set of palettes.
+
+# i <- 0
+# plotPal(hcl.pals()[( i<-i+1 )])
+
+# Worthy of special mention are the color-Brewer palettes, in particular for
+# their accessibility considerations. Do consider that not all of us view colors
+# in the same way!
+if (! requireNamespace("RColorBrewer", quietly = TRUE)) {
+  install.packages("RColorBrewer")
+}
+?RColorBrewer
+RColorBrewer::display.brewer.all(colorblindFriendly = TRUE)
+
+plotPal(RColorBrewer::brewer.pal(11, "PuOr"), N = 11)
+
+
+# ===   06.3.2  Custom palettes                           
+#
+# Bespoke palettes are easily created with colorRampPalette(). The function
+# returns a palette, i.e. a function (not a vector of colors). You assign the
+# function to a variable (your palette), and you call it with an argument of how
+# many color values you want it to return.
+
+
+myPal <- colorRampPalette(c("#000000", "#FFFFFF", "#FF0000"))
+myPal(10)
+plotPal(myPal)
+
+# The parameter "bias" controls the spacing of colors at the end of the palette:
+plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FF0000"), bias = 0.5))
+plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FF0000"), bias = 1.0))
+plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FF0000"), bias = 2.0))
+
+# But a similar effect can be obtained by duplicating one or more colours to
+# spread the range ...
+plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FF0000", "#FF0000")))
+
+# ... and this can also be used to spread the middle
+plotPal(colorRampPalette(c("#000000", "#FFFFFF", "#FFFFFF", "#FF0000")))
+
+# nicer pastels
+myPastels <- colorRampPalette(c("#FFFFFF",
+                                "#FF9AA2",
+                                "#FFB7B2",
+                                "#FFDAC1",
+                                "#E2F0CB",
+                                "#B5EAD7",
+                                "#C7CEEA",
+                                "#FFFFFF"))
+plotPal(myPastels)
+
+# outliers
+myOutliers <- colorRampPalette(c("#66666A",
+                                 "#9999A6",
+                                 "#CCCCCA",
+                                 "#EEEEF9",
+                                 "#FFBBA8",
+                                 "#F30000"), bias = 0.5)
+plotPal(myOutliers)
+
+# Other many sources on the Web that help to generate matching colors upon which
+# to build palette. One such site with a very large selection of
+# community-contributed palettes is:  https://color.adobe.com/  ... and there is
+# also an option to extract palettes from user-supplied images.
+
+
+# ===   06.3.3  Transparency: The Alpha Channel           
+
+# R colours are actually specified as quartets: the fourth value
+# the "Alpha channel" defines the transparency. Setting this to
+# values other than "FF" (the default) can be useful for very
+# crowded plots, or for creating overlays.
+
+
+x <- SC$xpr[, "t.10"] # towards the beginning of the cycle
+y <- SC$xpr[, "t.50"] # towards the end of the cycle
+
+# compare:
+plot(x,y, pch = 19, col = "#EE3A8C")
+plot(x,y, pch = 19, col = "#EE3A8C12") # Alpha at ~ 10%
+
+# or with multiple overlays of varying size using points() ...
+plot(  x,y, pch = 16, cex = 1,   col = "#AA330009")
+points(x,y, pch = 19, cex = 2,   col = "#44558803")
+points(x,y, pch = 20, cex = 0.5, col = "#EE3A8C08")
+
+# A similar behaviour can be obtained from "density adapted colors with the
+# densCols() function
+plot (x, y, col = densCols(x, y), pch = 19, cex = 1.5)
+
+
+# ... or with the smootScatter function
+smoothScatter(x, y)
+
+smoothScatter(x, y,
+              colramp = colorRampPalette(c("#66666A",
+                                           "#9999A6",
+                                           "#CCCCCA",
+                                           "#EEEEF9",
+                                           "#FFBBA8",
+                                           "#F30000"), bias = 0.5),
+              nrpoints = 0,
+              xlim = c(-0.4, 0.3),
+              ylim = c(-0.4, 0.3),
+              xlab = "Expression (t = 10 min.)",
+              ylab = "Expression (t = 50 min.)")
+abline(h = 0, col = "#FFFFFF", lwd = 0.5)
+abline(v = 0, col = "#FFFFFF", lwd = 0.5)
+
+# ToDo: expand to "real" density plots (cf. )
+
+# ==   06.4  abline(), lines()  and segments()  ================================
+
+# lines() draws an arbitrary line from the supplied points
+
+N <- 300
+x <- seq(0.8 * pi, 40 * pi, length.out = N)
+y <- sin(x)/x
+plot(x, y, type = "n") # only set up the axes
+abline(h = 0)
+lines(x, y, lwd = 4, col = "#FFFFFF")  # "erase" parts of the axis
+lines(x, y, col = "#CC0000")           # draw the line we want
+
+
+# Varying the color of a plotted line can't be done in base r. Use
+# ggplot2:: or plotrix::color.scale.lines() instead
+
+if (! requireNamespace("plotrix", quietly = TRUE)) {
+    install.packages("plotrix")
+}
+
+# plotrix::color.scale.lines() can change color as well as width of a line
+# to give you more ways to visually display features of your data
+
+N <- 300
+x <- seq(0.8 * pi, 40 * pi, length.out = N)
+y <- sin(x)/x
+myCol <- myPastels(N)                   # colors
+myLwd <- seq(0.5, 10, length.out = N)    # line width
+
+plot(x, y, type = "n") # only set up the axes
+abline(h = 0, lwd = 2, col = "#CCCCCC")
+
+plotrix::color.scale.lines(x, y, col = myCol, lwd = myLwd)
+
+# =    07  AXES  ===============================================================
+
+# For Details, see:
+?plot.default
+
+n <- 1000
+x <- rnorm(n)
+y <- x^3 * 0.25 + rnorm(n, sd=0.75)
+
+plot(x,y)  # Default
+
+# Axes
+plot(x,y, xlim=c(-4, 4)) # fixed limits
+plot(x,y, xlim=c(-4, 4), ylim=c(10, -10)) # reverse is possible
+plot(x,y, log="xy") # log axes
+
+# The axis parameters in the default plot are limited.
+# If you want more control, suppress the printing of an axis
+# in the plot and use the axis() function instead.
+?axis
+
+
+# Axis-labels and title are straightforward parameters of plot
+plot(x,y, xlab="rnorm(n)",
+          ylab="x^3 * 0.25 + rnorm(n, sd=0.75)",
+          cex.main=1.3,
+          main="Sample\nPlot",
+          cex.sub=0.75,
+          col.sub="grey",
+          sub="Scatterplot of noisy 3d-degree polynomial"
+          )
+
+# Add gridlines
+?grid
+grid()
+
+
+# =    08  LEGENDS  ============================================================
+
+
+# ==   08.1  basic legends  ====================================================
+#
+# ToDo: basic legend syntax
+
+# ==   08.2  Color bars  =======================================================
+
+# Legends for a plot with a sequential or divergent spectrum are a special case, since we need to map a continuum of colors to a scale
+
+# Example: plotting expression levels in two cell-cycle phases against each other, and applying a divergent color spectrum that displays the model correlations: genes with low correlations have expression profiles that can not be well approximated with a periodic function.
+
+
+tRep <- c("t.15", "t.20", "t.25")   # Replication-phase time points
+tDup <- c("t.40", "t.45", "t.50")   # Duplication-phase time points
+x <- rowMeans(SC$xpr[ , tRep])
+y <- rowMeans(SC$xpr[ , tDup])
+plot(x, y)
+
+myCors <- SC$mdl$cor
+hist(myCors, breaks = 40)
+
+# The values are of course continuous, but we need to map them to a discrete set of colors. The strategy is as follows:
+#  - scale the values we wish to map into the interval [0, 1]
+#  - multiply with the desired number of intervals minus one, round, and add one
+#  - these integers can  be used as indices into a vector of colors, ...
+#  - ... which gives the colors for the plot
+
+# A divergent palette
+corPal <- colorRampPalette(c("#90005DAA", "#D44F99AA", "#F4C2B8AA",
+                             "#F8DEB9AA", "#EEFAE9AA", "#D7F1C8AA",
+                             "#BBE9C4AA", "#7CB8A6AA"), alpha = TRUE)
+hist(myCors,
+     breaks = seq(min(myCors), max(myCors), length.out = 21),
+     col = corPal(20))
+
+N <- 10  # We'll map into N  intervals
+
+
+#$$$
+# The usual way to scale a vector x to the [0,1] interval
+# is:  x-min / max-min
+idx <- (myCors - min(myCors)) / (max(myCors) - min(myCors))
+# Now: expand this to N-1, round, and add 1
+idx <- round(idx * (N-1)) + 1
+# confirm that these numbers are now suitable as indices into an 1:N vector
+table(idx)
+# create the color vector
+( corCols <- corPal(N) )
+# and make a vector of colors, one for each gene
+myCols <- corCols[idx]
+
+# then we plot ...
+plot(x, y, pch = 16, col = myCols, cex = 1.2)
+
+# there is a lot of overlap - let's re-plot in order of decreasing correlations
+# so the low correlations (reds) get plotted last. Ordering this way will give a
+# "cleaner" appearance for divergent plots.
+ord <- order(myCors, decreasing = TRUE)
+plot(x[ord], y[ord], pch = 16, col = myCols[ord], cex = 1.2)
+
+#: Titles etc.
+basePlot <- function() {
+  m <- sprintf("Expression changes between phases (%d genes)",
+               length(x))
+  plot(x[ord], y[ord],
+       main = m,
+       xlab = "mean Expression in Replication phase",
+       ylab = "mean Expression in Duplication phase",
+       sub = paste("Coloured by Correlation of",
+                   "Expression Profile (xpr) to",
+                   "Fitted Periodic Function (mdl)."),
+       cex.main = 0.9,
+       cex.lab = 0.7,
+       cex.sub = 0.7,
+       pch = 16,
+       col = myCols[ord],
+       cex = 1.2)
+  abline(h = 0, col = "#0088FF44")       # horizontal zero
+  abline(v = 0, col = "#0088FF44")       # vertical zero
+}
+
+basePlot()
+
+# to print a color-bar legend, we use the plotrix package
+
+if (! requireNamespace("plotrix", quietly = TRUE)) {
+  install.packages("plotrix")
+}
+
+corLabels <- sprintf("%4.2f",           # craft the labels to plot
+                     seq(min(myCors),
+                         max(myCors),
+                         length.out = length(corCols)))
+
+oPar <- par(mar=c(5,4,4,7))  # more space on the margin
+par("xpd" = FALSE)
+basePlot()
+
+# we need to figure out where to put the legend. par("usr") gives us the coordinates of the last plot window. We'll space the legend between 1.05 and 1.1 times the plot width, and centred along the y-axis with a height of 0.8 times the plot height.
+dx <- par("usr")[2] - par("usr")[1]
+dy <- par("usr")[4] - par("usr")[3]
+xl <- par("usr")[2] + (dx * 0.05)    # left
+xr <- xl + (0.05 * dx)               # right
+yb <- par("usr")[4] - (0.9 * dy)     # bottom
+yt <- yb + (0.8 * dy)                # top
+
+
+plotrix::color.legend(xl, yb, xr, yt,
+                      corLabels,
+                      corCols,
+                      align = "rb",       # labels to the right of the bar
+                      cex = 0.8,
+                      gradient = "y")     # vertical gradient
+
+# Almost perfect. Except we need a title for the color bar.
+# in this case the title is "r:" ... but the "r" should be in italics.
+par("xpd" = TRUE)  # enable plotting into the margin
+text(xr + (0.01 * dx), yt + 0.015 * dy,
+     expression(italic(r)["xpr,mdl"]),
+     adj = c(0, 0),
+     cex = 0.9)
+
+par(oPar)
+
+# ToDo - this is a common plot prototype - cast it into a function
+
+# =    09  LAYOUT  =============================================================
+
+# par, lattice, constant aspect ratio
+
+
+# Most parameters of the plot window can be set via
+# the functions plot(), hist() etc., but some need to
+# be set via the par() function. Calling par() without
+# arguments lists the current state of the plotting
+# parameters. Calling it with arguments, returns the
+# old parameters and sets new parameters. Thus setting
+# new parameters and saving the old ones can be done
+# in one step. The parameters that have to be set via
+# par include:
+
+# -  multiple plots in one window (mfrow, mfcol, mfg)
+# - margin layout (mai, mar mex, oma, omd, omi)
+# - controlling position and size of a plot in the figure (fig, plt, ps, pty)
+# - see ?par for details.
+
+n <- 1000
+x <- rnorm(n)
+y <- x^3 * 0.25 + rnorm(n, sd=0.75)
+
+# set window background and plotting axes via par
+opar <- par(bg="steelblue", fg="lightyellow")
+# set axis lables and titles via plot parameters
+plot(x,y, col.axis="lightyellow", col.lab="lightyellow")
+par(opar)  # reset to old values
+
+plot(x,y) # confirm reset
+
+# aspect! ...
+#
+
+# =    10  TEXT  ===============================================================
+
+
+# ToDo: sprintf()
+
+# Plotting arbitrary text
+# use the text() function to plot characters and strings to coordinates
+?text
+
+# Example: add labels to the symbols
+# first set: plain symbols (1 to 20)
+text(x1-0.4, y1, paste(1:20), cex=0.75)
+# symbols with separate background (21 to 25)
+text(x2-0.4, y2, paste(21:25), cex=0.75)
+# third set: special characters, change font for clarity
+text(x3-0.4, y3, extra, col="slateblue", cex=0.75, vfont=c("serif", "plain"))
+
+
+# ToDo: writing into the margin ...
+#   par("mar")
+#   par("xpd")
+#   par("srt")
+#
+# ToDo: plotmath()   # demo(plotmath)
+# ToDo: expression()
+
+
+
+# =    11  DRAWING ON PLOTS  ===================================================
+
+
+# To plot lines on top of plots there are several options:
+
+# segments()  # for lines with known endpoints
+# lines()     # joining x,y coordinate lists with lines
+# arrows()    # ... but to get a filled arrow use polygon()
+# curve()     # drawing a curve based on a given expression
+# abline()    # drawing horizontal or vertical lines or lines with
+#             #   given slope and intercept ()
+
+
+# Example: dividing a plot into 60° regions, centred on a point.
+# A general approach to "lines" on a plot is provided by segments().
+# However in this special case one can use abline().
+# We have to take care though that the aspect ratio for the
+# plot is exactly 1 - otherwise our angles are not right.
+# Therefore we need to set the asp parameter for plots.
+
+# For a general sketch
+#  - we plot the frame a bit larger, don't draw axes
+#  - draw the ablines
+#  - draw two arrows to symbolize the coordinate axes
+
+p <- c(4, 2)
+plot(p[1], p[2],
+     xlim=c(-0.5,10.5),
+     ylim=c(-0.5,10.5),
+     xlab="", ylab="",
+     axes=FALSE,
+     asp=1.0)
+abline(h=p[2], lty=2)  # horizontal
+abline(p[2] - (p[1]*tan(pi/3)),  tan(pi/3), lty=2)  # intercept, slope
+abline(p[2] + (p[1]*tan(pi/3)), -tan(pi/3), lty=2)  # intercept, slope
+arrows(0, 0, 10, 0, length=0.1)   # length of arrow
+arrows(0, 0, 0, 10, length=0.1)
+
+
+# curves()
+# rect()
+# polygon()
+
+# example: plot the area under the normal distribution as a polygon, and overlay
+# a histogram
+set.seed(12357)
+x <- rnorm(50)
+sig <- 1.0
+myBreaks <- seq(-3 * sig, 3 * sig, by = 0.5 * sig)
+
+# first, draw a histogram but don't show the bars
+hist(x, breaks = myBreaks, freq = FALSE, col = "#FFFFFF", border = "#FFFFFF")
+
+# next, plot the curve as a polygon() into the existing plot area
+dn <- seq(-3, 3, length.out = 100)
+polygon(dn, dnorm(dn), col = "#00FF8822", border = "#FFFFFF")
+
+# finally, replot the histogram. Setting "add = TRUE" plots it over the
+# previous histogram
+hist(x, breaks = myBreaks, freq = FALSE,
+     col = "#0000FF22", border = "#00000033",   # note: transparent colours
+     add = TRUE)
+
+#
+# More: see the Index of functions for the graphics package
+
+
+# =    12  IMAGES  =============================================================
+
+# Todo
+
+
+# =    13  CONTOUR LINES  ======================================================
+
+# ToDo
+
+
+# =    14  3D PLOTS  ===========================================================
+
+# ToDo
+
+
+# =    15  GRAPHS AND NETWORKS  ================================================
+
+# ToDo
+
+
+# =    16  OTHER GRPAHICS PACKAGES  ============================================
+
+# Packages in the standard distribution ...
+#
+#   graphics::
+#   grid::
+#   lattice::
+
+# Packages that can be downloaded from CRAN
+# ... use with install.packages("package"), then
+#              library("package")
+
+#   hexbin::
+#   ggplot2::
+
+# Packages that can be downloaded  from BioConductor
+#   prada:
+# if (! requireNamespace("prada", quietly=TRUE)) {
+#     if (! requireNamespace("BiocManager", quietly=TRUE)) {
+#       install.packages("BiocManager")
+#     }
+#     BiocManager::install("prada")
+# }
+
+# =    17  INTERACTIVE PLOTS  ==================================================
+
+# ToDo
+
+# ==   17.1  locator()  ========================================================
+# ToDo
+
+# ==   17.2  plotly::  =========================================================
+# ToDo
+
+
+
+
+# [End]
+
diff --git a/scriptTemplate.R b/scriptTemplate.R
index 0f252e9..dee6447 100644
--- a/scriptTemplate.R
+++ b/scriptTemplate.R
@@ -1,75 +1,75 @@
-# scriptTemplate.R
-#
-# Purpose:
-# Version:
-# Date:
-# Author:
-#
-# Input:
-# Output:
-# Dependencies:
-#
-# ToDo:
-# Notes:
-#
-# ==============================================================================
-
-setwd("")
-
-# ====  PARAMETERS  ============================================================
-# Define and explain all parameters. No "magic numbers" in your code below.
-
-
-
-# ====  PACKAGES  ==============================================================
-# Check that required packages have been installed. Install if needed.
-
-if (! requireNamespace("seqinr", quietly=TRUE)) {
-  install.packages("seqinr")
-}
-# Package information:
-#  library(help = seqinr)       # basic information
-#  browseVignettes("seqinr")    # available vignettes
-#  data(package = "seqinr")     # available datasets
-
-# Note: use package functions with the :: operator - eg.
-# seqinr::aaa("K")
-
-
-
-# ====  FUNCTIONS  =============================================================
-
-# Define functions or source external files
-source("")
-
-myFunction <- function(a, b=1) {
-	# Purpose:
-	#     Describe ...
-	# Parameters:
-	#     a: ...
-	#     b: ...
-	# Value:
-	#     result: ...
-
-	# code ...
-
-	return(result)
-}
-
-
-
-# ====  PROCESS  ===============================================================
-# Enter the step-by-step process of your project here. Strive to write your
-# code so that you can simply run this entire file and re-create all
-# intermediate results.
-
-
-
-
-
-
-# ====  TESTS  =================================================================
-# Enter your function tests here...
-
-
-# [END]
+# scriptTemplate.R
+#
+# Purpose:
+# Version:
+# Date:
+# Author:
+#
+# Input:
+# Output:
+# Dependencies:
+#
+# ToDo:
+# Notes:
+#
+# ==============================================================================
+
+setwd("")
+
+# ====  PARAMETERS  ============================================================
+# Define and explain all parameters. No "magic numbers" in your code below.
+
+
+
+# ====  PACKAGES  ==============================================================
+# Check that required packages have been installed. Install if needed.
+
+if (! requireNamespace("seqinr", quietly=TRUE)) {
+  install.packages("seqinr")
+}
+# Package information:
+#  library(help = seqinr)       # basic information
+#  browseVignettes("seqinr")    # available vignettes
+#  data(package = "seqinr")     # available datasets
+
+# Note: use package functions with the :: operator - eg.
+# seqinr::aaa("K")
+
+
+
+# ====  FUNCTIONS  =============================================================
+
+# Define functions or source external files
+source("")
+
+myFunction <- function(a, b=1) {
+	# Purpose:
+	#     Describe ...
+	# Parameters:
+	#     a: ...
+	#     b: ...
+	# Value:
+	#     result: ...
+
+	# code ...
+
+	return(result)
+}
+
+
+
+# ====  PROCESS  ===============================================================
+# Enter the step-by-step process of your project here. Strive to write your
+# code so that you can simply run this entire file and re-create all
+# intermediate results.
+
+
+
+
+
+
+# ====  TESTS  =================================================================
+# Enter your function tests here...
+
+
+# [END]
diff --git a/scripts/ABC-createRefDB.R b/scripts/ABC-createRefDB.R
index 3df8d08..fa144f6 100644
--- a/scripts/ABC-createRefDB.R
+++ b/scripts/ABC-createRefDB.R
@@ -1,30 +1,30 @@
-# ABC-createRefDB.R
-#
-# Create a reference protein database for Mbp1-like proteins
-#
-# Boris Steipe for ABC learning units
-#
-# For the species, see:
-# http://steipe.biochemistry.utoronto.ca/abc/index.php/Reference_species_for_fungi
-#
-# For the data model, see
-# https://docs.google.com/presentation/d/13vWaVcFpWEOGeSNhwmqugj2qTQuH1eZROgxWdHGEMr0
-# For the schema, see dbInit() in ./scripts/ABC-dbUtilities.R
-#
-# ==============================================================================
-
-
-myDB <- dbInit()
-
-myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./data/MBP1_SACCE.json"))
-myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./data/refMBP1Proteins.json"))
-myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./data/refAPSES_PSI-BLAST.json"))
-
-myDB <- dbAddTaxonomy(myDB, jsonlite::fromJSON("./data/refTaxonomy.json"))
-
-myDB <- dbAddFeature(myDB, jsonlite::fromJSON("./data/refFeatures.json"))
-
-myDB <- dbAddAnnotation( myDB, jsonlite::fromJSON("./data/refAnnotations.json"))
-
-
-# [END]
+# ABC-createRefDB.R
+#
+# Create a reference protein database for Mbp1-like proteins
+#
+# Boris Steipe for ABC learning units
+#
+# For the species, see:
+# http://steipe.biochemistry.utoronto.ca/abc/index.php/Reference_species_for_fungi
+#
+# For the data model, see
+# https://docs.google.com/presentation/d/13vWaVcFpWEOGeSNhwmqugj2qTQuH1eZROgxWdHGEMr0
+# For the schema, see dbInit() in ./scripts/ABC-dbUtilities.R
+#
+# ==============================================================================
+
+
+myDB <- dbInit()
+
+myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./data/MBP1_SACCE.json"))
+myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./data/refMBP1Proteins.json"))
+myDB <- dbAddProtein(myDB, jsonlite::fromJSON("./data/refAPSES_PSI-BLAST.json"))
+
+myDB <- dbAddTaxonomy(myDB, jsonlite::fromJSON("./data/refTaxonomy.json"))
+
+myDB <- dbAddFeature(myDB, jsonlite::fromJSON("./data/refFeatures.json"))
+
+myDB <- dbAddAnnotation( myDB, jsonlite::fromJSON("./data/refAnnotations.json"))
+
+
+# [END]
diff --git a/scripts/ABC-dbUtilities.R b/scripts/ABC-dbUtilities.R
index 71709c8..9aa9b1d 100644
--- a/scripts/ABC-dbUtilities.R
+++ b/scripts/ABC-dbUtilities.R
@@ -1,674 +1,674 @@
-# tocID <- "scripts/ABC-dbUtilities.R"
-#
-# Purpose: Database utilities for ABC learning units.
-#
-# Version 2.3
-#
-# Date:     2017-11  -  2020-11
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           2.3  Bug in treatment of single-column dataframes which returns
-#                a deparsed expression from paste()
-#           2.2  Bugfixes
-#           2.1  Add JSON export functions
-#           2.0  Test all JSON import and prevent addition of duplicates. This
-#                  is necessary for import of data from the public page
-#           1.1  2020 Updates
-#           1.0  Live version 2017
-#
-# Notes:
-#   There are no functions to modify or delete entries. To do either,
-#   recreate the database with correct data in the creation script. This is the
-#   preferred way that ensures the entire database can be reproduced by
-#   source()'ing its generating script.
-#
-#   Inserting data goes only through the very most minimal validation steps. For
-#   production applications, more validation would need to be added, as well
-#   as an overall validation of database integrity
-#
-# ToDo:
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                   Line
-#TOC> -------------------------------------------------------
-#TOC>   1        INITIALISATIONS AND PARAMETERS            63
-#TOC>   2        PACKAGES                                  68
-#TOC>   3        FUNCTIONS                                 84
-#TOC>   3.01       dbSanitizeSequence()                    87
-#TOC>   3.02       dbConfirmUnique()                      122
-#TOC>   3.03       dbInit()                               140
-#TOC>   3.04       dbAutoincrement()                      180
-#TOC>   3.05       dbAddProtein()                         193
-#TOC>   3.06       dbAddFeature()                         229
-#TOC>   3.07       dbAddTaxonomy()                        260
-#TOC>   3.08       dbAddAnnotation()                      295
-#TOC>   3.09       dbFetchUniProtSeq()                    342
-#TOC>   3.10       dbFetchPrositeFeatures()               388
-#TOC>   3.11       node2text()                            438
-#TOC>   3.12       dbFetchNCBItaxData()                   450
-#TOC>   3.13       UniProtIDmap()                         489
-#TOC>   3.14       dbProt2JSON()                          528
-#TOC>   3.15       dbSeq2JSON()                           613
-#TOC>   3.16       dbRow2JSON()                           642
-#TOC>   4        TESTS                                    662
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  INITIALISATIONS AND PARAMETERS  ======================================
-
-doTESTS <- FALSE  # run tests if TRUE
-
-
-# =    2  PACKAGES  ============================================================
-
-
-if (! requireNamespace("jsonlite", quietly = TRUE)) {
-  install.packages("jsonlite")
-}
-
-if (! requireNamespace("httr", quietly = TRUE)) {
-  install.packages("httr")
-}
-
-if (! requireNamespace("xml2", quietly = TRUE)) {
-  install.packages("xml2")
-}
-
-
-# =    3  FUNCTIONS  ===========================================================
-
-
-# ==   3.01  dbSanitizeSequence()  =============================================
-dbSanitizeSequence <- function(s, unambiguous = TRUE) {
-  # Remove FASTA header lines, if any,
-  # flatten any structure that s has,
-  # remove all non-letters except "-" (gap) and "*" (stop),
-  # convert to uppercase.
-  #
-  # Parameters:
-  #   s  chr  A DNA or protein sequence plus other characters
-  #   unambiguous  bool  if TRUE, stop() if any letter remaining after
-  #                      processing matches an ambiguity code. This is likely
-  #                      due to inadvertently including meta-data, such as
-  #                      a FASTA header, with the sequence.
-  # Note: since U is an ambiguity code for amino acid sequences, you need
-  #         to set unambiguous = FALSE to process RNA sequences with Uracil.
-  # Value: chr   a valid, uppercase, amino acid sequence
-  #
-
-  s <- as.character(unlist(s))    # convert complex object to plain chr vector
-  s <- unlist(strsplit(s, "\n"))  # split up at linebreaks, if any
-  s <- s[! grepl("^>", s)]        # drop all lines beginning">" (FASTA header)
-  s <- paste(s, collapse="")      # combine into single string
-  s <- toupper(gsub("[^a-zA-Z*-]", "", s))
-  if (unambiguous) {
-    amb <- "([bjouxzBJOUXZ])"  # parentheses capture the match
-    ambChar <- unlist(regmatches(s, regexec(amb, s)))[1]
-    if (! is.na(ambChar)) {
-      stop(paste("Input contains ambiguous codes(s): \"",
-                 ambChar, "\".", sep=""))
-    }
-  }
-  return(s)
-}
-
-
-# ==   3.02  dbConfirmUnique()  ================================================
-dbConfirmUnique <- function(x) {
-  # x is a vector of logicals.
-  # returns x if x has exactly one TRUE element.
-  # stop() otherwise.
-
-  if (any(!is.logical(x))) {
-    stop("PANIC: Input is not a boolean vector.")
-  } else if (sum(x) == 0) {
-    stop("PANIC: No match found.")
-  } else  if (sum(x) > 1) {
-    stop("PANIC: More than one match found.")
-  } else {
-    return(x)
-  }
-}
-
-
-# ==   3.03  dbInit()  =========================================================
-dbInit <- function() {
-  # Return an empty instance of the protein database
-  # The schema is here:
-  # https://docs.google.com/presentation/d/13vWaVcFpWEOGeSNhwmqugj2qTQuH1eZROgxWdHGEMr0
-
-  db <- list()
-
-  db$version <- "1.0"
-
-  db$protein <- data.frame(
-    ID = numeric(),
-    name = character(),
-    RefSeqID = character(),
-    UniProtID = character(),
-    taxonomyID = numeric(),
-    sequence = character())
-
-  db$taxonomy <- data.frame(
-    ID = numeric(),
-    species = character())
-
-  db$annotation <- data.frame(
-    ID = numeric(),
-    proteinID = numeric(),
-    featureID = numeric(),
-    start = numeric(),
-    end = numeric())
-
-  db$feature <- data.frame(
-    ID = numeric(),
-    name = character(),
-    description = character(),
-    sourceDB = character(),
-    accession = character())
-
-  return(db)
-}
-
-
-# ==   3.04  dbAutoincrement()  ================================================
-dbAutoincrement <- function(tb) {
-  # Return a unique integer that can be used as a primary key
-  # Value:
-  #   num  a number one-larger than the largest current value in table$ID
-  if (length(tb$ID) == 0) {
-    return(1)
-  } else {
-    return(max(tb$ID) + 1)
-  }
-}
-
-
-# ==   3.05  dbAddProtein()  ===================================================
-dbAddProtein <- function(db, jsonDF) {
-  # Add one or more protein entries to the database db if a protein with the
-  # same name does not yet exist. This enforces that protein names are unique.
-  # Parameters:
-  #     db   list   a database created with dbInit()
-  #     jsonDF  data frame  protein data imported into a data frame with
-  #                           fromJSON()
-
-  for (i in seq_along(jsonDF$name)) {
-    isValid <- TRUE
-    if (jsonDF$name[i] %in% db$protein$name) {
-      cat(sprintf("Note: Protein No. %d in the input is \"%s\", but %s.\n",
-                  i, jsonDF$name[i],
-                  "a protein with this name already exists in the database. ",
-                  "Skipping this input."))
-      isValid <- FALSE
-    }
-
-    if (isValid) {
-      if (length(jsonDF$name) == 1) { # jsonlite:: oversimplifies
-        jsonDF$sequence <- paste0(unlist(jsonDF$sequence), collapse = "")
-      }
-      x <- data.frame(ID          = dbAutoincrement(db$protein),
-                      name        = jsonDF$name[i],
-                      RefSeqID    = jsonDF$RefSeqID[i],
-                      UniProtID   = jsonDF$UniProtID[i],
-                      taxonomyID  = as.integer(jsonDF$taxonomyID[i]),
-                      sequence    = dbSanitizeSequence(jsonDF$sequence[i]))
-      db$protein <- rbind(db$protein, x)
-    }
-  }
-  return(db)
-}
-
-
-# ==   3.06  dbAddFeature()  ===================================================
-dbAddFeature <- function(db, jsonDF) {
-  # Add one or more feature entries to the database db. Skip if a feature with
-  # the same name already exists.
-  # Parameters:
-  #     db   list   a database created with dbInit()
-  #     jsonDF  data frame  feature data imported into a data frame with
-  #                           fromJSON()
-  for (i in seq_along(jsonDF$name)) {
-    isValid <- TRUE
-    if (jsonDF$name[i] %in% db$feature$name) {
-      cat(sprintf("Note: Feature No. %d in the input is \"%s\", but %s.\n",
-                  i, jsonDF$name[i],
-                  "a feature with this name already exists in the database. ",
-                  "Skipping this input."))
-      isValid <- FALSE
-    }
-
-    if (isValid) {
-      x <- data.frame(ID          = dbAutoincrement(db$feature),
-                      name        = jsonDF$name[i],
-                      description = jsonDF$description[i],
-                      sourceDB    = jsonDF$sourceDB[i],
-                      accession   = jsonDF$accession[i])
-      db$feature <- rbind(db$feature, x)
-    }
-  }
-  return(db)
-}
-
-
-# ==   3.07  dbAddTaxonomy()  ==================================================
-dbAddTaxonomy <- function(db, jsonDF) {
-  # Add one or more taxonomy entries to the database db. Skip if species name
-  # or taxonomy ID already exist in the database.
-  # Parameters:
-  #     db      list         A database created with dbInit()
-  #     jsonDF  data frame   Taxonomy data imported into a data frame with
-  #                            fromJSON()
-  for (i in seq_along(jsonDF$species)) {
-    isValid <- TRUE
-
-    if (jsonDF$species[i] %in% db$taxonomy$species) {
-      cat(sprintf("Note: Species No. %d in the input is \"%s\", but %s%s\n",
-                  i, jsonDF$name[i],
-                  "a species with this name already exists in the database. ",
-                  "Skipping this input."))
-      isValid <- FALSE
-    } else if (jsonDF$ID[i] %in% db$taxonomy$ID) {
-      cat(sprintf("Note: Taxonomy ID No. %d in the input is \"%d\", but %s%s\n",
-                  i, jsonDF$ID[i],
-                  "this taxonomy ID already exists in the database. ",
-                  "Skipping this input."))
-      isValid <- FALSE
-    }
-    if (isValid) {
-      x <- data.frame(
-        ID =  as.integer(jsonDF$ID[i]),
-        species = jsonDF$species[i])
-      db$taxonomy <- rbind(db$taxonomy, x)
-    }
-  }
-  return(db)
-}
-
-
-# ==   3.08  dbAddAnnotation()  ================================================
-dbAddAnnotation <- function(db, jsonDF) {
-  # Add one or more annotation entries to the database db. Skip the entry if
-  # it already exists in the database.
-  # Parameters:
-  #     db   list   a database created with dbInit()
-  #     jsonDF  data frame  annotation data imported into a data frame with
-  #                           fromJSON()
-  for (i in seq_along(jsonDF$pName)) {
-    isValid <- TRUE
-
-    sel <- jsonDF$pName[i] == db$protein$name
-    sel <- dbConfirmUnique(sel)    # Confirm that this protein ID exists
-    pID <- db$protein$ID[sel]
-
-    sel <- jsonDF$fName[i] == db$feature$name
-    sel <- dbConfirmUnique(sel)    # Confirm that this feature ID exists
-    fID <- db$feature$ID[sel]
-
-    sel <- db$annotation$proteinID == pID &
-           db$annotation$featureID == fID &
-           db$annotation$start == as.integer(jsonDF$start[i]) &
-           db$annotation$end   == as.integer(jsonDF$end[i])
-
-    if (any(sel)) {
-      cat(sprintf("Note: annotation No. %d in the input has %s%s\n",
-                  i,
-                  "the same protein name, feature name, start, and end ",
-                  "as one that already exists in the database. ",
-                  "Skipping this input."))
-
-      isValid <- FALSE
-    }
-
-    if (isValid) {
-      x <- data.frame(ID        = dbAutoincrement(db$annotation),
-                      proteinID = pID,
-                      featureID = fID,
-                      start     = as.integer(jsonDF$start[i]),
-                      end       = as.integer(jsonDF$end[i]))
-      db$annotation <- rbind(db$annotation, x)
-    }
-  }
-  return(db)
-}
-
-
-# ==   3.09  dbFetchUniProtSeq()  ==============================================
-dbFetchUniProtSeq <- function(IDs) {
-  # Fetch a protein sequence from UniProt.
-  # Parameters:
-  #     IDs   char  a vector of UniProt IDs (accession number)
-  # Value:
-  #     char        a vector of the same length as ID. It contains
-  #                 sequences where the retrieval was successful, NA where
-  #                 it was not successful. The elements are named with
-  #                 the ID, the header lines are set as attribute "header"
-
-
-  BASE <- "http://www.uniprot.org/uniprot/"
-
-  sq <- character()
-  hd <- character()
-  for (i in seq_along(IDs)) {
-    URL <- sprintf("%s%s.fasta", BASE, IDs[i])
-    response <- httr::GET(URL)
-    if (httr::status_code(response) == 200) {
-      s <- as.character(response)
-      s <- unlist(strsplit(s, "\n"))
-      x <- dbSanitizeSequence(s)
-    } else {
-      s <- ""
-      x <- NA
-    }
-    hd[i] <- s[1]
-    sq[i] <- x
-  }
-  names(sq) <- IDs
-  attr(sq, "headers") <- hd
-
-  return(sq)
-}
-
-if (FALSE) {
-  inp <- c("P79073", "P0000000", "A0A1W2TKZ7")
-  s <- dbFetchUniProtSeq(inp)
-  s[1:3]
-  str(s)
-  attr(s, "headers")[1]
-}
-
-
-
-# ==   3.10  dbFetchPrositeFeatures()  =========================================
-dbFetchPrositeFeatures <- function(ID) {
-  # Fetch feature annotations from ScanProsite.
-  # Parameters:
-  #     ID   char   a UniProt ID (accession number)
-  # Value:
-  #     data frame     uID    char  UniProt ID
-  #                    start  num   start of motif
-  #                    end    num   end of motif
-  #                    psID   char  PROSITE motif ID
-  #                    psName char  PROSITE motif name
-  #                    psSeq  char  sequence annotated to the feature
-  # If the operation is not successful, a 0-length data frame is returned.
-
-  URL <- "https://prosite.expasy.org/cgi-bin/prosite/PSScan.cgi"
-
-  response <- httr::POST(URL,
-                         body = list(meta = "opt1",
-                                     meta1_protein = "opt1",
-                                     seq = ID,
-                                     skip = "on",
-                                     output = "tabular"))
-
-  myFeatures <- data.frame()
-  if (httr::status_code(response) == 200) {
-
-    lines <- unlist(strsplit(httr::content(response, "text"), "\\n"))
-
-    patt <- sprintf("\\|%s\\|", ID)
-    lines <- lines[grep(patt, lines)]
-
-    for (line in lines) {
-      tokens <- unlist(strsplit(line, "\\t|\\|"))
-      myFeatures <- rbind(myFeatures,
-                          data.frame(uID   =  tokens[2],
-                                     start =  as.numeric(tokens[4]),
-                                     end   =  as.numeric(tokens[5]),
-                                     psID  =  tokens[6],
-                                     psName = tokens[7],
-                                     psSeq  = tokens[11]))
-    }
-  }
-  return(myFeatures)
-}
-
-if (FALSE) {
-  dbFetchPrositeFeatures("P33520")  # RES1_SCHPO
-
-}
-
-# ==   3.11  node2text()  ======================================================
-node2text <- function(doc, tag) {
-  # an extractor function for the contents of elements
-  # between given tags in an XML response.
-  # Contents of all matching elements is returned in
-  # a vector of strings.
-  path <- paste0("//", tag)
-  nodes <- xml2::xml_find_all(doc, path)
-  return(xml2::xml_text(nodes))
-}
-
-
-# ==   3.12  dbFetchNCBItaxData()  =============================================
-dbFetchNCBItaxData <- function(ID) {
-  # Fetch feature taxID and Organism from the NCBI.
-  # Parameters:
-  #     ID   char   a RefSeq ID (accession number)
-  # Value:
-  #     data frame     taxID      num    NCBI taxID
-  #                    organism   char   organism for this taxID
-  # If the operation is not successful, a 0-length data frame is returned.
-
-  eUtilsBase <- "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/"
-  URL <- paste(eUtilsBase,
-               "esearch.fcgi?",
-               "db=protein",
-               "&term=", ID,
-               sep="")
-  myXML <- xml2::read_xml(URL)
-  GID <- node2text(myXML, "Id")
-
-  URL <- paste0(eUtilsBase,
-                "esummary.fcgi?",
-                "db=protein",
-                "&id=",
-                GID,
-                "&version=2.0")
-  myXML <- xml2::read_xml(URL)
-
-  x <- as.integer(node2text(myXML, "TaxId"))
-  y <- node2text(myXML, "Organism")
-
-  tID <- data.frame()
-  if (length(x) > 0 && length(y) > 0) {
-    tID <- data.frame(taxID = x, organism = y)
-  }
-  return(tID)
-}
-
-
-
-# ==   3.13  UniProtIDmap()  ===================================================
-UniProtIDmap <- function (s, mapFrom = "P_REFSEQ_AC", mapTo = "ACC") {
-  # Use UniProt ID mapping service to map one or more IDs
-  # Parameters:
-  #    s        char  A string of white-space separated IDs
-  #    mapFrom  char  the database in which the IDs in s are valid.
-  #                     Default is RefSeq protein
-  #    mapTo    char  the database in which the target IDs are valid.
-  #                     Default is UniProtKB
-  # Value
-  #    A data frame of mapped IDs, with column names From and To, or an
-  #    empty data frame if the mapping was unsuccessful. No rows are returned
-  #    for IDs that are not mapped.
-
-  # Initialize curl
-  httr::set_config(httr::config(http_version = 0))
-
-  URL <- "https://www.uniprot.org/uploadlists/"
-  response <- httr::POST(URL,
-                         body = list(from = mapFrom,
-                                     to = mapTo,
-                                     format = "tab",
-                                     query = s))
-
-  if (httr::status_code(response) == 200) { # 200: oK
-    myMap <- read.delim(file = textConnection(httr::content(response)),
-                        sep = "\t")
-    colnames(myMap) <- c("From", "To")
-  } else {
-    myMap <- data.frame()
-    warning(paste("No uniProt ID mapping returned:",
-                  "server sent status",
-                  httr::status_code(response)))
-  }
-
-  return(myMap)
-}
-
-
-# ==   3.14  dbProt2JSON()  ====================================================
-dbProt2JSON <- function(thisProt) {
-  # Extract all protein related data from myDB and return in JSON format.
-
-  thisData <- list()
-
-  # add a protein table
-  sel <- which(myDB$protein$name == thisProt)
-  thisData$protein <- myDB$protein[sel, ]
-
-  # add a taxonomy table
-  sel <- which(myDB$taxonomy$ID == thisData$protein$taxonomyID)
-  thisData$taxonomy <- myDB$taxonomy[sel, ]
-
-  # add the entries for this protein from the  annotation table
-  sel <- which(myDB$annotation$proteinID == thisData$protein$ID)
-  thisData$annotation <- myDB$annotation[sel, ]
-  # our .json convention uses pName and fName as keys, not the db-internal IDs
-  # add empty columns for pName and fName
-  l <- nrow(thisData$annotation)
-  thisData$annotation$pName <- character(l)
-  thisData$annotation$fName <- character(l)
-  # get the appropriate protein and feature names
-  for (i in seq_len(l)) {
-    pID <- thisData$annotation$proteinID[i]
-    sel <- which(myDB$protein$ID == pID)
-    thisData$annotation$pName[i] <- myDB$protein$name[sel]    # store pName
-    fID <- thisData$annotation$featureID[i]
-    sel <- which(myDB$feature$ID == fID)
-    thisData$annotation$fName[i] <- myDB$feature$name[sel]    # store fName
-  }
-
-  # add the corresponding feature table
-  sel <- which(myDB$feature$ID %in% thisData$annotation$featureID)
-  thisData$feature <- myDB$feature[sel, ]
-
-  # remove columns that are not going into JSON output
-  thisData$protein$ID           <- NULL
-  thisData$annotation$ID        <- NULL
-  thisData$annotation$proteinID <- NULL
-  thisData$annotation$featureID <- NULL
-  thisData$feature$ID           <- NULL
-
-  # create JSON-formatted output
-  # ( jsonlite::prettify() is too  wordy for a compact Wikipage )
-
-  out <- character()
-  out <- c(out, '{')
-
-  out <- c(out, '  "protein": {')
-  sel <- colnames(thisData$protein) != "sequence"
-  out <- c(out, sprintf("    %s,", dbRow2JSON(thisData$protein[1, sel],
-                                              coll = ",\n    ")))
-  out <- c(out, dbSeq2JSON(thisData$protein$sequence[1]))
-  out <- c(out, '  },')
-
-  out <- c(out, '  "taxonomy": {')
-  out <- c(out, sprintf("    %s", dbRow2JSON(thisData$taxonomy)))
-  out <- c(out, '  },')
-
-  out <- c(out, '  "annotation": [')
-  for (i in seq_len(nrow(thisData$annotation))) {
-    out <- c(out, sprintf("    {%s},", dbRow2JSON(thisData$annotation[i, ])))
-  }
-  out[length(out)] <- gsub(",$", "", out[length(out)]) # remove last ","
-  out <- c(out, '  ],')
-
-  out <- c(out, '  "feature": [')
-  sel <- colnames(thisData$feature) != "description"
-  for (i in seq_len(nrow(thisData$feature))) {
-    out <- c(out, sprintf("    {%s,",
-                          dbRow2JSON(thisData$feature[i, sel])))
-    out <- c(out, sprintf("     %s},",
-                          dbRow2JSON(thisData$feature[i, "description",
-                                                      drop = FALSE])))
-  }
-  out[length(out)] <- gsub(",$", "", out[length(out)]) # remove last ","
-  out <- c(out, '  ]')
-
-  out <- c(out, '}')
-
-  return(paste0(out, collapse = "\n"))
-}
-
-
-# ==   3.15  dbSeq2JSON()  =====================================================
-
-dbSeq2JSON <- function(s, nIndents = 4, width = 70) {
-  # Turn a sequence into a JSON key-value pair, with the value being a JSON
-  # array of elements not exceeding a width of "width", and an indent of
-  # "indents" spaces.
-  ind <- paste0(rep(" ", nIndents), collapse = "")
-
-  out <- character()
-  out <- c(out, sprintf("%s\"sequence\": [", ind))
-
-  for (i in seq_along(s)) {
-    l <- nchar(s[i])
-    if (l <= width) {
-      out <- c(out, s[i])
-    } else {
-      starts <- seq(1, l, by = width)
-      ends <- seq(width, l, by = width)
-      if (length(ends) < length(starts)) { ends <- c(ends, l) }
-      out <- c(out, sprintf("%s  \"%s\",", ind, substring(s[i], starts, ends)))
-    }
-  }
-  out[length(out)] <- gsub(",$", "", out[length(out)]) # remove last ","
-
-  out <- c(out, sprintf("%s]", ind))
-  return(paste0(out, collapse = "\n"))
-}
-
-
-# ==   3.16  dbRow2JSON()  =====================================================
-
-dbRow2JSON <- function(df, coll = ", ") {
-  # Turn a single dataframe row into JSON key value pairs, where the keys are the
-  # column names. Respects character / numeric mode.
-  out <- character()
-  for (i in 1:ncol(df)) {
-    if (class(df[1, i]) == "integer") {
-      val <- sprintf("%d", df[1, i])
-    } else if (class(df[1, i]) == "numeric") {
-      val <- sprintf("%f", df[1, i])
-    } else {
-      val <- sprintf("\"%s\"", as.character(df[1, i]))
-    }
-    out <- c(out, sprintf("\"%s\": %s", colnames(df)[i], val))
-  }
-  return(paste0(out, collapse = coll))
-}
-
-
-# =    4  TESTS  ===============================================================
-
-if (doTESTS) {
-  if (! requireNamespace("testthat", quietly = TRUE)) {
-    install.packages("testthat")
-  }
-
-  # ToDo: test everything here
-
-}
-
-
-# [END]
+# tocID <- "scripts/ABC-dbUtilities.R"
+#
+# Purpose: Database utilities for ABC learning units.
+#
+# Version 2.3
+#
+# Date:     2017-11  -  2020-11
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           2.3  Bug in treatment of single-column dataframes which returns
+#                a deparsed expression from paste()
+#           2.2  Bugfixes
+#           2.1  Add JSON export functions
+#           2.0  Test all JSON import and prevent addition of duplicates. This
+#                  is necessary for import of data from the public page
+#           1.1  2020 Updates
+#           1.0  Live version 2017
+#
+# Notes:
+#   There are no functions to modify or delete entries. To do either,
+#   recreate the database with correct data in the creation script. This is the
+#   preferred way that ensures the entire database can be reproduced by
+#   source()'ing its generating script.
+#
+#   Inserting data goes only through the very most minimal validation steps. For
+#   production applications, more validation would need to be added, as well
+#   as an overall validation of database integrity
+#
+# ToDo:
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                   Line
+#TOC> -------------------------------------------------------
+#TOC>   1        INITIALISATIONS AND PARAMETERS            63
+#TOC>   2        PACKAGES                                  68
+#TOC>   3        FUNCTIONS                                 84
+#TOC>   3.01       dbSanitizeSequence()                    87
+#TOC>   3.02       dbConfirmUnique()                      122
+#TOC>   3.03       dbInit()                               140
+#TOC>   3.04       dbAutoincrement()                      180
+#TOC>   3.05       dbAddProtein()                         193
+#TOC>   3.06       dbAddFeature()                         229
+#TOC>   3.07       dbAddTaxonomy()                        260
+#TOC>   3.08       dbAddAnnotation()                      295
+#TOC>   3.09       dbFetchUniProtSeq()                    342
+#TOC>   3.10       dbFetchPrositeFeatures()               388
+#TOC>   3.11       node2text()                            438
+#TOC>   3.12       dbFetchNCBItaxData()                   450
+#TOC>   3.13       UniProtIDmap()                         489
+#TOC>   3.14       dbProt2JSON()                          528
+#TOC>   3.15       dbSeq2JSON()                           613
+#TOC>   3.16       dbRow2JSON()                           642
+#TOC>   4        TESTS                                    662
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  INITIALISATIONS AND PARAMETERS  ======================================
+
+doTESTS <- FALSE  # run tests if TRUE
+
+
+# =    2  PACKAGES  ============================================================
+
+
+if (! requireNamespace("jsonlite", quietly = TRUE)) {
+  install.packages("jsonlite")
+}
+
+if (! requireNamespace("httr", quietly = TRUE)) {
+  install.packages("httr")
+}
+
+if (! requireNamespace("xml2", quietly = TRUE)) {
+  install.packages("xml2")
+}
+
+
+# =    3  FUNCTIONS  ===========================================================
+
+
+# ==   3.01  dbSanitizeSequence()  =============================================
+dbSanitizeSequence <- function(s, unambiguous = TRUE) {
+  # Remove FASTA header lines, if any,
+  # flatten any structure that s has,
+  # remove all non-letters except "-" (gap) and "*" (stop),
+  # convert to uppercase.
+  #
+  # Parameters:
+  #   s  chr  A DNA or protein sequence plus other characters
+  #   unambiguous  bool  if TRUE, stop() if any letter remaining after
+  #                      processing matches an ambiguity code. This is likely
+  #                      due to inadvertently including meta-data, such as
+  #                      a FASTA header, with the sequence.
+  # Note: since U is an ambiguity code for amino acid sequences, you need
+  #         to set unambiguous = FALSE to process RNA sequences with Uracil.
+  # Value: chr   a valid, uppercase, amino acid sequence
+  #
+
+  s <- as.character(unlist(s))    # convert complex object to plain chr vector
+  s <- unlist(strsplit(s, "\n"))  # split up at linebreaks, if any
+  s <- s[! grepl("^>", s)]        # drop all lines beginning">" (FASTA header)
+  s <- paste(s, collapse="")      # combine into single string
+  s <- toupper(gsub("[^a-zA-Z*-]", "", s))
+  if (unambiguous) {
+    amb <- "([bjouxzBJOUXZ])"  # parentheses capture the match
+    ambChar <- unlist(regmatches(s, regexec(amb, s)))[1]
+    if (! is.na(ambChar)) {
+      stop(paste("Input contains ambiguous codes(s): \"",
+                 ambChar, "\".", sep=""))
+    }
+  }
+  return(s)
+}
+
+
+# ==   3.02  dbConfirmUnique()  ================================================
+dbConfirmUnique <- function(x) {
+  # x is a vector of logicals.
+  # returns x if x has exactly one TRUE element.
+  # stop() otherwise.
+
+  if (any(!is.logical(x))) {
+    stop("PANIC: Input is not a boolean vector.")
+  } else if (sum(x) == 0) {
+    stop("PANIC: No match found.")
+  } else  if (sum(x) > 1) {
+    stop("PANIC: More than one match found.")
+  } else {
+    return(x)
+  }
+}
+
+
+# ==   3.03  dbInit()  =========================================================
+dbInit <- function() {
+  # Return an empty instance of the protein database
+  # The schema is here:
+  # https://docs.google.com/presentation/d/13vWaVcFpWEOGeSNhwmqugj2qTQuH1eZROgxWdHGEMr0
+
+  db <- list()
+
+  db$version <- "1.0"
+
+  db$protein <- data.frame(
+    ID = numeric(),
+    name = character(),
+    RefSeqID = character(),
+    UniProtID = character(),
+    taxonomyID = numeric(),
+    sequence = character())
+
+  db$taxonomy <- data.frame(
+    ID = numeric(),
+    species = character())
+
+  db$annotation <- data.frame(
+    ID = numeric(),
+    proteinID = numeric(),
+    featureID = numeric(),
+    start = numeric(),
+    end = numeric())
+
+  db$feature <- data.frame(
+    ID = numeric(),
+    name = character(),
+    description = character(),
+    sourceDB = character(),
+    accession = character())
+
+  return(db)
+}
+
+
+# ==   3.04  dbAutoincrement()  ================================================
+dbAutoincrement <- function(tb) {
+  # Return a unique integer that can be used as a primary key
+  # Value:
+  #   num  a number one-larger than the largest current value in table$ID
+  if (length(tb$ID) == 0) {
+    return(1)
+  } else {
+    return(max(tb$ID) + 1)
+  }
+}
+
+
+# ==   3.05  dbAddProtein()  ===================================================
+dbAddProtein <- function(db, jsonDF) {
+  # Add one or more protein entries to the database db if a protein with the
+  # same name does not yet exist. This enforces that protein names are unique.
+  # Parameters:
+  #     db   list   a database created with dbInit()
+  #     jsonDF  data frame  protein data imported into a data frame with
+  #                           fromJSON()
+
+  for (i in seq_along(jsonDF$name)) {
+    isValid <- TRUE
+    if (jsonDF$name[i] %in% db$protein$name) {
+      cat(sprintf("Note: Protein No. %d in the input is \"%s\", but %s.\n",
+                  i, jsonDF$name[i],
+                  "a protein with this name already exists in the database. ",
+                  "Skipping this input."))
+      isValid <- FALSE
+    }
+
+    if (isValid) {
+      if (length(jsonDF$name) == 1) { # jsonlite:: oversimplifies
+        jsonDF$sequence <- paste0(unlist(jsonDF$sequence), collapse = "")
+      }
+      x <- data.frame(ID          = dbAutoincrement(db$protein),
+                      name        = jsonDF$name[i],
+                      RefSeqID    = jsonDF$RefSeqID[i],
+                      UniProtID   = jsonDF$UniProtID[i],
+                      taxonomyID  = as.integer(jsonDF$taxonomyID[i]),
+                      sequence    = dbSanitizeSequence(jsonDF$sequence[i]))
+      db$protein <- rbind(db$protein, x)
+    }
+  }
+  return(db)
+}
+
+
+# ==   3.06  dbAddFeature()  ===================================================
+dbAddFeature <- function(db, jsonDF) {
+  # Add one or more feature entries to the database db. Skip if a feature with
+  # the same name already exists.
+  # Parameters:
+  #     db   list   a database created with dbInit()
+  #     jsonDF  data frame  feature data imported into a data frame with
+  #                           fromJSON()
+  for (i in seq_along(jsonDF$name)) {
+    isValid <- TRUE
+    if (jsonDF$name[i] %in% db$feature$name) {
+      cat(sprintf("Note: Feature No. %d in the input is \"%s\", but %s.\n",
+                  i, jsonDF$name[i],
+                  "a feature with this name already exists in the database. ",
+                  "Skipping this input."))
+      isValid <- FALSE
+    }
+
+    if (isValid) {
+      x <- data.frame(ID          = dbAutoincrement(db$feature),
+                      name        = jsonDF$name[i],
+                      description = jsonDF$description[i],
+                      sourceDB    = jsonDF$sourceDB[i],
+                      accession   = jsonDF$accession[i])
+      db$feature <- rbind(db$feature, x)
+    }
+  }
+  return(db)
+}
+
+
+# ==   3.07  dbAddTaxonomy()  ==================================================
+dbAddTaxonomy <- function(db, jsonDF) {
+  # Add one or more taxonomy entries to the database db. Skip if species name
+  # or taxonomy ID already exist in the database.
+  # Parameters:
+  #     db      list         A database created with dbInit()
+  #     jsonDF  data frame   Taxonomy data imported into a data frame with
+  #                            fromJSON()
+  for (i in seq_along(jsonDF$species)) {
+    isValid <- TRUE
+
+    if (jsonDF$species[i] %in% db$taxonomy$species) {
+      cat(sprintf("Note: Species No. %d in the input is \"%s\", but %s%s\n",
+                  i, jsonDF$name[i],
+                  "a species with this name already exists in the database. ",
+                  "Skipping this input."))
+      isValid <- FALSE
+    } else if (jsonDF$ID[i] %in% db$taxonomy$ID) {
+      cat(sprintf("Note: Taxonomy ID No. %d in the input is \"%d\", but %s%s\n",
+                  i, jsonDF$ID[i],
+                  "this taxonomy ID already exists in the database. ",
+                  "Skipping this input."))
+      isValid <- FALSE
+    }
+    if (isValid) {
+      x <- data.frame(
+        ID =  as.integer(jsonDF$ID[i]),
+        species = jsonDF$species[i])
+      db$taxonomy <- rbind(db$taxonomy, x)
+    }
+  }
+  return(db)
+}
+
+
+# ==   3.08  dbAddAnnotation()  ================================================
+dbAddAnnotation <- function(db, jsonDF) {
+  # Add one or more annotation entries to the database db. Skip the entry if
+  # it already exists in the database.
+  # Parameters:
+  #     db   list   a database created with dbInit()
+  #     jsonDF  data frame  annotation data imported into a data frame with
+  #                           fromJSON()
+  for (i in seq_along(jsonDF$pName)) {
+    isValid <- TRUE
+
+    sel <- jsonDF$pName[i] == db$protein$name
+    sel <- dbConfirmUnique(sel)    # Confirm that this protein ID exists
+    pID <- db$protein$ID[sel]
+
+    sel <- jsonDF$fName[i] == db$feature$name
+    sel <- dbConfirmUnique(sel)    # Confirm that this feature ID exists
+    fID <- db$feature$ID[sel]
+
+    sel <- db$annotation$proteinID == pID &
+           db$annotation$featureID == fID &
+           db$annotation$start == as.integer(jsonDF$start[i]) &
+           db$annotation$end   == as.integer(jsonDF$end[i])
+
+    if (any(sel)) {
+      cat(sprintf("Note: annotation No. %d in the input has %s%s\n",
+                  i,
+                  "the same protein name, feature name, start, and end ",
+                  "as one that already exists in the database. ",
+                  "Skipping this input."))
+
+      isValid <- FALSE
+    }
+
+    if (isValid) {
+      x <- data.frame(ID        = dbAutoincrement(db$annotation),
+                      proteinID = pID,
+                      featureID = fID,
+                      start     = as.integer(jsonDF$start[i]),
+                      end       = as.integer(jsonDF$end[i]))
+      db$annotation <- rbind(db$annotation, x)
+    }
+  }
+  return(db)
+}
+
+
+# ==   3.09  dbFetchUniProtSeq()  ==============================================
+dbFetchUniProtSeq <- function(IDs) {
+  # Fetch a protein sequence from UniProt.
+  # Parameters:
+  #     IDs   char  a vector of UniProt IDs (accession number)
+  # Value:
+  #     char        a vector of the same length as ID. It contains
+  #                 sequences where the retrieval was successful, NA where
+  #                 it was not successful. The elements are named with
+  #                 the ID, the header lines are set as attribute "header"
+
+
+  BASE <- "http://www.uniprot.org/uniprot/"
+
+  sq <- character()
+  hd <- character()
+  for (i in seq_along(IDs)) {
+    URL <- sprintf("%s%s.fasta", BASE, IDs[i])
+    response <- httr::GET(URL)
+    if (httr::status_code(response) == 200) {
+      s <- as.character(response)
+      s <- unlist(strsplit(s, "\n"))
+      x <- dbSanitizeSequence(s)
+    } else {
+      s <- ""
+      x <- NA
+    }
+    hd[i] <- s[1]
+    sq[i] <- x
+  }
+  names(sq) <- IDs
+  attr(sq, "headers") <- hd
+
+  return(sq)
+}
+
+if (FALSE) {
+  inp <- c("P79073", "P0000000", "A0A1W2TKZ7")
+  s <- dbFetchUniProtSeq(inp)
+  s[1:3]
+  str(s)
+  attr(s, "headers")[1]
+}
+
+
+
+# ==   3.10  dbFetchPrositeFeatures()  =========================================
+dbFetchPrositeFeatures <- function(ID) {
+  # Fetch feature annotations from ScanProsite.
+  # Parameters:
+  #     ID   char   a UniProt ID (accession number)
+  # Value:
+  #     data frame     uID    char  UniProt ID
+  #                    start  num   start of motif
+  #                    end    num   end of motif
+  #                    psID   char  PROSITE motif ID
+  #                    psName char  PROSITE motif name
+  #                    psSeq  char  sequence annotated to the feature
+  # If the operation is not successful, a 0-length data frame is returned.
+
+  URL <- "https://prosite.expasy.org/cgi-bin/prosite/PSScan.cgi"
+
+  response <- httr::POST(URL,
+                         body = list(meta = "opt1",
+                                     meta1_protein = "opt1",
+                                     seq = ID,
+                                     skip = "on",
+                                     output = "tabular"))
+
+  myFeatures <- data.frame()
+  if (httr::status_code(response) == 200) {
+
+    lines <- unlist(strsplit(httr::content(response, "text"), "\\n"))
+
+    patt <- sprintf("\\|%s\\|", ID)
+    lines <- lines[grep(patt, lines)]
+
+    for (line in lines) {
+      tokens <- unlist(strsplit(line, "\\t|\\|"))
+      myFeatures <- rbind(myFeatures,
+                          data.frame(uID   =  tokens[2],
+                                     start =  as.numeric(tokens[4]),
+                                     end   =  as.numeric(tokens[5]),
+                                     psID  =  tokens[6],
+                                     psName = tokens[7],
+                                     psSeq  = tokens[11]))
+    }
+  }
+  return(myFeatures)
+}
+
+if (FALSE) {
+  dbFetchPrositeFeatures("P33520")  # RES1_SCHPO
+
+}
+
+# ==   3.11  node2text()  ======================================================
+node2text <- function(doc, tag) {
+  # an extractor function for the contents of elements
+  # between given tags in an XML response.
+  # Contents of all matching elements is returned in
+  # a vector of strings.
+  path <- paste0("//", tag)
+  nodes <- xml2::xml_find_all(doc, path)
+  return(xml2::xml_text(nodes))
+}
+
+
+# ==   3.12  dbFetchNCBItaxData()  =============================================
+dbFetchNCBItaxData <- function(ID) {
+  # Fetch feature taxID and Organism from the NCBI.
+  # Parameters:
+  #     ID   char   a RefSeq ID (accession number)
+  # Value:
+  #     data frame     taxID      num    NCBI taxID
+  #                    organism   char   organism for this taxID
+  # If the operation is not successful, a 0-length data frame is returned.
+
+  eUtilsBase <- "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/"
+  URL <- paste(eUtilsBase,
+               "esearch.fcgi?",
+               "db=protein",
+               "&term=", ID,
+               sep="")
+  myXML <- xml2::read_xml(URL)
+  GID <- node2text(myXML, "Id")
+
+  URL <- paste0(eUtilsBase,
+                "esummary.fcgi?",
+                "db=protein",
+                "&id=",
+                GID,
+                "&version=2.0")
+  myXML <- xml2::read_xml(URL)
+
+  x <- as.integer(node2text(myXML, "TaxId"))
+  y <- node2text(myXML, "Organism")
+
+  tID <- data.frame()
+  if (length(x) > 0 && length(y) > 0) {
+    tID <- data.frame(taxID = x, organism = y)
+  }
+  return(tID)
+}
+
+
+
+# ==   3.13  UniProtIDmap()  ===================================================
+UniProtIDmap <- function (s, mapFrom = "P_REFSEQ_AC", mapTo = "ACC") {
+  # Use UniProt ID mapping service to map one or more IDs
+  # Parameters:
+  #    s        char  A string of white-space separated IDs
+  #    mapFrom  char  the database in which the IDs in s are valid.
+  #                     Default is RefSeq protein
+  #    mapTo    char  the database in which the target IDs are valid.
+  #                     Default is UniProtKB
+  # Value
+  #    A data frame of mapped IDs, with column names From and To, or an
+  #    empty data frame if the mapping was unsuccessful. No rows are returned
+  #    for IDs that are not mapped.
+
+  # Initialize curl
+  httr::set_config(httr::config(http_version = 0))
+
+  URL <- "https://www.uniprot.org/uploadlists/"
+  response <- httr::POST(URL,
+                         body = list(from = mapFrom,
+                                     to = mapTo,
+                                     format = "tab",
+                                     query = s))
+
+  if (httr::status_code(response) == 200) { # 200: oK
+    myMap <- read.delim(file = textConnection(httr::content(response)),
+                        sep = "\t")
+    colnames(myMap) <- c("From", "To")
+  } else {
+    myMap <- data.frame()
+    warning(paste("No uniProt ID mapping returned:",
+                  "server sent status",
+                  httr::status_code(response)))
+  }
+
+  return(myMap)
+}
+
+
+# ==   3.14  dbProt2JSON()  ====================================================
+dbProt2JSON <- function(thisProt) {
+  # Extract all protein related data from myDB and return in JSON format.
+
+  thisData <- list()
+
+  # add a protein table
+  sel <- which(myDB$protein$name == thisProt)
+  thisData$protein <- myDB$protein[sel, ]
+
+  # add a taxonomy table
+  sel <- which(myDB$taxonomy$ID == thisData$protein$taxonomyID)
+  thisData$taxonomy <- myDB$taxonomy[sel, ]
+
+  # add the entries for this protein from the  annotation table
+  sel <- which(myDB$annotation$proteinID == thisData$protein$ID)
+  thisData$annotation <- myDB$annotation[sel, ]
+  # our .json convention uses pName and fName as keys, not the db-internal IDs
+  # add empty columns for pName and fName
+  l <- nrow(thisData$annotation)
+  thisData$annotation$pName <- character(l)
+  thisData$annotation$fName <- character(l)
+  # get the appropriate protein and feature names
+  for (i in seq_len(l)) {
+    pID <- thisData$annotation$proteinID[i]
+    sel <- which(myDB$protein$ID == pID)
+    thisData$annotation$pName[i] <- myDB$protein$name[sel]    # store pName
+    fID <- thisData$annotation$featureID[i]
+    sel <- which(myDB$feature$ID == fID)
+    thisData$annotation$fName[i] <- myDB$feature$name[sel]    # store fName
+  }
+
+  # add the corresponding feature table
+  sel <- which(myDB$feature$ID %in% thisData$annotation$featureID)
+  thisData$feature <- myDB$feature[sel, ]
+
+  # remove columns that are not going into JSON output
+  thisData$protein$ID           <- NULL
+  thisData$annotation$ID        <- NULL
+  thisData$annotation$proteinID <- NULL
+  thisData$annotation$featureID <- NULL
+  thisData$feature$ID           <- NULL
+
+  # create JSON-formatted output
+  # ( jsonlite::prettify() is too  wordy for a compact Wikipage )
+
+  out <- character()
+  out <- c(out, '{')
+
+  out <- c(out, '  "protein": {')
+  sel <- colnames(thisData$protein) != "sequence"
+  out <- c(out, sprintf("    %s,", dbRow2JSON(thisData$protein[1, sel],
+                                              coll = ",\n    ")))
+  out <- c(out, dbSeq2JSON(thisData$protein$sequence[1]))
+  out <- c(out, '  },')
+
+  out <- c(out, '  "taxonomy": {')
+  out <- c(out, sprintf("    %s", dbRow2JSON(thisData$taxonomy)))
+  out <- c(out, '  },')
+
+  out <- c(out, '  "annotation": [')
+  for (i in seq_len(nrow(thisData$annotation))) {
+    out <- c(out, sprintf("    {%s},", dbRow2JSON(thisData$annotation[i, ])))
+  }
+  out[length(out)] <- gsub(",$", "", out[length(out)]) # remove last ","
+  out <- c(out, '  ],')
+
+  out <- c(out, '  "feature": [')
+  sel <- colnames(thisData$feature) != "description"
+  for (i in seq_len(nrow(thisData$feature))) {
+    out <- c(out, sprintf("    {%s,",
+                          dbRow2JSON(thisData$feature[i, sel])))
+    out <- c(out, sprintf("     %s},",
+                          dbRow2JSON(thisData$feature[i, "description",
+                                                      drop = FALSE])))
+  }
+  out[length(out)] <- gsub(",$", "", out[length(out)]) # remove last ","
+  out <- c(out, '  ]')
+
+  out <- c(out, '}')
+
+  return(paste0(out, collapse = "\n"))
+}
+
+
+# ==   3.15  dbSeq2JSON()  =====================================================
+
+dbSeq2JSON <- function(s, nIndents = 4, width = 70) {
+  # Turn a sequence into a JSON key-value pair, with the value being a JSON
+  # array of elements not exceeding a width of "width", and an indent of
+  # "indents" spaces.
+  ind <- paste0(rep(" ", nIndents), collapse = "")
+
+  out <- character()
+  out <- c(out, sprintf("%s\"sequence\": [", ind))
+
+  for (i in seq_along(s)) {
+    l <- nchar(s[i])
+    if (l <= width) {
+      out <- c(out, s[i])
+    } else {
+      starts <- seq(1, l, by = width)
+      ends <- seq(width, l, by = width)
+      if (length(ends) < length(starts)) { ends <- c(ends, l) }
+      out <- c(out, sprintf("%s  \"%s\",", ind, substring(s[i], starts, ends)))
+    }
+  }
+  out[length(out)] <- gsub(",$", "", out[length(out)]) # remove last ","
+
+  out <- c(out, sprintf("%s]", ind))
+  return(paste0(out, collapse = "\n"))
+}
+
+
+# ==   3.16  dbRow2JSON()  =====================================================
+
+dbRow2JSON <- function(df, coll = ", ") {
+  # Turn a single dataframe row into JSON key value pairs, where the keys are the
+  # column names. Respects character / numeric mode.
+  out <- character()
+  for (i in 1:ncol(df)) {
+    if (class(df[1, i]) == "integer") {
+      val <- sprintf("%d", df[1, i])
+    } else if (class(df[1, i]) == "numeric") {
+      val <- sprintf("%f", df[1, i])
+    } else {
+      val <- sprintf("\"%s\"", as.character(df[1, i]))
+    }
+    out <- c(out, sprintf("\"%s\": %s", colnames(df)[i], val))
+  }
+  return(paste0(out, collapse = coll))
+}
+
+
+# =    4  TESTS  ===============================================================
+
+if (doTESTS) {
+  if (! requireNamespace("testthat", quietly = TRUE)) {
+    install.packages("testthat")
+  }
+
+  # ToDo: test everything here
+
+}
+
+
+# [END]
diff --git a/scripts/ABC-makeMYSPElist.R b/scripts/ABC-makeMYSPElist.R
index b519dd6..7544851 100644
--- a/scripts/ABC-makeMYSPElist.R
+++ b/scripts/ABC-makeMYSPElist.R
@@ -1,443 +1,443 @@
-# tocID <- "scripts/ABC-makeMYSPElist.R"
-#
-# Purpose:  Create a list of genome sequenced fungi with protein annotations and
-#               Mbp1 homologues.
-#
-# Version: 1.4
-#
-# Date:    2016  09  -  2021  09
-# Author:  Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions
-#          1.4    New retrieval logic
-#          1.3    Rewrite to change datasource. NCBI has not been updated
-#                   since 2012. Use ensembl fungi as initial source.
-#          1.2    Change from require() to requireNamespace()
-#          1.1.2  Moved BLAST.R to ./scripts directory
-#          1.1    Update 2017
-#          1.0    First code 2016
-#
-# TODO:
-#
-# ==============================================================================
-#
-# DO NOT  source()  THIS FILE!
-#
-# This file is code I provide for your deeper understanding of a process and
-# to provide you with useful sample code. It is not actually necessary for
-# you to run this code, but I encourage you to read it carefully and discuss
-# if there are parts you don't understand.
-#
-# Run the commands that interact with the NCBI servers only if you want to
-# experiment specifically with the code and/or parameters. I have commented out
-# those parts. If you only want to study the general workflow, just load()
-# the respective intermediate results.
-#
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                    Line
-#TOC> --------------------------------------------------------
-#TOC>   1        The strategy                               55
-#TOC>   2        PACKAGES AND INITIALIZATIONS               67
-#TOC>   3        ENSEMBL FUNGI                              75
-#TOC>   3.1        Import                                   78
-#TOC>   4        BLAST SEARCH                              155
-#TOC>   4.1        find homologous proteins                161
-#TOC>   4.2        Identify species in "hits"              192
-#TOC>   5        MERGE ENSEMBL AND BLAST RESULTS           282
-#TOC>   6        STUDENT NUMBERS                           375
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  The strategy  ========================================================
-
-# This script will create a list of "MYSPE" species and save it in an R object
-# MYSPEspecies that is stored in the data subdirectory of this project from
-# where it can be loaded. The strategy is as follows: we download a list of
-# annotated fungal genomes from ensembl.fungi. All these are genome-sequenced
-# species that have been annotated.
-# Next we perform a BLAST search, to identify fungal species that have
-# genes that are homologous to yeast MBP1.
-#
-# ...
-
-# =    2  PACKAGES AND INITIALIZATIONS  ========================================
-
-# httr provides interfaces to Webservers on the Internet
-if (! requireNamespace("httr", quietly = TRUE)) {
-  install.packages("httr")
-}
-
-
-# =    3  ENSEMBL FUNGI  =======================================================
-
-
-# ==   3.1  Import  ============================================================
-
-# Navigate to https://fungi.ensembl.org and click on the link to the full
-# list of all species: https://fungi.ensembl.org/species.html
-# On the page, click on the spreadsheet symbol top right and choose
-# "download whole table". The file will be named  "Species.csv", in your
-# usual downloads folder. Move it to the data folder, and read it.
-
-sDat <- read.csv("./data/Species.csv")
-str(sDat)
-
-# The most obvious way to partition these is according to Classification ...
-# (poking around a bit in the UniProt taxonomy database shows that the
-#  classification used here is the taxonomic rank of "order").
-# how many classifications do we have?
-length(unique(sDat$Classification))  # 66
-
-# To have a good set for the class, we should have about 100.
-# Let's see for which of these we can find Mbp1 homologues.
-# First, we'll keep only the colums for name, classification, and taxID, and
-# drop the rest ...
-sDat <- sDat[ , c("Name", "Classification", "Taxon.ID")]
-colnames(sDat) <- c("name", "order", "taxID")
-
-# Next, we make an extra column: genus - the first part of the binomial name.
-# We'll use the gsub() function, and for that we need a "regular expression"
-# that matches to all characters from the first blank to the end of the string:
-myPatt <- "\\s.*$"  # one whitespace (\\s) ...
-                    # followed by any character (.) 0..n times (*) ...
-                    # until the end of the string
-
-# using gsub() we substitue all matching characters with the empty string "" -
-# this deletes the matching characters
-# Test this:
-gsub(myPatt, "", "Genus")                      # one word: unchanged
-gsub(myPatt, "", "gEnus species")              # two words: return only first
-gsub(myPatt, "", "geNus species strain 123")   # many words: return only first
-
-# apply this to the "name" column and add the result as a separate column
-# called "genus"
-sDat$genus <- gsub(myPatt, "", sDat$name)
-
-# what do we get?
-c(head(unique(sDat$genus)),
-  tail(unique(sDat$genus)))  # inspect the first and last few. Note that there
-                             # is a problem that we have to keep in mind.
-                             # (Always inspect your results!)
-# Drop all rows for which the genus contains special chracters -
-# like "[Candida]"
-sDat <- sDat[ ! grepl("[^a-zA-Z]", sDat$genus) , ]
-
-length(table(sDat$genus))    # how many genus?
-hist(table(sDat$genus), col = "#E9F4FF")      # Distribution ...
-                                              # most genus have very few, but
-                                              # some have very many species.
-sort(table(sDat$genus), decreasing = TRUE)[1:10]  # Top ten...
-
-# We should have at least one species from each taxonomic order, but we can
-# add a few genus until we have about 100 validated species.
-
-# Let's add a column for species, by changing our regular expression a bit,
-# using ^ (start of string), \\S (NOT a whitespace),
-# and + (one or more matches), capturing the match (...), and returning
-# it as the substitution (\\1) ...
-
-myPatt <- "^(\\S+\\s\\S+)\\s.*$"
-sDat$species <- gsub(myPatt, "\\1", sDat$name)
-
-# And we reorder the columns, just for aesthetics:
-sDat <- sDat[ , c("name", "species", "genus", "order", "taxID")]
-
-# Final check:
-any(grepl("[^a-zA-Z -]", sDat$species)) # FALSE means no special characters
-
-#
-# Now we check which of these have Mbp1 homologues ...
-
-# =    4  BLAST SEARCH  ========================================================
-
-
-# We run a BLAST search to find all proteins related to yeast Mbp1 in any
-# fungus. With the results, we'll annotate our sDat table.
-
-# ==   4.1  find homologous proteins  ==========================================
-#
-# Use BLAST to fetch proteins related to Mbp1 and identify the species that
-# contain them.
-
-# Scripting against NCBI APIs is not exactly enjoyable - there is usually a fair
-# amount of error handling involved that is not supported by the API in a
-# principled way but requires rather ad hoc solutions. The code I threw together
-# to make a BLAST interface (demo-quality, not research-quality) is in the file
-# ./scripts/BLAST.R Feel encouraged to study how this works. It's a pretty
-# standard task of communicating with servers and parsing responses - everyday
-# fare in the bioinformatics lab. Surprisingly, there seems to be no good BLAST
-# parser in currently available packages.
-#
-# DON'T use this for BLAST searches unless you have read the NCBI policy
-# for automated tasks. If you indicriminately pound on the NCBI's BLAST
-# server, they will blacklist your IP-address. See:
-# https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=DeveloperInfo
-#
-# Use BLAST() to find yeast Mbp1 homologues in other fungi in refseq
-# BLASThits <- BLAST("NP_010227",                  # Yeast Mbp1 RefSeq ID
-#                    db = "refseq_protein",        # database to search in
-#                    nHits = 3000,                 # 945 hits in 2020
-#                    E = 0.01,                     #
-#                    limits = "txid4751[ORGN]")    # = fungi
-# saveRDS(BLASThits, file="data/BLASThits.rds")
-#
-# NO NEED TO ACTUALLY RUN THIS:you can load the results from the data directory
-#
-BLASThits <- readRDS(file = "data/BLASThits.rds")
-
-# ==   4.2  Identify species in "hits"  ========================================
-
-# This is a very big list that can't be usefully analyzed manually. Here
-# we are only interested in the species names that it contains.
-
-# How many hits in the list?
-length(BLASThits$hits)      # 1,134
-
-# Let's look at a hit somewhere down the list
-str(BLASThits$hit[[277]])
-
-# A fair amount of parsing has gone into the BLAST.R code to prepare the results
-# in a useful way. The species information is in the $species element of every
-# hit.
-
-# Run a loop to extract all the species names into a vector. We subset ...
-# Blasthits$hits                 ... the list of hits, from which we choose ...
-# Blasthits$hits[[i]]            ... the i-th hit, and get ...
-# Blasthits$hits[[i]]$species    ... the species element from that.
-# Subsetting FTW.
-
-BLASTspecies <- character()
-for (i in seq_along(BLASThits$hits)) {
-    BLASTspecies[i] <- BLASThits$hits[[i]]$species
-}
-
-# You can confirm that BLASTspecies has the expected size.
-length(BLASTspecies)
-
-# if we delete some of these later on, we still want to remember which hit
-# they came from. Thus we name() the elements with their index, which is the
-# same as the index of the hit in BLASThits
-names(BLASTspecies) <- 1:length(BLASTspecies)
-
-
-# let's plot the distribution of E-values
-eVals <- numeric()
-for (i in seq_along(BLASThits$hits)) {
-  eVals[i] <- BLASThits$hits[[i]]$E
-}
-range(eVals)
-sum(eVals == 0)
-
-# let's plot the log of all values > 0 to see how they are distributed
-# plotting only one vectyor of numbers plots their index as x, and
-# their value as y ...
-plot(log(eVals[eVals > 0]), col = "#CC0000")
-
-# This is very informative: I would suspect that the first ten or so are
-# virtually identical to the yeast protein, then we have about 800 hits with
-# decreasing similarity, and then about 200 more that may actually be false
-# positives. Also - we plotted them by index, that means the table is SORTED:
-# Lower E-values strictly come before higher E-values.
-
-# Again, some species appear more than once, e.g. ...
-sum(BLASTspecies == "Saccharomyces cerevisiae")
-
-# ... corresponding to the five homologous gene sequences (paralogues) of yeast.
-
-# Therefore we remove duplicates. Removing duplicates will leave the FIRST
-# in a list alone, and only remove the SUBSEQUENT ones. Which means, from each
-# species, we will retain only the protein that has the highest similarity
-# to yeast Mbp1, not any of its more distant paralogues.
-sel <- ! duplicated(BLASTspecies)
-BLASTspecies <- BLASTspecies[sel]
-
-length(BLASTspecies)
-# i.e. we got rid of about two thirds of the hits.
-tail(BLASTspecies)  # see how the names are useful!
-                    # again - there are some special characters ...
-                    # what are they?
-BLASTspecies[grep("[^a-zA-Z ]", BLASTspecies)]
-
-# remove the brackets ...
-BLASTspecies <- gsub("\\[|\\]", "", BLASTspecies)
-# drop any new duplicates ...
-BLASTspecies <- BLASTspecies[ ! duplicated(BLASTspecies)]
-
-# check the number again:
-length(BLASTspecies)
-# Think a bit about this: what may be the biological reason to find that
-# on average, in 388 fungi across the entire phylogenetic tree, we have
-# three sequences that are homologous to yeast Mbp1?
-
-# Let's look at the distribution of E-values in this selection (Subsetting FTW):
-# we plot all values that are TRUE in the vector "sel" that we created above,
-# AND greater than 0
-plot(log(eVals[sel & eVals > 0]), col = "#00CC00")
-
-
-# =    5  MERGE ENSEMBL AND BLAST RESULTS  =====================================
-
-# Next we add the blast result to our sDat dataframe. We'll store the index,
-# the E-value, and the Query-bounds from which we can estimate which domains
-# of Mbp1 are actually covered by the hit. (True orthologues MUST align with
-# Mbp1's N-terminal APSES domain.)
-#
-# First we pull the hits we wanted from the BLASTspecies:
-iHits <- as.numeric(names(BLASTspecies))
-length(iHits)     # one index for each TRUE in sel
-
-# add columns to sDat
-l <- nrow(sDat)
-sDat$iHit   <- numeric(l)  # index of the hit in the BLAST results
-sDat$eVal   <- numeric(l)  # E-value of the hit
-sDat$lAli   <- numeric(l)  # length of the aligned region
-
-# extract and merge
-for (iHit in iHits) {
-  thisSp <- BLASThits$hits[[iHit]]$species
-  sel <- sDat$species == thisSp
-
-  sDat$iHit[sel]   <- iHit
-  sDat$eVal[sel]   <- BLASThits$hits[[iHit]]$E
-  sDat$lAli[sel]   <- BLASThits$hits[[iHit]]$lengthAli
-}
-
-# Are all reference species accounted for?
-selA <- sDat$iHit != 0                 # all rows which matched to a BLAST hit
-REFspecies %in% sDat$species[selA]     # yes, all there
-
-selB <- sDat$species %in% REFspecies   # all rows which have one of REF species
-
-sum(selA & selB)   # How many rows?
-
-# sDat of course includes all duplicates. Some may be multiply sequenced, some
-# may be different strains. We'll use the same strategy as before and keep
-# only the best hit: order the rows by E-value, then drop all rows which
-# are duplicated.
-
-
-# drop all rows without BLAST hits ...
-sDat <- sDat[ ! (sDat$iHit == 0) , ]
-
-# order sDat by E-value ...
-sDat <- sDat[order(sDat$eVal, decreasing = FALSE) , ]
-
-# drop all rows with duplicated species ...
-sDat <- sDat[ ! duplicated(sDat$species) , ]
-
-# Lets look at the E-values ...
-plot(log(sDat$eVal[sDat$eVal > 0]), col = "#00CC00")
-
-# and alignment lengths ...
-plot(sDat$lAli, col = "#00DDAA")
-
-# How many ...
-length(unique(sDat$name))
-length(unique(sDat$species))
-length(unique(sDat$genus))
-length(unique(sDat$order))
-
-# I need an extra species for admin purposes later on ...
-sel <- grep("Sporothrix schenckii", sDat$species)
-SPOSCdat <- sDat[sel, ]
-sDat <- sDat[-sel, ]
-
-# To get the final dataset, we remove the reference species with their
-# entire orders ...
-REForders <- unique(sDat$order[sDat$species %in% REFspecies])
-sel <- sDat$order %in% REForders
-REFdat <- sDat[sel , ]
-sDat   <- sDat[ ! sel , ]
-
-# REFdat should now contain only the REFspecies ...
-( REFdat <- REFdat[REFdat$species %in% REFspecies , ] )
-
-# ... but all of them
-sum(REFspecies %in% REFdat$species)
-
-# ... and we have enough left in sDat to prune sDat to unique genus
-sDat <- sDat[ ! duplicated(sDat$genus) , ]
-nrow(sDat)   # 84
-
-# I add back "Sporothrix schenckii" ...
-sDat <- rbind(SPOSCdat, sDat)
-
-# ... and save for future use.
-# saveRDS(sDat, file = "data/sDat.rds")
-# saveRDS(REFdat, file = "data/REFdat.rds")
-
-
-
-# =    6  STUDENT NUMBERS  =====================================================
-#
-# An asymmetric function to retrieve a MYSPE species
-#
-sDat <- readRDS(file = "data/sDat.rds")
-
-students <- read.csv("../BCH441-2021-students.csv")
-sN <- students$Integration.ID
-sN <- sN[! is.na(sN)]
-sN <- as.character(sN)
-sN <- c("1003141593", sN)  # will map to  "Sporothrix schenckii"
-
-set.seed(112358)
-theseSpecies <- sDat[sample(1:nrow(sDat)), ]
-all(sort(theseSpecies$name) == sort(sDat$name))
-nrow((theseSpecies))
-(iX <- grep("Sporothrix schenckii", theseSpecies$name))
-theseSpecies <- rbind(theseSpecies[iX, ], theseSpecies[-iX, ])
-rndMin <-  992000000
-rndMax <- 1020000000
-N <- 10000
-keys <- as.character(sample(rndMin:rndMax, N + 1000))
-keys <- keys[! (keys %in% sN)]
-keys <- keys[1:N]
-keys[1:length(sN)] <- sN
-
-nRep <- floor(N/nrow(theseSpecies))
-MYSPEdat <- theseSpecies
-for(i in 1:nRep) {
-  MYSPEdat <- rbind(MYSPEdat, theseSpecies)
-}
-MYSPEdat <- MYSPEdat[1:N, ]
-for (i in 1:N) {
-  rownames(MYSPEdat)[i] <- digest::digest(keys[i], algo = "md5")
-}
-set.seed(NULL)
-MYSPEdat <- MYSPEdat[sample(1:N), ]
-
-# saveRDS(MYSPEdat, file = "data/MYSPEdat.rds")
-
-# === validate
-x <- character()
-for (n in sN) {
-  sp <- getMYSPE(n)
-  if (length(sp) != 1) {
-    stop(print(as.character(n)))
-  } else {
-    x <- c(x, sp)
-  }
-}
-
-# === species for late-comers
-y <- unique(MYSPEdat$species)
-print(y[!(y %in% x)])
-
-
-# === validate
-l <- length(sN)
-sp <- character(l)
-for(i in 1:l) {
-  sp[i] <- getMYSPE(sN[i])
-}
-any(duplicated(sp))
-length(unique(sp))
-which(! sDat$species %in% sp)  # these can be assigned to late-comers
-
-# Done.
-
-# [END]
+# tocID <- "scripts/ABC-makeMYSPElist.R"
+#
+# Purpose:  Create a list of genome sequenced fungi with protein annotations and
+#               Mbp1 homologues.
+#
+# Version: 1.4
+#
+# Date:    2016  09  -  2021  09
+# Author:  Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions
+#          1.4    New retrieval logic
+#          1.3    Rewrite to change datasource. NCBI has not been updated
+#                   since 2012. Use ensembl fungi as initial source.
+#          1.2    Change from require() to requireNamespace()
+#          1.1.2  Moved BLAST.R to ./scripts directory
+#          1.1    Update 2017
+#          1.0    First code 2016
+#
+# TODO:
+#
+# ==============================================================================
+#
+# DO NOT  source()  THIS FILE!
+#
+# This file is code I provide for your deeper understanding of a process and
+# to provide you with useful sample code. It is not actually necessary for
+# you to run this code, but I encourage you to read it carefully and discuss
+# if there are parts you don't understand.
+#
+# Run the commands that interact with the NCBI servers only if you want to
+# experiment specifically with the code and/or parameters. I have commented out
+# those parts. If you only want to study the general workflow, just load()
+# the respective intermediate results.
+#
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                    Line
+#TOC> --------------------------------------------------------
+#TOC>   1        The strategy                               55
+#TOC>   2        PACKAGES AND INITIALIZATIONS               67
+#TOC>   3        ENSEMBL FUNGI                              75
+#TOC>   3.1        Import                                   78
+#TOC>   4        BLAST SEARCH                              155
+#TOC>   4.1        find homologous proteins                161
+#TOC>   4.2        Identify species in "hits"              192
+#TOC>   5        MERGE ENSEMBL AND BLAST RESULTS           282
+#TOC>   6        STUDENT NUMBERS                           375
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  The strategy  ========================================================
+
+# This script will create a list of "MYSPE" species and save it in an R object
+# MYSPEspecies that is stored in the data subdirectory of this project from
+# where it can be loaded. The strategy is as follows: we download a list of
+# annotated fungal genomes from ensembl.fungi. All these are genome-sequenced
+# species that have been annotated.
+# Next we perform a BLAST search, to identify fungal species that have
+# genes that are homologous to yeast MBP1.
+#
+# ...
+
+# =    2  PACKAGES AND INITIALIZATIONS  ========================================
+
+# httr provides interfaces to Webservers on the Internet
+if (! requireNamespace("httr", quietly = TRUE)) {
+  install.packages("httr")
+}
+
+
+# =    3  ENSEMBL FUNGI  =======================================================
+
+
+# ==   3.1  Import  ============================================================
+
+# Navigate to https://fungi.ensembl.org and click on the link to the full
+# list of all species: https://fungi.ensembl.org/species.html
+# On the page, click on the spreadsheet symbol top right and choose
+# "download whole table". The file will be named  "Species.csv", in your
+# usual downloads folder. Move it to the data folder, and read it.
+
+sDat <- read.csv("./data/Species.csv")
+str(sDat)
+
+# The most obvious way to partition these is according to Classification ...
+# (poking around a bit in the UniProt taxonomy database shows that the
+#  classification used here is the taxonomic rank of "order").
+# how many classifications do we have?
+length(unique(sDat$Classification))  # 66
+
+# To have a good set for the class, we should have about 100.
+# Let's see for which of these we can find Mbp1 homologues.
+# First, we'll keep only the colums for name, classification, and taxID, and
+# drop the rest ...
+sDat <- sDat[ , c("Name", "Classification", "Taxon.ID")]
+colnames(sDat) <- c("name", "order", "taxID")
+
+# Next, we make an extra column: genus - the first part of the binomial name.
+# We'll use the gsub() function, and for that we need a "regular expression"
+# that matches to all characters from the first blank to the end of the string:
+myPatt <- "\\s.*$"  # one whitespace (\\s) ...
+                    # followed by any character (.) 0..n times (*) ...
+                    # until the end of the string
+
+# using gsub() we substitue all matching characters with the empty string "" -
+# this deletes the matching characters
+# Test this:
+gsub(myPatt, "", "Genus")                      # one word: unchanged
+gsub(myPatt, "", "gEnus species")              # two words: return only first
+gsub(myPatt, "", "geNus species strain 123")   # many words: return only first
+
+# apply this to the "name" column and add the result as a separate column
+# called "genus"
+sDat$genus <- gsub(myPatt, "", sDat$name)
+
+# what do we get?
+c(head(unique(sDat$genus)),
+  tail(unique(sDat$genus)))  # inspect the first and last few. Note that there
+                             # is a problem that we have to keep in mind.
+                             # (Always inspect your results!)
+# Drop all rows for which the genus contains special chracters -
+# like "[Candida]"
+sDat <- sDat[ ! grepl("[^a-zA-Z]", sDat$genus) , ]
+
+length(table(sDat$genus))    # how many genus?
+hist(table(sDat$genus), col = "#E9F4FF")      # Distribution ...
+                                              # most genus have very few, but
+                                              # some have very many species.
+sort(table(sDat$genus), decreasing = TRUE)[1:10]  # Top ten...
+
+# We should have at least one species from each taxonomic order, but we can
+# add a few genus until we have about 100 validated species.
+
+# Let's add a column for species, by changing our regular expression a bit,
+# using ^ (start of string), \\S (NOT a whitespace),
+# and + (one or more matches), capturing the match (...), and returning
+# it as the substitution (\\1) ...
+
+myPatt <- "^(\\S+\\s\\S+)\\s.*$"
+sDat$species <- gsub(myPatt, "\\1", sDat$name)
+
+# And we reorder the columns, just for aesthetics:
+sDat <- sDat[ , c("name", "species", "genus", "order", "taxID")]
+
+# Final check:
+any(grepl("[^a-zA-Z -]", sDat$species)) # FALSE means no special characters
+
+#
+# Now we check which of these have Mbp1 homologues ...
+
+# =    4  BLAST SEARCH  ========================================================
+
+
+# We run a BLAST search to find all proteins related to yeast Mbp1 in any
+# fungus. With the results, we'll annotate our sDat table.
+
+# ==   4.1  find homologous proteins  ==========================================
+#
+# Use BLAST to fetch proteins related to Mbp1 and identify the species that
+# contain them.
+
+# Scripting against NCBI APIs is not exactly enjoyable - there is usually a fair
+# amount of error handling involved that is not supported by the API in a
+# principled way but requires rather ad hoc solutions. The code I threw together
+# to make a BLAST interface (demo-quality, not research-quality) is in the file
+# ./scripts/BLAST.R Feel encouraged to study how this works. It's a pretty
+# standard task of communicating with servers and parsing responses - everyday
+# fare in the bioinformatics lab. Surprisingly, there seems to be no good BLAST
+# parser in currently available packages.
+#
+# DON'T use this for BLAST searches unless you have read the NCBI policy
+# for automated tasks. If you indicriminately pound on the NCBI's BLAST
+# server, they will blacklist your IP-address. See:
+# https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=DeveloperInfo
+#
+# Use BLAST() to find yeast Mbp1 homologues in other fungi in refseq
+# BLASThits <- BLAST("NP_010227",                  # Yeast Mbp1 RefSeq ID
+#                    db = "refseq_protein",        # database to search in
+#                    nHits = 3000,                 # 945 hits in 2020
+#                    E = 0.01,                     #
+#                    limits = "txid4751[ORGN]")    # = fungi
+# saveRDS(BLASThits, file="data/BLASThits.rds")
+#
+# NO NEED TO ACTUALLY RUN THIS:you can load the results from the data directory
+#
+BLASThits <- readRDS(file = "data/BLASThits.rds")
+
+# ==   4.2  Identify species in "hits"  ========================================
+
+# This is a very big list that can't be usefully analyzed manually. Here
+# we are only interested in the species names that it contains.
+
+# How many hits in the list?
+length(BLASThits$hits)      # 1,134
+
+# Let's look at a hit somewhere down the list
+str(BLASThits$hit[[277]])
+
+# A fair amount of parsing has gone into the BLAST.R code to prepare the results
+# in a useful way. The species information is in the $species element of every
+# hit.
+
+# Run a loop to extract all the species names into a vector. We subset ...
+# Blasthits$hits                 ... the list of hits, from which we choose ...
+# Blasthits$hits[[i]]            ... the i-th hit, and get ...
+# Blasthits$hits[[i]]$species    ... the species element from that.
+# Subsetting FTW.
+
+BLASTspecies <- character()
+for (i in seq_along(BLASThits$hits)) {
+    BLASTspecies[i] <- BLASThits$hits[[i]]$species
+}
+
+# You can confirm that BLASTspecies has the expected size.
+length(BLASTspecies)
+
+# if we delete some of these later on, we still want to remember which hit
+# they came from. Thus we name() the elements with their index, which is the
+# same as the index of the hit in BLASThits
+names(BLASTspecies) <- 1:length(BLASTspecies)
+
+
+# let's plot the distribution of E-values
+eVals <- numeric()
+for (i in seq_along(BLASThits$hits)) {
+  eVals[i] <- BLASThits$hits[[i]]$E
+}
+range(eVals)
+sum(eVals == 0)
+
+# let's plot the log of all values > 0 to see how they are distributed
+# plotting only one vectyor of numbers plots their index as x, and
+# their value as y ...
+plot(log(eVals[eVals > 0]), col = "#CC0000")
+
+# This is very informative: I would suspect that the first ten or so are
+# virtually identical to the yeast protein, then we have about 800 hits with
+# decreasing similarity, and then about 200 more that may actually be false
+# positives. Also - we plotted them by index, that means the table is SORTED:
+# Lower E-values strictly come before higher E-values.
+
+# Again, some species appear more than once, e.g. ...
+sum(BLASTspecies == "Saccharomyces cerevisiae")
+
+# ... corresponding to the five homologous gene sequences (paralogues) of yeast.
+
+# Therefore we remove duplicates. Removing duplicates will leave the FIRST
+# in a list alone, and only remove the SUBSEQUENT ones. Which means, from each
+# species, we will retain only the protein that has the highest similarity
+# to yeast Mbp1, not any of its more distant paralogues.
+sel <- ! duplicated(BLASTspecies)
+BLASTspecies <- BLASTspecies[sel]
+
+length(BLASTspecies)
+# i.e. we got rid of about two thirds of the hits.
+tail(BLASTspecies)  # see how the names are useful!
+                    # again - there are some special characters ...
+                    # what are they?
+BLASTspecies[grep("[^a-zA-Z ]", BLASTspecies)]
+
+# remove the brackets ...
+BLASTspecies <- gsub("\\[|\\]", "", BLASTspecies)
+# drop any new duplicates ...
+BLASTspecies <- BLASTspecies[ ! duplicated(BLASTspecies)]
+
+# check the number again:
+length(BLASTspecies)
+# Think a bit about this: what may be the biological reason to find that
+# on average, in 388 fungi across the entire phylogenetic tree, we have
+# three sequences that are homologous to yeast Mbp1?
+
+# Let's look at the distribution of E-values in this selection (Subsetting FTW):
+# we plot all values that are TRUE in the vector "sel" that we created above,
+# AND greater than 0
+plot(log(eVals[sel & eVals > 0]), col = "#00CC00")
+
+
+# =    5  MERGE ENSEMBL AND BLAST RESULTS  =====================================
+
+# Next we add the blast result to our sDat dataframe. We'll store the index,
+# the E-value, and the Query-bounds from which we can estimate which domains
+# of Mbp1 are actually covered by the hit. (True orthologues MUST align with
+# Mbp1's N-terminal APSES domain.)
+#
+# First we pull the hits we wanted from the BLASTspecies:
+iHits <- as.numeric(names(BLASTspecies))
+length(iHits)     # one index for each TRUE in sel
+
+# add columns to sDat
+l <- nrow(sDat)
+sDat$iHit   <- numeric(l)  # index of the hit in the BLAST results
+sDat$eVal   <- numeric(l)  # E-value of the hit
+sDat$lAli   <- numeric(l)  # length of the aligned region
+
+# extract and merge
+for (iHit in iHits) {
+  thisSp <- BLASThits$hits[[iHit]]$species
+  sel <- sDat$species == thisSp
+
+  sDat$iHit[sel]   <- iHit
+  sDat$eVal[sel]   <- BLASThits$hits[[iHit]]$E
+  sDat$lAli[sel]   <- BLASThits$hits[[iHit]]$lengthAli
+}
+
+# Are all reference species accounted for?
+selA <- sDat$iHit != 0                 # all rows which matched to a BLAST hit
+REFspecies %in% sDat$species[selA]     # yes, all there
+
+selB <- sDat$species %in% REFspecies   # all rows which have one of REF species
+
+sum(selA & selB)   # How many rows?
+
+# sDat of course includes all duplicates. Some may be multiply sequenced, some
+# may be different strains. We'll use the same strategy as before and keep
+# only the best hit: order the rows by E-value, then drop all rows which
+# are duplicated.
+
+
+# drop all rows without BLAST hits ...
+sDat <- sDat[ ! (sDat$iHit == 0) , ]
+
+# order sDat by E-value ...
+sDat <- sDat[order(sDat$eVal, decreasing = FALSE) , ]
+
+# drop all rows with duplicated species ...
+sDat <- sDat[ ! duplicated(sDat$species) , ]
+
+# Lets look at the E-values ...
+plot(log(sDat$eVal[sDat$eVal > 0]), col = "#00CC00")
+
+# and alignment lengths ...
+plot(sDat$lAli, col = "#00DDAA")
+
+# How many ...
+length(unique(sDat$name))
+length(unique(sDat$species))
+length(unique(sDat$genus))
+length(unique(sDat$order))
+
+# I need an extra species for admin purposes later on ...
+sel <- grep("Sporothrix schenckii", sDat$species)
+SPOSCdat <- sDat[sel, ]
+sDat <- sDat[-sel, ]
+
+# To get the final dataset, we remove the reference species with their
+# entire orders ...
+REForders <- unique(sDat$order[sDat$species %in% REFspecies])
+sel <- sDat$order %in% REForders
+REFdat <- sDat[sel , ]
+sDat   <- sDat[ ! sel , ]
+
+# REFdat should now contain only the REFspecies ...
+( REFdat <- REFdat[REFdat$species %in% REFspecies , ] )
+
+# ... but all of them
+sum(REFspecies %in% REFdat$species)
+
+# ... and we have enough left in sDat to prune sDat to unique genus
+sDat <- sDat[ ! duplicated(sDat$genus) , ]
+nrow(sDat)   # 84
+
+# I add back "Sporothrix schenckii" ...
+sDat <- rbind(SPOSCdat, sDat)
+
+# ... and save for future use.
+# saveRDS(sDat, file = "data/sDat.rds")
+# saveRDS(REFdat, file = "data/REFdat.rds")
+
+
+
+# =    6  STUDENT NUMBERS  =====================================================
+#
+# An asymmetric function to retrieve a MYSPE species
+#
+sDat <- readRDS(file = "data/sDat.rds")
+
+students <- read.csv("../BCH441-2021-students.csv")
+sN <- students$Integration.ID
+sN <- sN[! is.na(sN)]
+sN <- as.character(sN)
+sN <- c("1003141593", sN)  # will map to  "Sporothrix schenckii"
+
+set.seed(112358)
+theseSpecies <- sDat[sample(1:nrow(sDat)), ]
+all(sort(theseSpecies$name) == sort(sDat$name))
+nrow((theseSpecies))
+(iX <- grep("Sporothrix schenckii", theseSpecies$name))
+theseSpecies <- rbind(theseSpecies[iX, ], theseSpecies[-iX, ])
+rndMin <-  992000000
+rndMax <- 1020000000
+N <- 10000
+keys <- as.character(sample(rndMin:rndMax, N + 1000))
+keys <- keys[! (keys %in% sN)]
+keys <- keys[1:N]
+keys[1:length(sN)] <- sN
+
+nRep <- floor(N/nrow(theseSpecies))
+MYSPEdat <- theseSpecies
+for(i in 1:nRep) {
+  MYSPEdat <- rbind(MYSPEdat, theseSpecies)
+}
+MYSPEdat <- MYSPEdat[1:N, ]
+for (i in 1:N) {
+  rownames(MYSPEdat)[i] <- digest::digest(keys[i], algo = "md5")
+}
+set.seed(NULL)
+MYSPEdat <- MYSPEdat[sample(1:N), ]
+
+# saveRDS(MYSPEdat, file = "data/MYSPEdat.rds")
+
+# === validate
+x <- character()
+for (n in sN) {
+  sp <- getMYSPE(n)
+  if (length(sp) != 1) {
+    stop(print(as.character(n)))
+  } else {
+    x <- c(x, sp)
+  }
+}
+
+# === species for late-comers
+y <- unique(MYSPEdat$species)
+print(y[!(y %in% x)])
+
+
+# === validate
+l <- length(sN)
+sp <- character(l)
+for(i in 1:l) {
+  sp[i] <- getMYSPE(sN[i])
+}
+any(duplicated(sp))
+length(unique(sp))
+which(! sDat$species %in% sp)  # these can be assigned to late-comers
+
+# Done.
+
+# [END]
diff --git a/scripts/ABC-makeSTRINGedges.R b/scripts/ABC-makeSTRINGedges.R
index 0da774a..e4c050d 100644
--- a/scripts/ABC-makeSTRINGedges.R
+++ b/scripts/ABC-makeSTRINGedges.R
@@ -1,168 +1,168 @@
-# tocID <- "scripts/ABC-makeSTRINGedges.R"
-#
-# Create a subnetwork of high-confidence human STRING edges.
-#
-# Notes:
-#
-#      The large source- datafile is NOT posted to github. If you want to
-#      experiment with the original data, download it and place it into your
-#      local  ./data  directory.
-#
-#      STRING data source:
-#        Download page:
-# https://string-db.org/cgi/download.pl?species_text=Homo+sapiens
-#        Data: (127.6 Mb)
-# https://stringdb-static.org/download/protein.links.full.v11.0/9606.protein.links.full.v11.0.txt.gz
-#
-# Version:  1.0
-#
-# Date:     2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.0    Rewrite
-#
-# TODO:
-#
-# ==============================================================================
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                             Line
-#TOC> -------------------------------------------------
-#TOC>   1        Initialize                          44
-#TOC>   2        Read STRING Data                    51
-#TOC>   3        Define cutoff and subset            63
-#TOC>   4        Drop  duplicates                   103
-#TOC>   5        Simple statistics                  127
-#TOC>   6        Write to file                      160
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  Initialize  ==========================================================
-
-if (! requireNamespace("readr", quietly = TRUE)) {
-  install.packages("readr")
-}
-
-
-# =    2  Read STRING Data  ====================================================
-
-# Read STRING Data (needs to be downloaded from database, see URL in Notes)
-# The .gz compressed version is 127.6MB, the uncompressed version is probably
-# 848 Mb. Fortunately readr:: can read from compressed
-# files, and does so automatically, based on the file extension.
-( fn <- file.path("~", "9606.protein.links.full.v11.0.txt.gz") )
-STR <- readr::read_delim(fn, delim = " ")
-nrow(STR)  #  11,759,454 rows
-head(STR)
-
-
-# =    3  Define cutoff and subset  ============================================
-
-# approximate distribution of combined_score
-hist(sample(STR$combined_score, 10000), breaks = 50, col = "#6699FF")
-
-# Let's table the counts >= 850 and plot them for better resolution.
-
-myTb <- table(STR$combined_score[STR$combined_score >= 850])
-is.unsorted(as.integer(names(myTb)))  # Good - they are all in order
-
-plot(myTb, type = "b", cex = 0.5, col = "#BB0000")
-myTb[myTb == max(myTb)]  # Apparently there is an algorithmic effect that
-                         # frequently assigns a combined score of 0.900
-
-# Let's plot these counts as cumulative sums, in reverse order, scaled
-# as combined scores.
-myX <- 1 - (1:length(myTb)) / 1000   # x-values, decreasing
-plot(myX,
-     cumsum(myTb[length(myTb):1]),   # cumulative sum, decreasing
-     xlim = c(1.0, 0.85),            # reverse x-axis
-     type = "l",
-     main = "STRING interactions for 9606 (top 600,000)",
-     xlab = "combined_score",
-     ylab = "cumulative counts",
-     col = "#CC0000")
-abline(h = seq(50000, sum(myTb), by = 50000), lwd = 0.5, col = "#DDDDFF")
-
-# What's the cutoff for 100,000 edges?
-which(cumsum(myTb[length(myTb):1]) >= 100000)[1] # p = 0.964
-
-# confirm
-sum(STR$combined_score >= 964) # 101,348
-abline(v = 0.964, lwd = 0.5, col = "#DDDDFF")
-
-# subset the table, and use only the protein IDs and the combined_score
-STR <- STR[STR$combined_score >= 964,
-            c("protein1", "protein2", "combined_score")]
-colnames(STR) <- c("a", "b", "score")
-
-
-# =    4  Drop  duplicates  ====================================================
-
-# identify duplicate interactions by creating keys in a defined alphabetical
-# sort order, then checking for  duplicated().
-# e.g  if we have (X:U, U:X), we change U:X to X:U and now find that
-# (X:U, X:U) has a duplicate.
-
-AB <- STR$a < STR$b        # logical vector: genes we need to swap
-tmp <- STR$b               # copy column b
-STR$b[AB] <- STR$a[AB]     # copy a's into b
-STR$a[AB] <- tmp[AB]       # copy tmp's into a
-all(STR$a >= STR$b)        # confirm: TRUE
-
-# now, make combined keys, like this:
-paste0(STR$a[1:10], ":", STR$b[1:10])
-
-tmp <- paste0(STR$a, ":", STR$b)
-sum(duplicated(tmp)) # That's half of them ... i.e. STRING reports
-                     # both a:b and b:a !
-
-# drop all duplicated interactions from tmp
-STR <- STR[ ! duplicated(tmp), ]   # 50,674 interactions remain
-
-
-# =    5  Simple statistics  ===================================================
-
-# how many unique genes?
-length(unique(c(STR$a, STR$b)))   # 8,445
-
-# how many self-edges?
-sum(STR$a == STR$b)  # none
-
-# log(rank) / log(frequency)
-myTbl <- table(c(STR$a, STR$b))
-myTbl <- myTbl[order(myTbl, decreasing = TRUE)]
-
-hist(myTbl, breaks = 40, col = "#FFEEBB")
-
-# number of singletons
-sum(myTbl == 1) # almost a quarter
-
-# maximum?
-myTbl[which(myTbl == max(myTbl))]  # 9606.ENSP00000360532: 465
-                                   # Google: CDC5L
-
-# Zipf-plot
-plot(log(1:length(myTbl)), log(as.numeric(myTbl)),
-     type = "b", cex = 0.7,
-     main = "STRINGedges - degrees",
-     xlab = "log(rank)",
-     ylab = "log(frequency)",
-     col = "#FFBB88")
-
-sprintf("Average number of interactions: %5.2f",
-         nrow(STR) / length(unique(c(STR$a, STR$b))))
-
-
-# =    6  Write to file  =======================================================
-
-saveRDS(STR, file = "./data/STRINGedges.rds")
-
-# STRINGedges <- readRDS("./data/STRINGedges.rds")  # use this to restore the
-                                                    # object when needed
-
-
-# [END]
+# tocID <- "scripts/ABC-makeSTRINGedges.R"
+#
+# Create a subnetwork of high-confidence human STRING edges.
+#
+# Notes:
+#
+#      The large source- datafile is NOT posted to github. If you want to
+#      experiment with the original data, download it and place it into your
+#      local  ./data  directory.
+#
+#      STRING data source:
+#        Download page:
+# https://string-db.org/cgi/download.pl?species_text=Homo+sapiens
+#        Data: (127.6 Mb)
+# https://stringdb-static.org/download/protein.links.full.v11.0/9606.protein.links.full.v11.0.txt.gz
+#
+# Version:  1.0
+#
+# Date:     2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.0    Rewrite
+#
+# TODO:
+#
+# ==============================================================================
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                             Line
+#TOC> -------------------------------------------------
+#TOC>   1        Initialize                          44
+#TOC>   2        Read STRING Data                    51
+#TOC>   3        Define cutoff and subset            63
+#TOC>   4        Drop  duplicates                   103
+#TOC>   5        Simple statistics                  127
+#TOC>   6        Write to file                      160
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  Initialize  ==========================================================
+
+if (! requireNamespace("readr", quietly = TRUE)) {
+  install.packages("readr")
+}
+
+
+# =    2  Read STRING Data  ====================================================
+
+# Read STRING Data (needs to be downloaded from database, see URL in Notes)
+# The .gz compressed version is 127.6MB, the uncompressed version is probably
+# 848 Mb. Fortunately readr:: can read from compressed
+# files, and does so automatically, based on the file extension.
+( fn <- file.path("~", "9606.protein.links.full.v11.0.txt.gz") )
+STR <- readr::read_delim(fn, delim = " ")
+nrow(STR)  #  11,759,454 rows
+head(STR)
+
+
+# =    3  Define cutoff and subset  ============================================
+
+# approximate distribution of combined_score
+hist(sample(STR$combined_score, 10000), breaks = 50, col = "#6699FF")
+
+# Let's table the counts >= 850 and plot them for better resolution.
+
+myTb <- table(STR$combined_score[STR$combined_score >= 850])
+is.unsorted(as.integer(names(myTb)))  # Good - they are all in order
+
+plot(myTb, type = "b", cex = 0.5, col = "#BB0000")
+myTb[myTb == max(myTb)]  # Apparently there is an algorithmic effect that
+                         # frequently assigns a combined score of 0.900
+
+# Let's plot these counts as cumulative sums, in reverse order, scaled
+# as combined scores.
+myX <- 1 - (1:length(myTb)) / 1000   # x-values, decreasing
+plot(myX,
+     cumsum(myTb[length(myTb):1]),   # cumulative sum, decreasing
+     xlim = c(1.0, 0.85),            # reverse x-axis
+     type = "l",
+     main = "STRING interactions for 9606 (top 600,000)",
+     xlab = "combined_score",
+     ylab = "cumulative counts",
+     col = "#CC0000")
+abline(h = seq(50000, sum(myTb), by = 50000), lwd = 0.5, col = "#DDDDFF")
+
+# What's the cutoff for 100,000 edges?
+which(cumsum(myTb[length(myTb):1]) >= 100000)[1] # p = 0.964
+
+# confirm
+sum(STR$combined_score >= 964) # 101,348
+abline(v = 0.964, lwd = 0.5, col = "#DDDDFF")
+
+# subset the table, and use only the protein IDs and the combined_score
+STR <- STR[STR$combined_score >= 964,
+            c("protein1", "protein2", "combined_score")]
+colnames(STR) <- c("a", "b", "score")
+
+
+# =    4  Drop  duplicates  ====================================================
+
+# identify duplicate interactions by creating keys in a defined alphabetical
+# sort order, then checking for  duplicated().
+# e.g  if we have (X:U, U:X), we change U:X to X:U and now find that
+# (X:U, X:U) has a duplicate.
+
+AB <- STR$a < STR$b        # logical vector: genes we need to swap
+tmp <- STR$b               # copy column b
+STR$b[AB] <- STR$a[AB]     # copy a's into b
+STR$a[AB] <- tmp[AB]       # copy tmp's into a
+all(STR$a >= STR$b)        # confirm: TRUE
+
+# now, make combined keys, like this:
+paste0(STR$a[1:10], ":", STR$b[1:10])
+
+tmp <- paste0(STR$a, ":", STR$b)
+sum(duplicated(tmp)) # That's half of them ... i.e. STRING reports
+                     # both a:b and b:a !
+
+# drop all duplicated interactions from tmp
+STR <- STR[ ! duplicated(tmp), ]   # 50,674 interactions remain
+
+
+# =    5  Simple statistics  ===================================================
+
+# how many unique genes?
+length(unique(c(STR$a, STR$b)))   # 8,445
+
+# how many self-edges?
+sum(STR$a == STR$b)  # none
+
+# log(rank) / log(frequency)
+myTbl <- table(c(STR$a, STR$b))
+myTbl <- myTbl[order(myTbl, decreasing = TRUE)]
+
+hist(myTbl, breaks = 40, col = "#FFEEBB")
+
+# number of singletons
+sum(myTbl == 1) # almost a quarter
+
+# maximum?
+myTbl[which(myTbl == max(myTbl))]  # 9606.ENSP00000360532: 465
+                                   # Google: CDC5L
+
+# Zipf-plot
+plot(log(1:length(myTbl)), log(as.numeric(myTbl)),
+     type = "b", cex = 0.7,
+     main = "STRINGedges - degrees",
+     xlab = "log(rank)",
+     ylab = "log(frequency)",
+     col = "#FFBB88")
+
+sprintf("Average number of interactions: %5.2f",
+         nrow(STR) / length(unique(c(STR$a, STR$b))))
+
+
+# =    6  Write to file  =======================================================
+
+saveRDS(STR, file = "./data/STRINGedges.rds")
+
+# STRINGedges <- readRDS("./data/STRINGedges.rds")  # use this to restore the
+                                                    # object when needed
+
+
+# [END]
diff --git a/scripts/ABC-makeScCCnet.R b/scripts/ABC-makeScCCnet.R
index b464d54..bd31a3e 100644
--- a/scripts/ABC-makeScCCnet.R
+++ b/scripts/ABC-makeScCCnet.R
@@ -1,167 +1,167 @@
-# tocID <- "scripts/ABC-makeScCCnet.R"
-#
-# Create a subnetwork of high-confidence yeast genes with a "mitotic cell cycle"
-# GOSlim annotation.
-#
-# Boris Steipe for ABC learning units
-#
-# Notes:
-#
-#      The large source- datafiles are NOT posted to github. If you want to
-#      experiment with your own code, download them and place them into your
-#      local  ./data  directory.
-#
-#      STRING data source:
-#        Download page:
-# https://string-db.org/cgi/download.pl?species_text=Saccharomyces+cerevisiae
-#        Data: (20.1 mb)
-# https://stringdb-static.org/download/protein.links.full.v11.0/4932.protein.links.full.v11.0.txt.gz
-#
-#      GOSlim data source: (Note: this has moved from GO to SGD)
-#        Info page: https://www.yeastgenome.org/downloads
-#        Info page: http://sgd-archive.yeastgenome.org/curation/literature/
-#        Data: (3 mb)
-# http://sgd-archive.yeastgenome.org/curation/literature/go_slim_mapping.tab
-#
-#
-# Version:  1.2
-#
-# Date:     2017-10  -  2020-09
-# Author:   Boris Steipe (boris.steipe@utoronto.ca)
-#
-# Versions:
-#           1.2    2020 Update. GO Slim Yeast mow at SGD
-#           1.1    Change from require() to requireNamespace(),
-#                      use ::() idiom throughout
-#           1.0    First code copied from 2016 material.
-#
-# TODO:
-#
-# ==============================================================================
-# SRCDIR <- "./instructor"
-
-
-#TOC> ==========================================================================
-#TOC> 
-#TOC>   Section  Title                                           Line
-#TOC> ---------------------------------------------------------------
-#TOC>   1        INITIALIZE                                        58
-#TOC>   2        STRING FUNCTIONAL INTERACTION DATA                66
-#TOC>   3        GOSlim FUNCTIONAL ANNOTATIONS                     96
-#TOC>   3.1        Intersect interactions and annotations         122
-#TOC>   4        DEFINE THE CELL-CYCLE NETWORK                    128
-#TOC> 
-#TOC> ==========================================================================
-
-
-# =    1  INITIALIZE  ==========================================================
-
-SRCDIR <- "./data"
-if (! requireNamespace("readr", quietly = TRUE)) {
-  install.packages("readr")
-}
-
-
-# =    2  STRING FUNCTIONAL INTERACTION DATA  ==================================
-
-# Read STRING Data (needs to be downloaded from database, see URL in Notes)
-# The .gz compressed version is 20MB, the uncompressed versioj is 110MB -
-# really not necessary to uncompress since readr:: can read from compressed
-# files, and does so automatically, based on the file extension.
-( fn <- file.path(SRCDIR, "4932.protein.links.full.v11.0.txt.gz") )
-STR <- readr::read_delim(fn, delim = " ")
-
-# Subset only IDs and combined_score column
-STR <- STR[ , c("protein1", "protein2", "combined_score")]
-
-# head(STR)
-# sum(STR$combined_score > 909)  # 100270 edges
-# subset for 100,000 highest confidence edges
-STR <- STR[(STR$combined_score > 909), ]
-head(STR)
-
-# IDs are formatted like 4932.YAL005C ... drop the "4932." prefix
-STR$protein1 <- gsub("^4932\\.", "", STR$protein1)
-STR$protein2 <- gsub("^4932\\.", "", STR$protein2)
-head(STR)
-
-# get a vector of gene names in this list
-myIntxGenes <- unique(c(STR$protein1, STR$protein2))  # yeast systematic gene
-                                                      # names
-length(myIntxGenes)
-sample(myIntxGenes, 10)  # choose 10 at random (sanity check)
-
-
-# =    3  GOSlim FUNCTIONAL ANNOTATIONS  =======================================
-#
-# Read GOSlim data  (needs to be downloaded from database, see URL in Notes)
-( fn <- file.path(SRCDIR, "go_slim_mapping.tab") )
-
-Gsl <- readr::read_tsv(fn,
-                       col_names = c("ID",
-                                     "name",
-                                     "SGDId",
-                                     "Ontology",
-                                     "termName",
-                                     "termID",
-                                     "status"))
-
-head(Gsl)
-
-# What cell cycle names does it contain?
-myGslTermNames <- unique(Gsl$termName)  # 169 unique terms
-myGslTermNames[grep("cycle", myGslTermNames)]
-# [1] "regulation of cell cycle"  "mitotic cell cycle"  "meiotic cell cycle"
-
-# Choose "mitotic cell cycle" as the GOslim term to subset with
-
-scCCgenes <- unique(Gsl$ID[Gsl$termName == "mitotic cell cycle"])
-length(scCCgenes)  # 324 genes annotated to that term
-
-# ==   3.1  Intersect interactions and annotations  ============================
-
-sum(scCCgenes %in% myIntxGenes)  # 307 of these have high-confidence
-#                                # functional interactions
-
-
-# =    4  DEFINE THE CELL-CYCLE NETWORK  =======================================
-#
-# Define scCCnet ... the S. Cervisiae Cell Cycle network
-# Subset all rows for which BOTH genes are in the GOslim cell cycle set
-#
-scCCnet <- STR[(STR$protein1 %in% scCCgenes) &
-               (STR$protein2 %in% scCCgenes), ]
-
-# How many genes are there?
-length(unique(c(scCCnet$protein1, scCCnet$protein2)))  #283
-
-# Each edge is listed twice - now remove duplicates.
-
-# Step 1: make a vector: sort two names so the fiRst one is alphabetically
-#         smaller Than the second one. This brings the two names into a defined
-#         order. Then concatenate them with a "." - the resulting string
-#         is always the same, for any order. E.g. c("A", "B") gives "A.B"
-#         and c("B", "A") also gives "A.B". This identifies duplicates.
-
-x <- apply(cbind(scCCnet$protein1, scCCnet$protein2),
-           1,
-           FUN = function(x) { return(paste(sort(x), collapse = ".")) })
-head(x) # "YAL016W.YGR040W" "YAL016W.YOR014W" "YAL016W.YDL188C" ... etc.
-
-sum(duplicated(x))  # 1453
-
-# Step 2: drop all rows that contain duplicates in x
-scCCnet <- scCCnet[! duplicated(x), ]
-
-# Confirm we didn't loose genes
-length(unique(c(scCCnet$protein1, scCCnet$protein2)))  # 283, no change
-nrow(scCCnet)
-# Network has 283 nodes, 1453 edges
-
-saveRDS(scCCnet, file = "./data/scCCnet.rds")
-
-# scCCnet <- readRDS("./data/scCCnet.rds")   # <<<- use this to restore the
-                                             #      object when needed
-
-
-# [END]
+# tocID <- "scripts/ABC-makeScCCnet.R"
+#
+# Create a subnetwork of high-confidence yeast genes with a "mitotic cell cycle"
+# GOSlim annotation.
+#
+# Boris Steipe for ABC learning units
+#
+# Notes:
+#
+#      The large source- datafiles are NOT posted to github. If you want to
+#      experiment with your own code, download them and place them into your
+#      local  ./data  directory.
+#
+#      STRING data source:
+#        Download page:
+# https://string-db.org/cgi/download.pl?species_text=Saccharomyces+cerevisiae
+#        Data: (20.1 mb)
+# https://stringdb-static.org/download/protein.links.full.v11.0/4932.protein.links.full.v11.0.txt.gz
+#
+#      GOSlim data source: (Note: this has moved from GO to SGD)
+#        Info page: https://www.yeastgenome.org/downloads
+#        Info page: http://sgd-archive.yeastgenome.org/curation/literature/
+#        Data: (3 mb)
+# http://sgd-archive.yeastgenome.org/curation/literature/go_slim_mapping.tab
+#
+#
+# Version:  1.2
+#
+# Date:     2017-10  -  2020-09
+# Author:   Boris Steipe (boris.steipe@utoronto.ca)
+#
+# Versions:
+#           1.2    2020 Update. GO Slim Yeast mow at SGD
+#           1.1    Change from require() to requireNamespace(),
+#                      use ::() idiom throughout
+#           1.0    First code copied from 2016 material.
+#
+# TODO:
+#
+# ==============================================================================
+# SRCDIR <- "./instructor"
+
+
+#TOC> ==========================================================================
+#TOC> 
+#TOC>   Section  Title                                           Line
+#TOC> ---------------------------------------------------------------
+#TOC>   1        INITIALIZE                                        58
+#TOC>   2        STRING FUNCTIONAL INTERACTION DATA                66
+#TOC>   3        GOSlim FUNCTIONAL ANNOTATIONS                     96
+#TOC>   3.1        Intersect interactions and annotations         122
+#TOC>   4        DEFINE THE CELL-CYCLE NETWORK                    128
+#TOC> 
+#TOC> ==========================================================================
+
+
+# =    1  INITIALIZE  ==========================================================
+
+SRCDIR <- "./data"
+if (! requireNamespace("readr", quietly = TRUE)) {
+  install.packages("readr")
+}
+
+
+# =    2  STRING FUNCTIONAL INTERACTION DATA  ==================================
+
+# Read STRING Data (needs to be downloaded from database, see URL in Notes)
+# The .gz compressed version is 20MB, the uncompressed versioj is 110MB -
+# really not necessary to uncompress since readr:: can read from compressed
+# files, and does so automatically, based on the file extension.
+( fn <- file.path(SRCDIR, "4932.protein.links.full.v11.0.txt.gz") )
+STR <- readr::read_delim(fn, delim = " ")
+
+# Subset only IDs and combined_score column
+STR <- STR[ , c("protein1", "protein2", "combined_score")]
+
+# head(STR)
+# sum(STR$combined_score > 909)  # 100270 edges
+# subset for 100,000 highest confidence edges
+STR <- STR[(STR$combined_score > 909), ]
+head(STR)
+
+# IDs are formatted like 4932.YAL005C ... drop the "4932." prefix
+STR$protein1 <- gsub("^4932\\.", "", STR$protein1)
+STR$protein2 <- gsub("^4932\\.", "", STR$protein2)
+head(STR)
+
+# get a vector of gene names in this list
+myIntxGenes <- unique(c(STR$protein1, STR$protein2))  # yeast systematic gene
+                                                      # names
+length(myIntxGenes)
+sample(myIntxGenes, 10)  # choose 10 at random (sanity check)
+
+
+# =    3  GOSlim FUNCTIONAL ANNOTATIONS  =======================================
+#
+# Read GOSlim data  (needs to be downloaded from database, see URL in Notes)
+( fn <- file.path(SRCDIR, "go_slim_mapping.tab") )
+
+Gsl <- readr::read_tsv(fn,
+                       col_names = c("ID",
+                                     "name",
+                                     "SGDId",
+                                     "Ontology",
+                                     "termName",
+                                     "termID",
+                                     "status"))
+
+head(Gsl)
+
+# What cell cycle names does it contain?
+myGslTermNames <- unique(Gsl$termName)  # 169 unique terms
+myGslTermNames[grep("cycle", myGslTermNames)]
+# [1] "regulation of cell cycle"  "mitotic cell cycle"  "meiotic cell cycle"
+
+# Choose "mitotic cell cycle" as the GOslim term to subset with
+
+scCCgenes <- unique(Gsl$ID[Gsl$termName == "mitotic cell cycle"])
+length(scCCgenes)  # 324 genes annotated to that term
+
+# ==   3.1  Intersect interactions and annotations  ============================
+
+sum(scCCgenes %in% myIntxGenes)  # 307 of these have high-confidence
+#                                # functional interactions
+
+
+# =    4  DEFINE THE CELL-CYCLE NETWORK  =======================================
+#
+# Define scCCnet ... the S. Cervisiae Cell Cycle network
+# Subset all rows for which BOTH genes are in the GOslim cell cycle set
+#
+scCCnet <- STR[(STR$protein1 %in% scCCgenes) &
+               (STR$protein2 %in% scCCgenes), ]
+
+# How many genes are there?
+length(unique(c(scCCnet$protein1, scCCnet$protein2)))  #283
+
+# Each edge is listed twice - now remove duplicates.
+
+# Step 1: make a vector: sort two names so the fiRst one is alphabetically
+#         smaller Than the second one. This brings the two names into a defined
+#         order. Then concatenate them with a "." - the resulting string
+#         is always the same, for any order. E.g. c("A", "B") gives "A.B"
+#         and c("B", "A") also gives "A.B". This identifies duplicates.
+
+x <- apply(cbind(scCCnet$protein1, scCCnet$protein2),
+           1,
+           FUN = function(x) { return(paste(sort(x), collapse = ".")) })
+head(x) # "YAL016W.YGR040W" "YAL016W.YOR014W" "YAL016W.YDL188C" ... etc.
+
+sum(duplicated(x))  # 1453
+
+# Step 2: drop all rows that contain duplicates in x
+scCCnet <- scCCnet[! duplicated(x), ]
+
+# Confirm we didn't loose genes
+length(unique(c(scCCnet$protein1, scCCnet$protein2)))  # 283, no change
+nrow(scCCnet)
+# Network has 283 nodes, 1453 edges
+
+saveRDS(scCCnet, file = "./data/scCCnet.rds")
+
+# scCCnet <- readRDS("./data/scCCnet.rds")   # <<<- use this to restore the
+                                             #      object when needed
+
+
+# [END]
diff --git a/scripts/ABC-writeALN.R b/scripts/ABC-writeALN.R
index a8b7d80..b84d15a 100644
--- a/scripts/ABC-writeALN.R
+++ b/scripts/ABC-writeALN.R
@@ -1,135 +1,135 @@
-# tocID <- "scripts/ABC-writeALN.R"
-#
-# ToDo:    calculate consensus line
-#          append sequence numbers
-# Notes:
-#
-# ==============================================================================
-
-
-writeALN <- function(ali,
-                     range,
-                     note = "",
-                     myCon = stdout(),
-                     blockWidth = 60) {
-  # Purpose:
-  #     Write an MsaAAMultipleAlignment or AAStringSet object to stdout() or
-  #     a file in multi-FASTA format.
-  # Version: 2.0
-  # Date:    2017 10
-  # Author:  Boris Steipe
-  #
-  # Parameters:
-  #     ali             MsaAAMultipleAlignment or AAStringSet or character
-  #                       vector.
-  #     range      num  a two-integer vector of start and end positions if
-  #                       only a range of the MSA should be written, e.g.
-  #                       a domain. Defaults to the full alignment length.
-  #     note       chr  a vector of character that is appended to the name
-  #                       of a sequence in the FASTA header. Recycling of
-  #                       shorter vectors applies, thus a vector of length one
-  #                       is added to all headers.
-  #     myCon           a connection (cf. the con argument for writeLines).
-  #                       Defaults to stdout()
-  #     blockWidth int  width of sequence block. Default 80 characters.
-  # Value:
-  #     NA   the function is invoked for its side effect of printing an
-  #          alignment to stdout() or file.
-
-  blockWidth <- as.integer(blockWidth)
-  if (is.na(blockWidth)) {
-    stop("PANIC: parameter \"blockWidth\" must be numeric.")
-  }
-  if (blockWidth < 1) {
-    stop("PANIC: parameter \"blockWidth\" must be greater than zero.")
-  }
-  if (blockWidth > 60) {
-    warning("Programs that read CLUSTAL format might not expect blockWidth > 60.")
-  }
-
-  # Extract the raw data from the objects depending on their respective class
-  # and put it into a named vector of strings.
-
-  # Extract XStringSet from MsaXMultipleAlignment ...
-  if (class(ali) == "MsaAAMultipleAlignment" |
-      class(ali) == "MsaDNAMultipleAlignment" |
-      class(ali) == "MsaRNAMultipleAlignment") {
-      ali <- ali@unmasked
-  }
-
-  # Process XStringSet
-  if (class(ali) == "AAStringSet" |
-      class(ali) == "DNAStringSet" |
-      class(ali) == "RNAStringSet") {
-    sSet <- as.character(ali) # we use as.character(), not toString() thus
-                              # we don't _have_ to load Biostrings
-  } else if (class(ali) == "character") {
-    sSet <- ali
-  } else {
-    stop(paste("Input object of class",
-               class(ali),
-               "can't be handled by this function."))
-  }
-
-  if (missing(range)) {
-    range <- 1
-    range[2] <- max(nchar(sSet))
-  } else {
-    range <- as.integer(range)
-    if(length(range) != 2 ||
-       any(is.na(range)) ||
-       range[1] > range[2] ||
-       range[1] < 1) {
-      stop("PANIC: \"range\" parameter must contain valid start and end index.")
-    }
-  }
-
-  # Right-pad any sequence with "-" that is shorter than ranges[2]
-    for (i in seq_along(sSet)) {
-      if (nchar(sSet[i]) < range[2]) {
-        sSet[i] <- paste0(sSet[i],
-                          paste0(rep("-", range[2] - nchar(sSet[i])),
-                                 collapse = ""))
-      }
-    }
-
-  # Right-pad sequence names
-  sNames <- names(sSet)
-  len <- max(nchar(sNames)) + 2 # longest name plus two spaces
-  for (i in seq_along(sNames)) {
-    sNames[i] <- paste0(sNames[i],
-                      paste0(rep(" ", len - nchar(sNames[i])),
-                             collapse = ""))
-  }
-
-
-  # Process each sequence
-  txt <- paste0("CLUSTAL W format. ", note)
-  txt[2] <- ""
-
-  iStarts <- seq(range[1], range[2], by = blockWidth)
-  iEnds <- c((iStarts[-1] - 1), range[2])
-
-  for (i in seq_along(iStarts)) {
-    for (j in seq_along(sSet)) {
-      txt <- c(txt,
-               paste0(sNames[j], substring(sSet[j], iStarts[i], iEnds[i])))
-    }
-    txt <- c(txt, "")  # append a blank consenus line
-    txt <- c(txt, "")  # append a separator line
-  }
-
-  writeLines(txt, con= myCon)
-
-}
-
-# ====  TESTS  =================================================================
-# Enter your function tests here...
-
-if (FALSE) {
-  # test ...
-}
-
-
-
-# [END]
+# tocID <- "scripts/ABC-writeALN.R"
+#
+# ToDo:    calculate consensus line
+#          append sequence numbers
+# Notes:
+#
+# ==============================================================================
+
+
+writeALN <- function(ali,
+                     range,
+                     note = "",
+                     myCon = stdout(),
+                     blockWidth = 60) {
+  # Purpose:
+  #     Write an MsaAAMultipleAlignment or AAStringSet object to stdout() or
+  #     a file in multi-FASTA format.
+  # Version: 2.0
+  # Date:    2017 10
+  # Author:  Boris Steipe
+  #
+  # Parameters:
+  #     ali             MsaAAMultipleAlignment or AAStringSet or character
+  #                       vector.
+  #     range      num  a two-integer vector of start and end positions if
+  #                       only a range of the MSA should be written, e.g.
+  #                       a domain. Defaults to the full alignment length.
+  #     note       chr  a vector of character that is appended to the name
+  #                       of a sequence in the FASTA header. Recycling of
+  #                       shorter vectors applies, thus a vector of length one
+  #                       is added to all headers.
+  #     myCon           a connection (cf. the con argument for writeLines).
+  #                       Defaults to stdout()
+  #     blockWidth int  width of sequence block. Default 80 characters.
+  # Value:
+  #     NA   the function is invoked for its side effect of printing an
+  #          alignment to stdout() or file.
+
+  blockWidth <- as.integer(blockWidth)
+  if (is.na(blockWidth)) {
+    stop("PANIC: parameter \"blockWidth\" must be numeric.")
+  }
+  if (blockWidth < 1) {
+    stop("PANIC: parameter \"blockWidth\" must be greater than zero.")
+  }
+  if (blockWidth > 60) {
+    warning("Programs that read CLUSTAL format might not expect blockWidth > 60.")
+  }
+
+  # Extract the raw data from the objects depending on their respective class
+  # and put it into a named vector of strings.
+
+  # Extract XStringSet from MsaXMultipleAlignment ...
+  if (class(ali) == "MsaAAMultipleAlignment" |
+      class(ali) == "MsaDNAMultipleAlignment" |
+      class(ali) == "MsaRNAMultipleAlignment") {
+      ali <- ali@unmasked
+  }
+
+  # Process XStringSet
+  if (class(ali) == "AAStringSet" |
+      class(ali) == "DNAStringSet" |
+      class(ali) == "RNAStringSet") {
+    sSet <- as.character(ali) # we use as.character(), not toString() thus
+                              # we don't _have_ to load Biostrings
+  } else if (class(ali) == "character") {
+    sSet <- ali
+  } else {
+    stop(paste("Input object of class",
+               class(ali),
+               "can't be handled by this function."))
+  }
+
+  if (missing(range)) {
+    range <- 1
+    range[2] <- max(nchar(sSet))
+  } else {
+    range <- as.integer(range)
+    if(length(range) != 2 ||
+       any(is.na(range)) ||
+       range[1] > range[2] ||
+       range[1] < 1) {
+      stop("PANIC: \"range\" parameter must contain valid start and end index.")
+    }
+  }
+
+  # Right-pad any sequence with "-" that is shorter than ranges[2]
+    for (i in seq_along(sSet)) {
+      if (nchar(sSet[i]) < range[2]) {
+        sSet[i] <- paste0(sSet[i],
+                          paste0(rep("-", range[2] - nchar(sSet[i])),
+                                 collapse = ""))
+      }
+    }
+
+  # Right-pad sequence names
+  sNames <- names(sSet)
+  len <- max(nchar(sNames)) + 2 # longest name plus two spaces
+  for (i in seq_along(sNames)) {
+    sNames[i] <- paste0(sNames[i],
+                      paste0(rep(" ", len - nchar(sNames[i])),
+                             collapse = ""))
+  }
+
+
+  # Process each sequence
+  txt <- paste0("CLUSTAL W format. ", note)
+  txt[2] <- ""
+
+  iStarts <- seq(range[1], range[2], by = blockWidth)
+  iEnds <- c((iStarts[-1] - 1), range[2])
+
+  for (i in seq_along(iStarts)) {
+    for (j in seq_along(sSet)) {
+      txt <- c(txt,
+               paste0(sNames[j], substring(sSet[j], iStarts[i], iEnds[i])))
+    }
+    txt <- c(txt, "")  # append a blank consenus line
+    txt <- c(txt, "")  # append a separator line
+  }
+
+  writeLines(txt, con= myCon)
+
+}
+
+# ====  TESTS  =================================================================
+# Enter your function tests here...
+
+if (FALSE) {
+  # test ...
+}
+
+
+
+# [END]
diff --git a/scripts/ABC-writeMFA.R b/scripts/ABC-writeMFA.R
index 90471d3..d634959 100644
--- a/scripts/ABC-writeMFA.R
+++ b/scripts/ABC-writeMFA.R
@@ -1,121 +1,121 @@
-# ABC-writeMFA.R
-#
-# ToDo:
-# Notes:  2.1  bugfix: empty notes caused superfluous blank after header.
-#
-#
-# ==============================================================================
-
-
-writeMFA <- function(ali,
-                     range,
-                     note = "",
-                     myCon = stdout(),
-                     blockWidth = 80) {
-  # Purpose:
-  #     Write an MsaAAMultipleAlignment or AAStringSet object to stdout() or
-  #     a file in multi-FASTA format.
-  # Version: 2.1
-  # Date:    2017  10
-  # Author:  Boris Steipe
-  #
-  # Parameters:
-  #     ali             MsaAAMultipleAlignment or AAStringSet or character
-  #                       vector
-  #     range      num  a two-integer vector of start and end positions if
-  #                       only a range of the MSA should be written, e.g.
-  #                       a domain. Defaults to the full sequence length.
-  #     note       chr  a vector of character that is appended to the name
-  #                       of a sequence in the FASTA header. Recycling of
-  #                       shorter vectors applies, thus a vector of length one
-  #                       is added to all headers.
-  #     myCon           a connection (cf. the con argument for writeLines).
-  #                       Defaults to stdout()
-  #     blockWidth int  width of sequence block. Default 80 characters.
-  # Value:
-  #     NA   the function is invoked for its side effect of printing an
-  #          alignment to stdout() or file.
-
-  blockWidth <- as.integer(blockWidth)
-  if (is.na(blockWidth)) {
-    stop("PANIC: parameter \"blockWidth\" must be numeric.")
-  }
-  if (! blockWidth > 0){
-    stop("PANIC: parameter \"blockWidth\" must be greater than zero.")
-  }
-
-  # Extract the raw data from the objects depending on their respective class
-  # and put it into a named vector of strings.
-
-  # Extract XStringSet from MsaXMultipleAlignment ...
-  if (class(ali) == "MsaAAMultipleAlignment" |
-      class(ali) == "MsaDNAMultipleAlignment" |
-      class(ali) == "MsaRNAMultipleAlignment") {
-      ali <- ali@unmasked
-  }
-
-  # Process XStringSet
-  if (class(ali) == "AAStringSet" |
-      class(ali) == "DNAStringSet" |
-      class(ali) == "RNAStringSet") {
-    sSet <- as.character(ali) # we use as.character(), not toString() thus
-                              # we don't _have_ to load Biostrings
-  } else if (class(ali) == "character") {
-    sSet <- ali
-  } else {
-    stop(paste("Input object of class",
-               class(ali),
-               "can't be handled by this function."))
-  }
-
-  if (missing(range)) {
-    range <- 1
-    range[2] <- max(nchar(sSet))
-  } else {
-    range <- as.integer(range)
-    if(length(range) != 2 ||
-       any(is.na(range)) ||
-       range[1] > range[2] ||
-       range[1] < 1) {
-      stop("PANIC: \"range\" parameter must contain valid start and end index.")
-    }
-  }
-
-  # Process each sequence
-  txt <- character()
-  if (note != "") {  # construct header line
-    headers <- paste(names(sSet), note)
-  } else {
-    headers <- names(sSet)
-  }
-
-  for (i in seq_along(sSet)) {
-
-    # output FASTA header
-    txt <- c(txt, sprintf(">%s", headers[i]))
-
-    # output the sequence in blocks of blockWidth per line ...
-    iStarts <- seq(range[1], range[2], by = blockWidth)
-    iEnds <- c((iStarts[-1] - 1), range[2])
-
-    thisSeq <- substring(sSet[i], iStarts, iEnds)  # collect all blocks
-    thisSeq <- thisSeq[! nchar(thisSeq) == 0]      # drop empty blocks
-    txt <- c(txt, thisSeq)
-
-    txt <- c(txt, "")  # append an empty line for readability
-  }
-
-  writeLines(txt, con = myCon)
-
-}
-
-# ====  TESTS  =================================================================
-# Enter your function tests here...
-
-if (FALSE) {
-  # test ...
-}
-
-
-
-# [END]
+# ABC-writeMFA.R
+#
+# ToDo:
+# Notes:  2.1  bugfix: empty notes caused superfluous blank after header.
+#
+#
+# ==============================================================================
+
+
+writeMFA <- function(ali,
+                     range,
+                     note = "",
+                     myCon = stdout(),
+                     blockWidth = 80) {
+  # Purpose:
+  #     Write an MsaAAMultipleAlignment or AAStringSet object to stdout() or
+  #     a file in multi-FASTA format.
+  # Version: 2.1
+  # Date:    2017  10
+  # Author:  Boris Steipe
+  #
+  # Parameters:
+  #     ali             MsaAAMultipleAlignment or AAStringSet or character
+  #                       vector
+  #     range      num  a two-integer vector of start and end positions if
+  #                       only a range of the MSA should be written, e.g.
+  #                       a domain. Defaults to the full sequence length.
+  #     note       chr  a vector of character that is appended to the name
+  #                       of a sequence in the FASTA header. Recycling of
+  #                       shorter vectors applies, thus a vector of length one
+  #                       is added to all headers.
+  #     myCon           a connection (cf. the con argument for writeLines).
+  #                       Defaults to stdout()
+  #     blockWidth int  width of sequence block. Default 80 characters.
+  # Value:
+  #     NA   the function is invoked for its side effect of printing an
+  #          alignment to stdout() or file.
+
+  blockWidth <- as.integer(blockWidth)
+  if (is.na(blockWidth)) {
+    stop("PANIC: parameter \"blockWidth\" must be numeric.")
+  }
+  if (! blockWidth > 0){
+    stop("PANIC: parameter \"blockWidth\" must be greater than zero.")
+  }
+
+  # Extract the raw data from the objects depending on their respective class
+  # and put it into a named vector of strings.
+
+  # Extract XStringSet from MsaXMultipleAlignment ...
+  if (class(ali) == "MsaAAMultipleAlignment" |
+      class(ali) == "MsaDNAMultipleAlignment" |
+      class(ali) == "MsaRNAMultipleAlignment") {
+      ali <- ali@unmasked
+  }
+
+  # Process XStringSet
+  if (class(ali) == "AAStringSet" |
+      class(ali) == "DNAStringSet" |
+      class(ali) == "RNAStringSet") {
+    sSet <- as.character(ali) # we use as.character(), not toString() thus
+                              # we don't _have_ to load Biostrings
+  } else if (class(ali) == "character") {
+    sSet <- ali
+  } else {
+    stop(paste("Input object of class",
+               class(ali),
+               "can't be handled by this function."))
+  }
+
+  if (missing(range)) {
+    range <- 1
+    range[2] <- max(nchar(sSet))
+  } else {
+    range <- as.integer(range)
+    if(length(range) != 2 ||
+       any(is.na(range)) ||
+       range[1] > range[2] ||
+       range[1] < 1) {
+      stop("PANIC: \"range\" parameter must contain valid start and end index.")
+    }
+  }
+
+  # Process each sequence
+  txt <- character()
+  if (note != "") {  # construct header line
+    headers <- paste(names(sSet), note)
+  } else {
+    headers <- names(sSet)
+  }
+
+  for (i in seq_along(sSet)) {
+
+    # output FASTA header
+    txt <- c(txt, sprintf(">%s", headers[i]))
+
+    # output the sequence in blocks of blockWidth per line ...
+    iStarts <- seq(range[1], range[2], by = blockWidth)
+    iEnds <- c((iStarts[-1] - 1), range[2])
+
+    thisSeq <- substring(sSet[i], iStarts, iEnds)  # collect all blocks
+    thisSeq <- thisSeq[! nchar(thisSeq) == 0]      # drop empty blocks
+    txt <- c(txt, thisSeq)
+
+    txt <- c(txt, "")  # append an empty line for readability
+  }
+
+  writeLines(txt, con = myCon)
+
+}
+
+# ====  TESTS  =================================================================
+# Enter your function tests here...
+
+if (FALSE) {
+  # test ...
+}
+
+
+
+# [END]
diff --git a/scripts/BLAST.R b/scripts/BLAST.R
index e10a613..491dad6 100644
--- a/scripts/BLAST.R
+++ b/scripts/BLAST.R
@@ -1,384 +1,384 @@
-# BLAST.R
-#
-# Purpose: Send off one BLAST search and return parsed list of results
-#          This script uses the BLAST URL-API
-#          (Application Programming Interface) at the NCBI.
-#          Read about the constraints here:
-#          https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=DeveloperInfo
-#
-#
-# Version: 3.2
-# Date:    2016 09 - 2020 09
-# Author:  Boris Steipe
-#
-# Versions:
-#    3.2   2020 updates
-#    3.1   Change from require() to requireNamespace(),
-#          use ::() idiom throughout
-#    3.0   parsing logic had not been fully implemented; Fixed.
-#    2.1   bugfix in BLAST(), bug was blanking non-split deflines;
-#          refactored parseBLASTalignment() to handle lists with multiple hits.
-#    2.0   Completely rewritten because the interface completely changed.
-#          Code adpated in part from NCBI Perl sample code:
-#          $Id: web_blast.pl,v 1.10 2016/07/13 14:32:50 merezhuk Exp $
-#    1.0   first version posted for BCH441 2016, based on BLAST - API
-#
-# ToDo:    Return the organism/strain name in the output, and propagate
-#          into MYSPE selection script.
-#
-# Notes:   This is somewhat pedestrian, but apparently there are currently
-#          no R packages that contain such code.
-#
-# ==============================================================================
-
-
-if (! requireNamespace("httr", quietly = TRUE)) {
-  install.packages("httr")
-}
-
-
-BLAST <- function(Q,
-                  db = "refseq_protein",
-                  nHits = 30,
-                  E = 0.1,
-                  limits = "",
-                  rid = "",
-                  query = "",
-                  quietly = FALSE,
-                  myTimeout = 120) {
-    # Purpose:
-    #     Basic BLAST search
-    #
-    # Parameters:
-    #     Q: query - either a valid ID or a sequence
-    #     db: "refseq_protein" by default,
-    #         other legal values include: "nr", "pdb", "swissprot" ...
-    #     nHits: number of hits to maximally return
-    #     E: E-value cutoff. Do not return hits whose score would be expected
-    #        to occur E or more times in a database of random sequence.
-    #     limits: a valid ENTREZ filter
-    #     rid: a request ID - to retrieve earlier search results
-    #     query: the actual query string (needed when retrieving results
-    #            with an rid)
-    #     quietly: controls printing of wait-time progress bar
-    #     timeout: how much longer _after_ rtoe to wait for a result
-    #              before giving up (seconds)
-    # Value:
-    #     result: list of process status or resulting hits, and some metadata
-
-
-    EXTRAWAIT <- 10 # duration of extra wait cycles if BLAST search is not done
-
-    results <- list()
-    results$query = query
-    results$rid <- rid
-    results$rtoe <- 0
-
-    if (rid == "") {  # If no rid is available, spawn a search.
-                      # Else, proceed directly to retrieval.
-
-      # prepare query, GET(), and parse rid and rtoe from BLAST server response
-      results$query <- paste0("https://blast.ncbi.nlm.nih.gov/blast/Blast.cgi",
-                              "?",
-                              "CMD=Put",
-                              "&PROGRAM=", "blastp",
-                              "&QUERY=", URLencode(Q),
-                              "&DATABASE=", db,
-                              "&MATRIX=", "BLOSUM62",
-                              "&EXPECT=", as.character(E),
-                              "&HITLIST_SIZE=", as.character(nHits),
-                              "&ALIGNMENTS=", as.character(nHits),
-                              "&FORMAT_TYPE=Text")
-
-      if (limits != "") {
-        results$query <- paste0(
-          results$query,
-          "&ENTREZ_QUERY=", limits)
-      }
-
-      # send it off ...
-      response <- httr::GET(results$query)
-      if (httr::http_status(response)$category != "Success" ) {
-        stop(sprintf("PANIC: Can't send query. BLAST server status error: %s",
-                     httr::http_status(response)$message))
-      }
-
-      txt <- httr::content(response, "text", encoding = "UTF-8")
-
-      patt <- "RID = (\\w+)" # match the request id
-      results$rid  <- regmatches(txt, regexec(patt,  txt))[[1]][2]
-
-      patt <- "RTOE = (\\d+)" # match the expected completion time
-      results$rtoe <- as.numeric(regmatches(txt, regexec(patt, txt))[[1]][2])
-
-      # Now we wait ...
-      if (quietly) {
-        Sys.sleep(results$rtoe)
-      } else {
-        cat(sprintf("BLAST is processing %s:\n", results$rid))
-        waitTimer(results$rtoe)
-      }
-
-    } # done sending query and retrieving rid, rtoe
-
-    # Enter an infinite loop to check for result availability
-    checkStatus <- paste("https://blast.ncbi.nlm.nih.gov/blast/Blast.cgi",
-                         "?",
-                         "CMD=Get",
-                         "&RID=", results$rid,
-                         "&FORMAT_TYPE=Text",
-                         "&FORMAT_OBJECT=SearchInfo",
-                         sep = "")
-
-    while (TRUE) {
-      # Check whether the result is ready
-      response <- httr::GET(checkStatus)
-      if (httr::http_status(response)$category != "Success" ) {
-        stop(sprintf("PANIC: Can't check status. BLAST server status error: %s",
-                     httr::http_status(response)$message))
-      }
-
-      txt <- httr::content(response, "text", encoding = "UTF-8")
-
-      if (length(grep("Status=WAITING",  txt)) > 0) {
-        myTimeout <- myTimeout - EXTRAWAIT
-
-        if (myTimeout <= 0) { # abort
-          cat("BLAST search not concluded before timeout. Aborting.\n")
-          cat(sprintf("%s  BLASThits <- BLAST(rid=\"%s\")\n",
-                      "Trying checking back later with >",
-                      results$rid))
-          return(results)
-        }
-
-        if (quietly) {
-          Sys.sleep(EXTRAWAIT)
-        } else {
-          cat(sprintf("Status: Waiting. Wait %d more seconds (max. %d more)",
-                      EXTRAWAIT,
-                      myTimeout))
-          waitTimer(EXTRAWAIT)
-          next
-        }
-
-      } else if (length(grep("Status=FAILED",  txt)) > 0) {
-          cat("BLAST search returned status \"FAILED\". Aborting.\n")
-          return(results)
-
-      } else if (length(grep("Status=UNKNOWN",  txt)) > 0) {
-          cat("BLAST search returned status \"UNKNOWN\".\n")
-          cat("This probably means the rid has expired. Aborting.\n")
-          return(results)
-
-      } else if (length(grep("Status=READY",  txt)) > 0) {  # Done
-
-          if (length(grep("ThereAreHits=yes",  txt)) == 0) {  # No hits
-            cat("BLAST search ready but no hits found. Aborting.\n")
-            return(results)
-
-          } else {
-            break  # done ... retrieve search result
-          }
-      }
-    } # end result-check loop
-
-    # retrieve results from BLAST server
-    retrieve <- paste("https://blast.ncbi.nlm.nih.gov/blast/Blast.cgi",
-                      "?",
-                      "&CMD=Get",
-                      "&RID=", results$rid,
-                      "&FORMAT_TYPE=Text",
-                      sep = "")
-
-    response <- httr::GET(retrieve)
-    if (httr::http_status(response)$category != "Success" ) {
-      stop(sprintf("PANIC: Can't retrieve. BLAST server status error: %s",
-                   httr::http_status(response)$message))
-    }
-
-    txt <- httr::content(response, "text", encoding = "UTF-8")
-
-    # txt contains the whole set of results. Process:
-
-    # First, we strsplit() on linebreaks:
-    txt <- unlist(strsplit(txt, "\n"))
-
-    # The alignments range from the first line that begins with ">" ...
-    iFirst <- grep("^>", txt)[1]
-
-    # ... to the last line that begins with "Sbjct"
-    x <- grep("^Sbjct", txt)
-    iLast <- x[length(x)]
-
-    # Get the alignments block
-    txt <- txt[iFirst:iLast]
-
-    # Drop empty lines
-    txt <- txt[!(nchar(txt) == 0)]
-
-    # A line that ends "]" but does not begin ">" seems to be a split
-    # defline ... eg.
-    #  [1] ">XP_013349208.1 AUEXF2481DRAFT_695809 [Aureobasidium subglaciale "
-    #  [2] "EXF-2481]"
-    #  Merge these lines to the preceding lines and delete them.
-    #
-    x <- which(grepl("]$", txt) & !(grepl("^>", txt)))
-    if (length(x) > 0) {
-      txt[x-1] <- paste0(txt[x-1], txt[x])
-      txt <- txt[-x]
-    }
-
-    # Special case: there may be multiple deflines when the BLAST hit is to
-    # redundant, identical sequences. Keep only the first instance.
-    iKeep <- ! grepl("^>", txt)
-    x <- rle(iKeep)
-    x$positions <- cumsum(x$lengths)
-    i <- which(x$lengths > 1 & x$values == FALSE)
-    if (length(i) > 0) {
-      firsts <- x$positions[i] - x$lengths[i] + 1
-      iKeep[firsts] <- TRUE
-      txt <- txt[iKeep]
-    }
-
-    # After this preprocessing the following should be true:
-    # - Every alignment block begins with a defline in which the
-    #   first character is ">"
-    # - There is only one defline in each block.
-    # - Lines are not split.
-
-    # Make a dataframe of first and last indices of alignment blocks
-    x <- grep("^>", txt)
-    blocks <- data.frame(iFirst = x,
-                         iLast  = c((x[-1] - 1), length(txt)))
-
-    # Build the hits list by parsing the blocks
-    results$hits <- list()
-
-    for (i in seq_len(nrow(blocks))) {
-      thisBlock <- txt[blocks$iFirst[i]:blocks$iLast[i]]
-      results$hits[[i]] <- parseBLASTalignment(thisBlock)
-    }
-
-    return(results)
-}
-
-parseBLASTalignment <- function(hit) {
-  # Parse data from a character vector containing a BLAST hit
-  # Parameters:
-  #    hit  char   one BLAST hit as char vector
-  # Value:
-  #          list   $def          chr   defline
-  #                 $accession    chr   accession number
-  #                 $organism     chr   complete organism definition
-  #                 $species      chr   binomial species
-  #                 $E            num   E value
-  #                 $lengthAli    num   length of the alignment
-  #                 $nIdentitites num   number of identities
-  #                 $nGaps        num   number of gaps
-  #                 $Qbounds      num   2-element vector of query start-end
-  #                 $Sbounds      num   2-element vector of subject start-end
-  #                 $Qseq         chr   query sequence
-  #                 $midSeq       chr   midline string
-  #                 $Sseq         chr   subject sequence
-
-  getToken <- function(patt, v) {
-    # get the first token identified by pattern patt in character vector v
-    v <- v[grep(patt, v)]
-    if (length(v) > 1) { v <- v[1] }
-    if (length(v) == 0) { token <- NA
-    } else {
-      token <- regmatches(v, regexec(patt, v))[[1]][2] }
-    return(token)
-  }
-
-  h <- list()
-
-  # FASTA defline
-  h$def <- hit[1]
-
-  # accesion number (ID), use the first if there are several, separated by "|"
-  patt <- "^>(.+?)(\\s|\\|)" # from ">" to space or "|"
-  h$accession <-  regmatches(h$def, regexec(patt, h$def))[[1]][2]
-
-  # organism
-  patt <- "\\[(.+)]"
-  h$organism <-  regmatches(h$def, regexec(patt, h$def))[[1]][2]
-
-  # species
-  x <- unlist(strsplit(h$organism, "\\s+"))
-  if (length(x) >= 2) {
-    h$species <- paste(x[1], x[2])
-  } else if (length(x) == 1) {
-    h$species <- paste(x[1], "sp.")
-  } else {
-    h$species <- NA
-  }
-
-  # E-value
-  h$E <- as.numeric(getToken("Expect\\s*=(.+?), Method", hit))
-
-  # length of alignment
-  h$lengthAli <- as.numeric(getToken("^\\s*Length\\s*=(.+)$", hit))
-
-  # number of identities
-  h$nIdentities <- as.numeric(getToken("^\\s*Identities\\s*=(.+?)/", hit))
-
-  # number of gaps
-  h$nGaps <- as.numeric(getToken("\\s*Gaps\\s*=(.+?)/", hit))
-
-  # split up alignment section
-  idx <- grep("^Query ", hit)
-  Que <- hit[idx]
-  Mid <- hit[idx + 1]
-  Sbj <- hit[idx + 2]
-
-  # first and last positions
-  h$Qbounds <- c(start = 0, end = 0)
-  h$Qbounds[1] <- as.numeric(getToken("^Query\\s*(\\d+)", Que[1]))
-  h$Qbounds[2] <- as.numeric(getToken("\\s*(\\d+)\\s*$", Que[length(Que)]))
-
-  h$Sbounds <- c(start = 0, end = 0)
-  h$Sbounds[1] <- as.numeric(getToken("^Sbjct\\s*(\\d+)", Sbj[1]))
-  h$Sbounds[2] <- as.numeric(getToken("\\s*(\\d+)\\s*$", Sbj[length(Sbj)]))
-
-  # aligned sequences
-  for (i in seq_along(Que)) {
-    patt <- ("^\\s*Query\\s*\\d+\\s*([A-Za-z-]+)") # capture aligned string
-    m <- regexec(patt, Que[i])
-    iFirst <- m[[1]][2]
-    iLast <- iFirst + attr(m[[1]], which = "match.length")[2] - 1
-    Que[i] <- substring(Que[i], iFirst, iLast)
-    Mid[i] <- substring(Mid[i], iFirst, iLast)
-    Sbj[i] <- substring(Sbj[i], iFirst, iLast)
-  }
-
-  h$Qseq   <- paste0(Que, collapse = "")
-  h$midSeq <- paste0(Mid, collapse = "")
-  h$Sseq   <- paste0(Sbj, collapse = "")
-
-  return(h)
-}
-
-
-# ==== TESTS ===================================================================
-
-if (FALSE) {
-  # define query:
-  q   <- paste("IYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHI", # Mbp1 APSES domain
-               "LKAANFAKAKRTRILEKEVLKETHEKVQGGFGKYQ",
-               "GTWVPLNIAKQLAEKFSVYDQLKPLFDFTQTDGSASP",
-               sep="")
-  # or ...
-  q <- "NP_010227" # refseq ID
-
-  test <- BLAST(q,
-                nHits = 100,
-                E = 0.001,
-                rid = "",
-                limits = "txid4751[ORGN]")  # Fungi
-  str(test)
-  length(test$hits)
-}
-
-# [END]
-
+# BLAST.R
+#
+# Purpose: Send off one BLAST search and return parsed list of results
+#          This script uses the BLAST URL-API
+#          (Application Programming Interface) at the NCBI.
+#          Read about the constraints here:
+#          https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=DeveloperInfo
+#
+#
+# Version: 3.2
+# Date:    2016 09 - 2020 09
+# Author:  Boris Steipe
+#
+# Versions:
+#    3.2   2020 updates
+#    3.1   Change from require() to requireNamespace(),
+#          use ::() idiom throughout
+#    3.0   parsing logic had not been fully implemented; Fixed.
+#    2.1   bugfix in BLAST(), bug was blanking non-split deflines;
+#          refactored parseBLASTalignment() to handle lists with multiple hits.
+#    2.0   Completely rewritten because the interface completely changed.
+#          Code adpated in part from NCBI Perl sample code:
+#          $Id: web_blast.pl,v 1.10 2016/07/13 14:32:50 merezhuk Exp $
+#    1.0   first version posted for BCH441 2016, based on BLAST - API
+#
+# ToDo:    Return the organism/strain name in the output, and propagate
+#          into MYSPE selection script.
+#
+# Notes:   This is somewhat pedestrian, but apparently there are currently
+#          no R packages that contain such code.
+#
+# ==============================================================================
+
+
+if (! requireNamespace("httr", quietly = TRUE)) {
+  install.packages("httr")
+}
+
+
+BLAST <- function(Q,
+                  db = "refseq_protein",
+                  nHits = 30,
+                  E = 0.1,
+                  limits = "",
+                  rid = "",
+                  query = "",
+                  quietly = FALSE,
+                  myTimeout = 120) {
+    # Purpose:
+    #     Basic BLAST search
+    #
+    # Parameters:
+    #     Q: query - either a valid ID or a sequence
+    #     db: "refseq_protein" by default,
+    #         other legal values include: "nr", "pdb", "swissprot" ...
+    #     nHits: number of hits to maximally return
+    #     E: E-value cutoff. Do not return hits whose score would be expected
+    #        to occur E or more times in a database of random sequence.
+    #     limits: a valid ENTREZ filter
+    #     rid: a request ID - to retrieve earlier search results
+    #     query: the actual query string (needed when retrieving results
+    #            with an rid)
+    #     quietly: controls printing of wait-time progress bar
+    #     timeout: how much longer _after_ rtoe to wait for a result
+    #              before giving up (seconds)
+    # Value:
+    #     result: list of process status or resulting hits, and some metadata
+
+
+    EXTRAWAIT <- 10 # duration of extra wait cycles if BLAST search is not done
+
+    results <- list()
+    results$query = query
+    results$rid <- rid
+    results$rtoe <- 0
+
+    if (rid == "") {  # If no rid is available, spawn a search.
+                      # Else, proceed directly to retrieval.
+
+      # prepare query, GET(), and parse rid and rtoe from BLAST server response
+      results$query <- paste0("https://blast.ncbi.nlm.nih.gov/blast/Blast.cgi",
+                              "?",
+                              "CMD=Put",
+                              "&PROGRAM=", "blastp",
+                              "&QUERY=", URLencode(Q),
+                              "&DATABASE=", db,
+                              "&MATRIX=", "BLOSUM62",
+                              "&EXPECT=", as.character(E),
+                              "&HITLIST_SIZE=", as.character(nHits),
+                              "&ALIGNMENTS=", as.character(nHits),
+                              "&FORMAT_TYPE=Text")
+
+      if (limits != "") {
+        results$query <- paste0(
+          results$query,
+          "&ENTREZ_QUERY=", limits)
+      }
+
+      # send it off ...
+      response <- httr::GET(results$query)
+      if (httr::http_status(response)$category != "Success" ) {
+        stop(sprintf("PANIC: Can't send query. BLAST server status error: %s",
+                     httr::http_status(response)$message))
+      }
+
+      txt <- httr::content(response, "text", encoding = "UTF-8")
+
+      patt <- "RID = (\\w+)" # match the request id
+      results$rid  <- regmatches(txt, regexec(patt,  txt))[[1]][2]
+
+      patt <- "RTOE = (\\d+)" # match the expected completion time
+      results$rtoe <- as.numeric(regmatches(txt, regexec(patt, txt))[[1]][2])
+
+      # Now we wait ...
+      if (quietly) {
+        Sys.sleep(results$rtoe)
+      } else {
+        cat(sprintf("BLAST is processing %s:\n", results$rid))
+        waitTimer(results$rtoe)
+      }
+
+    } # done sending query and retrieving rid, rtoe
+
+    # Enter an infinite loop to check for result availability
+    checkStatus <- paste("https://blast.ncbi.nlm.nih.gov/blast/Blast.cgi",
+                         "?",
+                         "CMD=Get",
+                         "&RID=", results$rid,
+                         "&FORMAT_TYPE=Text",
+                         "&FORMAT_OBJECT=SearchInfo",
+                         sep = "")
+
+    while (TRUE) {
+      # Check whether the result is ready
+      response <- httr::GET(checkStatus)
+      if (httr::http_status(response)$category != "Success" ) {
+        stop(sprintf("PANIC: Can't check status. BLAST server status error: %s",
+                     httr::http_status(response)$message))
+      }
+
+      txt <- httr::content(response, "text", encoding = "UTF-8")
+
+      if (length(grep("Status=WAITING",  txt)) > 0) {
+        myTimeout <- myTimeout - EXTRAWAIT
+
+        if (myTimeout <= 0) { # abort
+          cat("BLAST search not concluded before timeout. Aborting.\n")
+          cat(sprintf("%s  BLASThits <- BLAST(rid=\"%s\")\n",
+                      "Trying checking back later with >",
+                      results$rid))
+          return(results)
+        }
+
+        if (quietly) {
+          Sys.sleep(EXTRAWAIT)
+        } else {
+          cat(sprintf("Status: Waiting. Wait %d more seconds (max. %d more)",
+                      EXTRAWAIT,
+                      myTimeout))
+          waitTimer(EXTRAWAIT)
+          next
+        }
+
+      } else if (length(grep("Status=FAILED",  txt)) > 0) {
+          cat("BLAST search returned status \"FAILED\". Aborting.\n")
+          return(results)
+
+      } else if (length(grep("Status=UNKNOWN",  txt)) > 0) {
+          cat("BLAST search returned status \"UNKNOWN\".\n")
+          cat("This probably means the rid has expired. Aborting.\n")
+          return(results)
+
+      } else if (length(grep("Status=READY",  txt)) > 0) {  # Done
+
+          if (length(grep("ThereAreHits=yes",  txt)) == 0) {  # No hits
+            cat("BLAST search ready but no hits found. Aborting.\n")
+            return(results)
+
+          } else {
+            break  # done ... retrieve search result
+          }
+      }
+    } # end result-check loop
+
+    # retrieve results from BLAST server
+    retrieve <- paste("https://blast.ncbi.nlm.nih.gov/blast/Blast.cgi",
+                      "?",
+                      "&CMD=Get",
+                      "&RID=", results$rid,
+                      "&FORMAT_TYPE=Text",
+                      sep = "")
+
+    response <- httr::GET(retrieve)
+    if (httr::http_status(response)$category != "Success" ) {
+      stop(sprintf("PANIC: Can't retrieve. BLAST server status error: %s",
+                   httr::http_status(response)$message))
+    }
+
+    txt <- httr::content(response, "text", encoding = "UTF-8")
+
+    # txt contains the whole set of results. Process:
+
+    # First, we strsplit() on linebreaks:
+    txt <- unlist(strsplit(txt, "\n"))
+
+    # The alignments range from the first line that begins with ">" ...
+    iFirst <- grep("^>", txt)[1]
+
+    # ... to the last line that begins with "Sbjct"
+    x <- grep("^Sbjct", txt)
+    iLast <- x[length(x)]
+
+    # Get the alignments block
+    txt <- txt[iFirst:iLast]
+
+    # Drop empty lines
+    txt <- txt[!(nchar(txt) == 0)]
+
+    # A line that ends "]" but does not begin ">" seems to be a split
+    # defline ... eg.
+    #  [1] ">XP_013349208.1 AUEXF2481DRAFT_695809 [Aureobasidium subglaciale "
+    #  [2] "EXF-2481]"
+    #  Merge these lines to the preceding lines and delete them.
+    #
+    x <- which(grepl("]$", txt) & !(grepl("^>", txt)))
+    if (length(x) > 0) {
+      txt[x-1] <- paste0(txt[x-1], txt[x])
+      txt <- txt[-x]
+    }
+
+    # Special case: there may be multiple deflines when the BLAST hit is to
+    # redundant, identical sequences. Keep only the first instance.
+    iKeep <- ! grepl("^>", txt)
+    x <- rle(iKeep)
+    x$positions <- cumsum(x$lengths)
+    i <- which(x$lengths > 1 & x$values == FALSE)
+    if (length(i) > 0) {
+      firsts <- x$positions[i] - x$lengths[i] + 1
+      iKeep[firsts] <- TRUE
+      txt <- txt[iKeep]
+    }
+
+    # After this preprocessing the following should be true:
+    # - Every alignment block begins with a defline in which the
+    #   first character is ">"
+    # - There is only one defline in each block.
+    # - Lines are not split.
+
+    # Make a dataframe of first and last indices of alignment blocks
+    x <- grep("^>", txt)
+    blocks <- data.frame(iFirst = x,
+                         iLast  = c((x[-1] - 1), length(txt)))
+
+    # Build the hits list by parsing the blocks
+    results$hits <- list()
+
+    for (i in seq_len(nrow(blocks))) {
+      thisBlock <- txt[blocks$iFirst[i]:blocks$iLast[i]]
+      results$hits[[i]] <- parseBLASTalignment(thisBlock)
+    }
+
+    return(results)
+}
+
+parseBLASTalignment <- function(hit) {
+  # Parse data from a character vector containing a BLAST hit
+  # Parameters:
+  #    hit  char   one BLAST hit as char vector
+  # Value:
+  #          list   $def          chr   defline
+  #                 $accession    chr   accession number
+  #                 $organism     chr   complete organism definition
+  #                 $species      chr   binomial species
+  #                 $E            num   E value
+  #                 $lengthAli    num   length of the alignment
+  #                 $nIdentitites num   number of identities
+  #                 $nGaps        num   number of gaps
+  #                 $Qbounds      num   2-element vector of query start-end
+  #                 $Sbounds      num   2-element vector of subject start-end
+  #                 $Qseq         chr   query sequence
+  #                 $midSeq       chr   midline string
+  #                 $Sseq         chr   subject sequence
+
+  getToken <- function(patt, v) {
+    # get the first token identified by pattern patt in character vector v
+    v <- v[grep(patt, v)]
+    if (length(v) > 1) { v <- v[1] }
+    if (length(v) == 0) { token <- NA
+    } else {
+      token <- regmatches(v, regexec(patt, v))[[1]][2] }
+    return(token)
+  }
+
+  h <- list()
+
+  # FASTA defline
+  h$def <- hit[1]
+
+  # accesion number (ID), use the first if there are several, separated by "|"
+  patt <- "^>(.+?)(\\s|\\|)" # from ">" to space or "|"
+  h$accession <-  regmatches(h$def, regexec(patt, h$def))[[1]][2]
+
+  # organism
+  patt <- "\\[(.+)]"
+  h$organism <-  regmatches(h$def, regexec(patt, h$def))[[1]][2]
+
+  # species
+  x <- unlist(strsplit(h$organism, "\\s+"))
+  if (length(x) >= 2) {
+    h$species <- paste(x[1], x[2])
+  } else if (length(x) == 1) {
+    h$species <- paste(x[1], "sp.")
+  } else {
+    h$species <- NA
+  }
+
+  # E-value
+  h$E <- as.numeric(getToken("Expect\\s*=(.+?), Method", hit))
+
+  # length of alignment
+  h$lengthAli <- as.numeric(getToken("^\\s*Length\\s*=(.+)$", hit))
+
+  # number of identities
+  h$nIdentities <- as.numeric(getToken("^\\s*Identities\\s*=(.+?)/", hit))
+
+  # number of gaps
+  h$nGaps <- as.numeric(getToken("\\s*Gaps\\s*=(.+?)/", hit))
+
+  # split up alignment section
+  idx <- grep("^Query ", hit)
+  Que <- hit[idx]
+  Mid <- hit[idx + 1]
+  Sbj <- hit[idx + 2]
+
+  # first and last positions
+  h$Qbounds <- c(start = 0, end = 0)
+  h$Qbounds[1] <- as.numeric(getToken("^Query\\s*(\\d+)", Que[1]))
+  h$Qbounds[2] <- as.numeric(getToken("\\s*(\\d+)\\s*$", Que[length(Que)]))
+
+  h$Sbounds <- c(start = 0, end = 0)
+  h$Sbounds[1] <- as.numeric(getToken("^Sbjct\\s*(\\d+)", Sbj[1]))
+  h$Sbounds[2] <- as.numeric(getToken("\\s*(\\d+)\\s*$", Sbj[length(Sbj)]))
+
+  # aligned sequences
+  for (i in seq_along(Que)) {
+    patt <- ("^\\s*Query\\s*\\d+\\s*([A-Za-z-]+)") # capture aligned string
+    m <- regexec(patt, Que[i])
+    iFirst <- m[[1]][2]
+    iLast <- iFirst + attr(m[[1]], which = "match.length")[2] - 1
+    Que[i] <- substring(Que[i], iFirst, iLast)
+    Mid[i] <- substring(Mid[i], iFirst, iLast)
+    Sbj[i] <- substring(Sbj[i], iFirst, iLast)
+  }
+
+  h$Qseq   <- paste0(Que, collapse = "")
+  h$midSeq <- paste0(Mid, collapse = "")
+  h$Sseq   <- paste0(Sbj, collapse = "")
+
+  return(h)
+}
+
+
+# ==== TESTS ===================================================================
+
+if (FALSE) {
+  # define query:
+  q   <- paste("IYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHI", # Mbp1 APSES domain
+               "LKAANFAKAKRTRILEKEVLKETHEKVQGGFGKYQ",
+               "GTWVPLNIAKQLAEKFSVYDQLKPLFDFTQTDGSASP",
+               sep="")
+  # or ...
+  q <- "NP_010227" # refseq ID
+
+  test <- BLAST(q,
+                nHits = 100,
+                E = 0.001,
+                rid = "",
+                limits = "txid4751[ORGN]")  # Fungi
+  str(test)
+  length(test$hits)
+}
+
+# [END]
+
diff --git a/tests/test_biCode.R b/tests/test_biCode.R
index 7fec038..2090af3 100644
--- a/tests/test_biCode.R
+++ b/tests/test_biCode.R
@@ -1,32 +1,32 @@
-# test_biCode.R
-#
-
-context("biCode() utility function tests")  # A set of tests for some
-                                            # functionality
-
-test_that("expected input is processed correctly", {  # Related expectations
-  expect_equal(biCode("homo sapiens"), "HOMSA")
-  expect_equal(biCode("[homo sapiens neanderthaliensis]"), "HOMSA")
-  expect_equal(biCode(c("Phascolarctos cinereus", "Macropus rufus")),
-               c("PHACI", "MACRU"))
-})
-
-test_that("unexpected input is managed", {
-  expect_equal(biCode(""), ".....")
-  expect_equal(biCode(" "), ".....")
-  expect_equal(biCode("123 12"), ".....")
-  expect_equal(biCode("h sapiens"), "H..SA")
-})
-
-test_that("NA values are preserved", {
-  expect_true(is.na((biCode(NA))))
-  expect_equal(biCode(c("first", NA, "last")),
-               c("FIRST", NA, "LAST."))
-})
-
-test_that("Missing argument throws an error", {
-  expect_error(biCode(), "argument \"s\" is missing, with no default")
-})
-
-
-# [END]
+# test_biCode.R
+#
+
+context("biCode() utility function tests")  # A set of tests for some
+                                            # functionality
+
+test_that("expected input is processed correctly", {  # Related expectations
+  expect_equal(biCode("homo sapiens"), "HOMSA")
+  expect_equal(biCode("[homo sapiens neanderthaliensis]"), "HOMSA")
+  expect_equal(biCode(c("Phascolarctos cinereus", "Macropus rufus")),
+               c("PHACI", "MACRU"))
+})
+
+test_that("unexpected input is managed", {
+  expect_equal(biCode(""), ".....")
+  expect_equal(biCode(" "), ".....")
+  expect_equal(biCode("123 12"), ".....")
+  expect_equal(biCode("h sapiens"), "H..SA")
+})
+
+test_that("NA values are preserved", {
+  expect_true(is.na((biCode(NA))))
+  expect_equal(biCode(c("first", NA, "last")),
+               c("FIRST", NA, "LAST."))
+})
+
+test_that("Missing argument throws an error", {
+  expect_error(biCode(), "argument \"s\" is missing, with no default")
+})
+
+
+# [END]